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 |
3,859,191 |
T→C |
D309G (GAT→GGT) |
yidK ← |
putative transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,859,191 | 0 | T | C | 92.1%
| 115.4
/ 0.1
| 38 | D309G (GAT→GGT) | yidK | putative transporter |
| Reads supporting (aligned to +/- strand): ref base T (1/2); new base C (18/17); total (19/19) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
CACCGCACCAAATAACACCGCGCCGAAGAAACCCACCATTGGCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAATCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGTCGAGCATTTTCAGCACCGCCGTTAACAGCGCCCCCTTTTGCCCTT > NC_000913/3859094‑3859287
|
cACCGCACCAAATAACACCGCGCCGAAGAAACCCACCATTGGCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAAccc > 2:1135055/1‑100 (MQ=255)
aCCGCACCAAATAACACCGCGCCGAAGAAACCCACCATTGGCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAATCCt > 2:1207960/1‑100 (MQ=255)
ccGCACCAAATAACACCGCGCCGAAGAAACCCACCATTGGCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTg > 2:816255/1‑100 (MQ=255)
gCACCAAATAACACCGCGCCGAAGAAACCCACCATTGGCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGAt > 2:771741/1‑100 (MQ=255)
gCACCAAATAACACCGCGCCGAAGAAACCCACCATTGGCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGAt < 1:675648/100‑1 (MQ=255)
cACCAAATAACACCGCGCCGAAGAAACCCACCATTGGCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGATa > 2:299376/1‑100 (MQ=255)
aCCAAATAACACCGCGCCGAAGAAACCCACCATTGGCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGATAc < 1:699434/100‑1 (MQ=255)
aTAACACCGCGCCGAAGAAACCCACCATTGGCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATg < 2:215720/100‑1 (MQ=255)
gcgcCGAAGAAACCCACCATTGGCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAATCCTGATACAGATGAAACGCaa < 1:497392/100‑1 (MQ=255)
cgcCGAAGAAACCCACCATTGGCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAAt < 2:862942/100‑1 (MQ=255)
aagaaACCCACCATTGGCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAATCCTGATACAGATGAAACGCAATCAAcc < 1:177864/100‑1 (MQ=255)
cccACCATTGGCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGgca > 1:484407/1‑100 (MQ=255)
caTTGGCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCAcc < 1:1195115/100‑1 (MQ=255)
caTTGGCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCAcc < 2:557981/100‑1 (MQ=255)
caTTGGCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCAcc < 1:944702/100‑1 (MQ=255)
ggCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTa < 1:1082199/100‑1 (MQ=255)
ggCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTa < 1:1295233/100‑1 (MQ=255)
gacACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTa > 1:878323/3‑100 (MQ=255)
gCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTAc > 1:1264394/1‑100 (MQ=255)
cTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAg > 2:271683/1‑100 (MQ=255)
cAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCggg > 1:205558/1‑100 (MQ=255)
aGAACGTTATTGACCAGCGTCGGGTAGGCGATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCggg < 2:1192407/99‑1 (MQ=255)
aGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGt < 2:1183288/100‑1 (MQ=255)
gACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGTCGAGCATTTTc > 2:1138428/1‑100 (MQ=255)
gACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGTCGAGCATTTTc > 2:237244/1‑100 (MQ=255)
gTAGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGTCGAGCATTTTCAGCACCGCCGtt > 1:279963/1‑100 (MQ=255)
tAGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGTCGAGCATTTTCAGCACCGCCGTTa > 2:1297852/1‑100 (MQ=255)
aGGCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGTCGAGCATTTTCAGCACCGCCGTTaa > 2:350021/1‑100 (MQ=255)
gCCATGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGTCGAGCATTTTCAGCACCGCCGTTAACa > 1:89859/1‑100 (MQ=255)
aTGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGTCGAGCATTTTCAGCACCGCCGTTAACAgcg < 1:335114/100‑1 (MQ=255)
aTGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGTCGAGCATTTTCAGCACCGCCGTTAACAgcg > 1:100164/1‑100 (MQ=255)
tGTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGTCGAGCATTTTCAGCACCGCCGTTAACAgcgc > 1:609745/1‑100 (MQ=255)
gTCGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGTCGAGCATTTTCAGCACCGCCGTTAACAGCGcc < 1:229578/100‑1 (MQ=255)
cGGCTTTCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGTCGAGCATTTTCAGCACCGCCGTTAACAGCGcccc > 2:336553/1‑100 (MQ=255)
tCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGTCGAGCATTTTCAGCACCGCCGTTAACAGCGCCCCCTTTTg < 1:816261/100‑1 (MQ=255)
tCGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGTCGAGCATTTTCAGCACCGCCGTTAACAGCGCCCCCTTTTg < 2:878316/100‑1 (MQ=255)
cGGTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGTCGAGCATTTTCAGCACCGCCGTTAACAGCGCCCCCTTTTGc < 1:62658/100‑1 (MQ=255)
ggTAAACCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACAAGCGGGTCGAGCATTTTCAGCACCGCCGTTCACAGCGCCCCCTTTTGcc > 2:1258928/1‑100 (MQ=255)
aaaCCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGTCGAGCATTTTCAGCACCGCCGTTAACAGCGCCCCCTTTTGCCCtt < 1:979770/100‑1 (MQ=255)
|
CACCGCACCAAATAACACCGCGCCGAAGAAACCCACCATTGGCACTGGCAGAACGTTATTGACCAGCGTCGGGTAGGCCATGTCGGCTTTCGGTAAATCCTGATACAGATGAAACGCAATCAACCCTGGCAGCACCAGTACCAGCGGGTCGAGCATTTTCAGCACCGCCGTTAACAGCGCCCCCTTTTGCCCTT > NC_000913/3859094‑3859287
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
