Locus 5381

Sequence ID 3L_DroMel_CAF1
Location 14,789,715 – 14,789,933
Length 218
Max. P 0.999962
window8510 window8511 window8512 window8513 window8514

overview

Window 0

Location 14,789,715 – 14,789,826
Length 111
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 93.57
Mean single sequence MFE -37.39
Consensus MFE -31.51
Energy contribution -31.60
Covariance contribution 0.09
Combinations/Pair 1.10
Mean z-score -2.92
Structure conservation index 0.84
SVM decision value 1.97
SVM RNA-class probability 0.984362
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14789715 111 + 23771897
CAAUAUCCCCAUACACGCAACAC----ACACUCAAACAC--ACGGAUUGCUGUGGGACAUGACAGCUUUUGGCUGUCAUGUUUAGUCCGCGCGUUGUGUUGUGAUUUCCGUUUCCGC---
...............((((((((----(.......((.(--.(((((((......(((((((((((.....)))))))))))))))))).).)))))))))))..............--- ( -37.41)
>DroSec_CAF1 32881 111 + 1
CAAUAUCCCCAUAUACGCAACAC----ACACUCAAACAC--ACGGAUUGCUGUGGGACAUGACAGCUUUUGGCUGUCAUGUUUAGUCCGCGCGUUGUGUUGUGAUUUCCGUUUCCGC---
...............((((((((----(.......((.(--.(((((((......(((((((((((.....)))))))))))))))))).).)))))))))))..............--- ( -37.41)
>DroSim_CAF1 25132 111 + 1
CAAUAUCCCCAUACACGCAACAC----ACACUCAAACAC--ACGGAUUGCUGUGGGACAUGACAGCUUUUGGCUGUCAUGUUUAGUCCGCGCGUUGUGUUGUGAUUUCCGUUUCCGC---
...............((((((((----(.......((.(--.(((((((......(((((((((((.....)))))))))))))))))).).)))))))))))..............--- ( -37.41)
>DroEre_CAF1 32288 115 + 1
CAAUAUCCCCAUACAGGCAACACACACACACUCAAACAC--ACGGAUUGCUGUGGGACAUGACAGCUUUUGGCUGUCAUGUUUAGUCCGCGCGUUGUGUUGUGAUUUCCGUUUCCGC---
...............((.((((((.(((((.....((.(--.(((((((......(((((((((((.....)))))))))))))))))).).))))))))))).)).))........--- ( -36.40)
>DroYak_CAF1 34659 111 + 1
CAAUAUCCCCAUACACGCAACAC----ACACUCAAACAC--ACGGAUUGCUGUGGGACAUGACAGCUUUUGGCUGUCAUGUUUAGUCCGCGCGUUGUGUUGUGAUUUCCGUUUCCGC---
...............((((((((----(.......((.(--.(((((((......(((((((((((.....)))))))))))))))))).).)))))))))))..............--- ( -37.41)
>DroAna_CAF1 31349 115 + 1
CAAUAUCCCCACGCACACACC-G----ACACUCAUACACAUACGGGUGACUGUGGGACAUGACAGCUUUCGGCUGUCAUGUUUAGUCCGCGCGUUGUGUUGUGAUUUCCGUUUCCGCUCA
............((....((.-(----(...(((((((((.(((.(((((((...(((((((((((.....))))))))))))))).))).))))))).)))))..)).))....))... ( -38.30)
>consensus
CAAUAUCCCCAUACACGCAACAC____ACACUCAAACAC__ACGGAUUGCUGUGGGACAUGACAGCUUUUGGCUGUCAUGUUUAGUCCGCGCGUUGUGUUGUGAUUUCCGUUUCCGC___
.........((((.(((((((...............(......)....((.(((((((((((((((.....)))))))))))....)))))))))))))))))................. (-31.51 = -31.60 +   0.09)

alignment

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secondary structure

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dotplot

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Window 1

Location 14,789,750 – 14,789,865
Length 115
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 97.43
Mean single sequence MFE -43.53
Consensus MFE -40.06
Energy contribution -39.78
Covariance contribution -0.28
Combinations/Pair 1.05
Mean z-score -2.52
Structure conservation index 0.92
SVM decision value 3.46
SVM RNA-class probability 0.999243
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14789750 115 + 23771897
-ACGGAUUGCUGUGGGACAUGACAGCUUUUGGCUGUCAUGUUUAGUCCGCGCGUUGUGUUGUGAUUUCCGUUUCCGC----UGGCAAUCCGGCAAAUGCAUGCGGUUGUCUCUUUCACGC
-..(((((((((((((((((((((((.....))))))))))).......((((......))))..........))))----.))))))))(((((.((....)).))))).......... ( -43.40)
>DroSec_CAF1 32916 115 + 1
-ACGGAUUGCUGUGGGACAUGACAGCUUUUGGCUGUCAUGUUUAGUCCGCGCGUUGUGUUGUGAUUUCCGUUUCCGC----UGGCAAUCCGGCAAAUGCAUGCGGUUGUCUCUUUCACGC
-..(((((((((((((((((((((((.....))))))))))).......((((......))))..........))))----.))))))))(((((.((....)).))))).......... ( -43.40)
>DroSim_CAF1 25167 115 + 1
-ACGGAUUGCUGUGGGACAUGACAGCUUUUGGCUGUCAUGUUUAGUCCGCGCGUUGUGUUGUGAUUUCCGUUUCCGC----UGGCAAUCCGGCAAAUGCAUGCGGUUGUCUCUUUCACGC
-..(((((((((((((((((((((((.....))))))))))).......((((......))))..........))))----.))))))))(((((.((....)).))))).......... ( -43.40)
>DroEre_CAF1 32327 115 + 1
-ACGGAUUGCUGUGGGACAUGACAGCUUUUGGCUGUCAUGUUUAGUCCGCGCGUUGUGUUGUGAUUUCCGUUUCCGC----UGGCAAUCCGGCAAAUGCAUGCGGUUGUCUCUUUCACGC
-..(((((((((((((((((((((((.....))))))))))).......((((......))))..........))))----.))))))))(((((.((....)).))))).......... ( -43.40)
>DroYak_CAF1 34694 115 + 1
-ACGGAUUGCUGUGGGACAUGACAGCUUUUGGCUGUCAUGUUUAGUCCGCGCGUUGUGUUGUGAUUUCCGUUUCCGC----UGGCAAUCCGGCAAAUGCAUGCGGUUGUCUCUUUCACGC
-..(((((((((((((((((((((((.....))))))))))).......((((......))))..........))))----.))))))))(((((.((....)).))))).......... ( -43.40)
>DroAna_CAF1 31384 120 + 1
UACGGGUGACUGUGGGACAUGACAGCUUUCGGCUGUCAUGUUUAGUCCGCGCGUUGUGUUGUGAUUUCCGUUUCCGCUCACUGGCAAUCCGGCAAAUGCAUGCGGUUGUCUCUUUCACGC
(((((....)))))((((((((((((.....))))))))))))...(((((((((.(((((.((((.((((........)).)).))))))))))))))..))))............... ( -44.20)
>consensus
_ACGGAUUGCUGUGGGACAUGACAGCUUUUGGCUGUCAUGUUUAGUCCGCGCGUUGUGUUGUGAUUUCCGUUUCCGC____UGGCAAUCCGGCAAAUGCAUGCGGUUGUCUCUUUCACGC
...(((..(((((.((((((((((((.....)))))))))))).......(((((.(((((.((((.(((...........))).))))))))))))))..)))))..)))......... (-40.06 = -39.78 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 2

Location 14,789,750 – 14,789,865
Length 115
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 97.43
Mean single sequence MFE -38.35
Consensus MFE -36.37
Energy contribution -36.57
Covariance contribution 0.20
Combinations/Pair 1.03
Mean z-score -3.24
Structure conservation index 0.95
SVM decision value 4.92
SVM RNA-class probability 0.999962
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14789750 115 - 23771897
GCGUGAAAGAGACAACCGCAUGCAUUUGCCGGAUUGCCA----GCGGAAACGGAAAUCACAACACAACGCGCGGACUAAACAUGACAGCCAAAAGCUGUCAUGUCCCACAGCAAUCCGU-
(((((...(.......).)))))......((((((((..----.((....))..................(.((.....((((((((((.....)))))))))).)).).)))))))).- ( -37.80)
>DroSec_CAF1 32916 115 - 1
GCGUGAAAGAGACAACCGCAUGCAUUUGCCGGAUUGCCA----GCGGAAACGGAAAUCACAACACAACGCGCGGACUAAACAUGACAGCCAAAAGCUGUCAUGUCCCACAGCAAUCCGU-
(((((...(.......).)))))......((((((((..----.((....))..................(.((.....((((((((((.....)))))))))).)).).)))))))).- ( -37.80)
>DroSim_CAF1 25167 115 - 1
GCGUGAAAGAGACAACCGCAUGCAUUUGCCGGAUUGCCA----GCGGAAACGGAAAUCACAACACAACGCGCGGACUAAACAUGACAGCCAAAAGCUGUCAUGUCCCACAGCAAUCCGU-
(((((...(.......).)))))......((((((((..----.((....))..................(.((.....((((((((((.....)))))))))).)).).)))))))).- ( -37.80)
>DroEre_CAF1 32327 115 - 1
GCGUGAAAGAGACAACCGCAUGCAUUUGCCGGAUUGCCA----GCGGAAACGGAAAUCACAACACAACGCGCGGACUAAACAUGACAGCCAAAAGCUGUCAUGUCCCACAGCAAUCCGU-
(((((...(.......).)))))......((((((((..----.((....))..................(.((.....((((((((((.....)))))))))).)).).)))))))).- ( -37.80)
>DroYak_CAF1 34694 115 - 1
GCGUGAAAGAGACAACCGCAUGCAUUUGCCGGAUUGCCA----GCGGAAACGGAAAUCACAACACAACGCGCGGACUAAACAUGACAGCCAAAAGCUGUCAUGUCCCACAGCAAUCCGU-
(((((...(.......).)))))......((((((((..----.((....))..................(.((.....((((((((((.....)))))))))).)).).)))))))).- ( -37.80)
>DroAna_CAF1 31384 120 - 1
GCGUGAAAGAGACAACCGCAUGCAUUUGCCGGAUUGCCAGUGAGCGGAAACGGAAAUCACAACACAACGCGCGGACUAAACAUGACAGCCGAAAGCUGUCAUGUCCCACAGUCACCCGUA
(((((.....(.((((((((......)).))).))).).((((.((....))....)))).......))))).((((..(((((((((.(....)))))))))).....))))....... ( -41.10)
>consensus
GCGUGAAAGAGACAACCGCAUGCAUUUGCCGGAUUGCCA____GCGGAAACGGAAAUCACAACACAACGCGCGGACUAAACAUGACAGCCAAAAGCUGUCAUGUCCCACAGCAAUCCGU_
(((((...(.......).)))))......((((((((.......((....))..................(.((.....((((((((((.....)))))))))).)).).)))))))).. (-36.37 = -36.57 +   0.20)

alignment

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secondary structure

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dotplot

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Window 3

Location 14,789,826 – 14,789,933
Length 107
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 98.88
Mean single sequence MFE -27.82
Consensus MFE -25.57
Energy contribution -25.77
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.56
Structure conservation index 0.92
SVM decision value 0.80
SVM RNA-class probability 0.853046
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14789826 107 + 23771897
UGGCAAUCCGGCAAAUGCAUGCGGUUGUCUCUUUCACGCUUUUUACGCACCGCACGCUACGUGUCGCCGCCAAUAAAAAGUACAAACAAAAAACCGACAGCCGGAAA-
......((((((.......(((((((...........((((((((.((..((((((...)))).))..))...))))))))..........))))).))))))))..- ( -27.71)
>DroSec_CAF1 32992 107 + 1
UGGCAAUCCGGCAAAUGCAUGCGGUUGUCUCUUUCACGCUUUUUACGCACCGCACGCUACGUGUCGCCGCCAAUAAAAAGUACAAACAAAAAACCGACAGCCGGAAA-
......((((((.......(((((((...........((((((((.((..((((((...)))).))..))...))))))))..........))))).))))))))..- ( -27.71)
>DroSim_CAF1 25243 107 + 1
UGGCAAUCCGGCAAAUGCAUGCGGUUGUCUCUUUCACGCUUUUUACGCACCUCACGCUACGUGUCGCCGCCAAUAAAAAGUACAAACAAAAAACCGACAGCCGGAAA-
......((((((.......(((((((...........((((((((.((.(..((((...))))..)..))...))))))))..........))))).))))))))..- ( -25.61)
>DroEre_CAF1 32403 107 + 1
UGGCAAUCCGGCAAAUGCAUGCGGUUGUCUCUUUCACGCUUUUUACGCACCGCACGCUACGUGUCGCCGCCAAUAAAAAGUACAAACAAAAAAGCGACAGCCGGAAA-
......((((((....((.((((((.((.......))((.......)))))))).))....((((((..........................))))))))))))..- ( -30.37)
>DroYak_CAF1 34770 108 + 1
UGGCAAUCCGGCAAAUGCAUGCGGUUGUCUCUUUCACGCUUUUUACGCACCGCACGCUACGUGUCGCCGCCAAUAAAAAGUACAAACAAAAAACCGACAGCCGGAAAA
......((((((.......(((((((...........((((((((.((..((((((...)))).))..))...))))))))..........))))).))))))))... ( -27.71)
>consensus
UGGCAAUCCGGCAAAUGCAUGCGGUUGUCUCUUUCACGCUUUUUACGCACCGCACGCUACGUGUCGCCGCCAAUAAAAAGUACAAACAAAAAACCGACAGCCGGAAA_
......((((((....((.((((((.((.......))((.......)))))))).))....(((((............................)))))))))))... (-25.57 = -25.77 +   0.20)

alignment

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secondary structure

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dotplot

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Window 4

Location 14,789,826 – 14,789,933
Length 107
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 98.88
Mean single sequence MFE -35.96
Consensus MFE -33.74
Energy contribution -33.94
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.61
Structure conservation index 0.94
SVM decision value 1.15
SVM RNA-class probability 0.922175
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14789826 107 - 23771897
-UUUCCGGCUGUCGGUUUUUUGUUUGUACUUUUUAUUGGCGGCGACACGUAGCGUGCGGUGCGUAAAAAGCGUGAAAGAGACAACCGCAUGCAUUUGCCGGAUUGCCA
-..((((((((((((((((((.((((..((((((((..(((.((.((((...)))))).)))))))))))..)))).)))).)))))...)))...))))))...... ( -36.00)
>DroSec_CAF1 32992 107 - 1
-UUUCCGGCUGUCGGUUUUUUGUUUGUACUUUUUAUUGGCGGCGACACGUAGCGUGCGGUGCGUAAAAAGCGUGAAAGAGACAACCGCAUGCAUUUGCCGGAUUGCCA
-..((((((((((((((((((.((((..((((((((..(((.((.((((...)))))).)))))))))))..)))).)))).)))))...)))...))))))...... ( -36.00)
>DroSim_CAF1 25243 107 - 1
-UUUCCGGCUGUCGGUUUUUUGUUUGUACUUUUUAUUGGCGGCGACACGUAGCGUGAGGUGCGUAAAAAGCGUGAAAGAGACAACCGCAUGCAUUUGCCGGAUUGCCA
-..((((((((((((((((((.((((..((((((......(....)(((((.(....).)))))))))))..)))).)))).)))))...)))...))))))...... ( -33.10)
>DroEre_CAF1 32403 107 - 1
-UUUCCGGCUGUCGCUUUUUUGUUUGUACUUUUUAUUGGCGGCGACACGUAGCGUGCGGUGCGUAAAAAGCGUGAAAGAGACAACCGCAUGCAUUUGCCGGAUUGCCA
-..(((((((((((((.....((..(((.....)))..)))))))))....(((((((((((((.....))))..........)))))))))....))))))...... ( -38.70)
>DroYak_CAF1 34770 108 - 1
UUUUCCGGCUGUCGGUUUUUUGUUUGUACUUUUUAUUGGCGGCGACACGUAGCGUGCGGUGCGUAAAAAGCGUGAAAGAGACAACCGCAUGCAUUUGCCGGAUUGCCA
...((((((((((((((((((.((((..((((((((..(((.((.((((...)))))).)))))))))))..)))).)))).)))))...)))...))))))...... ( -36.00)
>consensus
_UUUCCGGCUGUCGGUUUUUUGUUUGUACUUUUUAUUGGCGGCGACACGUAGCGUGCGGUGCGUAAAAAGCGUGAAAGAGACAACCGCAUGCAUUUGCCGGAUUGCCA
...(((((((((((.....((((..(((.....)))..)))))))))....(((((((((((((.....))))..........)))))))))....))))))...... (-33.74 = -33.94 +   0.20)

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 11:48:54 2006