Locus 7523

Sequence ID	2L_DroMel_CAF1
Location	20,872,863 – 20,872,959
Length	96
Max. P	0.952248

overview

Window 0

Location	20,872,863 – 20,872,959
Length	96
Sequences	6
Columns	103
Reading direction	forward
Mean pairwise identity	84.38
Mean single sequence MFE	-34.87
Consensus MFE	-25.86
Energy contribution	-27.25
Covariance contribution	1.39
Combinations/Pair	1.11
Mean z-score	-1.87
Structure conservation index	0.74
SVM decision value	0.04
SVM RNA-class probability	0.553726
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20872863 96 + 22407834
------GCCCAUGG-GUUUCAUUACCUGGACUGAACUGGAAGCACUGGCAUUUGGUGGUGAUGUCGUUCGAGCUGGCCGCGAUGAAGAGCGGCAGCUCGAAGA
------(((....)-))..(((((((........((..((.((....)).))..)))))))))...(((((((((.((((........))))))))))))).. ( -37.90)
>DroVir_CAF1 75648 102 + 1
GGUUCUGUUAGGAGAGU-UUAUUACCUGGACUGAACUGCCAGCACUGGCAUUUCGUUGUUAUAUCAUUCGAGCUGGCCGCUAUAAAGAGGGGCAGCUCGAAGA
(((((.((((((.((..-...)).))).))).)))))((((....)))).................(((((((((.((.((......)))).))))))))).. ( -35.90)
>DroPse_CAF1 65669 98 + 1
---G--AUGUGUGGACUUUUAUUACCUGGACUGAGCUGCCAGCACUGGCAUUUGGUUGUGAUAUCAUUCGAGCUGGCAGCUAUGAAGAGCGGCAGCUCAAAGA
---.--.......((....((((((...(((..((.(((((....)))))))..)))))))))....))((((((.(.(((......)))).))))))..... ( -31.50)
>DroYak_CAF1 54893 102 + 1
GGCGAUGCUCGUGG-GUUUUAUUACCUGGACUGAACUGGAAGCACUGGCAUUUGGUGGUGAUGUCGUUCGAGCUGGCCGCGAUGAAGAGCGGCAGCUCGAAGA
.((((((.((..((-((......))))..(((..((..((.((....)).))..)))))))))))))((((((((.((((........))))))))))))... ( -37.80)
>DroAna_CAF1 52522 96 + 1
------AUUUGUGG-CUUUUAUUACCUGGACUGAACUGCCAGCACUGGCAUUUGGUGGUUAUGUCGUUCGAGCUGGCCGCUAUGAAGAGGGGCAGCUCGAAGA
------......((-(.......(((...((..((.(((((....)))))))..)))))...))).(((((((((.((.((......)))).))))))))).. ( -34.60)
>DroPer_CAF1 69708 98 + 1
---G--AUGUGUGGACUUUUAUUACCUGGACUGAGCUGCCAGCACUGGCAUUUGGUUGUGAUAUCAUUCGAGCUGGCAGCUAUGAAGAGCGGCAGCUCAAAGA
---.--.......((....((((((...(((..((.(((((....)))))))..)))))))))....))((((((.(.(((......)))).))))))..... ( -31.50)
>consensus
___G__AUUUGUGG_CUUUUAUUACCUGGACUGAACUGCCAGCACUGGCAUUUGGUGGUGAUAUCAUUCGAGCUGGCCGCUAUGAAGAGCGGCAGCUCGAAGA
...................((((((....((..((.(((((....)))))))..)).))))))...(((((((((.((((........))))))))))))).. (-25.86 = -27.25 +   1.39)

alignment

secondary structure

dotplot

Window 1

Location	20,872,863 – 20,872,959
Length	96
Sequences	6
Columns	103
Reading direction	reverse
Mean pairwise identity	84.38
Mean single sequence MFE	-27.37
Consensus MFE	-25.04
Energy contribution	-25.82
Covariance contribution	0.78
Combinations/Pair	1.04
Mean z-score	-2.11
Structure conservation index	0.91
SVM decision value	1.42
SVM RNA-class probability	0.952248
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20872863 96 - 22407834
UCUUCGAGCUGCCGCUCUUCAUCGCGGCCAGCUCGAACGACAUCACCACCAAAUGCCAGUGCUUCCAGUUCAGUCCAGGUAAUGAAAC-CCAUGGGC------
(((((((((((((((........)))).))))))))).))................................((((((((......))-)..)))))------ ( -29.90)
>DroVir_CAF1 75648 102 - 1
UCUUCGAGCUGCCCCUCUUUAUAGCGGCCAGCUCGAAUGAUAUAACAACGAAAUGCCAGUGCUGGCAGUUCAGUCCAGGUAAUAA-ACUCUCCUAACAGAACC
(((((((((((((.((......)).)).))))))))).)).............(((((....)))))((((.((..(((......-.....))).)).)))). ( -29.50)
>DroPse_CAF1 65669 98 - 1
UCUUUGAGCUGCCGCUCUUCAUAGCUGCCAGCUCGAAUGAUAUCACAACCAAAUGCCAGUGCUGGCAGCUCAGUCCAGGUAAUAAAAGUCCACACAU--C---
((((((((((((.(((......))).).))))))))).)).............((((.(..((((....))))..).))))................--.--- ( -24.30)
>DroYak_CAF1 54893 102 - 1
UCUUCGAGCUGCCGCUCUUCAUCGCGGCCAGCUCGAACGACAUCACCACCAAAUGCCAGUGCUUCCAGUUCAGUCCAGGUAAUAAAAC-CCACGAGCAUCGCC
..(((((((((((((........)))).)))))))))(((..............((....)).....((((.((...(((......))-).)))))).))).. ( -29.00)
>DroAna_CAF1 52522 96 - 1
UCUUCGAGCUGCCCCUCUUCAUAGCGGCCAGCUCGAACGACAUAACCACCAAAUGCCAGUGCUGGCAGUUCAGUCCAGGUAAUAAAAG-CCACAAAU------
..(((((((((((.((......)).)).))))))))).(((..(((.......(((((....))))))))..)))..(((.......)-))......------ ( -27.21)
>DroPer_CAF1 69708 98 - 1
UCUUUGAGCUGCCGCUCUUCAUAGCUGCCAGCUCGAAUGAUAUCACAACCAAAUGCCAGUGCUGGCAGCUCAGUCCAGGUAAUAAAAGUCCACACAU--C---
((((((((((((.(((......))).).))))))))).)).............((((.(..((((....))))..).))))................--.--- ( -24.30)
>consensus
UCUUCGAGCUGCCGCUCUUCAUAGCGGCCAGCUCGAACGACAUCACAACCAAAUGCCAGUGCUGGCAGUUCAGUCCAGGUAAUAAAAC_CCACAAAC__C___
(((((((((((((((........)))).))))))))).)).............((((.(..(((......)))..).))))...................... (-25.04 = -25.82 +   0.78)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:53 2006