Locus 2021

Sequence ID 2L_DroMel_CAF1
Location 5,474,780 – 5,474,875
Length 95
Max. P 0.811800
window3252 window3253

overview

Window 2

Location 5,474,780 – 5,474,875
Length 95
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 78.90
Mean single sequence MFE -27.53
Consensus MFE -10.32
Energy contribution -11.43
Covariance contribution 1.11
Combinations/Pair 1.10
Mean z-score -2.64
Structure conservation index 0.37
SVM decision value 0.24
SVM RNA-class probability 0.650158
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5474780 95 + 22407834
CCCAAUCAAGUGCUACCUGAUAUCAGUCUCGCAACGCCCCAAACCAA--AACCCUCGACACUCGAAGGGAUCAGUCUG-------GAGUCU---AGAUAGCACUUGU
......(((((((((.(((((.((((.((.((...))..........--..((((((.....)).))))...)).)))-------).))).---)).))))))))). ( -28.70)
>DroPse_CAF1 112035 104 + 1
CCCAAUCAAGUGCUACCUGACAUCCGUCGCGCAACGCCCUAAACCGAACAAAUCUCGACACUCUCACGGAUCAUU--GGAGUGG-UCGUCCCAACGAUCGCACUUGU
......(((((((..((....((((((.(((...))).......(((.......)))........))))))....--))...((-((((....))))))))))))). ( -27.90)
>DroEre_CAF1 95141 94 + 1
CCCAAUCAAGUGCUACCUGAUAUCAGACUUGCAACGCCCCAAGCCAA--AACCCUCGACACUCGGAGGGAUCAGUCUG-------CAGUCU---AGAU-GCACUUGU
......(((((((.....(((..((((((......((.....))...--..(((((........)))))...))))))-------..))).---....-))))))). ( -28.50)
>DroYak_CAF1 102366 102 + 1
CCCAAUCAAGUGCUACCUGAUAUCAGACUCGCAACGCCUUAAACCAA--AACCCUCGACACUCGAAGGGAUCAGUCUGCAGUCUGCAGUCU---AGAUAGCACUUGU
......(((((((((.(((((..((((((.((((((........)..--..((((((.....)).))))....)).)))))))))..))).---)).))))))))). ( -33.70)
>DroAna_CAF1 102068 95 + 1
UCCAAUCAAGUGCUACCUGAUAUCAGUCUCGCAACGCCCUAAACCCG--AACUCUCGACACUCUCCGAGAUCAGUCCC-------UAGUCC---GGAUCGCACUUGU
......(((((((...(((....)))..................(((--.(((((((........)))))........-------..)).)---))...))))))). ( -20.00)
>DroPer_CAF1 112743 104 + 1
CCCAAUCAAGUGCUACCUGACAUCCGUCGUGCAACGCCCUAGACCGAACAAAUCUCGACACUCUCACGGAUCAUU--GGAGUGG-UCGUCCCAACGAUCGCACUUGU
......(((((((..((....((((((.(((...(......)..(((.......))).)))....))))))....--))...((-((((....))))))))))))). ( -26.40)
>consensus
CCCAAUCAAGUGCUACCUGAUAUCAGUCUCGCAACGCCCUAAACCAA__AACCCUCGACACUCGCAGGGAUCAGUCUG_______UAGUCC___AGAUCGCACUUGU
......(((((((...(((((.........((...))..............((((..........))))))))).............(((.....))).))))))). (-10.32 = -11.43 +   1.11)

alignment

Postscript

secondary structure

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dotplot

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Window 3

Location 5,474,780 – 5,474,875
Length 95
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 78.90
Mean single sequence MFE -38.63
Consensus MFE -13.64
Energy contribution -14.28
Covariance contribution 0.64
Combinations/Pair 1.16
Mean z-score -2.99
Structure conservation index 0.35
SVM decision value 0.65
SVM RNA-class probability 0.811800
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5474780 95 - 22407834
ACAAGUGCUAUCU---AGACUC-------CAGACUGAUCCCUUCGAGUGUCGAGGGUU--UUGGUUUGGGGCGUUGCGAGACUGAUAUCAGGUAGCACUUGAUUGGG
.((((((((((((---.(.(((-------(((((..(..((((((.....))))))..--)..)))))))))(((....))).......))))))))))))...... ( -44.50)
>DroPse_CAF1 112035 104 - 1
ACAAGUGCGAUCGUUGGGACGA-CCACUCC--AAUGAUCCGUGAGAGUGUCGAGAUUUGUUCGGUUUAGGGCGUUGCGCGACGGAUGUCAGGUAGCACUUGAUUGGG
.(((((((((((((((((....-....)))--)))))))(.(((.(.(((((.(...(((((......)))))...).)))))..).))).)..)))))))...... ( -39.00)
>DroEre_CAF1 95141 94 - 1
ACAAGUGC-AUCU---AGACUG-------CAGACUGAUCCCUCCGAGUGUCGAGGGUU--UUGGCUUGGGGCGUUGCAAGUCUGAUAUCAGGUAGCACUUGAUUGGG
.(((((((-((((---.((...-------(((((((..(.((((((((..((((...)--))))))))))).)...).))))))...)))))).)))))))...... ( -33.00)
>DroYak_CAF1 102366 102 - 1
ACAAGUGCUAUCU---AGACUGCAGACUGCAGACUGAUCCCUUCGAGUGUCGAGGGUU--UUGGUUUAAGGCGUUGCGAGUCUGAUAUCAGGUAGCACUUGAUUGGG
.((((((((((((---.((...((((((((((((..(..((((((.....))))))..--)..)))........))).))))))...))))))))))))))...... ( -45.40)
>DroAna_CAF1 102068 95 - 1
ACAAGUGCGAUCC---GGACUA-------GGGACUGAUCUCGGAGAGUGUCGAGAGUU--CGGGUUUAGGGCGUUGCGAGACUGAUAUCAGGUAGCACUUGAUUGGA
.((((((((((((---(((((.-------..(((...((.....))..)))...))))--))))))...............(((....)))...)))))))...... ( -31.40)
>DroPer_CAF1 112743 104 - 1
ACAAGUGCGAUCGUUGGGACGA-CCACUCC--AAUGAUCCGUGAGAGUGUCGAGAUUUGUUCGGUCUAGGGCGUUGCACGACGGAUGUCAGGUAGCACUUGAUUGGG
.(((((((((((((((((....-....)))--)))))))(.(((.(.(((((.(...(((((......)))))...).)))))..).))).)..)))))))...... ( -38.50)
>consensus
ACAAGUGCGAUCU___AGACUA_______CAGACUGAUCCCUGAGAGUGUCGAGAGUU__UUGGUUUAGGGCGUUGCGAGACUGAUAUCAGGUAGCACUUGAUUGGG
.(((((((.(((......................(((..(......)..))).((.....(((((((...((...)).)))))))..)).))).)))))))...... (-13.64 = -14.28 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:19 2006