Locus 4622

Sequence ID	3L_DroMel_CAF1
Location	13,160,258 – 13,160,352
Length	94
Max. P	0.916066

overview

Window 7

Location	13,160,258 – 13,160,352
Length	94
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	93.33
Mean single sequence MFE	-26.52
Consensus MFE	-21.86
Energy contribution	-22.30
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-1.68
Structure conservation index	0.82
SVM decision value	0.88
SVM RNA-class probability	0.872207
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13160258 94 + 23771897
GAAAAGAUAGGAGACCAGCGGAAAAGGAUCCACUGGACACGGUAAAA-AAAUUGCUCCGUUCUUCUAUUUUUUUCGGUUUU---UUUGCGCCCGCUGU
((((((((((((((((((.(((......))).))))..((((.....-........)))))))))))))))))).(((...---.....)))...... ( -26.92)
>DroSec_CAF1 11867 97 + 1
GAAAAGAUAGGAGACCAGCAGAAAAGGAUCCACUGGACACGGUAAAA-AAUUUGCUCCGUUCUUCUAUUUUUUUCGGUUUUUUUUUUGCGCCCGCUGU
((((((((((((((((((..((......))..))))..((((.....-........)))))))))))))))))).............((....))... ( -21.82)
>DroSim_CAF1 10092 96 + 1
GAAAAGAUAGGAGACCAGCGGAAAAGGAUCCACUGGACACGGUAAAA-AAUUUGCUCCGUUCUUCUAUUUUUUUCGGUUUU-UUUUUGCGCCCGCUGU
((((((((((((((((((.(((......))).))))..((((.....-........)))))))))))))))))).......-.....((....))... ( -26.52)
>DroEre_CAF1 15251 93 + 1
GAAGAGAUAGGAGACCAGCGGAAAAGGAUCCACUGGACACGGUAAAAAAAUGUGCUCCUUUCCUCUAUUU-UUUCGGUUU----UUUGCGACCGCUGU
((((((((((..((((((.(((......))).)))).((((.........))))......))..))))))-))))((((.----.....))))..... ( -27.50)
>DroYak_CAF1 10296 92 + 1
GAAAAGAUAGGAGACCAGCGGAAAAGGAUCCACUGGACACGGUAAAA-AAUUUGCUCCGUUCUUCUAUUU-UUUCGGUUU----UUUGCGCCCCCUGU
((((((((((((((((((.(((......))).))))..((((.....-........))))))))))))))-))))(((..----.....)))...... ( -29.82)
>consensus
GAAAAGAUAGGAGACCAGCGGAAAAGGAUCCACUGGACACGGUAAAA_AAUUUGCUCCGUUCUUCUAUUUUUUUCGGUUUU___UUUGCGCCCGCUGU
((((((((((((((((((.(((......))).))))..((((..............)))))))))))))).))))....................... (-21.86 = -22.30 +   0.44)

alignment

secondary structure

dotplot

Window 8

Location	13,160,258 – 13,160,352
Length	94
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	93.33
Mean single sequence MFE	-24.09
Consensus MFE	-20.15
Energy contribution	-20.23
Covariance contribution	0.08
Combinations/Pair	1.10
Mean z-score	-1.71
Structure conservation index	0.84
SVM decision value	1.11
SVM RNA-class probability	0.916066
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13160258 94 - 23771897
ACAGCGGGCGCAAA---AAAACCGAAAAAAAUAGAAGAACGGAGCAAUUU-UUUUACCGUGUCCAGUGGAUCCUUUUCCGCUGGUCUCCUAUCUUUUC
....(((.......---....))).((((.((((.(((((((........-.....))))..((((((((......))))))))))).)))).)))). ( -23.72)
>DroSec_CAF1 11867 97 - 1
ACAGCGGGCGCAAAAAAAAAACCGAAAAAAAUAGAAGAACGGAGCAAAUU-UUUUACCGUGUCCAGUGGAUCCUUUUCUGCUGGUCUCCUAUCUUUUC
....(((..............))).((((.((((.(((((((........-.....))))..((((..((......))..))))))).)))).)))). ( -20.66)
>DroSim_CAF1 10092 96 - 1
ACAGCGGGCGCAAAAA-AAAACCGAAAAAAAUAGAAGAACGGAGCAAAUU-UUUUACCGUGUCCAGUGGAUCCUUUUCCGCUGGUCUCCUAUCUUUUC
....(((.........-....))).((((.((((.(((((((........-.....))))..((((((((......))))))))))).)))).)))). ( -23.54)
>DroEre_CAF1 15251 93 - 1
ACAGCGGUCGCAAA----AAACCGAAA-AAAUAGAGGAAAGGAGCACAUUUUUUUACCGUGUCCAGUGGAUCCUUUUCCGCUGGUCUCCUAUCUCUUC
....((((......----..))))...-....(((((..((((((((...........))).((((((((......)))))))).))))).))))).. ( -27.10)
>DroYak_CAF1 10296 92 - 1
ACAGGGGGCGCAAA----AAACCGAAA-AAAUAGAAGAACGGAGCAAAUU-UUUUACCGUGUCCAGUGGAUCCUUUUCCGCUGGUCUCCUAUCUUUUC
..(((((((.....----.........-.....((...((((........-.....)))).))(((((((......))))))))))))))........ ( -25.42)
>consensus
ACAGCGGGCGCAAA___AAAACCGAAAAAAAUAGAAGAACGGAGCAAAUU_UUUUACCGUGUCCAGUGGAUCCUUUUCCGCUGGUCUCCUAUCUUUUC
....(((..............)))........((((((..((((..................((((((((......)))))))).))))..)))))). (-20.15 = -20.23 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:48 2006