Locus 2902

Sequence ID 2R_DroMel_CAF1
Location 10,026,516 – 10,026,621
Length 105
Max. P 0.907779
window4788 window4789

overview

Window 8

Location 10,026,516 – 10,026,621
Length 105
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 81.39
Mean single sequence MFE -21.70
Consensus MFE -17.43
Energy contribution -17.60
Covariance contribution 0.17
Combinations/Pair 1.12
Mean z-score -1.55
Structure conservation index 0.80
SVM decision value 0.45
SVM RNA-class probability 0.742721
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10026516 105 + 20766785
GUCUAUUUUGUGCUUGUUGCAUAUCCCUUAAGAUACUCGUUAUUUUUUGUGAUUGUUUAA-GGAUAUCACAAGCACGUAAA----AAAAUA-AUAGAACUUGAUAUGGAUA
.((((((.(((((((((.(.((((((.(((((......(((((.....)))))..)))))-))))))))))))))))....----.....)-))))).............. ( -23.00)
>DroSec_CAF1 5133 104 + 1
GUCUAUUUUGUGCUUGUUGCAUAUCCCUUAAGAUACUCGUUAUUUUUUGUGAUUGUUUAA-GGAUAUCUCAAGCACGUAAA-----AAAUA-AUAGAACUUGAUAUGGAUA
.((((((.((((((((..(.((((((.(((((......(((((.....)))))..)))))-))))))).))))))))....-----....)-))))).............. ( -21.40)
>DroEre_CAF1 5114 105 + 1
GUCUAUUUUGUGCUUGUUGCAUAUCCCUUAAGAUACUCGUUAUUUUUUGUGAUUGUUUAA-GGAUAUCACAAGCACUUACA----AAAAUA-AUAGAACUUGAUAUGGAUA
.((((((..((((((((.(.((((((.(((((......(((((.....)))))..)))))-))))))))))))))).....----.....)-))))).............. ( -22.10)
>DroYak_CAF1 5119 109 + 1
GUCUAUUUUGUGCUUGUUGCAUAUCCCUUAAGAUACUCGUUAUUUUUUGUGAUUGUUUAA-GGAUAUCACAAGCACUAAAAAAAAAAAAUA-AUAGAACUUGAUAUGGAUA
.((((((..((((((((.(.((((((.(((((......(((((.....)))))..)))))-)))))))))))))))..............)-))))).............. ( -21.79)
>DroAna_CAF1 4866 100 + 1
GUGUAUUUUGUGCUUGUUGCGUAUCCCUUGAGAUACUCGUUGAUUUUUGUGAUUUUUGAAUGGAUAUCACAGGCACACCACUCU-AAAGCAAGCAACACU----------C
((((......(((((((((.(((((......))))).).......((((((((.(((....))).))))))))...........-..)))))))))))).----------. ( -22.80)
>DroPer_CAF1 5119 88 + 1
GUGUAUUUUGUGCUUGUUGCAUAUCCCUAAAGAUACUCGUUGUU-UUUGUGAUUGUUUAA-GGAUAUCUCAAGCACACUAA----AAAAUA-AAA----------------
........((((((((..(.((((((.((((.(....((.....-..))....).)))).-))))))).))))))))....----......-...---------------- ( -19.10)
>consensus
GUCUAUUUUGUGCUUGUUGCAUAUCCCUUAAGAUACUCGUUAUUUUUUGUGAUUGUUUAA_GGAUAUCACAAGCACAUAAA____AAAAUA_AUAGAACUUGAUAUGGAUA
.........((((((((.(.((((((.(((((....(((..(....)..)))...))))).)))))))))))))))................................... (-17.43 = -17.60 +   0.17)

alignment

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secondary structure

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dotplot

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Window 9

Location 10,026,516 – 10,026,621
Length 105
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 81.39
Mean single sequence MFE -19.84
Consensus MFE -15.82
Energy contribution -16.82
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.23
Structure conservation index 0.80
SVM decision value 1.06
SVM RNA-class probability 0.907779
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10026516 105 - 20766785
UAUCCAUAUCAAGUUCUAU-UAUUUU----UUUACGUGCUUGUGAUAUCC-UUAAACAAUCACAAAAAAUAACGAGUAUCUUAAGGGAUAUGCAACAAGCACAAAAUAGAC
...................-......----.....((((((((.((((((-((......((............))........))))))))...))))))))......... ( -18.94)
>DroSec_CAF1 5133 104 - 1
UAUCCAUAUCAAGUUCUAU-UAUUU-----UUUACGUGCUUGAGAUAUCC-UUAAACAAUCACAAAAAAUAACGAGUAUCUUAAGGGAUAUGCAACAAGCACAAAAUAGAC
..................(-(((((-----(....(((((((..((((((-((......((............))........))))))))....)))))))))))))).. ( -16.24)
>DroEre_CAF1 5114 105 - 1
UAUCCAUAUCAAGUUCUAU-UAUUUU----UGUAAGUGCUUGUGAUAUCC-UUAAACAAUCACAAAAAAUAACGAGUAUCUUAAGGGAUAUGCAACAAGCACAAAAUAGAC
..............(((((-(((...----.))))((((((((.((((((-((......((............))........))))))))...))))))))....)))). ( -20.04)
>DroYak_CAF1 5119 109 - 1
UAUCCAUAUCAAGUUCUAU-UAUUUUUUUUUUUUAGUGCUUGUGAUAUCC-UUAAACAAUCACAAAAAAUAACGAGUAUCUUAAGGGAUAUGCAACAAGCACAAAAUAGAC
...................-...............((((((((.((((((-((......((............))........))))))))...))))))))......... ( -18.84)
>DroAna_CAF1 4866 100 - 1
G----------AGUGUUGCUUGCUUU-AGAGUGGUGUGCCUGUGAUAUCCAUUCAAAAAUCACAAAAAUCAACGAGUAUCUCAAGGGAUACGCAACAAGCACAAAAUACAC
.----------.(((((..((((...-.(((((((((.......))).)))))).....................((((((....))))))))))..)))))......... ( -24.60)
>DroPer_CAF1 5119 88 - 1
----------------UUU-UAUUUU----UUAGUGUGCUUGAGAUAUCC-UUAAACAAUCACAAA-AACAACGAGUAUCUUUAGGGAUAUGCAACAAGCACAAAAUACAC
----------------...-......----....((((((((..((((((-(((((...((.....-......)).....)))))))))))....))))))))........ ( -20.40)
>consensus
UAUCCAUAUCAAGUUCUAU_UAUUUU____UUUAAGUGCUUGUGAUAUCC_UUAAACAAUCACAAAAAAUAACGAGUAUCUUAAGGGAUAUGCAACAAGCACAAAAUAGAC
...................................((((((((.((((((.((((....((............)).....)))).))))))...))))))))......... (-15.82 = -16.82 +   1.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:19 2006