Locus 7816

Sequence ID	3R_DroMel_CAF1
Location	20,942,815 – 20,942,933
Length	118
Max. P	0.996022

overview

Window 4

Location	20,942,815 – 20,942,933
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.18
Mean single sequence MFE	-27.22
Consensus MFE	-21.10
Energy contribution	-22.90
Covariance contribution	1.80
Combinations/Pair	1.11
Mean z-score	-3.44
Structure conservation index	0.78
SVM decision value	2.64
SVM RNA-class probability	0.996022
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20942815 118 + 27905053
ACUAUUCUAUUAUAAAAUAAUAGACCUCUCCACCAGACACACAGUUCUUAUUAAUCAUCUU-UCCAUUUAAGUGGACAUGACUUAAGAAAAUGUGUUAUCUGGUUUCCAGGUAAUCAAA-
......(((((((...)))))))((((....((((((.(((((.((((((....((((...-(((((....))))).))))..))))))..)))))..))))))....)))).......- ( -30.40)
>DroSec_CAF1 5967 118 + 1
ACUAUUCUAUUAUAAAAUAAUAUACCUCUCCACCAGACACACAGUUCUUAUUAAUAAUCUU-UCCAUUUAAGUGGACGUGACUUAGGAAAAUGUGUUAUCUGGUUUCCAGGCAAUCAAA-
........................(((....((((((.(((((.((((((.......((..-(((((....)))))...))..))))))..)))))..))))))....)))........- ( -22.10)
>DroSim_CAF1 5949 118 + 1
ACUAUUCUAUUAUAAAAUAAUAGACCUCUCCACCAGACACACAGUUCUUAUUAAUCAUCUU-UCCAUUUAAGUGGACGUGACUUAGGAAAAUGUGUUAUCUGGUUUCCAGGCAAUCAAA-
.....((((((((...))))))))(((....((((((.(((((.((((((....((((...-(((((....))))).))))..))))))..)))))..))))))....)))........- ( -29.90)
>DroEre_CAF1 5863 120 + 1
ACUAUUCUAAUGUAACAUAAAAGACAUCUCCACCAGAAACACAGUUCUAAUUUAUCAUCUUUUCCAUUUAACUGGACGUGACAUAGGAAAAUGUGUAAUCUGGUUUCGAGAUAAUCAGAA
.........................(((((.((((((.(((((.(((((.....((((....((((......)))).))))..)))))...)))))..))))))...)))))........ ( -25.00)
>DroYak_CAF1 5954 119 + 1
ACUAUUCUAUUAUAACAUAGGAGACCUCUCCACCAGACACACAGUUCUAAUUUAUCAUCUUUUCCAUUAAACUGGACGUGACUUAGUAAAAUGUGUAAUCUGGUUUCGAGGUAAUCAGA-
....((((((......)))))).(((((...((((((.(((((...((((....((((....((((......)))).)))).)))).....)))))..))))))...))))).......- ( -28.70)
>consensus
ACUAUUCUAUUAUAAAAUAAUAGACCUCUCCACCAGACACACAGUUCUUAUUAAUCAUCUU_UCCAUUUAAGUGGACGUGACUUAGGAAAAUGUGUUAUCUGGUUUCCAGGUAAUCAAA_
.....((((((((...))))))))(((....((((((.(((((.((((((....((((....(((((....))))).))))..))))))..)))))..))))))....)))......... (-21.10 = -22.90 +   1.80)

alignment

secondary structure

dotplot

Window 5

Location	20,942,815 – 20,942,933
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	90.18
Mean single sequence MFE	-31.66
Consensus MFE	-24.82
Energy contribution	-25.06
Covariance contribution	0.24
Combinations/Pair	1.13
Mean z-score	-2.98
Structure conservation index	0.78
SVM decision value	2.41
SVM RNA-class probability	0.993594
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20942815 118 - 27905053
-UUUGAUUACCUGGAAACCAGAUAACACAUUUUCUUAAGUCAUGUCCACUUAAAUGGA-AAGAUGAUUAAUAAGAACUGUGUGUCUGGUGGAGAGGUCUAUUAUUUUAUAAUAGAAUAGU
-........(((....((((((((.((((..((((((((((((.((((......))))-...))))))..)))))).))))))))))))....)))((((((((...))))))))..... ( -34.90)
>DroSec_CAF1 5967 118 - 1
-UUUGAUUGCCUGGAAACCAGAUAACACAUUUUCCUAAGUCACGUCCACUUAAAUGGA-AAGAUUAUUAAUAAGAACUGUGUGUCUGGUGGAGAGGUAUAUUAUUUUAUAAUAGAAUAGU
-......(((((....((((((((.((((..(((.((((((...((((......))))-..)))).....)).))).))))))))))))....))))).(((((((((...))))))))) ( -27.70)
>DroSim_CAF1 5949 118 - 1
-UUUGAUUGCCUGGAAACCAGAUAACACAUUUUCCUAAGUCACGUCCACUUAAAUGGA-AAGAUGAUUAAUAAGAACUGUGUGUCUGGUGGAGAGGUCUAUUAUUUUAUAAUAGAAUAGU
-........(((....((((((((.((((((((..(.(((((..((((......))))-....))))).)..)))).))))))))))))....)))((((((((...))))))))..... ( -29.50)
>DroEre_CAF1 5863 120 - 1
UUCUGAUUAUCUCGAAACCAGAUUACACAUUUUCCUAUGUCACGUCCAGUUAAAUGGAAAAGAUGAUAAAUUAGAACUGUGUUUCUGGUGGAGAUGUCUUUUAUGUUACAUUAGAAUAGU
(((((((((((((...((((((..(((((((((....((((((.((((......))))...).)))))....)))).))))).)))))).)))))).............))))))).... ( -31.41)
>DroYak_CAF1 5954 119 - 1
-UCUGAUUACCUCGAAACCAGAUUACACAUUUUACUAAGUCACGUCCAGUUUAAUGGAAAAGAUGAUAAAUUAGAACUGUGUGUCUGGUGGAGAGGUCUCCUAUGUUAUAAUAGAAUAGU
-.......(((((...(((((((.((((((((((....(((((.((((......))))...).))))....))))).))))))))))))...)))))...((((......))))...... ( -34.80)
>consensus
_UUUGAUUACCUGGAAACCAGAUAACACAUUUUCCUAAGUCACGUCCACUUAAAUGGA_AAGAUGAUUAAUAAGAACUGUGUGUCUGGUGGAGAGGUCUAUUAUUUUAUAAUAGAAUAGU
........((((....(((((((.(((((((((..(.((((((.((((......))))...).))))).)..)))).))))))))))))....))))...((((((((...)))))))). (-24.82 = -25.06 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:27 2006