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 |
|
A5 F1 I2 R1
|
772 |
77.0 |
3769570 |
91.6% |
3452926 |
105.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,767,445 |
(C)7→8 |
intergenic (+90/‑265) |
rnlB → / → yfjP |
CP4‑57 prophage, uncharacterized protein/CP4‑57 prophage, 50S ribosome‑binding GTPase family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,767,438 | 1 | . | C | 95.2%
| 131.1
/ ‑0.8
| 42 | intergenic (+83/‑272) | rnlB/yfjP | CP4‑57 prophage, uncharacterized protein/CP4‑57 prophage, 50S ribosome‑binding GTPase family protein |
| Reads supporting (aligned to +/- strand): ref base . (2/0); new base C (18/22); total (20/22) |
| Fisher's exact test for biased strand distribution p-value = 2.21e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
CCTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAA‑‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGG > NC_000913/2767303‑2767571
|
ccTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAA‑‑c‑c‑c > 2:840412/1‑139 (MQ=255)
ccTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAA‑‑c‑c‑c > 2:1793398/1‑139 (MQ=255)
tctGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAA‑‑c‑c‑ccc > 2:266075/1‑139 (MQ=255)
tctGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAA‑‑c‑c‑ccc > 1:318215/1‑139 (MQ=255)
ctGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAA‑‑c‑c‑cccc > 2:1245380/1‑139 (MQ=255)
gTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTcaca < 2:913242/139‑1 (MQ=255)
gTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTcaca < 1:840412/139‑1 (MQ=255)
cccGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGt < 1:1501288/139‑1 (MQ=255)
ccGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTc < 1:1245380/139‑1 (MQ=255)
ccGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTc < 2:318215/139‑1 (MQ=255)
aCGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAA‑‑C‑CAAACCCTCCCAACAACCTGCATaaga > 2:1087951/1‑136 (MQ=255)
ccAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGAac < 1:59727/139‑1 (MQ=255)
ccAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGAac < 1:266075/139‑1 (MQ=255)
cAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGAaca > 1:681069/1‑139 (MQ=255)
tCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGAACACGtt < 2:681069/139‑1 (MQ=255)
ggATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGt < 2:703635/110‑1 (MQ=255)
ggATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGt > 1:703635/1‑110 (MQ=255)
ggATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTc > 1:579814/1‑111 (MQ=255)
ggATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTc < 2:579814/111‑1 (MQ=255)
ggATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAA‑‑c‑c‑cccccc < 1:267377/101‑2 (MQ=255)
ggATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAA‑‑c‑c‑cccccc > 2:267377/1‑100 (MQ=255)
tGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAACCC‑C‑CCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCa < 1:972178/139‑1 (MQ=255)
aaaCGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTcaca < 1:61142/83‑1 (MQ=255)
aaaCGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTcaca > 2:61142/1‑83 (MQ=255)
aCCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCAcc > 1:1131265/1‑114 (MQ=255)
aCCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTCGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCAcc < 2:1131265/114‑1 (MQ=255)
aaTTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTcaca < 1:281375/67‑1 (MQ=255)
aaTTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTcaca > 2:281375/1‑67 (MQ=255)
aTTCGCCCTTTTGGCATGATAATAACTTGTGCAATATGAGCAAATCGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGAACAAGTTTTCTCCTGTGCACCCACGACTAAATATCCCCCACTTTAAACTTCTCaata < 1:644679/139‑1 (MQ=255)
ttCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCAt > 2:1111535/1‑76 (MQ=255)
ttCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCAt < 1:1111535/76‑1 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGaa > 2:1461213/1‑79 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGaa < 1:1461213/79‑1 (MQ=255)
tttGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCa > 1:535577/1‑139 (MQ=255)
tttGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAA‑‑CAC‑CCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTATGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCa > 2:1636289/1‑139 (MQ=255)
tGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAAt < 2:535577/139‑1 (MQ=255)
tCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCTTGCATAGGGGACACGTTTTCCAGTCTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTatga > 1:230942/1‑139 (MQ=255)
tCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCa < 1:1752470/47‑1 (MQ=255)
tCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCa > 2:1752470/1‑47 (MQ=255)
tCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACg < 2:194581/78‑1 (MQ=255)
tCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACg > 1:194581/1‑78 (MQ=255)
tCCAATATGATCAAATAGCATTAAC‑C‑C‑CCCCCCCAAAAGGTCCCGCAAAGGGAAAACGTTTTCCCCTGGACACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATTATATCACCAATTTTTTGTAATTCCTctga > 2:506658/1‑139 (MQ=255)
tCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATa < 1:870449/39‑1 (MQ=255)
tCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATa > 2:870449/1‑39 (MQ=255)
tCAAATAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGTTGCCTTTccc > 2:522679/1‑139 (MQ=255)
tAGCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGACTAGGGAACACGTTTTCCCCTGTGCACCCACTACTAAATTATCCCCCCTTTAAACTTCTAAAAAATGTAACCAATTTTCTGCACATCCTATGATGCCTTTCCCGTTaa > 2:1212721/1‑139 (MQ=255)
gCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCtgtg > 1:659114/1‑53 (MQ=255)
gCATTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCtgtg < 2:659114/53‑1 (MQ=255)
aTTAAC‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATgg > 1:140651/1‑139 (MQ=255)
|
CCTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAA‑‑C‑C‑CCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGG > NC_000913/2767303‑2767571
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
