Locus 8602

Sequence ID	3R_DroMel_CAF1
Location	22,996,423 – 22,996,525
Length	102
Max. P	0.965508

overview

Window 0

Location	22,996,423 – 22,996,525
Length	102
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	79.62
Mean single sequence MFE	-28.90
Consensus MFE	-16.67
Energy contribution	-16.83
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-1.64
Structure conservation index	0.58
SVM decision value	-0.03
SVM RNA-class probability	0.516251
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22996423 102 + 27905053
----UC----CGCAGCGAC-CGUCGCUGCCUUGGCAUGCUGCAAACAGCGUAAUUGGCUUUCAAUUUGCUGCAAAUUGUUGCAACAGCCACGACAACGGCGCAAAG-AGCCA
----..----.((((((..-...))))))......((((((....))))))...((((((....((((((((((....)))))...(((........)))))))))-))))) ( -37.00)
>DroPse_CAF1 571 101 + 1
-------GGGCACAUCGAU-GUUGCCUGCCUUGGCAUGCUGCAAACAACGUAAUUGGCUUUCAAUUUGCAGCAAAUUGUUGCAACAGCCACGACAACAACGAAAAG-AGC--
-------.......(((.(-(((((.(((....))).))..........((...(((((......(((((((.....))))))).)))))..)))))).)))....-...-- ( -25.90)
>DroWil_CAF1 3802 87 + 1
--------GUCACAU-----CGGCAUUGCCUUGGCAUGCUGCAAACAACGUAAUUGGCUUUCAAUUUGCAGCAAAUUGUUGCAACAGCCACGACAACAGC------------
--------(((....-----((((((.((....)))))))).............(((((......(((((((.....))))))).))))).)))......------------ ( -26.10)
>DroMoj_CAF1 2502 107 + 1
UUUGCCUGGUCGCC-----UUGCCAUUGCCGUGGCAUGCUGCAAACAACGUAAUUGGCUUUCAAUUUGCAGCAAAUUGUUGCAACAGCCACGACAACAACGAAAAGCAGCGC
..((((((((.((.-----..))....)))).)))).(((((............(((((......(((((((.....))))))).)))))((.......))....))))).. ( -30.30)
>DroAna_CAF1 467 99 + 1
----UC----CGAUCCAAC-CGCCGCUGCCUUGGCAUGCUGCAAACAACGUAAUUGGCUUUCAAUUUGCAGCAAAUUGUUGCAACAGCCACGACAACGGCGCAAAG-AG---
----..----.........-(((((.((.(.((((.(((((((((....((.....))......)))))))))...(((....))))))).).)).))))).....-..--- ( -28.20)
>DroPer_CAF1 583 104 + 1
----CCCGGGCACAUCGAU-GUUGCCUGCCUUGGCAUGCUGCAAACAACGUAAUUGGCUUUCAAUUUGCAGCAAAUUGUUGCAACAGCCACGACAACAACGAAAAG-AGC--
----..........(((.(-(((((.(((....))).))..........((...(((((......(((((((.....))))))).)))))..)))))).)))....-...-- ( -25.90)
>consensus
_____C__G_CACAUCGA__CGUCACUGCCUUGGCAUGCUGCAAACAACGUAAUUGGCUUUCAAUUUGCAGCAAAUUGUUGCAACAGCCACGACAACAACGAAAAG_AGC__
..........................((.(.((((.(((((((((....((.....))......)))))))))...(((....))))))).).))................. (-16.67 = -16.83 +   0.17)

alignment

secondary structure

dotplot

Window 1

Location	22,996,423 – 22,996,525
Length	102
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	79.62
Mean single sequence MFE	-37.05
Consensus MFE	-29.17
Energy contribution	-29.73
Covariance contribution	0.56
Combinations/Pair	1.19
Mean z-score	-2.75
Structure conservation index	0.79
SVM decision value	1.58
SVM RNA-class probability	0.965508
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22996423 102 - 27905053
UGGCU-CUUUGCGCCGUUGUCGUGGCUGUUGCAACAAUUUGCAGCAAAUUGAAAGCCAAUUACGCUGUUUGCAGCAUGCCAAGGCAGCGACG-GUCGCUGCG----GA----
..((.-....((((((((((..((((((((((((......(((((.(((((.....)))))..))))))))))))).)))).....))))))-).))).)).----..---- ( -40.40)
>DroPse_CAF1 571 101 - 1
--GCU-CUUUUCGUUGUUGUCGUGGCUGUUGCAACAAUUUGCUGCAAAUUGAAAGCCAAUUACGUUGUUUGCAGCAUGCCAAGGCAGGCAAC-AUCGAUGUGCCC-------
--((.-(...(((.(((((((.(((((((((((((((((((...))))))).....((((...)))).)))))))).)))).....))))))-).))).).))..------- ( -34.50)
>DroWil_CAF1 3802 87 - 1
------------GCUGUUGUCGUGGCUGUUGCAACAAUUUGCUGCAAAUUGAAAGCCAAUUACGUUGUUUGCAGCAUGCCAAGGCAAUGCCG-----AUGUGAC--------
------------((.((((((.(((((((((((((((((((...))))))).....((((...)))).)))))))).)))).))))))))..-----.......-------- ( -28.50)
>DroMoj_CAF1 2502 107 - 1
GCGCUGCUUUUCGUUGUUGUCGUGGCUGUUGCAACAAUUUGCUGCAAAUUGAAAGCCAAUUACGUUGUUUGCAGCAUGCCACGGCAAUGGCAA-----GGCGACCAGGCAAA
..((((((((..((..(((((((((((((((((((((((((...))))))).....((((...)))).)))))))).))))))))))..))))-----))).....)))... ( -42.70)
>DroAna_CAF1 467 99 - 1
---CU-CUUUGCGCCGUUGUCGUGGCUGUUGCAACAAUUUGCUGCAAAUUGAAAGCCAAUUACGUUGUUUGCAGCAUGCCAAGGCAGCGGCG-GUUGGAUCG----GA----
---.(-((...((((((((((.(((((((((((((((((((...))))))).....((((...)))).)))))))).)))).))))))))))-...)))...----..---- ( -41.70)
>DroPer_CAF1 583 104 - 1
--GCU-CUUUUCGUUGUUGUCGUGGCUGUUGCAACAAUUUGCUGCAAAUUGAAAGCCAAUUACGUUGUUUGCAGCAUGCCAAGGCAGGCAAC-AUCGAUGUGCCCGGG----
--((.-(...(((.(((((((.(((((((((((((((((((...))))))).....((((...)))).)))))))).)))).....))))))-).))).).)).....---- ( -34.50)
>consensus
__GCU_CUUUUCGCUGUUGUCGUGGCUGUUGCAACAAUUUGCUGCAAAUUGAAAGCCAAUUACGUUGUUUGCAGCAUGCCAAGGCAGCGACG__UCGAUGCG_C__G_____
............(((((((((.(((((((((((((((((((...)))))))..(((.......)))..)))))))).)))).)))))))))..................... (-29.17 = -29.73 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:15:19 2006