Locus 8302

Sequence ID X_DroMel_CAF1
Location 20,640,525 – 20,640,697
Length 172
Max. P 0.969189
window13629 window13630 window13631 window13632

overview

Window 9

Location 20,640,525 – 20,640,618
Length 93
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.67
Mean single sequence MFE -21.35
Consensus MFE -17.80
Energy contribution -17.72
Covariance contribution -0.08
Combinations/Pair 1.17
Mean z-score -2.91
Structure conservation index 0.83
SVM decision value 1.64
SVM RNA-class probability 0.969189
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20640525 93 - 22224390
UGACAUAUUUUUGUGCUUAGCAAAGCAAAUACUUUCAUUAUUUUUGCUGUUGGGCACAAA---AUUUCCCUC-U-CUCGACCA-CUUUUAUUCGACCCG---------------------
........((((((((((((((..(((((.............))))))))))))))))))---)........-.-.((((...-.......))))....--------------------- ( -20.92)
>DroPse_CAF1 46699 92 - 1
UGACAUAUUUUUGUGCUUAGCAAAGCAAAUACUUUCAUUAUUUUUGCUGCUGGGCC-AGGCUCCCUUCCAUG-G-CU----CUGGGUGUACUGUACCCC---------------------
...((((....))))...((((..(((((.............)))))))))(((((-(((.......)).))-)-))----).(((((.....))))).--------------------- ( -22.42)
>DroSec_CAF1 44789 94 - 1
UGACAUAUUUUUGUGCUUAGCAAAGCAAAUACUUUCAUUAUUUUUGCUGUUGGGCACAAA---AUUUCCCUCGU-CCCACCCA-CUUUUAUUCGACCCC---------------------
.(((....((((((((((((((..(((((.............))))))))))))))))))---)........))-).......-...............--------------------- ( -20.32)
>DroEre_CAF1 45555 94 - 1
UGACAUAUUUUUGUGCUUAGCAAAGCAAAUACUUUCAUUAUUUUUGCUGUUGGGCACAAA---AUUUCCCUC-UCCUCGCCCA-CUUUUAUUCGACCCG---------------------
........((((((((((((((..(((((.............))))))))))))))))))---)........-..........-...............--------------------- ( -19.92)
>DroYak_CAF1 46534 93 - 1
UGACAUAUUUUUGUGCUUAGCAAAGCAAAUACUUUCAUUAUUUUUGCUGUUGGGCACAAA---AUUUCCCUC-U-CUCGCCCA-CUUUUAUUCGACCCG---------------------
........((((((((((((((..(((((.............))))))))))))))))))---)........-.-........-...............--------------------- ( -19.92)
>DroAna_CAF1 6314 109 - 1
UGACAUAUUUUUGUGCUUAGCAAAGCAAAUACUUUCAUUAUUUUUGCUGUUGGGCACAAA--AAUUUCCCUC-U-------CG-CUUACAUUCUCCCUCUGGCUUUUCAGUUUCAGCCCG
......((((((((((((((((..(((((.............))))))))))))))))))--))).......-.-------..-................((((..........)))).. ( -24.62)
>consensus
UGACAUAUUUUUGUGCUUAGCAAAGCAAAUACUUUCAUUAUUUUUGCUGUUGGGCACAAA___AUUUCCCUC_U_CUCGCCCA_CUUUUAUUCGACCCC_____________________
.........(((((((((((((..(((((.............))))))))))))))))))............................................................ (-17.80 = -17.72 +  -0.08)

alignment

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secondary structure

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Window 0

Location 20,640,543 – 20,640,657
Length 114
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 82.60
Mean single sequence MFE -25.20
Consensus MFE -14.56
Energy contribution -14.98
Covariance contribution 0.42
Combinations/Pair 1.18
Mean z-score -2.27
Structure conservation index 0.58
SVM decision value 0.03
SVM RNA-class probability 0.548498
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20640543 114 + 22224390
UCGAG-AGAGGGAAAU---UUUGUGCCCAACAGCAAAAAUAAUGAAAGUAUUUGCUUUGCUAAGCACAAAAAUAUGUCAAAGUAAAUUUCUCUUCAUUUU-UUCCCUCUGUCCGACCUG
..((.-((((((((((---(((((........))))))..((((((((.((((((((((....(((........)))))))))))))..)).)))))).)-)))))))).))....... ( -31.90)
>DroPse_CAF1 46717 103 + 1
---AG-CCAUGGAAGGGAGCCU-GGCCCAGCAGCAAAAAUAAUGAAAGUAUUUGCUUUGCUAAGCACAAAAAUAUGUCAAAGUAAAUUUCACUUCAUUUU-CUUCUUCU----------
---..-....(((((..(((.(-(......)))).......(((((.((((((((((((....(((........)))))))))))))...))))))))..-)))))...---------- ( -18.50)
>DroEre_CAF1 45573 116 + 1
GCGAGGAGAGGGAAAU---UUUGUGCCCAACAGCAAAAAUAAUGAAAGUAUUUGCUUUGCUAAGCACAAAAAUAUGUCAAAGUAAAUUUCUCUUCAUUUUUUUUCCUCUGCCCGACCUG
.((.((((((((((((---(((((........))))))..((((((((.((((((((((....(((........)))))))))))))..)).))))))..))))))))).))))..... ( -30.20)
>DroYak_CAF1 46552 107 + 1
GCGAG-AGAGGGAAAU---UUUGUGCCCAACAGCAAAAAUAAUGAAAGUAUUUGCUUUGCUAAGCACAAAAAUAUGUCAAAGUAAAUUUCUCUUCAUUUU-UUCCCUCUGCC-------
.....-((((((((((---(((((........))))))..((((((((.((((((((((....(((........)))))))))))))..)).)))))).)-))))))))...------- ( -28.60)
>DroAna_CAF1 6352 103 + 1
------AGAGGGAAAUU--UUUGUGCCCAACAGCAAAAAUAAUGAAAGUAUUUGCUUUGCUAAGCACAAAAAUAUGUCAAAGUAAAUUUCUCUUCAUUUU-UUUUUGUUUUC-------
------...(((.....--......)))...((((((((.((((((((.((((((((((....(((........)))))))))))))..)).))))))..-))))))))...------- ( -21.20)
>DroPer_CAF1 46040 103 + 1
---AG-CCAUGGAAAGGAGCCU-GGCCCAACAGGAAAAAUAAUGAAAGUAUUUGCUUUGCUAAGCACAAAAAUAUGUCAAAGUAAAUUUCACUUCAUUUU-CUUCUUCG----------
---..-.....(((.(((((((-(......))))......((((((.((((((((((((....(((........)))))))))))))...))))))))..-))))))).---------- ( -20.80)
>consensus
___AG_AGAGGGAAAU___UUUGUGCCCAACAGCAAAAAUAAUGAAAGUAUUUGCUUUGCUAAGCACAAAAAUAUGUCAAAGUAAAUUUCUCUUCAUUUU_UUUCCUCUG_C_______
......(((((((...........((......))......((((((...((((((((((....(((........))))))))))))).....))))))....))))))).......... (-14.56 = -14.98 +   0.42)

alignment

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secondary structure

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Window 1

Location 20,640,543 – 20,640,657
Length 114
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 82.60
Mean single sequence MFE -28.57
Consensus MFE -15.63
Energy contribution -15.69
Covariance contribution 0.06
Combinations/Pair 1.23
Mean z-score -2.90
Structure conservation index 0.55
SVM decision value 0.38
SVM RNA-class probability 0.714996
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20640543 114 - 22224390
CAGGUCGGACAGAGGGAA-AAAAUGAAGAGAAAUUUACUUUGACAUAUUUUUGUGCUUAGCAAAGCAAAUACUUUCAUUAUUUUUGCUGUUGGGCACAAA---AUUUCCCUCU-CUCGA
.......((.((((((((-(..(((.((((.......))))..)))..((((((((((((((..(((((.............))))))))))))))))))---))))))))))-.)).. ( -36.82)
>DroPse_CAF1 46717 103 - 1
----------AGAAGAAG-AAAAUGAAGUGAAAUUUACUUUGACAUAUUUUUGUGCUUAGCAAAGCAAAUACUUUCAUUAUUUUUGCUGCUGGGCC-AGGCUCCCUUCCAUGG-CU---
----------....((((-.....(((((((...)))))))........((((.((((((((..(((((.............))))))))))))))-)))....)))).....-..--- ( -22.02)
>DroEre_CAF1 45573 116 - 1
CAGGUCGGGCAGAGGAAAAAAAAUGAAGAGAAAUUUACUUUGACAUAUUUUUGUGCUUAGCAAAGCAAAUACUUUCAUUAUUUUUGCUGUUGGGCACAAA---AUUUCCCUCUCCUCGC
.....((((.(((((.......(((.((((.......))))..)))..((((((((((((((..(((((.............))))))))))))))))))---)....))))).)))). ( -33.12)
>DroYak_CAF1 46552 107 - 1
-------GGCAGAGGGAA-AAAAUGAAGAGAAAUUUACUUUGACAUAUUUUUGUGCUUAGCAAAGCAAAUACUUUCAUUAUUUUUGCUGUUGGGCACAAA---AUUUCCCUCU-CUCGC
-------((.((((((((-(..(((.((((.......))))..)))..((((((((((((((..(((((.............))))))))))))))))))---))))))))))-.)).. ( -35.92)
>DroAna_CAF1 6352 103 - 1
-------GAAAACAAAAA-AAAAUGAAGAGAAAUUUACUUUGACAUAUUUUUGUGCUUAGCAAAGCAAAUACUUUCAUUAUUUUUGCUGUUGGGCACAAA--AAUUUCCCUCU------
-------((((.......-...(((.((((.......))))..))).(((((((((((((((..(((((.............))))))))))))))))))--)))))).....------ ( -23.02)
>DroPer_CAF1 46040 103 - 1
----------CGAAGAAG-AAAAUGAAGUGAAAUUUACUUUGACAUAUUUUUGUGCUUAGCAAAGCAAAUACUUUCAUUAUUUUUCCUGUUGGGCC-AGGCUCCUUUCCAUGG-CU---
----------(((.((((-((((((((((...((((.(((((.((((....)))).....))))).)))))).)))))).))))))...)))((((-(((.......)).)))-))--- ( -20.50)
>consensus
_______G_CAGAAGAAA_AAAAUGAAGAGAAAUUUACUUUGACAUAUUUUUGUGCUUAGCAAAGCAAAUACUUUCAUUAUUUUUGCUGUUGGGCACAAA___AUUUCCCUCU_CU___
...........((((.........((((.........))))........(((((((((((((..(((((.............))))))))))))))))))....))))........... (-15.63 = -15.69 +   0.06)

alignment

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secondary structure

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Window 2

Location 20,640,578 – 20,640,697
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.14
Mean single sequence MFE -16.75
Consensus MFE -11.80
Energy contribution -11.80
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.65
Structure conservation index 0.70
SVM decision value 0.58
SVM RNA-class probability 0.787110
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20640578 119 + 22224390
UAAUGAAAGUAUUUGCUUUGCUAAGCACAAAAAUAUGUCAAAGUAAAUUUCUCUUCAUUUU-UUCCCUCUGUCCGACCUGCUGGGUAUCUGGGUAUCUUCACCAUCCUCCCUCUCCCCAC
.((((((((.((((((((((....(((........)))))))))))))..)).))))))..-...................((((.....(((...............)))....)))). ( -19.56)
>DroSec_CAF1 44843 108 + 1
UAAUGAAAGUAUUUGCUUUGCUAAGCACAAAAAUAUGUCAAAGUAAAUUUCUCUUCAUUUU-UUCCCUCUGACCGACCUGCUGGGUAUCU-----UCUGCACCACCCACCCCCU------
.((((((((.((((((((((....(((........)))))))))))))..)).))))))..-...................(((((....-----........)))))......------ ( -16.40)
>DroEre_CAF1 45609 100 + 1
UAAUGAAAGUAUUUGCUUUGCUAAGCACAAAAAUAUGUCAAAGUAAAUUUCUCUUCAUUUUUUUUCCUCUGCCCGACCUGCUGGGUAUCU-----UCUUCCCC---------------AC
.((((((((.((((((((((....(((........)))))))))))))..)).))))))..........((((((......))))))...-----........---------------.. ( -18.60)
>DroYak_CAF1 46587 91 + 1
UAAUGAAAGUAUUUGCUUUGCUAAGCACAAAAAUAUGUCAAAGUAAAUUUCUCUUCAUUUU-UUCCCUCUGCC--------UGGGUAUCU-----UCUGCCCC---------------AC
.((((((((.((((((((((....(((........)))))))))))))..)).))))))..-...........--------.(((((...-----..))))).---------------.. ( -17.40)
>DroAna_CAF1 6383 95 + 1
UAAUGAAAGUAUUUGCUUUGCUAAGCACAAAAAUAUGUCAAAGUAAAUUUCUCUUCAUUUU-UUUUUGUUUUC--------UUCUUCUUC-----UCUGCCCAACCG-----------AC
.((((((((.((((((((((....(((........)))))))))))))..)).))))))..-...........--------.........-----............-----------.. ( -11.80)
>consensus
UAAUGAAAGUAUUUGCUUUGCUAAGCACAAAAAUAUGUCAAAGUAAAUUUCUCUUCAUUUU_UUCCCUCUGCCCGACCUGCUGGGUAUCU_____UCUGCCCCA_C____________AC
.((((((((.((((((((((....(((........)))))))))))))..)).))))))............................................................. (-11.80 = -11.80 +  -0.00)

alignment

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secondary structure

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:00:32 2006