Locus 5751

Sequence ID	2R_DroMel_CAF1
Location	18,209,266 – 18,209,386
Length	120
Max. P	0.921520

overview

Window 2

Location	18,209,266 – 18,209,386
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	78.22
Mean single sequence MFE	-42.19
Consensus MFE	-25.68
Energy contribution	-25.05
Covariance contribution	-0.63
Combinations/Pair	1.43
Mean z-score	-1.55
Structure conservation index	0.61
SVM decision value	0.25
SVM RNA-class probability	0.655237
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18209266 120 + 20766785
UGGACGUGGCUAUUGGAGCCAUUGGCAAUGUUCAAAUUUACCAGGUAGUCCUGCAGCUGCGUCUUUAGCUGGCUGUUCUCCGCCUCCAGGCGACGCUUCUGUUGCUUCAGGCAGGCCACG
....(((((((...((((....((((...............((((....))))((((((......))))))))))..))))((((..((((((((....)))))))).)))).))))))) ( -45.60)
>DroVir_CAF1 34832 120 + 1
UGUAUGUGGCUGUUGGAGCCGUUGCUAAUGUUCAGGUUGAUGAGAUACUCUUGCAGUUCUGCCUUGAGUCGUGCAUUGUCUGCCUCCAGAUUGCGUUUUUGCUGCUUAAGACAGGCCACG
.....(((((((((.((((.((....(((((((((((.((..(...((((..(((....)))...))))......)..)).))))...))..)))))...)).))))..)))).))))). ( -34.40)
>DroPse_CAF1 7752 120 + 1
UGUAUGUGGCUGUUGGAGCCAUUUCCGAUGUUCAGGUUGACCAGGUACUCCUGGAGUUCCGCCUUGAGUUGGCUAUUGGACGCCUCCAACCUCUUCUUCUGCUGCUUGAGGCAGGCCACG
.....(((((.(((((((.(...(((((((....((....(((((....)))))....))(((.......)))))))))).).)))))))........(((((......)))))))))). ( -46.50)
>DroGri_CAF1 29500 120 + 1
UGUAUGUGGCAGUUGGAGCCAUUGCUGAUGUUCAAAUUGAUGAGAUACUCCUGCAAAUCGGCCUUGAGCCGUGUAUUGGCCGCCUCCAAAGUGCGUUUCUGCUGCUUCAAGCAGGCCACA
....((((((..((((((.(.((((.((..((((......))))....))..))))...((((..............))))).)))))).........(((((......))))))))))) ( -37.34)
>DroMoj_CAF1 30967 120 + 1
UGGAUGUGGCUAUUGGAGCCGUUGGCUAUGUUCAGAUCAAUCAGAUAGUCCUGCAGCUCGGCCUUCAAUUUUGCAUUUUCUGCCUCCAAGUUGCGUUUCUGCUGCUUGAGGCAGGCCACG
.....(((((.((((((((((..((((........(((.....)))........))))))).)))))))..........(((((((.((((.(((....))).)))))))))))))))). ( -42.79)
>DroPer_CAF1 7749 120 + 1
UGUAUGUGGCUGUUGGAGCCAUUUCCGAUGUUCAGGUUGACCAGGUACUCCUGGAGUUCCGCCUUGAGUUGGCUAUUGGACGCCUCCAACCUCUUCUUCUGCUGCUUGAGGCAGGCCACG
.....(((((.(((((((.(...(((((((....((....(((((....)))))....))(((.......)))))))))).).)))))))........(((((......)))))))))). ( -46.50)
>consensus
UGUAUGUGGCUGUUGGAGCCAUUGCCGAUGUUCAGAUUGACCAGAUACUCCUGCAGUUCCGCCUUGAGUUGGCUAUUGGCCGCCUCCAAACUGCGCUUCUGCUGCUUGAGGCAGGCCACG
....((((((..((((((.(...((((((((((((((.((.(((......)))....)).))).)))).....))))))).).)))))).........(((((......))))))))))) (-25.68 = -25.05 +  -0.63)

alignment

secondary structure

dotplot

Window 3

Location	18,209,266 – 18,209,386
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	78.22
Mean single sequence MFE	-39.45
Consensus MFE	-21.40
Energy contribution	-21.46
Covariance contribution	0.06
Combinations/Pair	1.24
Mean z-score	-2.34
Structure conservation index	0.54
SVM decision value	1.14
SVM RNA-class probability	0.921520
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18209266 120 - 20766785
CGUGGCCUGCCUGAAGCAACAGAAGCGUCGCCUGGAGGCGGAGAACAGCCAGCUAAAGACGCAGCUGCAGGACUACCUGGUAAAUUUGAACAUUGCCAAUGGCUCCAAUAGCCACGUCCA
((((((..(((....(((((((..((((((((....)))((.......)).......)))))..)))((((....)))).............))))....))).......)))))).... ( -39.40)
>DroVir_CAF1 34832 120 - 1
CGUGGCCUGUCUUAAGCAGCAAAAACGCAAUCUGGAGGCAGACAAUGCACGACUCAAGGCAGAACUGCAAGAGUAUCUCAUCAACCUGAACAUUAGCAACGGCUCCAACAGCCACAUACA
.((((((((((((.((..((......))...)).))))))).....((.((((((...(((....)))..))))...(((......)))..........)))).......)))))..... ( -30.50)
>DroPse_CAF1 7752 120 - 1
CGUGGCCUGCCUCAAGCAGCAGAAGAAGAGGUUGGAGGCGUCCAAUAGCCAACUCAAGGCGGAACUCCAGGAGUACCUGGUCAACCUGAACAUCGGAAAUGGCUCCAACAGCCACAUACA
.(((((((((........))))........(((((((.(.(((....(((.......)))((....(((((....)))))....))........)))...).))))))).)))))..... ( -45.10)
>DroGri_CAF1 29500 120 - 1
UGUGGCCUGCUUGAAGCAGCAGAAACGCACUUUGGAGGCGGCCAAUACACGGCUCAAGGCCGAUUUGCAGGAGUAUCUCAUCAAUUUGAACAUCAGCAAUGGCUCCAACUGCCACAUACA
(((((((((((......)))))....(((..((((....((((.......)))).....))))..))).(((((...(((......)))....((....)))))))....)))))).... ( -38.10)
>DroMoj_CAF1 30967 120 - 1
CGUGGCCUGCCUCAAGCAGCAGAAACGCAACUUGGAGGCAGAAAAUGCAAAAUUGAAGGCCGAGCUGCAGGACUAUCUGAUUGAUCUGAACAUAGCCAACGGCUCCAAUAGCCACAUCCA
.(((((((((((((((..((......))..))).)))))))....................((((((..((.(((((.((....)).))...)))))..)))))).....)))))..... ( -38.50)
>DroPer_CAF1 7749 120 - 1
CGUGGCCUGCCUCAAGCAGCAGAAGAAGAGGUUGGAGGCGUCCAAUAGCCAACUCAAGGCGGAACUCCAGGAGUACCUGGUCAACCUGAACAUCGGAAAUGGCUCCAACAGCCACAUACA
.(((((((((........))))........(((((((.(.(((....(((.......)))((....(((((....)))))....))........)))...).))))))).)))))..... ( -45.10)
>consensus
CGUGGCCUGCCUCAAGCAGCAGAAACGCAGCUUGGAGGCGGACAAUACACAACUCAAGGCGGAACUGCAGGAGUACCUGAUCAACCUGAACAUCGGCAAUGGCUCCAACAGCCACAUACA
.(((((((((.....)))).............(((((.((................(((..((....((((....)))).))..)))............)).)))))...)))))..... (-21.40 = -21.46 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:29 2006