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 |
2,522,265 |
C→T |
36.9% |
G112G (GGG→GGA) |
yicG ← |
conserved inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,522,265 | 0 | C | T | 36.9%
| 25.6
/ 25.3
| 46 | G112G (GGG→GGA) | yicG | conserved inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (17/12); new base T (13/4); total (30/16) |
| Fisher's exact test for biased strand distribution p-value = 3.38e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.20e-01 |
GCGCAAAACGCCGCCAAACACGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCAACCTGTGCCCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAGCAC > minE/2522202‑2522330
|
gcgcAAAACGCCGCCAAACCCGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCat > 1:3427853/1‑69 (MQ=255)
gcgcAAAACGCCGCCAAACACGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCat > 1:2443052/1‑69 (MQ=255)
gcgcAAAACGCCGCCAAACACGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCat > 1:3360506/1‑69 (MQ=255)
gcgcAAAACGCCGCCAAACACGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCat > 1:694488/1‑69 (MQ=255)
gcgcAAAACGCCGCCAAACACGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCAGTGCCCCat > 1:506334/1‑69 (MQ=255)
ccgccAAACACGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCa < 1:985455/69‑1 (MQ=255)
ccgccAAACACGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCa < 1:2641891/69‑1 (MQ=255)
cgccAACCACGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCa < 1:475373/68‑1 (MQ=255)
cgccAAACACGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCaa < 1:25748/69‑1 (MQ=255)
cgccAAACACGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCa < 1:3340595/68‑1 (MQ=255)
cacGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCAAc > 1:2199289/1‑63 (MQ=255)
cacGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCAACCTGTGc > 1:180955/1‑69 (MQ=255)
cacGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCAACCTGTGc > 1:2404236/1‑69 (MQ=255)
cacGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCAACCTGTGc > 1:3331406/1‑69 (MQ=255)
cacGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCAACCTGTGc > 1:3071270/1‑69 (MQ=255)
cacGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCAACCTGTGc > 1:2602994/1‑69 (MQ=255)
cacGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCAACCTGTGc > 1:2660885/1‑69 (MQ=255)
cacGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCAACCTGTGc > 1:2996379/1‑69 (MQ=255)
cacGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCAACCTGTGc > 1:393131/1‑69 (MQ=255)
aCCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCAACCTGTGCCCCGATGATa > 1:636723/1‑66 (MQ=255)
aCCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCAACCTGTGCCCCGATGATAg > 1:3026965/1‑67 (MQ=255)
aCCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCAACCTGTGCCCCGATGATAg > 1:1175152/1‑67 (MQ=255)
gccgcGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCAACCTGTGCCCCGATGATAGaaaa < 1:1343284/68‑1 (MQ=255)
gcgACAACGGCAATAATTGGGCCGTGTCCCATATCCAGTGCAACCTGTGCGCCGATGATAGAAAAGacc < 1:882605/69‑1 (MQ=255)
gcgACAACGGCAATAATTGGGCCGTGTCCCATATCCAGTGCAACCTGTGCGCCGATGATAGAAAAGacc < 1:1973775/69‑1 (MQ=255)
gcgACAACGGCAATAATTGGGCCGTGTCCCATATCCAGTGCAACCTGTGCGCCGATGATAGAAAAGacc < 1:2888607/69‑1 (MQ=255)
gcgACAACGGCAATAATTGGGCCGTGTCCCATATCCAGTGCAACCTGTGCGCCGATGATAGAAAAGacc < 1:1531079/69‑1 (MQ=255)
ccGTGCCCCATATCCAGTGCAACCTGTGCCCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAg < 1:448192/68‑1 (MQ=255)
ccGTGCCCCATATCCAGTGCAACCTGTGCCCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAg < 1:1224525/68‑1 (MQ=255)
ccGTGCCCCATATCCAGTGCAACCTGTGCCCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAg < 1:654687/68‑1 (MQ=255)
ccGTGCCCCATATCCAGTGCAACCTGTGCCCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAGc < 1:1733038/69‑1 (MQ=255)
ccGTGCCCCATATCCAGTGCAACCTGTGCCCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAGc < 1:3359508/69‑1 (MQ=255)
cGTGTCCCATATCCAGTGCAACCTGTGCGCCGATGATAGaaaa > 1:2889432/1‑43 (MQ=38)
cGTGTCCCATATCCAGTGCAACCTGTGCGCCGATGATAGAAAAGCCCACCAGTCCGAGCGCATCGAGc > 1:2270878/1‑68 (MQ=255)
cGTGTCCCATATCCAGTGCAACCTGTGCGCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAGc > 1:3098868/1‑68 (MQ=255)
cGTGTCCCATATCCAGTGCAACCTGTGCGCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAGc > 1:376349/1‑68 (MQ=255)
cGTGTCCCATATCCAGTGCAACCTGTGCGCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAGc > 1:2896782/1‑68 (MQ=255)
cGTGTCCCATATCCAGTGCAACCTGTGCGCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAGc > 1:2446755/1‑68 (MQ=255)
cGTGTCCCATATCCAGTGCAACCTGTGCGCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAGc > 1:2270547/1‑68 (MQ=255)
cGTGTCCCATATCCAGTGCAACCTGTGCGCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAGc > 1:209230/1‑68 (MQ=255)
cGTGTCCCATATCCAGTGCAACCTGTGCGCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAGc > 1:2002678/1‑68 (MQ=255)
cGTGTCCCATATCCAGTGCAACCTGTGCGCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAGc > 1:1690697/1‑68 (MQ=255)
cGTGTCCCATATCCAGTGCAACCTGTGCGCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAGc > 1:736429/1‑68 (MQ=255)
cGTGTCCCATATCCAGTGCAACCTGTGCGCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAGc > 1:1612999/1‑68 (MQ=255)
cGTGTCCCATATCCAGTGCAACCTGTGCGCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAGc > 1:1198581/1‑68 (MQ=255)
gTGCCCCATATCCAGTGCAACCTGTGCCCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAGCAc < 1:63577/69‑1 (MQ=255)
|
GCGCAAAACGCCGCCAAACACGCCGGTGGTTACCGCCGCGACAACGGCAATAATTGGGCCGTGCCCCATATCCAGTGCAACCTGTGCCCCGATGATAGAAAAGACCACCAGTCCGAGCGCATCGAGCAC > minE/2522202‑2522330
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
