Locus 641

Sequence ID 2L_DroMel_CAF1
Location 1,938,064 – 1,938,179
Length 115
Max. P 0.978301
window1046 window1047 window1048

overview

Window 6

Location 1,938,064 – 1,938,165
Length 101
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 85.59
Mean single sequence MFE -33.11
Consensus MFE -32.20
Energy contribution -32.20
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.89
Structure conservation index 0.97
SVM decision value 1.81
SVM RNA-class probability 0.978301
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1938064 101 + 22407834
----------ACUAAAAA-CA---AAAAAAUUAAUUUAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUUCGUG
----------........-..---...............((((((((((((.......)))))((((((.((...)).)))).)).................)))))))...... ( -32.20)
>DroPse_CAF1 134994 108 + 1
ACAAUGAAA-----GAAA-CAAACAAAAAAUUAC-UUUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUUGUUG
.........-----..((-(((..((((......-))))((((((((((((.......)))))((((((.((...)).)))).)).................)))))))))))). ( -32.90)
>DroSim_CAF1 86698 100 + 1
----------ACUAAAAA-CA---AAAAAGUUAU-UUAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUUCGUG
----------........-..---..........-....((((((((((((.......)))))((((((.((...)).)))).)).................)))))))...... ( -32.20)
>DroEre_CAF1 104915 102 + 1
-------AAAAUUAAAAACCA---AAAAAGUUCG-U--UGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUUCGUG
-------..............---........((-.--.((((((((((((.......)))))((((((.((...)).)))).)).................)))))))..)).. ( -33.50)
>DroWil_CAF1 146177 107 + 1
------GAAAAACAGAAU-CAAAAAAAAAGAUAC-UUAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUUGUUG
------....(((((.((-(.........)))..-....((((((((((((.......)))))((((((.((...)).)))).)).................)))))))))))). ( -33.40)
>DroPer_CAF1 133506 113 + 1
ACAAUGAAAAAGGAGAAA-CAAACAAAAAAUUAC-UUUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUUGUUG
.(((..((((((......-..............)-))))((((((((((((.......)))))((((((.((...)).)))).)).................))))))))..))) ( -34.45)
>consensus
_______AA_ACUAAAAA_CA___AAAAAAUUAC_UUAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUUCGUG
.......................................((((((((((((.......)))))((((((.((...)).)))).)).................)))))))...... (-32.20 = -32.20 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 1,938,064 – 1,938,165
Length 101
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 85.59
Mean single sequence MFE -36.93
Consensus MFE -35.90
Energy contribution -35.90
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.59
Structure conservation index 0.97
SVM decision value 1.19
SVM RNA-class probability 0.928223
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1938064 101 - 22407834
CACGAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUAAAUUAAUUUUUU---UG-UUUUUAGU----------
......(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))...............---..-........---------- ( -35.90)
>DroPse_CAF1 134994 108 - 1
CAACAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAAA-GUAAUUUUUUGUUUG-UUUC-----UUUCAUUGU
.((((((((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))((((-....)))))))))..-....-----......... ( -37.40)
>DroSim_CAF1 86698 100 - 1
CACGAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUAA-AUAACUUUUU---UG-UUUUUAGU----------
......(((((((..((((.......))))((.(((((((...)))))))))(((((.......)))))))))))).(((-(.(((.....---.)-))))))..---------- ( -36.40)
>DroEre_CAF1 104915 102 - 1
CACGAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCA--A-CGAACUUUUU---UGGUUUUUAAUUUU-------
..((..(((((((..((((.......))))((.(((((((...)))))))))(((((.......)))))))))))).--.-))((((....---.)))).........------- ( -37.90)
>DroWil_CAF1 146177 107 - 1
CAACAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUAA-GUAUCUUUUUUUUUG-AUUCUGUUUUUC------
.(((..(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))...(-(.(((.........)-)).)))))....------ ( -36.60)
>DroPer_CAF1 133506 113 - 1
CAACAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAAA-GUAAUUUUUUGUUUG-UUUCUCCUUUUUCAUUGU
.((((((((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))((((-....)))))))))..-.................. ( -37.40)
>consensus
CAACAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUAA_GUAACUUUUU___UG_UUUCUAGU_UU_______
......(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))....................................... (-35.90 = -35.90 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 1,938,085 – 1,938,179
Length 94
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.25
Mean single sequence MFE -38.77
Consensus MFE -35.20
Energy contribution -35.37
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.11
Structure conservation index 0.91
SVM decision value 0.23
SVM RNA-class probability 0.646528
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1938085 94 - 22407834
------------GAUU-UUC----------AUUG---ACUCACGAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUAA
------------....-.((----------((((---(..(((((....)).)))..)))))))....((((((((((((...))))))((((.(((.......))))))))).)))).. ( -38.20)
>DroPse_CAF1 135022 109 - 1
CGAGAUUGGUGUUAUU-UUU----------GGGAAACUUUCAACAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAAA
.((((((((((((...-...----------((....)).......)))))))))..))).(((((((.........)))))))(((..(((((.(((.......)))))))).))).... ( -39.52)
>DroEre_CAF1 104939 92 - 1
------------GGUU-UUC----------CUGG---AGUCACGAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCA--A
------------.(((-(((----------(..(---(..(((((....)).)))..))...)).)))))((((((((((...))))))((((.(((.......))))))))).)).--. ( -36.60)
>DroWil_CAF1 146204 105 - 1
------------GAGUGCUCCUAUAGGCAGAUCC---ACCCAACAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUAA
------------...((((......))))((.((---(((...........))))).)).(((((((.........)))))))(((..(((((.(((.......)))))))).))).... ( -40.40)
>DroAna_CAF1 109064 94 - 1
------------GGAU-UGG----------ACUC---UUCCAAGAAGCCUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAAA
------------(.((-(((----------..((---(.(((...((((.....))))...))).)))..((.(((((((...)))))))))(((((.......)))))))))).).... ( -38.40)
>DroPer_CAF1 133539 109 - 1
CGAGAUUGGUGUUAUU-UUU----------GGGAAACUUUCAACAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAAA
.((((((((((((...-...----------((....)).......)))))))))..))).(((((((.........)))))))(((..(((((.(((.......)))))))).))).... ( -39.52)
>consensus
____________GAUU_UUC__________AUGA___AUUCAACAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAAA
..............................................(((((((..((((.......))))((.(((((((...)))))))))(((((.......)))))))))))).... (-35.20 = -35.37 +   0.17)

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 09:41:42 2006