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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,649,687 |
T→C |
43.1% |
Y14H (TAT→CAT) |
dicA → |
predicted regulator for DicB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,649,687 | 0 | T | C | 43.1%
| 17.0
/ 65.1
| 51 | Y14H (TAT→CAT) | dicA | predicted regulator for DicB |
| Reads supporting (aligned to +/- strand): ref base T (24/5); new base C (10/12); total (34/17) |
| Fisher's exact test for biased strand distribution p-value = 7.40e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.88e-01 |
AATACGATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGAAAATCTCCCATGTGTCTGT > W3110S.gb/1649624‑1649757
|
aaTACGATTTAGCATTAGCTAACTATTGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCAtcgtcg > 1:33511/1‑71 (MQ=255)
aaTACGATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCAtcgtcg > 1:415883/1‑71 (MQ=255)
aCGATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGa > 1:175315/1‑70 (MQ=255)
cGATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGaa > 1:1550538/1‑70 (MQ=255)
cGATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGaa > 1:3487099/1‑70 (MQ=255)
cGATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGaa > 1:3314963/1‑70 (MQ=255)
cGATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGaaa < 1:3741383/71‑1 (MQ=255)
ttAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCAtcgtcg > 1:3121468/1‑63 (MQ=255)
ttAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGaaaaa > 1:792491/1‑69 (MQ=255)
ttAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGAAAAAcc > 1:3156627/1‑71 (MQ=255)
cATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGaaa < 1:1258946/63‑1 (MQ=255)
cATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGaaa < 1:764237/63‑1 (MQ=255)
cATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGaaa < 1:426841/63‑1 (MQ=255)
cATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGaaa < 1:4044536/63‑1 (MQ=255)
cATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGaaa < 1:3334575/63‑1 (MQ=255)
cATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGaaa < 1:2448773/63‑1 (MQ=255)
aTTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGaaa < 1:134797/62‑1 (MQ=255)
aTTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGaaa < 1:1698843/62‑1 (MQ=255)
ttAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGaaaaa > 1:1713885/1‑63 (MQ=255)
aGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAaca < 1:2466545/70‑1 (MQ=255)
aGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAaca < 1:130775/70‑1 (MQ=255)
aGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAaca > 1:3961647/1‑70 (MQ=255)
aGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAaca > 1:1927283/1‑70 (MQ=255)
cTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGaaa < 1:2384957/57‑1 (MQ=255)
cTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGaaa < 1:3097648/53‑1 (MQ=255)
tATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGAAAAACCTCAAACACACCCa > 1:1977363/1‑69 (MQ=255)
aTGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGaaaaa > 1:657704/1‑53 (MQ=255)
aTGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGaaaaa > 1:2586262/1‑53 (MQ=255)
aTGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCaa > 1:1397198/1‑69 (MQ=255)
aTGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAg > 1:2193851/1‑71 (MQ=255)
aTGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAg > 1:1071665/1‑71 (MQ=255)
aTGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAg > 1:428281/1‑71 (MQ=255)
tGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGaaaaa > 1:3848024/1‑52 (MQ=255)
tGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAAc > 1:2894645/1‑53 (MQ=255)
aaaCAAAAAATTTAACTATCGGCGAACGAATCAGGTAtcg > 1:3918376/1‑40 (MQ=255)
aaaaaTTTAACTATCGGCGAACGCATCAGGCATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGc > 1:3437249/1‑71 (MQ=255)
aaaaaTTTAACTATCGGCGAACGCATCAGGCATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGc > 1:3441823/1‑71 (MQ=255)
tttAACTATCGGCGAACGCATCAGGTATCGTCGGaaaa > 1:4071210/1‑38 (MQ=255)
tttAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACCCCCaaa > 1:2132076/1‑56 (MQ=255)
tttAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCaaa > 1:1515582/1‑56 (MQ=255)
tttAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCaaa > 1:3163289/1‑56 (MQ=255)
tttAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAg > 1:2177832/1‑71 (MQ=255)
tCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGaa < 1:1284847/70‑1 (MQ=255)
tCGGCGAACGCATCAGGCATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGaaa < 1:205671/71‑1 (MQ=255)
tCGGCGAACGCATCAGGCATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGaaa < 1:729072/71‑1 (MQ=255)
tCGGCGAACGCATCAGGCATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGaaa < 1:752801/71‑1 (MQ=255)
ggCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGaaaa > 1:58674/1‑70 (MQ=255)
cGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGAAAATCTcc > 1:2962591/1‑69 (MQ=255)
aGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGAAAATCTCCCATGTGTc > 1:1695353/1‑71 (MQ=255)
aGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGAAAATCTCCCATGTGTc > 1:2305254/1‑71 (MQ=255)
aGGCATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGAAAATCTCCCATGTGTc > 1:3825474/1‑71 (MQ=255)
tATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGAAAATCTCCCATGTGTCTGt < 1:2855152/71‑1 (MQ=255)
|
AATACGATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGAAAATCTCCCATGTGTCTGT > W3110S.gb/1649624‑1649757
|
| 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
