Locus 2881

Sequence ID 3L_DroMel_CAF1
Location 8,224,201 – 8,224,313
Length 112
Max. P 0.780913
window4500 window4501

overview

Window 0

Location 8,224,201 – 8,224,313
Length 112
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 73.31
Mean single sequence MFE -39.34
Consensus MFE -11.64
Energy contribution -12.78
Covariance contribution 1.15
Combinations/Pair 1.33
Mean z-score -2.27
Structure conservation index 0.30
SVM decision value 0.36
SVM RNA-class probability 0.703083
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8224201 112 + 23771897
UACUCAGGUGCGGAGUAGCACCCGGCAGGUGGGCAAAGCUCAACGUGGCAC-UGCAAGAA----AGCCAUCCAAGAAUCCCCUGGCUUUUUGGCUAAGAUAGCCCAUU-CCAGGAGAU
..(((.(((((......))))).((..(((((((...(((......)))..-.((.((((----(((((.............))))))))).)).......)))))))-))..))).. ( -38.92)
>DroSec_CAF1 46695 105 + 1
UACUCAGGUGCGGAGUAGCACCCGGCAGGUGGGCAAAGCUCAACGUGGCAC-AGC-AGAA----AG-CAGCCAG--AUCCCCU-GCUUUUUGGCUAAGAUAGCCU--U-UCGAGGGAU
..(((.(((((......))))).(((((((((((...)))))...((((..-.((-....----.)-).)))).--....)))-)))....(((((...))))).--.-..))).... ( -36.20)
>DroSim_CAF1 44612 112 + 1
UACUCAGGUGCGGAGUAGCACCCGGCAUGUGGGCAAAGCUCAACGUGGCAC-AGCCAGAA----AGCCAGCCAAGAAUCCCCUGGCUUUUUGGCUAAGAUAGCCCUUU-CCAAGAGAU
..(((.(((((......))))).((.....((((...(((......)))..-((((((((----((((((...........))))))))))))))......))))...-))..))).. ( -46.40)
>DroEre_CAF1 50009 110 + 1
AAGUCAGGUGCGGAAUGAUUCCCGGCAGGUGGGCUAAGCUUAGCUCGGAAA-AGCAAGAA----AGCCAGCCA-GAAUCCCCUGGCU-UUUGGCUAAGAUAGCCCUUU-CCAAGAGAU
..(((.(.((.(((.....))))).).((.((((((..((((((.(((((.-.((.....----.))..((((-(......))))))-)))))))))).))))))...-))....))) ( -38.10)
>DroYak_CAF1 48367 112 + 1
AAGUCAGGUGCGGAAUGGCUCCUGGCAGGUGGGCUAAGUUCAACUUGGAGC-AGCCAGAA----AGCCAGCCAAGAAUCCCCUGGCU-UUUGGCUAAGAUAGCCCUUUGCCAGGAGAU
..................(((((((((((.((((((.((((......))))-((((((((----.(((((...........))))))-)))))))....))))))))))))))))).. ( -51.80)
>DroAna_CAF1 48411 96 + 1
CAGCCAGGUACGGACU---UCACU-------GGCGAAGAAU-----GGUGCUUCCCACAAAGUGAAUCUGACAAGAAUCCCCUGGAU--UCGAGUAAGACGCC----U-CCUACAGAU
.....((((.((((.(---(((((-------((.((((...-----....))))))....))))))))))((..((((((...))))--))..)).....)))----)-......... ( -24.60)
>consensus
UACUCAGGUGCGGAGUAGCACCCGGCAGGUGGGCAAAGCUCAACGUGGCAC_AGCCAGAA____AGCCAGCCAAGAAUCCCCUGGCU_UUUGGCUAAGAUAGCCCUUU_CCAAGAGAU
...(((((..(((........))).(((((((((...))))).)))).................................)))))......((((.....)))).............. (-11.64 = -12.78 +   1.15)

alignment

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secondary structure

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dotplot

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Window 1

Location 8,224,201 – 8,224,313
Length 112
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 73.31
Mean single sequence MFE -38.20
Consensus MFE -17.16
Energy contribution -18.00
Covariance contribution 0.84
Combinations/Pair 1.35
Mean z-score -1.93
Structure conservation index 0.45
SVM decision value 0.56
SVM RNA-class probability 0.780913
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8224201 112 - 23771897
AUCUCCUGG-AAUGGGCUAUCUUAGCCAAAAAGCCAGGGGAUUCUUGGAUGGCU----UUCUUGCA-GUGCCACGUUGAGCUUUGCCCACCUGCCGGGUGCUACUCCGCACCUGAGUA
(((((((((-....(((((...)))))......)))))))))....((.(((..----.....(((-(.(((.....).)).)))))))))((((((((((......))))))).))) ( -41.01)
>DroSec_CAF1 46695 105 - 1
AUCCCUCGA-A--AGGCUAUCUUAGCCAAAAAGC-AGGGGAU--CUGGCUG-CU----UUCU-GCU-GUGCCACGUUGAGCUUUGCCCACCUGCCGGGUGCUACUCCGCACCUGAGUA
.........-.--.(((((...))))).....((-(((((..--.((((.(-(.----....-)).-..)))).((........)))).)))))(((((((......))))))).... ( -35.40)
>DroSim_CAF1 44612 112 - 1
AUCUCUUGG-AAAGGGCUAUCUUAGCCAAAAAGCCAGGGGAUUCUUGGCUGGCU----UUCUGGCU-GUGCCACGUUGAGCUUUGCCCACAUGCCGGGUGCUACUCCGCACCUGAGUA
(((((((((-....(((((...)))))......)))))))))....(((.((((----(.(((((.-..)))).)..)))))..)))....((((((((((......))))))).))) ( -44.50)
>DroEre_CAF1 50009 110 - 1
AUCUCUUGG-AAAGGGCUAUCUUAGCCAAA-AGCCAGGGGAUUC-UGGCUGGCU----UUCUUGCU-UUUCCGAGCUAAGCUUAGCCCACCUGCCGGGAAUCAUUCCGCACCUGACUU
(((((((((-....(((((...)))))...-..)))))))))..-.((((((((----(....(((-(....)))).)))).)))))((..(((.((((....)))))))..)).... ( -38.20)
>DroYak_CAF1 48367 112 - 1
AUCUCCUGGCAAAGGGCUAUCUUAGCCAAA-AGCCAGGGGAUUCUUGGCUGGCU----UUCUGGCU-GCUCCAAGUUGAACUUAGCCCACCUGCCAGGAGCCAUUCCGCACCUGACUU
..(((((((((..(((((....((((((((-((((((...........))))))----)).)))))-)....(((.....))))))))...))))))))).................. ( -44.80)
>DroAna_CAF1 48411 96 - 1
AUCUGUAGG-A----GGCGUCUUACUCGA--AUCCAGGGGAUUCUUGUCAGAUUCACUUUGUGGGAAGCACC-----AUUCUUCGCC-------AGUGA---AGUCCGUACCUGGCUG
....(((.(-.----(((.(((.((..((--((((...))))))..)).)))((((((..(((((((.....-----.))).)))).-------)))))---))))).)))....... ( -25.30)
>consensus
AUCUCUUGG_AAAGGGCUAUCUUAGCCAAA_AGCCAGGGGAUUCUUGGCUGGCU____UUCUGGCU_GUGCCACGUUGAGCUUUGCCCACCUGCCGGGAGCUACUCCGCACCUGACUA
(((((((((.....(((((...)))))......)))))))))....................................................((((.((......)).)))).... (-17.16 = -18.00 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:05 2006