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
A19 F74 I1 R2 13 29.8 697290 91.1% 635231 133.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA CP000730 2,785,994 C→A intergenic (‑207/+217) aur ← / ← isaB M04 family aureolysin/immunodominant antigen B

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007302,785,9940CA100.0% 23.1 / NA 9intergenic (‑207/+217)aur/isaBM04 family aureolysin/immunodominant antigen B
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (7/2);  total (7/2)

TCTATACTTTTTGTTCGTTGATTTTATTTATTGATTCTTTTCTTTTTTAAAAATGTTATCTGTAGCTAAATAAAATTTTAAAAATTGAGCTTAATTATATTTTAAAATTTATCAAGGCTTTATTTTTGTGAAAATATTAACAAATACAAAATAGTGCTCTATATACTTAATCAATGCTTGAAATATGTGAGATAACTATTTAAATAATCATAATCAAATAAACATTTTTATCAATTTCAAACAACTATG  >  CP000730/2785877‑2786125
                                                                                                                     |                                                                                                                                   
tctatACTTTTTGTTTTTTTATTTTATTTATTGATTCTTTTCTTTTTTAAAAATGTTATCTGTAGCTAAATAAAATTTTAAAAATTGAGCTTAATTATATTTTAAAATTTATCAAGGATTTATTTTTTTTAAAATATTAAc                                                                                                              >  2:152512/1‑141 (MQ=255)
          ttGTTCGTTGATTTTATTTATTGATTCTTTTCTTTTTTAAAAATGTTATCTGTAGCTAAATAAAATTTTAAAAATTGAGCTTAATTATATTTTAAAATTTATCAAGGATTTATTTTTGTGAAAATATTAACAAATACaaaa                                                                                                    >  1:223699/1‑141 (MQ=255)
                                                   aaTGTTATCTGTAGCTAAATAAAATTTTAAAAATTGAGCTTAATTATATTTTAAAATTTATCAAGGATTTATTTTTGTGAAAATATTAACAAATACAAAATAGTGCTCTATATACTTAATCAATGCTTGAAATATGTgaga                                                           >  2:307146/1‑141 (MQ=255)
                                                   aaTGTTACCTGTAGCTAAATAAAATTTTAAAAATCGATCATAATTATATTTTAAAATTTATCAAGGATTTATTTTTGTGAAAATATTAACAAATACAAAATAGTGCTCTATATACTTAATCAATGCTTGAAATATGTgaga                                                           >  2:38062/1‑141 (MQ=255)
                                                                      taaaATTTTAAAAATTGAGCTTAATTATATTTTAAAATTTATCAAGGATTTATTTTTGTGAAAATATTAACAAATACaa                                                                                                      >  2:202975/1‑79 (MQ=255)
                                                                      taaaATTTTAAAAATTGAGCTTAATTATATTTTAAAATTTATCAAGGATTTATTTTTGTGAAAATATTAACAAATACaa                                                                                                      <  1:202975/79‑1 (MQ=255)
                                                                                           tAATTATATTTTAAAATTTATCAAGGATTTATTTTTGTGAAAATATTAACAAATACAAAATAGTGCTCTATATACTTAATCAATGCTTGAAATATGTGAGATAACTATTTAAATAATCATAATCAAATAAACATTTTTATc                   <  1:302480/141‑1 (MQ=255)
                                                                                                       aaaaTTTATCAAGGATTTATTTTTGTGAAAATATTAACAAATACAAAATAGTGCTCTATATACTTAATCAATGCTTGAAATATGTGAGATAACTATTTAAATAATCATAATCAAATAAACATTTTTATCAATTTCAaacaa       >  1:25773/1‑141 (MQ=255)
                                                                                                            ttATCAAGGATTTATTTTTGTGAAAATATTAACAAATACAAAATAGTGCTCTATATACTTAATCAATGCTTGAAATATGTGAGATAACTATTTAAATAATCATAATCAAATAAACATTTTTATCAATTTCAAACAACTATg  >  2:181719/1‑141 (MQ=255)
                                                                                                                     |                                                                                                                                   
TCTATACTTTTTGTTCGTTGATTTTATTTATTGATTCTTTTCTTTTTTAAAAATGTTATCTGTAGCTAAATAAAATTTTAAAAATTGAGCTTAATTATATTTTAAAATTTATCAAGGCTTTATTTTTGTGAAAATATTAACAAATACAAAATAGTGCTCTATATACTTAATCAATGCTTGAAATATGTGAGATAACTATTTAAATAATCATAATCAAATAAACATTTTTATCAATTTCAAACAACTATG  >  CP000730/2785877‑2786125

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A