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 |
|
A143 F1 I1 R1
|
16 |
39.8 |
2536279 |
96.2% |
2439900 |
76.0 |
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 | 97.2%
| 128.4
/ ‑3.0
| 36 | I15N (ATC→AAC) | rho | transcription termination factor Rho |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base A (18/17); total (18/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.71e-01 |
TTACCCCAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGATCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCATCCT > REL606/3928188‑3928332
|
ttACCCCAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAacac > 2:1140584/1‑76 (MQ=255)
tACCCCAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACAct > 2:975496/1‑76 (MQ=255)
cccAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGNACACtctc < 1:1210568/76‑1 (MQ=255)
cAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCNGGTTGCTCAGCTGAACACTCGCgg < 1:106282/76‑1 (MQ=255)
cAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCgg < 1:888588/76‑1 (MQ=255)
aaGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGc > 2:633333/1‑76 (MQ=255)
aGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACGCTCGGCg < 2:487396/76‑1 (MQ=255)
aGAACTCATACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTTAACACTCTCGGCGAAAata > 2:18446/1‑76 (MQ=255)
aGAACTCACACCACTATGAATCTTACCGACTTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAata < 2:34249/76‑1 (MQ=255)
cTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATggg > 1:559430/1‑76 (MQ=255)
tCACACCACTATGANTCTTATCGAACTAAAGAATCCGCCAGTTCCTGAGCAGAACACTCTCGGCGAATATATgggg < 2:28161/76‑1 (MQ=255)
acacCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCt < 1:985922/76‑1 (MQ=255)
accaccCTGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTgg > 1:1188431/1‑76 (MQ=255)
tATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGANAAc < 1:1140585/76‑1 (MQ=255)
tATGAATCTTAACGAATTAAAGAATACGCCGGTCTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAAc > 1:1163031/1‑76 (MQ=255)
aTGAATCTTTCCGAATTAAAGAATACGCCGGNGTCTAAGGTGAACACTCTCGGCGAAAATATGCNGCTGGAAAAcc > 1:149979/1‑76 (MQ=255)
gAATCTTACCGAATCAAAGAATACGCCGGTGTCTGAGCTCAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTg < 1:18446/76‑1 (MQ=255)
tCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCt < 2:761946/76‑1 (MQ=255)
cTTACCGAATTAGAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTc < 1:1017059/76‑1 (MQ=255)
gAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGc < 1:855734/76‑1 (MQ=255)
tAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTaa > 1:572297/1‑76 (MQ=255)
aaaGAATACGCCGGTTTCTGAGCTGATCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAg < 1:344258/76‑1 (MQ=255)
aaGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGc < 2:567187/76‑1 (MQ=255)
gAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAg < 1:557982/76‑1 (MQ=255)
ccGGTTCCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACatta > 1:1185167/1‑76 (MQ=255)
cGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACattat > 2:516268/1‑76 (MQ=255)
ggTTTCTGAGCTGAACACTCTCGGCGAAAATGTGNGGCTTGANCANCTNGCTCTCATGCGCAAGCAGGACattatt > 1:1105333/1‑76 (MQ=255)
gTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTAttt < 2:501440/76‑1 (MQ=255)
gTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTAttt < 2:147370/76‑1 (MQ=255)
gTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTAttt > 2:574898/1‑76 (MQ=255)
gTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTAttt > 1:501140/1‑76 (MQ=255)
gTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTAttt > 2:911905/1‑76 (MQ=255)
tttCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTAtttt > 2:939817/1‑76 (MQ=255)
gAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCa > 2:930786/1‑76 (MQ=255)
gCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCATc < 2:1203839/76‑1 (MQ=255)
cTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCATcc > 1:1024082/1‑76 (MQ=255)
tGAACACTCTCGTCGAAAAAATGGGGCTGAAAATCCTGACTCGACTGCGTAAGCAGGACATTATTTTATCCATCCt > 1:1222655/1‑76 (MQ=255)
|
TTACCCCAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGATCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCATCCT > REL606/3928188‑3928332
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
