Locus 732

Sequence ID 2R_DroMel_CAF1
Location 3,589,024 – 3,589,151
Length 127
Max. P 0.955071
window1285 window1286

overview

Window 5

Location 3,589,024 – 3,589,127
Length 103
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 88.18
Mean single sequence MFE -21.80
Consensus MFE -18.90
Energy contribution -19.07
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.40
Structure conservation index 0.87
SVM decision value 1.45
SVM RNA-class probability 0.955071
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3589024 103 - 20766785
UGAU--UACAACAAAGG--AACUUACCCGGCGGGAUGAGCUAUGAAUCCUGCCGUCCAUCUAAUAGUUGUCCC-A-U--AAA-AAAUUAAAAGAAAUUAUAAAGAA-----AAGUCA--
.(((--((((((...((--......))(((((((((.........)))))))))...........)))))...-.-.--...-...(((.((....)).)))....-----.)))).-- ( -21.30)
>DroVir_CAF1 1730 110 - 1
UGAUACAACAACAAAGGAAAACUUACCCGGCGGGAUGAGCUAUGAAUCCUGCCGUCCAUCUAAU-GUUGUCCCAA-U--AAAAAAAUCAAAAGAAAUUAUAAAGAAAA---AAGUCA--
((..((((((...(((.....)))...(((((((((.........))))))))).........)-)))))..)).-.--.............................---......-- ( -22.00)
>DroGri_CAF1 1568 109 - 1
UGAUACAACAACAAAAGGAAACUUACCCGGCGGGAUGAGCUAUGAAUCCUGCCGUCCAUCUAAU-GUUGUCCC-A-U--AAAAAAAUCAAAGGAAAUUAUAAAGAAAA---AAGUCA--
((..((((((....(((....)))...(((((((((.........))))))))).........)-)))))..)-)-.--.............................---......-- ( -24.80)
>DroWil_CAF1 1844 111 - 1
AAAC--AACAACAAAGA--AACUUACCCGGCGGGAUGAGCUAUGAAUCCUGCCGUCCAUCUAAU-GUUGUCCC-AAUAAAAA-AAAUCAAAAGAAAUUAUAAAGAAUAA-AGAGUCGGC
....--.((((((.(((--........(((((((((.........)))))))))....)))..)-)))))...-........-..........................-......... ( -19.00)
>DroMoj_CAF1 2176 112 - 1
UGAUACAACAACAAAGGAAAACUUACCCGGCGGGAUGAGCUAUGAAUCCUGCCGUCCAUCUAAU-GUUGUCCC-A-U--AAAAAAAUCAAAAGAAAUUAUAAAGAAAAACAAAGUCA--
((..((((((...(((.....)))...(((((((((.........))))))))).........)-)))))..)-)-.--......................................-- ( -21.80)
>DroPer_CAF1 1417 102 - 1
UGAUU-UACAACAAAGG--AACUUACCCGGCGGGAUGAGCUAUGAAUCCUGCCGUCCAUCU---AGUUGUCCC-A-U--AAAAAAAUCAAAAGAAAUUAUAAAGAA-----AGGUCA--
(((((-((((((...((--......))(((((((((.........))))))))).......---.)))))...-.-.--....)))))).................-----......-- ( -21.90)
>consensus
UGAUA_AACAACAAAGG__AACUUACCCGGCGGGAUGAGCUAUGAAUCCUGCCGUCCAUCUAAU_GUUGUCCC_A_U__AAAAAAAUCAAAAGAAAUUAUAAAGAAAA___AAGUCA__
.......(((((.(((.....)))...(((((((((.........)))))))))...........)))))................................................. (-18.90 = -19.07 +   0.17)

alignment

Postscript

secondary structure

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dotplot

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Window 6

Location 3,589,055 – 3,589,151
Length 96
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 79.00
Mean single sequence MFE -21.65
Consensus MFE -18.90
Energy contribution -19.07
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.08
Structure conservation index 0.87
SVM decision value 1.41
SVM RNA-class probability 0.951706
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3589055 96 - 20766785
----CCA-------AGAAUUA-AGCAA-CU-UUACACGUGAU--UACAACAAAGG--AACUUACCCGGCGGGAUGAGCUAUGAAUCCUGCCGUCCAUCUAAUAGUUGUCCCA-U--A
----...-------.......-.((((-((-......((...--....))...((--(.......(((((((((.........)))))))))))).......))))))....-.--. ( -21.51)
>DroPse_CAF1 1469 95 - 1
----CCA-------GAAAUUA-AGCAA-CUUUUACACAUGAUU-UACAACAAAGG--AACUUACCCGGCGGGAUGAGCUAUGAAUCCUGCCGUCCAUCU---AGUUGUCCCA-U--A
----...-------.......-.((((-((.....((......-.........((--.......))((((((((.........))))))))))......---))))))....-.--. ( -20.30)
>DroGri_CAF1 1602 85 - 1
----------------------------CUUAUUCACUUGAUACAACAACAAAAGGAAACUUACCCGGCGGGAUGAGCUAUGAAUCCUGCCGUCCAUCUAAU-GUUGUCCCA-U--A
----------------------------..........((..((((((....(((....)))...(((((((((.........))))))))).........)-)))))..))-.--. ( -25.00)
>DroWil_CAF1 1881 99 - 1
AGAUCCA-------AAAACUA-AACAAACU-G----CAAAAC--AACAACAAAGA--AACUUACCCGGCGGGAUGAGCUAUGAAUCCUGCCGUCCAUCUAAU-GUUGUCCCAAUAAA
.......-------.......-........-.----......--.((((((.(((--........(((((((((.........)))))))))....)))..)-)))))......... ( -19.00)
>DroAna_CAF1 1475 105 - 1
----CCACCAAAAAAAAAUUAUAGCAA-CUCUUACAUGUGAU--UACAACAAAGG--AACUUACCCGGCGGGAUGAGCUAUGAAUCCUGCCGUCCAUCUAAUUGUUGUCCCA-U--A
----...................((((-(..(((.(((.(((--.........((--.......))((((((((.........)))))))))))))).)))..)))))....-.--. ( -23.80)
>DroPer_CAF1 1449 95 - 1
----CCA-------GAAAUUA-AGCAA-CUUUUACACAUGAUU-UACAACAAAGG--AACUUACCCGGCGGGAUGAGCUAUGAAUCCUGCCGUCCAUCU---AGUUGUCCCA-U--A
----...-------.......-.((((-((.....((......-.........((--.......))((((((((.........))))))))))......---))))))....-.--. ( -20.30)
>consensus
____CCA_______AAAAUUA_AGCAA_CUUUUACACAUGAU__UACAACAAAGG__AACUUACCCGGCGGGAUGAGCUAUGAAUCCUGCCGUCCAUCUAAUAGUUGUCCCA_U__A
.............................................(((((.(((.....)))...(((((((((.........)))))))))...........)))))......... (-18.90 = -19.07 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:50 2006