Locus 2746

Sequence ID 2L_DroMel_CAF1
Location 7,726,009 – 7,726,147
Length 138
Max. P 0.981213
window4364 window4365 window4366

overview

Window 4

Location 7,726,009 – 7,726,117
Length 108
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 72.22
Mean single sequence MFE -30.75
Consensus MFE -11.26
Energy contribution -11.90
Covariance contribution 0.64
Combinations/Pair 1.31
Mean z-score -2.24
Structure conservation index 0.37
SVM decision value 1.03
SVM RNA-class probability 0.904012
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7726009 108 + 22407834
AAGUCCGUUGGCUUAUCCCAUUUUCCUCGAUUCAGAUCGGGGGAAAAGGGUUUAUGCCCGGUAUCAUACGAUGUUUCAUAUACCAUGUUGAACUACCCACA-AUAUUAC--
....(((..(((....(((.(((((((((((....))))))))))).))).....))))))((((....))))...........((((((.........))-))))...-- ( -28.40)
>DroGri_CAF1 6715 103 + 1
UAGUCCGUUGGCUGUUCCCAUUUGCCACGAUUCAAGUCUGGUUUGAAUGGCCUGCGGCCACUCUCAUAGGAAGUCUCAUAUACCAUUGCGGU------A-U-AUAGUACUC
...(((..(((((((..((((((((((.(((....)))))))..))))))...)))))))........)))(((((.(((((((.....)))------)-)-)))).))). ( -32.10)
>DroSec_CAF1 14549 105 + 1
UAGUCCGUGGGCUUAUCCCACUUUCCUCGAUUUAAAUCGGGAGUAAAGGGUUUAAGCCCGGUAUCAUACGAUGUUUCAUACACCAUAUUGAA---CCCACA-AUAUCAC--
........(((((((..((.(((((((((((....)))))).).))))))..)))))))((((((....)))((.....)))))((((((..---....))-))))...-- ( -29.60)
>DroSim_CAF1 16947 105 + 1
UAGUCCGUGGGCUUAUCCCACUUUCCUCGAUUUAGAUCGGGAGUAAAGGGUUUAAGCCCGGUAUCAUACGAUGUUUCAUACACCAUGUUGAA---CCCACA-AUAUCAC--
......(((((((((..((.(((((((((((....)))))).).))))))..)))))))((..(((.(((.(((.....)))...)))))).---.)))).-.......-- ( -29.90)
>DroWil_CAF1 6615 107 + 1
UAGUCAGUGGGUUUUUCCCAUUUGCCACGUUGCAGAUCGGGACGAAAGGGCUUUUGCCCCGAUUCGUAUGAAGAUUCAUAAACCAUUUCGGC----GUUGGAAUUGGAAUG
......(((((((((((((((((((......)))))).)))(((((.((((....))))...)))))..))))))))))...(((.(((...----....))).))).... ( -33.00)
>DroYak_CAF1 9290 104 + 1
UAGUCCGUGGGCUUAUCCCACUUGCCACGAUUCAGAUCAGGGGAGAAGGGCUUAAGCCCAAUAGCAUACGAUGUUUCAUAUGCCAU--UGUA----UUAGA-AUAUCACUC
..((...((((((((.(((.(((.((..(((....))).)).)))..)))..))))))))...))....(((((((...((((...--.)))----)..))-))))).... ( -31.50)
>consensus
UAGUCCGUGGGCUUAUCCCACUUGCCACGAUUCAGAUCGGGAGUAAAGGGCUUAAGCCCGGUAUCAUACGAUGUUUCAUAUACCAUGUUGAA____CCACA_AUAUCAC__
......(((((.....)))))..(((.((((....))))))).....((((....)))).................................................... (-11.26 = -11.90 +   0.64)

alignment

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secondary structure

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dotplot

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Window 5

Location 7,726,009 – 7,726,117
Length 108
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 72.22
Mean single sequence MFE -32.28
Consensus MFE -12.34
Energy contribution -13.48
Covariance contribution 1.14
Combinations/Pair 1.20
Mean z-score -2.53
Structure conservation index 0.38
SVM decision value 1.88
SVM RNA-class probability 0.981213
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7726009 108 - 22407834
--GUAAUAU-UGUGGGUAGUUCAACAUGGUAUAUGAAACAUCGUAUGAUACCGGGCAUAAACCCUUUUCCCCCGAUCUGAAUCGAGGAAAAUGGGAUAAGCCAACGGACUU
--.......-.......(((((....((((((((((....)))))...)))))(((.((..((.((((((..((((....)))).)))))).))..)).)))...))))). ( -28.00)
>DroGri_CAF1 6715 103 - 1
GAGUACUAU-A-U------ACCGCAAUGGUAUAUGAGACUUCCUAUGAGAGUGGCCGCAGGCCAUUCAAACCAGACUUGAAUCGUGGCAAAUGGGAACAGCCAACGGACUA
((((..(((-(-(------(((.....))))))))..)))).......((((((((...))))))))..............(((((((...((....))))).)))).... ( -31.50)
>DroSec_CAF1 14549 105 - 1
--GUGAUAU-UGUGGG---UUCAAUAUGGUGUAUGAAACAUCGUAUGAUACCGGGCUUAAACCCUUUACUCCCGAUUUAAAUCGAGGAAAGUGGGAUAAGCCCACGGACUA
--......(-(((.((---(...(((((((((.....)))))))))...)))(((((((..(((((...(((((((....)))).)))))).))..))))))))))).... ( -37.10)
>DroSim_CAF1 16947 105 - 1
--GUGAUAU-UGUGGG---UUCAACAUGGUGUAUGAAACAUCGUAUGAUACCGGGCUUAAACCCUUUACUCCCGAUCUAAAUCGAGGAAAGUGGGAUAAGCCCACGGACUA
--.......-....((---(((.....(((((((((....))))))...)))(((((((..(((((...(((((((....)))).)))))).))..)))))))..))))). ( -34.20)
>DroWil_CAF1 6615 107 - 1
CAUUCCAAUUCCAAC----GCCGAAAUGGUUUAUGAAUCUUCAUACGAAUCGGGGCAAAAGCCCUUUCGUCCCGAUCUGCAACGUGGCAAAUGGGAAAAACCCACUGACUA
...............----((((...((...(((((....)))))((.((((((((.(((....))).)))))))).))))...))))...((((.....))))....... ( -26.50)
>DroYak_CAF1 9290 104 - 1
GAGUGAUAU-UCUAA----UACA--AUGGCAUAUGAAACAUCGUAUGCUAUUGGGCUUAAGCCCUUCUCCCCUGAUCUGAAUCGUGGCAAGUGGGAUAAGCCCACGGACUA
..(((....-.....----..((--(((((((((((....)))))))))))))((((((..(((..((..((((((....)))).))..)).))).)))))))))...... ( -36.40)
>consensus
__GUGAUAU_UGUGG____UUCAAAAUGGUAUAUGAAACAUCGUAUGAUACCGGGCUUAAACCCUUUACUCCCGAUCUGAAUCGAGGAAAAUGGGAUAAGCCCACGGACUA
.............................(((((((....))))))).....((((.....(((......((((((....)))).)).....)))....))))........ (-12.34 = -13.48 +   1.14)

alignment

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secondary structure

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dotplot

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Window 6

Location 7,726,049 – 7,726,147
Length 98
Sequences 5
Columns 103
Reading direction reverse
Mean pairwise identity 68.69
Mean single sequence MFE -23.32
Consensus MFE -8.12
Energy contribution -8.20
Covariance contribution 0.08
Combinations/Pair 1.31
Mean z-score -2.03
Structure conservation index 0.35
SVM decision value 0.95
SVM RNA-class probability 0.887463
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7726049 98 - 22407834
--CUUAAAUCCAUUCUCGCCCACAUUUUGGCG--GUAAUAU-UGUGGGUAGUUCAACAUGGUAUAUGAAACAUCGUAUGAUACCGGGCAUAAACCCUUUUCCC
--.....((((((..(((((........))))--)......-.))))))..........(((((((((....)))))...))))(((......)))....... ( -19.70)
>DroSec_CAF1 14589 95 - 1
--UUUAAAUCCAUUCUCGCCCACAUUUUGGCG--GUGAUAU-UGUGGG---UUCAAUAUGGUGUAUGAAACAUCGUAUGAUACCGGGCUUAAACCCUUUACUC
--(((((..(((((..((((........))))--..)))..-....((---(...(((((((((.....)))))))))...)))))..))))).......... ( -25.50)
>DroSim_CAF1 16987 95 - 1
--GUUAAAUCCAUUCUCGCCCACAUUUUGGCU--GUGAUAU-UGUGGG---UUCAACAUGGUGUAUGAAACAUCGUAUGAUACCGGGCUUAAACCCUUUACUC
--(((.(((((((..(((((((.....)))..--))))...-.)))))---)).)))..(((((((((....))))))...)))(((......)))....... ( -22.90)
>DroWil_CAF1 6655 99 - 1
GACAUAGAUAAUCUUACCUAUCUAUAUAAGCACAUUCCAAUUCCAAC----GCCGAAAUGGUUUAUGAAUCUUCAUACGAAUCGGGGCAAAAGCCCUUUCGUC
...(((((((........))))))).......(((.(((.(((....----...))).)))...))).........(((((..(((((....)))))))))). ( -21.40)
>DroYak_CAF1 9330 94 - 1
--UUUAAAUACACUUUCGUGUACAAAUUGGCUGAGUGAUAU-UCUAA----UACA--AUGGCAUAUGAAACAUCGUAUGCUAUUGGGCUUAAGCCCUUCUCCC
--......(((((....)))))......(((((((((....-.)...----..((--(((((((((((....))))))))))))).)))).))))........ ( -27.10)
>consensus
__CUUAAAUCCAUUCUCGCCCACAUUUUGGCG__GUGAUAU_UGUGGG___UUCAACAUGGUAUAUGAAACAUCGUAUGAUACCGGGCUUAAACCCUUUACUC
.................(((........)))..............................(((((((....))))))).....(((......)))....... ( -8.12 =  -8.20 +   0.08)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:13 2006