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)	71 (1.400)	53/282	0.0	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)	64 (1.260)	38/282	0.3	100%	intergenic (‑274/‑264)	insA/uspC	IS1 repressor TnpA/universal stress protein
	?	NC_000913	= 2290113	NA (NA)					noncoding (1/1195 nt)	IS5	repeat region

CTTCACAGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGTTATCC  >  NC_000913/2101608‑2101887                                                                                                                                              |                                                                                                                                           cTTCACAGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGACAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTCATaagg                                                                                                                                           >  2:821452/1‑143 (MQ=255)  tacacaGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTaagga                                                                                                                                          <  1:903208/141‑1 (MQ=255)    cacaGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTaaggaag                                                                                                                                        <  1:538839/143‑1 (MQ=255)               aaGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAg                                                                                                                             >  2:535804/1‑143 (MQ=255)                  tAACCTTGATCGAAGCCATTTACCCGCACAAAATCTGAAAACCGTACCACCATAAATGATCCTGCGCACCAAGCAACCACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCgg                                                                                                                          <  2:61019/143‑1 (MQ=255)                   aaCCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCggg                                                                                                                         <  2:2529/143‑1 (MQ=255)                    aCCTTGATCGAAGCCATTTACACGCTCAAAATCTGAAAAACGTACCAGCATACATGATCCTGCGCACCAATCAACAACAGCATCAGAATAGATACTTTCGTTAGGGATTTTTGACTCACTAAGGAAGGTGCTGATAAGCgggg                                                                                                                        >  2:292621/1‑143 (MQ=255)                      cTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCggggca                                                                                                                      >  1:530344/1‑141 (MQ=255)                      cTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATGAATGAAGGTGTGAATAAGctgcgat                                                                                                                      >  2:117556/1‑137 (MQ=255)                      cTTGATCGAAGCCATTTACACGCACAAAACCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGaa                                                                                                                      <  1:168247/143‑1 (MQ=255)                       ttGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGaaa                                                                                                                     >  1:654272/1‑143 (MQ=255)                         gATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAAtt                                                                                                                   >  2:880639/1‑143 (MQ=255)                             gAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTACCAGAATAGATACTTACTCTAGGAATTTTTGTTTTATTAAGGACGGTACGAATAAGCGGTGAAAtacttc                                                                                                               >  2:538822/1‑143 (MQ=255)                              aaGCCATTTACACCCACAAAATCCGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATtcttct                                                                                                              <  2:935272/143‑1 (MQ=255)                                gCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCg                                                                                                            >  2:923241/1‑143 (MQ=255)                                  cATGTACACGCACAAAATCTGAGAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGc                                                                                                          <  2:732751/143‑1 (MQ=255)                                   aTTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGACATTCTTCTCGGCt                                                                                                         >  1:366763/1‑143 (MQ=255)                                         actcacaAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCa                                                                                                   <  2:287990/140‑1 (MQ=255)                                         acGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCa                                                                                                   <  2:176655/143‑1 (MQ=255)                                           gCACACAATCTGAAAAACGTACCAGCATAAATGATCCGGCGCACCAATCAACAGCCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGt                                                                                                 <  2:786435/143‑1 (MQ=255)                                           gCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATCGATACTTTCTTTAGGACTTTTTGTTTTATTAAGGAAGGTGCGCATAAGCGGGGAAATTCTTCTCGGCTGCCTCAgc                                                                                                 >  1:917511/1‑142 (MQ=255)                                                   tCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGtcatttcat                                                                                         <  1:474521/143‑1 (MQ=255)                                                       aaaaaCGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAGTTCTTCTCGGCTGACTCAGTcatttcaattac                                                                                     >  1:822007/1‑141 (MQ=255)                                                        aaaaCGTACTAGCAGAAATGAGCCTGCGCACCAATCAACACCCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGTTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATttctt                                                                                    <  2:247287/143‑1 (MQ=37)                                                             gTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATACGCGGGGAAATTATTCTCGGCTGACCCAGTCATTTCGTGTCTTCATGt                                                                               >  2:19559/1‑143 (MQ=255)                                                              ctgctgCATGAATGATCCTGCGCACCAATCAACAACCGTATCAGAAGAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGtt                                                                              <  2:316067/138‑1 (MQ=255)                                                                 cagattAAATGATCTTGCGCACCAATTAACAATTGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTCAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCTTGTTTGa                                                                           <  2:466462/138‑1 (MQ=25)                                                                   gCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGc                                                                         <  2:705956/143‑1 (MQ=255)                                                                    cATAAATGATCCTGCGCACCAATCAACAACCGTATCAAAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGTAATTCTTCTCGGCTGACTCAGTCATTGCATTTCTTCCTGTTTGAGcc                                                                        >  2:616317/1‑143 (MQ=255)                                                                      tAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGCAAGGTGCGAATAAGCGGGGAAATTCTTCTCGTCTGACTCAGTCATTTCATCTCTTCACGTTTGAGcctg                                                                      >  2:783066/1‑141 (MQ=255)                                                                           gATCCTACTCATCAATCAACAATCGTATTAAAATAGATTCTTTCTTTACGAATTTTTTTTTTATTAATGAAGGTGCTAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTTAGCCGAttttt                                                                 <  2:474163/143‑1 (MQ=18)                                                                            aTCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAtttttt                                                                <  2:6957/143‑1 (MQ=255)                                                                             tCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTtc                                                               >  1:180811/1‑143 (MQ=255)                                                                             tCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTtc                                                               >  1:603204/1‑143 (MQ=255)                                                                             tCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCACTCATTCCATTCCTTCACGTTAGAGACGAttatatc                                                               >  1:237215/1‑138 (MQ=25)                                                                                 gcgcACCAATCAACAACCGTATCAGAATAGATACTTTCGTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTccc                                                           <  1:437498/143‑1 (MQ=255)                                                                                     aCCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTCTTTCCCCCGTac                                                       >  2:141827/1‑142 (MQ=255)                                                                                     aCCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCCATTTTTTCTcccttca                                                       >  2:144741/1‑139 (MQ=255)                                                                                       cAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAAt                                                     >  1:782446/1‑143 (MQ=255)                                                                                          tCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCCAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGcc                                                  <  1:680610/143‑1 (MQ=255)                                                                                               agctgTATCAGAATAGATACTTTCTTTAGTAATTGTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCAGTTCATTTCTTCATGTTTGAGCTGATTTTTTCTCCCGTAAATGCCTTGaa                                             <  2:587823/139‑1 (MQ=18)                                                                                                  cGTATCAAAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTAATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCa                                          <  1:485393/143‑1 (MQ=255)                                                                                                   gTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAg                                         <  2:399302/143‑1 (MQ=255)                                                                                                     aTCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGcc                                       <  1:482088/143‑1 (MQ=255)                                                                                                           attgttACTTTTTTTAGTAATTTTTTTTTTATGAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTTATTCAGTCATTTCATTTCTTCATGTTTGAGCTGTTTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTa                                 <  2:394464/138‑1 (MQ=14)                                                                                                           aTAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAGTTTTTATCCCGTAAATACCTTGAATCAGCATAATTa                                 >  1:378618/1‑143 (MQ=17)                                                                                                             aGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGa                               <  1:867941/143‑1 (MQ=255)                                                                                                              gATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTATATGACTTGAATTAGCCTATTTAgtc                              >  2:524668/1‑141 (MQ=255)                                                                                                               attctttgtttAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGAcc                             <  2:132923/140‑1 (MQ=255)                                                                                                                 aCTTTCTTTAGGAATTTTTGTTTTATTACGGCAAGCGCGGATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGt                           <  1:880639/143‑1 (MQ=17)                                                                                                                   tttctttTAGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGttt                         <  2:189899/143‑1 (MQ=255)                                                                                                                   tttctttAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGTTATTTTCTCCCGTAAATGCTTTTAATCAGCCTATTTAAACCGttt                         >  2:932351/1‑143 (MQ=17)                                                                                                                       tttAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTttcttc                     <  2:49160/143‑1 (MQ=255)                                                                                                                        ttAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTTAGTCATTTCATTTCTTCATGTTTGAGCCGATTCTTTCTCCCGCAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCg                    <  1:19559/143‑1 (MQ=255)                                                                                                                             aaTTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCAtt               >  2:428153/1‑143 (MQ=40)                                                                                                                                  ttGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAgg          >  1:100495/1‑143 (MQ=37)                                                                                                                                          ttaAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTAGGCTGACTCAGTCATTTCATTTCTGGAGGTTTGAGCGGATTTTTTCTCCCGTAAATGCCTTGAACCAGCCTATTTAGACCGTTTCTTCGCCAGTTAAGGCGTTATcg  >  2:626633/1‑142 (MQ=11)                                                                                                                                              |                                                                                                                                           CTTCACAGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGTTATCC  >  NC_000913/2101608‑2101887

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.