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 |
2,798,470 |
C→A |
35.5% |
V136V (GTG→GTT) |
zur ← |
DNA‑binding transcriptional activator, Zn(II)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,798,470 | 0 | C | A | 35.5%
| 56.7
/ 40.4
| 59 | V136V (GTG→GTT) | zur | DNA‑binding transcriptional activator, Zn(II)‑binding |
| Reads supporting (aligned to +/- strand): ref base C (19/19); new base A (8/13); total (27/32) |
| Fisher's exact test for biased strand distribution p-value = 4.24e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
ACTGTTCAGGATGACGACACGCTTCCACTTCTACACATGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGTATGCATAATGTCTTCCACGCCT > minE/2798406‑2798533
|
aCTGTTCAGGATGACGACACGCTTCCACTTCTACACATGCCGCACAGAGCCCATGTGCTTCAATcaca > 1:2306580/1‑68 (MQ=255)
gTTCAGGATGACGACACGCTTCCACTTCTACACATGCCGCACAGAGCCCATGTGCTTCAATCACATTAt > 1:37843/1‑69 (MQ=255)
cAGGATGACGACACGCTTCCACTTCTACACATGCCGCACAGAGCCCATGTGCTTCAATCACATTATGc > 1:234023/1‑68 (MQ=255)
cAGGATGACGACACGCTTCCACTTCTACACATGCCGCACAGAGCCCATGTGCTTCAATCACATTATGc > 1:570870/1‑68 (MQ=255)
cAGGATGACGACACGCTTCCACTTCTACACATGCCGCACAGAGCCCATGTGCTTCAATCACATTATGc > 1:2570909/1‑68 (MQ=255)
cAGGATGACGACACGCTTCCACTTCTACACATGCCGCACAGAGCCCATGTGCTTCAATCACATTATGc > 1:2648012/1‑68 (MQ=255)
aGGATGACGACACGCTTCTACTTCTACACATGCTGAACATAATCCATGTGCTTCAATAACATTATGc > 1:1616699/1‑67 (MQ=255)
aGGATGACGACACGCTTCTACTTCTACACATGCTGAACATAATCCATGTGCTTCAATAACATTATGc > 1:2189260/1‑67 (MQ=255)
aGGATGACGACACGCTTCTACTTCTACACATGCTGAACATAATCCATGTGCTTCAATAACATTATGc > 1:1032378/1‑67 (MQ=255)
aGGATGACGACACGCTTCTACTTCTACACATGCTGAACATAATCCATGTGCTTCAATAACATTATGc > 1:1949700/1‑67 (MQ=255)
aGGATGACGACACGCTTCTACTTCTACACATGCTGAACATAATCCATGTGCTTCAATAACATTATGc > 1:2788095/1‑67 (MQ=255)
aGGATGACGACACGCTTCTACTTCTACACATGCTGAACATAATCCATGTGCTTCAATAACATTATGc > 1:2899810/1‑67 (MQ=255)
aGGATGACGACACGCTTCTACTTCTACACATGCTGAACATAATCCATGTGCTTCAATAACATTATGc > 1:1595505/1‑67 (MQ=255)
aGGATGACGACACGCTTCTACTTCTACACATGCTGAACATAATCCATGTGCTTCAATAACATTATGc > 1:533137/1‑67 (MQ=255)
gacACGCTTCCACTTCTACACATGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCa < 1:1492052/68‑1 (MQ=255)
gacACGCTTCCACTTCTACACATGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCa < 1:1054285/68‑1 (MQ=255)
acGCTTCCACTTCTACACATGCCGCACAGAGCCCATGTGCTTCAATCACAtt > 1:2846889/1‑52 (MQ=255)
acGCTTCCACTTCTACACATGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAAc > 1:1912505/1‑68 (MQ=255)
acGCTTCCACTTCTACACATGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAAc > 1:3397452/1‑68 (MQ=255)
acGCTTCCACTTCTACACATGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAAc > 1:1430505/1‑68 (MQ=255)
aTGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCg < 1:2437154/69‑1 (MQ=255)
aTGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCg < 1:3128224/69‑1 (MQ=255)
aTGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCg < 1:2427063/69‑1 (MQ=255)
aTGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCg < 1:888447/69‑1 (MQ=255)
aTGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCg < 1:107313/69‑1 (MQ=255)
aTGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCg < 1:1142558/69‑1 (MQ=255)
aTGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCg < 1:1487353/69‑1 (MQ=255)
aTGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCg < 1:1818080/69‑1 (MQ=255)
tGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGt < 1:964161/69‑1 (MQ=255)
tGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGt < 1:221884/69‑1 (MQ=255)
tGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGt < 1:735733/69‑1 (MQ=255)
tGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGt < 1:1102876/69‑1 (MQ=255)
tGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGt < 1:2593952/69‑1 (MQ=255)
tGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGt < 1:2670344/69‑1 (MQ=255)
tGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGt < 1:2903289/69‑1 (MQ=255)
tgCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGTa < 1:3236023/52‑1 (MQ=255)
tgCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGTATGCAt > 1:2316859/1‑57 (MQ=255)
tgCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGTATGCAt > 1:1611181/1‑57 (MQ=255)
tgCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGTATGCATAATGTCTTCCAc > 1:2737187/1‑69 (MQ=255)
tgCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGTATGCATAATGTCTTCCAc > 1:2756029/1‑69 (MQ=255)
tgCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGTATGCATAATGTCTTCCAc > 1:238258/1‑69 (MQ=255)
tgCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGTATGCATAATGTCTTCCAc > 1:1955149/1‑69 (MQ=255)
tgCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGTATGCATAATGTCTTCCAc > 1:2889580/1‑69 (MQ=255)
tgCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGTATGCATAATGTCTTCCAc > 1:3411536/1‑69 (MQ=255)
tgCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGTATGCATAATGTCTTCCAc > 1:1932033/1‑69 (MQ=255)
tgCTTCAATCACATTATGCCGCAGGGC‑AACCCCAttttt > 1:2198804/1‑39 (MQ=39)
tCAATAACATTATGCCGCAGGGCAAAACCCATTTTTGCCTCCAGCGTATGCATGATGTCTTCCACGCCt < 1:2747645/69‑1 (MQ=255)
tCAATAACATTATGCCGCAGGGCAAAACCCATTTTTGCCGCCAGCGTATGCATGATGTCTTCCACGCCt < 1:2951887/69‑1 (MQ=255)
tCAATAACATTATGCCGCAGGGCAAAACCCATTTTTGCCGCCAGCGTATGCATGATGTCTTCCACGCCt < 1:151979/69‑1 (MQ=255)
tCAATAACATTATGCCGCAGGGCAAAACCCATTTTTGCCGCCAGCGTATGCATGATGTCTTCCACGCCt < 1:2698131/69‑1 (MQ=255)
tCAATAACATTATGCCGCAGGGCAAAACCCATTTTTGCCGCCAGCGTATGCATGATGTCTTCCACGCCt < 1:2472415/69‑1 (MQ=255)
tCAATAACATTATGCCGCAGGGCAAAACCCATTTTTGCCGCCAGCGTATGCATGATGTCTTCCACGCCt < 1:2718682/69‑1 (MQ=255)
tCAATAACATTATGCCGCAGGGCAAAACCCATTTTTGCCGCCAGCGTATGCATGATGTCTTCCACGCCt < 1:1704740/69‑1 (MQ=255)
tCAATAACATTATGCCGCAGGGCAAAACCCATTTTTGCCGCCAGCGTATGCATGATGTCTTCCACGCCt < 1:1133402/69‑1 (MQ=255)
tCAATAACATTATGCCGCAGGGCAAAACCCATTTTTGCCGCCAGCGTATGCATGATGTCTTCCACGCCt < 1:2805915/69‑1 (MQ=255)
tCAATAACATTATGCCGCAGGGCAAAACCCATTTTTGCCGCCAGCGTATGCATGATGTCTTCCACGCCt < 1:178094/69‑1 (MQ=255)
tCAATAACATTATGCCGCAGGGCAAAACCCATTTTTGCCGCCAGCGTATGCATGATGTCTTCCACGCCt < 1:2352435/69‑1 (MQ=255)
tCAATAACATTATGCCGCAGGGCAAAACCCATTTTTGCCGCCAGCGTATGCATGATGTCTTCCACGCCt < 1:922796/69‑1 (MQ=255)
tCAATAACATTATGCCGCAGGGCAAAACCCATTTTTGCCGCCAGCGTATGCATAATGTCTTCCACGCCt < 1:812153/69‑1 (MQ=255)
aTCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGTa < 1:2242640/45‑1 (MQ=255)
|
ACTGTTCAGGATGACGACACGCTTCCACTTCTACACATGCCGCACAGAGCCCATGTGCTTCAATCACATTATGCCGCAGGGCAAACCCCATTTTTGCCGCCAGCGTATGCATAATGTCTTCCACGCCT > minE/2798406‑2798533
|
| 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
