Locus 6341

Sequence ID 2L_DroMel_CAF1
Location 17,710,353 – 17,710,456
Length 103
Max. P 0.972493
window10138 window10139

overview

Window 8

Location 17,710,353 – 17,710,456
Length 103
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.92
Mean single sequence MFE -24.44
Consensus MFE -19.08
Energy contribution -19.00
Covariance contribution -0.08
Combinations/Pair 1.11
Mean z-score -0.95
Structure conservation index 0.78
SVM decision value 0.05
SVM RNA-class probability 0.556943
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17710353 103 + 22407834
UACUUCGACAGUACGCGAUAAUGGCGGAUAGCCCUUGUCUUGGGCCAUGGCCUCUAACUUGUAUGUCUCGCGCUGUAU----------------UUUAUAUACAUUUCACGAUCAAUAU-
......((((.(((..(((((.(((.....))).)))))..((((....)))).......)))))))(((.(.(((((----------------.....)))))...).))).......- ( -25.30)
>DroVir_CAF1 8475 95 + 1
UACUUCGACCGUACGCGAUAAUGGCGGAUAGCCCUUGUCUUGGGCCAUCGCCUCUAAUUUGUAUGUCUCGCGCUGUUU----------------UUUGAAUACAUAUUCAU---------
.....(((.((((((.......((((.((.((((.......)))).)))))).......))))))..)))........----------------..(((((....))))).--------- ( -22.94)
>DroGri_CAF1 11871 104 + 1
UACUUCGACCGUUCGCGAUAAUGGCGGAUAGCCCUUGUCUUGGGCCAUCGCCUCUAAUUUGUAUGUCUCGCGCUGUAU----------------UUCAAAUACAUUUUCAAUUCAAUUUG
.............(((((((..((((.((.((((.......)))).))))))..))...........))))).(((((----------------.....)))))................ ( -20.80)
>DroWil_CAF1 7115 115 + 1
UACCUCGACAGUACGAGAUAAUGGCGGAUAGCCUUUGUCUUGGGCCAUUGCCUCUAAUUUGUAUGUCUCGCGCUGUAUAUAUCAUUUGCGGUUUAUUAUAUACAUUUU----UUUUUGU-
.......((((..((((((((.(((.....))).))))))))(((....))).......(((((((.....((((((.........)))))).....)))))))....----...))))- ( -27.40)
>DroMoj_CAF1 9488 92 + 1
CACUUCGACCGUGCGCGAUAAUGGCGGAUAGCCCUUGUCUUGGGCCAUCGCCUCUAAUUUGUAUGUCUCGCGCUGUAU----------------UUUGAAUGCGA---UAG---------
..........(((((.((((..((((.((.((((.......)))).)))))).(......)..)))).)))))(((((----------------.....))))).---...--------- ( -25.40)
>DroPer_CAF1 38976 91 + 1
UACUUCGACAGUACGCGAUAGUGGCGGAUAGCCCUUGUCUUGGGCCAUGGCCUCUAACUUGUAUGUCUCGCGCUGUAU----------------UUUAUAUACAUUU-------------
......((((.((((.(.(((.(((.(...((((.......))))..).))).))).).))))))))......(((((----------------.....)))))...------------- ( -24.80)
>consensus
UACUUCGACAGUACGCGAUAAUGGCGGAUAGCCCUUGUCUUGGGCCAUCGCCUCUAAUUUGUAUGUCUCGCGCUGUAU________________UUUAAAUACAUUUU_A__________
......(((.((((..(((((.(((.....))).)))))..((((....)))).......)))))))..................................................... (-19.08 = -19.00 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 9

Location 17,710,353 – 17,710,456
Length 103
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.92
Mean single sequence MFE -28.28
Consensus MFE -19.43
Energy contribution -19.82
Covariance contribution 0.39
Combinations/Pair 1.06
Mean z-score -2.68
Structure conservation index 0.69
SVM decision value 1.69
SVM RNA-class probability 0.972493
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17710353 103 - 22407834
-AUAUUGAUCGUGAAAUGUAUAUAAA----------------AUACAGCGCGAGACAUACAAGUUAGAGGCCAUGGCCCAAGACAAGGGCUAUCCGCCAUUAUCGCGUACUGUCGAAGUA
-.......(((((...(((((.....----------------))))).)))))(((((((..(.(((.(((.(((((((.......)))))))..))).))).)..))).))))...... ( -31.50)
>DroVir_CAF1 8475 95 - 1
---------AUGAAUAUGUAUUCAAA----------------AAACAGCGCGAGACAUACAAAUUAGAGGCGAUGGCCCAAGACAAGGGCUAUCCGCCAUUAUCGCGUACGGUCGAAGUA
---------.(((((....)))))..----------------.....((((((......(......).(((((((((((.......))))))).))))....))))))............ ( -28.70)
>DroGri_CAF1 11871 104 - 1
CAAAUUGAAUUGAAAAUGUAUUUGAA----------------AUACAGCGCGAGACAUACAAAUUAGAGGCGAUGGCCCAAGACAAGGGCUAUCCGCCAUUAUCGCGAACGGUCGAAGUA
....((((.(((....(((((.....----------------))))).(((((......(......).(((((((((((.......))))))).))))....)))))..))))))).... ( -29.20)
>DroWil_CAF1 7115 115 - 1
-ACAAAAA----AAAAUGUAUAUAAUAAACCGCAAAUGAUAUAUACAGCGCGAGACAUACAAAUUAGAGGCAAUGGCCCAAGACAAAGGCUAUCCGCCAUUAUCUCGUACUGUCGAGGUA
-.......----....((((((((...............))))))))((....).)............(((.((((((.........))))))..)))..(((((((......))))))) ( -23.46)
>DroMoj_CAF1 9488 92 - 1
---------CUA---UCGCAUUCAAA----------------AUACAGCGCGAGACAUACAAAUUAGAGGCGAUGGCCCAAGACAAGGGCUAUCCGCCAUUAUCGCGCACGGUCGAAGUG
---------...---.(((.(((...----------------((...((((((......(......).(((((((((((.......))))))).))))....))))))...)).)))))) ( -29.10)
>DroPer_CAF1 38976 91 - 1
-------------AAAUGUAUAUAAA----------------AUACAGCGCGAGACAUACAAGUUAGAGGCCAUGGCCCAAGACAAGGGCUAUCCGCCACUAUCGCGUACUGUCGAAGUA
-------------...(((((.....----------------)))))(((((((((......)))((.(((.(((((((.......)))))))..))).)).))))))(((.....))). ( -27.70)
>consensus
__________U_AAAAUGUAUAUAAA________________AUACAGCGCGAGACAUACAAAUUAGAGGCGAUGGCCCAAGACAAGGGCUAUCCGCCAUUAUCGCGUACGGUCGAAGUA
...............................................((((((......(......).(((.(((((((.......)))))))..)))....))))))............ (-19.43 = -19.82 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:48 2006