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 |
|
A1 F1 I1 R1
|
773 |
79.9 |
4112934 |
92.2% |
3792125 |
104.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,060,280 |
(T)9→10 |
intergenic (+50/‑167) |
typA → / → yihL |
GTP‑binding protein/putative DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,060,271 | 1 | . | T | 92.5%
| 119.0
/ 2.5
| 40 | intergenic (+41/‑176) | typA/yihL | GTP‑binding protein/putative DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base . (1/2); new base T (18/19); total (19/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
ACTGGTAGAAGTGACTCCGACCTCTATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GG‑‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATAGAGAGCTTTGTCACAATTATCTGCAAAGTCATACGCCGTTAATTGCTTTCTTTTTTGGCG > NC_000913/4060134‑4060401
|
aCTGGTAGAAGTGACTCCGACCTCTATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GG‑‑t > 2:134526/1‑139 (MQ=255)
gTAGAAGTGACTCCGACCTCTATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GG‑‑ttttt > 2:859032/1‑139 (MQ=255)
aGAAGTGACTCCGACCTCTATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GG‑‑tttttt‑t > 2:429915/1‑139 (MQ=255)
aGAAGTGACTCCGACCTCTATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GG‑‑tttttt‑t < 1:429915/139‑1 (MQ=255)
cTCCGACCTCTATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTg > 2:1056886/1‑139 (MQ=255)
cTCCGACCTCTATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTg > 2:1514828/1‑139 (MQ=255)
cTCCGACCTCTATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTg > 1:348562/1‑139 (MQ=255)
cTCCGACCTCTATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACAGCGCACCGAAAGACGATTAATTTCGTTTCTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GG‑‑TTTTTTATTTGCCTg > 2:1224525/1‑139 (MQ=255)
ctATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAgcg < 1:1056886/139‑1 (MQ=255)
ctATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAgcg < 1:1514828/139‑1 (MQ=255)
tCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGcac > 2:150653/1‑139 (MQ=255)
aTTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGTTTTTTTT‑TTTGCCTGTCGTGAgcg < 1:616242/132‑1 (MQ=255)
aTTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGTTTTTTTT‑TTTGCCTGTCGTGAgcg > 2:616242/1‑132 (MQ=255)
aTTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCaa > 2:1738728/1‑139 (MQ=255)
ttCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAAt > 2:1734303/1‑139 (MQ=255)
tCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATg < 1:1738728/139‑1 (MQ=255)
cGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGc > 2:1193293/1‑139 (MQ=255)
tAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGa > 1:1036541/1‑139 (MQ=255)
aaCGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGt < 1:859032/139‑1 (MQ=255)
ttCACCTGACGGAAAACGATCTTCCCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCTTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GTT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTAtc < 1:134526/138‑1 (MQ=255)
cACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCTATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTAtgtc < 1:1193293/139‑1 (MQ=255)
aCGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGt > 2:736215/1‑108 (MQ=255)
aCGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGt < 1:736215/108‑1 (MQ=255)
ggAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGca < 2:909909/113‑1 (MQ=255)
ggAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGca > 1:909909/1‑113 (MQ=255)
aaaaCGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGt < 1:1734303/139‑1 (MQ=255)
gccgcGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGt < 1:150653/139‑1 (MQ=255)
cgcgCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTa > 1:61439/1‑111 (MQ=255)
cgcgCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTa < 2:61439/111‑1 (MQ=255)
gcgcCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGTTTTTTTT‑TTTACCTGTCGTGAGACCACACCTACGGAATTATCTCCTTTAAAGGCGTGTGGTTACGtaa > 1:1014202/1‑137 (MQ=255)
gcCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATa > 1:753601/1‑139 (MQ=255)
aCCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GG‑‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATagagag < 1:1839318/139‑1 (MQ=255)
cgcgCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATAGAGAGc < 2:595536/139‑1 (MQ=255)
gcgcACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGt < 2:1617584/80‑1 (MQ=255)
gcgcACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGt > 1:1617584/1‑80 (MQ=255)
cACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCACGT‑‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATAGAGAGCTTTg < 2:753601/139‑1 (MQ=255)
ttAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GG‑‑tt < 1:657571/47‑1 (MQ=255)
ttAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GG‑‑tt > 2:657571/1‑47 (MQ=255)
aattttttttttAGGCCTAAAAAACCTGCCAGCGAAGGGA‑GGTTTTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATAGAGAGCTTTGTCACAATTATCTGCa < 2:1014202/133‑1 (MQ=255)
aTAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTta < 2:309500/75‑1 (MQ=255)
aTAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTta > 1:309500/1‑75 (MQ=255)
tAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTAtc < 2:1876924/67‑1 (MQ=255)
tAAAAAACCTGCCAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTAtc > 1:1876924/1‑67 (MQ=255)
ccAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAgcgc < 2:1117494/39‑1 (MQ=255)
ccAGCGATGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAgcgc > 1:1117494/1‑39 (MQ=255)
aTGGCA‑GGT‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATAGAGAGCTTTGTCACAATTATCTGCAAAGTCATACGCCGTTAATTGCTTTCTTTTTTGgcg < 2:1036541/139‑1 (MQ=255)
|
ACTGGTAGAAGTGACTCCGACCTCTATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCA‑GG‑‑TTTTTT‑TTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATAGAGAGCTTTGTCACAATTATCTGCAAAGTCATACGCCGTTAATTGCTTTCTTTTTTGGCG > NC_000913/4060134‑4060401
|
| 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
