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 |
|
A8 F34 I0 R1
|
33 |
34.5 |
1234658 |
88.6% |
1093906 |
148.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913_3_hsa_tpiA |
2,976,638 |
T→G |
58.0% |
S14A (TCA→GCA) |
galR → |
galactose‑inducible d‑galactose regulon transcriptional repressor; autorepressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913_3_hsa_tpiA | 2,976,638 | 0 | T | G | 58.0%
| 13.5
/ 25.4
| 34 | S14A (TCA→GCA) | galR | galactose‑inducible d‑galactose regulon transcriptional repressor; autorepressor |
| Reads supporting (aligned to +/- strand): ref base T (7/7); new base G (8/11); total (16/18) |
| Fisher's exact test for biased strand distribution p-value = 7.33e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.56e-01 |
TTTGGCTCACATTCCCACGATGAAAACACGCCACCCCTTGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCTTAGCTATCACCCGAACGCCAACGCCCGTGCGCTGGCGCAGCAGACCA > NC_000913_3_hsa_tpiA/2976497‑2976773
|
tttGGCTCACATTCCCACGATGAAAACACGCCACCAAATAAACCAATGGGAGTTTTCCGTAACCCTGAAAGAATGTAAGCGTTTACCCACTAAGGTACTTTCATAGCGACCATAAAGGATGTAGCCCCACCGGCAAGCGTTCCaaccgc > 1:299521/1‑144 (MQ=255)
gCTCACATTCCCACGATGAAAACACGCCACCCCTTGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCCGGCGTTTCAGTCGCCAcc > 1:225751/1‑149 (MQ=255)
cTCACATTCCCACGATGAAAACACGCCACCCCTTGAACCAACGGGCGTTTTCCGTAACACTGAAAGAAGGTAGGCGTTTACCCCCTAAGGTATTTTCATGGCGACCATGAAGGATGTAGCCCCACTCGCATGCGTTTCAGTCGccgacg > 2:471841/1‑145 (MQ=255)
acaTTCCCACGAAGAAAACACGCCACCCCTTGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGttt < 1:598500/149‑1 (MQ=255)
ttCCCACGATGAAAACACGCCACCCCTTGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTccc > 2:425098/1‑149 (MQ=255)
cccACGATGAAAACACGCCACCCCTTGATCCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATTAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCcgc < 2:449287/149‑1 (MQ=255)
cGATGAAAACACGCCACCCCTTGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCa < 1:552574/149‑1 (MQ=255)
gATGAAAACACGCCACCCCTTGAACCAACGGGCGTTTTCCGTAAAACTGAAAGCATCTAAGCGATTACCCACCAAGGTATATTCATGGCCACCATAAAGGAAATACCACAACCGGCAGGCGTTGCAGTCCCCACCGCTTCGCCCGTCAt > 2:234993/1‑149 (MQ=255)
aagccGCCACCCCGTGAGACAAAGAGCGTTGTCCGTACCACTGGAAGAATGTAATCGTTCACCCACTAAGGTCCTTTCCTGGCGACCATCAAGGATGTAGCCCGACTGTCAGGCGTTTCAGTCGCCACCGTTTCCTTCGTCATtaataa < 2:270595/145‑1 (MQ=255)
acGCCACACCTTGAACCGACGGGCGTTTTCCGTAACACTGTACGATGTTCCGCGATCGGCCTGGAACGCAAATTCATTGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCCCGCCATTAATAAtta > 2:129110/1‑148 (MQ=255)
aCCCCTTGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCa > 1:335500/1‑149 (MQ=255)
cccTTGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCaaa > 1:479921/1‑149 (MQ=255)
cccTTGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCAACCGTTTCCCGCGTCGTTAATAATTCACCCaac > 2:162662/1‑148 (MQ=255)
cTTGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCATTCGCCGTCGTTTCCCGCGTCATTAATAATTCACCCAAAGc < 1:609971/149‑1 (MQ=255)
gAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGTCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAg < 2:459014/149‑1 (MQ=255)
cAACGGGCGTTTTCCGTAACACTGAAAGAATGAAAGCGTTTACCCACTAAAGTATTTTCATGGCGACGATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCTTTTCCCGCGTCATTAATAATTCACCCAAAGCCATCGaa < 2:532545/149‑1 (MQ=255)
ccGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTcc < 1:251216/148‑1 (MQ=255)
gtttCCGTAACACGTAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGTCCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCgg < 2:85228/148‑1 (MQ=255)
tttCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGCCCATAAAAGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCCAAGACAGCGCAGCTTACCggt > 2:333379/1‑148 (MQ=255)
tAACACTGAAAGGATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGgctggctg > 2:105130/1‑149 (MQ=255)
aaCACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCtgt < 1:81144/149‑1 (MQ=255)
aTGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAAt < 1:406800/149‑1 (MQ=255)
tAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTCATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCCATGGa > 2:14013/1‑149 (MQ=255)
tAAGCGTTTACCCACTAAGGTATTTCCATGGCGACCATAAAGCATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGa < 1:25173/149‑1 (MQ=255)
cGTTTAACCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGtct < 2:221856/149‑1 (MQ=255)
tACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCTTa < 1:272068/149‑1 (MQ=255)
tACCCACTAAGGGATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCTTa < 2:190709/149‑1 (MQ=255)
ccACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTCCAATGGAGTCTCTTGGCt > 2:307639/1‑149 (MQ=255)
cACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCTTAGCTa > 1:431134/1‑149 (MQ=255)
aaGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCTTAGCTATCAc < 1:32393/149‑1 (MQ=255)
tATTTTCATGGCGACCATAAAGGGTGTTACCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCTTAGCTATCACCCGa > 2:377916/1‑149 (MQ=255)
tGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCACGATGAGGGGTCAGAGTGCAATGGAGTCTCTTAGCTATCACCCGaacgccaac > 1:200792/1‑149 (MQ=255)
gTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCTTAGCTATCACCCGAACGCCAACGCCCGTGCGCTGGCgca < 1:156700/149‑1 (MQ=255)
aCTGGCAGGCGTTGCAGTCGCCACCCTTTCCGGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTTCAATGGAGTCTCTTAGCTATCACCCGAACGCCAACGCCCGTGCGCTGGCGCAGCAGACCa < 2:253845/149‑1 (MQ=255)
|
TTTGGCTCACATTCCCACGATGAAAACACGCCACCCCTTGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCTTAGCTATCACCCGAACGCCAACGCCCGTGCGCTGGCGCAGCAGACCA > NC_000913_3_hsa_tpiA/2976497‑2976773
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
