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 I2 R1
|
777 |
59.2 |
2955938 |
92.5% |
2734242 |
106.9 |
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 | 83.7%
| 121.8
/ 16.8
| 43 | 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 . (6/1); new base C (15/21); total (21/22) |
| Fisher's exact test for biased strand distribution p-value = 4.59e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑C‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATG > NC_000913/2767304‑2767570
|
ctctGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑cc‑c < 2:1052085/139‑1 (MQ=255)
tctGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑aaacaac > 1:1437324/1‑134 (MQ=255)
tctGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑cc‑cc > 1:1361550/1‑139 (MQ=255)
ctGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑cc‑c > 1:578686/1‑137 (MQ=255)
ctGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑cc‑c < 2:578686/137‑1 (MQ=255)
tGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑cc‑cccc < 2:390945/139‑1 (MQ=255)
gTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTcaca < 2:1361550/139‑1 (MQ=255)
gTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTcaca < 1:668389/139‑1 (MQ=255)
tcCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACg < 1:291607/139‑1 (MQ=255)
cccGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGt > 1:522198/1‑139 (MQ=255)
ccGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTc < 2:522198/139‑1 (MQ=255)
atgatgTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑C‑CC‑CACCttaacaaagtcatg > 1:146008/1‑126 (MQ=255)
gtaaGTCCTGTGCATTGATTTTTGAAACTCTTTTTTCTAAACGAACCAGTAGAGAAGTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAac < 1:89838/137‑1 (MQ=255)
ccAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAac < 1:1306764/139‑1 (MQ=255)
tCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc < 1:115732/139‑1 (MQ=255)
tttGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTcaca < 1:13524/101‑1 (MQ=255)
tttGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTcaca > 2:13524/1‑101 (MQ=255)
cttcttTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc < 1:470331/120‑1 (MQ=255)
cttcttTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc > 2:470331/1‑120 (MQ=255)
ccAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTaaa < 2:27857/139‑1 (MQ=255)
ccAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTaaa < 2:146008/139‑1 (MQ=255)
aGTATAGAAATCGCCCTTTTGGCATGAGATTAACTTGTCCAATATGATCAAATAGCAGT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACt < 1:868573/139‑1 (MQ=255)
aaTTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAA‑C‑CC‑CCCCACACAACGTCCTTCATATGGAAAAAGTATTCCCCTGTACACCCAAGACTAAATTCCCCCTCCTGAAAACTTATCaat > 1:27857/1‑139 (MQ=255)
aaTTCGCCCTTTTGGCATGATATTAACATGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTTACAACGTTCGGCATAGGATATACGTTTTTCCCTGTACACCCAAGACAAAATTTAACCCTCTGCAAACTTCTCact > 1:877744/1‑137 (MQ=255)
cGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑CACA‑CCCCGAACAACGTCCTGCATAGGGAAACCGTTTTCCCCTATGCACCCACGACTCACTTTTACCCCCTCATAACTTCCCaatactc > 1:300044/1‑136 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAA‑C‑CC‑ACCCTGACAACGGCCCGCATCGCGAACACCCTTTACCCTGTGCACACATGATTAAATTTCCCCCCCTTTAAAcctacaaaaaatgt > 2:129958/1‑126 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGt > 1:1141436/1‑66 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGt < 2:1141436/66‑1 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGa < 2:865812/78‑1 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGa > 1:865812/1‑78 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCAc < 1:750583/102‑1 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCAc > 2:750583/1‑102 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑CACC‑CACCTTACAACGTATTCCATAGGGCACACGTTTTTCCATATGCCCCCACGACGAAATTTCCCCCCCTTTAAACTTCTCAATAATGt > 2:678670/1‑139 (MQ=255)
gTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc > 1:231463/1‑66 (MQ=255)
gTCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc < 2:231463/66‑1 (MQ=255)
tCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCCCACCGACCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAACTTACTCCCCTTTAAACTTCTCACTAATGTCACCAATTTTCTGGAAATACTatta > 1:911068/1‑137 (MQ=255)
tCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACACCGTCCTGCATAGGGAACACGTTTTCCCCTGTGCAACCACGACTAAAGTTCCACCCCTTCAAACTTCTCAATAATGTCACCAATTTTCTGGAAACTCTatga > 2:1272307/1‑139 (MQ=255)
tCCAATATGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTTCACCCACGACTAAATTTCCCCCCCTTTAAACCTCTCAATAATTTCACCAATTTTCTGGAAATCCTatca > 1:462710/1‑137 (MQ=255)
tCCAATATGATCAAATAGCATT‑AA‑C‑CCACCCCGCACAACGTCCTGCATAGGGAACACGCTTATCACTGTGCACCACTGAAAAAATTTCACCCCCTTTAAACTTACCAATAATGACATCCATTTTCTGGAAAGCATatga > 1:161808/1‑139 (MQ=255)
tatGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc < 1:570321/60‑1 (MQ=255)
tatGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc > 2:570321/1‑60 (MQ=255)
atGATCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCATCAATTTTCTGGAAATCCTATGATGCCtt < 2:911068/139‑1 (MQ=255)
aTCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACt < 2:445433/72‑1 (MQ=255)
aTCAAATAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACt > 1:445433/1‑72 (MQ=255)
tAGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGAAACACGTCTTCCCCTGTGCACCCACGACTAAATATCTCCCCCTCTAAAGTTCTCAATTATTTCACCAATTTTCTGGAAATCTTATGACTCCTTTCCCGCTat > 2:314989/1‑138 (MQ=255)
aGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTCTCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTaaa < 2:877744/139‑1 (MQ=255)
aGCATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTaaa < 2:1437324/139‑1 (MQ=255)
cATT‑AACC‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACTACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAACTCCTATGATGCCTTTCCCGGTAAATg > 2:707287/1‑139 (MQ=255)
tt‑AA‑C‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTccc > 2:408319/1‑69 (MQ=255)
tt‑AA‑C‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTccc < 1:408319/69‑1 (MQ=255)
|
CTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑C‑CC‑CCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATG > NC_000913/2767304‑2767570
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
