New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	744921 =	NA (NA)	42 (0.660)	37/254	NT	87.5%	intergenic (‑586/+45)	PP_0636/PP_0637	cold shock DNA‑binding domain‑containing protein/transposase
	?	NC_002947	748230 =	6 (0.090)					coding (283/819 nt)	PP_5449	hypothetical protein

TACGTGGCTGCGCCACGTCCTGGAGCGACTGCCGCACGCCTCATCGGTAGCAGACTACGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/745068‑744921 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCCGTATGACGTAGATCAGCTACTCAAGGAACAAGCCCGGAAAAGAGAAGAGGCCTTGAATGCTGAG  >  NC_002947/748230‑748373                                                                                                                                                                                                                                                                                                       gACGTGGCGCAGCCACGTCCTGGAGCGACTGCCGCACGCCTCATCGGTAGCAGACTACGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACC                                                                                                                                                  >  4:96381/2‑149                    CTGGAGCGACTGCCGCACGCCTCATCGGTAGCAGACTACGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAA                                                                                                                               >  3:95007/1‑149                          CGACTGCCGCACGCCTCATCGGTAGCAGACTACGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAA                                                                                                                         <  5:198631/149‑1                             CTGCCGCACGCCTCATCGGTAGCAGACTACGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACC                                                                                                                                                  >  5:177111/1‑121                             CTGCCGCACGCCTCATCGGTAGCAGACTACGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACC                                                                                                                                                  <  6:177111/121‑1                                CCGCACGCCTCATCGGTAGCAGACTACGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGC                                                                                                                    <  2:260773/148‑1                                     CGCCTCATCGGTAGCAGACTACGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTT                                                                                                              <  5:34918/149‑1                                        CTCATCGGTAGCAGACTACGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGA                                                                                                           <  2:81971/149‑1                                        CTCATCGGTAGCAGACTACGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTT                                                                                                             >  6:92144/1‑147                                         TCATCGGTAGCAGACTACGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAG                                                                                                          >  6:32234/1‑149                                           ATCGGTAGCAGACTACGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGG                                                                                                        >  4:290995/1‑149                                              GGTAGCAGACTACGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGG                                                                                                     <  5:92144/149‑1                                              GGTAGCAGACTACGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCG                                                                                                      >  5:145732/1‑148                                                    AGACTACGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTTGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGA                                                                                                           <  6:36449/137‑1                                                      ACTACGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTT                                                                                             >  4:105011/1‑149                                                          CGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGCCTTGTCT                                                                                         <  6:145732/149‑1                                                                 CTGCTGCCATGGAACTGTTCGCCAGAGATGCCACTGTAACTTTGGCTTCCACCTTGTTGTATGTGGGGTTCATGTATCGGTTACCGAATTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTA                                                                                  <  3:306058/149‑1                                                                  TGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGC                                                                                                       >  3:63475/1‑127                                                                  TGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGC                                                                                                       <  4:63475/127‑1                                                                    CTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑G                                                                               <  5:208191/148‑1                                                                      GCCATGGAACTGTTCGCAAGAGATGCCACGGTAACTTTGGATTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGATTGGACTCCCTCAACTGTAAGTTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATC                                                                            >  4:368609/1‑149                                                                       CCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GAT                                                                             <  5:32234/147‑1                                                                       CCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTC                                                                                                                                 <  2:281770/96‑1                                                                       CCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTC                                                                                                                                 >  1:281770/1‑96                                                                         ATGGAACTGTTCGCCAGTGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGAT                                                                                                   <  2:406999/124‑1                                                                               CTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTATAGATCGGAAggag                                                                    >  7:96328/1‑145                                                                               CTGTTAGCCAGAGATGCCACTGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTA                                                                                  <  8:96328/135‑1                                                                                     GCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCCGTAT                                                              >  3:376163/1‑148                                                                                                         TTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCCGTATGACGTAGATCAGCTACTCAAG                                         >  3:223455/1‑149                                                                                                            GGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAG                                                                                                                        >  4:244808/1‑68                                                                                                            GGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAG                                                                                                                        <  3:244808/68‑1                                                                                                               TTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCCGTTTGACGTAGATCTGCTACTAAAGttac                                     >  6:245765/1‑143                                                                                                               TTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCCGTATGACGTAGATCAGCTACTCAAGGAAC                                     >  6:174489/1‑147                                                                                                                  CACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCCGTATGACGTAGATCAGCTACTCAAGGAACAAGCC                                >  3:368946/1‑149                                                                                                                  CACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCCGTATGACGTAGATCAGCTACTCAAGGAACAAGCC                                <  3:105011/149‑1                                                                                                                  CACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCCGTATGACGTAGATCAGCTACTCAAGGAACAAGC                                 <  5:174489/148‑1                                                                                                                   agCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGTAGTTTGGACTGCCTCATCTGTAAGGTGCTGGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCCGTATGACGTAGATCAGCTAC                                              <  1:259602/132‑1                                                                                                                   acaTTGTGGTAGGTGGGGTTCATGTATCTGTTACCGAAGTTTGGACTGCCTCAACTTTAAGGTGCTCGGTTTGAGGGCGGATTGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCCGTATGACGTAGATCAGCTAC                                              <  1:253742/131‑1                                                                                                                   ACCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCCGTATGACGTAGATCAGCTACTCAAGGAACAAGCCC                               <  3:290995/149‑1                                                                                                                    CCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCa                                                                  >  6:117802/1‑112                                                                                                                    CCTTGTGGTAGGTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCC                                                                  >  6:123662/1‑113                                                                                                                               GTGGGGTTCATGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCCGTATGACGTAGATCAGCTACTCAAGGAACAAGCCCGGAAAAGAGAAG                   <  3:407543/149‑1                                                                                                                                         TGGATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCCGTATGACGTAGATCAGCTACTCAAGGAACAAGCCCGGAAAAGAGAAGAGGCCTTGAA         <  4:95007/149‑1                                                                                                                                           GATCGGTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCCGTATGACGTAGATCAGCTACTCAAGGAACAAGCCCGGAAAAGAGAAGAGGCCTTGAATG       >  1:187269/1‑149                                                                                                                                            ATCGGTTACCGAAGTTTGGACTGCCTCATCTGTAATGTGCTCTGTTTGAGGGCTGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCCGTATGACGTAGATCAGCTACTCAAGGAACAAGCCCGGAAAAGAGAAGAGGCCTTGAATG       <  3:368609/148‑1                                                                                                                                                GTTACCGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCCGTATGACGTAGATCAGCTACTCAAGGAACAAGCCCGGAAAAGAGAAGAGGCCTTGAATGCTGAG  >  4:141877/1‑149                                                                                                                                                                                                                                                                                                       TACGTGGCTGCGCCACGTCCTGGAGCGACTGCCGCACGCCTCATCGGTAGCAGACTACGAAGCGCTGCTGCCATGGAACTGTTCGCCAGAGATGCCACGGTAACTTTGGCTTCCACCTTGTGGTAGGTGGGGTTCATGGATCGGTTAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/745068‑744921 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGAAGTTTGGACTGCCTCAACTGTAAGGTGCTCGGTTTGAGGGCGGATGGTCTTGTCTGGAATTAT‑GATCCGAAAGGGCCGTATGACGTAGATCAGCTACTCAAGGAACAAGCCCGGAAAAGAGAAGAGGCCTTGAATGCTGAG  >  NC_002947/748230‑748373

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ 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.