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 F28 I2 R1 330 0.0 2544031 91.9% 2337964 62.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA W3110S.gb 1,275,296 A→G intergenic (‑120/‑206) ychN ← / → ychP conserved hypothetical protein/predicted invasin

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb1,275,2960AG100.0% 213.5 / NA 57intergenic (‑120/‑206)ychN/ychPconserved hypothetical protein/predicted invasin
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (18/39);  total (18/39)

GCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAAGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTT  >  W3110S.gb/1275234‑1275333
                                                              |                                     
gCGTCTGACCAATCGGTCACATTTTTTAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:1023997/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:643912/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:782517/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:176666/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:2432736/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:1847150/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:762022/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:684158/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:1945504/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:346870/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:245604/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:2136897/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:2284966/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:1015540/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:2241010/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:495060/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:2284496/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:1556345/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:1372427/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:1369540/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:814071/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:876256/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:1261284/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:1195207/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:944120/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:966688/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:1063828/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:1049731/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:1031033/65‑1 (MQ=255)
gCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:1017751/65‑1 (MQ=255)
 cGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGt                                     <  1:1046804/64‑1 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTg                                   >  1:1784326/1‑46 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTc                   >  1:506381/1‑62 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCt                  >  1:390752/1‑63 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCt                  >  1:679496/1‑63 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCt                  >  1:2212985/1‑63 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCt                  >  1:325443/1‑63 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCt                  >  1:791851/1‑63 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCt                  >  1:282322/1‑63 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCt                  >  1:2505259/1‑63 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCt                  >  1:1118540/1‑63 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCt                  >  1:1310546/1‑63 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCt                  >  1:1731607/1‑63 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCt                  >  1:1859919/1‑63 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCt                  >  1:1905118/1‑63 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCt                  >  1:2074204/1‑63 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCt                  >  1:2143357/1‑63 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCt                  >  1:2267230/1‑63 (MQ=255)
                     tttttAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCt                  >  1:2543900/1‑63 (MQ=255)
                                    cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt  <  1:2053333/64‑1 (MQ=255)
                                    cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt  <  1:2323924/64‑1 (MQ=255)
                                    cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt  <  1:1765632/64‑1 (MQ=255)
                                    cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt  <  1:2376142/64‑1 (MQ=255)
                                    cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt  <  1:2449375/64‑1 (MQ=255)
                                    cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt  <  1:1309115/64‑1 (MQ=255)
                                    cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt  <  1:1088653/64‑1 (MQ=255)
                                    cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt  <  1:992888/64‑1 (MQ=255)
                                                              |                                     
GCGTCTGACCAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAAGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTT  >  W3110S.gb/1275234‑1275333

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A