Locus 8671

Sequence ID X_DroMel_CAF1
Location 21,962,013 – 21,962,169
Length 156
Max. P 0.999941
window14255 window14256 window14257 window14258

overview

Window 5

Location 21,962,013 – 21,962,133
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.50
Mean single sequence MFE -25.00
Consensus MFE -23.26
Energy contribution -23.70
Covariance contribution 0.44
Combinations/Pair 1.05
Mean z-score -3.32
Structure conservation index 0.93
SVM decision value 4.71
SVM RNA-class probability 0.999941
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21962013 120 + 22224390
UAAUCGACAAAACACACAGAAACACCCUAGGCCGGUUCACACAUACCACCAGACAUAUUGCGUAUACGCUGACCAUAUUGCGUAUACUCAACCAACACAAUAGCUCCGCCAGCCAUCCAA
.............................(((.(((........)))..........(((.((((((((..........)))))))).)))................))).......... ( -20.50)
>DroSec_CAF1 24395 120 + 1
UAAUCGACAAAACACACAGAAACACCCUAGGCCGGCUCACACAUACCACCAGACAUAUUGCGUAUACGCUGACCAUAUUGCGUAUACGCAACCAACACAAUAGCUCCGCCAGCCAUCCAA
.............................(((.(((..........(....).....((((((((((((..........))))))))))))................))).)))...... ( -27.60)
>DroSim_CAF1 13611 120 + 1
UAAUCGACAAAACACACAGAAACACCCUAGGCCGGCUCACACAUACCACCAGACAUAUUGCGUAUACGCUGACCAUAUUGCGUAUACGCAACCAACACAAUAGCUCCGCCAGCCAUCCAA
.............................(((.(((..........(....).....((((((((((((..........))))))))))))................))).)))...... ( -27.60)
>DroEre_CAF1 9653 120 + 1
UAAUCGACAAAACACACAGAAACACCCUAGGCCGGCUCACACACACCGCCACACAUAUUGCGUAUACGCUGGCCAUAUUGCGUAUACGCCACCAACACAAUAGCUCCGCCAGCCAGCCAA
.............................(((.((((......................((((((((((..........)))))))))).............((...)).)))).))).. ( -27.00)
>DroYak_CAF1 16723 120 + 1
UAAUCGACAAAACACACAGAAACACCCUAGGCCGCCUCACACAUACCGCCACACAUAUUGCGUAUACGCUGGCCAUAUUGCGUAUACGCAACCAACACAAUAGCUCCGCCAGCCAUCCAA
.............................(((.((............))........((((((((((((..........))))))))))))................))).......... ( -22.30)
>consensus
UAAUCGACAAAACACACAGAAACACCCUAGGCCGGCUCACACAUACCACCAGACAUAUUGCGUAUACGCUGACCAUAUUGCGUAUACGCAACCAACACAAUAGCUCCGCCAGCCAUCCAA
.............................(((.(((.....................((((((((((((..........))))))))))))....(......)....))).)))...... (-23.26 = -23.70 +   0.44)

alignment

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secondary structure

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dotplot

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Window 6

Location 21,962,013 – 21,962,133
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.50
Mean single sequence MFE -38.96
Consensus MFE -33.52
Energy contribution -33.72
Covariance contribution 0.20
Combinations/Pair 1.05
Mean z-score -1.92
Structure conservation index 0.86
SVM decision value 1.59
SVM RNA-class probability 0.965890
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21962013 120 - 22224390
UUGGAUGGCUGGCGGAGCUAUUGUGUUGGUUGAGUAUACGCAAUAUGGUCAGCGUAUACGCAAUAUGUCUGGUGGUAUGUGUGAACCGGCCUAGGGUGUUUCUGUGUGUUUUGUCGAUUA
((((..(((..((((((.((((.((..(((((.((.((((((.(((..(((((((((.....))))).))))..))))))))).))))))))).)))).))))))..)))...))))... ( -33.80)
>DroSec_CAF1 24395 120 - 1
UUGGAUGGCUGGCGGAGCUAUUGUGUUGGUUGCGUAUACGCAAUAUGGUCAGCGUAUACGCAAUAUGUCUGGUGGUAUGUGUGAGCCGGCCUAGGGUGUUUCUGUGUGUUUUGUCGAUUA
..((.(((((.(((.(((((((......(((((((((((((..........)))))))))))))......)))))).).))).))))).))(((((..(......)..)))))....... ( -39.00)
>DroSim_CAF1 13611 120 - 1
UUGGAUGGCUGGCGGAGCUAUUGUGUUGGUUGCGUAUACGCAAUAUGGUCAGCGUAUACGCAAUAUGUCUGGUGGUAUGUGUGAGCCGGCCUAGGGUGUUUCUGUGUGUUUUGUCGAUUA
..((.(((((.(((.(((((((......(((((((((((((..........)))))))))))))......)))))).).))).))))).))(((((..(......)..)))))....... ( -39.00)
>DroEre_CAF1 9653 120 - 1
UUGGCUGGCUGGCGGAGCUAUUGUGUUGGUGGCGUAUACGCAAUAUGGCCAGCGUAUACGCAAUAUGUGUGGCGGUGUGUGUGAGCCGGCCUAGGGUGUUUCUGUGUGUUUUGUCGAUUA
(((((.(((((((...((((((.....))))))...((((((.(((.((((((((((.....)))))).)))).))))))))).)))))))..(((....))).........)))))... ( -42.80)
>DroYak_CAF1 16723 120 - 1
UUGGAUGGCUGGCGGAGCUAUUGUGUUGGUUGCGUAUACGCAAUAUGGCCAGCGUAUACGCAAUAUGUGUGGCGGUAUGUGUGAGGCGGCCUAGGGUGUUUCUGUGUGUUUUGUCGAUUA
((((..(((..((((((.((((.((..((((((.(.((((((.(((.((((((((((.....)))))).)))).)))))))))).)))))))).)))).))))))..)))...))))... ( -40.20)
>consensus
UUGGAUGGCUGGCGGAGCUAUUGUGUUGGUUGCGUAUACGCAAUAUGGUCAGCGUAUACGCAAUAUGUCUGGUGGUAUGUGUGAGCCGGCCUAGGGUGUUUCUGUGUGUUUUGUCGAUUA
((((..(((..((((((.((((.((...(((((((((((((..........)))))))))))))......((((((........))).))))).)))).))))))..)))...))))... (-33.52 = -33.72 +   0.20)

alignment

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secondary structure

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dotplot

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Window 7

Location 21,962,053 – 21,962,169
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.27
Mean single sequence MFE -22.50
Consensus MFE -20.30
Energy contribution -20.70
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.25
Structure conservation index 0.90
SVM decision value 3.25
SVM RNA-class probability 0.998849
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21962053 116 + 22224390
ACAUACCACCAGACAUAUUGCGUAUACGCUGACCAUAUUGCGUAUACUCAACCAACACAAUAGCUCCGCCAGCCAUCCAAUGCCAAACCGCUUAAAGCCA----AAAUUGCCAGCGACAA
...........(.(((.(((.((((((((..........)))))))).)))...........(((.....)))......))).)....((((....((..----.....)).)))).... ( -17.90)
>DroSec_CAF1 24435 116 + 1
ACAUACCACCAGACAUAUUGCGUAUACGCUGACCAUAUUGCGUAUACGCAACCAACACAAUAGCUCCGCCAGCCAUCCAAUGCCAAACCGCUUAAAGCCA----AAAUUGCCAGCGACAA
...........(.(((.((((((((((((..........))))))))))))...........(((.....)))......))).)....((((....((..----.....)).)))).... ( -23.70)
>DroSim_CAF1 13651 116 + 1
ACAUACCACCAGACAUAUUGCGUAUACGCUGACCAUAUUGCGUAUACGCAACCAACACAAUAGCUCCGCCAGCCAUCCAAUGCCAAACCGCUUAAAGCCA----AAAUUGCCAGCGACAA
...........(.(((.((((((((((((..........))))))))))))...........(((.....)))......))).)....((((....((..----.....)).)))).... ( -23.70)
>DroEre_CAF1 9693 119 + 1
ACACACCGCCACACAUAUUGCGUAUACGCUGGCCAUAUUGCGUAUACGCCACCAACACAAUAGCUCCGCCAGCCAGCCAAUGCCAAACCGCUUAAAGCCAAC-AAAAUUGCCAGCGACAA
......(((..........((((((((((..........))))))))))........((((.(((.....)))..((....((......)).....))....-...))))...))).... ( -22.60)
>DroYak_CAF1 16763 120 + 1
ACAUACCGCCACACAUAUUGCGUAUACGCUGGCCAUAUUGCGUAUACGCAACCAACACAAUAGCUCCGCCAGCCAUCCAAUGCCAAACCGCUUAAAGCCAACGAAAAUUGCCAGCGACAA
......(((........((((((((((((..........))))))))))))......((((.(((.....)))................((.....))........))))...))).... ( -24.60)
>consensus
ACAUACCACCAGACAUAUUGCGUAUACGCUGACCAUAUUGCGUAUACGCAACCAACACAAUAGCUCCGCCAGCCAUCCAAUGCCAAACCGCUUAAAGCCA____AAAUUGCCAGCGACAA
.................((((((((((((..........))))))))))))...............(((..((((.....)).......((.....))...........))..))).... (-20.30 = -20.70 +   0.40)

alignment

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secondary structure

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dotplot

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Window 8

Location 21,962,053 – 21,962,169
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.27
Mean single sequence MFE -40.48
Consensus MFE -37.32
Energy contribution -37.92
Covariance contribution 0.60
Combinations/Pair 1.05
Mean z-score -2.60
Structure conservation index 0.92
SVM decision value 4.23
SVM RNA-class probability 0.999842
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21962053 116 - 22224390
UUGUCGCUGGCAAUUU----UGGCUUUAAGCGGUUUGGCAUUGGAUGGCUGGCGGAGCUAUUGUGUUGGUUGAGUAUACGCAAUAUGGUCAGCGUAUACGCAAUAUGUCUGGUGGUAUGU
.(..(((..(((((..----(((((((.(((.((((......)))).)))...)))))))..))....((((.((((((((..........)))))))).)))).)).)..)))..)... ( -35.80)
>DroSec_CAF1 24435 116 - 1
UUGUCGCUGGCAAUUU----UGGCUUUAAGCGGUUUGGCAUUGGAUGGCUGGCGGAGCUAUUGUGUUGGUUGCGUAUACGCAAUAUGGUCAGCGUAUACGCAAUAUGUCUGGUGGUAUGU
.(..(((..(((((..----(((((((.(((.((((......)))).)))...)))))))..))....(((((((((((((..........))))))))))))).)).)..)))..)... ( -41.50)
>DroSim_CAF1 13651 116 - 1
UUGUCGCUGGCAAUUU----UGGCUUUAAGCGGUUUGGCAUUGGAUGGCUGGCGGAGCUAUUGUGUUGGUUGCGUAUACGCAAUAUGGUCAGCGUAUACGCAAUAUGUCUGGUGGUAUGU
.(..(((..(((((..----(((((((.(((.((((......)))).)))...)))))))..))....(((((((((((((..........))))))))))))).)).)..)))..)... ( -41.50)
>DroEre_CAF1 9693 119 - 1
UUGUCGCUGGCAAUUUU-GUUGGCUUUAAGCGGUUUGGCAUUGGCUGGCUGGCGGAGCUAUUGUGUUGGUGGCGUAUACGCAAUAUGGCCAGCGUAUACGCAAUAUGUGUGGCGGUGUGU
..(((((..(((.....-..((((((...((.(.(..((....))..).).)).))))))...)))..)))))......(((.(((.((((((((((.....)))))).)))).)))))) ( -40.20)
>DroYak_CAF1 16763 120 - 1
UUGUCGCUGGCAAUUUUCGUUGGCUUUAAGCGGUUUGGCAUUGGAUGGCUGGCGGAGCUAUUGUGUUGGUUGCGUAUACGCAAUAUGGCCAGCGUAUACGCAAUAUGUGUGGCGGUAUGU
(((((((..(((((((((((..(((((((((......)).))))..)))..))))))..)))))....(((((((((((((..........)))))))))))))....)))))))..... ( -43.40)
>consensus
UUGUCGCUGGCAAUUU____UGGCUUUAAGCGGUUUGGCAUUGGAUGGCUGGCGGAGCUAUUGUGUUGGUUGCGUAUACGCAAUAUGGUCAGCGUAUACGCAAUAUGUCUGGUGGUAUGU
.(..((((((((((......(((((((.(((.((((......)))).)))...)))))))....))))(((((((((((((..........)))))))))))))....))))))..)... (-37.32 = -37.92 +   0.60)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:00 2006