Locus 4894

Sequence ID 2L_DroMel_CAF1
Location 13,978,137 – 13,978,293
Length 156
Max. P 0.993136
window7760 window7761 window7762

overview

Window 0

Location 13,978,137 – 13,978,253
Length 116
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 86.91
Mean single sequence MFE -27.34
Consensus MFE -24.04
Energy contribution -24.04
Covariance contribution -0.00
Combinations/Pair 1.15
Mean z-score -1.37
Structure conservation index 0.88
SVM decision value 0.01
SVM RNA-class probability 0.536126
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13978137 116 - 22407834
UCAGCGCCCAGACCCAAAACACAAUCGGUGACCAUCUCUGUUGUGAAGCAGAGACUCAUCUGUGGACGAUAAAGUAGCAAAAAAAAAAAAAAAACAGGUUUGGUUUCAUAGAAUAC
.......(((((((.....((((...(((((...((((((((....)))))))).))))))))).((......)).....................)))))))............. ( -27.50)
>DroSec_CAF1 65641 106 - 1
UCAGCGCCCAGGCCCAAAACACAAUCGGUGACCAUCUCUGUUGUGAAGCAGAGACUCAUCUGUGGAAGGUAAAGUAGCAAA----------AAACAGGUUUGGUUUCAUAUAAUAC
.......(((((((.....((((...(((((...((((((((....)))))))).)))))))))....((......))...----------.....)))))))............. ( -26.70)
>DroSim_CAF1 69416 106 - 1
UCAGCGCCCAGGCCCAAAACACAAUCGGUGACCAUCUCUGUUGUGAAGCAGAGACUCAUCUGUGGAAGGUAAAGUAGCAAA----------AAACAGGUUUGGUUUCAUAUAAUAC
.......(((((((.....((((...(((((...((((((((....)))))))).)))))))))....((......))...----------.....)))))))............. ( -26.70)
>DroEre_CAF1 68442 105 - 1
UCAGCACCCAGGCCCAAAACGCAGUCGGUGACCAUCUCAGUUGUAAAGCAGAGACUCAUCUGCGAA-GGCCAAGUAGCACA----------AAACGGGUUUGGGUUCAUAUAAUGC
...(.((((((((((....(((((...((((...((((.(((....))).)))).)))))))))..-.((......))...----------....)))))))))).)......... ( -34.40)
>DroYak_CAF1 74959 106 - 1
UCAGCACCCAGGCCCAAAACGCAAUCGGUGACCAUCUCGGUUGUAAAGCAGAGACUCAUCUGUGUAUGGCAAAGUAGCACG----------AAACAGGUUUGUAUUCAUAUAAUAU
...((((....(((....(((((...(((((...((((.(((....))).)))).))))))))))..)))...)).))(((----------((.....)))))............. ( -21.40)
>consensus
UCAGCGCCCAGGCCCAAAACACAAUCGGUGACCAUCUCUGUUGUGAAGCAGAGACUCAUCUGUGGAAGGUAAAGUAGCAAA__________AAACAGGUUUGGUUUCAUAUAAUAC
.......(((((((.....((((...(((((...((((((((....)))))))).)))))))))....((......))..................)))))))............. (-24.04 = -24.04 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 13,978,173 – 13,978,293
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.92
Mean single sequence MFE -36.18
Consensus MFE -30.12
Energy contribution -30.04
Covariance contribution -0.08
Combinations/Pair 1.13
Mean z-score -1.28
Structure conservation index 0.83
SVM decision value -0.00
SVM RNA-class probability 0.531260
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13978173 120 + 22407834
UUGCUACUUUAUCGUCCACAGAUGAGUCUCUGCUUCACAACAGAGAUGGUCACCGAUUGUGUUUUGGGUCUGGGCGCUGAAAGCUUUUCGGAUAAGCCCACACCCAUAAUGUCGAAAAUC
..(((......(((((....)))))(((((((........))))))))))...((((...(((.(((((.(((((.(((((.....)))))....))))).))))).)))))))...... ( -38.20)
>DroSec_CAF1 65667 120 + 1
UUGCUACUUUACCUUCCACAGAUGAGUCUCUGCUUCACAACAGAGAUGGUCACCGAUUGUGUUUUGGGCCUGGGCGCUGAAAGCUUUUCGGAUAAGCCCACACCCAUAAUGUCGAAAAUC
....................(((..(((((((........))))))).)))..((((...(((.((((..(((((.(((((.....)))))....)))))..)))).)))))))...... ( -35.20)
>DroSim_CAF1 69442 120 + 1
UUGCUACUUUACCUUCCACAGAUGAGUCUCUGCUUCACAACAGAGAUGGUCACCGAUUGUGUUUUGGGCCUGGGCGCUGAAAGCUUUUCGGAUAAGCCCACACCCAUAAUGUCGAAAAUC
....................(((..(((((((........))))))).)))..((((...(((.((((..(((((.(((((.....)))))....)))))..)))).)))))))...... ( -35.20)
>DroEre_CAF1 68468 119 + 1
GUGCUACUUGGCC-UUCGCAGAUGAGUCUCUGCUUUACAACUGAGAUGGUCACCGACUGCGUUUUGGGCCUGGGUGCUGAAAGCUUUACGGAUAAGCCCACACCCGUAAUGGCGAAAAUC
.(((((...((((-(.(((((....(((((............)))))((...))..)))))....))))).(((((.((...((((.......)))).)))))))....)))))...... ( -36.90)
>DroYak_CAF1 74985 120 + 1
GUGCUACUUUGCCAUACACAGAUGAGUCUCUGCUUUACAACCGAGAUGGUCACCGAUUGCGUUUUGGGCCUGGGUGCUGAAAGCUUUUCGGACAAGCCCACACCCGUAGUGGCGAAAAUC
.......((((((((((...(((..(((((.(........).))))).)))..............(((..(((((.(((((.....)))))....)))))..))))).)))))))).... ( -35.40)
>consensus
UUGCUACUUUACCUUCCACAGAUGAGUCUCUGCUUCACAACAGAGAUGGUCACCGAUUGUGUUUUGGGCCUGGGCGCUGAAAGCUUUUCGGAUAAGCCCACACCCAUAAUGUCGAAAAUC
....................(((..(((((((........))))))).))).....(((((((.((((..(((((.(((((.....)))))....)))))..)))).)))).)))..... (-30.12 = -30.04 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 2

Location 13,978,173 – 13,978,293
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.92
Mean single sequence MFE -39.62
Consensus MFE -34.06
Energy contribution -33.22
Covariance contribution -0.84
Combinations/Pair 1.20
Mean z-score -2.11
Structure conservation index 0.86
SVM decision value 2.38
SVM RNA-class probability 0.993136
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13978173 120 - 22407834
GAUUUUCGACAUUAUGGGUGUGGGCUUAUCCGAAAAGCUUUCAGCGCCCAGACCCAAAACACAAUCGGUGACCAUCUCUGUUGUGAAGCAGAGACUCAUCUGUGGACGAUAAAGUAGCAA
.....(((......(((((.(((((((....))...((.....))))))).)))))...((((...(((((...((((((((....)))))))).)))))))))..)))........... ( -38.60)
>DroSec_CAF1 65667 120 - 1
GAUUUUCGACAUUAUGGGUGUGGGCUUAUCCGAAAAGCUUUCAGCGCCCAGGCCCAAAACACAAUCGGUGACCAUCUCUGUUGUGAAGCAGAGACUCAUCUGUGGAAGGUAAAGUAGCAA
.((((((.(((...(((((.(((((((....))...((.....))))))).)))))..........(((((...((((((((....)))))))).)))))))).)))))).......... ( -41.10)
>DroSim_CAF1 69442 120 - 1
GAUUUUCGACAUUAUGGGUGUGGGCUUAUCCGAAAAGCUUUCAGCGCCCAGGCCCAAAACACAAUCGGUGACCAUCUCUGUUGUGAAGCAGAGACUCAUCUGUGGAAGGUAAAGUAGCAA
.((((((.(((...(((((.(((((((....))...((.....))))))).)))))..........(((((...((((((((....)))))))).)))))))).)))))).......... ( -41.10)
>DroEre_CAF1 68468 119 - 1
GAUUUUCGCCAUUACGGGUGUGGGCUUAUCCGUAAAGCUUUCAGCACCCAGGCCCAAAACGCAGUCGGUGACCAUCUCAGUUGUAAAGCAGAGACUCAUCUGCGAA-GGCCAAGUAGCAC
.......((...(((((((((.(((((.......)))))....)))))).((((.....(((((...((((...((((.(((....))).)))).)))))))))..-))))..))))).. ( -38.40)
>DroYak_CAF1 74985 120 - 1
GAUUUUCGCCACUACGGGUGUGGGCUUGUCCGAAAAGCUUUCAGCACCCAGGCCCAAAACGCAAUCGGUGACCAUCUCGGUUGUAAAGCAGAGACUCAUCUGUGUAUGGCAAAGUAGCAC
.(((((.((((.(((((((.((((..(((..(((.....))).))))))).)))).....((((((((.(.....)))))))))...(((((......)))))))))))))))))..... ( -38.90)
>consensus
GAUUUUCGACAUUAUGGGUGUGGGCUUAUCCGAAAAGCUUUCAGCGCCCAGGCCCAAAACACAAUCGGUGACCAUCUCUGUUGUGAAGCAGAGACUCAUCUGUGGAAGGUAAAGUAGCAA
...........((((((((((.(((((.......)))))....))))))..(((.....((((...(((((...((((((((....)))))))).)))))))))...)))...))))... (-34.06 = -33.22 +  -0.84)

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 11:30:22 2006