Locus 8367

Sequence ID	3R_DroMel_CAF1
Location	22,321,063 – 22,321,163
Length	100
Max. P	0.890537

overview

Window 1

Location	22,321,063 – 22,321,163
Length	100
Sequences	6
Columns	101
Reading direction	forward
Mean pairwise identity	92.71
Mean single sequence MFE	-17.17
Consensus MFE	-14.87
Energy contribution	-14.57
Covariance contribution	-0.30
Combinations/Pair	1.18
Mean z-score	-1.43
Structure conservation index	0.87
SVM decision value	0.12
SVM RNA-class probability	0.594781
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22321063 100 + 27905053
AAUAACAUUUCAUUUAGUUGGCG-GGGUAUUUGCUUAAAAAUGUGCAGAGCGAGCAAAUAUUAUACGAAAAACUAAAUAAAAAUUAAUUGAAUUAAGCGAU
.......(((.((((((((..((-.(((((((((((...............)))))))))))...))...)))))))).)))................... ( -18.86)
>DroVir_CAF1 39260 100 + 1
AAUAACAUUUCAUUUAGUUGGCUGGGAUAUUUGCUUAAAAAUGUGCAGUGCGAGCAAAUAUUAAACGAA-AACUAAAUAAAAAUUAAUUGAAUUAAGCGUA
.......(((.((((((((..(...(((((((((((...............)))))))))))....)..-)))))))).)))................... ( -16.96)
>DroGri_CAF1 36812 100 + 1
AAUAACAUUUCAUUUAGUGGGCUGGUAUAUUUGCUCAAAAUUGUGCAGAGCGAGCAAAUAUUAAACAAA-AACUAAAUAAAAAUUAAUUGAAUUAAGCGAC
.......(((.(((((((....((..((((((((((...............))))))))))....))..-.))))))).)))................... ( -16.26)
>DroSec_CAF1 37873 100 + 1
AAUAACAUUUCAUUUAGUUGGCG-GGGUAUUUGCUUAAAAAUGUGCAGAGCGAGCAAAUGUUAUACGAAAAACUAAAUAAAAAUUAAUUGAAUUAAGCGAU
.......(((.((((((((..((-.(((((((((((...............)))))))))))...))...)))))))).)))................... ( -15.86)
>DroEre_CAF1 39125 100 + 1
AAUAACAUUUCAUUUAGUUGGCG-GGGUAUUUGCUUAAAAAUGUGCAGAGCGAGCAAAUAUUAUAUGAAAAACUAAAUAAAAAUUAAUUGAAUUAAGCGAU
.......(((.((((((((..((-.(((((((((((...............)))))))))))...))...)))))))).)))................... ( -17.16)
>DroMoj_CAF1 39994 100 + 1
AAUAACAUUUCAUUUAGUUGGCUGGAAUAUUUGCUUAAAAAUGUGCAGAGUGAGCAAAUAUUAAACGAA-AACUAAAUAAAAAUUAAUUGAAUUAAGCGAC
.......(((.((((((((..(...((((((((((((....(....)...))))))))))))....)..-)))))))).)))................... ( -17.90)
>consensus
AAUAACAUUUCAUUUAGUUGGCG_GGAUAUUUGCUUAAAAAUGUGCAGAGCGAGCAAAUAUUAAACGAA_AACUAAAUAAAAAUUAAUUGAAUUAAGCGAU
.......(((.((((((((......(((((((((((...............)))))))))))........)))))))).)))................... (-14.87 = -14.57 +  -0.30)

alignment

secondary structure

dotplot

Window 2

Location	22,321,063 – 22,321,163
Length	100
Sequences	6
Columns	101
Reading direction	reverse
Mean pairwise identity	92.71
Mean single sequence MFE	-15.53
Consensus MFE	-13.23
Energy contribution	-13.57
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.08
Structure conservation index	0.85
SVM decision value	0.96
SVM RNA-class probability	0.890537
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22321063 100 - 27905053
AUCGCUUAAUUCAAUUAAUUUUUAUUUAGUUUUUCGUAUAAUAUUUGCUCGCUCUGCACAUUUUUAAGCAAAUACCC-CGCCAACUAAAUGAAAUGUUAUU
...............((((((((((((((((...((.....((((((((.................))))))))...-))..)))))))))))).)))).. ( -14.53)
>DroVir_CAF1 39260 100 - 1
UACGCUUAAUUCAAUUAAUUUUUAUUUAGUU-UUCGUUUAAUAUUUGCUCGCACUGCACAUUUUUAAGCAAAUAUCCCAGCCAACUAAAUGAAAUGUUAUU
...............((((((((((((((((-...(((..(((((((((.................)))))))))...))).)))))))))))).)))).. ( -16.23)
>DroGri_CAF1 36812 100 - 1
GUCGCUUAAUUCAAUUAAUUUUUAUUUAGUU-UUUGUUUAAUAUUUGCUCGCUCUGCACAAUUUUGAGCAAAUAUACCAGCCCACUAAAUGAAAUGUUAUU
...............(((((((((((((((.-...(((..(((((((((((.............)))))))))))...)))..))))))))))).)))).. ( -19.12)
>DroSec_CAF1 37873 100 - 1
AUCGCUUAAUUCAAUUAAUUUUUAUUUAGUUUUUCGUAUAACAUUUGCUCGCUCUGCACAUUUUUAAGCAAAUACCC-CGCCAACUAAAUGAAAUGUUAUU
...............((((((((((((((((...((......(((((((.................)))))))....-))..)))))))))))).)))).. ( -13.03)
>DroEre_CAF1 39125 100 - 1
AUCGCUUAAUUCAAUUAAUUUUUAUUUAGUUUUUCAUAUAAUAUUUGCUCGCUCUGCACAUUUUUAAGCAAAUACCC-CGCCAACUAAAUGAAAUGUUAUU
...............((((((((((((((((..........((((((((.................))))))))...-....)))))))))))).)))).. ( -13.16)
>DroMoj_CAF1 39994 100 - 1
GUCGCUUAAUUCAAUUAAUUUUUAUUUAGUU-UUCGUUUAAUAUUUGCUCACUCUGCACAUUUUUAAGCAAAUAUUCCAGCCAACUAAAUGAAAUGUUAUU
...............((((((((((((((((-...(((.((((((((((.................))))))))))..))).)))))))))))).)))).. ( -17.13)
>consensus
AUCGCUUAAUUCAAUUAAUUUUUAUUUAGUU_UUCGUAUAAUAUUUGCUCGCUCUGCACAUUUUUAAGCAAAUACCC_AGCCAACUAAAUGAAAUGUUAUU
...............((((((((((((((((..........((((((((.................))))))))........)))))))))))).)))).. (-13.23 = -13.57 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:49 2006