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 F56 I1 R1
|
165 |
53.8 |
2611523 |
96.4% |
2517508 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,622,796 |
T→G |
L1202R (CTG→CGG) |
rhsB → |
Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,622,796 | 0 | T | G | 97.6%
| 105.9
/ ‑3.5
| 42 | L1202R (CTG→CGG) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base G (25/16); total (25/17) |
| Fisher's exact test for biased strand distribution p-value = 4.05e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.45e-01 |
TGATGAATGGGGCAACCTGCTGAATGAAGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCTGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCACTCAGGATCCGATTGGACTGAAGGGGGGATGGAACCTGTATGGA > NC_000913/3622701‑3622890
|
tgatgaATGGGGCAACCTGCTGAATGAAGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTAt < 2:190780/100‑1 (MQ=25)
gatgaATGGGGCAACCTGCTGAATGAAGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTAtt > 1:129541/1‑100 (MQ=18)
atgaATGGGGCAACCTGCTGAATGAAGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTa > 1:709812/1‑100 (MQ=18)
tgaATGGGGCAACCTGCTGAATGAAGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTAc < 2:215216/100‑1 (MQ=18)
gaATGGGGCAACCTGCTGAATGAAGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACa < 2:537474/100‑1 (MQ=18)
gaATGGGGCAACCTGCTGAATGAAGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACa > 2:1095124/1‑100 (MQ=17)
ggggCAACCTGCTGAATGAAGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCg > 1:554967/1‑100 (MQ=18)
ggggCAACCTGCTGAATGAAGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCg > 1:244165/1‑100 (MQ=18)
ggCAACCTGCTGAATGAAGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGcc > 1:790779/1‑100 (MQ=17)
ggCAACCTGCTGAATGAAGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGcc > 1:748701/1‑100 (MQ=18)
cAACCTGCTGAATGAAGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCAc > 1:3202/1‑100 (MQ=18)
ccTGCTGAATGAAGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGc < 1:734407/100‑1 (MQ=18)
gctgAATGAAGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCtat > 1:657762/1‑100 (MQ=18)
gaatgaaGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGGGGAGTCCGGCCGGTATTACAACCGCCACCGCtattat < 2:701004/100‑1 (MQ=255)
gaatgaaGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCtattat < 1:72020/100‑1 (MQ=18)
atgaaGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGa > 2:728607/1‑100 (MQ=18)
aaGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGAccc > 1:178682/1‑100 (MQ=18)
ccGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAgg > 1:1022203/1‑100 (MQ=18)
cGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCa < 2:940885/97‑1 (MQ=17)
cATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGc > 1:265168/1‑100 (MQ=18)
aTCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCg > 1:73135/1‑100 (MQ=18)
tCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGa < 1:583578/100‑1 (MQ=17)
aGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGata < 1:285740/100‑1 (MQ=18)
gCTGCAGCAGCTTATACGGCTGCTGGGGCAGCAGTATGATGAGGAGTCCGGACGGAATTACAACCGCCACCGCTCTTATGACCCGCGGCAGGAGCGata > 2:317525/1‑99 (MQ=11)
gcagcaGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATc > 1:1017011/1‑100 (MQ=18)
agcagcTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCa < 2:270078/99‑1 (MQ=17)
agcagcTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCAc < 2:265165/100‑1 (MQ=18)
tCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCACTCAGGATcc > 2:43423/1‑100 (MQ=17)
ggCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCACTCAGGATCCGAt > 1:1032740/1‑100 (MQ=14)
ggCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCACTCAGGATCCGAt < 1:461007/100‑1 (MQ=14)
ccGGGGCAGCAGTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCACTCAGGATCCGATTGGAc < 2:1096649/100‑1 (MQ=14)
agTATGATGAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCACTCAGGATCCGATTGGACTGAAgggggg > 1:593125/1‑100 (MQ=25)
atgatgAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCACTCAGGATCCGATTGGACTGAAGGGGGGATg > 1:135970/1‑100 (MQ=255)
atgatgAGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCACTCAGGATCCGATTGGACTGAAGGGGGGATg > 1:758828/1‑100 (MQ=255)
tgatgaGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCACTCAGGATCCGATTGGACTGAAGGGGGGATgg < 2:193865/100‑1 (MQ=255)
tgatgaGGAGTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCACTCAGGATCCGATTGGACTGAAGGGGGGATgg > 1:230699/1‑100 (MQ=255)
gaggagTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCACTCAGGATCCGATTGGACTGAAGGGGGGGTGGAAcc < 1:1201256/100‑1 (MQ=255)
gagTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCACTCAGGATCCGATTGGACTGAAGGGGGGATGGAACCTGt > 2:103129/1‑100 (MQ=255)
agTCCGGCCTGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCACTCAGGATCCGATTGGACTGAAGGGGGGATGGAACCTGTa < 2:677177/100‑1 (MQ=255)
gTCCGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCACTCAGGATCCGATTGGACTGAAGGGGGGATGGAACCTGTAt > 1:438490/1‑100 (MQ=255)
cGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCACTCAGGATCCGATTGGACTGAAGGGGGGATGGAACCTGTATGGa > 2:294974/1‑100 (MQ=255)
cGGCCGGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCACTCAGGATCCGATTGGACTGAAGGGGGGATGGAACCTGTATGGa < 2:709807/100‑1 (MQ=255)
|
TGATGAATGGGGCAACCTGCTGAATGAAGAGAACCCGCATCAGCTGCAGCAGCTTATCCGGCTGCCGGGGCAGCAGTATGATGAGGAGTCCGGCCTGTATTACAACCGCCACCGCTATTATGACCCGCTGCAGGGGCGATATATCACTCAGGATCCGATTGGACTGAAGGGGGGATGGAACCTGTATGGA > NC_000913/3622701‑3622890
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
