Locus 8417

Sequence ID X_DroMel_CAF1
Location 20,901,429 – 20,901,536
Length 107
Max. P 0.933158
window13827 window13828

overview

Window 7

Location 20,901,429 – 20,901,536
Length 107
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 81.17
Mean single sequence MFE -36.10
Consensus MFE -20.62
Energy contribution -22.86
Covariance contribution 2.24
Combinations/Pair 1.04
Mean z-score -1.97
Structure conservation index 0.57
SVM decision value 0.24
SVM RNA-class probability 0.647263
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20901429 107 + 22224390
---ACUUUCGAGCAUCAGCAGCACCAGAAGCCAUCCAUCCUGUUGCGAAAGUGAAUGCUGUGGUGGUGGCCAAAGUUUCGCAUU-------GGCCUUG-CCAGAUGCUCUUGCUGUUG
---......(((((((.((((((.(((............)))(..(....)..).))))))((..(.((((((.(.....).))-------)))))..-)).)))))))......... ( -40.30)
>DroSec_CAF1 20719 101 + 1
ACAACUUUCGAGCAUC--CAGCCGCAGAAGCCGUC----CUGUUGCGAAAGUUAAUGCUGUGG---UGGCCAAAGUUUCGCAUU-------GGCCUUG-CCAGAUGCUCUUGCUGUUG
.((((....(((((((--((((.((((........----)))).((....))....))))(((---(((((((.(.....).))-------))))..)-)))))))))).....)))) ( -36.10)
>DroSim_CAF1 22601 107 + 1
ACAACUUUCGAGCAUC--CAGCAGCAGAAGCCGUC-----UGUUGCGAAAGUGAAUGCUGUGG---UGGCCAAAGUUUCGCAAUGGCCAAUGGCCUUG-CCAGAUGCUCGUGCUGUUG
.((((...((((((((--..((((((((.....))-----))))))((((.(....(((....---.)))...).))))((((.((((...)))))))-)..))))))))....)))) ( -43.10)
>DroEre_CAF1 13580 96 + 1
ACAACUUU-GAGCCUC---AGCCUCUG--------CCUCUUGUUGCGAAAGUAAAUGCUGUGG---UGGCCAAAGUUUCGCCUU-------GGCCUUGUCCAGAUGCUCCUGCUGUUG
.((((...-((((.((---.(((.(.(--------(......((((....))))..)).).))---)((((((.(.....).))-------)))).......)).)))).....)))) ( -29.00)
>DroYak_CAF1 17974 101 + 1
ACAACUUUCGAGCAUC---AGCAGCAGAAGCC---CAUCUUGUUGCGAAAGUAAAUGCUGUGG---UGCCCAAAGUUUCGCCUU-------GGCCUUG-CCAGCUGCUCUUGCUGUAG
..........((((..---((((((....(((---(((....((((....)))).....))))---.))..............(-------(((...)-)))))))))..)))).... ( -32.00)
>consensus
ACAACUUUCGAGCAUC__CAGCAGCAGAAGCC_UCC_UCCUGUUGCGAAAGUAAAUGCUGUGG___UGGCCAAAGUUUCGCAUU_______GGCCUUG_CCAGAUGCUCUUGCUGUUG
.((((....(((((((....((((((................((((....)))).))))))((....((((....................))))....)).))))))).....)))) (-20.62 = -22.86 +   2.24)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,901,429 – 20,901,536
Length 107
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 81.17
Mean single sequence MFE -36.36
Consensus MFE -19.35
Energy contribution -20.97
Covariance contribution 1.62
Combinations/Pair 1.04
Mean z-score -2.59
Structure conservation index 0.53
SVM decision value 1.23
SVM RNA-class probability 0.933158
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20901429 107 - 22224390
CAACAGCAAGAGCAUCUGG-CAAGGCC-------AAUGCGAAACUUUGGCCACCACCACAGCAUUCACUUUCGCAACAGGAUGGAUGGCUUCUGGUGCUGCUGAUGCUCGAAAGU---
.........(((((((.((-((.((((-------((.........))))))..(((((.((((((((..(((......)))))))).)))..))))).)))))))))))......--- ( -38.60)
>DroSec_CAF1 20719 101 - 1
CAACAGCAAGAGCAUCUGG-CAAGGCC-------AAUGCGAAACUUUGGCCA---CCACAGCAUUAACUUUCGCAACAG----GACGGCUUCUGCGGCUG--GAUGCUCGAAAGUUGU
..(((((..(((((((..(-(..((((-------((.........)))))).---................((((..((----.....))..))))))..--)))))))....))))) ( -37.70)
>DroSim_CAF1 22601 107 - 1
CAACAGCACGAGCAUCUGG-CAAGGCCAUUGGCCAUUGCGAAACUUUGGCCA---CCACAGCAUUCACUUUCGCAACA-----GACGGCUUCUGCUGCUG--GAUGCUCGAAAGUUGU
..(((((.((((((((..(-((.((((...)))).((((((((.....((..---.....))......))))))))((-----((.....)))).)))..--))))))))...))))) ( -42.90)
>DroEre_CAF1 13580 96 - 1
CAACAGCAGGAGCAUCUGGACAAGGCC-------AAGGCGAAACUUUGGCCA---CCACAGCAUUUACUUUCGCAACAAGAGG--------CAGAGGCU---GAGGCUC-AAAGUUGU
..(((((..((((...(((....((((-------((((.....)))))))).---)))((((.(((.((((........))))--------.))).)))---)..))))-...))))) ( -31.90)
>DroYak_CAF1 17974 101 - 1
CUACAGCAAGAGCAGCUGG-CAAGGCC-------AAGGCGAAACUUUGGGCA---CCACAGCAUUUACUUUCGCAACAAGAUG---GGCUUCUGCUGCU---GAUGCUCGAAAGUUGU
..(((((..(((((((((.-...(.((-------((((.....)))))).).---...))))..........(((...(((..---....)))..))).---..)))))....))))) ( -30.70)
>consensus
CAACAGCAAGAGCAUCUGG_CAAGGCC_______AAUGCGAAACUUUGGCCA___CCACAGCAUUCACUUUCGCAACAAGA_GGA_GGCUUCUGCUGCUG__GAUGCUCGAAAGUUGU
..(((((..(((((((.....................((((((((.(((......))).)).......))))))...........((((.......))))..)))))))....))))) (-19.35 = -20.97 +   1.62)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:30 2006