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 |
|
A7 F1 I1 R1
|
776 |
60.0 |
3074904 |
90.1% |
2770488 |
104.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,796,146 |
C→T |
A158V (GCG→GTG) |
csiR → |
transcriptional repressor of csiD |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,796,146 | 0 | C | T | 100.0%
| 116.8
/ NA
| 37 | A158V (GCG→GTG) | csiR | transcriptional repressor of csiD |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (18/19); total (18/19) |
TGTGACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGCGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCGCGC > NC_000913/2796022‑2796262
|
tgtgACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTggtggc > 2:817942/1‑128 (MQ=255)
tgtgACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTggtggc < 1:817942/128‑1 (MQ=255)
gtgACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGTGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGtt > 2:666444/1‑132 (MQ=255)
gtgACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGTGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGtt < 1:666444/132‑1 (MQ=255)
gtgACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGAtt > 2:146944/1‑139 (MQ=255)
gCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACg < 1:146944/139‑1 (MQ=255)
cTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTTTCTGGCTGCGGCGAACgg > 1:475987/1‑139 (MQ=255)
ttccttcttatcaGGTTTTTAATACGGGAATTGTGGGCGGCTGGCTTTCTTCGTATTTGCTGCAAACGCGTGAACGGTTGTTCGATCTGGTGGAGCGTTATAGATTTATCTGGATGCGGAGAACGGTGCATTCGGTGGa < 2:475987/130‑1 (MQ=255)
cGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGTTGCGGCGAACGGTGCTTTCGGTGGAAATGc > 1:136696/1‑139 (MQ=255)
tcatcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTg < 2:1387419/139‑1 (MQ=255)
tttCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAac > 2:1141823/1‑139 (MQ=255)
cATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACg > 2:1374590/1‑139 (MQ=255)
aTACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTAt > 1:1104117/1‑80 (MQ=255)
aTACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTAt < 2:1104117/80‑1 (MQ=255)
aCGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATc < 1:1225547/139‑1 (MQ=255)
gCAATTGTGGCGGGCTGTGGTTCTCACTATTTGTTGCAAATTCGTGAACGGTTGTTTGATCTGGTGGTGCGTTATCGTTTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAGATGCTTGAGGGTGAATACGTTctac > 2:349249/1‑136 (MQ=255)
aaTTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCAc < 1:1374590/139‑1 (MQ=255)
tgGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGAc < 2:856135/139‑1 (MQ=255)
gCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCTCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGAc < 1:816979/139‑1 (MQ=255)
cTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATGTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGAt < 1:1535302/121‑1 (MQ=255)
cTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATGTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGAt > 2:1535302/1‑121 (MQ=255)
cACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTgcg > 1:1452986/1‑68 (MQ=255)
cACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTgcg < 2:1452986/68‑1 (MQ=255)
aCTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGTTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACt < 2:136696/139‑1 (MQ=255)
aCTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACt < 2:66273/139‑1 (MQ=255)
tttGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGa > 2:1336896/1‑122 (MQ=255)
tttGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGa < 1:1336896/122‑1 (MQ=255)
gctgcAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTgg > 1:745240/1‑55 (MQ=255)
gctgcAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTgg < 2:745240/55‑1 (MQ=255)
gcAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGAt > 1:1042856/1‑139 (MQ=255)
gcAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGAt > 2:159211/1‑139 (MQ=255)
aaaTGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGAt > 2:509648/1‑98 (MQ=255)
aaaTGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGAt < 1:509648/98‑1 (MQ=255)
aTGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTAt < 2:469152/44‑1 (MQ=255)
aTGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTAt > 1:469152/1‑44 (MQ=255)
ttgttTGATCTGGTGGCGCGTTATCGATTTATCTGGCt < 1:904969/38‑1 (MQ=255)
ttgttTGATCTGGTGGCGCGTTATCGATTTATCTGGCt > 2:904969/1‑38 (MQ=255)
tCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGaa > 1:836488/1‑38 (MQ=255)
tCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGaa < 2:836488/38‑1 (MQ=255)
tggtggCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTgg < 2:3647/51‑1 (MQ=255)
tggtggCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACcgcgc < 2:417493/120‑1 (MQ=255)
|
TGTGACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGCGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCGCGC > NC_000913/2796022‑2796262
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
