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 |
|
A3 F1 I1 R1
|
781 |
46.9 |
2231650 |
93.5% |
2086592 |
109.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,770,987 |
T→C |
C103R (TGT→CGT) |
yfjS → |
CP4‑57 prophage, uncharacterized protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,770,987 | 0 | T | C | 98.1%
| 187.9
/ NA
| 54 | C103R (TGT→CGT) | yfjS | CP4‑57 prophage, uncharacterized protein |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base C (24/28); total (25/29) |
| 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 |
ACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTTGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGCAAACTGATGGGACGGCTGCTGATACCGTC > NC_000913/2770851‑2771102
|
acaGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGt < 1:637942/139‑1 (MQ=255)
tGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGcc < 2:761310/139‑1 (MQ=255)
ggCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCg > 1:476576/1‑139 (MQ=255)
ggCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCg > 2:584734/1‑139 (MQ=255)
gCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGa < 2:884229/139‑1 (MQ=255)
tcATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAata < 2:420547/139‑1 (MQ=255)
cATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAatat < 2:327587/139‑1 (MQ=255)
tCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCa < 1:769423/139‑1 (MQ=255)
cAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACg < 2:1012515/139‑1 (MQ=255)
aCGTACCCGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACg < 1:1015815/139‑1 (MQ=255)
aCGTACCCGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACg < 2:879919/139‑1 (MQ=255)
aCGTACCCGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACg < 1:123345/139‑1 (MQ=255)
ccGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCg > 2:1054352/1‑139 (MQ=255)
ccGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCg > 1:730606/1‑139 (MQ=255)
aGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACg < 1:886111/120‑1 (MQ=255)
aGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACg > 2:886111/1‑120 (MQ=255)
tCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACga < 1:584734/139‑1 (MQ=255)
cGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTc > 2:562498/1‑139 (MQ=255)
tGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAatat > 1:517865/1‑139 (MQ=255)
ggCAGTTACTACTATCTGGTAGATAGGGA‑GAGAAAACCGTCCAGCCCGCGATGGATGGGGCTTGTTATTGCCGCAATTTTCAACCTGGATTA‑CACCAAGGTTCCGACCCGTTAACGAAAGAAAAAAAATTTGaaatatt > 1:816571/1‑134 (MQ=255)
tactacTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATg < 2:476576/139‑1 (MQ=255)
taTCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGCa < 1:443504/139‑1 (MQ=255)
cTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGCAAAc > 2:860585/1‑139 (MQ=255)
cTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGCAAAc < 1:1054352/139‑1 (MQ=255)
ggTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGCAAACTg > 1:541636/1‑139 (MQ=255)
gTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGCAAACTGa > 2:1113641/1‑139 (MQ=255)
tAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTTGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTAct < 1:683820/86‑2 (MQ=255)
tAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACg > 2:683820/1‑86 (MQ=255)
tatGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACg > 1:172964/1‑82 (MQ=255)
tatGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACg < 2:172964/82‑1 (MQ=255)
tatGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGCAAACTGATGGGa < 2:541636/139‑1 (MQ=255)
atGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGAc < 1:90522/84‑1 (MQ=255)
atGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGAc > 2:90522/1‑84 (MQ=255)
ggaggaGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTgg > 2:499461/1‑62 (MQ=255)
ggaggaGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTgg < 1:499461/62‑1 (MQ=255)
aggagAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGCAAACTGATGGGACGgct > 1:395322/1‑139 (MQ=255)
ggagAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATAcc > 1:813426/1‑65 (MQ=255)
ggagAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATAcc < 2:813426/65‑1 (MQ=255)
ggagAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGCAAACTGATGGGACg > 1:692188/1‑135 (MQ=255)
ggagAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGCAAACTGATGGGACg < 2:692188/135‑1 (MQ=255)
gaAAACCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGCAAACTGATGGGACGGctgctg > 2:463492/1‑139 (MQ=255)
aaaaCCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATAc < 2:1075248/60‑1 (MQ=255)
aaaaCCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATAc > 1:1075248/1‑60 (MQ=255)
aaaaCCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGc < 1:1067854/117‑1 (MQ=255)
aaaaCCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGc > 2:1067854/1‑117 (MQ=255)
aaaaCCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGCAAACTGATGGGa > 2:818163/1‑129 (MQ=255)
aaaaCCGTCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGCAAACTGATGGGa < 1:818163/129‑1 (MQ=255)
tCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGAc < 2:540283/68‑1 (MQ=255)
tCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGAc > 1:540283/1‑68 (MQ=255)
tCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGCAAACTGATGGGACg > 2:996708/1‑124 (MQ=255)
tCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGCAAACTGATGGGACg < 1:996708/124‑1 (MQ=255)
tCCAGCCGCTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGCAAACTGATGGGACGGCTGCTGATACCGTc < 2:517865/139‑1 (MQ=255)
cTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGAc > 1:10623/1‑60 (MQ=255)
cTGATGAAT‑GCGCTTCGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGAc < 2:10623/60‑1 (MQ=255)
|
ACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAAT‑GCGCTTTGTATTGCCGACAATATCAAACTGGAATACCACGAAGTTACGGACCCGTATACGAAAGAAAAATACTTCGAATATTCCCATGACGGCAAACTGATGGGACGGCTGCTGATACCGTC > NC_000913/2770851‑2771102
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
