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 |
2,666,038 |
A→C |
36.1% |
I658M (ATT→ATG) |
malT ← |
DNA‑binding transcriptional activator, maltotriose‑ATP‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,666,038 | 0 | A | C | 36.1%
| 21.1
/ 26.6
| 36 | I658M (ATT→ATG) | malT | DNA‑binding transcriptional activator, maltotriose‑ATP‑binding |
| Reads supporting (aligned to +/- strand): ref base A (7/16); new base C (5/8); total (12/24) |
| Fisher's exact test for biased strand distribution p-value = 7.20e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TATGACGCAACCAGTTGGCAGCGGCGGCTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGATATTTGCCATTCCCCAGCAGGTTT > minE/2665986‑2666104
|
tATGACGCAACCAGTTGGCAGCGGCGGCTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTttgt < 1:98642/69‑1 (MQ=255)
tATGACGCAACCAGTTGGCAGCGGCGGCTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTttgt < 1:1278829/69‑1 (MQ=255)
tGACGCAACCAGTTGGCAGCGGCGGCTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTttgttg > 1:1012295/1‑69 (MQ=255)
tGACGCAACCAGTTGGCAGCGGCGGCTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTttgttg > 1:3389358/1‑69 (MQ=255)
tGACGCAACCAGTTGGCAGCGGCGGCTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTttgttg > 1:2563496/1‑69 (MQ=255)
tGACGCAACCAGTTGGCAGCGGCGGCTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTttgttg > 1:2373380/1‑69 (MQ=255)
gCAACCAGTTGGCAGCGGCGGCTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTTTGTTGGc > 1:439293/1‑67 (MQ=255)
aGTTGGCAGCGGCGGCTTTATCGCCGGTCATTTGCCAGTACATCACCCTGACTTTGTTGGCg < 1:2528532/62‑1 (MQ=255)
aGTTGGCAGCGGCGGCTTTATCGCCGGTCATTTGCCAGTACATCACCCGGACTTTGTTGGCg < 1:990022/62‑1 (MQ=255)
aGTTGGCAGCGGCGGCTTTATCGCCGGTCATTTGCCAGTACATCACCCGGACTTTGTTGGCg < 1:943799/62‑1 (MQ=255)
aGTTGGCAGCGGCGGCTTTATCGCCGGTCATTTGCCAGTACATCACCCGGACTTTGTTGGCg < 1:714790/62‑1 (MQ=255)
aGTTGGCAGCGGCGGCTTTATCGCCGGTCATTTGCCAGTACATCACCCGGACTTTGTTGGCg < 1:1950325/62‑1 (MQ=255)
aGTTGGCAGCGGCGGCTTTATCGCCGGTCATTTGCCAGTACATCACCCGGACTTTGTTGGCg < 1:1235619/62‑1 (MQ=255)
aGTTGGCAGCGGCGGCTTTATCGCCGGTCATTTGCCAGTACATCACCCGGACTTTGTTGGCg < 1:1243512/62‑1 (MQ=255)
aGTTGGCAGCGGCGGCTTTATCGCCGGTCATTTGCCAGTACATCACCCGGACTTTGTTGGCg < 1:1542922/62‑1 (MQ=255)
gcggcTTTATCGCCGGTCATTTGCCAGTAAATCACCCg > 1:800311/1‑38 (MQ=255)
gcggcTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCt > 1:3388358/1‑68 (MQ=255)
cggcTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCtgt < 1:104244/69‑1 (MQ=255)
cggcTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCtgt < 1:2794671/69‑1 (MQ=255)
cggcTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCtgt < 1:1266666/69‑1 (MQ=255)
cTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGat < 1:1590991/69‑1 (MQ=255)
cTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGat < 1:160144/69‑1 (MQ=255)
cTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGat < 1:161392/69‑1 (MQ=255)
cTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGat < 1:164245/69‑1 (MQ=255)
cTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGat < 1:1029779/69‑1 (MQ=255)
tttATCGCCGGTCATTTGCCAGTAAATCACCCGGACTTTGTTGGCg < 1:2465635/46‑1 (MQ=255)
gCCGGTCATTTGCCAGTAAATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGATATTTGc < 1:1253995/68‑1 (MQ=255)
gCCGGTCATTTGCCAGTAAATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGATATTTGc < 1:2797692/68‑1 (MQ=255)
gCCGGTCATTTGCCAGTAAATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGATATTTGc < 1:1465368/68‑1 (MQ=255)
ccGGTCATTTGCCAGTACATCACCCGGACTTTGTTGGCGtt > 1:2659436/1‑41 (MQ=255)
ccGGTCATTTGCCAGTACATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGATATTTGcc > 1:2246734/1‑68 (MQ=255)
ccGGTCATTTGCCAGTACATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGATATTTGCCa > 1:2994238/1‑69 (MQ=255)
ccGGTCATTTGCCAGTACATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGATATTTGCCa > 1:1734391/1‑69 (MQ=255)
ccGGTCATTTGCCAGTACATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGATATTTGCCa > 1:1517568/1‑69 (MQ=255)
gTCATTTGCCAGTAAATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGat < 1:1765773/58‑1 (MQ=255)
aTTTGCCAGTAAATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGat < 1:2219801/55‑1 (MQ=255)
aaaTCACCCGGACTTTGTTGGCGTTAGAGATCGAGTCGCTGTGATATTTGcc < 1:765997/52‑1 (MQ=255)
aaaTCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGATATTTGcc < 1:2302558/52‑1 (MQ=255)
aaaTCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGATATTTGcc < 1:1670208/52‑1 (MQ=255)
aaaTCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGATATTTGcc < 1:1199565/52‑1 (MQ=255)
aaaTCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGATATTTGcc < 1:642350/52‑1 (MQ=255)
aaaTCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGATATTTGcc < 1:2035092/52‑1 (MQ=255)
aaaTCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGATATTTGCCATTCCCCAGCAGGttt > 1:1011195/1‑68 (MQ=255)
aaaTCACCCGGACTTTGTTGGCGTTAGAGATACAGTCg > 1:272068/1‑38 (MQ=255)
aaaTCACCCGGACTTTGTTGGAGTTAGAGATCCAGTCGCTGTGATATTTGcc < 1:337057/52‑1 (MQ=255)
aaTCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGATATTTGcc < 1:2205501/51‑1 (MQ=255)
|
TATGACGCAACCAGTTGGCAGCGGCGGCTTTATCGCCGGTCATTTGCCAGTAAATCACCCGGACTTTGTTGGCGTTAGAGATCCAGTCGCTGTGATATTTGCCATTCCCCAGCAGGTTT > minE/2665986‑2666104
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
