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
A13 F191 I0 R1 49 68.0 1456600 97.2% 1415815 140.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,744,454 C→T 100% G73D (GGC→GAC)  apt ← adenine phosphoribosyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,744,4540CT100.0% 155.3 / ‑6.5 56G73D (GGC→GAC) aptadenine phosphoribosyltransferase
Reads supporting (aligned to +/- strand):  ref base C (1/0);  new base T (27/28);  total (28/28)
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.

ATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCATATGCTTCACCATTAT  >  CP000730/1744318‑1744589
                                                                                                                                        |                                                                                                                                       
atcTGTAATTCACACACGTGGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCaa                                                                                                                                      <  2:343770/140‑1 (MQ=255)
atcTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCaa                                                                                                                                      <  1:670241/140‑1 (MQ=255)
 tcTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTTTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAAt                                                                                                                                     >  2:338282/1‑140 (MQ=255)
 tcTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAAt                                                                                                                                     >  1:676221/1‑140 (MQ=255)
    gTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTAGAAAGTCAAAccc                                                                                                                                  >  1:194634/1‑140 (MQ=255)
      caTTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGGATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCa                                                                                                                                <  2:646712/139‑1 (MQ=255)
       aTTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCATTTGGTGTTTTCTTTTCTTTTTTAACTGTTGCTAATTCAATCTCCAt                                                                                                                               >  1:10363/1‑140 (MQ=255)
           acccacGTTGACCTGGTTTAATTGCATCTTTGTGCATCGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGaa                                                                                                                           <  1:87809/137‑1 (MQ=255)
            cacacGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCTTAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCACAACCAATccccctggact                                                                                                                          >  2:392731/1‑133 (MQ=255)
                cGTTGACCTGGTTTAATTGCATGTTTGTTGATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGc                                                                                                                      <  1:86852/140‑1 (MQ=255)
                   tGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTAc                                                                                                                   <  1:448119/140‑1 (MQ=255)
                     aCCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAg                                                                                                                 <  1:650341/140‑1 (MQ=255)
                        tGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGAc                                                                                                              <  2:647825/140‑1 (MQ=255)
                         ggTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGGGCAAAGTCAATCCCCATTGAATAAGCTACAGGACa                                                                                                             <  1:301428/140‑1 (MQ=255)
                            ttAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGcc                                                                                                          <  1:624105/140‑1 (MQ=255)
                                ttGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATg                                                                                                      >  1:269869/1‑140 (MQ=255)
                                    aTCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACTGGTGTACAGTCAATCCCCATCGAATAAGCTACAGGACAGCCACTGATaa                                                                                                  >  2:717647/1‑140 (MQ=255)
                                      cTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAg                                                                                                >  2:249035/1‑140 (MQ=255)
                                        ttGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGcc                                                                                              <  2:676221/140‑1 (MQ=255)
                                          gtgCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCAc                                                                                            <  2:16544/140‑1 (MQ=255)
                                           tgCATTGTTAAAACATTTGTACCATATTCTAGGTGATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCAATTGAATAAGCTACAGGACAGCCAATGATAAAGCCAcg                                                                                           >  2:308217/1‑140 (MQ=255)
                                                 gTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTc                                                                                     <  1:146024/140‑1 (MQ=255)
                                                      aaCATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCCCGCGCtcccgttc                                                                                >  1:300373/1‑133 (MQ=255)
                                                        cATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAAACCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCt                                                                              >  2:64183/1‑140 (MQ=255)
                                                              tACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACg                                                                        >  2:491389/1‑140 (MQ=255)
                                                                       cTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACa                                                               <  1:45456/140‑1 (MQ=255)
                                                                       cTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACa                                                               >  2:266561/1‑140 (MQ=255)
                                                                           gTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCCCGCGCTTCAGGTCCTACAACGATATCAACAtctc                                                           >  1:211866/1‑140 (MQ=255)
                                                                            tCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATctct                                                          <  1:249035/140‑1 (MQ=255)
                                                                                aCTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCt                                                      >  2:264366/1‑140 (MQ=255)
                                                                                   cATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCCCTGTCtttt                                                   >  1:703943/1‑140 (MQ=255)
                                                                                    aTAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTg                                                  <  1:176698/140‑1 (MQ=255)
                                                                                    aTAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTg                                                  <  1:334679/140‑1 (MQ=255)
                                                                                      aaCGAATGACTTCACGAGGTAATTTCCCTTCTTTTTTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCg                                                <  1:120662/140‑1 (MQ=255)
                                                                                       aCGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATAATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTCCGt                                               >  1:57393/1‑140 (MQ=255)
                                                                                        cGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTa                                              <  2:544848/140‑1 (MQ=255)
                                                                                             gACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTa                                         <  2:455108/140‑1 (MQ=255)
                                                                                               cTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACa                                       >  2:554356/1‑140 (MQ=255)
                                                                                               cTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACCCGCTTCAGGTCATACACCGATATCAACATCTCTGTCTTTTCCGTATCCTCCa                                       >  2:58558/1‑140 (MQ=255)
                                                                                                ttCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGGCGGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTGTTTTGCGTATTCTACaa                                      >  2:578289/1‑140 (MQ=255)
                                                                                                  cACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATCCTACAAtt                                    >  1:592497/1‑140 (MQ=255)
                                                                                                  cACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGAACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAAtt                                    <  2:712436/140‑1 (MQ=255)
                                                                                                     gcggcaaTTTCGCGTCTTTTCTCGCAGGTGCACAGTGAATCCCCATCAAATAAGCTACCGGACAGCCAATGATAAACCCACGCGCTCCCGGTCCTACACCGAGCTCAACTTCTCTGTCTTTTGCGTATTCTTCAATTTTa                                 <  2:167629/135‑1 (MQ=255)
                                                                                                        gTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTGTCt                              <  1:696543/140‑1 (MQ=255)
                                                                                                            tttCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTg                          <  2:602817/140‑1 (MQ=255)
                                                                                                             ttCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCCACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCCCTGTCTTTTGCGTATTCTACaaatccacctgttcc                         >  2:470448/1‑127 (MQ=255)
                                                                                                             ttCCCTTCTTTTCTAACAGGGGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGc                         >  2:366485/1‑140 (MQ=255)
                                                                                                                    cttTTCTTACAGGTGCAAAGTCAATCCCCATTTAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCa                  <  2:208648/140‑1 (MQ=255)
                                                                                                                     ttttCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCat                 <  2:505157/140‑1 (MQ=255)
                                                                                                                       ttCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCatat               >  2:93654/1‑140 (MQ=255)
                                                                                                                          tAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCCTCAAATTTATCTGTTGCATTGCAATATTCt            >  1:2705/1‑140 (MQ=255)
                                                                                                                           aaCAGGTGCAAAGTCAATCCCCATTGAATAAGATACAGGACAGCCAATGATAAAGCCACGCGGTTCAGGTCCTACAACGATATCAACAGCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCATATGCtt           >  1:521656/1‑140 (MQ=255)
                                                                                                                            aCAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCATATGCTTc          <  1:337912/140‑1 (MQ=255)
                                                                                                                             cAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCATATGCTTCa         <  2:269869/140‑1 (MQ=255)
                                                                                                                               ggTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCATATGCTTCAcc       >  2:713668/1‑140 (MQ=255)
                                                                                                                                    aaaGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCGTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCATATACTTCACCATTAt  >  2:342639/1‑140 (MQ=255)
                                                                                                                                        |                                                                                                                                       
ATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCATATGCTTCACCATTAT  >  CP000730/1744318‑1744589

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A