Locus 7754

Sequence ID	3R_DroMel_CAF1
Location	20,796,821 – 20,796,954
Length	133
Max. P	0.700782

overview

Window 3

Location	20,796,821 – 20,796,924
Length	103
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	83.12
Mean single sequence MFE	-21.62
Consensus MFE	-17.40
Energy contribution	-17.40
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.40
Structure conservation index	0.80
SVM decision value	0.01
SVM RNA-class probability	0.537417
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20796821 103 - 27905053
UACAUGACGCUGCGAAUGCCAGGAACAUAAUAAAAUCAUGUAAUGGACUGCGCAUGAAAAACAAUGCAAAAA---GCGUUGACAACA------------UGGCCAUAACUGCCC--CCUC
..((((.((.((((....(((...((((.........))))..)))....)))))).....((((((.....---))))))....))------------)).............--.... ( -21.30)
>DroPse_CAF1 6898 105 - 1
UACAUGACGCUGCGAAUGCCAGGAACAUAAUAAAAUCAUGUAAUGGACUGCGCAUGAAAAACAAUGCAAAAA---GCGUUGACAACA------------UGGCCAUAUUUCCCCUGCCGC
..((((.((.((((....(((...((((.........))))..)))....)))))).....((((((.....---))))))....))------------))................... ( -21.30)
>DroGri_CAF1 7430 93 - 1
UACAUGACGCUGCGAAUGCCAGGAACAUAAUAAAAUCAUGUAAUGGACUGCGCAUGAAAAACAAUGCAAAAACCAGCGUUGACAAU------------CUGGU------G--------G-
.......(((((.(((((((((...(((.(((......))).)))..))).))))......((((((........))))))....)------------)))))------)--------.- ( -20.40)
>DroMoj_CAF1 5339 105 - 1
UACAUGACGCUGCGAAUGCCAGGAACAUAAUAAAAUCAUGUAAUGGACUGCGCAUGAAAAACAAUGCAAAAACCAGCGUUGACAACACAUGAAACGCACUGAA------G--------G-
.......((.((((.(((((((...(((.(((......))).)))..))).))))......((((((........)))))).............)))).))..------.--------.- ( -22.40)
>DroAna_CAF1 6332 97 - 1
UACAUGACGCUGCGAAUGCCAGGAACAUAAUAAAAUCAUGUAAUGGACUGCGCAUGAAAAACAAUGCAAAAA---GCGUUGACAACA------------UGACCAUAGGG--------UG
..((((.((.((((....(((...((((.........))))..)))....)))))).....((((((.....---))))))....))------------))(((....))--------). ( -23.00)
>DroPer_CAF1 6267 105 - 1
UACAUGACGCUGCGAAUGCCAGGAACAUAAUAAAAUCAUGUAAUGGACUGCGCAUGAAAAACAAUGCAAAAA---GCGUUGACAACA------------UGGCCAUAUUUCCCCUGCCAC
..((((.((.((((....(((...((((.........))))..)))....)))))).....((((((.....---))))))....))------------))................... ( -21.30)
>consensus
UACAUGACGCUGCGAAUGCCAGGAACAUAAUAAAAUCAUGUAAUGGACUGCGCAUGAAAAACAAUGCAAAAA___GCGUUGACAACA____________UGGCCAUA__G________GC
..((((.(((........(((...((((.........))))..)))...))))))).....((((((........))))))....................................... (-17.40 = -17.40 +   0.00)

alignment

secondary structure

dotplot

Window 4

Location	20,796,847 – 20,796,954
Length	107
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	82.76
Mean single sequence MFE	-25.55
Consensus MFE	-21.16
Energy contribution	-21.27
Covariance contribution	0.11
Combinations/Pair	1.03
Mean z-score	-1.60
Structure conservation index	0.83
SVM decision value	0.35
SVM RNA-class probability	0.700782
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20796847 107 + 27905053
AACGC---UUUUUGCAUUGUUUUUCAUGCGCAGUCCAUUACAUGAUUUUAUUAUGUUCCUGGCAUUCGCAGCGUCAUGUAGAAAAUGUGGACCCGACUG----CC-----CGAAUGCAA-
.....---...(((((((((.......))((((((....(((((((...)))))))....((..((((((...((.....))...)))))).)))))))----).-----..)))))))- ( -25.40)
>DroPse_CAF1 6926 112 + 1
AACGC---UUUUUGCAUUGUUUUUCAUGCGCAGUCCAUUACAUGAUUUUAUUAUGUUCCUGGCAUUCGCAGCGUCAUGUAGAAAAUGCAGACCCAACUG----CAACUUGCAACUGCCA-
...((---...(((((...((((((((((((.(((((..(((((((...)))))))...))).....)).))).)))).))))).(((((......)))----))...)))))..))..- ( -27.80)
>DroGri_CAF1 7443 90 + 1
AACGCUGGUUUUUGCAUUGUUUUUCAUGCGCAGUCCAUUACAUGAUUUUAUUAUGUUCCUGGCAUUCGCAGCGUCAUGUAGAAAAUGCGG------------------------------
..(((...(((((((((.(.......((((.((((((..(((((((...)))))))...))).)))))))....))))))))))..))).------------------------------ ( -24.20)
>DroMoj_CAF1 5364 90 + 1
AACGCUGGUUUUUGCAUUGUUUUUCAUGCGCAGUCCAUUACAUGAUUUUAUUAUGUUCCUGGCAUUCGCAGCGUCAUGUAGAAAAUGCGG------------------------------
..(((...(((((((((.(.......((((.((((((..(((((((...)))))))...))).)))))))....))))))))))..))).------------------------------ ( -24.20)
>DroAna_CAF1 6352 112 + 1
AACGC---UUUUUGCAUUGUUUUUCAUGCGCAGUCCAUUACAUGAUUUUAUUAUGUUCCUGGCAUUCGCAGCGUCAUGUAGAAAAUGUGGACCCGACUAAAAAUU-----CAACUGCAAC
.....---...((((((((..(((...(((..((((((((((((((......((((.....)))).......))))))))......)))))).)).)...)))..-----))).))))). ( -23.92)
>DroPer_CAF1 6295 112 + 1
AACGC---UUUUUGCAUUGUUUUUCAUGCGCAGUCCAUUACAUGAUUUUAUUAUGUUCCUGGCAUUCGCAGCGUCAUGUAGAAAAUGCAGACCCAACUG----CAACUUGCAACUGCCA-
...((---...(((((...((((((((((((.(((((..(((((((...)))))))...))).....)).))).)))).))))).(((((......)))----))...)))))..))..- ( -27.80)
>consensus
AACGC___UUUUUGCAUUGUUUUUCAUGCGCAGUCCAUUACAUGAUUUUAUUAUGUUCCUGGCAUUCGCAGCGUCAUGUAGAAAAUGCGGACCC_ACUG____C______CAACUGC_A_
..(((...(((((((((.(.......((((.((((((..(((((((...)))))))...))).)))))))....))))))))))..)))............................... (-21.16 = -21.27 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:59 2006