Locus 8090

Sequence ID 3R_DroMel_CAF1
Location 21,731,095 – 21,731,186
Length 91
Max. P 0.917897
window13021 window13022

overview

Window 1

Location 21,731,095 – 21,731,186
Length 91
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 82.58
Mean single sequence MFE -23.16
Consensus MFE -15.34
Energy contribution -15.22
Covariance contribution -0.12
Combinations/Pair 1.48
Mean z-score -1.68
Structure conservation index 0.66
SVM decision value 0.04
SVM RNA-class probability 0.555292
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21731095 91 + 27905053
UCUUUUUUUCCAGCGCCACAGUUACAGUGGCCUGGUU-UUAUAUUGCGGCUGACACUGGCCACUAUCUAUGAGUUAGUUUGGCUCCUAAAUU
.........((((.(((((.......)))))))))..-.......(.(((..(.((((((((.......)).)))))))..))).)...... ( -24.60)
>DroSec_CAF1 12151 87 + 1
----UUUUCCCAGCGUCAUAGUUACAGUGGCCUGGUU-UUAUAUUGCGGCUGACACUGGCCACUAUCUAUUAGUUAGUUUGGCUAGUAAAUU
----.....((((.(((((.......)))))))))..-................((((((((....(((.....)))..))))))))..... ( -22.60)
>DroSim_CAF1 12133 87 + 1
----UUUUCCCAGCGUCAUAGUUACAGUGGCCUGGUU-UUAUAUUGCGGCUGACACUGGCCACUAUCUAUGAGUUAGUUUGGCUAGUAAAUU
----.....((((.(((((.......)))))))))..-.....(((((((..(.((((((((.......)).)))))))..))).))))... ( -22.80)
>DroYak_CAF1 11988 88 + 1
----UUUUCCAAGCGCCAUAGUUACAGUGGCCUGGUUUUUAUAUUGUGGCUGCCAGUGGCCACUAUCUAUGAGUUAGUUUGGCUCCUAAAUU
----....(((((((((((((....(((((((((((..((((...))))..))))..)))))))..))))).))..)))))).......... ( -28.30)
>DroAna_CAF1 12392 87 + 1
----UUUUUGUAGCGCCAUAUUUACACUUGCCGGUUU-CUAAAUUGCGGUUACUACUGGGCGCUAUCAGUGGGUUAGUUGGGAUCAUUUAUU
----...((((((((((..............(((((.-...)))))((((....))))))))))).)))..((((......))))....... ( -17.50)
>consensus
____UUUUCCCAGCGCCAUAGUUACAGUGGCCUGGUU_UUAUAUUGCGGCUGACACUGGCCACUAUCUAUGAGUUAGUUUGGCUCCUAAAUU
.........((((.(((((.......)))))))))............((((......))))......((((((((.....)))))))).... (-15.34 = -15.22 +  -0.12)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 2

Location 21,731,095 – 21,731,186
Length 91
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 82.58
Mean single sequence MFE -21.68
Consensus MFE -13.31
Energy contribution -14.67
Covariance contribution 1.36
Combinations/Pair 1.21
Mean z-score -2.51
Structure conservation index 0.61
SVM decision value 1.12
SVM RNA-class probability 0.917897
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21731095 91 - 27905053
AAUUUAGGAGCCAAACUAACUCAUAGAUAGUGGCCAGUGUCAGCCGCAAUAUAA-AACCAGGCCACUGUAACUGUGGCGCUGGAAAAAAAGA
.(((((.(((.........))).))))).(((((........))))).......-..(((((((((.......))))).))))......... ( -26.50)
>DroSec_CAF1 12151 87 - 1
AAUUUACUAGCCAAACUAACUAAUAGAUAGUGGCCAGUGUCAGCCGCAAUAUAA-AACCAGGCCACUGUAACUAUGACGCUGGGAAAA----
......(((((....(((.....)))(((((((((.((................-.))..))))))))).........))))).....---- ( -20.43)
>DroSim_CAF1 12133 87 - 1
AAUUUACUAGCCAAACUAACUCAUAGAUAGUGGCCAGUGUCAGCCGCAAUAUAA-AACCAGGCCACUGUAACUAUGACGCUGGGAAAA----
......(((((.........(((((((((((((((.((................-.))..)))))))))..)))))).))))).....---- ( -23.13)
>DroYak_CAF1 11988 88 - 1
AAUUUAGGAGCCAAACUAACUCAUAGAUAGUGGCCACUGGCAGCCACAAUAUAAAAACCAGGCCACUGUAACUAUGGCGCUUGGAAAA----
..((((((.((((..(((.....)))(((((((((..(((.................)))))))))))).....)))).))))))...---- ( -26.23)
>DroAna_CAF1 12392 87 - 1
AAUAAAUGAUCCCAACUAACCCACUGAUAGCGCCCAGUAGUAACCGCAAUUUAG-AAACCGGCAAGUGUAAAUAUGGCGCUACAAAAA----
........................((.(((((((........((.((.......-......))..))........)))))))))....---- ( -12.11)
>consensus
AAUUUACGAGCCAAACUAACUCAUAGAUAGUGGCCAGUGUCAGCCGCAAUAUAA_AACCAGGCCACUGUAACUAUGGCGCUGGGAAAA____
...............(((.((((((((((((((((.........................)))))))))..)))))).).)))......... (-13.31 = -14.67 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:21 2006