Locus 7316

Sequence ID	2L_DroMel_CAF1
Location	20,466,169 – 20,466,286
Length	117
Max. P	0.528900

overview

Window 0

Location	20,466,169 – 20,466,286
Length	117
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	87.12
Mean single sequence MFE	-29.80
Consensus MFE	-20.27
Energy contribution	-20.27
Covariance contribution	0.00
Combinations/Pair	1.18
Mean z-score	-1.53
Structure conservation index	0.68
SVM decision value	-0.01
SVM RNA-class probability	0.528900
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20466169 117 + 22407834
AUAUUAAAUCGUGCUUAUGUGUGUGUGGGCGAGUGCUUAACUAGCAGCAGACCAACAACA---AUUCCUCCCAGACACACACACAGACACACACAAGCGUUGGCACACUGAAAUGCUGCU
..........(((....(((((((((((((...((((.....))))...).)).......---..((......))))))))))))....)))...((((((..(.....).))))))... ( -29.60)
>DroSec_CAF1 19137 109 + 1
AUAUUAAAUCGUGCUUAUGUGUGGGUGGGUGAGUGCUUAACUAGCAGCAGCCCAAUAACA---AUUCCUCCCAGACACAC--------ACACACGAGCAUUGGCACACUGAAAUGCUGCU
..........(((((..((((((..(((((...((((.....))))...)))))......---..((......))....)--------)))))..))))).((((........))))... ( -30.00)
>DroSim_CAF1 21102 115 + 1
AUAUUAAAUCGUGCUUAUGUGUGGGUGGGUGAGUGCUUAACUAGCAGCAGCCCAACAACA---AUUUCUCCCAGACACACACAC--ACACACACGAGCAUUGGCACACUGAAAUGCUGCU
..........(((((..(((((((.(((((...((((.....))))...))))).)....---...((.....)).........--.))))))..))))).((((........))))... ( -30.60)
>DroYak_CAF1 18804 106 + 1
AUAUUAAAUCGUGCUUAUGUGUG----GGUGAGUGCUUAACUAGCAGCCGCCAAACAACAACCAUUCCUCGCAGGCACAC----------ACACAAGCAUUGGCACACUGAAAUGCUGCU
..........((((((.((((((----((((..((((.....))))..))))..............((.....))..)))----------))).)))))).((((........))))... ( -29.00)
>consensus
AUAUUAAAUCGUGCUUAUGUGUGGGUGGGUGAGUGCUUAACUAGCAGCAGCCCAACAACA___AUUCCUCCCAGACACAC________ACACACAAGCAUUGGCACACUGAAAUGCUGCU
..........(((((.((((((...(((((...((((.....))))...)))))...))......((......)).....................)))).))))).............. (-20.27 = -20.27 +   0.00)

alignment

secondary structure

dotplot

Window 1

Location	20,466,169 – 20,466,286
Length	117
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	87.12
Mean single sequence MFE	-36.42
Consensus MFE	-22.61
Energy contribution	-24.93
Covariance contribution	2.31
Combinations/Pair	1.06
Mean z-score	-1.93
Structure conservation index	0.62
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20466169 117 - 22407834
AGCAGCAUUUCAGUGUGCCAACGCUUGUGUGUGUCUGUGUGUGUGUCUGGGAGGAAU---UGUUGUUGGUCUGCUGCUAGUUAAGCACUCGCCCACACACACAUAAGCACGAUUUAAUAU
....((((...(((((....))))).))))(((..(((((((((((..(((..((..---((((.(((((.....)))))...)))).)).))))))))))))))..))).......... ( -37.90)
>DroSec_CAF1 19137 109 - 1
AGCAGCAUUUCAGUGUGCCAAUGCUCGUGUGU--------GUGUGUCUGGGAGGAAU---UGUUAUUGGGCUGCUGCUAGUUAAGCACUCACCCACCCACACAUAAGCACGAUUUAAUAU
.(((((((......))))...)))((((((((--------(((((..((((......---......((((.((((........))))))))))))..)))))))..))))))........ ( -35.60)
>DroSim_CAF1 21102 115 - 1
AGCAGCAUUUCAGUGUGCCAAUGCUCGUGUGUGU--GUGUGUGUGUCUGGGAGAAAU---UGUUGUUGGGCUGCUGCUAGUUAAGCACUCACCCACCCACACAUAAGCACGAUUUAAUAU
.(((((((......))))...)))((((((....--.((((((((..((((.((...---((((....(((....))).....)))).)).))))..)))))))).))))))........ ( -38.20)
>DroYak_CAF1 18804 106 - 1
AGCAGCAUUUCAGUGUGCCAAUGCUUGUGU----------GUGUGCCUGCGAGGAAUGGUUGUUGUUUGGCGGCUGCUAGUUAAGCACUCACC----CACACAUAAGCACGAUUUAAUAU
.(((.(((....))))))...(((((((((----------(((.(((.((((.((....)).))))..)))(..((((.....))))..)...----))))))))))))........... ( -34.00)
>consensus
AGCAGCAUUUCAGUGUGCCAAUGCUCGUGUGU________GUGUGUCUGGGAGGAAU___UGUUGUUGGGCUGCUGCUAGUUAAGCACUCACCCACCCACACAUAAGCACGAUUUAAUAU
.(((((((......))))...)))((((((.......((((((((..((((.((......((((....(((....))).....)))).)).))))..)))))))).))))))........ (-22.61 = -24.93 +   2.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:17 2006