Locus 1544

Sequence ID 2R_DroMel_CAF1
Location 5,838,888 – 5,838,979
Length 91
Max. P 0.703390
window2599 window2600

overview

Window 9

Location 5,838,888 – 5,838,979
Length 91
Sequences 6
Columns 91
Reading direction forward
Mean pairwise identity 82.18
Mean single sequence MFE -26.49
Consensus MFE -18.53
Energy contribution -20.20
Covariance contribution 1.67
Combinations/Pair 1.33
Mean z-score -1.85
Structure conservation index 0.70
SVM decision value 0.36
SVM RNA-class probability 0.703390
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5838888 91 + 20766785
UUUGCCCAUCCCCCAUGCGGUUGGCUCUUAUUGAUUUUUAAAUCAAGCGAGCAUUUUUAAUGAGCAAUCAGCGUGCGCAUCUGGGCAGGGU
((((((((....((((((.....((((...((((((....))))))..))))........(((....)))))))).)....)))))))).. ( -29.60)
>DroPse_CAF1 37260 82 + 1
UUU-CCUUUCUUCUCCUCUGCCAACUCGUAUUGGUUUUUAAAUCAAGCAGACAUUUUUAAUGAGCU--------CCAUGUCAAACCGGCGA
...-..............((((.....((.((((((....)))))))).(((((............--------..))))).....)))). ( -11.64)
>DroSec_CAF1 35938 91 + 1
UUUGCCCAUCCCCCAUGCGUUUGGCUCUUAUUGAUUUUCAAAUCGAGCGAGCAUUUUUAAUGAGCAAUCAGCGUGCGCAUCUGGGCAGGGA
....(((..(((..((((((.((((((...((((((....))))))..))))........(((....))).)).))))))..)))..))). ( -30.30)
>DroSim_CAF1 38351 91 + 1
UUUGCCCAUCCCUCAUGCGGCAGGCUCUUAUUGAUUUUCAAAUCGAGCGAGCAUUUUUAAUGAGCAAUCAGCGUGCGCAUCUGGGCAGGGA
....(((..(((..(((((((..((((...((((((....))))))..))))........(((....)))..)).)))))..)))..))). ( -29.70)
>DroEre_CAF1 36316 91 + 1
UUUGCCCAACCCCCAUGCGGUUGGCUCUUAUUGAUUUUCAAAUCGAGCGAGCAUUUUUAAUGAGCAAUCAUCGUGCGCAUCUGGGCAGGGA
....(((..(((..((((((((.((((...(((.....)))...)))).))).......((((....))))....)))))..)))..))). ( -30.20)
>DroYak_CAF1 36801 90 + 1
UUUGCCCAUCCCCCAUGCGGUUGGCUCUUAUUGAUUUUCAAAUCGAGCGAGCAUUUUUAAUGAGCAAUCAGCG-GCGUAUCUGGGCAGGGA
((((((((......((((.((((((((...(((.....)))...))))(..(((.....)))..)...)))).-))))...)))))))).. ( -27.50)
>consensus
UUUGCCCAUCCCCCAUGCGGUUGGCUCUUAUUGAUUUUCAAAUCGAGCGAGCAUUUUUAAUGAGCAAUCAGCGUGCGCAUCUGGGCAGGGA
....(((..(((..(((((....((((...((((((....))))))..))))........(((....))).....)))))..)))..))). (-18.53 = -20.20 +   1.67)

alignment

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secondary structure

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dotplot

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Window 0

Location 5,838,888 – 5,838,979
Length 91
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 82.18
Mean single sequence MFE -25.28
Consensus MFE -16.42
Energy contribution -16.45
Covariance contribution 0.03
Combinations/Pair 1.35
Mean z-score -1.76
Structure conservation index 0.65
SVM decision value 0.10
SVM RNA-class probability 0.583814
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5838888 91 - 20766785
ACCCUGCCCAGAUGCGCACGCUGAUUGCUCAUUAAAAAUGCUCGCUUGAUUUAAAAAUCAAUAAGAGCCAACCGCAUGGGGGAUGGGCAAA
.(((..(((..(((((...((.....))...........((((..((((((....))))))...))))....)))))..)))..))).... ( -27.60)
>DroPse_CAF1 37260 82 - 1
UCGCCGGUUUGACAUGG--------AGCUCAUUAAAAAUGUCUGCUUGAUUUAAAAACCAAUACGAGUUGGCAGAGGAGAAGAAAGG-AAA
..((((((((...((.(--------(((.(((.....)))...)))).))....)))))(((....))))))...............-... ( -14.70)
>DroSec_CAF1 35938 91 - 1
UCCCUGCCCAGAUGCGCACGCUGAUUGCUCAUUAAAAAUGCUCGCUCGAUUUGAAAAUCAAUAAGAGCCAAACGCAUGGGGGAUGGGCAAA
.(((..(((..(((((...((.....))...............((((...(((.....)))...))))....)))))..)))..))).... ( -26.10)
>DroSim_CAF1 38351 91 - 1
UCCCUGCCCAGAUGCGCACGCUGAUUGCUCAUUAAAAAUGCUCGCUCGAUUUGAAAAUCAAUAAGAGCCUGCCGCAUGAGGGAUGGGCAAA
.(((..(((..(((((...((.....))...........((..((((...(((.....)))...))))..)))))))..)))..))).... ( -27.40)
>DroEre_CAF1 36316 91 - 1
UCCCUGCCCAGAUGCGCACGAUGAUUGCUCAUUAAAAAUGCUCGCUCGAUUUGAAAAUCAAUAAGAGCCAACCGCAUGGGGGUUGGGCAAA
.(((.((((..(((((...(((((....)))))..........((((...(((.....)))...))))....)))))..)))).))).... ( -29.50)
>DroYak_CAF1 36801 90 - 1
UCCCUGCCCAGAUACGC-CGCUGAUUGCUCAUUAAAAAUGCUCGCUCGAUUUGAAAAUCAAUAAGAGCCAACCGCAUGGGGGAUGGGCAAA
....((((((....(.(-(((.....)).........((((..((((...(((.....)))...)))).....)))))).)..)))))).. ( -26.40)
>consensus
UCCCUGCCCAGAUGCGCACGCUGAUUGCUCAUUAAAAAUGCUCGCUCGAUUUGAAAAUCAAUAAGAGCCAACCGCAUGGGGGAUGGGCAAA
.(((..(((..(((((..........((...........))..((((...(((.....)))...))))....)))))..)))..))).... (-16.42 = -16.45 +   0.03)

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 10:07:13 2006