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 |
|
A87 F1 I1 R1
|
13 |
46.2 |
2986023 |
95.8% |
2860610 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,928,260 |
T→A |
I15N (ATC→AAC) |
rho → |
transcription termination factor Rho |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,928,260 | 0 | T | A | 93.9%
| 182.1
/ 0.6
| 49 | I15N (ATC→AAC) | rho | transcription termination factor Rho |
| Reads supporting (aligned to +/- strand): ref base T (0/3); new base A (24/22); total (24/25) |
| Fisher's exact test for biased strand distribution p-value = 2.35e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTTACCCCAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGATCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCATCCT > REL606/3928187‑3928332
|
tttACCCCAATTGTAAGAACGCGCACCGCTATGAAACTTACCGAAATAAATAAAACGCCGGATTCTGAGCTGATCa < 2:54710/76‑1 (MQ=255)
ccccAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACActct < 1:747937/76‑1 (MQ=255)
cccAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACtctc > 2:861078/1‑76 (MQ=255)
cccAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACtctc > 2:535937/1‑76 (MQ=255)
ccAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCg < 1:239561/76‑1 (MQ=255)
aGTTTAAGAACTCACACCACTATGAATCTTTCCGAATTAAAGAATACGCCGGTTTCTGAGCTGATCACTCTCGGCg < 2:605604/76‑1 (MQ=255)
gTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGa < 2:1443807/76‑1 (MQ=255)
ttAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGaaa > 1:851119/1‑76 (MQ=255)
aGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAata < 1:367219/76‑1 (MQ=255)
cTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATggg > 1:332634/1‑76 (MQ=255)
tCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGGACACTCTCGGCGAAAATATgggg > 2:744904/1‑76 (MQ=255)
tCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGCAAATATgggg > 2:744899/1‑76 (MQ=255)
acacCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCt > 1:507998/1‑76 (MQ=255)
caccacTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTg < 1:1302102/76‑1 (MQ=255)
ccacTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGa < 2:566244/76‑1 (MQ=255)
ccacTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGa > 1:592710/1‑76 (MQ=255)
cacTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGaa > 2:438489/1‑76 (MQ=255)
cacTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGaa < 2:923094/76‑1 (MQ=255)
acTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAACTATGGGGCTGGaaa > 2:1412753/1‑76 (MQ=255)
cTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGaaaa < 2:1452231/76‑1 (MQ=255)
tATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAAc < 1:983311/76‑1 (MQ=255)
ttACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCg > 1:245688/1‑76 (MQ=255)
tACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGt > 1:1078081/1‑76 (MQ=255)
tACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGt > 2:427384/1‑76 (MQ=255)
ccGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTAt < 1:869365/76‑1 (MQ=255)
gAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGc > 2:75719/1‑76 (MQ=255)
aaTTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCg > 1:76794/1‑76 (MQ=255)
tAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTaa > 1:447634/1‑76 (MQ=255)
tAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTaa > 1:1038594/1‑76 (MQ=255)
tAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTaa < 2:1164053/76‑1 (MQ=255)
tAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTaa < 2:849259/76‑1 (MQ=255)
aaaGGATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAg < 1:226262/76‑1 (MQ=255)
aaaGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAg < 1:787113/76‑1 (MQ=255)
aaaGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAg > 1:1292173/1‑76 (MQ=255)
aaaGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAg < 2:1274840/76‑1 (MQ=255)
aGAATACGCCGGTTTCTGAGCTGATCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCa < 1:786082/76‑1 (MQ=255)
aGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGGAAGCa > 1:595704/1‑76 (MQ=255)
aTACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGa < 2:83324/76‑1 (MQ=255)
gCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACatt < 2:1170976/76‑1 (MQ=255)
ccGGTTTCTGAGCTGAACACTCTCGGCGAAAATATAGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACatta < 1:907188/76‑1 (MQ=255)
cGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGGAAGCAGGACattat < 1:801682/76‑1 (MQ=255)
gTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTAttt > 1:1272718/1‑76 (MQ=255)
tttCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTAtttt > 1:1200102/1‑76 (MQ=255)
tCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTg > 1:685889/1‑76 (MQ=255)
tGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGcc < 1:1094739/76‑1 (MQ=255)
gAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCa < 1:1461515/76‑1 (MQ=255)
aGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCAt < 2:1382960/76‑1 (MQ=255)
gCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCATc < 1:632266/76‑1 (MQ=255)
tGATCACTCTCGGCGAAAATATGGGGCTGGAAAGCCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCATCCt < 1:879015/76‑1 (MQ=255)
tGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCATCCt > 1:1350786/1‑76 (MQ=255)
tGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCATCCt > 1:631259/1‑76 (MQ=255)
|
TTTACCCCAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGATCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCATCCT > REL606/3928187‑3928332
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
