Locus 8624

Sequence ID	X_DroMel_CAF1
Location	21,677,251 – 21,677,371
Length	120
Max. P	0.664386

overview

Window 8

Location	21,677,251 – 21,677,360
Length	109
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	83.91
Mean single sequence MFE	-38.77
Consensus MFE	-28.65
Energy contribution	-31.27
Covariance contribution	2.61
Combinations/Pair	1.12
Mean z-score	-1.79
Structure conservation index	0.74
SVM decision value	0.07
SVM RNA-class probability	0.569317
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21677251 109 + 22224390
UGCUUAGCCUGAACAAUUGCCCGGGCACAACGCCCGGCACGCCGAUGAGCAAAAAUCAGCUUAAGAAGCAGCGAAAGCUGGCGGAGUUUGCCGAACUCCGGAAGCUGCG
((((((..(.(......((((.((((.....))))))))..).).)))))).....((((((......((((....)))).((((((((...)))))))).)))))).. ( -43.50)
>DroPse_CAF1 7056 109 + 1
UCCUCAGCCUAAACAACUGUCCCGGAACUACGCCCGGCACCCCGCAGAGCAAGAACCAACUGAAGAAGCAGAAAAAACUGGCCGAGUUUGCGGAGCUCAAGAAGUUGCG
.............(((((((.((((........)))).)).(((((((((.((......(((......)))......)).))....))))))).........))))).. ( -23.10)
>DroSim_CAF1 7303 109 + 1
UGCGUACCCUGAACAAUUGCCCGGGCACAACGCCCGGCACGCCGAUGAGCAAAAAUCAGCUUAAGAAGCAACGCAAGCUGGCGGAGUUUGCUGAACUCCGGAAGCUGCG
(((((............((((.((((.....)))))))).((...(((((........)))))....)).)))))((((..((((((((...))))))))..))))... ( -41.30)
>DroEre_CAF1 6728 109 + 1
UGCUCAGCUUGAGCAAUUGCCCGGGCACGACGCCCGGGACGCCGCUGAGCAAAAACCAGCUUAAGAAGCAGCGCAAGCUGGCGGAGAUUGCCGAACUCCGGAAGCUGCG
((((((((..(.((.....(((((((.....)))))))..))))))))))).....((((((......((((....)))).(((((.........))))).)))))).. ( -52.70)
>DroYak_CAF1 7322 109 + 1
UGCUCAGCUUGAGCAAUUGCCCGGGCACGACGCCCGGAACGCCCCUGAGCAAAAAUCAGCUAAAGAAGCAGCGCAAGCUGGCGGAGUUUGCUGAACUCCGGAAGCUGCG
(((((((.....((....))((((((.....)))))).......))))))).....(((((.......((((....)))).((((((((...))))))))..))))).. ( -48.90)
>DroPer_CAF1 7065 109 + 1
UCCUCAGCCUAAACAACUGUCCCGGAACUACGCCCGGCACCCCGCAGAGCAAGAACCAACUGAAGAAGCAGAAAAAACUGGCCGAGUUUGCGGAGCUCAAGAAGUUGCG
.............(((((((.((((........)))).)).(((((((((.((......(((......)))......)).))....))))))).........))))).. ( -23.10)
>consensus
UGCUCAGCCUGAACAAUUGCCCGGGCACAACGCCCGGCACGCCGCUGAGCAAAAACCAGCUUAAGAAGCAGCGAAAGCUGGCGGAGUUUGCCGAACUCCGGAAGCUGCG
((((((((....((....))((((((.....))))))......)))))))).....(((((.......((((....)))).((((((((...))))))))..))))).. (-28.65 = -31.27 +   2.61)

alignment

secondary structure

dotplot

Window 9

Location	21,677,280 – 21,677,371
Length	91
Sequences	5
Columns	91
Reading direction	forward
Mean pairwise identity	85.49
Mean single sequence MFE	-32.78
Consensus MFE	-21.76
Energy contribution	-23.08
Covariance contribution	1.32
Combinations/Pair	1.23
Mean z-score	-2.03
Structure conservation index	0.66
SVM decision value	0.28
SVM RNA-class probability	0.664386
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21677280 91 + 22224390
ACGCCCGGCACGCCGAUGAGCAAAAAUCAGCUUAAGAAGCAGCGAAAGCUGGCGGAGUUUGCCGAACUCCGGAAGCUGCGACGCGAACGGG
...((((...(((.(((........)))(((((......((((....)))).((((((((...)))))))).))))).....)))..)))) ( -35.20)
>DroSec_CAF1 6668 91 + 1
ACGCCCGGCACGCCGAUGAGCAAAAAUCAGCUUAAGAAGCAGCGCAAGCUGGCGGAGUUUGCUGAACUCCGGAAGCUGCGACGCGAACGGG
...((((...(((...(((((........))))).......(((((.(((..((((((((...))))))))..))))))).))))..)))) ( -35.50)
>DroSim_CAF1 7332 91 + 1
ACGCCCGGCACGCCGAUGAGCAAAAAUCAGCUUAAGAAGCAACGCAAGCUGGCGGAGUUUGCUGAACUCCGGAAGCUGCGACGCGAACGGG
...((((...(((...(((((........)))))........((((.(((..((((((((...))))))))..)))))))..)))..)))) ( -35.60)
>DroYak_CAF1 7351 91 + 1
ACGCCCGGAACGCCCCUGAGCAAAAAUCAGCUAAAGAAGCAGCGCAAGCUGGCGGAGUUUGCUGAACUCCGGAAGCUGCGUCGCGAACGGG
...((((........((((.......))))........((.(((((.(((..((((((((...))))))))..)))))))).))...)))) ( -35.00)
>DroAna_CAF1 7034 91 + 1
ACACCUGGCACCCCCCAGAGCAAAAAUCAAUUGAAGAAACAGCGUAAAAUGGCCGAGUACGCGGAGUUGCGGAAACUCCGGCGUGAAAAAG
.(((((((......)))).((....................(((((...........)))))((((((.....)))))).)))))...... ( -22.60)
>consensus
ACGCCCGGCACGCCGAUGAGCAAAAAUCAGCUUAAGAAGCAGCGCAAGCUGGCGGAGUUUGCUGAACUCCGGAAGCUGCGACGCGAACGGG
...((((.........(((((........)))))....((..((((.(((..((((((((...))))))))..)))))))..))...)))) (-21.76 = -23.08 +   1.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:50 2006