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 |
|
A33 F1 I1 R1
|
22 |
54.4 |
3455062 |
95.8% |
3309949 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,328,579 |
C→A |
G134C (GGT→TGT) |
mreB ← |
cell wall structural complex MreBCD, actin‑like component MreB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,328,579 | 0 | C | A | 97.4%
| 130.4
/ ‑5.4
| 38 | G134C (GGT→TGT) | mreB | cell wall structural complex MreBCD, actin‑like component MreB |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base A (18/19); 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 = 9.94e-01 |
GCTTCAGAAACCGGCAGGCCAGCACCAATTGCGGCAGCCATCGGTTCTTCAATCAGGAAGACTTCACGGGCACCAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCAACCGGCACACAAACCAGAAC > REL606/3328506‑3328651
|
ncTTCAGAAACCGGCAGGCCAGCACCAATTGCGGCAGCCATCGGGTCTTCAATCAGGAAGACTTCACGGGCACAAg > 1:147318/2‑76 (MQ=255)
gCTTCAGAAACCGGCAGGCCAGCACCAATTGCGGCAGCCATCGGTTCTTCAATCAGGAAGACTTCACGGGCACAAg > 1:661197/1‑76 (MQ=255)
gCTTCAGAAACCGGCAGGCCAGCACCAATTGCGGCAGCCATCGGTTCTTCAATCAGGAAGACTTCACGGGCACAAg < 1:1323742/76‑1 (MQ=255)
gCTTCAGAAACCGGCAGGCCAGCACCAATTGCGGCAGCCATCGGTTCTTCAATCAGGAAGACTTCACGGGCACAAg < 1:1389560/76‑1 (MQ=255)
ttCAGAAACCGGCAGGCCAGCACCAATTGCGGCAGCCATCGGTTCTTCAATCAGGAAGACTTCACGGGCACAAgcg < 1:1382004/76‑1 (MQ=255)
ttCAGAAACCGGCAGGCCAGCACCAATTGCGGCAGCCATCGGTTCTTCAATCAGGAAGACTTCACGGGCACAAgcg > 2:100191/1‑76 (MQ=255)
gAAACCGGCAGGCCAGCACCAATTGCGGCAGCCATCGGTTCTTCAATCAGGAAGACTTCACGGGCACAAGCGCCCt < 1:69348/76‑1 (MQ=255)
aaCCGGCAGGCCAGCACCAATTGCGGCAGCCATCGGTTCTTCCATCAGGAAGACTTCACGGGCACAAGCGCCCCgc > 2:120096/1‑76 (MQ=255)
ccGGCAGGCCAGCACCAATTGCGGCAGCCATCGGTTCTTCAATCAGGAAGACTTCACGGGCACAAGCGCCCTgcgc < 1:853926/76‑1 (MQ=255)
cAGGCCAGCACCAATTGCGGCAGCCATCGGTTCTTCAATCAGGAAGACTTCACGGGCACAAGCGCCCTGCGCGGAt > 2:937416/1‑76 (MQ=255)
aGGCCAGCACCAATTGCGGCAGCCATCGGTTCTTCAATCAGGAAGACTTCACGGGCACAAGCGCCCTGCGCGGAtt < 2:817509/76‑1 (MQ=255)
ccAATTGCGGCAGCCATCGGTTCTTCAATCAGGAAGACTTCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTg < 2:194131/76‑1 (MQ=255)
cGGCAGCCATCGGTTCTTCAATCAGGAAGACTTCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCgcggcg > 1:693918/1‑76 (MQ=255)
cGGCAGCCATCGGTTCTTCAATCAGGAAGACTTCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCgcggcg > 1:666563/1‑76 (MQ=255)
ggCAGCCATCGGTTCTTCAATCAGGCAGACCTCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGt > 1:371212/1‑76 (MQ=255)
cAGCCATCGGTTCTTCAATCAGGAAGACTTCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTc > 2:549487/1‑76 (MQ=255)
gCCATCGGTTCTTCAATCAGGAAGACTTCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCaa < 2:813359/76‑1 (MQ=255)
ccATCGGTTCTTCAATCAGGAAGACTTCACGGGCACAAGCGCACTGCGCGGATTCACGAATTACGCGGCGCTCacc > 2:103387/1‑74 (MQ=255)
aTCGGTTCTTCAATCAGGAAGACTTCACGGGCACCAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAAccg > 2:1469979/1‑75 (MQ=255)
tCGGTTCTTCAATCAGGAAGACTTCACGGGCACAAGCGCCCTGCGCGGATTCGCGAATTGCGCGGCGTTCAACCTg < 2:1247302/76‑1 (MQ=255)
tCGGTTCTTCAATCAGGAAGACTTCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTg < 2:1473421/76‑1 (MQ=255)
ttcttcAATCAGGAAGACTTCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTc > 1:1316845/1‑76 (MQ=255)
cAATCAGGAAGACTTCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGcc > 2:956253/1‑76 (MQ=255)
aaTCAGGAAGACTTCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCa < 1:952934/76‑1 (MQ=255)
aTCAGGAAGACTTCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCaa > 2:253988/1‑76 (MQ=255)
cAGGAAGACTTCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCAAcc < 1:879571/76‑1 (MQ=255)
aaGACTTCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCAACCGGca > 2:874075/1‑76 (MQ=255)
aaGACTTCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCAACCGGca > 2:1257018/1‑76 (MQ=255)
aGACTTCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCAACCGGcac < 1:1594490/76‑1 (MQ=255)
aGACTTCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCAACCGGcac < 1:1481943/76‑1 (MQ=255)
aGACTTCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCAACCGGcac < 1:1097672/76‑1 (MQ=255)
tCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCAACCGGCACACaaa < 1:1659021/76‑1 (MQ=255)
tCACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCAACCGGCACACaaa > 2:1480188/1‑76 (MQ=255)
cACGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCAACCGGCACACAAAc < 1:1186285/76‑1 (MQ=255)
aCGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCAACCGGCACACAAAcc > 2:988074/1‑76 (MQ=255)
cGGGCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCAACCGGCACACAAACCa > 2:1204110/1‑76 (MQ=255)
gggCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCAACCGGCACACAAACCAg < 1:464244/76‑1 (MQ=255)
gCACAAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCAACCGGCACACAAACCAGaa < 1:1588893/76‑1 (MQ=255)
cacaAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCAACCGGCACACAAACCAGAAc < 1:1441129/76‑1 (MQ=255)
|
GCTTCAGAAACCGGCAGGCCAGCACCAATTGCGGCAGCCATCGGTTCTTCAATCAGGAAGACTTCACGGGCACCAGCGCCCTGCGCGGATTCACGAATTGCGCGGCGTTCAACCTGGGTCGCGCCAACCGGCACACAAACCAGAAC > REL606/3328506‑3328651
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
