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
A7 F50 I2 R1 209 44.2 1360995 98.7% 1343302 150.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,648,144 (T)7→8 intergenic (‑356/‑384) dinQ ← / → arsR UV‑inducible membrane toxin, DinQ‑AgrB type I toxin‑antitoxin system/arsenical resistance operon transcriptional repressor; autorepressor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,648,1371.T97.1% 132.3 / ‑2.7 34intergenic (‑349/‑391)dinQ/arsRUV‑inducible membrane toxin, DinQ‑AgrB type I toxin‑antitoxin system/arsenical resistance operon transcriptional repressor; autorepressor
Reads supporting (aligned to +/- strand):  ref base . (0/1);  new base T (19/14);  total (19/15)
Fisher's exact test for biased strand distribution p-value = 4.41e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.16e-01

TAATCATACAGTACATGCAGGTTATAAAACCAGCACGTCCTTGCAATAGTTTCAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGG‑TTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATA  >  NC_000913/3647987‑3648282
                                                                                                                                                       |                                                                                                                                                  
tAATCATACAGTACATGCAGGTTATAAAACCAGCACGTCCTTGCAATAGTTTCAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCgg                                                                                                                                                     >  2:137875/1‑151 (MQ=255)
 aaTCATACAGTACATGCAGGTTATAAAACCAGCACGTCCTTGCAATAGTTTCAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGG‑t                                                                                                                                                   <  2:510331/151‑1 (MQ=255)
   tCATACAGTACATGCAGGTTATAAAACCAGCACGTCCTTGCAATAGTTTCAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGG‑ttt                                                                                                                                                 >  2:325170/1‑151 (MQ=255)
         aGTACATGCAGGTTATAAAACCAGCACGTCCTTGCAATAGTTTCAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGG‑ttt‑ttttt                                                                                                                                           >  2:382620/1‑149 (MQ=255)
          gTACATGCAGGTTATAAAACCAGCACGTCCTTGCAATAGTTTCAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGG‑ttt‑tttttac                                                                                                                                         <  2:513145/151‑4 (MQ=255)
            aCATGCAGGTTATAAAACCAGCACGTCCTTGCAATAGTTTCAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGG‑ttt‑tttttacat                                                                                                                                       <  2:398711/151‑6 (MQ=255)
                  aGGTTATAAAACCAGCACGTCCTTGCAATAGTTTCAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGAt                                                                                                                                  <  1:224109/151‑1 (MQ=255)
                    gTTATAAAACCAGCACGTCCTTGCAATAGTTTCAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTc                                                                                                                                <  2:366279/151‑1 (MQ=255)
                     ttATAAAACCAGCACGTCCTTGCAATAGTTTCAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCg                                                                                                                               >  1:610074/1‑151 (MQ=255)
                       ataAAACCAGCACGTCCTTGCAATAGTTTCAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCgg                                                                                                                              >  1:497507/1‑150 (MQ=255)
                              cAGCACGTCCTTGCAATAGTTTCAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCt                                                                                                                      <  1:374901/151‑1 (MQ=255)
                                gCACGTCCTTGCAATAGTTTCAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTa                                                                                                                    <  2:226213/151‑1 (MQ=255)
                                       cTTGCAATAGTTTCAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGa                                                                                                              >  1:453093/1‑150 (MQ=255)
                                             aTAGTTTCAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGa                                                                                                        >  2:364845/1‑150 (MQ=255)
                                               aGTTTCAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGAccc                                                                                                     >  1:183948/1‑151 (MQ=255)
                                                    cAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGG‑TTTGTTTTACATCCGGCTTCGGACAAGGCTTAATATGCCAATGACCCAGTg                                                                                                 <  2:364679/150‑1 (MQ=255)
                                                     aGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGa                                                                                                >  2:352298/1‑150 (MQ=255)
                                                       tATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGaa                                                                                               >  2:28595/1‑149 (MQ=255)
                                                             aTTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGtatat                                                                                        >  1:338503/1‑150 (MQ=255)
                                                                         gCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTg                                                                            <  2:3089/150‑1 (MQ=255)
                                                                               gatgatGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGatata                                                                     <  1:630128/151‑1 (MQ=255)
                                                                               gatgatGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGatat                                                                      >  1:36678/1‑150 (MQ=255)
                                                                                   atgGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATAcc                                                                 >  1:632262/1‑151 (MQ=255)
                                                                                         aTCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAg                                                             <  2:235430/149‑1 (MQ=255)
                                                                                                      cAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGcc                                                >  1:548998/1‑149 (MQ=255)
                                                                                                        gagCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCt                                            <  1:648681/151‑1 (MQ=255)
                                                                                                              ccaACTCAGGGCTGGCAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGTCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGCCACTGCGCTATATACCGAAGTGCTACATCAGCCAGCTgaag                                        >  2:404554/1‑149 (MQ=37)
                                                                                                                 aCTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATc                                   <  1:510652/151‑1 (MQ=255)
                                                                                                                     aGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCt                                >  2:361636/1‑150 (MQ=255)
                                                                                                                                    aaaaCCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGtt                 >  2:666873/1‑150 (MQ=255)
                                                                                                                                      aaCCGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGc              >  2:530280/1‑151 (MQ=255)
                                                                                                                                         cGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCAc           >  2:581611/1‑151 (MQ=255)
                                                                                                                                         cGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCAc           <  1:247136/151‑1 (MQ=255)
                                                                                                                                         cGACGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCAc           >  1:652330/1‑151 (MQ=255)
                                                                                                                                           aCGCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTg         <  2:430409/151‑1 (MQ=255)
                                                                                                                                             gCAAAGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGc       <  2:670613/151‑1 (MQ=255)
                                                                                                                                               aaaGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCt      >  1:191938/1‑150 (MQ=255)
                                                                                                                                               aaaGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTa     <  1:427476/151‑1 (MQ=255)
                                                                                                                                                 aGTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAAt   >  2:417953/1‑151 (MQ=255)
                                                                                                                                                  gTCGGTTTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATa  <  2:70774/151‑1 (MQ=255)
                                                                                                                                                       |                                                                                                                                                  
TAATCATACAGTACATGCAGGTTATAAAACCAGCACGTCCTTGCAATAGTTTCAGTATGGTATTAGCATTGATGCGTTAGATGATGGCTATCTCACTCCAGTCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGG‑TTT‑TTTTACATCCGGATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATA  >  NC_000913/3647987‑3648282

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A