Locus 8069

Sequence ID X_DroMel_CAF1
Location 20,098,382 – 20,098,528
Length 146
Max. P 0.999847
window13240 window13241 window13242 window13243

overview

Window 0

Location 20,098,382 – 20,098,491
Length 109
Sequences 4
Columns 115
Reading direction forward
Mean pairwise identity 72.20
Mean single sequence MFE -27.27
Consensus MFE -18.92
Energy contribution -19.55
Covariance contribution 0.63
Combinations/Pair 1.21
Mean z-score -2.67
Structure conservation index 0.69
SVM decision value 4.20
SVM RNA-class probability 0.999833
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20098382 109 + 22224390
CAAA----GCAUUGCACAUAUGUAUCCACAUACAUGUGUCC--AUAUACAUACAUGUAUGUAUACGCGACGCACACAUCGAUCAUGUGCCUCCUACACAAAGAGAAAUAGGCCGC
....----((...((((((((((((....))))))((((((--.((((((((....)))))))).).)))))...........))))))(((.........)))......))... ( -27.20)
>DroSec_CAF1 8248 107 + 1
CA-A----GCAUUGCACAUAUGUAGCUCCAUACAUGUGUAC-AAUGUACACACA--UAUGUAUACGCGACGCACACAUCGAUCAUGUGCCGCAUACACAAAGAGAAAUAGGCCGC
..-.----((((((.(((((((((......))))))))).)-))))).......--..(((((..(((..(((((.........))))))))))))).................. ( -27.40)
>DroSim_CAF1 8290 108 + 1
CAAA----GCAUUGCACAUAUGUAGCUACAUACAUGUGUAC-AAUGUACAUACA--UAUGUAUGCGCGACGCACACAUCGAUCAUGUGNNNNNNNNNNNNNNNNNNNNNNNNNNN
....----((((((.(((((((((......))))))))).)-)))))((((...--.((((.((((...)))).)))).....))))............................ ( -24.60)
>DroEre_CAF1 6310 113 + 1
CAAAGCCGGCACUGCACAUACCUGUAUACGUACAAGUAUGCUUAUGUAUGUAUG--UAUGUACAUGCGCCACACACAUCGAUCAUGUGCCGCCUACACAAAGAGAAAUAGGCCGC
....((((((...((((((....((((((......))))))....((((((((.--...))))))))................)))))).))).........(....).)))... ( -29.90)
>consensus
CAAA____GCAUUGCACAUAUGUAGCUACAUACAUGUGUAC_AAUGUACAUACA__UAUGUAUACGCGACGCACACAUCGAUCAUGUGCCGCCUACACAAAGAGAAAUAGGCCGC
........((.(((((((((((((......))))))))).....((((((((....)))))))).)))).)).(((((.....)))))........................... (-18.92 = -19.55 +   0.63)

alignment

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secondary structure

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Window 1

Location 20,098,382 – 20,098,491
Length 109
Sequences 4
Columns 115
Reading direction reverse
Mean pairwise identity 72.20
Mean single sequence MFE -35.85
Consensus MFE -20.34
Energy contribution -20.90
Covariance contribution 0.56
Combinations/Pair 1.19
Mean z-score -3.11
Structure conservation index 0.57
SVM decision value 4.24
SVM RNA-class probability 0.999847
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20098382 109 - 22224390
GCGGCCUAUUUCUCUUUGUGUAGGAGGCACAUGAUCGAUGUGUGCGUCGCGUAUACAUACAUGUAUGUAUAU--GGACACAUGUAUGUGGAUACAUAUGUGCAAUGC----UUUG
(((((......(((((.....)))))((((((.......)))))))))))(((((((((....)))))))))--(.(((.((((((....)))))).))).).....----.... ( -35.90)
>DroSec_CAF1 8248 107 - 1
GCGGCCUAUUUCUCUUUGUGUAUGCGGCACAUGAUCGAUGUGUGCGUCGCGUAUACAUA--UGUGUGUACAUU-GUACACAUGUAUGGAGCUACAUAUGUGCAAUGC----U-UG
(((.((...........(((((((((((((((.......))))))..)))))))))(((--(((((((((...-)))))))))))))).((.((....))))..)))----.-.. ( -36.40)
>DroSim_CAF1 8290 108 - 1
NNNNNNNNNNNNNNNNNNNNNNNNNNNCACAUGAUCGAUGUGUGCGUCGCGCAUACAUA--UGUAUGUACAUU-GUACACAUGUAUGUAGCUACAUAUGUGCAAUGC----UUUG
............................(((((....(((((((((...))))))))).--..))))).((((-(((((.(((((......))))).))))))))).----.... ( -29.80)
>DroEre_CAF1 6310 113 - 1
GCGGCCUAUUUCUCUUUGUGUAGGCGGCACAUGAUCGAUGUGUGUGGCGCAUGUACAUA--CAUACAUACAUAAGCAUACUUGUACGUAUACAGGUAUGUGCAGUGCCGGCUUUG
((.((((((..(.....).))))))(((((........((((((((....((((....)--))).)))))))).(((((((((((....)))))))))))...))))).)).... ( -41.30)
>consensus
GCGGCCUAUUUCUCUUUGUGUAGGCGGCACAUGAUCGAUGUGUGCGUCGCGUAUACAUA__UGUAUGUACAUU_GUACACAUGUAUGUAGAUACAUAUGUGCAAUGC____UUUG
...((((((..........)))))).(((((((....(((((((((...))))))))).....(((((((((........)))))))))......)))))))............. (-20.34 = -20.90 +   0.56)

alignment

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secondary structure

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Window 2

Location 20,098,413 – 20,098,528
Length 115
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 85.06
Mean single sequence MFE -32.83
Consensus MFE -25.68
Energy contribution -25.80
Covariance contribution 0.12
Combinations/Pair 1.21
Mean z-score -2.50
Structure conservation index 0.78
SVM decision value 1.02
SVM RNA-class probability 0.901952
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20098413 115 + 22224390
GUGUCC--AUAUACAUACAUGUAUGUAUACGCGACGCACACAUCGAUCAUGUGCCUCCUACACAAAGAGAAAUAGGCCGCUCUUAAACUAAUUUGGAACGGCUUCGAUUUGACUAAU
((((((--.((((((((....)))))))).).))))).((.(((((...((((.......))))..........(((((.(((...........))).)))))))))).))...... ( -31.80)
>DroSec_CAF1 8278 114 + 1
GUGUAC-AAUGUACACACA--UAUGUAUACGCGACGCACACAUCGAUCAUGUGCCGCAUACACAAAGAGAAAUAGGCCGCUCUUAAACUAAUUUGGAGCGGCUCCGAUUUGACUAAU
((((((-(((((....)))--).)))))))(((..(((((.........)))))))).....((((..(.....(((((((((...........))))))))).)..))))...... ( -34.00)
>DroEre_CAF1 6345 115 + 1
GUAUGCUUAUGUAUGUAUG--UAUGUACAUGCGCCACACACAUCGAUCAUGUGCCGCCUACACAAAGAGAAAUAGGCCGCACUUAGGCUAAUUUGGAGCGGCCCCGAUUUGCCUAAU
((.((....(((((((((.--...)))))))))...)).)).........((((.(((((............))))).))))((((((.((((.((......)).)))).)))))). ( -32.70)
>consensus
GUGUAC__AUGUACAUACA__UAUGUAUACGCGACGCACACAUCGAUCAUGUGCCGCCUACACAAAGAGAAAUAGGCCGCUCUUAAACUAAUUUGGAGCGGCUCCGAUUUGACUAAU
((((.....((((((((....))))))))....)))).((.((((....((((.......))))..........(((((((((.((.....)).))))))))).)))).))...... (-25.68 = -25.80 +   0.12)

alignment

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secondary structure

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dotplot

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Window 3

Location 20,098,413 – 20,098,528
Length 115
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 85.06
Mean single sequence MFE -37.77
Consensus MFE -27.70
Energy contribution -27.72
Covariance contribution 0.02
Combinations/Pair 1.24
Mean z-score -2.81
Structure conservation index 0.73
SVM decision value 1.18
SVM RNA-class probability 0.927488
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20098413 115 - 22224390
AUUAGUCAAAUCGAAGCCGUUCCAAAUUAGUUUAAGAGCGGCCUAUUUCUCUUUGUGUAGGAGGCACAUGAUCGAUGUGUGCGUCGCGUAUACAUACAUGUAUGUAUAU--GGACAC
...............(((((((..((.....))..)))))))......(((((.....)))))((((((.......))))))(((.((((((((((....)))))))))--)))).. ( -36.80)
>DroSec_CAF1 8278 114 - 1
AUUAGUCAAAUCGGAGCCGCUCCAAAUUAGUUUAAGAGCGGCCUAUUUCUCUUUGUGUAUGCGGCACAUGAUCGAUGUGUGCGUCGCGUAUACAUA--UGUGUGUACAUU-GUACAC
...((..((((.((.(((((((..((.....))..)))))))))))))..)).((((((((((((((((.......))))))..))))))))))..--...((((((...-)))))) ( -38.40)
>DroEre_CAF1 6345 115 - 1
AUUAGGCAAAUCGGGGCCGCUCCAAAUUAGCCUAAGUGCGGCCUAUUUCUCUUUGUGUAGGCGGCACAUGAUCGAUGUGUGUGGCGCAUGUACAUA--CAUACAUACAUAAGCAUAC
.((((((.(((..(((....)))..))).))))))((((.((((((..(.....).)))))).))))(((....((((((((.....((((....)--)))))))))))...))).. ( -38.10)
>consensus
AUUAGUCAAAUCGGAGCCGCUCCAAAUUAGUUUAAGAGCGGCCUAUUUCUCUUUGUGUAGGCGGCACAUGAUCGAUGUGUGCGUCGCGUAUACAUA__UGUAUGUACAU__GCACAC
.........(((((.(((((((.............))))))).......((..(((((.....))))).)))))))((((((.....(((((((((....)))))))))..)))))) (-27.70 = -27.72 +   0.02)

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 12:54:41 2006