Locus 664

Sequence ID	3R_DroMel_CAF1
Location	2,433,125 – 2,433,312
Length	187
Max. P	0.880931

overview

Window 1

Location	2,433,125 – 2,433,232
Length	107
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	92.79
Mean single sequence MFE	-22.45
Consensus MFE	-18.67
Energy contribution	-18.87
Covariance contribution	0.19
Combinations/Pair	1.05
Mean z-score	-1.76
Structure conservation index	0.83
SVM decision value	0.05
SVM RNA-class probability	0.561031
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2433125 107 - 27905053
CUCAAAUUAAAUUAAGCCAUAAUUUAUUUCCCAUGGAGACGGGCGAGGA--GACACCAGCCCACAG-----------AGCUCAAAAUUCAAAUGCCCAACAAAAAUAUGGCACUAAGAGC
...............((((((.(((.(((((...))))).(((((.(..--..)...(((......-----------.)))...........)))))....))).))))))......... ( -22.90)
>DroSec_CAF1 145748 109 - 1
CUCAAAUUAAAUUAAGCCAUAAUUUAUUUCCCAUGGAGACGGGCGAGGAGAGACACCAGUCCACAG-----------AGCUCAAAAUUCAAAUGCCCAACAAAAAUAUGGCACUAAGAAC
...............((((((.(((.(((((...))))).(((((.(((..(....)..)))...(-----------((.......)))...)))))....))).))))))......... ( -22.00)
>DroSim_CAF1 140095 109 - 1
CUCAAAUUAAAUUAAGCCAUAAUUUAUUUCCCAUGGAGACGGGCGAGGAGAGACACCAGCCCACAG-----------AGCUCAAAAUUCAAAUGCCCAACAAAAAUAUGGCACUAAGAGC
...............((((((.(((.(((((...))))).(((((.((.......))(((......-----------.)))...........)))))....))).))))))......... ( -21.60)
>DroEre_CAF1 141659 107 - 1
CUCAAAUUAAAUUAAGCCAUAAUUUAUUUCCCAUGGAGACGGGCGAGGA--GACACCAGCCCACAG-----------AGCUCAAAAUUCAAAUGCCCAACAAAAAUAUGGCACUGAAAGC
...............((((((.(((.(((((...))))).(((((.(..--..)...(((......-----------.)))...........)))))....))).))))))......... ( -22.90)
>DroYak_CAF1 135906 107 - 1
CUCAAAUUAAAUUAAGCCAUAAUUUAUUUCCCAUGGAGACGGGCGAGGA--GACACCAGCCCACAG-----------AGCUCAAAAUUCAGAUGGCCAACAAAAAUAUGGCACUAAGAGC
...............((((((.(((.....(((((....)((((..(..--..)....))))....-----------..............))))......))).))))))......... ( -23.30)
>DroAna_CAF1 141443 118 - 1
CUCAAAUUAAAUUAAGCCAUAAUUUAUUUCCCAUGGAGACGGGCAGAGA--GACAGCAGCCCACAGAAGCCCACAAAAGCUCAAAAUUCAAAUGCCCAACAAAAAUAUGGCACUAAGAGC
...............((((((.(((.(((((...))))).(((((..((--(.....(((..................))).....)))...)))))....))).))))))......... ( -21.97)
>consensus
CUCAAAUUAAAUUAAGCCAUAAUUUAUUUCCCAUGGAGACGGGCGAGGA__GACACCAGCCCACAG___________AGCUCAAAAUUCAAAUGCCCAACAAAAAUAUGGCACUAAGAGC
...............((((((.(((.(((((...))))).((((..((.......)).)))).......................................))).))))))......... (-18.67 = -18.87 +   0.19)

alignment

secondary structure

dotplot

Window 2

Location	2,433,192 – 2,433,312
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	96.50
Mean single sequence MFE	-39.43
Consensus MFE	-35.79
Energy contribution	-35.77
Covariance contribution	-0.03
Combinations/Pair	1.12
Mean z-score	-1.39
Structure conservation index	0.91
SVM decision value	0.92
SVM RNA-class probability	0.880931
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2433192 120 + 27905053
GUCUCCAUGGGAAAUAAAUUAUGGCUUAAUUUAAUUUGAGGUGCCUGCCCGGUCACCGCCUGUAACUGUGGCAAAAUCUGUCUGUGGUUGCUGGAUUUAUAUGCAUGCGAGUGCGGAGGC
((((((.......(((((((..(((((((......))))((((((.....)).))))))).(((((..(((((.....)))).)..)))))..)))))))..((((....)))))))))) ( -37.90)
>DroSec_CAF1 145817 120 + 1
GUCUCCAUGGGAAAUAAAUUAUGGCUUAAUUUAAUUUGAGGUGCCUGCCCGGUCACCGCCUGCAACUGCGGCGAAAUCUGUCUGUGGUUGCUGGAUUUAUAUGCAUGUGAGUGCGGAGGC
((((((.......(((((((..(((((((......))))((((((.....)).))))))).(((((..(((((.....)).)))..)))))..)))))))..((((....)))))))))) ( -42.00)
>DroSim_CAF1 140164 120 + 1
GUCUCCAUGGGAAAUAAAUUAUGGCUUAAUUUAAUUUGAGGUGCCUGCCCGGUCACCGCCUGCAACUGUGGCGAAAUCUGUCUGUGGUUGCUGGAUUUAUAUGCAUGUGAGUGCGGAGGC
((((((.......(((((((..(((((((......))))((((((.....)).))))))).(((((..(((((.....)))).)..)))))..)))))))..((((....)))))))))) ( -39.20)
>DroEre_CAF1 141726 120 + 1
GUCUCCAUGGGAAAUAAAUUAUGGCUUAAUUUAAUUUGAGGUGCCUGCCCGGUCACCGCCUGCAACUGUGGCGAAAUCUGUCUGUGGUUGCUGGAUUUAUAUGCAUGUGAGUGCGGAGGC
((((((.......(((((((..(((((((......))))((((((.....)).))))))).(((((..(((((.....)))).)..)))))..)))))))..((((....)))))))))) ( -39.20)
>DroYak_CAF1 135973 120 + 1
GUCUCCAUGGGAAAUAAAUUAUGGCUUAAUUUAAUUUGAGGUGCCUGCCCGGUCACCGCCUGCAACUGUGGUGAAAUCUGUCUGUGGUUGCUGGAUUUAUAUGCAUGUGAGUGCGGAGGC
((((((.......(((((((..(((((((......))))((((((.....)).))))))).(((((((..(.(....)...)..)))))))..)))))))..((((....)))))))))) ( -38.30)
>DroAna_CAF1 141521 119 + 1
GUCUCCAUGGGAAAUAAAUUAUGGCUUAAUUUAAUUUGAGGUGCCGGCCCGGUCACCGCCUGCAA-UGUGGCGAAAUCUGUCUGUGGUUGCUGGAUUUAUAUGCCGGCGCGUGUGGAAGC
(..(((((..(((.(((((((.....))))))).)))...(((((((((((((.((((((.....-...)))((......))...))).)))))........))))))))..)))))..) ( -40.00)
>consensus
GUCUCCAUGGGAAAUAAAUUAUGGCUUAAUUUAAUUUGAGGUGCCUGCCCGGUCACCGCCUGCAACUGUGGCGAAAUCUGUCUGUGGUUGCUGGAUUUAUAUGCAUGUGAGUGCGGAGGC
((((((.......(((((((..(((((((......))))((((((.....)).))))))).(((((..(((((.....)).)))..)))))..)))))))..((((....)))))))))) (-35.79 = -35.77 +  -0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:44 2006