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 |
|
A8 F1 I2 R1
|
765 |
53.2 |
2691310 |
93.4% |
2513683 |
103.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,767,445 |
(C)7→8 |
intergenic (+90/‑265) |
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 | 2,767,438 | 1 | . | C | 95.2%
| 136.3
/ ‑0.2
| 42 | intergenic (+83/‑272) | rnlB/yfjP | CP4‑57 prophage, uncharacterized protein/CP4‑57 prophage, 50S ribosome‑binding GTPase family protein |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base C (19/21); total (20/22) |
| 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 |
TCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AA‑CCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCG > NC_000913/2767305‑2767563
|
tctGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCCAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AA‑ccccc < 1:442069/139‑1 (MQ=255)
gTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTcaca < 1:419322/139‑1 (MQ=255)
ccGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTc < 1:726143/139‑1 (MQ=255)
cGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTcc < 2:687740/139‑1 (MQ=255)
cAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCGGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTcaca < 2:916503/120‑1 (MQ=255)
cAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTcaca > 1:916503/1‑120 (MQ=255)
gTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTc > 2:949315/1‑117 (MQ=255)
gTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTc < 1:1270211/117‑1 (MQ=255)
gTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTc > 2:1270211/1‑117 (MQ=255)
gTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTc < 1:949315/117‑1 (MQ=255)
tGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTcaca < 1:1095714/107‑1 (MQ=255)
tGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTcaca > 2:1095714/1‑107 (MQ=255)
tctAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc < 1:1193997/114‑1 (MQ=255)
tctAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc > 2:1193997/1‑114 (MQ=255)
gtataagagacaggTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTccc < 1:1009376/126‑1 (MQ=255)
taagagacagctataGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCACTC‑CC‑CCCCCCCTCACAACGTCCTGCCTAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTCcccccc < 2:144029/128‑1 (MQ=255)
aaCCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTc < 1:449674/83‑1 (MQ=255)
aaCCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTc > 2:449674/1‑83 (MQ=255)
aaTTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AA‑ccccccc < 2:895994/61‑1 (MQ=255)
aaTTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AA‑ccccccc > 1:895994/1‑61 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TTAAA‑CCCCAACTCGCAACGTCCTGAAAAGGGAATACGATCTTCACTGTGGGACCACAACTAAATTTCTCCCCCTTTGAACtttctggccctta > 1:144029/1‑128 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCTTTCATAGGGAACACGATTTCCCCTGTGCACCAACGACTAAATTTCTCCCCCTTTAAACTACTCaataattt > 1:391833/1‑137 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc < 2:316999/90‑1 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc > 1:316999/1‑90 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc < 2:1278071/90‑1 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc > 1:1278071/1‑90 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCTCATGTGAATGCACGACTAAATTTCCCCCTCACTAAAcctgtctgttatac > 2:1009376/1‑126 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACt > 2:500582/1‑106 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACt < 1:500582/106‑1 (MQ=255)
gTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTatg > 2:241281/1‑139 (MQ=255)
gTCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTACCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTatg > 2:911981/1‑139 (MQ=255)
tCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTcaca > 1:809231/1‑37 (MQ=255)
tCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTc > 2:741148/1‑42 (MQ=255)
tCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTc < 1:741148/42‑1 (MQ=255)
tCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc > 2:120742/1‑65 (MQ=255)
tCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc < 2:1000327/65‑1 (MQ=255)
tCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc < 2:411589/65‑1 (MQ=255)
tCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc > 1:411589/1‑65 (MQ=255)
tCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc < 1:120742/65‑1 (MQ=255)
tCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTccc > 1:1000327/1‑65 (MQ=255)
tCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCt < 1:487840/95‑1 (MQ=255)
tCCAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACAAGTTTTCCCCTCTGCACCCACGACTAAATTTCCCCCCCt > 2:487840/1‑95 (MQ=255)
cAATATGATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTatgatg < 1:454525/139‑1 (MQ=255)
gATCAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTc < 1:1343333/139‑1 (MQ=255)
cAAATAGCA‑TT‑AACCCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCg < 1:911981/139‑1 (MQ=255)
|
TCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCA‑TT‑AA‑CCCCCCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCG > NC_000913/2767305‑2767563
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
