Locus 2937

Sequence ID X_DroMel_CAF1
Location 7,865,290 – 7,865,461
Length 171
Max. P 0.842188
window4817 window4818

overview

Window 7

Location 7,865,290 – 7,865,401
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.85
Mean single sequence MFE -35.69
Consensus MFE -20.34
Energy contribution -22.10
Covariance contribution 1.76
Combinations/Pair 1.26
Mean z-score -1.77
Structure conservation index 0.57
SVM decision value 0.51
SVM RNA-class probability 0.764747
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7865290 111 + 22224390
UGCAUCCAUCAUCAAAGGCCUCGUCGUAGUUUUGCACACUGUAUGCCCCCUUUGGUGACUUCGGCUCCUU------CGUUUCCAUUACCAUAAAGCCCUUGGUGAUGGAAAUAUCA---A
.((.....((((((((((...(((.(((((.......))))))))...)))))))))).....)).....------.(((((((((((((.........)))))))))))))....---. ( -32.60)
>DroSec_CAF1 1069 117 + 1
CGCAUCCAUCAUCAAACGCCUCUUCGUAGCUUUGCACACUGUAAGCACCCUUUGGGGGCUUCGGGUCCUCCGCCGCCGUUUCCAUUACCAUGAAGCCCUUGGUGAUGCUAAUGUCA---A
.((((.(((((((((..((.((...(((((((.((.....))))))......(((..((..(((........)))..))..))).)))...)).))..)))))))))...))))..---. ( -32.70)
>DroSim_CAF1 1901 117 + 1
CGCAUCCAUCAUCAAACGCCUCUUCGUAGCUUUGCACACUGUAAGCACCCUUUGGGGGCUUCGGGUCCUCCGCCGCCGUUUCCAUCACCAUGAAGCCCUUGGUGAUGCUAAUGUCA---A
.((((.(((((((((...((.....((.((((.((.....)))))))).....))(((((((((((....................))).)))))))))))))))))...))))..---. ( -32.05)
>DroEre_CAF1 11242 114 + 1
CGCAUCCUUUAGCACUGCCCUCUUGGUAGCUUUGCAAACUGUAACCACCACUUGGAGGCGUCGGGUGCUC------CGUUUCCAUUACCAAAAAGCCCUUGGUAAUGGGAACGUUGGGCU
.((..((...(((((((((((((((((.(..((((.....))))).))))...))))).))..)))))).------(((((((((((((((.......)))))))))))))))..)))). ( -42.40)
>DroYak_CAF1 11863 114 + 1
CGCAUCCCUUCUCGCUGGCCUCCUGGUAGCUCUCCAAGGAGUAAGCACCUCGCGGAGGCGUCUGCUGCUC------CGUUUCCAUUACCAUGAAGCCCUGGGUAACGGGAAUGAAGCCCC
.............((..((((((.(((.((((((....)))..))))))....))))))....)).(((.------(((((((.(((((...........))))).))))))).)))... ( -38.70)
>consensus
CGCAUCCAUCAUCAAAGGCCUCUUCGUAGCUUUGCACACUGUAAGCACCCUUUGGAGGCUUCGGGUCCUC______CGUUUCCAUUACCAUGAAGCCCUUGGUGAUGGGAAUGUCA___A
.................((((((..(..(((.(((.....))))))..)....)))))).................((((((((((((((.........))))))))))))))....... (-20.34 = -22.10 +   1.76)

alignment

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secondary structure

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dotplot

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Window 8

Location 7,865,364 – 7,865,461
Length 97
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 58.68
Mean single sequence MFE -27.36
Consensus MFE -9.88
Energy contribution -10.76
Covariance contribution 0.88
Combinations/Pair 1.47
Mean z-score -2.21
Structure conservation index 0.36
SVM decision value 0.75
SVM RNA-class probability 0.842188
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7865364 97 + 22224390
UCCAUUACCAUAAAGCCCUUGGUGAUGGAAAUAUCA---AAUUUAGGUUUGACACCUGCUAGCGUUGC------------CUUUGACUCAGCAUCAUCGCUGGCUUU--------CUUUU
((((((((((.........))))))))))....(((---(((....)))))).....(((((((.(((------------..........)))....)))))))...--------..... ( -29.80)
>DroSec_CAF1 1149 85 + 1
UCCAUUACCAUGAAGCCCUUGGUGAUGCUAAUGUCA---AUUUUAGGUUUGACAGCUGGAAGCGUUG------------------------CAUCUUCGCUGGCUUU--------CUUUU
...........((((((..(((.(((((...(((((---(........))))))((.....))...)------------------------)))).)))..))))))--------..... ( -23.60)
>DroSim_CAF1 1981 85 + 1
UCCAUCACCAUGAAGCCCUUGGUGAUGCUAAUGUCA---AUUUUAGGUUUGACAGCUGGAAGCGUUG------------------------CAUCUUCGCUGGCUUU--------CUUUU
..((((((((.(.....).))))))))....(((((---(........))))))...((((((...(------------------------(......))..)))))--------).... ( -24.90)
>DroEre_CAF1 11316 96 + 1
UCCAUUACCAAAAAGCCCUUGGUAAUGGGAACGUUGGGCUUCUUAGGCUCGACAGCAUUGAGCGAUCC------------CUCUGACUGA------------GCCGAAGACUGAGCAGCU
(((((((((((.......))))))))))).......((((.(((((((((((.....)))))).....------------(((.....))------------).......))))).)))) ( -32.10)
>DroYak_CAF1 11937 100 + 1
UCCAUUACCAUGAAGCCCUGGGUAACGGGAAUGAAGCCCCCAUUGGGCUCGACCACCUUAAGUGAUCCCCCCUCUGCCCCCUCUGACUGA------------GCCUU--------CUGCU
...........((((....(((((..(((...((.((((.....))))))((.(((.....))).))..)))..))))).(((.....))------------).)))--------).... ( -26.40)
>consensus
UCCAUUACCAUGAAGCCCUUGGUGAUGGGAAUGUCA___AUUUUAGGUUUGACAGCUGGAAGCGUUGC____________CU_UGACU_A_CAUC_UCGCUGGCUUU________CUUUU
((((((((((.........)))))))))).................(((((.......)))))......................................................... ( -9.88 = -10.76 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:09 2006