Locus 1673

Sequence ID 3R_DroMel_CAF1
Location 4,803,203 – 4,803,323
Length 120
Max. P 0.999771
window2761 window2762

overview

Window 1

Location 4,803,203 – 4,803,323
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 93.65
Mean single sequence MFE -26.38
Consensus MFE -25.78
Energy contribution -25.95
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.15
Structure conservation index 0.98
SVM decision value 4.04
SVM RNA-class probability 0.999771
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4803203 120 + 27905053
GGCUUUAACGACACUGGUGACCCAGAUUUUAGGGGCAAGCUUAAGCUCAAAAGCUACAACGCUAAUAAGAACAGCAAUGCCGCCGCCAUUACCCACACACAAACACACAUAAAAAUACAA
(((..........((((....))))......(((((((((((........))))).....(((.........)))..)))).)))))................................. ( -24.60)
>DroSec_CAF1 38447 120 + 1
GGCUUUAACGACACUGGUGACCCAGAUUUUAGGGGCAAGCUUAAGCUUAAAAGCUACAACGCUAAUAAGAACAGCAAUGCCGCCGCCAUUACCCACACAUAAACACACAUAAAAAUACAA
(((..........((((....))))......((((((.(((....((((..(((......)))..))))...)))..)))).)))))................................. ( -26.30)
>DroSim_CAF1 34646 120 + 1
GGCUUUAACGACACUGGUGACCCAGAUUUUAGGGGCAAGCUUAAGCUUAAAAGCUACAACGCUAAUAAGAACAGCAAUGCCGCCGCCAUUGCCCACACACAAACACACAUAAAAAUACAA
(((..........((((....))))......((((((.(((....((((..(((......)))..))))...)))..)))).)))))................................. ( -26.30)
>DroEre_CAF1 39424 112 + 1
GGCUUUAACGACACUGGUGACCCAGAUUUUAGGGGCAAGCUUAAGCUUAAAAGCUACAACGCUAAUAAGAACAGCAAUGCCGCCGCCAUUACCCACA--CAAGCACACAUAAAA------
(((..........((((....))))......((((((.(((....((((..(((......)))..))))...)))..)))).)))))..........--...............------ ( -26.30)
>DroYak_CAF1 40414 118 + 1
GGCUUUAACGACACUGGUGACCCAGAUUUUAGGGGCAAGCUUAAGCUUAAAAGCUACAACGCUAAUAAGAACAGCAAUGCCGCCGCCAUUACCCACA--CAAGCACACAUAAAAAUACAA
(((..........((((....))))......((((((.(((....((((..(((......)))..))))...)))..)))).)))))..........--..................... ( -26.30)
>DroAna_CAF1 38426 118 + 1
GGCUUUAACGACACUGGUGACCCAGAUUUUCGGGGCAAGCUUAAGCUUAAAAGCUACAACGCUAAUAAGAACAGCAAUGCCGCCGCCAUUACCCAUA--CAAACACACACUGGCACACAC
(((.....(((..((((....))))....))).((((.(((....((((..(((......)))..))))...)))..)))))))((((.........--...........))))...... ( -28.45)
>consensus
GGCUUUAACGACACUGGUGACCCAGAUUUUAGGGGCAAGCUUAAGCUUAAAAGCUACAACGCUAAUAAGAACAGCAAUGCCGCCGCCAUUACCCACA__CAAACACACAUAAAAAUACAA
(((..........((((....))))......((((((.(((....((((..(((......)))..))))...)))..)))).)))))................................. (-25.78 = -25.95 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 4,803,203 – 4,803,323
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 93.65
Mean single sequence MFE -33.72
Consensus MFE -32.98
Energy contribution -32.70
Covariance contribution -0.28
Combinations/Pair 1.07
Mean z-score -1.10
Structure conservation index 0.98
SVM decision value 1.24
SVM RNA-class probability 0.934467
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4803203 120 - 27905053
UUGUAUUUUUAUGUGUGUUUGUGUGUGGGUAAUGGCGGCGGCAUUGCUGUUCUUAUUAGCGUUGUAGCUUUUGAGCUUAAGCUUGCCCCUAAAAUCUGGGUCACCAGUGUCGUUAAAGCC
........................((...(((((((((.((((..(((...((((..(((......)))..))))....))).))))))......((((....)))).)))))))..)). ( -33.10)
>DroSec_CAF1 38447 120 - 1
UUGUAUUUUUAUGUGUGUUUAUGUGUGGGUAAUGGCGGCGGCAUUGCUGUUCUUAUUAGCGUUGUAGCUUUUAAGCUUAAGCUUGCCCCUAAAAUCUGGGUCACCAGUGUCGUUAAAGCC
...((((..((((((....))))))..)))).(((((((((((..(((...((((..(((......)))..))))....))).))))........((((....)))).)))))))..... ( -33.00)
>DroSim_CAF1 34646 120 - 1
UUGUAUUUUUAUGUGUGUUUGUGUGUGGGCAAUGGCGGCGGCAUUGCUGUUCUUAUUAGCGUUGUAGCUUUUAAGCUUAAGCUUGCCCCUAAAAUCUGGGUCACCAGUGUCGUUAAAGCC
...........................(((..(((((((((((..(((...((((..(((......)))..))))....))).))))........((((....)))).)))))))..))) ( -34.10)
>DroEre_CAF1 39424 112 - 1
------UUUUAUGUGUGCUUG--UGUGGGUAAUGGCGGCGGCAUUGCUGUUCUUAUUAGCGUUGUAGCUUUUAAGCUUAAGCUUGCCCCUAAAAUCUGGGUCACCAGUGUCGUUAAAGCC
------...............--.((...(((((((((.((((..(((...((((..(((......)))..))))....))).))))))......((((....)))).)))))))..)). ( -33.00)
>DroYak_CAF1 40414 118 - 1
UUGUAUUUUUAUGUGUGCUUG--UGUGGGUAAUGGCGGCGGCAUUGCUGUUCUUAUUAGCGUUGUAGCUUUUAAGCUUAAGCUUGCCCCUAAAAUCUGGGUCACCAGUGUCGUUAAAGCC
..((((........))))...--.((...(((((((((.((((..(((...((((..(((......)))..))))....))).))))))......((((....)))).)))))))..)). ( -34.30)
>DroAna_CAF1 38426 118 - 1
GUGUGUGCCAGUGUGUGUUUG--UAUGGGUAAUGGCGGCGGCAUUGCUGUUCUUAUUAGCGUUGUAGCUUUUAAGCUUAAGCUUGCCCCGAAAAUCUGGGUCACCAGUGUCGUUAAAGCC
.....((((.(((........--))).))))..(((((.((((..(((...((((..(((......)))..))))....))).))))))((....((((....))))..))......))) ( -34.80)
>consensus
UUGUAUUUUUAUGUGUGUUUG__UGUGGGUAAUGGCGGCGGCAUUGCUGUUCUUAUUAGCGUUGUAGCUUUUAAGCUUAAGCUUGCCCCUAAAAUCUGGGUCACCAGUGUCGUUAAAGCC
...........................(((..(((((((((((..(((...((((..(((......)))..))))....))).))))........((((....)))).)))))))..))) (-32.98 = -32.70 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:33 2006