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 |
|
A142 F1 I1 R1
|
21 |
42.6 |
2691336 |
96.3% |
2591756 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,535,089 |
(A)6→5 |
coding (9/597 nt) |
yhhF → |
predicted methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,535,084 | 0 | A | . | 94.9%
| 172.1
/ 3.8
| 39 | coding (4/597 nt) | yhhF | predicted methyltransferase |
| Reads supporting (aligned to +/- strand): ref base A (1/1); new base . (13/24); total (14/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.15e-01 |
AGTCTATCACTTAACTTAATTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATGAAAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCAGTGGCGAGGCCGTAAACTCCCGG > REL606/3535010‑3535156
|
aGTCTATCACTTAACTTAATTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATGaa > 2:600973/1‑76 (MQ=255)
aGTCTATCACTTAACCTAATTCACATCACCGCCAGCAAGTATGTGTTATCTGGCGGATTGANCAATTTATCATGaa > 1:1144387/1‑76 (MQ=255)
gTCTATCACTTAACTTAATTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATGaaa < 2:1224731/76‑1 (MQ=255)
gTCTATCACTTAACTTAATTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATGaaa > 1:937743/1‑76 (MQ=255)
gTCTATCACTTAACTTAATTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATGaaa > 1:352215/1‑76 (MQ=255)
tATCACTTAACTTAATTCACATCACTGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATGaaaaac > 2:382944/1‑75 (MQ=255)
tATCACTTAACTTAATTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATGaaaaac < 1:441032/76‑2 (MQ=255)
aTCACTTAACTTAATTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATGaaaaacc < 2:391716/76‑3 (MQ=255)
aTCACTTAACTTAATTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATGaaaaacc > 2:169113/1‑74 (MQ=255)
tCACTTAACTTAATTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATGaaaaaccg > 2:532247/1‑73 (MQ=255)
tCACTTAACTTAATTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATGaaaaaccg > 2:795113/1‑73 (MQ=255)
cttaacttaaTTCACATCACCGCCTGGAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAAt < 2:77038/76‑1 (MQ=255)
taacttaaTTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCa < 1:611612/76‑1 (MQ=255)
aacttaaTTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCAt < 2:1205989/76‑1 (MQ=255)
aacttaaTTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCAt > 1:563858/1‑76 (MQ=255)
cttaaTTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTc < 1:1061965/76‑1 (MQ=255)
cttaaTTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTc > 2:631831/1‑76 (MQ=255)
ttaaTTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTcc < 1:539490/76‑1 (MQ=255)
aaTTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCgg > 1:252262/1‑76 (MQ=255)
ttCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCa < 1:650592/76‑1 (MQ=255)
ttCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCa < 1:650604/76‑1 (MQ=255)
tCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAg > 1:430344/1‑76 (MQ=255)
caTCACCGCCTGCANGTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCgg > 1:3186/1‑76 (MQ=255)
aTCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGc < 2:657742/76‑1 (MQ=255)
cAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCat > 2:735498/1‑76 (MQ=255)
cAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCat > 2:156883/1‑76 (MQ=255)
aGTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCatta < 1:489840/76‑1 (MQ=255)
aGTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCatta < 1:489828/76‑1 (MQ=255)
gTATGTGTTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCattat > 2:181750/1‑76 (MQ=255)
tgtgTTATCTGGCGGATTGAGCAATTGATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTANTgg < 1:1204118/76‑1 (MQ=255)
ntgtTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGc > 1:957496/2‑76 (MQ=255)
gtgtTATCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGc < 1:944812/76‑1 (MQ=255)
ttATCTGGCGGATTGAGCAATTTATCAT‑NTAAAACCGAAACATTCCGGGANCGTCCAAATCCGCATTATTGGCggg > 1:195049/1‑76 (MQ=255)
aTCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCa < 1:344517/76‑1 (MQ=255)
tCTGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCAg < 1:651686/76‑1 (MQ=255)
tGGCGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCAGTg < 2:1144387/76‑1 (MQ=255)
tGGCGGANGGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCAggg > 2:1075336/1‑74 (MQ=255)
ggCGGATTGAGCACTTTATCNTG‑AAAAACCGAATCANTCCGGCAGCGGCCAACTCCGCATTATTGGCGGGCAGTgg < 2:1336303/76‑1 (MQ=255)
cGGATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCAGTGGCg > 1:764349/1‑76 (MQ=255)
cGGATTGAGCAATTTATCATG‑AAAAACCGAAACATACCGGCAGCGGCCAAATCCGCATTATTGGCGGGAAGTGGCg < 2:783914/76‑1 (MQ=255)
ggATTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCAGTGGCGa < 2:443742/76‑1 (MQ=255)
aTTGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCAGTGGCGAgg < 2:181987/76‑1 (MQ=255)
tGAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCAGTGGCGAGGcc < 2:550342/76‑1 (MQ=255)
gAGCAATTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCAGTGGCGAGGCCg < 1:709653/76‑1 (MQ=255)
aaTTTATCATGAAAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCAGTGGCGAGGCCGTaa < 2:1269921/76‑1 (MQ=255)
aaTTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCAGGGGCGAGGCCGCaaa > 2:876147/1‑76 (MQ=255)
aTTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCAGTGGCGAGGCCGTAAAc < 1:600896/76‑1 (MQ=255)
aTTTATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCAGTGGCGAGGCCGTAAAc < 1:511523/76‑1 (MQ=255)
ttATCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCAGTGGCGGGGCCGCAAAcac > 2:240405/1‑74 (MQ=255)
tCATG‑AAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCAGTGGCGAGGCCGTAAACTCCCg < 2:352215/76‑1 (MQ=255)
cATGAAAAAA‑CGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCAGTGGCGAGGGCCTAAACTccccg > 2:451021/1‑74 (MQ=255)
|
AGTCTATCACTTAACTTAATTCACATCACCGCCTGCAAGTATGTGTTATCTGGCGGATTGAGCAATTTATCATGAAAAAACCGAATCATTCCGGCAGCGGCCAAATCCGCATTATTGGCGGGCAGTGGCGAGGCCGTAAACTCCCGG > REL606/3535010‑3535156
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
