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 |
351,286 |
A→T |
31.3% |
G128G (GGT→GGA) |
purK ← |
N5‑carboxyaminoimidazole ribonucleotide synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 351,286 | 0 | A | T | 31.3%
| 71.4
/ 43.6
| 67 | G128G (GGT→GGA) | purK | N5‑carboxyaminoimidazole ribonucleotide synthase |
| Reads supporting (aligned to +/- strand): ref base A (11/35); new base T (16/5); total (27/40) |
| Fisher's exact test for biased strand distribution p-value = 1.02e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.79e-01 |
TACATTCGCCGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATAACCACCAGTGCGACGCTTAACAATCGCCAGCTCACCTAAACGATCAAACACCGCAGGC > minE/351219‑351352
|
tACATTCGCCGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGAc > 1:1930832/1‑69 (MQ=255)
tACATTCGCCGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGAc > 1:796941/1‑69 (MQ=255)
tACATTCGCCGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGAc > 1:2451658/1‑69 (MQ=255)
tACATTCGCCGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGAc > 1:2507179/1‑69 (MQ=255)
tACATTCGCCGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGAc > 1:182839/1‑69 (MQ=255)
tACATTCGCCGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGAc > 1:279492/1‑69 (MQ=255)
tACATTCGCCGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGACATTGACCGCGAc > 1:2051044/1‑69 (MQ=255)
tACATTCGCCGTAACACTCTGCCGGTAACAGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGAc > 1:2706188/1‑69 (MQ=255)
cGCCGTAGCATTCAGCAGGTAACTGTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCAt < 1:2757272/69‑1 (MQ=255)
cGCCGTAGCATTCAGCAGGTAACTGTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCAt < 1:2780012/69‑1 (MQ=255)
cGCCGTAGCATTCAGCAGGTAACTGTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCAt < 1:1596286/69‑1 (MQ=255)
cGCCGTAGCATTCAGCAGGTAACTGTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCAt < 1:3193566/69‑1 (MQ=255)
cGCCGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCAt < 1:3239612/69‑1 (MQ=255)
gCCGTAGCATTCAGCAGGTAACTGTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCAt < 1:2293477/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTTCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:2532033/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:3134605/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:3224990/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:3251314/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:3397177/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:429586/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:461115/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:737158/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:806346/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:879667/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:2465022/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:1085674/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:139280/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:1432436/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:1643377/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:1894580/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:187543/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGACATTGACCGCGACCGTCATa < 1:614350/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGATTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:219233/68‑1 (MQ=255)
ccGTAACACTCTGCCGGTAACTGTTCGGATTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:2657158/68‑1 (MQ=255)
cGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATa < 1:1718491/67‑1 (MQ=255)
ctctGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATAACCACCAGt > 1:2359285/1‑69 (MQ=255)
ctGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATAACCACCAGTGc < 1:2847139/69‑1 (MQ=255)
ctGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATAACCACCAGTGc < 1:401565/69‑1 (MQ=255)
ctGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATAACCACCAGTGc < 1:1329288/69‑1 (MQ=255)
ctGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATAACCACCAGTGc < 1:2381452/69‑1 (MQ=255)
gCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATAACCACCAGTGc < 1:106759/67‑1 (MQ=255)
gTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGt > 1:1684451/1‑42 (MQ=37)
gTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCATAGCCACCAGTGCGGCGGTTAAc > 1:2506270/1‑67 (MQ=255)
gTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCATAGCCACCAGTGCGGCGCTTaa > 1:1562334/1‑66 (MQ=255)
gTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCATAGCCACCAGTGCGGCGCTTAAc > 1:2664765/1‑67 (MQ=255)
gTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCATAGCCACCAGTGCGGCGCTTAAc > 1:3140078/1‑67 (MQ=255)
gTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCATAGCCACCAGTGCGGCGCTTAACa > 1:1272807/1‑68 (MQ=255)
gTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCATAGCCACCAGTGCGGCGCTTAACa > 1:2195853/1‑68 (MQ=255)
gTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCATAGCCACCAGTGCGGCGCTTAACa > 1:1234713/1‑68 (MQ=255)
gTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCATAGCCACCAGTGCGGCGCTTAACa > 1:2122539/1‑68 (MQ=255)
gTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCATAGCCACCAGTGCGGCGCTTAACa > 1:1259342/1‑68 (MQ=255)
gTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCATAGCCACCAGTGCGGCGCTTAACa > 1:2503493/1‑68 (MQ=255)
gTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCATAGCCACCAGTGCGGCGCTTAACa > 1:3417717/1‑68 (MQ=255)
gTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCATAGCCACCAGTGCGGCGCTTAACa > 1:1917195/1‑68 (MQ=255)
gTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCATAGCCACCAGTGCGGCGCTTAACa > 1:1833971/1‑68 (MQ=255)
gTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCATAGCCACCAGTGCGGCGCTTAACa > 1:274864/1‑68 (MQ=255)
gTTCGGTTTCATCGGCGCGTAAACGCCATTGACCGCGTCCGTCATAGCCACCAGTGCGGCGCTTAACa > 1:1829828/1‑68 (MQ=255)
gTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATAACCACCAGTGc < 1:2550347/52‑1 (MQ=255)
tttCATTTGCGCGTAAACGCCATTGACCGCGACCGTGATa < 1:742460/40‑1 (MQ=255)
gcgTAAACGCCATTGACCGCGACCGTCATAACCACCAGTGCGACGCTTAACAATCGCCAGCTCACCTa < 1:865784/68‑1 (MQ=255)
tAAACGCCATTGACCGCGACCGTCATAACCACCAGTGCGACGCTTAACAATCGCCAGCTCACCTa < 1:2294527/65‑1 (MQ=255)
cATTGACCGCGACCGTCATAACCACCAGTGCGACGCTTAACAATCGCCAGCTCACCTAAACGATCAAac > 1:440462/1‑69 (MQ=255)
gACCGCGACCGTCATAACCACCAGTGCGACGCTTAACAATCGCAAGCTCACCTAAACGATCAAacac > 1:1250100/1‑67 (MQ=255)
cgACCGTCATAACCACCAGTGCGACGCTTAACAATCGCCAGCTCACCTAAACGATCAAACACCGCAGGc < 1:2413259/69‑1 (MQ=255)
cgACCGTCATAACCACCAGTGCGACGCTTAACAATCGCCAGCTCACCTAAACGATCAAACACCGCAGGc < 1:603868/69‑1 (MQ=255)
cgACCGTCATAACCACCAGTGCGACGCTTAACAATCGCCAGCTCACCTAAACGATCAAACACCGCAGGc < 1:115451/69‑1 (MQ=255)
cgACCGTCATAACCACCAGTGCGACGCTTAACAATCGCCAGCTCACCTAAACGATCAAACACCGCAGGc < 1:1761892/69‑1 (MQ=255)
|
TACATTCGCCGTAACACTCTGCCGGTAACTGTTCGGTTTCATTTGCGCGTAAACGCCATTGACCGCGACCGTCATAACCACCAGTGCGACGCTTAACAATCGCCAGCTCACCTAAACGATCAAACACCGCAGGC > minE/351219‑351352
|
| 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
