Locus 8389

Sequence ID 3L_DroMel_CAF1
Location 22,056,363 – 22,056,457
Length 94
Max. P 0.967326
window13719 window13720

overview

Window 9

Location 22,056,363 – 22,056,457
Length 94
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 81.24
Mean single sequence MFE -32.04
Consensus MFE -19.18
Energy contribution -19.12
Covariance contribution -0.05
Combinations/Pair 1.21
Mean z-score -3.78
Structure conservation index 0.60
SVM decision value 1.61
SVM RNA-class probability 0.967326
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22056363 94 + 23771897
AAAAAGGCCAAAAGCUUAAGCC--UCGUGCGGUCAACAAAAAGCCGGCCGCAAUGGGAAAAAUAAAUACGGGCUCAGGCUG-------UUGG-UCG-UGGAUAAA----------
.....((((((.(((((.((((--.(((((((((...........)))))).((.......))....))))))).))))).-------))))-)).-........---------- ( -32.50)
>DroPse_CAF1 53886 90 + 1
AAAAAGGCCAAAAGCUUAAGCCCCCCGUGCGGUCAACAAAAAGCUGGCCGCAAUGGGAAAAAUAAAUACGGGCUCAGGCUG-------UU--------GGAUGAA----------
.......((((.(((((.(((((((((((((((((.(.....).))))))).)))))............))))).))))).-------))--------)).....---------- ( -37.10)
>DroGri_CAF1 42830 108 + 1
---AAGGCCAAAAGCUUAAGCC--UUAUGCGGUCAACAA-AAGCCGGCCGCAAUGGGAAAAAUAAAUAUGGGCUCAGUGCCAGUGCCAGUGCACUA-UGGGCAAAAAUCCAUCUG
---.((((.....))))...((--(..(((((((.....-.....)))))))..)))..........(((((.....(((((((((....))))).-..))))....)))))... ( -30.70)
>DroEre_CAF1 41793 94 + 1
AAAAAGGCCAAAAGCUUAAGCC--UCGUGCGGUCAACAAAAAGCCGGCCGCAAUGGGAAAAAUAAAUACGGGCUCAGGCUG-------UUGG-UCC-UGGAUGAA----------
....(((((((.(((((.((((--.(((((((((...........)))))).((.......))....))))))).))))).-------))))-.))-).......---------- ( -32.10)
>DroYak_CAF1 45683 94 + 1
AAAAAGGCCAAAAGCUUAAGCC--UCGUGCGGUCAACAAAAAGCCGACCGCAAUGGGAAAAAUAAAUACAGGCUCAGGCUG-------UGGG-CCG-UGGAUAAA----------
.....((((...(((((.((((--...(((((((...........))))))).((.............)))))).))))).-------..))-)).-........---------- ( -33.02)
>DroAna_CAF1 59518 94 + 1
-AAAAGGGCAAAAGCUUAAGCC--UCGUGCGGUCAACAAAAAAGCGGCCGCAGUGGGAAAAAUAAAUACGGGCUCAGGCUG-------UUGG-ACGCUGGAUAAA----------
-....(..(((.(((((.((((--(..(((((((...........)))))))(((...........)))))))).))))).-------))).-.)..........---------- ( -26.80)
>consensus
AAAAAGGCCAAAAGCUUAAGCC__UCGUGCGGUCAACAAAAAGCCGGCCGCAAUGGGAAAAAUAAAUACGGGCUCAGGCUG_______UUGG_CCG_UGGAUAAA__________
............(((((.((((..((((((((((...........))))))).)))..............)))).)))))................................... (-19.18 = -19.12 +  -0.05) 

alignment

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secondary structure

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dotplot

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Window 0

Location 22,056,363 – 22,056,457
Length 94
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 81.24
Mean single sequence MFE -31.49
Consensus MFE -18.36
Energy contribution -18.45
Covariance contribution 0.09
Combinations/Pair 1.17
Mean z-score -3.73
Structure conservation index 0.58
SVM decision value 1.58
SVM RNA-class probability 0.965152
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22056363 94 - 23771897
----------UUUAUCCA-CGA-CCAA-------CAGCCUGAGCCCGUAUUUAUUUUUCCCAUUGCGGCCGGCUUUUUGUUGACCGCACGA--GGCUUAAGCUUUUGGCCUUUUU
----------........-.(.-((((-------.(((.(((((((((................((((.((((.....)))).))))))).--)))))).))).)))).)..... ( -28.89)
>DroPse_CAF1 53886 90 - 1
----------UUCAUCC--------AA-------CAGCCUGAGCCCGUAUUUAUUUUUCCCAUUGCGGCCAGCUUUUUGUUGACCGCACGGGGGGCUUAAGCUUUUGGCCUUUUU
----------.....((--------((-------.(((.(((((((............(((..(((((.((((.....)))).))))).)))))))))).))).))))....... ( -34.80)
>DroGri_CAF1 42830 108 - 1
CAGAUGGAUUUUUGCCCA-UAGUGCACUGGCACUGGCACUGAGCCCAUAUUUAUUUUUCCCAUUGCGGCCGGCUU-UUGUUGACCGCAUAA--GGCUUAAGCUUUUGGCCUU---
...((((.((..((((..-.(((((....)))))))))..))..))))...............(((((.((((..-..)))).))))).((--((((.........))))))--- ( -33.90)
>DroEre_CAF1 41793 94 - 1
----------UUCAUCCA-GGA-CCAA-------CAGCCUGAGCCCGUAUUUAUUUUUCCCAUUGCGGCCGGCUUUUUGUUGACCGCACGA--GGCUUAAGCUUUUGGCCUUUUU
----------.......(-((.-((((-------.(((.(((((((((................((((.((((.....)))).))))))).--)))))).))).))))))).... ( -32.69)
>DroYak_CAF1 45683 94 - 1
----------UUUAUCCA-CGG-CCCA-------CAGCCUGAGCCUGUAUUUAUUUUUCCCAUUGCGGUCGGCUUUUUGUUGACCGCACGA--GGCUUAAGCUUUUGGCCUUUUU
----------........-.((-((..-------.(((.(((((((((................(((((((((.....))))))))))).)--)))))).)))...))))..... ( -35.49)
>DroAna_CAF1 59518 94 - 1
----------UUUAUCCAGCGU-CCAA-------CAGCCUGAGCCCGUAUUUAUUUUUCCCACUGCGGCCGCUUUUUUGUUGACCGCACGA--GGCUUAAGCUUUUGCCCUUUU-
----------..........(.-.(((-------.(((.(((((((((................(((((.((......)).).))))))).--)))))).))).)))..)....- ( -23.19)
>consensus
__________UUUAUCCA_CGA_CCAA_______CAGCCUGAGCCCGUAUUUAUUUUUCCCAUUGCGGCCGGCUUUUUGUUGACCGCACGA__GGCUUAAGCUUUUGGCCUUUUU
...................................(((.((((((..................(((((.((((.....)))).))))).....)))))).)))............ (-18.36 = -18.45 +   0.09) 

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 13:14:08 2006