Locus 2148

Sequence ID X_DroMel_CAF1
Location 5,819,196 – 5,819,329
Length 133
Max. P 0.996614
window3485 window3486 window3487

overview

Window 5

Location 5,819,196 – 5,819,290
Length 94
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 65.17
Mean single sequence MFE -38.16
Consensus MFE -24.74
Energy contribution -24.22
Covariance contribution -0.52
Combinations/Pair 1.21
Mean z-score -2.46
Structure conservation index 0.65
SVM decision value 2.72
SVM RNA-class probability 0.996614
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5819196 94 + 22224390
AAUGUGCGGGCAGCCAUGAAGC---GACUUUACUGCCGUUUCAGGGAUACAGCUCA-CA-UUGCACCCAGGGAUCUGGGU---------------------CCUUGGGUGUGGCAGAUUU
(((.(((((((..((.((((((---(.(......).))))))).)).....)))).-..-..((((((((((((....))---------------------)))))))))).))).))). ( -42.10)
>DroSec_CAF1 24765 73 + 1
---------------------C---GACUUUACUGCCGUCCCAGGGAUACAGCUCA-CA-UUGCACCCAGGGAUUUGGGU---------------------CCUUGGGUGUGGCAGGUUU
---------------------.---.......(((((((((...))))........-..-..((((((((((((....))---------------------))))))))))))))).... ( -32.40)
>DroSim_CAF1 26674 72 + 1
---------------------C---GACUUUACUGCCGUCCCAGGGAUACAGCUCA-CA-UUGCACCCAGGGAUCUGGGU---------------------CCUUGGGUGUGGCAGGU-U
---------------------.---.......(((((((((...))))........-..-..((((((((((((....))---------------------)))))))))))))))..-. ( -33.50)
>DroEre_CAF1 24470 94 + 1
GAUGUGCGGGCAGCCGUGAACC---GACUUAACUGCCGUUCCAGGGAUACAGGGAGCCCAGGAAACCCAGGGAUCUGGGU---------------------CCUUGGGUGUGGCAG-CG-
.....((((....)))).....---.......(((((..((((((((..((((...(((.((....)).))).))))..)---------------------)))))))...)))))-..- ( -38.90)
>DroYak_CAF1 25314 118 + 1
GAUGUGCGGGCAGCCAUGAAGUGAAGACUCCACUGCCCUUCCAGGGAUACAGCUCA-CUGGGAAGCCCCGGGUUCUGGGUUCUGAGUUCUGAGUUCUGGCUCCUUGGGUGUGGCAGGCU-
..(.(((((((((...((.(((....))).)))))))).((((((((..(((((((-((.((((..(((((...))))))))).)))...)))..)))..))))))))....))).)..- ( -43.90)
>consensus
_AUGUGCGGGCAGCC_UGAA_C___GACUUUACUGCCGUUCCAGGGAUACAGCUCA_CA_UUGCACCCAGGGAUCUGGGU_____________________CCUUGGGUGUGGCAGGUUU
................................(((((..(((((((.....(.....)......((((((....)))))).....................)))))))...))))).... (-24.74 = -24.22 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 5,819,196 – 5,819,290
Length 94
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 65.17
Mean single sequence MFE -30.96
Consensus MFE -14.88
Energy contribution -16.08
Covariance contribution 1.20
Combinations/Pair 1.00
Mean z-score -1.81
Structure conservation index 0.48
SVM decision value 0.80
SVM RNA-class probability 0.854267
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5819196 94 - 22224390
AAAUCUGCCACACCCAAGG---------------------ACCCAGAUCCCUGGGUGCAA-UG-UGAGCUGUAUCCCUGAAACGGCAGUAAAGUC---GCUUCAUGGCUGCCCGCACAUU
..........((((((.((---------------------(......))).)))))).((-((-((....(((.((.((((.((((......)))---).)))).)).)))...)))))) ( -31.20)
>DroSec_CAF1 24765 73 - 1
AAACCUGCCACACCCAAGG---------------------ACCCAAAUCCCUGGGUGCAA-UG-UGAGCUGUAUCCCUGGGACGGCAGUAAAGUC---G---------------------
....(((((...((((.((---------------------(((((......))))((((.-..-.....))))))).))))..))))).......---.--------------------- ( -24.20)
>DroSim_CAF1 26674 72 - 1
A-ACCUGCCACACCCAAGG---------------------ACCCAGAUCCCUGGGUGCAA-UG-UGAGCUGUAUCCCUGGGACGGCAGUAAAGUC---G---------------------
.-..(((((...((((.((---------------------((((((....)))))((((.-..-.....))))))).))))..))))).......---.--------------------- ( -27.10)
>DroEre_CAF1 24470 94 - 1
-CG-CUGCCACACCCAAGG---------------------ACCCAGAUCCCUGGGUUUCCUGGGCUCCCUGUAUCCCUGGAACGGCAGUUAAGUC---GGUUCACGGCUGCCCGCACAUC
-.(-(((((...((((.((---------------------((((((....))))))))..))))......((.((....))))))))))..((((---(.....)))))........... ( -34.30)
>DroYak_CAF1 25314 118 - 1
-AGCCUGCCACACCCAAGGAGCCAGAACUCAGAACUCAGAACCCAGAACCCGGGGCUUCCCAG-UGAGCUGUAUCCCUGGAAGGGCAGUGGAGUCUUCACUUCAUGGCUGCCCGCACAUC
-....(((.....(((.(((..(((..(((...(((..((((((........))).)))..))-)))))))..))).)))..((((((((((((....)))))...)))))))))).... ( -38.00)
>consensus
AAACCUGCCACACCCAAGG_____________________ACCCAGAUCCCUGGGUGCAA_UG_UGAGCUGUAUCCCUGGAACGGCAGUAAAGUC___G_UUCA_GGCUGCCCGCACAU_
....(((((....(((.((.....................((((((....)))))).........((......)))))))...)))))................................ (-14.88 = -16.08 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 5,819,233 – 5,819,329
Length 96
Sequences 3
Columns 97
Reading direction forward
Mean pairwise identity 92.41
Mean single sequence MFE -41.33
Consensus MFE -34.54
Energy contribution -34.73
Covariance contribution 0.20
Combinations/Pair 1.03
Mean z-score -3.35
Structure conservation index 0.84
SVM decision value 1.25
SVM RNA-class probability 0.935771
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5819233 96 + 22224390
UCAGGGAUACAGCUCACAUUGCACCCAGGGAUCUGGGUCCUUGGGUGUGGCAGAUUUCUGCCGG-GAAGGGCCACGAAUGCGAAACAUUGUGUGUCA
.....((((((((((.....((((((((((((....))))))))))))(((((....)))))..-...))))....((((.....)))).)))))). ( -43.10)
>DroSec_CAF1 24781 97 + 1
CCAGGGAUACAGCUCACAUUGCACCCAGGGAUUUGGGUCCUUGGGUGUGGCAGGUUUCUACAGGGGAACGGCCUCGAAUGCGAAACAUUGUAUGUCU
..(((.((((((.((.((((((((((((((((....))))))))))))(((..((((((....)))))).)))...)))).))....)))))).))) ( -40.10)
>DroSim_CAF1 26690 95 + 1
CCAGGGAUACAGCUCACAUUGCACCCAGGGAUCUGGGUCCUUGGGUGUGGCAGGU-UCUACAGG-GAACGGCCUCGAAUGCGAAACAUUGUGUGUCU
..(((.((((((.((.((((((((((((((((....))))))))))))(((..((-(((....)-)))).)))...)))).))....)))))).))) ( -40.80)
>consensus
CCAGGGAUACAGCUCACAUUGCACCCAGGGAUCUGGGUCCUUGGGUGUGGCAGGUUUCUACAGG_GAACGGCCUCGAAUGCGAAACAUUGUGUGUCU
...((.((((((.((.((((((((((((((((....))))))))))))(((...((((....))))....)))...)))).))....)))))).)). (-34.54 = -34.73 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:22 2006