Locus 3536

Sequence ID 2L_DroMel_CAF1
Location 10,320,711 – 10,320,861
Length 150
Max. P 0.717889
window5581 window5582

overview

Window 1

Location 10,320,711 – 10,320,823
Length 112
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 85.14
Mean single sequence MFE -22.97
Consensus MFE -14.81
Energy contribution -14.70
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -2.32
Structure conservation index 0.64
SVM decision value 0.17
SVM RNA-class probability 0.617621
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10320711 112 + 22407834
GUAUGUAUAUAUUUUGAAAUGUGCUUUUGUUUAUACGAAAGUUUUUUGAGGAUACAUGAAUAUGUACAUACACAUAUGAUGAGUACACUUAUAGCACGUAUCUGUGAAUAUA
((((((((((((((....(((((((((.......((....)).....)))).))))))))))))))))))).((((.((((.((.(.......).)).))))))))...... ( -27.10)
>DroSec_CAF1 1606 99 + 1
-----UAUCGAUUUUAAAAUGUGCUUUUGUUUAUACGAAAGUGUUUCGAGGAUACAUACAUAUGUA--------UAUAAUGAGUAUACUUAUAACACGUAUCUGUGAAUAUA
-----...............(..(((((((....)))))))..)((((.((((((((((....)))--------)...(((((....))))).....)))))).)))).... ( -20.70)
>DroSim_CAF1 1602 99 + 1
-----UAUCGAUUUUAAAAUGUGCUUUUGUUUAUACGAAAGUGUUUCGAGGAUACAUACAUAUGUA--------UAUAAUGAGUAUACUUAUAACACGUAUAUGUGAAUAUA
-----.............(((((..((((...((((....))))..))))..))))).((((((((--------(...(((((....))))).....)))))))))...... ( -21.10)
>consensus
_____UAUCGAUUUUAAAAUGUGCUUUUGUUUAUACGAAAGUGUUUCGAGGAUACAUACAUAUGUA________UAUAAUGAGUAUACUUAUAACACGUAUCUGUGAAUAUA
......................((((((((....))))))))..((((.((((((.......((((........))))(((((....))))).....)))))).)))).... (-14.81 = -14.70 +  -0.11)

alignment

Postscript

secondary structure

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dotplot

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Window 2

Location 10,320,750 – 10,320,861
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 80.24
Mean single sequence MFE -18.08
Consensus MFE -7.93
Energy contribution -8.29
Covariance contribution 0.36
Combinations/Pair 1.17
Mean z-score -2.22
Structure conservation index 0.44
SVM decision value 0.39
SVM RNA-class probability 0.717889
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10320750 111 - 22407834
UUAAAAUGAUAUUUUCCAAAC--AAAAACCCGUGAAUUCGUAUAUUCACAGAUACGUGCUAUAAGUGUACUCAUCAUAUGUGUAUGUACA-------UAUUCAUGUAUCCUCAAAAAACU
......(((............--........((((((......)))))).((((((((......((((((.(((.....)))...)))))-------)...)))))))).)))....... ( -20.90)
>DroSec_CAF1 1640 105 - 1
UUAAAAUGAUAUUUUCCAAAAAAAAAAACUCGUGAAUUCGUAUAUUCACAGAUACGUGUUAUAAGUAUACUCAUUAUA--------UACA-------UAUGUAUGUAUCCUCGAAACACU
............((((...............((((((......)))))).(((((((((.(((.(((((.......))--------))).-------))))))))))))...)))).... ( -16.10)
>DroSim_CAF1 1636 103 - 1
UUAAAAUAAUAUUUUCCAAAC--AAAAACUCGUGAAUUCGUAUAUUCACAUAUACGUGUUAUAAGUAUACUCAUUAUA--------UACA-------UAUGUAUGUAUCCUCGAAACACU
............((((.....--....(((..(((...(((((((....)))))))..)))..)))........((((--------(((.-------...))))))).....)))).... ( -15.60)
>DroEre_CAF1 1630 99 - 1
UUUGAAUGAAAUUUUCUAAAC--CAAAACUCGUGAAUUCGUAUGUUCACAGAUACAUGUUAUAAGUAUACUCAUCUUA--------UU-----------UAUAUGUAUCUUCGAAACACU
((((((...............--........((((((......)))))).(((((((((.(((((.........))))--------).-----------.)))))))))))))))..... ( -21.00)
>DroYak_CAF1 1638 110 - 1
UUAAAAUGAUAUUUUCUAAGC--GAAAACUAGGAAAUUCGCAUGUUCACAGAUACAUGUCAUAAGUAUACUCAAUAUA--------UAUAUUUAUUUUAUGUAUGUAACCUCGAAACACU
............((((...((--(((..........)))))........(.(((((((..(((((((((.........--------)))))))))..))))))).)......)))).... ( -16.80)
>consensus
UUAAAAUGAUAUUUUCCAAAC__AAAAACUCGUGAAUUCGUAUAUUCACAGAUACGUGUUAUAAGUAUACUCAUUAUA________UACA_______UAUGUAUGUAUCCUCGAAACACU
............((((...............((((((......)))))).((((((((...........................................))))))))...)))).... ( -7.93 =  -8.29 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:51 2006