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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,246,332 |
G→C |
27.7% |
G56G (GGC→GGG) |
znuA ← |
zinc transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,246,332 | 0 | G | C | 27.7%
| 73.8
/ 29.7
| 54 | G56G (GGC→GGG) | znuA | zinc transporter subunit |
| Reads supporting (aligned to +/- strand): ref base G (6/33); new base C (2/13); total (8/46) |
| 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 |
CGACTAAGTCCGCGTTCTGTAAGCGTTTTACATCCGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGCAATGGCAGAAGCGATGAACCC > minE/1246265‑1246394
|
cGACTAAGTCCGCGTTCTGTAAGCGTTTTACATCCGATGGGCGCAGTGAAT‑ATCATGTTCTGAAGCGcc < 1:217089/69‑1 (MQ=255)
gACTAAGTCCGCGTTCTGTAAGCGTTTTACATCCGATGGGCGCAGTGAATAATCATGTTCTGAAGCGcc < 1:538383/69‑1 (MQ=255)
gACTAAGTCCGCGTTCTGTAAGCGTTTTACATCCGATGGGCGCAGTGAATAATCATGTTCTGAAGCGcc < 1:2942213/69‑1 (MQ=255)
tCCGCGTTCTGTAAGCGTTTTACATCCGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAgg < 1:1014615/68‑1 (MQ=255)
tCCGCGTTCTGTAAGCGTTTTACATCCGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAgg < 1:3132150/68‑1 (MQ=255)
tCCGCGTTCTGTAAGCGTTTTACATCCGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAgg < 1:2856305/68‑1 (MQ=255)
tCCGCGTTCTGTAAGCGTTTTACATCCGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAgg < 1:2636033/68‑1 (MQ=255)
tCCGCGTTCTGTAAGCGTTTTACATCCGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAgg < 1:2173329/68‑1 (MQ=255)
tCCGCGTTCTGTAAGCGTTTTACATCCGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAgg < 1:1460262/68‑1 (MQ=255)
gTTCTGTAAGCGTTTTACATCCGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTaa < 1:2257861/69‑1 (MQ=255)
gTTCTGTAAGCGTTTTACATCCGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTaa < 1:1004677/69‑1 (MQ=255)
gTTCTGTAAGCGTTTTACATCCGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTaa < 1:1666979/69‑1 (MQ=255)
gTTCTGTAAGCGTTTTACATCCGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTaa < 1:121197/69‑1 (MQ=255)
gTTTTACATCCGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAgg < 1:1545669/52‑1 (MQ=255)
ttttACATCCGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCtctgtttc < 1:1880761/69‑1 (MQ=255)
aCATCCGATGGGCGCAGTGAATAATCATGTTTTGAAGCGCCGTCAGGAAGTAAAACCtctgtttctgt < 1:2668689/68‑1 (MQ=255)
aCATCCGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCtctgtttctgt < 1:2064587/68‑1 (MQ=255)
ccGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTAccc < 1:1220211/69‑1 (MQ=255)
ccGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTAccc < 1:2307036/69‑1 (MQ=255)
cGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTAcccc > 1:1446423/1‑69 (MQ=255)
cGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTAcccc > 1:2717327/1‑69 (MQ=255)
cgcAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCGATCAGc < 1:439987/68‑1 (MQ=255)
cgcAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGc < 1:888729/68‑1 (MQ=255)
cgcAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGc < 1:1325376/68‑1 (MQ=255)
cgcAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGc < 1:328388/68‑1 (MQ=255)
cgcAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGc < 1:1038728/68‑1 (MQ=255)
cgcAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGc < 1:2558948/68‑1 (MQ=255)
cgcAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGc < 1:2391271/68‑1 (MQ=255)
cgcAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGc < 1:2212824/68‑1 (MQ=255)
cgcAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGc < 1:2194651/68‑1 (MQ=255)
cgcAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGc < 1:1160504/68‑1 (MQ=255)
gAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGc < 1:627760/62‑1 (MQ=255)
gAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGc < 1:19539/62‑1 (MQ=255)
aataatCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGc < 1:3394776/61‑1 (MQ=255)
taatCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGCa > 1:188292/1‑60 (MQ=255)
taatCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGCa > 1:646836/1‑60 (MQ=255)
taatCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGCa > 1:1019831/1‑60 (MQ=255)
taatCAAGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGCa > 1:1022/1‑60 (MQ=255)
atCATGTTCTGAAGCCCCGTCAGGTAGTAAAACCTCCGTTTCTGTTACCCCATCAGCAATGGCAGAAGc < 1:1301558/69‑1 (MQ=255)
atCATGTTCTGAAGCCCCGTCAGGTAGTAAAACCTCCGTTTCTGTTACCCCATCAGCAATGGCAGAAGc < 1:2875961/69‑1 (MQ=255)
atCATGTTCTGAAGCCCCGTCAGGTAGTAAAACCTCCGTTTCTGTTACCCCATCAGCAATGGCAGAAGc < 1:272318/69‑1 (MQ=255)
atCATGTTCTGAAGCCCCGTCAGGTAGTAAAACCTCCGTTTCTGTTACCCCATCAGCAATGGCAGAAGc < 1:1254785/69‑1 (MQ=255)
atCATGTTCTGAAGCCCCGTCAGGTAGTAAAACCTCCGTTTCTGTTACCCCATCAGCAATGGCAGAAGc < 1:2045452/69‑1 (MQ=255)
atCATGTTCTGAAGCCCCGTCAGGTAGTAAAACCTCCGTTTCTGTTACCCCATCAGCAATGGCAGAAGc < 1:842386/69‑1 (MQ=255)
atCATGTTCTGAAGCCCCGTCAGGTAGTAAAACCTCCGTTTCTGTTACCCCATCAGCAATGGCAGAAGc < 1:1153876/69‑1 (MQ=255)
atCATGTTCTGAAGCCCCGTCAGGTAGTAAAACCTCCGTTTCTGTTACCCCATCAGCAATGGCAGAAGc < 1:2472727/69‑1 (MQ=255)
atCATGTTCTGAAGCCCCGTCAGGTAGTAAAACCTCCGTTTCTGTTACCCCATCAGCAATGGCAGAAGc < 1:2441270/69‑1 (MQ=255)
atCATGTTCTGAAGCCCCGTCAGGTAGTAAAACCTCCGTTTCTGTTACCCCATCAGCAATGGCAGAAGc < 1:691073/69‑1 (MQ=255)
atCATGTTCTGAAGCCCCGTCAGGTAGTAAAACCTCCGTTTCTGTTACCCCATCAGCAATGGCAGAAGc < 1:721927/69‑1 (MQ=255)
atCATGTTCTGAAGCCCCGTCAGGTAGTAAAACCTCCGTTTCTGTTACCCCATCAGCAATGGCAGAAGc < 1:838085/69‑1 (MQ=255)
cATGTTCTGAAGCCCCGTCAGGTAGTAAAACCTCCGTTTCTGTTACCCCATCAGCAATGGCAGAAGc < 1:2931890/67‑1 (MQ=255)
cTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGc < 1:1491809/49‑1 (MQ=255)
tGAAGCCCCGTCAGGTAGTAAAACCTCCGTTTCTGTTACCCCATCAGCAATGGCAGAAGCGATGAAccc > 1:2812376/1‑69 (MQ=255)
tGAAGCCCCGTCAGGTAGTAAAACCTACGTTTCTGTTACCCCATCAGCAATGGCAGAAGCGATGAAccc > 1:1064795/1‑69 (MQ=255)
|
CGACTAAGTCCGCGTTCTGTAAGCGTTTTACATCCGATGGGCGCAGTGAATAATCATGTTCTGAAGCGCCGTCAGGAAGTAAAACCTCTGTTTCTGTTACCCCATCAGCAATGGCAGAAGCGATGAACCC > minE/1246265‑1246394
|
| 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
