Locus 311

Sequence ID 2R_DroMel_CAF1
Location 2,054,825 – 2,054,922
Length 97
Max. P 0.998945
window635 window636

overview

Window 5

Location 2,054,825 – 2,054,922
Length 97
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.24
Mean single sequence MFE -42.26
Consensus MFE -36.92
Energy contribution -37.56
Covariance contribution 0.64
Combinations/Pair 1.13
Mean z-score -2.89
Structure conservation index 0.87
SVM decision value 3.29
SVM RNA-class probability 0.998945
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2054825 97 + 20766785
UACGCAACGUUGUCCACUCC-----------------ACCAGCUGCAGCUGAAGGCGCUGACGAAGGCUCAACAAGCCGAAAACAGCUGCCGGAGUGGUUGUCCUCAUUGCGGC------
..(((((.(..(.(((((((-----------------..((((....))))..(((((((.....((((.....)))).....)))).))))))))))....)..).)))))..------ ( -42.10)
>DroSim_CAF1 40365 97 + 1
UACGCAACGUUGGCCGCUCC-----------------ACCAGCUGCAGCUGAAGGCGCUGACGAAGGCUCAACAAGCCGAAAACAGCUGCCGGAGUGGUUGUCCUCAUUGCGGC------
..(((((.(.((((((((((-----------------..((((....))))..(((((((.....((((.....)))).....)))).)))))))))))))....).)))))..------ ( -43.90)
>DroEre_CAF1 39175 97 + 1
UACGCAACGUUGGCCGCUCC-----------------ACCAGCUGCAGCUGAAGGCGCUGACGAAGGCUCAACAAGCCGAAAACAGCUGCCGGAGAGGUUGUCCUCAUUGCGGC------
..(((((.(.(((((.((((-----------------..((((....))))..(((((((.....((((.....)))).....)))).))))))).)))))....).)))))..------ ( -40.10)
>DroYak_CAF1 42293 99 + 1
UACGCAACGUUGACCGCUCCA---------------CACCAGCUGCAGCUGAAGGCGCUGACGAAGGCUCAACAAGCCGAAAACAGCUGCCGGAGUGGUUGUCCUCAUUGCGUC------
.((((((.(.((((((((((.---------------...((((....))))..(((((((.....((((.....)))).....)))).)))))))))))))....).)))))).------ ( -44.60)
>DroAna_CAF1 41185 120 + 1
UACAACAUGUUGGCUGCUCCAAGAGCUCCAGCUCUCCACCAGCUGCAGCUGAAGGUGCUGACGAAGGCUCAACAAGCCGAAAACAGCUGCCUGAGUGGUUGUCCUCAUUGCGGUAUCAGU
.........(..(((((....(((((....))))).........)))))..).(((((((.(((.((((.....))))((..(((((..(....)..)))))..)).))))))))))... ( -40.62)
>consensus
UACGCAACGUUGGCCGCUCC_________________ACCAGCUGCAGCUGAAGGCGCUGACGAAGGCUCAACAAGCCGAAAACAGCUGCCGGAGUGGUUGUCCUCAUUGCGGC______
..(((((.(.((((((((((...................((((....))))..(((((((.....((((.....)))).....)))).)))))))))))))....).)))))........ (-36.92 = -37.56 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 2,054,825 – 2,054,922
Length 97
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.24
Mean single sequence MFE -42.52
Consensus MFE -34.28
Energy contribution -34.96
Covariance contribution 0.68
Combinations/Pair 1.06
Mean z-score -2.17
Structure conservation index 0.81
SVM decision value 1.41
SVM RNA-class probability 0.951513
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2054825 97 - 20766785
------GCCGCAAUGAGGACAACCACUCCGGCAGCUGUUUUCGGCUUGUUGAGCCUUCGUCAGCGCCUUCAGCUGCAGCUGGU-----------------GGAGUGGACAACGUUGCGUA
------..(((((((..(....((((((((.((((((.....(((((...))))).....((((.......)))))))))).)-----------------))))))).)..))))))).. ( -44.80)
>DroSim_CAF1 40365 97 - 1
------GCCGCAAUGAGGACAACCACUCCGGCAGCUGUUUUCGGCUUGUUGAGCCUUCGUCAGCGCCUUCAGCUGCAGCUGGU-----------------GGAGCGGCCAACGUUGCGUA
------..(((((((.((....((.(((((.((((((.....(((((...))))).....((((.......)))))))))).)-----------------)))).))))..))))))).. ( -41.40)
>DroEre_CAF1 39175 97 - 1
------GCCGCAAUGAGGACAACCUCUCCGGCAGCUGUUUUCGGCUUGUUGAGCCUUCGUCAGCGCCUUCAGCUGCAGCUGGU-----------------GGAGCGGCCAACGUUGCGUA
------(((((...((((....))))((((.((((((.....(((((...))))).....((((.......)))))))))).)-----------------))))))))............ ( -41.40)
>DroYak_CAF1 42293 99 - 1
------GACGCAAUGAGGACAACCACUCCGGCAGCUGUUUUCGGCUUGUUGAGCCUUCGUCAGCGCCUUCAGCUGCAGCUGGUG---------------UGGAGCGGUCAACGUUGCGUA
------.((((((((..(((..((((.(((((.((((.....(((((...))))).....))))((........)).))))).)---------------)))....)))..)))))))). ( -44.70)
>DroAna_CAF1 41185 120 - 1
ACUGAUACCGCAAUGAGGACAACCACUCAGGCAGCUGUUUUCGGCUUGUUGAGCCUUCGUCAGCACCUUCAGCUGCAGCUGGUGGAGAGCUGGAGCUCUUGGAGCAGCCAACAUGUUGUA
.....(((.(((.((((........))))(((.((((.....(((((...))))).....)))).((...((((.(((((.......))))).))))...))....)))....))).))) ( -40.30)
>consensus
______GCCGCAAUGAGGACAACCACUCCGGCAGCUGUUUUCGGCUUGUUGAGCCUUCGUCAGCGCCUUCAGCUGCAGCUGGU_________________GGAGCGGCCAACGUUGCGUA
........(((((((..(....((.(((((((.((((.....(((((...))))).....))))))).(((((....)))))..................)))).)).)..))))))).. (-34.28 = -34.96 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:10 2006