Locus 3046

Sequence ID	X_DroMel_CAF1
Location	8,144,502 – 8,144,614
Length	112
Max. P	0.998382

overview

Window 4

Location	8,144,502 – 8,144,614
Length	112
Sequences	5
Columns	112
Reading direction	forward
Mean pairwise identity	74.30
Mean single sequence MFE	-36.12
Consensus MFE	-21.22
Energy contribution	-23.14
Covariance contribution	1.92
Combinations/Pair	1.31
Mean z-score	-2.65
Structure conservation index	0.59
SVM decision value	3.08
SVM RNA-class probability	0.998382
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8144502 112 + 22224390
UUAUAGCUCUCGGCUGACGAAAGGUCUUAGCAUGCCGUUGAUACCCUGACCCUCCAGGGUAUUACAACUUUGUCAGCAGUUUUGCAAACGGCGGCUAUGAGAUCAGGUAUUC
((((((((.((((((((((((.(((........)))((((((((((((......))))))))..))))))))))))).(.....)...))).))))))))............ ( -40.80)
>DroSec_CAF1 47932 111 + 1
UUACAGCUCUCGGCUGGCGAAAGGUCCUAGCAUGCCGUUGAUACCCUGGC-CUCCAGGGUAUUAUAACUUUGUUAGCAGUUAUGCAAACGGCGGCUAUGGGAUCAGGUAUUC
...((((.....))))......(((((((((.(((((((((((((((((.-..))))))))))............(((....))).))))))))))..))))))........ ( -45.30)
>DroSim_CAF1 29288 111 + 1
UUACAGCUCUCGGCUGGCGAAAGGUCUUAGCAUGCCGUUGAUACCCUGGC-CUCCAGGGUAUUAUAACUUUGUUAGCAGUUUUACAAACGGCGGCUAUGGUAUCAGGUAUUC
...((((.....))))......(((((((((.(((((((((((((((((.-..)))))))))).(((..(((....)))..)))..))))))))))).)).)))........ ( -37.60)
>DroEre_CAF1 38549 92 + 1
UUACAGCCCCCGGUUGGCAAAAGGUCUUAGCAAGCCGUUGAUACCCUGGC-CUUCGGGGUAUUAUAACUUUGUGGG------------------CUCUGUGACCAGGU-UUU
...(((((...)))))......((((.(((..((((..((((((((((..-...))))))))))...(.....)))------------------))))).))))....-... ( -30.10)
>DroYak_CAF1 35199 86 + 1
UUACAGCUCUCGGU------------------------UGAUACCCUGGC-CUUCAGGGUAUUAUAGCUUUGUUAGCAGUUUUGUC-ACGGCGUCUCUGUGACCAGGUAUUU
.(((.(((..(((.------------------------((((((((((..-...)))))))))).....)))..)))......(((-((((.....)))))))...)))... ( -26.80)
>consensus
UUACAGCUCUCGGCUGGCGAAAGGUCUUAGCAUGCCGUUGAUACCCUGGC_CUCCAGGGUAUUAUAACUUUGUUAGCAGUUUUGCAAACGGCGGCUAUGGGAUCAGGUAUUC
...((((.....))))......(((((((.........(((((((((((....))))))))))).........((((.(((........))).)))))))))))........ (-21.22 = -23.14 +   1.92)

alignment

secondary structure

dotplot

Window 5

Location	8,144,502 – 8,144,614
Length	112
Sequences	5
Columns	112
Reading direction	reverse
Mean pairwise identity	74.30
Mean single sequence MFE	-29.80
Consensus MFE	-14.78
Energy contribution	-15.64
Covariance contribution	0.86
Combinations/Pair	1.17
Mean z-score	-1.79
Structure conservation index	0.50
SVM decision value	0.32
SVM RNA-class probability	0.685785
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8144502 112 - 22224390
GAAUACCUGAUCUCAUAGCCGCCGUUUGCAAAACUGCUGACAAAGUUGUAAUACCCUGGAGGGUCAGGGUAUCAACGGCAUGCUAAGACCUUUCGUCAGCCGAGAGCUAUAA
..........((((.((((.((((((.(((....))).)))...((((..(((((((((....))))))))))))))))..)))).(((.....)))....))))....... ( -36.20)
>DroSec_CAF1 47932 111 - 1
GAAUACCUGAUCCCAUAGCCGCCGUUUGCAUAACUGCUAACAAAGUUAUAAUACCCUGGAG-GCCAGGGUAUCAACGGCAUGCUAGGACCUUUCGCCAGCCGAGAGCUGUAA
...(((......((.((((.((((((...((((((........)))))).(((((((((..-.))))))))).))))))..))))))..((((((.....))))))..))). ( -36.80)
>DroSim_CAF1 29288 111 - 1
GAAUACCUGAUACCAUAGCCGCCGUUUGUAAAACUGCUAACAAAGUUAUAAUACCCUGGAG-GCCAGGGUAUCAACGGCAUGCUAAGACCUUUCGCCAGCCGAGAGCUGUAA
..........(((..((((.((((((.....((((........))))...(((((((((..-.))))))))).))))))..))))....((((((.....))))))..))). ( -32.00)
>DroEre_CAF1 38549 92 - 1
AAA-ACCUGGUCACAGAG------------------CCCACAAAGUUAUAAUACCCCGAAG-GCCAGGGUAUCAACGGCUUGCUAAGACCUUUUGCCAACCGGGGGCUGUAA
...-..(((....)))((------------------(((...........((((((.(...-..).))))))...(((.(((.((((....)))).)))))).))))).... ( -23.80)
>DroYak_CAF1 35199 86 - 1
AAAUACCUGGUCACAGAGACGCCGU-GACAAAACUGCUAACAAAGCUAUAAUACCCUGAAG-GCCAGGGUAUCA------------------------ACCGAGAGCUGUAA
...(((...(((((.(.....).))-)))..............((((...((((((((...-..))))))))..------------------------......))))))). ( -20.20)
>consensus
GAAUACCUGAUCACAUAGCCGCCGUUUGCAAAACUGCUAACAAAGUUAUAAUACCCUGGAG_GCCAGGGUAUCAACGGCAUGCUAAGACCUUUCGCCAGCCGAGAGCUGUAA
...........................................((((...((((((((......))))))))...((((..((...........))..))))..)))).... (-14.78 = -15.64 +   0.86)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:42 2006