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 F1 I1 R1
|
690 |
31.8 |
1836723 |
97.1% |
1783458 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,264,691 |
Δ1 bp |
coding (327/1332 nt) |
tdcC ← |
threonine/serine:H(+) symporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,264,689 | 0 | G | . | 100.0%
| 187.8
/ NA
| 44 | coding (329/1332 nt) | tdcC | threonine/serine:H(+) symporter |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (28/16); total (28/16) |
AAGCCGAGCTGGTTTTCCCAGAACGTCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGTGGGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCAAAATGCTCTTCCACCGTTTCCG > NC_000913/3264620‑3264764
|
aaGCCGAGCTGGTTTTCCCAGAACGTCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATcgcg > 1:548796/1‑80 (MQ=255)
aaGCCGAGCTGGTTTTCCCAGAACGTCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATcgcg > 1:548798/1‑80 (MQ=255)
gAGCTGGTTTTCCCAGAACGTCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGaagaag > 1:548781/1‑81 (MQ=255)
aGCTGGTTTTCCCAGAACGTCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGaagaag > 2:548779/1‑80 (MQ=255)
aGCTGGTTTTCCCAGAACGTCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGaagaag > 1:548784/1‑80 (MQ=255)
ggTTTTCCCAGAACGTCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAg > 1:548801/1‑81 (MQ=255)
gTTTTCCCAGAACGTCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAg > 1:548790/1‑80 (MQ=255)
gTTTTCCCAGAACGTCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAg < 2:548744/80‑1 (MQ=255)
ttttCCCAGAACGTCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGa < 1:548746/81‑1 (MQ=255)
ttCCCAGAACGTCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGaa < 2:548746/80‑1 (MQ=255)
ccAGAACGTCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGt > 2:548796/1‑80 (MQ=255)
cAGAACGTCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGa > 2:548785/1‑81 (MQ=255)
aGAACGTCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGAt < 2:548748/81‑1 (MQ=255)
aGAACGTCATAAAGGTATTGGTAATAGTAACACCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGAt < 2:548747/81‑1 (MQ=255)
cGTCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAAcc < 1:548750/81‑1 (MQ=255)
gTCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCa > 2:548798/1‑81 (MQ=255)
tCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCAc > 2:548802/1‑81 (MQ=255)
tCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCAc > 2:548784/1‑81 (MQ=255)
tAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCAcgcc < 2:548750/81‑1 (MQ=255)
aaaGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCAcgccg > 1:548792/1‑81 (MQ=255)
aaGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCAcgccgc < 1:548752/81‑1 (MQ=255)
aGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACgccgcc < 2:548752/81‑1 (MQ=255)
ggTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGtttt < 2:548753/80‑1 (MQ=255)
ggTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTa > 1:548782/1‑81 (MQ=255)
gTAATAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTAc > 1:548793/1‑81 (MQ=255)
aaTAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTAcc > 1:548795/1‑80 (MQ=255)
aaTAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTAcc > 1:548806/1‑80 (MQ=255)
aTAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCaa < 2:548754/81‑1 (MQ=255)
aTAGTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCa > 1:548813/1‑80 (MQ=255)
gTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCAAAAt < 1:548756/81‑1 (MQ=255)
gTAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCAAAAt > 2:548788/1‑81 (MQ=255)
tAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCAAAATg < 2:548756/81‑1 (MQ=255)
tAACGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCAAAATg > 1:548808/1‑81 (MQ=255)
aCGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCAAAATGc < 2:548757/80‑1 (MQ=255)
cGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCAAAATGctc < 2:548758/81‑1 (MQ=255)
cGCCATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCAAAATGctc < 1:548760/81‑1 (MQ=255)
cATAAATCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCAAAATGCTCTTc > 2:548808/1‑81 (MQ=255)
aaaTCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGTAACGTGATAACCACTCCGCCAGTTTTACCAAAATGCTCTTCCAc > 1:548805/1‑81 (MQ=255)
aaaTCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCAAAATGCTCTTCCAc > 1:548802/1‑81 (MQ=255)
aaaTCCACAGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCAAAATGCTCTTCCAc > 2:548814/1‑81 (MQ=255)
cacaGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCAAAATGCTCTTCCACCGttt > 1:548794/1‑81 (MQ=255)
cacaGCAGT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCAAAATGCTCTTCCACCGttt > 2:548816/1‑81 (MQ=255)
agcagT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCAAAATGCTCTTCCACCGTTTCCg > 1:548823/1‑81 (MQ=255)
gcagT‑GGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCAAAATGCTCTTCCACCGTTTCCg > 2:548806/1‑80 (MQ=255)
|
AAGCCGAGCTGGTTTTCCCAGAACGTCATAAAGGTATTGGTAATAGTAACGCCATAAATCCACAGCAGTGGGCAAATCGCGAAGAAGTACAGGAACGTGATAACCACGCCGCCAGTTTTACCAAAATGCTCTTCCACCGTTTCCG > NC_000913/3264620‑3264764
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
