Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A12 F1 I1 R1 760 58.2 3022526 90.8% 2744453 102.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
JC NC_000913 3,980,957 (G)6→9 coding (71/1386 nt) yifK → putative APC family amino acid transporter

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 39809510 (0.000)44 (0.790)
+GGG		 30/184 0.6 100% coding (65/1386 nt) yifK putative APC family amino acid transporter
?NC_000913 3980952 = 0 (0.000)coding (66/1386 nt) yifK putative APC family amino acid transporter

CATAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3980835‑3980951
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTTCATCATGCGTTCAATGGGCGA  >  NC_000913/3980952‑3981080
                                                                                                                     |||                                                                                                                                 
CATAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGTTGGAAGCTCCACATATCGAACTCATCGCCC‑GGGGGGGGGCACCATTGGCGTCG                                                                                                               >  2:1104029/1‑139
  TAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCTTTGGCGTCGGC                                                                                                             >  1:978327/1‑139
        TAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTT                                                                                                       >  2:414678/1‑139
        TAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTT                                                                                                       >  1:586022/1‑139
         AACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTA                                                                                                      >  2:1246618/1‑139
              GTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGG                                                                                                 <  1:1346298/139‑1
                   ACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGC                                                                                            <  1:951608/139‑1
                   ACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGC                                                                                            <  2:586022/139‑1
                     CGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCA                                                                                          <  1:1246618/139‑1
                     CGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCA                                                                                          <  1:1282863/139‑1
                                         CACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGG                                                                       >  2:72029/1‑139
                                         CACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGG                                                                      >  1:1258878/1‑139
                                         CACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGC                                                                          <  1:1124940/135‑1
                                         CACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGC                                                                          >  2:1124940/1‑135
                                               GATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCC                                                                >  1:206333/1‑139
                                                 TTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGT                                                              >  1:207273/1‑139
                                                   TATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGC                                                                                                             <  1:154804/90‑1
                                                   TATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGC                                                                                                             >  2:154804/1‑90
                                                    ATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCC                                                                    >  1:578501/1‑130
                                                    ATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCC                                                                    <  2:578501/130‑1
                                                      GGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGT                                                         <  2:207273/139‑1
                                                       GCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGT                                                         <  1:72029/139‑1
                                                          GATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGC                                                                     >  1:1396784/1‑123
                                                          GATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGC                                                                     <  2:1396784/123‑1
                                                           ATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCC                                                    <  2:978327/139‑1
                                                            TAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCT                                                   <  2:206333/139‑1
                                                                AAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATAT                                               <  1:1159298/139‑1
                                                                  ACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCA                                             <  2:1258878/139‑1
                                                                  ACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCA                                             >  2:252066/1‑139
                                                                       AGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGC                                                                                                             <  2:1216002/70‑1
                                                                       AGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGC                                                                                                             >  1:1216002/1‑70
                                                                                 TGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCG                              >  2:1333049/1‑139
                                                                                 TGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCA                                                                                                                        >  2:489227/1‑49
                                                                                 TGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCA                                                                                                                        <  1:489227/49‑1
                                                                                   GGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGT                                                         <  2:992095/110‑1
                                                                                   GGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGT                                                         <  2:663287/110‑1
                                                                                   GGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGT                                                         >  1:663287/1‑110
                                                                                   GGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGT                                                         >  1:992095/1‑110
                                                                                              CGACATATCGAACTCATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTTCATCAT                 >  2:744516/1‑139
                                                                                                             ATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTTCATCATGCGTTCAATGGGCGA  >  2:740077/1‑139
                                                                                                             ATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGT                                                         <  1:377591/84‑1
                                                                                                             ATCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGT                                                         >  2:377591/1‑84
                                                                                                              TCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGC                                                                                            >  1:72916/1‑48
                                                                                                              TCGCCCT‑GGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGC                                                                                            <  2:72916/48‑1
                                                                                                                     |||                                                                                                                                 
CATAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3980835‑3980951
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTTCATCATGCGTTCAATGGGCGA  >  NC_000913/3980952‑3981080

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ 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.

GATK/CNVnator alignment

N/A