Locus 6156

Sequence ID X_DroMel_CAF1
Location 15,718,970 – 15,719,174
Length 204
Max. P 0.999263
window10019 window10020 window10021 window10022 window10023 window10024

overview

Window 9

Location 15,718,970 – 15,719,084
Length 114
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 96.67
Mean single sequence MFE -42.42
Consensus MFE -41.26
Energy contribution -41.54
Covariance contribution 0.28
Combinations/Pair 1.06
Mean z-score -2.06
Structure conservation index 0.97
SVM decision value 3.47
SVM RNA-class probability 0.999263
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15718970 114 - 22224390
GUGGCUGCUGGGAAUACCAAUGGCCACAGCACCACCUCCAGUAGCAGUACUCAUCUGAGUCUGAAUGCCAAGCAACAGCGCCAGCAGAAACGCCGGAGGGAACGUGCCCAGCGU
((((((..(((.....)))..)))))).((((..(((((.((..(((.((((....)))))))..(((...((....))....))).....)).)))))....))))....... ( -42.60)
>DroSec_CAF1 2456 114 - 1
GUGGCUGCUGGGAAUACCAAUGGCCACAGCACCACCUCUAGCAGCAGCACUCAUCUGAGUCUGAAUGCCAAGCAACAGCGCCAGCAGAAACGCCGGAGGGAACGUGCCCAGCGU
((((((..(((.....)))..)))))).((((..((((..((..(((.((((....)))))))..(((...((....))....))).....))..))))....))))....... ( -43.60)
>DroSim_CAF1 1810 114 - 1
AUGGCUGCUGGGAAUACCAAUGGCCACAGCACCACCUCCAGCAGCAGCACUCAUCUGAGUCUGAAUGCCAAGCAACAGCGCCAGCAGAAACGCCGGAGGGAACGUGCCCAGCGU
.(((((..(((.....)))..)))))..((((..(((((.((..(((.((((....)))))))..(((...((....))....))).....)).)))))....))))....... ( -41.40)
>DroEre_CAF1 2426 114 - 1
GUGGCUGCUGGGAAUACCAAUGGCCACAGCACCACCUCCAGCAGCAGCACUCACCUAAGUCUGAAUGCCAAGCAACAGCGCCAGCAGAAACGCCGGAGGGAACGUGCCCAGCGC
((((((..(((.....)))..)))))).((((..(((((.((.((.(((.(((........))).)))...))....((....))......)).)))))....))))....... ( -41.60)
>DroYak_CAF1 1785 114 - 1
GUGGCUGCGGGGAACACCAAUGGCCACAGCACCACCUCCAGCAGCAGCACUCACCUGAGUCUGAAUGCCAAGCAACAGCGCCAGCAGAAACGCCGGAGGGAACGUGCCCAGCGU
(((((((..((.....))..))))))).((((..(((((.((..(((.((((....)))))))..(((...((....))....))).....)).)))))....))))....... ( -42.90)
>consensus
GUGGCUGCUGGGAAUACCAAUGGCCACAGCACCACCUCCAGCAGCAGCACUCAUCUGAGUCUGAAUGCCAAGCAACAGCGCCAGCAGAAACGCCGGAGGGAACGUGCCCAGCGU
((((((..(((.....)))..)))))).((((..(((((.((..(((.((((....)))))))..(((...((....))....))).....)).)))))....))))....... (-41.26 = -41.54 +   0.28)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,719,010 – 15,719,124
Length 114
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 94.21
Mean single sequence MFE -44.76
Consensus MFE -39.30
Energy contribution -40.34
Covariance contribution 1.04
Combinations/Pair 1.03
Mean z-score -1.33
Structure conservation index 0.88
SVM decision value 0.51
SVM RNA-class probability 0.763573
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15719010 114 + 22224390
UGCUUGGCAUUCAGACUCAGAUGAGUACUGCUACUGGAGGUGGUGCUGUGGCCAUUGGUAUUCCCAGCAGCCACCGCUCCUGAUCCCGCUCCGAAGCCGGACUGAUUACCGGCU
.((.(((((.....((((....))))..)))))..(((...((.((.(((((..((((.....))))..))))).)).))...))).)).....((((((........)))))) ( -41.90)
>DroSec_CAF1 2496 114 + 1
UGCUUGGCAUUCAGACUCAGAUGAGUGCUGCUGCUAGAGGUGGUGCUGUGGCCAUUGGUAUUCCCAGCAGCCACCGCUCCUGAUCCCGCUCCGAAGCCGGACUGACUACCGGCU
.((((((((..(((((((....)))).))).)))))).((.((.((.(((((..((((.....))))..))))).)).))....)).)).....((((((........)))))) ( -43.30)
>DroSim_CAF1 1850 114 + 1
UGCUUGGCAUUCAGACUCAGAUGAGUGCUGCUGCUGGAGGUGGUGCUGUGGCCAUUGGUAUUCCCAGCAGCCAUUGCUCCUGAUCCCGCUCCGAAGCCGGACUGACUACCGGCU
.((..((((((((........)))))))))).((.(((...((.((.(((((..((((.....))))..))))).)).))...))).)).....((((((........)))))) ( -45.50)
>DroEre_CAF1 2466 114 + 1
UGCUUGGCAUUCAGACUUAGGUGAGUGCUGCUGCUGGAGGUGGUGCUGUGGCCAUUGGUAUUCCCAGCAGCCACCGCUCCUGAUCCCGCUCCGAAGCCAGUCUGAUUACCGGCA
.(((.((...(((((((..(((((((((....)).(((...((.((.(((((..((((.....))))..))))).)).))...))).))))....))))))))))...))))). ( -44.60)
>DroYak_CAF1 1825 114 + 1
UGCUUGGCAUUCAGACUCAGGUGAGUGCUGCUGCUGGAGGUGGUGCUGUGGCCAUUGGUGUUCCCCGCAGCCACCGCUCCUGAUCCCGCUCCGAAGCCAGUCUGAAUCCCGGCU
.(((.((.(((((((((..((((((((......(.((((.(((((((((((.....((....)))))))).))))))))).)....)))))....)))))))))))))).))). ( -48.50)
>consensus
UGCUUGGCAUUCAGACUCAGAUGAGUGCUGCUGCUGGAGGUGGUGCUGUGGCCAUUGGUAUUCCCAGCAGCCACCGCUCCUGAUCCCGCUCCGAAGCCGGACUGACUACCGGCU
.((..((((((((........)))))))))).((.(((...((.((.(((((..((((.....))))..))))).)).))...))).))......(((((........))))). (-39.30 = -40.34 +   1.04)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,719,010 – 15,719,124
Length 114
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 94.21
Mean single sequence MFE -45.02
Consensus MFE -42.94
Energy contribution -42.98
Covariance contribution 0.04
Combinations/Pair 1.09
Mean z-score -1.93
Structure conservation index 0.95
SVM decision value 3.24
SVM RNA-class probability 0.998822
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15719010 114 - 22224390
AGCCGGUAAUCAGUCCGGCUUCGGAGCGGGAUCAGGAGCGGUGGCUGCUGGGAAUACCAAUGGCCACAGCACCACCUCCAGUAGCAGUACUCAUCUGAGUCUGAAUGCCAAGCA
((((((........)))))).....((.(((...((.((.((((((..(((.....)))..)))))).)).))...))).(((.(((.((((....)))))))..)))...)). ( -45.10)
>DroSec_CAF1 2496 114 - 1
AGCCGGUAGUCAGUCCGGCUUCGGAGCGGGAUCAGGAGCGGUGGCUGCUGGGAAUACCAAUGGCCACAGCACCACCUCUAGCAGCAGCACUCAUCUGAGUCUGAAUGCCAAGCA
((((((........))))))..((.((.(((...((.((.((((((..(((.....)))..)))))).)).))...))).))..(((.((((....)))))))....))..... ( -45.10)
>DroSim_CAF1 1850 114 - 1
AGCCGGUAGUCAGUCCGGCUUCGGAGCGGGAUCAGGAGCAAUGGCUGCUGGGAAUACCAAUGGCCACAGCACCACCUCCAGCAGCAGCACUCAUCUGAGUCUGAAUGCCAAGCA
((((((........)))))).....((.(((...((.((..(((((..(((.....)))..)))))..)).))...))).(((.(((.((((....)))))))..)))...)). ( -43.50)
>DroEre_CAF1 2466 114 - 1
UGCCGGUAAUCAGACUGGCUUCGGAGCGGGAUCAGGAGCGGUGGCUGCUGGGAAUACCAAUGGCCACAGCACCACCUCCAGCAGCAGCACUCACCUAAGUCUGAAUGCCAAGCA
.((.((((.(((((((.(((.(...((.(((...((.((.((((((..(((.....)))..)))))).)).))...))).)).).))).........))))))).))))..)). ( -46.10)
>DroYak_CAF1 1825 114 - 1
AGCCGGGAUUCAGACUGGCUUCGGAGCGGGAUCAGGAGCGGUGGCUGCGGGGAACACCAAUGGCCACAGCACCACCUCCAGCAGCAGCACUCACCUGAGUCUGAAUGCCAAGCA
.((.((.((((((((((((....).((.(((...((.((.(((((((..((.....))..))))))).)).))...))).))...........))..))))))))).))..)). ( -45.30)
>consensus
AGCCGGUAAUCAGUCCGGCUUCGGAGCGGGAUCAGGAGCGGUGGCUGCUGGGAAUACCAAUGGCCACAGCACCACCUCCAGCAGCAGCACUCAUCUGAGUCUGAAUGCCAAGCA
.(((((........)))))......((.(((...((.((.((((((..(((.....)))..)))))).)).))...))).(((.(((.((((....)))))))..)))...)). (-42.94 = -42.98 +   0.04)

alignment

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secondary structure

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dotplot

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Window 2

Location 15,719,050 – 15,719,141
Length 91
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 80.24
Mean single sequence MFE -32.65
Consensus MFE -29.72
Energy contribution -30.17
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -1.51
Structure conservation index 0.91
SVM decision value 1.53
SVM RNA-class probability 0.962070
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15719050 91 + 22224390
UGGUGCUGUGGCCAUUGGUAUUCCCAGCAGCCACCGCUCCUGAUCCCGCUCCGAAGCCGGACUGAUUACCGGCUAUGCUAGCAGUGCCUCC-----------------------
.((..(((((((..((((.....))))..))))).............(((.((.((((((........)))))).))..)))))..))...----------------------- ( -33.10)
>DroSim_CAF1 1890 114 + 1
UGGUGCUGUGGCCAUUGGUAUUCCCAGCAGCCAUUGCUCCUGAUCCCGCUCCGAAGCCGGACUGACUACCGGCUAUGCUAGCAGUGCCUCCUCCGCCUCCUACUCCUCCUNNNN
.((..(((((((..((((......(((.(((....))).)))........))))((((((........))))))..)))).)))..)).......................... ( -32.44)
>DroEre_CAF1 2506 101 + 1
UGGUGCUGUGGCCAUUGGUAUUCCCAGCAGCCACCGCUCCUGAUCCCGCUCCGAAGCCAGUCUGAUUACCGGCAUUGUUAGCAGUGCCUACUCCACCUCCU-------------
.((.((.(((((..((((.....))))..))))).)).))(((((..(((........)))..)))))..(((((((....))))))).............------------- ( -32.40)
>consensus
UGGUGCUGUGGCCAUUGGUAUUCCCAGCAGCCACCGCUCCUGAUCCCGCUCCGAAGCCGGACUGAUUACCGGCUAUGCUAGCAGUGCCUCCUCC_CCUCCU_____________
.((..(((((((..((((.....))))..))))).............(((.((.((((((........)))))).))..)))))..)).......................... (-29.72 = -30.17 +   0.45)

alignment

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secondary structure

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dotplot

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Window 3

Location 15,719,050 – 15,719,141
Length 91
Sequences 3
Columns 114
Reading direction reverse
Mean pairwise identity 80.24
Mean single sequence MFE -40.83
Consensus MFE -39.39
Energy contribution -39.83
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -2.30
Structure conservation index 0.96
SVM decision value 3.23
SVM RNA-class probability 0.998802
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15719050 91 - 22224390
-----------------------GGAGGCACUGCUAGCAUAGCCGGUAAUCAGUCCGGCUUCGGAGCGGGAUCAGGAGCGGUGGCUGCUGGGAAUACCAAUGGCCACAGCACCA
-----------------------...((..(((((.....((((((........))))))....)))))..)).((.((.((((((..(((.....)))..)))))).)).)). ( -42.40)
>DroSim_CAF1 1890 114 - 1
NNNNAGGAGGAGUAGGAGGCGGAGGAGGCACUGCUAGCAUAGCCGGUAGUCAGUCCGGCUUCGGAGCGGGAUCAGGAGCAAUGGCUGCUGGGAAUACCAAUGGCCACAGCACCA
......((...((.((((.((((....(.(((((..((...))..))))))..)))).))))...))....)).((.((..(((((..(((.....)))..)))))..)).)). ( -39.60)
>DroEre_CAF1 2506 101 - 1
-------------AGGAGGUGGAGUAGGCACUGCUAACAAUGCCGGUAAUCAGACUGGCUUCGGAGCGGGAUCAGGAGCGGUGGCUGCUGGGAAUACCAAUGGCCACAGCACCA
-------------....(((......((..(((((......((((((......)))))).....)))))..))....((.((((((..(((.....)))..)))))).))))). ( -40.50)
>consensus
_____________AGGAGG_GGAGGAGGCACUGCUAGCAUAGCCGGUAAUCAGUCCGGCUUCGGAGCGGGAUCAGGAGCGGUGGCUGCUGGGAAUACCAAUGGCCACAGCACCA
..........................((..(((((.....((((((........))))))....)))))..)).((.((.((((((..(((.....)))..)))))).)).)). (-39.39 = -39.83 +   0.45)

alignment

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secondary structure

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dotplot

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Window 4

Location 15,719,084 – 15,719,174
Length 90
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 57.60
Mean single sequence MFE -28.97
Consensus MFE -18.69
Energy contribution -18.80
Covariance contribution 0.11
Combinations/Pair 1.08
Mean z-score -0.77
Structure conservation index 0.65
SVM decision value 0.38
SVM RNA-class probability 0.713702
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15719084 90 - 22224390
UCCACAAUAAUGCCACAGCUGAAUUCCAGUGCG------------------------------GGAGGCACUGCUAGCAUAGCCGGUAAUCAGUCCGGCUUCGGAGCGGGAUCAGGAGCG
(((.......((((.(.((((.....))))...------------------------------)..))))(((((.....((((((........))))))....))))).....)))... ( -31.70)
>DroSim_CAF1 1924 120 - 1
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGGAGGAGUAGGAGGCGGAGGAGGCACUGCUAGCAUAGCCGGUAGUCAGUCCGGCUUCGGAGCGGGAUCAGGAGCA
..........................................................((....((....(((((.....((((((........))))))....)))))..))....)). ( -22.80)
>DroEre_CAF1 2540 102 - 1
UCCACAAUAAUGCCACAGCUGAAUUCCAGUGCGGG------------------AGGAGGUGGAGUAGGCACUGCUAACAAUGCCGGUAAUCAGACUGGCUUCGGAGCGGGAUCAGGAGCG
(((.......((((((.(((...((((......))------------------))..)))...)).))))(((((......((((((......)))))).....))))).....)))... ( -32.40)
>consensus
UCCACAAUAAUGCCACAGCUGAAUUCCAGUGCG____________________AGGAGG_GGAGGAGGCACUGCUAGCAUAGCCGGUAAUCAGUCCGGCUUCGGAGCGGGAUCAGGAGCG
..................................................................((..(((((.....((((((........))))))....)))))..))....... (-18.69 = -18.80 +   0.11)

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 12:05:52 2006