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 |
|
A1 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,092,715 |
G→A |
16.6% |
A382V (GCG→GTG) |
gntT ← |
gluconate transporter, high‑affinity GNT I system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,092,715 | 0 | G | A | 16.6%
| 116.9
/ 14.5
| 48 | A382V (GCG→GTG) | gntT | gluconate transporter, high‑affinity GNT I system |
| Reads supporting (aligned to +/- strand): ref base G (25/15); new base A (5/3); total (30/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TACTCTTTGAACAGCCAGAAGCCCGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGATACCACCCGCAGT > W3110S.gb/4092649‑4092782
|
tACTCTTTGAACAGCCAGAAGCCCGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAAt < 1:2450307/71‑1 (MQ=255)
ctTTGAACAGCCAGAAGCCCGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAAc > 1:4598899/1‑70 (MQ=255)
aaGCCCGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCt < 1:83543/71‑1 (MQ=255)
aaGCCCGGATCGTTCACATGACAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCCCCGGGCt < 1:480409/71‑1 (MQ=255)
aGCCCGGAGCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCt < 1:4381131/70‑1 (MQ=255)
gCCCGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATc > 1:3403290/1‑58 (MQ=255)
gCCCGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTaa > 1:772743/1‑71 (MQ=255)
cccGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTaa > 1:1570221/1‑70 (MQ=255)
gATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACAccc < 1:4446897/71‑1 (MQ=255)
aTCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCcg > 1:1515624/1‑71 (MQ=255)
aTCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCACAATAACCATCAGCTCCGGGCt < 1:1019472/63‑1 (MQ=255)
tCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAAc > 1:2842269/1‑43 (MQ=255)
tCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCcttc < 1:1771735/68‑1 (MQ=255)
cacaTGAGAGAAAATCACACTACCGGAACCAACCGCAATa > 1:4505048/1‑40 (MQ=255)
cacaTGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAac > 1:1489922/1‑60 (MQ=255)
cacaTGAGAGAAAATCACACTACCGGAACCAACCACAATAACCATCAGCTCCGGGCTAACACCCGTCGTTg > 1:2454837/1‑71 (MQ=255)
cacaTGAGAGAAAATCACACTACCGGAAACAACCGCAATAACCATCAGCTCCGGGCTAac > 1:4120384/1‑60 (MQ=255)
acaTGAGAGAAAATCACACTACCGGAACCAACCACAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGc < 1:4516385/71‑1 (MQ=255)
caTGAGAGAAAATCACACTACCGGAAGCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGc > 1:2351180/1‑70 (MQ=255)
aTGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCaa < 1:1670272/71‑1 (MQ=255)
tGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCg < 1:3105036/49‑1 (MQ=255)
tGAGAGAAAATCACACTACCGGAACCAACCACAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAAt > 1:1733542/1‑71 (MQ=255)
agagaAAATCACACTACCGGAACCAACCGCAATaa > 1:3245123/1‑35 (MQ=255)
agagaAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAAt > 1:185341/1‑69 (MQ=255)
agaAAATCACACTACCGGAACCAACCGCAATAACCATCa > 1:4640102/1‑39 (MQ=255)
agaAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGc > 1:4641203/1‑71 (MQ=255)
gaAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCg > 1:2396068/1‑71 (MQ=255)
gaAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCg > 1:3739905/1‑71 (MQ=255)
aaaaTCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGc < 1:4113524/62‑1 (MQ=255)
aaaaTCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCg > 1:2190235/1‑70 (MQ=255)
aaaaTCACACTACCGGAACCAACCACAATAACCAt < 1:1780258/35‑1 (MQ=255)
aaaTCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGt < 1:3928222/71‑1 (MQ=255)
aaaTCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGt > 1:2039534/1‑71 (MQ=255)
aaTCACACTACCGGAACCAACCGCAATAACCATCAGCTCCg > 1:3577995/1‑41 (MQ=255)
aaTCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTg > 1:1399349/1‑71 (MQ=255)
acacTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCag > 1:4140010/1‑57 (MQ=255)
acacTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCaa > 1:1104440/1‑58 (MQ=255)
acacTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCcgc < 1:2718698/71‑1 (MQ=255)
acacTACCGGAACCAACCACAATAACCATCAGCTCCGGGCTAACACCcgtcg > 1:3947101/1‑52 (MQ=255)
acTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGa < 1:748446/71‑1 (MQ=255)
tACCGGAACCAACCGCAATAACCATCAGCTCCGGGCt < 1:1297375/37‑1 (MQ=255)
tACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGa > 1:3888551/1‑69 (MQ=255)
tACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGa < 1:2995240/69‑1 (MQ=255)
ccGGAACCAACCGCAATAACCATCAGCTCCGGGCTaa > 1:1540753/1‑37 (MQ=255)
ggAACCAACCACAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGATaccac > 1:4256758/1‑71 (MQ=255)
ggAACCAACCACAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGATaccac > 1:2761996/1‑71 (MQ=255)
caaccGCAATAACCATCAGCTCCGGGCTAACAccc < 1:2664125/35‑1 (MQ=255)
accGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGATACCACCCGCAGt > 1:3746117/1‑71 (MQ=255)
|
TACTCTTTGAACAGCCAGAAGCCCGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGATACCACCCGCAGT > W3110S.gb/4092649‑4092782
|
| 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
