Locus 6792

Sequence ID 2L_DroMel_CAF1
Location 18,998,522 – 18,998,670
Length 148
Max. P 0.951810
window10839 window10840

overview

Window 9

Location 18,998,522 – 18,998,630
Length 108
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 84.05
Mean single sequence MFE -16.77
Consensus MFE -11.63
Energy contribution -11.63
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.08
Structure conservation index 0.69
SVM decision value 0.34
SVM RNA-class probability 0.696391
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18998522 108 - 22407834
CCUCAUUAAGUCUACAAGUACUACUCUUGUCCUUAUCGCGCCUGUCAGCUGUGAUAACACGUAC----UCAUGUACA--------CAUCUAAUAAAUAUAAUUUCUAUAACGUAUUCCAA
.........((.(((((((((.((....))..(((((((((......)).)))))))...))))----)..)))).)--------).................................. ( -14.60)
>DroSim_CAF1 14595 111 - 1
CCUCAUU-AGUCUACAAGUACUUCUCUUGUACUUAUCGCGCCUGUCAGCUGUGAUAACACGUACUCACUCAUGUACA--------CAUCUAAUCAAUAUCAUUUCUAUAACAUAUUCUAA
....(((-((..((((((.......)))))).(((((((((......)).)))))))...((((........)))).--------...)))))........................... ( -16.70)
>DroYak_CAF1 15068 119 - 1
CCUCAUU-AGUCUACAAGUACUUCACUUGAACUUAUCGCGCCUGUCAGAUGUGAUAACACGUACUUAUGUAUGUACAUAUACAUAUAUCUAAUCAAUACAAUUUCUCUAACAUAUUCUAA
....(((-((.....(((((((((....))).((((((((.(.....).))))))))...))))))(((((((((....))))))))))))))........................... ( -19.00)
>consensus
CCUCAUU_AGUCUACAAGUACUUCUCUUGUACUUAUCGCGCCUGUCAGCUGUGAUAACACGUACU_A_UCAUGUACA________CAUCUAAUCAAUAUAAUUUCUAUAACAUAUUCUAA
..............((((.......))))...((((((((.(.....).))))))))...((((........))))............................................ (-11.63 = -11.63 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 18,998,557 – 18,998,670
Length 113
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 84.83
Mean single sequence MFE -25.78
Consensus MFE -21.02
Energy contribution -20.80
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.69
Structure conservation index 0.82
SVM decision value 1.42
SVM RNA-class probability 0.951810
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18998557 113 - 22407834
CCAUAGAUAUCUUAUUCAUCAUAUCACUAAAUGAGGAAAACCUCAUUAAGUCUACAAGUACUACUCUUGUCCUUAUCGCGCCUGUCAGCUGUGAUAACACGUAC----UCAUGUACA---
.....(((((..........)))))(((.(((((((....))))))).)))..(((((.......)))))..(((((((((......)).)))))))...((((----....)))).--- ( -25.40)
>DroSim_CAF1 14630 116 - 1
CCGUAGAUAACUUUUUCAUCAUAUCACUCAAUGAGGAAAACCUCAUU-AGUCUACAAGUACUUCUCUUGUACUUAUCGCGCCUGUCAGCUGUGAUAACACGUACUCACUCAUGUACA---
..((((((.....................(((((((....)))))))-.))))))((((((.......))))))(((((((......)).))))).....((((........)))).--- ( -25.85)
>DroYak_CAF1 15108 118 - 1
CGGUAGACAACUUUUUCAUCGUAUUAUUAAAUGAGGA-AGCCUCAUU-AGUCUACAAGUACUUCACUUGAACUUAUCGCGCCUGUCAGAUGUGAUAACACGUACUUAUGUAUGUACAUAU
..((((((.((.........)).......(((((((.-..)))))))-.))))))(((((((((....))).((((((((.(.....).))))))))...))))))((((....)))).. ( -26.10)
>consensus
CCGUAGAUAACUUUUUCAUCAUAUCACUAAAUGAGGAAAACCUCAUU_AGUCUACAAGUACUUCUCUUGUACUUAUCGCGCCUGUCAGCUGUGAUAACACGUACU_A_UCAUGUACA___
.........................(((.(((((((....))))))).)))...((((.......))))...((((((((.(.....).))))))))...((((........)))).... (-21.02 = -20.80 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:01 2006