Locus 9202

Sequence ID	3R_DroMel_CAF1
Location	24,538,447 – 24,538,542
Length	95
Max. P	0.936148

overview

Window 7

Location	24,538,447 – 24,538,542
Length	95
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	92.11
Mean single sequence MFE	-27.44
Consensus MFE	-22.76
Energy contribution	-23.76
Covariance contribution	1.00
Combinations/Pair	1.10
Mean z-score	-1.80
Structure conservation index	0.83
SVM decision value	1.25
SVM RNA-class probability	0.936148
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24538447 95 + 27905053
GCCUAUGUAAAUUCACAGUUCACCGAUGGCUUAAAGCCAUAGAAGCACCUGCAAUCCCAGUGGAUUUCGCGAUAUGUGAUGGAAGUUAUAUAGGU
((((((((((.(((..(((((((.((((((.....)))))....((....)).....).)))))))((((.....))))..))).)))))))))) ( -28.70)
>DroSec_CAF1 36702 95 + 1
GCCUAUGUAAAUUCACAGUUCACCGAUGGCUUAAAGCCGUAGAAGCACCUGCAAUCCCAUUGGAUUUCGCGGUAUGUGAUGGAAGUUAUAUAGGG
.(((((((((..(((((....(((((((((.....))))).(((((....)).((((....))))))).)))).)))))......))))))))). ( -30.50)
>DroSim_CAF1 38009 95 + 1
GCCUAUGUAAAUUCACAGUUCACCGAUGGCUUAAAGCCAUAGAAGCACCUGCAAUCCCAUUGGAUUUCGCGGUAUGUGAUGGAAGUUCUAUAGGG
.((((((.((..(((((....(((((((((.....))))).(((((....)).((((....))))))).)))).)))))......)).)))))). ( -26.50)
>DroEre_CAF1 41025 95 + 1
GCCCAUGUAAAUUCACAGUUCGCCGAUGGCUUAAAGCCAUAGAGCCACCUGCAAUUCCAUUGGAUUUCUCGGUAUGUGAUUGAAGGUAUAUAGGU
(((.(((((..((((..((((....(((((.....))))).))))(((.(((...(((...))).......))).)))..))))..))))).))) ( -25.10)
>DroYak_CAF1 37507 94 + 1
ACCCAUGUAAAUUCACAGUUCACCGAUGGCUUAAAGCCAUAGAGCCACCUGCAAU-CCAUUGGAUUUCGCGGCAUGUGAUGGUAGUUAUAUAGGU
(((.((((((..(((((((((....(((((.....))))).))))...(((((((-((...)))))..))))..)))))......)))))).))) ( -26.40)
>consensus
GCCUAUGUAAAUUCACAGUUCACCGAUGGCUUAAAGCCAUAGAAGCACCUGCAAUCCCAUUGGAUUUCGCGGUAUGUGAUGGAAGUUAUAUAGGU
.(((((((((..(((((....(((((((((.....)))))..........(.(((((....))))).).)))).)))))......))))))))). (-22.76 = -23.76 +   1.00)

alignment

secondary structure

dotplot

Window 8

Location	24,538,447 – 24,538,542
Length	95
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	92.11
Mean single sequence MFE	-26.28
Consensus MFE	-20.04
Energy contribution	-21.08
Covariance contribution	1.04
Combinations/Pair	1.09
Mean z-score	-2.04
Structure conservation index	0.76
SVM decision value	0.71
SVM RNA-class probability	0.830228
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24538447 95 - 27905053
ACCUAUAUAACUUCCAUCACAUAUCGCGAAAUCCACUGGGAUUGCAGGUGCUUCUAUGGCUUUAAGCCAUCGGUGAACUGUGAAUUUACAUAGGC
.(((((.(((.(((((((((.((((((((..(((....))))))).))))...(.(((((.....))))).)))))..)).))).))).))))). ( -25.30)
>DroSec_CAF1 36702 95 - 1
CCCUAUAUAACUUCCAUCACAUACCGCGAAAUCCAAUGGGAUUGCAGGUGCUUCUACGGCUUUAAGCCAUCGGUGAACUGUGAAUUUACAUAGGC
.(((((.(((.(((((((((.((((((((..(((....))))))).)))).......(((.....)))....))))..)).))).))).))))). ( -26.20)
>DroSim_CAF1 38009 95 - 1
CCCUAUAGAACUUCCAUCACAUACCGCGAAAUCCAAUGGGAUUGCAGGUGCUUCUAUGGCUUUAAGCCAUCGGUGAACUGUGAAUUUACAUAGGC
.(((((..((.(((((((((.((((((((..(((....))))))).))))...(.(((((.....))))).)))))..)).))).))..))))). ( -26.40)
>DroEre_CAF1 41025 95 - 1
ACCUAUAUACCUUCAAUCACAUACCGAGAAAUCCAAUGGAAUUGCAGGUGGCUCUAUGGCUUUAAGCCAUCGGCGAACUGUGAAUUUACAUGGGC
.(((((.(((((.((((..(((...((....))..)))..)))).)))))(((..(((((.....))))).)))...............))))). ( -26.40)
>DroYak_CAF1 37507 94 - 1
ACCUAUAUAACUACCAUCACAUGCCGCGAAAUCCAAUGG-AUUGCAGGUGGCUCUAUGGCUUUAAGCCAUCGGUGAACUGUGAAUUUACAUGGGU
((((((.(((.(((..((((..(((((..(((((...))-)))....))))).(.(((((.....))))).)))))...)))...))).)))))) ( -27.10)
>consensus
ACCUAUAUAACUUCCAUCACAUACCGCGAAAUCCAAUGGGAUUGCAGGUGCUUCUAUGGCUUUAAGCCAUCGGUGAACUGUGAAUUUACAUAGGC
.(((((.(((.(((((((((.((((....(((((....)))))...))))...(.(((((.....))))).)))))..)).))).))).))))). (-20.04 = -21.08 +   1.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:28:49 2006