Locus 7195

Sequence ID 2L_DroMel_CAF1
Location 20,212,604 – 20,212,754
Length 150
Max. P 0.979547
window11487 window11488

overview

Window 7

Location 20,212,604 – 20,212,714
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.57
Mean single sequence MFE -34.64
Consensus MFE -28.46
Energy contribution -29.14
Covariance contribution 0.68
Combinations/Pair 1.06
Mean z-score -2.19
Structure conservation index 0.82
SVM decision value 1.84
SVM RNA-class probability 0.979547
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20212604 110 - 22407834
AACGCUUGCAACUGGAACAACAAAGUGCACGCAAGUGUGCAUAAAUGCCUUUGCAGGACUUGUGGCAGCAUGUGUUCCUAAUUUCGAUAAAGGCAUUACCCAGAUAUGGA----------
...........((((.........(..(((....)))..)...((((((((((..(((.(((.((.(((....)))))))).)))..))))))))))..)))).......---------- ( -34.50)
>DroSec_CAF1 53837 110 - 1
AACGCUUGCAACUGGAACAACGAAGUGCACGCAAGUGUGCAUAAAUGCCUUUGCAGGACUUGUGGCAGCAAGUGUUCCUAAUUUCGAUAAAGGCAUUGCCCAGAUAUGGA----------
...........((((.........(..(((....)))..)...((((((((((..(((.(((.((.(((....)))))))).)))..))))))))))..)))).......---------- ( -34.50)
>DroSim_CAF1 31009 110 - 1
AACGCUUGCAACUGGAACAACAAAGUGCACGCAAGUGUGGAUAAAUGCCUUUGCAGGACUUGUGGCAGCAAGUGUUCCUAAUUUCGAUAAAGGCAUUGCCCAGAUAUGGA----------
.((((((((.(((..........)))....))))))))((...((((((((((..(((.(((.((.(((....)))))))).)))..))))))))))..)).........---------- ( -31.90)
>DroEre_CAF1 9379 120 - 1
CACGCUUGCAACUGGAACAACAAAGUGCACGCAAGUGUGCAUAAAUGCCUUUGCAGGACUUGUGGCAGCGAGUGUUCCUAAUUUCGGUAAAGGCAUUACCGAGAUAUGGUUUCUGUUCCA
.............((((((.....(..(((....)))..)...((((((((((((((((((((....)))))...)))).......)))))))))))...(((((...))))))))))). ( -39.91)
>DroYak_CAF1 7031 119 - 1
UACGCUUGCAACUGGAACAACAAAGUGCACGCAAGUGUACAUAAAUGCCUUUGCAGAACUUGUGGC-GCAAGUGUUCCUAAUUUCGAUAAAGACAUUACCGAGAUAUGGUUUCUGUUCUA
.((((((((...............((((((....))))))......(((...((((...)))))))-)))))))).((..((((((.(((.....))).))))))..))........... ( -32.40)
>consensus
AACGCUUGCAACUGGAACAACAAAGUGCACGCAAGUGUGCAUAAAUGCCUUUGCAGGACUUGUGGCAGCAAGUGUUCCUAAUUUCGAUAAAGGCAUUACCCAGAUAUGGA__________
...........((((.........((((((....))))))...((((((((((..(((.(((.((.(((....)))))))).)))..))))))))))..))))................. (-28.46 = -29.14 +   0.68)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,212,634 – 20,212,754
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.83
Mean single sequence MFE -38.52
Consensus MFE -33.05
Energy contribution -32.81
Covariance contribution -0.24
Combinations/Pair 1.13
Mean z-score -1.53
Structure conservation index 0.86
SVM decision value 0.91
SVM RNA-class probability 0.879288
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20212634 120 - 22407834
CCUCGUUGCGACUCGACCAGAGUUAAUGUGCCGCGAUUUUAACGCUUGCAACUGGAACAACAAAGUGCACGCAAGUGUGCAUAAAUGCCUUUGCAGGACUUGUGGCAGCAUGUGUUCCUA
....((((((((((.....)))))........(((.......)))..))))).((((((.....(..(((....)))..)....((((..(..(((...)))..)..)))).)))))).. ( -39.40)
>DroSec_CAF1 53867 120 - 1
CCUCUUGGCGACUCGACCAGAGUUAAUGUGCCGCGAUUUUAACGCUUGCAACUGGAACAACGAAGUGCACGCAAGUGUGCAUAAAUGCCUUUGCAGGACUUGUGGCAGCAAGUGUUCCUA
..((.(((((((((.....))))).....)))).))....(((((((((...............(..(((....)))..).....((((...((((...))))))))))))))))).... ( -37.70)
>DroSim_CAF1 31039 120 - 1
CCUCGUUGCGACUCGACCAGAGUUAAUGUGCCGCGAUUUUAACGCUUGCAACUGGAACAACAAAGUGCACGCAAGUGUGGAUAAAUGCCUUUGCAGGACUUGUGGCAGCAAGUGUUCCUA
....((((((((((.....)))))........(((.......)))..))))).((((((......(((.((((((((..((........))..)...)))))))))).....)))))).. ( -35.90)
>DroEre_CAF1 9419 120 - 1
CCUCGUUGGGACUCUGGCAGAGUUAAUGUGCCGCGAUUUUCACGCUUGCAACUGGAACAACAAAGUGCACGCAAGUGUGCAUAAAUGCCUUUGCAGGACUUGUGGCAGCGAGUGUUCCUA
.((((((..(((((.....))))).....(((((((........(((((((..((.........(..(((....)))..).......)).)))))))..)))))))))))))........ ( -39.69)
>DroYak_CAF1 7071 119 - 1
CCUCGUUGGAACUCAGCCAGAGUUAAUGCGCCGCGAUUUUUACGCUUGCAACUGGAACAACAAAGUGCACGCAAGUGUACAUAAAUGCCUUUGCAGAACUUGUGGC-GCAAGUGUUCCUA
.......(((((.((((....)))..((((((((((.(((......(((((..((.........((((((....)))))).......)).)))))))).)))))))-))).).))))).. ( -39.89)
>consensus
CCUCGUUGCGACUCGACCAGAGUUAAUGUGCCGCGAUUUUAACGCUUGCAACUGGAACAACAAAGUGCACGCAAGUGUGCAUAAAUGCCUUUGCAGGACUUGUGGCAGCAAGUGUUCCUA
.........(((((.....)))))..((((((((((........(((((((..((.........((((((....)))))).......)).)))))))..))))))).))).......... (-33.05 = -32.81 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:47 2006