Locus 157

Sequence ID	4_DroMel_CAF1
Location	1,008,695 – 1,008,894
Length	199
Max. P	0.999925

overview

Window 0

Location	1,008,695 – 1,008,815
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.00
Mean single sequence MFE	-36.72
Consensus MFE	-34.38
Energy contribution	-34.42
Covariance contribution	0.04
Combinations/Pair	1.08
Mean z-score	-3.21
Structure conservation index	0.94
SVM decision value	4.59
SVM RNA-class probability	0.999925
Prediction	RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1008695 120 - 1281640
CUUCAAAGGGGCAUAUUCUUGAAUCGCCUUUUUGUCAUUCCUAUUGCGUGUGCCAAAAAUUUCAUGGCGCAUUGUAAAGGUGACGAAUCUGAUUUUCCUGGAAUGUGUGAAAAUACCUUA
.....((((.(((((((((.((((((....(((((((..(((.((((((((((((.........))))))).)))))))))))))))..))))))....))))))))).......)))). ( -37.10)
>DroSec_CAF1 48355 120 - 1
CUUCAAAGGGGCAUAUUCUUGAAUCGCCUUUUUGUCAUUCCUAUUGCGUGUGCCAAAAAUUUCAUGGCGCAUUGUAAAGGUGACGAAUCUGAUUUUCCUGGAAUGUGUGAAAAUACCAUA
..........(((((((((.((((((....(((((((..(((.((((((((((((.........))))))).)))))))))))))))..))))))....)))))))))............ ( -35.80)
>DroSim_CAF1 33917 120 - 1
CUUCAAAGGGGCAUAUUCUUGAAUCGCCUUUUUGUCAUUCCUAUUGCGUGUGCCAAAAAUUUCAUGGCGCAUUGUAAAGGUGACGAAUCUGAUUUUCCUGGAAUGUGUGAAAAUACCAUA
..........(((((((((.((((((....(((((((..(((.((((((((((((.........))))))).)))))))))))))))..))))))....)))))))))............ ( -35.80)
>DroEre_CAF1 50609 120 - 1
CUUCAAAGGGAAACAUUCUUGAAUCGCCUUUUUGUCAUUCCUAUUGCGUGUGCCAAAAACUUCAUGGCGCAUUGUAAAGGUGACGAAUCUGAUUUUCCUGGAAUGUGUGAAAAUACCUUA
.....((((...(((((((.((((((....(((((((..(((.((((((((((((.........))))))).)))))))))))))))..))))))....)))))))((....)).)))). ( -36.10)
>DroYak_CAF1 48992 120 - 1
CUUCAAAGGGGAACAUUCUUGAAUCGCCUUUUUGUCAUUCCUAUUGCGUGUGCCAAAAACUUCAUGGCGCAUUGUAGAGGUGACGAAUCAGAUUUUCCUGGAAUGUGUGAAAAUACCUUA
.....((((...(((((((.(((((.....((((((((..((((...((((((((.........)))))))).))))..))))))))...)))))....)))))))((....)).)))). ( -38.80)
>consensus
CUUCAAAGGGGCAUAUUCUUGAAUCGCCUUUUUGUCAUUCCUAUUGCGUGUGCCAAAAAUUUCAUGGCGCAUUGUAAAGGUGACGAAUCUGAUUUUCCUGGAAUGUGUGAAAAUACCUUA
..........(((((((((.((((((....(((((((..(((.((((((((((((.........))))))).)))))))))))))))..))))))....)))))))))............ (-34.38 = -34.42 +   0.04)

alignment

secondary structure

dotplot

Window 1

Location	1,008,735 – 1,008,855
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.33
Mean single sequence MFE	-34.15
Consensus MFE	-30.48
Energy contribution	-30.92
Covariance contribution	0.44
Combinations/Pair	1.03
Mean z-score	-1.48
Structure conservation index	0.89
SVM decision value	0.90
SVM RNA-class probability	0.876917
Prediction	RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1008735 120 - 1281640
UUUCCAUUAUUGUAGUGCCGGCAUCCAGUGUGCUGGGCUUCUUCAAAGGGGCAUAUUCUUGAAUCGCCUUUUUGUCAUUCCUAUUGCGUGUGCCAAAAAUUUCAUGGCGCAUUGUAAAGG
...........(.(((.(((((((.....)))))))))).)..(((((((((.............))))))))).....(((.((((((((((((.........))))))).)))))))) ( -34.42)
>DroSec_CAF1 48395 120 - 1
UUCCCAUUAUUUUAGUGCCGGCAUCCAGUGUGCUGGGCUUCUUCAAAGGGGCAUAUUCUUGAAUCGCCUUUUUGUCAUUCCUAUUGCGUGUGCCAAAAAUUUCAUGGCGCAUUGUAAAGG
.............(((.(((((((.....))))))))))....(((((((((.............))))))))).....(((.((((((((((((.........))))))).)))))))) ( -34.12)
>DroSim_CAF1 33957 120 - 1
UUCCCAUUAUUUUAGUGCCGGCAUCCAGUGUGCUGGGCUUCUUCAAAGGGGCAUAUUCUUGAAUCGCCUUUUUGUCAUUCCUAUUGCGUGUGCCAAAAAUUUCAUGGCGCAUUGUAAAGG
.............(((.(((((((.....))))))))))....(((((((((.............))))))))).....(((.((((((((((((.........))))))).)))))))) ( -34.12)
>DroEre_CAF1 50649 120 - 1
UUCCCAUUAUUUUAGUGCCGGCAUCCAGUGUGCUGGGGUUCUUCAAAGGGAAACAUUCUUGAAUCGCCUUUUUGUCAUUCCUAUUGCGUGUGCCAAAAACUUCAUGGCGCAUUGUAAAGG
...((.((((..(.((((((((..((((....))))(((((.......(....)......))))))))((((((.(((.((....).).))).))))))......))))))..)))).)) ( -32.32)
>DroYak_CAF1 49032 120 - 1
UUCCCAUUAUUUUAGUGCCGGCAUCCAGUGUGCUGGGGCUCUUCAAAGGGGAACAUUCUUGAAUCGCCUUUUUGUCAUUCCUAUUGCGUGUGCCAAAAACUUCAUGGCGCAUUGUAGAGG
(((((........(((.(((((((.....))))))).)))........)))))..........................(((.((((((((((((.........))))))).)))))))) ( -35.79)
>consensus
UUCCCAUUAUUUUAGUGCCGGCAUCCAGUGUGCUGGGCUUCUUCAAAGGGGCAUAUUCUUGAAUCGCCUUUUUGUCAUUCCUAUUGCGUGUGCCAAAAAUUUCAUGGCGCAUUGUAAAGG
.................(((((((.....))))))).......(((((((((.............))))))))).....(((.((((((((((((.........))))))).)))))))) (-30.48 = -30.92 +   0.44)

alignment

secondary structure

dotplot

Window 2

Location	1,008,775 – 1,008,894
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.65
Mean single sequence MFE	-25.36
Consensus MFE	-21.10
Energy contribution	-21.14
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-1.51
Structure conservation index	0.83
SVM decision value	0.47
SVM RNA-class probability	0.748535
Prediction	RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1008775 119 - 1281640
UCACACGCAUCAACGAAUCUAUUUCCCCUUCCAC-CACAAUUUCCAUUAUUGUAGUGCCGGCAUCCAGUGUGCUGGGCUUCUUCAAAGGGGCAUAUUCUUGAAUCGCCUUUUUGUCAUUC
......((.((((.((((......((((((.(((-.(((((.......))))).)))(((((((.....))))))).........))))))...))))))))...))............. ( -27.50)
>DroSec_CAF1 48435 119 - 1
UCACACGCAUCAACGAAUCUAUUUCCCCUUCCAC-CACAUUUCCCAUUAUUUUAGUGCCGGCAUCCAGUGUGCUGGGCUUCUUCAAAGGGGCAUAUUCUUGAAUCGCCUUUUUGUCAUUC
......((.((((.((((......((((((....-.........(((((...)))))(((((((.....))))))).........))))))...))))))))...))............. ( -22.30)
>DroSim_CAF1 33997 119 - 1
UCACACGCAUCAACGAAUCUAUUUCCCCUUCCAC-CACAUUUCCCAUUAUUUUAGUGCCGGCAUCCAGUGUGCUGGGCUUCUUCAAAGGGGCAUAUUCUUGAAUCGCCUUUUUGUCAUUC
......((.((((.((((......((((((....-.........(((((...)))))(((((((.....))))))).........))))))...))))))))...))............. ( -22.30)
>DroEre_CAF1 50689 120 - 1
UCACACGCAUCAACGAAUCUAUUUCCCUUUCCCCUCGCAUUUCCCAUUAUUUUAGUGCCGGCAUCCAGUGUGCUGGGGUUCUUCAAAGGGAAACAUUCUUGAAUCGCCUUUUUGUCAUUC
......((.((((.((((...(((((((((((((..(((((............))))).(((((.....)))))))))......))))))))).))))))))...))............. ( -28.00)
>DroYak_CAF1 49072 120 - 1
UCACACGCAUCAACGAAUCUAUUCCCCCUUCCCCUCGCAUUUCCCAUUAUUUUAGUGCCGGCAUCCAGUGUGCUGGGGCUCUUCAAAGGGGAACAUUCUUGAAUCGCCUUUUUGUCAUUC
......((.((((.((((...((((((.........(((((............))))).(((.(((((....)))))))).......)))))).))))))))...))............. ( -26.70)
>consensus
UCACACGCAUCAACGAAUCUAUUUCCCCUUCCAC_CACAUUUCCCAUUAUUUUAGUGCCGGCAUCCAGUGUGCUGGGCUUCUUCAAAGGGGCAUAUUCUUGAAUCGCCUUUUUGUCAUUC
......((.((((.((((......((((((..............(((((...)))))(((((((.....))))))).........))))))...))))))))...))............. (-21.10 = -21.14 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:32 2006