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 F28 I1 R1 128 54.7 1845674 99.3% 1832754 139.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,279,113 G→C G212A (GGT→GCT)  ghxP → guanine/hypoxanthine transporter GhxP

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,279,1130GC100.0% 199.7 / NA 54G212A (GGT→GCT) ghxPguanine/hypoxanthine transporter GhxP
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base C (22/32);  total (22/32)

AACCCGCTTGATGGTCTGCCCGTTGCGCTGGGTGATTTCGCGACCTTCCCGGTGATTATGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGGTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGCAGCCTGGACATTATGGGCGCGCTGAATCCTG  >  NC_000913/4278977‑4279244
                                                                                                                                        |                                                                                                                                     
aaCCCGCTTGATGGTCTGCCCGTTGCGCTGGGTGATTTCGCGACCTTCCCGGTGATTATGTCACTGGTAGGTCTGGCGGTGGTCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTAt                                                                                                                                    <  1:87829/140‑1 (MQ=255)
      cTTGATGGTCTGCCCGTTGCGCTGGGTGATTTCGCGACCTTCCCGGTGATTATGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAAt                                                                                                                              >  1:133092/1‑140 (MQ=255)
        tGATGGTCTGCCCGTTGCGCTGGGTGATTTCGCGACCTTCCCGGTGATTATGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTg                                                                                                                            <  2:764414/140‑1 (MQ=255)
        tGATGGTCTGCCCGTTGCGCTGGGTGATTTCGCGACCTTCCCGGTGATTATGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTg                                                                                                                            <  2:66593/140‑1 (MQ=255)
              tCTGCCCGTTGCGCTGGGTGATTTCGCGACCTTCCCGGTGATTATGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGtt                                                                                                                      <  2:876933/140‑1 (MQ=255)
                tGCCCGTTGCGCTGGGTGATTTCGCGACCTTCCCGGTGATTATGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTg                                                                                                                    >  1:165843/1‑140 (MQ=255)
                tGCCCGTTGCGCTGGGTGATTTCGCGACCTTCCCGGTGATTATGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTg                                                                                                                    <  1:3661/140‑1 (MQ=255)
                       tGCGCTGGGTGATTTCGCGACCTTCCCGGTGATTATGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCg                                                                                                             >  2:4921/1‑140 (MQ=255)
                          gcTGGGTGATTTCGCGACCTTCCCGGTGATTATGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATc                                                                                                          <  1:574813/140‑1 (MQ=255)
                            tGGGTGATTTCGCGACCTTCCCGGTGATTATGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCt                                                                                                        >  2:858926/1‑140 (MQ=255)
                                           ccTTCCCGGCGATTATGTCGCTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGCAAGTCCCTGGTGGCATTCTTCTGACCATTATCGCTATCTCAATTGTCGGTTTTATTTTCCATCCTAA‑‑CGTCCCTTTCTcc                                                                                       >  2:887049/1‑140 (MQ=255)
                                            cTTCCCGGTGATTATGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCg                                                                                      <  2:535873/140‑1 (MQ=255)
                                                 cGGTGATTATGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGtt                                                                                 <  1:252373/140‑1 (MQ=255)
                                                      aTTATGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGc                                                                            >  1:879111/1‑140 (MQ=255)
                                                        tATGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAACGCGTCCATTTCTCCGGCGTTTTCGc                                                                            <  2:348457/140‑1 (MQ=255)
                                                        tATGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCa                                                                          <  2:552271/140‑1 (MQ=255)
                                                        tATGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCa                                                                          <  2:471851/140‑1 (MQ=255)
                                                         aTGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCAt                                                                         >  1:339517/1‑140 (MQ=255)
                                                           gTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGc                                                                       >  1:369990/1‑140 (MQ=255)
                                                           gTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGc                                                                       <  2:11649/140‑1 (MQ=255)
                                                            tCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGcc                                                                      <  2:226333/140‑1 (MQ=255)
                                                                tGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCa                                                                  >  2:436654/1‑140 (MQ=255)
                                                                tGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCa                                                                  >  2:401249/1‑140 (MQ=255)
                                                                     ggTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGcc                                                                           <  2:7652/126‑1 (MQ=255)
                                                                     ggTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGcc                                                                           >  1:7652/1‑126 (MQ=255)
                                                                      gTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGc                                                            >  2:227549/1‑140 (MQ=255)
                                                                          ggCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCAtt                                                                >  1:608854/1‑132 (MQ=255)
                                                                          ggCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCAtt                                                                <  2:608854/132‑1 (MQ=255)
                                                                          ggCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATg                                                        >  2:804266/1‑140 (MQ=255)
                                                                            cGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGaa                                                      >  1:492675/1‑140 (MQ=255)
                                                                                 atcatcGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACgg                                                 >  1:749588/1‑140 (MQ=255)
                                                                                     tcGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAAt                                             >  1:253482/1‑140 (MQ=255)
                                                                                      cGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAAtt                                            <  1:4921/140‑1 (MQ=255)
                                                                                      cGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAAtt                                            <  1:876086/140‑1 (MQ=255)
                                                                                         ccTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCAc                                         >  1:355673/1‑140 (MQ=255)
                                                                                           tGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTg                                       >  1:885240/1‑140 (MQ=255)
                                                                                           tGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTg                                       >  1:770889/1‑140 (MQ=255)
                                                                                             gAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGAt                                     >  2:735391/1‑140 (MQ=255)
                                                                                               aaaaCTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTg                                   <  2:770889/140‑1 (MQ=255)
                                                                                                 aaCTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGc                                 <  2:33986/140‑1 (MQ=255)
                                                                                                    tGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGCAGc                              <  1:478698/140‑1 (MQ=255)
                                                                                                    tGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGCAGc                              <  1:369710/140‑1 (MQ=255)
                                                                                                     gAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGCAGcc                             <  1:121264/140‑1 (MQ=255)
                                                                                                       aaGTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGCAGCCTg                           <  1:713280/140‑1 (MQ=255)
                                                                                                         gTCCCTGGTGGCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGCAGCCTGGa                         <  2:369990/140‑1 (MQ=255)
                                                                                                                  ggCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGCAGCCTGGACATTATggg                <  1:227549/140‑1 (MQ=255)
                                                                                                                   gCATTCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGCAGCCTGGACATTATGGgc               <  2:339517/140‑1 (MQ=255)
                                                                                                                      ttCTGCTGACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGCAGCCTGGACATTATGGgcgcg            >  1:111201/1‑140 (MQ=255)
                                                                                                                        ctgctgACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGCAGCCTGGACATTATGGGCGCGCt          <  2:492675/140‑1 (MQ=255)
                                                                                                                        ctgctgACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGCAGCCTGGACATTATGGGCGCGCt          <  1:858926/140‑1 (MQ=255)
                                                                                                                        ctgctgACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGCAGCCTGGACATTATGGGCGCGCt          <  1:213821/140‑1 (MQ=255)
                                                                                                                             gACCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGCAGCCTGGACATTATGGGCGCGCTGAATc     <  1:804266/140‑1 (MQ=255)
                                                                                                                              aCCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGCAGCCTGGACATTATGGGCGCGCTGaa       <  1:676143/137‑1 (MQ=255)
                                                                                                                              aCCATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGCAGCCTGGACATTATGGGCGCGCTGaa       >  2:676143/1‑137 (MQ=255)
                                                                                                                                cATTATCGCTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGCAGCCTGGACATTATGGGCGCGCTGAATCCTg  <  2:39435/140‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                     
AACCCGCTTGATGGTCTGCCCGTTGCGCTGGGTGATTTCGCGACCTTCCCGGTGATTATGTCACTGGTAGGTCTGGCGGTGATCATCGGCCTGGAAAAACTGAAAGTCCCTGGTGGCATTCTGCTGACCATTATCGGTATCTCAATTGTCGGTTTGATCTTCGATCCTAA‑‑CGTCCATTTCTCCGGCGTTTTCGCCATGCCTTCATTGAGCGATGAAAACGGCAATTCACTGATTGGCAGCCTGGACATTATGGGCGCGCTGAATCCTG  >  NC_000913/4278977‑4279244

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A