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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,649,687 |
T→C |
16.8% |
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 | 16.8%
| 117.1
/ 16.2
| 51 | Y14H (TAT→CAT) | dicA | predicted regulator for DicB |
| Reads supporting (aligned to +/- strand): ref base T (18/24); new base C (4/4); total (22/29) |
| Fisher's exact test for biased strand distribution p-value = 7.18e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.70e-01 |
TACGATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGAAAATCTCCCATGTG > W3110S.gb/1649626‑1649752
|
tACGATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGa < 1:755450/71‑1 (MQ=255)
tACGATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGa < 1:2521253/71‑1 (MQ=255)
cGATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGaaa < 1:1617909/71‑1 (MQ=255)
cGATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGaa > 1:3532584/1‑70 (MQ=255)
cGATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGaa > 1:2925816/1‑70 (MQ=255)
cGATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGaa > 1:2060152/1‑70 (MQ=255)
cGATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGaa > 1:1967933/1‑70 (MQ=255)
gATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGaaaa < 1:903733/71‑1 (MQ=255)
gATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGaaaa < 1:2989158/71‑1 (MQ=255)
gATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGaaaa < 1:2828864/71‑1 (MQ=255)
gATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGAATCGTCGGaaaa < 1:4578152/71‑1 (MQ=255)
ttAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAAc > 1:2114444/1‑70 (MQ=255)
ttAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAAc > 1:1370379/1‑70 (MQ=255)
gCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCa < 1:4108874/71‑1 (MQ=255)
aTTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCaaa < 1:1676512/71‑1 (MQ=255)
aTTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGAAAAACCTCaaa < 1:412318/71‑1 (MQ=255)
ttAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGt < 1:1381423/50‑1 (MQ=255)
ttAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAac < 1:1830106/71‑1 (MQ=255)
aGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAaca > 1:3083074/1‑70 (MQ=255)
aGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAaca > 1:3323972/1‑70 (MQ=255)
aGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGAAAAACCTCAAaca < 1:4117716/70‑1 (MQ=255)
aaCTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACAcc > 1:2202627/1‑70 (MQ=255)
aTGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTAtc < 1:2215617/43‑1 (MQ=255)
aTGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTAtc < 1:3179795/43‑1 (MQ=255)
aTGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCaa < 1:3453017/69‑1 (MQ=255)
aTGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAg > 1:1482540/1‑71 (MQ=255)
gAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGaaaaa > 1:802521/1‑50 (MQ=255)
gAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGaaaaa > 1:4022156/1‑50 (MQ=255)
gAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGt > 1:3114016/1‑70 (MQ=255)
gAAACAAAAAATTTAACTATCGGCGAACGCATCAGGCATCGTCGGAAAAACCTCAAACACACCCAAAGGtc < 1:1256996/71‑1 (MQ=255)
aaaCAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGtct > 1:3702460/1‑71 (MQ=255)
aaaaaTTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTg < 1:521302/70‑1 (MQ=255)
aaaTTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTa < 1:4593559/71‑1 (MQ=255)
aTTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAg > 1:1840639/1‑58 (MQ=255)
aTTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTaaa < 1:527657/71‑1 (MQ=255)
tttAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAg < 1:3335671/71‑1 (MQ=255)
ttAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAAcc < 1:2006756/40‑1 (MQ=255)
tAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCa < 1:1208541/52‑1 (MQ=255)
aCTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGccc < 1:316686/70‑1 (MQ=255)
aCTATCGGCGAACGCATCAGGCATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGcc < 1:280839/69‑1 (MQ=255)
cTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAac > 1:4622858/1‑42 (MQ=255)
cTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAac > 1:2521936/1‑42 (MQ=255)
aTCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCt < 1:2031141/60‑1 (MQ=255)
tCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAaca > 1:1524920/1‑40 (MQ=255)
tCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGa < 1:989484/69‑1 (MQ=255)
gCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGAAAAt < 1:1791905/70‑1 (MQ=255)
cGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTaaa > 1:683068/1‑54 (MQ=255)
cATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGAAAATCTCCCAtg > 1:3131828/1‑71 (MQ=255)
cATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGAAAATCTCCCAtg > 1:1197924/1‑71 (MQ=255)
aTCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGAAAATCTCCCAtgt > 1:4223354/1‑71 (MQ=255)
tCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGAAAATCTCCCAtgtg < 1:2804431/71‑1 (MQ=255)
tCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGAAAATCTCCCAtgtg < 1:1089198/71‑1 (MQ=255)
|
TACGATTTAGCATTAGCTAACTATGGAAACAAAAAATTTAACTATCGGCGAACGCATCAGGTATCGTCGGAAAAACCTCAAACACACCCAAAGGTCTCTTGCTAAAGCCCTGAAAATCTCCCATGTG > W3110S.gb/1649626‑1649752
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
