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 |
|
A7 F1 I2 R1
|
766 |
64.2 |
3232166 |
90.9% |
2938038 |
104.5 |
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 | 85.7%
| 138.4
/ 14.8
| 49 | 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 . (7/0); new base C (17/25); total (24/25) |
| Fisher's exact test for biased strand distribution p-value = 4.03e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 |
CCTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AA‑C‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGG > NC_000913/2767303‑2767571
|
ccTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AA‑c‑c‑c < 1:1563446/139‑1 (MQ=255)
tctGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AA‑c‑c‑cc‑c > 2:1443495/1‑139 (MQ=255)
ctGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACTAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AA‑c‑c‑cc‑cc < 2:1005280/139‑1 (MQ=255)
ctGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AA‑cttccg > 1:1185992/1‑134 (MQ=255)
gTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTcaca < 2:866079/139‑1 (MQ=255)
cccGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGt > 2:840207/1‑139 (MQ=255)
ccGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTc < 1:840207/139‑1 (MQ=255)
atgTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCAt > 2:578136/1‑139 (MQ=255)
ccAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAac < 2:1036833/139‑1 (MQ=255)
ccAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAac < 1:578136/139‑1 (MQ=255)
cAAGTCCTGTCAATGGATTTTTGAATCTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AA‑c < 1:1254873/108‑1 (MQ=255)
cAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGt > 2:1580537/1‑124 (MQ=255)
cAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGt < 1:1580537/124‑1 (MQ=255)
cAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AA‑c > 2:1254873/1‑108 (MQ=255)
cAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AA‑C‑C‑CCTCCCCCAAAACGTACTGCATAGGAAacc > 2:425657/1‑138 (MQ=255)
gTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑TAAA‑C‑C‑CC‑CCCACACAAAATACTGCATATTGAacaaga > 2:508736/1‑136 (MQ=255)
cTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGtttt < 1:810650/139‑1 (MQ=255)
gTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACTACGTCCTGCATAgggtat > 2:115014/1‑127 (MQ=255)
gTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAac < 1:115014/130‑1 (MQ=255)
cAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTcccc < 2:112751/139‑1 (MQ=255)
ggATTTTTGAAACTCTTCTTTCTAAACGAACTAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AA‑c < 1:1315783/94‑1 (MQ=255)
ggATTTTTGAAACTCTTCTTTCTAAACGAACTAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AA‑c > 2:1315783/1‑94 (MQ=255)
ggATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCtgtg > 2:71632/1‑139 (MQ=255)
ggATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AA‑c‑c‑cc > 1:300676/1‑97 (MQ=255)
ggATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AA‑c‑c‑cc < 2:300676/97‑1 (MQ=255)
ttttGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCAcc < 1:238736/139‑1 (MQ=255)
ttttGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCAcc < 1:124418/139‑1 (MQ=255)
ttttGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCAcc < 1:71632/139‑1 (MQ=255)
tttGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑TAAA‑A‑A‑CC‑CCATCACAACGACCTGCAAGAGGAACAGTATTGCCCTTATGCAccc > 1:1184843/1‑139 (MQ=255)
tGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCCCAACGTCCTGCATAGGGAACACGtttt > 1:1297410/1‑124 (MQ=255)
tGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGtttt < 2:1297410/124‑1 (MQ=255)
tttctAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTc < 2:1185992/139‑1 (MQ=255)
tctAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTcc < 1:1266721/92‑1 (MQ=255)
tctAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTcc > 2:1266721/1‑92 (MQ=255)
ccAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTaaa < 2:1184843/139‑1 (MQ=255)
caggTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTaaa < 2:242928/136‑1 (MQ=255)
gTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACtt < 2:686477/139‑1 (MQ=255)
ttCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAac < 2:125002/83‑1 (MQ=255)
ttCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAac > 1:125002/1‑83 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTcaca < 2:626845/62‑1 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTcaca > 1:626845/1‑62 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTc > 2:112540/1‑88 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTc < 1:112540/88‑1 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTATGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGt > 2:830091/1‑139 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACATCCTGCATAGGGAACACGTTTTCACCCGTGCACCCACGACTAAATCACCCCCCCTTTAACTTTCTCaataactt > 1:242928/1‑136 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AA‑CTT‑CC‑TCCTGACAACGCCCTGAATAGGGTTCTCGATGTCCACTGTGCACCCAACACAAATTGTCGTCCCCATTAAACTTATCtatcagct > 2:1374398/1‑134 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AA‑C‑CACC‑CCCTCACAACGTCCCGCATCAGGATAACCTTTTCCCCTGTGCACACACGACTAAATTTCCCCCCCTTTAGACTTCTCatgcatga > 1:1119716/1‑132 (MQ=255)
gCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAAttt < 1:1374398/139‑1 (MQ=255)
atatTAACTTGTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTgg < 2:1119716/139‑1 (MQ=255)
aaCTTGTCCAATATGATCAAATAGCATAA‑AA‑C‑C‑AT‑CCCTCACTCCCTCCTGTATAGGGATCACGGATTCCCATTCGCATAAACGACTATTTTTCCCTCCCTATATACTTCTCAAAAATGTCACCAATTATCTGAAAATc > 2:201689/1‑139 (MQ=255)
gTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTccc < 2:1094855/66‑1 (MQ=255)
gTCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTccc > 1:1094855/1‑66 (MQ=255)
tCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTc > 2:689117/1‑42 (MQ=255)
tCCAATATGATCAAATAGCAT‑T‑AACC‑C‑CC‑CCCTCACAACGTc < 1:689117/42‑1 (MQ=255)
tCCAATATGATCAAATAGCAT‑T‑AA‑C‑CTGC‑CCCTCACAACGTCCTGCATAGAGAACACGTTTTCACCTGTGCACCCACGCATAAATTTCCACACCTTTAAACTTCTCAATAATGTCACCAATCTACTGGAAATCCTacga > 2:1036005/1‑139 (MQ=255)
tCAAATAGCAT‑T‑AA‑CAC‑CC‑CCCTCACAACGTCCTGCATTGGGAACACGCGTTACCCTGTGCACCCACGACTAAAATTCCCCTCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGTAAATCCTATTATGCCTTTcac > 1:315630/1‑137 (MQ=255)
cAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTatgat > 1:979315/1‑122 (MQ=255)
cAT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTatgat < 2:979315/122‑1 (MQ=255)
aT‑T‑AACC‑C‑CC‑CCCTCACAATGTCCTGCATAGGGAACACGTTTTCACCTGTGCACCCACGACTAAATTTCCCCCGCTTTAAACTTCTCAATACTGTCACCAATTTTCTGGAACTCCTATGATCCCTTTCCCTGTCAATgg > 1:1140860/1‑139 (MQ=255)
aT‑T‑AACC‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTTCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCCGTAAATgg > 2:1531916/1‑139 (MQ=255)
|
CCTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCAT‑T‑AA‑C‑C‑CC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGG > NC_000913/2767303‑2767571
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
