Locus 5795

Sequence ID 2L_DroMel_CAF1
Location 16,431,294 – 16,431,457
Length 163
Max. P 0.844921
window9190 window9191 window9192

overview

Window 0

Location 16,431,294 – 16,431,389
Length 95
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 81.90
Mean single sequence MFE -19.54
Consensus MFE -11.70
Energy contribution -11.70
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.83
Structure conservation index 0.60
SVM decision value -0.05
SVM RNA-class probability 0.509675
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16431294 95 + 22407834
-----CCGCACCUU-CCCAAACACCCUACCCUGCACCACAGACACC---GCAUGGCCGACAAAAUAAUAUCAUUUGACGAUCAAAGUAAUUAUUUUGCUUUGGU
-----.........-.(((((.......((.(((............---))).))..(.(((((((((....((((.....))))...))))))))))))))). ( -14.70)
>DroPse_CAF1 33106 102 + 1
--AGCCUAAGCGUCCCCCCGCCCCCCUGCCCCUCGGCACAGACACCGCCGCAUGGCCGACAAAAUAAUAUCAUUUGACGAUCAAAGUAAUUAUUUUGCUUUGGU
--.(((.(((((((............((((....))))........(((....))).)))((((((((....((((.....))))...)))))))))))).))) ( -23.60)
>DroEre_CAF1 50543 99 + 1
GCACCCCGCACCC--CCCAAACACCCUGCCCUGCGCCACAGACACC---GCAUGGCCGACAAAAUAAUAUCAUUUGACGAUCAAAGUAAUUAUUUUGCUUUGGU
((.....))....--.(((((......(((.((((..........)---))).))).(.(((((((((....((((.....))))...))))))))))))))). ( -20.80)
>DroYak_CAF1 56967 99 + 1
ACACCCCGCACCC--CCCAAACACCAUGCCCUGCACCACAGACACC---GCAUGGCCGACAAAAUAAUAUCAUUUGACGAUCAAAGUAAUUAUUUUGCUUUGGU
.............--.(((((..((((((..(((......).))..---))))))..(.(((((((((....((((.....))))...))))))))))))))). ( -20.10)
>DroAna_CAF1 50496 94 + 1
--ACCCCACUCCGU-----CAGCCCCUUUUCUGCACCACAGACACC---GCAUGGCCGACAAAAUAAUAUCAUUUGACGAUCAAAGUAAUUAUUUUGCUUUGGU
--..........((-----(.(((.....((((.....))))....---....))).)))...................((((((((((.....)))))))))) ( -18.72)
>DroPer_CAF1 31560 89 + 1
---------------CGCCCACCCCCUGCCCCUCGGCACAGACACCGCCGCAUGGCCGACAAAAUAAUAUCAUUUGACGAUCAAAGUAAUUAUUUUGCUUUGGU
---------------...(((......(((...((((.........))))...))).(.(((((((((....((((.....))))...))))))))))..))). ( -19.30)
>consensus
__ACCCCGCACCC__CCCAAACACCCUGCCCUGCACCACAGACACC___GCAUGGCCGACAAAAUAAUAUCAUUUGACGAUCAAAGUAAUUAUUUUGCUUUGGU
......................................................((((((((((((((....((((.....))))...)))))))))..))))) (-11.70 = -11.70 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 16,431,324 – 16,431,429
Length 105
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 78.49
Mean single sequence MFE -26.67
Consensus MFE -12.22
Energy contribution -12.38
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.49
Structure conservation index 0.46
SVM decision value 0.77
SVM RNA-class probability 0.844921
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16431324 105 + 22407834
--------CACAGACA---CCGCAUGGC-CGACAAAAUAAUAUCAUUUGACGAUCAAAGUAAUUAUUUUGCUUUGGUCUACAGCAUAAUUGCGGGUUCUACUCCGACUGCGGGGUUG
--------...(((..---(((((..((-.(.((((.........))))..(((((((((((.....)))))))))))..).)).....)))))..)))((((((....)))))).. ( -31.90)
>DroVir_CAF1 29184 95 + 1
--------GCCGUACA---CC-CAUUGC-CGACAAAAUAAUAUCAUUUG-CGAUCAAAGUAAUUAUUUUGCUUUGGUCUACAGAAUAAUUACGGCUUCUGCGCCGC------GGC--
--------(((((...---..-....((-((.((((.........))))-.(((((((((((.....))))))))))).............)))).........))------)))-- ( -25.97)
>DroGri_CAF1 33221 95 + 1
--------GCCGUAUA---CC-CAUUGU-CGACAAAAUAAUAUCAUUUU-CGAUCAAAGUAAUUAUUUUGCUUUGGUCUACAGCAUAAUUACGGCUUCUACGGUGC------GGC--
--------(((((((.---..-....((-((..(((((......)))))-.(((((((((((.....))))))))))).............)))).......))))------)))-- ( -26.94)
>DroWil_CAF1 59520 102 + 1
AACUCACUCAUACAUAUGGCCACAUGGC-CGACAAAAUAAUAUCAUUUGACGAUCAAAGUAAUUAUUUUGCUUUGGUCUACAGCAUAAUUGCGGGUUCUACUA--------------
(((((...........(((((....)))-))....................(((((((((((.....)))))))))))....(((....))))))))......-------------- ( -27.10)
>DroMoj_CAF1 26021 96 + 1
--------UCUGUACU---CC-CAUUGCCCGACAAAAUAAUAUCAUUUG-CGAUCAAAGUAAUUAUUUCGCUUUGGUCUACAGAAUAAUUACGGCUUCAACGGCGU------GGU--
--------((((((..---..-........(.((((.........))))-)((((((((..(.....)..))))))))))))))...((((((.(......).)))------)))-- ( -20.50)
>DroAna_CAF1 50525 105 + 1
--------CACAGACA---CCGCAUGGC-CGACAAAAUAAUAUCAUUUGACGAUCAAAGUAAUUAUUUUGCUUUGGUCUACAGCAUAAUUGCGGGUUCUACUCGGAACAAGGGGUUG
--------....(((.---(((((..((-.(.((((.........))))..(((((((((((.....)))))))))))..).)).....)))))(((((....))))).....))). ( -27.60)
>consensus
________CACAUACA___CC_CAUGGC_CGACAAAAUAAUAUCAUUUG_CGAUCAAAGUAAUUAUUUUGCUUUGGUCUACAGCAUAAUUACGGCUUCUACGCCGA______GGU__
...................................................(((((((((((.....)))))))))))....................................... (-12.22 = -12.38 +   0.17)

alignment

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secondary structure

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dotplot

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Window 2

Location 16,431,349 – 16,431,457
Length 108
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.23
Mean single sequence MFE -34.54
Consensus MFE -19.04
Energy contribution -20.00
Covariance contribution 0.96
Combinations/Pair 1.04
Mean z-score -1.90
Structure conservation index 0.55
SVM decision value 0.14
SVM RNA-class probability 0.600672
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16431349 108 + 22407834
UAAUAUCAUUUGACGAUCAAAGUAAUUAUUUUGCUUUGGUCUACAGCAUAAUUGCGGGUUCUACUCCGACUGCGGGGUUGGCCAAGGGUUAAGGCUGG--GGGGAGC----------GAG
.....((.(((..((((((((((((.....)))))))))))..((((.(((((...((((..((((((....)))))).))))...)))))..)))).--)..))).----------)). ( -34.30)
>DroPse_CAF1 33168 106 + 1
UAAUAUCAUUUGACGAUCAAAGUAAUUAUUUUGCUUUGGUCUACAGCAUAAUUGUGGGUUCUACGCCGACUA-GGGGUUGUCCAGGGCUC-G-GCUCGGCUCGGCC-----------CGG
..............(((((((((((.....))))))))))).(((((......((.(((.....))).))..-...)))))((.(((((.-(-((...))).))))-----------))) ( -34.30)
>DroYak_CAF1 57026 119 + 1
UAAUAUCAUUUGACGAUCAAAGUAAUUAUUUUGCUUUGGUCUACAGCAUAAUUGCGGGUUCUACUCCGACUGCGGGGUUGGCCUAGGGUUAAGGCCGG-AGGGGUGCUGAGGAGAAAGAG
.....((.(((..((((((((((((.....)))))))))))..((((((..((.((((((..((((((....)))))).)))))..(((....)))).-))..)))))).)..))).)). ( -42.00)
>DroAna_CAF1 50550 107 + 1
UAAUAUCAUUUGACGAUCAAAGUAAUUAUUUUGCUUUGGUCUACAGCAUAAUUGCGGGUUCUACUCGGAACAAGGGGUUGGACCGGGGAUAGGG--GG-AGGGUAGA----------GAG
...((((.(((..((((((((((((.....))))))))))).........(((.(.(((((.((((........)))).))))).).))).)..--))-).))))..----------... ( -30.30)
>DroPer_CAF1 31609 101 + 1
UAAUAUCAUUUGACGAUCAAAGUAAUUAUUUUGCUUUGGUCUACAGCAUAAUUGUGGGUUCUACGCCGACUA-GGGGUUGUCCAGGGCUC-G-GCUCGGCCCG----------------G
..............(((((((((((.....)))))))))))....(((....)))(((((....(((((((.-.((.....))..)).))-)-))..))))).----------------. ( -31.80)
>consensus
UAAUAUCAUUUGACGAUCAAAGUAAUUAUUUUGCUUUGGUCUACAGCAUAAUUGCGGGUUCUACUCCGACUA_GGGGUUGGCCAGGGGUUAGGGCUGG_AGGGGAG___________GAG
..............(((((((((((.....)))))))))))....(((....))).((((..(((((......))))).))))..................................... (-19.04 = -20.00 +   0.96)

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 11:53:07 2006