Locus 3582

Sequence ID	2R_DroMel_CAF1
Location	11,920,102 – 11,920,195
Length	93
Max. P	0.969018

overview

Window 5

Location	11,920,102 – 11,920,195
Length	93
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	90.70
Mean single sequence MFE	-36.78
Consensus MFE	-27.62
Energy contribution	-28.46
Covariance contribution	0.84
Combinations/Pair	1.10
Mean z-score	-2.76
Structure conservation index	0.75
SVM decision value	1.53
SVM RNA-class probability	0.961979
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11920102 93 + 20766785
CUCUGCGGUGAGCAGAGGUGUG----UUUGCUGG-GGGAAAAGGGACGAUGGCGACGCGCCUUGUUUGGCCCGGCAAAUGUGGCUUAAUAGCAAAAUA
((((((.....))))))..(..----((((((((-(..(((((((.((.((....)))))))).)))..)))))))))..).(((....)))...... ( -36.50)
>DroSec_CAF1 21794 96 + 1
CUCUGCGGUGAGCAGAGGUGUGUGUGUUUGCUGGGGGGGAAAGGGACGC--GCGACGCGCCUUGUUUGGCCCGGCAAAUGUGGCUUAAUAGCAAAAUA
((((((.....))))))......(..(((((((((..(((.((((.(((--(...)))))))).)))..)))))))))..).(((....)))...... ( -39.40)
>DroSim_CAF1 19709 98 + 1
CUCUGCGGUGAGCAGAGGUGUGUUUGUUUGCUGGGGGGAAAAGGGACGAUGGCGACGCGCCUUGUUUGGCCCGGCAAAUGCGGCUUAAUAGCAAAAUA
((((((.....))))))...(((..((((((((((..(((.((((.((.((....)))))))).)))..)))))))))))))(((....)))...... ( -37.60)
>DroEre_CAF1 18918 94 + 1
CUUUGCGGGGGGCAGAGGUGUG----UUUGCCAGGGGGAAAAGGGACGAUGGCGACGCGCCUUGUUUGGCCCGGCAAAUAUGGCUUAAUAGCUAAAUA
.(((((.(((((((.(((((((----((.((((..(..........)..)))))))))))))))))...))).)))))..(((((....))))).... ( -36.90)
>DroYak_CAF1 20050 93 + 1
CUUUGCGGUGAGCAGCGGUGUG----UUUGCU-GGGGGAAAAGGGACAAUGGCGACGCGCCUUGUUUGGCCCGGCAAAUGUGGCUUAAUAGCAAAAUA
.(((((..(((((.((.....(----((((((-(((.......((((((.((((...))))))))))..)))))))))))).)))))...)))))... ( -33.50)
>consensus
CUCUGCGGUGAGCAGAGGUGUG____UUUGCUGGGGGGAAAAGGGACGAUGGCGACGCGCCUUGUUUGGCCCGGCAAAUGUGGCUUAAUAGCAAAAUA
((((((.....)))))).........(((((((((..(((.((((.((.((....)))))))).)))..)))))))))....(((....)))...... (-27.62 = -28.46 +   0.84)

alignment

secondary structure

dotplot

Window 6

Location	11,920,102 – 11,920,195
Length	93
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	90.70
Mean single sequence MFE	-23.73
Consensus MFE	-19.64
Energy contribution	-20.36
Covariance contribution	0.72
Combinations/Pair	1.08
Mean z-score	-2.01
Structure conservation index	0.83
SVM decision value	1.64
SVM RNA-class probability	0.969018
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11920102 93 - 20766785
UAUUUUGCUAUUAAGCCACAUUUGCCGGGCCAAACAAGGCGCGUCGCCAUCGUCCCUUUUCCC-CCAGCAAA----CACACCUCUGCUCACCGCAGAG
......(((....)))....(((((.(((......((((.(((.......))).))))....)-)).)))))----.....((((((.....)))))) ( -24.70)
>DroSec_CAF1 21794 96 - 1
UAUUUUGCUAUUAAGCCACAUUUGCCGGGCCAAACAAGGCGCGUCGC--GCGUCCCUUUCCCCCCCAGCAAACACACACACCUCUGCUCACCGCAGAG
......(((....)))....(((((.(((........((((((...)--))))).........))).))))).........((((((.....)))))) ( -26.13)
>DroSim_CAF1 19709 98 - 1
UAUUUUGCUAUUAAGCCGCAUUUGCCGGGCCAAACAAGGCGCGUCGCCAUCGUCCCUUUUCCCCCCAGCAAACAAACACACCUCUGCUCACCGCAGAG
......(((....)))....(((((.(((......((((.(((.......))).)))).....))).))))).........((((((.....)))))) ( -25.10)
>DroEre_CAF1 18918 94 - 1
UAUUUAGCUAUUAAGCCAUAUUUGCCGGGCCAAACAAGGCGCGUCGCCAUCGUCCCUUUUCCCCCUGGCAAA----CACACCUCUGCCCCCCGCAAAG
......(((....)))....(((((((((......((((.(((.......))).)))).....)))))))))----.....((.(((.....))).)) ( -22.50)
>DroYak_CAF1 20050 93 - 1
UAUUUUGCUAUUAAGCCACAUUUGCCGGGCCAAACAAGGCGCGUCGCCAUUGUCCCUUUUCCCCC-AGCAAA----CACACCGCUGCUCACCGCAAAG
...(((((.....(((....(((((.(((....((((((((...)))).)))).........)))-.)))))----......))).......))))). ( -20.22)
>consensus
UAUUUUGCUAUUAAGCCACAUUUGCCGGGCCAAACAAGGCGCGUCGCCAUCGUCCCUUUUCCCCCCAGCAAA____CACACCUCUGCUCACCGCAGAG
......(((....)))....(((((.(((......((((.(((.......))).)))).....))).))))).........((((((.....)))))) (-19.64 = -20.36 +   0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:08 2006