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 |
|
A5 F28 I3 R2
|
489 |
0.0 |
1652083 |
58.3% |
963164 |
55.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,508,246 |
G→A |
S562S (TCC→TCT) |
ypdD ← |
fused predicted PTS enzymes Hpr component, enzyme I component, and enzyme IIA component |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,508,246 | 0 | G | A | 86.1%
| 369.0
/ 37.5
| 180 | S562S (TCC→TCT) | ypdD | fused predicted PTS enzymes Hpr component, enzyme I component, and enzyme IIA component |
| Reads supporting (aligned to +/- strand): ref base G (25/0); new base A (155/0); total (180/0) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.72e-01 |
Only 100 of 180 total aligned reads displayed.
GATACGCGCGGGTTATTACGATCGACCGCATACAGATACTGGGTCATATCGTTGGAGCCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCG > W3110S.gb/2508193‑2508304
|
gATACGCGCGGGTTATTACGCTCGACCGCATACAGATACTGGGTCATATCGTTGGAGCCGa > 1:756325/1‑61 (MQ=255)
gATACGCGCGGGTTATTACGATCGACCGCATACAGATACTGGGTCATATCGTTGGAGCCGa > 1:739659/1‑61 (MQ=255)
gATACGCGCGGGTTATTACGATCGACCGCATACAGATACTGGGTCATATCGTTGGAGCCGAt > 1:132713/1‑62 (MQ=255)
gATACGCGCGGGTTATTACGATCGACCGCATACAGATACTGGGTCATATCGTTGGAGCCGAt > 1:1004541/1‑62 (MQ=255)
gATACGCGCGGGTTATTACGATCGACCGCATACAGATACTGGGTCATATCGTTGGAGCCGAt > 1:1333500/1‑62 (MQ=255)
gATACGCGCGGGTTATTACGATCGACCGCATACAGATACTGGGTCATATCGTTGGAGCCGAt > 1:957205/1‑62 (MQ=255)
gATACGCGCGGGTTATTACGATCGACCGCATACAGATACTGGGTCATATCGTTGGAGCCGAt > 1:1374050/1‑62 (MQ=255)
gATACGCGCGGGTTATTACGATCGACCGCATACAGATACTGGGTCATATCGTTGGAGCCGAt > 1:849926/1‑62 (MQ=255)
gATACGCGCGGGTTATTACGATCGACCGCATACAGATACTGGGTCATATCGTTGGAGCCGAt > 1:640884/1‑62 (MQ=255)
gATACGCGCGGGTTATTACGATCGACCGCATACAGATACTGGGTCATATCGTTGGAGCCGAt > 1:535727/1‑62 (MQ=255)
gATACGCGCGGGTTATTACGATCGACCGCATACAGATACTGGGTCATATCGTTGGAGCCGAt > 1:1551179/1‑62 (MQ=255)
gTTAGATCCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:452309/1‑62 (MQ=255)
gTTAGAGCCGATACTGAAGAAATCGACCTCATCGCAGAAg > 1:74414/1‑40 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGTCCTCATCGCCGAAGTGGTCGATGATGTAGCACACCg > 1:1202667/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGc > 1:1582434/1‑35 (MQ=37)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAg > 1:1253235/1‑40 (MQ=38)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCgatg > 1:385293/1‑49 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCgatg > 1:1007681/1‑49 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAg > 1:1067351/1‑55 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACAcc > 1:976251/1‑61 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACAcc > 1:98993/1‑61 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:577526/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1103154/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:699309/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:673833/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:657561/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:645450/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:64300/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1129266/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:63130/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:606944/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1095376/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:541664/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1131251/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:522246/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:502943/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:501920/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1141599/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:423473/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:408565/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1159589/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:844936/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1032361/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1034058/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1057133/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:931935/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:929979/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:907587/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:887415/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:883904/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1072676/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:38457/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:814746/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:811145/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:807243/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:800593/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:786646/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:776137/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:76482/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1079796/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1423204/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1546616/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1536481/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1533360/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1511302/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1477071/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1470932/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1465195/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1449615/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1437215/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1183017/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1407948/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1404288/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:121783/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1226550/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1327232/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1238460/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1321326/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:130132/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1292340/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1555729/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:374849/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:347704/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:330644/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:309944/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:309608/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:275866/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:253297/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:224708/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:18342/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:181733/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1610749/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1603829/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1592440/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1588144/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1171288/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1578405/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1566157/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCg > 1:1254078/1‑62 (MQ=255)
gTTAGAACCGATACTGAAGAAATCGACCTCATCGAAGAAGTGGTCGATGATGTAGCACACCg > 1:551402/1‑62 (MQ=255)
|
GATACGCGCGGGTTATTACGATCGACCGCATACAGATACTGGGTCATATCGTTGGAGCCGATACTGAAGAAATCGACCTCATCGCAGAAGTGGTCGATGATGTAGCACACCG > W3110S.gb/2508193‑2508304
|
| 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
