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 |
|
A12 F56 I1 R1
|
165 |
53.8 |
2611523 |
96.4% |
2517508 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,190,398 |
T→G |
M173R (ATG→AGG) |
yqiH → |
putative periplasmic pilin chaperone |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,190,398 | 0 | T | G | 98.1%
| 177.8
/ NA
| 53 | M173R (ATG→AGG) | yqiH | putative periplasmic pilin chaperone |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base G (21/31); minor base A (0/1); total (21/32) |
| 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 |
CCAAAAGCCATTGAATTAGAAGACGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGATGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTACCACAAACGCAAAGCTTAATGGTAACCCCTTTTAGCTATGCAAA > NC_000913/3190301‑3190494
|
ccAAAAGCCATTGAATTAGAAGACGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGc < 1:646745/100‑1 (MQ=255)
ccAAAAGCCATTGAATTAGAAGACGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGc > 1:958695/1‑100 (MQ=255)
aaGCCATTGAATTAGAAGACGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTa < 2:51932/100‑1 (MQ=255)
gCCATTGAATTAGAAGACGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATc < 1:628980/100‑1 (MQ=255)
gCCATTGAATTAGAAGACGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATc < 1:511498/100‑1 (MQ=255)
aTTGAATTAGAAGACGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACg > 1:223315/1‑100 (MQ=255)
tGAATTAGAAGACGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGtt < 2:140939/100‑1 (MQ=255)
gAATTAGAAGACGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTa > 1:359091/1‑100 (MQ=255)
tAGAAGACGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCt > 2:335221/1‑100 (MQ=255)
tAGAAGACGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCt > 2:112183/1‑100 (MQ=255)
tAGAAGACGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCt > 2:41267/1‑100 (MQ=255)
tAGAAGACGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCt < 1:824368/100‑1 (MQ=255)
agaagaCGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCt < 2:134662/99‑1 (MQ=255)
agaagaCGATGGGGTAATGACTTACGAAAAAGTAGAAATCATTCGTAGAAATGAAGGTTAGATCCGCTTTAACAATAAGAGGCCCTATCACGTTAAGc > 2:443215/1‑98 (MQ=255)
aagaCGATTGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTggg < 2:621087/100‑1 (MQ=255)
aagaCGATGTGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTggg < 2:1273558/100‑1 (MQ=255)
agaCGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGt < 2:359088/100‑1 (MQ=255)
agaCGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGt < 2:25712/100‑1 (MQ=255)
agaCGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGt > 1:1086104/1‑100 (MQ=255)
gaCGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGtt < 1:921974/100‑1 (MQ=255)
aCGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTta < 2:480931/100‑1 (MQ=255)
cGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTta > 1:1020719/1‑99 (MQ=255)
gggTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCgg > 2:49400/1‑100 (MQ=255)
aatAACGACTTACAAACAAGTTGAAATCACTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAAGCCTTATCACCTTACGCTCGGTTATATCgg < 2:286460/97‑1 (MQ=255)
aCTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCAATCCGCTTTAACAATAAGAGGCCTTATCACGGTACGCTGGATTATATCGGAACaaa > 2:1024348/1‑98 (MQ=255)
ttACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATggg < 2:141525/100‑1 (MQ=255)
ttACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATggg < 1:335224/100‑1 (MQ=255)
aCGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGt > 1:510449/1‑100 (MQ=255)
aaaaGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACg < 1:385735/100‑1 (MQ=255)
aGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATg < 2:928381/100‑1 (MQ=255)
aGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATg < 1:519019/100‑1 (MQ=255)
ttGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGtt < 1:1144550/100‑1 (MQ=255)
ttGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGtt < 2:294553/100‑1 (MQ=255)
ttGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGtt < 1:1245690/100‑1 (MQ=255)
tGAAATCATTCGTAGAAATTACGTTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTa > 2:339810/1‑100 (MQ=255)
gAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTAc > 2:864346/1‑100 (MQ=255)
gAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTAc < 1:139000/100‑1 (MQ=255)
aaaTCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTAcc < 1:418009/100‑1 (MQ=255)
aaaTCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTAcc < 1:737131/100‑1 (MQ=255)
tCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTACCACAAACg < 2:1155440/100‑1 (MQ=255)
cGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTACCACAAACGc > 1:966442/1‑100 (MQ=255)
cGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTACCACAAACGc > 1:1197571/1‑100 (MQ=255)
gAAATGACGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTACCACAAACGCAAAg > 1:720354/1‑100 (MQ=255)
aCGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTACCACAAACGCAAAGCTTAAt > 1:152440/1‑100 (MQ=255)
cGGTTCGATCCGCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTACCACAAACGCAAAGCTTAATg > 1:624978/1‑100 (MQ=255)
ggTTCGATCCGCTTTAACNATAAGAGGCCTTNTCANGTTACGCNGGGTNANATNGGAANAAATGGGGTAACGATGTTACCACAAACGCAAAGCTTAATgg < 1:868311/100‑1 (MQ=255)
ttggATCCTCTTTAAAAATAAGAGGCCTTGTCACGCTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTCCCACAGACGCAAAGCTTAATgg < 2:402867/95‑1 (MQ=255)
gCTTTAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTACCACAAACGCAAAGCTTAATGGTAACCCCttt > 1:57888/1‑100 (MQ=255)
tttAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTACCACAAACGCAAAGCTTAATGGTAACCCCTTTTa < 1:21336/100‑1 (MQ=255)
ttAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTACCACAAACGCAAAGCTTAATGGTAACCCCTTTTAg > 2:664425/1‑100 (MQ=255)
tAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTACCACAAACGCAAAGCTTAATGGTAACCCCTTTTAGc < 2:333981/100‑1 (MQ=255)
tAACAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTACCACAAACGCAAAGCTTAATGGTAACCCCTTTTAGc < 1:864352/100‑1 (MQ=255)
aaCAATAAGAGGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTACCACAAACGCAAAGCTTAATGGTAACCCCTTTTAGCt < 1:810039/100‑1 (MQ=255)
agagGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTACCACAAACGCAAAGCTTAATGGTAACCCCTTTTAGCTATGCaaa > 1:307708/1‑100 (MQ=255)
|
CCAAAAGCCATTGAATTAGAAGACGATGGGGTAATGACTTACGAAAAAGTTGAAATCATTCGTAGAAATGACGGTTCGATCCGCTTTAACAATAAGATGCCTTATCACGTTACGCTGGGTTATATCGGAACAAATGGGGTAACGATGTTACCACAAACGCAAAGCTTAATGGTAACCCCTTTTAGCTATGCAAA > NC_000913/3190301‑3190494
|
| 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
