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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
980,208 |
A→G |
39.7% |
Y33H (TAT→CAT) |
cspI ← |
cold shock protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 980,208 | 0 | A | G | 39.7%
| 43.2
/ 72.5
| 68 | Y33H (TAT→CAT) | cspI | cold shock protein |
| Reads supporting (aligned to +/- strand): ref base A (20/21); new base G (13/14); total (33/35) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AATACCAAATTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAGGGTTAAACCATTT > minE/980140‑980277
|
aaTACCAAATTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATa < 1:2655852/69‑1 (MQ=255)
aaTACCAAATTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAg < 1:1881416/70‑1 (MQ=255)
ccAAATTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACaaa < 1:3522901/71‑1 (MQ=255)
cAAATTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACa < 1:2167497/68‑1 (MQ=255)
cAAATTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAac < 1:1969351/71‑1 (MQ=255)
aaTTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAaca > 1:366689/1‑70 (MQ=255)
aaTTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAaca > 1:1466793/1‑70 (MQ=255)
aaTTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAaca > 1:1819891/1‑70 (MQ=255)
aaTTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAac > 1:2721994/1‑69 (MQ=255)
aTTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAAcaca > 1:3767170/1‑71 (MQ=255)
ttCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACAt > 1:3633205/1‑71 (MQ=255)
cAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATc < 1:3826936/70‑1 (MQ=255)
aaCTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCtt > 1:262427/1‑71 (MQ=255)
aaCTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCt < 1:1022604/70‑1 (MQ=255)
aaCTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCtt > 1:3312039/1‑71 (MQ=255)
aaCTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCt < 1:2038605/70‑1 (MQ=255)
ttCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAac < 1:1321959/61‑1 (MQ=255)
ttCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTtg > 1:392052/1‑70 (MQ=255)
tCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTtgct > 1:3336069/1‑71 (MQ=255)
tCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTtgc < 1:3686542/70‑1 (MQ=255)
cTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATc < 1:1613245/63‑1 (MQ=255)
cTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATc < 1:369345/63‑1 (MQ=255)
aTTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACAt < 1:2814689/59‑1 (MQ=255)
aTTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACAt < 1:397175/59‑1 (MQ=255)
aTTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCAt < 1:1300839/71‑1 (MQ=255)
tcAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTtgct > 1:3478178/1‑62 (MQ=255)
aGTTAATGTTTTGAAATCCTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCtt < 1:2524586/68‑1 (MQ=38)
ttAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGcc > 1:3467360/1‑61 (MQ=255)
ttAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGc > 1:2636296/1‑71 (MQ=255)
ttAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGc < 1:3820552/71‑1 (MQ=255)
ttAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGc < 1:1732959/71‑1 (MQ=255)
aTGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGtg < 1:1122383/71‑1 (MQ=255)
aTGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGtg < 1:3160479/71‑1 (MQ=255)
tttGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAAcaca > 1:3895556/1‑43 (MQ=255)
tttGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTtgct > 1:82831/1‑51 (MQ=255)
ttGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCt > 1:2817759/1‑45 (MQ=255)
ttGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGtgatga < 1:2133592/70‑1 (MQ=255)
ttGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGtgatga < 1:266283/70‑1 (MQ=255)
ttGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGtgatga < 1:621809/70‑1 (MQ=255)
tGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTtgctg < 1:2134788/50‑1 (MQ=255)
aaaTCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAAcc < 1:3570037/71‑1 (MQ=255)
aaaTCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAAcc < 1:3829845/71‑1 (MQ=255)
aaTCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGc > 1:107367/1‑59 (MQ=255)
aaTCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGc > 1:3214165/1‑59 (MQ=255)
aaTCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAAcc < 1:79450/70‑1 (MQ=255)
aTCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCaa < 1:1164842/71‑1 (MQ=255)
aTCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCaa < 1:74153/71‑1 (MQ=255)
tCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCaa > 1:2807331/1‑70 (MQ=255)
gTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCaaa < 1:1274742/69‑1 (MQ=255)
gCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCtt > 1:317576/1‑47 (MQ=255)
gCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCtt > 1:3253011/1‑71 (MQ=255)
ctGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGaa > 1:2839880/1‑57 (MQ=255)
tGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGtga > 1:2051136/1‑52 (MQ=255)
tGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAAcc > 1:1881350/1‑59 (MQ=255)
aaTTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAg > 1:2917685/1‑71 (MQ=255)
aaTTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAg > 1:1779617/1‑71 (MQ=255)
aTTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAgg > 1:1237321/1‑71 (MQ=255)
aTTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAgg > 1:1634379/1‑71 (MQ=255)
ttGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGt < 1:1176248/46‑1 (MQ=255)
cTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAGGGTTa < 1:2521743/71‑1 (MQ=255)
cTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAGGGTTa < 1:3571031/71‑1 (MQ=255)
gagaAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCaa < 1:2008069/52‑1 (MQ=255)
agaAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGaaa > 1:1054258/1‑47 (MQ=255)
gaAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGtg > 1:3158922/1‑40 (MQ=255)
gaAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCaaaa > 1:2162911/1‑52 (MQ=255)
gaAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAGGGTTAAAc > 1:3664975/1‑70 (MQ=255)
aaaTGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAGGGTTAAACCa > 1:1007396/1‑71 (MQ=255)
aaTGGACAAACACATCTTTGCTGCCATCTTTCGGAGTGATGAAACCAAAACCTTTTTCAg < 1:494509/60‑1 (MQ=25)
tAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAGGGTTAAACCAttt < 1:2211814/71‑1 (MQ=255)
|
AATACCAAATTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAGGGTTAAACCATTT > minE/980140‑980277
|
| 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
