Locus 7679

Sequence ID	2L_DroMel_CAF1
Location	21,623,200 – 21,623,290
Length	90
Max. P	0.889136

overview

Window 4

Location	21,623,200 – 21,623,290
Length	90
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	78.72
Mean single sequence MFE	-19.85
Consensus MFE	-14.24
Energy contribution	-14.80
Covariance contribution	0.56
Combinations/Pair	1.14
Mean z-score	-1.31
Structure conservation index	0.72
SVM decision value	0.46
SVM RNA-class probability	0.745711
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21623200 90 + 22407834
------UGUUCA---------AACAAGCAUUCUAUAUGCGGAUAUCGUUGGCUUUACCGCCAUCUCCUCCACAUAUAGUGCGCAAGAUUUGGUAAAAAUGCUUAA
------......---------...((((((((((((((.(((......((((......)))).....))).)))))))..(....)..........))))))).. ( -24.00)
>DroVir_CAF1 33012 96 + 1
AAAAUAUAUAUA---------UAUAAGCAUACUGUAUGCGGAUAUUGUUGGGUUUACCGCCAUCUCCUCGACGUAUAGCGCCCAGGAUCUGGUAAAAAUGCUAAA
............---------....(((((.(((....)))........((.....))((((..((((.(.((.....)).).))))..))))....)))))... ( -19.70)
>DroWil_CAF1 29606 99 + 1
------UACACACACACCAUCAAAUAGCAUACUUUAUGCGGAUAUUGUUGGCUUUACUGCCAUCUCCUCAACAUAUAGCGCCCAAGAUCUGGUUAAAAUGCUUAA
------...................(((((.((.((((..((....(.((((......)))).)...))..)))).))...(((.....))).....)))))... ( -16.40)
>DroMoj_CAF1 22238 82 + 1
AA-----------------------AGCAUACUGUAUGCGGAUAUUGUCGGCUUUACCGCCAUCUCCUCGACGUAUAGCGCCCAAGAUCUGGUAAAAAUGCUAAA
..-----------------------(((((.((((((((((.....(..(((......)))..)...))).))))))).(((........)))....)))))... ( -19.00)
>DroAna_CAF1 16694 90 + 1
------CGUGAA---------AACAAGCAUACUCUAUGCGGAUAUCGUUGGCUUCACAGCCAUCUCCUCGACAUAUAGCGCCCAAGAUUUGGUUAAAAUGCUUAA
------.((...---------.))((((((.((.(((((((.......(((((....))))).....))).)))).))...(((.....))).....)))))).. ( -18.80)
>DroPer_CAF1 33183 90 + 1
------UUUACG---------AAUAAGCAUACUAUAUGCGGAUAUAGUGGGCUUUACCGCCAUCUCCUCGACAUAUAGCGCUCAAGACUUGGUUAAAAUGCUUAA
------......---------..(((((((.(((((((((((.((.((((......)))).)).)))..).))))))).(((........)))....))))))). ( -21.20)
>consensus
______UAUACA_________AACAAGCAUACUAUAUGCGGAUAUUGUUGGCUUUACCGCCAUCUCCUCGACAUAUAGCGCCCAAGAUCUGGUAAAAAUGCUUAA
.........................(((((.(((((((..((......((((......)))).....))..))))))).(((........)))....)))))... (-14.24 = -14.80 +   0.56)

alignment

secondary structure

dotplot

Window 5

Location	21,623,200 – 21,623,290
Length	90
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	78.72
Mean single sequence MFE	-24.35
Consensus MFE	-16.58
Energy contribution	-16.28
Covariance contribution	-0.30
Combinations/Pair	1.26
Mean z-score	-1.80
Structure conservation index	0.68
SVM decision value	0.95
SVM RNA-class probability	0.889136
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21623200 90 - 22407834
UUAAGCAUUUUUACCAAAUCUUGCGCACUAUAUGUGGAGGAGAUGGCGGUAAAGCCAACGAUAUCCGCAUAUAGAAUGCUUGUU---------UGAACA------
..............(((((...(((..(((((((((((...(.((((......)))).)....)))))))))))..)))..)))---------))....------ ( -29.20)
>DroVir_CAF1 33012 96 - 1
UUUAGCAUUUUUACCAGAUCCUGGGCGCUAUACGUCGAGGAGAUGGCGGUAAACCCAACAAUAUCCGCAUACAGUAUGCUUAUA---------UAUAUAUAUUUU
...(((((......((..((((.((((.....)))).))))..))((((...............)))).......)))))....---------............ ( -23.16)
>DroWil_CAF1 29606 99 - 1
UUAAGCAUUUUAACCAGAUCUUGGGCGCUAUAUGUUGAGGAGAUGGCAGUAAAGCCAACAAUAUCCGCAUAAAGUAUGCUAUUUGAUGGUGUGUGUGUA------
....((((....((((.......((((((.(((((.((...(.((((......)))).)....)).))))).)))..)))......))))....)))).------ ( -24.62)
>DroMoj_CAF1 22238 82 - 1
UUUAGCAUUUUUACCAGAUCUUGGGCGCUAUACGUCGAGGAGAUGGCGGUAAAGCCGACAAUAUCCGCAUACAGUAUGCU-----------------------UU
...(((((.....(((..((((.((((.....)))).))))..)))(((.....)))..................)))))-----------------------.. ( -21.30)
>DroAna_CAF1 16694 90 - 1
UUAAGCAUUUUAACCAAAUCUUGGGCGCUAUAUGUCGAGGAGAUGGCUGUGAAGCCAACGAUAUCCGCAUAGAGUAUGCUUGUU---------UUCACG------
.(((((((.....(((.....)))..(((.(((((.((...(.(((((....))))).)....)).))))).))))))))))..---------......------ ( -24.10)
>DroPer_CAF1 33183 90 - 1
UUAAGCAUUUUAACCAAGUCUUGAGCGCUAUAUGUCGAGGAGAUGGCGGUAAAGCCCACUAUAUCCGCAUAUAGUAUGCUUAUU---------CGUAAA------
.(((((((.........((.....))(((((((((...(((.((((.((......)).)))).)))))))))))))))))))..---------......------ ( -23.70)
>consensus
UUAAGCAUUUUAACCAAAUCUUGGGCGCUAUAUGUCGAGGAGAUGGCGGUAAAGCCAACAAUAUCCGCAUACAGUAUGCUUAUU_________UGUACA______
...(((((......((..((((.((((.....)))).))))..))((((...............)))).......)))))......................... (-16.58 = -16.28 +  -0.30)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:35 2006