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 |
1,763,636 |
A→G |
36.1% |
noncoding (208/1542 nt) |
rrsG ← |
16S ribosomal RNA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,763,636 | 0 | A | G | 36.1%
| 17.8
/ 18.9
| 36 | noncoding (208/1542 nt) | rrsG | 16S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base A (18/5); new base G (2/11); total (20/16) |
| Fisher's exact test for biased strand distribution p-value = 4.09e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTAT > minE/1763575‑1763695
|
gAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGATGCCCGAGGGTcccc < 1:1328425/69‑1 (MQ=255)
gAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTcccc < 1:113188/69‑1 (MQ=255)
gAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTcccc < 1:1218165/69‑1 (MQ=255)
gAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTcccc < 1:1595820/69‑1 (MQ=255)
gAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTcccc < 1:1700426/69‑1 (MQ=255)
ccGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCctc > 1:1709555/1‑69 (MQ=255)
ccGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCctc > 1:2990410/1‑69 (MQ=255)
ccGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCct < 1:289842/68‑1 (MQ=255)
ccGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCctc > 1:1045819/1‑69 (MQ=40)
ccGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCctc > 1:946530/1‑69 (MQ=40)
ccGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCctc > 1:914026/1‑69 (MQ=40)
ccGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCctc > 1:3399364/1‑69 (MQ=40)
ccGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCctc > 1:2409185/1‑69 (MQ=40)
ccGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCct > 1:714772/1‑68 (MQ=40)
caccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCtt < 1:1102816/69‑1 (MQ=255)
caccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCtt < 1:1802454/69‑1 (MQ=255)
caccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCtt < 1:3368617/69‑1 (MQ=255)
caccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCtt < 1:2910124/69‑1 (MQ=255)
caccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCtt < 1:1806425/69‑1 (MQ=255)
aaTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGc > 1:245631/1‑69 (MQ=35)
aaTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGc > 1:269376/1‑69 (MQ=35)
aaTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGc > 1:41985/1‑69 (MQ=35)
aaTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGc > 1:342302/1‑69 (MQ=35)
aaTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGc > 1:2961717/1‑69 (MQ=35)
aaTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGc > 1:3025312/1‑69 (MQ=35)
aaTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGc > 1:3189950/1‑69 (MQ=35)
aaTCCCATCTGGGCACATCCGATGGAAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGc > 1:2043438/1‑69 (MQ=25)
ccATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCACTCTTTGGTCTTGCGACATTATGCGGt > 1:257980/1‑68 (MQ=25)
cacaTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt > 1:273300/1‑51 (MQ=33)
cacaTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt > 1:814151/1‑51 (MQ=33)
cacaTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt > 1:101855/1‑51 (MQ=33)
aaGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGtt < 1:333714/69‑1 (MQ=35)
aaGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGtt < 1:1935880/69‑1 (MQ=35)
aaGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGtt < 1:2872874/69‑1 (MQ=35)
gagGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTAt < 1:2698081/69‑1 (MQ=35)
gagGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTAt < 1:2046487/69‑1 (MQ=35)
|
GAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTAT > minE/1763575‑1763695
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
