Locus 7396

Sequence ID	3R_DroMel_CAF1
Location	19,642,278 – 19,642,375
Length	97
Max. P	0.989729

overview

Window 2

Location	19,642,278 – 19,642,375
Length	97
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	76.32
Mean single sequence MFE	-44.33
Consensus MFE	-30.78
Energy contribution	-30.65
Covariance contribution	-0.13
Combinations/Pair	1.26
Mean z-score	-1.67
Structure conservation index	0.69
SVM decision value	1.23
SVM RNA-class probability	0.933985
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19642278 97 + 27905053
---GU-AAGAGGAU---GUCCCAACGUGUUGGAACUGGCGGCGGCGCUCAGUUGGAGGGUAGCGCCGCCGCC---GUUGGCACUGUUGUUAACCGCCG---CGGAAUGCG
---..-....((..---((..((((((((..(...((((((((((((((.........).))))))))))))---))..)))).))))...))..))(---(.....)). ( -41.40)
>DroSec_CAF1 26562 97 + 1
---GU-AAGGGGAU---GUCCCAAUGUGUUGGAACUGGCGGCGGCGCUCAGUUGGAGGGUAGCGCCGCCGCC---GUUGGCACUGUUGUUAACCGCCG---CGGAAUGGG
---..-........---..((((.(.(((.((....(((((((((((((.........).))))))))))))---(((((((....)))))))..)))---)).).)))) ( -42.00)
>DroEre_CAF1 26572 97 + 1
---CU-AAUAGGAU---GUCCCAACGAGUUGGAGCUGGCGGCGGCGCUCAGUUGGAGGGCAGCGCCGCCGCC---GUUGGCAUUGUUGUUAACCGCCG---CGGAAUGGG
---.(-((((((((---(((((((....))))(((.((((((((((((..((......))))))))))))))---))))))))).)))))).(((...---)))...... ( -41.70)
>DroWil_CAF1 55528 104 + 1
---CUGAUGCCCAUGUCCUCCCACUGAUCCACUGCUGGCGGCGGCGCUCAAUUGAAGGGCAGCGCCGCCGCCACCGCUGGCAUUGCUGCUGCUACUGG---ACGUGUGGC
---.....((((((((((.......((((((.((.((((((((((((((.........).))))))))))))).)).))).)))((....))....))---))))).))) ( -50.50)
>DroYak_CAF1 26771 97 + 1
---CU-AAGUGGAU---GUACCAACGAGUUGGAGCUGGCGGCGGCGCUCAGUUGGAGGGCAGCGCCGCCGCC---AUUGGCAUUGUUGUUAACCGCCG---CGGAAUGGG
---..-..((((..---.((.((((((((..(...(((((((((((((..((......))))))))))))))---))..)).)))))).))....)))---)........ ( -44.80)
>DroAna_CAF1 26432 103 + 1
CCGCU-AUGUGGAU---GUCUUAAAGAAUUAAUGAUGGCGGCGGCGCUCAGUUGGAGGGCAGCGCCGCCGCC---GCCGGCAUUGCUAUUGCCUGCCGCAGCCGAGUGAC
.((((-.(((((..---................(.(((((((((((((..((......))))))))))))))---).)((((.......))))..)))))....)))).. ( -45.60)
>consensus
___CU_AAGAGGAU___GUCCCAACGAGUUGGAGCUGGCGGCGGCGCUCAGUUGGAGGGCAGCGCCGCCGCC___GUUGGCAUUGUUGUUAACCGCCG___CGGAAUGGG
....................(((.............(((((((((((((.........).))))))))))))...(((((((....))))))).............))). (-30.78 = -30.65 +  -0.13)

alignment

secondary structure

dotplot

Window 3

Location	19,642,278 – 19,642,375
Length	97
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	76.32
Mean single sequence MFE	-42.97
Consensus MFE	-31.58
Energy contribution	-31.75
Covariance contribution	0.17
Combinations/Pair	1.25
Mean z-score	-3.15
Structure conservation index	0.73
SVM decision value	2.18
SVM RNA-class probability	0.989729
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19642278 97 - 27905053
CGCAUUCCG---CGGCGGUUAACAACAGUGCCAAC---GGCGGCGGCGCUACCCUCCAACUGAGCGCCGCCGCCAGUUCCAACACGUUGGGAC---AUCCUCUU-AC---
.((.....)---)((((.(.......).))))...---((((((((((((............)))))))))))).(((((((....)))))))---........-..--- ( -43.80)
>DroSec_CAF1 26562 97 - 1
CCCAUUCCG---CGGCGGUUAACAACAGUGCCAAC---GGCGGCGGCGCUACCCUCCAACUGAGCGCCGCCGCCAGUUCCAACACAUUGGGAC---AUCCCCUU-AC---
.........---.((((.(.......).))))...---((((((((((((............)))))))))))).(((((((....)))))))---........-..--- ( -41.10)
>DroEre_CAF1 26572 97 - 1
CCCAUUCCG---CGGCGGUUAACAACAAUGCCAAC---GGCGGCGGCGCUGCCCUCCAACUGAGCGCCGCCGCCAGCUCCAACUCGUUGGGAC---AUCCUAUU-AG---
........(---(((((...........))))...---((((((((((((............)))))))))))).))(((((....)))))..---........-..--- ( -39.50)
>DroWil_CAF1 55528 104 - 1
GCCACACGU---CCAGUAGCAGCAGCAAUGCCAGCGGUGGCGGCGGCGCUGCCCUUCAAUUGAGCGCCGCCGCCAGCAGUGGAUCAGUGGGAGGACAUGGGCAUCAG---
(((.((.((---((....((.(((....)))..))(.(((((((((((((............))))))))))))).)...............)))).))))).....--- ( -51.70)
>DroYak_CAF1 26771 97 - 1
CCCAUUCCG---CGGCGGUUAACAACAAUGCCAAU---GGCGGCGGCGCUGCCCUCCAACUGAGCGCCGCCGCCAGCUCCAACUCGUUGGUAC---AUCCACUU-AG---
........(---(((((...........))))..(---((((((((((((............))))))))))))))).((((....))))...---........-..--- ( -39.00)
>DroAna_CAF1 26432 103 - 1
GUCACUCGGCUGCGGCAGGCAAUAGCAAUGCCGGC---GGCGGCGGCGCUGCCCUCCAACUGAGCGCCGCCGCCAUCAUUAAUUCUUUAAGAC---AUCCACAU-AGCGG
(((.....((..(((((.((....))..)))))))---((((((((((((............))))))))))))................)))---........-..... ( -42.70)
>consensus
CCCAUUCCG___CGGCGGUUAACAACAAUGCCAAC___GGCGGCGGCGCUGCCCUCCAACUGAGCGCCGCCGCCAGCUCCAACUCGUUGGGAC___AUCCACUU_AG___
.............((((...........))))......((((((((((((............))))))))))))....((((....)))).................... (-31.58 = -31.75 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:51 2006