Locus 9485

Sequence ID	3R_DroMel_CAF1
Location	25,094,777 – 25,094,921
Length	144
Max. P	0.515116

overview

Window 8

Location	25,094,777 – 25,094,884
Length	107
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	83.17
Mean single sequence MFE	-26.97
Consensus MFE	-17.55
Energy contribution	-17.95
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.67
Structure conservation index	0.65
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25094777 107 - 27905053
-AACGCAUAUGCCACCUCGAUCGCCCAUCGGUAAUCCUGCUCCUUGCACUCACACAGCGGCAAUGGCAAGGACACACACGCACACGC--A---AGACCGAAAGAGCCAUGCAA
-...((((.((((.....(((..((....))..))).(((.....)))..........))))..(((............((....))--.---....(....).))))))).. ( -26.00)
>DroSec_CAF1 23681 107 - 1
-AACGCAUAUGCCACCUCGAUCGCCCAUCGGUAAUCCUGCUCCUUGCACUCACACAGCGGCAAUGGCAAGGACACACACGCACACGC--A---AGACCGAAAGAGCCAUGCAA
-...((((.((((.....(((..((....))..))).(((.....)))..........))))..(((............((....))--.---....(....).))))))).. ( -26.00)
>DroEre_CAF1 24139 110 - 1
-AACGCAUAUGCCACCUCGAUCGCCCAUCGGUAAUCCUGCUCCUUGCACUCACACAACGGCAGUGGCAAGGACACACACGCACACA--CGCGGGCACCGAAAGAGCCAUGCAA
-...((((.((((.....(((..((....))..))).((.((((((((((..(.....)..))).)))))))))....(((.....--.))))))).(....)....)))).. ( -31.90)
>DroYak_CAF1 24565 112 - 1
-AACGCAUAUGCCACCUCGAUCGCCCAUGGGUAAUCCUGCUCCUUGCACUCACACAACGCCACUGGCAAGGACACACACGCACACGCUCACGAGCACCGAAAGAGCCAUGCAA
-...((((.(((......(((..((....))..))).((.(((((((.(...............)))))))))).....)))...((((.((.....))...)))).)))).. ( -27.46)
>DroAna_CAF1 28426 95 - 1
AAACGCAUAUGCCACCUCGAUCGCCCAUCGGUAAUCCUGCUCCUUACA------------------CAAGGACACACUCACACCAGCACAGGCACACAGACGGAGGCAUGCAA
....(((..((((.((..(((..((....))..)))(((.(((((...------------------.))))).............((....))...)))..)).))))))).. ( -23.50)
>consensus
_AACGCAUAUGCCACCUCGAUCGCCCAUCGGUAAUCCUGCUCCUUGCACUCACACAACGGCAAUGGCAAGGACACACACGCACACGC_CA_G_ACACCGAAAGAGCCAUGCAA
.........(((...((((((..((....))..))).((.(((((((..................)))))))))............................)))....))). (-17.55 = -17.95 +   0.40)

alignment

secondary structure

dotplot

Window 9

Location	25,094,806 – 25,094,921
Length	115
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	84.17
Mean single sequence MFE	-43.60
Consensus MFE	-28.43
Energy contribution	-30.00
Covariance contribution	1.57
Combinations/Pair	1.09
Mean z-score	-2.36
Structure conservation index	0.65
SVM decision value	-0.04
SVM RNA-class probability	0.515116
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25094806 115 + 27905053
GUGUGUGUCCUUGCCAUUGCCGCUGUGUGAGUGCAAGGA-GCAGGAUUACCGAUGGGCGAUCGAGGUGGCAUAUGCGUU-UCUUGGCGCGAGCUAUGUGGCA---AAUGCACACGCAAGG
((((((((..((((((((((((((.......(((.....-))).(((..((....))..)))..)))))))..((((((-....))))))......))))))---)..)))))))).... ( -47.10)
>DroSec_CAF1 23710 115 + 1
GUGUGUGUCCUUGCCAUUGCCGCUGUGUGAGUGCAAGGA-GCAGGAUUACCGAUGGGCGAUCGAGGUGGCAUAUGCGUU-UCUUGGCGCGAGCUAUGUGGCA---AAUGCACACGCAAGG
((((((((..((((((((((((((.......(((.....-))).(((..((....))..)))..)))))))..((((((-....))))))......))))))---)..)))))))).... ( -47.10)
>DroEre_CAF1 24171 115 + 1
GUGUGUGUCCUUGCCACUGCCGUUGUGUGAGUGCAAGGA-GCAGGAUUACCGAUGGGCGAUCGAGGUGGCAUAUGCGUU-UCUUGGCGCGAGCUAUGUGGCA---AAUGCACACGCAAGG
((((((((..(((((((..((((((.((((.(((.....-)))...))))))))))(((.((((((..((....))...-))))))))).......))))))---)..)))))))).... ( -49.00)
>DroYak_CAF1 24599 115 + 1
GUGUGUGUCCUUGCCAGUGGCGUUGUGUGAGUGCAAGGA-GCAGGAUUACCCAUGGGCGAUCGAGGUGGCAUAUGCGUU-UCUUGGCGCGAGCUAUGUGGCA---AAUGCACACGCAAGG
((((((((..(((((((((((.((((((.....((((((-((..(((..((....))..)))......((....)))))-)))))))))))))))).)))))---)..)))))))).... ( -50.20)
>DroMoj_CAF1 29239 95 + 1
GUGU--------------------GUGUGCGC-CAAGGAGGCAGGAUUACUUAUGGGCGAUCGAGGUGGCAUAUGCGUUUUCUUGGCGCGAGCUAUGCGGCAAUUGAUGCAC----AAGG
.(((--------------------((((((((-(((((((((..(((..((....))..)))......((....)))))))))))))))..(((....))).....))))))----)... ( -36.20)
>DroAna_CAF1 28460 98 + 1
GAGUGUGUCCUUG------------------UGUAAGGA-GCAGGAUUACCGAUGGGCGAUCGAGGUGGCAUAUGCGUUUUCUUGGCGCGAGCUAUGUGGCA---AAUGCACACGCAAGG
..((((((((((.------------------...)))))-(((.(((..((....))..)))...((.(((((((((((.....))))))...))))).)).---..))).))))).... ( -32.00)
>consensus
GUGUGUGUCCUUGCCA_UGCCG_UGUGUGAGUGCAAGGA_GCAGGAUUACCGAUGGGCGAUCGAGGUGGCAUAUGCGUU_UCUUGGCGCGAGCUAUGUGGCA___AAUGCACACGCAAGG
.(((((((((((((..................))))))..(((.(((..((....))..)))...((.(((((((((((.....))))))...))))).))......))))))))))... (-28.43 = -30.00 +   1.57)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:35:43 2006