New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1469240	NA (NA)	31 (0.710)	23/276	NT	100%	intergenic (‑91/‑1)	insC1/ydbA	IS2 repressor TnpA/pseudogene, autotransporter homolog; interrupted by IS2 and IS30
	?	NC_000913	= 1652258	0 (0.000)					pseudogene (708/1158 nt)	intQ	pseudogene, Qin prophage; phage integrase family;Phage or Prophage Related

CTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1469102‑1469240 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCCATTTTTCAGATCTATGTCCTCCCATCCAAGTGCACACAGCTCACCAGGGCGAACT  <  NC_000913/1652258‑1652111                                                                                                                                                                                                                                                                                                 CTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGCGATATTGTGTGTCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGA                                                                                                                                            <  1:188103/149‑1 CTGGGTGGTACGCCGGCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAACAACTCGTATTAAGCCTATCACTTCTTTCAGCGATATTGGTTGTCTCGAGACTCAGTGGGCCTGTCTACTTAATAAGA                                                                                                                                            <  2:459829/149‑1          ACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACC                                                                                                                                   <  1:262906/149‑1           CGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATGTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCC                                                                                                                                  <  1:607860/149‑1                          TCCGGCCCTAAGACATCAATCATCTGTGCTCCAATGACTAGTCTAAAAGCTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCT                                                                                                                   <  2:545334/149‑1                                   AAGACAGCAAGCATGTGTTCTCCAATGACGAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTATTTAATAATATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTG                                                                                                          <  2:204463/149‑1                                    cgtCATCAATCATCTGTCCTCCAATGACGAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGG                                                                                                         <  1:403220/146‑1                                        ATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACC                                                                                                     >  2:322144/1‑149                                        ATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACC                                                                                                     >  2:102398/1‑149                                        ATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCCGATTGGCTCCCGCCTGTGTTTTTGGTACC                                                                                                     >  2:327659/1‑149                                          CAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCGGTCTACTGAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGT                                                                                                   >  1:218916/1‑149                                                TCTTTTCTCCAATGACTTGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACG                                                                                             <  1:292474/149‑1                                                TCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACG                                                                                             <  2:252992/149‑1                                                                  GTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCT                                                                           >  2:554592/1‑149                                                                   TCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTC                                                                          <  1:123637/149‑1                                                                     TAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCT                                                                        >  1:308382/1‑149                                                                     TAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCT                                                                        >  1:500014/1‑149                                                                                    AGACTATCACTCAATTAAGTGCTATTGGTGGTCGGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCC                                                         <  1:16192/149‑1                                                                                            ACTTATTTAAGGTATATTTGTTGTCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCCATTTTTCA                                                 <  2:358919/149‑1                                                                                              TTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCTGCTTGGATCTCGCCTGTGTGTTTGGTACCGTTAAACGGTCTTTTGCTAAATTTCTCCTAATCATCATTGTTCCATTTTTCAGA                                               <  1:585425/149‑1                                                                                              TTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCCATTTTTCAGA                                               <  2:718394/149‑1                                                                                                   TAATTGATGTTGGTTGGCTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGGTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCCATTTTTCAGATCTAT                                          <  1:686977/149‑1                                                                                                      GTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTTCTTATGAGGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCCATTTTTCAGATCTATGTC                                       <  2:142849/149‑1                                                                                                                    CTGGAGATTCAGGGGGCCAGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCCATTTTTCAGATCTATGTCCTCCCATCCAAGTG                         >  1:269029/1‑149                                                                                                                      GGAGATTGCGGGGGCCAGTCTACTTCATAAGATTAATGACCCGATTGGTGCCCGCCTGTGTTTTTGGTACCGTGGAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCCATTTTTCAGATCTATGTCCTCCCATCCAAGTGCA                       <  2:489584/149‑1                                                                                                                        AGATTCAGGGGGCCAGTCTACTTAATAAGATGACTGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCCATTTTTCAGATCTATGTCCTCCCATCCAAGTGCACA                     <  1:129950/149‑1                                                                                                                                    CCAGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCTTGATCATCATTGTTCCATTTTTCAGTTCTATGTCCTCCCATCCAAGTGCACACAGCTCACCAGG         <  2:343485/149‑1                                                                                                                                    CCAGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCCATTTTTCAGATCTATGTCCTCCCATCCAAGTGCACACAGCTCACCAGG         <  2:571589/149‑1                                                                                                                                    CCAGTCTACTGAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCCATTTTTCAGATCTATGTCCTCCCATCCAAGTGCACACAGCTCACCAGG         <  2:131907/149‑1                                                                                                                                      AGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCCATTTTTCAGATCTATGTCCTCCCATCCAAGTGCACACAGCTCACCAGGGC       <  1:516630/149‑1                                                                                                                                      AGTCTACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCCATTTTTCAGATCTATGTCCTCCCATCCAAGTGCACACAGCTCACCAGGGC       >  1:56898/1‑149                                                                                                                                       GTCTACTTAATAAGATGAATGACCCGCTTGGTTTTTTTCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCCATTTTTCAGATCTATATCCTCCTATCCAAGTGCACACACACCACCAGGcgg      >  2:170437/1‑146                                                                                                                                           ACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCCATTTTTCAGATCTATGTCCTCCCATCCAAGTGCACACAGCTCACCAGGGCGAACT  <  1:327659/149‑1                                                                                                                                           ACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCCATTTTTCAGATCTATGTCCTCCCATCCAAGTGCACACAGCTCACCAGGGCGAACT  <  1:322144/149‑1                                                                                                                                           ACTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCCATTTTTCAGATCTATGTCCTCCCATCCAAGTGCACACAGCTCACCAGGGCGAACT  <  1:102398/149‑1                                                                                                                                                                                                                                                                                                 CTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1469102‑1469240 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CTTAATAAGATGAATGACCCGATTGGTTCCCGCCTGTGTTTTTGGTACCGTGAAACGGTCTTTTGCTAAATTTCTCCTGATCATCATTGTTCCATTTTTCAGATCTATGTCCTCCCATCCAAGTGCACACAGCTCACCAGGGCGAACT  <  NC_000913/1652258‑1652111

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ 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.