Locus 7014

Sequence ID	X_DroMel_CAF1
Location	17,569,717 – 17,569,820
Length	103
Max. P	0.813949

overview

Window 1

Location	17,569,717 – 17,569,820
Length	103
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	86.58
Mean single sequence MFE	-27.23
Consensus MFE	-18.32
Energy contribution	-19.76
Covariance contribution	1.44
Combinations/Pair	1.11
Mean z-score	-1.93
Structure conservation index	0.67
SVM decision value	0.11
SVM RNA-class probability	0.590309
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17569717 103 + 22224390
AAAGUGUCAACGGCACAAUCAUAAUCACAAUAAUAAUGCCUUCGUCUGGGAACCCAAGGGGCCUGGGGCUCUUUAUAAAGACCAGAGAUCCCAGACACAUACG
...((((....((((.....................))))...((((((((.((....))..((((...((((....))))))))...))))))))..)))). ( -28.40)
>DroSec_CAF1 974 103 + 1
AAAGUGUCAACGGCACAAUCAUAAUCACAAUAAUAAUGCCUUCGUCUGGGAACCCAAGGGGCCUGGGGCUCUUUUUAAAGACCAGAGAUGCCAGACACAUACG
...(((((...((((.....................)))).((.(((((......((((((((...)))))))).......))))))).....)))))..... ( -27.42)
>DroSim_CAF1 4283 98 + 1
AAAGUGUCAACGGCACAAUCAUAAUCACAAUAAUAAUGCCUUCGUCUGGGAACCCAAGGGGCCUGGGGCUCUUUUUAAAGACCAGAGAUGCCAGACAC-----
...(((((...((((.....................)))).((.(((((......((((((((...)))))))).......))))))).....)))))----- ( -25.72)
>DroEre_CAF1 890 101 + 1
AAAGUGUCAACGGAACAGUCAUAAUCACAAUAAUAACGCCUUGGUCUGGGAACCCAAGGGGC-UGGGGCUC-UUUUAAAGACCGGAGAUCCCAGAGACAGACA
....((((............................(.((((((...(....))))))).)(-((((((((-(..........)))).)))))).)))).... ( -26.40)
>DroYak_CAF1 8734 93 + 1
AAAGUGUCAACGGCACACUCAUAAUCACCAUAAUAACGCCUUGCUCUGGGAACCCAGGGGGU----------UUCUAAAGACCAGAGAUCCCAGAGACACAGA
...(((((...(((.......................))).....((((....))))(((((----------((((.......)))))))))...)))))... ( -28.20)
>consensus
AAAGUGUCAACGGCACAAUCAUAAUCACAAUAAUAAUGCCUUCGUCUGGGAACCCAAGGGGCCUGGGGCUCUUUUUAAAGACCAGAGAUCCCAGACACAUACA
...((((.....))))...........................((((((((.((....))..((((...............))))...))))))))....... (-18.32 = -19.76 +   1.44)

alignment

secondary structure

dotplot

Window 2

Location	17,569,717 – 17,569,820
Length	103
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	86.58
Mean single sequence MFE	-31.78
Consensus MFE	-22.82
Energy contribution	-23.98
Covariance contribution	1.16
Combinations/Pair	1.12
Mean z-score	-2.11
Structure conservation index	0.72
SVM decision value	0.66
SVM RNA-class probability	0.813949
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17569717 103 - 22224390
CGUAUGUGUCUGGGAUCUCUGGUCUUUAUAAAGAGCCCCAGGCCCCUUGGGUUCCCAGACGAAGGCAUUAUUAUUGUGAUUAUGAUUGUGCCGUUGACACUUU
....(((((((((((...((((.((((....))))..))))((((...))))))))))))...(((((.(((((.......))))).)))))....))).... ( -34.60)
>DroSec_CAF1 974 103 - 1
CGUAUGUGUCUGGCAUCUCUGGUCUUUAAAAAGAGCCCCAGGCCCCUUGGGUUCCCAGACGAAGGCAUUAUUAUUGUGAUUAUGAUUGUGCCGUUGACACUUU
.....(((((.(((.(((((((..........((((((.((....)).))))))))))).)).(((((.(((((.......))))).)))))))))))))... ( -34.60)
>DroSim_CAF1 4283 98 - 1
-----GUGUCUGGCAUCUCUGGUCUUUAAAAAGAGCCCCAGGCCCCUUGGGUUCCCAGACGAAGGCAUUAUUAUUGUGAUUAUGAUUGUGCCGUUGACACUUU
-----(((((.(((.(((((((..........((((((.((....)).))))))))))).)).(((((.(((((.......))))).)))))))))))))... ( -34.60)
>DroEre_CAF1 890 101 - 1
UGUCUGUCUCUGGGAUCUCCGGUCUUUAAAA-GAGCCCCA-GCCCCUUGGGUUCCCAGACCAAGGCGUUAUUAUUGUGAUUAUGACUGUUCCGUUGACACUUU
....((((..((((((....(((((......-((((((.(-(...)).))))))..))))).....(((((..........))))).))))))..)))).... ( -25.80)
>DroYak_CAF1 8734 93 - 1
UCUGUGUCUCUGGGAUCUCUGGUCUUUAGAA----------ACCCCCUGGGUUCCCAGAGCAAGGCGUUAUUAUGGUGAUUAUGAGUGUGCCGUUGACACUUU
...((((((((((((.(((.(((........----------)))....))).)))))))....((((...(((((.....)))))...))))...)))))... ( -29.30)
>consensus
CGUAUGUGUCUGGGAUCUCUGGUCUUUAAAAAGAGCCCCAGGCCCCUUGGGUUCCCAGACGAAGGCAUUAUUAUUGUGAUUAUGAUUGUGCCGUUGACACUUU
.......((((((((.(((.(((((..............)))))....))).))))))))...(((((.(((((.......))))).)))))........... (-22.82 = -23.98 +   1.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:07 2006