Locus 2142

Sequence ID	X_DroMel_CAF1
Location	5,808,551 – 5,808,726
Length	175
Max. P	0.825814

overview

Window 5

Location	5,808,551 – 5,808,646
Length	95
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	75.89
Mean single sequence MFE	-27.22
Consensus MFE	-15.93
Energy contribution	-18.35
Covariance contribution	2.42
Combinations/Pair	1.07
Mean z-score	-1.71
Structure conservation index	0.59
SVM decision value	0.70
SVM RNA-class probability	0.825814
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5808551 95 - 22224390
CGUUCUCCAAGUGGUUGGUCGUCAGCCACUUUAUAUCAUUUUUGGUCGUUCUUUAAAGGGUUCCCAGUCAAAGGUGAUAUAACU-UUUAAU---AAU---UU
........(((((((((.....)))))))))((((((((((((((..(.(((.....)))....)..))))))))))))))...-......---...---.. ( -24.30)
>DroPse_CAF1 41424 95 - 1
CACGCUCCAGGUGGUGGGGCUAAAGCCCCUGUACAUCCUUACCGGCCGUUCCCUGCGCGGCUCCCAUUCCAAGGUGAGUGUC--GAUCGAUGCC--CGG---
.........((((..(((((....)))))....))))....((((.((((.....((..((((((.......)).))))..)--)...)))).)--)))--- ( -30.40)
>DroSec_CAF1 14072 95 - 1
CGUUCUCCAAGUGGUUGGUCGUCAGCCACUUUAUAUCAUUUUUGGCCGAUCUUUAAAGGGUUCCCAGUCAAAGGUGAUAUACCU-UUCUAU---AAU---AU
........(((((((((.....)))))))))(((((((((((((((.(((((.....)))))....)))))))))))))))...-......---...---.. ( -28.50)
>DroSim_CAF1 14568 95 - 1
CGUUCUCCAAGUGGUGGGUGGUCAGCCACUUUAUAUCAUUUUUGGCCGAUCUUUAAAGGGUUCCCAGUCAAAGGUGAUAUACCU-CUCUAU---AAU---AU
..........((((.((((((....))))..(((((((((((((((.(((((.....)))))....))))))))))))))))).-..))))---...---.. ( -26.80)
>DroEre_CAF1 13725 98 - 1
CGUGCUCCAAGUGGUUGGUCGUCAGCCACUUUAUAUCAUUUUUGGGCGAUCUUUAAAGGGUUCUCAGUCAAAGGUGAUAUGCAA-CUGUAA---GACAGAAU
..(((...(((((((((.....))))))))).((((((((((((((.(((((.....))))).))...))))))))))))))).-(((...---..)))... ( -28.70)
>DroYak_CAF1 14383 95 - 1
CGUUCUCCAAGUGGUUGGUCGUCAGCCACUAUAUAUCAUUUUCGGGCGAUCUUUGAGGGGUUCUCAGUCAAAGGUGAUAUAAAA-CCUCAU---GAU---AU
.(..((((.((((((((.....)))))))).....(((...((....))....)))))))..)...((((.((((........)-)))..)---)))---.. ( -24.60)
>consensus
CGUUCUCCAAGUGGUUGGUCGUCAGCCACUUUAUAUCAUUUUUGGCCGAUCUUUAAAGGGUUCCCAGUCAAAGGUGAUAUACCU_CUCUAU___AAU___AU
.........((((((((.....)))))))).((((((((((((((..(((((.....))))).....))))))))))))))..................... (-15.93 = -18.35 +   2.42)

alignment

secondary structure

dotplot

Window 6

Location	5,808,606 – 5,808,726
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	74.04
Mean single sequence MFE	-34.32
Consensus MFE	-16.74
Energy contribution	-17.05
Covariance contribution	0.31
Combinations/Pair	1.17
Mean z-score	-1.78
Structure conservation index	0.49
SVM decision value	0.30
SVM RNA-class probability	0.676453
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5808606 120 - 22224390
UGACGACUUCCUCACAGAACCUUUGAGUGGCUGGACACCUACUUUAAUCCACUCGAGGAGAUCACUCUACCCGCCAUUCGCGUUCUCCAAGUGGUUGGUCGUCAGCCACUUUAUAUCAUU
((((((((..(.((((((((...((((((((.((.............((.....))((((....)))).)).)))))))).)))))....))))..))))))))................ ( -35.40)
>DroVir_CAF1 22017 117 - 1
UGAUC---UACCUAUAGAACCUACGAGUGGCUGGAGACGUAUUUCAAUCCCGUCGAGGAGCUCACGCUGCCCUCCAUCAAAGCAUUCCAGGUGGUAGGACGUCAGCCCUAUUACAUAAUC
...((---((....)))).((.......))(((((((((...........))))((((.((.......))))))...........)))))((((((((.(....).))))))))...... ( -29.40)
>DroGri_CAF1 19973 119 - 1
UGAUGUG-UUUCCACAGAACCUUUGAGUGGCUGGAGACUUACUUCAAUCCCGUGGAGGAUUUCAACUUGCCGGCAAUUAAAUCCUUUCAGGUGGUGGGUCAUCAGCCUCACUAUUUAGUC
...((((-....))))..........(.(((((..((((((((.....((.(.(((((((((.((.(((....))))))))))))))).)).))))))))..))))).)........... ( -33.80)
>DroSim_CAF1 14623 120 - 1
UGAGGAUUUCUUCACAGAACUUUUGAAUGGCUGGACACUUACUUUAAUCCCCUCGAGGAGAUCACUCUACCCGCCAUUGGCGUUCUCCAAGUGGUGGGUGGUCAGCCACUUUAUAUCAUU
(((((....))))).........(((((((((((............(((.((....)).)))....((((((((((((((......)).))))))))))))))))))).))))....... ( -38.00)
>DroEre_CAF1 13783 120 - 1
UGACGUCUUACUCACAGAACCUUUGAGUGGCUGGACACCUACUUCAAUCCUCUCGAGGAGAUCACUCUACCCGCCAUUCGCGUGCUCCAAGUGGUUGGUCGUCAGCCACUUUAUAUCAUU
................((......(((((((((.(((((........((((....))))(((((((....((((.....))).).....)))))))))).)))))))))))....))... ( -32.00)
>DroAna_CAF1 15309 113 - 1
GUA-------CUUUCAGGACCUUCGAGUGGCUGGAAACGUACUUCAAUCCCCUGGAGGAGAUGACUCUGCCAGCCAUUAGAGUCCUUCAAGUUGUGGGUCGUCAACCCAUUUACUUUAUC
...-------.....(((((..((.(((((((((.......(((((......)))))(((....)))..))))))))).)))))))..((((.((((((.....))))))..)))).... ( -37.30)
>consensus
UGACG___UACUCACAGAACCUUUGAGUGGCUGGACACCUACUUCAAUCCCCUCGAGGAGAUCACUCUACCCGCCAUUAGAGUCCUCCAAGUGGUGGGUCGUCAGCCACUUUAUAUCAUC
............................((((((.............(((......))).........(((.((((((...........)))))).)))..))))))............. (-16.74 = -17.05 +   0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:12 2006