Locus 6197

Sequence ID	2R_DroMel_CAF1
Location	19,516,540 – 19,516,660
Length	120
Max. P	0.938273

overview

Window 1

Location	19,516,540 – 19,516,660
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	78.33
Mean single sequence MFE	-38.82
Consensus MFE	-25.80
Energy contribution	-25.50
Covariance contribution	-0.30
Combinations/Pair	1.43
Mean z-score	-2.07
Structure conservation index	0.66
SVM decision value	1.29
SVM RNA-class probability	0.938273
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19516540 120 + 20766785
CAGUGUCUUGGGCAUAAUUGGUGGAGUCCUUCGACUUGAGCACCGUGCUCUUGAUGCUGCGGAUCUUCUGCUUGGCAUUGCGAAGCGAUGUGUCCGAGGAGGCCGCAUCAUAGAUGCCCU
(((((((..((((((...((.(.(((((....))))).).))..))))))..))))))).((((((...((((.((...)).))))((((((.((.....)).))))))..)))).)).. ( -46.20)
>DroGri_CAF1 18719 120 + 1
CGGUAUCUUGGGCAUAGUUCGUUGAGUCUUUCGACUUUAAAACGGUCGUUUUAAUAUUUCGUAUCUUUUGCUUAGCAUUGCGCAGCGAUGUAUCUGAGCUCGAUAUGUCGUAGAUGCCCU
.........((((((.(..(((((((((....)))))...))))..).......(((..((((((....((((((((((((...))))))...))))))..))))))..))).)))))). ( -35.70)
>DroWil_CAF1 14644 120 + 1
CAGUAUCUUGAGCAUAUUUCGUAGAAUCCGUUGAUUUCAAAACCGUAUUCUUAAUGCUGCGUAUUUUUUGCUUUGCAUUGCGUAGCGAUGUAUCCGAACUGGACACAUCAUAGAUGCCCU
..((((((((((.((((....(..((((....))))..).....)))).))))).((((((((.....(((...))).))))))))(((((.(((.....))).)))))...)))))... ( -30.70)
>DroMoj_CAF1 17670 120 + 1
CCGUAUCUUGGGCGUAAUUGGUUGAAUCGGCUGAUUUUAAGACCGCUGUCUUAAUAUUUCGUAUCUUUUGCUUAGCAUUGCGCAGCGAUGUGUCUGAGGUUGAUACGUCAUAGAUACCCU
..((((((...(((((((((((...))))(((((..(((((((....)))))))......(((.....)))))))))))))))...((((((((.......))))))))..))))))... ( -33.50)
>DroAna_CAF1 13947 120 + 1
CCGUGUCCUGGGCAUAAUUGGUUGAGUCCUUAGACUUGAGCACCGUAUUCUUAAUGCUGCGAAUCUUUUGCUUGGCAUUGCGCAGCGAUGUGUCCGAAACGGACACAUCGUAGAUGCCCU
.........((((((...((.(..((((....))))..).)).........(((((((((((.....))))..)))))))....((((((((((((...))))))))))))..)))))). ( -46.50)
>DroPer_CAF1 13603 120 + 1
CAGUAUCCUGAGCGUAAUUAGUGGAGUCCUUCGAUUUGAGAACCGUAUUCUUAAUGCUCCGCAUUUUCUGCUUGGCAUUGCGAAGCGAGGUGUCCGACGAGGAUACGUCGUAGAUGCCUU
.........(((((.((...(((((((........(((((((.....))))))).)))))))...)).)))))((((((.....((((.((((((.....)))))).)))).)))))).. ( -40.30)
>consensus
CAGUAUCUUGGGCAUAAUUGGUUGAGUCCUUCGACUUGAAAACCGUAUUCUUAAUGCUGCGUAUCUUUUGCUUGGCAUUGCGCAGCGAUGUGUCCGAGGUGGACACAUCAUAGAUGCCCU
..((((((((.((.....((((.(((((....)))))....)))).......((((((..(((.....)))..)))))))).))).(((((((((.....)))))))))...)))))... (-25.80 = -25.50 +  -0.30)

alignment

secondary structure

dotplot

Window 2

Location	19,516,540 – 19,516,660
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	78.33
Mean single sequence MFE	-32.70
Consensus MFE	-19.01
Energy contribution	-19.65
Covariance contribution	0.64
Combinations/Pair	1.26
Mean z-score	-1.90
Structure conservation index	0.58
SVM decision value	0.64
SVM RNA-class probability	0.807792
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19516540 120 - 20766785
AGGGCAUCUAUGAUGCGGCCUCCUCGGACACAUCGCUUCGCAAUGCCAAGCAGAAGAUCCGCAGCAUCAAGAGCACGGUGCUCAAGUCGAAGGACUCCACCAAUUAUGCCCAAGACACUG
.((((((((.((((((((...)).((((..(.((((((.((...)).)))).)).).))))..)))))))))....((((....((((....)))).)))).....)))))......... ( -38.90)
>DroGri_CAF1 18719 120 - 1
AGGGCAUCUACGACAUAUCGAGCUCAGAUACAUCGCUGCGCAAUGCUAAGCAAAAGAUACGAAAUAUUAAAACGACCGUUUUAAAGUCGAAAGACUCAACGAACUAUGCCCAAGAUACCG
.((((((........((((..((.(((........))).))..(((...)))...))))((.....(((((((....)))))))((((....))))...))....))))))......... ( -29.60)
>DroWil_CAF1 14644 120 - 1
AGGGCAUCUAUGAUGUGUCCAGUUCGGAUACAUCGCUACGCAAUGCAAAGCAAAAAAUACGCAGCAUUAAGAAUACGGUUUUGAAAUCAACGGAUUCUACGAAAUAUGCUCAAGAUACUG
.((((((....(((((((((.....)))))))))....((.(((((...((.........)).))))).(((((.(.(((........))).)))))).))....))))))......... ( -29.50)
>DroMoj_CAF1 17670 120 - 1
AGGGUAUCUAUGACGUAUCAACCUCAGACACAUCGCUGCGCAAUGCUAAGCAAAAGAUACGAAAUAUUAAGACAGCGGUCUUAAAAUCAGCCGAUUCAACCAAUUACGCCCAAGAUACGG
.((((........((((((.......((....))(((..((...))..)))....)))))).....(((((((....))))))).......................))))......... ( -23.40)
>DroAna_CAF1 13947 120 - 1
AGGGCAUCUACGAUGUGUCCGUUUCGGACACAUCGCUGCGCAAUGCCAAGCAAAAGAUUCGCAGCAUUAAGAAUACGGUGCUCAAGUCUAAGGACUCAACCAAUUAUGCCCAGGACACGG
.((((((((..((((((((((...))))))))))((((((.(((............)))))))))....)))....(((.....((((....))))..))).....)))))......... ( -43.70)
>DroPer_CAF1 13603 120 - 1
AAGGCAUCUACGACGUAUCCUCGUCGGACACCUCGCUUCGCAAUGCCAAGCAGAAAAUGCGGAGCAUUAAGAAUACGGUUCUCAAAUCGAAGGACUCCACUAAUUACGCUCAGGAUACUG
..(((......((((......))))(((..(((.((((((((.(((...))).....))))))))..........(((((....))))).)))..))).........)))(((....))) ( -31.10)
>consensus
AGGGCAUCUACGACGUAUCCACCUCGGACACAUCGCUGCGCAAUGCCAAGCAAAAGAUACGCAGCAUUAAGAAUACGGUUCUCAAAUCGAAGGACUCAACCAAUUAUGCCCAAGAUACUG
.((((.(((..((.((((((.....)))))).))(((..((...))..)))..................)))....(((.....((((....))))..)))......))))......... (-19.01 = -19.65 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:13 2006