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 |
1,750,507 |
C→A |
100% |
S236S (TCG→TCT) |
yfiF ← |
predicted methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,750,507 | 0 | C | A | 75.0%
| 36.7
/ 13.3
| 32 | S236S (TCG→TCT) | yfiF | predicted methyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (5/3); new base A (24/0); total (29/3) |
| Fisher's exact test for biased strand distribution p-value = 1.13e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TGTTGTCGCCAGTAATCGGCTGAACGTGCTCTGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCCGACTCCAGCAGTGCCGCATCCTGCACCACGACACCTTTCACGCCGAAGTGCGCGCAGCTGCGCAT > minE/1750443‑1750572
|
tgttgtCGCCAGTAATCGGCTGAACGTGCTCTGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGAc > 1:2590180/1‑68 (MQ=255)
tgttgtCGCCAGTAATCGGCTGAACGTGCTCTGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGAc > 1:818905/1‑68 (MQ=255)
tgttgtCGCCAGTAATCGGCTGAACGTGCTCTGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGAc > 1:2953541/1‑68 (MQ=255)
tgttgtCGCCAGTAATCGGCTGAACGTGCTCTGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGAc > 1:2947002/1‑68 (MQ=255)
tgttgtCGCCAGTAATCGGCTGAACGTGCTCTGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGAc > 1:2042734/1‑68 (MQ=255)
tgttgtCGCCAGTAATCGGCTGAACGTGCTCTGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGAc > 1:116104/1‑68 (MQ=255)
cAGTAATCGGCTGAACGTGCTCTGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCCGACTCCAGCAGTg > 1:462531/1‑69 (MQ=255)
cAGTAATCGGCTGAACGTGCTCTGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCCGACTCCAGCAGTg > 1:1115469/1‑69 (MQ=255)
ggCTGAACGTGCTCTGCTCCGCCTTCTGCGGTACGGATAGCCGCCCCCGACTCCAGCAGTTCCGCATcc < 1:190356/69‑1 (MQ=255)
ggCTGAACGTGCTCTGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCCGACTCCAGCAGTGCCGCATcc < 1:2402643/69‑1 (MQ=255)
cGTGCTCTGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCCGACTCCAGCAGTGCCGCATCCTGcacc > 1:2968362/1‑68 (MQ=255)
cGTGCTCTGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCCGACTCCAGCAGTGCCGCATCCTGcacc > 1:1481297/1‑68 (MQ=255)
tGCGCCGCCTTCTGCGGTCCGGATAGCCGCCCCAGACTCCAGCAGTGCTGCATGCTGcaccaca > 1:36960/1‑63 (MQ=255)
tGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGa > 1:1771840/1‑36 (MQ=255)
tGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGACTCCAGCAGTGCTGCATCCTGcaccaca > 1:3177464/1‑63 (MQ=255)
tGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGACTCCAGCAGTGCTGCATCCTGcaccaca > 1:748464/1‑63 (MQ=255)
tGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGACTCCAGCAGTGCTGCATCCTGcaccaca > 1:719746/1‑63 (MQ=255)
tGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGACTCCAGCAGTGCTGCATCCTGcaccaca > 1:180634/1‑63 (MQ=255)
tGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGACTCCAGCAGTGCTGCATCCTGcaccaca > 1:417064/1‑63 (MQ=255)
tGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGACTCCAGCAGTGCTGCATCCTGcaccaca > 1:3395566/1‑63 (MQ=255)
tGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGACTCCAGCAGTGCTGCATCCTGcaccaca > 1:3381612/1‑63 (MQ=255)
tGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGACTCCAGCAGTGCTGCATCCTGcaccaca > 1:3313638/1‑63 (MQ=255)
tGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGACTCCAGCAGTGCTGCATCCTGcaccaca > 1:3288344/1‑63 (MQ=255)
tGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGACTCCAGCAGTGCTGCATCCTGcaccaca > 1:2197508/1‑63 (MQ=255)
tGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGACTCCAGCAGTGCTGCATCCTGcaccaca > 1:3113243/1‑63 (MQ=255)
tGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGACTCCAGCAGTGCTGCATCCTGcaccaca > 1:2984996/1‑63 (MQ=255)
tGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGACTCCAGCAGTGCTGCATCCTGcaccaca > 1:1766808/1‑63 (MQ=255)
tGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGACTCCAGCAGTGCTGCATCCTGcaccaca > 1:144891/1‑63 (MQ=255)
tGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGACTCCAGCAGTGCTGCATCCTGcaccaca > 1:2574432/1‑63 (MQ=255)
tGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCAGACTCCAGCAGTGCTGCATCCTGcaccaca > 1:2486030/1‑63 (MQ=255)
ccgccTTCTGCGGTACGGATAGCCGCCCCCGACTCCAGCAGTGCCGCATCCTTCACCACGACACCttt < 1:2484136/68‑1 (MQ=255)
aCGGATAGCCGCCCCCGACTCCAGCAGTGCCGCATCCTGCACCACGACACCTTTCACGCCGa > 1:1335709/1‑62 (MQ=255)
ccccGACTCCAGCAGTGCCGCATCCTGCACCACGACACCTTTCACGCCGAAGTGCGCGCATCTGCGcat < 1:2521435/69‑1 (MQ=255)
|
TGTTGTCGCCAGTAATCGGCTGAACGTGCTCTGCGCCGCCTTCTGCGGTACGGATAGCCGCCCCCGACTCCAGCAGTGCCGCATCCTGCACCACGACACCTTTCACGCCGAAGTGCGCGCAGCTGCGCAT > minE/1750443‑1750572
|
| 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
