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 F68 I0 R1
|
683 |
78.3 |
2772122 |
98.0% |
2716679 |
141.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
4,409,160 |
G→A |
12.0% |
intergenic (+65/‑115) |
rnr → / → rlmB |
exoribonuclease R, RNase R/23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,409,160 | 0 | G | A | 12.0%
| 94.3
/ 4.8
| 34 | intergenic (+65/‑115) | rnr/rlmB | exoribonuclease R, RNase R/23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent |
| Reads supporting (aligned to +/- strand): ref base G (17/12); new base A (2/2); total (19/15) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.40e-01 |
AAAGCCATCGGCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTACATTAATGAGCGAAATGATT > NC_000913/4409017‑4409289
|
aaaGCCATCGGCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCACGCCGCATccggca > 1:396179/1‑148 (MQ=255)
gCCATCGGCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGa > 4:538752/1‑149 (MQ=255)
ccATCGGCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCACGCCGCATCCGGCATGaa < 2:396179/149‑1 (MQ=255)
tCGGCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGc > 1:567527/1‑149 (MQ=255)
tCGGCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGc > 2:135587/1‑149 (MQ=255)
cTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACATAATCAc > 2:518660/1‑149 (MQ=255)
tGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACg < 3:538752/149‑1 (MQ=255)
cGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAAt < 1:135587/149‑1 (MQ=255)
gcgTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCa > 4:135998/1‑149 (MQ=255)
gcgAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCa > 1:130398/1‑149 (MQ=255)
gcgAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCa < 2:130398/149‑1 (MQ=255)
aagaaAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGGTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGt > 4:135483/1‑149 (MQ=255)
gaaAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAg > 2:413596/1‑149 (MQ=255)
aaaaaaGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTg > 3:498802/1‑134 (MQ=255)
aaaaaaGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTg < 4:498802/134‑1 (MQ=255)
aaaaGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGcc > 1:124957/1‑149 (MQ=255)
gTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAg < 2:567527/149‑1 (MQ=255)
tGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGt < 2:124957/149‑1 (MQ=255)
ccTCTTTAAAAGAATAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAAc > 1:520032/1‑134 (MQ=255)
ccTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAAc < 2:520032/134‑1 (MQ=255)
ctctTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCaa > 4:269825/1‑149 (MQ=255)
ctctTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTCAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCaa > 4:472601/1‑149 (MQ=255)
tctTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCaaa < 1:413596/149‑1 (MQ=255)
aaaGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCACGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTaa > 4:53584/1‑149 (MQ=255)
gaagaGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAaaca > 2:1094/1‑149 (MQ=255)
ttAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTAc < 3:135998/149‑1 (MQ=255)
aTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTACATTAATGAGCGAAATg < 3:269825/149‑1 (MQ=255)
tGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTACATTAATGAGCGAAATGa > 2:682938/1‑149 (MQ=255)
tGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTCATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAaacaac > 4:652901/1‑126 (MQ=255)
tGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCGTATCCCGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAaacaac < 3:652901/126‑1 (MQ=255)
cgcTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTACATTAATGAGCGAAATGAtt < 4:457586/149‑1 (MQ=255)
ggCCGGATAAGGCGTTCACGCCGCATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCa < 3:641044/95‑1 (MQ=17)
ggCCGGATAAGGCGTTCACGCCGCATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCa > 4:641044/2‑96 (MQ=17)
gCCGGATAAGGCGTTCACGCCGCATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAg < 1:460167/88‑1 (MQ=17)
gCCGGATAAGGCGTTCACGCCGCATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAg > 2:460167/1‑88 (MQ=17)
|
AAAGCCATCGGCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTACATTAATGAGCGAAATGATT > NC_000913/4409017‑4409289
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
