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 |
3,100,981 |
A→G |
15.1% |
H176H (CAT→CAC) |
yggH ← |
tRNA (m7G46) methyltransferase, SAM‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,100,981 | 0 | A | G | 15.1%
| 130.5
/ 15.7
| 53 | H176H (CAT→CAC) | yggH | tRNA (m7G46) methyltransferase, SAM‑dependent |
| Reads supporting (aligned to +/- strand): ref base A (15/30); new base G (5/3); total (20/33) |
| Fisher's exact test for biased strand distribution p-value = 1.37e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.41e-01 |
TTATAACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCAAACGGCACCTGAACGA > W3110S.gb/3100913‑3101042
|
ttATAACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCatat < 1:2372139/70‑1 (MQ=255)
tataACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATg < 1:3586919/70‑1 (MQ=255)
tataACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATg < 1:1655768/70‑1 (MQ=255)
tataACCGTCAATAGAAGACATCACTT‑AAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATgg < 1:4438110/70‑1 (MQ=255)
ataACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATGTgg < 1:4465611/70‑1 (MQ=255)
ataACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATgg < 1:4113034/70‑1 (MQ=255)
ataACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATgg < 1:1194481/70‑1 (MQ=255)
ataACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATgg < 1:4130071/70‑1 (MQ=255)
taACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGaa < 1:3868592/71‑1 (MQ=255)
gTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATgg < 1:1526442/64‑1 (MQ=255)
tCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATgg < 1:1633505/63‑1 (MQ=255)
tCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATg < 1:3822450/62‑1 (MQ=255)
tCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGa > 1:2784556/1‑64 (MQ=255)
aaTAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGcccc > 1:896594/1‑71 (MQ=255)
aaTAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGcccc > 1:196106/1‑71 (MQ=255)
gaagaCATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATa > 1:3459576/1‑61 (MQ=255)
gaagaCATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCa > 1:1957175/1‑70 (MQ=255)
agaCATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAg > 1:2209907/1‑69 (MQ=255)
gaCATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTg < 1:1028174/71‑1 (MQ=255)
aCATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATgg < 1:4434772/53‑1 (MQ=255)
aCATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATgg < 1:1942163/53‑1 (MQ=255)
cATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATgg > 1:2134012/1‑52 (MQ=255)
aTCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCGAGCTGCAg < 1:1295796/71‑1 (MQ=255)
aTCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAg < 1:3823489/71‑1 (MQ=255)
ttCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATGTGGAATa > 1:3430020/1‑50 (MQ=255)
ttCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATGTGGAATa > 1:370726/1‑50 (MQ=255)
ttCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATGTGGAATACGc > 1:56252/1‑53 (MQ=255)
tCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCt > 1:2823013/1‑71 (MQ=255)
aaGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATGTGGAATACGCCCCCCAGCTGCAGTTTGCtt < 1:1610054/70‑1 (MQ=255)
aGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGGtttt < 1:4494626/71‑1 (MQ=255)
aGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCtttt < 1:3444027/71‑1 (MQ=255)
aGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCtttt < 1:2201667/71‑1 (MQ=255)
gCATATGTTCCGCATAAGGTTCCCAGTCGGGCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCttttt < 1:4103853/71‑1 (MQ=255)
tatGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATa < 1:1252334/42‑1 (MQ=255)
tatGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCttttt < 1:2443504/68‑1 (MQ=255)
tatGTTCCGCATAAGGTTCCCAGTCGGGCGCCATATGGaa < 1:630372/40‑1 (MQ=255)
tGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATTGAATACGCCCCCCAGCTGCAGTTTGc > 1:978578/1‑61 (MQ=255)
tGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGaa > 1:3130218/1‑38 (MQ=255)
tGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGaa > 1:2432237/1‑38 (MQ=255)
ccGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTc > 1:3340186/1‑70 (MQ=255)
ccGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCg > 1:1026731/1‑71 (MQ=255)
ccGCATAAGCTTCCCAGTCGGTCGCCATGTGGAATa > 1:4524356/1‑36 (MQ=37)
cATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCa < 1:1030012/71‑1 (MQ=255)
ccAGTCCGGCGCCATGTGGAATACGCCCCCCAGCTGCAGTTTg < 1:4483750/43‑1 (MQ=37)
aGTCGGTCGCCATGTTGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCAAACGGCACCTg > 1:3003371/1‑70 (MQ=255)
aGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGc < 1:4381890/58‑1 (MQ=255)
gtcggtcgCCATATGGAATACGCCCCACAGCTGCAGTTTGCTTTTTACCAGTTCGGCAAACGGCACCTGaa > 1:672699/1‑71 (MQ=255)
tcggtcgCCATATGGAATACGCCCCCCAGCTGCAGTTTGCtt < 1:721124/42‑1 (MQ=255)
ggtcgCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCAAACGGCACCTGAACGa < 1:3672944/71‑1 (MQ=255)
ggtcgCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCAAACGGCACCTGAACGa > 1:1057507/1‑71 (MQ=255)
ggtcgCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCAAACGGCACCTGAACGa < 1:449974/71‑1 (MQ=255)
ggtcgCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCAAACGGCACCTGAACGa < 1:3329166/71‑1 (MQ=255)
ggtcgCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCAAACGGCACCTGAACGa < 1:3925331/71‑1 (MQ=255)
tcgCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCAAACGGCACCTGAACGa < 1:1024117/69‑1 (MQ=255)
atatGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCa < 1:4533274/48‑1 (MQ=255)
|
TTATAACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCAAACGGCACCTGAACGA > W3110S.gb/3100913‑3101042
|
| 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
