Locus 7365

Sequence ID 3L_DroMel_CAF1
Location 19,747,311 – 19,747,441
Length 130
Max. P 0.999490
window11965 window11966 window11967 window11968

overview

Window 5

Location 19,747,311 – 19,747,401
Length 90
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 94.70
Mean single sequence MFE -21.72
Consensus MFE -19.02
Energy contribution -19.22
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.72
Structure conservation index 0.88
SVM decision value 3.65
SVM RNA-class probability 0.999490
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19747311 90 + 23771897
GUGCAAGCAAA-AAAGUUGAGUGAAACGAAAAACGGGCGAAAAAGCCCGUCUCAGUUGAUAAAUCAAACACACACAUGUCCGUACAUAUGU
((((..(((..-....(((((...........((((((......)))))))))))((((....)))).........)))..))))...... ( -20.10)
>DroSec_CAF1 18133 89 + 1
GUGCAAGCAAA-AAAGUCGAGGGAAACGAAAAA-GGGCGAAAAAGCCCGUCUCAGUUGAUAAAUCAAAUACACACAUGUCGGUACAUAUGU
((((..(((..-......((((....)......-((((......))))..)))..((((....)))).........)))..))))...... ( -21.50)
>DroSim_CAF1 18181 90 + 1
GUGCAAGCAAA-AAAGUCGAGGGAAACGAAAAACGGGCGAAAAAGCCCGUCUCAGUUGAUAAAUCAAAUACACACAUGUCGGUACAUAUGU
((((..(((..-......((((....).....((((((......)))))))))..((((....)))).........)))..))))...... ( -24.10)
>DroEre_CAF1 18456 89 + 1
GUGCAAGCAAAAAAAGUCGAGUGAAACGAAAAACGGGCGAAAAAGCCCGUCUCAGUUGAUAAGUCAAAUACACACAUGUCGGUACAUAU--
((((..(((......(((((.(((........((((((......)))))).))).)))))..((.....)).....)))..))))....-- ( -22.40)
>DroYak_CAF1 18050 88 + 1
GUGCAAGCAAAAAAAGUCGAGUGAAACGAA-AACGGGCGAAAAAGCCCGUCUCAGUUGAUAAAUCAAAUACACACAUGUCGGUACAUAU--
((((..(((.........(((.........-.((((((......)))))))))..((((....)))).........)))..))))....-- ( -20.50)
>consensus
GUGCAAGCAAA_AAAGUCGAGUGAAACGAAAAACGGGCGAAAAAGCCCGUCUCAGUUGAUAAAUCAAAUACACACAUGUCGGUACAUAUGU
((((..(((.........(((...........((((((......)))))))))..((((....)))).........)))..))))...... (-19.02 = -19.22 +   0.20)

alignment

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secondary structure

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Window 6

Location 19,747,311 – 19,747,401
Length 90
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 94.70
Mean single sequence MFE -21.06
Consensus MFE -18.74
Energy contribution -18.98
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -2.16
Structure conservation index 0.89
SVM decision value 2.92
SVM RNA-class probability 0.997751
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19747311 90 - 23771897
ACAUAUGUACGGACAUGUGUGUGUUUGAUUUAUCAACUGAGACGGGCUUUUUCGCCCGUUUUUCGUUUCACUCAACUUU-UUUGCUUGCAC
((((((((....))))))))((((..(...........(((((((((......)))))))))..(((......)))...-....)..)))) ( -23.40)
>DroSec_CAF1 18133 89 - 1
ACAUAUGUACCGACAUGUGUGUAUUUGAUUUAUCAACUGAGACGGGCUUUUUCGCCC-UUUUUCGUUUCCCUCGACUUU-UUUGCUUGCAC
((((((((....))))))))....((((......(((.((((.((((......))))-.)))).)))....))))....-........... ( -17.80)
>DroSim_CAF1 18181 90 - 1
ACAUAUGUACCGACAUGUGUGUAUUUGAUUUAUCAACUGAGACGGGCUUUUUCGCCCGUUUUUCGUUUCCCUCGACUUU-UUUGCUUGCAC
((((((((....))))))))(((...............(((((((((......)))))))))(((.......)))....-......))).. ( -22.40)
>DroEre_CAF1 18456 89 - 1
--AUAUGUACCGACAUGUGUGUAUUUGACUUAUCAACUGAGACGGGCUUUUUCGCCCGUUUUUCGUUUCACUCGACUUUUUUUGCUUGCAC
--((((((....))))))(((((...............(((((((((......)))))))))(((.......)))...........))))) ( -20.70)
>DroYak_CAF1 18050 88 - 1
--AUAUGUACCGACAUGUGUGUAUUUGAUUUAUCAACUGAGACGGGCUUUUUCGCCCGUU-UUCGUUUCACUCGACUUUUUUUGCUUGCAC
--((((((....))))))(((((...((....))(((.(((((((((......)))))))-)).)))...................))))) ( -21.00)
>consensus
ACAUAUGUACCGACAUGUGUGUAUUUGAUUUAUCAACUGAGACGGGCUUUUUCGCCCGUUUUUCGUUUCACUCGACUUU_UUUGCUUGCAC
..((((((....))))))(((((.((((....))))..(((((((((......)))))))))........................))))) (-18.74 = -18.98 +   0.24)

alignment

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secondary structure

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Window 7

Location 19,747,334 – 19,747,441
Length 107
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 81.67
Mean single sequence MFE -21.25
Consensus MFE -13.17
Energy contribution -14.20
Covariance contribution 1.03
Combinations/Pair 1.06
Mean z-score -2.47
Structure conservation index 0.62
SVM decision value 0.67
SVM RNA-class probability 0.816697
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19747334 107 + 23771897
AACGAAAAACGGGCGAAAAAGCCCGUCUCAGUUGAUAAAUCAAACA------CACACAUGUCCGUACAUAUGUACAUAUGUACACAUGAUCCACACCAUUUACCACAAGUAGU
...((...((((((......)))))).))..((((....))))...------....(((((..((((((((....)))))))))))))......................... ( -25.00)
>DroSec_CAF1 18156 106 + 1
AACGAAAAA-GGGCGAAAAAGCCCGUCUCAGUUGAUAAAUCAAAUA------CACACAUGUCGGUACAUAUGUACCUAUGUACACAUGAUAAACACCAUUUACCACAAGUUGU
(((((....-((((......))))(((......)))...)).....------....(((((..(((((((......))))))))))))....................))).. ( -21.50)
>DroSim_CAF1 18204 104 + 1
AACGAAAAACGGGCGAAAAAGCCCGUCUCAGUUGAUAAAUCAAAUA------CACACAUGUCGGUACAUAUGUACCUAUGUACACAUGAUCCACACCAUUUA---CAAGUAGU
...((...((((((......)))))).))..((((....))))...------....(((((..(((((((......))))))))))))..............---........ ( -23.20)
>DroEre_CAF1 18480 99 + 1
AACGAAAAACGGGCGAAAAAGCCCGUCUCAGUUGAUAAGUCAAAUA------CACACAUGUCGGUACAUAU--------GUACACAUGAUCCACACCAUUUACCAUAAGUAGU
...((...((((((......)))))).)).((.(((..((.....)------)...(((((..((((....--------)))))))))))).))................... ( -20.40)
>DroYak_CAF1 18074 98 + 1
AACGAA-AACGGGCGAAAAAGCCCGUCUCAGUUGAUAAAUCAAAUA------CACACAUGUCGGUACAUAU--------GUACACAUGAUCCACACCAUUUACCAUAAGUAGU
(((...-.((((((......))))))....))).............------....(((((..((((....--------)))))))))......................... ( -20.50)
>DroAna_CAF1 18193 100 + 1
AACAAAAAUCAGGCGAAAAAGCCCGUCUCACUUGAUAAACCAAAUAAACCGACACACAUGUCGGCCCAGGUACAUAUAACUACACAU------------AUA-AGUAAGUAGU
.......((((((.((...........)).))))))..(((.......((((((....))))))....))).......(((((((..------------...-.))..))))) ( -16.90)
>consensus
AACGAAAAACGGGCGAAAAAGCCCGUCUCAGUUGAUAAAUCAAAUA______CACACAUGUCGGUACAUAUGUAC_UAUGUACACAUGAUCCACACCAUUUACCACAAGUAGU
..(((...((((((......)))))).....)))......................(((((..((((............)))))))))......................... (-13.17 = -14.20 +   1.03)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,747,334 – 19,747,441
Length 107
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 81.67
Mean single sequence MFE -31.78
Consensus MFE -16.65
Energy contribution -19.40
Covariance contribution 2.75
Combinations/Pair 1.18
Mean z-score -3.28
Structure conservation index 0.52
SVM decision value 0.98
SVM RNA-class probability 0.894373
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19747334 107 - 23771897
ACUACUUGUGGUAAAUGGUGUGGAUCAUGUGUACAUAUGUACAUAUGUACGGACAUGUGUG------UGUUUGAUUUAUCAACUGAGACGGGCUUUUUCGCCCGUUUUUCGUU
........((((((((.........(((((((((....)))))))))..(((((((....)------))))))))))))))...(((((((((......)))))))))..... ( -35.20)
>DroSec_CAF1 18156 106 - 1
ACAACUUGUGGUAAAUGGUGUUUAUCAUGUGUACAUAGGUACAUAUGUACCGACAUGUGUG------UAUUUGAUUUAUCAACUGAGACGGGCUUUUUCGCCC-UUUUUCGUU
........((((((((.(.((....(((((((.....(((((....))))).)))))))..------.)).).))))))))((.((((.((((......))))-.)))).)). ( -28.50)
>DroSim_CAF1 18204 104 - 1
ACUACUUG---UAAAUGGUGUGGAUCAUGUGUACAUAGGUACAUAUGUACCGACAUGUGUG------UAUUUGAUUUAUCAACUGAGACGGGCUUUUUCGCCCGUUUUUCGUU
........---.....(((((((((((((..(((((.(((((....)))))...)))))..------))..))))))))..)))(((((((((......)))))))))..... ( -32.90)
>DroEre_CAF1 18480 99 - 1
ACUACUUAUGGUAAAUGGUGUGGAUCAUGUGUAC--------AUAUGUACCGACAUGUGUG------UAUUUGACUUAUCAACUGAGACGGGCUUUUUCGCCCGUUUUUCGUU
.((((((((.....)))).)))).(((.((((((--------((((((....)))))))))------))).)))......(((.(((((((((......)))))))))..))) ( -30.10)
>DroYak_CAF1 18074 98 - 1
ACUACUUAUGGUAAAUGGUGUGGAUCAUGUGUAC--------AUAUGUACCGACAUGUGUG------UAUUUGAUUUAUCAACUGAGACGGGCUUUUUCGCCCGUU-UUCGUU
..(((.....)))......((((((((.((((((--------((((((....)))))))))------))).)))))))).(((.(((((((((......)))))))-)).))) ( -32.80)
>DroAna_CAF1 18193 100 - 1
ACUACUUACU-UAU------------AUGUGUAGUUAUAUGUACCUGGGCCGACAUGUGUGUCGGUUUAUUUGGUUUAUCAAGUGAGACGGGCUUUUUCGCCUGAUUUUUGUU
....((((((-(((------------(((((....)))))))(((((((((((((....))))))))))...))).....))))))).(((((......)))))......... ( -31.20)
>consensus
ACUACUUAUGGUAAAUGGUGUGGAUCAUGUGUACAUA_GUACAUAUGUACCGACAUGUGUG______UAUUUGAUUUAUCAACUGAGACGGGCUUUUUCGCCCGUUUUUCGUU
...................((((((((...(((......((((((((......))))))))......))).)))))))).....(((((((((......)))))))))..... (-16.65 = -19.40 +   2.75)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:10 2006