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 |
|
A12 F1 I2 R1
|
766 |
55.6 |
2631458 |
94.7% |
2491990 |
109.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,931,976 |
(G)5→6 |
coding (1096/1179 nt) |
purT → |
phosphoribosylglycinamide formyltransferase 2 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,931,971 | 1 | . | G | 94.4%
| 118.3
/ 0.3
| 36 | coding (1091/1179 nt) | purT | phosphoribosylglycinamide formyltransferase 2 |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base G (17/17); total (18/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.67e-01 |
GTCCTGCAGCTTCTGCCGTTATTCTGCCACAACTGACCAGTCAGAATGTCACGTTTGATAATGTGCAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑T‑GGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCGGACAGGTAAAAGTACAGGGTTAAACCCGGCAAAAAAACGCTACAAAAATGCC > NC_000913/1931836‑1932088
|
gTCCTGCAGCTTCTGCCGTTATTCTGCCACAACTGACCAGTCAGAATGTCACGTTTGATAATGTGCAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑T‑ggg > 1:1139466/1‑139 (MQ=255)
gTCCTGCAGCTTCTGCCGTTATTCTGCCACAACTGACCAGTCAGAATGTCACGTTTGATAATGTGCAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑T‑ggg < 1:1307022/139‑1 (MQ=255)
tCTGCCGTTATTCTGCCACAACTGACCAGTCAGAATGTCACGTTTGATAATGAGCAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTg > 1:1179690/1‑139 (MQ=255)
cTGCCGTTATTCTGCCACAACTGACCAGTCAGAATGTCACGTTTGATAATGTGCAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTgg < 2:120979/139‑1 (MQ=255)
aTTCTGCCACAACTGACCAGTCAGAATGTCACGTTTGATAATGTGCAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCa < 2:88747/139‑1 (MQ=255)
aCTGACCAGTCAGAATGTCACGTTTGATAATGTGCAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCaga > 1:360487/1‑130 (MQ=255)
aCTGACCAGTCAGAATGTCACGTTTGATAATGTGCAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCaga < 2:360487/130‑1 (MQ=255)
aCTGACCAGTCAGAATGTCACGTTTGATAATGTGCAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGCCGTC‑TGGGGGGTGGCATTGGCTACTGCAGAGGGtgttgt > 2:355969/1‑139 (MQ=255)
tCAGAATGTCACGTTTGATAATGTGCAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTgg > 2:42038/1‑111 (MQ=255)
tCAGAATGTCACGTTTGATAATGTGCAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTgg < 1:42038/111‑1 (MQ=255)
aCGTTTGATAATGTGCAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGaa > 2:725712/1‑133 (MQ=255)
aCGTTTGATAATGTGCAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGaa < 1:725712/133‑1 (MQ=255)
aCGTTTGATAATGTGCAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAAcgcgcg < 2:1139466/139‑1 (MQ=255)
cAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCa > 2:801167/1‑94 (MQ=255)
cAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCa > 2:117149/1‑129 (MQ=255)
cAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCa < 1:117149/129‑1 (MQ=255)
cAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATAGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCa < 1:801167/94‑1 (MQ=255)
gAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCGGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCGGACa < 2:1179690/139‑1 (MQ=255)
tGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACt < 1:352025/79‑1 (MQ=255)
tGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACt > 2:352025/1‑79 (MQ=255)
cGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCGGACAGGTaaa > 2:1109001/1‑139 (MQ=255)
gCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCGGACAGGTAAAAGTACAGGGTTAAAc > 1:17758/1‑139 (MQ=255)
gCAGATTCGTGTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCGGACAGGTAAAAGTACAGGGTTAAAc > 2:946647/1‑139 (MQ=255)
cAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCgg < 2:1103763/114‑1 (MQ=255)
cAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCgg > 1:1103763/1‑114 (MQ=255)
aTTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCGGACAGGTAAAAGTa > 2:1313347/1‑124 (MQ=255)
aTTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCGGACAGGTAAAAGTa < 1:1313347/124‑1 (MQ=255)
tCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTCTT‑GGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCGGACa < 2:397004/112‑1 (MQ=255)
tCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTCTT‑GGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCGGACa > 1:397004/1‑112 (MQ=255)
tAAGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCGGACAGGTAAAAGTACAGGGTTAAACCCGGCAAAAAAACGCTAc < 1:1109001/139‑1 (MQ=255)
aGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCGGACAGGTAAAAGTACAGGGTTAAAccc > 1:698075/1‑121 (MQ=255)
aGCCGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCGGACAGGTAAAAGTACAGGGTTAAAccc < 2:698075/121‑1 (MQ=255)
cGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCGGACAGGTAAAAGTACAGGGTTAAACCCGGCAAAAAAACGCTACaaaaa > 2:1146680/1‑139 (MQ=255)
cGGAAATTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCGGACAGGTAAAAGTACAGGGTTAAACCCGGCAAAAAAACGCTACaaaaa > 1:100208/1‑139 (MQ=255)
aaTTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCGGACAGGTAAAAGTACAGGGTTAAACCCGGCAAAAAAACGCTACAAAAATGcc < 1:915468/139‑1 (MQ=255)
aaTTGATGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCGGACAGGTAAAAGTACAGGGTTAAACCCGGCAAAAAAACGCTACAAAAATGcc < 1:1146680/139‑1 (MQ=255)
aTGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGc < 1:427078/38‑1 (MQ=255)
aTGGCAGCCGTCGTC‑TGGGGGGTGGCACTGGCTACTGc > 2:427078/1‑38 (MQ=255)
|
GTCCTGCAGCTTCTGCCGTTATTCTGCCACAACTGACCAGTCAGAATGTCACGTTTGATAATGTGCAGAATGCCGTAGGCGCAGATTTGCAGATTCGTTTATTTGGTAAGCCGGAAATTGATGGCAGCCGTCGTC‑T‑GGGGGTGGCACTGGCTACTGCAGAGAGTGTTGTTGACGCCATTGAACGCGCGAAGCACGCCGCCGGACAGGTAAAAGTACAGGGTTAAACCCGGCAAAAAAACGCTACAAAAATGCC > NC_000913/1931836‑1932088
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
