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
A16 F258 I0 R1 432 103.0 5191697 92.7% 4812703 99.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
JC NC_000913 4,370,608 Δ4 bp 18.2% intergenic (‑196/‑77) yjeH ← / → groS putative transporter/Cpn10 chaperonin GroES, small subunit of GroESL

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 437060790 (0.980)20 (0.220) 18/176 NT 18.2% intergenic (‑195/‑81) yjeH/groS putative transporter/Cpn10 chaperonin GroES, small subunit of GroESL
?NC_000913 4370612 = 91 (1.000)intergenic (‑200/‑76) yjeH/groS putative transporter/Cpn10 chaperonin GroES, small subunit of GroESL

CGATGAAATGTGAGGTGAATCAGGGTTTTCACCCGATTTTGTGCTGATCAGAATTTTTTTTCTTTTTCCCCCTTGAAGGGGCGAAGCCTCATCCCCATTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4370508‑4370607
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tGGTCACCAGCCGGGAAACCACGTAAGCTCCGGCGTCACCCATAACAGATACGGACTTTCTCAAAGGAGAGTTATCAATGAATATTCGTCCAT  >  NC_000913/4370612‑4370703
                                                                                                                                                                                                
aGATGAAATGTGAGGTGAATCAGGGTTTTCACCCGATTTTGTGCTGATCAGACTTTTTTTTCTTTTTACCCCTTGAAGGGGCGAAGCCTCATCCCCATTT                                                                                              >  2:920571/2‑100
 GATGAAATGTGAGGTGAATCAGGGTTTTCACCCGATTTTGTGCTGATCAGAATTTTTTTTTTTTTTTCCCTTTGAAGGGGCGAAGCCTCATTCCCATTT                                                                                              >  1:1083589/1‑99
    GAAATGTGAGGTGAATCAGGGTTTTCACCCGATTTTGTGCTGATCAGAATTTTTTTTCTTTTTCCCCCTTGAAGGGGCGAAGCCTCATCCCCATTTGGTC                                                                                          <  1:2259016/100‑1
    GAAATGTGAGGTGAATCAGGGTTTTCACCCGATTTTGTGCTGAGCAGAATTTTTTTTCTTTTTCCCCCTTGAAGGGGCGAAGCCTCATCCCCATTTGGTC                                                                                          <  1:205135/100‑1
             GGTGAATCAGGGTTTTCACCCGATTTTGTGCTGATCAGAATTTTTTTTCTTTTTCCCCCTTGAAGGGGCGAAGACTCATCCCCATTTGGTCACCAGCCGG                                                                                 >  2:1899179/1‑100
                GAATCAGGGTTTTCACCCGATTTTGTGCTGATCAGAATTTTTTTTCTTTTTCCCCCTTGAAGGGGCGAAGCCTCATCCCCATTTGGTCACCAGCCGGGAA                                                                              <  2:803290/100‑1
                 AATCAGGGTTTTCACCAGATTTTGTGCTGATCAGAATTTTTTTTCGTTTTCCCCCTTGAAGGGGCGAAGCCTCATCCCCATTTGGTCACCAGCCGGGAAA                                                                             <  1:929387/100‑1
                     AGGGTTTTCACCCGATTTTGTGCTGATCAGAATTTTTTTTCTTTTTCCCCCTTGAAGGGGCGAAGCCTCATCCCCATTTGGTCACCAGCCGGGAAACCAC                                                                         >  2:2206655/1‑100
                      GGGTTTTCACCCGATTTTGTGCTGATCAGAATTTTTTTTCTTTTTCCCCCTTGAAGGGGCGAAGCCTCATCCCCATTTGGTCACCATCCGGGAAACCAtg                                                                        <  2:1755666/100‑3
                        GTTTTCACCCGATTTTGTGCTGATCAGAA‑TTTTTTTCTTTTTCCCCCTTGAAGGGGCGAAGCCTCATCCCCATTTGGTCACCAGCCGGGAAACCACGTAA                                                                     >  2:1007773/1‑100
                                  GATTTTGTGCTGATCAGAATTTTTTTTCTTTTTCCCCCTTGAAGGGGCGAAGCCTCATCCCCATTTGGTCACCAGCCGGGAAACCACGTAAGCTCCGGCG                                                            <  1:1402076/100‑1
                                     TTTGTGCTGATCAGAATTTTCTTGCTTTTTCCCCCTTGAAGGGGCGAAGCCTCATCCCCATGTGGTCACCAGCCTGGAAACCACGTAAGCTCCGGCGTC                                                          <  1:257580/99‑1
                                          GCTGATCAGAATTTTTTTTCTTTTTCCCCCTTGAAGGGGCGAAGCCTCATCCCCATTTGGTCACCAGCCGGGAAACCACGTAAGCTCCGGCGTCACCCAT                                                    <  2:1671043/100‑1
                                                  GAATTTTTTTTCTTTTTCCCCCTTGAAGGGGCGAAGCCTCATCCCCATTTGGTCACCAGCCGGGAAACCACGTAAGCTCCGGCGTCACCCATAACAGATA                                            <  2:473137/100‑1
                                                       TTTTTTCTTTTTCCCCCTTGAAGGGGCGAAGCCTCATCCCCATTTGGTCACCAGCTGGGAAACCACGTAAGCTCCGGCGTCACCCATAACAGATACGGAC                                       <  2:1012271/100‑1
                                                       TTTTTTCTTTTTCCCCCTTGAAGGGGCGAAGCCTCATCCCCATGTGGTCACCAGCCGGGAAACCGCGTAAGCTCCGGCGTCACCCATATCAGATACGGAC                                       <  1:1175657/100‑1
                                                             CTTTTTCCCCCTTGAAGGGGCGAAGCCTCATCCCCATTTGGTCACCAGCCGGGAAACCACGTAAGCTCCGGCGTCACCCATAACAGATACGGACTTTCTC                                 <  1:1317979/100‑1
                                                              TTTTTCCCCCTTGAAGGGGCGAAGCCTCATCCCCATTTGGTCACCAGCCGGGAAACCACGTAAGCTCCGGCGTCACCCATAACAGATACGGACTTTCTCA                                <  2:1104370/100‑1
                                                                   CCCCCTTGAAGGGGCGAAGCCTCATCCCCATTTGGTCACCAGCCGGGAAACCACGTAAGCTCCGGCGTCACCCATAACAGATACGGACTTTCTCAAAGGA                           >  1:1335299/1‑100
                                                                      CCTTGAAGGGGCGAAGCCTCATCCCCATTTGGTCACCAGCCGGGAAACCACGTAAGCTCCGGCGTCACCCATAACAGATACGGACTTTCTCAAAGGAGAG                        <  1:1680673/100‑1
                                                                                  GAAGCCTCATCCCCATTTGGTCACCAGCCGGGAAACCACGTAAGCTCCGGCGTCACCCATAACAGATACGGACTTTCTCAAAGGAGAGTTATCAATGAAT            >  1:706591/1‑100
                                                                                          ATCCCCATTTGGTCACCAGCCGGGAAACCACGTAAGCTCCGGCGTCACCCATAACAGATACGGACTTTCTCAAAGGAGAGTTATCAATGAATATTCGTCC    >  1:1792280/1‑100
                                                                                          ATCCCCATTTGGTCACCAGCCGGGAAACCACGTAAGCTCCGGCGTCACCCATAACAGATACGGACTTTCTCAAAGGAGAGTTATCAATGAATATTCGTCC    <  2:1927662/100‑1
                                                                                            CCCCATGTGGTCACCAGCCGGGAAACCACGTAAGCTCCGGCGTCACCCATAACAGATACGGACTTTCTCAAAGGAGAGTTATCAATGAATATTCGTCCAT  <  2:2472624/100‑1
                                                                                                                                                                                                
CGATGAAATGTGAGGTGAATCAGGGTTTTCACCCGATTTTGTGCTGATCAGAATTTTTTTTCTTTTTCCCCCTTGAAGGGGCGAAGCCTCATCCCCATTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4370508‑4370607
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tGGTCACCAGCCGGGAAACCACGTAAGCTCCGGCGTCACCCATAACAGATACGGACTTTCTCAAAGGAGAGTTATCAATGAATATTCGTCCAT  >  NC_000913/4370612‑4370703

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ 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.

GATK/CNVnator alignment

N/A