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 |
|
A6 F1 I0 R2
|
251 |
90.0 |
5200563 |
86.9% |
4519289 |
59.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,763,636 |
A→G |
14.6% |
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 | 14.6%
| 95.0
/ 9.6
| 41 | noncoding (208/1542 nt) | rrsG | 16S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base A (11/24); new base G (2/4); total (13/28) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCC > minE/1763569‑1763699
|
cTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCTAGGGt > 1:1028553/1‑71 (MQ=255)
cTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGt > 1:4804307/1‑71 (MQ=255)
ttGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTc > 1:1251940/1‑71 (MQ=255)
ttGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTc > 1:4484325/1‑71 (MQ=255)
aGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCct < 1:304188/70‑1 (MQ=255)
aGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCctc < 1:2904722/71‑1 (MQ=39)
aGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCctc < 1:2615005/71‑1 (MQ=39)
aGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCctc < 1:2200549/71‑1 (MQ=39)
ttACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTgg < 1:1494854/71‑1 (MQ=255)
ccccACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCt < 1:1016439/71‑1 (MQ=255)
ccccACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCt < 1:2987580/71‑1 (MQ=39)
ccccACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCt < 1:4917521/71‑1 (MQ=39)
caccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTgg < 1:478146/65‑1 (MQ=255)
caccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGc < 1:4913370/71‑1 (MQ=39)
ccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGaa > 1:3341024/1‑48 (MQ=255)
caacaaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGa < 1:3641603/70‑1 (MQ=39)
caacaaGCTAATCCCATCTGGGCACATCCGATGGCAAGAAGCCCGAAGGTCCCCCTCTTTg < 1:3287513/61‑1 (MQ=255)
caacaaGCTAATCCCATCTGGGCACATCCGATGGCAAGAAGCCCGAAGGTCCCCCTCTTTg < 1:2732525/61‑1 (MQ=255)
caacaaGCTAATCCCATCTGGGCACATCCGATGGCAAGAAGCCCGAAGGTCCCCCTCTTTg < 1:4468679/61‑1 (MQ=255)
aacaaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGa < 1:3915921/69‑1 (MQ=37)
aacaaGCTAATCCCATCTGGGCACATCCGATGGCAAGAAGCCCGAAGGTCCCCCTCTTTg < 1:3690255/60‑1 (MQ=255)
acaaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGt > 1:419489/1‑48 (MQ=38)
aGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTAt < 1:4272631/71‑1 (MQ=34)
aGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTAt < 1:3532497/71‑1 (MQ=34)
aGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTAt < 1:739830/71‑1 (MQ=34)
aGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTAt < 1:1495861/71‑1 (MQ=34)
aGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTAt < 1:1768344/71‑1 (MQ=34)
gCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATg > 1:3521586/1‑71 (MQ=34)
gCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATg < 1:2947079/71‑1 (MQ=34)
gCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATg > 1:1528437/1‑71 (MQ=34)
cccATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACa > 1:488861/1‑60 (MQ=31)
cccATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACa > 1:4744069/1‑60 (MQ=31)
ggCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGc < 1:2985546/67‑1 (MQ=35)
gATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCagt < 1:3109179/71‑1 (MQ=34)
aaGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTAt < 1:4078482/71‑1 (MQ=34)
agGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATccc > 1:3509991/1‑71 (MQ=34)
agGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATccc > 1:1060731/1‑71 (MQ=34)
agGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATccc > 1:1997506/1‑71 (MQ=34)
agGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATccc > 1:3879270/1‑71 (MQ=34)
ggCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATcccc < 1:4318533/71‑1 (MQ=34)
ggCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATcccc < 1:463664/71‑1 (MQ=34)
ggCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATcccc < 1:1430355/71‑1 (MQ=34)
aGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTa > 1:2229688/1‑36 (MQ=40)
aGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTa > 1:1392609/1‑36 (MQ=40)
aGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTa > 1:1178561/1‑36 (MQ=40)
aGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTa > 1:3202234/1‑36 (MQ=40)
aGGTCCCCCTCTTTGGTCTTGCGACATTATGCAGt > 1:161583/1‑35 (MQ=255)
|
CTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCC > minE/1763569‑1763699
|
| 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
