New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 6006630	7 (0.130)	23 (0.570)	12/184	2.6	90.1%	intergenic (+42/+57)	ydcJ/PP_5261	metalloprotein/LysR family transcriptional regulator
	?	NC_002947	= 6006642	0 (0.000)					intergenic (+54/+45)	ydcJ/PP_5261	metalloprotein/LysR family transcriptional regulator

CAACGCCAACCGCGAAGCGTTCGAAGCGGCGCTGGGGTTGCAGGTACAGGATGAGCTGGCGCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/6006459‑6006630 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑accggcctcttcgcgggctcgcccgctcccacaggtCGTATGCCCTGTACCTGTGGGAGCGGGCGAGCCCGCGAAGAGGCCGGTACAGATTTACATCGAACCCAGGTTCAACGCCTGTGCACAGGCCTGCAGCGACCGGCGCTCGCTTTGCGCATACAGCGCCAGCTCATCCTGTACCTGCA  <  NC_002947/6006642‑6006497                                                                                                                                                                                                                                                                                                                                CAACGCCAACCGCAAAGCGTTCGAAGCAGCGCTGGGCTTGCAGGTACAGGATCAGCTGGCGCTGTATCCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAACTCTGTACCGGCCTCTTCGC                                                                                                                                                                          <  1:254818/150‑1   ACGCCAACCGCGAAGCGTTCGAAGCGGCGCTGGGGTTGCAGGTACAGGATGAGCTGGCGCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGG                                                                                                                                                                        <  1:441337/150‑1    CGCCAACCGCGAAGCGTTCGAAGCGGCGCTGGGGTTGCAGGTACAGGATGAGCTGGCGCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGG                                                                                                                                                                       >  2:204731/1‑150    CGCCAACCGCGAAGCGTTCGAAGCGGCGCTGGGGTTGCAGGTACAGGATGAGCTGGCGCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGG                                                                                                                                                                       <  1:1357117/150‑1                AGCGTTCGAAGCGGCGCTGGGGTTGCAGGTACAGGATGAGCTGGCACTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCC                                                                                                                                                           <  2:1029154/150‑1                       GAAGCGGCGCTGGGGTTGCAGGTACAGGATGAGCTGGCGCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGC                                                                                                                                                                                  <  1:342442/120‑1                       GAAGCGGCGCTGGGGTTGCAGGTACAGGATGAGCTGGCGCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGC                                                                                                                                                                                  >  2:342442/1‑120                          GCGGCGCTGGGGTTGCAGGTACAGGATGAGCTGGCGCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTCCATCCTGTCGAAATCGTTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGT                                                                                                                                                 >  2:411860/1‑150                                     GTTGCAGGTACAGGATGAGCTGGCGCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGTTCGCTCCCACAGGTCGTATGCCCTGTAC                                                                                                                                      <  1:411860/150‑1                                          AGGTACAGGATGAGCTGGCGCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTG                                                                                                                                 <  2:697362/150‑1                                                AGGATGAGCTGGCGCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAG                                                                                                                                                      <  2:1369718/123‑1                                                AGGATGAGCTGGCGCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAG                                                                                                                                                      >  1:1369718/1‑123                                                           GCGCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTGG                                                                                                                                >  1:20887/1‑134                                                           GCGCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTGG                                                                                                                                <  2:20887/134‑1                                                             GCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTGG                                                                                                                                >  1:1347222/1‑132                                                             GCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTGG                                                                                                                                <  2:1347222/132‑1                                                             GCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGT                                                                                                                                        >  2:69148/1‑124                                                             GCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGT                                                                                                                                        <  1:69148/124‑1                                                                  ATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAG                                                                                                                                                      >  2:348827/1‑105                                                                  ATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAG                                                                                                                                                      <  1:348827/105‑1                                                                      GCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTGG                                                                                                                                <  2:1438209/123‑1                                                                      GCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTGG                                                                                                                                >  1:1438209/1‑123                                                                      GCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTG                                                                                                                                 >  2:908431/1‑122                                                                      GCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTG                                                                                                                                 <  1:908431/122‑1                                                                        AAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCG                                                                                                                                                                         <  1:388600/80‑1                                                                        AAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCG                                                                                                                                                                         >  2:388600/1‑80                                                                                               GCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCA                                                                                                                                                         >  1:597019/1‑73                                                                                               GCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCA                                                                                                                                                         <  2:597019/73‑1                                                                                                 CTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTGG                                                                                                                                >  1:778793/1‑96                                                                                                 CTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTGG                                                                                                                                <  2:778793/96‑1                                                                                                 CTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGCACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTGG                                                                                                                                <  1:128826/96‑1                                                                                                 CTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGCACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTGG                                                                                                                                >  2:128826/1‑96                                                                                                       ACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTGG                                                                                                                                <  1:1011496/90‑1                                                                                                       ACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTGG                                                                                                                                >  2:1011496/1‑90                                                                                                       ACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTG                                                                                                                                 >  2:1170965/1‑89                                                                                                       ACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTG                                                                                                                                 <  1:1170965/89‑1                                                                                                         AGGCGTTGAACCTGGGTTAGATGTAAATCTGTACCGGCCTCTTCGC                                                                                                                                                                          <  2:1139159/46‑1                                                                                                         AGGCGTTGAACCTGGGTTAGATGTAAATCTGTACCGGCCTCTTCGC                                                                                                                                                                          >  1:1139159/1‑46                                                                                                                 AACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTGGGAGCGG                                                                                                                          >  1:738813/1‑86                                                                                                                 AACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGTCGTATGCCCTGTACCTGTGGGAGCGG                                                                                                                          <  2:738813/86‑1                                                                                                                                                               CCGCTCCCACAGGTCGTATGCCCTGTACCTGTGGGAGCGGGCGAGCCCGCGAAGAGGCCGGTACAGATTTACATCGAACCCAGGTTCAACGCCTGTGCACAGGCCTGCAGCGACCGGCGCTCGCTTTGCGCATACAGCGCCAGCTCATCC            >  1:204731/1‑150                                                                                                                                                               CCGCTCCCACAGGTCGTATGCCCTGTACCTGTGGGAGCGGGCGAGCCCGCGAAGAGGCCGGTACAGATTTACATCGAACCCAGGTTCAACGCCTGTGCACAGGCCTGCAGCGACCGGCGCTCGCTTTGCGCATACAGCGCCAGCTCATCC            >  2:741585/1‑150                                                                                                                                                               CCGCTCCCACAGGTCGTATGCCCTGTACCTGTGGGAGCGGGCGAGCCCGCGAAGAGGCCGGTACAGATTTACATCGAA                                                                                    >  2:831534/1‑78                                                                                                                                                               CCGCTCCCACAGGTCGTATGCCCTGTACCTGTGGGAGCGGGCGAGCCCGCGAAGAGGCCGGTACAGATTTACATCGAA                                                                                    <  1:831534/78‑1                                                                                                                                                                 GCTCCCACAGGTCGTATGCCCTGTACCTGTGGGAGCGGGCGAGCCCGCGAAGAGGCCGGTACAGATTTACATCGAACCCAGGTTCAACGCCTGTGCACAGGCCTGCAGCGACCGGCGCTCGCTTTGCGCATACAGCGCCAGCTCATCCTG          >  1:1344481/1‑150                                                                                                                                                                     CCACAGGTCGTATGCCCTGTACCTGTGGGAGCGGGCGAGCCCGCGAAGAGGCCGGTACAGATTTACATCGAACCCAGGTTCAACGCCTGTGCACAGGCCTGCAGCGACCGGCGCTCGCTTTGCGCATACAGCGCCAGCTCATCCTGTACC      >  2:998389/1‑150                                                                                                                                                                     CCACAGGTCGTATGCCCTGTACCTGTGGGAGCGGGCGAGCCCGCGAAGAGGCCGGTACAGATTTACATCGAACCCAGGTTCAACGCCTGTGCACAGGCCTGCAGCGACCGGCGCTCGCTTT                                   <  1:1052682/121‑1                                                                                                                                                                     CCACAGGTCGTATGCCCTGTACCTGTGGGAGCGGGCGAGCCCGCGAAGAGGCCGGTACAGATTTACATCGAACCCAGGTTCAACGCCTGTGCACAGGCCTGCAGCGACCGGCGCTCGCTTT                                   >  2:1052682/1‑121                                                                                                                                                                      CACAGGTCGTATGCCCTGTACCTGTGGGAGCGGGCGAGCCCGCGAAGAGGCCGGTACAGATTTACATCGAACCCAGGTTCAACGCCTGTGCACAGGCCTGCAGCGACCGGCGCTCGCTTTGCGCATACAG                         <  2:59563/130‑1                                                                                                                                                                      CACAGGTCGTATGCCCTGTACCTGTGGGAGCGGGCGAGCCCGCGAAGAGGCCGGTACAGATTTACATCGAACCCAGGTTCAACGCCTGTGCACAGGCCTGCAGCGACCGGCGCTCGCTTTGCGCATACAG                         >  1:59563/1‑130                                                                                                                                                                       ACAGGTCGTATGCCCTGTACCTGTGGGAGCGGGCGAGCCCGCGAAGAGGCCGGTACAGATTTACATCGAACCCAGGTTCAACGCCTGTGCACAGGCCTGCAGCGACCGGCGCTCGCTTTGCGCATACAGCGCCAGCTCATCCTGTACCTG    >  1:393798/1‑150                                                                                                                                                                         AGGTCGTATGCCCTGTACCTGTGGGAGCGGGCGAGCCCGCGAAGAGGCCGGTACAGATTTACATCGAACCCAGGTTCAACGCCTGTGCACAGGCCTGCAGCGACCGGCGCTCGCTTTGCGCATACAGCGCCAGCTCATCCTGTACCTGCA  >  1:970403/1‑150                                                                                                                                                                                                                                                                                                                                CAACGCCAACCGCGAAGCGTTCGAAGCGGCGCTGGGGTTGCAGGTACAGGATGAGCTGGCGCTGTATGCGCAAAGCGAGCGCCGGTCGCTGCAGGCCTGTGCACAGGCGTTGAACCTGGGTTCGATGTAAATCTGTACCGGCCTCTTCGCGGGCTCGCCCGCTCCCACAGGT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/6006459‑6006630 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑accggcctcttcgcgggctcgcccgctcccacaggtCGTATGCCCTGTACCTGTGGGAGCGGGCGAGCCCGCGAAGAGGCCGGTACAGATTTACATCGAACCCAGGTTCAACGCCTGTGCACAGGCCTGCAGCGACCGGCGCTCGCTTTGCGCATACAGCGCCAGCTCATCCTGTACCTGCA  <  NC_002947/6006642‑6006497

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ 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.