Locus 6616

Sequence ID 3R_DroMel_CAF1
Location 17,417,206 – 17,417,297
Length 91
Max. P 0.935969
window10770 window10771

overview

Window 0

Location 17,417,206 – 17,417,297
Length 91
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 79.33
Mean single sequence MFE -32.65
Consensus MFE -20.21
Energy contribution -21.10
Covariance contribution 0.89
Combinations/Pair 1.14
Mean z-score -2.38
Structure conservation index 0.62
SVM decision value 1.25
SVM RNA-class probability 0.935969
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17417206 91 + 27905053
CUUUGUCUG-------------UGUGGGGCGCCAAAAAGGCGCGCUGCACGACGCAAUUGUCUGAGCUCGG------GGGAAAAGUGCAUGGCGAAACAAAAG-----UGAGG-GA
.((((((((-------------((..(.(((((.....))))).)..))))..(((.((.((((....)))------).))....)))..)))))).......-----.....-.. ( -32.30)
>DroSec_CAF1 21363 91 + 1
CUUUGUCUG-------------UGUGGGGCGCCAAAAAGGCGCGCUGCACGACGCAAUUGUCUGAGCUCGG------GGGAAAAGUGCAUGGCGAAACAAAAG-----UGAGG-AA
.((((((((-------------((..(.(((((.....))))).)..))))..(((.((.((((....)))------).))....)))..)))))).......-----.....-.. ( -32.30)
>DroSim_CAF1 18647 91 + 1
CCUUGUCUG-------------UGUGGGGCGCCAAAAAGGCGCGCUGCACGACGCAAUUGUCUGAGCUCGG------GGGAAAAGUGCAUGGCGAAACAAAAG-----UGAGG-AA
(((((((.(-------------((..(.(((((.....))))).)..))))))(((.((.((((....)))------).))....)))...............-----.))))-.. ( -34.40)
>DroEre_CAF1 20270 91 + 1
CUUCGUCUG-------------UGUAAGGCGCCAAAAGGGCGCGUUGCACGACGCAAUUGUCUGAGCUCGG------GGGAAAAGUGCAUGGCAAAACAGAAG-----UGAGG-AA
(((((((.(-------------(((((.(((((.....))))).)))))))))(((.((.((((....)))------).))....)))...........))))-----.....-.. ( -33.60)
>DroYak_CAF1 18413 98 + 1
UUUUGUCUG-------------UGUGAGGCGCCAAAAAGGCGCGCUGCACGACGCAAUUGCCUGAGCUCGGAAAAGGCGGAAAAGUGCAUGGCGAAACAAUAG-----UGAGGGGA
(((((((((-------------(((.(((((((.....))))).)))))))..(((.((((((...........)))))).....)))..)))))))......-----........ ( -29.60)
>DroPer_CAF1 27462 103 + 1
AUCUGUGUGUGUAAGCGUCAAUUGUGGGGCGCCAAAGAGGCGCAAUGCACGACGCAAUUGUCUGAGCGCU------------AAACGCAAAGCGAAAGAAAAACUGCAUAACG-AG
...(((.((((((.(((((...((((..(((((.....)))))..)))).))))).....(((...((((------------........))))..))).....)))))))))-.. ( -33.70)
>consensus
CUUUGUCUG_____________UGUGGGGCGCCAAAAAGGCGCGCUGCACGACGCAAUUGUCUGAGCUCGG______GGGAAAAGUGCAUGGCGAAACAAAAG_____UGAGG_AA
......................(((((.(((((.....))))).)))))...(((...(((((...(((........)))...)).)))..)))...................... (-20.21 = -21.10 +   0.89)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,417,206 – 17,417,297
Length 91
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 79.33
Mean single sequence MFE -24.07
Consensus MFE -18.82
Energy contribution -18.72
Covariance contribution -0.11
Combinations/Pair 1.29
Mean z-score -1.49
Structure conservation index 0.78
SVM decision value 0.74
SVM RNA-class probability 0.837637
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17417206 91 - 27905053
UC-CCUCA-----CUUUUGUUUCGCCAUGCACUUUUCCC------CCGAGCUCAGACAAUUGCGUCGUGCAGCGCGCCUUUUUGGCGCCCCACA-------------CAGACAAAG
..-.....-----..(((((((.((..(((((..(((..------..)))....(((......))))))))))(((((.....)))))......-------------.))))))). ( -23.70)
>DroSec_CAF1 21363 91 - 1
UU-CCUCA-----CUUUUGUUUCGCCAUGCACUUUUCCC------CCGAGCUCAGACAAUUGCGUCGUGCAGCGCGCCUUUUUGGCGCCCCACA-------------CAGACAAAG
..-.....-----..(((((((.((..(((((..(((..------..)))....(((......))))))))))(((((.....)))))......-------------.))))))). ( -23.70)
>DroSim_CAF1 18647 91 - 1
UU-CCUCA-----CUUUUGUUUCGCCAUGCACUUUUCCC------CCGAGCUCAGACAAUUGCGUCGUGCAGCGCGCCUUUUUGGCGCCCCACA-------------CAGACAAGG
..-.....-----..(((((((.((..(((((..(((..------..)))....(((......))))))))))(((((.....)))))......-------------.))))))). ( -23.40)
>DroEre_CAF1 20270 91 - 1
UU-CCUCA-----CUUCUGUUUUGCCAUGCACUUUUCCC------CCGAGCUCAGACAAUUGCGUCGUGCAACGCGCCCUUUUGGCGCCUUACA-------------CAGACGAAG
..-.....-----(.(((((.......(((((..(((..------..)))....(((......))))))))..(((((.....))))).....)-------------)))).)... ( -21.80)
>DroYak_CAF1 18413 98 - 1
UCCCCUCA-----CUAUUGUUUCGCCAUGCACUUUUCCGCCUUUUCCGAGCUCAGGCAAUUGCGUCGUGCAGCGCGCCUUUUUGGCGCCUCACA-------------CAGACAAAA
........-----...((((((.((..(((((.....(((..((.((.......)).))..)))..)))))))(((((.....)))))......-------------.)))))).. ( -25.40)
>DroPer_CAF1 27462 103 - 1
CU-CGUUAUGCAGUUUUUCUUUCGCUUUGCGUUU------------AGCGCUCAGACAAUUGCGUCGUGCAUUGCGCCUCUUUGGCGCCCCACAAUUGACGCUUACACACACAGAU
..-((((((((((((..(((..((((........------------))))...))).)))))))..(((....(((((.....)))))..)))...)))))............... ( -26.40)
>consensus
UU_CCUCA_____CUUUUGUUUCGCCAUGCACUUUUCCC______CCGAGCUCAGACAAUUGCGUCGUGCAGCGCGCCUUUUUGGCGCCCCACA_____________CAGACAAAG
...............(((((((.....(((((...............(....).(((......))))))))..(((((.....)))))....................))))))). (-18.82 = -18.72 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:58 2006