Locus 7090

Sequence ID	2L_DroMel_CAF1
Location	19,830,237 – 19,830,333
Length	96
Max. P	0.988690

overview

Window 3

Location	19,830,237 – 19,830,333
Length	96
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	76.26
Mean single sequence MFE	-22.30
Consensus MFE	-11.45
Energy contribution	-13.28
Covariance contribution	1.83
Combinations/Pair	1.00
Mean z-score	-2.74
Structure conservation index	0.51
SVM decision value	2.13
SVM RNA-class probability	0.988690
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19830237 96 + 22407834
CUUUCCUUUUU-AUUUUAUUUUUUUUGAGCUAAAGGAACUUGAAAACCAGAGGAAAAGUUACCUCAGCAAAAUAGCUUUGCUGACACACUUUACCCA
...((((((..-.(((((..((((((......))))))..)))))...))))))(((((....((((((((.....))))))))...)))))..... ( -21.00)
>DroSec_CAF1 7113 89 + 1
CUUUCCUUUUU-AUU-------UUUUGAGCUGAGGGAACUUGAAAGCCAGAGGUAAAGUUACCUCAGCAAAAUAGCUUUGCUGACACACUUUACCUA
...........-...-------.((((.((((((....)))...)))))))((((((((....((((((((.....))))))))...)))))))).. ( -26.00)
>DroSim_CAF1 14708 89 + 1
CUUUCCUUUUU-AUU-------UUUGGAGCUGAGGGAACUUAAAAGCCAGAGGUAAAGUUACCUCAGCAAAAUAGCUUUGCUGACACACUUUACCCA
...........-...-------(((((...((((....))))....)))))((((((((....((((((((.....))))))))...)))))))).. ( -26.80)
>DroEre_CAF1 14366 83 + 1
CU-----UGU--UUU-------UUUGGGACUAAAGGAACUUGAAAACCAGAGGUAAAGUUACCUCAGCAAAAUAGCUUUGCUGACACAAUUUACCUA
(.-----.((--(((-------((((....)))))))))..)........(((((((......((((((((.....)))))))).....))))))). ( -22.00)
>DroYak_CAF1 11607 83 + 1
CU-----UUU--UUU-------UUCGGAAGUAAAGGAACUUGAAAACCAGAGGUAAAGUUACCUCAGCAAAAUAGGUUUGCUGACACACUUUACCUA
..-----(((--(((-------(.(....).)))))))............(((((((((....((((((((.....))))))))...))))))))). ( -23.90)
>DroAna_CAF1 22234 89 + 1
UUUUCCUUUUCUGUU------UUUUUAAGCCC--GAUUCCUAGAAAGUGGAGAGAAAGUUGCCUCAGCAAAAAUGCGCAGAUGCCACAGUUUAAAUA
(((((((((((((..------...........--......))))))).))))))...((.((.((.(((....)))...)).)).)).......... ( -14.11)
>consensus
CUUUCCUUUUU_AUU_______UUUGGAGCUAAAGGAACUUGAAAACCAGAGGUAAAGUUACCUCAGCAAAAUAGCUUUGCUGACACACUUUACCUA
...................................................((((((((....((((((((.....))))))))...)))))))).. (-11.45 = -13.28 +   1.83)

alignment

secondary structure

dotplot

Window 4

Location	19,830,237 – 19,830,333
Length	96
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	76.26
Mean single sequence MFE	-19.63
Consensus MFE	-13.19
Energy contribution	-14.50
Covariance contribution	1.31
Combinations/Pair	1.12
Mean z-score	-1.44
Structure conservation index	0.67
SVM decision value	0.76
SVM RNA-class probability	0.842753
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19830237 96 - 22407834
UGGGUAAAGUGUGUCAGCAAAGCUAUUUUGCUGAGGUAACUUUUCCUCUGGUUUUCAAGUUCCUUUAGCUCAAAAAAAAUAAAAU-AAAAAGGAAAG
.(((.(((((...(((((((((...)))))))))....))))).)))............(((((((...................-..))))))).. ( -19.70)
>DroSec_CAF1 7113 89 - 1
UAGGUAAAGUGUGUCAGCAAAGCUAUUUUGCUGAGGUAACUUUACCUCUGGCUUUCAAGUUCCCUCAGCUCAAAA-------AAU-AAAAAGGAAAG
.(((((((((...(((((((((...)))))))))....)))))))))............((((............-------...-.....)))).. ( -20.95)
>DroSim_CAF1 14708 89 - 1
UGGGUAAAGUGUGUCAGCAAAGCUAUUUUGCUGAGGUAACUUUACCUCUGGCUUUUAAGUUCCCUCAGCUCCAAA-------AAU-AAAAAGGAAAG
.(((((((((...(((((((((...)))))))))....)))))))))...(((.............)))(((...-------...-.....)))... ( -21.12)
>DroEre_CAF1 14366 83 - 1
UAGGUAAAUUGUGUCAGCAAAGCUAUUUUGCUGAGGUAACUUUACCUCUGGUUUUCAAGUUCCUUUAGUCCCAAA-------AAA--ACA-----AG
.((((((((((..(((((((((...)))))))))..))).))))))).(((..((.(((...))).))..)))..-------...--...-----.. ( -19.50)
>DroYak_CAF1 11607 83 - 1
UAGGUAAAGUGUGUCAGCAAACCUAUUUUGCUGAGGUAACUUUACCUCUGGUUUUCAAGUUCCUUUACUUCCGAA-------AAA--AAA-----AG
.(((((((((...((((((((.....))))))))....)))))))))....(((((((((......))))..)))-------)).--...-----.. ( -23.20)
>DroAna_CAF1 22234 89 - 1
UAUUUAAACUGUGGCAUCUGCGCAUUUUUGCUGAGGCAACUUUCUCUCCACUUUCUAGGAAUC--GGGCUUAAAAA------AACAGAAAAGGAAAA
........((((.((....))...(((..((((((....)))....(((........)))...--.)))..)))..------.)))).......... ( -13.30)
>consensus
UAGGUAAAGUGUGUCAGCAAAGCUAUUUUGCUGAGGUAACUUUACCUCUGGUUUUCAAGUUCCUUUAGCUCAAAA_______AAU_AAAAAGGAAAG
.(((((((((...((((((((.....))))))))....))))))))).................................................. (-13.19 = -14.50 +   1.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:19 2006