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 |
|
A0 F0 I1 R1
|
146 |
27.9 |
2327082 |
89.7% |
2087392 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
1,493,307 |
T→G |
F319V (TTC→GTC) |
pdhB → |
dihydrolipoamide acetyltransferase (E2) component of pyruvate dehydrogenase complex |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,493,307 | 0 | T | G | 100.0%
| 73.3
/ NA
| 20 | F319V (TTC→GTC) | pdhB | dihydrolipoamide acetyltransferase (E2) component of pyruvate dehydrogenase complex |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (8/12); total (8/12) |
ACCCAGGAAGACGTGCAGGGCTACGTCAAGGGCGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGTTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCAACTGGGTCATGATCCCGCACGTCACCAACCATGACGAAGCGGACAT > AM260479/1493187‑1493434
|
aCCCAGGAAGACGTGCAGGGCTACGTCAAGGGCGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCg > 2:649648/1‑134 (MQ=255)
cAGGGCTACGTCAAGGGCGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCg < 1:693569/133‑1 (MQ=255)
cAGGGCTACGTCAAGGGCGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGa < 2:495774/134‑1 (MQ=255)
aGGGCTACGTCAAGGGCGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGa > 1:271872/1‑133 (MQ=255)
aGGGCTACGTCAAGGGCGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGa > 2:668008/1‑133 (MQ=255)
aGGGCTACGTCAAGGGCGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTCCACCCGCTTCGGCGAGGTCGaa < 1:914721/134‑1 (MQ=255)
cGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGc < 1:142249/121‑1 (MQ=255)
cGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGc > 2:142249/1‑121 (MQ=255)
cGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTcgc < 1:456917/134‑1 (MQ=255)
gaGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATc > 2:886462/1‑133 (MQ=255)
cacaGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTg < 1:668008/134‑1 (MQ=255)
gccgccGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCg < 2:727636/134‑1 (MQ=255)
cgccgcGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCa < 1:649648/134‑1 (MQ=255)
gcgcCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCg < 1:970925/121‑1 (MQ=255)
gcgcCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCg > 2:970925/1‑121 (MQ=255)
cGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCAACTGGGTCATGATcc < 2:271872/134‑1 (MQ=255)
cGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCAACTGGGTCATGATcc < 1:42915/134‑1 (MQ=255)
gCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCAACTGGGTCATGATCCCGCACGt < 2:1074713/133‑1 (MQ=255)
ctgcCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCAACTGGGTCATGATCCCGCACGTCACCAACCATGACg > 1:234736/1‑133 (MQ=255)
cGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCAACTGGGTCATGATCCCGCACGTCACCAACCATGACGAAGCGGACAt > 2:1105212/1‑133 (MQ=255)
|
ACCCAGGAAGACGTGCAGGGCTACGTCAAGGGCGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGTTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCAACTGGGTCATGATCCCGCACGTCACCAACCATGACGAAGCGGACAT > AM260479/1493187‑1493434
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CACCGGCCCCAAGGGCCGTATCACCCAGGAAGACGTGCAGGGCTACGTCAAGGGCGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGTTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCAACTGGGTCATGATCCCGCACGTCACCAACCATGACGAAGCGGACATCACCGAGCTGGAAGC > AM260479/1493165‑1493449
|
cgagtgtctcgtgggctcggagatgtgtataagagacagGGGCTACGTCAAGGGCGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTT < GWNJ‑0478:712:GW2002102894th:2:2207:11886:8335/111‑1 (MQ=60)
CCCAGGAAGACGTGCAGGGCTACGTCAAGGGCGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAA > GWNJ‑0478:712:GW2002102894th:2:1116:15318:18902/1‑149 (MQ=60)
GCAGGGCTACGTCAAGGGCGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGT < GWNJ‑0478:712:GW2002102894th:2:2106:20856:82584/149‑1 (MQ=60)
CAGGGCTACGTCAAGGGCGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTCCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCG < GWNJ‑0478:712:GW2002102894th:2:2202:17815:82781/150‑1 (MQ=60)
GGCTACGTCAAGGGCGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGC < GWNJ‑0478:712:GW2002102894th:2:1109:2908:52199/150‑1 (MQ=60)
ggccgagctcgccaccaccggcgccaGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCA > GWNJ‑0478:712:GW2002102894th:2:2212:16567:75096/27‑147 (MQ=60)
GCGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCT < GWNJ‑0478:712:GW2002102894th:2:1211:12440:85881/150‑1 (MQ=60)
GCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCAACTGGGTC < GWNJ‑0478:712:GW2002102894th:2:2107:17404:30844/150‑1 (MQ=60)
gcgggCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCAACTGGGTCATGAT < GWNJ‑0478:712:GW2002102894th:2:2206:2899:9910/144‑1 (MQ=60)
CCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCAACTGGGTCATGATCC < GWNJ‑0478:712:GW2002102894th:2:2104:14086:19594/150‑1 (MQ=60)
CCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCAACTGGGTCATGATCCCGCACGTCACCAACC < GWNJ‑0478:712:GW2002102894th:2:1105:19368:67932/150‑1 (MQ=60)
GGCGAGCTCGGCCTGCTGCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCAACTGGGTCATGATCCCGCACGTCACCAACCATGACGA > GWNJ‑0478:712:GW2002102894th:2:1115:5329:33908/1‑149 (MQ=60)
GCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCAACTGGGTCATGATCCCGCACGTCACCAACCATGACGAAGCGGACATCACCGAGCT > GWNJ‑0478:712:GW2002102894th:2:2211:14364:74950/1‑150 (MQ=60)
GCCGTGGCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCAACTGGGTCATGATCCCGCACGTCACCAACCATGACGAAGCGGACATCACCGAGCT > GWNJ‑0478:712:GW2002102894th:2:2214:19280:26702/1‑150 (MQ=60)
GCCGAAGGTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCAACTGGGTCATGATCCtgtctcttatacacatctccgagcccacgagacactcgctaatctc > GWNJ‑0478:712:GW2002102894th:2:1211:11746:37895/1‑104 (MQ=60)
|
CACCGGCCCCAAGGGCCGTATCACCCAGGAAGACGTGCAGGGCTACGTCAAGGGCGTGATGAGCGGCCAGGCCGCCGCGCCCGCACAGGCCGCCGCGGCTGGCGCCGGTGGTGGCGAGCTCGGCCTGCTGCCGTGGCCGAAGTTCGATTTCACCCGCTTCGGCGAGGTCGAAAGCAAGGCCCTGTCGCGCATCAAGAAGATCTCGGGTGCCAACCTGCACCGCAACTGGGTCATGATCCCGCACGTCACCAACCATGACGAAGCGGACATCACCGAGCTGGAAGC > AM260479/1493165‑1493449
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
