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
A1 F1 I2 R1 730 35.1 2107516 91.4% 1926269 80.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,314,620 T→C V465V (GTA→GTG)  infB ← translation initiation factor IF‑2

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,314,6200TC100.0% 159.6 / NA 46V465V (GTA→GTG) infBtranslation initiation factor IF‑2
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (20/26);  total (20/26)

TACCTGCGCCGCTTTCGCGTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACTACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTCCAGGAAG  >  NC_000913/3314542‑3314692
                                                                              |                                                                        
tACCTGCGCCGCTTTCGCGTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCAc                                                                        <  1:622913/81‑1 (MQ=255)
   cTGCGCCGCTTTCGCGTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGAt                                                                     <  2:622914/81‑1 (MQ=255)
      cgccgcTTTCGCGTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTc                                                                  <  1:622915/81‑1 (MQ=255)
       gccgcTTTCGCGTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTcc                                                                 <  1:622916/81‑1 (MQ=255)
          gcTTTCGCGTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGtt                                                              >  1:622981/1‑81 (MQ=255)
             ttCGCGTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGcc                                                           >  2:622973/1‑81 (MQ=255)
                gcgTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTgc                                                        <  2:622917/81‑1 (MQ=255)
                  gTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTgcg                                                       >  2:622993/1‑80 (MQ=255)
                  gTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTgcg                                                       >  1:622966/1‑80 (MQ=255)
                   tGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGca                                                     >  1:622967/1‑81 (MQ=255)
                    gCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGcac                                                    >  1:622976/1‑81 (MQ=255)
                        gATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGcaccac                                                 <  1:622919/80‑1 (MQ=255)
                        gATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGcaccac                                                 <  2:622921/80‑1 (MQ=255)
                        gATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGcaccac                                                 <  2:622920/80‑1 (MQ=255)
                        gATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGcaccac                                                 <  1:622918/80‑1 (MQ=255)
                                cGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGc                                         <  2:622922/80‑1 (MQ=255)
                                 gATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCAt                                       >  2:622989/1‑81 (MQ=255)
                                    ggTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTg                                     >  1:622983/1‑80 (MQ=255)
                                      tCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAg                                  >  2:622978/1‑81 (MQ=255)
                                         gCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTa                                >  1:622979/1‑80 (MQ=255)
                                          cGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGt                                 <  2:622923/78‑1 (MQ=255)
                                          cGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTaaa                              <  2:622924/81‑1 (MQ=255)
                                          cGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTaa                               <  2:622926/80‑1 (MQ=255)
                                          cGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTa                                <  1:622925/79‑1 (MQ=255)
                                           ggCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAAc                             <  2:622927/81‑1 (MQ=255)
                                             cATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAAcgc                           >  2:622988/1‑81 (MQ=255)
                                               tCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACgcgg                         >  2:623000/1‑81 (MQ=255)
                                                 acacCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACgcggcg                       >  1:623034/1‑81 (MQ=255)
                                                 acacCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACgcggcg                       <  2:622928/81‑1 (MQ=255)
                                                 acacCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACgcggc                        <  1:622929/80‑1 (MQ=255)
                                                   acCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTg                     <  1:622930/81‑1 (MQ=255)
                                                    ccGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGc                    <  1:622931/81‑1 (MQ=255)
                                                     cgtcgtCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGcc                   <  2:622932/81‑1 (MQ=255)
                                                     cgtcgtCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGcc                   >  1:622984/1‑81 (MQ=255)
                                                      gtcgtcGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGccc                  >  2:622977/1‑81 (MQ=255)
                                                      gtcgtcGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGccc                  <  1:622933/81‑1 (MQ=255)
                                                         gtcgGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCgg               >  2:622975/1‑81 (MQ=255)
                                                              cagcaACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGgtgt          >  1:622991/1‑81 (MQ=255)
                                                              cagcaACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGgtgt          >  1:622990/1‑81 (MQ=255)
                                                                 caacaaCCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTCCa       <  2:622934/81‑1 (MQ=255)
                                                                  aacaacCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTCCAg      >  1:622994/1‑81 (MQ=255)
                                                                   acaacCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTCCAgg     <  2:622935/81‑1 (MQ=255)
                                                                   acaacCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTCCAgg     <  1:622936/81‑1 (MQ=255)
                                                                    caacCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTCCAGGa    <  1:622937/81‑1 (MQ=255)
                                                                     aacCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTCCAGGaa   <  2:622938/81‑1 (MQ=255)
                                                                      acCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTCCAGGAAg  >  2:622980/1‑81 (MQ=255)
                                                                              |                                                                        
TACCTGCGCCGCTTTCGCGTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACTACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTCCAGGAAG  >  NC_000913/3314542‑3314692

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A