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 |
|
A10 F1 I1 R1
|
759 |
65.2 |
3386260 |
90.7% |
3071337 |
101.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,556,033 |
A→G |
Y273H (TAC→CAC) |
rtcA ← |
RNA 3'‑terminal phosphate cyclase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,556,033 | 0 | A | G | 98.1%
| 184.4
/ ‑6.3
| 53 | Y273H (TAC→CAC) | rtcA | RNA 3'‑terminal phosphate cyclase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base G (24/28); minor base T (1/0); total (25/28) |
| Fisher's exact test for biased strand distribution p-value = 4.72e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
CCACCGCGATATTGGTCAGCAGATGGCATGAGGGATGGGCGACCGTAAATTCCCCCGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTAGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGT > NC_000913/3555904‑3556164
|
cgaccGGGATAATGGTCAGGAGATGGGATGAGGGGTTGGCGACCGTAAATTCCCCCGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCAc < 2:1180898/137‑1 (MQ=255)
ccaccGCGATATTGGTCAGCAGATGGCATGAGGGATGGGCGACCGTAAATTCCCCCGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCAc < 2:643735/139‑1 (MQ=255)
accGCGATATTGGTCAGCAGATGGCATGAGGGATGGGCGACCGTAAATTCCCCCGCGCCCGCCCGCGCCATCGGTAGCATCTGTTTGTCAGCAAGCTATTCCCCCTCCGCCGTCGTGCTTGCCAGGTGGC‑GTTTCAccg < 2:86140/139‑2 (MQ=255)
accGCGATATTGGTCAGCAGATGGCATGAGGGATGGGCGACCGTAAATTCCCCCGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACct < 1:222041/139‑1 (MQ=255)
cgcgATATTGGTCAGCAGATGGCATGAGGGATGGGCGACCGTAAATTCCCCCGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACctct > 2:1474214/1‑139 (MQ=255)
ggTCAGCAGATGGCATGAGGGATGGGCAACCGAAAATTCCCCCGCGCCGGCCACCGCCATCGTTAGCACAAGTTGGTAAGAAGGTTATTCCCCCACCGCCG‑CGTTGTTTCCAGGTTGCGGTTTCACCCCTTTCAcaacc > 1:1180898/1‑135 (MQ=255)
ggCATGAGGGATGGGCGACCGTAAATTCCCCCGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAac < 1:1061000/139‑1 (MQ=255)
gAGGGATGGGCGACCGTAAATTCCCCCGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACctct > 1:133300/1‑114 (MQ=255)
gAGGGATGGGCGACCGTAAATTCCCCCGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACctct < 2:133300/114‑1 (MQ=255)
aTGGGCGACCGTAAATTCCCCCGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCa < 1:1474214/139‑1 (MQ=255)
tGGGCGACCGTAAATTCCCCCGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCAc > 1:1314505/1‑139 (MQ=255)
tGGGCGACCGTAAATTCCCCCGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCAc > 1:1088335/1‑139 (MQ=255)
gACCGTAAATTCCCCCGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGAcg < 2:631489/139‑1 (MQ=255)
gACCGTAAATTCCCCCGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGAcg < 2:350951/139‑1 (MQ=255)
aCCGTAAATTCCCCCGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGAcgc < 2:152283/139‑1 (MQ=255)
cccccGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCAcc < 2:1314505/139‑1 (MQ=255)
ccccGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAaccac < 2:1058329/114‑1 (MQ=255)
ccccGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAaccac > 1:1058329/1‑114 (MQ=255)
ccGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAac < 1:1201608/109‑1 (MQ=255)
ccGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAac > 2:1201608/1‑109 (MQ=255)
cccgccAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACaa > 2:964033/1‑139 (MQ=255)
gcCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGtt < 1:1402002/139‑1 (MQ=255)
gcCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGtt < 1:793178/139‑1 (MQ=255)
gcCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGtt > 2:1402002/1‑139 (MQ=255)
ccATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTc < 2:1088335/139‑1 (MQ=255)
cATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGAcgcg < 1:451717/111‑1 (MQ=255)
cATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGAcgcg > 2:451717/1‑111 (MQ=255)
cACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATAttt > 1:1263470/1‑139 (MQ=255)
ccAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGtt < 2:969279/126‑1 (MQ=255)
ccAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGtt > 1:969279/1‑126 (MQ=255)
gTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCa > 1:80729/1‑54 (MQ=255)
gTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCa < 2:80729/54‑1 (MQ=255)
gTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACt > 2:1585701/1‑139 (MQ=255)
tGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCa > 2:802806/1‑75 (MQ=255)
tGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCa < 1:802806/75‑1 (MQ=255)
gCAAGATATTCCCCCACCACCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACtt > 2:542461/1‑139 (MQ=255)
cAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAaccac < 1:464648/73‑1 (MQ=255)
cAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAaccac > 2:464648/1‑73 (MQ=255)
tCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCgag > 2:1407270/1‑138 (MQ=255)
tCCCCCACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCgag < 1:1407270/138‑1 (MQ=255)
cACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACct < 1:530829/35‑1 (MQ=255)
cACCGCCGCCGTGCTTGCCAGGTGGC‑GTTTCACct > 2:530829/1‑35 (MQ=255)
ccgccgccgTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCa > 1:992564/1‑53 (MQ=255)
ccgccgccgTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCa < 2:992564/53‑1 (MQ=255)
ccgccgTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATAtttt > 1:977370/1‑108 (MQ=255)
ccgccgTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATAtttt < 2:977370/108‑1 (MQ=255)
ccgccgTGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCGAGACGGTATTAcc < 1:1585701/139‑1 (MQ=255)
tGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCGAGACGGTATTACCCGGccc > 1:633894/1‑139 (MQ=255)
tGCTTGCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTACCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCGAGACGGTATTACCCGGccc > 1:1043882/1‑139 (MQ=255)
gCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGt < 2:702339/139‑1 (MQ=255)
gCCAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGt > 2:1389294/1‑139 (MQ=255)
cAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCGAGACGGTATTAcc < 2:891203/126‑1 (MQ=255)
cAGGTGGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCGAGACGGTATTAcc > 1:891203/1‑126 (MQ=255)
|
CCACCGCGATATTGGTCAGCAGATGGCATGAGGGATGGGCGACCGTAAATTCCCCCGCGCCCGCCAGCGCCATCGGTAGCACCAGTTGGTCAGCAAGATATTCCCCCACCGCCGCCGTGCTTGCCAGGTAGC‑GTTTCACCTCTTTCACCAACTGTGCCGCAACCACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGT > NC_000913/3555904‑3556164
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ 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
