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 F1 I1 R1
|
770 |
68.5 |
3470224 |
91.7% |
3182195 |
103.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
899,254 |
(G)6→7 |
coding (737/1128 nt) |
rlmC → |
23S rRNA m(5)U747 methyltransferase, SAM‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 899,248 | 1 | . | G | 84.9%
| 99.1
/ 10.4
| 33 | coding (731/1128 nt) | rlmC | 23S rRNA m(5)U747 methyltransferase, SAM‑dependent |
| Reads supporting (aligned to +/- strand): ref base . (3/2); new base G (16/12); total (19/14) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
TACCGCTGTGGATCCGTCCGCAAAGTTTCTTCCAGACTAATCCGGCGGTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑GGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGCATCAGAGGCCATTGCCTGTGCAAAGCAGTCAGCCGCTGAACTGGGCTTAACGCGTTTGCAATTTCAG > NC_000913/899119‑899375
|
tACCGCTGTGGATCCGTCCGCAAAGTTTCTTCCAGACTAATCCGGCGGTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTATGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑gggggggct < 2:1154769/139‑4 (MQ=255)
tACCGCTGTGGATCCGTCCGCAAAGTTTCTTCCAGACTAATCCGGCGGTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑gggggggct < 2:1535032/139‑4 (MQ=255)
tACCGCTGTGGATCCGTCCGCAAAGTTTCTTCCAGACTAATCCGGCGGTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑gggggggct < 2:1424414/139‑4 (MQ=255)
tACCGCTGTGGATCCGTCCGCAAAGTTTCTTCCAGACTAATCCGGCGGTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑gggggggct < 2:1399338/139‑4 (MQ=255)
tACCGCTGTGGATCCGTCCGCAAAGTTTCTTCCAGACTAATCCGGCGGTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑gggggggct < 1:614491/139‑4 (MQ=255)
tccgCAAAGTTTCTTCCAGACTAATCCGGCGGTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTgcgc > 1:531567/1‑139 (MQ=255)
cgCAAAGTTTCTTCCAGACTAATCCGGCGGTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑gggggggct < 2:892500/121‑4 (MQ=255)
cgCAAAGTTTCTTCCAGACTAATCCGGCGGTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑gggggggct > 1:892500/1‑118 (MQ=255)
cttcCAGACTAATCCGGCGGTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACAt < 2:1246777/139‑1 (MQ=255)
ccAGACTAATCCGGCGGTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑ggggg < 1:1282842/104‑1 (MQ=255)
ccAGACTAATCCGGCGGTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑ggggg > 2:1282842/1‑104 (MQ=255)
aTCCGGCGGTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑ggggggg < 1:1118679/98‑2 (MQ=255)
aTCCGGCGGTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑ggggggg > 2:1118679/1‑97 (MQ=255)
aTCCGGCGGTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑GGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCgg > 1:539079/1‑139 (MQ=255)
ggcggTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGAt < 2:516649/139‑1 (MQ=255)
ggTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGa < 2:531567/139‑1 (MQ=255)
cGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGTATCTGTTCTGCGGTGTGGGGGGGCTTTGGGTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAAt > 2:54701/1‑139 (MQ=255)
cGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAAt > 2:296724/1‑139 (MQ=255)
cGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑gggggggct > 1:446756/1‑87 (MQ=255)
cGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑gggggggct < 2:446756/90‑4 (MQ=255)
tGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGCATCAGAgg > 2:802364/1‑139 (MQ=255)
tACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGa > 1:1177714/1‑95 (MQ=255)
tACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGa < 2:1177714/95‑1 (MQ=255)
tACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGCATCAGAGGcc < 1:802364/139‑1 (MQ=255)
cGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAAc > 2:1501374/1‑112 (MQ=255)
cGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAAc < 1:1501374/112‑1 (MQ=255)
cGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGCATCag < 2:959985/132‑1 (MQ=255)
cGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGCATCag > 1:959985/1‑132 (MQ=255)
gcgcgcgACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGCATCAGAGGCCATTGCCtgt < 1:54701/139‑1 (MQ=255)
cgcgcgACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑GGGGGGCt > 2:595421/1‑66 (MQ=255)
cgcgcgACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑GGGGGGCt < 1:595421/66‑1 (MQ=255)
gACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑ggggggg > 2:887622/1‑49 (MQ=255)
gACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑ggggggg < 1:887622/50‑2 (MQ=255)
cTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTg > 2:1105575/1‑71 (MQ=255)
cTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTg < 1:1105575/71‑1 (MQ=255)
aTCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGAc > 2:1680632/1‑44 (MQ=255)
aTCTGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGAc < 1:1680632/44‑1 (MQ=255)
aTCTGTTCTGCGGTGT‑GGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGCATCag > 1:1314394/1‑81 (MQ=255)
aTCTGTTCTGCGGTGT‑GGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGCATCag < 2:1314394/81‑1 (MQ=255)
tGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGCATc > 2:1668578/1‑77 (MQ=255)
tGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGCATc < 1:1668578/77‑1 (MQ=255)
tGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGCATCAGAGGCCATTGCCTGTGCAAAGCAGTc < 1:235941/104‑1 (MQ=255)
tGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGCATCAGAGGCCATTGCCTGTGCAAAGCAGTc > 2:235941/1‑104 (MQ=255)
tGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGCATCAGAGGCCATTGCCTGTGCAAAGCAGTCAGCCGCTGAACTGGGCTTAACGCGTTTGCAATTTc > 2:244325/1‑139 (MQ=255)
tGTTCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGCATCAGAGGCCATTGCCTGTGCAAAGCAGTCAGCCGCTGAACTGGGCTTAACGCGTTTGCAATTTc > 1:89013/1‑139 (MQ=255)
ttCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGTATCAGAGGCCATTGCCTGTGCAAAGCAGTCAGCCGCTGAACTGGGCTTAACGCGTTTGCAATTTCAg > 1:579651/1‑139 (MQ=255)
ttCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGTATCAGAGGCCATTGCCTGTGCAAAGCAGTCAGCCGCTGAACTGGGCTTAACGCGTTTGCAATTTCAg > 1:301997/1‑139 (MQ=255)
ttCTGCGGTGTGGGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGCATCAGAGGCCATTGCCTGTGCAAAGCAGTCAGCCGCTGAACTGGGCTTAACGCGTTTGCAATTTCAg > 1:1618966/1‑139 (MQ=255)
|
TACCGCTGTGGATCCGTCCGCAAAGTTTCTTCCAGACTAATCCGGCGGTCGCCAGCCAGTTGTACGCCACCGCGCGCGACTGGGTACGACAGCTGCCGGTTAAACATATGTGGGATCTGTTCTGCGGTGT‑GGGGGGCTTTGGTTTACACTGCGCGACGCCTGACATGCAGTTAACCGGGATCGAAATTGCATCAGAGGCCATTGCCTGTGCAAAGCAGTCAGCCGCTGAACTGGGCTTAACGCGTTTGCAATTTCAG > NC_000913/899119‑899375
|
| 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
