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 F103 I0 R1
|
47 |
31.6 |
1360022 |
90.3% |
1228099 |
142.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
1,559,325 |
C→A |
21.6% |
A196S (GCG→TCG) |
ddpC ← |
putative D,D‑dipeptide ABC transporter membrane subunit DdpC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,559,325 | 0 | C | A | 21.6%
| 37.1
/ 10.3
| 28 | A196S (GCG→TCG) | ddpC | putative D,D‑dipeptide ABC transporter membrane subunit DdpC |
| Reads supporting (aligned to +/- strand): ref base C (7/15); new base A (4/2); total (11/17) |
| Fisher's exact test for biased strand distribution p-value = 1.74e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.83e-01 |
GTTGAGCACCCAGGCCAATAAATCCCAACGTGGCGGCCATTAAAATCGCGCTACCGATATCCAGCGATGCCTGCACGATCAGCGGCGGTAGGGAGTTACGTAAAATATGCCAGTTGATCAGATGCCAACGAGACGCGCCAAAGGTTTTCGCCGCCTGAACATAGGTATACTGGCGTACAACTAATGCTTGCCCCCGCGCCAGGCGCACATAAAAGGGAATTCGCACAATAGCAATAGCCAGCATGGCGTTAAACAAACTCGGCCCGAGAGCGGCAGC > NC_000913/1559190‑1559466
|
gtttcgCACCCAGGCCAATAAGTGCTGTTGTGGCGGCCATTAGAACCGCGCTAGCGATGCCCAGCGATGCCTGCACGATCAGCGGCGGTAGGGAGTTACGTAAAATAGGCCAGTTGATCAGATGCCAACGAGACGCGCCAAAg < 2:650754/138‑1 (MQ=255)
ttgAGCACCCACGCCACTAACTCCCGACGTCTCGGCCATTAAAATCGCGCTACCGATATCCAGCGATTCCTGCACGATCAGCGGCGGTAGGGAGTTACGTAAAATATGCCAGTTGATCAGATGCCAACGAGACGCGCCAAAgg < 2:164861/143‑1 (MQ=255)
gAGCCCCCAGGCCCATAGATCCCCACGTGGCGGCCATTAAAATCGCGCTACCGATATCCAGCGATGCCTGCACGATCAGCGGCGGTAGGGAGTTACGTAAAATATGCCAGTTGATCAGATGCCAACGAGACGCGCCAAAGGtt < 2:154749/143‑1 (MQ=255)
cACCCAGGCCAATAAATCCCAACGTGGCGGCCATTAAAATCGCGCTACCGATATCCAGCGATGGCTGCACGATCAGCGGCGGTAGGGAGTTACGTAAAATATGCCAGTTGATCAGATGCCAACGAGACGCGCCAAAGGTTTTc < 1:427279/143‑1 (MQ=255)
aCCCAGGCCAATAAATCCCAACGTGGCGGCCATTAAAATCGCGCTACCGATATCCAGCGATGCCTGCACGATCAGCGGCGGTAGGGAGTTACGTAAAATATGCCAGTTGATCAGATGCCAACGAGACGAGCCAAAGGTTTTcg > 1:592416/1‑143 (MQ=255)
aCCCAGGCCAATAAATCCCAACGTGGCGGCCATTAAAATCGCGCTACCGATATCCAGCGATGCCTGCACGATCAGCGGCGGTAGGGAGTTACGTAAAATATGCCAGTTGATCAGATGCCAACGAGACGAGCCAAAGGTTTTcg > 1:594108/1‑143 (MQ=255)
cAGGCCAATAAATCCCAACGTGGCGGCCATTAAAATCGCGCTACCGATATCCCGCGCTGCCTGCACGGTCCGCGGCGGTAGGGAGTTACGTCAAATATGCCAGTTGATCAGACGCCACCGCGACGCGCCCACGGCTTccgccg > 2:625654/1‑143 (MQ=255)
aaTAAATCCCAACGTGGCGGCCATTAAAATCGCGCTACCGATATCCAGCGATGCCTGCACGATCAGCGGCGGTAGGGAGTTACGTAAAATATGCCAGTTGATCAGATGCCAACGAGACGCGCCGAAGGCTTTCGCCCCCGGaa > 2:220783/1‑143 (MQ=255)
aaTAAATCCCAACGTGGCGGCCATTAAAATCGCGCTACCGATATCCAGCGATGCCTGCACGATCAGCGGCGGTAGGGAGTTACGTAAAATATGCCAGTTGATCAGATGCCAACGAGACGAGCCAAAGGTTTTCGCCGCCTGaa > 1:222765/1‑143 (MQ=255)
tCCCAACGTGGCGGCCATTAAAATCGCGCTACCGGTATCCCGCGATGCCTGCACGAGCAGCGGCGGTAGGGAGTTACGTAAAATATGCCAGTTGATCAGATGCCAACGAGACGCGCCAAAGGTTTTCGCCGCCTGAACATAgg < 2:404346/143‑1 (MQ=255)
gctaTTCAAATCGCGCTACCGATCTCCACCGATGCCTGCACGATCAGCGGCGGTAGGGAGTTACGTAAAATACGCCAGTTGATCAGATGCCAACGAGACGCGCCAAAGGTTTTCGCCGCCTGAACATAGGTATACTGGCGTAc < 1:457847/140‑1 (MQ=255)
cATTAAAATCGCGCTACCGATCTCCAGCGATGCCTGCACGAGCAGCGGCGGTAGGGAGTTACGTAAAATAGGCCAGTTGATCAGATGCCAACGAGACGCGCCAAAGGTTTTCGCCGCCTGAACATAGGTATACTGGCGTACaa < 2:231237/143‑1 (MQ=255)
aaaaTGGCGCTCCAGTGATCCAGCGATGCCTGCACGATCAGCGGCGGTAGGAAGTTACGTAACATATGCCAGTTGATCAGATGCCAACGAGACGCGCCAAAGGTTTTCGCCGCCTGAACATAGGTATACTGGCGTACAACTaa < 2:294445/143‑1 (MQ=255)
aTCGCGCTACCGATATCCAGCGATGCCTGCACGATCAGCGGCGGTAGGGAGCTCCGTAAAATATGCCAGTTGATCAGATGCCAACGAGACGCGCCAAAGGTTTTCGCCGCCTGGACATAGGTATACTGGCGTACAACTAATGc > 1:651417/1‑143 (MQ=255)
tCGCGCTACCGATATCCAGCGATGCCTGCACGATCAGCGGCGGTAGGGAGTTACGTAACATATGCCAGTTGATCAGATGCCAACGAGACGCGCCCAAGGTCTTCGGCGCCCGCACATAGGTACACTGGCGCCCAACCAATGcc > 2:570368/1‑142 (MQ=255)
tGCACGATCAGCGGCGGTAGGGCGTTACGTAAAATATGCCAGTTGATCAGCTGCCAACGAGACGCGCCAAAGGTTTTCGCCGCCTGAAAAAAGGGATCCTGGCGTACCACTAATGCTTCACCCCGCGCCCGGCACACATcaaa > 2:445092/1‑143 (MQ=255)
cGATCAGCGGCGGTAGGGAGTTACGTAAAATATGCCAGTTGATCAGATGCCAACGAGACGAGCCAAAGGTTTTCGCCGCCTGAACATAGGTATACTGGCGTACAACTAATGCTTGCCCCCGCGCCAGGCGCACATAAAAGGGa < 1:658138/143‑1 (MQ=255)
gcggcgGTAGGCAGTTACGTAAAATATGCCAGTTGATCAGAGGCCAACGGTACGCGCCAAAGGGTTTCGCCGCCTGAACATAGGTATACTGGCGTACAACTAATGCTTGCCCCCGCGCCAGGCGCACATAAAAGGGAATTCGc < 2:77444/143‑1 (MQ=255)
cggTAGGGAGTTACGTAAAATATGCCAGTTGATCAGCTGCCAACGAGACGCGCCAAAGGTTTTCGCCGCCTGCACATAGGTATACTGGCGTACGACTAATGCTTGCCCCCGCGCCAGGCGCACATAAAAGGGAATTCGCAcaa > 1:176434/1‑143 (MQ=255)
ggAGTTACGTAAAATATGCGAGTTGATCAGATGCCAACGAGACGAGCCAAAGGTTTTCGCCGCCTGAACATAGGTATACTGGCGTACAACTAATGCTTGCCCCCGCGCCAGGCGCACATAAAAGGGAATTCGCAcaatagcaa < 1:505082/143‑1 (MQ=255)
aCGTAAAATATGCCAGTGGATCAGATGCCAACGAGACGCGCCAAAGGTTTTCGCCGCCTGAACATAGGTATACTGGCGTACAACTAATGCTTGCCCCCGCGCCAGGCGCACATAAAAGGGAATTCGCACAATAGCAATAGCCa < 2:171675/143‑1 (MQ=255)
cGTAAAATATGCCAGTTGATCAGATGCCAACGAGACGCGCCAAAGGTTTTCGCCGCCTGAACATAGGTATACTGGCGTACAACTAATGCTTGCCCCCGCGCCAGGCGCACATAAAAGGGAATTCGCACAATAGCAATAGCCAg < 1:567384/143‑1 (MQ=255)
tGCCAGTTGATCAGATGCCAACGAGACGCGCCAAAGGACTTCGCCGCCTGAACATAGCTATACCGGCGTACAACTAATGCTCGCCCCCGCGCCAGGCGGACAGGCAAGAGAACACGCACCACCGCCAGAGCCAGCACggggca > 2:64465/1‑139 (MQ=255)
gCCTGTGGATCAGAGGCCGACGAGACGCGCCAAAGGTTTTCGCCGCCTGAACATAGGTATACTGGCGTACAACTAATGCTTGCCCCCGCGCCAGGCGCACATAAAAGGGAATTCGCACAATAGCAATAGCCAGCATGGCGTTa < 2:71254/143‑1 (MQ=255)
gCCAGTTGATCAGATGCCAACGAGACGAGCCAAAGGTTTTCGCCGCCTGAACATAGGTATACTGGCGTACAACTAAAGAGCATTCTTCGGCCAGGCGCACATAAAAGGGAATTCGCACAATAGCAATCGCCAGCATGGCGGTa > 1:494796/1‑143 (MQ=255)
gATCAGAGGCCAACGAGACGCGCCAAAGGTTTTCGCCGCCTGAACATAGGTATACTGGCGTACAACTAATGCTTGCCCCCGCGCCAGGCGCACATAAAAGGGAATTCGCACAATAGCAATAGCCAGCATGGCGTTaaacaaac < 2:513136/143‑1 (MQ=255)
tccgATGCCACCGAGACGCGCCAAAGGTGTTCGCCGCCTGAACATAGGTATACTGGCGTACAACTAATGCTTGCCCCCGCGCCAGGCGCACATAAAAGGGAATTCGCACAATAGCAATAGCCAGCATGGCGTTAAACAAACTc < 1:635372/140‑1 (MQ=255)
cgagtccAAGGATACGCGCCAAAGTCTGTCGCCGCCTGAACATAGGTATACTGGCGTACAACTAATGCTTGCCCCCGCGCCAGGCGCACATAAAAGGGAATTCGCACAATAGCAATAGCCAGCATGGCGTTAAACAAACTCgg < 1:668954/138‑1 (MQ=255)
gcgcCAAAGGTTTTCGCCGCCTGAACATAGGTATACTGGCGTACAACTAATGCTTGCCCCCGCGCCAGGCGCACATAAAAGGGAATTCGCACAATAGCAATCGCCAGCATGGCGTTACACAAACTCGGCCCGAGACCGCCAGc > 2:124802/1‑143 (MQ=255)
|
GTTGAGCACCCAGGCCAATAAATCCCAACGTGGCGGCCATTAAAATCGCGCTACCGATATCCAGCGATGCCTGCACGATCAGCGGCGGTAGGGAGTTACGTAAAATATGCCAGTTGATCAGATGCCAACGAGACGCGCCAAAGGTTTTCGCCGCCTGAACATAGGTATACTGGCGTACAACTAATGCTTGCCCCCGCGCCAGGCGCACATAAAAGGGAATTCGCACAATAGCAATAGCCAGCATGGCGTTAAACAAACTCGGCCCGAGAGCGGCAGC > NC_000913/1559190‑1559466
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
