Locus 2825

Sequence ID	X_DroMel_CAF1
Location	7,553,013 – 7,553,130
Length	117
Max. P	0.890698

overview

Window 6

Location	7,553,013 – 7,553,130
Length	117
Sequences	5
Columns	119
Reading direction	forward
Mean pairwise identity	79.57
Mean single sequence MFE	-22.58
Consensus MFE	-14.22
Energy contribution	-14.36
Covariance contribution	0.14
Combinations/Pair	1.08
Mean z-score	-2.07
Structure conservation index	0.63
SVM decision value	0.96
SVM RNA-class probability	0.890698
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7553013 117 + 22224390
GCGCAUGUUGUUGCUGUGCAGCGCAAACGACGACGACAGCGACAAAUGUGUAGAUCAACAGAUCAGUCACUCGAAAAGCGAAACUAAAAAGUAACCAAAUAAAAAAAAUGAAACA--AA
((((((.(((((((((((..(((....)).)..).)))))))))))))))).((((....))))..(((.(((.....))).(((....)))................)))....--.. ( -25.80)
>DroPse_CAF1 107523 101 + 1
---------GUUGCCGUGCAGAGUAGUCGACUACGACAGGGACAAAUGUGGGGAUCAACAGAUCAUUCACUCAAA-------ACGAAAACGUAACGAAA--AUAAGAAUGAAAGGAAAA
---------(((((.((.(...((((....)))).....).))....(((((((((....)))).))))).....-------........)))))....--.................. ( -18.40)
>DroSec_CAF1 45595 116 + 1
GCGCAUGUUGUUGCUGUGCAGCGCAAACGACGACGACAGCGACAAAUGUGUAGAUCAACAGAUCAGUCACUCAAAAAGCGAAACUAAAAAGUAACCAAAUAAA-AAAAUGAAACA--AA
((((((.(((((((((((..(((....)).)..).)))))))))))))))).((((....)))).......................................-...........--.. ( -24.50)
>DroSim_CAF1 44899 116 + 1
GCGCAUGUUGUUGCUGUGCAGCGCAAACGACGACGACAGCGACAAAUGUGUAGAUCAACAGAUCAGUCACUCAAAAAGCGAAACUAAAAAGUAACCAAAUAAA-AAAAUGAAACA--AA
((((((.(((((((((((..(((....)).)..).)))))))))))))))).((((....)))).......................................-...........--.. ( -24.50)
>DroPer_CAF1 113417 101 + 1
---------GUUGCCGUACAGAGUGGUCGACUACGACAGGGACAAAUGUGGAGAUCAACAGAUCAUUCACUCAAA-------ACGAAAACGUAACGAAA--AUAAGAAUGAAAGGAAAA
---------((((((((...(((((((((....))))...............((((....))))...)))))...-------))).....)))))....--.................. ( -19.70)
>consensus
GCGCAUGUUGUUGCUGUGCAGCGCAAACGACGACGACAGCGACAAAUGUGUAGAUCAACAGAUCAGUCACUCAAAAAGCGAAACUAAAAAGUAACCAAAUAAAAAAAAUGAAACA__AA
.(((.....((((((((.(..((.......))..)))))))))....(((..((((....))))...))).......)))..(((....)))........................... (-14.22 = -14.36 +   0.14)

alignment

secondary structure

dotplot

Window 7

Location	7,553,013 – 7,553,130
Length	117
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	79.57
Mean single sequence MFE	-22.92
Consensus MFE	-16.18
Energy contribution	-14.90
Covariance contribution	-1.28
Combinations/Pair	1.20
Mean z-score	-1.50
Structure conservation index	0.71
SVM decision value	0.10
SVM RNA-class probability	0.582759
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7553013 117 - 22224390
UU--UGUUUCAUUUUUUUUAUUUGGUUACUUUUUAGUUUCGCUUUUCGAGUGACUGAUCUGUUGAUCUACACAUUUGUCGCUGUCGUCGUCGUUUGCGCUGCACAGCAACAACAUGCGC
..--...................((((((((...((.....))....))))))))((((....))))..(.(((((((.(((((.((.(.((....))).))))))).)))).))).). ( -25.20)
>DroPse_CAF1 107523 101 - 1
UUUUCCUUUCAUUCUUAU--UUUCGUUACGUUUUCGU-------UUUGAGUGAAUGAUCUGUUGAUCCCCACAUUUGUCCCUGUCGUAGUCGACUACUCUGCACGGCAAC---------
..................--..(((..(((....)))-------..)))(((...((((....))))..)))..(((.((.(((.((((....))))...))).))))).--------- ( -18.30)
>DroSec_CAF1 45595 116 - 1
UU--UGUUUCAUUUU-UUUAUUUGGUUACUUUUUAGUUUCGCUUUUUGAGUGACUGAUCUGUUGAUCUACACAUUUGUCGCUGUCGUCGUCGUUUGCGCUGCACAGCAACAACAUGCGC
..--...........-.......((((((((...((.....))....))))))))((((....))))..(.(((((((.(((((.((.(.((....))).))))))).)))).))).). ( -25.90)
>DroSim_CAF1 44899 116 - 1
UU--UGUUUCAUUUU-UUUAUUUGGUUACUUUUUAGUUUCGCUUUUUGAGUGACUGAUCUGUUGAUCUACACAUUUGUCGCUGUCGUCGUCGUUUGCGCUGCACAGCAACAACAUGCGC
..--...........-.......((((((((...((.....))....))))))))((((....))))..(.(((((((.(((((.((.(.((....))).))))))).)))).))).). ( -25.90)
>DroPer_CAF1 113417 101 - 1
UUUUCCUUUCAUUCUUAU--UUUCGUUACGUUUUCGU-------UUUGAGUGAAUGAUCUGUUGAUCUCCACAUUUGUCCCUGUCGUAGUCGACCACUCUGUACGGCAAC---------
..................--.........(((.((((-------...(((((...((((....))))...............((((....)))))))))...)))).)))--------- ( -19.30)
>consensus
UU__UGUUUCAUUUUUUUUAUUUGGUUACUUUUUAGUUUCGCUUUUUGAGUGACUGAUCUGUUGAUCUACACAUUUGUCGCUGUCGUCGUCGUUUGCGCUGCACAGCAACAACAUGCGC
........((((((.............(((....)))..........))))))..((((....)))).........((.(((((((.(((.....))).)).))))).))......... (-16.18 = -14.90 +  -1.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:27 2006