New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_010473	1823174 =	1 (0.030)	30 (0.780)	27/398	0.7	60.6%	coding (145/816 nt)	mepH	peptidoglycan DD‑endopeptidase MepH
	?	NC_010473	3199469 =	38 (0.990)					pseudogene (665/669 nt)	nupG	nucleoside permease NupG

TATAGCCCTTACGTTTGGTACACTTTTCGGTAAAGCTGGCTGAGGCCGTTTTATTGACGGCGTGTTTGCTGCGAGTTTTGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_010473/1823372‑1823174 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CTT‑GTCATATGATCAAATGGTTTCGCGAAAAATCAATAATCAGACAACAAGATGTGCGAACTCGATATTTTACACGACTCTCTTTACCAATTCTGCCCCGAATTACACTTAAAACGACTCAACAGCTTAACG  >  NC_010473/3199469‑3199656                                                                                                                                                                                                                                                                                                                                                                                                           TATAGCCCTTACGTTTGGTACACTTTTCGGTAAAGCTGGCTGAGGCCGTTTTATTGACGGCGTGTTTGCTGCGAGTTTTGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTC                                                                                                                                                                                                 >  1:27185S7/1‑200   atagCCTTACGTTTGGTACACTTT‑CGGTAAAGCTGGCTGAGGCCGTTTTATTGACGGCGTGTTTGCTGCGAGTTTTGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTTTACTGGCGGCTTTTTTCGCTGTTTTTCTGGGTCTTTTTGGTGGTTGCCGTGCTCT                                                                                                                                                                                                >  1:59S1/5‑200    AGCCCTTACGTTTGGTACACTTTTCGGTAAAGCTGGCTGAGGCCGTTTTATTGACGGCGTGTTTGCTGCGAGTTTTGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTAGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGA                                                                                                                                                                                              >  1:31183S52/1‑200           ACGTTTGGTACACTTTTCGGTAAAGCTGGCTGAGGCCGTTTTATTGACGGCGTGTTTGCT‑‑GAGTTT‑GGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT                                                                                                                                                                                    >  1:3917S38/1‑200            CGTTTGGTACACTTTTCGGTAAAGCTGGCTGGAGCCATTTTATCGACGGCGTGTTTGCTGCGAGTTTTGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCC                                                                                                                                                                                      >  1:23930S8/1‑200              TTTGGTACACTTTTCGGTAAAGCTGGCTGAGGCCGTTTTATTGACGGCGTGTTTGCTGCGAGTTTTGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTT‑‑CTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGGATCCCtaat                                                                                                                                                                                  <  1:27975S38/200‑5               TTGGTACACTTTTCGGTAAAGCTGGCTGAGGCCGTTTTATTGACGGCGTGTTTGCTGCGAGTTTTGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT‑A                                                                                                                                                                                  <  1:2945S1/200‑1                        TTTTCGGTAAAGCTGGCTGAGGCCGTTTTATTGACGGCGTGTTTGCTGCGAGTTTTGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT‑AATGATTTT‑G                                                                                                                                                                        >  1:3429S11/1‑200                           TCGGTAAAGCTGGCTGAGGCCGTTTTATTGACGGCGTGTTTGCTGCGAGTTTTGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCC‑‑AATGATTTT‑GGTAA                                                                                                                                                                    <  1:11226S7/200‑1                            CGGTAAAGCTGGCTGAGGCCGTTTTATTGACGGCGTGTTTGCTGCGAGTTTTGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT‑AATGATTTT‑GGTAA                                                                                                                                                                    >  1:3658S13/1‑200                                         TGAGGCCGTTTTATTGACGGCGTGTTTGCTGCGAGTTTTGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTT                                                                                                                                                       >  1:26356S12/1‑200                                           AGGCCGTTTTATTGACGGCGTGTTTGCTGCGAGTTTTGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCTGAATGATTTT‑GGTAAAAATCATTAAGTTA                                                                                                                                                      <  1:28806S28/200‑1                                                   TTATTGACGGCGTGTTTGCTGCGAGTTTTGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATA                                                                                                                                             <  1:12834S309/200‑1                                                                       GCGAGTTTTGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCTTGTTTCA‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CTT‑GTCATATGATCA                                                                                                                       <  1:1434S41/200‑1                                                                            TTTTGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGT‑C‑‑‑‑‑‑CTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CTT‑GTCATATGATCAAATCGTTTCGC                                                                                                            >  1:8501S8/1‑200                                                                             TTTGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTTTCTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT‑AATGATTTTCGGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CTT‑GTCATATGATCAAATc                                                                                                                   >  1:4544S35/1‑199                                                                               TGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CTT‑GTCATATGATCAAATGGTTT                                                                                                               >  1:4117S64/1‑200                                                                                      TTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCT‑TGATGAATCCCCT‑GATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CTT‑GTCATATTATTAAATGGTTTCGCGAAAA                                                                                                       <  1:20190S54/200‑1                                                                                          GAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGA‑TC‑‑‑T‑AACGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CTT‑GTCATATGATCAAATGGTTTCGCGAAAAATCAATA                                                                                                <  1:12975S22/200‑1                                                                                                             TTTTTACGGAAGAAGCGGTTTTGCTTTTGGT‑‑TACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGCGAACTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CT‑‑GTCATATGATCAAATGGTTTCGCGAAAAATCAATAATCAGACAAgacgtgcga                                                                              <  1:2885S6/200‑10                                                                                                                TAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CTT‑GTCATATGATCAAATGGTTTCGCGAAAAATCAATAATCAGACAACAAGATGTG                                                                              <  1:1732S74/200‑1                                                                                                                TAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CTT‑GTCATATGATCAAATGGTTTCGCGAAAAATCAATAATCAGACAACAAGATGTG                                                                              >  1:21886S9/1‑200                                                                                                                 AACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑TGGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CTT‑GTCATATGATCAAATGGTTTCGCGAAAAATCAATAATCAGACAACAAGATGTGC                                                                             <  1:29871S9/200‑1                                                                                                                                             GTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CTT‑GTCATATGATCAAATGGTTTCGCGAAAAATCAATAATCAGACAACAAGATGTGCGAACTCGATATTTTACACGACTCTCTTT                                                 >  1:30529S7/1‑200                                                                                                                                                  TTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACATTCTTTGTCATATGATCAAATGGTTTCGCGAAAAATCAATAATCAGACAACAAGATGTGCGAACTCGATATTTTACACGACTCTCTTTACC                                              >  1:8396S14/1‑200                                                                                                                                                               TTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCGGCGCTCTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CTT‑GTCATATGATCAAATGGTTTCGCGAAAAATCAATAATCAGACAACAAGATGTGCGAACTCGATATTTTACACGACTCTCTTTACCAATTCTGCCCCGAA                                <  1:26957S6/200‑1                                                                                                                                                                       CTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CTT‑GTCATATGATCAAATGGTTTCGCGAAAAATCAATAATCAGACAACAAGATGTGCGAACTCGATATTTTACACGACTCTCTTTACCAATTCTGCCCCGAATTACACTT                        >  1:26152S2/1‑200                                                                                                                                                                               CTGGGTCTTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CTT‑GTCATATGATCAAATGGTTTCGCGAAAAATCAATAATCAGACAACAAGATGTGCGAACTCGATATTTTACACGACTCTCTTTACCAATTCTGCCCCGAATTACACTTAAAACGA                 <  1:3876S71/200‑1                                                                                                                                                                                      TTTTTGGTGGTTGCCGTGCTCTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CTT‑GTCATATGATCAAATGGTTTCGCGAAAAATCAATAATCAGACAACAAGATGTGCGAACTCGATATTTTACACGACTCTCTTTACCAATTCTGCCCCGAATTACACTTAAAACGACTCAACA          >  1:18764S19/1‑200                                                                                                                                                                                             TGGTTGCCGTGCTCTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CTT‑GTCA‑ATCATCAAATGGTTTCGCGAAAAATCAATAATCAGACAACAAGATGTGCGAACTCGATATTTTACACGACTCTCTTTACCAATTCTGCCCCGAATTACACTTAAAACGACTCAACAGCTTAACG  <  1:17116S9/200‑1                                                                                                                                                                                                                                                                                                                                                                                                           TATAGCCCTTACGTTTGGTACACTTTTCGGTAAAGCTGGCTGAGGCCGTTTTATTGACGGCGTGTTTGCTGCGAGTTTTGGCGTTTTTAGAAGCGGTAATGGAAGATTTTTTAACGGAAGAAGCGGTTTTGCTTTTGGTCGTACTTTT‑ACTGGCGGCTTTTTTCGCTGTTTT‑CTGGGTCTTTTTGGTGGTTGCCGTGCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_010473/1823372‑1823174 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CTGATGAATCCCCT‑AATGATTTT‑GGTAAAAATCATTAAGTTAAGGTGGATACACAT‑CTT‑GTCATATGATCAAATGGTTTCGCGAAAAATCAATAATCAGACAACAAGATGTGCGAACTCGATATTTTACACGACTCTCTTTACCAATTCTGCCCCGAATTACACTTAAAACGACTCAACAGCTTAACG  >  NC_010473/3199469‑3199656

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 48 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.