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 |
3,062,130 |
A→C |
32.7% |
E163A (GAA→GCA) |
argK → |
membrane ATPase/protein kinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,062,130 | 0 | A | C | 32.7%
| 23.4
/ 52.6
| 49 | E163A (GAA→GCA) | argK | membrane ATPase/protein kinase |
| Reads supporting (aligned to +/- strand): ref base A (17/16); new base C (10/6); total (27/22) |
| Fisher's exact test for biased strand distribution p-value = 5.49e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.29e-01 |
TTATGCGAAGCAGCGGGTTATGACGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCAAATTGCCGGTGGCGGCGATGATCTGCAGGGCAT > W3110S.gb/3062063‑3062199
|
ttATGCGAAGCAGCGGGTTATGACGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACATaa < 1:377833/69‑1 (MQ=255)
ttATGCGAAGCAGCGGGTTATGACGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGaa < 1:2460665/69‑1 (MQ=255)
ttATGCGAAGCAGCGGGTTATGACGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAg < 1:912405/70‑1 (MQ=255)
ttATGCGAAGCAGCGGGTTATGACGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAg < 1:1177928/70‑1 (MQ=255)
ttATGCGAAGCAGCGGGTTATGACGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAg < 1:37691/70‑1 (MQ=255)
gAAGCAGCGGGTTATGACGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGCAGTAGCCCg < 1:2048450/71‑1 (MQ=255)
gAAGCAGCGGGTTATGACGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGCCCg < 1:4269628/71‑1 (MQ=255)
gAAGCAGCGGGTTATGACGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGCCCg < 1:1556613/71‑1 (MQ=255)
agcagcGGGTTATGACGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGaa < 1:3480494/61‑1 (MQ=255)
gcatcGGGTTATGACGTAGTGACTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGCCCGCAt < 1:2819667/71‑1 (MQ=255)
gcagcGGGTTATGACGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGCCCGCAt > 1:4227289/1‑71 (MQ=255)
gggTTATGACGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGCAGTCGCCCGCAtggtg > 1:704144/1‑70 (MQ=255)
gTTATGACGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGc < 1:3009733/58‑1 (MQ=255)
gTTATGACGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGCCCGCATGGTGGAc < 1:3008465/71‑1 (MQ=255)
tGACGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGCCCGCATGGTGGACTGtt > 1:4188920/1‑71 (MQ=255)
gACGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGCAGTCGCCCGCATGGTGGACTGttt > 1:2739332/1‑71 (MQ=255)
cGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGCAGt > 1:3545655/1‑48 (MQ=255)
gTAGTGATTGTCGAAACGGTTGGCGTCGGGCTGTCGGAAACAGCAGTCGCCCGCATGGTGGACTGTTTTAt < 1:2488859/71‑1 (MQ=255)
tAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAg < 1:2993573/45‑1 (MQ=255)
tAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGCCCg < 1:3876731/52‑1 (MQ=255)
aGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGt > 1:130919/1‑45 (MQ=255)
gTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGaa > 1:1988052/1‑42 (MQ=255)
gTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTc > 1:1262335/1‑45 (MQ=255)
gTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTc > 1:36492/1‑45 (MQ=255)
gTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGCCCGCa > 1:3338153/1‑52 (MQ=255)
gTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGCCCGCa > 1:3636095/1‑52 (MQ=255)
gTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGCCCGCATGGTGGACTGTTTTAtctc > 1:1475108/1‑71 (MQ=255)
gTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGCCCGCATGGTGGACTGTTTTAt > 1:2668877/1‑68 (MQ=255)
tGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAAcagcag < 1:3915160/42‑1 (MQ=255)
aTTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGCAGTCGCCCGCAtgg > 1:4297305/1‑52 (MQ=255)
aTTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGCAGTCGCCCGCAtgg > 1:60674/1‑52 (MQ=255)
aTTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGCAGTCGCCCGCAtgg > 1:1994006/1‑52 (MQ=255)
aTTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGCAGTCGCCCGCATGGTGGACTGTTTTATCTCGtt > 1:1270788/1‑71 (MQ=255)
aTTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGCAGTCGCCCGCATGGTGGACTGTTTTATCTCGtt > 1:2611717/1‑71 (MQ=255)
aTTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGCAGTCGCCCGCATGGTGGACTGTTTTATCTCGt < 1:1091782/70‑1 (MQ=255)
aTTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGCAGTCGCCCGCATGGTGGACTGTTTTATCTCGt < 1:1442840/70‑1 (MQ=255)
gTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGcc > 1:3831647/1‑42 (MQ=255)
tCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCa < 1:2768926/70‑1 (MQ=255)
aaaCGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCAAAtt < 1:540354/71‑1 (MQ=255)
cGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCAAATTGcc < 1:1057290/71‑1 (MQ=255)
gTTGGCGTCGGGCAGTCGGAAACAGAAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCAAATTGCCgg > 1:4588203/1‑71 (MQ=255)
tCGGGCAGTCGGAAACAGAAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCaaa > 1:2190195/1‑57 (MQ=255)
tCGGGCAGTCGGAAACAGAAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCaa > 1:2195476/1‑56 (MQ=255)
cAGTCGGAAACAGAAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCAAATTGCCGGTGGCGGCgatga < 1:3330586/71‑1 (MQ=255)
gTCGGAAACAGAAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCAAATTGCCGGTGGCGGCGATGATc < 1:2463058/71‑1 (MQ=255)
tCGGAAACAGCAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCAAATTGCCGGTggcggc < 1:1182223/63‑1 (MQ=255)
cGGAAACAGCAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCAAATTGCCGGTGGCGGCGATGATCTg > 1:642564/1‑71 (MQ=255)
ggAAACAGCAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCAAATTGCCGGTGGCGGCga > 1:1112508/1‑63 (MQ=255)
gAAACAGAAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCAAATTGCCGGTGGCGGCGATGATCTGc < 1:2570818/70‑1 (MQ=255)
aaCAGAAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCAAATTGCCGGTGGCGGCGATGATCTGCAgg > 1:2623441/1‑71 (MQ=255)
aCAGCAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCAAATTGCCGGTGGCGGCGATGATCTGCAggg < 1:4296134/71‑1 (MQ=255)
aCAGAAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCAAATTGCCGGTgg > 1:1787433/1‑53 (MQ=255)
aCAGAAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCAAATTGCCGGTGGCGGCGATGATCTGCAggg > 1:2036848/1‑71 (MQ=255)
gAAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCAAATTGCCGGTGGCGGCGATGATCTGCAGGGCAt > 1:2884660/1‑71 (MQ=255)
|
TTATGCGAAGCAGCGGGTTATGACGTAGTGATTGTCGAAACGGTTGGCGTCGGGCAGTCGGAAACAGAAGTCGCCCGCATGGTGGACTGTTTTATCTCGTTGCAAATTGCCGGTGGCGGCGATGATCTGCAGGGCAT > W3110S.gb/3062063‑3062199
|
| 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
