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 |
|
A14 F56 I20 R2
|
1958 |
92.1 |
3575798 |
91.1% |
3257551 |
126.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
CP006881 |
2,197,940 |
T→A |
R66R (CGA→CGT) |
U712_11010 ← |
Chorismate synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP006881 | 2,197,940 | 0 | T | A | 97.4%
| 103.9
/ NA
| 38 | R66R (CGA→CGT) | U712_11010 | Chorismate synthase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base A (10/27); minor base C (0/1); total (10/28) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGGTCTCGGTCTGGAAATTTGGCGCTTCATTTCCTTTTCTTCATCCTCTGTAATCGGAGCCGCACCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACGACGAGAGCAATTGGTGAACCGAGTGTTCGTGCATGACGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGT‑GGCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAG > CP006881/2197808‑2198073
|
aGGTCTCGGTCTGGAAATCTTGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCa < 5:186526/139‑1 (MQ=255)
ggTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAAATACGATAGCAATTTGCGAACCGAGTGTACGTTCCTGGCGCa > 7:423394/1‑139 (MQ=255)
ggTCTGGAAATCTGGCGCTTCAGTTCCTTTTAGTGATCTTCTGTAATCGGAGAGGCGCCCATGATTTTTGTCAAATGCGTACAATCGTTATTTTCAACTACGATCGGAATTGGCGCCCCGAGTGTACGTGCCTGGCGCa > 6:174228/1‑139 (MQ=255)
tCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCAcc < 3:68683/139‑1 (MQ=255)
aaTCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTc < 4:341121/139‑1 (MQ=255)
atctGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCa < 3:144643/136‑1 (MQ=255)
atctGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCa < 5:398283/136‑1 (MQ=255)
tGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATaa > 5:419096/1‑139 (MQ=255)
gcgcTTCATTTGCTTTTGTTGATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTGCCATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTTGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAAtt > 8:301247/1‑139 (MQ=255)
gcgcTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAAtt < 6:259902/139‑1 (MQ=255)
aTTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGcc < 6:223694/138‑1 (MQ=255)
aTCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGAt < 1:177708/138‑1 (MQ=255)
cttctGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTg > 3:284585/3‑139 (MQ=255)
tGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGGCTGGTCGTTTTCGATCTGCATg > 2:127216/1‑139 (MQ=255)
tAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATgcg < 1:23008/139‑1 (MQ=255)
aGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGgcggccg > 3:400046/1‑139 (MQ=255)
cccATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGATCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGGTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGt < 6:425864/139‑1 (MQ=255)
cATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGT‑gt < 6:75606/139‑2 (MQ=255)
tCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGGGCGTTTTTggg > 8:309277/1‑138 (MQ=255)
cAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGT‑GTCCTTTTTGGCGt < 7:75501/138‑1 (MQ=255)
cTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGT‑GTCCTTTTTGGCGTCTGGc < 3:5828/138‑1 (MQ=255)
ccAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGT‑GGGCGTTTTTGGGTCTgggcg > 6:177948/1‑134 (MQ=255)
aTCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGT‑GTCCTTTTTGGCGTCTGGCAAGCTCa < 3:168391/139‑1 (MQ=255)
aTTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGT‑GTCCTTTTTGGCGTCTGGCAAGCTCAAAATTg < 3:251976/139‑1 (MQ=255)
ttttCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGGCTTTATCGATCTGCATGCGGCGGCCGCGGCCGT‑GTCCTTTTTGGCGGCTGGCAAGCTCAAAATTg < 8:60014/138‑1 (MQ=255)
actacgaGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGT‑GTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCtt < 1:76207/136‑1 (MQ=255)
ctacgaGAGCAATTGGCGAACCTAGTGTCCGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCCTGCGGCGGCCGCGGCCGT‑GTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTtc < 8:322929/137‑1 (MQ=255)
ctacgaGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTGTTTTTCGATCTGCATGCGGCGGCCGCGGCCGT‑GTAGTTTTTGGAGTCTGGCAAGCTCAAAATTGATATCTtc < 1:295233/137‑1 (MQ=255)
ctacgaGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGT‑GTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTtc < 5:314458/137‑1 (MQ=255)
agagCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGT‑GTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCg < 4:400046/139‑1 (MQ=255)
agagCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGT‑GTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCg < 8:423394/139‑1 (MQ=255)
aTTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGT‑GTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGt < 3:276453/139‑1 (MQ=255)
ttGGCGAACCGCGTGTACGTGACTGGCGCACCCCGCTCATAATTTTTGCCTGGTCTTTTTCTATCTGCATGCGGCGGCCGCGGCCGT‑GTCCTTTTTGTCGTCTGGGAAGCTCAAAATTGATATCTTCCTCCGTTATGTa < 6:436314/139‑1 (MQ=255)
cgAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGTTCTGCATGCGGCGGCCGCGGCCGT‑GTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGc < 2:82333/138‑1 (MQ=255)
cgAACCGAGTGTACGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGT‑GTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGc < 4:284585/138‑1 (MQ=255)
ccGAGTGTACGTGCATGGCGCACCCCGCTCATAATTATGGCCTGGGCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGT‑GTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCgg < 8:204382/139‑1 (MQ=255)
ccGAGTGGACGTGCATGGCTCAGCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGT‑GTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCgg < 6:71953/139‑1 (MQ=255)
aGTGTACGTGCATGGCGCACCCCGCGCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCTGT‑GTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCggcag > 7:62843/1‑139 (MQ=255)
|
AGGTCTCGGTCTGGAAATTTGGCGCTTCATTTCCTTTTCTTCATCCTCTGTAATCGGAGCCGCACCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACGACGAGAGCAATTGGTGAACCGAGTGTTCGTGCATGACGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGT‑GGCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAG > CP006881/2197808‑2198073
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
