Locus 6302

Sequence ID	3R_DroMel_CAF1
Location	16,450,208 – 16,450,310
Length	102
Max. P	0.995476

overview

Window 1

Location	16,450,208 – 16,450,310
Length	102
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	76.05
Mean single sequence MFE	-34.84
Consensus MFE	-18.00
Energy contribution	-17.83
Covariance contribution	-0.16
Combinations/Pair	1.40
Mean z-score	-3.05
Structure conservation index	0.52
SVM decision value	2.58
SVM RNA-class probability	0.995476
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16450208 102 + 27905053
GAGGAUGAUGCUG---AACGGCUCGAAAAGGAGCCGAAGAAGGCGGUUAGCGAUGAUAGCGAGUCAAAAGAAGCAUCGCCCGGUCAGCAAGUGGAACCACAACCA
..((....(((((---(.((((((......)))))).....((((((..((.......))(..((....))..)))))))...)))))).(((....)))..)). ( -36.40)
>DroSec_CAF1 6287 102 + 1
GAGGAUGAUGCUG---AACGGCUCGAAAUGGAGCCGAAGAAGGCGGCUAGCGAUGAUAGCGAGUCAAAAGAAGCAUCGCCUGGUCAGCAGGUGGAAACACAACCA
..((....(((((---(.((((((......))))))....(((((((((.......))))(..((....))..)..)))))..)))))).(((....)))..)). ( -41.00)
>DroSim_CAF1 6334 102 + 1
GAGGAUGAUGCUG---AACGGCUCGAAAUGGAGCCUAAGAAGGCGACUAGCGAUGAUAGCGAGUCAAAAGAAGCAUCGCCUGGUCAGCAGGUGGAAACACAACCA
..((....(((((---(.((((((......))))).....((((((((.((.......)).))))....((....))))))).)))))).(((....)))..)). ( -38.60)
>DroEre_CAF1 6209 102 + 1
GACGAUGAUGCUG---AACGGCUUGAAAAGGAGCCCAAGAAAGCGGUUAGCGAUGACAGCGAGUCAAAAACAGCAUCGCCCGCUCAGCACGGCGAUACACAACCA
..((.((.(((((---(..(((((......))))).......((((...((((((..................)))))))))))))))))).))........... ( -29.57)
>DroYak_CAF1 6931 102 + 1
CAGGAUGAUGCUG---AACGGCUUGAAAAUGAGCCAAAGACGGCGGUUAGCGAUGACAGCGAGUCAAAAACAGCAUCGCCCGCUCAGCAGGUUGAUACAAAACCA
..((.((((((((---...(((((......)))))...(((.((.((((....)))).))..))).....)))))))).))........((((.......)))). ( -35.60)
>DroAna_CAF1 5272 99 + 1
GAGGAGGAAGAUGGCACAUUGCCGGUAAAGGACGUCCAACCGGAGGUCAAGGAGAAGGCCGAGUCAGAAGCAGUUUCUCCCA------AAGCAGAGCCGGAGGCA
(.((((((((.((((......(((((...((....)).))))).((((........))))..))))....)..)))))))).------.......(((...))). ( -27.90)
>consensus
GAGGAUGAUGCUG___AACGGCUCGAAAAGGAGCCCAAGAAGGCGGUUAGCGAUGAUAGCGAGUCAAAAGAAGCAUCGCCCGGUCAGCAGGUGGAAACACAACCA
..((.(((((((.......(((((......))))).........((((.((.......)).))))......))))))).))........................ (-18.00 = -17.83 +  -0.16)

alignment

secondary structure

dotplot

Window 2

Location	16,450,208 – 16,450,310
Length	102
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	76.05
Mean single sequence MFE	-29.83
Consensus MFE	-12.82
Energy contribution	-13.94
Covariance contribution	1.11
Combinations/Pair	1.19
Mean z-score	-2.00
Structure conservation index	0.43
SVM decision value	0.06
SVM RNA-class probability	0.563476
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16450208 102 - 27905053
UGGUUGUGGUUCCACUUGCUGACCGGGCGAUGCUUCUUUUGACUCGCUAUCAUCGCUAACCGCCUUCUUCGGCUCCUUUUCGAGCCGUU---CAGCAUCAUCCUC
.((..(((....))).((((((.(((((((((..................))))))...))).......((((((......)))))).)---)))))....)).. ( -29.17)
>DroSec_CAF1 6287 102 - 1
UGGUUGUGUUUCCACCUGCUGACCAGGCGAUGCUUCUUUUGACUCGCUAUCAUCGCUAGCCGCCUUCUUCGGCUCCAUUUCGAGCCGUU---CAGCAUCAUCCUC
.(((.(.....).)))((((((..(((((..(((.....(((.......))).....))))))))....((((((......)))))).)---)))))........ ( -29.20)
>DroSim_CAF1 6334 102 - 1
UGGUUGUGUUUCCACCUGCUGACCAGGCGAUGCUUCUUUUGACUCGCUAUCAUCGCUAGUCGCCUUCUUAGGCUCCAUUUCGAGCCGUU---CAGCAUCAUCCUC
.(((.(.....).)))((((((.(((((((....))....((((.((.......)).)))))))).....(((((......)))))).)---)))))........ ( -30.40)
>DroEre_CAF1 6209 102 - 1
UGGUUGUGUAUCGCCGUGCUGAGCGGGCGAUGCUGUUUUUGACUCGCUGUCAUCGCUAACCGCUUUCUUGGGCUCCUUUUCAAGCCGUU---CAGCAUCAUCGUC
.(((........)))((((((((((((((((((.((.........)).).)))))).....((((....))))...........)))))---))))))....... ( -31.80)
>DroYak_CAF1 6931 102 - 1
UGGUUUUGUAUCAACCUGCUGAGCGGGCGAUGCUGUUUUUGACUCGCUGUCAUCGCUAACCGCCGUCUUUGGCUCAUUUUCAAGCCGUU---CAGCAUCAUCCUG
.((((.......))))(((((((((((((((((.((.........)).).)))))).....((((....))))...........)))))---)))))........ ( -32.90)
>DroAna_CAF1 5272 99 - 1
UGCCUCCGGCUCUGCUU------UGGGAGAAACUGCUUCUGACUCGGCCUUCUCCUUGACCUCCGGUUGGACGUCCUUUACCGGCAAUGUGCCAUCUUCCUCCUC
.(((...))).......------.((((((....((.((..((.(((...((.....))...)))))..)).))........(((.....))).))))))..... ( -25.50)
>consensus
UGGUUGUGUUUCCACCUGCUGACCGGGCGAUGCUGCUUUUGACUCGCUAUCAUCGCUAACCGCCUUCUUCGGCUCCUUUUCGAGCCGUU___CAGCAUCAUCCUC
................(((((....(((((((..................))))))).............((((........))))......)))))........ (-12.82 = -13.94 +   1.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:11 2006