Locus 8102

Sequence ID	X_DroMel_CAF1
Location	20,157,004 – 20,157,120
Length	116
Max. P	0.886579

overview

Window 6

Location	20,157,004 – 20,157,120
Length	116
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	75.81
Mean single sequence MFE	-21.00
Consensus MFE	-6.58
Energy contribution	-5.94
Covariance contribution	-0.64
Combinations/Pair	1.28
Mean z-score	-2.04
Structure conservation index	0.31
SVM decision value	0.94
SVM RNA-class probability	0.886579
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20157004 116 + 22224390
CCUUAAAGUGCAUUCGAAAUAUUACUCGUAUUUACAUGCUCAUGAAUAUUUCAUUUU-UAUCUCGAGA---CCGUCCCCACGUAAACAACUUUGGUCAAGUUGGACGUAUGUAUUUCAUU
.....((((((((..((((((((....((((....)))).....)))))))).....-..........---........((((...((((((.....)))))).)))))))))))).... ( -20.70)
>DroSec_CAF1 2903 110 + 1
CCUUAAAGUGCAUUCGAAAUAUUACUCGUAUUUACAUGCUCAUGAAUAUUUCAUUUU-UAUCUCGAGU---CCGUC--CAAGUAACCAACAUUGGUCAAUUUGGACGUA----UUUAAUU
.....((((((....((((((((....((((....)))).....)))))))).....-..........---..(((--(((((.((((....))))..)))))))))))----))).... ( -25.10)
>DroSim_CAF1 3780 110 + 1
CUUUAAAGUGCAUUCGAAAUAUUACUCGUAUUUACAUGCUCAUGAAUAUUUCAUUUU-UAUCUCGAGU---CCGUC--CAACUAACCAACAUUGGUCAAUUUGGACGUA----UUUAAUU
.....((((((....((((((((....((((....)))).....)))))))).....-..........---..(((--(((...((((....))))....)))))))))----))).... ( -22.60)
>DroEre_CAF1 8671 107 + 1
-------GUGCAUUUGAAAUCUUACUCGAAUUUGCAUGCCCAUGAAUGUUUAAUUUCCCAUAUCGAGUAACCAGUC--CAGGCAACCAAUUUUGGUCAAUUUAGACUCC----UUCUAUU
-------.(((....((....(((((((((((.((((........))))..)))........))))))))....))--...)))((((....)))).....((((....----.)))).. ( -15.90)
>DroYak_CAF1 11531 104 + 1
CCUUAAAGUGCACUCGAAAAUUCACUCGUAUCUACACGAUCGUGAAUAUUUCAUUUAUC----------UCUAGUU--CAAGUAACCAAUUUUGGUCAAUUUGCACUCA----UUUUAUU
...(((((((.....((((((((((((((......))))..)))))).)))).......----------...(((.--(((((.((((....))))..))))).)))))----))))).. ( -20.70)
>consensus
CCUUAAAGUGCAUUCGAAAUAUUACUCGUAUUUACAUGCUCAUGAAUAUUUCAUUUU_UAUCUCGAGU___CCGUC__CAAGUAACCAACUUUGGUCAAUUUGGACGUA____UUUAAUU
.......(((.((.(((........))).)).))).....................................((((...((...((((....))))...))..))))............. ( -6.58 =  -5.94 +  -0.64)

alignment

secondary structure

dotplot

Window 7

Location	20,157,004 – 20,157,120
Length	116
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	75.81
Mean single sequence MFE	-23.76
Consensus MFE	-11.76
Energy contribution	-11.52
Covariance contribution	-0.24
Combinations/Pair	1.20
Mean z-score	-1.73
Structure conservation index	0.49
SVM decision value	-0.05
SVM RNA-class probability	0.506748
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20157004 116 - 22224390
AAUGAAAUACAUACGUCCAACUUGACCAAAGUUGUUUACGUGGGGACGG---UCUCGAGAUA-AAAAUGAAAUAUUCAUGAGCAUGUAAAUACGAGUAAUAUUUCGAAUGCACUUUAAGG
..(((((((..(((...((((((.....))))))(((((((((((....---.)))......-...((((.....))))...)))))))).....))).))))))).............. ( -20.70)
>DroSec_CAF1 2903 110 - 1
AAUUAAA----UACGUCCAAAUUGACCAAUGUUGGUUACUUG--GACGG---ACUCGAGAUA-AAAAUGAAAUAUUCAUGAGCAUGUAAAUACGAGUAAUAUUUCGAAUGCACUUUAAGG
..(((((----..(((((((..((((((....)))))).)))--)))).---..((((((((-...((((.....))))..((.(((....))).))..))))))))......))))).. ( -25.30)
>DroSim_CAF1 3780 110 - 1
AAUUAAA----UACGUCCAAAUUGACCAAUGUUGGUUAGUUG--GACGG---ACUCGAGAUA-AAAAUGAAAUAUUCAUGAGCAUGUAAAUACGAGUAAUAUUUCGAAUGCACUUUAAAG
..(((((----..(((((((.(((((((....))))))))))--)))).---..((((((((-...((((.....))))..((.(((....))).))..))))))))......))))).. ( -27.20)
>DroEre_CAF1 8671 107 - 1
AAUAGAA----GGAGUCUAAAUUGACCAAAAUUGGUUGCCUG--GACUGGUUACUCGAUAUGGGAAAUUAAACAUUCAUGGGCAUGCAAAUUCGAGUAAGAUUUCAAAUGCAC-------
.......----(((((((.....(((((....)))))(((..--....)))(((((((((((.(((........))).....)))).....))))))))))))))........------- ( -20.50)
>DroYak_CAF1 11531 104 - 1
AAUAAAA----UGAGUGCAAAUUGACCAAAAUUGGUUACUUG--AACUAGA----------GAUAAAUGAAAUAUUCACGAUCGUGUAGAUACGAGUGAAUUUUCGAGUGCACUUUAAGG
.......----.(((((((...((((((....))))))....--.......----------......(((((.((((((..(((((....))))))))))))))))..)))))))..... ( -25.10)
>consensus
AAUAAAA____UACGUCCAAAUUGACCAAAGUUGGUUACUUG__GACGG___ACUCGAGAUA_AAAAUGAAAUAUUCAUGAGCAUGUAAAUACGAGUAAUAUUUCGAAUGCACUUUAAGG
.............((((..((.((((((....)))))).))...))))....................................((((....((((......))))..))))........ (-11.76 = -11.52 +  -0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:27 2006