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

ACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1979355‑1979489 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTCTT  <  NC_000913/2290113‑2289972                                                                                                                                                                                                                                                                                       ACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCTTCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTG                                                                                                                                        <  2:632451/143‑1   AGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAAGCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCG                                                                                                                                      <  1:673318/143‑1            CGAAATGGTATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCC                                                                                                                             <  2:229977/143‑1              AAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATATCAGATAAGCTATTTTTAAACAGACACGTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCT                                                                                                                           <  1:55025/143‑1                 TGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACAAGATAAGCTATTTTTAAACAGACACTAACCACACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGAc                                                                                                                        >  2:459105/1‑142                   GGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATAT                                                                                                                      <  1:202790/143‑1                      tggttCGCAAAGTCAAAATAACTCACCATAAAGAATCATTTGATATTAATATTCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGTAAGGTGCGAACAAGTCACTGATATGAG                                                                                                                   <  2:404808/138‑1                                 GTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGT                                                                                                        <  2:16376/143‑1                                     AAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAACCCCCGATCTGAAATCAGGTTTGTCATC                                                                                                    >  2:644546/1‑143                                      AATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGCAAGGTGCTAACAAGTCCCTGATATCAGATCATGTTTGTCATCT                                                                                                   >  2:93023/1‑143                                                 GTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGA                                                                                        >  2:490147/1‑143                                                      TAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGG                                                                                   <  2:721462/143‑1                                                      TAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGAAGCCATAGAAAAGG                                                                                   >  1:239650/1‑143                                                       AATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGG                                                                                  >  2:246724/1‑143                                                                tTATAAATAATCTCTTTCATGCAATACCAGATAAGCTATTTGTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCAGGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATG                                                                         <  1:29080/142‑1                                                                 TATAAATAATCACTTATAAGCAAAACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACGAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGA                                                                        <  1:334333/143‑1                                                                   TAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACAAAAGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATATGGAACGATCGAAAAGGGTTCATACTGAGa                                                                      >  2:286522/1‑142                                                                              TTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGCAGCCATAGAACAGCGTTCATCATGAGTCATAAACTTAC                                                           >  1:484803/1‑143                                                                                TCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAATGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGCTCATCAAGAGTCAACAGCTTACCg                                                         >  2:338030/1‑142                                                                                     CAATACCAGATAAGCTATTTTTAAACAGTCACTTACCGAATAACAAACTAAGGAAGGTGAGAACAAGGCCCTAAGATGAGAACATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCC                                                    <  1:145086/143‑1                                                                                         ACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACA                                                >  2:494547/1‑143                                                                                              ATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAA                                           <  1:246724/143‑1                                                                                                AAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATT                                         <  1:490147/143‑1                                                                                                     gTTTTTAAACAGACACTTACCGCACAACAAACTAAGTAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCA                                    <  2:310184/142‑1                                                                                                     actttcgAACGGACTCGTACCGCACACCAATCTTAGGAATGTGCGAACGAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCA                                    <  2:375002/136‑1                                                                                                       TTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGT                                  >  1:611493/1‑143                                                                                                                    CTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGA                     <  2:656351/143‑1                                                                                                                           CACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTCCCTTCGCCGCCAGTGCATTCAGCAGCAAGCGCCGTCAGACCAGCAA              >  1:596883/1‑143                                                                                                                                 aagaaAAGGAAGGAGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGAT        <  1:133776/138‑1                                                                                                                                   ACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTGATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCGGGAGGCGGCGACAGACACGAAAAGAGcgtt      >  2:574064/1‑139                                                                                                                                    CTAGGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTT     >  2:39567/1‑143                                                                                                                                     TAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGCGTCATCACCTTACCTTCGCCGACCGTGTATTCATCGGTAAGCGCCGTCAGACAAGAAAAAAAATTTTC    >  1:84737/1‑143                                                                                                                                     TAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGCATTCAGCAGTAAGCGCCGTCAGACCAGAACAGAGTTTTTg    >  1:523412/1‑142                                                                                                                                     TAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGGTCATCACGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTC    <  1:594750/143‑1                                                                                                                                      AAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGACTTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATATTCT   >  2:91906/1‑143                                                                                                                                      AAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTat   >  1:224038/1‑141                                                                                                                                      AAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGGGACTTCAGCAGTAAGCGCCGTCAGCCAACAAAGGAGAGTTTCT   >  2:583493/1‑143                                                                                                                                       AGGAAGGTGCTAACAAGTCCATGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTCTT  <  1:425252/143‑1                                                                                                                                       AGGAAGGTGCGAACAAGTCCCTGATATGAGTTCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCGACTTGCCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTCTT  <  2:237658/143‑1                                                                                                                                                                                                                                                                                       ACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1979355‑1979489 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTCTT  <  NC_000913/2290113‑2289972

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.