Locus 4026

Sequence ID	3L_DroMel_CAF1
Location	11,743,950 – 11,744,096
Length	146
Max. P	0.817691

overview

Window 2

Location	11,743,950 – 11,744,043
Length	93
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	62.50
Mean single sequence MFE	-41.23
Consensus MFE	-19.19
Energy contribution	-21.62
Covariance contribution	2.43
Combinations/Pair	1.20
Mean z-score	-1.62
Structure conservation index	0.47
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11743950 93 + 23771897
---------------------G---CUUCGGUAG---AUGGCUCAGUAGACAAAGGACCUUCAGUGCUAGAGCUACUUUCUUGGGUCGUACUAUCUUGUGAAGAUUCUGUAGAAGAAGAC
---------------------.---(((((((((---((((((((((((....((.((.....)).))....)))).....)))))))).))))).........(((....))))))).. ( -22.80)
>DroPse_CAF1 50331 120 + 1
GGCUCUGUUGAGCUUUCCGGAGAAGGUUCCGUGGACGAUGGUUCCGUCGAUGAUGGUUCCUCGGAGCUGGAGUUACUUGGCUCUGUUGAGCUCUCUGGAGAAGGUUCCGUGGAAGAUGGU
.((((....))))(((((((((((((..((((.(.(((((....))))).).))))..)))((((((..(......)..))))))......)))))))))).....((((.....)))). ( -48.40)
>DroPer_CAF1 52247 120 + 1
GGCUCUGUUGAGCUCUCCGGGGAAGGUUCCGUGGACGACGGUUCCGUCGAUGAUGGUUCCUCGGAACUGGAGUUAUUCGGCUCUGUUGAGCUCUCCGGAGAAGGUUCCGUGGACGAGGGU
.((((((((((((((((((((((.(((((((.((((((((....)))))........))).)))))))...........((((....))))))))))))))..))))....))).))))) ( -52.50)
>consensus
GGCUCUGUUGAGCU_UCCGG_GAAGGUUCCGUGGACGAUGGUUCCGUCGAUGAUGGUUCCUCGGAGCUGGAGUUACUUGGCUCUGUUGAGCUCUCUGGAGAAGGUUCCGUGGAAGAAGGU
(((((....)))))..............((((.(.(((((....))))).).)))).(((.(((((((..........(((((....)))))..........))))))).)))....... (-19.19 = -21.62 +   2.43)

alignment

secondary structure

dotplot

Window 3

Location	11,744,003 – 11,744,096
Length	93
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	62.22
Mean single sequence MFE	-41.03
Consensus MFE	-18.68
Energy contribution	-19.17
Covariance contribution	0.48
Combinations/Pair	1.26
Mean z-score	-1.88
Structure conservation index	0.46
SVM decision value	0.67
SVM RNA-class probability	0.817691
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11744003 93 + 23771897
UUGGGUCGUACUAUCUUGUGAAGAUUCUGUAGAAGAAGACUCAU--------------------------UAGCU-UCGGUAGAAGGCUCAGUAGACAAAGGGCUUUCCGUGCUUGAGCU
.((((((.(((......)))....((((.....)))))))))).--------------------------.((((-(.((((((((((((..........))))))))..)))).))))) ( -27.20)
>DroPse_CAF1 50411 120 + 1
CUCUGUUGAGCUCUCUGGAGAAGGUUCCGUGGAAGAUGGUUCCUCUGAGCUGGAGUUACUUGGCUCUGUUGAGCUCUCAGGAGAAGGUUCCGUGGAAGAUGGUUCCUCUGAGCUGGAGCU
((((....(((((...((((.(..((((((((((..(..(((((..(((((((((((....))))))....)))))..))))).)..))))))))))..)..))))...))))))))).. ( -44.50)
>DroPer_CAF1 52327 118 + 1
CUCUGUUGAGCUCUCCGGAGAAGGUUCCGUGGACGAGGGUUGCUCGGAGCUGGAGCUAUUCGGCUCUAUUGAGCUCUCCGGAGAAGGUUCCGUGGACGAUGGUUCUUCAGAGCUGGAG--
.....((.(((((((((((((.((((((((...((((.....))))..)).)))))).....((((....))))))))))))(((((..((((.....)))).))))).))))).)).-- ( -51.40)
>consensus
CUCUGUUGAGCUCUCUGGAGAAGGUUCCGUGGAAGAAGGUUCCUC_GAGCUGGAG_UA_U_GGCUCU_UUGAGCUCUCAGGAGAAGGUUCCGUGGACGAUGGUUCUUCAGAGCUGGAGCU
((((...((((((((((..((....))..)))).............(((((((......)))))))....))))))...))))..((((((((.((.((....)).))...)).)))))) (-18.68 = -19.17 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:44 2006