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 |
|
A17 F13 I0 R1
|
90 |
33.2 |
766976 |
92.9% |
712520 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
638,614 |
G→T |
100% |
T14K (ACA→AAA) |
thiD ← |
phosphomethylpyrimidine kinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 638,614 | 0 | G | T | 100.0%
| 74.7
/ ‑6.5
| 26 | T14K (ACA→AAA) | thiD | phosphomethylpyrimidine kinase |
| Reads supporting (aligned to +/- strand): ref base G (1/0); new base T (15/10); total (16/10) |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CATCCATTGGTAATGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTGTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAGCATTCAATATTTGATGA > CP000730/638477‑638740
|
cATCCATTGGTAATGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTttgt > 1:110419/1‑141 (MQ=255)
ctCCATTGGTAATGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTc < 1:288887/140‑1 (MQ=255)
cgcccgtGGCAATGGTGTAACATCGTGTTACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTc < 1:22541/135‑1 (MQ=255)
ccccACTGGTAATGGTGTAACATCGTGCTACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGCAACGTTCTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTc < 1:22478/139‑1 (MQ=255)
cATTGGTAATGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCTACCATGCCATAGGTATCGAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATCCCTGCGCCAGCACTTGTGTCAGa > 1:169783/1‑141 (MQ=255)
ttGGTAATGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCTGAAc > 2:157681/1‑141 (MQ=255)
tAATGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATAGCACACGTTACTAAT‑TCTTGGAACGGTTTCAAATCTGCTTGCATACCAGCGCCAGCACTTTTTTAAGAACCGGc > 2:230662/1‑141 (MQ=255)
cATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTaaaa > 1:345449/1‑141 (MQ=255)
cATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGACCGAACCGGCAATTGTTaaaa > 1:169494/1‑141 (MQ=255)
aTCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCTGCAATTGTTAAAAc < 1:199433/141‑1 (MQ=255)
gACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAActttcttt < 1:118846/141‑1 (MQ=255)
aCCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTa > 1:182970/1‑141 (MQ=255)
tATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGc > 2:161448/1‑141 (MQ=255)
tCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTCAAACTTTCTTTAAAGCCATTCAGCtt > 2:4702/1‑141 (MQ=255)
aGTAACGGGGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTTGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTc < 2:102895/141‑1 (MQ=255)
aGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGACAGCTTGCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTc < 1:296695/141‑1 (MQ=255)
gTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTcc > 1:155269/1‑141 (MQ=255)
aCGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCCGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTGCACTCCTAc > 2:262060/1‑141 (MQ=255)
cGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTTCTTGCATACCTGCGCCAGCACTTTTGTCAGAATCGGGAATTGTTAAAACTTTCTTTAAAGACATTGAGATTCACTCGTACa > 2:156547/1‑141 (MQ=255)
gATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCTTACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCActactaaaa > 2:68234/1‑138 (MQ=255)
cAGTTAAAGCGACCATGCCATAAGCAT‑TAATGTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACataataa > 1:91649/1‑141 (MQ=255)
tGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTcatcat > 1:372266/1‑141 (MQ=255)
ctatccGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCatcatat < 1:122609/136‑1 (MQ=255)
ttGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTg < 2:110419/141‑1 (MQ=255)
gTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTCCATAATAATATTGTATTCATCATTTCATTTTTAACTTAATGGaaaactt > 1:97171/1‑138 (MQ=255)
cAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAg > 1:105447/1‑141 (MQ=255)
cTGCGCCAGCATGTTTGCTAGACCCGGCTATTGTTATAACTTTCTTTAAAGCCATTGAGTTTCACTACTACATAATAATATTGTATTCATCATATCATTTTTAGGCTGATTGAAAAATATTACGTATTCGATATTtgatga < 2:112797/141‑1 (MQ=255)
|
CATCCATTGGTAATGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAAT‑TCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTGTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAGCATTCAATATTTGATGA > CP000730/638477‑638740
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
