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 |
|
A24 F66 I1 R1
|
37 |
65.5 |
2715618 |
95.2% |
2585268 |
125.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
BS168_reference_genome |
2,581,732 |
(T)6→7 |
intergenic (‑115/+39) |
pstS ← / ← pbpA |
phosphate ABC transporter (phosphate binding lipoprotein)/transpeptidase (penicillin‑binding protein 2A) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | BS168_reference_genome | 2,581,726 | 1 | . | T | 93.0%
| 143.4
/ 3.2
| 43 | intergenic (‑109/+45) | pstS/pbpA | phosphate ABC transporter (phosphate binding lipoprotein)/transpeptidase (penicillin‑binding protein 2A) |
| Reads supporting (aligned to +/- strand): ref base . (2/1); new base T (32/8); total (34/9) |
| Fisher's exact test for biased strand distribution p-value = 5.15e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TAAGCACCAATTTGTTTTTTTTCATTTCCTGAATTCCCCCTGCGTATAATGTGTAATTTGTCCTACACGTATAGAGTAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑G‑TTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAATTTTGTCTTTATTCTTTTGCTGAGTACCTTCTTTGTCCT > BS168_reference_genome/2581593‑2581850
|
tAAGCACCAATTTGTTTTTTTTCATTTCCTGAATTCCCCCTGCGTATAATGTGTAATTTGTCCTACACGTATAGAGTAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑G‑ttttt > 6:193030/1‑139 (MQ=255)
tAAGCACCAATTTGTTTTTTTTCATTTCCTGAATTCCCCCTGCGTATAATGTGTAATTTGTCCTACACGTATAGAGTAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑G‑ttttt > 6:273957/1‑139 (MQ=255)
aaGCACCAATTTGTTTTTTTTCATTTCCTGAATTCCCCCTGCGTATAATGTGTAATTTGTCCTACACGTATAGAGTAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑g < 3:127765/133‑1 (MQ=255)
aaGCACCAATTTGTTTTTTTTCATTTCCTGAATTCCCCCTGCGTATAATGTGTAATTTGTCCTACACGTATAGAGTAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑g > 4:127765/1‑133 (MQ=255)
atatGTTATTTTTCATTTCCTGAATTACCCCTGCGTATAATGTGTAATTTGTCCTACACGTATAGAGTAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATCTTAAGGTTTTGAAAATCAGT‑GC‑G‑TTTTTATGTATaa > 8:139168/4‑138 (MQ=255)
gCGTATAATGTGTAATTTGTCCTACACGTATAGAGTAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGtttttttt > 1:248882/1‑139 (MQ=255)
gCGTATAATGTGTAATTTGTCCTACACGTATAGAGTAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGttttttt > 1:90576/1‑138 (MQ=255)
gtAATTTGTCCTACACGTATAGAGTAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTTGTTATCag > 4:44000/1‑138 (MQ=255)
gtAATTTGTCCTACACGTATAGAGTAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTTTCag > 1:268613/1‑138 (MQ=255)
gtAATTTGTCCTACACGTATAGAGTAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCag > 8:11755/1‑138 (MQ=255)
gtAATTTGTCCTACACGTATAGAGTAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCag > 3:188259/1‑138 (MQ=255)
gcccaacacGTAGACAGAAACGGTTAAATGTAAAAAGGGTTTCAACCGAATGTAACGGTTTTTTAAACCCGG‑GC‑GTTTTTT‑TCTAAAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGt < 4:196619/133‑1 (MQ=255)
cacGTATAGAGTAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATAATAAGACGTTTTGttt > 5:3965/1‑139 (MQ=255)
ataGAGTAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTg > 1:52757/1‑138 (MQ=255)
ataGAGTAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTGTTTTTTAGTTATCAGAAGAAGTTGTGTGTTCTg > 4:178142/1‑138 (MQ=255)
agTAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCAttt > 1:256013/1‑139 (MQ=255)
tAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTttc > 1:224071/1‑139 (MQ=255)
tAAAGGTTCTATGTAAAAAGGCTTTGAACCGAATGGTAAGGTTTTGTAAATCAGA‑GCGG‑TTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTTTTTATCAGAAGACGATGTGTTTTCTGCAGTttc > 7:240768/1‑139 (MQ=255)
atggTGCTTTGTAAAACGGTTTTCAACCTAATTTTATGGTTTGTTACTTCAGG‑GG‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTttctt < 5:193030/137‑1 (MQ=255)
aaGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTATTTATCAGAAGACGTTGTGTTTTCTGCGTTttctt > 1:119316/1‑139 (MQ=255)
aaGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTttctt > 1:328491/1‑139 (MQ=255)
aaGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTttct > 8:46917/1‑138 (MQ=255)
aaGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTttatt > 1:148572/1‑139 (MQ=255)
cTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAAttt > 7:207716/1‑139 (MQ=255)
cTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAAttt > 3:253875/1‑139 (MQ=255)
cTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGAATTTTCTTCAAttt > 1:231496/1‑139 (MQ=255)
cTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATAAGAAGACGTTGTGTTTTCTGCATTTTCTTCAAttt > 2:34414/1‑139 (MQ=255)
aTGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTTTGTTTTCTGCATTTTCTTCAATTTTg > 1:1141/1‑139 (MQ=255)
aTGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAATTTTg > 4:201996/1‑139 (MQ=255)
aTGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATAAGAATACGTTGTGTTTTATGCATTTTCTTCAATTTTg > 1:148866/1‑139 (MQ=255)
gTAAAAAGGGTGTGAACCTAATGTTATGGTTTTTTAAATCTGT‑GG‑GTTTTTT‑TTTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAATTTTGt < 2:248882/138‑1 (MQ=255)
aaaaGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAATTTTGTCttt > 5:176796/1‑139 (MQ=255)
aaaGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAATTTTGTCTTTa > 3:310237/1‑139 (MQ=255)
ttGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAATTTTGTCTTTATTCtttt > 5:18648/1‑139 (MQ=255)
caaCCGAATGTTAAGGTTTTGTAAATAAGT‑GC‑GTTTTTT‑TTTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAATTTTGTCTTTATTCTTTTg < 4:172585/137‑1 (MQ=255)
aaCCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAATTTTGTCTTTATTCTTTTGc < 7:46917/138‑1 (MQ=255)
aaCCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAATTTTGTCTTTATTCTTTTGCt < 2:52757/139‑1 (MQ=255)
ctatttttAAGTTTTTTTAAATCTGTGGT‑T‑TTTTT‑TTTAAAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAATTTTGTCTTTATTCTTTTGCTGAg < 2:328491/133‑1 (MQ=255)
ctattGTTACGGTTTTGTAAATCAGT‑GG‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAATTTTGTCTTTATTCTTTTGCTGAg < 2:1141/135‑1 (MQ=255)
aTGTTACGGTTTTGTAAATCAGG‑GC‑GTTTTTT‑TTTAAAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAATTTTGTCTTTATTCTTTTGCTGAGTAc < 4:265828/139‑1 (MQ=255)
tAAGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTATTTATCAGAAGACGTTGTGTTTTCTGCATTTTATTCAATTTTTTCTTTATTCTTTTTCTGAGTACcttc > 2:136074/1‑139 (MQ=255)
aaGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAATTTTGTCTTTATTCTTTTGCTGAGTACcttct > 2:194513/1‑139 (MQ=255)
aaGGTTTTGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCG‑TTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAATTTTGTCTTTATTCTTTTGCTGAGTACcttctt > 5:22055/1‑139 (MQ=255)
ttttGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTTTTTTTTATGCATTTTGTTCAATTTTGTCTTTATTATTTTTATTATTACcttagtttt > 2:334010/1‑133 (MQ=255)
ttGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCTTGTGAGCGTTTTTTTTTAGTTATCAGAATACGTTGTGTTTTCTGCATTTTCTTCAATTTTGTCTTTATTCTTTTTAAGAGTAACTTAtttttac > 1:321806/1‑135 (MQ=255)
ttGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCG‑TTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAATTTTGTCTTTATTCTTTTGCTGAGTACCTTCTTTGTCCt > 4:288695/1‑139 (MQ=255)
tGTAAATCAGT‑GC‑GTTTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAATTTTGTCTTTATTCTTTTGCTGAGTACCTTCTTTGTCCt > 3:157483/1‑139 (MQ=255)
|
TAAGCACCAATTTGTTTTTTTTCATTTCCTGAATTCCCCCTGCGTATAATGTGTAATTTGTCCTACACGTATAGAGTAAAGGTTCTATGTAAAAAGGGTTTGAACCGAATGTTAAGGTTTTGTAAATCAGT‑GC‑G‑TTTTT‑TGTATAAAAAAAACGCCCACATCATGTGAGCGTTTTTTTTTAGTTATCAGAAGACGTTGTGTTTTCTGCATTTTCTTCAATTTTGTCTTTATTCTTTTGCTGAGTACCTTCTTTGTCCT > BS168_reference_genome/2581593‑2581850
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
