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 |
1,664,511 |
A→G |
44.8% |
G237G (GGT→GGC) |
guaA ← |
GMP synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,664,511 | 0 | A | G | 44.8%
| 6.1
/ 45.6
| 58 | G237G (GGT→GGC) | guaA | GMP synthetase |
| Reads supporting (aligned to +/- strand): ref base A (18/14); new base G (12/14); total (30/28) |
| Fisher's exact test for biased strand distribution p-value = 5.98e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.07e-01 |
TACGCAAGTCAGGTTTTTACCGATAGCGCGGTGCAGCAGCATTGCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCTACCTGCTCGCGGATGCGAGCTACAGCATC > minE/1664448‑1664576
|
tACGCAAGTCAGGTTTTTACCGATAGCGCGGTGCAGCAGCATTGCGGTTACGGAGGAATCCAcacc > 1:2135595/1‑66 (MQ=255)
tACGCAAGTCAGGTTTTTACCGATAGCGCGGTGCAGCAGCATTGCGGTTACGGAGGAATCCAcacc > 1:3086760/1‑66 (MQ=255)
aCGCAAGTCAGGTTTTTACCGATAGCGCGGTGCAGCAGCATTGCGGTTACGGAGGAATCCACAccacca < 1:981703/69‑1 (MQ=255)
aCGCAAGTCAGGTTTTTACCGATAGCGCGGTGCAGCAGCATTGCGGTTACGGAGGAATCCACAccacca < 1:962511/69‑1 (MQ=255)
aCGCAAGTCAGGTTTTTACCGATAGCGCGGTGCAGCAGCATTGCGGTTACGGAGGAATCCACAccacca < 1:2403898/69‑1 (MQ=255)
aCGCAAGTCAGGTTTTTACCGATAGCGCGGTGCAGCAGCATTGCGGTTACGGAGGAATCCACAccacca < 1:886519/69‑1 (MQ=255)
aCGCAAGTCAGGTTTTTACCGATAGCGCGGTGCAGCAGCATTGCGGTTACGGAGGAATCCACAccacca < 1:1728454/69‑1 (MQ=255)
tttttACCGATAGCGCGGTGCAGCAGCATTGCGGTTACGGAGGAATCCACACCACCAGATAGGCCGAgg > 1:392890/1‑69 (MQ=255)
tttttACCGATAGCGCGGTGCAGCAGCATTGCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAgg > 1:2450413/1‑69 (MQ=255)
tttttACCGATAGCGCGGTGCAGCAGCATTGCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAgg > 1:843684/1‑69 (MQ=255)
tttttACCGATAGCGCGGTGCAGCAGCATTGCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAgg > 1:2888129/1‑69 (MQ=255)
tACCGATAGCGCGGTGCAGCAGCATTGCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGATg < 1:1945038/68‑1 (MQ=255)
tACCGATAGCGCGGTGCAGCAGCATTGCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGATg < 1:3251797/68‑1 (MQ=255)
tACCGATAGCGCGGTGCAGCAGCATTGCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGATg < 1:3308472/68‑1 (MQ=255)
aCCGATAGCGCGGTGCAGCAGCATTGCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGATGa < 1:852185/68‑1 (MQ=255)
aCCGATAGCGCGGTGCAACAGCATTGCGGTAACGGAGGAATCCACGCTACCAGAGAGGCCGAGGATGa < 1:2329940/68‑1 (MQ=255)
aCCGATAGCGCGGTGCAACAGCATTGCGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGa < 1:2545695/68‑1 (MQ=255)
aCCGATAGCGCGGTGCAACAGCATTGCGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGa < 1:3009534/68‑1 (MQ=255)
aCCGATAGCGCGGTGCAACAGCATTGCGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGa < 1:2999162/68‑1 (MQ=255)
aCCGATAGCGCGGTGCAACAGCATTGCGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGa < 1:368756/68‑1 (MQ=255)
aCCGATAGCGCGGTGCAACAGCATTGCGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGa < 1:1075695/68‑1 (MQ=255)
aCCGATAGCGCGGTGCAACAGCATTGCGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGa < 1:2483128/68‑1 (MQ=255)
aCCGATAGCGCGGTGCAACAGCATTGCGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGa < 1:89895/68‑1 (MQ=255)
aCCGATAGCGCGGTGCAACAGCATTGCGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGa < 1:2306919/68‑1 (MQ=255)
aCCGATAGCGCGGTGCAACAGCATTGCGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGa < 1:2130448/68‑1 (MQ=255)
aCCGATAGCGCGGTGCAACAGCATTGCGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGa < 1:1785628/68‑1 (MQ=255)
aCCGATAGCGCGGTGCAACAGCATTGCGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGa < 1:1356068/68‑1 (MQ=255)
aCCGATAGCGCGGTGCAAAAGCATTGCGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGa < 1:3166251/68‑1 (MQ=255)
gcaTTGCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCTACCTGCt > 1:2483079/1‑69 (MQ=255)
tGCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCTACCTGCTcgcg < 1:626416/69‑1 (MQ=255)
tGCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCTACCTGCTcgcg < 1:2001344/69‑1 (MQ=255)
tGCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCTACCTGCTcgcg < 1:3172429/69‑1 (MQ=255)
tGCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCTACCTGCTcgcg < 1:2845973/69‑1 (MQ=255)
tGCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCTACCTGCTcgcg < 1:2181118/69‑1 (MQ=255)
tGCGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGa < 1:2349616/44‑1 (MQ=38)
gCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGAt > 1:1686081/1‑41 (MQ=255)
gCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGAt > 1:2182260/1‑41 (MQ=255)
gCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGAt > 1:2238589/1‑41 (MQ=255)
gCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGAt > 1:118422/1‑41 (MQ=255)
gCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGAt > 1:1990306/1‑41 (MQ=255)
gCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGAt > 1:2412355/1‑41 (MQ=255)
gCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGAt > 1:2985053/1‑41 (MQ=255)
gCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGAt > 1:207481/1‑41 (MQ=255)
gCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGAt > 1:314260/1‑41 (MQ=255)
gCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCTACCTGCTCGCgg > 1:2802559/1‑69 (MQ=255)
gCGGTTACGGAGGAATCCACACCACAAGAGAGGCCGAGGAt > 1:751400/1‑41 (MQ=255)
gCGGTTACGGAGGAATCCACACCA‑CAGAGAGGCCGAGGa > 1:2257580/1‑39 (MQ=38)
cGGTAACGGAGGACTCCACGCCACCAGAGCGGCCGAGGATGACTTTATCGTCGCCCACTTGCTCGCgg > 1:2295416/1‑68 (MQ=255)
cGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGACTTTATCGTCGcc > 1:1225185/1‑55 (MQ=39)
cGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCCACTTGCTCGCgg > 1:1449993/1‑68 (MQ=255)
cGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCCACTTGCTCGCGGa > 1:2859770/1‑69 (MQ=255)
cGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCCACTTGCTCGCGGa > 1:134153/1‑69 (MQ=255)
cGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCCACTTGCTCGCGGa > 1:2834563/1‑69 (MQ=255)
cGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCCACTTGCTCGCGGa > 1:2490042/1‑69 (MQ=255)
cGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCCACTTGCTCGCGGa > 1:1430416/1‑69 (MQ=255)
cGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCCACTTGCTCGCGGa > 1:2788829/1‑69 (MQ=255)
cGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCCACTTGCTCGCGGa > 1:2775751/1‑69 (MQ=255)
cGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCCACTTGCTCGCGGa > 1:79854/1‑69 (MQ=255)
cGGTAACGGAGGAATCCACGCCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCAACTTGCTCGCGGa > 1:3177291/1‑69 (MQ=255)
aTCCACACCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCTACCTGCTCGCGGATGCGAGCTACAGc > 1:2932894/1‑69 (MQ=255)
cacaCCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCTACCTGCTCGCGGATGCGAGCTACAGCAtc > 1:527215/1‑69 (MQ=255)
cacaCCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCTACCTGCTCGCGGATGCGAGCTACAGCAtc > 1:2434967/1‑69 (MQ=255)
cacaCCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCTACCTGCTCGCGGATGCGAGCTACAGCAtc > 1:3115431/1‑69 (MQ=255)
cacaCCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCTACCTGCTCGCGGATGCGAGCTACAGCAtc > 1:509471/1‑69 (MQ=255)
cacaCCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCTACCTGCTCGCGGATGCGAGCTACAGCAtc > 1:171667/1‑69 (MQ=255)
cacaCCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCTACCTGCTCGCGGATGCGAGCTACAGCAtc > 1:203508/1‑69 (MQ=255)
cacaCCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCTACCTGCTCGCGGATGCGAGCTACAGCAt > 1:2972835/1‑68 (MQ=255)
|
TACGCAAGTCAGGTTTTTACCGATAGCGCGGTGCAGCAGCATTGCGGTTACGGAGGAATCCACACCACCAGAGAGGCCGAGGATGACTTTATCGTCGCCTACCTGCTCGCGGATGCGAGCTACAGCATC > minE/1664448‑1664576
|
| 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
