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
A9 F1 I2 R1 78 48.0 2243616 94.8% 2126947 114.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,291,336 C→T G287G (GGC→GGT)  nrfD → formate‑dependent nitrite reductase, membrane subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,291,3360CT100.0% 70.3 / NA 22G287G (GGC→GGT) nrfDformate‑dependent nitrite reductase, membrane subunit
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (9/13);  total (9/13)

CGTGCGCTGGTGGCGGCATTAGGTGGCGGTTTCTGGACGTGGTGGTTCTGGCTTGGTGTCGCCGGGCTGGGGCTGATTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGCAGTTCCGGCATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTAT  >  NC_000913/4291217‑4291461
                                                                                                                       |                                                                                                                             
cGTGCGCTGGTGGCGGCATTAGGTGGCGGTTTCTGGACGTGGTGGTTCTGGCTTGGTGTCGCCGGGCTGGGGCTGATTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGCAGTTCCGGTATTCCTGCCGTGCTggcgg                                                                                                            <  2:590141/139‑1 (MQ=255)
    cgcTGGTGGCGGCATTAGGTGGCGGTTTCTGGACGTGGTGGTTCTGGCTTGGTGTCGCCGGGCTGGGGCTGATTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCgtg                                                                                                        <  1:83693/139‑1 (MQ=255)
                   tAGGTGGCGGTTTCTGGACGTGGTGGTTCTGGCTTGGTGTCGCCGGGCTGGGGCTGATTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGt                                                                                         >  1:744872/1‑139 (MQ=255)
                                     tgtggtgGTTCTGGCTTGGTGTCGCCGGGCTGGGGCTGATTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTgcg                                                                       <  1:442152/138‑1 (MQ=255)
                                     cGTGGTGGTTCTGGCTTGGTGTCGCCGGGCTGGGGCTGATTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTgcg                                                                       <  2:1101783/139‑1 (MQ=255)
                                            gtTCTGGCTTGGTGTCGCCGGGCTGGGGCTGATTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTc                                                                <  1:72437/139‑1 (MQ=255)
                                               cTGGCTTGGTGTCGCCGGGCTGGGGCTGATTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTCAtt                                                             >  1:204628/1‑139 (MQ=255)
                                                        tgtCGCCGGGCTGGGGCTGATTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGcc                                                    <  2:204628/139‑1 (MQ=255)
                                                                 gctggggctgATTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTc                                                                <  2:906928/118‑1 (MQ=255)
                                                                 gctggggctgATTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTc                                                                >  1:906928/1‑118 (MQ=255)
                                                                     gggctgATTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACgg                                       <  1:276509/139‑1 (MQ=255)
                                                                          gATTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGTAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGCTGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCg                                  <  1:791900/139‑1 (MQ=255)
                                                                           aTTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCgtgt                                                                                 >  1:574136/1‑91 (MQ=255)
                                                                           aTTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCgtgt                                                                                 <  2:574136/91‑1 (MQ=255)
                                                                           aTTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGAc                                         <  1:818666/131‑1 (MQ=255)
                                                                           aTTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGAc                                         >  2:818666/1‑131 (MQ=255)
                                                                                                     ggTCAATCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTgg        >  2:252407/1‑138 (MQ=255)
                                                                                                     ggTCAATCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTgg        <  1:252407/138‑1 (MQ=255)
                                                                                                       tCAATCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACg     >  2:1055866/1‑139 (MQ=255)
                                                                                                          aTCGCAGTTCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTAt  >  1:727559/1‑139 (MQ=255)
                                                                                                                 ttCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTc           <  2:21058/123‑1 (MQ=255)
                                                                                                                 ttCCGGTATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTc           >  1:21058/1‑123 (MQ=255)
                                                                                                                       |                                                                                                                             
CGTGCGCTGGTGGCGGCATTAGGTGGCGGTTTCTGGACGTGGTGGTTCTGGCTTGGTGTCGCCGGGCTGGGGCTGATTGTGCCAATGCTGCTCAAACCGTGGGTCAATCGCAGTTCCGGCATTCCTGCCGTGCTGGCGGCGTGTGGGGCCAGTCTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTAT  >  NC_000913/4291217‑4291461

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A