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 F13 I0 R1
|
203 |
85.6 |
3649704 |
98.8% |
3605907 |
146.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
1,126,645:1 |
+C |
100% |
intergenic (‑99/+50) |
tdcG‑II ← / ← gcvP‑I |
L‑serine dehydratase/glycine dehydrogenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 1,126,645 | 1 | . | C | 94.1%
| 49.9
/ ‑2.7
| 17 | intergenic (‑99/+50) | tdcG‑II/gcvP‑I | L‑serine dehydratase/glycine dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base C (11/5); total (12/5) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.89e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CTGGAGGGGCCGATGCCGATCTTGAACAGGTCGAAGACGCTCAGTGACATGTGGACCTCCTGCCAGGTTGTTGGGTGG‑ACATTGAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGT‑AAA‑‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGC > NC_002947_CJ‑RC/1126497‑1126782
|
cTGGAGGGGCCGATGCCGATCTTGAACAGGTCGAAGACGCTCAGTGACATGTGGACCTCCTGCCAGGTTGTTGGGTGG‑ACATTGAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGT‑aaa < 1:32326/149‑1 (MQ=255)
cTGGAGGGGCCGATGCCGATCTTGAACAGGTCGAAGACGCTCAGTGACATGTGGACCTCCTGCCAGGTTGTTGGGTGG‑ACATTGAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGT‑aaa < 2:172201/149‑1 (MQ=255)
gAGGGGCCGATGCCGATCTTGAACAGGTCGAAGACGCTCAGTGACATGTGGACCTCCTGCCAGGTTGTTGGGTGG‑ACATTGAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGT‑AAA‑‑c < 1:221837/147‑1 (MQ=255)
gTGACCTGGGGCCCGCCTGCCAGGTTG‑TGGGTGGCACATTGAGCCCTGTAGGCGCGGGTTTCCCCGCTAATGCGCAGGTATAGCCACCATCGCATTCGCGGGT‑AAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCgggg < 2:253640/149‑1 (MQ=25)
gcctgtttgttgGGTGT‑AATTTTCGCCTTGTTGGGGGGGGTTTACCGGGTAATGCGTTGTTATACCCACAATCGCATTGGGGGTT‑AAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCt < 6:185443/143‑1 (MQ=255)
ccGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGT‑AAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGc > 7:226193/1‑149 (MQ=255)
ccGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGT‑AAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGc > 3:193392/1‑149 (MQ=255)
cgcgAATGCGGAGGTATAGCCACCATCGCATTCGCGGGT‑AAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGcc > 5:83015/1‑149 (MQ=255)
cgcgAATGCGGAGGTATAGCCACCATCGCATTCGCGGGT‑AAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGcc > 4:198268/1‑149 (MQ=255)
gcgAATGCGGAGGTATAGCCACCATCGCATTCGCGGGT‑AAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGcc > 1:249383/1‑148 (MQ=255)
gcgAATGCGGAGGTATAGCCACCATCGCATTCGCGGGT‑AAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGcc > 6:340443/1‑148 (MQ=255)
gcgAATGCGGAGGTATAGCCACCATCGCATTCGCGGGT‑AAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGcc > 2:386477/1‑148 (MQ=255)
aTGCGTAGTAATACCCACCATCGCATTGGCGGTT‑AAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAac < 3:361991/148‑1 (MQ=255)
ggAGGTATAGCCACCATCGCATTCGCGGGT‑AAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGtt > 3:307055/1‑149 (MQ=255)
gTATAGCCACCATCGCATTCGCGGGTGAAC‑‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTc > 5:20649/1‑148 (MQ=255)
aaacccaccaCCCAATTCG‑GGGT‑AAACCCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGAc < 6:366495/145‑1 (MQ=255)
ccaccaTCGCATTCGCGGGT‑AAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCgg > 2:74168/1‑149 (MQ=255)
caccaTCGCATTCGCGGGT‑AAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGc > 3:158127/1‑149 (MQ=255)
cgcgGTT‑AAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCggcggc < 2:78793/148‑1 (MQ=255)
gcgGGT‑AAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCggcggc > 7:153485/1‑147 (MQ=255)
|
CTGGAGGGGCCGATGCCGATCTTGAACAGGTCGAAGACGCTCAGTGACATGTGGACCTCCTGCCAGGTTGTTGGGTGG‑ACATTGAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGT‑AAA‑‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGC > NC_002947_CJ‑RC/1126497‑1126782
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
