Locus 5982

Sequence ID	X_DroMel_CAF1
Location	15,383,654 – 15,383,835
Length	181
Max. P	0.968587

overview

Window 8

Location	15,383,654 – 15,383,756
Length	102
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	85.47
Mean single sequence MFE	-26.23
Consensus MFE	-21.71
Energy contribution	-21.49
Covariance contribution	-0.22
Combinations/Pair	1.04
Mean z-score	-1.97
Structure conservation index	0.83
SVM decision value	0.51
SVM RNA-class probability	0.765207
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15383654 102 - 22224390
GCAACAAUGGGCCACAAUUUGCUGCUCUUAUUUAUGGAAAAUUAAAAUUAAAACUGAUUAAUUAAGCAGCUGCAAGUGGUAGUGGCAAUGGCA---------GCACCACCA---------
.......((((((((.((((((.(((((((.(((........................))).)))).))).))))))....)))))..(((..---------...))))))--------- ( -24.46)
>DroSec_CAF1 25615 104 - 1
GCAACAAUGGGCCACAAUUUGCUGCUCUUAUUUAUGGAAAAUUAAAAUUAAAACUGAUUAAUUAAGCAGCUGCAAGUGGUAGUGGCAAUGGCAAU-------GCAACAACA---------
(((.......(((((.((((((.(((((((.(((........................))).)))).))).))))))....)))))........)-------)).......--------- ( -23.32)
>DroEre_CAF1 23153 120 - 1
GCAACAAUGGGCCACAAUUUGCUGCUUUUAUUUAUGGAAAAUUAAAAUUAAAACUGAUUAAUUAAGCAGCAGCAAGUGGUAGUGGCAAUGGCAGCAGCAGCCCCACCACGACCACCAAUA
.......((((((((...(((((((((....(((........)))((((((......)))))))))))))))...))))).((((....(((.......)))...)))).....)))... ( -30.90)
>consensus
GCAACAAUGGGCCACAAUUUGCUGCUCUUAUUUAUGGAAAAUUAAAAUUAAAACUGAUUAAUUAAGCAGCUGCAAGUGGUAGUGGCAAUGGCA_________GCACCACCA_________
((....((..(((((.((((((.(((((((.(((........................))).)))).))).))))))....))))).)).))............................ (-21.71 = -21.49 +  -0.22)

alignment

secondary structure

dotplot

Window 9

Location	15,383,676 – 15,383,795
Length	119
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	97.77
Mean single sequence MFE	-30.50
Consensus MFE	-29.92
Energy contribution	-29.70
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-2.47
Structure conservation index	0.98
SVM decision value	1.63
SVM RNA-class probability	0.968587
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15383676 119 + 22224390
ACCACUUGCAGCUGCUUAAUUAAUCAGUUUUAAUUUUAAUUUUCCAUAAAUAAGAGCAGCAAAUUGUGGCCCAUUGUUGCCGGCCAACAAUGCCACGAAAAGUUGAAUGUCAA-AAUGGG
.(((.((((((((((((((((((......))))))...((((.....))))..)))))))...(((((((..(((((((.....)))))))))))))).........)).)))-..))). ( -30.90)
>DroSec_CAF1 25639 120 + 1
ACCACUUGCAGCUGCUUAAUUAAUCAGUUUUAAUUUUAAUUUUCCAUAAAUAAGAGCAGCAAAUUGUGGCCCAUUGUUGCCGGCCAACAAUGCCACGAAAAGUUGAAUGUCAAAAAUGGG
.(((.((((((((((((((((((......))))))...((((.....))))..)))))))...(((((((..(((((((.....)))))))))))))).........)).)))...))). ( -30.60)
>DroEre_CAF1 23193 119 + 1
ACCACUUGCUGCUGCUUAAUUAAUCAGUUUUAAUUUUAAUUUUCCAUAAAUAAAAGCAGCAAAUUGUGGCCCAUUGUUGCCGGCCAACAAUGCCACGAGAAGUUGAAUGUCAA-AAUGGG
.((((((..((((((((((((((......))))))...((((.....))))..))))))))..(((((((..(((((((.....)))))))))))))).)))(((.....)))-..))). ( -30.00)
>consensus
ACCACUUGCAGCUGCUUAAUUAAUCAGUUUUAAUUUUAAUUUUCCAUAAAUAAGAGCAGCAAAUUGUGGCCCAUUGUUGCCGGCCAACAAUGCCACGAAAAGUUGAAUGUCAA_AAUGGG
.(((.((((.(((((((((((((......))))))...((((.....))))..)))))))...(((((((..(((((((.....))))))))))))))..........).)))...))). (-29.92 = -29.70 +  -0.22)

alignment

secondary structure

dotplot

Window 0

Location	15,383,676 – 15,383,795
Length	119
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	97.77
Mean single sequence MFE	-29.20
Consensus MFE	-27.25
Energy contribution	-27.03
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-1.66
Structure conservation index	0.93
SVM decision value	0.09
SVM RNA-class probability	0.580051
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15383676 119 - 22224390
CCCAUU-UUGACAUUCAACUUUUCGUGGCAUUGUUGGCCGGCAACAAUGGGCCACAAUUUGCUGCUCUUAUUUAUGGAAAAUUAAAAUUAAAACUGAUUAAUUAAGCAGCUGCAAGUGGU
.(((((-(.(.((...........((((((((((((.....)))))))..))))).....((((((((.......))).......((((((......))))))..)))))))))))))). ( -28.90)
>DroSec_CAF1 25639 120 - 1
CCCAUUUUUGACAUUCAACUUUUCGUGGCAUUGUUGGCCGGCAACAAUGGGCCACAAUUUGCUGCUCUUAUUUAUGGAAAAUUAAAAUUAAAACUGAUUAAUUAAGCAGCUGCAAGUGGU
.((((((.................((((((((((((.....)))))))..))))).....((((((((.......))).......((((((......))))))..)))))...)))))). ( -28.60)
>DroEre_CAF1 23193 119 - 1
CCCAUU-UUGACAUUCAACUUCUCGUGGCAUUGUUGGCCGGCAACAAUGGGCCACAAUUUGCUGCUUUUAUUUAUGGAAAAUUAAAAUUAAAACUGAUUAAUUAAGCAGCAGCAAGUGGU
.(((((-(................((((((((((((.....)))))))..)))))...(((((((((....(((........)))((((((......))))))))))))))).)))))). ( -30.10)
>consensus
CCCAUU_UUGACAUUCAACUUUUCGUGGCAUUGUUGGCCGGCAACAAUGGGCCACAAUUUGCUGCUCUUAUUUAUGGAAAAUUAAAAUUAAAACUGAUUAAUUAAGCAGCUGCAAGUGGU
.((((..(((.(............((((((((((((.....)))))))..))))).....((((((((.......))).......((((((......))))))..))))).)))))))). (-27.25 = -27.03 +  -0.22)

alignment

secondary structure

dotplot

Window 1

Location	15,383,716 – 15,383,835
Length	119
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	95.68
Mean single sequence MFE	-31.83
Consensus MFE	-28.43
Energy contribution	-28.31
Covariance contribution	-0.12
Combinations/Pair	1.06
Mean z-score	-2.09
Structure conservation index	0.89
SVM decision value	0.95
SVM RNA-class probability	0.888100
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15383716 119 + 22224390
UUUCCAUAAAUAAGAGCAGCAAAUUGUGGCCCAUUGUUGCCGGCCAACAAUGCCACGAAAAGUUGAAUGUCAA-AAUGGGAGCGACCCUUCAAAGGCACAGAAAACUGCAGGGAAAAACC
(((((((.........((((...(((((((..(((((((.....))))))))))))))...))))........-.)))))))...((((......(((........)))))))....... ( -29.97)
>DroSec_CAF1 25679 120 + 1
UUUCCAUAAAUAAGAGCAGCAAAUUGUGGCCCAUUGUUGCCGGCCAACAAUGCCACGAAAAGUUGAAUGUCAAAAAUGGGAGCGACCCUUCAAAGGCACAGAAAACUGCAGGGGAAAACC
(((((((.........((((...(((((((..(((((((.....))))))))))))))...))))..........)))))))...(((((.....(((........))))))))...... ( -30.41)
>DroEre_CAF1 23233 119 + 1
UUUCCAUAAAUAAAAGCAGCAAAUUGUGGCCCAUUGUUGCCGGCCAACAAUGCCACGAGAAGUUGAAUGUCAA-AAUGGGAGCGGCCCUUCAAAGGCACAGAAAACUGCAGCGGCCAACC
(((((((.........((((...(((((((..(((((((.....))))))))))))))...))))........-.))))))).((((((....))((.(((....)))..)))))).... ( -35.17)
>DroYak_CAF1 15170 119 + 1
UUUCCAUAAAUAAAAGCAGCAAAUUGUGGCCCAUUGUUGCCGGCCAACAAUGCCACGAAAAGUUGAAUGUCAA-AAUGGAAACGACCCUUCAAAGGCACAGAAAACUGCAGGGGAAAACC
(((((((.........((((...(((((((..(((((((.....))))))))))))))...))))........-.)))))))...(((((.....(((........))))))))...... ( -31.77)
>consensus
UUUCCAUAAAUAAAAGCAGCAAAUUGUGGCCCAUUGUUGCCGGCCAACAAUGCCACGAAAAGUUGAAUGUCAA_AAUGGGAGCGACCCUUCAAAGGCACAGAAAACUGCAGGGGAAAACC
(((((((.........((((...(((((((..(((((((.....))))))))))))))...))))..........)))))))...((((......(((........)))))))....... (-28.43 = -28.31 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:17 2006