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 |
|
A25 F36 I0 R2
|
1302 |
104.9 |
4551290 |
96.3% |
4382892 |
111.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
926,168 |
C→T |
18.2% |
intergenic (‑197/+57) |
serW ← / ← infA |
tRNA‑Ser/translation initiation factor IF‑1 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 926,168 | 0 | C | T | 18.2%
| 129.4
/ 23.7
| 55 | intergenic (‑197/+57) | serW/infA | tRNA‑Ser/translation initiation factor IF‑1 |
| Reads supporting (aligned to +/- strand): ref base C (23/22); new base T (6/4); total (29/26) |
| Fisher's exact test for biased strand distribution p-value = 7.33e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.83e-01 |
CATACTGTAAACAAGTTGTGCAGTATATCTACATCGAGACAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACGGGGTCAGTTCAACAGTCACTTTGTCGCCCGTCAGGATG > NC_000913/926074‑926306
|
cATACTGTAAACAAGTTGTGCAGTATATCTACATCGAGACAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTaa > 2:888964/1‑102 (MQ=255)
cATACTGTAAACAAGTTGTGCAGTATATCTACATCGAGACAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTaa < 1:888964/102‑1 (MQ=255)
cATACTGTAAACAAGTTGTGCAGTATATCTACATCGAGACAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGtt < 3:520949/120‑1 (MQ=255)
cATACTGTAAACAAGTTGTGCAGTATATCTACATCGAGACAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGtt > 4:520949/1‑120 (MQ=255)
tGTAAACAAGTTGTGCAGTATATCTACATCGAGACAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGttcttt < 4:216545/119‑1 (MQ=255)
tGTAAACAAGTTGTGCAGTATATCTACATCGAGACAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGttcttt > 3:216545/1‑119 (MQ=255)
gTAAACAAGTTGTGCAGTATATCTACATCGAGACAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTaaa > 3:575161/1‑141 (MQ=255)
gTAAACAAGTTGTGCAGTATATCTACATCGAGACAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTaaa < 4:575161/141‑1 (MQ=255)
cAAGTTGTGCAGTATATCTACATCGAGACAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTaa > 4:815076/1‑91 (MQ=255)
cAAGTTGTGCAGTATATCTACATCGAGACAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTaa < 3:815076/91‑1 (MQ=255)
aCATCGAGACAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGttc > 4:928450/1‑91 (MQ=255)
aCATCGAGACAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGttc < 3:928450/91‑1 (MQ=255)
tCGAGACAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCa < 4:915469/102‑1 (MQ=255)
tCGAGACAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCa > 3:915469/1‑102 (MQ=255)
cAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATc > 1:992982/1‑114 (MQ=255)
cAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATc < 2:992982/114‑1 (MQ=255)
ccAAAGTACTTCATACATATCACAAGATAAAAAGGCCGGTTaa < 2:676590/43‑1 (MQ=255)
ccAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTaa > 1:676590/1‑43 (MQ=255)
aGTACTTCATACATATCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACGGGGTCAGTTCAACAGt > 4:343852/1‑148 (MQ=255)
aGTACTTCATACATATCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACGGGGTCAGTTCAACAGt < 3:343852/148‑1 (MQ=255)
tacataTCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGa < 3:902519/93‑1 (MQ=255)
tacataTCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGa > 4:902519/1‑93 (MQ=255)
cacaAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACGGGGTCAGTTCAAc > 3:327175/1‑129 (MQ=255)
cacaAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACGGGGTCAGTTCAAc < 4:327175/129‑1 (MQ=255)
caAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCgg > 3:159990/1‑62 (MQ=255)
caAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCgg > 3:106917/1‑62 (MQ=255)
caAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCgg < 4:159990/62‑1 (MQ=255)
caAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCgg < 4:106917/62‑1 (MQ=255)
caAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCttt > 1:270672/1‑100 (MQ=255)
caAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCttt < 2:270672/100‑1 (MQ=255)
aaaaTAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACGGGGTCAGTTCAACAGTCACTTTGTCGCCCGTCAgg > 1:775260/1‑148 (MQ=255)
aaaTAAAAAGGCCGGTTAAACCGACCTTTTACTCGt > 4:740667/1‑36 (MQ=255)
aaaTAAAAAGGCCGGTTAAACCGACCTTTTACTCGt < 3:740667/36‑1 (MQ=255)
aaaTAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACggg > 3:353003/1‑114 (MQ=255)
aaaTAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACggg < 4:353003/114‑1 (MQ=255)
aTAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACGGGGTCAGTTCAACAGTCACTTTGTCGCCCGTCAGGATg > 3:528917/1‑148 (MQ=255)
aTAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACGGGGTCAGTTCAACAGTCACTTTGTCGCCCGTCAGGATg < 2:775260/148‑1 (MQ=255)
tAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATg > 3:1095631/1‑87 (MQ=255)
tAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATg < 4:1095631/87‑1 (MQ=255)
tAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACGGGGTCAGTTCAACAGTCACTTTGt < 3:531771/133‑1 (MQ=255)
tAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACGGGGTCAGTTCAACAGTCACTTTGt > 4:531771/1‑133 (MQ=255)
taaaaGGTCGGTTTAACCGGCCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACGGGGTCATTTCAACAGTCACTTTg > 1:82041/2‑131 (MQ=255)
taaaaGGTCGGTTTAACCGGCCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACGGGGTCAGTTCAACAGTCACTTTg < 2:82041/130‑1 (MQ=255)
aaaaaGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACgg > 4:1090976/1‑109 (MQ=255)
aaaaaGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACgg < 3:1090976/109‑1 (MQ=255)
aaaaGGTCGGTTTAACCGGCCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGc < 2:1105657/53‑1 (MQ=21)
aaaaGGTCGGTTTAACCGGCCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGc > 1:1105657/1‑53 (MQ=25)
aaGGTCGGTTTAACCGGCCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGc > 2:744247/1‑87 (MQ=39)
aaGGTCGGTTTAACCGGCCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGc > 2:1046275/1‑87 (MQ=39)
aaGGTCGGTTTAACCGGCCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGc < 1:744247/87‑1 (MQ=39)
aaGGTCGGTTTAACCGGCCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGc < 1:1046275/87‑1 (MQ=39)
aGGTCGGTTTAACCGGCCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAg > 3:291480/1‑76 (MQ=38)
aGGTCGGTTTAACCGGCCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACGGGGTCAGTTCAAc > 1:190810/1‑117 (MQ=255)
gCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACaa > 2:58648/1‑58 (MQ=255)
gCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACaa < 1:58648/58‑1 (MQ=255)
|
CATACTGTAAACAAGTTGTGCAGTATATCTACATCGAGACAAGTTACGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACGGGGTCAGTTCAACAGTCACTTTGTCGCCCGTCAGGATG > NC_000913/926074‑926306
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
