Locus 3362

Sequence ID 2L_DroMel_CAF1
Location 9,749,824 – 9,749,923
Length 99
Max. P 0.696394
window5326 window5327

overview

Window 6

Location 9,749,824 – 9,749,923
Length 99
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 78.16
Mean single sequence MFE -42.65
Consensus MFE -22.79
Energy contribution -23.90
Covariance contribution 1.11
Combinations/Pair 1.05
Mean z-score -1.84
Structure conservation index 0.53
SVM decision value 0.19
SVM RNA-class probability 0.627683
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9749824 99 + 22407834
-AGCCGAGCCUCCAUGCCU--------GGAUGUUUUGG---------AACUGACCUGCCGGAUUUUUGCCAAUCCGAUUGGCGUUGCCCAAAAUGGGCACCGGAGUGGGUCCAUUGA
-..((((((.((((....)--------))).).)))))---------....(((((.((((......((((((...))))))..(((((.....)))))))))...)))))...... ( -37.30)
>DroPse_CAF1 32448 117 + 1
UGGACGAGCCCCCUUCGCUAGGGGGCUGAUUCCUCUGGAAUCAUGACGACUAACCUGCGGGAGUGUUGCCUACGCGAUUGGCGUUGCCCAGCACGGGCACAGGAGCGGGUCCAUUGA
(((((.((((((((.....))))))))((((((...))))))....((.((..((((.(...((((((...((((.....))))....))))))...).)))))))).))))).... ( -49.90)
>DroSec_CAF1 31932 98 + 1
-AGACGAGCCUCCACGCCU--------GGAUGUU-UGG---------AACUGACCUGCCGGAUUUUUGCCAAUCCGAUUGGCGUUGCCCAAAAUGGGCACCGGAGUGGGUCCAUUGA
-...(((((.((((....)--------))).)))-)).---------....(((((.((((......((((((...))))))..(((((.....)))))))))...)))))...... ( -38.20)
>DroSim_CAF1 30730 98 + 1
-AGCCGAGCCUCCACGCCU--------GGAUGUU-UGG---------AACUGACCUGCCGGAUUUUUGCCAAUCCGAUUGGCGUUGCCCAAAAUGGGCACCGGAGUGGGUCCAUUGA
-..((((((.((((....)--------))).)))-)))---------....(((((.((((......((((((...))))))..(((((.....)))))))))...)))))...... ( -41.00)
>DroYak_CAF1 33152 98 + 1
-AGCCGAGCCUCCACGGCU--------GGUGUUU-UGG---------AACUGACCUGCCGGAUUUUUGCCAAUCCGAUUGGCGUUGCCCAAAAUGGGCACCGGAGUGGGUCCAUUGA
-.(((.((((.....))))--------)))....-(((---------(.((.((...((((......((((((...))))))..(((((.....))))))))).)).)))))).... ( -39.60)
>DroPer_CAF1 31879 117 + 1
UGGACGAGCCCCCUUCGCUAGGGGGCUGAUUCCUCUGGAAUCAUGACGACUAACCUGCGGGAGUGUUGCCUACGCGAUUGGCGUUGCCCAGCACGGGCACAGGAGCGGGUCCAUUGA
(((((.((((((((.....))))))))((((((...))))))....((.((..((((.(...((((((...((((.....))))....))))))...).)))))))).))))).... ( -49.90)
>consensus
_AGACGAGCCUCCACGCCU________GGAUGUU_UGG_________AACUGACCUGCCGGAUUUUUGCCAAUCCGAUUGGCGUUGCCCAAAAUGGGCACCGGAGUGGGUCCAUUGA
...................................................((((((((((......(((((.....)))))..(((((.....))))))))..)))))))...... (-22.79 = -23.90 +   1.11)

alignment

Postscript

secondary structure

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dotplot

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Window 7

Location 9,749,824 – 9,749,923
Length 99
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 78.16
Mean single sequence MFE -38.92
Consensus MFE -22.04
Energy contribution -22.48
Covariance contribution 0.45
Combinations/Pair 1.15
Mean z-score -1.78
Structure conservation index 0.57
SVM decision value 0.34
SVM RNA-class probability 0.696394
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9749824 99 - 22407834
UCAAUGGACCCACUCCGGUGCCCAUUUUGGGCAACGCCAAUCGGAUUGGCAAAAAUCCGGCAGGUCAGUU---------CCAAAACAUCC--------AGGCAUGGAGGCUCGGCU-
.....((.((..(((((.(((((.....))))).)(((..(((((((......)))))))..((......---------)).........--------.)))..))))....))))- ( -32.10)
>DroPse_CAF1 32448 117 - 1
UCAAUGGACCCGCUCCUGUGCCCGUGCUGGGCAACGCCAAUCGCGUAGGCAACACUCCCGCAGGUUAGUCGUCAUGAUUCCAGAGGAAUCAGCCCCCUAGCGAAGGGGGCUCGUCCA
....(((((.(((((((((((((.....)))).((((.....)))).(....)......)))))..)).))...(((((((...)))))))(((((((.....)))))))..))))) ( -47.40)
>DroSec_CAF1 31932 98 - 1
UCAAUGGACCCACUCCGGUGCCCAUUUUGGGCAACGCCAAUCGGAUUGGCAAAAAUCCGGCAGGUCAGUU---------CCA-AACAUCC--------AGGCGUGGAGGCUCGUCU-
.....((((...((((..(((((.....)))))(((((..(((((((......)))))))..((......---------)).-.......--------.)))))))))....))))- ( -36.80)
>DroSim_CAF1 30730 98 - 1
UCAAUGGACCCACUCCGGUGCCCAUUUUGGGCAACGCCAAUCGGAUUGGCAAAAAUCCGGCAGGUCAGUU---------CCA-AACAUCC--------AGGCGUGGAGGCUCGGCU-
.....((.((..((((..(((((.....)))))(((((..(((((((......)))))))..((......---------)).-.......--------.)))))))))....))))- ( -34.80)
>DroYak_CAF1 33152 98 - 1
UCAAUGGACCCACUCCGGUGCCCAUUUUGGGCAACGCCAAUCGGAUUGGCAAAAAUCCGGCAGGUCAGUU---------CCA-AAACACC--------AGCCGUGGAGGCUCGGCU-
......((((....(((((((((.....)))))..((((((...))))))......))))..))))....---------...-.....((--------((((.....)))).))..- ( -35.00)
>DroPer_CAF1 31879 117 - 1
UCAAUGGACCCGCUCCUGUGCCCGUGCUGGGCAACGCCAAUCGCGUAGGCAACACUCCCGCAGGUUAGUCGUCAUGAUUCCAGAGGAAUCAGCCCCCUAGCGAAGGGGGCUCGUCCA
....(((((.(((((((((((((.....)))).((((.....)))).(....)......)))))..)).))...(((((((...)))))))(((((((.....)))))))..))))) ( -47.40)
>consensus
UCAAUGGACCCACUCCGGUGCCCAUUUUGGGCAACGCCAAUCGGAUUGGCAAAAAUCCGGCAGGUCAGUU_________CCA_AACAACC________AGCCAUGGAGGCUCGGCU_
............(((((.(((((.....)))))..(((..(((((((......)))))))..)))......................................)))))......... (-22.04 = -22.48 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:39 2006