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 F1 I2 R1
|
766 |
64.2 |
3232166 |
90.9% |
2938038 |
104.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,734,543 |
(C)8→9 |
coding (492/732 nt) |
yfiH ← |
UPF0124 family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,734,535 | 1 | . | C | 93.8%
| 155.7
/ 2.8
| 48 | coding (500/732 nt) | yfiH | UPF0124 family protein |
| Reads supporting (aligned to +/- strand): ref base . (1/2); new base C (24/21); total (25/23) |
| Fisher's exact test for biased strand distribution p-value = 6.01e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.75e-01 |
AAAATTTGCTCAACACCCACGTTCGCCAGACGCTGCCGGGCAAGCTGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCT‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACGCCAG > NC_000913/2734403‑2734657
|
aaaaTTTGCTCAACACCCACGTTCGCCAGACGCTGCCGGGCAAGCTGGTAAATTTCCGCCAGATACTTAACACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCT‑cccccc < 2:1576608/139‑1 (MQ=255)
aCGCTGCCGGGCAAGCTGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGc > 1:397151/1‑139 (MQ=255)
cGCTGCCGGGCAAGCTGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGcc > 1:436197/1‑139 (MQ=255)
tGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGaa > 2:446212/1‑105 (MQ=255)
tGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGaa < 1:446212/105‑1 (MQ=255)
tCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAAc > 2:930541/1‑97 (MQ=255)
tCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGGCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAAc < 1:930541/97‑1 (MQ=255)
gCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCt < 2:1083269/76‑1 (MQ=255)
gCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCt > 1:1083269/1‑76 (MQ=255)
gCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTcc > 2:863554/1‑139 (MQ=255)
aTACTTATCACCATGCTGAATTAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGAtt < 2:314880/139‑1 (MQ=255)
aTACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGAtt < 2:436197/139‑1 (MQ=255)
aTACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACACCTCGCGAA‑CCTCCCCCCCCCACTTCGaa > 2:703254/1‑88 (MQ=255)
aTACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACACCTCGCGAA‑CCTCCCCCCCCCACTTCGaa < 1:703254/88‑1 (MQ=255)
cATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAAc > 2:646398/1‑78 (MQ=255)
cATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAAc < 1:646398/78‑1 (MQ=255)
tGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAg > 1:1462350/1‑139 (MQ=255)
tGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAg > 2:946322/1‑139 (MQ=255)
tGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCT‑CCCCCCCCACTTCGAACGCGCGt < 1:1337173/81‑1 (MQ=255)
tGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCT‑CCCCCCCCACTTCGAACGCGCGt > 2:1337173/1‑81 (MQ=255)
gCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAAc > 2:1238678/1‑75 (MQ=255)
gCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAAc < 1:1238678/75‑1 (MQ=255)
gCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCgaga > 1:891023/1‑111 (MQ=255)
gCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCgaga < 2:891023/111‑1 (MQ=255)
gCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAgg > 2:872308/1‑139 (MQ=255)
gCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAgg > 2:1125350/1‑139 (MQ=255)
gCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAgg > 2:415606/1‑139 (MQ=255)
gCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAgg > 1:267354/1‑139 (MQ=255)
gCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCT‑cc > 1:170395/1‑59 (MQ=255)
gCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCT‑cc < 2:170395/59‑1 (MQ=255)
tgaatgaaAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGaa > 2:1156271/1‑139 (MQ=255)
aatgaaAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAg > 1:255791/1‑126 (MQ=255)
aatgaaAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAg < 2:255791/126‑1 (MQ=255)
tgaaAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCT‑cc < 1:1082760/53‑1 (MQ=255)
tgaaAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCT‑cc > 2:1082760/1‑53 (MQ=255)
gaaAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGt < 2:378564/139‑1 (MQ=255)
gaaAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGt > 2:523587/1‑139 (MQ=255)
gCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTcc > 2:1539653/1‑139 (MQ=255)
ttGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCa < 1:80980/139‑1 (MQ=255)
ttGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCa < 2:397151/139‑1 (MQ=255)
ttGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGAGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCa < 1:1156271/139‑1 (MQ=255)
aGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGcc < 1:568651/72‑1 (MQ=255)
aGCGTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGcc > 2:568651/1‑72 (MQ=255)
gTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGca < 2:22788/139‑1 (MQ=255)
gTCTACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGca < 1:523587/139‑1 (MQ=255)
tACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGc > 1:1234629/1‑61 (MQ=255)
tACTGCCATAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGc < 2:1234629/61‑1 (MQ=255)
aTAAACGCCTCGCGAACCCC‑CCCCCCCCACTTCGAACGCGCGTGGACCAAGTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTAGCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACgc < 1:844344/139‑1 (MQ=255)
tAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGca > 1:1058572/1‑128 (MQ=255)
tAAACGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGca < 2:1058572/128‑1 (MQ=255)
aaCGCCTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACgccag < 2:267354/139‑1 (MQ=255)
cTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACgc > 2:584830/1‑131 (MQ=255)
cTCGCGAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACgc < 1:584830/131‑1 (MQ=255)
cgcgAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAg > 1:515414/1‑82 (MQ=255)
cgcgAA‑CCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAg < 2:515414/82‑1 (MQ=255)
|
AAAATTTGCTCAACACCCACGTTCGCCAGACGCTGCCGGGCAAGCTGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAA‑CCT‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACGCCAG > NC_000913/2734403‑2734657
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
