Locus 6958

Sequence ID 2L_DroMel_CAF1
Location 19,323,239 – 19,323,387
Length 148
Max. P 0.990772
window11098 window11099 window11100 window11101

overview

Window 8

Location 19,323,239 – 19,323,357
Length 118
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 94.28
Mean single sequence MFE -35.90
Consensus MFE -31.94
Energy contribution -31.88
Covariance contribution -0.06
Combinations/Pair 1.09
Mean z-score -2.54
Structure conservation index 0.89
SVM decision value 1.69
SVM RNA-class probability 0.972198
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19323239 118 + 22407834
AAACUUUUGGUGCAACUCUGCGGGAAAAACGGUUGAAUAA-AAUGCAGGCA-UUGUGAAACAGUCGGCGGCAAUUGCAGUUGAUUAAGCCGAGGCACAACAACUGCAAUUGCCCAACACC
....((((..((((....))))..))))...((((.....-...((.(((.-.((.....))))).))((((((((((((((.((..((....))..))))))))))))))))))))... ( -36.70)
>DroSec_CAF1 15733 120 + 1
AAACUUUUGGUCCAACUCUGCGGAAAAAACGGUUGAAUAAAAAUGCAGGGAUUUGUGAAACAGUCGGCGGCAAUUGCAGUUGAUUAAGCCGAGGCACAACAACUGCAAUUGCCCAACACC
...(.(((..(((........)))..))).)((((.........((...((((.(.....))))).))((((((((((((((.((..((....))..))))))))))))))))))))... ( -35.50)
>DroSim_CAF1 17561 119 + 1
AAACUUUUGGUGCAACUCUGCGGGAAAAACGGUUGCAUAAAAAUGCAGGAA-UUGUGAAACAGUCGGCGGCAAUUGCAGUUGAUUAAGCCGAGGCACAACAACUGCAAUUGCCCAACACC
........((((.......((.((....((((((((((....)))))...)-)))).......)).))((((((((((((((.((..((....))..))))))))))))))))...)))) ( -39.20)
>DroEre_CAF1 14737 117 + 1
AAACU-UUGGUGCAGCUCUGCAGGAAAAGCGGUUGAAUAAAAAUGCAGAAA-UUGUGAAACAGUCGGCGGCAAUUGCAGUUGAUUAAGCCG-GGCACAACAACUGCAAUUGGCCAACACC
.....-..((((..((((((((.....................)))))).(-(((.....))))..))((((((((((((((.((..((..-.))..))))))))))))).)))..)))) ( -32.20)
>consensus
AAACUUUUGGUGCAACUCUGCGGGAAAAACGGUUGAAUAAAAAUGCAGGAA_UUGUGAAACAGUCGGCGGCAAUUGCAGUUGAUUAAGCCGAGGCACAACAACUGCAAUUGCCCAACACC
........(((((((.((((((.....................))))))...)))...........(.((((((((((((((.((..((....))..)))))))))))))))))..)))) (-31.94 = -31.88 +  -0.06)

alignment

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secondary structure

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Window 9

Location 19,323,239 – 19,323,357
Length 118
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 94.28
Mean single sequence MFE -39.34
Consensus MFE -35.00
Energy contribution -35.50
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -3.42
Structure conservation index 0.89
SVM decision value 1.99
SVM RNA-class probability 0.984959
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19323239 118 - 22407834
GGUGUUGGGCAAUUGCAGUUGUUGUGCCUCGGCUUAAUCAACUGCAAUUGCCGCCGACUGUUUCACAA-UGCCUGCAUU-UUAUUCAACCGUUUUUCCCGCAGAGUUGCACCAAAAGUUU
((((...(((((((((((((((((.((....)).))).)))))))))))))).............(((-(..((((...-...................)))).))))))))........ ( -39.35)
>DroSec_CAF1 15733 120 - 1
GGUGUUGGGCAAUUGCAGUUGUUGUGCCUCGGCUUAAUCAACUGCAAUUGCCGCCGACUGUUUCACAAAUCCCUGCAUUUUUAUUCAACCGUUUUUUCCGCAGAGUUGGACCAAAAGUUU
(((....(((((((((((((((((.((....)).))).)))))))))))))).(((((((.....)......((((.......................)))))))))))))........ ( -40.10)
>DroSim_CAF1 17561 119 - 1
GGUGUUGGGCAAUUGCAGUUGUUGUGCCUCGGCUUAAUCAACUGCAAUUGCCGCCGACUGUUUCACAA-UUCCUGCAUUUUUAUGCAACCGUUUUUCCCGCAGAGUUGCACCAAAAGUUU
(((((..(((((((((((((((((.((....)).))).)))))))))))))).....((((.......-....(((((....)))))............))))....)))))........ ( -42.10)
>DroEre_CAF1 14737 117 - 1
GGUGUUGGCCAAUUGCAGUUGUUGUGCC-CGGCUUAAUCAACUGCAAUUGCCGCCGACUGUUUCACAA-UUUCUGCAUUUUUAUUCAACCGCUUUUCCUGCAGAGCUGCACCAA-AGUUU
((((((((((((((((((((((((.((.-..)).))).))))))))))))..))))))..........-.(((((((.....................)))))))....)))..-..... ( -35.80)
>consensus
GGUGUUGGGCAAUUGCAGUUGUUGUGCCUCGGCUUAAUCAACUGCAAUUGCCGCCGACUGUUUCACAA_UUCCUGCAUUUUUAUUCAACCGUUUUUCCCGCAGAGUUGCACCAAAAGUUU
(((((..(((((((((((((((((.((....)).))).))))))))))))))....................((((.......................))))....)))))........ (-35.00 = -35.50 +   0.50)

alignment

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secondary structure

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dotplot

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Window 0

Location 19,323,279 – 19,323,387
Length 108
Sequences 3
Columns 110
Reading direction forward
Mean pairwise identity 97.87
Mean single sequence MFE -34.27
Consensus MFE -33.81
Energy contribution -33.81
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -3.14
Structure conservation index 0.99
SVM decision value 2.23
SVM RNA-class probability 0.990772
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19323279 108 + 22407834
-AAUGCAGGCA-UUGUGAAACAGUCGGCGGCAAUUGCAGUUGAUUAAGCCGAGGCACAACAACUGCAAUUGCCCAACACCGCAAACAAUAAAUUCAGUUGGCCAGAAUGG
-......(((.-(((((.....(....)((((((((((((((.((..((....))..))))))))))))))))......))))).((((.......)))))))....... ( -35.00)
>DroSec_CAF1 15773 110 + 1
AAAUGCAGGGAUUUGUGAAACAGUCGGCGGCAAUUGCAGUUGAUUAAGCCGAGGCACAACAACUGCAAUUGCCCAACACCGCAAACAAUAAAUUCAGUUGGCCAGAAUGG
....((..((((((((......(.(((.((((((((((((((.((..((....))..)))))))))))))))).....)))).....)))))))).....))........ ( -34.00)
>DroSim_CAF1 17601 109 + 1
AAAUGCAGGAA-UUGUGAAACAGUCGGCGGCAAUUGCAGUUGAUUAAGCCGAGGCACAACAACUGCAAUUGCCCAACACCGCAAACAAUAAAUUCAGUUGGCCAGAAUGG
...........-........((.(((((((((((((((((((.((..((....))..))))))))))))))))((((...................))))))).)).)). ( -33.81)
>consensus
AAAUGCAGGAA_UUGUGAAACAGUCGGCGGCAAUUGCAGUUGAUUAAGCCGAGGCACAACAACUGCAAUUGCCCAACACCGCAAACAAUAAAUUCAGUUGGCCAGAAUGG
....................((.(((((((((((((((((((.((..((....))..))))))))))))))))((((...................))))))).)).)). (-33.81 = -33.81 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,323,279 – 19,323,387
Length 108
Sequences 3
Columns 110
Reading direction reverse
Mean pairwise identity 97.87
Mean single sequence MFE -37.00
Consensus MFE -35.31
Energy contribution -35.31
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -3.47
Structure conservation index 0.95
SVM decision value 2.01
SVM RNA-class probability 0.985654
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19323279 108 - 22407834
CCAUUCUGGCCAACUGAAUUUAUUGUUUGCGGUGUUGGGCAAUUGCAGUUGUUGUGCCUCGGCUUAAUCAACUGCAAUUGCCGCCGACUGUUUCACAA-UGCCUGCAUU-
..((((.(.....).))))........(((((((((((((((((((((((((((.((....)).))).))))))))))))))...((.....)).)))-)))).)))..- ( -39.40)
>DroSec_CAF1 15773 110 - 1
CCAUUCUGGCCAACUGAAUUUAUUGUUUGCGGUGUUGGGCAAUUGCAGUUGUUGUGCCUCGGCUUAAUCAACUGCAAUUGCCGCCGACUGUUUCACAAAUCCCUGCAUUU
.((.((.(((((((...................))))(((((((((((((((((.((....)).))).))))))))))))))))))).)).................... ( -35.31)
>DroSim_CAF1 17601 109 - 1
CCAUUCUGGCCAACUGAAUUUAUUGUUUGCGGUGUUGGGCAAUUGCAGUUGUUGUGCCUCGGCUUAAUCAACUGCAAUUGCCGCCGACUGUUUCACAA-UUCCUGCAUUU
..((((.(.....).))))........(((((.(((((((((((((((((((((.((....)).))).))))))))))))))...((.....)).)))-)..)))))... ( -36.30)
>consensus
CCAUUCUGGCCAACUGAAUUUAUUGUUUGCGGUGUUGGGCAAUUGCAGUUGUUGUGCCUCGGCUUAAUCAACUGCAAUUGCCGCCGACUGUUUCACAA_UCCCUGCAUUU
.((.((.(((((((...................))))(((((((((((((((((.((....)).))).))))))))))))))))))).)).................... (-35.31 = -35.31 +  -0.00)

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 12:23:59 2006