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 |
|
A24 F1 I1 R1
|
18 |
37.8 |
2419812 |
96.5% |
2335118 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,911,991 |
(T)5→4 |
intergenic (‑192/‑131) |
yifB ← / → ilvL |
predicted bifunctional enzyme and transcriptional regulator/ilvG operon leader peptide |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,911,987 | 0 | T | . | 91.1%
| 175.3
/ 14.0
| 45 | intergenic (‑188/‑135) | yifB/ilvL | predicted bifunctional enzyme and transcriptional regulator/ilvG operon leader peptide |
| Reads supporting (aligned to +/- strand): ref base T (1/3); new base . (16/25); total (17/28) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
CGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGT > REL606/3911914‑3912056
|
cGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTTCACTCACtattttattt > 2:1110651/1‑76 (MQ=255)
ggACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTTCACTCACTattttatttt < 1:396151/76‑1 (MQ=255)
gACAAAGGATGAACTACCAGGAAGGGAACAACATTCATACTGAAATTGAA‑ATTTTTTCACTCACTatttaattnta > 2:1143756/1‑75 (MQ=255)
aaGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTATTTTAaaaa < 2:217326/76‑1 (MQ=255)
ggATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTATTTTaaaaaac > 2:1042878/1‑75 (MQ=255)
tGANCTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTNTTTTCACTCACTATTTTA‑TTTTAAAAaacaac < 2:1124806/76‑1 (MQ=255)
aaCTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAAcaacaa > 2:754846/1‑76 (MQ=255)
cTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAAtt < 1:658957/76‑1 (MQ=255)
aCGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTta < 1:1189202/76‑1 (MQ=255)
aCGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTta < 2:136871/76‑1 (MQ=255)
aCGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTta > 1:994655/1‑76 (MQ=255)
cGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTtat < 1:229790/76‑1 (MQ=255)
aGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTatat > 2:1068798/1‑76 (MQ=255)
aGGGAACAACATTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGaa < 2:86272/76‑1 (MQ=255)
aacaacATTCATACTGAAATTGAATTTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAatt < 2:309763/76‑1 (MQ=255)
aacaacATTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAatta < 2:267112/76‑1 (MQ=255)
aacaacATTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAatta < 2:18024/76‑1 (MQ=255)
acaacaTTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAattat < 1:262247/76‑1 (MQ=255)
caacaTTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAattatt > 1:436117/1‑76 (MQ=255)
acaTTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTaa > 1:705676/1‑76 (MQ=255)
caTTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTaaa < 1:415802/76‑1 (MQ=255)
cATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGca > 2:148404/1‑76 (MQ=255)
cATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGca < 2:325406/76‑1 (MQ=255)
aTACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcat < 1:214607/76‑1 (MQ=255)
tACTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcatc > 1:506170/1‑76 (MQ=255)
aCTGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcatca > 1:488443/1‑76 (MQ=255)
gtcaaaTTGAA‑TTNTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcatcat < 1:156759/73‑1 (MQ=255)
tGAAATTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATa < 1:559936/76‑1 (MQ=255)
tGAAATTGAA‑TTTTTGTCACTCTCTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATa < 2:36188/76‑1 (MQ=255)
aaaTTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGTAAGTATTAAACGCATCATaaa > 1:1133304/1‑76 (MQ=255)
aaaTTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaa < 2:270070/76‑1 (MQ=255)
aaaTTGAA‑NTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaa < 1:1064312/76‑1 (MQ=255)
aaTTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaaa < 2:962073/76‑1 (MQ=255)
aaTTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaaa < 2:725032/76‑1 (MQ=255)
aaTTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaaa < 2:607879/76‑1 (MQ=255)
aaTTGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaaa < 1:544640/76‑1 (MQ=255)
aTTGAA‑TTNTATTCACTCANTATTTTATTTTTAAAAAACAACNATTTATATTGAAATTATTAAACGCATCATaaaa < 2:1002840/76‑1 (MQ=255)
ttGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAGAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAAt < 2:130120/76‑1 (MQ=255)
tGAA‑TTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATc > 1:250765/1‑76 (MQ=255)
ttttCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCaaa < 2:253780/76‑1 (MQ=255)
tttCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCaaaa > 1:845388/1‑76 (MQ=255)
tcactcacTATTTTA‑TTTTATAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCaaaaaa > 1:2983/1‑76 (MQ=255)
tcactcacTATTTTA‑TTTTAAAAATCAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCaaaaaa > 2:328798/1‑76 (MQ=255)
ctcactATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAata < 1:240795/76‑1 (MQ=255)
tcactATTTTA‑TTTTAAAAAGCCACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATc > 1:643/1‑76 (MQ=255)
tcactATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATc > 1:94637/1‑76 (MQ=255)
actATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCtt > 2:678658/1‑76 (MQ=255)
ctATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTg < 2:529789/76‑1 (MQ=255)
tattttatttTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTg < 1:968767/76‑1 (MQ=255)
tatttta‑tttTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGt > 2:1206592/1‑76 (MQ=255)
|
CGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGT > REL606/3911914‑3912056
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
