Locus 1457

Sequence ID 2L_DroMel_CAF1
Location 3,861,213 – 3,861,314
Length 101
Max. P 0.915417
window2372 window2373

overview

Window 2

Location 3,861,213 – 3,861,314
Length 101
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.01
Mean single sequence MFE -27.35
Consensus MFE -14.68
Energy contribution -15.87
Covariance contribution 1.20
Combinations/Pair 1.05
Mean z-score -1.97
Structure conservation index 0.54
SVM decision value 0.87
SVM RNA-class probability 0.871368
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3861213 101 + 22407834
-------------U----CCUCUCUGAUUUGCACAAAGUAUUUGUUUUCUUUCCGUGUAAGCUACUUGCUGUGGGCUCUUUGGAAAUGGCCCACACAAGUGCA--UUUGGGCCAUAUCUG
-------------.----.......(((..((.((((((((((((..............(((.....)))(((((((.((....)).))))))))))))))).--)))).))...))).. ( -28.00)
>DroSec_CAF1 49681 84 + 1
-------------U----G----CCGAUUUGCACAAAGUAUUUAUUUUCUUUCCGUGUAAGCUACU-------------UUGGAAAUGGCCCACACAAGUGCA--UUUGGGCCAUAUCUG
-------------(----(----(......)))((((((((((((...........))))).))))-------------)))((.((((((((((....))..--..)))))))).)).. ( -22.60)
>DroSim_CAF1 48840 84 + 1
-------------U----G----CCGGUUUGCACAAAGUAUUUAUUUUCUUUCCGUGUAAGCUACU-------------UUGGAAAUGGCCCACACAAGUGCA--UUUGGGCCAUAUCUG
-------------.----.----..(((((((((((((..........))))..)))))))))...-------------..(((.((((((((((....))..--..)))))))).))). ( -25.70)
>DroEre_CAF1 54781 97 + 1
-------------U----C----CUGAUUUGCACAAACCACUGGUUUUCUUUCCGUGUAAGCUACUUGUUUAGGGCUCCUUGGAAAUGGCCCACACAAGUGCA--UUUGGGCCAUAUCUG
-------------.----(----(..(..((((((((((...))))).......((((((((.....)))).(((((...(....).)))))))))..)))))--.)..))......... ( -26.30)
>DroYak_CAF1 52382 97 + 1
-------------U----C----CUGAUUUGCACAAAAUAUUGGUUUUCUUUCCGUGUAAGCCACUGGGUUAGGGCUCUUUGGAAAUGGCCCACACAAGUGCA--UUUGGGCCAUAUCUU
-------------.----(----(..(..(((((........((........))((((.((((....)))).(((((.((....)).)))))))))..)))))--.)..))......... ( -27.60)
>DroAna_CAF1 50458 114 + 1
UCUAGUUGCGAACUUCGGG----UCUAUUAGCCAGAAGUAUUUGUUUUCUUUCCGUGUAAGCUACUUGUUUAGGGC-CUUCGGAAAAGGCCCACACAGGCGCAGAUUCGAGCC-UAUCUU
.............((((((----(((....((((((((.......)))))....((((((((.....)))).((((-(((.....))))))))))).)))..)))))))))..-...... ( -33.90)
>consensus
_____________U____C____CCGAUUUGCACAAAGUAUUUGUUUUCUUUCCGUGUAAGCUACUUG_UUAGGGC_CUUUGGAAAUGGCCCACACAAGUGCA__UUUGGGCCAUAUCUG
...........................(((((((((((..........))))..)))))))....................(((.((((((((..............)))))))).))). (-14.68 = -15.87 +   1.20)

alignment

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secondary structure

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dotplot

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Window 3

Location 3,861,213 – 3,861,314
Length 101
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.01
Mean single sequence MFE -25.60
Consensus MFE -14.74
Energy contribution -14.82
Covariance contribution 0.08
Combinations/Pair 1.17
Mean z-score -1.95
Structure conservation index 0.58
SVM decision value 1.10
SVM RNA-class probability 0.915417
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3861213 101 - 22407834
CAGAUAUGGCCCAAA--UGCACUUGUGUGGGCCAUUUCCAAAGAGCCCACAGCAAGUAGCUUACACGGAAAGAAAACAAAUACUUUGUGCAAAUCAGAGAGG----A-------------
..........((...--.((((((((((((((..((....))..))))))).))))).))......................(((((.......))))).))----.------------- ( -25.20)
>DroSec_CAF1 49681 84 - 1
CAGAUAUGGCCCAAA--UGCACUUGUGUGGGCCAUUUCCAA-------------AGUAGCUUACACGGAAAGAAAAUAAAUACUUUGUGCAAAUCGG----C----A-------------
........(((....--(((((((((((((((.(((.....-------------))).))))))))))((((..........)))))))))....))----)----.------------- ( -22.30)
>DroSim_CAF1 48840 84 - 1
CAGAUAUGGCCCAAA--UGCACUUGUGUGGGCCAUUUCCAA-------------AGUAGCUUACACGGAAAGAAAAUAAAUACUUUGUGCAAACCGG----C----A-------------
........(((....--(((((((((((((((.(((.....-------------))).))))))))))((((..........)))))))))....))----)----.------------- ( -22.30)
>DroEre_CAF1 54781 97 - 1
CAGAUAUGGCCCAAA--UGCACUUGUGUGGGCCAUUUCCAAGGAGCCCUAAACAAGUAGCUUACACGGAAAGAAAACCAGUGGUUUGUGCAAAUCAG----G----A-------------
..(((...((.((((--(((((((((..((((....((....))))))...)))))).))...(((((........)).)))))))).))..)))..----.----.------------- ( -28.00)
>DroYak_CAF1 52382 97 - 1
AAGAUAUGGCCCAAA--UGCACUUGUGUGGGCCAUUUCCAAAGAGCCCUAACCCAGUGGCUUACACGGAAAGAAAACCAAUAUUUUGUGCAAAUCAG----G----A-------------
.....((((((((..--.((....)).)))))))).(((...(((((((.....)).))))).(((((((............))))))).......)----)----)------------- ( -26.60)
>DroAna_CAF1 50458 114 - 1
AAGAUA-GGCUCGAAUCUGCGCCUGUGUGGGCCUUUUCCGAAG-GCCCUAAACAAGUAGCUUACACGGAAAGAAAACAAAUACUUCUGGCUAAUAGA----CCCGAAGUUCGCAACUAGA
.(.(((-(((.((....)).)))))).)((((((((...))))-))))......(((.((.....(.....).........(((((.(((.....).----)).)))))..)).)))... ( -29.20)
>consensus
CAGAUAUGGCCCAAA__UGCACUUGUGUGGGCCAUUUCCAAAG_GCCCUAA_CAAGUAGCUUACACGGAAAGAAAACAAAUACUUUGUGCAAAUCAG____C____A_____________
..((.((((((((.....((....)).)))))))).)).........................((((((..............))))))............................... (-14.74 = -14.82 +   0.08)

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 10:03:09 2006