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 |
|
A1 F41 I0 R1
|
212 |
10.4 |
395026 |
92.3% |
364608 |
148.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP009273 |
8,372 |
T→C |
47.6% |
I45I (ATT→ATC) |
talB → |
transaldolase B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP009273 | 8,372 | 0 | T | C | 47.6%
| ‑2.4
/ 27.1
| 21 | I45I (ATT→ATC) | talB | transaldolase B |
| Reads supporting (aligned to +/- strand): ref base T (7/4); new base C (5/5); total (12/9) |
| Fisher's exact test for biased strand distribution p-value = 6.70e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.69e-01 |
AATACTATCATGACGGACAAATTGACCTCCCTTCGTCAGTACACCACCGTAGTGGCCGACACTGGGGACATCGCGGCAATGAAGCTGTATCAACCGCAGGATGCCACAACCAACCCTTCTCTCATTCTTAACGCAGCGCAGATTCCGGAATACCGTAAGTTGATTGATGATGCTGTCGCCTGGGCGAAACAGCAGAGCAACGATCGCGCGCAGCAGATCGTGGACGCGACCGACAAACTGGCAGTAAATATTGGTCTGGAAATCCTGAAACTGGTTCCGGGCCG > CP009273/8229‑8512
|
aaTACTATCATGACGGACAAATTGACCTCCCTTCGTCAGTACACCACCGTAGTGGCCGACACTGGGGACATCGCGGCAATGAAGCTGTATCAACCGCAGGATGCCACAACCAACCCTTCTCTCATTCTTAACGCAGCGCAGATTCCGGaa > 2:41101/1‑150 (MQ=255)
tATCATGACGGACAAATTGACCTCCCTTCGTCAGTACACCACCGTAGTGGCCGACACTGGGGACATCGCGGCAATGAAGCTGTATCAACCGCAGGATGCCACAACCAACCCTTCTCTCATTCTTAACGCAGCGCAGATTCCGGAATACCg > 1:149455/1‑150 (MQ=255)
aaTGACGGATAAATTAACTTCTCTGCGTCAGTACACCACTGTCGTCGCTGACACCGGAGATATTGCGGCAATGAAGCTGTATCAGCCTCAGGATGCCACCACTAACCCTTCCCTGATTCTCGGCGCGGCTCAGATCCCTGAGTACCGt > 1:183315/2‑148 (MQ=255)
tGACGGATAAATTAACTTCTCTGCGTCAGTACACCACTGTCGTCGCTGACACCGGAGATATTGCGGCAATGAAGCTGTATCAGCCTCAGGATGCCACCACTAACCCTTCCCTGATTCTCGGCGCGGCTCAGATCCCTGAGTACCGTAAgc < 2:59430/150‑2 (MQ=255)
aCGGACAAATTGACCTCCCTTCGTCAGTACACCACCGTAGTGGCCGACACTGGGGACATCGCGGCAATGAAGCTGTATCAACCGCAGGATGCCACAACCAACCCTTCTCTCATTCTTAACGCAGCGCAGATTCCGGAATACCGTAAGttg > 1:97702/1‑150 (MQ=255)
aCGGACAAATTGACCTCCCTTCGTCAGTACACCACCGTAGTGGCCGACACTGGGGACATCGCGGCAATGAAGCTGTATCAACCGCAGGATGCCACAACCAACCCTTCTCTCATTCTTAACGCAGCGCAGATTCCGGAATACCGTAAGtt > 1:166783/1‑149 (MQ=255)
ggATAAATTAACTTCTCTGCGTCAGTACACCACTGTCGTCGCTGACACCGGAGATATTGCGGCAATGAAGCTGTATCAGCCTCAGGATGCCACCACTAACCCTTCCCTGATTCTCGGCGCGGCTCAGATCCCTGAGTACCGTAAGctgat < 1:155216/150‑1 (MQ=255)
ttGACCTCCCTTCGTCAGTACACCACCGTAGTGGCCGACACTGGGGACATCGCGGCAATGAAGCTGTATCAACCGCAGGATGCCACAACCAACCCTTCTCTCATTCTTAACGCAGCGCAGATTCCGGAATACCGTAAGTTGATTgatgat < 2:166783/150‑1 (MQ=255)
cTTCGTCAGTACACCACCGTAGTGGCCGACACTGGGGACATCGCGGCAATGAAGCTGTATCAACCGCAGGATGCCACAACCAACCCTTCTCTCATTCTTAACGCAGCGCAGATTCCGGAATACCGTAAGTTGATTGATGATGCTGTCGcc > 1:24705/1‑150 (MQ=255)
cGTCAGTACACCACCGTAGTGGCCGACACTGGGGACATCGCGGCAATGAAGCTGTATCAACCGCAGGATGCCACAACCAACCCTTCTCTCATTCTTAACGCAGCGCAGATTCCGGAATACCGTAAGTTGATTGATGATGCTGTCGCCt < 1:41101/148‑1 (MQ=255)
gcgGCAATGAAGCTGTATCAGCCTCAGGATGCCACCACTAACCCTTCCCTGATTCTCGGCGCGGCTCAGATCCCTGAGTACCGTAAGCTGATTGACGACGCTGTCGCCTGGGCTCGTAGCCAGAGCAGCGATCGCGCGCAGCAGATcctc > 2:42749/1‑147 (MQ=255)
cAATGAAGCTGTATCAGCCTCAGGATGCCACCACTAACCCTTCCCTGATTCTCGGCGCGGCTCAGATCCCTGAGTACCGTAAGCTGATTGACGACGCTGTCGCCTGGGCTCGTAGCCAGAGCAGCGATCGCGCGCAGCAGATcctcgatg > 1:46430/1‑143 (MQ=255)
aaTGAAGCTGTATCAACCGCAGGATGCCACAACCAACCCTTCTCTCATTCTTAACGCAGCGCAGATTCCGAAATACCGTAAGTTGATTGATGATGCTGTCGCCTGGGCGAAACAGCAGAGCAACGATCGCGCGCAGCAGATCGTGGAcgc > 2:126440/1‑150 (MQ=255)
gCAGGATGCCACAACCAACCCTTCTCTCATTCTTAACGCAGCGCAGATTCCGGAATACCGTAAGTTGATTGATGATGCTGTCGCCTGGGCGAAACAGCAGAGCAACGATCGCGCGCAGCAGATCGTGGACGCGACCGACAAACTGGCAg > 1:145049/1‑149 (MQ=255)
cAGGATGCCACCACTAACCCTTCCCTGATTCTCGGCGCGGCTCAGATCCCTGAGTACCGTAAGCTGATTGACGACGCTGTCGCCTGGGCTCGTAGCCAGAGCAGCGATCGCGCGCAGCAGATCCTCGATGCTTCCGATAAGCTGGCGGt > 1:102498/1‑149 (MQ=255)
ggATGCCACAACCAACCCTTCTCTCATGCTTAACGCAGCGCAGATTCCGGAATACCGTAAGTTGATTGATGATGCTGTCGCCTGGGCGAAACAGCAGAGCAACGATCGCGCGCAGCAGATCGTGGACGCGACCGACAAACTGGCAGTaaa < 2:97702/150‑1 (MQ=255)
ctaaccCTTCCCTGATTCTCGGCGCGGCTCAGATCCCTGAGTACCGTAAGCTGATTGACGACGCTGTCGCCTGGGCTCGTAGCCAGAGCAGCGATCGCGCGCAGCAGATCCTCGATGCTTCCGATAAGCTGGCGGTGAACATCGGTCtcg < 2:183315/148‑3 (MQ=255)
ctcggcgcggctcagATCCCTGAGTACCGTAAGCTGATTGACGACGCTGTCGCCTGGGCTCGTAGCCAGAGCAGCGATCGCGCGCAGCAGATCCTCGATGCTTCCGATAAGCTGGCGGTGAACATCGGTCTCGAAATTCTGAAACTgat < 1:104692/144‑3 (MQ=255)
gcggctcagATCCCTGAGTACCGTAAGCTGATTGACGACGCTGTCGCCTGGGCTCGTAGCCAGAGCAGCGATCGCGCGCAGCAGATCCTCGATGCTTCCGATAAGCTGGCGGTGAACATCGGTCTCGAAATTCTGAAACTGATCCCGGGc > 2:58100/7‑150 (MQ=255)
cggctcagATCCCTGAGTACCGTAAGCTGATTGACGACGCTGTCGCCTGGGCTCGTAGCCAGAGCAGCGATCGCGCGCAGCAGATCCTCGATGCTTCCGATAAGCTGGCGGTGAACATCGGTCTCGAAATTCTGAAACTGATCCCGGGcc < 1:188405/145‑1 (MQ=255)
agcgcagATTCCGGAATACCGTAAGTTGATTGATGATGCTGTCGCCTGGGCGAAACAGCAGAGCAACGATCGCGCGCAGCAGATCGTGGACGCGACCGACAAACTGGCAGTAAATATTGGTCTGGAAATCCTGAAACTGGTTCCGGGCCg < 2:145049/150‑1 (MQ=255)
|
AATACTATCATGACGGACAAATTGACCTCCCTTCGTCAGTACACCACCGTAGTGGCCGACACTGGGGACATCGCGGCAATGAAGCTGTATCAACCGCAGGATGCCACAACCAACCCTTCTCTCATTCTTAACGCAGCGCAGATTCCGGAATACCGTAAGTTGATTGATGATGCTGTCGCCTGGGCGAAACAGCAGAGCAACGATCGCGCGCAGCAGATCGTGGACGCGACCGACAAACTGGCAGTAAATATTGGTCTGGAAATCCTGAAACTGGTTCCGGGCCG > CP009273/8229‑8512
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
