Locus 8912

Sequence ID 3R_DroMel_CAF1
Location 23,908,712 – 23,908,830
Length 118
Max. P 0.803887
window14295 window14296

overview

Window 5

Location 23,908,712 – 23,908,830
Length 118
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.43
Mean single sequence MFE -38.41
Consensus MFE -23.97
Energy contribution -23.87
Covariance contribution -0.11
Combinations/Pair 1.28
Mean z-score -1.63
Structure conservation index 0.62
SVM decision value 0.18
SVM RNA-class probability 0.619477
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23908712 118 + 27905053
UCACCGCCCUCAGCGAGGAGGUCCUCCAGAAGACCUUCGCCCCCUACGGCGCGAUACAGGAGAUUCGCGUCUUCAAGGACAAGGGAUACGCUUUCGUGCGGUAAGCAAAGUCAU--CUUA
..((((((...((((.(((((((........))))))).((((((..(((((((..........)))))))....)))....)))...))))...).)))))............--.... ( -38.80)
>DroVir_CAF1 105013 112 + 1
UCACCGCACUCAGCGAGGAGGUGCUACAGAAAACAUUUGCGCCCUACGGCGCGAUACAGGAAAUACGCGUCUUCAAGGACAAGGGCUACGCAUUUGUGCGGUAAGUUGAG-UG-------
......(((((((((((((.(((.............(((((((....)))))))...........))).)))))..(.(((((.((...)).))))).).....))))))-))------- ( -37.25)
>DroGri_CAF1 75329 115 + 1
UCACCGCACUCAGCGAGGAGAUUUUGCAGAAAACAUUUGCACUCUAUGGCGCGAUACAGGAAAUUCGCGUCUUCAAGGAUAAGGGCUACGCAUUUGUGCGGUAAGCUGCAACAU--A---
..(((((((...(((.((((....((((((.....))))))))))..(((((((..........))))))).................)))....)))))))............--.--- ( -34.50)
>DroWil_CAF1 145530 120 + 1
UUACCGCACUCAGCGAGGAGAUCCUUCAAAAGACAUUUACCCCAUAUGGUGCAAUACAGGAGAUACGCGUCUUUAAGGACAAGGGCUAUGCCUUUGUGCGGUAAGUUAAUUUAUACCUCA
(((((((((((......))).(((((..((((((....(((......)))((..............)))))))))))))(((((((...)))))))))))))))................ ( -33.14)
>DroMoj_CAF1 117319 110 + 1
UUACCGCACUCAGCGAGGAGGUGCUGCAGAAGACAUUCGCGCCCUACGGCGCGAUACAGGAAAUACGCGUCUUCAAGGACAAGGGCUACGCAUUUGUGCGGUAAGUCGAG----------
(((((((((...(((.((..((.((...((((((..(((((((....)))))))....(......)..)))))).)).)).....)).)))....)))))))))......---------- ( -43.60)
>DroAna_CAF1 117510 118 + 1
UCACAGCCCUCAGCGAGGAGGUGCUCCAGAAGACAUUCGCCCCCUAUGGAGCGAUACAGGAGAUCCGUGUCUUCAAGGAUAAGGGCUAUGCCUUUGUGCGGUAAGUGAUACUAC--UUUA
(((((((((((......)))).)))((.((((((((((((.((....)).))))....((....))))))))))..(.((((((((...)))))))).)))...))))......--.... ( -43.20)
>consensus
UCACCGCACUCAGCGAGGAGGUGCUCCAGAAGACAUUCGCCCCCUACGGCGCGAUACAGGAAAUACGCGUCUUCAAGGACAAGGGCUACGCAUUUGUGCGGUAAGUUAAG_UAU______
..(((((((...(((.((..((.((...((((((..((((.((....)).))))....(......)..)))))).)).)).....)).)))....))))))).................. (-23.97 = -23.87 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 23,908,712 – 23,908,830
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.43
Mean single sequence MFE -38.41
Consensus MFE -27.72
Energy contribution -28.00
Covariance contribution 0.28
Combinations/Pair 1.29
Mean z-score -1.68
Structure conservation index 0.72
SVM decision value 0.63
SVM RNA-class probability 0.803887
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23908712 118 - 27905053
UAAG--AUGACUUUGCUUACCGCACGAAAGCGUAUCCCUUGUCCUUGAAGACGCGAAUCUCCUGUAUCGCGCCGUAGGGGGCGAAGGUCUUCUGGAGGACCUCCUCGCUGAGGGCGGUGA
....--..........((((((((((....)))...((((..(((((..(.(((((..(....)..))))))..)))))((((((((((((....)))))))..)))))))))))))))) ( -42.80)
>DroVir_CAF1 105013 112 - 1
-------CA-CUCAACUUACCGCACAAAUGCGUAGCCCUUGUCCUUGAAGACGCGUAUUUCCUGUAUCGCGCCGUAGGGCGCAAAUGUUUUCUGUAGCACCUCCUCGCUGAGUGCGGUGA
-------..-......(((((((((....(((.((....(((....(((((((.((((.....)))).(((((....)))))...)))))))....)))....)))))...))))))))) ( -35.50)
>DroGri_CAF1 75329 115 - 1
---U--AUGUUGCAGCUUACCGCACAAAUGCGUAGCCCUUAUCCUUGAAGACGCGAAUUUCCUGUAUCGCGCCAUAGAGUGCAAAUGUUUUCUGCAAAAUCUCCUCGCUGAGUGCGGUGA
---.--..........(((((((((....(((.((...........((((((((((..........))))(((.....).))....))))))...........)))))...))))))))) ( -28.65)
>DroWil_CAF1 145530 120 - 1
UGAGGUAUAAAUUAACUUACCGCACAAAGGCAUAGCCCUUGUCCUUAAAGACGCGUAUCUCCUGUAUUGCACCAUAUGGGGUAAAUGUCUUUUGAAGGAUCUCCUCGCUGAGUGCGGUAA
.................((((((((.((((......))))(((((((((((((..((((((.(((........))).))))))..)))))))..))))))...........)))))))). ( -35.30)
>DroMoj_CAF1 117319 110 - 1
----------CUCGACUUACCGCACAAAUGCGUAGCCCUUGUCCUUGAAGACGCGUAUUUCCUGUAUCGCGCCGUAGGGCGCGAAUGUCUUCUGCAGCACCUCCUCGCUGAGUGCGGUAA
----------.......((((((((....(((.((....(((....(((((((((.......))).(((((((....)))))))..))))))....)))....)))))...)))))))). ( -41.00)
>DroAna_CAF1 117510 118 - 1
UAAA--GUAGUAUCACUUACCGCACAAAGGCAUAGCCCUUAUCCUUGAAGACACGGAUCUCCUGUAUCGCUCCAUAGGGGGCGAAUGUCUUCUGGAGCACCUCCUCGCUGAGGGCUGUGA
....--(..(((.....)))..).......((((((((((((((..((((((((((.....)))).(((((((....)))))))..)))))).)))((........))))))))))))). ( -47.20)
>consensus
______AUA_CUCAACUUACCGCACAAAUGCGUAGCCCUUGUCCUUGAAGACGCGUAUCUCCUGUAUCGCGCCAUAGGGGGCAAAUGUCUUCUGCAGCACCUCCUCGCUGAGUGCGGUGA
................(((((((((....(((..............(((((((((.......))).(((((((....)))))))..)))))).............)))...))))))))) (-27.72 = -28.00 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:22:35 2006