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 |
|
A13 F1 I1 R1
|
778 |
68.7 |
3228504 |
93.4% |
3015422 |
109.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,521,852 |
T→C |
D209G (GAT→GGT) |
xapR ← |
transcriptional activator of xapAB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,521,852 | 0 | T | C | 98.4%
| 215.7
/ ‑5.6
| 61 | D209G (GAT→GGT) | xapR | transcriptional activator of xapAB |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base C (26/34); minor base A (1/0); total (27/34) |
| Fisher's exact test for biased strand distribution p-value = 4.43e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
TTGTGCGTAGCTGTCCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAATCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGCCGATTCATGCAACCGTAAG > NC_000913/2521719‑2521986
|
ttGTGCGTAGCTGTCCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCcag > 2:198701/1‑139 (MQ=255)
tgtgCGTAGCTGTCCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCcagt < 1:1402887/139‑1 (MQ=255)
tgtgCGTAGCTGTCCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCcagt < 2:858412/139‑1 (MQ=255)
tgtgCGTAGCTGTCCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCcagt < 2:814147/139‑1 (MQ=255)
tgtgCGTAGCTGTCCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCcagt < 2:177246/139‑1 (MQ=255)
tgtgCGTAGCTGTCCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCcagt < 1:880426/139‑1 (MQ=255)
gtgCGTAGCTGTCCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCcagtc < 1:85681/139‑1 (MQ=255)
tgCGTAGCTGTCCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCcagtca < 2:87821/139‑1 (MQ=255)
aGCTGTCCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTa > 1:433901/1‑139 (MQ=255)
gTCCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACg < 2:1342066/139‑1 (MQ=255)
aaTGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTg < 2:818670/139‑1 (MQ=255)
aTGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGt < 2:975299/139‑1 (MQ=255)
aaTGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATAc < 2:139290/139‑1 (MQ=255)
aTGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACt > 1:1506897/1‑139 (MQ=255)
aTACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCAc < 1:5424/139‑1 (MQ=255)
aCCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCca > 2:798511/1‑92 (MQ=255)
aCCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCca < 1:798511/92‑1 (MQ=255)
aCCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCTGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAgcg > 2:1455678/1‑139 (MQ=255)
aCCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCa > 2:5166/1‑112 (MQ=255)
aCCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAgcg > 2:361133/1‑139 (MQ=255)
aCCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGCTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCa < 1:5166/112‑1 (MQ=255)
cATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCt < 2:1256428/139‑1 (MQ=255)
tACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCggg > 1:713565/1‑139 (MQ=255)
aCCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGa > 2:426178/1‑139 (MQ=255)
aCCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGa > 2:560577/1‑139 (MQ=255)
aCCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGa < 1:426178/139‑1 (MQ=255)
aCCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAAACCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGa > 1:1033747/1‑139 (MQ=255)
tttGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAACAAACCGCAGTCAGTGTAAACGGGCGGCATTGCAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGt > 2:117560/1‑139 (MQ=255)
tttGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTa < 1:731969/101‑1 (MQ=255)
tttGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTa > 2:731969/1‑101 (MQ=255)
tttGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGt > 1:627297/1‑139 (MQ=255)
tttGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGt < 2:627297/139‑1 (MQ=255)
tttGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGt > 1:363205/1‑139 (MQ=255)
ttGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTg > 2:567252/1‑139 (MQ=255)
aCTTCGCGAATAACAACCGGTGAAAATCCTACCTGCTGGCAAACTAGCTGCAGAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCggg > 1:932201/1‑120 (MQ=255)
aCTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCggg < 2:932201/120‑1 (MQ=255)
cgcgAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACg > 1:199390/1‑119 (MQ=255)
cgcgAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACg < 2:199390/119‑1 (MQ=255)
gcgAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAgatga > 1:991112/1‑139 (MQ=255)
gcgAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAgatga < 1:198701/139‑1 (MQ=255)
tAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGctc > 2:664099/1‑139 (MQ=255)
gttaaaaTCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTg < 1:1574201/63‑1 (MQ=255)
gttaaaaTCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTg > 2:1574201/4‑66 (MQ=255)
gTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACaaa < 1:1436/73‑1 (MQ=255)
gTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACaaa > 2:1436/1‑73 (MQ=255)
cACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGa > 2:739363/1‑139 (MQ=255)
aCCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCa < 2:1517201/52‑1 (MQ=255)
aCCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCa > 1:1517201/1‑52 (MQ=255)
tgctgGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTTTAACAAAATACTCGTCACGTAGCACTTCCAGCGGGACGGTGGAAAATGATTAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACg < 2:1023968/139‑1 (MQ=255)
gctgGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGc < 2:991112/139‑1 (MQ=255)
ggCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGCCGa > 2:268332/1‑139 (MQ=255)
cTCGCTGCAAAAAACCCCTGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGCCGATTCATg < 1:1455678/139‑1 (MQ=255)
cTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGCCGATTCATg < 2:713565/139‑1 (MQ=255)
cTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGCCGATTCATg < 2:1053181/139‑1 (MQ=255)
cTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGCCGATTCATg < 1:560577/139‑1 (MQ=255)
tCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGCCGATTCATGc < 2:1474394/139‑1 (MQ=255)
gCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTg < 1:951085/39‑1 (MQ=255)
gCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTg > 2:951085/1‑39 (MQ=255)
tGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGCCGATTCATGCAAcc > 2:475376/1‑139 (MQ=255)
aaaaCCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGCCGATTCATGCAACCGTAAg < 1:664099/139‑1 (MQ=255)
aaaaCCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGCCGATTCATGCAACCGTAAg < 1:361133/139‑1 (MQ=255)
|
TTGTGCGTAGCTGTCCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAATCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGCCGATTCATGCAACCGTAAG > NC_000913/2521719‑2521986
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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
