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 |
|
A14 F1 I2 R1
|
774 |
49.2 |
2112398 |
96.9% |
2046913 |
118.5 |
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 | 88.1%
| 125.1
/ 8.5
| 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 . (5/0); new base C (13/24); total (19/24) |
| Fisher's exact test for biased strand distribution p-value = 1.01e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑C‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑TT‑C‑CCCCC‑C‑TTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTA > NC_000913/2767303‑2767566
|
ccTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑c‑c > 2:775886/1‑139 (MQ=255)
ctctGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑c‑cc < 2:427019/139‑1 (MQ=255)
tctGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑aaaatca > 1:132297/1‑134 (MQ=255)
tctGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑c‑ccc > 1:802569/1‑139 (MQ=255)
ctGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑c‑ccc‑c > 2:39511/1‑139 (MQ=255)
ctGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATAGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑c‑ccc‑c < 2:666021/139‑1 (MQ=255)
ttGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑c‑ccc‑ccctca < 1:220676/139‑5 (MQ=255)
gTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑Tcaca < 2:802569/139‑1 (MQ=255)
tctcCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACaa > 2:17165/1‑139 (MQ=255)
ccGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGACCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTc < 2:719534/139‑1 (MQ=255)
cGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACATCGTcc > 1:656076/1‑139 (MQ=255)
gatgatGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCt < 1:937329/139‑1 (MQ=255)
cGCCAAGTCCTGTCAATGTATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGa < 1:538359/139‑1 (MQ=255)
cGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGa < 2:61556/139‑1 (MQ=255)
ccAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAac < 1:41594/139‑1 (MQ=255)
ccAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAac > 1:995577/1‑139 (MQ=255)
cTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGtttt < 2:995577/139‑1 (MQ=255)
cTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGtttt < 1:39511/139‑1 (MQ=255)
tCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTccc < 2:7923/139‑1 (MQ=255)
ttttGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCAcc < 2:656076/139‑1 (MQ=255)
ttttGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCAcc < 2:958839/139‑1 (MQ=255)
tttGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑C‑C‑CCCAAC‑GGAAAACGTAATGCATAGGAAACACGTATTctctgtttcactc > 1:1049502/1‑127 (MQ=255)
aaCTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGAc < 1:775886/139‑1 (MQ=255)
ctAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑TT‑c‑ccc < 1:720100/139‑1 (MQ=255)
ctAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGAATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑TT‑c‑ccc < 2:670825/139‑1 (MQ=255)
aCCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑TT‑C‑CCCCC‑C‑cttta < 1:17165/139‑3 (MQ=255)
ttCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTc > 1:223201/1‑70 (MQ=255)
ttCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTc < 2:223201/70‑1 (MQ=255)
ttCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑C‑CAACC‑CC‑TCCCAACGTTCTGTCTAGGGAACAAGGTCTCCCCTGTGCTCCAACGACTACAT‑TT‑C‑CCCCCAC‑TTTAACCTGCTCaata > 1:1022695/1‑139 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTccc > 2:138880/1‑90 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTccc < 1:138880/90‑1 (MQ=255)
atTAACTTGTCCAATTTGATCAAATAGCATTAAA‑C‑C‑CGC‑CC‑TCACAACGACCTGCATAGGAAACACGTTTTACACTATGCACCAACGACTAAAT‑TT‑CTCCCCC‑C‑TTTAAACTTCTCCATAATGTCACCAATTTTCTCGa > 2:706418/1‑139 (MQ=255)
gTCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACTATTTCCCCTGTGCACCCACGACTAAAT‑TTCC‑CCCCC‑C‑TTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTat > 2:423356/1‑139 (MQ=255)
tCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑TT‑c‑ccccc‑ccttta < 1:975251/99‑6 (MQ=255)
tCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑TT‑CTCCCCC‑C‑TTTa > 2:975251/1‑99 (MQ=255)
tCCAATATGATCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACACACGACTAAAT‑TT‑C‑CCCCC‑CATTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCTTatg > 2:209109/1‑139 (MQ=255)
tCCAATATGATCAAATAGCATT‑AA‑CAA‑CAC‑GC‑TCACACCCTCCTCAATAACAAACCCATTTCCCCCTCTGCACCCACCACTAACTATA‑C‑CAACA‑C‑TGTAAACTTCTCAAAAATGTCAACAACCTTATGTAAACCTTatg > 1:411289/1‑139 (MQ=255)
accaagctgatgaAGTAGCTTT‑AACC‑C‑CCC‑CC‑TCACATCGTCCTGCATAGGGAACACGTTTTCCCCGTTGCACCCACGTCTAAGT‑TTCC‑CCCCC‑C‑TTTACACCTCTCAATAATGTCTCCAATTTTCTGGAAATCCTatg < 2:621399/132‑1 (MQ=255)
aTCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑TTCC‑CCCCC‑C‑TTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTc < 2:970999/139‑1 (MQ=255)
tCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTccc < 1:840319/55‑1 (MQ=255)
tCAAATAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTccc > 2:840319/1‑55 (MQ=255)
tCAAATAGCATT‑AA‑C‑C‑CCC‑CCGTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑TTCC‑CCCCC‑C‑TTAAAACTTCCCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTcc > 2:515137/1‑139 (MQ=255)
aaTAGCATT‑AATC‑T‑CCC‑CC‑TCACAACGTCCGCCCCAGGGAACACGTTTTCCCCCGCTCAGCCACGACTAAAT‑TT‑C‑CCCCCAC‑TTCAGTCTTCCTAGTCGCGTCTCCAATTTTCTGTTATACCCATGATGCCTCTccctg > 1:391244/1‑137 (MQ=255)
aTAGCATT‑AA‑C‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑TTCC‑CCCCC‑C‑TTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTa > 2:668324/1‑139 (MQ=255)
tAGCATT‑AACC‑C‑CCC‑CC‑TCACACCGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑TTCC‑CCCCC‑C‑TTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCg > 2:392623/1‑136 (MQ=255)
tAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACCCGTTTTCCCCTGTGCACCCACGACTAAAT‑TTAC‑CCCCA‑C‑TATAAACTTCTCAATAATGCCACCAATTTTCTGGAAATCCTATGTTTCCTTTACCGGTa > 2:482860/1‑139 (MQ=255)
tAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑TTCC‑CCCCC‑C‑TTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCg < 1:392623/136‑1 (MQ=255)
tAGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑TTCC‑CCCCC‑C‑TTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTa > 2:204340/1‑139 (MQ=255)
aGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑TTCC‑CCCCC‑C‑TTTAAACtt < 1:323194/88‑1 (MQ=255)
aGCATT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑TTCC‑CCCCC‑C‑TTTAAACtt > 2:323194/1‑88 (MQ=255)
aTT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑TT‑c‑ccccc‑ccttta < 1:841527/80‑6 (MQ=255)
aTT‑AACC‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑TT‑C‑CCCCC‑C‑cttta > 2:841527/1‑78 (MQ=255)
|
CCTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑C‑C‑CCC‑CC‑TCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑TT‑C‑CCCCC‑C‑TTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTA > NC_000913/2767303‑2767566
|
| 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
