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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,444,406 |
T→C |
34.5% |
intergenic (+27/+173) |
rcsB → / ← rcsC |
DNA‑binding response regulator in two‑component regulatory system with RcsC and YojN/hybrid sensory kinase in two‑component regulatory system with RcsB and YojN |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,444,406 | 0 | T | C | 34.5%
| 62.7
/ 45.9
| 81 | intergenic (+27/+173) | rcsB/rcsC | DNA‑binding response regulator in two‑component regulatory system with RcsC and YojN/hybrid sensory kinase in two‑component regulatory system with RcsB and YojN |
| Reads supporting (aligned to +/- strand): ref base T (36/17); new base C (22/6); total (58/23) |
| Fisher's exact test for biased strand distribution p-value = 4.38e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.87e-01 |
GTGACCTTAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTAC > minE/1444350‑1444468
|
gTGACCTTAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTa < 1:986533/66‑1 (MQ=255)
gTGACCTTAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTa < 1:2848618/66‑1 (MQ=255)
gTGACCTTAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTa < 1:403321/66‑1 (MQ=255)
gTGACCTTAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTa < 1:454940/66‑1 (MQ=255)
gTGACCTTAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTa < 1:898595/66‑1 (MQ=255)
tAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTCAgt > 1:2147584/1‑53 (MQ=255)
tAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTCAgt > 1:664206/1‑53 (MQ=255)
tAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTCAgt > 1:2247491/1‑53 (MQ=255)
tAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTCAgt > 1:226069/1‑53 (MQ=255)
tAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTCAgt > 1:199965/1‑53 (MQ=255)
tAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTCAgt > 1:2924986/1‑53 (MQ=255)
tAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTCAgt > 1:1821220/1‑53 (MQ=255)
tAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTCAgt > 1:382107/1‑53 (MQ=255)
tAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTCAgt > 1:2789444/1‑53 (MQ=255)
tAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTCAgt > 1:2636795/1‑53 (MQ=255)
tAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTCAgt > 1:2586216/1‑53 (MQ=255)
tAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTCAgt > 1:1501203/1‑53 (MQ=255)
tAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTCAgt > 1:14595/1‑53 (MQ=255)
aaGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCAttt > 1:330064/1‑68 (MQ=255)
aaGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTg > 1:1526406/1‑69 (MQ=255)
aaGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTg > 1:545999/1‑69 (MQ=255)
aaGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTg > 1:621959/1‑69 (MQ=255)
gATAAAGAGTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGc > 1:2597892/1‑69 (MQ=255)
gATAAAGAGTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGc > 1:2601903/1‑69 (MQ=255)
gATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGc > 1:1046368/1‑69 (MQ=255)
gATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGc > 1:2933300/1‑69 (MQ=255)
gATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGc > 1:2944601/1‑69 (MQ=255)
gATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGc > 1:2027446/1‑69 (MQ=255)
gATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGc > 1:1901866/1‑69 (MQ=255)
gATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGc > 1:436451/1‑69 (MQ=255)
gATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGc > 1:1720620/1‑69 (MQ=255)
gATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGc > 1:525597/1‑69 (MQ=255)
gATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGc > 1:806417/1‑69 (MQ=255)
tAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGc > 1:2441978/1‑67 (MQ=255)
tAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCg < 1:3165062/69‑1 (MQ=255)
tAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCg < 1:3255908/69‑1 (MQ=255)
tAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCg > 1:361808/1‑69 (MQ=255)
tAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCg > 1:377829/1‑69 (MQ=255)
tAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCg > 1:461247/1‑69 (MQ=255)
tAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCg < 1:2732643/69‑1 (MQ=255)
tAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCg > 1:2670922/1‑69 (MQ=255)
tAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCg < 1:2612080/69‑1 (MQ=255)
tAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCg < 1:2273227/69‑1 (MQ=255)
tAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCg < 1:2226829/69‑1 (MQ=255)
tAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCg > 1:2076557/1‑69 (MQ=255)
aTCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCGGATgcggc > 1:1760216/1‑68 (MQ=255)
cACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCGGATGCGGCGTa < 1:1904732/69‑1 (MQ=255)
cACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCGGATGCGGCGTa < 1:109368/69‑1 (MQ=255)
cACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCGGATGCGGCGTa < 1:798335/69‑1 (MQ=255)
cACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCGGATGCGGCGTa < 1:1771922/69‑1 (MQ=255)
cACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCGGATGCGGCGTa < 1:2036891/69‑1 (MQ=255)
aCCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCGGATGCGGCGTa > 1:3227628/1‑68 (MQ=255)
aCCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCGGATGCGGCGTa > 1:299598/1‑68 (MQ=255)
aCCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCGGATGCGGCGTa > 1:1190377/1‑68 (MQ=255)
aCCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCGGATGCGGCGTa > 1:981841/1‑68 (MQ=255)
aCCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCGGATGCGGCGTa > 1:2699582/1‑68 (MQ=255)
aCCTGTAGGCCAGATAAGACGCGTCAGTGTCTTATCTGGCATTTGCACGGATTGCCGGATGCGGCGTaa < 1:333855/69‑1 (MQ=17)
aCCTGTAGGCCAGATAAGACGCGTCAGTGTCTTATCTGGCATTTGCACGGATTGCCGGATGCGGCGTaa < 1:562383/69‑1 (MQ=17)
aCCTGTAGGCCAGATAAGACGCGTCAGTGTCTTATCTGGCATTTGCACGGATTGCCGGATGCGGCGTaa < 1:1820579/69‑1 (MQ=17)
aCCTGTAGGCCAGATAAGACGCGTCAGTGTCTTATCTGGCATTTGCACGGATTGCCGGATGCGGCGTaa < 1:3330116/69‑1 (MQ=17)
aCCTGTAGGCCAGATAAGACGCGTCAGTGTCTTATCTGGCATTTGCACGGATTGCCGGATGCGGCGTaa < 1:3302397/69‑1 (MQ=17)
aCCTGTAGGCCAGATAAGACGCGTCAGTGTCTTATCTGGCATTTGCACGGATTGCCGGATGCGGCGTaa < 1:325906/69‑1 (MQ=17)
cTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCg > 1:1059327/1‑48 (MQ=255)
cTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCg > 1:854162/1‑48 (MQ=255)
cTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCg > 1:963078/1‑48 (MQ=255)
cTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCg > 1:3174937/1‑48 (MQ=255)
cTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCg > 1:74186/1‑48 (MQ=255)
cTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCg > 1:1400349/1‑48 (MQ=255)
cTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCg > 1:1404360/1‑48 (MQ=255)
cTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCg > 1:1815596/1‑48 (MQ=255)
cTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCg > 1:1923458/1‑48 (MQ=255)
cAGATAAGACGCGTCAGTGTCTTATCTGGCATTTGCa > 1:3272209/1‑37 (MQ=255)
cAGATAAGACGCGTCAGTGTCTTATCTGGCATTTGCACGGATTGCCGGATGCGGCGTAAACGCCTTATc > 1:1499699/1‑69 (MQ=14)
cAGATAAGACGCGTCAGTGTCTTATCTGGCATTTGCACGGATTGCCGGATGCGGCGTAAACGCCTTATc > 1:1764188/1‑69 (MQ=14)
cAGATAAGACGCGTCAGTGTCTTATCTGGCATTTGCACGGATTGCCGGATGCGGCGTAAACGCCTTATc > 1:1246244/1‑69 (MQ=14)
cAGATAAGACGCGTCAGTGTCTTATCTGGCATTTGCACGGATTGCCGGATGCGGCGTAAACGCCTTATc > 1:2994096/1‑69 (MQ=14)
cAGATAAGACGCGTCAGTGTCTTATCTGGCATTTGCACGGATTGCCGGATGCGGCGTAAACGCCTTATc > 1:2451674/1‑69 (MQ=14)
cAGATAAGACGCGTCAGTGTCTTATCTGGCATTTGCACGGATTGCCGGATGCGGCGTAAACGCCTTATc > 1:187617/1‑69 (MQ=14)
cAGATAAGACGCGTCAGTGTCTTATCTGGCATTTGCACGGATTGCCGGATGCGGCGTAAACGCCTTATc > 1:2530442/1‑69 (MQ=14)
cAGATAAGACGCGTCAGTGTCTTATCTGGCATTTGCA‑GGATTGCCGGATGCGGCGTAAACGCCTTATcc > 1:2449126/1‑69 (MQ=14)
cgcgTTAGTGTCTTATCTGGCATTTGCACCGATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTAc < 1:3260300/68‑1 (MQ=255)
|
GTGACCTTAAGTCCGGCAGATAAAGACTAATCACCTGTAGGCCAGATAAGACGCGTTAGTGTCTTATCTGGCATTTGCACCGATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTAC > minE/1444350‑1444468
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
