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 |
|
A13 F1 I1 R1
|
86 |
24.1 |
1002126 |
98.1% |
983085 |
121.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,458,625 |
(G)6→7 |
coding (362/789 nt) |
paaG → |
1,2‑epoxyphenylacetyl‑CoA isomerase, oxepin‑CoA‑forming |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,458,619 | 1 | . | G | 90.0%
| 59.0
/ 1.1
| 20 | coding (356/789 nt) | paaG | 1,2‑epoxyphenylacetyl‑CoA isomerase, oxepin‑CoA‑forming |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base G (9/9); total (10/10) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.37e-01 |
CAGGCCCCGCACCGGATTTAGGGATGTCAGTTGAACGTTTCTATAACCCACTGGTACGTCGCCTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCACT‑GGGGGGCGACATCGTTATTGCTGCCCGTTCAGCAAAATTCGTCATGGCGTTTAGTAAGTTAGGCTTAATACCCGATTGCGGTGGAACCTGGTTACTGCCACGCGT > NC_000913/1458484‑1458724
|
caGGCCCCGCACCGGATTTAGGGATGTCAGTTGAACGTTTCTATAACCCACTGGTACGTCGCCTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCT‑ggg > 2:426401/1‑139 (MQ=255)
aGGCCCCGCACCGGATTTAGGGATGTCAGTTGAACGTTTCTATAACCCACTGGTACGTCGCCTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCT‑gggg > 2:159803/1‑139 (MQ=255)
ccGCACCGGATTTAGGGATGTCAGTTGAACGTTTCTATAACCCACTGGTACGTCGCCTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCT‑gggggggcg > 2:292695/1‑136 (MQ=255)
cGGATTTAGGGATGTCAGTTGAACGTTTCTATAACCCACTGGTACGTCGCCTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCg < 1:426401/139‑1 (MQ=255)
gggATGTCAGTTGAACGTTTCTATAACCCACTGGTACGTCGCCTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCGTTATtgct < 1:234436/139‑1 (MQ=255)
ttGAACGTTTCTATAACCCACTGGTACGTCGCCTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCGTTATTGCTGCCCGTTCAg < 1:159803/139‑1 (MQ=255)
cGTTTCTATAACCCACTGGTACGTCGCCTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCGTTATTGCTGCCCGTTCAGCaaaa > 1:92648/1‑139 (MQ=255)
cACTGGTACGTCGCCTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCGTTATTGCTGCCCGTTCAGCAAAATTCGTCATGGCGt > 1:119448/1‑139 (MQ=255)
cACTGGTACGTCGCCTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCGTTATTGCTGCCCGTTCAGCAAAATTCGTCATGGCGt > 1:112886/1‑139 (MQ=255)
aCTGGTACGTCGCCTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCGTTATTGCTGCCCGTTCAGCAAAATTCGTCATGGCGt < 2:381660/138‑1 (MQ=255)
aCTGGTACGTCGCCTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCT‑ggggggg < 1:400652/94‑2 (MQ=255)
aCTGGTACGTCGCCTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCT‑ggggggg > 2:400652/1‑93 (MQ=255)
aCTGGTACGTCGCCTGGCAAAACTGCCAAAACCGGTGATCTGTGAAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCGTTATTGCTGCCCGTTCAGCAAAATTCGTCATGGCGt > 1:381660/1‑138 (MQ=255)
tGGTACGTCGCCTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCGTTATTGCTGCCCGTTCAGCAAAATTCGTCATGGCGTTTa < 2:92648/139‑1 (MQ=255)
ccTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCGTTAtt > 2:455224/1‑95 (MQ=255)
ccTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCGTTAtt < 1:455224/95‑1 (MQ=255)
ccTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCGTTATTGCTGCCCGTTCAGCAAAATTCGTCATGGCGTTTAGTAAGTTAgg > 1:344932/1‑139 (MQ=255)
ccTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCGTTATTGCTGCCCGTTCAGCAAAATTCGTCATGGCGTTTAGTAAGTTAgg > 1:467917/1‑139 (MQ=255)
ccTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCGTTATTGCTGCCCGTTCAGCAAAATTCGTCATGGCGTTTAGTAAGTTAgg < 2:485381/139‑1 (MQ=255)
ccTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCT‑GGGGGGCGACATCGTTATTGCTGCCCGTTCAGCAAAATTCGTCATGGCGTTTa < 1:461471/128‑1 (MQ=255)
ccTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCT‑GGGGGGCGACATCGTTATTGCTGCCCGTTCAGCAAAATTCGTCATGGCGTTTa > 2:461471/1‑128 (MQ=255)
tgtgCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCGTTATTGCTGCCCGTTCAGCAAAATTCGTCATGGCGTTTAGTAAGTTAGGCTTAATACCCGATTGCGGTGGAACCTgg > 2:261146/1‑139 (MQ=255)
aTGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCGTTATTGCTGCCCGTTCAGCAAAATTCGTCATGGCGTTTAGTAAGTTAGGCTTAATACCCGATTGCGGTGGAACCTGGTTACTGCCAc < 2:467917/139‑1 (MQ=255)
ggcgtggcgGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCGTTATTGCTGCCCGTTCAGCAAAATTCGTCATGGCGTTTAGTAAGTTAGGCTTAATACCCGATTGCGGTGGAACCTGGTTACTGCCAcgc > 2:412251/1‑139 (MQ=255)
cgtggcgGCAGGGGCAGGCGCAACACTGGCGCTGGGGGGGCGACATCGTTATTGCTGCCCGTTCAGCAAAATTCGTCATGGCGTTTAGTAAGTTAGGCTTAATACCCGATTGCGGTGGAACCTGGTTACTGCCACGCGt < 1:261146/139‑1 (MQ=255)
|
CAGGCCCCGCACCGGATTTAGGGATGTCAGTTGAACGTTTCTATAACCCACTGGTACGTCGCCTGGCAAAACTGCCAAAACCGGTGATCTGTGCAGTCAATGGCGTGGCGGCAGGGGCAGGCGCAACACTGGCACT‑GGGGGGCGACATCGTTATTGCTGCCCGTTCAGCAAAATTCGTCATGGCGTTTAGTAAGTTAGGCTTAATACCCGATTGCGGTGGAACCTGGTTACTGCCACGCGT > NC_000913/1458484‑1458724
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
