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 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,739,943 |
T→C |
46.4% |
intergenic (‑133/+65) |
lepA ← / ← rseC |
GTP binding membrane protein/RseC protein involved in reduction of the SoxR iron‑sulfur cluster |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,739,943 | 0 | T | C | 46.4%
| 8.9
/ 97.1
| 69 | intergenic (‑133/+65) | lepA/rseC | GTP binding membrane protein/RseC protein involved in reduction of the SoxR iron‑sulfur cluster |
| Reads supporting (aligned to +/- strand): ref base T (20/17); new base C (19/13); total (39/30) |
| Fisher's exact test for biased strand distribution p-value = 8.08e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.75e-01 |
ACGTCTGTATTAATAGAAACGCCGCATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGCAACAAAGCCAGTGAAATCA > minE/1739877‑1740010
|
aCGTCTGTATTAATAGAAACGCCGCATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGTATg > 1:2456299/1‑70 (MQ=255)
gTCTGTATTAATAGAAACGCCGCATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGCATGGAt > 1:2043834/1‑71 (MQ=255)
gTCTGTATTAATAGAAACGCCGCATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGCATGGAt > 1:2506525/1‑71 (MQ=255)
cTGTATTAATAGAAACGCCGCATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGTATGGATtg > 1:682010/1‑71 (MQ=255)
tATTAATAGAAACGCCGCATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGTATGGATtg < 1:2166457/68‑1 (MQ=255)
tATTAATAGAAACGCCGCATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGCATGGATtg < 1:2650341/68‑1 (MQ=255)
aaTAGAAACGCCGCATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGCATGGATTGTGGTATc > 1:1347626/1‑71 (MQ=255)
aTAGAAACGCCGCATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTAt < 1:2355933/69‑1 (MQ=255)
tAGAAACGCCGCATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTg > 1:2271136/1‑71 (MQ=255)
tAGAAACGCCGCATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTg > 1:1214748/1‑71 (MQ=255)
tAGAAACGCCGCATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTg > 1:2620524/1‑71 (MQ=255)
gAAACGCCGCATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGTATGGATtgtg > 1:1700992/1‑62 (MQ=255)
aaaCGCCGCATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGaa < 1:2417980/71‑1 (MQ=255)
aaCGCCGCATTTTACACTACAACATTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGaaa < 1:2077811/71‑1 (MQ=255)
cgcATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGaaa < 1:159873/66‑1 (MQ=255)
cATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGAAACGTCCTc > 1:1643407/1‑71 (MQ=255)
cATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGAAACGTCCTc > 1:2246855/1‑71 (MQ=255)
aTTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGCATGGATTGTGGTATCTGGAAACGTCCTCg > 1:499903/1‑71 (MQ=255)
ttCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGAAACGTCCTCg > 1:843347/1‑70 (MQ=255)
ctacactacaACATTGAGGCGAGGAAATGTTCATACCGCATGGATTGTGGTATCTGGAAACGTCCTCGCAt > 1:608872/1‑71 (MQ=255)
tacactacaACATTGAGGCGAGGAAATGTTCATACCGCATGGATTGTGGTATCTg > 1:1729922/1‑55 (MQ=255)
tacactacaACATTGAGGCGAGGAAATGTTCATACCGCATGGATTGTGGTATCTGGAAACGTCCTCGCAtt > 1:3699777/1‑71 (MQ=255)
acactacaACATTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGaa > 1:2032766/1‑57 (MQ=255)
acactacaACATTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGa > 1:473451/1‑56 (MQ=255)
cactacaACATTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGAAACGTCCTCGCAttt < 1:2844408/70‑1 (MQ=255)
actacaACATTGAGGCGAGGAAATGTTCATACCGCATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGt > 1:2019675/1‑71 (MQ=255)
actacaACATTGAGGCGAGGAAATGTTCATACCGCATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGt > 1:179161/1‑71 (MQ=255)
caacaTTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGa < 1:22111/50‑1 (MQ=255)
caacaTTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGa < 1:1326974/50‑1 (MQ=255)
caacaTTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGa < 1:126447/50‑1 (MQ=255)
caacaTTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGa < 1:3635540/50‑1 (MQ=255)
caacaTTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGa < 1:269499/50‑1 (MQ=255)
caacaTTGAGGCGAGGAAATGTTCATACCGCATgg < 1:3606183/35‑1 (MQ=255)
caacaTTGAGGCGAGGAAATGTTCATACCGCATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGtt < 1:603277/68‑1 (MQ=255)
caacaTTGAGGCGAGGAAATGTTCATACCGCATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGtt < 1:891198/68‑1 (MQ=255)
caTTGAGGCGAGGAAATGTTCATACCGCATGTATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCaa < 1:742220/71‑1 (MQ=255)
ttGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCaaaa < 1:1168039/71‑1 (MQ=255)
ttGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCaaaa < 1:1023576/71‑1 (MQ=255)
aGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGc < 1:3710701/71‑1 (MQ=255)
aGGCGAGGAAATGTTCATACCGCATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGc < 1:1482007/71‑1 (MQ=255)
cGAGGAAATGTTCATACCGCATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCaaaa < 1:1147108/65‑1 (MQ=255)
gAGGAAATGTTCATACCGCATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGcaaca < 1:344042/71‑1 (MQ=255)
ggAAATGTTCATACCGTATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGcaaca > 1:3299943/1‑69 (MQ=255)
ggAAATGTTCATACCGTATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGcaaca > 1:3464841/1‑69 (MQ=255)
aaTGTTCATACCGTATGGATTGTGGTATCTGGAAACg > 1:1199585/1‑37 (MQ=255)
aaTGTTCATACCGTATGGATTGTGGTATCTGGAAACg > 1:2652066/1‑37 (MQ=255)
aTGTTCATACCGCATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGCAACTAAGCCa < 1:5717/71‑1 (MQ=255)
aTGTTCATACCGCATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGCAACAAAGGCa < 1:393112/71‑1 (MQ=255)
aTGTTCATACCGCATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGCAACAAAGCCa < 1:3488925/71‑1 (MQ=255)
aTGTTCATACCGCATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGCAACAAAGCCa < 1:3316232/71‑1 (MQ=255)
ttCATACCGTATGGATTGTGGTATCTGGAAACGTCCt > 1:3459918/1‑37 (MQ=255)
ttCATACCGTATGGATTGTGGTATCTGGAAACGTCCt > 1:751434/1‑37 (MQ=255)
ttCATACCGTATGGATTGTGGTATCTGGAAACGTCCt > 1:2257632/1‑37 (MQ=255)
ttCATACCGTATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGCAACAAAGCCAGt < 1:344783/70‑1 (MQ=255)
ttCATACCGCATGGATTGTGGTATCTGGAAACGTCCTc > 1:64051/1‑38 (MQ=255)
ttCATACCGCATGGATTGTGGTATCTGGAAACGTCCTc > 1:2470072/1‑38 (MQ=255)
ttCATACCGCATGGATTGTGGTATCTGGAAACGTCCTc > 1:1820967/1‑38 (MQ=255)
ttCATACCGCATGGATTGTGGTATCTGGAAACGTCCTc > 1:2062744/1‑38 (MQ=255)
ttCATACCGCATGGATTGTGGTATCTGGAAACGTCCTc > 1:2099467/1‑38 (MQ=255)
tCATACCGTATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGCAACAAAGcc > 1:3104464/1‑66 (MQ=255)
tCATACCGTATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGCAACAAAGcc > 1:3503075/1‑66 (MQ=255)
cATACCGCATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGCAACaaa > 1:1566077/1‑62 (MQ=255)
cATACCGCATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGCAACaaa > 1:1440833/1‑62 (MQ=255)
cATACCGCATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGCAACaaa > 1:869006/1‑62 (MQ=255)
aTACCGTATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGCAACAAAGCCAGTGaa < 1:2146995/70‑1 (MQ=255)
ccGTATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGCAACAAAGCCAGTGAAATc < 1:3442792/70‑1 (MQ=255)
ccGCATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGCTACAAAGCCAGTGAAATCa > 1:3415784/1‑71 (MQ=255)
ccGCATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGCAACAAAGCCAGTGAAATCa > 1:2134293/1‑71 (MQ=255)
ccGCATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGCAACAAAGCCAGTGAAATCa < 1:161776/71‑1 (MQ=255)
|
ACGTCTGTATTAATAGAAACGCCGCATTCTACACTACAACATTGAGGCGAGGAAATGTTCATACCGTATGGATTGTGGTATCTGGAAACGTCCTCGCATTTGTTATGCAAAATGCAACAAAGCCAGTGAAATCA > minE/1739877‑1740010
|
| 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
