Locus 5029

Sequence ID	2L_DroMel_CAF1
Location	14,423,823 – 14,423,971
Length	148
Max. P	0.986290

overview

Window 6

Location	14,423,823 – 14,423,931
Length	108
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	78.32
Mean single sequence MFE	-23.92
Consensus MFE	-8.99
Energy contribution	-9.30
Covariance contribution	0.31
Combinations/Pair	1.33
Mean z-score	-2.72
Structure conservation index	0.38
SVM decision value	2.04
SVM RNA-class probability	0.986290
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14423823 108 + 22407834
AAUCGCCCAUAAAAAAUCGCCAUGUGCACGCAUAUAUACAAUAUGUGUGUAUGCUUGCAUAAAAAAUACAAGUUU-CAGCCACCUGAAAUAGCCAGCGAAUAGAUAGAU
................((((..((((((.((((((((((.....)))))))))).))))))..........((((-(((....))))))).....)))).......... ( -31.20)
>DroSec_CAF1 14398 102 + 1
AAUCGUCCAUAAAAAAUCGCCAUGUGCACGCAUAUAUACAAUAUGUGUG--UGCUUGUAUUCAAAAUACAAGUUU-CAGCCACCUGAAAUAGCCAGCGAAUA----GAU
................((((...(..(((((((((.....)))))))))--..)((((((.....))))))((((-(((....))))))).....))))...----... ( -27.70)
>DroSim_CAF1 16069 102 + 1
AAUCGUCCAUAAAAAAUCGCCAUGUGCACGCAUAUAUAAAAUAUGUGUG--UGCUUGUAUUCAAAAUACAAGUUU-CAGCCACCUGAAAUAGCCAGCGAAUA----GAU
................((((...(..(((((((((.....)))))))))--..)((((((.....))))))((((-(((....))))))).....))))...----... ( -27.70)
>DroYak_CAF1 15787 89 + 1
AAUCGUCCAUAAAAAAUCGCCAU----------AUAUAUA--AUGUGCA--UGCAUGUAUUAAAAAUACAAGUUU-CAGCCACCUGA-AUAGCCAGCGAAUA----GAU
................(((((((----------((.....--)))))..--.((.(((((.....)))))...((-(((....))))-)..))..))))...----... ( -12.80)
>DroAna_CAF1 6632 102 + 1
AGCCGUCCAUAAAAAAGCGCUAGAUGUGCGCGUAUCCACG-UAUGUCCC--UGUGUUCAUUGACGAUAAAAGUUUCCAGGCACCUGAAAUAGAAAAUCAAUA----GCU
(((((((.((.....(((((..((((((((.(....).))-))))))..--.))))).)).))))......(((((.((....)))))))............----))) ( -20.20)
>consensus
AAUCGUCCAUAAAAAAUCGCCAUGUGCACGCAUAUAUACAAUAUGUGUG__UGCUUGUAUUAAAAAUACAAGUUU_CAGCCACCUGAAAUAGCCAGCGAAUA____GAU
................((((.(((((....)))))........((.((....((((((((.....)))))))).....)))).............)))).......... ( -8.99 =  -9.30 +   0.31)

alignment

secondary structure

dotplot

Window 7

Location	14,423,856 – 14,423,971
Length	115
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	78.86
Mean single sequence MFE	-23.32
Consensus MFE	-10.59
Energy contribution	-12.34
Covariance contribution	1.75
Combinations/Pair	1.19
Mean z-score	-2.15
Structure conservation index	0.45
SVM decision value	-0.01
SVM RNA-class probability	0.526360
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14423856 115 - 22407834
AAAUCAUAUUUGUACAGUUUAUCCAUAAAUUAGCCCGCAUAUCUAUCUAUUCGCUGGCUAUUUCAGGUGGCUG-A-AACUUGUAUUUUUUAUGCAAGCAUACACACAUAUUGUAUAU---
..........(((((((((((.((((....(((((.((..............)).)))))......)))).))-)-).(((((((.....)))))))............))))))).--- ( -24.54)
>DroSec_CAF1 14431 109 - 1
AAAUCAUAUUUGUACAGUUUAUCCAUAAAUUAGCCCGCAUAUC----UAUUCGCUGGCUAUUUCAGGUGGCUG-A-AACUUGUAUUUUGAAUACAAGCA--CACACAUAUUGUAUAU---
..........(((((((((((.((((....(((((.((.....----.....)).)))))......)))).))-)-).(((((((.....)))))))..--........))))))).--- ( -24.40)
>DroSim_CAF1 16102 109 - 1
AAAUCAUAUUUGUACAGUUUAUCCAUAAAUUAGCCCGCAUAUC----UAUUCGCUGGCUAUUUCAGGUGGCUG-A-AACUUGUAUUUUGAAUACAAGCA--CACACAUAUUUUAUAU---
.....((((.(((.(((((...((......(((((.((.....----.....)).))))).....)).)))))-.-..(((((((.....)))))))..--.))).)))).......--- ( -22.30)
>DroEre_CAF1 15746 98 - 1
AAAUCAUAUUUGUGCAGCUUAUCCAUAAAUUAGCCAGCA-AU---------------CUAU-UCAGGUGGCUA-AAAACUUGUAUUUUGAGUAAAAGCA--UACACAG--UAUAUAUGUA
....((((((((((..((((.........(((((((.(.-..---------------....-...).))))))-)..(((((.....)))))..)))).--..)))))--...))))).. ( -20.10)
>DroYak_CAF1 15810 106 - 1
AAAUCAUAUUUGUACAGCUUAUCCAUAAAUUAGCCAGCAUAUC----UAUUCGCUGGCUAU-UCAGGUGGCUG-A-AACUUGUAUUUUUAAUACAUGCA--UGCACAU--UAUAUAU---
.....((((.(((.(((((((.((((....((((((((.....----.....)))))))).-....)))).))-)-....(((((.....))))).)).--)).))).--.))))..--- ( -25.20)
>DroAna_CAF1 6665 108 - 1
AAAUCAGAGUCGUACAGCAGAUCCAUAAAUUAGCCCUGA-AGC----UAUUGAUUUUCUAUUUCAGGUGCCUGGA-AACUUUUAUCGUCAAUGAACACA--GGGACAUA-CGUGGAU---
....................((((((.......(((((.-...----(((((((......((((((....)))))-).........)))))))....))--))).....-.))))))--- ( -23.38)
>consensus
AAAUCAUAUUUGUACAGCUUAUCCAUAAAUUAGCCCGCAUAUC____UAUUCGCUGGCUAUUUCAGGUGGCUG_A_AACUUGUAUUUUGAAUACAAGCA__CACACAUA_UGUAUAU___
..............(((((...((......(((((.((..............)).))))).....)).))))).....(((((((.....)))))))....................... (-10.59 = -12.34 +   1.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:56 2006