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 F71 I0 R1
|
28 |
19.0 |
797258 |
91.3% |
727896 |
142.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
1,570,512 |
C→T |
100% |
intergenic (‑23/+133) |
gadC ← / ← gadB |
L‑glutamate:4‑aminobutyrate antiporter/glutamate decarboxylase B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,570,512 | 0 | C | T | 80.2%
| 38.3
/ 1.9
| 20 | intergenic (‑23/+133) | gadC/gadB | L‑glutamate:4‑aminobutyrate antiporter/glutamate decarboxylase B |
| Reads supporting (aligned to +/- strand): ref base C (2/2); new base T (13/3); total (15/5) |
| Fisher's exact test for biased strand distribution p-value = 2.49e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
TTGCGAAGGTAGGGTATTCATAAACAGCCATTACCATCGATGCCGTTATGGCAAAGAATCCAAGTAATGTGAGCTGCTTAGCTTTACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGTATTCCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTA > NC_000913/1570381‑1570644
|
ttGCGAAGGTAGGGTATTCATAAACAGCCATTACCATCGATGCCGTTATGGCAAAGAATCCAAGTAATGTGAGCTGCTTAGCTTTACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGTATTTCTGTCGGAAcc > 2:289476/1‑143 (MQ=255)
tAAACAGCCATTACCATCGATGCCGTTATGGCAAAGAATCCAAGTAATGTGAGCTGCTTAGCTTTACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGTATTCCTGTCGGAACCGCACCTGTTTTGTTCTGAAg > 1:369154/1‑143 (MQ=255)
aaaCAGCCATTACCATCGATGCCGTTATGGCAAAGAATCCAAGTAATGTGAGCTGCTTAGCTTTACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGTATTTCTGTCGGAACCGCACCTGTTTTGTTCTGAAGc > 1:276565/1‑143 (MQ=255)
aaCAGCCATTACCATCGATGCCGTTATGGCAAAGAATCCAAGTAATGTGAGCTGCTTAGCTTTACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGTATTTCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCg > 2:158955/1‑143 (MQ=255)
aCAGCCATTACCATCGATGCCGTTATGGCAAAGAATCCAAGTAATGTGAGCTGCTTAGCTTTACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGTATTTCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGt > 1:251752/1‑143 (MQ=255)
aCAGCCATTACCATCGATGCCGTTATGGCAAAGAATCCAAGTAATGTGAGCTGCTTAGCTTTACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGGATTTCTGTCGGAACCGCACCTGTTTTGTTCTGGAGCGt > 1:163841/1‑143 (MQ=255)
tACCCTCGATGCTGTTATTGCAAAGTATCCACGTAATGTGAGCTGCTTAGCTTTACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGTATTTCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGaa < 2:154712/143‑1 (MQ=255)
ctTAGCTTTACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGTATTTCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGACATTGAACAGACATTGGAAATTg > 1:286358/1‑143 (MQ=255)
tttACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGTATTTCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCAGa > 1:391774/1‑143 (MQ=255)
tttACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGTATTCCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTTGAAATTGTCCCGa > 2:244124/1‑143 (MQ=255)
aCTGATGTAGCCATATTATCCCCCTAAAACGGTATTTCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGttt > 1:319584/1‑143 (MQ=255)
tggtgcaGCCATATTATCCCCCTACCACGGTATTCCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATGCAGAGCAATATTGTCCGTTGCTAATGCCAGTGAACGGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCg < 1:144261/137‑1 (MQ=255)
tGATGTAGCCATATTATCCCCCTAAAACGGTATTTCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGTAAATTGTCCCGCAACGGGTCCGTTTCg > 1:178553/1‑143 (MQ=255)
tGATGTAGCCATATTATCCCCCTAAAACGGTATTTCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCg < 1:158955/143‑1 (MQ=255)
aTGTAGCCATATTATCCCCCTAAAACGGTATTTCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCGGAAACGGGTTCGGTTCggg > 2:28860/1‑143 (MQ=255)
ccATATTATCCCCCTAAAACGGTATTTCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGGACAGACTTTCGAAATTGTCCCGAAACGGGTTCGTTTCGGGACaccg > 1:313712/1‑143 (MQ=255)
tCCACCTAAAACGGTCTTTCTGTCGGAACCGCACCTGTTTTGTTCCGAAGCGTATGCAGAACAATCTTTTCCGTTGCTAATGCCAGTCAACAGACTTTGGAAATTGTCCCGACACGGGTTCGTTTAGGGACaccgttaccgct > 2:285737/1‑141 (MQ=255)
cccTCAGACGGTATTTCTGGCGGAACCGCACCTGTTGTGTTCTGAAGCGTATTCAGAACAATAGTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTaaa < 1:348141/143‑1 (MQ=255)
cccTAAAACGGTATTTCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTaaa > 2:163691/1‑143 (MQ=255)
agtcGGGATTCCTGTCGGGACCGCAACTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTa < 1:120412/140‑1 (MQ=255)
|
TTGCGAAGGTAGGGTATTCATAAACAGCCATTACCATCGATGCCGTTATGGCAAAGAATCCAAGTAATGTGAGCTGCTTAGCTTTACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGTATTCCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTA > NC_000913/1570381‑1570644
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
