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
A1 F1 I1 R1 26 102.0 3326124 78.0% 2594376 98.8

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
GGGCCCAAAACCAACAATTTGGGTGGCCCATTTCCTAC‑TTTTCAATGAACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCTCCGTCTCTAAAGCTGATTTTCTAGAAT  >  CP002094/675632‑675765
                                     |                                                                                                 
GGGCCCAAAACCAACAATTTGGGTGGCCCATTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAAT                                    >  SRR7892090.738706/1‑100 (MQ=0)
 GGCCCAAAACCAACAATTTGGGTGGCCCATTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATG                                   >  SRR7892090.988501/1‑100 (MQ=0)
 GGCCCAAAACCAACAATTTGGGTGGCCCATTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATG                                   <  SRR7892090.742789/100‑1 (MQ=0)
    CCAAAACCAACAATTTGGGTGGCCCATTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAA                                >  SRR7892090.523825/1‑100 (MQ=1)
      AAAACCAACAATTTGGGTGGCCCATTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGC                              <  SRR7892090.1120376/100‑1 (MQ=11)
       AAACCAACAATTTGGGTGGCCCATTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCT                             <  SRR7892090.841595/100‑1 (MQ=13)
       AAACCAACAATTTGGGTGGCCCATTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCT                             <  SRR7892090.1491063/100‑1 (MQ=13)
        AACCAACAATTTGGGTGGCCCATTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCTC                            <  SRR7892090.358887/100‑1 (MQ=18)
         ACCAACAATTTGGGTGGCCCATTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCTCC                           <  SRR7892090.1154414/100‑1 (MQ=20)
             ACAATTTGGGTGGCCCATTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCTCCGTCT                       <  SRR7892090.759551/100‑1 (MQ=29)
                ATTTGGGTGGCCCATTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCTCCGTCTCTA                    >  SRR7892090.1114596/1‑100 (MQ=36)
                   TGGGTGGCCCATTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCTCCGTCTCTAAAG                 <  SRR7892090.1404501/100‑1 (MQ=43)
                   TGGGTGGCCCATTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCTCCGTCTCTAAAG                 <  SRR7892090.1130498/100‑1 (MQ=43)
                         GCCCATTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCTCCGTCTCTAAAGCTGATT           >  SRR7892090.174804/1‑100 (MQ=57)
                           CCATTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCTCCGTCTCTAAAGCTGATTTT         >  SRR7892090.1572088/1‑100 (MQ=60)
                            CATTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCTCCGTCTCTAAAGCTGATTTTC        <  SRR7892090.113509/100‑1 (MQ=60)
                             ATTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCTCCGTCTCTAAAGCTGATTTTCT       >  SRR7892090.1520516/1‑100 (MQ=60)
                              TTTCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCTCCGTCTCTAAAGCTGATTTTCTA      >  SRR7892090.1383570/1‑100 (MQ=60)
                                TCCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCTCCGTCTCTAAAGCTGATTTTCTAGA    <  SRR7892090.400008/100‑1 (MQ=60)
                                 CCTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCTCCGTCTCTAAAGCTGATTTTCTAGAA   >  SRR7892090.1050192/1‑100 (MQ=60)
                                  CTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCTCCGTCTCTAAAGCTGATTTTCTAGAAT  <  SRR7892090.1593055/100‑1 (MQ=60)
                                  CTACATTTTCAATG‑ACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCTCCGTCTCTAAAGCTGATTTTCTAGAAT  >  SRR7892090.986595/1‑100 (MQ=60)
                                     |                                                                                                 
GGGCCCAAAACCAACAATTTGGGTGGCCCATTTCCTAC‑TTTTCAATGAACCCAAAACCAACATTTTTAGATGGCCCTTGACACTCTACTCTAAATCTAATGAAAGCTCCGTCTCTAAAGCTGATTTTCTAGAAT  >  CP002094/675632‑675765

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑