Locus 7346

Sequence ID X_DroMel_CAF1
Location 18,337,162 – 18,337,362
Length 200
Max. P 0.999979
window12036 window12037 window12038 window12039 window12040

overview

Window 6

Location 18,337,162 – 18,337,282
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.67
Mean single sequence MFE -38.30
Consensus MFE -35.68
Energy contribution -35.60
Covariance contribution -0.08
Combinations/Pair 1.09
Mean z-score -1.18
Structure conservation index 0.93
SVM decision value 0.34
SVM RNA-class probability 0.695025
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18337162 120 - 22224390
UCGCCAGCGAUAGGGAAUUCCUUAUCAAGAACAUGGAGGAGCACGGAGGCGCUGGCUCCGCGAACAGUCAUCACAAUGAUACGACUCCAACUGCAGACGCAUAUUCGGAGACAAUCGAUC
((((....(((((((....)))))))...........(((((.(((.....))))))))))))...(((((....))))).(((((((...(((....))).....))))....)))... ( -35.70)
>DroSec_CAF1 15113 120 - 1
UCGCCAGCGAUAGGGAAUUCCUUAUCAAGAACAUGGAGGAGCACGGAGGCGCUGGCUCCGCGAACGGUCAUCACAAUGACACGACUCCAACUGCAGACGCAUACUCGGAGACAAUCGAUC
((((....(((((((....)))))))...........(((((.(((.....)))))))))))).(((((((....))))).)).((((...(((....))).....)))).......... ( -38.80)
>DroSim_CAF1 14947 120 - 1
UCGCCAGCGAUAGGGAAUUCCUUAUCAAGAACAUGGAGGAGCACGGAGGCGCUGGCUCCGCGAACGGUCAUCACAAUGACACGACUCCAACUGCAGACGCAUACUCGGAGACAAUCGAUC
((((....(((((((....)))))))...........(((((.(((.....)))))))))))).(((((((....))))).)).((((...(((....))).....)))).......... ( -38.80)
>DroEre_CAF1 14746 120 - 1
UCGCCAGCGAUAGGGAAUUCCUUAUCAAGAACAUGGAGGAGCACGGGGCAGCUGGCUCCGCGAACGGUCAUCACAAUGACACGGCUCCAACUGCAGACGCAUACUCGGAGACAAUCGAUC
(((...(((((((((....)))))))...........(((((.((((((.....))))))....(((((((....))))).)))))))..........))......(....)...))).. ( -40.30)
>DroYak_CAF1 15117 120 - 1
UCGCCAGCGAUAGGGAAUUCCUUAUCAAGAGCAUGGAGGAGCAUGGAGCAGCUGGCUCCGCGAACGGUCAUCACAAUGACACGACGCCCACUGUAGACGCAUACUCGGAGACAAUCGAUC
..(((((((((((((....))))))).....((((......)))).....))))))((((((..(((((((....))))).)).))).....(((......)))..)))........... ( -37.90)
>consensus
UCGCCAGCGAUAGGGAAUUCCUUAUCAAGAACAUGGAGGAGCACGGAGGCGCUGGCUCCGCGAACGGUCAUCACAAUGACACGACUCCAACUGCAGACGCAUACUCGGAGACAAUCGAUC
((((....(((((((....)))))))...........(((((.(((.....)))))))))))).(((((((....))))).)).((((...(((....))).....)))).......... (-35.68 = -35.60 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 7

Location 18,337,202 – 18,337,322
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.67
Mean single sequence MFE -41.24
Consensus MFE -40.72
Energy contribution -40.40
Covariance contribution -0.32
Combinations/Pair 1.06
Mean z-score -3.02
Structure conservation index 0.99
SVM decision value 5.22
SVM RNA-class probability 0.999979
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18337202 120 + 22224390
AUCAUUGUGAUGACUGUUCGCGGAGCCAGCGCCUCCGUGCUCCUCCAUGUUCUUGAUAAGGAAUUCCCUAUCGCUGGCGACAUCUGCCGAUGUCAUCACAACGUCGUGCUUAAAAUAAUC
....((((((((((.(((.(((((((((((.....((((......)))).....((((.((....)).))))))))))....))))).)))))))))))))................... ( -40.20)
>DroSec_CAF1 15153 120 + 1
GUCAUUGUGAUGACCGUUCGCGGAGCCAGCGCCUCCGUGCUCCUCCAUGUUCUUGAUAAGGAAUUCCCUAUCGCUGGCGACAUCUGCCGAUGUCAUCACAACGUCGUGCUUAAAAUAAUC
(.(.((((((((((.(((.(((((((((((.....((((......)))).....((((.((....)).))))))))))....))))).))))))))))))).).)............... ( -41.20)
>DroSim_CAF1 14987 120 + 1
GUCAUUGUGAUGACCGUUCGCGGAGCCAGCGCCUCCGUGCUCCUCCAUGUUCUUGAUAAGGAAUUCCCUAUCGCUGGCGACAUCUGCCGAUGUCAUCACAACGUCGUGCUUAAAAUAAUC
(.(.((((((((((.(((.(((((((((((.....((((......)))).....((((.((....)).))))))))))....))))).))))))))))))).).)............... ( -41.20)
>DroEre_CAF1 14786 120 + 1
GUCAUUGUGAUGACCGUUCGCGGAGCCAGCUGCCCCGUGCUCCUCCAUGUUCUUGAUAAGGAAUUCCCUAUCGCUGGCGACAUCUGCAGACGUCAUCACAACGUCGUGCUUAAAAUAAUC
(.(.((((((((((.((..(((((((((((.....((((......)))).....((((.((....)).))))))))))....)))))..)))))))))))).).)............... ( -42.70)
>DroYak_CAF1 15157 120 + 1
GUCAUUGUGAUGACCGUUCGCGGAGCCAGCUGCUCCAUGCUCCUCCAUGCUCUUGAUAAGGAAUUCCCUAUCGCUGGCGACAUCUGCCGAUGUCAUCACAACGUCGUGCUUAAAAUAAUC
(.(.((((((((((.(((.(((((((((((.....((((......)))).....((((.((....)).))))))))))....))))).))))))))))))).).)............... ( -40.90)
>consensus
GUCAUUGUGAUGACCGUUCGCGGAGCCAGCGCCUCCGUGCUCCUCCAUGUUCUUGAUAAGGAAUUCCCUAUCGCUGGCGACAUCUGCCGAUGUCAUCACAACGUCGUGCUUAAAAUAAUC
....((((((((((.(((.(((((((((((.....((((......)))).....((((.((....)).))))))))))....))))).)))))))))))))................... (-40.72 = -40.40 +  -0.32)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,337,202 – 18,337,322
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.67
Mean single sequence MFE -46.98
Consensus MFE -45.66
Energy contribution -45.34
Covariance contribution -0.32
Combinations/Pair 1.06
Mean z-score -3.50
Structure conservation index 0.97
SVM decision value 5.21
SVM RNA-class probability 0.999979
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18337202 120 - 22224390
GAUUAUUUUAAGCACGACGUUGUGAUGACAUCGGCAGAUGUCGCCAGCGAUAGGGAAUUCCUUAUCAAGAACAUGGAGGAGCACGGAGGCGCUGGCUCCGCGAACAGUCAUCACAAUGAU
.................((((((((((((...(((.......))).(((((((((....)))))))...........(((((.(((.....)))))))))).....)))))))))))).. ( -47.30)
>DroSec_CAF1 15153 120 - 1
GAUUAUUUUAAGCACGACGUUGUGAUGACAUCGGCAGAUGUCGCCAGCGAUAGGGAAUUCCUUAUCAAGAACAUGGAGGAGCACGGAGGCGCUGGCUCCGCGAACGGUCAUCACAAUGAC
.................((((((((((((.(((((.......))).(((((((((....)))))))...........(((((.(((.....))))))))))))...)))))))))))).. ( -47.50)
>DroSim_CAF1 14987 120 - 1
GAUUAUUUUAAGCACGACGUUGUGAUGACAUCGGCAGAUGUCGCCAGCGAUAGGGAAUUCCUUAUCAAGAACAUGGAGGAGCACGGAGGCGCUGGCUCCGCGAACGGUCAUCACAAUGAC
.................((((((((((((.(((((.......))).(((((((((....)))))))...........(((((.(((.....))))))))))))...)))))))))))).. ( -47.50)
>DroEre_CAF1 14786 120 - 1
GAUUAUUUUAAGCACGACGUUGUGAUGACGUCUGCAGAUGUCGCCAGCGAUAGGGAAUUCCUUAUCAAGAACAUGGAGGAGCACGGGGCAGCUGGCUCCGCGAACGGUCAUCACAAUGAC
.................(((((((((((((((....))).((((....(((((((....)))))))...........(((((.(((.....))))))))))))...)))))))))))).. ( -45.80)
>DroYak_CAF1 15157 120 - 1
GAUUAUUUUAAGCACGACGUUGUGAUGACAUCGGCAGAUGUCGCCAGCGAUAGGGAAUUCCUUAUCAAGAGCAUGGAGGAGCAUGGAGCAGCUGGCUCCGCGAACGGUCAUCACAAUGAC
.................((((((((((((.(((((....)))(((((((((((((....))))))).....((((......)))).....)))))).....))...)))))))))))).. ( -46.80)
>consensus
GAUUAUUUUAAGCACGACGUUGUGAUGACAUCGGCAGAUGUCGCCAGCGAUAGGGAAUUCCUUAUCAAGAACAUGGAGGAGCACGGAGGCGCUGGCUCCGCGAACGGUCAUCACAAUGAC
.................(((((((((((((((....))).((((....(((((((....)))))))...........(((((.(((.....))))))))))))...)))))))))))).. (-45.66 = -45.34 +  -0.32)

alignment

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secondary structure

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dotplot

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Window 9

Location 18,337,242 – 18,337,362
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.67
Mean single sequence MFE -31.30
Consensus MFE -30.42
Energy contribution -30.46
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.46
Structure conservation index 0.97
SVM decision value 1.03
SVM RNA-class probability 0.903943
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18337242 120 + 22224390
UCCUCCAUGUUCUUGAUAAGGAAUUCCCUAUCGCUGGCGACAUCUGCCGAUGUCAUCACAACGUCGUGCUUAAAAUAAUCCGUGACGGAUGUGUUGUUCUCCAUGGAUACCUUAAUAUAG
...((((((.....((((.((....)).))))...((((((((..((((((((.......)))))).))........(((((...)))))))))))))...))))))............. ( -31.30)
>DroSec_CAF1 15193 120 + 1
UCCUCCAUGUUCUUGAUAAGGAAUUCCCUAUCGCUGGCGACAUCUGCCGAUGUCAUCACAACGUCGUGCUUAAAAUAAUCCGUGACGGAUGUGUUGUUCUCCAUGGAUACCUUAAUAUAG
...((((((.....((((.((....)).))))...((((((((..((((((((.......)))))).))........(((((...)))))))))))))...))))))............. ( -31.30)
>DroSim_CAF1 15027 120 + 1
UCCUCCAUGUUCUUGAUAAGGAAUUCCCUAUCGCUGGCGACAUCUGCCGAUGUCAUCACAACGUCGUGCUUAAAAUAAUCCGUGACGGAUGUGUUGUUCUCCAUGGAUACCUUAAUAUAG
...((((((.....((((.((....)).))))...((((((((..((((((((.......)))))).))........(((((...)))))))))))))...))))))............. ( -31.30)
>DroEre_CAF1 14826 120 + 1
UCCUCCAUGUUCUUGAUAAGGAAUUCCCUAUCGCUGGCGACAUCUGCAGACGUCAUCACAACGUCGUGCUUAAAAUAAUCCGUGACGGAUGUGUUGUUCUCCAUGGACACCUUAAUAUAG
...((((((.....((((.((....)).))))...((((((((..((((((((.......))))).)))........(((((...)))))))))))))...))))))............. ( -31.50)
>DroYak_CAF1 15197 120 + 1
UCCUCCAUGCUCUUGAUAAGGAAUUCCCUAUCGCUGGCGACAUCUGCCGAUGUCAUCACAACGUCGUGCUUAAAAUAAUCCGUGACGGAUGUGUUGUUCUCCAUGGAUACCUUAAUAUAG
...((((((.....((((.((....)).))))...((((((((..((((((((.......)))))).))........(((((...)))))))))))))...))))))............. ( -31.10)
>consensus
UCCUCCAUGUUCUUGAUAAGGAAUUCCCUAUCGCUGGCGACAUCUGCCGAUGUCAUCACAACGUCGUGCUUAAAAUAAUCCGUGACGGAUGUGUUGUUCUCCAUGGAUACCUUAAUAUAG
...((((((.....((((.((....)).))))...((((((((..((((((((.......)))))).))........(((((...)))))))))))))...))))))............. (-30.42 = -30.46 +   0.04)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,337,242 – 18,337,362
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 98.67
Mean single sequence MFE -34.96
Consensus MFE -34.60
Energy contribution -34.44
Covariance contribution -0.16
Combinations/Pair 1.03
Mean z-score -1.84
Structure conservation index 0.99
SVM decision value 2.34
SVM RNA-class probability 0.992578
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18337242 120 - 22224390
CUAUAUUAAGGUAUCCAUGGAGAACAACACAUCCGUCACGGAUUAUUUUAAGCACGACGUUGUGAUGACAUCGGCAGAUGUCGCCAGCGAUAGGGAAUUCCUUAUCAAGAACAUGGAGGA
.............((((((...........(((((...)))))...............((((.(.(((((((....))))))))))))(((((((....))))))).....))))))... ( -34.70)
>DroSec_CAF1 15193 120 - 1
CUAUAUUAAGGUAUCCAUGGAGAACAACACAUCCGUCACGGAUUAUUUUAAGCACGACGUUGUGAUGACAUCGGCAGAUGUCGCCAGCGAUAGGGAAUUCCUUAUCAAGAACAUGGAGGA
.............((((((...........(((((...)))))...............((((.(.(((((((....))))))))))))(((((((....))))))).....))))))... ( -34.70)
>DroSim_CAF1 15027 120 - 1
CUAUAUUAAGGUAUCCAUGGAGAACAACACAUCCGUCACGGAUUAUUUUAAGCACGACGUUGUGAUGACAUCGGCAGAUGUCGCCAGCGAUAGGGAAUUCCUUAUCAAGAACAUGGAGGA
.............((((((...........(((((...)))))...............((((.(.(((((((....))))))))))))(((((((....))))))).....))))))... ( -34.70)
>DroEre_CAF1 14826 120 - 1
CUAUAUUAAGGUGUCCAUGGAGAACAACACAUCCGUCACGGAUUAUUUUAAGCACGACGUUGUGAUGACGUCUGCAGAUGUCGCCAGCGAUAGGGAAUUCCUUAUCAAGAACAUGGAGGA
...........(.((((((...........(((((...)))))...............((((.(.(((((((....))))))))))))(((((((....))))))).....)))))).). ( -34.10)
>DroYak_CAF1 15197 120 - 1
CUAUAUUAAGGUAUCCAUGGAGAACAACACAUCCGUCACGGAUUAUUUUAAGCACGACGUUGUGAUGACAUCGGCAGAUGUCGCCAGCGAUAGGGAAUUCCUUAUCAAGAGCAUGGAGGA
((((.((((((((((((((((..........)))))...))).))))))))((.....((((.(.(((((((....))))))))))))(((((((....)))))))....)))))).... ( -36.60)
>consensus
CUAUAUUAAGGUAUCCAUGGAGAACAACACAUCCGUCACGGAUUAUUUUAAGCACGACGUUGUGAUGACAUCGGCAGAUGUCGCCAGCGAUAGGGAAUUCCUUAUCAAGAACAUGGAGGA
.............((((((...........(((((...)))))...............((((.(.(((((((....))))))))))))(((((((....))))))).....))))))... (-34.60 = -34.44 +  -0.16)

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 12:36:39 2006