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 |
|
A1 F1 I1 R1
|
152 |
24.9 |
2083062 |
91.6% |
1908084 |
109.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
3,461,712 |
+G |
coding (823/969 nt) |
h16_A3204 ← |
transcriptional regulator, LysR‑family |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 3,461,710 | 1 | . | G | 100.0%
| 66.0
/ NA
| 18 | P275P (CCT→CCC) | h16_A3204 | transcriptional regulator, LysR‑family |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (5/13); total (5/13) |
GGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCA > AM260479/3461588‑3461804
|
gggCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCaa > 2:164092/1‑134 (MQ=255)
ggggATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACaaa < 2:495707/134‑1 (MQ=255)
ggATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGc < 1:432991/134‑1 (MQ=255)
aTTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCgg < 2:666311/134‑1 (MQ=255)
gTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTgccg > 1:153406/1‑134 (MQ=255)
tCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTgccggc < 1:326383/133‑1 (MQ=255)
tGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCt < 1:297629/133‑1 (MQ=255)
gcAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTcgcg > 2:171918/1‑134 (MQ=255)
aaGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTcgcgcg < 1:164092/134‑1 (MQ=255)
cGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGc < 2:153406/134‑1 (MQ=255)
cTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGTGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCAt > 1:538516/1‑134 (MQ=255)
gcgcCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCAcc < 1:725523/134‑1 (MQ=255)
gcgcCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCAcc < 1:171918/134‑1 (MQ=255)
gcgcCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCAcc > 2:357805/1‑134 (MQ=255)
cgccgAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCccgc < 1:357805/134‑1 (MQ=255)
cccATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTgcg < 2:219299/134‑1 (MQ=255)
aTGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGTGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGcca < 2:538516/134‑1 (MQ=255)
aTGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGcca < 1:131123/134‑1 (MQ=255)
|
GGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCA > AM260479/3461588‑3461804
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
ATCATCCGCAATACATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACGCGCATGCGCATGCGCAGCACGCGGC > AM260479/3461565‑3461861
|
ATCATCCGCAATACATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGgc < GWNJ‑0478:712:GW2002102894th:2:1103:11267:30619/150‑3 (MQ=60)
AATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGG > GWNJ‑0478:712:GW2002102894th:2:1110:10355:4854/1‑150 (MQ=60)
GGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCcattgcgg < GWNJ‑0478:712:GW2002102894th:2:1213:10815:14269/150‑9 (MQ=60)
TTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGgcctgtctcttatacacatctccgagcccacgagacggagctacat > GWNJ‑0478:712:GW2002102894th:2:2204:20382:90909/1‑104 (MQ=60)
TTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGC < GWNJ‑0478:712:GW2002102894th:2:1204:2341:72427/149‑1 (MQ=60)
TTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCT < GWNJ‑0478:712:GW2002102894th:2:1202:2402:81629/149‑1 (MQ=60)
CAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCA < GWNJ‑0478:712:GW2002102894th:2:1110:12046:67506/150‑1 (MQ=60)
AGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGTGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATC > GWNJ‑0478:712:GW2002102894th:2:2103:20367:10787/1‑150 (MQ=60)
AGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTC < GWNJ‑0478:712:GW2002102894th:2:1113:11516:14632/150‑1 (MQ=60)
AGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTC < GWNJ‑0478:712:GW2002102894th:2:2115:9315:5631/150‑1 (MQ=60)
CCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCG < GWNJ‑0478:712:GW2002102894th:2:1206:14273:73171/150‑1 (MQ=60)
CATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGC < GWNJ‑0478:712:GW2002102894th:2:1109:13542:74333/150‑1 (MQ=60)
GCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACGC > GWNJ‑0478:712:GW2002102894th:2:2103:16287:101139/1‑150 (MQ=60)
GCACAAACTGCCGCTGCGCCCAGGGAGCCGCAATGGGCAGCCGCACAAAGCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaacagaacaaaaggcacaagcgaat > GWNJ‑0478:712:GW2002102894th:2:2203:12346:74275/1‑51 (MQ=54)
GCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCActgtctcttatacacatctccgagcccacgagacggagctacatc > GWNJ‑0478:712:GW2002102894th:2:2114:20979:49782/1‑105 (MQ=60)
|
ATCATCCGCAATACATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACGCGCATGCGCATGCGCAGCACGCGGC > AM260479/3461565‑3461861
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
