New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 1114899	82 (0.930)	20 (0.280)	16/196	NT	21.1%	intergenic (‑88/+91)	rlmF/valS	ribosomal RNA large subunit methyltransferase F/valine‑‑tRNA ligase
	?	NC_002947	= 1114925	84 (1.190)					intergenic (‑114/+65)	rlmF/valS	ribosomal RNA large subunit methyltransferase F/valine‑‑tRNA ligase

TCAGGGTGGGCCTTGATCAGGCTGGGGAAGTCGTAGCGACCCTGGTGGCGGTTGCGCGGGTGCAGGGTGGGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGACACAAGGCCGCTCCCACAGGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/1114726‑1114899 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcgacacaaggccgctcccacaggaCGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGGCTGCGCAGCAGCCCCAGGGTCTTCAAGCCACCGCTCGTATAGGGCTGGACACTGCCATGACCCCGAACAAACCCACCCTGCACCCGC  <  NC_002947/1114925‑1114781                                                                                                                                                                                                                                                                                                                                 TCAGGGTGGGCCTTGATCAGGCTGGGGAAGTCGTAGCGACCCTGGTGGCGGTTGCGCGGGTGCAGGGTGGGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTG                                                                                                                                                                           <  2:2182588/150‑1       TGGGCCTTGATCAGGCTGGGGAAGTCGTAGCGACCCTGGTGGCGGTTGCGCGGGTGCAGGGTGGGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGACAC                                                                                                                                                                     >  1:1862611/1‑150            CTTGATCAGGCTGGGGAAGTCGTAGCGACCCTGGTGGCGGTTGCGCGGGTGCAGGGTGGGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGACACAAGGC                                                                                                                                                                >  2:855628/1‑150            CTTGATCAGGCTGGGGAAGTCGTAGCGACCCTGGTGGCGGTTGCGCGGGTGCAGGGTGGGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGACACAAGGC                                                                                                                                                                <  2:1862611/150‑1                   AGGCTGGGGAAGTCGTAGCGACCCTGGTGGCGGTTGCGCGGGTGCAGGGTGGGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGGCACAAGGCCGCTCCC                                                                                                                                                         >  1:2182980/1‑150                       TGGGGAAGTCGTAGCGACCCTGGTGGCGGTTGCGCGGGTGCAGGGTGGGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCCGCTGTACGGCCCTTTCGCGACACAAGGCCGCTCCCACAG                                                                                                                                                     >  2:662781/1‑150                         GGGAAGTCGTAGCGACCCTGGTGGCGGTTGCGCGGGTGCAGGGTGGGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGACACAAGGCCGCTCCCACAGGA                                                                                                                                                   <  2:1555719/150‑1                                         CCTGGTGGCGGTTGCGCGGGTGCAGGGTGGGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAA                                                                                                                                   >  2:735571/1‑150                                             GTGGCGGTTGCGCGGGTGCAGGGTGGGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAG                                                                                                                                  >  2:140865/1‑147                                             GTGGCGGTTGCGCGGGTGCAGGGTGGGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAG                                                                                                                                  <  1:140865/147‑1                                                 CGGTTGCGCGGGTGCAGGGTGGGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCCGCTGTACGGCCCTTTCGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCAC                                                                                                                           <  1:662781/150‑1                                                      GCGCTGGTGCAGGGTGGGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGGCACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCC                                                                                                                      <  2:2182980/150‑1                                                         CGGGTGCAGGGTGGGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGTACGCCCCTTTCGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGT                                                                                                                   <  2:1902766/150‑1                                                         CGGGTGCAGGGTGGGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGT                                                                                                                   <  1:855628/150‑1                                                                      GGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGA                                                                                                                                                                        >  1:1214897/1‑84                                                                      GGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGA                                                                                                                                                                        <  2:1214897/84‑1                                                                       GTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGT                                                                                                     <  1:735571/150‑1                                                                              CGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGC                                                                                                                                                                          <  2:2204484/74‑1                                                                              CGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGC                                                                                                                                                                          >  1:2204484/1‑74                                                                                     ATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCAC                                                                                                                           <  1:1106169/114‑1                                                                                     ATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCAC                                                                                                                           >  2:1106169/1‑114                                                                                              TCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTC                                                                                                                       <  2:840538/109‑1                                                                                              TCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTC                                                                                                                       >  1:840538/1‑109                                                                                                 AGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTCGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGT                                                                                                                   <  1:1059778/110‑1                                                                                                 AGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTCGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGT                                                                                                                   >  2:1059778/1‑110                                                                                                  GCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTG                                                                                                                    <  1:830586/108‑1                                                                                                  GCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTG                                                                                                                    >  2:830586/1‑108                                                                                                                               TGGGGCTGCTGCGCAGCCCTTTCGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTG                                                                                                                  <  1:1559077/81‑1                                                                                                                               TGGGGCTGCTGCGCAGCCCTTTCGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTG                                                                                                                  >  2:1559077/1‑81                                                                                                                                             AGCCCTTTTGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGT                                                                                                                   >  2:2171619/1‑66                                                                                                                                             AGCCCTTTTGCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGT                                                                                                                   <  1:2171619/66‑1                                                                                                                                                      gcaACACAAGGCCGCTCCCCCAGGACGGCGCCAACCTTCAAGGCGCGACCCGCCTGTGGGAGCGGCCTTGTGTCGCAAAACGGCTGCTCAGCAGCCCCAGGGTCTTCAAGCCACCGCTCGTATAGGGCTGGACACTGCCATGACCCCGAA                      <  1:2178847/147‑1                                                                                                                                                      GCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGGCTGCGCAGCAGCCCCAGGGTCTTCAAGCCACCGCTCGTATAGGGCTGGACACTGCCATGACCCCGAA                      <  1:1940713/150‑1                                                                                                                                                      GCGACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGGCTGCGCAGCAGCCCCAGGGTCTTCAAGCCACCGCTCGTATAGGGCTGGACACTGCCATGACCCCGAA                      <  1:545237/150‑1                                                                                                                                                        GACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGGCTGCGCAGCAGCCCCAGGGTCTTCAAGCCACCGCTCGTATAGGGCTGGACAC                                     <  1:1006583/133‑1                                                                                                                                                        GACACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGGCTGCGCAGCAGCCCCAGGGTCTTCAAGCCACCGCTCGTATAGGGCTGGACAC                                     >  2:1006583/1‑133                                                                                                                                                          CACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGG                                                                                         >  1:790716/1‑79                                                                                                                                                          CACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGG                                                                                         <  2:790716/79‑1                                                                                                                                                           ACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGGCTGCGCAGCAGCCCCAGGGTCTTCAAGCCACCGCTCGTATAGGGCTGGACACTGCCATGACCCCGAACAAAt                 <  2:1653043/150‑2                                                                                                                                                           ACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTC                                                                                                                       <  2:1403955/48‑1                                                                                                                                                           ACAAGGCCGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTC                                                                                                                       >  1:1403955/1‑48                                                                                                                                                                  CGCTCCCACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGGCTGCGCAGCAGCCCCAGGGTCTTCAAGCCACCGCTCGTATAGGGCTGGACACTGCCATGACCCCGAACAAACCCACCCT          >  1:1434847/1‑150                                                                                                                                                                        CACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGGCTGCGCAGCAGCCCCAGGGTCTTCAAGCCACCGCTCGTATAGGGCTGGACACTGCCATGACCCCGAACAAACCCACCCTGCACCC    >  2:835040/1‑150                                                                                                                                                                        CACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGGCTGCGCAGCAGCCCCAGGGTCTTCAAGCCA                                                           >  1:777164/1‑95                                                                                                                                                                        CACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGGCTGCGCAGCAGCCCCAGGGTCTTCAAGCCA                                                           <  2:777164/95‑1                                                                                                                                                                         gcgcGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGGCTGCGCAGCAGCCCCAGGGTCTTCAAGCCACCGCTCGTATAAGGCTGGACACTGCCATGACCCCGAACAAACCCACCCTGCACCCG   >  1:695654/5‑150                                                                                                                                                                         ACAGGACGGCGCCAACTTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGGCTGCGCAGCAGCCCCAGGGTCTTCAA                                                               <  1:158591/90‑1                                                                                                                                                                         ACAGGACGGCGCCAACTTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGGCTGCGCAGCAGCCCCAGGGTCTTCAA                                                               >  2:158591/1‑90                                                                                                                                                                         ACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTT                                                                                                       >  2:1297788/1‑50                                                                                                                                                                         ACAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTT                                                                                                       <  1:1297788/50‑1                                                                                                                                                                          CAGGACGGCGCCAACCTTCACGGCCCCTCCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGGCTGCGCAGCAGCCCCAGGGTCTTCAAGCCACCGCTCGTATAGGGCTGGACACTGCCATGACCCCGAACGAACCCACCCTGCACCCGC  <  2:1794214/150‑1                                                                                                                                                                          CAGGACGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGGCTGCGCAGCAGCCCCAGGGTCTTCAAGCCACCGCTCGTATAGGGCTGGACACTGCCATGACCCCGAACAAACCCACCCTGCACCCGC  <  2:406554/150‑1                                                                                                                                                                          CAGGACGGCGCCAACCTTCAAGGCGCAAACCTCTTCTCTTAGCGTCTTTTTGTCGCAAAAGGGCTGCGCACAAGTCCCAGGGTCTTCAAGCCACCGCTCGTATAGGGCTGGACACTGCCATGACCCCGAACAAACCCACCCTGCACCCGC  <  1:539997/150‑1                                                                                                                                                                                                                                                                                                                                 TCAGGGTGGGCCTTGATCAGGCTGGGGAAGTCGTAGCGACCCTGGTGGCGGTTGCGCGGGTGCAGGGTGGGTTTGTTCGGGGTCATGGCAGTGTCCAGCCCTATACGAGCGGTGGCTTGAAGACCCTGGGGCTGCTGCGCAGCCCTTTTGCGACACAAGGCCGCTCCCACAGGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/1114726‑1114899 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcgacacaaggccgctcccacaggaCGGCGCCAACCTTCAAGGCGCCACCCTCCTGTGGGAGCGGCCTTGTGTCGCAAAAGGGCTGCGCAGCAGCCCCAGGGTCTTCAAGCCACCGCTCGTATAGGGCTGGACACTGCCATGACCCCGAACAAACCCACCCTGCACCCGC  <  NC_002947/1114925‑1114781

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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.