Locus 1841

Sequence ID	3L_DroMel_CAF1
Location	5,164,058 – 5,164,150
Length	92
Max. P	0.936099

overview

Window 4

Location	5,164,058 – 5,164,150
Length	92
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	81.47
Mean single sequence MFE	-27.39
Consensus MFE	-19.02
Energy contribution	-18.78
Covariance contribution	-0.25
Combinations/Pair	1.36
Mean z-score	-3.06
Structure conservation index	0.69
SVM decision value	1.25
SVM RNA-class probability	0.936099
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5164058 92 + 23771897
CUAAGAAAUAAGCGGAAUUGCAUUAAGUGCAUCCGCUGCAGUGGGGU--AAACCCCCCACAAAAAGGGGGCU-AAAAGCCACUGAAAUGUGAGGA
..........((((((..(((((...))))))))))).((((((...--....(((((.......)))))..-.....))))))........... ( -32.14)
>DroSec_CAF1 29579 91 + 1
CUAAGAAAUAAGCGGAAUUGCAAUAAGUGCAUCCGCUGCAGUGUGGG--AAAAC-CCCACAAAAGGGGGGCU-AAAAGCCACUGAAAUGUGAGGA
..........((((((..((((.....)))))))))).(((((((((--.....-)))))........(((.-....)))))))........... ( -29.20)
>DroSim_CAF1 29535 91 + 1
CUAAGAAAUAAGCGGAAUUGCAUUAAGUGCAUCCGCUGCAGUGUGGG--AAAAC-CCCACAAAAGGGGGGCU-AAAAGCCACUGAAAUGUGAGGA
..........((((((..(((((...))))))))))).(((((((((--.....-)))))........(((.-....)))))))........... ( -29.70)
>DroEre_CAF1 27787 94 + 1
CUAAGAAAUAAGCGGAAUUGCAUUAAGUGCAUCUGCUGUAGUGGGGGGAAAAACCCCCACAAAAUGGGGGUU-AAAAGCCACUGAAAUGUGAGGA
..........((((((..(((((...)))))))))))...(((((((......)))))))....(.(((((.-....))).)).).......... ( -30.70)
>DroYak_CAF1 27838 94 + 1
CUAAGAAAUAAGCGAAAUUGCAUUAAGUGCAGCUGUUGUAGUGGGGG-CAUAACCUCCACAAAAGGGGGGUUUCGAAGCCACUGAAUUGUGAGAA
....(((((..((((..((((((...))))))...)))).(((((((-.....))))))).........))))).....(((......))).... ( -24.20)
>DroAna_CAF1 25740 80 + 1
CCAAGAAAUAAGCGGAAUUGCAUUAAGUGCAUCCGUUGCGA-G-GGG--C-AAUCUGUCCAAAAAGGGGG----------AAUGGAACGAGGGGG
(((.......((((((..(((((...)))))))))))....-.-(((--(-.....))))..........----------..))).......... ( -18.40)
>consensus
CUAAGAAAUAAGCGGAAUUGCAUUAAGUGCAUCCGCUGCAGUGGGGG__AAAACCCCCACAAAAGGGGGGCU_AAAAGCCACUGAAAUGUGAGGA
((........((((((..((((.....)))))))))).(((((..........(((((.......))))).........))))).......)).. (-19.02 = -18.78 +  -0.25)

alignment

secondary structure

dotplot

Window 5

Location	5,164,058 – 5,164,150
Length	92
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	81.47
Mean single sequence MFE	-24.30
Consensus MFE	-12.43
Energy contribution	-15.68
Covariance contribution	3.25
Combinations/Pair	1.09
Mean z-score	-3.24
Structure conservation index	0.51
SVM decision value	0.98
SVM RNA-class probability	0.893391
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5164058 92 - 23771897
UCCUCACAUUUCAGUGGCUUUU-AGCCCCCUUUUUGUGGGGGGUUU--ACCCCACUGCAGCGGAUGCACUUAAUGCAAUUCCGCUUAUUUCUUAG
...........((((((.....-((((((((......)))))))).--...)))))).((((((((((.....))))..)))))).......... ( -35.00)
>DroSec_CAF1 29579 91 - 1
UCCUCACAUUUCAGUGGCUUUU-AGCCCCCCUUUUGUGGG-GUUUU--CCCACACUGCAGCGGAUGCACUUAUUGCAAUUCCGCUUAUUUCUUAG
...........(((((......-((((((.(....).)))-)))..--....))))).((((((((((.....))))..)))))).......... ( -28.20)
>DroSim_CAF1 29535 91 - 1
UCCUCACAUUUCAGUGGCUUUU-AGCCCCCCUUUUGUGGG-GUUUU--CCCACACUGCAGCGGAUGCACUUAAUGCAAUUCCGCUUAUUUCUUAG
...........(((((......-((((((.(....).)))-)))..--....))))).((((((((((.....))))..)))))).......... ( -28.10)
>DroEre_CAF1 27787 94 - 1
UCCUCACAUUUCAGUGGCUUUU-AACCCCCAUUUUGUGGGGGUUUUUCCCCCCACUACAGCAGAUGCACUUAAUGCAAUUCCGCUUAUUUCUUAG
............(((((.....-(((((((((...))))))))).......)))))..(((.((((((.....))))..)).))).......... ( -25.80)
>DroYak_CAF1 27838 94 - 1
UUCUCACAAUUCAGUGGCUUCGAAACCCCCCUUUUGUGGAGGUUAUG-CCCCCACUACAACAGCUGCACUUAAUGCAAUUUCGCUUAUUUCUUAG
............(((((...((.((((.(((....).)).)))).))-...))))).....(((((((.....)))).....))).......... ( -16.20)
>DroAna_CAF1 25740 80 - 1
CCCCCUCGUUCCAUU----------CCCCCUUUUUGGACAGAUU-G--CCC-C-UCGCAACGGAUGCACUUAAUGCAAUUCCGCUUAUUUCUUGG
.....((..((((..----------.........))))..))((-(--(..-.-..))))((((((((.....))))..))))............ ( -12.50)
>consensus
UCCUCACAUUUCAGUGGCUUUU_AGCCCCCCUUUUGUGGGGGUUUU__CCCCCACUGCAGCGGAUGCACUUAAUGCAAUUCCGCUUAUUUCUUAG
...........(((((.......(((((((.......)))))))........))))).((((((((((.....))))..)))))).......... (-12.43 = -15.68 +   3.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:06 2006