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)	64 (1.000)	55/284	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)	102 (1.590)	63/284	0.0	100%	intergenic (‑274/‑264)	insA/uspC	IS1 repressor TnpA/universal stress protein
	?	NC_000913	= 2290113	NA (NA)					noncoding (1/1195 nt)	IS5	repeat region

CACAGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGTTATC  >  NC_000913/2101611‑2101886                                                                                                                                           |                                                                                                                                           cacaGTACATAAAGTAACCTTGATCGAAGCCATTTACACACACAATAACTTAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTaaggaag                                                                                                                                        <  2:399354/143‑1 (MQ=255)       aCATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGa                                                                                                                                  <  2:904020/143‑1 (MQ=255)         aTAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAAt                                                                                                                                >  1:1045455/1‑143 (MQ=255)         aTAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAAt                                                                                                                                <  1:990151/143‑1 (MQ=255)           aaaGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGCTACTTTCCCTAGGAATTTTTATTCTACTAACGAAGGTGAGAATaa                                                                                                                              >  1:193113/1‑143 (MQ=255)              gTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCg                                                                                                                           <  1:557060/143‑1 (MQ=255)               tAAGCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCgg                                                                                                                          <  1:578589/143‑1 (MQ=255)                   cTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGaa                                                                                                                      >  1:1145306/1‑143 (MQ=255)                      gATCGACGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAAtt                                                                                                                   <  2:759755/143‑1 (MQ=255)                              ccATTTACACGCACAAATTCTGAAAAACGTACCAACATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGTAAGGTGCGAATAAGCGTGGAAATTCTTCTCgg                                                                                                           <  2:322893/143‑1 (MQ=255)                              ccATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTGAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCgg                                                                                                           >  2:970636/1‑143 (MQ=255)                              ccATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCgg                                                                                                           <  1:752899/143‑1 (MQ=255)                              ccATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCgg                                                                                                           >  1:1090862/1‑143 (MQ=255)                                aTTTACACTCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCt                                                                                                         <  2:904167/143‑1 (MQ=255)                                    acacGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTCTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGACATTCTTCCCGGCTG‑ACt                                                                                                    >  1:107754/1‑143 (MQ=255)                                       ctcacaAAGTCTGAAAATCGTAGCAGCATAAATGATCCTGCGCTCCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAg                                                                                                 <  2:1007951/141‑1 (MQ=255)                                        gCACAAAATCTGAAAAACGTAACAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTGCTTTAGGAATTTTTATTTTATTAAGTAAGGGGAGAATATGCGGGCAGAGCGTTCTCGACTG‑ACTGAGt                                                                                                >  2:401505/1‑143 (MQ=255)                                            aaaaTCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGtcatt                                                                                            <  2:1089863/143‑1 (MQ=255)                                            aaaaTCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGtcatt                                                                                            >  1:90936/1‑143 (MQ=255)                                                   gAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCatttcatttc                                                                                     >  2:932763/1‑143 (MQ=255)                                                       aaCGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCa                                                                                 >  1:675606/1‑143 (MQ=255)                                                           tACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGtt                                                                             >  2:1100881/1‑143 (MQ=255)                                                           tACCAGCATAAATGATCCTGCGCACCAATCAACAACCATATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGtt                                                                             <  2:805485/143‑1 (MQ=255)                                                              catcATAAATGATCCTGCGCACCAATCAACACTTGTATCAGAAGAGATACTTTCTTTAGGAATTTTTGTTTTATGAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGa                                                                          <  2:31326/140‑1 (MQ=25)                                                              cAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGa                                                                          <  1:422734/143‑1 (MQ=255)                                                                gCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGACTAGATACTTTCTCTAGGAATTCCTGCTTCATCAAGGCAGGTGCGAATAACCGGGGAAATTCTTCTCGGCTG‑ACCCCGTCACCTCACTTCTTCCTCTTCGAGc                                                                        >  2:559235/1‑143 (MQ=21)                                                                  aTAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAACAGAGGGAATGCTTTTGGGCTGCACTGA‑TGTGGGCAGTTCTTCATGTTTGAGCCg                                                                      >  1:722236/1‑143 (MQ=255)                                                                    aaaTGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAt                                                                    >  2:817404/1‑143 (MQ=255)                                                                     aaTGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCCTTTATTCATGTTCGGGCCGagt                                                                   >  1:951143/1‑141 (MQ=255)                                                                             tGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTcc                                                           >  2:43355/1‑143 (MQ=255)                                                                             tGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑AATTGACGAGATCATTTCTTCATGTTTGAGCCGATTTTTTCTcc                                                           >  2:814671/1‑143 (MQ=25)                                                                                 cACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTa                                                       >  1:948457/1‑143 (MQ=255)                                                                                 cACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTa                                                       >  1:1014339/1‑143 (MQ=255)                                                                                  aCCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTaa                                                      >  1:340333/1‑143 (MQ=255)                                                                                     aaTCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATg                                                   >  1:983482/1‑143 (MQ=255)                                                                                     aaTCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑AATTCATCATTTCATTTCTTCATGTTTGAGCCGTTTTTTTCCTCCGTAACTg                                                   >  2:294287/1‑143 (MQ=21)                                                                                        ccacaacCGTATCAGAATAGATACTTTCTTGAGGAATTTTTGTTTTAGTAACGAAAGAGAAAGAGGGCGGTGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCt                                                <  1:158728/141‑1 (MQ=17)                                                                                        caacaaCCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCt                                                <  1:932763/143‑1 (MQ=255)                                                                                         aacgacCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCtt                                               <  1:281188/143‑1 (MQ=255)                                                                                          actacCGTATCACAACAGATACTGTCCTTAGGAATCTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAATTTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTg                                              <  1:231494/140‑1 (MQ=17)                                                                                          acaacCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTg                                              >  1:123181/1‑143 (MQ=255)                                                                                             acCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAAt                                           <  2:1045455/143‑1 (MQ=255)                                                                                                     aGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGCTTTTTTCTCCCGTAAATGCCTTGAATCAGCCTAt                                   >  1:586495/1‑143 (MQ=255)                                                                                                     aGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTAt                                   >  2:793488/1‑143 (MQ=255)                                                                                                      gAACAGAGACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCTGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTAtt                                  <  2:246964/143‑1 (MQ=255)                                                                                                        aTAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTCCTCCCGTAAATGCCTTGAATCAGCCTATTTa                                <  1:543127/143‑1 (MQ=255)                                                                                                                    tttAGTAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTttcttc                    <  2:770719/143‑1 (MQ=255)                                                                                                                    tttAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑CCTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCGATTTAGACCGTttcttc                    >  1:751599/1‑143 (MQ=255)                                                                                                                              tttGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTACATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAg          <  1:1100881/143‑1 (MQ=38)                                                                                                                               ttGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAgg         <  2:1099766/143‑1 (MQ=37)                                                                                                                                   tttATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGtt     >  2:979555/1‑143 (MQ=33)                                                                                                                                    ttattaAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGTTa    <  2:90936/143‑1 (MQ=32)                                                                                                                                      attaAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCGTTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGCCCGTTTCTTCGCCATTTAAGGCGTTATc  >  2:829893/1‑143 (MQ=14)                                                                                                                                           |                                                                                                                                           CACAGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTG‑ACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGTTATC  >  NC_000913/2101611‑2101886

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.