New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_bme_pgi	19797 =	NA (NA)	44 (0.930)	39/280	0.3	95.7%	intergenic (+177/+14)	nhaR/insB1	transcriptional activator of nhaA/IS1 transposase B
	?	NC_000913_3_bme_pgi	61481 =	2 (0.040)					coding (1784/2907 nt)	rapA	RNA polymerase remodeling/recycling factor ATPase; RNA polymerase‑associated, ATP‑dependent RNA translocase

TTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACc‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_bme_pgi/19941‑19797 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGTCCTTCAGAACCGATTTCTGAGCACAGCAGTACCTGTGCGCCGGTGTCTTCTTCGGCAAACCAGGC  >  NC_000913_3_bme_pgi/61481‑61623                                                                                                                                                                                                                                                                                                  TTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAA                                                                                                                                             <  1:711097/149‑1   GAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATA                                                                                                                                           <  1:707973/149‑1               CTGAATCTGAGGCAGCAACTGGCACGGCTGGGACGGAAGTCGCTGTCGTTGTCAAAATCGGTGGAGGTGCATGACAAAGTCATAGGGCATTATCTGAACATAAAACACTATCAATAAGGTGGAGTCATTACCCAATACGATGCTGCAGT                                                                                                                               >  1:356284/1‑149                  AATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGA                                                                                                                            <  1:565119/149‑1                  AATCGGAGGCAGCACCTGGCACGGCTGGGACCTAAGTCGCTGTCGTGCTCAATTTCGTTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGA                                                                                                                            <  2:555381/149‑1                   ATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGAT                                                                                                                           <  1:361845/149‑1                       gatGCAGCCCCTGACACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAATCACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGG                                                                                                                       <  1:601782/146‑1                          GCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATCCGCTCCTCCAGTAGATCCGGGTg                                                                                                                    >  1:394564/1‑148                                      atGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACATAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTC                                                                                                        >  1:163465/3‑149                                         GCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAA                                                                                                     <  1:3446/149‑1                                          CTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGCCAAAGTCAAAGAGCATCAGCGGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAAC                                                                                                    >  2:516859/1‑149                                          CTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATGAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAAC                                                                                                    <  2:285298/149‑1                                               ACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGACATCGGGCCTTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCCATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCAC                                                                                               >  1:332022/1‑149                                                 GGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCA                                                                                             >  1:642426/1‑149                                                   AAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGAACCGGGTTGAATGGCAGGTCAAACATCACCATt                                                                                           >  2:819973/1‑148                                                            TCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCGGGTCAAACATCCCCCTGTGGCTGGCG                                                                                  >  2:692074/1‑149                                                               TTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAAC                                                                               >  2:682873/1‑149                                                                TCTCAAAATAGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACT                                                                              <  1:252969/149‑1                                                                    AAAATGGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAA                                                                          <  2:22792/149‑1                                                                    AAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAA                                                                          <  1:97576/149‑1                                                                       ATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTT                                                                       >  1:545268/1‑149                                                                         CGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTAC                                                                     <  1:682873/149‑1                                                                           GTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATACGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGT                                                                   <  1:536529/149‑1                                                                           GTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGT                                                                   >  1:599456/1‑149                                                                                 CTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGTCCTTCA                                                             >  1:470955/1‑149                                                                                     ATGACAAAGTCATCGGGCATTCTCTGAACATAAAACACTCTCAATAAGTTGGAGTCATTACACACTACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACCTCACCATGTGGCTGGCGACCTGGAAGTTACGCCCTTCAGAta                                                         >  1:172147/1‑147                                                                                      TGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGACGTTACGTCCTTCAGAACC                                                        >  2:776317/1‑149                                                                                         ttAAGTCATGGGGCATTATCTGACTATAAAACATTATCAATAAGTGGGATTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGTCTGGCGAACTGGAAGTTACGTCCTTCAGAACCGAT                                                     <  2:716946/147‑1                                                                                             cTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGTCCTTCAGAACCGATTTCT                                                 <  1:142647/148‑1                                                                                             GTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGTCCTTCAGAACCGATTTCT                                                 >  1:389640/1‑149                                                                                              TCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGTCCTTCAGACCCGATTTCTt                                                >  2:485409/1‑148                                                                                               CATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGTCCTTCAGAACCGATTTCTGA                                               <  2:470955/149‑1                                                                                                   GGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGTCCTTCAGAACCGATTTCTGAGCAC                                           >  1:730289/1‑149                                                                                                       aaTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGTCCTTCAGAACCGATTTCTGAGCACAGCA                                       <  2:332022/147‑1                                                                                                               AACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGTCCTTCAGAACCGATTTCTGAGCACAGCAGTACCT                                 >  1:638083/1‑147                                                                                                               AACATAAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGTCCTTCAGAACCGATTTCTGAGCACAGCAGTACCT                                 <  2:638083/147‑1                                                                                                                    AAAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGTCCTTCAGAACCGATTTCTGAGCACAGCAGTACCTGTGCGCC                          >  1:759584/1‑149                                                                                                                     AAACACTATCAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGTCCTTCAGAACCGATTTCTGAGCACAGCAGTACCTGTGCGCCG                         <  2:642426/149‑1                                                                                                                          CTATAAATAAGTTGGAGTCATTACCCAATACGCTGCTCCAGGAGATCCCGGTTGCATGGCAGGTCAAACGACACCATGTGGCTGGCGAAGTGGAAGTTACGTCCTTCAGAACCGATTTCTGAGCACAGCAGTACCTGTGCGCCGGTGTC                    <  2:634696/149‑1                                                                                                                                acAAGTTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGTCCTTCAGAACCGATTTCTGAGCACAGCACTACCTGTGCGCCGGTGTCTTCTTC              >  1:508178/3‑149                                                                                                                                     TTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAA                                                                          >  2:697648/1‑84                                                                                                                                     TTGGAGTCATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAA                                                                          <  1:697648/84‑1                                                                                                                                         AGTCATGACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGTCAGTCAGAGCCGATCTCTGAGCACATCAGTACCTGTGCGCCGGTGTCTTCTTCGGCAAACCA     <  1:746319/149‑1                                                                                                                                            aATTACCCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGTCCTTCAGAACCGATTTCTGAGCACAGCAGTACCTGTGCGCCGGTGTCTTCTTCGGCAAACCAGGC  <  1:396012/148‑1                                                                                                                                                                                                                                                                                                  TTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACc‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_bme_pgi/19941‑19797 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CCAATACGCTGCTCCAGTAGATCCGGGTTGAATGGCAGGTCAAACATCACCATGTGGCTGGCGAACTGGAAGTTACGTCCTTCAGAACCGATTTCTGAGCACAGCAGTACCTGTGCGCCGGTGTCTTCTTCGGCAAACCAGGC  >  NC_000913_3_bme_pgi/61481‑61623

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