Locus 2189

Sequence ID 3R_DroMel_CAF1
Location 6,259,965 – 6,260,057
Length 92
Max. P 0.984297
window3559 window3560

overview

Window 9

Location 6,259,965 – 6,260,057
Length 92
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 73.20
Mean single sequence MFE -24.58
Consensus MFE -10.24
Energy contribution -10.18
Covariance contribution -0.06
Combinations/Pair 1.13
Mean z-score -2.24
Structure conservation index 0.42
SVM decision value 1.22
SVM RNA-class probability 0.932362
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6259965 92 + 27905053
CGUCUAUAUAGAUUUUCUGUCACCGCUGAUAUUGCCUU-UGUCUGGGUAUCGUUGUCCCUGUGUGGGUGUGUGU-----UGGUGACAGGCUUAAAUU---U
.((((....))))..(((((((((...(((..(((((.-.....)))))..)))..(((.....))).......-----.)))))))))........---. ( -25.30)
>DroPse_CAF1 20969 93 + 1
CGUCUAUAUAGAUUUUCUGUCACGGCAGAUAUUGCCUUCUGUCUGCC--------ACCCUGUGCGACUAUGUGUCCUGUUUGUGACAGGCUUGAAUUUUUU
.((((....))))..((((((((((((((((........))))))))--------.........(((.....)))......))))))))............ ( -27.10)
>DroGri_CAF1 34787 80 + 1
AUCCUAUAUAGAUUUUCUGUCAGCGGCGAUAUUGCCUUUUGUCUAAC------------UGU-UUAAGU-----UCUGCUACUGACAGGCUUAAAUU---U
.........((((((((((((((..((((((........)))).(((------------(..-...)))-----)..))..))))))))...)))))---) ( -19.50)
>DroSec_CAF1 25221 92 + 1
CGUCUAUAUAGAUUUUCUGUCACCGCUGAUAUUGCCUU-UGUCUGGGUAUUGUUGUCCCUGUAUGGGUGUGUGU-----UGGUGACAGGCUUAAAUU---U
.((((....))))..(((((((((...((((.(((((.-.....))))).))))..(((.....))).......-----.)))))))))........---. ( -26.80)
>DroEre_CAF1 30940 92 + 1
CGUCUAUAUAGAUUUUCUGUCAACGCUGAUAUUGCCUU-UGUCUGGGUAUUGCUGUCGCAGUGUGGGUGUUCCU-----UGGUGACAGGCUUAAAUU---U
.((((....))))..((((((((((((.(((((((((.-.....))))).(((....))))))).)))))....-----...)))))))........---. ( -21.81)
>DroPer_CAF1 26029 93 + 1
CUUCUAUAUAGAUUUUCUGUCACGGCAGAUAUUGCCUUCUGUCUGCC--------ACCCUGUGCGACUAUGUGUCCUGUUUGUGACAGGCUUGAAUUUUUU
.........((((((((((((((((((((((........))))))))--------.........(((.....)))......))))))))...))))))... ( -27.00)
>consensus
CGUCUAUAUAGAUUUUCUGUCACCGCUGAUAUUGCCUU_UGUCUGGC________UCCCUGUGUGAGUGUGUGU_____UGGUGACAGGCUUAAAUU___U
...............((((((((((..((((........))))...............(.....)..............))))))))))............ (-10.24 = -10.18 +  -0.06)

alignment

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secondary structure

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dotplot

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Window 0

Location 6,259,965 – 6,260,057
Length 92
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 73.20
Mean single sequence MFE -19.98
Consensus MFE -8.97
Energy contribution -9.33
Covariance contribution 0.36
Combinations/Pair 1.18
Mean z-score -2.47
Structure conservation index 0.45
SVM decision value 1.97
SVM RNA-class probability 0.984297
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6259965 92 - 27905053
A---AAUUUAAGCCUGUCACCA-----ACACACACCCACACAGGGACAACGAUACCCAGACA-AAGGCAAUAUCAGCGGUGACAGAAAAUCUAUAUAGACG
.---.........((((((((.-----.......(((.....))).....((((.((.....-..))...))))...))))))))................ ( -21.60)
>DroPse_CAF1 20969 93 - 1
AAAAAAUUCAAGCCUGUCACAAACAGGACACAUAGUCGCACAGGGU--------GGCAGACAGAAGGCAAUAUCUGCCGUGACAGAAAAUCUAUAUAGACG
.............(((((((..............(((((.....))--------)))........((((.....)))))))))))................ ( -23.10)
>DroGri_CAF1 34787 80 - 1
A---AAUUUAAGCCUGUCAGUAGCAGA-----ACUUAA-ACA------------GUUAGACAAAAGGCAAUAUCGCCGCUGACAGAAAAUCUAUAUAGGAU
.---.........((((((((.....(-----(((...-..)------------)))........(((......)))))))))))...((((.....)))) ( -18.10)
>DroSec_CAF1 25221 92 - 1
A---AAUUUAAGCCUGUCACCA-----ACACACACCCAUACAGGGACAACAAUACCCAGACA-AAGGCAAUAUCAGCGGUGACAGAAAAUCUAUAUAGACG
.---.........((((((((.-----.......(((.....))).................-...((.......))))))))))................ ( -20.00)
>DroEre_CAF1 30940 92 - 1
A---AAUUUAAGCCUGUCACCA-----AGGAACACCCACACUGCGACAGCAAUACCCAGACA-AAGGCAAUAUCAGCGUUGACAGAAAAUCUAUAUAGACG
.---.......(((((((....-----.((.....))....(((....))).......))).-.))))........((((.(.((.....)).)...)))) ( -14.00)
>DroPer_CAF1 26029 93 - 1
AAAAAAUUCAAGCCUGUCACAAACAGGACACAUAGUCGCACAGGGU--------GGCAGACAGAAGGCAAUAUCUGCCGUGACAGAAAAUCUAUAUAGAAG
.............(((((((..............(((((.....))--------)))........((((.....)))))))))))................ ( -23.10)
>consensus
A___AAUUUAAGCCUGUCACCA_____ACACACACCCACACAGGGA________CCCAGACA_AAGGCAAUAUCAGCGGUGACAGAAAAUCUAUAUAGACG
.............((((((((.......................................(....)((.......))))))))))................ ( -8.97 =  -9.33 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:28 2006