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 |
1,914,611 |
A→G |
34.4% |
S287S (AGT→AGC) |
ptsP ← |
fused PEP‑protein phosphotransferase (enzyme I) of PTS system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,914,611 | 0 | A | G | 34.4%
| 39.0
/ 30.7
| 58 | S287S (AGT→AGC) | ptsP | fused PEP‑protein phosphotransferase (enzyme I) of PTS system |
| Reads supporting (aligned to +/- strand): ref base A (11/27); new base G (8/12); total (19/39) |
| Fisher's exact test for biased strand distribution p-value = 5.57e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
AAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGAGCC > minE/1914545‑1914679
|
aaGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCa > 1:2275962/1‑67 (MQ=255)
aaGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCa > 1:2072805/1‑67 (MQ=255)
aaGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCa > 1:1971602/1‑67 (MQ=255)
tGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAgc > 1:1731419/1‑69 (MQ=255)
gCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCGCTTAgc > 1:3275657/1‑56 (MQ=255)
gCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGt > 1:572573/1‑68 (MQ=255)
gCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGt > 1:1987450/1‑68 (MQ=255)
gCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGt > 1:2692936/1‑68 (MQ=255)
gCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGt > 1:3036258/1‑68 (MQ=255)
gCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGt > 1:1856020/1‑68 (MQ=255)
gCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCGCTTAGCGAGGCAAACTGt > 1:1999085/1‑68 (MQ=255)
gCTGACCCAGCGCACGTAAATCGACAGCCCGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGt > 1:2284664/1‑68 (MQ=255)
aCGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTc < 1:1555980/69‑1 (MQ=255)
cGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTc < 1:2061514/68‑1 (MQ=255)
aGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGtttt < 1:423068/69‑1 (MQ=255)
aGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGtttt < 1:842448/69‑1 (MQ=255)
gCCCGCTCTTTGAGATAGTTATCACTTAGCGCGTCAAACTGTTCGTCAAATTTTTCAATGACCGttttt < 1:118358/69‑1 (MQ=255)
gCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGttttt < 1:2767215/69‑1 (MQ=255)
gCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGttttt < 1:3130079/69‑1 (MQ=255)
gCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGttttt < 1:3270777/69‑1 (MQ=255)
gCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGttttt < 1:74822/69‑1 (MQ=255)
gCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGttttt < 1:1121727/69‑1 (MQ=255)
gCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGttttt < 1:713966/69‑1 (MQ=255)
gCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGttttt < 1:1215559/69‑1 (MQ=255)
gCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGttttt < 1:34602/69‑1 (MQ=255)
gCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGttttt < 1:1251809/69‑1 (MQ=255)
gCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGttttt < 1:3369390/69‑1 (MQ=255)
gCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGtttt < 1:256696/68‑1 (MQ=255)
gCCCGCTCTTTGAGATAGTTATCACTTAGCGAGGCAAACTGTTCGGCAAATTTTTCAATGACCGttttt < 1:1443663/69‑1 (MQ=255)
cGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGtt < 1:2931727/40‑1 (MQ=255)
cGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGtt < 1:2956791/40‑1 (MQ=255)
cGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGtt < 1:3355200/40‑1 (MQ=255)
cGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGtt < 1:688501/40‑1 (MQ=255)
cGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGtt < 1:2679122/40‑1 (MQ=255)
cGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGtt < 1:3289292/40‑1 (MQ=255)
cGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGtt < 1:3054509/40‑1 (MQ=255)
cGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGtt < 1:103226/40‑1 (MQ=255)
cGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGtt < 1:253221/40‑1 (MQ=255)
cGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGtt < 1:22585/40‑1 (MQ=255)
cGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGtt < 1:1197252/40‑1 (MQ=255)
cGCTCTTTGAGATAGTTATCGCTTAGCGCGGCAAACTGtt < 1:1056302/40‑1 (MQ=255)
tctTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTc > 1:906230/1‑50 (MQ=255)
tctTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTc > 1:902270/1‑50 (MQ=255)
tctTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTc > 1:856675/1‑50 (MQ=255)
tctTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTc > 1:852689/1‑50 (MQ=255)
tctTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTc > 1:3119082/1‑50 (MQ=255)
tctTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGcc < 1:1264213/69‑1 (MQ=255)
ctTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGt < 1:2493802/58‑1 (MQ=255)
tGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCa < 1:3043700/67‑1 (MQ=255)
gagaTAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGtt < 1:187218/55‑1 (MQ=255)
gagaTAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGtt < 1:670914/55‑1 (MQ=255)
gagaTAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGtt < 1:2905091/55‑1 (MQ=255)
gagaTAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGtt < 1:1495847/55‑1 (MQ=255)
gagaTAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGtt < 1:2891084/55‑1 (MQ=255)
gagaTAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGtt < 1:2062433/55‑1 (MQ=255)
gagaTAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGtt < 1:486387/55‑1 (MQ=255)
tATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCg > 1:1013370/1‑69 (MQ=255)
tATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCg > 1:3063237/1‑69 (MQ=255)
tATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCg > 1:520255/1‑69 (MQ=255)
aTCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGa > 1:125066/1‑69 (MQ=255)
cACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGAGc > 1:1753285/1‑69 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAAt > 1:74136/1‑36 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAAt > 1:1487229/1‑36 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAAt > 1:1177239/1‑36 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAAt > 1:1968235/1‑36 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAAt > 1:1901160/1‑36 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAAt > 1:1555253/1‑36 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAAt > 1:125011/1‑36 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAAt > 1:3008963/1‑36 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGATcc < 1:1167117/69‑1 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGAGcc < 1:1825223/69‑1 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGAGcc < 1:926456/69‑1 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGAGcc < 1:1929874/69‑1 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGAGcc < 1:2949119/69‑1 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGAGcc < 1:843379/69‑1 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGAGcc < 1:2974762/69‑1 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGAGcc < 1:761428/69‑1 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGAGcc < 1:1691436/69‑1 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGAGcc < 1:1517066/69‑1 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGAGcc < 1:539763/69‑1 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGAGcc < 1:3315362/69‑1 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGAGcc < 1:503617/69‑1 (MQ=255)
aCTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGAGcc < 1:3409831/69‑1 (MQ=255)
|
AAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCACTCTGCCACCGAGCC > minE/1914545‑1914679
|
| 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
