Locus 2326

Sequence ID 2L_DroMel_CAF1
Location 6,310,614 – 6,310,706
Length 92
Max. P 0.863511
window3748 window3749

overview

Window 8

Location 6,310,614 – 6,310,706
Length 92
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 78.87
Mean single sequence MFE -26.97
Consensus MFE -14.77
Energy contribution -14.93
Covariance contribution 0.17
Combinations/Pair 1.12
Mean z-score -2.23
Structure conservation index 0.55
SVM decision value 0.84
SVM RNA-class probability 0.863511
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6310614 92 + 22407834
AUG----AAU---------------------GGUUAAAUGUGUGUAACUGACGCACGUUAUGUAAUUUAUGGCUGGCCAUUUAUUUUAUUGGGCUUAAUGUGGGCGCAGUUGUUAUU
(((----(((---------------------(((((...((((((.....))))))((((((.....)))))))))))))))))...((((.((((.....)))).))))....... ( -26.90)
>DroVir_CAF1 1174 114 + 1
UAAAGAGUACGCGGAGAAGGUGGCCCAAUGCCAUUCGGUGUGUGUAACUGACGCACUUUGUGUAAUUUAUGGCUGCACAUUUAUUUUAUUGAGUUUAAUGUGGGCGCAGUUGUU---
...(((.(((((((((...(((((.....)))))(((((.......)))))....))))))))).)))(..((((((((((.((((....))))..)))))....)))))..).--- ( -30.00)
>DroSec_CAF1 1847 92 + 1
AUG----AAU---------------------GGUUAAAUGUGUGUAACUGACGCACGUUAUGUAAUUUAUGGCUGGCCAUUUAUUUUAUUUGGCUUAAUGUGGGCGCAGUUGUUAUU
(((----(((---------------------(((((...((((((.....))))))((((((.....))))))))))))))))).....(((((((.....)))).)))........ ( -23.80)
>DroEre_CAF1 1782 92 + 1
AUG----AAU---------------------GGUUAAAUGUGUGUAACUGACGCACGUUAUGUAAUUUAUGGCUGGCCAUUUAUUUUAUUGGGCUUAAUGUGGGCGCAGUUGUUACG
(((----(((---------------------(((((...((((((.....))))))((((((.....)))))))))))))))))...((((.((((.....)))).))))....... ( -26.90)
>DroYak_CAF1 1777 92 + 1
AUG----AAU---------------------GGUUAAAUGUGUGUAACUGACGCACGUUAUGUAAUUUAUGGCUGGCCAUUUAUUUUAUUGGGCUUAAUGUGGGCGCAGUUGUUAUG
(((----(((---------------------(((((...((((((.....))))))((((((.....)))))))))))))))))...((((.((((.....)))).))))....... ( -26.90)
>DroMoj_CAF1 5867 104 + 1
AAGAGGGAAUG----GAAGGUGGUC------CAUUUGGUGUGUGUAACUGACGCACUUUGUGUAAUUUAUGGCUGCACAUUUAUUUUAUUGAGUUUAAUGUGGGCGCAGUUGCU---
......(((((----((......))------))))).......(((((((((((.....))))........(((.((((((.((((....))))..))))))))).))))))).--- ( -27.30)
>consensus
AUG____AAU_____________________GGUUAAAUGUGUGUAACUGACGCACGUUAUGUAAUUUAUGGCUGGCCAUUUAUUUUAUUGGGCUUAAUGUGGGCGCAGUUGUUAU_
....................................(((((((((.....)))))))))....(((..((((....))))..)))..((((.((((.....)))).))))....... (-14.77 = -14.93 +   0.17)

alignment

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secondary structure

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dotplot

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Window 9

Location 6,310,614 – 6,310,706
Length 92
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 78.87
Mean single sequence MFE -13.43
Consensus MFE -9.47
Energy contribution -9.80
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.62
Structure conservation index 0.70
SVM decision value 0.80
SVM RNA-class probability 0.853490
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6310614 92 - 22407834
AAUAACAACUGCGCCCACAUUAAGCCCAAUAAAAUAAAUGGCCAGCCAUAAAUUACAUAACGUGCGUCAGUUACACACAUUUAACC---------------------AUU----CAU
......((((((((.......................((((....)))).....((.....))))).)))))..............---------------------...----... ( -11.70)
>DroVir_CAF1 1174 114 - 1
---AACAACUGCGCCCACAUUAAACUCAAUAAAAUAAAUGUGCAGCCAUAAAUUACACAAAGUGCGUCAGUUACACACACCGAAUGGCAUUGGGCCACCUUCUCCGCGUACUCUUUA
---.....((((((.........................))))))...............(((((((..((.....))...(((((((.....))))..)))...)))))))..... ( -17.81)
>DroSec_CAF1 1847 92 - 1
AAUAACAACUGCGCCCACAUUAAGCCAAAUAAAAUAAAUGGCCAGCCAUAAAUUACAUAACGUGCGUCAGUUACACACAUUUAACC---------------------AUU----CAU
......((((((((.......................((((....)))).....((.....))))).)))))..............---------------------...----... ( -11.70)
>DroEre_CAF1 1782 92 - 1
CGUAACAACUGCGCCCACAUUAAGCCCAAUAAAAUAAAUGGCCAGCCAUAAAUUACAUAACGUGCGUCAGUUACACACAUUUAACC---------------------AUU----CAU
.(((((...(((((....(((......))).......((((....))))............)))))...)))))............---------------------...----... ( -12.30)
>DroYak_CAF1 1777 92 - 1
CAUAACAACUGCGCCCACAUUAAGCCCAAUAAAAUAAAUGGCCAGCCAUAAAUUACAUAACGUGCGUCAGUUACACACAUUUAACC---------------------AUU----CAU
......((((((((.......................((((....)))).....((.....))))).)))))..............---------------------...----... ( -11.70)
>DroMoj_CAF1 5867 104 - 1
---AGCAACUGCGCCCACAUUAAACUCAAUAAAAUAAAUGUGCAGCCAUAAAUUACACAAAGUGCGUCAGUUACACACACCAAAUG------GACCACCUUC----CAUUCCCUCUU
---.(.((((((((.((((((...............))))))............((.....))))).))))).)........((((------((......))----))))....... ( -15.36)
>consensus
_AUAACAACUGCGCCCACAUUAAGCCCAAUAAAAUAAAUGGCCAGCCAUAAAUUACAUAACGUGCGUCAGUUACACACAUUUAACC_____________________AUU____CAU
......((((((((.......................((((....)))).....((.....))))).)))))............................................. ( -9.47 =  -9.80 +   0.33)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:18 2006