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 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
909,573 |
C→T |
39.5% |
L584L (CTG→TTG) |
ycjT → |
predicted hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 909,573 | 0 | C | T | 39.5%
| 27.6
/ 40.1
| 38 | L584L (CTG→TTG) | ycjT | predicted hydrolase |
| Reads supporting (aligned to +/- strand): ref base C (10/13); new base T (10/5); total (20/18) |
| Fisher's exact test for biased strand distribution p-value = 1.98e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTCACGCGCAGAAGTGAACGAGATGCAGATCCTCAAACAAGCTGATGTGGTGATGCTCAATTACATGCTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCAATTTTATGAACCGCGCACTATTCAC > minE/909506‑909641
|
ttCACGCGCAGAAGTGAACGAGATGCAGATCCTCAAACAAGCTGATGTGGTGATGCTCAATTACAtgttgc < 1:938528/71‑1 (MQ=255)
ttCACGCGCAGAAGTGAACGAGATGCAGATCCTCAAACAAGCTGATGTGGTGATGCTCAATTACAtgctgc > 1:64899/1‑71 (MQ=255)
cgcAGAAGTGAACGAGATGTAGATCCTCAAACAAGCTGATGTGGTGATGCTCAATTACATGCTGCCGGAGc < 1:1032888/71‑1 (MQ=255)
aaGTGAACGAGATGCAGATCCTCAAACAAGCTGATGTGGTGATGCTCAATTACATGCTGCCGGAGCAGTtc < 1:646016/71‑1 (MQ=255)
aaGTGAACGAGATGCAGATCCTCAAACAAGCTGATGTGGTGATGCTCAATTACATGCTGCCGGAGCAGTtc < 1:1170381/71‑1 (MQ=255)
gTGAACGAGATGCAGATCCTCAAACAAGCTGATGTGGTGATGCTCAATTACATGTTGCCGGAGCAGTtctc < 1:825131/71‑1 (MQ=255)
gTGAACGAGATGCAGATCCTCAAACAAGCTGATGTGGTGATGCTCAATTACATGCTGCCGGAGCAGTtctc < 1:765760/71‑1 (MQ=255)
tGAACGAGATGCAGATCCTCAAACAAGCTGATGTGGTGATGCTCAATTACATGTTGCCGGAGCAGTTCTCa < 1:1212541/71‑1 (MQ=255)
aaCGAGATGCAGATCCTCAAACAAGCTGATGTGGTGATGCTCAATTACATGTTGCCGGAGCa > 1:96294/1‑62 (MQ=255)
aaCGAGATGCAGATCCTCAAACAAGCTGATGTGGTGATGCTCAATTACATGTTGCCGGAGCAGTTCTCAGc > 1:12810/1‑71 (MQ=255)
aaCGAGATGCAGATCCTCAAACAAGCTGATGTGGTGATGCTCAATTACATGTTGCCGGAGCAGTTCTCAGc > 1:1874707/1‑71 (MQ=255)
aaCGAGATGCAGATCCTCAAACAAGCTGATGTGGTGATGCTCAATTACATGCTGCCGGAGCAGTTCTCAg < 1:235809/70‑1 (MQ=255)
aaCGAGATGCAGATCCTCAAACAAGCTGATCTGGTGATGCTCAATTACATGTTGCCGGAgaa > 1:1211481/1‑60 (MQ=255)
aTCCTCAAACAAGCTGATGTGGTGATGCTCAATTACATGCTGCCGGAGCAGTTCTCAGCGGCATCGTGTCt > 1:90819/1‑71 (MQ=255)
ccTCAAACAAGCTGATGTGGTGATGCTCAATTACATGCTGCCGGAGCAGTTCTCAGc > 1:1435236/1‑57 (MQ=255)
ccTCAAACAAGCTGATGTGGTGATGCTCAATTACATGCTGCCGGAGCAGTTCTCAGCGGCATc > 1:1221619/1‑63 (MQ=255)
ccTCAAACAAGCTGATGTCGTGATGCTCAATTACATGCTGCCGGAGCAGTTCTCAGCGGCATc > 1:1498094/1‑63 (MQ=255)
ccTCAAACAAGCTCATGTGGTGATGCTCAATTACATGCTGCCGGAGCAGTTCTCAGc > 1:700849/1‑57 (MQ=255)
tCAAACAAGCTGATGTGGTGATGCTCAATTACATGTTGCCGGAGCAg > 1:1254338/1‑47 (MQ=255)
tCAAACAAGCTGATGTGGTGATGCTCAATTACATGTTGCCGGAGCAg > 1:1167447/1‑47 (MQ=255)
aaaCAAGCTGATGTGGTGATGCTCAATTACATGTTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGcc < 1:1723995/69‑1 (MQ=255)
aaaCAAGCTGATGTGGTGATGCTCAATTACATGCTGCCTGAGCAGTTCTCAGCGGCATCGTGTCTTGCCa < 1:2209482/70‑1 (MQ=255)
aCAAGCTGATGTGGTGATGCTCAATTACATGCTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATc > 1:1235698/1‑71 (MQ=255)
aCAAGCTGATGTGGTGATGCTCAATTACATGCTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATc > 1:1466945/1‑71 (MQ=255)
cTGATGTGGTGATGCTCAATTACATGTTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCaa < 1:630891/71‑1 (MQ=255)
tGATGTGGTGATGCTCAATTACATGTTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGc > 1:68716/1‑60 (MQ=255)
aTGTGGTGATGCTCAATTACATGCTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCAAttt > 1:512850/1‑71 (MQ=255)
tgtgGTGATGCTCAATTACATGCTGCCGGAGCAGTTCTCAGc < 1:320595/42‑1 (MQ=255)
tggtgATGCTCAATTACATGCTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCaa < 1:1338008/65‑1 (MQ=255)
tggtgATGCTCAATTACATGCTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCAATTTTAt > 1:595522/1‑71 (MQ=255)
tggtcATGCTCAATTACATGCTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCaa < 1:372062/65‑1 (MQ=255)
ggtgATGCTCAATTACATGTTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCAAttt < 1:460668/67‑1 (MQ=255)
gtgATGCTCAATTACATGCTGCCGGAGCAGTTCTCAGCGTCATCGTGTCTTGCCAATCTGCAATTTTATg < 1:1128004/70‑1 (MQ=255)
aTGCTCAATTACATGTTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCAATTTTATGaa > 1:1567574/1‑69 (MQ=255)
aTGCTCAATTACATGCTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCAATTTTATGAAcc < 1:586147/71‑1 (MQ=255)
gCTCAATTACATGTTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCAATTTTATGAACcgc > 1:834533/1‑71 (MQ=255)
aTTACATGTTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCAATTTTATGACCCgcgcgc > 1:1378843/1‑68 (MQ=255)
aCATGCTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCAATTTTATGAACCGCGCACTAtt > 1:69502/1‑71 (MQ=255)
cATGCTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCAATTTTATGAACCGCGCACTAtt < 1:1417087/70‑1 (MQ=255)
cATGCTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCAATTTTATGAACCGCGCACTAtt < 1:503623/70‑1 (MQ=255)
tgctgcCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCAATTTTATGAACCGCGCACTATTCAc < 1:354475/71‑1 (MQ=255)
gctgcCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCAAttt < 1:1323185/49‑1 (MQ=255)
gctgcCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCAAttt < 1:1727693/49‑1 (MQ=255)
|
TTCACGCGCAGAAGTGAACGAGATGCAGATCCTCAAACAAGCTGATGTGGTGATGCTCAATTACATGCTGCCGGAGCAGTTCTCAGCGGCATCGTGTCTTGCCAATCTGCAATTTTATGAACCGCGCACTATTCAC > minE/909506‑909641
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
