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 |
|
A1 F1 I2 R1
|
882 |
254.4 |
12957588 |
98.0% |
12698436 |
93.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,941,738 |
2 bp→GG |
noncoding (413‑414/2906 nt) |
rrlC → |
23S ribosomal RNA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,941,738 | 0 | A | G | 100.0%
| 128.9
/ NA
| 65 | noncoding (413/2906 nt) | rrlC | 23S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (39/26); total (39/26) |
| * | NC_000913 | 3,941,739 | 0 | C | G | 90.6%
| 93.2
/ 8.6
| 64 | noncoding (414/2906 nt) | rrlC | 23S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base C (4/2); new base G (34/24); total (38/26) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
CAGGGTGACAGCCCCGTACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATAT‑‑GGGAGGGA‑C‑‑CATCCTCCAAGGCTAAATACTCCTGACTGACCGATAGTGAACCAGTACCGTGAGGGAA > NC_000913/3941648‑3941797
|||
cAGGGTGACAGCCCCGTACTCAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATAT‑‑GGGGGGGG‑c‑‑c > 2:6273733/1‑93 (MQ=255)
aGCCCCGTACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCa > 1:3116169/1‑93 (MQ=11)
gCCCCGTACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCaa > 1:5712588/1‑93 (MQ=14)
gCCCCGTACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATAT‑‑GGGGGGGG‑C‑‑CATCCTCCAAg > 2:1588095/1‑93 (MQ=255)
ccccGTACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATAT‑‑GGGGGGGG‑G‑‑CATCCTCCAAgg > 1:1445065/1‑93 (MQ=255)
cccGTACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAgg > 2:2155459/1‑93 (MQ=14)
cccGTACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CAGCCTCCAAgg > 2:311875/1‑93 (MQ=11)
cccaacacAAAAATGCACATATTGTGAGCCCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATAT‑‑GGGGGGGG‑GG‑CATCCTCCAAGGc < 2:6075164/89‑1 (MQ=14)
ccGTACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CCTCCTCCAAGGc > 2:1473406/1‑93 (MQ=11)
ccGTACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAggt > 1:3913488/1‑92 (MQ=14)
ccGTACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGc > 2:931274/1‑93 (MQ=14)
cGTACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCt > 2:4858622/1‑93 (MQ=14)
cGTACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCt > 1:2460808/1‑93 (MQ=14)
cGTACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCt > 1:645120/1‑93 (MQ=14)
gTACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATGGGGGGGGGG‑G‑‑CATCCTCCAAGGCt > 1:2038145/1‑93 (MQ=14)
gTACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTa > 2:2122032/1‑93 (MQ=14)
tACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTaa > 2:4749652/1‑93 (MQ=14)
tACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTaa > 1:5211382/1‑93 (MQ=14)
tACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATAT‑‑GGGGGGGG‑C‑‑CATCCTCCAAGGCTaaa > 1:839205/1‑93 (MQ=255)
acacAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑GATCCTCCAAGGCTaaa > 1:1154549/1‑93 (MQ=14)
cgcaAAAATGCGCATATTGTGAGCTCGATGGGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAAt < 2:5922525/91‑1 (MQ=14)
cacaAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAAt < 1:1031130/93‑1 (MQ=11)
cacaAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAAt < 2:4814714/93‑1 (MQ=11)
cacaAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAAt > 2:3400246/1‑93 (MQ=14)
cacaAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAAt > 1:866125/1‑93 (MQ=14)
acaAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATa < 2:4090950/93‑1 (MQ=11)
acaAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATa > 1:4006111/1‑93 (MQ=14)
acaAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATa < 1:4749652/93‑1 (MQ=11)
aaaaaaaTGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATa < 1:4400753/91‑1 (MQ=11)
caAAAATGCACATATTGTGAGCTCGATGAGTAGGGGGGGACCCGTGGTATCCTGTCTGAATAT‑‑GGGGGGGGGG‑‑CATCCTCCAAGGCTAAATAc < 1:83801/93‑1 (MQ=11)
caAAAATGCACATATTGTGAGCTCGATGAGTAGGGGGGGACACGTGGTATCCTGTCTGAATAT‑‑GGGGGGGG‑GGGCATCCTCCAAGGCTAAATa < 1:2580697/93‑1 (MQ=14)
caAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATAc > 1:3702383/1‑93 (MQ=14)
caAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATAc < 1:1430736/93‑1 (MQ=11)
caAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATAT‑‑GGGGGGGGGG‑‑CATCCTCCAAGGCTAAATAc < 2:3142469/93‑1 (MQ=14)
aaaaaTGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACt > 1:2787499/1‑93 (MQ=14)
aaaaaTGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCCAAATACt > 2:942568/1‑93 (MQ=14)
aaaTGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTcc < 1:5279350/93‑1 (MQ=11)
aaaTGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTcc < 2:3210058/93‑1 (MQ=11)
aaaTGCACATATGGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATAT‑‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCct < 2:376092/93‑1 (MQ=14)
aaTGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCct < 1:6309823/93‑1 (MQ=11)
aaTGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCct > 2:69703/1‑93 (MQ=14)
aaTGCACATATTGGGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTTTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCct < 1:1126002/93‑1 (MQ=11)
aTGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCctg > 2:1066217/1‑93 (MQ=14)
aTGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCctg > 1:1749477/1‑93 (MQ=14)
tGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCctga > 2:1963151/1‑93 (MQ=14)
tGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCCAAATACTCctga > 1:163937/1‑93 (MQ=14)
gCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCctgac < 1:5881249/93‑1 (MQ=11)
gCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCctgac < 1:1059644/93‑1 (MQ=11)
gCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCctgac > 2:2055587/1‑93 (MQ=14)
gCAAATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATAT‑‑GGGGGGGG‑GG‑CATCCTCCAAGGCTAAATACTCctgac < 1:3411698/93‑1 (MQ=11)
cacaTATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCctgact > 1:4647437/1‑93 (MQ=14)
cacaTATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATAT‑‑GGGGGGGGGG‑‑CATCCTCCAAGGCTAAATACTCctgact < 1:1646951/93‑1 (MQ=14)
acaTATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCctgactg > 2:2803057/1‑93 (MQ=14)
acaTATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCctgactg > 2:231021/1‑93 (MQ=14)
acaTATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCctgactg > 1:1616296/1‑93 (MQ=14)
acaTATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCctgactg > 2:5906840/1‑93 (MQ=14)
acaTATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCctgactg > 2:5413094/1‑93 (MQ=14)
caTATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑GATCCCCCAAGGCTAAATACTCccgactga > 2:380014/1‑93 (MQ=11)
caTATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCctgactga > 2:804026/1‑93 (MQ=11)
atatTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATAT‑‑GGGGGGGG‑G‑‑GATCCTCCAAGGCTAAATACTCCTGACTCAcc > 2:5649042/1‑93 (MQ=14)
tatTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑GATCCTCCAAGGCTAAATACTCCTGACTGAcc > 1:310321/1‑93 (MQ=11)
tatTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCCTGACTGAcc < 1:5802105/93‑1 (MQ=11)
tatTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATAT‑‑GGGGGGGG‑C‑‑CATCCTCCAAGGCTTAATACTCCTGACTGACCg > 1:3999151/1‑93 (MQ=255)
gttGTGAGCTCGAGGAGTGGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCCTGACTGACCg < 1:4797222/92‑1 (MQ=11)
atTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCCTGACTGACCg > 1:4313942/1‑93 (MQ=11)
ttGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCCTGACTGACCGa > 1:1974852/1‑93 (MQ=11)
ttGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCCTGACTGACCGa < 1:3443664/93‑1 (MQ=11)
ttGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATG‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCCTGACTGACCGa > 1:410944/1‑93 (MQ=11)
tgAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATAT‑‑GGGGGGGG‑G‑‑CATCCTCCAAGGCTAAATACTCCTGACTGACCGATAGt < 1:3111072/93‑1 (MQ=255)
gCGGGACACGTGGTCTCCTGTCTGAATAT‑‑GGGGGGGG‑C‑‑CATCCTCCAAGGCTAAATACTCCTGACTGACCGATAGTGAACCAGTACCGTggag > 2:4683291/1‑90 (MQ=11)
gggACACGTGGTATCCTGTCTGAATAT‑‑GGGGGGGG‑C‑‑CATCCTCCAAGGCTAAATACTCCTGACTGACCGATAGTGAACCAGTACCGTGAGGGa < 1:4610222/93‑1 (MQ=16)
ggACACGTGGTATCCTGTCTGAATAT‑‑GGGGGGGG‑C‑‑CATCCTCCAAGGCTAAATACTCCTGACTGACCGATAGTGAACCAGTACCGTGAGGGaa < 2:4932633/93‑1 (MQ=16)
|||
CAGGGTGACAGCCCCGTACACAAAAATGCACATATTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATAT‑‑GGGAGGGA‑C‑‑CATCCTCCAAGGCTAAATACTCCTGACTGACCGATAGTGAACCAGTACCGTGAGGGAA > NC_000913/3941648‑3941797
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
