Locus 8604

Sequence ID X_DroMel_CAF1
Location 21,378,487 – 21,378,606
Length 119
Max. P 0.989818
window14144 window14145 window14146

overview

Window 4

Location 21,378,487 – 21,378,587
Length 100
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 75.39
Mean single sequence MFE -35.26
Consensus MFE -16.38
Energy contribution -16.22
Covariance contribution -0.16
Combinations/Pair 1.21
Mean z-score -2.17
Structure conservation index 0.46
SVM decision value 1.35
SVM RNA-class probability 0.945192
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21378487 100 + 22224390
GGC---UGGUGGCUGGUGG--------UAGAAGGUCUG-G---GCGGACACUCUGGCCAAAGGACAACAGCAUUUCAUUUGUUGUCCUUCACAUUCCCUUCUCACACUUGGCACA
...---..(((.(.((((.--------.((((((..((-(---.(((.....))).)))(((((((((((........))))))))))).......))))))..)))).).))). ( -40.90)
>DroSec_CAF1 24139 100 + 1
GGC---UGGUGGCUGAUGG--------UGGAAGGGCUG-G---GCGGACACUCUGGCCACAGGACAACAGCAUUUCAUUUGUUGUCCUUCACAUUCCCUUCUCACACUUGGCACA
...---..(((.(..(..(--------((((((((.((-(---.(((.....))).))).((((((((((........)))))))))).......)))))).)))..)..)))). ( -39.10)
>DroEre_CAF1 15140 81 + 1
--------------------------CUGGGAGG-----G---CAGGACACUCUGGCCACAGGACAACAGCAUUUCAUUUGUUGUCCUUCACAUUCCCUUUUCACACUUGGCACA
--------------------------..((((((-----.---((((....)))).))..((((((((((........))))))))))......))))................. ( -26.40)
>DroYak_CAF1 15416 107 + 1
GGCGAGUGGUGGCUGGUGGCUGGUGGCUGGGAGG-----G---CAGGACACUCUGGCCACAGGACAACAGCAUUUCAUUUGUUGUCCUUCACGUUCCUUUUUCGCACUUGGCACA
(.((((((.(((..((..(((((((((..((..(-----.---.....)..))..)))))((((((((((........)))))))))).)).))..))...))))))))).)... ( -41.10)
>DroAna_CAF1 25429 108 + 1
------UGGGAACUGGAAACUGGAAACUGGGCAU-CCUGGCACUAGGACACUCUGGCCACAGGACAACAGCAUUUCAUUUGUUGUCCUUCACAUUCUCUUUUCACACUUGGCACG
------.(((((.(((((..(((...(.(((..(-((((....)))))..))).).)))..(((((((((........)))))))))))).)))))))................. ( -28.80)
>consensus
GGC___UGGUGGCUGGUGG_______CUGGGAGG_C___G___CAGGACACUCUGGCCACAGGACAACAGCAUUUCAUUUGUUGUCCUUCACAUUCCCUUUUCACACUUGGCACA
............................((((((...........((.(.....).))..((((((((((........))))))))))........))))))............. (-16.38 = -16.22 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 21,378,512 – 21,378,606
Length 94
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.51
Mean single sequence MFE -27.50
Consensus MFE -18.09
Energy contribution -19.07
Covariance contribution 0.97
Combinations/Pair 1.18
Mean z-score -3.00
Structure conservation index 0.66
SVM decision value 2.18
SVM RNA-class probability 0.989818
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21378512 94 + 22224390
UG-G---GCGGACACUCUGGCCAAAGGACAACAGCAUUUCAUUUGUUGUCCUUCACAUUCCCUUCUCACACUUGGCACA---UAAACAAAGGGAAUGUCCC-------------------
((-(---.(((.....))).)))(((((((((((........))))))))))).((((((((((...............---......))))))))))...------------------- ( -32.20)
>DroVir_CAF1 7498 79 + 1
---G---AAUGA--------------GAC--AAACAUUUCAUUUGUUGUCCUUCACAUUCUCUUUUCACACUUUGCGCACCGAAAACAAAGCGAAUGCCCC-------------------
---(---((.(.--------------(((--((.((.......))))))))))).(((((.((((......((((.....))))...)))).)))))....------------------- ( -10.80)
>DroSec_CAF1 24164 94 + 1
UG-G---GCGGACACUCUGGCCACAGGACAACAGCAUUUCAUUUGUUGUCCUUCACAUUCCCUUCUCACACUUGGCACA---UAAACAAAGGGAAUGUCCC-------------------
((-(---.(((.....))).))).((((((((((........))))))))))..((((((((((...............---......))))))))))...------------------- ( -31.00)
>DroEre_CAF1 15148 92 + 1
---G---CAGGACACUCUGGCCACAGGACAACAGCAUUUCAUUUGUUGUCCUUCACAUUCCCUUUUCACACUUGGCACA---UAAACAAAGGGAAUGUCCU-------------------
---.---.(((((...........((((((((((........))))))))))....(((((((((..............---.....))))))))))))))------------------- ( -27.61)
>DroYak_CAF1 15450 92 + 1
---G---CAGGACACUCUGGCCACAGGACAACAGCAUUUCAUUUGUUGUCCUUCACGUUCCUUUUUCGCACUUGGCACA---UAAACAAAGGGAAUGUCCU-------------------
---.---.((((((((((.((((.((((((((((........))))))))))...((.........))....))))...---.......))))..))))))------------------- ( -25.40)
>DroAna_CAF1 25458 117 + 1
CUGGCACUAGGACACUCUGGCCACAGGACAACAGCAUUUCAUUUGUUGUCCUUCACAUUCUCUUUUCACACUUGGCACG---UAAACAAAGGGAAUGGCCCUCGGUCUCGGUCUCGGUCC
((((.((..((((.....((((..((((((((((........))))))))))....(((((((((....((.......)---)....)))))))))))))....))))..)).))))... ( -38.00)
>consensus
___G___CAGGACACUCUGGCCACAGGACAACAGCAUUUCAUUUGUUGUCCUUCACAUUCCCUUUUCACACUUGGCACA___UAAACAAAGGGAAUGUCCC___________________
.........((.............((((((((((........))))))))))...((((((((((......................)))))))))).)).................... (-18.09 = -19.07 +   0.97)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 21,378,512 – 21,378,606
Length 94
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.51
Mean single sequence MFE -30.10
Consensus MFE -17.98
Energy contribution -19.20
Covariance contribution 1.22
Combinations/Pair 1.16
Mean z-score -1.98
Structure conservation index 0.60
SVM decision value 1.02
SVM RNA-class probability 0.902450
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21378512 94 - 22224390
-------------------GGGACAUUCCCUUUGUUUA---UGUGCCAAGUGUGAGAAGGGAAUGUGAAGGACAACAAAUGAAAUGCUGUUGUCCUUUGGCCAGAGUGUCCGC---C-CA
-------------------((((((((((((((..(((---..(.....)..))))))))))))))(((((((((((..........)))))))))))((.(.....).)).)---)-). ( -35.30)
>DroVir_CAF1 7498 79 - 1
-------------------GGGGCAUUCGCUUUGUUUUCGGUGCGCAAAGUGUGAAAAGAGAAUGUGAAGGACAACAAAUGAAAUGUUU--GUC--------------UCAUU---C---
-------------------(((((.(((((...((((((....(((.....)))....)))))))))))(((((..........)))))--)))--------------))...---.--- ( -17.50)
>DroSec_CAF1 24164 94 - 1
-------------------GGGACAUUCCCUUUGUUUA---UGUGCCAAGUGUGAGAAGGGAAUGUGAAGGACAACAAAUGAAAUGCUGUUGUCCUGUGGCCAGAGUGUCCGC---C-CA
-------------------((((((((((((((..(((---..(.....)..))))))))))))))..(((((((((..........)))))))))..((.(.....).)).)---)-). ( -33.20)
>DroEre_CAF1 15148 92 - 1
-------------------AGGACAUUCCCUUUGUUUA---UGUGCCAAGUGUGAAAAGGGAAUGUGAAGGACAACAAAUGAAAUGCUGUUGUCCUGUGGCCAGAGUGUCCUG---C---
-------------------((((((((((((((.((((---..(.....)..)))))))))...((.((((((((((..........))))))))).).))..))))))))).---.--- ( -31.10)
>DroYak_CAF1 15450 92 - 1
-------------------AGGACAUUCCCUUUGUUUA---UGUGCCAAGUGCGAAAAAGGAACGUGAAGGACAACAAAUGAAAUGCUGUUGUCCUGUGGCCAGAGUGUCCUG---C---
-------------------((((((((((((((.....---((..(...)..))..)))))...((.((((((((((..........))))))))).).))..))))))))).---.--- ( -30.70)
>DroAna_CAF1 25458 117 - 1
GGACCGAGACCGAGACCGAGGGCCAUUCCCUUUGUUUA---CGUGCCAAGUGUGAAAAGAGAAUGUGAAGGACAACAAAUGAAAUGCUGUUGUCCUGUGGCCAGAGUGUCCUAGUGCCAG
(((((.....((....))..((((((...((((.((((---((.......)))))).)))).......(((((((((..........)))))))))))))))...).))))......... ( -32.80)
>consensus
___________________GGGACAUUCCCUUUGUUUA___UGUGCCAAGUGUGAAAAGGGAAUGUGAAGGACAACAAAUGAAAUGCUGUUGUCCUGUGGCCAGAGUGUCCUC___C___
....................(((((((((((((..........(((.....))).)))))))))))..(((((((((..........))))))))).............))......... (-17.98 = -19.20 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:17 2006