Locus 647

Sequence ID 2L_DroMel_CAF1
Location 1,948,837 – 1,948,933
Length 96
Max. P 0.944998
window1054 window1055

overview

Window 4

Location 1,948,837 – 1,948,933
Length 96
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 76.98
Mean single sequence MFE -32.85
Consensus MFE -14.00
Energy contribution -14.67
Covariance contribution 0.67
Combinations/Pair 1.24
Mean z-score -2.67
Structure conservation index 0.43
SVM decision value 1.35
SVM RNA-class probability 0.944998
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1948837 96 + 22407834
ACUUUGCCACUGU-CCGAGGAUCAAUAGCUAUUAAUUAGCUUAAUUAAUGUCGUCCGGC-CAGGUGACCAA-AUC-----GUAUUGUC----CGGAGUGCCAAGGUGU
((((((.(((..(-((..(((.(((((((((.....)))).........((((.((...-..))))))...-...-----.)))))))----))))))).)))))).. ( -26.10)
>DroPse_CAF1 148223 105 + 1
ACUUC--CAUUUUGACGGCUAUCAAUUGAUAUUAAUUAGCUUAAUUAAUGUCAUUUGGC-UGAGUUGCCAAAAGCGGAUGGAAUCGACUCAAUGAAGUGCCAAGGCGU
(((((--....((((((.(((((...((((((((((((...))))))))))))((((((-......))))))....)))))...))..)))).)))))((....)).. ( -29.80)
>DroSec_CAF1 113531 97 + 1
ACUUUGGCACCGC-CCGAGGAUCAAUAGCUAUUAAUUAGCUUAAUUAAUGUCGUCCGGCCCGGGUGACCAA-GUC-----GUAUUGUC----CGGAGUGCCAAGGUGU
((((((((((.((-(.((.(((....(((((.....)))))........))).)).)))(((((..(....-...-----...)..))----))).)))))))))).. ( -37.10)
>DroSim_CAF1 97518 96 + 1
ACUUUGGCACCGC-CCGAGGAUCAAUAGCUAUUAAUUAGCUUAAUUAAUGUCGUCCGGC-CGGGUGACCAA-GUC-----GUAUUGUC----CGGAGUGCCAAGGUGU
((((((((((..(-(...(((.(((((((((.....))))...............((((-.((....))..-)))-----))))))))----))).)))))))))).. ( -34.80)
>DroYak_CAF1 124702 96 + 1
ACUUUGGCACUGC-CCGGGUAUCAAUAGGUAUUAAUUAGCUUAAUUAAUGUCAUCCGGC-CGGAUGACCAG-AUG-----UGAUUGUC----CGGAGUGCCAAGGUGU
(((((((((((..-((((..((((.(((((........)))))......(((((((...-.)))))))...-...-----))).)..)----)))))))))))))).. ( -39.50)
>DroPer_CAF1 146907 105 + 1
ACUUC--CAUUUUGACGGCUAUCAAUUGAUAUUAAUUAGCUUAAUUAAUGUCAUUUGGC-UGAGUUGCCAAAAGCGGAUGGAAUCGACUCAAUGAAGUGCCAAGGCGU
(((((--....((((((.(((((...((((((((((((...))))))))))))((((((-......))))))....)))))...))..)))).)))))((....)).. ( -29.80)
>consensus
ACUUUGGCACUGC_CCGAGGAUCAAUAGCUAUUAAUUAGCUUAAUUAAUGUCAUCCGGC_CGGGUGACCAA_AUC_____GUAUUGUC____CGGAGUGCCAAGGUGU
((((((.((((...(((.....(((((...((((((((...))))))))(((((((.....))))))).............)))))......))))))).)))))).. (-14.00 = -14.67 +   0.67)

alignment

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secondary structure

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dotplot

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Window 5

Location 1,948,837 – 1,948,933
Length 96
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 76.98
Mean single sequence MFE -28.27
Consensus MFE -11.14
Energy contribution -10.62
Covariance contribution -0.52
Combinations/Pair 1.30
Mean z-score -2.38
Structure conservation index 0.39
SVM decision value 0.48
SVM RNA-class probability 0.753544
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1948837 96 - 22407834
ACACCUUGGCACUCCG----GACAAUAC-----GAU-UUGGUCACCUG-GCCGGACGACAUUAAUUAAGCUAAUUAAUAGCUAUUGAUCCUCGG-ACAGUGGCAAAGU
..((.(((.(((((((----((((((.(-----(.(-((((((....)-))))))))..........(((((.....))))))))).)))..))-)..))).))).)) ( -27.10)
>DroPse_CAF1 148223 105 - 1
ACGCCUUGGCACUUCAUUGAGUCGAUUCCAUCCGCUUUUGGCAACUCA-GCCAAAUGACAUUAAUUAAGCUAAUUAAUAUCAAUUGAUAGCCGUCAAAAUG--GAAGU
.....(((((.(......).)))))((((((.....((((((......-))))))((((.(((((((...)))))))((((....))))...))))..)))--))).. ( -22.70)
>DroSec_CAF1 113531 97 - 1
ACACCUUGGCACUCCG----GACAAUAC-----GAC-UUGGUCACCCGGGCCGGACGACAUUAAUUAAGCUAAUUAAUAGCUAUUGAUCCUCGG-GCGGUGCCAAAGU
..((.(((((((((((----(.(((...-----...-))).....))))(((.((.((..(((((..(((((.....)))))))))))).)).)-)))))))))).)) ( -31.50)
>DroSim_CAF1 97518 96 - 1
ACACCUUGGCACUCCG----GACAAUAC-----GAC-UUGGUCACCCG-GCCGGACGACAUUAAUUAAGCUAAUUAAUAGCUAUUGAUCCUCGG-GCGGUGCCAAAGU
..((.(((((((((((----((((((.(-----(.(-(.((((....)-))))).))..........(((((.....))))))))).)))...)-).)))))))).)) ( -29.00)
>DroYak_CAF1 124702 96 - 1
ACACCUUGGCACUCCG----GACAAUCA-----CAU-CUGGUCAUCCG-GCCGGAUGACAUUAAUUAAGCUAAUUAAUACCUAUUGAUACCCGG-GCAGUGCCAAAGU
..((.(((((((((((----(...((((-----(((-((((((....)-))))))))..((((((((...))))))))......))))..))))-..)))))))).)) ( -36.60)
>DroPer_CAF1 146907 105 - 1
ACGCCUUGGCACUUCAUUGAGUCGAUUCCAUCCGCUUUUGGCAACUCA-GCCAAAUGACAUUAAUUAAGCUAAUUAAUAUCAAUUGAUAGCCGUCAAAAUG--GAAGU
.....(((((.(......).)))))((((((.....((((((......-))))))((((.(((((((...)))))))((((....))))...))))..)))--))).. ( -22.70)
>consensus
ACACCUUGGCACUCCG____GACAAUAC_____GAU_UUGGUCACCCG_GCCGGACGACAUUAAUUAAGCUAAUUAAUAGCUAUUGAUACCCGG_ACAGUGCCAAAGU
..((.(((.(((((((......(((((..........(((((.......))))).....((((((((...))))))))...))))).....)))...)))).))).)) (-11.14 = -10.62 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:49 2006