Locus 3067

Sequence ID	X_DroMel_CAF1
Location	8,196,271 – 8,196,386
Length	115
Max. P	0.611970

overview

Window 7

Location	8,196,271 – 8,196,386
Length	115
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	75.75
Mean single sequence MFE	-32.95
Consensus MFE	-14.01
Energy contribution	-16.15
Covariance contribution	2.14
Combinations/Pair	1.12
Mean z-score	-1.96
Structure conservation index	0.43
SVM decision value	-0.02
SVM RNA-class probability	0.522192
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8196271 115 + 22224390
CAUGUCCCAGACGUCAGAAGUUGCAACAAGAGACAAGUUGGAGACGCAGGAGCGCAGUGCUCGGG-AUGC--GAAUGGAUGAAUAGGGGAAAGGUGCAGGAAAAUCCUGGGGACAGGA
..((((((...((((.....(((((.(..(((((.....(....)((......)).)).)))..)-.)))--))...))))...............((((.....))))))))))... ( -34.90)
>DroSec_CAF1 98517 114 + 1
CAUGUCCCAGACGUCAGAAGUUGCAACCAGAGACAAGUUGGAGACGCAGGAGCACAGUGCUCGGG-AUGC--GAAUGGAUGAAUGGGG-AGAGGUGCAGGAAAAUCCUGGGGACAGGA
....(((((..((((.....(((((.((.(((((.....(....)((....))...)).))).))-.)))--))...))))..)))))-...............(((((....))))) ( -38.10)
>DroSim_CAF1 78287 115 + 1
CAUGUCCCAGACGUCAGAAGUUGCAACAAGAGACAAGUUGGAGACGCAGGAGCGCAGUGCUCGGG-AUGC--GAAUGGAUGAAUGGGGAAGAGGUGCAGGAAAAUCCUGGGGACAGGA
....(((((..((((.....(((((.(..(((((.....(....)((......)).)).)))..)-.)))--))...))))..)))))................(((((....))))) ( -36.10)
>DroEre_CAF1 88653 116 + 1
CAUGUCCCAGACGUCACAAGUUGCAACAAGAGACAAGUUGGAGACGCUAGAGAGCAGUACUCGGGGCUGCAAGAAUGGAUGG--GGGGGAAAGGUGCAGGAAAAUCCUGGGGACAGGA
(((.((((...((((.((..(((((.(..(((((.....(....)(((....))).)).)))..)..)))))...)))))).--..))))...)))........(((((....))))) ( -37.10)
>DroYak_CAF1 87601 104 + 1
CAUGUCGCAGCCGUCAGAAGUUGCAACAAGAGACAAGUUGGAGACGCAAGAGAGU------------UGCAAAGGCUGGUUG--GGGGAAAAGGUGCAGGAAAAUCCUGGGGACAGGA
..(.((.((((((((.....(((((((....((....))(....)........))------------))))).))).)))))--.)).)...............(((((....))))) ( -29.30)
>DroAna_CAF1 136764 95 + 1
--------AGCCGUCACAAGUUGCAACAAGCGACAAGUUAGAGACCA--GAGG---GUGUGCGGG-G--------GGGAUUGGCGGCG-AGACAAGCGACAGGAUGCAGUGAACAGGA
--------.(((((((...(((((.....))))).......(.(((.--...)---)).).....-.--------.....))))))).-......(((......)))........... ( -22.20)
>consensus
CAUGUCCCAGACGUCAGAAGUUGCAACAAGAGACAAGUUGGAGACGCAGGAGCGCAGUGCUCGGG_AUGC__GAAUGGAUGAAUGGGG_AAAGGUGCAGGAAAAUCCUGGGGACAGGA
..((((((...((((....(((.((((.........))))..)))....(((.......)))...............))))...............((((.....))))))))))... (-14.01 = -16.15 +   2.14)

alignment

secondary structure

dotplot

Window 8

Location	8,196,271 – 8,196,386
Length	115
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	75.75
Mean single sequence MFE	-23.58
Consensus MFE	-13.74
Energy contribution	-14.77
Covariance contribution	1.03
Combinations/Pair	1.14
Mean z-score	-1.48
Structure conservation index	0.58
SVM decision value	0.16
SVM RNA-class probability	0.611970
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8196271 115 - 22224390
UCCUGUCCCCAGGAUUUUCCUGCACCUUUCCCCUAUUCAUCCAUUC--GCAU-CCCGAGCACUGCGCUCCUGCGUCUCCAACUUGUCUCUUGUUGCAACUUCUGACGUCUGGGACAUG
...((((((((((.....))))........................--....-...((((.....))))..(((((...((.((((........)))).))..)))))..)))))).. ( -25.00)
>DroSec_CAF1 98517 114 - 1
UCCUGUCCCCAGGAUUUUCCUGCACCUCU-CCCCAUUCAUCCAUUC--GCAU-CCCGAGCACUGUGCUCCUGCGUCUCCAACUUGUCUCUGGUUGCAACUUCUGACGUCUGGGACAUG
...((((((((((.....)))).......-...............(--(((.-...((((.....)))).))))..........(((...(((....)))...)))....)))))).. ( -26.70)
>DroSim_CAF1 78287 115 - 1
UCCUGUCCCCAGGAUUUUCCUGCACCUCUUCCCCAUUCAUCCAUUC--GCAU-CCCGAGCACUGCGCUCCUGCGUCUCCAACUUGUCUCUUGUUGCAACUUCUGACGUCUGGGACAUG
...((((((((((.....))))........................--....-...((((.....))))..(((((...((.((((........)))).))..)))))..)))))).. ( -25.00)
>DroEre_CAF1 88653 116 - 1
UCCUGUCCCCAGGAUUUUCCUGCACCUUUCCCCC--CCAUCCAUUCUUGCAGCCCCGAGUACUGCUCUCUAGCGUCUCCAACUUGUCUCUUGUUGCAACUUGUGACGUCUGGGACAUG
...((((((((((.....))))............--.....(((..(((((((...(((.((.(((....)))((.....))..)))))..)))))))...)))......)))))).. ( -27.40)
>DroYak_CAF1 87601 104 - 1
UCCUGUCCCCAGGAUUUUCCUGCACCUUUUCCCC--CAACCAGCCUUUGCA------------ACUCUCUUGCGUCUCCAACUUGUCUCUUGUUGCAACUUCUGACGGCUGCGACAUG
...((((..((((.....))))............--....(((((...(((------------(.....))))(((...((.((((........)))).))..)))))))).)))).. ( -22.70)
>DroAna_CAF1 136764 95 - 1
UCCUGUUCACUGCAUCCUGUCGCUUGUCU-CGCCGCCAAUCCC--------C-CCCGCACAC---CCUC--UGGUCUCUAACUUGUCGCUUGUUGCAACUUGUGACGGCU--------
...........((........))......-.(((((((.....--------.-.........---....--)))).........(((((..((....))..)))))))).-------- ( -14.71)
>consensus
UCCUGUCCCCAGGAUUUUCCUGCACCUCU_CCCCAUCCAUCCAUUC__GCAU_CCCGAGCACUGCGCUCCUGCGUCUCCAACUUGUCUCUUGUUGCAACUUCUGACGUCUGGGACAUG
...((((((((((.....)))).................................................(((((...((.((((........)))).))..)))))..)))))).. (-13.74 = -14.77 +   1.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:11 2006