Locus 8114

Sequence ID 3R_DroMel_CAF1
Location 21,806,764 – 21,806,860
Length 96
Max. P 0.914363
window13052 window13053

overview

Window 2

Location 21,806,764 – 21,806,860
Length 96
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 76.71
Mean single sequence MFE -25.62
Consensus MFE -18.62
Energy contribution -18.73
Covariance contribution 0.11
Combinations/Pair 1.18
Mean z-score -1.52
Structure conservation index 0.73
SVM decision value 1.09
SVM RNA-class probability 0.914363
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21806764 96 + 27905053
CCAAACCAGGCACCGAAUCUCCAGCAGCGUCCCUCCAACGAUUCCCUGGAGCACUCGAACAGCUCCACCAACUCCCUGGACAGCCCCUCCCAGGGC
.....(((((....(((((....................)))))..((((((.........)))))).......)))))...((((......)))) ( -24.85)
>DroVir_CAF1 107134 84 + 1
------CAAA------CGCUACAGCAGCGAACCUCCACCGAGUCGCUGGAGCAAUCGAAUAGCUCAAACACCUCGCUGGACAGCCCCUCGCAGGGC
------....------((((.....))))....((((.((((..(...((((.........))))...)..)))).))))..((((......)))) ( -25.30)
>DroPse_CAF1 82858 87 + 1
------CAGGCACCG---CUCCAGCAGCGUAAUUCCACCGACUCGAUGGAGCACUCAAACAGCUCCACAAACUCGCUGGACAGCCCGUCACAGGGC
------.......((---((.....))))....((((.(((.....((((((.........)))))).....))).))))..((((......)))) ( -26.50)
>DroYak_CAF1 74535 96 + 1
CCAAACCAAGCGGCGAAUCUCCAGCAGCGGCCCUCCAACGAUUCCCUGGAGCACUCGAACAGCUCCACCAACUCCCUGGACAGCCCCUCGCAGGGU
....(((..(((((.........))((.(((..((((..((.....((((((.........)))))).....))..))))..))).)))))..))) ( -27.70)
>DroMoj_CAF1 112331 84 + 1
------CAGG------CGCUGCAGCAGCGCACCUCUGCCGACUCGCUGGAGCACUCGAACAGCUCAAACACCUCGUUAGACAGCCCCUCCCAGGGC
------...(------(((((...))))))...((((.(((.......((((.........)))).......))).))))..((((......)))) ( -25.04)
>DroPer_CAF1 83065 87 + 1
------CAGGCACCG---UUCCAGCAGCGUAAUUCCACCGACUCGAUGGAGCACUCAAACAGCUCCACAAACUCGCUGGACAGCCCCUCACAGGGC
------........(---(.(((((.(.((......)))((.....((((((.........)))))).....))))))))).((((......)))) ( -24.30)
>consensus
______CAGGCACCG___CUCCAGCAGCGUACCUCCACCGACUCGCUGGAGCACUCGAACAGCUCCACCAACUCGCUGGACAGCCCCUCACAGGGC
.................................((((.(((.....((((((.........)))))).....))).))))..((((......)))) (-18.62 = -18.73 +   0.11)

alignment

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secondary structure

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dotplot

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Window 3

Location 21,806,764 – 21,806,860
Length 96
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 76.71
Mean single sequence MFE -37.07
Consensus MFE -23.26
Energy contribution -24.60
Covariance contribution 1.34
Combinations/Pair 1.10
Mean z-score -1.48
Structure conservation index 0.63
SVM decision value 0.45
SVM RNA-class probability 0.740595
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21806764 96 - 27905053
GCCCUGGGAGGGGCUGUCCAGGGAGUUGGUGGAGCUGUUCGAGUGCUCCAGGGAAUCGUUGGAGGGACGCUGCUGGAGAUUCGGUGCCUGGUUUGG
(((((....)))))...(((((.((((.....))))..((((((.((((((.(...((((.....)))).).))))))))))))..)))))..... ( -35.20)
>DroVir_CAF1 107134 84 - 1
GCCCUGCGAGGGGCUGUCCAGCGAGGUGUUUGAGCUAUUCGAUUGCUCCAGCGACUCGGUGGAGGUUCGCUGCUGUAGCG------UUUG------
(((((....)))))(.((((.((((.((((.((((.........)))).)))).)))).)))).)..(((((...)))))------....------ ( -34.00)
>DroPse_CAF1 82858 87 - 1
GCCCUGUGACGGGCUGUCCAGCGAGUUUGUGGAGCUGUUUGAGUGCUCCAUCGAGUCGGUGGAAUUACGCUGCUGGAG---CGGUGCCUG------
((((......))))..((((.(((.((.(((((((.........))))))).)).))).))))....((((((....)---)))))....------ ( -39.40)
>DroYak_CAF1 74535 96 - 1
ACCCUGCGAGGGGCUGUCCAGGGAGUUGGUGGAGCUGUUCGAGUGCUCCAGGGAAUCGUUGGAGGGCCGCUGCUGGAGAUUCGCCGCUUGGUUUGG
..((.((.((.((((.(((((.((.((..((((((.........))))))..)).)).))))).)))).)))).))......(((....))).... ( -39.10)
>DroMoj_CAF1 112331 84 - 1
GCCCUGGGAGGGGCUGUCUAACGAGGUGUUUGAGCUGUUCGAGUGCUCCAGCGAGUCGGCAGAGGUGCGCUGCUGCAGCG------CCUG------
(((((....)))))..(((..(((..((((.((((.........)))).))))..)))..)))(((((((....)).)))------))..------ ( -34.70)
>DroPer_CAF1 83065 87 - 1
GCCCUGUGAGGGGCUGUCCAGCGAGUUUGUGGAGCUGUUUGAGUGCUCCAUCGAGUCGGUGGAAUUACGCUGCUGGAA---CGGUGCCUG------
........(((.((((((((((((.((.(((((((.........))))))).)).))((((......))))))))).)---)))).))).------ ( -40.00)
>consensus
GCCCUGCGAGGGGCUGUCCAGCGAGUUGGUGGAGCUGUUCGAGUGCUCCAGCGAGUCGGUGGAGGUACGCUGCUGGAG___CGGUGCCUG______
(((((....)))))..((((.(((.((.(((((((.........))))))).)).))).))))................................. (-23.26 = -24.60 +   1.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:52 2006