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 I1 R1
|
354 |
41.7 |
3110465 |
93.1% |
2895842 |
61.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,855,181 |
(A)7→8 |
coding (513/1359 nt) |
ydjE ← |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,855,174 | 1 | . | A | 97.1%
| 108.0
/ ‑2.8
| 34 | coding (520/1359 nt) | ydjE | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base A (16/17); total (16/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGAGAGAAACCAGGCTAACAGTATGCCAATACCACCCAGCAGAAACATTATTCGCCAACT‑A‑AAAAAAGCGATAACCACCACGCCTATCGCCGCAGACAG > W3110S.gb/1855115‑1855213
|
tGAGAGAAACCAGGCTAACAGTATGCCAATACCACCCAGCAGAAACATTATTCGCCAACT‑a‑aaa > 1:2719668/1‑64 (MQ=255)
tGAGAGAAACCAGGCTAACAGTATGCCAATACCACCCAGCAGAAACATTATTCGCCAACT‑a‑aaa > 1:2425335/1‑64 (MQ=255)
tGAGAGAAACCAGGCTAACAGTATGCCAATACCACCCAGCAGAAACATTATTCGCCAACT‑a‑aaa > 1:882017/1‑64 (MQ=255)
tGAGAGAAACCAGGCTAACAGTATGCCAATACCACCCAGCAGAAACATTATTCGCCAACT‑a‑aaa > 1:592018/1‑64 (MQ=255)
tGAGAGAAACCAGGCTAACAGTATGCCAATACCACCCAGCAGAAACATTATTCGCCAACT‑a‑aaa > 1:1126980/1‑64 (MQ=255)
tGAGAGAAACCAGGCTAACAGTATGCCAATACCACCCAGCAGAAACATTATTCGCCAACT‑a‑aaa > 1:180514/1‑64 (MQ=255)
tGAGAGAAACCAGGCTAACAGTATGCCAATACCACCCAGCAGAAACATTATTCGCCAACT‑a‑aaa > 1:1624877/1‑64 (MQ=255)
tGAGAGAAACCAGGCTAACAGTATGCCAATACCACCCAGCAGAAACATTATTCGCCAACT‑a‑aaa > 1:1535539/1‑64 (MQ=255)
cAGGCTAACAGTATGCCAATACCACCCAGCAGAAAGATTATTCGCCAACTAA‑AAAAAAGCGATaa < 1:2353458/65‑1 (MQ=255)
cAGGCTAACAGTATGCCAATACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATaa < 1:2915885/65‑1 (MQ=255)
cAGGCTAACAGTATGCCAATACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATaa < 1:2298122/65‑1 (MQ=255)
cAGGCTAACAGTATGCCAATACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATaa < 1:2253195/65‑1 (MQ=255)
cAGGCTAACAGTATGCCAATACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATaa < 1:174282/65‑1 (MQ=255)
cAGGCTAACAGTATGCCAATACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATaa < 1:642100/65‑1 (MQ=255)
cAGGCTAACAGTATGCCAATACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATaa < 1:1235983/65‑1 (MQ=255)
aaTACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCAGGCCTATcgc > 1:1231960/1‑64 (MQ=255)
aaTACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATcgc > 1:796843/1‑64 (MQ=255)
aaTACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATcgc > 1:2912944/1‑64 (MQ=255)
aaTACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATcgc > 1:2660654/1‑64 (MQ=255)
aaTACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATcgc > 1:2595306/1‑64 (MQ=255)
aaTACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATcgc > 1:2451931/1‑64 (MQ=255)
aaTACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATcgc > 1:916280/1‑64 (MQ=255)
aaTACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATcgc > 1:1123674/1‑64 (MQ=255)
aaTACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATcgc > 1:814711/1‑64 (MQ=255)
aaTACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATcgc > 1:1301804/1‑64 (MQ=255)
aaTACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATcgc > 1:804404/1‑64 (MQ=255)
aaTACCACCCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATcgc > 1:1732199/1‑64 (MQ=255)
ccaccCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATCGCCGCAg < 1:552769/65‑1 (MQ=255)
ccaccCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATCGCCGCAg < 1:1019980/65‑1 (MQ=255)
ccaccCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATCGCCGCAg < 1:721901/65‑1 (MQ=255)
ccaccCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATCGCCGCAg < 1:936516/65‑1 (MQ=255)
ccaccCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATCGCCGCAg < 1:539184/65‑1 (MQ=255)
ccaccCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATCGCCGCAg < 1:2401952/65‑1 (MQ=255)
ccaccCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATCGCCGCAg < 1:1560015/65‑1 (MQ=255)
ccaccCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATCGCCGCAg < 1:153197/65‑1 (MQ=255)
ccaccCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATCGCCGCAg < 1:1054404/65‑1 (MQ=255)
ccaccCAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATCGCCGCAg < 1:1034844/65‑1 (MQ=255)
ccAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGAt > 1:152981/1‑38 (MQ=38)
ccAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATCGCCGCAGACAg > 1:2362451/1‑65 (MQ=255)
ccAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATCGCCGCAGACAg > 1:145092/1‑65 (MQ=255)
ccAGCAGAAACATTATTCGCCAACTAA‑AAAAAAGCGATAACCACCACGCCTATCGCCGCAGACAg > 1:1107885/1‑65 (MQ=255)
ccAACT‑ATAAAAAAGCGATAACCACCACGCCTATCGCCGCAg < 1:1169472/42‑1 (MQ=38)
|
TGAGAGAAACCAGGCTAACAGTATGCCAATACCACCCAGCAGAAACATTATTCGCCAACT‑A‑AAAAAAGCGATAACCACCACGCCTATCGCCGCAGACAG > W3110S.gb/1855115‑1855213
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
