Locus 1467

Sequence ID 2R_DroMel_CAF1
Location 5,602,441 – 5,602,572
Length 131
Max. P 0.843362
window2499 window2500

overview

Window 9

Location 5,602,441 – 5,602,532
Length 91
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 79.82
Mean single sequence MFE -39.92
Consensus MFE -26.33
Energy contribution -28.53
Covariance contribution 2.20
Combinations/Pair 1.24
Mean z-score -1.89
Structure conservation index 0.66
SVM decision value 0.76
SVM RNA-class probability 0.843362
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5602441 91 - 20766785
ACGGCCGCCUGCAGCGAAAAGGCGGCGGUGCGCUGUGGUGUCGCUAGGAUGCACUGCACCACCGCCAGCAGCACCAACAUGGCACCACUGG
...(((((((.........)))))))((((((((((((((..((.((......))))..))))).)))).)))))..((((....)).)). ( -42.40)
>DroVir_CAF1 23 79 - 1
ACGGCCGCCUGCAGCGAGUAGGCGC---CUCGCUGGGGCGUCGCCAGGA--CAAUGCAGC----CGAGCAGGCCCAGGAUGGCAACA---G
...(((((((.(((((((.......---)))))))(((((((.....))--)..(((...----...))).))))))).))))....---. ( -34.50)
>DroSec_CAF1 23 91 - 1
ACGGCCGCCUGCAGCGAAAAGGCGGCGGUGCGCUGUGGUGUCGCUAGGAUGCACUGCACCACCGUCAGCAGCACCACCAUGGCACCACUGG
...(((((((.........)))))))((((((((((((((..((.((......))))..))))).)))).))))).(((((....)).))) ( -44.40)
>DroEre_CAF1 77 91 - 1
ACGGCCGCCUGCAGCGAAAAUGCGGCGGUGCGUUGUGGUGUCGCUAGGAUGCACUGCACCACCGCCAGCAGCACCAGCAUGGCACCACCGG
(((((((((.(((.......))))))))).))).(((((((((((.((.(((.((((......).)))..))))))))..))))))))... ( -38.80)
>DroYak_CAF1 79 91 - 1
ACGGCCGCCUGCAGCGAAAAUGCGGCGGUGCGUUGCGGUGUCGCUAGGAUGCACUGCAUCACCGCCAGCAGCACCACCAUGGCACCACUGG
...((((((.(((.......))))))((((((((((((((..((.((......))))..))))).)))).))))).....)))........ ( -40.70)
>DroPer_CAF1 23 88 - 1
ACGGCUGCCUGGAGCGAAUAGGCGGCGGUGCGCUGUGGUGUUGCCCAGAUGCACUGCAGGAG---UAGUAGCACCACGAAGCUACCGCAAA
...((((((((.......))))))))(((((..(((((((((((.....(((...)))....---..)))))))))))..)).)))..... ( -38.70)
>consensus
ACGGCCGCCUGCAGCGAAAAGGCGGCGGUGCGCUGUGGUGUCGCUAGGAUGCACUGCACCACCGCCAGCAGCACCACCAUGGCACCACUGG
...(((((((.........)))))))((((((((((((((..((.((......))))..))))).)))).)))))................ (-26.33 = -28.53 +   2.20)

alignment

Postscript

secondary structure

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dotplot

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Window 0

Location 5,602,469 – 5,602,572
Length 103
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 77.76
Mean single sequence MFE -45.85
Consensus MFE -25.95
Energy contribution -27.37
Covariance contribution 1.42
Combinations/Pair 1.33
Mean z-score -1.76
Structure conservation index 0.57
SVM decision value 0.37
SVM RNA-class probability 0.708129
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5602469 103 - 20766785
CAGUGGAUACUUGGCCGCCUCCCGACGAUGCAGUUCAUCCACGGCCGCCUGCAGCGAAAAGGCGGCGGUGCGCUGUGGUGUCGCUAGGAUGCACUGC--ACCACC---
..((((....((((.......))))...((((((.(((((...(((((((.........)))))))(((((((....))).)))).))))).)))))--))))).--- ( -44.60)
>DroVir_CAF1 47 95 - 1
UAAUGGAUACUUGGCAGCCUCGCGGCGAUGCAGCUCAUCGACGGCCGCCUGCAGCGAGUAGGCGC---CUCGCUGGGGCGUCGCCAGGA--CAAUGC--AGC------
.........((((((.(((....)))(((((..((((.(((.(((.((((((.....))))))))---)))).))))))))))))))).--......--...------ ( -43.90)
>DroSec_CAF1 51 103 - 1
CAGUGGAUACUUGGCCGCCUCGCGACGAUGCAUUUCAUCCACGGCCGCCUGCAGCGAAAAGGCGGCGGUGCGCUGUGGUGUCGCUAGGAUGCACUGC--ACCACC---
(((((.((.((((((((((.((((..((((.....))))(((.(((((((.........))))))).)))))).).))))..)))))))).))))).--......--- ( -45.50)
>DroMoj_CAF1 48 97 - 1
CAAUGGAAACUUGGCAGCCUCGCGGCGAUGCAGCUCAUCGACGGCCGCCUGCAGUGAGUAGGCGG---CGCGUUGGGGCGUGGCCAGGA--CAAUGCCAAGC------
.........(((((((.(((...(((.((((......(((((((((((((((.....))))))))---).)))))).)))).)))))).--...))))))).------ ( -51.00)
>DroAna_CAF1 54 106 - 1
CAGCGGGUACUUGGCCGCCUCCCGACGAUGCAGUUCGUCCACAGCCGCCUGCAGCGAAUAGGCAGCGGUGCGUUGGGGCGUCGCCAGGAUGCACUGA--ACCACCAUC
(((.(.((.(((((((((((...(((((......)))))..((((((((.((.((......)).)))))).)))))))))..)))))))).).))).--......... ( -42.40)
>DroPer_CAF1 49 102 - 1
CAACGGAAAUUUCGAUGCCUCGCGACGGUGCAGCUCGUCAACGGCUGCCUGGAGCGAAUAGGCGGCGGUGCGCUGUGGUGUUGCCCAGAUGCACUGC--AGGAG----
...((((...)))).((((((((..(((.(((((.((....))))))))))..))))...))))(((((((((((.((.....))))).))))))))--.....---- ( -47.70)
>consensus
CAAUGGAUACUUGGCCGCCUCGCGACGAUGCAGCUCAUCCACGGCCGCCUGCAGCGAAUAGGCGGCGGUGCGCUGGGGCGUCGCCAGGAUGCACUGC__ACCAC____
.........((((((.(((..(((..((((.....))))(((.((((((((.......)))))))).))))))...)))...)))))).................... (-25.95 = -27.37 +   1.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:33 2006