Locus 926

Sequence ID X_DroMel_CAF1
Location 2,582,707 – 2,582,849
Length 142
Max. P 0.999915
window1508 window1509 window1510

overview

Window 8

Location 2,582,707 – 2,582,817
Length 110
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 76.61
Mean single sequence MFE -27.76
Consensus MFE -14.16
Energy contribution -15.64
Covariance contribution 1.48
Combinations/Pair 1.13
Mean z-score -1.79
Structure conservation index 0.51
SVM decision value 0.09
SVM RNA-class probability 0.579181
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2582707 110 - 22224390
ACAGAAUCAAUAGAUAGAGUUGGCAGCUCUGAAUGAGACGAGCUAAGCUCC-UGGACCUGCCAACUCCUG--------CUGCGCAUAACGGUUAAUGCAAGACCAAACAUUUAUUAAAC
........(((((((.(((((((((((((.....)))..((((...)))).-.....))))))))))...--------....((((........))))..........))))))).... ( -29.40)
>DroSec_CAF1 9796 110 - 1
ACAGAAUCAAUAGAUCGAGUUGGCAGCUCUAAAUGAGACAAGCACAGCUCC-UCAACCUGCCAACUCCUG--------CUGCGCAUAACGGUUAAUGCAAGACCAAACAUUUAUUAAAC
........(((((((.(((((((((((((.....)))...(((...)))..-.....))))))))))...--------....((((........))))..........))))))).... ( -25.30)
>DroSim_CAF1 13159 110 - 1
ACAGAAUCAAUAGAUCGAGUUGGCAGCUCUAAUUGAGACGAGCACAGCUCC-UGAACCUGCCAACUCCUG--------CUGCGCAUAACGGUUAAUGCAAGACCAAACAUUUAUUAAAC
........(((((((.(((((((((((((.....)))..((((...)))).-.....))))))))))...--------....((((........))))..........))))))).... ( -28.90)
>DroEre_CAF1 10123 108 - 1
ACAGGAUCGAUGCAACGAGUUGGCAGCUCUGAAGCAGACGUC---CGCUCUGCGAACCUGCCAACUGCUG--------CUGCGCAUAACGGUUCAUGCUGGACAAAACAUUUAUUUAUU
...((((((((((....(((((((((.......(((((.(..---..))))))....)))))))))((..--------..))))))..))))))......................... ( -32.90)
>DroYak_CAF1 9990 107 - 1
ACAGGAUCAAUGAAACGAGUGGACAGCUCUGGACCUAACC------------AGGACCUGCCAACUCCUGCACUUCUGCACCACAUAACGGUUCUUGCUUGACAAAACAUUUAUUUAUU
..((((((........((((((.(((.(((((......))------------)))..))))).)))).((((....)))).........))))))........................ ( -22.30)
>consensus
ACAGAAUCAAUAGAUCGAGUUGGCAGCUCUGAAUGAGACGAGC__AGCUCC_UGAACCUGCCAACUCCUG________CUGCGCAUAACGGUUAAUGCAAGACCAAACAUUUAUUAAAC
........((((((..((((((((((........(((..........))).......))))))))))...............((((........))))...........)))))).... (-14.16 = -15.64 +   1.48)

alignment

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secondary structure

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dotplot

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Window 9

Location 2,582,746 – 2,582,849
Length 103
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 73.95
Mean single sequence MFE -34.63
Consensus MFE -22.81
Energy contribution -23.75
Covariance contribution 0.94
Combinations/Pair 1.08
Mean z-score -3.04
Structure conservation index 0.66
SVM decision value 4.53
SVM RNA-class probability 0.999915
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2582746 103 + 22224390
AGCAGGAGUUGGCAGGUCCA-GGAGCUUAGCUCGUCUCAUUCAGAGCUGCCAACUCUAUCUAUUGAUUCUGUUAUUAAUUAGUUGCGCA--------CAAGAUCGAAAAGCU
(((.(((((((((((.....-.((((...))))..(((.....)))))))))))))).....(((((..(((...(((....)))...)--------))..)))))...))) ( -32.00)
>DroSec_CAF1 9835 103 + 1
AGCAGGAGUUGGCAGGUUGA-GGAGCUGUGCUUGUCUCAUUUAGAGCUGCCAACUCGAUCUAUUGAUUCUGUUGUUAAUUAGAAGCGCA--------AAAAAUCGAAAAGCU
(((..((((((((((.((((-.((((...)))).)).......)).))))))))))(((.(.(((.(((((........)))))...))--------).).))).....))) ( -31.51)
>DroSim_CAF1 13198 103 + 1
AGCAGGAGUUGGCAGGUUCA-GGAGCUGUGCUCGUCUCAAUUAGAGCUGCCAACUCGAUCUAUUGAUUCUGUUAUUAAUUAGAAGCGCA--------AAAGAUCGAAAAGCU
(((..((((((((((.....-.((((...))))..(((.....)))))))))))))(((((.(((.(((((........)))))...))--------).))))).....))) ( -38.30)
>DroEre_CAF1 10162 100 + 1
AGCAGCAGUUGGCAGGUUCGCAGAGCG---GACGUCUGCUUCAGAGCUGCCAACUCGUUGCAUCGAUCCUGUUAAUAACUUCAAUCGAAUUUAUGUUGUGCAU---------
.((((((((((((((.(((...(((((---(....))))))..)))))))))))).))))).(((((...((.....))....)))))...............--------- ( -36.70)
>consensus
AGCAGGAGUUGGCAGGUUCA_GGAGCUGUGCUCGUCUCAUUCAGAGCUGCCAACUCGAUCUAUUGAUUCUGUUAUUAAUUAGAAGCGCA________AAAGAUCGAAAAGCU
(((((((((((((((.((....((((.......).))).....)).))))))))))((((....)))))))))....................................... (-22.81 = -23.75 +   0.94)

alignment

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secondary structure

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dotplot

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Window 0

Location 2,582,746 – 2,582,849
Length 103
Sequences 4
Columns 112
Reading direction reverse
Mean pairwise identity 73.95
Mean single sequence MFE -28.52
Consensus MFE -16.78
Energy contribution -18.16
Covariance contribution 1.38
Combinations/Pair 1.14
Mean z-score -2.44
Structure conservation index 0.59
SVM decision value 2.53
SVM RNA-class probability 0.994941
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2582746 103 - 22224390
AGCUUUUCGAUCUUG--------UGCGCAACUAAUUAAUAACAGAAUCAAUAGAUAGAGUUGGCAGCUCUGAAUGAGACGAGCUAAGCUCC-UGGACCUGCCAACUCCUGCU
(((.....(((..((--------(................)))..)))........(((((((((((((.....)))..((((...)))).-.....))))))))))..))) ( -28.09)
>DroSec_CAF1 9835 103 - 1
AGCUUUUCGAUUUUU--------UGCGCUUCUAAUUAACAACAGAAUCAAUAGAUCGAGUUGGCAGCUCUAAAUGAGACAAGCACAGCUCC-UCAACCUGCCAACUCCUGCU
(((.....(((((.(--------((...((((..........)))).))).)))))(((((((((((((.....)))...(((...)))..-.....))))))))))..))) ( -26.00)
>DroSim_CAF1 13198 103 - 1
AGCUUUUCGAUCUUU--------UGCGCUUCUAAUUAAUAACAGAAUCAAUAGAUCGAGUUGGCAGCUCUAAUUGAGACGAGCACAGCUCC-UGAACCUGCCAACUCCUGCU
(((.....(((((.(--------((...((((..........)))).))).)))))(((((((((((((.....)))..((((...)))).-.....))))))))))..))) ( -32.20)
>DroEre_CAF1 10162 100 - 1
---------AUGCACAACAUAAAUUCGAUUGAAGUUAUUAACAGGAUCGAUGCAACGAGUUGGCAGCUCUGAAGCAGACGUC---CGCUCUGCGAACCUGCCAACUGCUGCU
---------...............((((((...((.....))..)))))).(((.(.(((((((((.......(((((.(..---..))))))....)))))))))).))). ( -27.80)
>consensus
AGCUUUUCGAUCUUU________UGCGCUUCUAAUUAAUAACAGAAUCAAUAGAUCGAGUUGGCAGCUCUAAAUGAGACGAGCACAGCUCC_UGAACCUGCCAACUCCUGCU
........(((((......................................)))))(((((((((((((.....)))..((((...)))).......))))))))))..... (-16.78 = -18.16 +   1.38)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:23 2006