Locus 6105

Sequence ID X_DroMel_CAF1
Location 15,648,082 – 15,648,269
Length 187
Max. P 0.964882
window9919 window9920 window9921

overview

Window 9

Location 15,648,082 – 15,648,199
Length 117
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 79.64
Mean single sequence MFE -28.95
Consensus MFE -23.65
Energy contribution -24.23
Covariance contribution 0.58
Combinations/Pair 1.05
Mean z-score -2.58
Structure conservation index 0.82
SVM decision value 1.54
SVM RNA-class probability 0.962692
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15648082 117 + 22224390
AGCGAAACCUAAAGGAAAUCUACGAAAAAAAAGCUGGCUGCAUGAAAAACAUCACCAGCUCGAGCACUUGCAGCACUGGGCUGCUGCAAUUGCAGAACAACCUGAGCUGCAGCGAGU
.......((....)).................(((.(((((.(((......)))..(((((..(((.((((((((......)))))))).)))((......)))))))))))).))) ( -37.10)
>DroVir_CAF1 42335 92 + 1
-----------------------AA-U-AAAAGCUGGCUGCAUGAAAAACAUCACCAGCUCAAGCACUUGCGGCACGGGGCUGCUGCAAUUGCAGAACAAUCUCAGCAACAGCGAAU
-----------------------..-.-...((((((.((.(((.....)))))))))))...(((.((((((((......)))))))).)))............((....)).... ( -27.80)
>DroPse_CAF1 27608 96 + 1
---GAACCC------------------CAUAAGCUGGCUGCAUGAAAAACAUAACCAGCUCGAGCACCUGCAGCACGGGGCUGCUGCAAUUGCAGAACAAUCUAAACAACAGGGAAU
---....((------------------(...((((((.(..(((.....))).)))))))...(((..(((((((......)))))))..)))..................)))... ( -28.30)
>DroGri_CAF1 38763 91 + 1
-----------------------A--U-AUAAACUGGCUGCAUGAAAAACAUCACCAGCUCAAGCACUUGCGGCACGGGGCUGCUGCAAUUGCAGAACAAUCUCAGCAACAGCGAAU
-----------------------.--.-.....((((((((((((......)))...((....))...)))))).))).((((.(((...((.(((....)))))))).)))).... ( -23.90)
>DroMoj_CAF1 43379 103 + 1
------------AGG-UACUUACAG-UAAAAAGCUGGCUGCAUGAAAAACAUCACCAGCUCAAGCACUUGCGGCACGGGGCUGCUGCAAUUGCAGAACAAUCUCAGCAACAGCGAAU
------------(((-(........-.....((((((.((.(((.....)))))))))))...(((.((((((((......)))))))).)))......))))..((....)).... ( -28.30)
>DroPer_CAF1 26960 96 + 1
---GAACCC------------------CAUAAGCUGGCUGCAUGAAAAACAUAACCAGCUCGAGCACCUGCAGCACGGGGCUGCUGCAAUUGCAGAACAAUCUAAACAACAGGGAAU
---....((------------------(...((((((.(..(((.....))).)))))))...(((..(((((((......)))))))..)))..................)))... ( -28.30)
>consensus
_______________________A__U_AAAAGCUGGCUGCAUGAAAAACAUCACCAGCUCAAGCACUUGCAGCACGGGGCUGCUGCAAUUGCAGAACAAUCUCAGCAACAGCGAAU
...............................((((((.((.(((.....)))))))))))...(((.((((((((......)))))))).)))........................ (-23.65 = -24.23 +   0.58)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,648,082 – 15,648,199
Length 117
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 79.64
Mean single sequence MFE -34.55
Consensus MFE -27.67
Energy contribution -27.53
Covariance contribution -0.14
Combinations/Pair 1.15
Mean z-score -2.70
Structure conservation index 0.80
SVM decision value 1.57
SVM RNA-class probability 0.964882
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15648082 117 - 22224390
ACUCGCUGCAGCUCAGGUUGUUCUGCAAUUGCAGCAGCCCAGUGCUGCAAGUGCUCGAGCUGGUGAUGUUUUUCAUGCAGCCAGCUUUUUUUUCGUAGAUUUCCUUUAGGUUUCGCU
....((((((((.(.(((((..((((....)))))))))..).))))).)))((..((((((((.(((.....)))...))))))))..........((...((....))..)))). ( -38.50)
>DroVir_CAF1 42335 92 - 1
AUUCGCUGUUGCUGAGAUUGUUCUGCAAUUGCAGCAGCCCCGUGCCGCAAGUGCUUGAGCUGGUGAUGUUUUUCAUGCAGCCAGCUUUU-A-UU-----------------------
...((..(((((((..((((.....))))..)))))))..)).(((....).))..((((((((.(((.....)))...))))))))..-.-..----------------------- ( -32.10)
>DroPse_CAF1 27608 96 - 1
AUUCCCUGUUGUUUAGAUUGUUCUGCAAUUGCAGCAGCCCCGUGCUGCAGGUGCUCGAGCUGGUUAUGUUUUUCAUGCAGCCAGCUUAUG------------------GGGUUC---
...((((((.....(((....)))(((.((((((((......)))))))).)))..((((((((((((.....))))..)))))))))))------------------)))...--- ( -34.90)
>DroGri_CAF1 38763 91 - 1
AUUCGCUGUUGCUGAGAUUGUUCUGCAAUUGCAGCAGCCCCGUGCCGCAAGUGCUUGAGCUGGUGAUGUUUUUCAUGCAGCCAGUUUAU-A--U-----------------------
...((..(((((((..((((.....))))..)))))))..)).(((....).)).(((((((((.(((.....)))...))))))))).-.--.----------------------- ( -31.20)
>DroMoj_CAF1 43379 103 - 1
AUUCGCUGUUGCUGAGAUUGUUCUGCAAUUGCAGCAGCCCCGUGCCGCAAGUGCUUGAGCUGGUGAUGUUUUUCAUGCAGCCAGCUUUUUA-CUGUAAGUA-CCU------------
....((((((((...(((((.....)))))))))))))...((((....((((...((((((((.(((.....)))...))))))))..))-))....)))-)..------------ ( -35.70)
>DroPer_CAF1 26960 96 - 1
AUUCCCUGUUGUUUAGAUUGUUCUGCAAUUGCAGCAGCCCCGUGCUGCAGGUGCUCGAGCUGGUUAUGUUUUUCAUGCAGCCAGCUUAUG------------------GGGUUC---
...((((((.....(((....)))(((.((((((((......)))))))).)))..((((((((((((.....))))..)))))))))))------------------)))...--- ( -34.90)
>consensus
AUUCGCUGUUGCUGAGAUUGUUCUGCAAUUGCAGCAGCCCCGUGCCGCAAGUGCUCGAGCUGGUGAUGUUUUUCAUGCAGCCAGCUUAU_A__U_______________________
....((((((((...(((((.....)))))))))))))...(..(.....)..)..((((((((.(((.....)))...)))))))).............................. (-27.67 = -27.53 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,648,159 – 15,648,269
Length 110
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 72.99
Mean single sequence MFE -36.67
Consensus MFE -19.17
Energy contribution -17.90
Covariance contribution -1.27
Combinations/Pair 1.42
Mean z-score -1.89
Structure conservation index 0.52
SVM decision value 1.02
SVM RNA-class probability 0.901697
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15648159 110 - 22224390
UCUUUGUAUGACUGG-GUAAUUC--------GGAUGGGCAACGGACCUGCCUGUUGUUCUGUCUUC-UCGGCAACUUCCAACUCGCUGCAGCUCAGGUUGUUCUGCAAUUGCAGCAGCCC
.............((-((.....--------(((.(((((((((......)))))))))((((...-..))))...))).....(((((((..((((....))))...))))))).)))) ( -35.10)
>DroVir_CAF1 42387 92 - 1
-------------------------GA--GGGUGUAAAAAACGCACCUGCUUCUGGUU-UGCCAACAACAGCGACGUCCAAUUCGCUGUUGCUGAGAUUGUUCUGCAAUUGCAGCAGCCC
-------------------------..--((((((.......))))))(((.(((..(-(((((.(((((((((........))))))))).))(((....)))))))...))).))).. ( -32.00)
>DroSec_CAF1 4887 110 - 1
UCUUUGUAUGACUGG-GUGAUUU--------GGAUGGGCAACGGACCUGCCUGUUGUUCUGUCUUC-UCGGCAACUUCCAACUCGCUGCAGCUCAGGUUGUUCUGCAAUUGCAGCAGCCC
........(((((((-((((.((--------(((.(((((((((......)))))))))((((...-..))))...))))).))))).))).)))(((((..((((....))))))))). ( -39.80)
>DroEre_CAF1 4507 116 - 1
UCUUUGUAUGACUGG-GUGAUUGGAAA--GGGAAUGGGCAACGGACCUGCCUGUUGUUCUGUCUUC-UCGGCAACUUCCAACUCGCUGCAGCUCAGGUUGUUCUGCAAUUGCAGCAGCCC
........(((((((-((((((((((.--(((((.(((((((((......)))))))))....)))-))(....))))))).))))).))).)))(((((..((((....))))))))). ( -42.60)
>DroYak_CAF1 5154 119 - 1
UCUUUGUAUGAUUCGAAUGAGGGGGAAUGGGGAAUGGGCAACGGACCUGCCUGUUGUUCUGUCUUC-UCGGCAACUUCCAACUCGCUGCAGCUCAGGUUGUUCUGCAAUUGCAGCAGCCC
..................(((..((((.(((((..(((((((((......)))))))))..)))))-..(....)))))..)))(((((((..((((....))))...)))))))..... ( -39.90)
>DroMoj_CAF1 43442 92 - 1
-------------------------AA--UGGUGUAAAUAACGCACCUGCUUCUGGUU-UGCCAACAACAGCGACGUCCAAUUCGCUGUUGCUGAGAUUGUUCUGCAAUUGCAGCAGCCC
-------------------------..--.(((((.......))))).(((.(((..(-(((((.(((((((((........))))))))).))(((....)))))))...))).))).. ( -30.60)
>consensus
UCUUUGUAUGACUGG_GUGAUU___AA__GGGAAUGGGCAACGGACCUGCCUGUUGUUCUGUCUUC_UCGGCAACUUCCAACUCGCUGCAGCUCAGGUUGUUCUGCAAUUGCAGCAGCCC
................................((((((((.......))))))))....((((......))))...........(((((.((...(((((.....))))))).))))).. (-19.17 = -17.90 +  -1.27)

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 12:04:18 2006