Locus 7214

Sequence ID	3R_DroMel_CAF1
Location	18,979,541 – 18,979,664
Length	123
Max. P	0.928180

overview

Window 4

Location	18,979,541 – 18,979,657
Length	116
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	83.61
Mean single sequence MFE	-26.54
Consensus MFE	-21.64
Energy contribution	-21.50
Covariance contribution	-0.14
Combinations/Pair	1.06
Mean z-score	-2.07
Structure conservation index	0.82
SVM decision value	0.67
SVM RNA-class probability	0.817083
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18979541 116 + 27905053
AUGCUGUUCGCGGUCUUGAUCCCCAUGAUCCAUUCAUAUCCCAUCGGAAUCCCCUUU----CCCAUCCCUAUCCGAUUUUCAGCCAAAGGGCCACUUGUGGUCCUGUUGCUGAUAAAACA
..((((....))))...((((.....))))............((((((.........----..........))))))..(((((...(((((((....)))))))...)))))....... ( -28.31)
>DroSec_CAF1 90523 116 + 1
AUGCUGUUCGCGGUCUUGAUCCCCAUGAUCCAUUCAUAUCCCAUCGGAAUCCCCUUU----CCCUUUCCUAUCCGAUUUUCAGCCAAAGGGCCACUUGUGGUCCUGUUGCUGAUAAAACA
..((((....))))...((((.....))))............((((((.........----..........))))))..(((((...(((((((....)))))))...)))))....... ( -28.31)
>DroSim_CAF1 92335 116 + 1
AUGCUGUUCGCGGUCUUGAUCCCCAUGAUCCAUUCAUAUCCCAUCGGAAUCCCCUUU----CCCUUUCCUAUCCGAUUUUCAGCCAAAGGGCCACUUGUGGUCCUGUUGCUGAUAAAACA
..((((....))))...((((.....))))............((((((.........----..........))))))..(((((...(((((((....)))))))...)))))....... ( -28.31)
>DroEre_CAF1 91116 92 + 1
AUGCUGUUCGCGGUCUUGAUCCCCAUGAUCC------------------UCCUC----------UUUCCUAUCCGAUUUUCAGCCAAAGGGCCACUUGUGGUCCUGUUGCUGAUAAAACA
..((.....))((....((((.....)))).------------------.))..----------...............(((((...(((((((....)))))))...)))))....... ( -23.90)
>DroYak_CAF1 93721 110 + 1
AUGCUGUUCGCGGUCUUGAUCCCCAUGAUCCAUUCAUAUCCUAUCGGAAUCCCC----------UUUCCUAUCCGAUUUUCAGCCAAAGGGCCACUUGUGGUCCUGUUGCUGAUAAAACA
..((((....))))...((((.....))))............((((((......----------.......))))))..(((((...(((((((....)))))))...)))))....... ( -28.62)
>DroAna_CAF1 93440 103 + 1
AUGCUGUUCGCGGUCUUGAUCCC-----------------CCAUCAAAAUCCCCAUAAACCACCUCUACCAUCCGAUUUUCAGCCAAAGGGCCAUUUGUGGUCCUGUUGCUGGUAAAACA
..((.....))(((.(((((...-----------------..))))).)))............................(((((...(((((((....)))))))...)))))....... ( -21.80)
>consensus
AUGCUGUUCGCGGUCUUGAUCCCCAUGAUCCAUUCAUAUCCCAUCGGAAUCCCCUUU____CCCUUUCCUAUCCGAUUUUCAGCCAAAGGGCCACUUGUGGUCCUGUUGCUGAUAAAACA
..((((....)))).................................................................(((((...(((((((....)))))))...)))))....... (-21.64 = -21.50 +  -0.14)

alignment

secondary structure

dotplot

Window 5

Location	18,979,548 – 18,979,664
Length	116
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.57
Mean single sequence MFE	-26.03
Consensus MFE	-20.73
Energy contribution	-21.88
Covariance contribution	1.15
Combinations/Pair	1.05
Mean z-score	-2.50
Structure conservation index	0.80
SVM decision value	1.19
SVM RNA-class probability	0.928180
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18979548 116 + 27905053
UCGCGGUCUUGAUCCCCAUGAUCCAUUCAUAUCCCAUCGGAAUCCCCUUU----CCCAUCCCUAUCCGAUUUUCAGCCAAAGGGCCACUUGUGGUCCUGUUGCUGAUAAAACAUGUUCUA
...(((....(((....((((.....))))........((((......))----)).))).....)))....(((((...(((((((....)))))))...))))).............. ( -28.00)
>DroSec_CAF1 90530 111 + 1
UCGCGGUCUUGAUCCCCAUGAUCCAUUCAUAUCCCAUCGGAAUCCCCUUU----CCCUUUCCUAUCCGAUUUUCAGCCAAAGGGCCACUUGUGGUCCUGUUGCUGAUAAAACAUG-----
...(((....((.....((((.....))))........((((......))----))...))....)))....(((((...(((((((....)))))))...))))).........----- ( -27.90)
>DroSim_CAF1 92342 113 + 1
UCGCGGUCUUGAUCCCCAUGAUCCAUUCAUAUCCCAUCGGAAUCCCCUUU----CCCUUUCCUAUCCGAUUUUCAGCCAAAGGGCCACUUGUGGUCCUGUUGCUGAUAAAACAUGUU---
...(((....((.....((((.....))))........((((......))----))...))....)))....(((((...(((((((....)))))))...)))))...........--- ( -27.90)
>DroEre_CAF1 91123 89 + 1
UCGCGGUCUUGAUCCCCAUGAUCC------------------UCCUC----------UUUCCUAUCCGAUUUUCAGCCAAAGGGCCACUUGUGGUCCUGUUGCUGAUAAAACAUGUU---
....((....((((.....)))).------------------.))..----------...............(((((...(((((((....)))))))...)))))...........--- ( -23.00)
>DroYak_CAF1 93728 107 + 1
UCGCGGUCUUGAUCCCCAUGAUCCAUUCAUAUCCUAUCGGAAUCCCC----------UUUCCUAUCCGAUUUUCAGCCAAAGGGCCACUUGUGGUCCUGUUGCUGAUAAAACAUGUU---
...(((....(((....((((.....)))).....)))((((.....----------.))))...)))....(((((...(((((((....)))))))...)))))...........--- ( -28.30)
>DroAna_CAF1 93447 100 + 1
UCGCGGUCUUGAUCCC-----------------CCAUCAAAAUCCCCAUAAACCACCUCUACCAUCCGAUUUUCAGCCAAAGGGCCAUUUGUGGUCCUGUUGCUGGUAAAACAUAUU---
..(.((..(((((...-----------------..)))))...)).).........................(((((...(((((((....)))))))...)))))...........--- ( -21.10)
>consensus
UCGCGGUCUUGAUCCCCAUGAUCCAUUCAUAUCCCAUCGGAAUCCCCUUU____CCCUUUCCUAUCCGAUUUUCAGCCAAAGGGCCACUUGUGGUCCUGUUGCUGAUAAAACAUGUU___
...(((....((((.....))))........(((....)))........................)))....(((((...(((((((....)))))))...))))).............. (-20.73 = -21.88 +   1.15)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:21 2006