Locus 5490

Sequence ID 2L_DroMel_CAF1
Location 15,698,700 – 15,698,813
Length 113
Max. P 0.771175
window8710 window8711

overview

Window 0

Location 15,698,700 – 15,698,813
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.25
Mean single sequence MFE -45.64
Consensus MFE -25.54
Energy contribution -27.30
Covariance contribution 1.76
Combinations/Pair 1.10
Mean z-score -2.16
Structure conservation index 0.56
SVM decision value 0.14
SVM RNA-class probability 0.603430
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15698700 113 + 22407834
AGGAUCAAGGACUGUGUGGGUCUGCGGCCC--GAAUGCAUUUUGGACCGCACAAAAGCCAGUGGAGAGUAGCUCCAUGAAGGAGCUG-AGCUGCCCUCAGCCAUUCCGGUGGAUCC----
.(((((..(((((.....)))))((((.((--(((.....))))).))))......(((.((((((.....))))))...(((((((-((.....))))))...)))))).)))))---- ( -45.20)
>DroSec_CAF1 27190 113 + 1
AGGAUCAAGGACUGUGUGGGUCUGCGGCCC--GAAUGCAUUUUGGACCGCACAAAAGCCAGUGGAGAGUAGCUCCAUGAAGGAGCUG-AGCUGCCCCCAGCCAUUCCGGUGGAUAC----
...(((..(((.((..((((..(((((.((--(((.....))))).)))))...........((((..(((((((.....)))))))-..)).))))))..)).)))....)))..---- ( -42.40)
>DroEre_CAF1 27433 114 + 1
AGGAUCAAGGACUGUGUGGGUGUGCGGCUC--GAAUGCAUUUUGGACCGCACAAAAGCCAGUGGAGAGUAGCUCCAUAAAGCAGCUUCGGCUGCCCUCAGCCAUUCCGGUGGAUCC----
.(((((..(((.((..(((((((((((..(--(((.....))))..))))))).......((((((.....))))))...(((((....))))).))))..)).)))....)))))---- ( -50.80)
>DroYak_CAF1 28662 113 + 1
AGGAUCAACGACUGUGUGGGUCUGCGGCCC--GAAUGCAUUUUGGACCGCACAAAAGCCAGUGGAGAGUAGCUCCAUGAAGGAGCUG-AGCUGGCCUCGGCCAUUCCGUUGGAUCC----
.((((((((.((((.((.....(((((.((--(((.....))))).))))).....))))))((((..(((((((.....)))))))-..)((((....)))).)))))).)))))---- ( -49.30)
>DroAna_CAF1 20579 112 + 1
-----GCAGGGCUCUGUGGGUCUGCAGCCCCGUAAUGCAUUUGGGACCCCACAAAAGCCAAUGG--AGUAGCCCCAUGAAGGAGUUG-AGUCUCCCUUAGCCUUUGGGGAGACCACACCG
-----...((((((((((((.((((....((((...((.((((((...)).)))).))..))))--.)))).)))))...)))))((-.((((((((........))))))))))..)). ( -40.50)
>consensus
AGGAUCAAGGACUGUGUGGGUCUGCGGCCC__GAAUGCAUUUUGGACCGCACAAAAGCCAGUGGAGAGUAGCUCCAUGAAGGAGCUG_AGCUGCCCUCAGCCAUUCCGGUGGAUCC____
..............(((((((((...((........)).....))))).))))....(((.(((((...((((((.....))))))...((((....))))..))))).)))........ (-25.54 = -27.30 +   1.76)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,698,700 – 15,698,813
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.25
Mean single sequence MFE -43.10
Consensus MFE -26.12
Energy contribution -27.04
Covariance contribution 0.92
Combinations/Pair 1.14
Mean z-score -2.24
Structure conservation index 0.61
SVM decision value 0.53
SVM RNA-class probability 0.771175
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15698700 113 - 22407834
----GGAUCCACCGGAAUGGCUGAGGGCAGCU-CAGCUCCUUCAUGGAGCUACUCUCCACUGGCUUUUGUGCGGUCCAAAAUGCAUUC--GGGCCGCAGACCCACACAGUCCUUGAUCCU
----(((((....(((..(((((....)))))-.((((((.....))))))....)))((((.....(.((((((((...........--)))))))).)......))))....))))). ( -42.90)
>DroSec_CAF1 27190 113 - 1
----GUAUCCACCGGAAUGGCUGGGGGCAGCU-CAGCUCCUUCAUGGAGCUACUCUCCACUGGCUUUUGUGCGGUCCAAAAUGCAUUC--GGGCCGCAGACCCACACAGUCCUUGAUCCU
----.........(((.((..((((((.((..-.((((((.....))))))...)))).........(.((((((((...........--)))))))).)))))..)).)))........ ( -39.40)
>DroEre_CAF1 27433 114 - 1
----GGAUCCACCGGAAUGGCUGAGGGCAGCCGAAGCUGCUUUAUGGAGCUACUCUCCACUGGCUUUUGUGCGGUCCAAAAUGCAUUC--GAGCCGCACACCCACACAGUCCUUGAUCCU
----(((((....(((.(((((.((((((((....)))))))).(((((.....)))))..)))...(((((((..(...........--)..)))))))......)).)))..))))). ( -41.10)
>DroYak_CAF1 28662 113 - 1
----GGAUCCAACGGAAUGGCCGAGGCCAGCU-CAGCUCCUUCAUGGAGCUACUCUCCACUGGCUUUUGUGCGGUCCAAAAUGCAUUC--GGGCCGCAGACCCACACAGUCGUUGAUCCU
----(((((.((((((.((((....))))...-.((((((.....))))))....)))((((.....(.((((((((...........--)))))))).)......)))).)))))))). ( -47.00)
>DroAna_CAF1 20579 112 - 1
CGGUGUGGUCUCCCCAAAGGCUAAGGGAGACU-CAACUCCUUCAUGGGGCUACU--CCAUUGGCUUUUGUGGGGUCCCAAAUGCAUUACGGGGCUGCAGACCCACAGAGCCCUGC-----
..(((.((((((((((((((((((.((((...-...((((.....))))...))--)).)))))))))).)))(((((...........)))))...))))))))..........----- ( -45.10)
>consensus
____GGAUCCACCGGAAUGGCUGAGGGCAGCU_CAGCUCCUUCAUGGAGCUACUCUCCACUGGCUUUUGUGCGGUCCAAAAUGCAUUC__GGGCCGCAGACCCACACAGUCCUUGAUCCU
..................(((((.(((.......((((((.....))))))..................((((((((.............))))))))..)))...)))))......... (-26.12 = -27.04 +   0.92)

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 11:45:24 2006