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 |
|
A4 F1 I1 R1
|
15 |
35.6 |
2322208 |
94.1% |
2185197 |
75.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,911,997 |
(A)6→7 |
intergenic (‑198/‑125) |
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 | 3,911,991 | 1 | . | A | 80.0%
| 92.0
/ 17.5
| 30 | intergenic (‑192/‑131) | yifB/ilvL | predicted bifunctional enzyme and transcriptional regulator/ilvG operon leader peptide |
| Reads supporting (aligned to +/- strand): ref base . (2/4); new base A (10/14); total (12/18) |
| 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 |
AAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TT‑AAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACTATT > REL606/3911919‑3912062
|
aaaGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TT‑aaa > 2:270083/1‑76 (MQ=255)
aaGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TT‑aaaa > 2:2645/1‑76 (MQ=255)
ngATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TT‑aaaa‑a‑a < 1:1004409/75‑1 (MQ=255)
ggATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TT‑aaaa‑a‑a < 1:635835/76‑1 (MQ=255)
gATGAACTACGAGGTAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TT‑aaaa‑a‑aa < 2:747464/76‑2 (MQ=255)
tACGAGGGAGGGAGCAACATTCATACTGATATTGCATTTTTTTCACTCACTATTTTAT‑T‑T‑TT‑AAAA‑ATGCAACAAt < 2:1032078/76‑1 (MQ=255)
tACGAGGAAGGGAACAACATTCATACTGAAATTGAATTATTTTCACTCACTATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAAt > 1:840060/1‑76 (MQ=255)
cGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑TCT‑TA‑AAAA‑A‑acaaca < 1:31175/72‑1 (MQ=255)
cGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TTAAAAA‑A‑acaaca > 2:31175/1‑72 (MQ=255)
cGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAAttt < 1:1131028/76‑1 (MQ=255)
aaGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TTAAAAA‑A‑AAAAAAATTTTTAtt > 2:714258/1‑76 (MQ=255)
ggAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAATTTATATTGaa < 1:200711/76‑1 (MQ=255)
gAACAACACTCATACTGAAATTGAATTTTTTTCATTCACTATTTTAT‑TCT‑TA‑AAAA‑A‑ACAACGATTTATATTGaaa > 2:1030757/1‑76 (MQ=255)
aacaTTCATACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAATTTATATTGAAattat < 2:507663/76‑1 (MQ=255)
caTTCATACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAATTTATATTGAAAttatta > 1:1128498/1‑76 (MQ=255)
aTTCATACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAATTTATATTGAAATTATTaa < 2:1148780/76‑1 (MQ=255)
aTTCATACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAATTTATATTGAAATTATTaa < 1:437857/76‑1 (MQ=255)
ttCATACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAATTTATATTGAAATTATTaaa > 1:617932/1‑76 (MQ=255)
tACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGca > 2:844429/1‑76 (MQ=255)
cTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGcatc < 2:518153/76‑1 (MQ=255)
tGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGcatca < 1:710758/76‑1 (MQ=255)
tGAAATTGAATTTTTTTCACCGACTATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGcatca < 2:973930/76‑1 (MQ=255)
aaaTTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGCATCATa < 2:332400/76‑1 (MQ=255)
aTTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGCATCATaaa < 2:668277/76‑1 (MQ=255)
gAATTTTTTTCACTCACTATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGCATCATAAAAAt > 1:684227/1‑76 (MQ=255)
ttttCACTCACTATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCa < 1:218631/76‑1 (MQ=255)
tattCACTCACTATTTTAT‑T‑TATA‑AAAA‑A‑ACATCAATTTATATTGAAATTATTAATCGCATCATAAAAATCGGCCa < 1:140512/74‑1 (MQ=255)
tcactcacTATTTTATCT‑T‑TA‑AAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCaaaa < 2:486802/76‑1 (MQ=255)
ccctcactATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAATTTATATTGCAATTATTAAAAGCATCATAAAAATCGGCCaaaaa > 2:403353/3‑76 (MQ=255)
cactcactATTTTAT‑T‑T‑TTAAAAA‑A‑ACCACAATTTATATTGAAATTATTAAACGCATCATAAAAATCCTCCaaaaa < 2:1036171/76‑1 (MQ=255)
cactcactATTTTAT‑T‑T‑TTAAAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCaaaaa > 2:66131/1‑76 (MQ=255)
actATTTTAT‑T‑T‑TT‑AAAACA‑ACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATc > 2:1048875/1‑76 (MQ=255)
tattttat‑t‑t‑TTAAAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCtt > 1:634018/1‑76 (MQ=255)
attttat‑t‑t‑tTAAAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTg > 2:360167/1‑76 (MQ=255)
ttttat‑t‑t‑tTAAAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGt < 2:1147380/76‑1 (MQ=255)
ttttat‑t‑t‑tTAAAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGt < 2:730109/76‑1 (MQ=255)
att‑t‑t‑ta‑AAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACTa > 1:435277/3‑76 (MQ=255)
att‑t‑t‑ta‑AAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACTa > 1:824685/3‑76 (MQ=255)
nt‑t‑t‑ta‑AAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACTAt < 1:1002455/75‑1 (MQ=255)
nt‑t‑t‑ta‑AAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACTAt < 1:1002450/75‑1 (MQ=255)
t‑t‑t‑ta‑AAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACTAtt > 1:537519/1‑76 (MQ=255)
|
AAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTAT‑T‑T‑TT‑AAAA‑A‑ACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACTATT > REL606/3911919‑3912062
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ 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
