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 (1.590)	48/284	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)	35 (0.780)	28/284	0.7	100%	intergenic (‑274/‑264)	insA/uspC	IS1 repressor TnpA/universal stress protein
	?	NC_000913	= 2290113	NA (NA)					noncoding (1/1195 nt)	IS5	repeat region

TCTTCACAGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGTTATC  >  NC_000913/2101607‑2101886                                                                                                                                               |                                                                                                                                          ccTTCACAGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGTAATTTTTGTTTTATTaag                                                                                                                                           <  2:728399/142‑1 (MQ=255)        aGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTg                                                                                                                                    >  1:249078/1‑143 (MQ=255)         gTAGATAAAGGAAGCGTGATCGAGGCCATGTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGc                                                                                                                                   <  1:312011/143‑1 (MQ=255)             aTAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAAt                                                                                                                               >  2:368675/1‑143 (MQ=255)             aTAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCATGCGCACCAATCAACAACCGTACCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAAt                                                                                                                               >  2:400977/1‑143 (MQ=255)               aaaGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGCACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATaa                                                                                                                             >  1:436860/1‑143 (MQ=255)                 aGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAAGGATCCTGCACACCAATCAACAACCGTATCAGAATAGATACGTTCGTTAGGAACTTTTGTTTTCTCAACGAAGGTGTGacaaaac                                                                                                                           >  2:273566/1‑137 (MQ=255)                   tAACCTTGATCGAAGCAATTGACACGCACAATATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCgg                                                                                                                         <  2:199637/143‑1 (MQ=255)                      acTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGa                                                                                                                      <  2:652532/142‑1 (MQ=255)                        ttGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGCATTTTTGTTTTATTAAGGTAGGTGCGAATAAGCGGGGata                                                                                                                    >  2:364106/1‑141 (MQ=255)                        ttGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAACAAGCGGGGgaa                                                                                                                    >  2:212182/1‑143 (MQ=255)                              gAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGCAGGTGCGAATAAGCGGGGAAAttcttc                                                                                                              >  2:254891/1‑143 (MQ=255)                                        acacGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACt                                                                                                    <  2:249078/143‑1 (MQ=255)                                            tctcaAAATCGGAACAACGTACCCGCATAGATGATCCTGCGCAGCAATCATCTTCCGTATCAGAATAGATACTTTCTTTAGGGATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGt                                                                                                <  2:159835/140‑1 (MQ=37)                                            gCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGt                                                                                                >  2:212336/1‑143 (MQ=255)                                             cacaAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGtc                                                                                               <  1:184367/143‑1 (MQ=255)                                                    tCTGAAAAACGTACCAGCATAAATGATCCTGCGCAAAAATCACACACCATATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTACGGAAGGTGCGAATAAGCGGGGATATTCTTCTTGGCTGCCTAACtcatttctt                                                                                        >  2:357946/1‑141 (MQ=37)                                                         aaaaCGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGTGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATttctt                                                                                   <  1:361259/143‑1 (MQ=255)                                                                  cAGCATAAATGCTCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAACTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGa                                                                          <  1:404141/143‑1 (MQ=255)                                                                   aGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAg                                                                         >  1:657005/1‑143 (MQ=255)                                                                          aTGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAttt                                                                  >  1:615350/1‑143 (MQ=255)                                                                            gATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATTAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATCTTTGGGCCGAttttt                                                                >  1:676681/1‑143 (MQ=255)                                                                              tCCTGCGCACCAATCAACAACTGTATCAGAATAGATACTTTCTTTAGGAATTCTTTTTTTATTAAGGAAGGTGCGAATACGAGGGGAAATTCTTCTCGGCTCACTCAGTCATTGAAATTCTTCATGTTTGAGCCGATTTGTtc                                                              <  2:704115/143‑1 (MQ=21)                                                                               ccTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTtct                                                             >  2:156503/1‑143 (MQ=255)                                                                                          aTCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGTGAATAATGGGGGATATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTTATTCGATTTTTTTTCCCGTGAAtac                                                  >  2:17722/1‑141 (MQ=21)                                                                                           tCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTTCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGcc                                                 <  2:760173/143‑1 (MQ=255)                                                                                            caacacCCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTCCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCt                                                <  2:637550/143‑1 (MQ=255)                                                                                                 acCGTATCAGAATAGATAGTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAAt                                           <  2:409209/143‑1 (MQ=255)                                                                                                     tATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAGTCAGc                                       >  1:274156/1‑143 (MQ=255)                                                                                                     tATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGc                                       <  1:132466/143‑1 (MQ=255)                                                                                                                aTACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCTGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTTAATCATCCTCTTTAGAcc                            >  2:545660/1‑143 (MQ=255)                                                                                                                    tttctttAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTGGATGCCTGGAATCAGCCTATTTAGCCCGttt                        >  1:542607/1‑143 (MQ=255)                                                                                                                     ttctctAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTttc                       <  1:257272/143‑1 (MQ=255)                                                                                                                          tAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAACTTCTTCTCGGCTGACTCAGTCATTTCCTTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAACTGCCCTGAATCAGCCCCTTTAGACCCTttcttctc                  >  2:345506/1‑141 (MQ=14)                                                                                                                            ggAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCa                >  2:26351/1‑143 (MQ=255)                                                                                                                             gAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCAt               >  1:285442/1‑143 (MQ=255)                                                                                                                             gAATTTTTG‑TTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGTCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTTTTTAGTCCGTTTCTTCGCCAtt              >  1:109188/1‑143 (MQ=11)                                                                                                                                    tGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGc        <  1:525214/143‑1 (MQ=35)                                                                                                                                         tattaAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAACTGCCTTGAATCAGCCTCTTTGGACCGTTTCTCCGCCACTCACGGCGttct   >  1:82463/1‑141 (MQ=11)                                                                                                                                          attaAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCCATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGTTATc  <  1:394232/143‑1 (MQ=14)                                                                                                                                               |                                                                                                                                          TCTTCACAGTACATAAAGTAACCTTGATCGAAGCCATTTACACGCACAAAATCTGAAAAACGTACCAGCATAAATGATCCTGCGCACCAATCAACAACCGTATCAGAATAGATACTTTCTTTAGGAATTTTTGTTTTATTAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGTTATC  >  NC_000913/2101607‑2101886

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.