Locus 3958

Sequence ID	X_DroMel_CAF1
Location	10,517,306 – 10,517,415
Length	109
Max. P	0.690724

overview

Window 0

Location	10,517,306 – 10,517,415
Length	109
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	83.35
Mean single sequence MFE	-38.88
Consensus MFE	-26.48
Energy contribution	-27.72
Covariance contribution	1.24
Combinations/Pair	1.19
Mean z-score	-1.71
Structure conservation index	0.68
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10517306 109 + 22224390
---GGGUGUGGCAA-------GUGGGCGGUGGUGCAACACGACUAAGUGCUUUGGCUUGCCGAAUGUAGGCACUUGAACUAUUUUUGUUCUCUCGCC-CACUUACAUACGCGUCGCCAGU
---(.(((((..((-------((((((((((......)))....(((((((((((....)))).....)))))))((((.......))))...))))-))))).))))).)......... ( -41.60)
>DroSec_CAF1 48862 109 + 1
---GGGUGUGGCGU-------GUGGGCGGUGGUGCAACACGACUAAGUGCUUUGGCUUGCCGAAUGUAGGCACUUGAACUAUUUUUGUUCCCUCGCC-CACUUACAUACGCGUCGCCAGU
---.((((..((((-------((((((((.((.((((......((((((((((((....)))).....))))))))........)))).)).)))))-)))......))))..))))... ( -42.04)
>DroSim_CAF1 52367 109 + 1
---GGGUGUGGCAU-------GUGGGCGGUGGUGCAACACGACUAAGUGCUUUGGCUUGCCGAAUGUAGGCACUUGAACUAUUUUUGUUCCCUCGCC-CACUUACAUACGCGUCGCCAGU
---(.(((((....-------((((((((.((.((((......((((((((((((....)))).....))))))))........)))).)).)))))-)))...))))).)......... ( -40.34)
>DroEre_CAF1 50873 110 + 1
--ACGGUGUGGCAA-------GUGGGCGAUGGUGCAACACGACUAAGUGCUCUGGCUUGCCGAAUGUAGGCACUUGAACUAUUUUUGUUCUCUCGCC-CACUUACAUACGCAUCGCCAGU
--.(((((((..((-------((((((((.(((((..(((......)))...(((....))).......))))).((((.......))))..)))))-))))).....)))))))..... ( -40.00)
>DroYak_CAF1 50402 119 + 1
AAAGGGGGUGGCAAUGGGGCUGUGGGCGGUGGUGCAACACGACUAAGUGCUUUGGCUUGCCGAAUGUAGGCACUUGAACUAUUUUUGUUCUCACGCC-CACUUACAUACGCGUCGCCAGU
......((((((.....(...((((((((((......)))((..(((((((((((....)))).....)))))))((((.......)))))).))))-)))...)......))))))... ( -41.30)
>DroAna_CAF1 54190 95 + 1
---UGGUGUA-UAU-------GUGUGUGUGUGUG--------UUAAGUGCUUUGGCAUGCCAAAAGUAGGCACUUGAACUAUUUCUAUGUUCUCGCCGCACUCUCACUCG------CAGU
---.......-..(-------(((.(((.(((((--------..(((((((((((....)))).....)))))))((((.........))))....)))))...))).))------)).. ( -28.00)
>consensus
___GGGUGUGGCAA_______GUGGGCGGUGGUGCAACACGACUAAGUGCUUUGGCUUGCCGAAUGUAGGCACUUGAACUAUUUUUGUUCUCUCGCC_CACUUACAUACGCGUCGCCAGU
....((((..((.........((((((((.((.((((......((((((((((((....)))).....))))))))........)))).)).))))).)))........))..))))... (-26.48 = -27.72 +   1.24)

alignment

secondary structure

dotplot

Window 1

Location	10,517,306 – 10,517,415
Length	109
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	83.35
Mean single sequence MFE	-34.77
Consensus MFE	-24.63
Energy contribution	-25.45
Covariance contribution	0.82
Combinations/Pair	1.12
Mean z-score	-2.17
Structure conservation index	0.71
SVM decision value	0.33
SVM RNA-class probability	0.690724
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10517306 109 - 22224390
ACUGGCGACGCGUAUGUAAGUG-GGCGAGAGAACAAAAAUAGUUCAAGUGCCUACAUUCGGCAAGCCAAAGCACUUAGUCGUGUUGCACCACCGCCCAC-------UUGCCACACCC---
..((((.(((....)))(((((-((((...((((.......))))..((((........((....))..(((((......)))))))))...)))))))-------)))))).....--- ( -35.50)
>DroSec_CAF1 48862 109 - 1
ACUGGCGACGCGUAUGUAAGUG-GGCGAGGGAACAAAAAUAGUUCAAGUGCCUACAUUCGGCAAGCCAAAGCACUUAGUCGUGUUGCACCACCGCCCAC-------ACGCCACACCC---
..((((((((....)))..(((-((((..(((((.......))))..((((........((....))..(((((......))))))))))..)))))))-------.))))).....--- ( -37.30)
>DroSim_CAF1 52367 109 - 1
ACUGGCGACGCGUAUGUAAGUG-GGCGAGGGAACAAAAAUAGUUCAAGUGCCUACAUUCGGCAAGCCAAAGCACUUAGUCGUGUUGCACCACCGCCCAC-------AUGCCACACCC---
..((((((((....)))..(((-((((..(((((.......))))..((((........((....))..(((((......))))))))))..)))))))-------.))))).....--- ( -35.30)
>DroEre_CAF1 50873 110 - 1
ACUGGCGAUGCGUAUGUAAGUG-GGCGAGAGAACAAAAAUAGUUCAAGUGCCUACAUUCGGCAAGCCAGAGCACUUAGUCGUGUUGCACCAUCGCCCAC-------UUGCCACACCGU--
....(((.((.(...(((((((-(((((..((((.......))))..((((........((....))..(((((......)))))))))..))))))))-------))))).)).)))-- ( -38.60)
>DroYak_CAF1 50402 119 - 1
ACUGGCGACGCGUAUGUAAGUG-GGCGUGAGAACAAAAAUAGUUCAAGUGCCUACAUUCGGCAAGCCAAAGCACUUAGUCGUGUUGCACCACCGCCCACAGCCCCAUUGCCACCCCCUUU
..((((((.((....))..(((-((((((.((((.......))))..((((........((....))..(((((......))))))))))).))))))).......))))))........ ( -35.60)
>DroAna_CAF1 54190 95 - 1
ACUG------CGAGUGAGAGUGCGGCGAGAACAUAGAAAUAGUUCAAGUGCCUACUUUUGGCAUGCCAAAGCACUUAA--------CACACACACACAC-------AUA-UACACCA---
..((------.(.(((.(((((((((..((((.((....))))))..(((((.......))))))))...))))))..--------))).).)).....-------...-.......--- ( -26.30)
>consensus
ACUGGCGACGCGUAUGUAAGUG_GGCGAGAGAACAAAAAUAGUUCAAGUGCCUACAUUCGGCAAGCCAAAGCACUUAGUCGUGUUGCACCACCGCCCAC_______AUGCCACACCC___
....((((((((....((((((.(((....((((.......))))...((((.......)))).)))....))))))..))))))))................................. (-24.63 = -25.45 +   0.82)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:45 2006