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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,396,068 |
G→T |
20.6% |
M258I (ATG→ATT) |
setB → |
lactose/glucose efflux system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,396,068 | 0 | G | T | 20.6%
| 68.8
/ 7.0
| 29 | M258I (ATG→ATT) | setB | lactose/glucose efflux system |
| Reads supporting (aligned to +/- strand): ref base G (19/4); new base T (2/4); total (21/8) |
| Fisher's exact test for biased strand distribution p-value = 3.35e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.82e-01 |
CATCATCAACATGCCGCTATTTATTATCAACGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGATGATGGGGACCGCCGCCGGGCTGGAAATCCCGACGATGTTGATTGCCGGATATTTCGCCAAACGTCTGGGTAAGC > minE/1395999‑1396138
|
catcatCAACATGCCGCTATTTATTATCAACGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGatgatg < 1:1046174/70‑1 (MQ=255)
catcatCAACATGCCGCTATTTATTATCAACGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGATGATgg > 1:97344/1‑71 (MQ=255)
catcatCAACATGCCGCTATTTATTATCAACGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGATGATgg > 1:2594023/1‑71 (MQ=255)
catcatCAACATGCCGCTATTTATTATCAACGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGATGATgg < 1:1777031/71‑1 (MQ=255)
atcatcAACATGCCGCTATTTATTATCAACGAACTGCATCTTCCCGAGAAACTGGCCGGTGTTATGATggg < 1:242835/71‑1 (MQ=255)
atcatcAACATGCCGCTATTTATTATCAACGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGATGATggg < 1:590192/71‑1 (MQ=255)
tcatcaACATGCCGCTATTTATTATCAACGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGATGATggg > 1:1562378/1‑70 (MQ=255)
cATGCCGCTATTTATTATCAACGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGATGATGGTGAccgcc > 1:606880/1‑70 (MQ=255)
cGCTATTTATTATTGATGAACTGCATCTAACCGATAAACTGACTGGAGAAATGATTGGTATCGCTGCCggt < 1:3109331/71‑2 (MQ=255)
cGCTATTTATTATTGATGAACTGCATCTAACCGATAAACTGACTGGAGAAATGATTGGTATCGCTGCCggt < 1:3437316/71‑2 (MQ=255)
cTATTTATTATTGATGAACTGCATCTAACCGATAAACTGACTGGAGAAATGATTGGTATCGCTGCCGGTCt < 1:1336594/71‑1 (MQ=255)
cTATTTATTATTGATGAACTGCATCTAACCGATAAACTGACTGGAGAAATGATTGGTATCGCTGCCGGTCt < 1:2095777/71‑1 (MQ=255)
tttattATCAACGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGATGATgggg < 1:3233829/54‑1 (MQ=255)
tttattATCAACGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGATGATGGGGACCGCCGCCGGGCTgg > 1:1163031/1‑70 (MQ=255)
tattatCCACGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGATGATGGGGAccgccgc > 1:1807884/1‑60 (MQ=255)
tattatCAACGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGatgatg < 1:1271501/49‑1 (MQ=255)
tattatCAACGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGATGATGGGGACCGCCGCCGGGCTGGaa < 1:2062447/70‑1 (MQ=255)
tattatCAACGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGATGATGGGGACCGCCGCCGGGCTGGaa < 1:1376619/70‑1 (MQ=255)
tCAACGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGATGATGGGGACCGCCGCCGGGCTGGAGATCCcg < 1:1542191/71‑1 (MQ=255)
atgAACTGCATCTAACCGATAAACTGACTGGAGAAATGATTGGTAtcgctgccg > 1:2349334/3‑54 (MQ=255)
aCGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGATGATGGGGAccg > 1:116538/1‑48 (MQ=255)
cGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGATGATGGGGACCGCCGCCGGGCTGGAAATCTcgacga < 1:506966/71‑1 (MQ=255)
gAACTGCATCTAACCGATAAACTGACTGGAGAAATGATTGGTATCGCTGCCGGTCTGGAAATTCCgatgat > 1:1785542/1‑71 (MQ=255)
aCTGCATCTTCCCGAGAAACTGGCCGGTGTGATGATGGGGACCGCCGCCGGGCTGGAAATCCCGACGATGt > 1:2811283/1‑71 (MQ=255)
gCATCTTCCCGAGAAACTGGCCGGTGTGATGATGGGGACCGCCGCCGGGCTGGAAATCCCGACGATGTTGa > 1:458160/1‑71 (MQ=255)
cATCTTCCCGAGAAACTGGCCGGTGTGATGATggg < 1:602895/35‑1 (MQ=255)
cATCTTCCCGAGAAACTGGCCGGTGTGATGATGGGGACCGCCGCCGGGCTGGAAATCCCGACGATGTTg > 1:2621546/1‑69 (MQ=255)
tCTTCCCGAGAAACTGGCCGGTGTGATGATGGGGA‑‑‑CCGCCGGGCTGGAAATcc > 1:3070076/1‑53 (MQ=255)
cTTCCCGAGAAACTGGCCGGTGTGATGATGGGGAc > 1:2547902/1‑35 (MQ=255)
cTTCCCGAGAAACTGGCCGGTGTGATGATGGGGACCGCCGCCGGGCTGGAAATCCCGACGATGTTGATTGc > 1:2723217/1‑71 (MQ=255)
agaAACTGGCCGGTGTGATGATGGGGACCGCCGCCGGGCTGGAAATc > 1:929507/1‑47 (MQ=255)
gaAACTGGCCGGTGTGATGATGGGGACCGCCGCCGGGCTGGAAATCCCGACGATGTTGATTGCCGGatat > 1:3039409/1‑70 (MQ=255)
gaAACTGGCCGGTGTGATGATGGGGACCGCCGCCGGGCTGGAAATCCCGACGATGTTGATTGCCGGATAtt > 1:2691213/1‑71 (MQ=255)
gaAACTGGCCGGTGTGATGATGGGGACCGCCGCCGGGCTGGAAATCCCGACGATGTTGATTGCCGGATAtt > 1:2215856/1‑71 (MQ=255)
tGGCCGGTGTGATGATGGGGACCGCCGCCGGGCTGGAAATCCCGACGATGTTGATTGCCGGATATTTCGc > 1:2007992/1‑70 (MQ=255)
tGGCCGGTGTGATGATGGGGACCGCCGCCGGGCTGGAAATCCCGACGATGTTGATTGCCGGATATTTCGc > 1:954128/1‑70 (MQ=255)
cGGTGTGATGATGGGGACCGCCGCCGGGCTGGAAATCCCGACGATGTTGATTGCCGGATATTTCGCCAAAc > 1:1135815/1‑71 (MQ=255)
tgtgATGATGGGGACCGCCGCCGGGCTGGAAATCCCGACGATGTTGATTGCCGGa > 1:3357020/1‑55 (MQ=255)
tgtgATGATGGGGACCGCCGCCGGGCTGGAAATCCCGACGATGTTGATTGCCGGa > 1:557733/1‑55 (MQ=255)
atgatgGGGACCGCCGCCGGGCTGGAAATCCcgac < 1:74870/35‑1 (MQ=255)
atgatgGGGACCGCCGCCGGGCTGGAAATACCGACGATGTTGATTGCCGGATATTTCGCCAAACGTCTggg > 1:1859397/1‑71 (MQ=255)
tgatgGGGGCCGCCGCCGGGCTGGAAATCCCGACGATGTTGATTGCCGGATATTTCGCCAAACGTCTggg > 1:2012507/1‑70 (MQ=255)
ggggACCGCCGCCGGGCTGGAAATCCCGACGATGTTGATTGCCGGATATTTCGCCAAACGTCTGGGTAAGc > 1:2506609/1‑71 (MQ=255)
|
CATCATCAACATGCCGCTATTTATTATCAACGAACTGCATCTTCCCGAGAAACTGGCCGGTGTGATGATGGGGACCGCCGCCGGGCTGGAAATCCCGACGATGTTGATTGCCGGATATTTCGCCAAACGTCTGGGTAAGC > minE/1395999‑1396138
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
