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 |
|
A4 F1 I2 R1
|
67 |
32.5 |
1435938 |
95.9% |
1377064 |
112.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,457,094 |
A→G |
I240V (ATC→GTC) |
gspD → |
general secretory pathway component, cryptic |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,457,094 | 0 | A | G | 100.0%
| 96.1
/ NA
| 26 | I240V (ATC→GTC) | gspD | general secretory pathway component, cryptic |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (12/14); total (12/14) |
AGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTATCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGG > NC_000913/3456985‑3457220
|
aGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAg < 1:378431/139‑1 (MQ=255)
aGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAg < 2:678284/139‑1 (MQ=255)
gCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCa < 1:620618/139‑1 (MQ=255)
cAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGaaaa > 1:510026/1‑139 (MQ=255)
aTTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGc > 1:10817/1‑139 (MQ=255)
ttAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGcc > 2:239895/1‑139 (MQ=255)
tAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCt < 1:239895/139‑1 (MQ=255)
cGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGa > 1:297454/1‑93 (MQ=255)
cGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGa < 2:297454/93‑1 (MQ=255)
cGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTg > 1:121708/1‑134 (MQ=255)
cGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTg < 2:121708/134‑1 (MQ=255)
agaGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGa < 1:471299/137‑1 (MQ=255)
aTGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATa > 2:549291/1‑139 (MQ=255)
aTGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATa > 1:71936/1‑139 (MQ=255)
tcctcTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTtta < 2:10817/139‑1 (MQ=255)
cctcTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTttat < 2:122115/139‑1 (MQ=255)
cgcgAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCAt < 2:78680/72‑1 (MQ=255)
cgcgAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCAt > 1:78680/1‑72 (MQ=255)
cgAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGaa > 2:487220/1‑139 (MQ=255)
cgAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGaa < 2:71936/139‑1 (MQ=255)
aTAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCAc > 1:576703/1‑139 (MQ=255)
tAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATAcc > 2:439996/1‑106 (MQ=255)
tAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATAcc < 1:439996/106‑1 (MQ=255)
aCCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCtgg < 1:549291/139‑1 (MQ=255)
cAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAgcg < 2:81509/42‑1 (MQ=255)
cAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAgcg > 1:81509/1‑42 (MQ=255)
|
AGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTATCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGG > NC_000913/3456985‑3457220
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
