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)	32 (1.600)	23/284	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)	38 (1.900)	23/284	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

TAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1979362‑1979489 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTCTT  <  NC_000913/2290113‑2289972                                                                                                                                                                                                                                                                                TAATCGAAATGGGATGTTTCGCACAGTCAATATATCTCATCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAAGACCAGAGAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAA                                                                                                                                 <  1:345840/143‑1           GGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTACATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATA                                                                                                                       <  1:302422/143‑1                        CAGTCAAAATAACTCACTGTAAATAATCATCAGCGAAGGGTGAACACCTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTT                                                                                                          <  1:381019/143‑1                          GTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCATTACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAAATAAGGAAGGTGAGAACAAGTCCCTGATATGAGATCATGTTTGT                                                                                                        >  1:21421/1‑143                           TCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACACACTACGGACGGTGCGAAGAAGTCCCTGATATGAGATCATGTTTGTC                                                                                                       >  1:7807/1‑143                             AAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCct                                                                                                     >  2:168200/1‑141                             AAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCAT                                                                                                     <  1:149411/143‑1                                ATAACTCCCCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCCCATAATCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTG                                                                                                  <  2:223696/143‑1                                              ATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAG                                                                                    >  1:342574/1‑143                                                  TCATCTACTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATACGAGATCATGTTTGCACTCTGGAGCCATAGAACAGGGTT                                                                                >  2:61332/1‑143                                                        GCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCAT                                                                          <  2:82179/143‑1                                                          TATAAATAGTCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGA                                                                        <  2:80750/143‑1                                                                TAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATC                                                                  <  1:265137/143‑1                                                                       TTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACACGTCCCTGATATGCGTTCATGTTTGTCATCTGGAGCCATAGAACAGGGATCATCATGAGTCATCAACTTAC                                                           >  1:37471/1‑143                                                                            TGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGATTCATAATAAGACATCAACTAACATTCG                                                      >  1:262725/1‑143                                                                              CAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGCTGCGAACAAGACACTAATATGAGAACATATATGTCATCTGGAACAATAAAACAGAGTTCATCATGAGCCATCAACTTACCTTCGCC                                                    >  1:149134/1‑143                                                                                tTACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGA                                                  <  2:88153/142‑1                                                                                      GATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCACTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTCCGCCGACAGCGA                                            >  2:258306/1‑143                                                                                       ATAAGCTATTTTTAAACAGACATTTACCGTTCTATAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCAGGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAA                                           <  1:26961/143‑1                                                                                       ATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAA                                           <  1:299991/143‑1                                                                                         atgcaATTTTTAAACAGACGCTTACCGTACAACAAACGAAGGAAGGTGCGAACAAGTCTCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATT                                         <  2:313455/138‑1                                                                                            CTATTTTTAAACAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAG                                      <  2:342574/143‑1                                                                                            CTAGTTTTAAACCGACTCTTACCGCACAACGCACTAATGAAGGTGCGAACAAGCCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAG                                      <  2:353018/143‑1                                                                                                       CAGACACTTACCGCACAACAAACTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCC                           <  2:202715/143‑1                                                                                                                     ACAACAAACGAAGTAAGCTGCGAACAAGTCCCTGATATGAGATCATGTTTGCCATCTGGACCCATAGAACCGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGTGCCGTCAGACCAGAAAA             <  2:151415/143‑1                                                                                                                        ctcgctgAAGGATGGTGCGAACATGTCCGTGATATGAGATCATGTCTGTAATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAG          <  2:339853/136‑1                                                                                                                           AACGAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCAGAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGGGCCGTCAGACCAGGAAAGGGATT       >  2:182161/1‑143                                                                                                                             CTAAGGAAGGTGCGAACAAGTCCCTGATATGCGATCATGTTTGTCATCTGGAGCCATAGAACACGGTTCATCATGAGTCCTCAACTTACCTTCGCCGACAGTAAATTCAGAAGTAAGCGCAGAAAGACTAGAAAAGAGACTTT     >  1:173520/1‑143                                                                                                                             CTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTAGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCACTAAGCGCCCTCACACCCGCAAAGAGAaatc     >  2:353943/1‑139                                                                                                                              gAAGGAAGGGGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTC    <  1:247149/142‑1                                                                                                                              TAAGTAAAGTGCGAACAAGTCCTTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTC    <  1:245659/143‑1                                                                                                                              TAAGGAAGGTGCTAATAAGTCCCTGATATGAGATGATGTTTGTGATCTGGAGCCATAGAACAGGGTTCATCATGAGGCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTC    <  1:271606/143‑1                                                                                                                              TAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACCGTGAATTCAGCAGTAAGCGCCGTCATACCAGAAAAGAGATTTTC    >  1:143455/1‑143                                                                                                                              TAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTC    <  2:323474/143‑1                                                                                                                               AAGGAGGGGGCGAAGAAGGCCCTGTTATGAGATCATGTTTGTCAGCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTCT   <  2:339132/143‑1                                                                                                                               AAGGAAGGTGCGAACAAGTCCCTTATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTCT   <  1:239595/143‑1                                                                                                                                AGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTCTT  >  2:305493/1‑143                                                                                                                                AGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGACGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTCTT  >  2:382141/1‑143                                                                                                                                                                                                                                                                                TAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1979362‑1979489 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑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.