Locus 645

Sequence ID	3R_DroMel_CAF1
Location	2,390,063 – 2,390,278
Length	215
Max. P	0.846359

overview

Window 1

Location	2,390,063 – 2,390,159
Length	96
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	80.05
Mean single sequence MFE	-23.87
Consensus MFE	-14.04
Energy contribution	-14.77
Covariance contribution	0.73
Combinations/Pair	1.26
Mean z-score	-2.24
Structure conservation index	0.59
SVM decision value	0.77
SVM RNA-class probability	0.846359
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2390063 96 - 27905053
GGCCAGUUGAAAAGCAUAAUUCACUGGUGC-UGCAAAAUGUUGAAUUGUAAAUGAUCAGGCAACGGUGCAGGC-GAGGAAAAACUGGUAAA-AAAU--AAC------------------
.((((((((((........))).((.((.(-((((...(((((..(((........))).))))).)))))))-.))....)))))))...-....--...------------------ ( -24.90)
>DroGri_CAF1 164261 116 - 1
GGAAAACAUGAAAACAUAAUUCAUGAGCUCGAGCAAAAUGUUGAAUUGUAAAUGAUCAAGCAAGAG-GCGGUCUGAAGAGGG-AUGGGGCA-AGAACCAGCUACAGAGACAGCUACAGG
((....((((((.......)))))).((((..((....((((..(((......)))..))))....-)).((((......))-)).)))).-....))((((........))))..... ( -21.80)
>DroSec_CAF1 103338 97 - 1
GGCCAGCUGAAAAGCAUAAUUCACUGGUGC-UGCAAAAUGUUGAAUUGUAAAUGAUCAGGCAACGGUGCAGGC-GAGGAAAAACUGGUAAAAAAAC--AAC------------------
.(((((((....)))....(((.((.((.(-((((...(((((..(((........))).))))).)))))))-.)))))....))))........--...------------------ ( -26.20)
>DroSim_CAF1 95354 97 - 1
GGCCAGCUGAAAAGCAUAAUUCACUGGUGC-UGCAAAAUGUUGAAUUGUAAAUGAUCAGGCAACGGUGCAGGC-GAGGAAAAACUGGUAAAAAAAU--AAC------------------
.(((((((....)))....(((.((.((.(-((((...(((((..(((........))).))))).)))))))-.)))))....))))........--...------------------ ( -26.20)
>DroEre_CAF1 97023 96 - 1
GGCCAGCUGAAAAGCAUAAUUCACUGGUGC-UGCAAAAUGUUGAAUUGUAAAUGAUCAGGCAACGGUGCAGGU-GUAGAAAAAAUGGUACA-AAAU--AAA------------------
.(((((((....)))........(((...(-((((...(((((..(((........))).))))).)))))..-.)))......))))...-....--...------------------ ( -21.70)
>DroYak_CAF1 91144 96 - 1
GGCCAGCUGAAAAGCAUAAUUCACUGGUGC-UGCAAAAUGUUGAAUUGUAAAUGAUCAGGCAACGGUGCAGGC-GAAGAAAAAGUGGUACA-AAAU--AAC------------------
.(((((((....)))........((..(((-((((...(((((..(((........))).))))).)))).))-).))......))))...-....--...------------------ ( -22.40)
>consensus
GGCCAGCUGAAAAGCAUAAUUCACUGGUGC_UGCAAAAUGUUGAAUUGUAAAUGAUCAGGCAACGGUGCAGGC_GAAGAAAAACUGGUAAA_AAAU__AAC__________________
.(((((.((((........)))))))))((.((((...(((((..(((........))).))))).)))).)).............................................. (-14.04 = -14.77 +   0.73)

alignment

secondary structure

dotplot

Window 2

Location	2,390,159 – 2,390,278
Length	119
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	91.34
Mean single sequence MFE	-37.87
Consensus MFE	-33.38
Energy contribution	-33.38
Covariance contribution	0.00
Combinations/Pair	1.24
Mean z-score	-1.41
Structure conservation index	0.88
SVM decision value	0.27
SVM RNA-class probability	0.660709
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2390159 119 + 27905053
UUUUCCCCACUU-UUCCGCUGCUCGUUUUCCACGGCUUCCGGGCACUCGCGGUCUAUGGCCCAUUUGUGUGUUUUGAGGCUUUGGGCGAUGGCAGUAAGUACGCUAAUAGCUUCUUAUGA
........((((-....(((((.((((.((((.((((((..(((((.((.(((.....)))....)).)))))..)))))).)))).)))))))))))))..((.....))......... ( -36.50)
>DroSec_CAF1 103435 119 + 1
UUUUCCCCACUU-UUCCGCUGCUCGUUUUCCACGGCUUCCGGGCACUCGCGGUCUAUGGCCCAUUUGUGUGUUUUGAGGCUUUGGGCGGCGGCAGUAAGUACGCUAAUAGCUUCUUAUGA
........((((-....(((((.(((..((((.((((((..(((((.((.(((.....)))....)).)))))..)))))).))))..))))))))))))..((.....))......... ( -38.30)
>DroSim_CAF1 95451 119 + 1
UUUUCCCCACUU-UUCCGCUGCUCGUUUUCCACGGCUUCCGGGCACUCGCGGUCUAUGGCCCAUUUGUGUGUUUUGAGGCUUUGGGCGACGGCAGUAAGUACGCUAAUAGCUUCUUAUGA
........((((-....(((((.((((.((((.((((((..(((((.((.(((.....)))....)).)))))..)))))).)))).)))))))))))))..((.....))......... ( -38.30)
>DroEre_CAF1 97119 119 + 1
UUUUCCACACUU-UCCCACUGCUCGUUUUCCACGGCUUCCGGGCAUUCGCGGUCUAUGGCCCAUUUGUGUGUUUUGAGGCCUUGGGCGACGGCAGUAAGUACGCUAAUAGCUUCUUAUGA
........((((-....(((((.((((.((((.((((((..(((((.((.(((.....)))....)).)))))..)))))).)))).)))))))))))))..((.....))......... ( -37.60)
>DroYak_CAF1 91240 120 + 1
UUUUCCACACUUUUCCCGCUGCUCGUUUUCCACGGCUUCCGGGCACUCGCGGUCUAUGGCCCAUUUGUGUGUUUUGAGGCCUUGGGCGACGGCAGUAAGUACGCUAAUAGCUUCUUAUGA
.................(((((.((((.((((.((((((..(((((.((.(((.....)))....)).)))))..)))))).)))).)))))))))(((...((.....))..))).... ( -39.80)
>DroAna_CAF1 95337 119 + 1
GUUUCUAUGCCA-UUUUGCAAGGCAUUUCCUAUGGUUUCCGGGCACUCGCGGGCCAUGGCCCAUUUGUGGGUUUUGAGGCUUUGGGCGACAGCAGUAAGUACGCUAAUAGCUUCUUAUGA
......(((((.-........)))))...((((((((..(((....)))..))))))))((((....))))....((((((...((((((........)).))))...))))))...... ( -36.70)
>consensus
UUUUCCACACUU_UUCCGCUGCUCGUUUUCCACGGCUUCCGGGCACUCGCGGUCUAUGGCCCAUUUGUGUGUUUUGAGGCUUUGGGCGACGGCAGUAAGUACGCUAAUAGCUUCUUAUGA
.................(((((.((((.((((.((((((..(((((.((.(((.....)))....)).)))))..)))))).)))).)))))))))(((...((.....))..))).... (-33.38 = -33.38 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:14 2006