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 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,462,102 |
A→G |
9.6% |
F53L (TTC→CTC) |
sixA ← |
phosphohistidine phosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,462,102 | 0 | A | G | 9.6%
| 138.7
/ 7.2
| 52 | F53L (TTC→CTC) | sixA | phosphohistidine phosphatase |
| Reads supporting (aligned to +/- strand): ref base A (20/27); new base G (2/3); total (22/30) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.01e-01 |
ACTTCTGCACTGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCGAGA > W3110S.gb/2462035‑2462168
|
aCTTCTGCACTGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACg < 1:3913573/70‑1 (MQ=255)
cTTCTGCACTGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACggg < 1:2446052/71‑1 (MQ=255)
cACTGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTc < 1:1470703/68‑1 (MQ=255)
cACTGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTc < 1:2066408/68‑1 (MQ=255)
cACTGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCa > 1:2785513/1‑69 (MQ=255)
cACTGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCAc < 1:133742/70‑1 (MQ=255)
aCTGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCAc > 1:1915373/1‑69 (MQ=255)
tGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGaa > 1:560297/1‑58 (MQ=255)
tGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAAc < 1:3308792/59‑1 (MQ=255)
gAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAAc > 1:2081502/1‑71 (MQ=255)
ggCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAAcgcg < 1:2852745/71‑1 (MQ=255)
ggCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAAcgcg < 1:1650013/71‑1 (MQ=255)
gCAGGTTCAGACAATCCCCTACTTCTTCTAGTGTTTGCTCGGATCGCAGGAACGGGCt > 1:151591/1‑58 (MQ=255)
gCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAAc < 1:2590642/53‑1 (MQ=255)
ggTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACg < 1:118091/51‑1 (MQ=255)
gTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGaa > 1:2547885/1‑48 (MQ=255)
gTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGa < 1:2508647/71‑1 (MQ=255)
ttCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGAt < 1:315102/71‑1 (MQ=255)
tCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCa > 1:2407252/1‑57 (MQ=255)
tCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGaa > 1:4185591/1‑60 (MQ=255)
tCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGa > 1:3647027/1‑69 (MQ=255)
cAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAGCGGGCTCACCAGAACGCGTTCGAtt > 1:3373261/1‑70 (MQ=255)
cAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGAttt > 1:2905200/1‑71 (MQ=255)
cAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGAtt < 1:4465886/70‑1 (MQ=255)
gACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACg < 1:676333/45‑1 (MQ=255)
aCAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTc > 1:4270324/1‑69 (MQ=255)
cAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCAc > 1:3275331/1‑71 (MQ=255)
aaTCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACt < 1:3158449/71‑1 (MQ=255)
tCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACttt > 1:353733/1‑71 (MQ=255)
cccTACTTCTTCCAGTGTTTGCTCGGCTCTCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACtttt < 1:973434/70‑1 (MQ=255)
cccTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAGCGGGCTCACCAGAACGCGTTCGATTTCCACttttt < 1:3467795/71‑1 (MQ=255)
cTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAg < 1:4084623/46‑1 (MQ=255)
tACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTc > 1:1878604/1‑54 (MQ=255)
tACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGa > 1:3005269/1‑70 (MQ=255)
cttcttCCAGTGTTTGCTCGGCTCGCAGGAGCGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGAcc < 1:4332385/70‑1 (MQ=255)
ttcttcCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTc > 1:4462448/1‑57 (MQ=255)
cttcCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCttt > 1:908294/1‑70 (MQ=255)
cttcCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCttt < 1:3874238/70‑1 (MQ=255)
cttcCAGTGTTTGCTCGGCTCGCAGGAACGGGATCACCAGAACGCGTTCGATTTc > 1:3774529/1‑55 (MQ=255)
ccAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCttt > 1:2330754/1‑67 (MQ=255)
ccAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAg < 1:3794744/70‑1 (MQ=255)
gtTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGa > 1:1589157/1‑43 (MQ=255)
gtTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGa > 1:2883792/1‑43 (MQ=255)
cggctcgCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTg < 1:2247140/49‑1 (MQ=255)
ggctcgCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCa < 1:2022500/71‑1 (MQ=255)
ctcgCAGGAGCGGGCTCACCAGAACGCGTTCGATTTCCACttttt < 1:1937919/45‑1 (MQ=255)
tcgCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCttt < 1:1757526/51‑1 (MQ=255)
gCAGGAACGGGCTCACCAGAACGCGTTCGATTTGCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCga < 1:3449388/71‑1 (MQ=255)
gCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGc < 1:3576664/53‑1 (MQ=255)
gCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGc < 1:244717/53‑1 (MQ=255)
aGGAGCGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGc > 1:4325581/1‑67 (MQ=255)
aGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCt < 1:3652245/45‑1 (MQ=255)
aGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGc > 1:3582332/1‑67 (MQ=255)
aGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCgata < 1:1976507/71‑3 (MQ=255)
aaCGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCAt > 1:2017486/1‑59 (MQ=255)
|
ACTTCTGCACTGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCGAGA > W3110S.gb/2462035‑2462168
|
| 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
