Locus 2764

Sequence ID	2R_DroMel_CAF1
Location	9,681,633 – 9,681,735
Length	102
Max. P	0.957795

overview

Window 7

Location	9,681,633 – 9,681,735
Length	102
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	91.37
Mean single sequence MFE	-28.04
Consensus MFE	-23.12
Energy contribution	-23.40
Covariance contribution	0.28
Combinations/Pair	1.10
Mean z-score	-1.94
Structure conservation index	0.82
SVM decision value	1.48
SVM RNA-class probability	0.957795
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9681633 102 + 20766785
ACGCCAAUUGUGGGAAUGCUGCGGGAGGUUACAUAAACAAAUACAUAGUUUAUCUAAAUGAGCCGCGUGCUCAUCAGCAUUAUGGACCUUCCACAGAUAAGA
...(((....))).....(((.((((((((.(((((.........(((.....))).((((((.....)))))).....))))))))))))).)))...... ( -27.70)
>DroSec_CAF1 4074 98 + 1
ACGCCCAAUGUGGGAAUGCUGCGGAAGGUUACAUAAACAAA----UAGCUUAUCUAAAUGAGCCGCGUGCUCAUCAGCAUUAUGGACCUUCCACAGAUAAGG
...(((.....)))....(((.((((((((.(((((.....----..((((((....))))))....((((....))))))))))))))))).)))...... ( -31.50)
>DroSim_CAF1 4065 98 + 1
ACGCCCAAUGUGGGAAUGCUGCGGGAGGUUACAUAAACAAA----UAGCUUAUCUAAAUGAGCCGCGUGCUCAUCAGCAUUAUGGACCUUCCACAGAUAAGG
...(((.....)))....(((.((((((((.(((((.....----..((((((....))))))....((((....))))))))))))))))).)))...... ( -31.00)
>DroEre_CAF1 4140 98 + 1
ACGCCAAUUGUGGGGAUGUUUUGGGAGGUUACAUAAACAUA----UAGCUUAUCUAAAUGAGCCGCGUGCUCAUCAGCAUUAUGGACCUUCCACAGAUAAGA
.(.(((....))).).((((((((((((((.(((((.....----..((((((....))))))....((((....)))))))))))))))))).)))))... ( -28.50)
>DroYak_CAF1 4092 98 + 1
ACGCCAAUUGUGGGGAUGUUUCGGAAGAUUACAUAAACAAA----UAGCUUAUCUAAAUGAGCCGCGUGCUCGUCAGCAUUAUGGACCUGCCACAGAUAAAA
.......((((((((((((.((....))..))))...((..----..((((((....))))))...(((((....)))))..))..))..))))))...... ( -21.50)
>consensus
ACGCCAAUUGUGGGAAUGCUGCGGGAGGUUACAUAAACAAA____UAGCUUAUCUAAAUGAGCCGCGUGCUCAUCAGCAUUAUGGACCUUCCACAGAUAAGA
.(((.....)))......(((.((((((((.(((((...........((((((....))))))....((((....))))))))))))))))).)))...... (-23.12 = -23.40 +   0.28)

alignment

secondary structure

dotplot

Window 8

Location	9,681,633 – 9,681,735
Length	102
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	91.37
Mean single sequence MFE	-26.86
Consensus MFE	-21.52
Energy contribution	-22.04
Covariance contribution	0.52
Combinations/Pair	1.11
Mean z-score	-1.73
Structure conservation index	0.80
SVM decision value	0.75
SVM RNA-class probability	0.839566
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9681633 102 - 20766785
UCUUAUCUGUGGAAGGUCCAUAAUGCUGAUGAGCACGCGGCUCAUUUAGAUAAACUAUGUAUUUGUUUAUGUAACCUCCCGCAGCAUUCCCACAAUUGGCGU
......((((((.((((..........(((((((.....)))))))((.((((((.........)))))).)))))).)))))).....(((....)))... ( -26.60)
>DroSec_CAF1 4074 98 - 1
CCUUAUCUGUGGAAGGUCCAUAAUGCUGAUGAGCACGCGGCUCAUUUAGAUAAGCUA----UUUGUUUAUGUAACCUUCCGCAGCAUUCCCACAUUGGGCGU
......(((((((((((..........(((((((.....)))))))((.((((((..----...)))))).)))))))))))))....(((.....)))... ( -34.40)
>DroSim_CAF1 4065 98 - 1
CCUUAUCUGUGGAAGGUCCAUAAUGCUGAUGAGCACGCGGCUCAUUUAGAUAAGCUA----UUUGUUUAUGUAACCUCCCGCAGCAUUCCCACAUUGGGCGU
......((((((.((((..........(((((((.....)))))))((.((((((..----...)))))).)))))).))))))....(((.....)))... ( -30.00)
>DroEre_CAF1 4140 98 - 1
UCUUAUCUGUGGAAGGUCCAUAAUGCUGAUGAGCACGCGGCUCAUUUAGAUAAGCUA----UAUGUUUAUGUAACCUCCCAAAACAUCCCCACAAUUGGCGU
.......(((((.....)))))((((..((((((.....))))..(((.((((((..----...)))))).)))....................))..)))) ( -22.20)
>DroYak_CAF1 4092 98 - 1
UUUUAUCUGUGGCAGGUCCAUAAUGCUGACGAGCACGCGGCUCAUUUAGAUAAGCUA----UUUGUUUAUGUAAUCUUCCGAAACAUCCCCACAAUUGGCGU
..(((((((.((((.........))))...((((.....))))...)))))))((((----.((((..((((..((....)).))))....)))).)))).. ( -21.10)
>consensus
UCUUAUCUGUGGAAGGUCCAUAAUGCUGAUGAGCACGCGGCUCAUUUAGAUAAGCUA____UUUGUUUAUGUAACCUCCCGCAGCAUUCCCACAAUUGGCGU
......((((((.((((..........(((((((.....)))))))((.((((((.........)))))).)))))).)))))).....((......))... (-21.52 = -22.04 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:53 2006