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
A4 F6 I0 R1 31 40.7 1457906 90.0% 1312115 147.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913_3_hsa_tpiA 2,679,525 G→T 100% A1074D (GCT→GAT)  yphG ← DUF4380 domain‑containing TPR repeat protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913_3_hsa_tpiA2,679,5250GT100.0% 112.0 / ‑6.7 40A1074D (GCT→GAT) yphGDUF4380 domain‑containing TPR repeat protein
Reads supporting (aligned to +/- strand):  ref base G (0/1);  new base T (23/16);  total (23/17)
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GTTTTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAGCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCAGGTTG  >  NC_000913_3_hsa_tpiA/2679383‑2679670
                                                                                                                                              |                                                                                                                                                 
gTTTTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAATTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAAGCATCACGGTCGTAAATAATCCCGCTTTCGTCCAATCCGCAt                                                                                                                                             >  2:573171/1‑149 (MQ=255)
 tttttATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACCGTTAATAGGGGTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGAtt                                                                                                                                            >  1:251355/1‑149 (MQ=255)
    ttattaACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGTCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAAt                                                                                                                                         >  2:693746/1‑149 (MQ=255)
       ttaACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCATTCGGCCCATCCGGATTAATCGc                                                                                                                                      >  1:605755/1‑149 (MQ=255)
        taACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGcc                                                                                                                                     <  1:278573/149‑1 (MQ=255)
          acaacGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGt                                                                                                                                   >  2:177869/1‑149 (MQ=255)
          acaacGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGt                                                                                                                                   <  1:212712/149‑1 (MQ=255)
             acGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCaa                                                                                                                                <  1:29623/149‑1 (MQ=255)
                                   tgatgaGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGACCAGACGCatat                                                                                                          >  1:326622/1‑149 (MQ=255)
                                   tgatgaGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAAAGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCatat                                                                                                          >  1:690634/1‑149 (MQ=255)
                                                    tGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAg                                                                                         >  2:400123/1‑149 (MQ=255)
                                                              ttatTACAGTTTATAGGGTTTAGTGAACGGGGTAAAAAATAAAAGGCATCATGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGAc                                                                               <  2:375807/148‑1 (MQ=255)
                                                                atTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGACTAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCCATTCAGCGCGAGCAGACTCCTATTGCGCAACCTCCCCGAGCCCCGCggcaga                                                                             >  2:86332/1‑145 (MQ=255)
                                                                  tACAGTTAATAGGGTTTAGTGAACTGGGGTACGCATACTTTGCGGCACGGTTGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGAAAGCTCCGCGAGTCCCGCGGACGCCa                                                                           <  2:150153/149‑1 (MQ=255)
                                                                   aCAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGCTTAATCGCCGTCAATTCAGCGCGCGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAg                                                                          >  1:638356/1‑149 (MQ=255)
                                                                      gTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGTTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGCCGCCAGCAt                                                                       >  1:21773/1‑149 (MQ=255)
                                                                            aGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGccac                                                                 <  1:19713/149‑1 (MQ=255)
                                                                                            ggTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCt                                                 >  1:179433/1‑149 (MQ=255)
                                                                                             gTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCAGCTATCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATGTGTCGCAACCTCCCTGGACACCGCGTCAGCCACCCTCACCACCCTCAGGCATTTTTCta                                                >  2:79187/1‑148 (MQ=255)
                                                                                              ttAAAAATAAAAGGCATCACGTTGGTGAATAATGCCGCTTTCGGCCAATCCTGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCttt                                               <  2:707766/149‑1 (MQ=255)
                                                                                               aaaaaaGAAAGGGCGGCACGGGGGTGAATAATGCCGCGTGGGGTCAATCCGGATTAATCGCCGTCAATGCAGCGCGAGCAGACGTATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCTCCATCAGGCGTTTTTccgtt                                              <  2:350318/148‑5 (MQ=255)
                                                                                                aaaaaTAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTAt                                             <  1:542915/149‑1 (MQ=255)
                                                                                                 aaaaTAAAAGGCATCACGGTGGTGCATAATGCCGCTTCCGGCCAATCCGGATCAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCACCCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTCCTTTAtg                                            <  1:671960/149‑1 (MQ=255)
                                                                                                  aaaTAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATTGCCGCCATCAGGCATTTTTCTTTAtgc                                           >  2:350828/1‑149 (MQ=255)
                                                                                                  aaaTAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTTTTTAtgc                                           >  1:131499/1‑149 (MQ=255)
                                                                                                       aaaGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGctgctg                                      >  2:602496/1‑149 (MQ=255)
                                                                                                        aaGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCtgt                                     >  1:240206/1‑149 (MQ=255)
                                                                                                                aCGGTGGTGAATAATGCCGCTTTCGGCCAATCAGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCTACCTCCCCGAGTCCCGAGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATc                             >  2:817/1‑149 (MQ=255)
                                                                                                                 cGGTGGTGAATAATGCCGCTTTCGGCCAATCAACATTAAACTGCTTTAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCg                            <  1:133885/149‑1 (MQ=255)
                                                                                                                      gtgAATAATGCCTCTTTCGGCCAATCCGGATTAAGCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTTTGTTGCTGTTGTAAATCGCCATa                       <  2:67988/149‑1 (MQ=255)
                                                                                                                        gAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCCCCATCAGGCATTTTTCTTTATGCTGCTGTTTTAAATCGCCATACa                     >  2:593498/1‑149 (MQ=255)
                                                                                                                             atGACGCTTTCGTCCCAGCCTTATTAATCGCCGGCAATTCGGCTCGAGCAGACTCATATTGCGCTACCTTCCCGAGTCTCTCGGACGCCAGCGTCGCCACCATCAGGCATTTTTCTTTCTGCTCCTGTTGTAAATCGCCATACAGCGac                <  2:228529/149‑1 (MQ=255)
                                                                                                                             aggCCTCTTTCGGCCAATCCGTATTAATCGCCGTCAATTCAGCGCGCGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGac                <  2:217688/147‑1 (MQ=255)
                                                                                                                              tGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAACTCGCCATACAGCGaca               >  1:153676/1‑149 (MQ=255)
                                                                                                                                ccGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCCCACATGTGCTGGGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGacaac             <  1:684561/149‑1 (MQ=255)
                                                                                                                                 cGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCGATCCAGCGacacca            >  1:191933/1‑149 (MQ=255)
                                                                                                                                  gCTTTCGGCCAATCCGGATTGATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCCTACAGCGAcaacaa           <  1:350652/149‑1 (MQ=255)
                                                                                                                                      tccgCCAATCCGGATTATTCTCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATCTTGCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCa       <  1:141824/146‑1 (MQ=255)
                                                                                                                                         gCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCAGGt    >  1:579029/1‑149 (MQ=255)
                                                                                                                                           cAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAGGTCAGGTTg  >  1:487805/1‑149 (MQ=255)
                                                                                                                                              |                                                                                                                                                 
GTTTTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAGCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCAGGTTG  >  NC_000913_3_hsa_tpiA/2679383‑2679670

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A