Locus 1018

Sequence ID X_DroMel_CAF1
Location 2,973,257 – 2,973,351
Length 94
Max. P 0.679428
window1641 window1642

overview

Window 1

Location 2,973,257 – 2,973,351
Length 94
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 81.62
Mean single sequence MFE -29.95
Consensus MFE -17.48
Energy contribution -18.77
Covariance contribution 1.29
Combinations/Pair 1.00
Mean z-score -2.20
Structure conservation index 0.58
SVM decision value 0.28
SVM RNA-class probability 0.666580
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2973257 94 + 22224390
UCACGCACUUUUGCGGCUUCCGCUUUGGAGCUGCUGCUCCAUCAAAAUGGAGCCAUCAACACCUGCUUAGA-GGUAAAAAAGUGGGUGGC--AGUUC
((((.(((((((((((((((......)))))))).(((((((....))))))).......((((......)-)))..))))))).)))).--..... ( -37.10)
>DroGri_CAF1 509383 80 + 1
UCACGCACUUUUGCGGCUUCCGGC-UGG----------CCAUCAAAAUGGAGCCAUCAACACCUGCUUAGG-GAUCG--G-CAGGCGCCA--GGCAU
...((((....))))((((..(((-(((----------(..((......))))))......((((((....-....)--)-)))).))))--))).. ( -24.90)
>DroSec_CAF1 350772 91 + 1
UCACGCACUUUUGCGGCUUCCGCU-UGGAGCUGCUGCUCCAUCAAAAUGGAGCCAUCAACACCUGCUUAGA-GGGAA--AACUGGGUGGA--AAUCC
((((.((.((((((((((((....-.)))))))).(((((((....)))))))........(((......)-)).))--)).)).)))).--..... ( -30.40)
>DroSim_CAF1 317001 91 + 1
UCACGCACUUUUGCGGCUUCCGCU-UGGAGCUGCUGCUCCAUCAAAAUGGAGCCAUCAACACCUGCUUAGA-GGGAA--AACUGGGUGGA--AAUUC
((((.((.((((((((((((....-.)))))))).(((((((....)))))))........(((......)-)).))--)).)).)))).--..... ( -30.40)
>DroEre_CAF1 380204 83 + 1
UCACGCACUUUUGCGGCUUCCGCU-U--AGCUGCUGCUCCAUCAAAAUGGAGCCAUCAACACCUGCUUAGA-GGGAA--AACUCUGUGU--------
.((((((.....((((((......-.--)))))).(((((((....)))))))..........)))..(((-(....--..))))))).-------- ( -26.90)
>DroYak_CAF1 361436 92 + 1
UCACGCACUUUUGCGGCUUCCGCU-U--AGCUGCUGCUCCAUCAAAAUGGAGCCAUCAACACCUGCUUAGAAGGGAA--AACUGAGUGGGAAAACUC
...((((....))))..(((((((-(--((.....(((((((....)))))))........(((.......)))...--..))))))))))...... ( -30.00)
>consensus
UCACGCACUUUUGCGGCUUCCGCU_UGGAGCUGCUGCUCCAUCAAAAUGGAGCCAUCAACACCUGCUUAGA_GGGAA__AACUGGGUGGA__AAUUC
.((((((....)))((((((.....((((((....)))))).......))))))...............................)))......... (-17.48 = -18.77 +   1.29)

alignment

Postscript

secondary structure

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dotplot

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Window 2

Location 2,973,257 – 2,973,351
Length 94
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 81.62
Mean single sequence MFE -30.35
Consensus MFE -20.08
Energy contribution -22.08
Covariance contribution 2.00
Combinations/Pair 1.00
Mean z-score -1.79
Structure conservation index 0.66
SVM decision value 0.30
SVM RNA-class probability 0.679428
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2973257 94 - 22224390
GAACU--GCCACCCACUUUUUUACC-UCUAAGCAGGUGUUGAUGGCUCCAUUUUGAUGGAGCAGCAGCUCCAAAGCGGAAGCCGCAAAAGUGCGUGA
.....--..(((.(((((((.....-........((.((((...(((((((....)))))))..)))).))...((((...))))))))))).))). ( -34.80)
>DroGri_CAF1 509383 80 - 1
AUGCC--UGGCGCCUG-C--CGAUC-CCUAAGCAGGUGUUGAUGGCUCCAUUUUGAUGG----------CCA-GCCGGAAGCCGCAAAAGUGCGUGA
(((((--(.(((((((-(--.....-.....))))))(((..(((((((((....))))----------..)-))))..))).))...)).)))).. ( -27.70)
>DroSec_CAF1 350772 91 - 1
GGAUU--UCCACCCAGUU--UUCCC-UCUAAGCAGGUGUUGAUGGCUCCAUUUUGAUGGAGCAGCAGCUCCA-AGCGGAAGCCGCAAAAGUGCGUGA
((.((--(((.....(((--(....-...)))).((.((((...(((((((....)))))))..)))).)).-...)))))))(((....))).... ( -31.20)
>DroSim_CAF1 317001 91 - 1
GAAUU--UCCACCCAGUU--UUCCC-UCUAAGCAGGUGUUGAUGGCUCCAUUUUGAUGGAGCAGCAGCUCCA-AGCGGAAGCCGCAAAAGUGCGUGA
.....--..(((.((.((--((...-........((.((((...(((((((....)))))))..)))).)).-.((((...)))))))).)).))). ( -30.90)
>DroEre_CAF1 380204 83 - 1
--------ACACAGAGUU--UUCCC-UCUAAGCAGGUGUUGAUGGCUCCAUUUUGAUGGAGCAGCAGCU--A-AGCGGAAGCCGCAAAAGUGCGUGA
--------.(((((((..--....)-)))..(((...((((...(((((((....)))))))..)))).--.-.((((...)))).....)))))). ( -30.20)
>DroYak_CAF1 361436 92 - 1
GAGUUUUCCCACUCAGUU--UUCCCUUCUAAGCAGGUGUUGAUGGCUCCAUUUUGAUGGAGCAGCAGCU--A-AGCGGAAGCCGCAAAAGUGCGUGA
((((......))))....--...........(((...((((...(((((((....)))))))..)))).--.-.((((...)))).....))).... ( -27.30)
>consensus
GAAUU__UCCACCCAGUU__UUCCC_UCUAAGCAGGUGUUGAUGGCUCCAUUUUGAUGGAGCAGCAGCUCCA_AGCGGAAGCCGCAAAAGUGCGUGA
...............................(((((.((((...(((((((....)))))))..)))).))...((((...)))).....))).... (-20.08 = -22.08 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:24 2006