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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,086,717 |
C→T |
80.8% |
G164G (GGC→GGT) |
yqjG → |
predicted S‑transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,086,717 | 0 | C | T | 80.8%
| 79.7
/ 11.6
| 57 | G164G (GGC→GGT) | yqjG | predicted S‑transferase |
| Reads supporting (aligned to +/- strand): ref base C (9/2); new base T (16/30); total (25/32) |
| Fisher's exact test for biased strand distribution p-value = 6.78e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.07e-01 |
CATCGTCAGCAACGAATCAGCAGAAATCATCCGCATGTTCAATACCGCGTTTGATGCGCTGGGCGCGAAAGCGGGTGATTACTACCCTCCAGCCCTGCAAACAAAAATTGACG > minE/2086654‑2086766
|
cATCGTCAGCAACGAATCATCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:1617730/69‑1 (MQ=39)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTTGGTGCGaa < 1:3262766/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:2822952/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:2073722/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:2139288/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:222357/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:2486261/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:2634181/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:2758427/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:27937/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:1032548/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:3107966/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:3281553/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:3332760/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:526156/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:542721/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:593182/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:767026/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:1927085/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:1056881/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:1309470/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:1606973/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:1005549/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:1646979/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:1664808/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:1836846/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:1876440/69‑1 (MQ=255)
cATCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCCCGTTTGATGCGCTGGGTGCGaa < 1:2772323/69‑1 (MQ=255)
aTCGTCAGCAACGAATCAGCAGAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:2317907/68‑1 (MQ=255)
agcagAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGAAAGCTGGAGATtac > 1:153232/1‑64 (MQ=38)
agcagAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGAAAGCTGGAGATtac > 1:619579/1‑64 (MQ=38)
agcagAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGAAAGCTGGAGATtac > 1:71843/1‑64 (MQ=38)
agcagAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGAAAGCTGGAGATtac > 1:429786/1‑64 (MQ=38)
agcagAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGAAAGCTGGAGATtac > 1:1124460/1‑64 (MQ=38)
agcagAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGAAAGCTGGAGATtac > 1:3295588/1‑64 (MQ=38)
agcagAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGAAAGCTGGAGATtac > 1:1958383/1‑64 (MQ=38)
agcagAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGAAAGCTGGAGATtac > 1:752555/1‑64 (MQ=38)
agcagAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGAAAGCTGGAGATtac > 1:1469635/1‑64 (MQ=38)
agcagAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGAAAGCTGGAGATtac > 1:3092583/1‑64 (MQ=38)
agcagAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGAAAGCTGGAGATtac > 1:2228339/1‑64 (MQ=38)
agcagAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGAAAGCTGGAGATtac > 1:1878711/1‑64 (MQ=38)
agcagAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGAAAGCTGGAGATtac > 1:2093880/1‑64 (MQ=38)
agcagAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGAAAGCTGGAGATtac > 1:2573056/1‑64 (MQ=38)
agcagAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGAAAGCTGGAGATtac > 1:872820/1‑64 (MQ=38)
agcagAAATCATACGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGAAAGCTGGAGATtac > 1:2449748/1‑64 (MQ=38)
acGCATGTTCAATACCGCGTTTGATGCGCTGGGTGCGaa < 1:731982/38‑1 (MQ=37)
cGCATGTTCAATACCGCGTTTGATGCGCTGGGCGCGAAAGCGGGTGATtact < 1:895850/52‑1 (MQ=255)
cGCATGTTCAATACCGCGTTTGATGCGCTGGGCGCGAAAGCGGGTGATtact < 1:899736/52‑1 (MQ=255)
cGCATGTTCAATACCGCGTTTGATGCGCTGGGCGCGAAAGCGGGTGATTACTACCCTCCAGCCCTGca > 1:1072671/1‑68 (MQ=255)
ttCAATACCGCGTTTGATGCGCTGGGCGCGAAAGCGGGTGATTACTACCCTCCCGCCCTGCAAACaaaa > 1:1102931/1‑69 (MQ=255)
ttCAATACCGCGTTTGATGCGCTGGGCGCGAAAGCGGGTGATTACTACCCTCCAGCCCTGCAAACaaaa > 1:577242/1‑69 (MQ=255)
ttCAATACCGCGTTTGATGCGCTGGGCGCGAAAGCGGGTGATTACTACCCTCCAGCCCTGCAAACaaaa > 1:1360394/1‑69 (MQ=255)
ttCAATACCGCGTTTGATGCGCTGGGCGCGAAAGCGGGTGATTACTACCCTCCAGCCCTGCAAACaaaa > 1:2791111/1‑69 (MQ=255)
ttCAATACCGCGTTTGATGCGCTGGGCGCGAAAGCGGGTGATTACTACCCTCCAGCCCTGCAAACaaaa > 1:2556926/1‑69 (MQ=255)
ttCAATACCGCGTTTGATGCGCTGGGCGCGAAAGCGGGTGATTACTACCCTCCAGCCCTGCAAACaaaa > 1:1809984/1‑69 (MQ=255)
ccGCGTTTGATGCGCTGGGCGCGAAAGCGGGTGATTACTACCCTCCAGCCCTGCAAACAAAAATTGACg > 1:705647/1‑69 (MQ=255)
ccGCGTTTGATGCGCTGGGCGCGAAAGCGGGTGATTACTACCCTCCAGCCCTGCAAACAAAAATTGACg > 1:193676/1‑69 (MQ=255)
|
CATCGTCAGCAACGAATCAGCAGAAATCATCCGCATGTTCAATACCGCGTTTGATGCGCTGGGCGCGAAAGCGGGTGATTACTACCCTCCAGCCCTGCAAACAAAAATTGACG > minE/2086654‑2086766
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
