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)	41 (1.110)	30/284	0.2	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)	62 (1.690)	39/284	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

TCTTCACAGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGTTA  >  NC_000913/2101607‑2101884                                                                                                                                                |                                                                                                                                        tCTTCACAGTACATAAAGTAACCTTGATCGAAGCCATTTCCACGGGCAAAATCTGAAAAACGTACCAGCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTaag                                                                                                                                         <  2:74500/143‑1 (MQ=255)    tCACAGTACATAAAGCAACCATGATCGAAGCCATTTACACGAAAAAAAAAAAAAAAACGTACCAGCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTaaggaa                                                                                                                                      <  2:609833/143‑1 (MQ=255)      acaGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCT‑GCGCACCAATCAACAACCATATCAGAATAGATACTTTCTCTAGGAATTTTTGTTTTATTcaggaagg                                                                                                                                    >  2:612858/1‑143 (MQ=255)           aCATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCT‑GCGCACCAATCACCAACTCTACCAGATGATATACTTTCTTTAGGAATTTTTGTTTTCTTAAGGAAGGTGCGa                                                                                                                               >  1:668830/1‑143 (MQ=255)            cATAAAGTAACCTTGATCGAAGCCATTTACAAGAACAACATCTTCAAACCTCATTCACATAATTCCTCCTCGCGCATCACT‑TACAACCGTATCAGACTCCATACTTAAGTGAGGAATTTTTGTTTTATTAAGGAAGGTGCGaa                                                                                                                              >  1:673274/1‑143 (MQ=255)              tAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTCTAGGACTTTTTGCTGTCTTAGGGCAGGTGCCAATa                                                                                                                            >  1:349357/1‑143 (MQ=255)               aaaGTAAACTGGATCGCAGCCATCTCCACACACAACATCAGAAACACGCACAAGTATAATGTTTCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGTAATTTTTGTTTTATTAAGGAAGGTGCGAATaa                                                                                                                           <  2:77231/143‑1 (MQ=255)                   gaaCCTTGATCGAAGCCATTCACACGCACACAATCTGAAAAACGTACGAGCATAAATGAGCCT‑GCGCACCAATCAACAACCGTATCAGAAGAGATACGTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCgg                                                                                                                       <  2:288492/142‑1 (MQ=255)                    aaCCTGGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCggg                                                                                                                      <  1:294473/143‑1 (MQ=255)                        ttGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGaaa                                                                                                                  <  2:257487/143‑1 (MQ=255)                        ttGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACCTTCTTTAGGCATTTTTGTTTTATTAAGGAGGGTGCGAATAAGCGGGGaaa                                                                                                                  >  1:198233/1‑143 (MQ=255)                           aTCGAAGCCATTTACGCGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAAttc                                                                                                               <  2:407877/143‑1 (MQ=255)                            tCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAAttct                                                                                                              >  2:582431/1‑143 (MQ=255)                                    aTTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCt                                                                                                      >  2:71849/1‑143 (MQ=255)                                    aTTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTCTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCt                                                                                                      >  1:388537/1‑143 (MQ=255)                                            gCACAAAATCTGAAAAACGTACCAGCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTATCGGCTGACTCact                                                                                              >  2:187540/1‑141 (MQ=255)                                                  aaTCTGAAAAACGTACCAGCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAAGAATTTTTGTTTTATTAAGGAAGGTGCGAATAGGCGGGGATGTTCTTCTCGGCTGACTCAGtcatttc                                                                                        >  1:600239/1‑143 (MQ=255)                                                     cTGAAAAACGTACCAGCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGtcaattcatt                                                                                     >  2:533958/1‑143 (MQ=255)                                                             cGTACCAGCCTAAACGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATg                                                                             <  1:182717/143‑1 (MQ=255)                                                              gTACCAGCATAAATGATACA‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGt                                                                            >  2:553716/1‑143 (MQ=255)                                                                  cAGCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAGTTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGa                                                                        <  2:62147/143‑1 (MQ=255)                                                                  cAGCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGa                                                                        <  1:290613/143‑1 (MQ=255)                                                                    gCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGc                                                                      >  1:190624/1‑143 (MQ=255)                                                                         aaTGATCCT‑GCGCACGAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAtt                                                                 >  2:569124/1‑143 (MQ=255)                                                                                cT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTtctc                                                          <  1:136508/143‑1 (MQ=255)                                                                                   gcgcACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTccc                                                        <  1:201942/143‑1 (MQ=255)                                                                                       aCCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTaa                                                    <  1:389170/143‑1 (MQ=255)                                                                                                caacCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGa                                           <  1:155361/143‑1 (MQ=255)                                                                                                 aacCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCACTTCACTTCTTTATTTTTTAGCCGATTTTTTCTCCCGTAAATGCCTTGaa                                          <  1:348059/143‑1 (MQ=21)                                                                                                      tATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGGAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGc                                     <  2:350156/143‑1 (MQ=255)                                                                                                          aGAATGGATACTGTCTTTAGTAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTAt                                 <  2:621640/143‑1 (MQ=255)                                                                                                           gAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTACGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGCTTTTTTCTCCCGTAAATGCCTTGAATTCTCCTAtt                                >  2:524664/1‑143 (MQ=18)                                                                                                                      ttctttAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTttc                     >  2:451241/1‑143 (MQ=255)                                                                                                                         tttAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTttcttc                  <  1:571809/143‑1 (MQ=255)                                                                                                                         tttAGGAATTGTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTttcttc                  <  1:397405/143‑1 (MQ=255)                                                                                                                          ttAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCg                 <  1:617383/143‑1 (MQ=255)                                                                                                                           tAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGc                >  1:428146/1‑143 (MQ=255)                                                                                                                                  ttttGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTaa         <  1:71849/143‑1 (MQ=38)                                                                                                                                     tGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTATTAGCCATTTAAgac      >  1:206226/1‑141 (MQ=255)                                                                                                                                        tttATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGGTTTTTTCTCCCGTAAATGCCTTGAATCAGCCTAGTCAGACCGTTCCTTCGCCGTTTCAGGCGtt   >  2:535918/1‑143 (MQ=11)                                                                                                                                         ttattaAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTATACCGTTTCTTACCCATTTAAGGCGttc  >  2:196569/1‑142 (MQ=12)                                                                                                                                                |                                                                                                                                        TCTTCACAGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCT‑GCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGTTA  >  NC_000913/2101607‑2101884

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.