Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	1,979,486	IS5 (+) +4 bp	intergenic (‑271/‑264)	insA ← / → uspC	IS1 repressor TnpA/universal stress protein

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1979486 =	0 (0.000)	53 (1.380)	39/284	0.1	100%	intergenic (‑271/‑267)	insA/uspC	IS1 repressor TnpA/universal stress protein
	?	NC_000913	2101749 =	NA (NA)					noncoding (1195/1195 nt)	IS5	repeat region
*	?	NC_000913	= 1979489	0 (0.000)	39 (1.020)	27/284	0.4	100%	intergenic (‑274/‑264)	insA/uspC	IS1 repressor TnpA/universal stress protein
	?	NC_000913	= 2290113	NA (NA)					noncoding (1/1195 nt)	IS5	repeat region

TTCACAGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAT‑TTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGTTA  >  NC_000913/2101609‑2101884                                                                                                                                             |                                                                                                                                         ttCACAGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTaagga                                                                                                                                        >  2:31260/1‑143 (MQ=255) ttCACAGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATAAACAACCACAACAAAATAGGTACTTCTATCAGAAATTTTTGTATTATTaagga                                                                                                                                        >  1:650808/1‑143 (MQ=255)  tCACAGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATATGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTaaggaa                                                                                                                                       <  1:285008/143‑1 (MQ=255)  tCACAGTACATAAAGTAACCTTGATCGAAGCCATTTACACGAACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTaatgaa                                                                                                                                       >  1:721816/1‑143 (MQ=255)      aGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGACAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACATACTTAAGGAATTTTTGAATTAATAAGGAAGGTg                                                                                                                                   >  1:319433/1‑143 (MQ=255)       gTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGc                                                                                                                                  >  2:387078/1‑143 (MQ=255)        tACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCg                                                                                                                                 >  1:596636/1‑143 (MQ=255)           aTAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAACTGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAAt                                                                                                                              >  2:692620/1‑143 (MQ=255)                   gccTTCATCAAATACATTTACATGCATAAAATCTGAACAACGCACCAGTATAAATGATCCTGCGCACCAATCAACGACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCgggg                                                                                                                      <  2:734283/142‑1 (MQ=255)                   aCCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCgggg                                                                                                                      >  2:447052/1‑143 (MQ=255)                             aaGTCATTTACACGCACAAAATCTGAAAAACTTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTAACAGAAAAGATAGTTTCTTTAGGAATTTTTGTTTTATTAGGGAAGGTGCGAATAAGCGGGGAAATtcttct                                                                                                            <  1:84406/143‑1 (MQ=39)                                      aaactcacaAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAGTCAACAACCTTATCAGAATAGTTACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACt                                                                                                   <  2:568924/138‑1 (MQ=255)                                       tactcacaAAGTATGAAAAACGTACAAGCATAAAAGAACATGCGCACCAAACAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTc                                                                                                  <  1:79314/139‑1 (MQ=37)                                        acGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTCTTAAGGCAGGTGCGAATAACCGTGGCAACTCTTCTCGCCtctctcc                                                                                                 >  1:540290/1‑137 (MQ=255)                                        acGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGAcaca                                                                                                 >  2:96388/1‑143 (MQ=255)                                              aaaaTCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCACttatt                                                                                           >  1:334850/1‑143 (MQ=255)                                                  tCTGAAAAACGTACCAGCATAAATTATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGtcatttcat                                                                                       <  1:453201/143‑1 (MQ=255)                                                    tGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATATACAACCGTATCAGAATAGATACTTTCTTTAGGGATTTTTGGCTGATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTcatttcattt                                                                                     <  1:268939/143‑1 (MQ=37)                                                                   cATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGATTGAGct                                                                      >  2:107365/1‑142 (MQ=255)                                                                   cATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCACGGCTGACTCAGTCATTTCATATCTTCATGTTTGAGcc                                                                      >  1:541267/1‑143 (MQ=255)                                                                      aaaTGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCAGCTGACACAGACAATTCATTTCTTCATGTTTGAGCCGAt                                                                   >  1:175778/1‑143 (MQ=255)                                                                         tGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGCATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAATTTCTTCTTGGCTGACTCAGTCAATTCATTTCTTCATGTTTGAAACAAt‑ttt                                                               >  1:462908/1‑143 (MQ=25)                                                                           aTCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAt‑ttttt                                                             <  2:292805/143‑1 (MQ=255)                                                                              ctacgcACCAATCAACAACCGTATCAGAAAAGATACTTTCTGTAGGAATTTTTGTTTTATGAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAT‑TTTTtctc                                                          <  1:146814/140‑1 (MQ=255)                                                                                gcgcACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAT‑TTTTTCTccc                                                        >  2:53170/1‑143 (MQ=255)                                                                                       aaTCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTATTCATGTTTGAGCCGAT‑TTTTTCTCACGTAACTg                                                 >  1:242972/1‑143 (MQ=255)                                                                                       aaTCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTAATTTCATTTCTTCATGTTTGAGCAGAT‑TTTTTCTCCCGTAAATg                                                 >  1:120514/1‑143 (MQ=255)                                                                                           aacaacCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAT‑TTTTTCTCCCGTAAATGCCtt                                             <  1:669456/143‑1 (MQ=255)                                                                                           aacaacCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAT‑TTTTTCTCCCGTAAATGCCtt                                             <  1:387078/143‑1 (MQ=255)                                                                                              aacCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAT‑TTTTTATCCCGTAAATGAATTGaa                                          >  1:300095/1‑143 (MQ=255)                                                                                                     tCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAACGAAGTTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCCTTTCTTCATGTTTG‑GTGTATCTCCTTCTCACGTAAATGCCTTGAATCactct                                   >  2:314561/1‑139 (MQ=18)                                                                                                            aGATACGTTCTTTAGGAATGTTTGTTGTATGAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTGATTTCATTTCTTCATGTTTGAGCCGAT‑TTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGa                            <  1:248206/143‑1 (MQ=14)                                                                                                             gATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAT‑TTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGAc                           >  1:401776/1‑143 (MQ=255)                                                                                                             gATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAT‑TTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGAc                           <  2:392038/143‑1 (MQ=255)                                                                                                               tACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATGTCTTCATGTTTGTGCCGCT‑TTTTTCTTCCTTGTAAACTTTTAATCATCCTAttaaaaaag                         >  1:349726/1‑136 (MQ=17)                                                                                                                    tctttAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAT‑TTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTttct                    <  2:533367/143‑1 (MQ=255)                                                                                                                       ttAGGAATTTTTGTTTTATTAAGGAAGCTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAT‑TTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCg                 <  2:34317/143‑1 (MQ=255)                                                                                                                         aGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAT‑TTTTTCTCCCGTAACTGCCTTCAATCAGCCTATTTAGACCGTTTCTTCTcc               >  2:109351/1‑143 (MQ=255)                                                                                                                         aGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAT‑TTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGcc               >  2:601352/1‑143 (MQ=255)                                                                                                                                    ttttATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAT‑TTTTTCTCCCGTAAAAGAATTAAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAAGCGt    >  1:577219/1‑143 (MQ=11)                                                                                                                                     tttATTAATGAAGGTGCGAATAAGCGGGGAGATTCTTCTCGGCTGGTTCAGTCATTTCATTTCTTCATGTTTGAGCCGAT‑TTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGtt   <  2:544909/143‑1 (MQ=255)                                                                                                                                      ttattaAGGAAGGTGCGAATAAGCTGGGCAATTCTTCTCGGCTGACTCATTCATTTCATTTCTTCATATTAGAGCAGAT‑TTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCgatg  >  1:337855/1‑140 (MQ=11)                                                                                                                                             |                                                                                                                                         TTCACAGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAT‑TTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGTTA  >  NC_000913/2101609‑2101884

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ 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.