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 |
|
A11 F56 I1 R1
|
155 |
65.2 |
3164312 |
95.9% |
3034575 |
99.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,150,120 |
T→C |
F153F (TTT→TTC) |
yghA → |
putative oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,150,120 | 0 | T | C | 92.5%
| 161.8
/ 1.1
| 53 | F153F (TTT→TTC) | yghA | putative oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base T (2/2); new base C (20/29); total (22/31) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGCGCACAAGGCGTTAGGCGGGCTGGATATTATGGCGCTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTTCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCGAAAGGTGCAAGTATCATCACCACTTCG > NC_000913/3150024‑3150216
|
aGCGCACAAGGCGTTAGGCGGGCTGGATATTATGGCGCTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCaa > 2:886530/1‑100 (MQ=255)
aGCGCACAAGGCGTTAGGCGGGCTGGATATAATGGCGCTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCaa > 1:430008/1‑100 (MQ=255)
gcgaACAATGCGTTAGGCGGGCTGGATATTATGGCGCTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCaaa < 2:413170/100‑1 (MQ=255)
cacaAGGCGTTAGGCGGGCTGGATATTATGGCGCTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGa < 2:187860/100‑1 (MQ=255)
cacaAGGCGTTAGGCGGGCTGGATATTATGGCGCTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGa > 1:1461200/1‑100 (MQ=255)
cGTTAGGCGGGCTGGATATTATGGCGCTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGc > 1:1143935/1‑100 (MQ=255)
gTTAGGCGGGCTGGATATTATGGCGCTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGcc < 2:45974/100‑1 (MQ=255)
aGGCGGGCTGGATATTATGGCGCTGGTCGCCAGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCAtt < 1:345348/100‑1 (MQ=255)
gATATTATGGCGCTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTcg < 2:1575870/100‑1 (MQ=255)
tattatGGCGCTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTcgcg < 1:1025520/100‑1 (MQ=255)
tattatGGCGCTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTcgcg > 1:1187727/1‑100 (MQ=255)
attatGGCGCTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCgcgc > 2:753233/1‑100 (MQ=255)
gcgcTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCt < 2:1329401/100‑1 (MQ=255)
gcgcTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCt < 2:1006332/100‑1 (MQ=255)
cgcTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTg < 1:1015630/100‑1 (MQ=255)
cgcTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTg < 2:835708/100‑1 (MQ=255)
cTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGc < 1:1234772/100‑1 (MQ=255)
tGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTTCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCt < 2:208048/100‑1 (MQ=255)
ggTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTTCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTa > 1:208048/1‑100 (MQ=255)
gTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTaa > 1:1334306/1‑100 (MQ=255)
tCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAAc < 2:1355503/100‑1 (MQ=255)
gCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAAccc > 2:61694/1‑100 (MQ=255)
cGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCa > 1:506307/1‑99 (MQ=255)
gggAAACGGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAgg < 2:468863/100‑1 (MQ=255)
gggAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCGTTAACGTTTTCGCGCTGTTCTGGCTAACCCAgg < 2:1501276/100‑1 (MQ=255)
gggAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAgg < 2:418651/100‑1 (MQ=255)
gggAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAgg < 2:1501933/100‑1 (MQ=255)
aaaCAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAg > 2:258892/1‑100 (MQ=255)
gCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATcccct > 2:515325/1‑99 (MQ=255)
gCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATccccc < 1:1125249/100‑1 (MQ=255)
ccATTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCt > 2:776429/1‑100 (MQ=255)
aTTCCGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGc < 2:1218951/100‑1 (MQ=255)
tCCGGATATTGCAGACCTCTCCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGc < 2:1218432/98‑1 (MQ=255)
ccGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTAc < 2:1143930/100‑1 (MQ=255)
cGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTAcc < 1:100559/100‑1 (MQ=255)
cGGATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTAcc > 1:1343088/1‑100 (MQ=255)
ggATATTGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCg > 1:587362/1‑100 (MQ=255)
tGCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCGAAAGGt > 2:1255787/1‑100 (MQ=255)
gCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCGAAAGGTg > 1:675151/1‑100 (MQ=255)
gCAGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCGAAAGGTg < 1:886535/100‑1 (MQ=255)
aGACCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCGAAAGGTGCa < 2:14068/100‑1 (MQ=255)
aCCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCGAAAGGTGCAAg < 2:1432340/100‑1 (MQ=255)
aCCTCACCAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCGAAAGGTGCAAg < 1:61694/100‑1 (MQ=255)
ccAGCGAACAGTTTCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCGAAAGGTGCAAGTatcat > 2:1536735/1‑100 (MQ=255)
cAGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCGAAAGGTGCAAGTatcatc < 1:246478/100‑1 (MQ=255)
aGCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCGAAAGGTGCAAGTAtcatca > 1:670610/1‑100 (MQ=255)
gCGAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCGAAAGGTGCAAGTATCATcac < 1:1272898/100‑1 (MQ=255)
cgtaCAGTTTCGAAAGACCTTTGCCAGTAACGTTTTCGCGCTGTTCTGGCTATCCCAGGAAGCGATCCCCCTGCTACCGAAAGGTGCAAGTATCATcacc < 2:1098955/97‑1 (MQ=255)
gAACAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCGAAAGGTGCAAGTATCATcacca > 1:199360/1‑100 (MQ=255)
aaCAGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCGAAAGGTGCAAGTATCATcaccac < 1:1271557/100‑1 (MQ=255)
aGTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCGAAAGGTGCAAGTATCATCACCACTTc < 2:67807/100‑1 (MQ=255)
gTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCGAAAGGTGCAAGTATCATCACCACTTCg > 2:128472/1‑100 (MQ=255)
gTTCCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCGAAAGGTGCAAGTATCATCACCACTTCg > 1:1298088/1‑100 (MQ=255)
|
AGCGCACAAGGCGTTAGGCGGGCTGGATATTATGGCGCTGGTCGCCGGGAAACAGGTTGCCATTCCGGATATTGCAGACCTCACCAGCGAACAGTTTCAAAAGACCTTTGCCATTAACGTTTTCGCGCTGTTCTGGCTAACCCAGGAAGCGATCCCCCTGCTACCGAAAGGTGCAAGTATCATCACCACTTCG > NC_000913/3150024‑3150216
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
