Locus 7255

Sequence ID X_DroMel_CAF1
Location 18,096,470 – 18,096,682
Length 212
Max. P 0.984090
window11876 window11877 window11878 window11879 window11880

overview

Window 6

Location 18,096,470 – 18,096,579
Length 109
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 84.10
Mean single sequence MFE -28.82
Consensus MFE -19.90
Energy contribution -22.77
Covariance contribution 2.87
Combinations/Pair 1.10
Mean z-score -2.57
Structure conservation index 0.69
SVM decision value 1.47
SVM RNA-class probability 0.956919
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18096470 109 + 22224390
CAGCAACAAUAACAUGCGAUAGCUGCAACAACAACUGCUCAGAGCCAUAAUAAACAAACAAUUACGGUUUCAUUUUGUUGCAGUUGCAGCCCGGCAGUGGAAGUUGCUG
(((((((....((.(((....((((((((..((((......(((((.((((.........)))).)))))......))))..))))))))...)))))....))))))) ( -35.80)
>DroSec_CAF1 5083 109 + 1
CAGCAACAAUAACAUGCGAUAGCUGCAACAACAACUGCUCAGAGUCAUAAUAAACAAACAAUUACGGUUUCAUUUUGUUGCAGUUGCAGUCCGGCAGUGGAAGUUGCUG
(((((((....((.(((....((((((((..((((......((..(.((((.........)))).)..))......))))..))))))))...)))))....))))))) ( -29.90)
>DroSim_CAF1 4628 109 + 1
CAGCAACAAUAACAUGCGAUAGCUGCAACAACAACUGCUCAGAGCCAUAAUAAACAAACAAUUACGGUUUCAUUUUGUUGCAGUUGCAGUCCGGCAGUGGAAGUUGCUG
(((((((....((.(((....((((((((..((((......(((((.((((.........)))).)))))......))))..))))))))...)))))....))))))) ( -34.20)
>DroEre_CAF1 3278 89 + 1
CAACAACAGCAACAUGCGAUUGCCACAGCAACAACUGCACAGAGCCAUAAUAAACGAACAAUUACGCUUUCAUUUUGUUGGAGCU--------------------GCAG
...(((..((.....))..)))...((((..((((.....(((((..((((.........)))).)))))......))))..)))--------------------)... ( -15.40)
>consensus
CAGCAACAAUAACAUGCGAUAGCUGCAACAACAACUGCUCAGAGCCAUAAUAAACAAACAAUUACGGUUUCAUUUUGUUGCAGUUGCAGUCCGGCAGUGGAAGUUGCUG
(((((((.......(((....((((((((..((((......(((((.((((.........)))).)))))......))))..))))))))...)))......))))))) (-19.90 = -22.77 +   2.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 18,096,470 – 18,096,579
Length 109
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 84.10
Mean single sequence MFE -33.00
Consensus MFE -21.02
Energy contribution -22.78
Covariance contribution 1.75
Combinations/Pair 1.10
Mean z-score -2.79
Structure conservation index 0.64
SVM decision value 1.35
SVM RNA-class probability 0.945210
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18096470 109 - 22224390
CAGCAACUUCCACUGCCGGGCUGCAACUGCAACAAAAUGAAACCGUAAUUGUUUGUUUAUUAUGGCUCUGAGCAGUUGUUGUUGCAGCUAUCGCAUGUUAUUGUUGCUG
(((((((....(((((..(((((((((.(((((.....((..(((((((.........))))))).))......))))).)))))))))...))).))....))))))) ( -40.20)
>DroSec_CAF1 5083 109 - 1
CAGCAACUUCCACUGCCGGACUGCAACUGCAACAAAAUGAAACCGUAAUUGUUUGUUUAUUAUGACUCUGAGCAGUUGUUGUUGCAGCUAUCGCAUGUUAUUGUUGCUG
(((((((....(((((.((.(((((((.(((((...(((....)))...((((((((......)))...)))))))))).)))))))))...))).))....))))))) ( -32.90)
>DroSim_CAF1 4628 109 - 1
CAGCAACUUCCACUGCCGGACUGCAACUGCAACAAAAUGAAACCGUAAUUGUUUGUUUAUUAUGGCUCUGAGCAGUUGUUGUUGCAGCUAUCGCAUGUUAUUGUUGCUG
(((((((....(((((.((.(((((((.(((((.....((..(((((((.........))))))).))......))))).)))))))))...))).))....))))))) ( -34.90)
>DroEre_CAF1 3278 89 - 1
CUGC--------------------AGCUCCAACAAAAUGAAAGCGUAAUUGUUCGUUUAUUAUGGCUCUGUGCAGUUGUUGCUGUGGCAAUCGCAUGUUGCUGUUGUUG
..((--------------------(((..((((...(((((((((........))))).)))).((.....)).))))..)))))((((((.((.....)).)))))). ( -24.00)
>consensus
CAGCAACUUCCACUGCCGGACUGCAACUGCAACAAAAUGAAACCGUAAUUGUUUGUUUAUUAUGGCUCUGAGCAGUUGUUGUUGCAGCUAUCGCAUGUUAUUGUUGCUG
(((((((.(((......)))(((((((..((((..........((((((.........))))))((.....)).))))..)))))))...............))))))) (-21.02 = -22.78 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 18,096,540 – 18,096,642
Length 102
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.50
Mean single sequence MFE -38.70
Consensus MFE -23.63
Energy contribution -23.14
Covariance contribution -0.49
Combinations/Pair 1.46
Mean z-score -2.32
Structure conservation index 0.61
SVM decision value 1.96
SVM RNA-class probability 0.984090
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18096540 102 + 22224390
CAUUUUGUUGCA-GUUGCAGCCCGGCAGUGGAAGUUGCUGCCUGGCCCUGGUAUUGCAGCA--------GUUGCA-----AGUCUCCAUAUUGGCUAGCAG-UGCCACU---UGGGCCUG
......(((((.-...)))))..(((((..(...)..))))).((((((((((((((.((.--------...)).-----((((........)))).))))-)))))..---.))))).. ( -44.70)
>DroSec_CAF1 5153 102 + 1
CAUUUUGUUGCA-GUUGCAGUCCGGCAGUGGAAGUUGCUGCCUGGCCCUGGUAUUGCAGCA--------GUUGCA-----AGUCUCCAUAUUGGCUAGCAG-UGCCACU---UGGGCCUG
.......((((.-...))))...(((((..(...)..))))).((((((((((((((.((.--------...)).-----((((........)))).))))-)))))..---.))))).. ( -41.70)
>DroSim_CAF1 4698 102 + 1
CAUUUUGUUGCA-GUUGCAGUCCGGCAGUGGAAGUUGCUGCCUGGCCCUGGUAUUGCAGCA--------GUUGCA-----AGUCUCCAUAUUGGCUAGCAA-UGCCACU---UGGGCCUG
.......((((.-...))))...(((((..(...)..))))).((((((((((((((.((.--------...)).-----((((........)))).))))-)))))..---.))))).. ( -41.70)
>DroEre_CAF1 3348 82 + 1
CAUUUUGUUGGA-GCU--------------------GCAGCCUGGCCCUGGUACUGCCGCA--------GUUGCA-----GGUCUCCAUCUUGGCUAGCAG-UGCCACA---UGGGCCUG
......((((..-...--------------------.))))..((((((((((((((.((.--------...)).-----((((........)))).))))-)))))..---.))))).. ( -32.50)
>DroYak_CAF1 4033 102 + 1
CAUUUUGUUGCA-GUUGCGGCCUGGCAGUGGAAGUUGCAACCUGGCCCUGGUACUGCAGCA--------GUUGCA-----UGUCUCCAUAUUGGCUGGCAG-UGCCACU---UGGGCCUG
......((((((-...((..((.......))..))))))))..((((((((((((((.((.--------...)).-----.(((........)))..))))-)))))..---.))))).. ( -39.40)
>DroAna_CAF1 6357 112 + 1
CAUUUUGUUGCACGUUGCAA---GGCAAUGGU-GUUGU----UGGUGUUGGUGUUGCAGUGGCACUUUUGUCGCAAAAACAGUCUCCAUAUUGGCUGGCAAAUACUAUAUACUGUAUAUA
((((.(.((((.....))))---.).))))((-((...----(((((((((((((((.((((((....)))))).....(((((........))))))).))))))).)))))).)))). ( -32.20)
>consensus
CAUUUUGUUGCA_GUUGCAG_CCGGCAGUGGAAGUUGCUGCCUGGCCCUGGUAUUGCAGCA________GUUGCA_____AGUCUCCAUAUUGGCUAGCAG_UGCCACU___UGGGCCUG
..(((..((((.............))))..)))..........((((((((((((((.(((..........)))......((((........)))).)))).)))))......))))).. (-23.63 = -23.14 +  -0.49)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 18,096,579 – 18,096,682
Length 103
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.02
Mean single sequence MFE -42.39
Consensus MFE -32.14
Energy contribution -30.62
Covariance contribution -1.52
Combinations/Pair 1.48
Mean z-score -2.71
Structure conservation index 0.76
SVM decision value 1.67
SVM RNA-class probability 0.971189
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18096579 103 + 22224390
CCUGGCCCUGGUAUUGCAGCA--------GUUGCA-----AGUCUCCAUAUUGGCUAGCAG-UGCCACU---UGGGCCUGCCCCGCCCCCGAAUGCCCCACCAGGGGGCACUGCUCCGCA
...((((((((((((((.((.--------...)).-----((((........)))).))))-)))))..---.))))).((...((((((.............))))))...))...... ( -43.62)
>DroSec_CAF1 5192 103 + 1
CCUGGCCCUGGUAUUGCAGCA--------GUUGCA-----AGUCUCCAUAUUGGCUAGCAG-UGCCACU---UGGGCCUGCCCCGCCCCCAAAUGCCCCACCAGGGGGCACCGCUCUGCA
...((((((((((((((.((.--------...)).-----((((........)))).))))-)))))..---.))))).((...((((((.............))))))...))...... ( -42.92)
>DroSim_CAF1 4737 102 + 1
CCUGGCCCUGGUAUUGCAGCA--------GUUGCA-----AGUCUCCAUAUUGGCUAGCAA-UGCCACU---UGGGCCUGCCCCGCCCCCAAAUGCCCCACCAGG-GGCACCACUCCGCA
...((((((((((((((.((.--------...)).-----((((........)))).))))-)))))..---.)))))......((.......((((((....))-)))).......)). ( -42.14)
>DroEre_CAF1 3367 103 + 1
CCUGGCCCUGGUACUGCCGCA--------GUUGCA-----GGUCUCCAUCUUGGCUAGCAG-UGCCACA---UGGGCCUGCCCCGCCCCCACAUUCCCCACCAGGGGGCACAGCUCCGGA
((.((((((((((((((.((.--------...)).-----((((........)))).))))-)))))..---.))))).((...((((((.............))))))...))...)). ( -45.72)
>DroYak_CAF1 4072 96 + 1
CCUGGCCCUGGUACUGCAGCA--------GUUGCA-----UGUCUCCAUAUUGGCUGGCAG-UGCCACU---UGGGCCUGCCCCGCCCCCAAAUGCCCCACCAGGGGGCACUG-------
...((((((((((((((.((.--------...)).-----.(((........)))..))))-)))))..---.)))))......((((((.............))))))....------- ( -43.02)
>DroAna_CAF1 6391 118 + 1
--UGGUGUUGGUGUUGCAGUGGCACUUUUGUCGCAAAAACAGUCUCCAUAUUGGCUGGCAAAUACUAUAUACUGUAUAUACCCCUGCCUCCUAAGCCCCACCAGGGGGCACUGCCACAGA
--((((...((((((((.((((((....)))))).....(((((........)))))))))((((........)))).))))..((((((((..........))))))))..)))).... ( -36.90)
>consensus
CCUGGCCCUGGUAUUGCAGCA________GUUGCA_____AGUCUCCAUAUUGGCUAGCAG_UGCCACU___UGGGCCUGCCCCGCCCCCAAAUGCCCCACCAGGGGGCACUGCUCCGCA
...((((((((((((((.(((..........)))......((((........)))).)))).)))))......)))))......((((((.............))))))........... (-32.14 = -30.62 +  -1.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 18,096,579 – 18,096,682
Length 103
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.02
Mean single sequence MFE -43.12
Consensus MFE -28.57
Energy contribution -29.05
Covariance contribution 0.48
Combinations/Pair 1.27
Mean z-score -1.20
Structure conservation index 0.66
SVM decision value -0.02
SVM RNA-class probability 0.525036
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18096579 103 - 22224390
UGCGGAGCAGUGCCCCCUGGUGGGGCAUUCGGGGGCGGGGCAGGCCCA---AGUGGCA-CUGCUAGCCAAUAUGGAGACU-----UGCAAC--------UGCUGCAAUACCAGGGCCAGG
......((..(((((((..(((...)))..)))))))..)).(((((.---..((((.-......))))...(((....(-----((((..--------...)))))..))))))))... ( -43.60)
>DroSec_CAF1 5192 103 - 1
UGCAGAGCGGUGCCCCCUGGUGGGGCAUUUGGGGGCGGGGCAGGCCCA---AGUGGCA-CUGCUAGCCAAUAUGGAGACU-----UGCAAC--------UGCUGCAAUACCAGGGCCAGG
......((..(((((((..(((...)))..)))))))..)).(((((.---..((((.-......))))...(((....(-----((((..--------...)))))..))))))))... ( -42.90)
>DroSim_CAF1 4737 102 - 1
UGCGGAGUGGUGCC-CCUGGUGGGGCAUUUGGGGGCGGGGCAGGCCCA---AGUGGCA-UUGCUAGCCAAUAUGGAGACU-----UGCAAC--------UGCUGCAAUACCAGGGCCAGG
...((..(((((((-((....))))).....(.(((((.(((((((((---..((((.-......))))...))).).))-----)))..)--------)))).)...))))...))... ( -42.70)
>DroEre_CAF1 3367 103 - 1
UCCGGAGCUGUGCCCCCUGGUGGGGAAUGUGGGGGCGGGGCAGGCCCA---UGUGGCA-CUGCUAGCCAAGAUGGAGACC-----UGCAAC--------UGCGGCAGUACCAGGGCCAGG
.((...(((.(((((((..((.....))..))))))).))).(((((.---..(((.(-(((((..((.....)).....-----.((...--------.)))))))).)))))))).)) ( -47.90)
>DroYak_CAF1 4072 96 - 1
-------CAGUGCCCCCUGGUGGGGCAUUUGGGGGCGGGGCAGGCCCA---AGUGGCA-CUGCCAGCCAAUAUGGAGACA-----UGCAAC--------UGCUGCAGUACCAGGGCCAGG
-------...(((((((..(((...)))..))))))).....(((((.---..(((.(-((((.(((...((((....))-----))....--------.)))))))).))))))))... ( -45.50)
>DroAna_CAF1 6391 118 - 1
UCUGUGGCAGUGCCCCCUGGUGGGGCUUAGGAGGCAGGGGUAUAUACAGUAUAUAGUAUUUGCCAGCCAAUAUGGAGACUGUUUUUGCGACAAAAGUGCCACUGCAACACCAACACCA--
..(((.((((((((((.....)))))......((((..((((.((((........)))).)))).((.((((.(....)))))...))........))))))))).))).........-- ( -36.10)
>consensus
UGCGGAGCAGUGCCCCCUGGUGGGGCAUUUGGGGGCGGGGCAGGCCCA___AGUGGCA_CUGCUAGCCAAUAUGGAGACU_____UGCAAC________UGCUGCAAUACCAGGGCCAGG
..............((((((((..((.......(((..((((((((........)))..))))).))).....(....)........................))..))))))))..... (-28.57 = -29.05 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:20 2006