Locus 811

Sequence ID 2L_DroMel_CAF1
Location 2,306,075 – 2,306,173
Length 98
Max. P 0.976342
window1323 window1324

overview

Window 3

Location 2,306,075 – 2,306,173
Length 98
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 76.69
Mean single sequence MFE -18.90
Consensus MFE -14.73
Energy contribution -15.23
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.80
Structure conservation index 0.78
SVM decision value 1.55
SVM RNA-class probability 0.962902
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2306075 98 + 22407834
CAUUUGACAUUAGUUGAGAUUUUCAAUGCUUUUAGCC----CGCAUUUUCCC------CCAUU-----CACCAAA--CCAUCC-CCAUAUCCACGGCGCUGAAAACGUGUCAAAUG---
((((((((((..((((((...))))))(.((((((((----((.........------.....-----.......--......-.........))).))))))).)))))))))))--- ( -20.82)
>DroSec_CAF1 12090 106 + 1
CAUUUGACAUUAGUUGAGAUUUUCAAUGCUUUUAGCC----CGCAUUUUCCCCAUUCCCCUUU-----GACCAUUCCCCAUCC-CCAUUUCCACGGCGUUGAAAACGUGUCAAAUG---
((((((((((..((((((...))))))(.((((((((----((....................-----...............-.........))).))))))).)))))))))))--- ( -18.20)
>DroSim_CAF1 12673 106 + 1
CAUUUGACAUUAGUUGAGAUUUUCAAUGCUUUUAGCC----CGCUUUUUCCCCAUUCCCCUUU-----GACCAUUCCCCAUCC-CCAUUUCCACGGCGUUGAAAACGUGUCAAAUG---
((((((((((..((((((...))))))(.((((((((----((....................-----...............-.........))).))))))).)))))))))))--- ( -18.20)
>DroEre_CAF1 12286 115 + 1
CAUUUGACAUUAGUUGAGAUUUUCAAUGCUUUUAGCCCGUCCGCAUUUUCCCCAUACCCAUUUCCCACACCCAUUUCCCAUAC-CCAUUUCCACGGCGUUGAAAACGUGUCAAAUG---
((((((((((..((((((...))))))(.(((((((((((...........................................-........)))).))))))).)))))))))))--- ( -19.24)
>DroYak_CAF1 12647 106 + 1
CAUUUGACAUUAGUUGAGAUUUUCAAUGCUUUUAGCC----CGCAUUUUCCCC------AUUUUCCAUCGCCAUUUCCCAUCCCCCAUUUCCACGGCGUUGAAAACGUGUCAAAUG---
((((((((((..............(((((........----.)))))......------.(((((...((((......................))))..))))).))))))))))--- ( -19.95)
>DroPer_CAF1 52620 79 + 1
CAUUUGACAUUAGUUGAGAUUUUCAAAGCUCUC---C----CUCCUCUUUC---------------------------------CGCCUGCAACGGCGUUGAAAACGUGUCAAAUCGUU
.(((((((((..(((((((..........))))---.----......((..---------------------------------((((......))))..)).)))))))))))).... ( -17.00)
>consensus
CAUUUGACAUUAGUUGAGAUUUUCAAUGCUUUUAGCC____CGCAUUUUCCCC_____CCUUU_____CACCAUU_CCCAUCC_CCAUUUCCACGGCGUUGAAAACGUGUCAAAUG___
((((((((((.......(.(((((((((((................................................................))))))))))))))))))))))... (-14.73 = -15.23 +   0.50) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 2,306,075 – 2,306,173
Length 98
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 76.69
Mean single sequence MFE -28.21
Consensus MFE -15.51
Energy contribution -18.07
Covariance contribution 2.56
Combinations/Pair 1.13
Mean z-score -2.48
Structure conservation index 0.55
SVM decision value 1.77
SVM RNA-class probability 0.976342
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2306075 98 - 22407834
---CAUUUGACACGUUUUCAGCGCCGUGGAUAUGG-GGAUGG--UUUGGUG-----AAUGG------GGGAAAAUGCG----GGCUAAAAGCAUUGAAAAUCUCAACUAAUGUCAAAUG
---(((((((((((((..((...(....)...)).-.)))).--.(((((.-----..(((------((...(((((.----........))))).....))))))))))))))))))) ( -28.10)
>DroSec_CAF1 12090 106 - 1
---CAUUUGACACGUUUUCAACGCCGUGGAAAUGG-GGAUGGGGAAUGGUC-----AAAGGGGAAUGGGGAAAAUGCG----GGCUAAAAGCAUUGAAAAUCUCAACUAAUGUCAAAUG
---(((((((((((((..(..(.((((....))))-.)...)..))))...-----.........(((((..(((((.----........))))).....))))).....))))))))) ( -29.50)
>DroSim_CAF1 12673 106 - 1
---CAUUUGACACGUUUUCAACGCCGUGGAAAUGG-GGAUGGGGAAUGGUC-----AAAGGGGAAUGGGGAAAAAGCG----GGCUAAAAGCAUUGAAAAUCUCAACUAAUGUCAAAUG
---(((((((((((((..(..(.((((....))))-.)...)..))))...-----...........((((.....((----(((.....)).)))....))))......))))))))) ( -27.30)
>DroEre_CAF1 12286 115 - 1
---CAUUUGACACGUUUUCAACGCCGUGGAAAUGG-GUAUGGGAAAUGGGUGUGGGAAAUGGGUAUGGGGAAAAUGCGGACGGGCUAAAAGCAUUGAAAAUCUCAACUAAUGUCAAAUG
---((((((((((((((((.((.((((....))))-))...)))))))(((.(((((.....((((.......))))...(((((.....)).)))....))))))))..))))))))) ( -30.70)
>DroYak_CAF1 12647 106 - 1
---CAUUUGACACGUUUUCAACGCCGUGGAAAUGGGGGAUGGGAAAUGGCGAUGGAAAAU------GGGGAAAAUGCG----GGCUAAAAGCAUUGAAAAUCUCAACUAAUGUCAAAUG
---((((((((((((((((..((((((..................))))))...))))))------)((((.(((((.----........))))).....))))......))))))))) ( -30.87)
>DroPer_CAF1 52620 79 - 1
AACGAUUUGACACGUUUUCAACGCCGUUGCAGGCG---------------------------------GAAAGAGGAG----G---GAGAGCUUUGAAAAUCUCAACUAAUGUCAAAUG
....(((((((((.(((((..((((......))))---------------------------------....))))).----)---((((..........))))......)))))))). ( -22.80)
>consensus
___CAUUUGACACGUUUUCAACGCCGUGGAAAUGG_GGAUGGG_AAUGGUC_____AAAGG_____GGGGAAAAUGCG____GGCUAAAAGCAUUGAAAAUCUCAACUAAUGUCAAAUG
...((((((((((((((((..(.((((....)))).)....)))))))...................((((.(((((.............))))).....))))......))))))))) (-15.51 = -18.07 +   2.56) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:12 2006