New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	2024598 =	54 (1.030)	8 (0.160)	8/260	5.2	14.1%	intergenic (+7/+37)	rcsA/dsrB	transcriptional regulator of colanic acid capsular biosynthesis/uncharacterized protein
	?	NC_000913_3_pae_tpiA	2024624 =	48 (0.990)					intergenic (+33/+11)	rcsA/dsrB	transcriptional regulator of colanic acid capsular biosynthesis/uncharacterized protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

AATGAATATCAAAGCCAAGACCGTTTCATCGCATAAAGGTAATATTAAACGTAAGATCAAAACGCATAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGATGCCGAGCGGGTAGTCTTCCAGCGAAACCAGGTACATTGTGCCTTCACTAAA  >  NC_000913_3_pae_tpiA/2024450‑2024745                                                                                                                                                     |                                                                                                                                                    aattaattTCAAAGCCAAGACCGTTTCATCTCATAAAGGTAATATTAAACGTAAGATCAAAACGCATAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTc                                                                                                                                                     <  1:901063/149‑1 (MQ=255) aaggAATATCAAAGCCAAGACCGTTTCATCGCATAAAGGTAATATTAAACGTAAGATCAAAACGCATAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACCTGCGCTAACACATTc                                                                                                                                                     >  2:502657/4‑149 (MQ=255) aaTGAATATCAAAGCCAAGACCGTTTCATCGCATAAAGGTAATATTAAACGTAAGATCAAAACGCATAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTc                                                                                                                                                     <  1:162997/149‑1 (MQ=255)    gAATATCAAAGCCAAGACCGTTTCATCGCATAAAGGTAATATTAAACGTAAGATCAAAACGCATAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGa                                                                                                                                                  <  2:864848/149‑1 (MQ=255)         tCAAAGCCAAGACCGTTTCATCGCATAAAGGTAATATTAAACGTAAGATCAAAACGCATAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACtggt                                                                                                                                             >  2:846422/1‑149 (MQ=255)                  aGACCGTTTCATCGCATAAAGGTAATATTAAACGTAAGATCAAAACGCATACTAAACAGGTTATCTACCCTGTCGTCCGACTGACGTATAATGTGACTAATGGTATTTTTGTCCACATCCGCTGACACATTCTGCCTGGTGATTTAcca                                                                                                                                    >  2:771030/1‑149 (MQ=255)                  aGACCGTTTCATCGCAAAAAGGTAATATTAAACGTAAGATCAAAACGCATAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTTTTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCcca                                                                                                                                    <  1:914006/149‑1 (MQ=255)                    aCCGTTTCATCGCATAAAGGTAATATTAAACGTAAGATCAAAACGCATAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCccacc                                                                                                                                  >  1:122437/1‑149 (MQ=255)                         ttCATCGCATAAAGGAAATATTAAACGTAAGATCAAAACGCATAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACACTCTGACTGGTGGGAAACCACCAGTCa                                                                                                                             <  1:653262/149‑1 (MQ=255)                            aTCGCATAAAGGTAATATTAAACGTAAGATCAAAACGCATAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGc                                                                                                                          >  2:913741/1‑149 (MQ=255)                                 aTAAAGGTAATATTAAACGTAAGATCGACGCTCAAAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACACTCTTACTGTTTGTTTCCCACCATGCAGGCTgtac                                                                                                                     <  2:194714/149‑4 (MQ=255)                                   aaaGGTAATATTAAACGTAAGATCAAAACGCATAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATaa                                                                                                                   <  1:113746/149‑1 (MQ=255)                                       gTAATATTAAACGTAAGATCAAAACGCATAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGAtt                                                                                                               >  2:370751/1‑149 (MQ=255)                                                  cGTAAGATCAAAACGCATAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTtc                                                                                                    <  1:370751/149‑1 (MQ=255)                                                    tAAGATCAAAATGCATAATAAACACGTTATCTACCATGTCGTCCGACTGACGGATAATGTGGCTGATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTtctc                                                                                                  <  2:744892/149‑1 (MQ=255)                                                        aTCAAAACGCATAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGAt                                                                                                                <  1:801010/131‑1 (MQ=255)                                                        aTCAAAACGCATAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGAt                                                                                                                >  2:801010/1‑131 (MQ=255)                                                        aTCAAAACGCATAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGAATAATGGTATTTTTGTCAACATGCGCTACGAAATTCTGACTGGTTGTTTCCCACCAGTCGGGCTGAATAAGATTACTCTTCTTtctcacca                                                                                              >  1:452418/1‑145 (MQ=255)                                                                   tagtaaACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTc                                                                                   <  2:888447/146‑1 (MQ=255)                                                                              ttATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTg                                                                        <  2:122437/149‑1 (MQ=255)                                                                                aTCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCt                                                                      <  1:841677/149‑1 (MQ=255)                                                                                   tACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCa                                                                   <  1:732486/149‑1 (MQ=255)                                                                                   tACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCa                                                                   <  1:846422/149‑1 (MQ=255)                                                                                        tGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTaaa                                                              >  1:61604/1‑149 (MQ=255)                                                                                                   tGACGGATAATTTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGATGc                                                   >  2:256706/1‑149 (MQ=255)                                                                                                   tGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTTCCTCATTAAAGAACCAGATGc                                                   >  2:279653/1‑149 (MQ=255)                                                                                                    gACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGATGcc                                                  <  1:712016/149‑1 (MQ=255)                                                                                                     aCGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGc                                                                       >  1:13490/1‑127 (MQ=255)                                                                                                     aCGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGc                                                                       <  2:13490/127‑1 (MQ=255)                                                                                                        gATAATGTGACTAATGGTATTTTTGTTAATATGTGCTAACACATTCTGACTAGTGGGTTACCACCAGTCAGGCTGAAGTAGATTACTCTGCTTTCTACACAAAGATACCGTCCTAATGCACTGCTTCATTATAGTACCAGATGCCGAGc                                              >  2:914400/1‑149 (MQ=255)                                                                                                               tgACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTGTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGATGCCGAGCGGGTAGt                                       <  1:538458/149‑1 (MQ=255)                                                                                                                     aTGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGAt                                                     >  1:582976/1‑129 (MQ=255)                                                                                                                     aTGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGAt                                                     <  2:582976/129‑1 (MQ=255)                                                                                                                      tGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGATGCCGAGCGGGTAGTCTTCCAg                                >  2:296070/1‑149 (MQ=255)                                                                                                                                gTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGATGCCGAGCGGGTAGTCTTCCAGCGAAACCAgg                      >  1:586352/1‑149 (MQ=255)                                                                                                                                 tCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGAt                                                     <  1:345691/117‑1 (MQ=255)                                                                                                                                 tCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGAt                                                     >  2:345691/1‑117 (MQ=255)                                                                                                                                  cAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGATGCCGAGCGGGTAGTCTTCCAGCGAAACCAGGTa                    <  1:437122/149‑1 (MQ=255)                                                                                                                                   aaCATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCAtt                                                                 >  1:887409/1‑103 (MQ=255)                                                                                                                                   aaCATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCAtt                                                                 <  2:887409/103‑1 (MQ=255)                                                                                                                                    aCATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGATGCCGAGCGGGTAGTCTTCCAGCGAAACCAGGTACa                  >  2:503030/1‑149 (MQ=255)                                                                                                                                       tGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGATGCCGAGCGGGTAGTCTTCCAGCGAAACCAGGTACATtg               <  1:868686/149‑1 (MQ=255)                                                                                                                                          gcTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATaa                                                                                                                   <  2:851309/46‑1 (MQ=255)                                                                                                                                          gcTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATaa                                                                                                                   >  1:851309/1‑46 (MQ=255)                                                                                                                                          gcTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGATGCCGAGCGGGTAGTCTTCCAGCGAAACCAGGTACATTGTGc            <  1:256706/149‑1 (MQ=255)                                                                                                                                            tAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAAACAGATGCCGAGCGGGTAGTCTTCCAGCGAAACCAGGTACATTGGGCCt          >  2:811132/1‑149 (MQ=255)                                                                                                                                               cacaTTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTcc                                                                                  >  2:799034/1‑74 (MQ=255)                                                                                                                                               cacaTTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTcc                                                                                  <  1:799034/74‑1 (MQ=255)                                                                                                                                               cacaTTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGTCCTGCTTCATTAAAGAACCAGATGCCGAGCGGGTAGTCTTCCAGCGAAACCAGGTACATTGTGCCTTCa       <  1:733239/149‑1 (MQ=255)                                                                                                                                               cacaTTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGATGCCGAGCGGGTAGTCTTCCAGCGAAACCAGGTACATTGTGCCTTCa       <  2:594925/149‑1 (MQ=255)                                                                                                                                                tcagccTGACTGGTGGGAAACCACCAGTCAGGCTGAATAAGATTACTATGCTTTCTCCAAAAAGATGACGTCCTGATGCCCTGCAGCATTAAAGAACCAGATGCCGAGCGGGTAGTCTTCCAGCGCAACCAGGTACCTTGTGCCTTCAc      >  1:756443/6‑149 (MQ=255)                                                                                                                                                acaTTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGATGCCGAGCGGGTAGTCTTCCAGCGAAACCAGGTACAt                 >  2:623187/1‑138 (MQ=255)                                                                                                                                                acaTTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGATGCCGAGCGGGTAGTCTTCCAGCGAAACCAGGTACAt                 <  1:623187/138‑1 (MQ=255)                                                                                                                                                acaTTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGCCCt                                                                                 >  1:205221/1‑74 (MQ=255)                                                                                                                                                acaTTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGCCCt                                                                                 <  2:205221/74‑1 (MQ=255)                                                                                                                                                    gcTGACTGGCGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGATGCCGAGCGGGTAGTCTTCCAGCGAAACCAGGTACATTGTGCCTTCACTaaa  <  2:510448/148‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                    AATGAATATCAAAGCCAAGACCGTTTCATCGCATAAAGGTAATATTAAACGTAAGATCAAAACGCATAATAAACAGGTTATCTACCATGTCGTCCGACTGACGGATAATGTGACTAATGGTATTTTTGTCAACATGCGCTAACACATTCTGACTGGTGGTTTCCCACCAGTCAGGCTGAATAAGATTACTCTGCTTTCTCCACAAAGATACCGTCCTGATGCCCTGCTTCATTAAAGAACCAGATGCCGAGCGGGTAGTCTTCCAGCGAAACCAGGTACATTGTGCCTTCACTAAA  >  NC_000913_3_pae_tpiA/2024450‑2024745

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ 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.