Locus 8300

Sequence ID	X_DroMel_CAF1
Location	20,638,963 – 20,639,059
Length	96
Max. P	0.993885

overview

Window 6

Location	20,638,963 – 20,639,059
Length	96
Sequences	5
Columns	106
Reading direction	forward
Mean pairwise identity	61.70
Mean single sequence MFE	-23.81
Consensus MFE	-10.77
Energy contribution	-12.29
Covariance contribution	1.52
Combinations/Pair	1.29
Mean z-score	-2.68
Structure conservation index	0.45
SVM decision value	2.43
SVM RNA-class probability	0.993885
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20638963 96 + 22224390
CGAAAA-------AGAAAACUCUAGGUCAGUAGACUAAAGGUAUCA-AUAUUUUUGU-AACUUCGAUACUUUUAGGCCACGGAACUCGAGUUUU-AAAUUAAAGUG
......-------..(((((((.((.((.((.(.(((((((((((.-..........-......))))))))))).).)).)).)).)))))))-........... ( -21.93)
>DroSec_CAF1 43157 96 + 1
CGAAAA-------CAAAAACUCCAUGUCAGUAGACUAAAGGUAUCA-AUAUUAUAGU-AACUUUGAUACCUUUAGGCCGCGGAAAUCGAGUUUU-AAAUUCAAGGG
.(((..-------..(((((((.((.((.(..(.((((((((((((-(..(((...)-))..))))))))))))).)..).)).)).)))))))-...)))..... ( -27.60)
>DroEre_CAF1 43896 81 + 1
CGAAAA-------CGAAGACUCUACCUCGGUUGCCUAAAGGUAU------------------GCGAUACGUUUAGACCUCGAAAUGGGAGUUUUCCAAUUCAACGG
.(((..-------.(((((((((...((((..(.(((((.((((------------------...)))).))))).).))))....)))))))))...)))..... ( -21.10)
>DroYak_CAF1 44839 97 + 1
CGAAAA-------CCAAAACUCCAUUUCGGUAGACAAAAGGUAUCA-AUAUGCAAGU-AACUUCGAUACUUUUCUGCCACAAAAUGGGAGUUUCGAAAUUCGACGG
((((..-------.(.(((((((((((.((((((...((((((((.-..........-......))))))))))))))...)))).))))))).)...)))).... ( -24.73)
>DroAna_CAF1 4421 91 + 1
CCAAAAUGCUUUCUCAAAACUCCCAUUUGAGAGACUAAAAGUAUCCAAUA---GAGUCUACUUUUAGGCUCUUAGGCAUAG-----AGAGUUG-------AAAGAC
........(((((....((((((..((((((((.(((((((((..(....---..)..))))))))).))))))))....)-----.))))))-------)))).. ( -23.70)
>consensus
CGAAAA_______CCAAAACUCCAUGUCGGUAGACUAAAGGUAUCA_AUAU__UAGU_AACUUCGAUACUUUUAGGCCACGAAAUGCGAGUUUU_AAAUUCAAGGG
...............(((((((.......((.(.(((((((((((...................))))))))))).).)).......)))))))............ (-10.77 = -12.29 +   1.52)

alignment

secondary structure

dotplot

Window 7

Location	20,638,963 – 20,639,059
Length	96
Sequences	5
Columns	106
Reading direction	reverse
Mean pairwise identity	61.70
Mean single sequence MFE	-27.78
Consensus MFE	-6.74
Energy contribution	-7.74
Covariance contribution	1.00
Combinations/Pair	1.17
Mean z-score	-3.71
Structure conservation index	0.24
SVM decision value	1.10
SVM RNA-class probability	0.914447
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20638963 96 - 22224390
CACUUUAAUUU-AAAACUCGAGUUCCGUGGCCUAAAAGUAUCGAAGUU-ACAAAAAUAU-UGAUACCUUUAGUCUACUGACCUAGAGUUUUCU-------UUUUCG
...........-(((((((.((.((.((((.(((((.(((((((.(((-.....))).)-)))))).))))).)))).)).)).)))))))..-------...... ( -25.30)
>DroSec_CAF1 43157 96 - 1
CCCUUGAAUUU-AAAACUCGAUUUCCGCGGCCUAAAGGUAUCAAAGUU-ACUAUAAUAU-UGAUACCUUUAGUCUACUGACAUGGAGUUUUUG-------UUUUCG
.....(((...-(((((((.((.((.(..(.(((((((((((((.(((-(...)))).)-)))))))))))).)..).)).)).)))))))..-------..))). ( -31.60)
>DroEre_CAF1 43896 81 - 1
CCGUUGAAUUGGAAAACUCCCAUUUCGAGGUCUAAACGUAUCGC------------------AUACCUUUAGGCAACCGAGGUAGAGUCUUCG-------UUUUCG
.....(((...(((.((((..((((((..(((((((.((((...------------------)))).)))))))...)))))).)))).))).-------..))). ( -21.40)
>DroYak_CAF1 44839 97 - 1
CCGUCGAAUUUCGAAACUCCCAUUUUGUGGCAGAAAAGUAUCGAAGUU-ACUUGCAUAU-UGAUACCUUUUGUCUACCGAAAUGGAGUUUUGG-------UUUUCG
....((((..((((((((((.((((((.(((((((..(((((((.((.-....))...)-)))))).)))))))...))))))))))))))))-------..)))) ( -32.90)
>DroAna_CAF1 4421 91 - 1
GUCUUU-------CAACUCU-----CUAUGCCUAAGAGCCUAAAAGUAGACUC---UAUUGGAUACUUUUAGUCUCUCAAAUGGGAGUUUUGAGAAAGCAUUUUGG
.((((.-------.(((((.-----((((.....((((.(((((((((..(..---....)..))))))))).))))...)))))))))..))))........... ( -27.70)
>consensus
CCCUUGAAUUU_AAAACUCCAAUUCCGAGGCCUAAAAGUAUCGAAGUU_ACUA__AUAU_UGAUACCUUUAGUCUACCGAAAUGGAGUUUUCG_______UUUUCG
............(((((((..........(.(((((.(((((...................))))).))))).)..........)))))))............... ( -6.74 =  -7.74 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:00:28 2006