Locus 6649

Sequence ID	X_DroMel_CAF1
Location	16,592,419 – 16,592,514
Length	95
Max. P	0.872469

overview

Window 1

Location	16,592,419 – 16,592,514
Length	95
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	78.17
Mean single sequence MFE	-26.47
Consensus MFE	-24.08
Energy contribution	-24.17
Covariance contribution	0.08
Combinations/Pair	1.10
Mean z-score	-1.42
Structure conservation index	0.91
SVM decision value	0.88
SVM RNA-class probability	0.872469
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16592419 95 + 22224390
UU-UUAU------------UUUU---UGGCAUUUUUAUUAUUAUUACCUCCAGUGCCGAAGGGCUGAUAAAGAGGCGGCUUAAAUGGAAACUUGGCAUCGGGCGGUAUCGA
..-....------------....---..................(((((((.(((((((.((((((.........))))))....(....)))))))).))).)))).... ( -23.70)
>DroPse_CAF1 6552 90 + 1
UUUGUAU------------UU---------UUUUGUAUUAUUAUUACCUCCAGUGCCGAAGGGCUGAUAAUAAGGCGGCUUAAAUGGAAACUCGGCAUCGGGCGGUAUUGA
.......------------..---------..........(((.(((((((.(((((((.((((((.........))))))....(....)))))))).))).)))).))) ( -26.40)
>DroEre_CAF1 5204 93 + 1
UU-UUAU-------------U-U---UUGCGUUUUUAUUAUUAUUACCUCCAGUGCCGAAGGGCUGAUAAAGAGGCGGCUUAAAUGGAAACUCGGCAUCGGGCGGUAUCGA
..-....-------------.-.---..................(((((((.(((((((.((((((.........))))))....(....)))))))).))).)))).... ( -25.80)
>DroWil_CAF1 5811 80 + 1
-------------------------------GUUUUGUUUUUAUUACCUCCAGUGCCGAAGGGCUGAUAAAAAGGCGGCUUAUAUGGAAACGAGGCAUCGGGCGGUAUUGA
-------------------------------.........(((.(((((((.(((((...((((((.........))))))...((....)).))))).))).)))).))) ( -23.80)
>DroMoj_CAF1 5382 104 + 1
UU-GCAGUGUGAGAAGCGAA--U---UUGCG-UAUUUUUAUUAUUACCUCCAGUGCCGAAGGGCUGAUAAUAAGGCGGCUUAAAUGGAAACUCGGCAUCGGGCGGUAUUGA
..-.....((((((((((..--.---...))-).)))))))...(((((((.(((((((.((((((.........))))))....(....)))))))).))).)))).... ( -29.70)
>DroAna_CAF1 5198 104 + 1
UU-GUAUAUU-----GUGUUU-UUGAUGGCUUUUCAAAGAUUAUUACCUCCAGUGCCGAAGGGCUGAUAAUAAGGCGGCUUAAAUGGAAACUCGGCGUCGGGCGGUAUUGA
..-.......-----..((((-((((.......))))))))...(((((((..((((((.((((((.........))))))....(....)))))))..))).)))).... ( -29.40)
>consensus
UU_GUAU____________UU_U___U_GCGUUUUUAUUAUUAUUACCUCCAGUGCCGAAGGGCUGAUAAAAAGGCGGCUUAAAUGGAAACUCGGCAUCGGGCGGUAUUGA
............................................(((((((..((((((.((((((.........))))))....(....)))))))..))).)))).... (-24.08 = -24.17 +   0.08)

alignment

secondary structure

dotplot

Window 2

Location	16,592,419 – 16,592,514
Length	95
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	78.17
Mean single sequence MFE	-17.05
Consensus MFE	-15.13
Energy contribution	-15.80
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-0.96
Structure conservation index	0.89
SVM decision value	0.21
SVM RNA-class probability	0.634087
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16592419 95 - 22224390
UCGAUACCGCCCGAUGCCAAGUUUCCAUUUAAGCCGCCUCUUUAUCAGCCCUUCGGCACUGGAGGUAAUAAUAAUAAAAAUGCCA---AAAA------------AUAA-AA
....((((..(((.((((..((((......)))).((..........)).....)))).))).))))..................---....------------....-.. ( -14.60)
>DroPse_CAF1 6552 90 - 1
UCAAUACCGCCCGAUGCCGAGUUUCCAUUUAAGCCGCCUUAUUAUCAGCCCUUCGGCACUGGAGGUAAUAAUAAUACAAAA---------AA------------AUACAAA
....((((..(((.(((((((........((((....))))..........))))))).))).))))..............---------..------------....... ( -18.57)
>DroEre_CAF1 5204 93 - 1
UCGAUACCGCCCGAUGCCGAGUUUCCAUUUAAGCCGCCUCUUUAUCAGCCCUUCGGCACUGGAGGUAAUAAUAAUAAAAACGCAA---A-A-------------AUAA-AA
....((((..(((.(((((((.........(((......))).........))))))).))).))))..................---.-.-------------....-.. ( -18.27)
>DroWil_CAF1 5811 80 - 1
UCAAUACCGCCCGAUGCCUCGUUUCCAUAUAAGCCGCCUUUUUAUCAGCCCUUCGGCACUGGAGGUAAUAAAAACAAAAC-------------------------------
....((((..(((.((((..((((......)))).((..........)).....)))).))).)))).............------------------------------- ( -14.20)
>DroMoj_CAF1 5382 104 - 1
UCAAUACCGCCCGAUGCCGAGUUUCCAUUUAAGCCGCCUUAUUAUCAGCCCUUCGGCACUGGAGGUAAUAAUAAAAAUA-CGCAA---A--UUCGCUUCUCACACUGC-AA
....((((..(((.(((((((........((((....))))..........))))))).))).))))............-.((..---.--...))............-.. ( -19.57)
>DroAna_CAF1 5198 104 - 1
UCAAUACCGCCCGACGCCGAGUUUCCAUUUAAGCCGCCUUAUUAUCAGCCCUUCGGCACUGGAGGUAAUAAUCUUUGAAAAGCCAUCAA-AAACAC-----AAUAUAC-AA
....((((..(((..((((((........((((....))))..........))))))..))).))))......(((((.......))))-).....-----.......-.. ( -17.07)
>consensus
UCAAUACCGCCCGAUGCCGAGUUUCCAUUUAAGCCGCCUUAUUAUCAGCCCUUCGGCACUGGAGGUAAUAAUAAUAAAAAAGC_A___A_AA____________AUAC_AA
....((((..(((.((((((((((......)))).((..........))...)))))).))).))))............................................ (-15.13 = -15.80 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:12 2006