New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	1738653 =	25 (0.590)	3 (0.070)	3/248	NT	10.9%	coding (540/1107 nt)	PP_1532	putative Phage integrase
	?	NC_002947	1738686 =	25 (0.620)					coding (507/1107 nt)	PP_1532	putative Phage integrase

CTCATCCCGGAAAACGAATGAAGCAATGTCCTCGCGGCGCTGCCCGGTTATAAGAGCGAGCTCCATGGCGCGCTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGCCCCTGGCCATGGCCCCCATGAAAAGGTCGCGCAGTAAGGAGCGCATAGCCCTGGCCATCTGGGCCTTACCCTCTTTGACGTAGGTCGATAGGTAATCCGC  >  NC_002947/1738506‑1738799                                                                                                                                                     |                                                                                                                                                    cTCATCCCGGAAAACGAATGAAGCAATGTCCTCGCGGCGCTGCCCGGTTATAAGAGCGAGCTCCATGGCGCGCTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑aa                                                                                                                                                    <  5:140107/149‑1 (MQ=255) cTCATCCCGGAAAACGAATGAAGCAATGTCCTCGCGGCGCTGCCCGGTTATAAGAGCGAGCTCCATGGCGCACTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑aa                                                                                                                                                    >  2:69724/1‑149 (MQ=255)    cggtatccgcacgctgacgaccatggacatcgcggattacctatcgacctacgtcaaagagggtaaggcccagatggccagggctatgcgctccttactgcgcgaccttttcatgggggccatggccaggggctgggtcgactacAAcc                                                                                                                                                  <  2:40593‑M1/4‑1 (MQ=255)    aTCCCGGAAAACGAATGAAGCAATGTCCTCGCGGCGCTGCCCGGTTATAAGAGCGAGCTCCATGGCGCGCTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AAcc                                                                                                                                                  <  1:31948/148‑1 (MQ=255)       ccGGAAAACGAATGAAGCAATGTCCTCGCGGCGCTGCCCGGTTATAAGAGCGAGCTCCATGGCGCGCTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTg                                                                                                                                              <  7:216640/149‑1 (MQ=255)           aaaaCGAATGAAGCAATGTCCTCGCGGCGCTGCCCGGTTATAAGAGCGAGCTCCATGGCGCGCTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGc                                                                                                                                          <  6:58729/149‑1 (MQ=255)               cGAATGAAGCAATGTCCTCGCGGCGCTGCCCGGTTATAAGAGCGAGCTCCATGGCGCGCTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTAGCGCTTGATCTT‑AACCCGTGCGGCTTTg                                                                                                                                      <  4:206863/149‑1 (MQ=255)                       gCAATGTCCTCGCGGCGCTGCCCGGTTATAAGAGCGAGCTCCATGGCGCGCTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTc                                                                                                                              >  3:15450/1‑149 (MQ=255)                                tCGCGGCGCTGCCCGGTTATAAGAGCGAGCTCCATGGCGCGCTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGtt                                                                                                                     >  1:270332/1‑149 (MQ=255)                                tCGCGGCGCTGCCCGGTTATAAGAGCGAGCTCCATGGCGCGCTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGtc                                                                                                                     >  2:260807/1‑148 (MQ=255)                                     ggattacctatcgacctacgtcaaagagggtaaggcccagatggccagggctatgcgctccttactgcgcgaccttttcatgggggccatggccaggggctgggtcgactacAACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑Ag                                                                                                                <  3:199750‑M1/37‑1 (MQ=255)                                     ggattacctatcgacctacgtcaaagagggtaaggcccagatggccagggctatgcgctccttactgcgcgaccttttcatgggggccatggccaggggctgggtcgactacAACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑Ag                                                                                                                >  4:199750‑M1/113‑149 (MQ=255)                                        cTGCCCGGTTATAAGAGCGAGCTCCATGGCGCACTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGa                                                                                                            <  1:69724/149‑1 (MQ=255)                                                    aaGAGCGAGCTCCATGGCGCGCTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGCCCCTgg                                                                                                >  8:180250/1‑149 (MQ=255)                                                      gagcgagcTCCATGGCGCGCTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTTAAACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGCCCCTGGc                                                                                               <  1:205518/149‑1 (MQ=255)                                                      gagcgagcTCCATGGCGCGCTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTCCGACTGGGTTGT‑AGTCGACCCAGCCCCTGGc                                                                                               >  4:147201/1‑148 (MQ=255)                                                      acgtcaaagagggtaaggcccagatggccagggctatgcgctccttactgcgcgaccttttcatgggggccatggccaggggctgggtcgactacAACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGt                                                                                                               <  2:92731‑M1/38‑1 (MQ=255)                                                              tCCATGGCGCGCTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGCCCCTGGcc                                                                                              <  6:207412/141‑1 (MQ=255)                                                              tCCATGGCGCGCTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGCCCCTGGcc                                                                                              >  5:207412/1‑141 (MQ=255)                                                                       cgcTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCAGAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGCCCCTGGCCATGGCCCCCATGAAAAg                                                                             <  1:655/149‑1 (MQ=255)                                                                                 aTGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGCCCCTGGCCATGGCCCCCATGAAAAGGTCGCGCAg                                                                    >  3:75474/1‑148 (MQ=255)                                                                                 aTGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGCCCCTGGCCATGGCCCCCATGAAAAGGTCGCGCAg                                                                    >  5:113988/1‑148 (MQ=255)                                                                                 aTGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGAGATGGCGCTTGATCTT‑AACCCTTGCGGCTTTGGTTGCTTCGACTGGGTTGT‑AGTGGACCAAGCCCCTGGCAATGGACCGCATGATAAGGtagatcag                                                                    >  5:15180/1‑141 (MQ=255)                                                                                                  tcATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGTCCCTGGCCATGGCCCCCATGAAAAGGTCGCGCAGTAAGGAGCGCATAGCCCt                                                  >  3:200554/1‑149 (MQ=255)                                                                                                    aTACATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGCCCCTGGCCATGGCCCCCATGAAAAGGTCGCGCAGTAAGGAGCGCATAGCCCTgg                                                <  4:15450/149‑1 (MQ=255)                                                                                                            cTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGCCCCTGGCCATGGCCCCCATGAAAAGGTCGCGCAGTAAGGAGCGCATAGCCCTGGCCATCTgg                                        >  8:43603/1‑149 (MQ=255)                                                                                                                ccACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGCCCCTGGCCATGGCCCCCATGAAAAGGTCGCGCAGTAAGGAGCGCATAGCCCTGGCCATCTGGGcc                                     <  7:43603/148‑1 (MQ=255)                                                                                                                  acaACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGCCCCTGGCCATGGCCCCCATGAAAAGGTCGCGCAGTAAGGAGCGCATAGCCCTGGCCATCTGGGCCTTa                                  >  2:145766/1‑149 (MQ=255)                                                                                                                        ctAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGCCCCTGGCCATGGCCCCCATGAAAAGGTCGCGCAGTAAGGAGCGCATAGCCCTGGCCATCTGGGCCTTACCctct                            >  7:120200/1‑149 (MQ=255)                                                                                                                           gCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGTCCCTGGCCATGGCCCCCATGAAAAGGTCGCGCAGTAAGGAGCGCATAGCCCTGGCCATCTGGGCCTTACCCTCttt                          <  4:200554/148‑1 (MQ=255)                                                                                                                              tCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGCCCCTGGCCATGGCCCCCATGAAAAGGTCGCGCAGTAAGGAGCGCATAGCCCTGGCCATCTGGGCCTTACCCTCTTTGACg                      >  2:135189/1‑149 (MQ=255)                                                                                                                                          gctTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGCCCCTGGCCATGGCCCCCATGAAAAGGTCGCGCAGTAAGGAGCGCATAGCCCTGGCCATCTGGGCCTTACCCTCTTTGACGTAGGTCGATAgg          >  5:198531/1‑149 (MQ=255)                                                                                                                                                tCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGCCCCTGGCCATGGCCCCCATGAAAAGGTCGCGCAGTAAGGAGCGCATAGCCCTGGCCATCTGGGCCTTACCCTCTTTGACGTAGGTCGATAGGTAATcc    >  8:125701/1‑149 (MQ=255)                                                                                                                                                     AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGTGAGTCGACCCAGCCCCTGGCCATGGCCCCCATGAAAAGGTCGCGCAGTAAGGAGCGCATAGCCCTGGCCATCTGGGCCTTACCCTCTTTGACGTAGGTCGATAGGTAATCcgc  <  1:40593‑M1/148‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                    CTCATCCCGGAAAACGAATGAAGCAATGTCCTCGCGGCGCTGCCCGGTTATAAGAGCGAGCTCCATGGCGCGCTTGAGCCATGGCTGGGCAGCCTCCTCATAGATCGCTTTCCACAACTCTAGCGTCAGGCGCTGGCGCTTGATCTT‑AACCCGTGCGGCTTTGGTAGCTTCGACTGGGTTGT‑AGTCGACCCAGCCCCTGGCCATGGCCCCCATGAAAAGGTCGCGCAGTAAGGAGCGCATAGCCCTGGCCATCTGGGCCTTACCCTCTTTGACGTAGGTCGATAGGTAATCCGC  >  NC_002947/1738506‑1738799

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.