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 |
1,902,504 |
T→A |
30.4% |
I179I (ATA→ATT) |
recB ← |
exonuclease V (RecBCD complex), beta subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,902,504 | 0 | T | A | 30.4%
| 49.9
/ 28.7
| 46 | I179I (ATA→ATT) | recB | exonuclease V (RecBCD complex), beta subunit |
| Reads supporting (aligned to +/- strand): ref base T (8/24); new base A (7/7); total (15/31) |
| Fisher's exact test for biased strand distribution p-value = 1.70e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.27e-01 |
TGCAGATAACGATTAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGCAGTGGCGACGCCAGAAATCGGCGCAGGCCTGGTAGCGTAGCAGAGA > minE/1902436‑1902572
|
tGCAGATACCGATTAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCt < 1:2497673/69‑1 (MQ=255)
tGCAGATAACGATTAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCt < 1:2871571/69‑1 (MQ=255)
aGATAACGATTAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACCACCTGGGCAAt < 1:3343544/68‑1 (MQ=255)
aGATAACGATTAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACCACCTGGGCAAt < 1:3192673/68‑1 (MQ=255)
aGATAACGATTAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACCACCTGGGCAAt < 1:415111/68‑1 (MQ=255)
aGATAACGATTAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACCACCTGGGCAAt < 1:659324/68‑1 (MQ=255)
aGATAACGATTAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACCACCTGGGCAAt < 1:1677939/68‑1 (MQ=255)
aGATAACGATTAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACCACCTGGGCAAt < 1:546076/68‑1 (MQ=255)
aGATAACGATTAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACCACCTGGGCAAt < 1:1922681/68‑1 (MQ=255)
aTAACGATTAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTc > 1:2326513/1‑69 (MQ=255)
aTAACGATTAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTc > 1:2615652/1‑69 (MQ=255)
aTAACGATTAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTc > 1:1031002/1‑69 (MQ=255)
aTAACGATTAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTc > 1:77147/1‑69 (MQ=255)
tAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACCACCTGGGCAATTTCACGCGTCa > 1:2840337/1‑69 (MQ=255)
tAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACCACCTGGGCAATTTCACGCGTCa > 1:3344204/1‑69 (MQ=255)
tAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACCACCTGGGCAATTTCACGCGTCa > 1:3273282/1‑69 (MQ=255)
tAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACCACCTGGGCAATTTCACGCGTCa > 1:982098/1‑69 (MQ=255)
tAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACCACCTGGGCAATTTCACGCGTCa > 1:3191779/1‑69 (MQ=255)
tAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACCACCTGGGCAATTTCACGCGTCa > 1:2207575/1‑69 (MQ=255)
tAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACCACCTGGGCAATTTCACGCGTCa > 1:2205114/1‑69 (MQ=255)
gcagcaACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:1422159/69‑1 (MQ=255)
gcagcaACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:2789219/69‑1 (MQ=255)
gcagcaACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:1888128/69‑1 (MQ=255)
gcagcaACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:1513764/69‑1 (MQ=255)
gcagcaACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:2924623/69‑1 (MQ=255)
gcagcaACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:3098734/69‑1 (MQ=255)
gcagcaACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:3414423/69‑1 (MQ=255)
gcagcaACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:3171391/69‑1 (MQ=255)
gcagcaACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:2216720/69‑1 (MQ=255)
gcagcaACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:523077/69‑1 (MQ=255)
cagcaACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:748325/68‑1 (MQ=255)
cagcaACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:991288/68‑1 (MQ=255)
agcaACGCCTGCGGCCCTTT‑‑AGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:242933/65‑1 (MQ=255)
caACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:3432739/65‑1 (MQ=255)
ccTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGCAGTGGCGAc > 1:1221280/1‑69 (MQ=255)
ccTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGCAGTGGCGAc > 1:90501/1‑69 (MQ=255)
ccTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGCAGTGGCGAc > 1:1225100/1‑69 (MQ=255)
ccTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGCAGTGGCGAc > 1:811735/1‑69 (MQ=255)
tCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:650533/48‑1 (MQ=255)
tCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:1461794/48‑1 (MQ=255)
aaaGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:2130527/38‑1 (MQ=255)
cgacgacCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:850194/35‑1 (MQ=255)
gacgacCTGGGCTATTTCACGCGGCAGCGGGTAGc < 1:3153232/35‑1 (MQ=255)
acgacCTGGGCTATTTCACGCGGCAGCGGGTAGCAGTGGc < 1:86270/40‑1 (MQ=255)
acCTGGGCTATTTCACGCGGCATCGGGTAGCAGTGGCGACGCCAGAAATCGGCGCAGGCCTGgtagcgt < 1:503994/69‑1 (MQ=255)
acCTGGGCTATTTCACGCGGCAGCGGGTAGCAGTGGCGACGCCAGAAATCGGCGCAGGCCTGgtagcgt < 1:1537736/69‑1 (MQ=255)
ccTGGGCTATTTCACGCGGCAGCGGGTAGCAGTGGCGACGCCAGAAATCGGCGCAGGCCTGgtagcgt < 1:1951621/68‑1 (MQ=255)
gggCTATTTCACGCGGCAGCGGGTAGCAGTGGCGACGCCAGAAATCGGCGCAGGCCTGGTAGCGTAGCa < 1:3287224/69‑1 (MQ=255)
tATTTCACGCGGCAGCGGGTAGCAGTGGCGACGCCAGAAATCGGCGCAGGCCTGGTAGCGTAGCAgaga < 1:1105933/69‑1 (MQ=255)
|
TGCAGATAACGATTAATATCGCGCAGCAACGCCTGCGGCCCTTTCCAGGTTTCAAAGACGACCTGGGCTATTTCACGCGGCAGCGGGTAGCAGTGGCGACGCCAGAAATCGGCGCAGGCCTGGTAGCGTAGCAGAGA > minE/1902436‑1902572
|
| 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
