Locus 6225

Sequence ID	2L_DroMel_CAF1
Location	17,316,180 – 17,316,304
Length	124
Max. P	0.994975

overview

Window 7

Location	17,316,180 – 17,316,274
Length	94
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	94.88
Mean single sequence MFE	-21.38
Consensus MFE	-20.82
Energy contribution	-21.02
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.66
Structure conservation index	0.97
SVM decision value	2.53
SVM RNA-class probability	0.994975
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17316180 94 + 22407834
GCAAAACUCUCUCACCCUCAGCUGCAUUUAAUUUUCACCCAUUUUGGGAGACAAUUUCAGUGCAUUUCACUGCGGGAUAUUCAUCAGACCGCAG
......................((((((.((((.((.(((.....))).)).))))..)))))).....((((((.............)))))) ( -22.02)
>DroSec_CAF1 13770 94 + 1
GCAAAACUCUCUCACCCUCAGCUGCAUUUAAUUUUCACCCAUUUUGGGAGACAAUUUCAGUCCAUUUCACUGCGGGAUAUUCAUCAGACCGCAG
....................((((.....((((.((.(((.....))).)).)))).))))........((((((.............)))))) ( -18.02)
>DroSim_CAF1 15299 94 + 1
GCAAAACUCUCUCACCCUCAGCUGCAUUUAAUUUUCACCCAUUUUGGGAGACAAUUUCAGUGCAUUUCACUGCGGGAUAUUCAUCAGACCGCAG
......................((((((.((((.((.(((.....))).)).))))..)))))).....((((((.............)))))) ( -22.02)
>DroEre_CAF1 15769 91 + 1
GCAAACCUCAC---CCCCCGGCUGCAUUUAAUUUUCGCCCAUUUUGGGAGACAAUUUCAGUGCAUUUCACUGCGGGAUAUUCAUCAGACCGCAG
...........---........((((((.((((.((.(((.....))).)).))))..)))))).....((((((.............)))))) ( -22.52)
>DroYak_CAF1 8081 91 + 1
GCAAAGCUCUC---CCCUCCGCUGCAUUUAAUUUUCACCCAUUUUGGGAGACAAUUUCAGUGCAUUUCACUGCGGGAUAUUCAUCAGACCGCAG
....(((....---......)))(((((.((((.((.(((.....))).)).))))..)))))......((((((.............)))))) ( -22.32)
>consensus
GCAAAACUCUCUCACCCUCAGCUGCAUUUAAUUUUCACCCAUUUUGGGAGACAAUUUCAGUGCAUUUCACUGCGGGAUAUUCAUCAGACCGCAG
......................((((((.((((.((.(((.....))).)).))))..)))))).....((((((.............)))))) (-20.82 = -21.02 +   0.20)

alignment

secondary structure

dotplot

Window 8

Location	17,316,214 – 17,316,304
Length	90
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.80
Mean single sequence MFE	-28.73
Consensus MFE	-16.76
Energy contribution	-17.04
Covariance contribution	0.28
Combinations/Pair	1.20
Mean z-score	-2.27
Structure conservation index	0.58
SVM decision value	0.29
SVM RNA-class probability	0.670908
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17316214 90 + 22407834
----------UCACCCAUUUUGGGAGACAAUUU--------CAGUGCAUUUCAC--UGCGGGAUAUUCAUCAGACCGCAGUUUCCGCUUGUUGCUCUCCAGGUG--AUUUCC--------
----------(((((.....((((((.((((..--------.((((......((--(((((.............)))))))...)))).))))))).)))))))--).....-------- ( -28.12)
>DroSec_CAF1 13804 90 + 1
----------UCACCCAUUUUGGGAGACAAUUU--------CAGUCCAUUUCAC--UGCGGGAUAUUCAUCAGACCGCAGUUUCCGCUUGUUGCUCUCCAGGUG--AUUUCG--------
----------(((((.....((((((.((((..--------.(((.......((--(((((.............)))))))....))).))))))).)))))))--).....-------- ( -25.82)
>DroSim_CAF1 15333 90 + 1
----------UCACCCAUUUUGGGAGACAAUUU--------CAGUGCAUUUCAC--UGCGGGAUAUUCAUCAGACCGCAGUUUCCGCUUGUUGCUCUCCAGGUG--AUUUCC--------
----------(((((.....((((((.((((..--------.((((......((--(((((.............)))))))...)))).))))))).)))))))--).....-------- ( -28.12)
>DroEre_CAF1 15800 98 + 1
----------UCGCCCAUUUUGGGAGACAAUUU--------CAGUGCAUUUCAC--UGCGGGAUAUUCAUCAGACCGCAGUUUCCGCUUGCUGCUCUCCAGGUG--AUUUCCCCUCUUUC
----------((.(((.....))).))......--------(((((.....)))--)).((((...(((((.((..(((((........)))))..))..))))--)..))))....... ( -28.20)
>DroYak_CAF1 8112 90 + 1
----------UCACCCAUUUUGGGAGACAAUUU--------CAGUGCAUUUCAC--UGCGGGAUAUUCAUCAGACCGCAGUUUCCGCUUGUUGCUCUCCAGGUG--AUUUCC--------
----------(((((.....((((((.((((..--------.((((......((--(((((.............)))))))...)))).))))))).)))))))--).....-------- ( -28.12)
>DroAna_CAF1 23771 112 + 1
AUUGAUUGGAUCACUCGGUUAGGGAAACGGUUUCUGGCCCUCAGUGCACUUCCCCGUGUGGCAUAUUCAUCAGGCAGCCGUUUCCGCUUGUUGCUCUUCGGUUGCGGCCUCG--------
.((((((((.....))))))))(((((((((((((((......((((((........)).)))).....))))).))))))))))....(((((.(....)..)))))....-------- ( -34.00)
>consensus
__________UCACCCAUUUUGGGAGACAAUUU________CAGUGCAUUUCAC__UGCGGGAUAUUCAUCAGACCGCAGUUUCCGCUUGUUGCUCUCCAGGUG__AUUUCC________
...........((((.......((((((...............(((.....)))..(((((.............)))))))))))((.....))......))))................ (-16.76 = -17.04 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:43 2006