Locus 6761

Sequence ID	X_DroMel_CAF1
Location	16,786,240 – 16,786,442
Length	202
Max. P	0.646109

overview

Window 2

Location	16,786,240 – 16,786,336
Length	96
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	75.24
Mean single sequence MFE	-38.83
Consensus MFE	-23.62
Energy contribution	-23.68
Covariance contribution	0.06
Combinations/Pair	1.29
Mean z-score	-1.32
Structure conservation index	0.61
SVM decision value	0.08
SVM RNA-class probability	0.572541
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16786240 96 + 22224390
CACCUAAGCCCCAACAGCCGCAGAUAGUGCACCAAAAUGCCCGUCUGCUGAGUGAUAGCAUGGAGAAUAUGCUGGACUCGGACCAGGAGC------------------GGGCAA
.......(((((..(..(((((((..(.(((......))))..))))).((((..(((((((.....))))))).))))))....)..).------------------)))).. ( -34.30)
>DroPse_CAF1 16147 105 + 1
CAAGUGGGCGCC---AGCCCCAGAUCGUGCACCAAAAUGCGCAGCUGCUGAACGACAGCCUGGAGCAUAUGCUGGACCGCGAGCAGGAGCAGUU------GGAGGCACGUGCCA
......(((((.---.(((((((...(((((......))))).(((.(((..((....((...(((....)))))....))..))).)))..))------)).)))..))))). ( -40.50)
>DroSec_CAF1 4131 96 + 1
CACCUAAGCCCCAGCAGCCGCAGAUAGUGCACCAGAAUGCCCGUCUGCUGAGUGAUAGCAUGGAGAAUAUGCUGGACUCGGACCAGGAGC------------------GGGCAA
.......((((..((..(((((((..(.(((......))))..)))))(((((..(((((((.....))))))).))))).....)).))------------------)))).. ( -34.90)
>DroEre_CAF1 9743 114 + 1
CCCCUAAGCCCCAGCAGCCGCAGAUAGUGCACCAGAAUGCCCGUCUGCUGAGUGAUAGCAUGGAGAACAUGUUGGACUCGGAUCAGGAGCGCGCCAGAGACGAGGAGCGGGCAA
.......((((..((..(((((((..(.(((......))))..)))))(((((..(((((((.....))))))).))))).....)).))((.((........)).)))))).. ( -41.00)
>DroYak_CAF1 4150 114 + 1
CACCGAAGCCCCAGCUGCCGCAGAUAGUGCACCAGAAUGCCCGUCUGCUGAGUGAUAGCAUGGAGAACAUGCUGGACUCGGAUCAGGAGCGGGUCAGGGACGAGGAGAGGGCAA
.......((((...((.(((((.....))).((....(((((((((.((((((..(((((((.....))))))).))))))....))).)))).)).))....)))).)))).. ( -45.10)
>DroAna_CAF1 4855 114 + 1
GCCCGCAGCCGAAACAGCCGCAGAUUGUCCACCAGAAUGCCCAUCUGUUGAGCGAUAGCAUGGAGAACAUGCUGGACUCCGAUCAGGAGAGGCAACGCGACGAGGAGAGGGUCA
((((((.((.......)).))...(((((((.((((.......)))).)).(((.(((((((.....)))))))..((((.....))))......)))))))).....)))).. ( -37.20)
>consensus
CACCUAAGCCCCAGCAGCCGCAGAUAGUGCACCAGAAUGCCCGUCUGCUGAGUGAUAGCAUGGAGAACAUGCUGGACUCGGAUCAGGAGCGG________CGAGGAG_GGGCAA
.......((((........((((((.(.(((......))).))))))).(((...(((((((.....)))))))..))).............................)))).. (-23.62 = -23.68 +   0.06)

alignment

secondary structure

dotplot

Window 3

Location	16,786,336 – 16,786,442
Length	106
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	74.74
Mean single sequence MFE	-41.55
Consensus MFE	-18.97
Energy contribution	-19.36
Covariance contribution	0.39
Combinations/Pair	1.41
Mean z-score	-1.88
Structure conservation index	0.46
SVM decision value	0.23
SVM RNA-class probability	0.646109
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16786336 106 - 22224390
GCCUUAUCGGGCACAAACCAAUUGGUGCGGUUCCUUGAGG-CACUGGCCAAGUCCACUG---GUCCACUGGC--CUUAUUUGCCGACUCCGGCAUUCGGCUGAGAUAGGGCU
((((((((((((.((......(((((.((((.((....))-.)))))))))......))---))))...(((--(.....(((((....)))))...))))..)))))))). ( -44.10)
>DroSec_CAF1 4227 106 - 1
GCCUUAUCCGGCACAAACCAGUUGGUGCGGUUCCUUGAGG-CACUGGCCAAGUCCACUG---GUCCAUUGGC--CUUAUGUGUCGACUCCGGCAUUCGGCUGAGAUAGGGCU
(((((((((((((((((((.((....))))))...(((((-(..((((((.......))---).)))...))--)))))))))))....((((.....)))).)))))))). ( -43.20)
>DroEre_CAF1 9857 106 - 1
GCCUUAUCCGGCACAAACCAGUUGGUUCGAUUCCUUGACG-CGCUGCUCAAGUCCACAG---GUCCACUGGC--UUUAUUUGCCGACACUGGCAUUCGGCUGAGAUAGGGCU
((((((((((((.....(((((.((..(.....(((((.(-(...)))))))......)---..))))))).--......(((((....)))))....)))).)))))))). ( -38.50)
>DroYak_CAF1 4264 106 - 1
GCCUUGUCCGGCACAAACCAGUUGGUGCGGUUCCUUGAGG-CACUGGCCAAGUCCACUG---GCCCACUUGC--CUUAUUUGCCGACUGCGGCAUUCGGCUGAGAUAGGGCU
((((((((((((....(((....))).(((.....(((((-((..(((((.......))---)))....)))--))))..(((((....))))).))))))).)))))))). ( -45.90)
>DroMoj_CAF1 5962 106 - 1
GCCUUGUCGCCCACGAACCAAUUGGUGCGAUUGCGCGACGGCGCU-GCCAGGUCCACAGUUGCCUGGUUGGCCGC-----UGGCUUCUCCUCCACACGACUGAGAUAGGGCC
(((((((((((..((..(((((..(.(((((((.(.((((((...-)))..)))).))))))))..))))).)).-----.)))..........((....)).)))))))). ( -41.30)
>DroPer_CAF1 16208 99 - 1
----CGUCUGCCACAAACCAAUUGGUGCGAUUUCUUGAGG-CGCUGGCCAAGUCCACCAUGGAUCUGUUGGC--------GGCCCCCUCGGGUAUCUUGCUCAGAUAGGGCC
----.....((((((..(((..(((((.(((((.....((-(....))))))))))))))))...)).))))--------(((((..((((((.....)))).))..))))) ( -36.30)
>consensus
GCCUUAUCCGGCACAAACCAAUUGGUGCGAUUCCUUGAGG_CACUGGCCAAGUCCACUG___GUCCACUGGC__CUUAUUUGCCGACUCCGGCAUUCGGCUGAGAUAGGGCU
((((((((.........((((((((((.((...((((...........))))))))))).......))))).........(((((....))))).........)))))))). (-18.97 = -19.36 +   0.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:19 2006