Locus 7469

Sequence ID X_DroMel_CAF1
Location 18,650,289 – 18,650,421
Length 132
Max. P 0.988811
window12249 window12250 window12251 window12252

overview

Window 9

Location 18,650,289 – 18,650,384
Length 95
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 84.87
Mean single sequence MFE -23.20
Consensus MFE -14.26
Energy contribution -14.10
Covariance contribution -0.16
Combinations/Pair 1.06
Mean z-score -2.42
Structure conservation index 0.61
SVM decision value 0.49
SVM RNA-class probability 0.754842
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18650289 95 + 22224390
CCUCAAAAGAACGUAAACAAUGGGGCAUCUUAAAGUAAUCCUUUAACAAAGCCCCCUGCUUAAGGCAACUCAAGAGCCCAGCAGC-------CAGCUGUAAU
................(((..(((((...((((((.....))))))....)))))(((((...(((.........))).))))).-------....)))... ( -21.60)
>DroSec_CAF1 9147 95 + 1
CCUCAAAAGAACGUAAACAAUGGGGCAUCUUAAAGUAAUCCUUUAACAAAGCCCCCUGCUUAAGGCAACUCGAGAGCCCAGCAGC-------CAGCUGUAAU
.(((.................(((((...((((((.....))))))....))))).(((.....)))....)))....((((...-------..)))).... ( -22.00)
>DroSim_CAF1 9203 95 + 1
CCUCAAAAGAACGUAAACAAUGGGGCAUCUUAAAGUAAUCCUUUAACAAAGCCCCCUGCUUAAGGCAACUCGAGAGCCCAGCAGC-------CAGCUGUAAU
.(((.................(((((...((((((.....))))))....))))).(((.....)))....)))....((((...-------..)))).... ( -22.00)
>DroEre_CAF1 8452 75 + 1
CCUCAGAAGAACGUAAACAAUGGGGCAUCUUAAAGUAAUCCUUUAACAAUGCCCCCUGCCUAAGGC---------------------------AGCUGUAAU
...(((...............(((((((.((((((.....))))))..)))))))(((((...)))---------------------------))))).... ( -22.60)
>DroYak_CAF1 8524 102 + 1
CUUCAAAUGAACGUAAGCAAUGGGGCAUCUUAAAGUAAUCCUUUAACAAAGCCCCCCGCUUAAGGCAACUCGAGUGCACAGCACCCAGCACGCAGCUGUAAU
................((...(((((...((((((.....))))))....))))).((((..((....))..))))....))...((((.....)))).... ( -27.80)
>consensus
CCUCAAAAGAACGUAAACAAUGGGGCAUCUUAAAGUAAUCCUUUAACAAAGCCCCCUGCUUAAGGCAACUCGAGAGCCCAGCAGC_______CAGCUGUAAU
................(((..(((((...((((((.....))))))....)))))..((.....))..............................)))... (-14.26 = -14.10 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,650,289 – 18,650,384
Length 95
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 84.87
Mean single sequence MFE -32.48
Consensus MFE -23.94
Energy contribution -25.54
Covariance contribution 1.60
Combinations/Pair 1.13
Mean z-score -2.97
Structure conservation index 0.74
SVM decision value 2.14
SVM RNA-class probability 0.988811
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18650289 95 - 22224390
AUUACAGCUG-------GCUGCUGGGCUCUUGAGUUGCCUUAAGCAGGGGGCUUUGUUAAAGGAUUACUUUAAGAUGCCCCAUUGUUUACGUUCUUUUGAGG
....((((..-------...))))..(((..(((..((..((((((((((((..(.((((((.....)))))).).))))).))))))).)).)))..))). ( -33.30)
>DroSec_CAF1 9147 95 - 1
AUUACAGCUG-------GCUGCUGGGCUCUCGAGUUGCCUUAAGCAGGGGGCUUUGUUAAAGGAUUACUUUAAGAUGCCCCAUUGUUUACGUUCUUUUGAGG
....((((..-------...))))....((((((..((..((((((((((((..(.((((((.....)))))).).))))).))))))).))...)))))). ( -33.10)
>DroSim_CAF1 9203 95 - 1
AUUACAGCUG-------GCUGCUGGGCUCUCGAGUUGCCUUAAGCAGGGGGCUUUGUUAAAGGAUUACUUUAAGAUGCCCCAUUGUUUACGUUCUUUUGAGG
....((((..-------...))))....((((((..((..((((((((((((..(.((((((.....)))))).).))))).))))))).))...)))))). ( -33.10)
>DroEre_CAF1 8452 75 - 1
AUUACAGCU---------------------------GCCUUAGGCAGGGGGCAUUGUUAAAGGAUUACUUUAAGAUGCCCCAUUGUUUACGUUCUUCUGAGG
....(((((---------------------------(((...)))))((((((((.((((((.....))))))))))))))...............)))... ( -27.60)
>DroYak_CAF1 8524 102 - 1
AUUACAGCUGCGUGCUGGGUGCUGUGCACUCGAGUUGCCUUAAGCGGGGGGCUUUGUUAAAGGAUUACUUUAAGAUGCCCCAUUGCUUACGUUCAUUUGAAG
....((((.....)))).((((...))))((((((.((..((((((((((((..(.((((((.....)))))).).))))).))))))).))..)))))).. ( -35.30)
>consensus
AUUACAGCUG_______GCUGCUGGGCUCUCGAGUUGCCUUAAGCAGGGGGCUUUGUUAAAGGAUUACUUUAAGAUGCCCCAUUGUUUACGUUCUUUUGAGG
....((((............))))....((((((..((..((((((((((((..(.((((((.....)))))).).))))).))))))).))...)))))). (-23.94 = -25.54 +   1.60)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,650,311 – 18,650,421
Length 110
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 90.36
Mean single sequence MFE -30.42
Consensus MFE -25.89
Energy contribution -26.20
Covariance contribution 0.31
Combinations/Pair 1.04
Mean z-score -1.59
Structure conservation index 0.85
SVM decision value 0.41
SVM RNA-class probability 0.725740
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18650311 110 + 22224390
GGGCAUCUUAAAGUAAUCCUUUAACAAAGCCCCCUGCUUAAGGCAACUCAAGAGCCCAGCAGC-------CAGCUGUAAUCGCAUCAACUGCGCCGUGCAACCA--GCACCA-UUGCACG
((((...((((((.....))))))....))))..(((....(((.......((...((((...-------..))))...))(((.....))))))((((.....--))))..-..))).. ( -30.20)
>DroSec_CAF1 9169 112 + 1
GGGCAUCUUAAAGUAAUCCUUUAACAAAGCCCCCUGCUUAAGGCAACUCGAGAGCCCAGCAGC-------CAGCUGUAAUCGCAUCAACUGCGCCGUGCAACCAGAGCACCA-UUGCACG
((((.((((..(((...((((.....((((.....))))))))..))).)))))))).((((.-------...))))...((((.....)))).(((((((...........-))))))) ( -30.20)
>DroSim_CAF1 9225 112 + 1
GGGCAUCUUAAAGUAAUCCUUUAACAAAGCCCCCUGCUUAAGGCAACUCGAGAGCCCAGCAGC-------CAGCUGUAAUCGCAUCAACUGCGCCGUGCAACCAGAGCGCCA-UUGCACG
((((.((((..(((...((((.....((((.....))))))))..))).)))))))).((((.-------...))))...((((.....)))).(((((((...........-))))))) ( -30.20)
>DroYak_CAF1 8546 118 + 1
GGGCAUCUUAAAGUAAUCCUUUAACAAAGCCCCCCGCUUAAGGCAACUCGAGUGCACAGCACCCAGCACGCAGCUGUAAUCACAUCAAUUGCGCCGUGCACAC--AGCACCAAAUGCACG
((((...((((((.....))))))....))))...(((..((....))..)((((((.((....(((.....)))(((((.......))))))).))))))..--.))............ ( -31.10)
>consensus
GGGCAUCUUAAAGUAAUCCUUUAACAAAGCCCCCUGCUUAAGGCAACUCGAGAGCCCAGCAGC_______CAGCUGUAAUCGCAUCAACUGCGCCGUGCAACCA_AGCACCA_UUGCACG
((((...((((((.....))))))....))))...((....(((.......((...((((............))))...))(((.....))))))((((.......)))).....))... (-25.89 = -26.20 +   0.31)

alignment

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secondary structure

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dotplot

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Window 2

Location 18,650,311 – 18,650,421
Length 110
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 90.36
Mean single sequence MFE -41.88
Consensus MFE -32.80
Energy contribution -32.55
Covariance contribution -0.25
Combinations/Pair 1.10
Mean z-score -1.68
Structure conservation index 0.78
SVM decision value 0.28
SVM RNA-class probability 0.667605
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18650311 110 - 22224390
CGUGCAA-UGGUGC--UGGUUGCACGGCGCAGUUGAUGCGAUUACAGCUG-------GCUGCUGGGCUCUUGAGUUGCCUUAAGCAGGGGGCUUUGUUAAAGGAUUACUUUAAGAUGCCC
(((((((-(.....--..))))))))..((((((...((.......)).)-------))))).((((((((((((..((((.((((((....)))))).))))...)).)))))).)))) ( -41.00)
>DroSec_CAF1 9169 112 - 1
CGUGCAA-UGGUGCUCUGGUUGCACGGCGCAGUUGAUGCGAUUACAGCUG-------GCUGCUGGGCUCUCGAGUUGCCUUAAGCAGGGGGCUUUGUUAAAGGAUUACUUUAAGAUGCCC
(((((((-(.(.....).))))))))...((((((.........))))))-------.(((((((((.........))))..))))).((((..(.((((((.....)))))).).)))) ( -39.60)
>DroSim_CAF1 9225 112 - 1
CGUGCAA-UGGCGCUCUGGUUGCACGGCGCAGUUGAUGCGAUUACAGCUG-------GCUGCUGGGCUCUCGAGUUGCCUUAAGCAGGGGGCUUUGUUAAAGGAUUACUUUAAGAUGCCC
(.(((..-.(((((((.((..((.(((((((((((.........))))).-------)).)))).)).)).))).))))....))).)((((..(.((((((.....)))))).).)))) ( -40.40)
>DroYak_CAF1 8546 118 - 1
CGUGCAUUUGGUGCU--GUGUGCACGGCGCAAUUGAUGUGAUUACAGCUGCGUGCUGGGUGCUGUGCACUCGAGUUGCCUUAAGCGGGGGGCUUUGUUAAAGGAUUACUUUAAGAUGCCC
(.(((.(..((((((--(.(((((((((((((((.....)))).((((.....)))).))))))))))).).)).))))..).))).)((((..(.((((((.....)))))).).)))) ( -46.50)
>consensus
CGUGCAA_UGGUGCU_UGGUUGCACGGCGCAGUUGAUGCGAUUACAGCUG_______GCUGCUGGGCUCUCGAGUUGCCUUAAGCAGGGGGCUUUGUUAAAGGAUUACUUUAAGAUGCCC
(((((((............))))))).((((.....))))..................(((((((((.........))))..))))).((((..(.((((((.....)))))).).)))) (-32.80 = -32.55 +  -0.25)

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 12:39:43 2006