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 |
|
A12 F1 I2 R1
|
766 |
55.6 |
2631458 |
94.7% |
2491990 |
109.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,767,507 |
(C)7→8 |
intergenic (+152/‑203) |
rnlB → / → yfjP |
CP4‑57 prophage, uncharacterized protein/CP4‑57 prophage, 50S ribosome‑binding GTPase family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,767,500 | 1 | . | C | 85.7%
| 143.5
/ 15.3
| 49 | intergenic (+145/‑210) | rnlB/yfjP | CP4‑57 prophage, uncharacterized protein/CP4‑57 prophage, 50S ribosome‑binding GTPase family protein |
| Reads supporting (aligned to +/- strand): ref base . (4/3); new base C (22/20); total (26/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑CCC‑CCC‑CT‑CACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑T‑‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTCTGCAATCTATGTGCATTGAAAAAATCTTCAGATAGA > NC_000913/2767367‑2767629
|
ctAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACCCC‑CCC‑CT‑CCCAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑T‑‑c‑c‑cc < 2:1158622/139‑1 (MQ=255)
cAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACCCC‑CCC‑CT‑CACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTaaa < 1:821573/139‑1 (MQ=255)
tCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑AAC‑CCC‑CTATAAAACCTCCTTCATAGGGTAAACTTTTTTACATTTGCACCCAACTCCAAAT‑T‑T‑‑CTC‑ATCCCTGTAAACCTCTCcataa > 2:4820/1‑139 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATTAAA‑ACC‑CCC‑CT‑AACAACGTCCTGCATAGAGAACACGTTTGCCACTGTGCAACATAGACTAAAT‑T‑T‑‑C‑CTCCCCCTTTAAAATTCTCAATAATg > 2:814009/1‑139 (MQ=255)
aCTTGTCCAATATGATCAAATAGCATT‑AACCCC‑CCC‑CT‑CACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCCCAATAATGTCACCAATTTTCTGGAAATc < 1:814009/139‑1 (MQ=255)
tCCAATATGATCAAATAGCATT‑AACCCC‑CCC‑CT‑CACAACTTCCTGCATAGGGTACACGTTTTCACCTGTGCACCCACGACTAAATAT‑C‑‑C‑C‑CCCCCTTTAAACTTCTCATTATTTTCACCAATTTTTTGGACATCTTatg > 2:799778/1‑139 (MQ=255)
tCCAATATGATCAAATAGCATT‑AA‑CCCACGC‑CT‑CACAACGCCCTGCCTAGAGAACACGTGTTCCCCTGCGGACGCACGTCTAAAT‑T‑TC‑C‑C‑CCCCCTTTCAGCTTCTCAATAATGTCACCAATGTGCTGGAAATCCTatg > 1:68180/1‑139 (MQ=255)
tCCAATATGATCAAATAGCATT‑AA‑CCC‑CCCGCT‑CACAACATCCTGCAAAGGGTACACGATCTCCCCTGTGCACCCACGACTAAAT‑TAA‑‑A‑C‑ACTCCGTTAAACATCTCAATAATGTCACCAAACTTCTggccagcccatg > 2:1094166/1‑129 (MQ=255)
aTCAAATAGCATT‑AACCCC‑CCC‑CT‑CACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTc < 1:100072/139‑1 (MQ=255)
tCAAATAGCATT‑AACCCC‑CCC‑CT‑CACAACGTCCTTCATAGGGAACACGTTTTCCACTCTGCACCCACGACTCAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGACAACCTATGACGCCttttc > 2:781852/1‑137 (MQ=255)
tCAAATAGCATT‑AACCCC‑CCC‑CT‑CACAACGTCCTGCATATGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCCATTTTCTGGAAATCCTATGATGCCTTTcc > 2:116170/1‑139 (MQ=255)
aaaTAGCATT‑AACCCC‑CCC‑CT‑CACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCg < 1:4820/139‑1 (MQ=255)
aGCATT‑AACCCC‑CCC‑CT‑CACGTCGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCTAAGTCTACAT‑T‑T‑‑C‑CGCCCCCTTTAATCTTCCTAATAAGGTCAGCAATTTTCTGGAAATCCTCTGATGACTTTCCCGGTaa < 2:20993/139‑1 (MQ=255)
gCATT‑AACCCC‑CCC‑CT‑CACAACGTCCTGCATAGGGAACACGGTTTCCCCTGTGCACCCACGACTAAATGT‑C‑‑C‑C‑CCCCCTTTAAACCTCTCAATGATGGCCCCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTaaa > 2:902331/1‑139 (MQ=255)
aTT‑AACCCC‑CCC‑CT‑CACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCAcc > 2:1276239/1‑100 (MQ=255)
aTT‑AACCCC‑CCC‑CT‑CACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCAcc < 1:1276239/100‑1 (MQ=255)
aTT‑AACCCC‑CCC‑CT‑CACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATg < 1:1067383/139‑1 (MQ=255)
ttaacccc‑ccc‑cT‑CACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TCCC‑C‑CCCCCTTTAAACTTCTCTATAATGTTACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTaaagg > 1:1161682/6‑137 (MQ=255)
aaCGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGaa < 1:1073953/139‑1 (MQ=255)
tCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGAt > 1:222/1‑139 (MQ=255)
ccTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGAtt > 2:898013/1‑139 (MQ=255)
cATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTCTGc < 2:222/139‑1 (MQ=255)
ggAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTaaa > 1:866352/1‑51 (MQ=255)
ggAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTaaa > 1:914678/1‑51 (MQ=255)
ggAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTaaa < 2:914678/51‑1 (MQ=255)
ggAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTaaa < 2:866352/51‑1 (MQ=255)
ggAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTCTGCAATCt > 1:1029562/1‑139 (MQ=255)
ggAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑T‑‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTCTGCAATCTa > 2:1010001/1‑139 (MQ=255)
acGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAAt < 1:226790/78‑1 (MQ=255)
acGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAAt > 2:226790/1‑78 (MQ=255)
acGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATg > 1:1277234/1‑103 (MQ=255)
acGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATg < 2:1277234/103‑1 (MQ=255)
tttCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTCTGCAATCTATGTGCAtt > 1:488713/1‑139 (MQ=255)
ttCCCCTGTGCCCCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTc < 1:667515/121‑1 (MQ=255)
ttCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCt > 1:979533/1‑85 (MQ=255)
ttCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTc > 2:667515/1‑121 (MQ=255)
ttCCCCTGTGCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCCTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCt < 2:979533/85‑1 (MQ=255)
ttCCCCTGTGCACCCACGACTAAAT‑T‑T‑‑C‑C‑CCCCCcttta > 1:811782/1‑37 (MQ=255)
ttCCCCTGTGCACCCACGACTAAAT‑T‑T‑‑C‑C‑CCCCCcttta < 2:811782/39‑3 (MQ=255)
gtgCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTatgatg > 1:1021607/1‑75 (MQ=255)
gtgCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTatgatg < 2:1021607/75‑1 (MQ=255)
gtgCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTCTGCAATCTATGTGCATTGAAAAAAt > 1:881478/1‑139 (MQ=255)
tgCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAg > 2:543771/1‑105 (MQ=255)
tgCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAg < 1:543771/105‑1 (MQ=255)
tgCACCCACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTCTGCAATCTATGTGCATTGAAAAAATc < 2:881478/139‑1 (MQ=255)
tgcgttgtttaagaaT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTCTGCAATCTATGTGCATTGAAAAAATCt > 1:752447/14‑139 (MQ=255)
tgcgttgtttaagaaT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTCTGCAATCTATGTGCATTGAAAAAATCt > 1:357325/14‑139 (MQ=255)
ccACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTCTg < 1:876362/110‑1 (MQ=255)
ccACGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTCTg > 2:876362/1‑110 (MQ=255)
aCGACTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTCTGCAATCTATGTGCATTGAAAAAATCTTCagat < 1:799778/139‑1 (MQ=255)
aCTAAATGT‑C‑‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTCTGCAATCTATGTGCAGTGAAAAAATCTTCagataga < 2:68180/139‑1 (MQ=255)
aCTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTCTGCAATCTATGTGCATTGAAAAAATCTTCagataga < 1:902331/139‑1 (MQ=255)
aCTAAAT‑T‑TC‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTCTGCAATCTATGTGCATTGAAAAAATCTTCagataga > 2:117172/1‑139 (MQ=255)
cTAAAT‑T‑TCCC‑C‑CCCCCTTTAAACTTCGCAATAATGTCACCTATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTCTGCAATCTATGTGCATTGAAAAAATCTTCagataga < 2:1161682/139‑1 (MQ=255)
|
CTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑CCC‑CCC‑CT‑CACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAAT‑T‑T‑‑C‑C‑CCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGGTGCTGTGAGTTCAGAAAGATTCTGCAATCTATGTGCATTGAAAAAATCTTCAGATAGA > NC_000913/2767367‑2767629
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
