Locus 9567

Sequence ID	3R_DroMel_CAF1
Location	25,268,677 – 25,268,811
Length	134
Max. P	0.718415

overview

Window 7

Location	25,268,677 – 25,268,786
Length	109
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	81.23
Mean single sequence MFE	-23.66
Consensus MFE	-13.27
Energy contribution	-12.97
Covariance contribution	-0.30
Combinations/Pair	1.20
Mean z-score	-2.18
Structure conservation index	0.56
SVM decision value	0.23
SVM RNA-class probability	0.645410
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25268677 109 - 27905053
--------CCCCAAAAAACACACUCUCGUGGGCCAUUGAAUGCAAUGGCGCUCAUUCAUUCAACGUUUUGCAACUCAUAAGAAGCAGCAAUUGAAGCAUCAUUAGCUGCAAGUUUUC
--------......(((((....(((..((((((((((....)))))))((..................))...)))..))).(((((...(((....)))...)))))..))))). ( -27.17)
>DroVir_CAF1 176530 94 - 1
-------------------ACA--CU--UGUGUCAUUCAAUUCAAUGACGCUCAUUCAUUCAACGUUUUGCAACUCAUAUGAAGCAGCUAUUGAAGCAUCAUUAGCUGCAAGCUUUU
-------------------...--..--.((((((((......))))))))...(((((.....(((....)))....)))))(((((((.(((....))).)))))))........ ( -24.60)
>DroGri_CAF1 253896 94 - 1
-------------------ACA--CU--UGUGUCAUUCAAUUCAAUGAUGCUCAUUCAUUCAACGUUUUGCAACUCAGAUGAAACAGCCAUUGAAGCAUCAUUAGCUUCAAGCUUUU
-------------------...--..--.((((((((......))))))))...((((((....(((....)))...))))))..(((..(((((((.......))))))))))... ( -18.10)
>DroMoj_CAF1 163087 94 - 1
-------------------ACA--CU--UGUGUCAUUCAAUUCAAUGACGUUCAUUCAUUCGACGUUUUGCAACUCAUAUGAAGCAGCAAUUGAAGCGUCAUUAGCUGCAAGCUUUU
-------------------...--..--...((((((......)))))).....(((((..((.(((....)))))..)))))(((((...(((....)))...)))))........ ( -19.10)
>DroAna_CAF1 121808 105 - 1
-------UCCCCCA-----ACACUCUUGUGGCCCAUUGAAUGCAAUGGCGCUCAUUCAUUCAACGUUUUGCAACUCAUAAGAAGCAGCAAUUGAAGCAUCAUUAGCUGCAAGUUUUC
-------......(-----((..(((((((((((((((....)))))).)).............(((....))).))))))).(((((...(((....)))...)))))..)))... ( -25.90)
>DroPer_CAF1 130157 114 - 1
CCUCGUCUGAGC---CAACACACUCUUGUGGCCCAUUGAAUGCAAUGGCGCUCAUUCAUUCAACGUUUUGCAACUCAUAAGAAGCAGCAAUUGAAGCAUCAUUAGCUGCAAGUUUUC
....(..(((((---...((((....))))(((.((((....))))))))))))..)..........................(((((...(((....)))...)))))........ ( -27.10)
>consensus
___________________ACA__CU__UGGGCCAUUCAAUGCAAUGACGCUCAUUCAUUCAACGUUUUGCAACUCAUAAGAAGCAGCAAUUGAAGCAUCAUUAGCUGCAAGCUUUC
...............................((((((......))))))(((............(((....))).........(((((...(((....)))...))))).))).... (-13.27 = -12.97 +  -0.30)

alignment

secondary structure

dotplot

Window 8

Location	25,268,715 – 25,268,811
Length	96
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	78.20
Mean single sequence MFE	-35.68
Consensus MFE	-20.95
Energy contribution	-21.97
Covariance contribution	1.02
Combinations/Pair	1.11
Mean z-score	-1.72
Structure conservation index	0.59
SVM decision value	0.39
SVM RNA-class probability	0.718415
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25268715 96 + 27905053
UAUGAGUUGCAAAACGUUGAAUGAAUGAGCGCCAUUGCAUUCAAUGGCCCACGAGAGUGUGUUUUUUGGGG----------------------GAGCAGGGGCCCAAGGGAUCCCAGG
.......(((....(((((((((((((.....)))).))))))))).(((.((((((.....)))))))))----------------------..)))((((((....)).))))... ( -33.60)
>DroPse_CAF1 129126 94 + 1
UAUGAGUUGCAAAACGUUGAAUGAAUGAGCGCCAUUGCAUUCAAUGGGCCACAAGAGUGUGUUG---GCUCAGACGAGGGCG--G------------------CGGAGGGGU-GCAAG
......(((((...(((((((((((((.....)))).))))))))).((((((....)))....---((((......)))))--)------------------).......)-)))). ( -27.70)
>DroSec_CAF1 125683 106 + 1
UAUGAGUUGCAAAACGUUGAAUGAAUGAGCGCCAUUGCAUUCAAUGGCCCACGAGAGUCUGUUUUUCGGGGAGCGGGGGU------------GCAGCAGGGAGUCAAGGGAUCCCAGG
.....(((((....(((((((((((((.....)))).)))))))))((((((....))(((((((....)))))))))))------------))))).((((.((....))))))... ( -39.00)
>DroSim_CAF1 128107 106 + 1
UAUGAGUUGCAAAACGUUGAAUGAAUGAGCGCCAUUGCAUUCAAUGGCCCACGAGAGUGUGUUUUUCGGGGAGCGGAGGU------------GCAGCAGGGAGCCAAGGGAUCCCAGG
.....((((((...(((((((((((((.....)))).)))))))))((((.((((((.....)))))).)).)).....)------------))))).((((.((...)).))))... ( -38.90)
>DroEre_CAF1 142986 118 + 1
UAUGAGUUGCAAAACGUUGAAUGAAUGAGCGCCAUUGCAUUCAAUGGCCCACGAGAGUGUGUUUUUCGCGCAGUGGAGGGAGCAGGGAGCAGGGAGCAGGGAGCCCAGGGAUCCCAGG
.......(((....(((((((((((((.....)))).))))))))).(((.(.(..(((((.....)))))..).).))).)))((((.(..((.((.....))))..)..))))... ( -39.00)
>DroYak_CAF1 130695 114 + 1
UAUGAGUUGCAAAACGUUGAAUGAAUGAGCGCCAUUGCAUUCAAUGGCCCACGAGAGUGUGUUUUUCGAGCAGUGGAGGGAGCGGGGAGUCAAG----GGAAUCCCAGGGAUCCCAGG
......((((....(((((((((((((.....)))).)))))))))((.(((....))).)).......))))....((((...((((.((...----.)).)))).....))))... ( -35.90)
>consensus
UAUGAGUUGCAAAACGUUGAAUGAAUGAGCGCCAUUGCAUUCAAUGGCCCACGAGAGUGUGUUUUUCGGGCAGCGGAGGG____________GGAGCAGGGAGCCAAGGGAUCCCAGG
..((((..(((...(((((((((((((.....)))).)))))))))...(((....))))))..))))..............................((((.(.....).))))... (-20.95 = -21.97 +   1.02)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:37:18 2006