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 |
2,462,102 |
A→G |
10.8% |
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 | 10.8%
| 166.4
/ 12.8
| 65 | F53L (TTC→CTC) | sixA | phosphohistidine phosphatase |
| Reads supporting (aligned to +/- strand): ref base A (31/27); new base G (2/5); total (33/32) |
| Fisher's exact test for biased strand distribution p-value = 2.58e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.42e-01 |
AACTTCTGCACTGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCGAGATTCG > W3110S.gb/2462034‑2462172
|
aaCTTCTGCACTGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAGCg < 1:1540475/71‑1 (MQ=255)
cTGCACTGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGcg > 1:3065751/1‑69 (MQ=255)
cTGCACTGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGc < 1:2207368/69‑1 (MQ=255)
cTGCACTGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCt > 1:2009435/1‑70 (MQ=255)
tGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAg > 1:29199/1‑70 (MQ=255)
gAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGaa > 1:112186/1‑70 (MQ=255)
gAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGaa > 1:4882251/1‑70 (MQ=255)
aGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAAcgc < 1:2248573/71‑1 (MQ=255)
aGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACTCGTTc < 1:1291985/71‑1 (MQ=255)
aGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTc < 1:3211192/71‑1 (MQ=255)
aCAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAGCGGGCTCACCAGAACGCGTTCGATTTCCa > 1:3875117/1‑71 (MQ=255)
aCAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTc < 1:998194/63‑1 (MQ=255)
aCAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTc < 1:2191408/63‑1 (MQ=255)
aCAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTc < 1:4893146/63‑1 (MQ=255)
cAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTc > 1:3592982/1‑62 (MQ=255)
cAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTc > 1:3184606/1‑62 (MQ=255)
cAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTc > 1:4778209/1‑62 (MQ=255)
aaTCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAGCGGGCTCACCAGAACGCGTTCGATTTCCACt < 1:1502586/71‑1 (MQ=255)
aaTCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAGCGGGCTCACCAGAACGCGTTCGATTTCCACt < 1:4908335/71‑1 (MQ=255)
aaTCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAGCGGGCTCACCAGAACGCGTTCGATTTCCACt < 1:2764399/71‑1 (MQ=255)
aaTCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCa > 1:3189249/1‑48 (MQ=255)
aaTCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCa > 1:5123284/1‑48 (MQ=255)
ccccTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACtttt > 1:4067070/1‑71 (MQ=255)
cTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGa > 1:4302797/1‑47 (MQ=255)
ttcttcCAGTGTTTGCTCGGCTCTCAGGAACGGGCTCACCAGAACGCGTTCg < 1:1198735/52‑1 (MQ=255)
ttcttcCAGTGTTTGCTCGGCTCGCAGGAACGGGCTcagcag < 1:2971471/42‑1 (MQ=255)
ttcttcCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAg < 1:1297332/42‑1 (MQ=255)
cttcCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGaa > 1:435764/1‑42 (MQ=255)
cttcCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGaa > 1:1969354/1‑42 (MQ=255)
cttcCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTc < 1:3280542/49‑1 (MQ=255)
cttcCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGAc > 1:2842153/1‑66 (MQ=255)
cttcCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCttt < 1:1818203/70‑1 (MQ=255)
ccAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGc > 1:4277926/1‑71 (MQ=255)
ccAGTGATTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGc > 1:658565/1‑71 (MQ=255)
gtTTGCTCGGCTCGCAGGAGCGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGtt > 1:1687200/1‑71 (MQ=255)
tttGCTCGGCTCGCAGGAACGGGCTCACCAGAACTCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGt < 1:294322/69‑1 (MQ=255)
tttGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTc < 1:5077910/40‑1 (MQ=255)
tttGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTc < 1:150462/40‑1 (MQ=255)
tttGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGt < 1:1714229/69‑1 (MQ=255)
tGCTCGGCTCGCAGGAACGGGCTCCCCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGc > 1:2574617/1‑71 (MQ=255)
tGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACttttt > 1:1044952/1‑52 (MQ=255)
tGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACttttt > 1:91130/1‑52 (MQ=255)
gctcggctcgCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGc < 1:1329056/70‑1 (MQ=255)
ctcggctcgCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGcc < 1:355641/70‑1 (MQ=255)
ctcggctcgCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGcc < 1:2548618/70‑1 (MQ=255)
ctcggctcgCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCa < 1:2217549/71‑1 (MQ=255)
tcggctcgCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCAt > 1:2977192/1‑71 (MQ=255)
cggctcgCAGGAACGGGCTCACCTGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGcctt > 1:1584289/1‑68 (MQ=255)
ggctcgCAGGAACGGGCTCCCCAGAACGCGTTCGATTTCCACTTTTTGa > 1:2639388/1‑49 (MQ=255)
ggctcgCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTc > 1:4388284/1‑64 (MQ=255)
gctcgCAGGAGCGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAg < 1:1192828/71‑1 (MQ=255)
gctcgCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAg > 1:3035706/1‑71 (MQ=255)
ctcgCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAgg > 1:1050222/1‑71 (MQ=255)
gCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCga < 1:4437549/71‑1 (MQ=255)
gCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCga < 1:4501313/71‑1 (MQ=255)
aGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATc > 1:2701899/1‑63 (MQ=255)
aGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATc > 1:2943856/1‑63 (MQ=255)
aGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATc > 1:5104278/1‑63 (MQ=255)
aGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCgaga < 1:1329409/71‑1 (MQ=255)
ggAACGGGCTCACCAGAACTCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCGAGAt < 1:1202632/71‑1 (MQ=255)
ggAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCGAGAt > 1:4675196/1‑71 (MQ=255)
ggAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCGAGAt < 1:4977131/71‑1 (MQ=255)
ggAACGGGCTCACAAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCGAGAt > 1:2760003/1‑71 (MQ=255)
gAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCGAGAt < 1:4047496/70‑1 (MQ=255)
gAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCGAGAt < 1:3430042/70‑1 (MQ=255)
aaCGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCGAGATTc < 1:1466486/71‑1 (MQ=255)
aaCGGGCGCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCGAGATTc < 1:3104991/71‑1 (MQ=255)
aCGGGCTCACCAGAACGCGTTCGATTTCCACttttt > 1:3185888/1‑36 (MQ=255)
aCGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCGAGATTCg < 1:818436/71‑1 (MQ=255)
aCGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCGAGATTCg < 1:2699372/71‑1 (MQ=255)
|
AACTTCTGCACTGGAAGGCAGGTTCAGACAATCCCCTACTTCTTCCAGTGTTTGCTCGGCTCGCAGGAACGGGCTCACCAGAACGCGTTCGATTTCCACTTTTTGACCTTTCAGCCAGTTCGCCATCAGGCGAGATTCG > W3110S.gb/2462034‑2462172
|
| 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
