Locus 6221

Sequence ID 3R_DroMel_CAF1
Location 16,256,591 – 16,256,755
Length 164
Max. P 0.979054
window10145 window10146

overview

Window 5

Location 16,256,591 – 16,256,687
Length 96
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 70.91
Mean single sequence MFE -15.58
Consensus MFE -8.69
Energy contribution -10.93
Covariance contribution 2.25
Combinations/Pair 1.00
Mean z-score -2.11
Structure conservation index 0.56
SVM decision value 1.83
SVM RNA-class probability 0.979054
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16256591 96 - 27905053
AAC----ACACUCUC-UCA--CACACACGGAAAGCUACAGCACAC-AGCGA-----UUCUUGAGAAAGCGUUGCCUUUAUAAUUUCUUUCAUAACGCAACCAAGCAUUG
...----......((-(((--.......((((.(((.........-)))..-----)))))))))..(((((((..((((.(......).)))).)))))...)).... ( -11.81)
>DroPse_CAF1 67981 86 - 1
-----UCCCACUCCCCAAA--AACAUAU---------CCC--CACGAAAGA-----UUCUUCAGCUUGCGUUGCCUUUAUAAUUUCUUUCAUAAGGCAACCAAGCAUUG
-----..............--.......---------...--..(....).-----.......(((((.((((((((...............))))))))))))).... ( -19.86)
>DroAna_CAF1 74570 104 - 1
AAAGCUCAUACACAC-ACACACACAUGUGUCAAAC-ACAU--CAC-GAAGAUUCCUUUCCUGAGAAAGCGCUGCCUUUAUAAUUUCUUUCAUAACGCAACCAAGCAUUG
..(((.(......((-(((......))))).....-...(--((.-((((.....)))).)))....).))).......................((......)).... ( -10.80)
>DroPer_CAF1 73300 86 - 1
-----UCCCACUCCCCAAA--AACAUAU---------CCC--CACGAAAGA-----UUCUUGAGCUUGCGUUGCCUUUAUAAUUUCUUUCAUAAGGCAACCAAGCAUUG
-----..............--.......---------...--..(....).-----.......(((((.((((((((...............))))))))))))).... ( -19.86)
>consensus
_____UCACACUCCC_AAA__AACAUAU_________CAC__CAC_AAAGA_____UUCUUGAGAAAGCGUUGCCUUUAUAAUUUCUUUCAUAACGCAACCAAGCAUUG
...............................................................(((((.((((((((...............))))))))))))).... ( -8.69 = -10.93 +   2.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 16,256,660 – 16,256,755
Length 95
Sequences 5
Columns 103
Reading direction reverse
Mean pairwise identity 70.11
Mean single sequence MFE -14.91
Consensus MFE -11.64
Energy contribution -11.64
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -0.14
Structure conservation index 0.78
SVM decision value 0.17
SVM RNA-class probability 0.618521
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16256660 95 - 27905053
AGCGGCUUAAGUUUGCGUUUUUAUUUAAUUGCGGAAAUUGUGGCUUCGCCCUGCCA-CACACACACAAAAAC----ACACUCUC-UCA--CACACACGGAAAG
..((.....(((((.(((..((....))..))).)))))(((((........))))-)..............----........-...--......))..... ( -15.40)
>DroPse_CAF1 68046 77 - 1
AGCGGCUUAAGUUUGCGUUUUUAUUUAAUUGCGGAAAUUGUGGCUUCGCCCC--CA-CA---------------UCCCACUCCCCAAA--AACAUAU------
.(((((....).))))((((((.......((.(((...(((((........)--))-))---------------)))))......)))--)))....------ ( -13.02)
>DroWil_CAF1 70100 84 - 1
UGCGGCUUAAGUUUGCGUUUUUAUUUAAUUGCGGAAAUUGUGGCUUCGCGUUGCCAACAC--ACACAUACGCACAAACACACCC-AC----------------
((((.....(((((.(((..((....))..))).))))).((((........))))....--.......))))...........-..---------------- ( -16.00)
>DroAna_CAF1 74641 94 - 1
AGCGGCUUAAGUUUGCGUUUUUAUUUAAUUGCGGAAAUUGUGGCUUCGCCCUGCUU-CAA-------AAAAAGCUCAUACACAC-ACACACACAUGUGUCAAA
.((((((..(((((.(((..((....))..))).)))))..)))..)))...((((-...-------...))))........((-(((......))))).... ( -17.10)
>DroPer_CAF1 73365 77 - 1
AGCGGCUUAAGUUUGCGUUUUUAUUUAAUUGCGGAAAUUGUGGCUUCGCCCC--CA-CA---------------UCCCACUCCCCAAA--AACAUAU------
.(((((....).))))((((((.......((.(((...(((((........)--))-))---------------)))))......)))--)))....------ ( -13.02)
>consensus
AGCGGCUUAAGUUUGCGUUUUUAUUUAAUUGCGGAAAUUGUGGCUUCGCCCUGCCA_CA_________A_____UCACACUCCC_ACA__AACAUAU______
.((((((..(((((.(((..((....))..))).)))))..)))..)))...................................................... (-11.64 = -11.64 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:56 2006