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 |
4,609,336 |
(C)7→8 |
intergenic (+13/‑78) |
yjjG → / → prfC |
dUMP phosphatase/peptide chain release factor RF‑3 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,609,329 | 1 | . | C | 90.9%
| 102.8
/ 2.8
| 33 | intergenic (+6/‑85) | yjjG/prfC | dUMP phosphatase/peptide chain release factor RF‑3 |
| Reads supporting (aligned to +/- strand): ref base . (1/2); new base C (17/13); total (18/15) |
| Fisher's exact test for biased strand distribution p-value = 5.79e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTCGGTGGCATCAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑T‑‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGCCGCACTT > NC_000913/4609192‑4609459
|
ctcGGTGGCATCAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑T‑‑c < 1:719859/139‑1 (MQ=255)
tCAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑T‑‑cccccc‑cccgt > 2:595810/1‑135 (MQ=255)
cAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑T‑‑cccccc‑ccgttg < 1:462974/139‑6 (MQ=255)
cAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑T‑‑cccccc‑ccgttg < 2:1417018/139‑6 (MQ=255)
cGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGt > 1:130093/1‑139 (MQ=255)
cGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑T‑‑cccccc‑ccgttg < 2:1227842/133‑6 (MQ=255)
cGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑T‑‑cccccc‑ccgttg > 1:1227842/1‑128 (MQ=255)
ttGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAAt < 1:1588293/139‑1 (MQ=255)
tGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TCCCCCCCC‑CGTTGATGGGTAAAAt < 1:595810/139‑1 (MQ=255)
cGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGc > 1:203110/1‑139 (MQ=255)
cATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAg < 2:130093/139‑1 (MQ=255)
aTCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTTGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑T‑‑cccccc‑ccgttg > 2:356418/1‑96 (MQ=255)
aTCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑T‑‑cccccc‑ccgttg < 1:356418/101‑6 (MQ=255)
tCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑T‑‑cccc > 1:68517/1‑92 (MQ=255)
tCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑T‑‑cccc < 2:68517/92‑1 (MQ=255)
tCGCGAGCAACCAGAAGGCATCGCGACCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCCCAATTTTTCGTTTTCAACAAgcg > 1:1414416/1‑139 (MQ=255)
aaCCAGAAGGCATCGCGCCCACCTGGAGCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTcaac > 1:1121917/1‑126 (MQ=255)
aaCCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTT‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTcaac < 2:1121917/126‑1 (MQ=255)
actgTTTCTTCGTTGCGAGAGCTGGGGCTGCTCCGGTGTAAATACGGTTGG‑CCAC‑‑CCCCCC‑CGTTGATGGGTAAAATAGCTGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCATACTCAAGAAGAAAGAAtt < 2:203110/136‑1 (MQ=255)
ttttttCGTTGCACGAACTGGAGCAGCTCCTGTTTAAACACTGATTGCCC‑C‑‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAAttttt < 2:807468/86‑1 (MQ=255)
tttCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCC‑C‑‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAAttttt > 1:807468/1‑86 (MQ=255)
tttCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCa < 2:190811/80‑1 (MQ=255)
tttCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCa > 1:190811/1‑80 (MQ=255)
tttCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTTCTCAAGAAGAAAGAATTATGa > 1:400783/1‑139 (MQ=255)
tttCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCaa < 1:463450/123‑1 (MQ=255)
tttCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCaa > 2:463450/1‑123 (MQ=255)
tttCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGa > 2:892620/1‑139 (MQ=255)
tttCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGa > 1:965259/1‑139 (MQ=255)
tttCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑T‑‑ccc < 1:281049/53‑1 (MQ=255)
tttCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑T‑‑ccc > 2:281049/1‑53 (MQ=255)
tcttcGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑T‑‑cccccc‑ccgttg < 2:1559331/60‑6 (MQ=255)
tcttcGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑T‑‑cccccc‑ccgttg > 1:1559331/1‑55 (MQ=255)
ttcGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGtt < 2:1414416/139‑1 (MQ=255)
cACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGAt < 1:259123/99‑1 (MQ=255)
cACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGAt > 2:259123/1‑99 (MQ=255)
cACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCt > 2:615788/1‑139 (MQ=255)
agcagcTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAag < 1:892620/139‑1 (MQ=255)
cTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGAt > 1:137843/1‑84 (MQ=255)
cTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCaa > 2:1646376/1‑97 (MQ=255)
cTCCTGTGTAAACACTGATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCaa < 1:1646376/97‑1 (MQ=255)
cTCCTGTGTAAACACTGATTG‑CC‑T‑‑CCCCCCTCGTTGATGGGTAAAATAGCCGCAACTTTTCGTTTTCAACAAGCGCGGCGCGAt < 2:137843/84‑1 (MQ=255)
gATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTAcg > 2:1097978/1‑77 (MQ=255)
gATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACt < 1:1097978/78‑1 (MQ=255)
gATTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGCCGCACtt > 1:547632/1‑139 (MQ=255)
aTTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAGTTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTc > 1:1158656/1‑78 (MQ=255)
aTTG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCCCGATGCCGCTTACTc < 2:1158656/78‑1 (MQ=255)
ttG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGcc > 1:1599434/1‑69 (MQ=255)
ttG‑CC‑TC‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGcc < 2:1599434/69‑1 (MQ=255)
|
CTCGGTGGCATCAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CC‑T‑‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGCCGCACTT > NC_000913/4609192‑4609459
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
