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 I2 R1 766 55.6 2631458 94.7% 2491990 109.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,210,944 G→A pseudogene (1845/2001 nt) yehQ → pseudogene

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,210,9440GA100.0% 168.9 / NA 53pseudogene (1845/2001 nt)yehQpseudogene
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (28/25);  total (28/25)

TGCCAGCGTTTTGCCTGTGCCGTCTACTGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAGTTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGAATAACGGTGTTTTGCTTTGCGAACAATTATTCC  >  NC_000913/2210821‑2211077
                                                                                                                           |                                                                                                                                     
tGCCAGCGTTTTGCCTGTGCCGTCTACTGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGAc                                                                                                                        >  2:1090771/1‑139 (MQ=255)
    aGCGTTTTGCCTGTGCCGTCTACTGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCa                                                                                                                    <  1:1090771/139‑1 (MQ=255)
      cGTTTTGCCTGTGCCGTCTACTGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTgg                                                                                                                                >  1:551646/1‑125 (MQ=255)
      cGTTTTGCCTGTGCCGTCTACTGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTgg                                                                                                                                <  2:551646/125‑1 (MQ=255)
      cGTTTTGCCTGTGCCGTCTACTGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCAcc                                                                                                                  >  2:559647/1‑139 (MQ=255)
         tttGCCTGTGCCGTCTACTGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACcgcg                                                                                                               <  1:374984/139‑1 (MQ=255)
                  gCCGTCTACTGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGtttt                                                                                                      >  2:231030/1‑139 (MQ=255)
                         aCTGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGc                                                                                               <  2:560132/139‑1 (MQ=255)
                             cTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGc                                                                                           >  2:1164014/1‑139 (MQ=255)
                                        cTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTgg                                                                                <  2:211990/139‑1 (MQ=255)
                                             aCGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCg                                                                                                 <  1:586212/117‑1 (MQ=255)
                                             aCGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCg                                                                                                 >  2:586212/1‑117 (MQ=255)
                                                cTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAAttt                                                                        >  1:114334/1‑139 (MQ=255)
                                                    cAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTa                                                                    <  1:559647/139‑1 (MQ=255)
                                                             cTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGc                                                                                               <  2:414783/103‑1 (MQ=255)
                                                             cTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGc                                                                                               >  1:414783/1‑103 (MQ=255)
                                                             cTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGaaa                                                           >  1:582676/1‑139 (MQ=255)
                                                                   cAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCt                                                                                                                                  <  1:943486/62‑1 (MQ=255)
                                                                   cAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCt                                                                                                                                  >  2:943486/1‑62 (MQ=255)
                                                                       tGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCgg                                                                                                              >  2:903424/1‑78 (MQ=255)
                                                                       tGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCgg                                                                                                              <  1:903424/78‑1 (MQ=255)
                                                                       tGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCa                                                   >  2:745157/1‑137 (MQ=255)
                                                                       tGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCa                                                   <  1:745157/137‑1 (MQ=255)
                                                                        gCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCg                                                                                                 >  2:108455/1‑90 (MQ=255)
                                                                        gCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCg                                                                                                 <  1:108455/90‑1 (MQ=255)
                                                                        gCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACgg                                                >  2:1138991/1‑139 (MQ=255)
                                                                          tCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGt                                              >  2:534245/1‑139 (MQ=255)
                                                                                aCGGCTGGCGCTATCAGGATCAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGc                                        <  1:1138991/139‑1 (MQ=255)
                                                                                 cGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCa                                       <  2:582676/139‑1 (MQ=255)
                                                                                      ggCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGcaca                                                                                        >  2:407687/1‑85 (MQ=255)
                                                                                      ggCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGcaca                                                                                        <  1:407687/85‑1 (MQ=255)
                                                                                      ggCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGc                                                    >  1:304642/1‑121 (MQ=255)
                                                                                      ggCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGc                                                    <  2:304642/121‑1 (MQ=255)
                                                                                      ggCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCa                                       >  2:675297/1‑134 (MQ=255)
                                                                                      ggCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCa                                       <  1:675297/134‑1 (MQ=255)
                                                                                       gcgcTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGAAt                                 >  1:70341/1‑139 (MQ=255)
                                                                                                  aaCAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGAATAACGGTGtttt                      >  2:813823/1‑139 (MQ=255)
                                                                                                       agTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAg                                                          <  1:17589/98‑1 (MQ=255)
                                                                                                       agTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGGAGCAATGAATAACGGTGTtttgcttt                 >  1:1109436/1‑139 (MQ=255)
                                                                                                       agTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGCTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAg                                                          >  2:17589/1‑98 (MQ=255)
                                                                                                           cTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGc                                                    >  2:1095238/1‑100 (MQ=255)
                                                                                                           cTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGc                                                    <  1:1095238/100‑1 (MQ=255)
                                                                                                           cTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGAATAACGGTGTTTTGCTTTGCGa             >  1:332593/1‑139 (MQ=255)
                                                                                                           cTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGAATAACGGTGTTTTGCTTTGCGa             <  1:231030/139‑1 (MQ=255)
                                                                                                            tATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGAATAACGGTGTTTTGCTTTGCGaa            <  1:1164014/139‑1 (MQ=255)
                                                                                                                 gTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAAt                                                                  <  1:1043962/80‑1 (MQ=255)
                                                                                                                 gTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAAt                                                                  >  2:1043962/1‑80 (MQ=255)
                                                                                                                 gTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCAAGGCACGGGTAGAAGCAATGAATAACGGTGTTTTGTTTTGCGAAAAatt       >  2:721720/1‑139 (MQ=255)
                                                                                                                     ggCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCa                                       <  2:723410/103‑1 (MQ=255)
                                                                                                                     ggCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCa                                       >  1:723410/1‑103 (MQ=255)
                                                                                                                      gCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGAATAACGGTGTTTTGCTTTGCg              <  2:64030/127‑1 (MQ=255)
                                                                                                                      gCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGAATAACGGTGTTTTGCTTTGCg              >  1:64030/1‑127 (MQ=255)
                                                                                                                      gCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGAATAACGGTGTTTTGCTTTGCGAACAATTATTcc  <  2:70341/139‑1 (MQ=255)
                                                                                                                           |                                                                                                                                     
TGCCAGCGTTTTGCCTGTGCCGTCTACTGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAGTTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGAATAACGGTGTTTTGCTTTGCGAACAATTATTCC  >  NC_000913/2210821‑2211077

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: ‑

GATK/CNVnator alignment

N/A