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 |
2,525,940 |
G→C |
54.2% |
A78A (GCG→GCC) |
pyrE → |
orotate phosphoribosyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,525,940 | 0 | G | C | 54.2%
| 15.4
/ 94.8
| 83 | A78A (GCG→GCC) | pyrE | orotate phosphoribosyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (21/17); new base C (4/41); total (25/58) |
| Fisher's exact test for biased strand distribution p-value = 7.08e-06 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.47e-01 |
GCATTGGTGGATTCTGGCATTGAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTACTGC > minE/2525872‑2525994
|
gCATTGGTGGATTCTGGCATTGAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCg > 1:1197598/1‑69 (MQ=255)
aTTGGTGGATTCTGGCATTGAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGAc < 1:1010818/69‑1 (MQ=255)
aTTGGTGGATTCTGGCATTGAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGAc < 1:626076/69‑1 (MQ=255)
aTTGGTGGATTCTGGCATTGAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGAc < 1:2227028/69‑1 (MQ=255)
aTTGGTGGATTCTGGCATTGAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGAc < 1:2083943/69‑1 (MQ=255)
aTTGGTGGATTCTGGCATTGAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGAc < 1:2044697/69‑1 (MQ=255)
aTTGGTGGATTCTGGCATTGAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGAc < 1:7851/69‑1 (MQ=255)
aTTGGTGGATTCTGGCATTGAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGAc < 1:914738/69‑1 (MQ=255)
aTTGGTGGATTCTGGCATTGAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGAc < 1:1411461/69‑1 (MQ=255)
ttGGTGGATTCTGGCATTGAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGAcc > 1:300633/1‑69 (MQ=255)
ttGGTGGATTCTGGCATTGAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGAcc > 1:982977/1‑69 (MQ=255)
ttGGTGGATTCTGGCATTGAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGAcc > 1:888389/1‑69 (MQ=255)
ttGGTGGATTCTGGCATTGAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGAc < 1:663811/68‑1 (MQ=255)
ggtggATTCTGGCATTGAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGACCAc > 1:342358/1‑69 (MQ=255)
gAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCt > 1:238265/1‑68 (MQ=255)
gAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCt > 1:74856/1‑68 (MQ=255)
gAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTg > 1:1367985/1‑69 (MQ=255)
gAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTg > 1:3145048/1‑69 (MQ=255)
gAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTg > 1:992265/1‑69 (MQ=255)
gAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTg > 1:1092736/1‑69 (MQ=255)
gAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTg > 1:1096708/1‑69 (MQ=255)
gAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTg > 1:294271/1‑69 (MQ=255)
gAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTg > 1:714956/1‑69 (MQ=255)
gAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTg > 1:955128/1‑69 (MQ=255)
gAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTg > 1:781302/1‑69 (MQ=255)
gAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTg > 1:1665647/1‑69 (MQ=255)
gAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTg > 1:1738275/1‑69 (MQ=255)
gAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTg > 1:887605/1‑69 (MQ=255)
gAGTTCGATCTGCTGTTTGGACCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTg > 1:1193016/1‑69 (MQ=255)
tGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTGGCGGAGCATCAtgac < 1:2288078/67‑1 (MQ=255)
tGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTGGCGGAGCATCAtgac < 1:341493/67‑1 (MQ=255)
tGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTGGCGGAGCATCAtgac < 1:2096562/67‑1 (MQ=255)
cccTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTGGCGGAGCATCAtgaccttg < 1:838904/68‑1 (MQ=255)
cccTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTGGCGGAGCATCAtgaccttg < 1:3167350/68‑1 (MQ=255)
cccTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTGGCGGAGCATCAtgaccttg < 1:2072089/68‑1 (MQ=255)
ccTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTGGCGGAGCATCAtgaccttga < 1:1966702/68‑1 (MQ=255)
ccTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTGGCGGAGCATCAtgaccttg < 1:929681/67‑1 (MQ=255)
cTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTGGCGGAGCATCAtgacctt > 1:1573139/1‑62 (MQ=255)
aaaGTGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:2839297/68‑1 (MQ=255)
aaaGTGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:3378464/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCTTa < 1:663915/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:977098/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:657526/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:917290/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:491979/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:457429/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:400728/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:364686/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:895972/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:693568/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:783485/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:3025609/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:363380/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:2145780/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:1776260/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:1767784/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:2780098/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:1193702/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:1171016/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:3089867/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:3105705/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:1096302/68‑1 (MQ=255)
aaaGGGATCCCGATTGCCACAACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:48935/68‑1 (MQ=255)
aGGGATCCCGATTTCCACCACTACCGCCGTGGCGCTGGCGGAGca < 1:972539/45‑1 (MQ=38)
aGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGca < 1:1184095/45‑1 (MQ=255)
aGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGca < 1:14481/45‑1 (MQ=255)
aGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGca < 1:1461425/45‑1 (MQ=255)
aGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGca < 1:1933895/45‑1 (MQ=255)
aGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGca < 1:3113796/45‑1 (MQ=255)
aGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGca < 1:1967055/45‑1 (MQ=255)
aGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGca < 1:2341897/45‑1 (MQ=255)
aGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGca < 1:708732/45‑1 (MQ=255)
aGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGca < 1:2805844/45‑1 (MQ=255)
aGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGca < 1:2957617/45‑1 (MQ=255)
aGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGca < 1:3072900/45‑1 (MQ=255)
aGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGca < 1:383238/45‑1 (MQ=255)
aGGGATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTa < 1:1044931/66‑1 (MQ=255)
aGGGATCCCGATTGCCACCACTACAGCCGTGGCGCTGGCGGAGca < 1:1199108/45‑1 (MQ=38)
ggATCCCGATTGCGACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTACTGc > 1:2693033/1‑68 (MQ=255)
ggATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGt > 1:808437/1‑63 (MQ=255)
ggATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTACTGc > 1:775990/1‑68 (MQ=255)
ggATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTACTGc > 1:1338174/1‑68 (MQ=255)
ggATCCCGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTACTGc > 1:2996615/1‑68 (MQ=255)
ccGATTGCCACCACTACCGCCGTGGCGCTGGCGGAGca < 1:2854676/38‑1 (MQ=255)
|
GCATTGGTGGATTCTGGCATTGAGTTCGATCTGCTGTTTGGCCCTGCTTACAAAGGGATCCCGATTGCGACCACTACCGCCGTGGCGCTGGCGGAGCATCATGACCTTGACCTGCCGTACTGC > minE/2525872‑2525994
|
| 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
