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
A6 F1 I2 R1 67 27.9 1239648 95.3% 1181384 112.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,980,232 C→T R135H (CGC→CAC)  ygeA ← Asp/Glu_racemase family protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,980,2320CT100.0% 69.6 / NA 21R135H (CGC→CAC) ygeAAsp/Glu_racemase family protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (12/9);  total (12/9)

TAAGCGCGTGACGCTTCGGTAAATTGCCCCAGACACAGTTCTTCAAAAATAATCTGATTAATTTTCGCCCGTTCATCCGCTTCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGCGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGACTCAAT  >  NC_000913/2980106‑2980359
                                                                                                                              |                                                                                                                               
tAAGCGCGTGACGCTTCGGTAAATTGCCCCAGACACAGTTCTTCAAAAATAATCTGATTAATTTTCGCCCGTTCATCCGCTTCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCt                                                                                                                     >  2:523189/1‑139 (MQ=255)
   gcgcGTGACGCTTCGGTAAATTGCCCCAGACACAGTTCTTCAAAAATAATCTGATTAATTTTCGCCCGTTCATCCGCTTCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGtt                                                                                                                  <  2:307420/139‑1 (MQ=255)
            gCTTCGGTAAATTGCCCCAGACACAGTTCTTCAAAAATAATCTGATTAATTTTCGCCCGTTCATCCGCTTCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGTTCCATGgtgt                                                                                                         <  1:44718/139‑1 (MQ=255)
                          ccccAGACACAGTTCTTCAAAAATAATCTGATTAATTTTCGCCCGTTCATCCGCTTCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGtt                                                                                                                  <  2:458816/116‑1 (MQ=255)
                          ccccAGACACAGTTCTTCAAAAATAATCTGATTAATTTTCGCCCGTTCATCCGCTTCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGtt                                                                                                                  >  1:458816/1‑116 (MQ=255)
                                    aGTTCTTCAAAAATAATCTGATTAATTTTCGCCCGTTCATCCGCTTCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCacac                                                                                 >  1:254802/1‑139 (MQ=255)
                                    aGTTCTTCAAAAATAATCTGATTAATTTTCGCCCGTTCATCCGCTTCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCacac                                                                                 >  2:207065/1‑139 (MQ=255)
                                    aGTTCTTCAAAAATAATCTGATTAATTTTCGCCCGTTCATCCGCTTCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCacac                                                                                 >  1:183216/1‑139 (MQ=255)
                                         ttcAAAAATAATCTGATTAATTTTCGCCCGTTCATCCGCTTCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCACACGAGTc                                                                            >  1:561333/1‑139 (MQ=255)
                                          tcAAAAATAATCTGATTAATTTTCGCCCGTTCATCCGCTTCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCa                                                                           >  1:493927/1‑139 (MQ=255)
                                          tcAAAAATAATCTGATTAATTTTCGCCCGTTCATCCGCTTCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCa                                                                           >  1:29854/1‑139 (MQ=255)
                                               aataatCTGATTAATTTTCGCCCGTTCATCCGCTTCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCg                                                                      <  2:29854/139‑1 (MQ=255)
                                                  aatCTGATTAATTTTCGCCCGTTCATCCGCTTCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCGGcc                                                                   <  1:523189/139‑1 (MQ=255)
                                                                          aTCCGCTTCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCGGCCCCGGTAATTGCACGTCCGGTGGCa                                           <  2:183216/139‑1 (MQ=255)
                                                                               cTTCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGc                                      <  2:254802/139‑1 (MQ=255)
                                                                                ttCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGCa                                     <  2:493927/139‑1 (MQ=255)
                                                                                ttCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGCa                                     >  2:119511/1‑139 (MQ=255)
                                                                                                ttGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCg                                                                      <  1:543329/90‑1 (MQ=255)
                                                                                                ttGATGGAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCg                                                                      >  2:543329/1‑90 (MQ=255)
                                                                                                     ggAAAATTGTTCCGTCAGCCGCCCGTGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTg                >  1:537073/1‑139 (MQ=255)
                                                                                                                   tCAGCCGCCCGTGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGACTCAAt  >  2:587572/1‑139 (MQ=255)
                                                                                                                              |                                                                                                                               
TAAGCGCGTGACGCTTCGGTAAATTGCCCCAGACACAGTTCTTCAAAAATAATCTGATTAATTTTCGCCCGTTCATCCGCTTCAGGAATAAGACAATTGATGGAAAATTGTTCCGTCAGCCGCCCGCGATAAAAATCCTGTTCCATGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGACTCAAT  >  NC_000913/2980106‑2980359

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ 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