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 |
2,106,741 |
A→T |
100% |
S162S (TCT→TCA) |
wbbH ← |
O‑antigen polymerase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913_3_hsa_tpiA | 2,106,741 | 0 | A | T | 100.0%
| 88.1
/ ‑6.7
| 30 | S162S (TCT→TCA) | wbbH | O‑antigen polymerase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base T (12/17); minor base G (0/1); total (12/18) |
| 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. |
TATTAACACCTACGATGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTAGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTG > NC_000913_3_hsa_tpiA/2106599‑2106869
|
tATTAACACCTACGATGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATTTTTTACTTACCTTTGTATTAGTAAATTTTTTTTACCaa > 2:124272/1‑149 (MQ=255)
tATTAACACCTACGATGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTCTTAGTAAATTTTTTTGACCaa > 1:23993/1‑149 (MQ=255)
tGACTGCAAAAGAGATAATAACGATAAAGACGATTTGCTTACCAGTAGTCAGTATAACTGCAAAGATGAATACAATAAAAACAAGCAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTGTTGACCAAATAAATAAAGCaaaa < 2:248839/149‑1 (MQ=255)
tAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAg > 2:5534/1‑149 (MQ=255)
atgatAACCATAAAGACAATTTGCTGACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGAt < 1:137180/149‑1 (MQ=255)
tgatAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGAtt < 1:296823/149‑1 (MQ=255)
atAACCATAAAGACAATGTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGGAAATTAAAGGTTTTACTTACCATTGTATGAGTAACTTTTTTTGACCAAATAACAACACCAAAAGTAGTTAGAATGATTgg > 2:354670/1‑149 (MQ=255)
aTAAAGACAATTTGCTTACCCGTATTCAGTATGATTACAAAGATGAATACAATAAAAACAAGTAAAGGAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCAt < 1:24401/149‑1 (MQ=255)
gataaTTTGCTTACCAGTATTAAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACGTACCTTTGTATTAGGAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATg < 2:404815/146‑1 (MQ=255)
gACAATTTGCTTACCAGTTTTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTAGTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATg < 2:404732/149‑1 (MQ=255)
aaaattacTTACCAATAATCAATATAATTAAAAAAATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCt < 1:411942/142‑1 (MQ=255)
aTTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTga > 1:423711/1‑149 (MQ=255)
cAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCtt > 1:587538/1‑149 (MQ=255)
tATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGAt > 1:396947/1‑149 (MQ=255)
ataATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAGATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTc < 2:342901/149‑1 (MQ=255)
aaTTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCaa < 1:369918/149‑1 (MQ=255)
aaTACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATctct > 2:245106/1‑149 (MQ=255)
aaTAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTCTCAGTAAATTTTTTTGACCAAATAAATAACGCAAACGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCCGCGTCACCATCTCTTATCa > 2:4985/1‑149 (MQ=255)
aaTAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCTAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACCTAACCTTCGCTTATCa > 1:25287/1‑149 (MQ=255)
tAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATCAGTAAATTTTTTTGACCAAATAAATAAAGCACACGTAGTTAGAATCATTGGCTCCATCTATGCTGAGAAATATCTTGCTATCTCTTCAACATCAGCATCCCTACTCaaa > 2:195251/1‑149 (MQ=255)
caaaCAAATAAAGTAAGTGCTTAACGTACCTTTGGATTAGTAAATCTTTTGGACGAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCGTATCaaaat < 2:17641/148‑3 (MQ=255)
aagaaggaaagtaAATGTTTTACGTACCGTTGTATTAGTAAATTTTTTTGACCAAAGAAATAAAGCAAAAGTAGTTAGAATTATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTGAACATCAGCATCTCTTATCAAATTCa < 2:597697/146‑1 (MQ=255)
aCAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCat < 2:515395/149‑1 (MQ=255)
taaagtaaaTGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGc < 1:5534/149‑1 (MQ=255)
aaagtataTTTTTTACTTTCTTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCt < 2:173511/149‑1 (MQ=255)
aaTGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCtaagtaa > 2:388944/1‑149 (MQ=255)
ttttACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTa < 2:349964/149‑1 (MQ=255)
ttttACTGACCTTCGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTa < 1:78028/149‑1 (MQ=255)
ttatCTTTGTATTAGTAAATTTATTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACTTCAGCATCTCTTCTCAAATTCATATAGCTAAGTAAGCTAGTCCCg < 1:487450/149‑1 (MQ=255)
tttGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTg < 1:308062/149‑1 (MQ=255)
|
TATTAACACCTACGATGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTAGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTG > NC_000913_3_hsa_tpiA/2106599‑2106869
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
