Locus 2286

Sequence ID 2R_DroMel_CAF1
Location 8,410,989 – 8,411,080
Length 91
Max. P 0.966563
window3756 window3757

overview

Window 6

Location 8,410,989 – 8,411,080
Length 91
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 76.63
Mean single sequence MFE -23.76
Consensus MFE -13.17
Energy contribution -14.53
Covariance contribution 1.36
Combinations/Pair 1.07
Mean z-score -2.35
Structure conservation index 0.55
SVM decision value 1.60
SVM RNA-class probability 0.966563
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8410989 91 + 20766785
UCGGGAAAAUUCUUA--UU--AUUAGGGUGACGUUGGCAUUUUU----UCGCCAACUGCCGCACAGUGGCACACAUUGCCCAUUUUAGAACUGCCCCUU
..(((..(.((((..--..--....(((..(.((((((......----..))))))((((((...))))))....)..))).....)))).)..))).. ( -29.32)
>DroPse_CAF1 21853 84 + 1
-----UAAAUUCUUCCCGU--AACAGGGUGCUCUUGGCAUUU--GCUUCUGC-----ACUGCACAGUGGCACACAUUGCCGAUUAUAGA-CGGUCCCUU
-----..............--...((((((((.((((((..(--((....))-----).))).))).))))).....((((........-)))).))). ( -21.50)
>DroSec_CAF1 22514 91 + 1
UCAGGAAAAUUCUUA--AU--AUCAGGGUGACGUUGACAUUUUU----UCGCCAACUGCCGCACACUGGCACACAUUGCCCAUUUUAGAACUGCCCCUU
...((....((((..--..--....(((..(.((((.(......----..).))))(((((.....)))))....)..))).....))))...)).... ( -16.42)
>DroSim_CAF1 22146 91 + 1
UCAGCAAAAUUCUUA--UU--AUUAGGGUGACGUUGGCAUUUUU----UCGCCAACUGCCGCACACUGGCACACAUUGCCCAUUUUAGAACUGCCCCUU
...(((...((((..--..--....(((..(.((((((......----..))))))(((((.....)))))....)..))).....)))).)))..... ( -23.92)
>DroEre_CAF1 24389 80 + 1
----------UCUUA--AU--AUUAGGGUGUCGUUGGCAUUUU-----UCGCCAACUGCCGCACAGUGGCACACAUUGCCCAUUAUAGAACUGCCCCUU
----------.....--..--....((((...((((((.....-----..))))))((((((...))))))......)))).................. ( -22.90)
>DroYak_CAF1 22420 81 + 1
-----------CCAA--AUGCAGUAGGCUGCUGUUGGCAUUUU-----UUGCCAACUGCCGCACAGUGGCACACAUUGCCCAUAAUAGAACUGCCUCUU
-----------....--..(((((..((.((.(((((((....-----.))))))).)).))...(.((((.....)))))........)))))..... ( -28.50)
>consensus
_____AAAAUUCUUA__AU__AUUAGGGUGACGUUGGCAUUUU_____UCGCCAACUGCCGCACAGUGGCACACAUUGCCCAUUAUAGAACUGCCCCUU
.........................((((...((((((............))))))(((((.....)))))......)))).................. (-13.17 = -14.53 +   1.36)

alignment

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secondary structure

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dotplot

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Window 7

Location 8,410,989 – 8,411,080
Length 91
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 76.63
Mean single sequence MFE -24.62
Consensus MFE -16.93
Energy contribution -17.46
Covariance contribution 0.53
Combinations/Pair 1.16
Mean z-score -1.59
Structure conservation index 0.69
SVM decision value 1.05
SVM RNA-class probability 0.906561
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8410989 91 - 20766785
AAGGGGCAGUUCUAAAAUGGGCAAUGUGUGCCACUGUGCGGCAGUUGGCGA----AAAAAUGCCAACGUCACCCUAAU--AA--UAAGAAUUUUCCCGA
..((((.((((((......((((.....)))).......(((.(((((((.----.....))))))))))........--..--..)))))).)))).. ( -29.10)
>DroPse_CAF1 21853 84 - 1
AAGGGACCG-UCUAUAAUCGGCAAUGUGUGCCACUGUGCAGU-----GCAGAAGC--AAAUGCCAAGAGCACCCUGUU--ACGGGAAGAAUUUA-----
.........-(((......((((.....(((..((((.....-----))))..))--)..)))).......(((....--..))).))).....----- ( -17.90)
>DroSec_CAF1 22514 91 - 1
AAGGGGCAGUUCUAAAAUGGGCAAUGUGUGCCAGUGUGCGGCAGUUGGCGA----AAAAAUGUCAACGUCACCCUGAU--AU--UAAGAAUUUUCCUGA
..((((.((((((......((((.....)))).......(((.(((((((.----.....))))))))))........--..--..)))))).)))).. ( -23.80)
>DroSim_CAF1 22146 91 - 1
AAGGGGCAGUUCUAAAAUGGGCAAUGUGUGCCAGUGUGCGGCAGUUGGCGA----AAAAAUGCCAACGUCACCCUAAU--AA--UAAGAAUUUUGCUGA
.(((((((...(......)((((.....))))....)))(((.(((((((.----.....)))))))))).))))...--..--............... ( -25.00)
>DroEre_CAF1 24389 80 - 1
AAGGGGCAGUUCUAUAAUGGGCAAUGUGUGCCACUGUGCGGCAGUUGGCGA-----AAAAUGCCAACGACACCCUAAU--AU--UAAGA----------
.((((...((..((((...((((.....))))..))))..)).(((((((.-----....)))))))....))))...--..--.....---------- ( -24.50)
>DroYak_CAF1 22420 81 - 1
AAGAGGCAGUUCUAUUAUGGGCAAUGUGUGCCACUGUGCGGCAGUUGGCAA-----AAAAUGCCAACAGCAGCCUACUGCAU--UUGG-----------
.....(((((........((((......((((.......))))(((((((.-----....)))))))....)))))))))..--....----------- ( -27.40)
>consensus
AAGGGGCAGUUCUAAAAUGGGCAAUGUGUGCCACUGUGCGGCAGUUGGCGA_____AAAAUGCCAACGUCACCCUAAU__AU__UAAGAAUUUU_____
.((((((.((.........((((.....)))).....)).)).(((((((..........)))))))....))))........................ (-16.93 = -17.46 +   0.53)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:44 2006