Locus 7156

Sequence ID 3L_DroMel_CAF1
Location 19,204,625 – 19,204,749
Length 124
Max. P 0.656153
window11620 window11621 window11622

overview

Window 0

Location 19,204,625 – 19,204,720
Length 95
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.34
Mean single sequence MFE -31.21
Consensus MFE -22.42
Energy contribution -21.98
Covariance contribution -0.44
Combinations/Pair 1.16
Mean z-score -1.20
Structure conservation index 0.72
SVM decision value -0.05
SVM RNA-class probability 0.509455
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19204625 95 + 23771897
-------------------------CACUAUAUCUGUCUGAUUCGCAACGGGGGCGGCACUCAAUUCGCCAAUUUUAUGAGGCGCUCGAAAGCGAAUUGAAAACAGCCCGCAAGACAUUU
-------------------------.........((((((.....)...(.((((.....((((((((((..........)))(((....)))))))))).....)))).).)))))... ( -26.90)
>DroSec_CAF1 32982 95 + 1
-------------------------CACUAUAUCUGUCUGAUUCGCAACGGGGGCUGCACUCAAUUCGCCAAUUUUAUGAGGCGCUCGAAAGCGAAUUGAAAACAGCCCGCAAGACAUUU
-------------------------.........((((((.....)...(.((((((...((((((((((..........)))(((....))))))))))...)))))).).)))))... ( -30.50)
>DroSim_CAF1 37317 95 + 1
-------------------------CACUAUAUCUGUCUGAUUCGCAACGGGGGCGGCACUCAAUUCGCCAAUUUUAUGAGGCGCUCGAAAGCGAAUUGAAAACAGCCCGCAAGACAUUU
-------------------------.........((((((.....)...(.((((.....((((((((((..........)))(((....)))))))))).....)))).).)))))... ( -26.90)
>DroEre_CAF1 35567 113 + 1
-U-----CGUGCUGGGGUACGAGUUC-CUAUAUCUGUCUGAUUCGCAACGGGGGCGGCACUCAAUUCGCCAAUUUUAUGAGGCGCUCGACAGCGAAUUGAAAACAGCCCACAAGACAUCU
-(-----(((((....))))))....-.......(((((...(((...)))((((.....((((((((((..........)))(((....)))))))))).....))))...)))))... ( -33.10)
>DroYak_CAF1 60561 114 + 1
-U-----CGGGCUGGGGUACGAGUUCACUAUAUCUGUCUGAUUCGCAACGGGAGCGGCACUCAAUUUGCCAAUUUUAUGAGGCGCUCGACGGCGAAUUGAAAACAGCCCACAAAACAUUU
-.-----.(((((((((((..((....)).))))).((.(((((((..((.(((((.(.((((..............))))))))))..)))))))))))...))))))........... ( -35.84)
>DroAna_CAF1 23579 120 + 1
AUUAGGGAGGGCGGGGCUGGGGGCAUACUAUAUCUGUCCGAUUCACAACGGGGGCGGCACUCAAUUUGCCAUUUUUAUGAGGCGCUUGGAAGCGAAUUGAAAACAGCCCACGAGAUAUUU
...........((((((((.(((((.........)))))(((((.(..((((.((((((.......)))).(((....))))).))))...).))))).....)))))).))........ ( -34.00)
>consensus
_________________________CACUAUAUCUGUCUGAUUCGCAACGGGGGCGGCACUCAAUUCGCCAAUUUUAUGAGGCGCUCGAAAGCGAAUUGAAAACAGCCCACAAGACAUUU
..................................((((((..((.....))((((.....((((((((((..........)))(((....)))))))))).....)))).)).))))... (-22.42 = -21.98 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,204,625 – 19,204,720
Length 95
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.34
Mean single sequence MFE -31.27
Consensus MFE -27.40
Energy contribution -27.48
Covariance contribution 0.09
Combinations/Pair 1.10
Mean z-score -1.34
Structure conservation index 0.88
SVM decision value 0.26
SVM RNA-class probability 0.656153
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19204625 95 - 23771897
AAAUGUCUUGCGGGCUGUUUUCAAUUCGCUUUCGAGCGCCUCAUAAAAUUGGCGAAUUGAGUGCCGCCCCCGUUGCGAAUCAGACAGAUAUAGUG-------------------------
..((((((.(.((((.((.(((((((((((....)))(((..........))))))))))).)).)))).)(((........)))))))))....------------------------- ( -30.50)
>DroSec_CAF1 32982 95 - 1
AAAUGUCUUGCGGGCUGUUUUCAAUUCGCUUUCGAGCGCCUCAUAAAAUUGGCGAAUUGAGUGCAGCCCCCGUUGCGAAUCAGACAGAUAUAGUG-------------------------
..((((((.(.(((((((.(((((((((((....)))(((..........))))))))))).))))))).)(((........)))))))))....------------------------- ( -35.10)
>DroSim_CAF1 37317 95 - 1
AAAUGUCUUGCGGGCUGUUUUCAAUUCGCUUUCGAGCGCCUCAUAAAAUUGGCGAAUUGAGUGCCGCCCCCGUUGCGAAUCAGACAGAUAUAGUG-------------------------
..((((((.(.((((.((.(((((((((((....)))(((..........))))))))))).)).)))).)(((........)))))))))....------------------------- ( -30.50)
>DroEre_CAF1 35567 113 - 1
AGAUGUCUUGUGGGCUGUUUUCAAUUCGCUGUCGAGCGCCUCAUAAAAUUGGCGAAUUGAGUGCCGCCCCCGUUGCGAAUCAGACAGAUAUAG-GAACUCGUACCCCAGCACG-----A-
..((((((.(.((((.((.(((((((((((....)))(((..........))))))))))).)).)))).)(((........)))))))))..-....((((........)))-----)- ( -32.10)
>DroYak_CAF1 60561 114 - 1
AAAUGUUUUGUGGGCUGUUUUCAAUUCGCCGUCGAGCGCCUCAUAAAAUUGGCAAAUUGAGUGCCGCUCCCGUUGCGAAUCAGACAGAUAUAGUGAACUCGUACCCCAGCCCG-----A-
..........(((((((......((((((((..((((((((((..............)))).).))))).))..))))))........(((((....)).)))...)))))))-----.- ( -30.54)
>DroAna_CAF1 23579 120 - 1
AAAUAUCUCGUGGGCUGUUUUCAAUUCGCUUCCAAGCGCCUCAUAAAAAUGGCAAAUUGAGUGCCGCCCCCGUUGUGAAUCGGACAGAUAUAGUAUGCCCCCAGCCCCGCCCUCCCUAAU
..((((((.((((((.((.(((((((.(((....)))(((..........))).))))))).)).))))(((........)))))))))))............................. ( -28.90)
>consensus
AAAUGUCUUGCGGGCUGUUUUCAAUUCGCUUUCGAGCGCCUCAUAAAAUUGGCGAAUUGAGUGCCGCCCCCGUUGCGAAUCAGACAGAUAUAGUG_________________________
..((((((.(.((((.((.(((((((((((....)))(((..........))))))))))).)).)))).)(((........)))))))))............................. (-27.40 = -27.48 +   0.09)

alignment

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secondary structure

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dotplot

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Window 2

Location 19,204,640 – 19,204,749
Length 109
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.89
Mean single sequence MFE -30.61
Consensus MFE -26.40
Energy contribution -26.35
Covariance contribution -0.05
Combinations/Pair 1.12
Mean z-score -1.53
Structure conservation index 0.86
SVM decision value 0.25
SVM RNA-class probability 0.652842
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19204640 109 - 23771897
CCUCCGCCAUGAAAAAGAAAA-----------CACAAAUGAAAUGUCUUGCGGGCUGUUUUCAAUUCGCUUUCGAGCGCCUCAUAAAAUUGGCGAAUUGAGUGCCGCCCCCGUUGCGAAU
....(((.(((...((((...-----------..(....).....))))..((((.((.(((((((((((....)))(((..........))))))))))).)).)))).))).)))... ( -31.60)
>DroSec_CAF1 32997 109 - 1
CCUCCGCCAUGAAAAUGAAAA-----------CACCAAUGAAAUGUCUUGCGGGCUGUUUUCAAUUCGCUUUCGAGCGCCUCAUAAAAUUGGCGAAUUGAGUGCAGCCCCCGUUGCGAAU
....((((((....)))....-----------.................(.(((((((.(((((((((((....)))(((..........))))))))))).))))))).)...)))... ( -35.90)
>DroSim_CAF1 37332 109 - 1
CCUACGCCAUGGAAAUGAAAA-----------CACCAAUGAAAUGUCUUGCGGGCUGUUUUCAAUUCGCUUUCGAGCGCCUCAUAAAAUUGGCGAAUUGAGUGCCGCCCCCGUUGCGAAU
....(((.((((.........-----------...(((.((....))))).((((.((.(((((((((((....)))(((..........))))))))))).)).)))))))).)))... ( -34.20)
>DroEre_CAF1 35600 107 - 1
CCUCCGACCCGAAAAAGAA-------------CGAACAUGAGAUGUCUUGUGGGCUGUUUUCAAUUCGCUGUCGAGCGCCUCAUAAAAUUGGCGAAUUGAGUGCCGCCCCCGUUGCGAAU
..((((((..........(-------------(((((((...)))).))))((((.((.(((((((((((....)))(((..........))))))))))).)).))))..)))).)).. ( -31.20)
>DroYak_CAF1 60595 107 - 1
CCUCCCCCAGAAAAAAACA-------------CCAAAAUUAAAUGUUUUGUGGGCUGUUUUCAAUUCGCCGUCGAGCGCCUCAUAAAAUUGGCAAAUUGAGUGCCGCUCCCGUUGCGAAU
.........(((((...((-------------(.(((((.....)))))))).....))))).((((((((..((((((((((..............)))).).))))).))..)))))) ( -25.04)
>DroAna_CAF1 23619 120 - 1
CCCUCGACAUAAAAAUAAGAACAGAAUAAGAAUACAAAUGAAAUAUCUCGUGGGCUGUUUUCAAUUCGCUUCCAAGCGCCUCAUAAAAAUGGCAAAUUGAGUGCCGCCCCCGUUGUGAAU
..(.((((.............................((((......))))((((.((.(((((((.(((....)))(((..........))).))))))).)).))))..)))).)... ( -25.70)
>consensus
CCUCCGCCAUGAAAAAGAAAA___________CACAAAUGAAAUGUCUUGCGGGCUGUUUUCAAUUCGCUUUCGAGCGCCUCAUAAAAUUGGCGAAUUGAGUGCCGCCCCCGUUGCGAAU
...........................................(((..((.((((.((.(((((((((((....)))(((..........))))))))))).)).)))).))..)))... (-26.40 = -26.35 +  -0.05)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:32 2006