Locus 144

Sequence ID 2L_DroMel_CAF1
Location 432,210 – 432,561
Length 351
Max. P 0.999484
window223 window224 window225 window226 window227

overview

Window 3

Location 432,210 – 432,323
Length 113
Sequences 4
Columns 113
Reading direction reverse
Mean pairwise identity 92.08
Mean single sequence MFE -25.82
Consensus MFE -20.70
Energy contribution -20.95
Covariance contribution 0.25
Combinations/Pair 1.05
Mean z-score -2.40
Structure conservation index 0.80
SVM decision value 1.03
SVM RNA-class probability 0.903739
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 432210 113 - 22407834
AAAAAAAAAAAUUUAAAGAAAAAAGCUGGCGACAACAACGAAAUGUUAAACAAUCGUUGGACGUUGGCGAUUUUAUGGUUGACAGAUAAGAAAUUUGCUGGCAUUUGUUUUGU
...............((((.(((.((..((((...((((((..((.....)).))))))...((..((.((...)).))..))...........))))..)).))).)))).. ( -23.40)
>DroSim_CAF1 8750 108 - 1
AAAA---AAAAUUUAAA--AAAAAGCUGGCGACAACAACGAAAUGUUAAACAAUCGUUGGACGUUGGCGAUUUUAUGGUUGACAGAUAAGAAAUUUGCUGGCAUUUGUUUUGU
....---......((((--(.(((((..((((...((((((..((.....)).))))))...((..((.((...)).))..))...........))))..)).))).))))). ( -23.50)
>DroEre_CAF1 9575 108 - 1
AAAA---AAGG--AAUGAAAAAAACCUGGCGACAACAACGAAAUGUUAAACAAUCGUCGGACGUUGGCGAUUUUAUGGUUGGCAGAUAAGAAAUUUGCUGGCAUUUGUUUUGU
....---.(((--...........)))....((((.((((((.........((((((((.....)))))))).....((..((((((.....))))))..)).)))))))))) ( -22.90)
>DroYak_CAF1 9177 110 - 1
AAAA---AAGUUUAAAACAAAAAAGCUGGCGACAACAACGAAAUGUUAAACAAUCGUUGGACGUUGGCGAUUUUAUGGUUGGCAGAUAAGAAAUUUGCUGGCAUUUGUUUUGU
....---.....(((((((((...((..(((....((((((..((.....)).))))))..)))..)).........((..((((((.....))))))..)).))))))))). ( -33.50)
>consensus
AAAA___AAAAUUAAAA_AAAAAAGCUGGCGACAACAACGAAAUGUUAAACAAUCGUUGGACGUUGGCGAUUUUAUGGUUGACAGAUAAGAAAUUUGCUGGCAUUUGUUUUGU
........................((..((((...((((((..((.....)).))))))...((..((.((...)).))..))...........))))..))........... (-20.70 = -20.95 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 432,248 – 432,363
Length 115
Sequences 4
Columns 115
Reading direction reverse
Mean pairwise identity 89.43
Mean single sequence MFE -26.02
Consensus MFE -22.15
Energy contribution -22.52
Covariance contribution 0.38
Combinations/Pair 1.08
Mean z-score -1.40
Structure conservation index 0.85
SVM decision value 0.07
SVM RNA-class probability 0.569378
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 432248 115 - 22407834
AUUGCACAAUUCGCUGAAUUUUUGACUCUUAGCGGGACGCAAAAAAAAAAAUUUAAAGAAAAAAGCUGGCGACAACAACGAAAUGUUAAACAAUCGUUGGACGUUGGCGAUUUUA
.((((....((((((((...........))))))))..))))................((((..((..(((....((((((..((.....)).))))))..)))..))..)))). ( -26.10)
>DroSim_CAF1 8788 110 - 1
AUUGCACAAUUCGCUGGAUUUUCGACUCUUAGCGGGACGCAAAA---AAAAUUUAAA--AAAAAGCUGGCGACAACAACGAAAUGUUAAACAAUCGUUGGACGUUGGCGAUUUUA
.((((....(((((((((........)).)))))))..))))..---.........(--(((..((..(((....((((((..((.....)).))))))..)))..))..)))). ( -26.20)
>DroEre_CAF1 9613 110 - 1
AUUGCACAAUUCGCUGGAUUUGCGACUGUUAGCGGGGCGCAAAA---AAGG--AAUGAAAAAAACCUGGCGACAACAACGAAAUGUUAAACAAUCGUCGGACGUUGGCGAUUUUA
(((((.....((((..(.((((((.(((....)))..)))))).---....--..(....)....)..))))((((..(((..((.....))....)))...))))))))).... ( -26.90)
>DroYak_CAF1 9215 111 - 1
AUUGCACAAUUCGCUGGAUUUUCGACUGUUGGCG-GGCGCAAAA---AAGUUUAAAACAAAAAAGCUGGCGACAACAACGAAAUGUUAAACAAUCGUUGGACGUUGGCGAUUUUA
(((((.((((((((..(.((((.((((....((.-...))....---.)))).))))........)..))))...((((((..((.....)).))))))...))))))))).... ( -24.90)
>consensus
AUUGCACAAUUCGCUGGAUUUUCGACUCUUAGCGGGACGCAAAA___AAAAUUAAAA_AAAAAAGCUGGCGACAACAACGAAAUGUUAAACAAUCGUUGGACGUUGGCGAUUUUA
.((((....((((((((...........))))))))..))))......................((..(((....((((((..((.....)).))))))..)))..))....... (-22.15 = -22.52 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 432,363 – 432,483
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.99
Mean single sequence MFE -28.02
Consensus MFE -19.58
Energy contribution -22.48
Covariance contribution 2.90
Combinations/Pair 1.00
Mean z-score -1.82
Structure conservation index 0.70
SVM decision value 0.19
SVM RNA-class probability 0.627313
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 432363 120 + 22407834
UAACCCAUUUCGGGCCAUGGAAUAUCAAAUGUCAGUCAAACUUGACACUCUACGGAGGGUAUAUUGAAAUGGGGAAGCUGUUUAGAGUACUAUUGUGUCAAAUAUAUAUGUACAUUCACA
...(((((((((.(((.............((((((......))))))(((....))))))....))))))))).............((((...(((((...)))))...))))....... ( -31.00)
>DroSec_CAF1 9910 120 + 1
UAACCCAUUUCGGGCCAUGGAAUAUCAAAUGUCAGUCAAACUUGACACUCUACGGAGCGUAUAUUGAAAUGGGGAAGCUGUUUAGAGUAAUAUUUUGUCAUUUAAAUAUGCACAUUCAUA
...((((((((((...(((..........((((((......))))))(((....))))))...))))))))))...((((((((((((((....))).).)))))))).))......... ( -29.20)
>DroSim_CAF1 8898 120 + 1
UAACCCAUUUCGGGCCAUGGAAUAUCAAAUGUCAGUCAAACUUGACACUCCACGGAGGGUAUAUUGAAAUGGGGAAGCUGUUUAGAGUAAUAUUUUGUCAUUUAAAUAUGCACAUUAAUA
...(((((((((.(((.............((((((......))))))(((....))))))....)))))))))...((((((((((((((....))).).)))))))).))......... ( -30.10)
>DroEre_CAF1 9723 119 + 1
UAACCCAUUUCUGGCCAUGGAAUAUCAAAUGUCAGUCAAAUUUGACACUCUUCGGAGGGUAUAUUGAAAUAGGGAAGCUGUUUUGGG-AAUAUUUUGUCAUUUAUAUACAUAUAUACCUA
...((((((((..(((.............((((((......))))))(((....)))))).....))))).))).........((((-.((((..(((.((....))))).)))).)))) ( -26.90)
>DroYak_CAF1 9326 101 + 1
UAACCCAUUUCGGGCCAUGGAAUAUCAAAUGUCAGUCAAAUUUGACACUCUACGGAGGGUAUAUUGAAAUAGGGAAGCUGUUU-----------UUCUCAUUUAUAUAUAUA--------
...(((((((((.(((.............((((((......))))))(((....))))))....)))))).))).........-----------..................-------- ( -22.90)
>consensus
UAACCCAUUUCGGGCCAUGGAAUAUCAAAUGUCAGUCAAACUUGACACUCUACGGAGGGUAUAUUGAAAUGGGGAAGCUGUUUAGAGUAAUAUUUUGUCAUUUAUAUAUGUACAUUCAUA
...(((((((((.(((.............((((((......))))))(((....))))))....)))))))))............................................... (-19.58 = -22.48 +   2.90)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 432,363 – 432,483
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.99
Mean single sequence MFE -24.04
Consensus MFE -21.10
Energy contribution -20.82
Covariance contribution -0.28
Combinations/Pair 1.09
Mean z-score -1.50
Structure conservation index 0.88
SVM decision value 0.23
SVM RNA-class probability 0.645720
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 432363 120 - 22407834
UGUGAAUGUACAUAUAUAUUUGACACAAUAGUACUCUAAACAGCUUCCCCAUUUCAAUAUACCCUCCGUAGAGUGUCAAGUUUGACUGACAUUUGAUAUUCCAUGGCCCGAAAUGGGUUA
((((((((((....))))))...))))....................((((((((..........((((.(((((((((((.........))))))))))).))))...))))))))... ( -25.22)
>DroSec_CAF1 9910 120 - 1
UAUGAAUGUGCAUAUUUAAAUGACAAAAUAUUACUCUAAACAGCUUCCCCAUUUCAAUAUACGCUCCGUAGAGUGUCAAGUUUGACUGACAUUUGAUAUUCCAUGGCCCGAAAUGGGUUA
.......(((.((((((........))))))))).............((((((((.......(..((((.(((((((((((.........))))))))))).))))..)))))))))... ( -24.31)
>DroSim_CAF1 8898 120 - 1
UAUUAAUGUGCAUAUUUAAAUGACAAAAUAUUACUCUAAACAGCUUCCCCAUUUCAAUAUACCCUCCGUGGAGUGUCAAGUUUGACUGACAUUUGAUAUUCCAUGGCCCGAAAUGGGUUA
..(((..(((.((((((........)))))))))..)))........((((((((..........((((((((((((((((.........))))))))))))))))...))))))))... ( -31.22)
>DroEre_CAF1 9723 119 - 1
UAGGUAUAUAUGUAUAUAAAUGACAAAAUAUU-CCCAAAACAGCUUCCCUAUUUCAAUAUACCCUCCGAAGAGUGUCAAAUUUGACUGACAUUUGAUAUUCCAUGGCCAGAAAUGGGUUA
..(((((((.((...(((..............-................)))..)))))))))..(((..(((((((((((.........)))))))))))..)))(((....))).... ( -19.71)
>DroYak_CAF1 9326 101 - 1
--------UAUAUAUAUAAAUGAGAA-----------AAACAGCUUCCCUAUUUCAAUAUACCCUCCGUAGAGUGUCAAAUUUGACUGACAUUUGAUAUUCCAUGGCCCGAAAUGGGUUA
--------..................-----------..........((((((((..........((((.(((((((((((.........))))))))))).))))...))))))))... ( -19.72)
>consensus
UAUGAAUGUACAUAUAUAAAUGACAAAAUAUUACUCUAAACAGCUUCCCCAUUUCAAUAUACCCUCCGUAGAGUGUCAAGUUUGACUGACAUUUGAUAUUCCAUGGCCCGAAAUGGGUUA
...............................................((((((((..........((((.(((((((((((.........))))))))))).))))...))))))))... (-21.10 = -20.82 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 432,443 – 432,561
Length 118
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 73.52
Mean single sequence MFE -20.85
Consensus MFE -12.24
Energy contribution -13.80
Covariance contribution 1.56
Combinations/Pair 1.14
Mean z-score -2.84
Structure conservation index 0.59
SVM decision value 3.64
SVM RNA-class probability 0.999484
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 432443 118 - 22407834
GUCAAAAAAAAUUAAUUAAAUGUGACCGGUAUU--UAAAAAGUCGGUCAGGCCUACUAUAUAACUACAUAUGUAUGCACAUGUGAAUGUACAUAUAUAUUUGACACAAUAGUACUCUAAA
((((((..............(.(((((((....--.......))))))).).................((((((((.((((....)))).))))))))))))))................ ( -24.40)
>DroSec_CAF1 9990 95 - 1
GUCAAAACUAAUUAAUUAAAUGUGACCGGUAUU--UAAAAAGUCGGUC-------------------A----UAUGUACAUAUGAAUGUGCAUAUUUAAAUGACAAAAUAUUACUCUAAA
((((...............((((((((((....--.......))))))-------------------)----)))((((((....)))))).........))))................ ( -21.60)
>DroSim_CAF1 8978 105 - 1
GUCAAAACUAAUUAAUUAAAUGUGACCGGUAUU--UAAAAAGUCGGUCAUGCCCACC---------CA----UAUGUACAUAUUAAUGUGCAUAUUUAAAUGACAAAAUAUUACUCUAAA
((((.................((((((((....--.......)))))))).......---------.(----(((((((((....)))))))))).....))))................ ( -23.20)
>DroEre_CAF1 9803 103 - 1
GUCAAAAAUAACUAAUUAAAUAUGACCGGUAUUUUUAAAAACUACGACAGGUCUACUU----------------UAUACCUAGGUAUAUAUGUAUAUAAAUGACAAAAUAUU-CCCAAAA
((((...................((((.((................)).))))(((..----------------(((((....)))))...)))......))))........-....... ( -14.19)
>consensus
GUCAAAAAUAAUUAAUUAAAUGUGACCGGUAUU__UAAAAAGUCGGUCAGGCCUACU__________A____UAUGUACAUAUGAAUGUACAUAUAUAAAUGACAAAAUAUUACUCUAAA
((((..................(((((((..((.....))..))))))).......................(((((((((....)))))))))......))))................ (-12.24 = -13.80 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:27:22 2006