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 |
|
A84 F1 I1 R1
|
17 |
47.9 |
3074446 |
96.0% |
2951468 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
2,131,466 |
(A)9→8 |
intergenic (‑125/+175) |
gatY ← / ← fbaB |
D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 2,131,458 | 0 | A | . | 95.5%
| 91.4
/ ‑1.0
| 22 | intergenic (‑117/+183) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase |
| Reads supporting (aligned to +/- strand): ref base A (0/1); new base . (14/7); total (14/8) |
| Fisher's exact test for biased strand distribution p-value = 3.64e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.09e-01 |
AAATGATTTGTTTTTAAATGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGCAAAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATGCGGCGTAAACATATG > REL606/2131383‑2131533
|
aaatgaTTTGTTTTTAAATGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGCa < 1:354320/76‑1 (MQ=255)
aatgaTTTGTTTTTAAATGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGCaa < 1:269364/76‑1 (MQ=255)
tgaTTTGTTTTTAAATGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGCaaaa > 1:145981/1‑76 (MQ=255)
gaTTTGTTTTTAAATGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGCaaaaa < 1:824642/76‑1 (MQ=255)
tttttAAATGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGCaaaaaaaacgg > 1:956858/1‑73 (MQ=255)
tttttAAATGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGCaaaaaaaacgg > 1:646398/1‑73 (MQ=255)
tAAATGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGCAAAAAAAAACGGCCt < 2:312285/76‑1 (MQ=255)
aaaTGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTcc > 1:1277832/1‑76 (MQ=255)
aaTGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTccc > 2:694193/1‑76 (MQ=255)
gTCGAGATAACGATCACAAAAACGACAATATGAATATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGa > 2:237094/1‑76 (MQ=255)
gTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGa > 2:650430/1‑76 (MQ=255)
gagaTAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAggg < 2:77403/76‑1 (MQ=255)
agaTAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGa < 2:1121596/76‑1 (MQ=255)
tAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGc > 1:334232/1‑76 (MQ=255)
gATCACAAAAACGAAAATATGAAAATTAATAGAGGAATAAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGca < 2:111050/76‑1 (MQ=255)
aTCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGcaa < 2:1243927/76‑1 (MQ=255)
aTCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCGCCCGGAGGGAAGCCGcaa < 2:459903/76‑1 (MQ=255)
cacaAAAACGACAATATAAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGCCCTCCCGGAGGGAAGCCGcaaca < 2:128195/76‑1 (MQ=255)
cacaAAAACGAAAATATGAAAATAAAAAGAGGAATGAAAGGC‑AAAAAAACCGGCCCCCCGGAGGGAAGCCGcaaca < 2:1094527/76‑1 (MQ=255)
caaaaaaaCGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAGCGGCCTCCCGGAGGGAAGCCGcaaca < 2:712194/73‑1 (MQ=255)
aaCGAAAATATAAAAATAAATAGAGGAATGAAAGG‑AAAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTgc < 2:1431915/76‑1 (MQ=255)
aCGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTgcg > 2:684149/1‑76 (MQ=255)
gaaaaTATAAAAATAAAAAGAGGAA‑GAAAAGGAAAAAAAACCGGCCCCCCGGAGGGAAGCCGCAACAAAGTGcgcg < 1:559805/73‑1 (MQ=255)
aaTATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTgg > 1:393760/1‑76 (MQ=255)
atatGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGt > 1:641784/1‑76 (MQ=255)
atGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGttt < 2:142266/76‑1 (MQ=255)
gAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTa > 2:185064/1‑76 (MQ=255)
gAAAATAAAAAGAGGAAAAAAAGG‑AAAAAAAACCGGCCCCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGttatg < 2:912320/76‑4 (MQ=255)
aaaTTAATAGAGAAATGAAAGG‑AAAAAAAACCGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATg < 1:1315553/76‑1 (MQ=255)
tAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAgg > 2:984131/1‑76 (MQ=255)
aTAGAGAAATAAAAGG‑AAAAAAAACCGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGAt < 1:722484/76‑1 (MQ=255)
tAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATg < 2:1030884/76‑1 (MQ=255)
tAGAGGAATGAAAGGC‑AAAAAAAACGACCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATg > 2:1101912/1‑76 (MQ=255)
agaaaTAAAAGG‑AAAAAAAACCGGCCCCCGGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATgcgg < 2:182503/73‑1 (MQ=255)
agGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATgcgg > 2:268131/1‑76 (MQ=255)
agGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATgcgg > 1:380713/1‑76 (MQ=255)
aaTGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATGCGGCGt > 2:189748/1‑76 (MQ=255)
ggaaaaaaaacCGGCCCCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATGCGGCGTAAACata < 1:203792/74‑1 (MQ=38)
aaaaaaaacCGGCCCCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATGCGGCGTAAACATAtg < 1:566826/76‑1 (MQ=255)
|
AAATGATTTGTTTTTAAATGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGCAAAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATGCGGCGTAAACATATG > REL606/2131383‑2131533
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
