Locus 8573

Sequence ID	X_DroMel_CAF1
Location	21,252,904 – 21,253,020
Length	116
Max. P	0.994408

overview

Window 0

Location	21,252,904 – 21,253,020
Length	116
Sequences	4
Columns	117
Reading direction	forward
Mean pairwise identity	89.74
Mean single sequence MFE	-31.27
Consensus MFE	-27.33
Energy contribution	-29.70
Covariance contribution	2.37
Combinations/Pair	1.10
Mean z-score	-3.09
Structure conservation index	0.87
SVM decision value	2.48
SVM RNA-class probability	0.994408
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21252904 116 + 22224390
ACGGGAAAAUCAAGCAGGCAUAACGUAGUUAAAGCUGGAAUACAGGUAAAUCGAUUAAAGUCAAGUGGUCGAUUAC-CAUAUUCUAGCCAUUCGAUAGUGCAGGAUUAUCGUAAUAA
((((...((((..((((((........)))...(((((((((..(((((.(((((((........)))))))))))-).)))))))))..........)))..)))).))))..... ( -30.40)
>DroSec_CAF1 635 117 + 1
ACGGGAAAAUCAAGCAAGCAUAACGUAGUAAAAGCUGGAAUACAGAUAAAUCGAUUACAGUAAAGUGCUCGAUUACCCAUAUUCCAGCGAUUCGAUAGUGCAGGAUUAUCGUAAUAA
((((...((((..(((....((.((.(((....(((((((((......((((((.(((......))).)))))).....))))))))).))))).)).)))..)))).))))..... ( -30.70)
>DroEre_CAF1 576 116 + 1
ACGGGAAAAUCAAGCAAGCAUAACGUGGUAAAAGCUGGAAUAUAUGUAAAUCGAUUACAGU-GAGUGAUCGAUUACCAAUAUUCGAGCCAUUCGACAGUGCAGGAUUAUCGUAAUAA
((((...((((..(((.(.....)((.(.....(((.((((((.((..((((((((((...-..))))))))))..)))))))).)))....).))..)))..)))).))))..... ( -30.90)
>DroYak_CAF1 746 117 + 1
ACGGUAAAACCAAGCAAGCAUAACGUAGUAAAAGCCGGAAUGUAGGUAAAUCGAUUACUGUAGAGUUGUCGAUUACCAAUAUUCCAGCCAUUCGAUAGUGCAGGAUUAUCGUAAUAA
(((((((..((..(((....((.((.(((....((.(((((((.(((((.(((((.(((....))).)))))))))).))))))).)).))))).)).))).)).)))))))..... ( -33.10)
>consensus
ACGGGAAAAUCAAGCAAGCAUAACGUAGUAAAAGCUGGAAUACAGGUAAAUCGAUUACAGUAAAGUGGUCGAUUACCAAUAUUCCAGCCAUUCGAUAGUGCAGGAUUAUCGUAAUAA
((((...((((..(((....((.((.(((....((((((((((.(((((.((((((((......))))))))))))).)))))))))).))))).)).)))..)))).))))..... (-27.33 = -29.70 +   2.37)

alignment

secondary structure

dotplot

Window 1

Location	21,252,904 – 21,253,020
Length	116
Sequences	4
Columns	117
Reading direction	reverse
Mean pairwise identity	89.74
Mean single sequence MFE	-27.13
Consensus MFE	-24.64
Energy contribution	-26.07
Covariance contribution	1.44
Combinations/Pair	1.11
Mean z-score	-2.39
Structure conservation index	0.91
SVM decision value	2.07
SVM RNA-class probability	0.987181
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21252904 116 - 22224390
UUAUUACGAUAAUCCUGCACUAUCGAAUGGCUAGAAUAUG-GUAAUCGACCACUUGACUUUAAUCGAUUUACCUGUAUUCCAGCUUUAACUACGUUAUGCCUGCUUGAUUUUCCCGU
.......((.((((..(((.........((((.(((((((-((((((((..............)))).))))).)))))).)))).((((...))))....)))..)))).)).... ( -22.34)
>DroSec_CAF1 635 117 - 1
UUAUUACGAUAAUCCUGCACUAUCGAAUCGCUGGAAUAUGGGUAAUCGAGCACUUUACUGUAAUCGAUUUAUCUGUAUUCCAGCUUUUACUACGUUAUGCUUGCUUGAUUUUCCCGU
.......((.((((..(((..........((((((((((((((((((((..((......))..)))).)))))))))))))))).........(.....).)))..)))).)).... ( -33.30)
>DroEre_CAF1 576 116 - 1
UUAUUACGAUAAUCCUGCACUGUCGAAUGGCUCGAAUAUUGGUAAUCGAUCACUC-ACUGUAAUCGAUUUACAUAUAUUCCAGCUUUUACCACGUUAUGCUUGCUUGAUUUUCCCGU
.......((.((((..(((..((..(((((((.((((((((..(((((((.((..-...)).)))))))..)).)))))).)))........))))..)).)))..)))).)).... ( -24.90)
>DroYak_CAF1 746 117 - 1
UUAUUACGAUAAUCCUGCACUAUCGAAUGGCUGGAAUAUUGGUAAUCGACAACUCUACAGUAAUCGAUUUACCUACAUUCCGGCUUUUACUACGUUAUGCUUGCUUGGUUUUACCGU
.....(((.(((.((.(((....((...(((((((((...(((((((((..(((....)))..)))).)))))...))))))))).......)).......)))..))..))).))) ( -28.00)
>consensus
UUAUUACGAUAAUCCUGCACUAUCGAAUGGCUGGAAUAUGGGUAAUCGACCACUCUACUGUAAUCGAUUUACCUAUAUUCCAGCUUUUACUACGUUAUGCUUGCUUGAUUUUCCCGU
.....(((..((((..(((....((...(((((((((((((((((((((..((......))..)))).))))))))))))))))).......)).......)))..))))....))) (-24.64 = -26.07 +   1.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:33 2006