Locus 8681

Sequence ID	X_DroMel_CAF1
Location	22,013,126 – 22,013,256
Length	130
Max. P	0.825280

overview

Window 3

Location	22,013,126 – 22,013,223
Length	97
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	66.63
Mean single sequence MFE	-39.20
Consensus MFE	-20.14
Energy contribution	-22.18
Covariance contribution	2.04
Combinations/Pair	1.46
Mean z-score	-1.72
Structure conservation index	0.51
SVM decision value	0.70
SVM RNA-class probability	0.825280
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 22013126 97 + 22224390
----------------UAGGGCAACAGGCUGAGAGGCCGAUUCAUCAGGAAAUUGCCUUCUAGCCUGGGCAGGGGUAUCAGAACUUGUCCGGGCCUUCUGAGCGGACUGCUCU
----------------.(((((((..((((....))))..(((.....))).)))))))...(((((((((((..(....)..))))))))))).....((((.....)))). ( -39.90)
>DroSec_CAF1 80543 97 + 1
----------------UAGGUCAACAGGCUCAGAGGCCGAUCCACCAAGAAAGUGCCUUCUAGCCUGGGCAGGGGUAUCAGAACAUGUCCGGGUCUUCUGAGCGGACUGCUCU
----------------..((((.....(((((((((((..((......))..).))).....(((((((((...((......)).)))))))))..))))))).))))..... ( -34.00)
>DroEre_CAF1 54684 97 + 1
----------------AAGGGCAACAGGCUUAGGGUGCGAUCCGCCGGGAAAUUGCAGUCCAGCCUGGGCAGGGGUAUCAGAACCUGCCCGGUCCGCCUGAGCGGACUGCUCG
----------------..((((...(((((..(((((((((((....)))..))))).))))))))(((((((..(....)..)))))))(((((((....))))))))))). ( -49.10)
>DroYak_CAF1 63325 97 + 1
----------------UAGUGUAACAGGUUUAGGGUCCGAUCCGCCGAAAAAUGGCGUUCUAGCCUGGGCAGGGGUAGCAGAACCUGUCCGGUCCCUCUGAGCGGACUGCUAU
----------------((((((....(.((.((((.((((..(((((.....))))).))......(((((((..(....)..))))))))).))))..)).)..)).)))). ( -32.50)
>DroAna_CAF1 32049 101 + 1
GAGUAUGAGUGGCCGGUCGGCCAGUGGCCUCAAAGGACUACUCU------------CCUCCAAAGUGGGCAGUGGUAUCAGGACCUGGCCAGUCCUCCUCCUGGGACUAUUCU
(((((....(((((((((((((...)))).....((((((((.(------------((........))).)))))).))..)))).)))))(((((......)))))))))). ( -40.50)
>consensus
________________UAGGGCAACAGGCUCAGAGGCCGAUCCACCAAGAAAUUGCCUUCUAGCCUGGGCAGGGGUAUCAGAACCUGUCCGGUCCUUCUGAGCGGACUGCUCU
..................(((((....(((((((((((................((......)).((((((((..........)))))))))))).)))))))....))))). (-20.14 = -22.18 +   2.04)

alignment

secondary structure

dotplot

Window 4

Location	22,013,147 – 22,013,256
Length	109
Sequences	5
Columns	115
Reading direction	forward
Mean pairwise identity	67.68
Mean single sequence MFE	-40.06
Consensus MFE	-21.36
Energy contribution	-22.76
Covariance contribution	1.40
Combinations/Pair	1.44
Mean z-score	-1.59
Structure conservation index	0.53
SVM decision value	0.37
SVM RNA-class probability	0.707656
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 22013147 109 + 22224390
CGAUUCAUCAGGAAAUUGCCUUCUAGCCUGGGCAGGGGUAUCAGAACUUGUCCGGGCCUUCUGAGCGGACUGCUCUCCCUGCUGUUCAGGAUUUCC-CUUCUCAGGA-CGA----
..........(((((((........(((((((((((..(....)..)))))))))))...((((((((.(..........))))))))))))))))-..........-...---- ( -35.90)
>DroSec_CAF1 80564 109 + 1
CGAUCCACCAAGAAAGUGCCUUCUAGCCUGGGCAGGGGUAUCAGAACAUGUCCGGGUCUUCUGAGCGGACUGCUCUCCCUGCUCUUCAGGAUCUCC-CUUCUUAGGA-CGA----
.(((((........((.((......))))((((((((.....(((.((.((((.(.((....)).))))))).)))))))))))....)))))..(-((....))).-...---- ( -35.70)
>DroEre_CAF1 54705 94 + 1
CGAUCCGCCGGGAAAUUGCAGUCCAGCCUGGGCAGGGGUAUCAGAACCUGCCCGGUCCGCCUGAGCGGACUGCUCGCCCUGCUGUUCAGGACCU---------------------
.((.(.((.(((.....(((((((...(((((((((..(....)..)))))))))...((....)))))))))...))).)).).)).......--------------------- ( -42.70)
>DroYak_CAF1 63346 109 + 1
CGAUCCGCCGAAAAAUGGCGUUCUAGCCUGGGCAGGGGUAGCAGAACCUGUCCGGUCCCUCUGAGCGGACUGCUAUCCCUGCUGUUCAGGACCUCG-UUCCUCGGGA-CGA----
.((..(((((.....))))).))...((((((((((((((((((...(((..(((.....)))..))).))))))))))))))...))))...(((-(((....)))-)))---- ( -50.30)
>DroAna_CAF1 32086 103 + 1
CUACUCU------------CCUCCAAAGUGGGCAGUGGUAUCAGGACCUGGCCAGUCCUCCUCCUGGGACUAUUCUCCCGACUCGUCAUAUUGUCGCCUUGUCGGGGAGGAUCAC
......(------------(((((.....(((.((((((..(((((...((.....))...)))))..)))))))))(((((.((.(.....).))....))))))))))).... ( -35.70)
>consensus
CGAUCCACCAAGAAAUUGCCUUCUAGCCUGGGCAGGGGUAUCAGAACCUGUCCGGUCCUUCUGAGCGGACUGCUCUCCCUGCUGUUCAGGAUCUCC_CUUCUCAGGA_CGA____
((.(((...................(((((((((((..........)))))))))))..(((((((((.............)))))))))..............))).))..... (-21.36 = -22.76 +   1.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:14 2006