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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
891,153 |
C→T |
39.0% |
R8H (CGT→CAT) |
grxA ← |
glutaredoxin 1, redox coenzyme for ribonucleotide reductase (RNR1a) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 891,153 | 0 | C | T | 39.0%
| 31.4
/ 42.5
| 41 | R8H (CGT→CAT) | grxA | glutaredoxin 1, redox coenzyme for ribonucleotide reductase (RNR1a) |
| Reads supporting (aligned to +/- strand): ref base C (11/14); new base T (9/7); total (20/21) |
| Fisher's exact test for biased strand distribution p-value = 5.30e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.38e-01 |
TCGCGTTCATTGCTCAATTTCTCAGCCAGATCTTTTGCACGCACACAGTAAGGGCAACCCGAACGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGCCTGTAATGATCACGCTAAAATG > W3110S.gb/891090‑891222
|
tcGCGTTCATTGCTCAATTTCTCAGCCAGATCTTTTGCACGCACACAGTAAGGGCAACCCGAACGACCaaa < 1:24328/71‑1 (MQ=255)
tCATTGCTCAATTTCTCAGCCAGATCTTTTGCACGCACACAGTAAGGGCAACCCGAATGACCAAAAATAAc > 1:4638300/1‑71 (MQ=255)
cATTGCTCAATTTCTCAGCCAGATCTTTTG‑‑CGCACACAGTAAGGGCAACCCGAACGACCAAAAATAACGGt > 1:4126924/1‑71 (MQ=255)
gCTCAATTTCTCAGCCAGATCTTTTGCACGCACACAGTAAGGGCAACCCGAATGACCAAAAATAACGGttt > 1:4986907/1‑71 (MQ=255)
cTCAATTTCTCAGCCAGATCTTTTGCACGCACACAGTAAGGGCAACCCGAATGACCAAAAATAACGGTTTg < 1:2463214/71‑1 (MQ=255)
cTCAATTTCTCAGCCAGATCTTTTGCACGCACACAGTAAGGGCAACCCGAACGACCAAAAATa > 1:2345411/1‑63 (MQ=255)
tctcAGCCAGATCTTTTGCACGCACACAGTAAGGGCAACCCGAATGACCAAAAATAACGGTTTGCattatt > 1:1060522/1‑71 (MQ=255)
tctcAGCCAGATCTTTTGCACGCACACAGTAAGGGCAACCCGAATGACCAAAAATAACGGTTTGCattatt > 1:4188044/1‑71 (MQ=255)
tctcAGCCAGATCTTTTGCACGCACACAGTAAGGGCAACCCGAATGACCAAAAATAACGGTTTGCattatt > 1:2893939/1‑71 (MQ=255)
tctcAGCCAGATCTTTTGCACGCACACAGTAAGGGCAACCCGAATGACCAAAAATAACGGTTTGCattat < 1:623430/70‑1 (MQ=255)
tctcAGCCAGATCTTTTGCACGCACACAGTAAGGGCAACCCGAACGACCAAAAATAACGGTTTGCattat < 1:3995511/70‑1 (MQ=255)
aGCCAGATCTTTTGCACGCACACAGTAAGGGCAACCCGAATGACCAAAAATAACGGTTTGCATTATTtctc < 1:1229288/71‑1 (MQ=255)
aGCCAGATCTTTTGCACGCACACAGTAAGGGCAACCCGAACGACCAAAAATAACGGTTTGCATTAttt < 1:2159699/68‑1 (MQ=255)
aGCCAGATCTTTTGCACGCACACAGTAAGGGCAACCCGAACGACCAAAAATAACGGTTTGCATTAttt < 1:4233395/68‑1 (MQ=255)
cAGATCTTTTGCACGCACACAGTAAGGGCAACCCGAACGACCAAAAATAACGGTTTGCATTATTTCTctcc > 1:1451639/1‑71 (MQ=255)
aTCTTTTGCACGCACACAGTAAGGGCAACCCGAACGACCAAAAATAACGGTTTGCATTATTtctctc < 1:1147775/67‑1 (MQ=255)
gcacgcacACAGTAAGGGCAACCCGAATGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGAtt < 1:1420551/70‑1 (MQ=255)
gcacgcacACAGTAAGGGCAACCCGAATGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGAtt < 1:254015/70‑1 (MQ=255)
acgcacACAGTAAGGGCAACCCGAATGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTAt < 1:798683/71‑1 (MQ=255)
acgcacACAGTAAGGGCAACCCGAACGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTAt < 1:1357226/71‑1 (MQ=255)
acgcacACAGTAAGGGCAACCCGAACAACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTAt < 1:535537/71‑1 (MQ=255)
gcacACAGTAAGGGCAACCCGAATGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGc > 1:2525965/1‑71 (MQ=255)
gcacACAGTAAGGGCAACCCGAACGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGc > 1:3604759/1‑71 (MQ=255)
gcacACAGTAAGGGCAACCCGAACGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGc > 1:2171876/1‑71 (MQ=255)
acaGTAAGGGCAACCCGAATGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGCCTg > 1:3164023/1‑70 (MQ=255)
acaGTAAGGGCAACCCGAACGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGCCTGt < 1:4173868/71‑1 (MQ=255)
aGTAAGGGCAACCCGAATGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGCCTGTaa > 1:4211103/1‑71 (MQ=255)
gTAAGGGCAACCCGAATGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGCCTGTAAt < 1:2341891/71‑1 (MQ=255)
gTAAGGGCAACCCGAACGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGCCTGTAAt < 1:2239555/71‑1 (MQ=255)
aaGGGCAACCCGAACGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGc > 1:3515662/1‑62 (MQ=255)
aGGGCAACCCGAACGACCAAAAATAACGGTTTGCattat > 1:1747393/1‑39 (MQ=255)
cAACCCGAACGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGCCTGTa < 1:3770950/62‑1 (MQ=255)
cccGAATGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGCCTGTAATGATCACGCt > 1:321035/1‑70 (MQ=255)
cGAACGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCAt > 1:583133/1‑42 (MQ=255)
gAACGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGCCTGTAATGATCACGCTaaaa > 1:2251341/1‑71 (MQ=255)
gAACGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGCCTGTAATGATCACGCTaaaa > 1:4852200/1‑71 (MQ=255)
gAACGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGCCTGTAATGATCACGCTaa > 1:1605793/1‑69 (MQ=255)
aaCGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGCCTGTAATGATCACGCTAAAAt < 1:725667/71‑1 (MQ=255)
aCGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGCCTGTAATGATCACGCTAAAAt < 1:1271888/70‑1 (MQ=255)
aCGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGCCTGTAATGATCACGCTAAAATg < 1:3882374/71‑1 (MQ=255)
aCGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGCCTGTAATGATCACGCTAAAATg < 1:1959798/71‑1 (MQ=255)
cGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGCCTGTAATGATCACGCTAAAATg > 1:1020956/1‑70 (MQ=255)
|
TCGCGTTCATTGCTCAATTTCTCAGCCAGATCTTTTGCACGCACACAGTAAGGGCAACCCGAACGACCAAAAATAACGGTTTGCATTATTTCTCTCCTCATAGATTTATGCCTGTAATGATCACGCTAAAATG > W3110S.gb/891090‑891222
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
