Locus 4895

Sequence ID	3L_DroMel_CAF1
Location	13,637,139 – 13,637,270
Length	131
Max. P	0.990626

overview

Window 6

Location	13,637,139 – 13,637,237
Length	98
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	94.53
Mean single sequence MFE	-22.52
Consensus MFE	-19.28
Energy contribution	-19.32
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-2.04
Structure conservation index	0.86
SVM decision value	2.10
SVM RNA-class probability	0.988012
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13637139 98 - 23771897
CUCGCCUUUCAGUCUCGUGAUUCUCCAAAAGUUGUCAACCAGCUUUGUGGAAUUUGCGAAUAGGAAAAA--AACCUUAAAUUCUAAUCGGAUUUACAUUU
......((((....(((..(...(((((((((((.....))))))).))))..)..)))....))))..--.....(((((((.....)))))))..... ( -20.80)
>DroSec_CAF1 44595 98 - 1
CUCGCCUUUCAGUCUCGUGAUUCUCCCAAAGUUGUCAACCAGCUUUGUGGAAUUUGCGAAAAGGAAAAA--AACCUUAAAUUCUAAUCGGAUUUACAUUU
....(((((.....(((..(...(((((((((((.....)))))))).)))..)..)))))))).....--.....(((((((.....)))))))..... ( -24.00)
>DroSim_CAF1 54609 98 - 1
CUCGCCUUUCAGUCUCGUGAUUCUCCCAAAGUUGUCAACCAGCUUUGUGGAAUUUGCGAAAAGGAAAAA--AACCUUAAAUUCUAAUCGGAUUUACAUUU
....(((((.....(((..(...(((((((((((.....)))))))).)))..)..)))))))).....--.....(((((((.....)))))))..... ( -24.00)
>DroEre_CAF1 47007 98 - 1
CUCGCUCCUCAGUCUGGUGAUUCUCCCAAAGUUGUCAACCAGCUUUGUGGAAUUUGCGAAAAGGAACAA--AACCUUAAAUUCUAAUCGGAUUUACAUUU
.((((.....((((....)))).(((((((((((.....)))))))).)))....)))).((((.....--..))))((((((.....))))))...... ( -22.00)
>DroYak_CAF1 51749 100 - 1
CUCGCCUUUCAGUCUGAUGAUUCUCCCAAAGUUGUCAGCCAGCUUUGUGGAAUUUGUGAAAAGCAAAAAAGAACCUUAAAUUCUAAUCGGAUUUACAUUU
...((.((((((((....)))..(((((((((((.....)))))))).))).....))))).))............(((((((.....)))))))..... ( -21.80)
>consensus
CUCGCCUUUCAGUCUCGUGAUUCUCCCAAAGUUGUCAACCAGCUUUGUGGAAUUUGCGAAAAGGAAAAA__AACCUUAAAUUCUAAUCGGAUUUACAUUU
.((((.....((((....)))).(((((((((((.....)))))))).)))....)))).................(((((((.....)))))))..... (-19.28 = -19.32 +   0.04)

alignment

secondary structure

dotplot

Window 7

Location	13,637,171 – 13,637,270
Length	99
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	94.95
Mean single sequence MFE	-20.66
Consensus MFE	-18.28
Energy contribution	-18.52
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-1.91
Structure conservation index	0.88
SVM decision value	2.22
SVM RNA-class probability	0.990626
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13637171 99 - 23771897
ACCUACAUAUUGAUUUAUCAACUUUUCCAUUCACUCGCCUUUCAGUCUCGUGAUUCUCCAAAAGUUGUCAACCAGCUUUGUGGAAUUUGCGAAUAGGAA
.((((....((((....))))..........................(((..(...(((((((((((.....))))))).))))..)..))).)))).. ( -19.90)
>DroSec_CAF1 44627 99 - 1
ACCUAUAUAUUGAUUUAUCAACUUUUCCAUUCACUCGCCUUUCAGUCUCGUGAUUCUCCCAAAGUUGUCAACCAGCUUUGUGGAAUUUGCGAAAAGGAA
.........((((....))))................(((((.....(((..(...(((((((((((.....)))))))).)))..)..)))))))).. ( -21.40)
>DroSim_CAF1 54641 99 - 1
ACCUACAUAUUGAUUUAUCAACUUUUCCAUUCACUCGCCUUUCAGUCUCGUGAUUCUCCCAAAGUUGUCAACCAGCUUUGUGGAAUUUGCGAAAAGGAA
.........((((....))))................(((((.....(((..(...(((((((((((.....)))))))).)))..)..)))))))).. ( -21.40)
>DroEre_CAF1 47039 99 - 1
ACCUACAUAUUGAUUUAUCAACUUUUACAUUCACUCGCUCCUCAGUCUGGUGAUUCUCCCAAAGUUGUCAACCAGCUUUGUGGAAUUUGCGAAAAGGAA
.(((.....((((....)))).............((((.....((((....)))).(((((((((((.....)))))))).)))....))))..))).. ( -21.40)
>DroYak_CAF1 51783 99 - 1
ACCUACAUAUUGAUUUAUCAACUUUUCCAUUCACUCGCCUUUCAGUCUGAUGAUUCUCCCAAAGUUGUCAGCCAGCUUUGUGGAAUUUGUGAAAAGCAA
.........((((....))))...............((.((((((((....)))..(((((((((((.....)))))))).))).....))))).)).. ( -19.20)
>consensus
ACCUACAUAUUGAUUUAUCAACUUUUCCAUUCACUCGCCUUUCAGUCUCGUGAUUCUCCCAAAGUUGUCAACCAGCUUUGUGGAAUUUGCGAAAAGGAA
.(((.....((((....)))).............((((.....((((....)))).(((((((((((.....)))))))).)))....))))..))).. (-18.28 = -18.52 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:21 2006