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 F21 I0 R1
|
57 |
0.0 |
661283 |
90.4% |
597799 |
68.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
984,909 |
C→A |
100% |
L80L (CTG→CTT) |
ynfC ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 984,909 | 0 | C | A | 94.2%
| 167.3
/ 4.6
| 52 | L80L (CTG→CTT) | ynfC | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (3/0); new base A (49/0); total (52/0) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.43e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
ATTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCCAGTAATTCGAGTGAATCAAAACAGCCTTCTTCCGACAAAGTCCCAGAAACACGTTTC > minE/984864‑984966
|
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTg > 1:4218/1‑59 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:548322/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:123487/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:425514/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:434794/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:435865/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:443454/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:458601/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:479499/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:483816/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:516321/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:518618/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:547996/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:422628/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:566981/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:567100/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:567636/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:582506/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:599759/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:60306/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:60360/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:608672/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:619451/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:630725/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:648653/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:94252/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:315263/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:168919/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:200516/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:264546/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:266446/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:273300/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:280021/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:284103/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:309665/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:310267/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:314471/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:413122/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:323582/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:329549/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:333861/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:350638/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:350878/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:368871/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:38480/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:388796/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:389741/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:392130/1‑71 (MQ=255)
atTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCAAGTAATTCGAGTGAATCAAAACAGc > 1:411865/1‑71 (MQ=255)
tattTTCCAGATCCAGTAATTCGAGTGAATCAAAACAGCCTTCTTCCGACAAAGTCCCAGAAACACGTTTc > 1:578450/1‑71 (MQ=255)
tattTTCCAGATCCAGTAATTCGAGTGAATCAAAACAGCCTTCTTCCGACAAAGTCCCAGAAACACGTTTc > 1:407324/1‑71 (MQ=255)
tattTTCCAGATCCAGTAATTCGAGTGAATCAAAACAGCCTTCTTCCGACAAAGTCCCAGAAACACGTTTc > 1:82815/1‑71 (MQ=255)
|
ATTGGCGTCCAGTACCAGAGCGACCACGGTATTATTTTCCAGATCCAGTAATTCGAGTGAATCAAAACAGCCTTCTTCCGACAAAGTCCCAGAAACACGTTTC > minE/984864‑984966
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
