Locus 8067

Sequence ID	3R_DroMel_CAF1
Location	21,654,655 – 21,654,790
Length	135
Max. P	0.965184

overview

Window 6

Location	21,654,655 – 21,654,754
Length	99
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	82.14
Mean single sequence MFE	-39.71
Consensus MFE	-32.74
Energy contribution	-33.97
Covariance contribution	1.23
Combinations/Pair	1.13
Mean z-score	-3.42
Structure conservation index	0.82
SVM decision value	1.58
SVM RNA-class probability	0.965184
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21654655 99 + 27905053
GC--------CAAUGGCGAAAACGGCAACACAGAACG-GCAUUCUCUGUGCUUGCUUUUUAUUAGAAUGCGUCCAUGGAGACGUGGGCGCCAGCCAUUGUCUGGC-------AGC-----
((--------(((((((..(((.(((((((((((...-......)))))).))))).)))........(((((((((....)))))))))..)))))....))))-------...----- ( -44.20)
>DroSec_CAF1 143930 99 + 1
GC--------CAAUGGCGAAAACGGCAACACAGAACG-GCAUUCUCUGUGCUUGCUUUUUAUUAGAAUGCGUCCAUGGAGACGUGGGCGCCAGCCAUUGUUUGGC-------AGC-----
((--------(((((((..(((.(((((((((((...-......)))))).))))).)))........(((((((((....)))))))))..)))))....))))-------...----- ( -44.20)
>DroSim_CAF1 142057 99 + 1
GC--------CAAUGGCAAAAACGGCAACACAGAACG-GCAUUCUCUGUGCUUGCUUUUUAUUAGAAUGUGUCCAUGGAGACGUGGGCGCCAGCCAUUGUCUGGC-------AGC-----
((--------(((((((..(((.(((((((((((...-......)))))).))))).)))........(((((((((....)))))))))..)))))....))))-------...----- ( -42.30)
>DroEre_CAF1 141021 99 + 1
GG--------CAAUGGCGAAAACGGCAACACAGAAUG-GCAUUCUCUGUGCUUGCUUUUUAUUAGAAUGCGUCCAUGGAGACGUGGGCGCCAGCCAUUGUCUGGC-------AUG-----
((--------(((((((..(((.(((((((((((...-......)))))).))))).)))........(((((((((....)))))))))..)))))))))....-------...----- ( -46.50)
>DroWil_CAF1 129483 104 + 1
GCAGGAAGAAUCAUUGCAAAAACGGCAACACAAAAUG-GCCUUUUCUAUGCUUGCUUUUUAUUAGAAUGUGUCCAUGGAGACGUGGGCGCCAGCCAUUGUCUGGC---------------
.((((........((((.......)))).....((((-((...(((((..............))))).(((((((((....)))))))))..)))))).))))..--------------- ( -30.94)
>DroAna_CAF1 123834 104 + 1
-----------AAUGUUAAAAACGGCAGCACAGAAAAUCCAUUCC-----CCUGCUUUUUAUUAGAAUGUGUCCAUGGGGACGUGGGCGCCAGCCAUUGUCUGGAUGCUCUCAGCCGAGU
-----------...........((((.....(((..(((((..(.-----...((((((....)))..(((((((((....))))))))).)))....)..)))))..)))..))))... ( -30.10)
>consensus
GC________CAAUGGCAAAAACGGCAACACAGAACG_GCAUUCUCUGUGCUUGCUUUUUAUUAGAAUGCGUCCAUGGAGACGUGGGCGCCAGCCAUUGUCUGGC_______AGC_____
..........(((((((..(((.(((((((((((..........)))))).))))).)))........(((((((((....)))))))))..)))))))..................... (-32.74 = -33.97 +   1.23)

alignment

secondary structure

dotplot

Window 7

Location	21,654,686 – 21,654,790
Length	104
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	78.54
Mean single sequence MFE	-30.10
Consensus MFE	-20.95
Energy contribution	-20.73
Covariance contribution	-0.22
Combinations/Pair	1.11
Mean z-score	-1.45
Structure conservation index	0.70
SVM decision value	0.59
SVM RNA-class probability	0.791401
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21654686 104 + 27905053
AUUCUCUGUGCUUGCUUUUUAUUAGAAUGCGUCCAUGGAGACGUGGGCGCCAGCCAUUGUCUGGC-------AGC---------CUCCUCCUCCAUGAAUCCCUAUCGCCUUCAGAGCGA
...(((((.((..((((((....)))).))...(((((((..(..(((((((((....).)))))-------.))---------)..)..)))))))..........))...)))))... ( -34.90)
>DroSec_CAF1 143961 101 + 1
AUUCUCUGUGCUUGCUUUUUAUUAGAAUGCGUCCAUGGAGACGUGGGCGCCAGCCAUUGUUUGGC-------AGC---------CUC---CUCCAUGAAUCCCUAUCGCCUUCAGAACGA
....((((.((..(((............(((((((((....)))))))))..((((.....))))-------)))---------...---......((.......))))...)))).... ( -30.20)
>DroSim_CAF1 142088 101 + 1
AUUCUCUGUGCUUGCUUUUUAUUAGAAUGUGUCCAUGGAGACGUGGGCGCCAGCCAUUGUCUGGC-------AGC---------CUC---CUCCAUGAAUCCCUAUCGCCUUCAGAACGA
....((((.((..((((((....)))).))...(((((((....((((((((((....).)))))-------.))---------)).---)))))))..........))...)))).... ( -28.10)
>DroEre_CAF1 141052 104 + 1
AUUCUCUGUGCUUGCUUUUUAUUAGAAUGCGUCCAUGGAGACGUGGGCGCCAGCCAUUGUCUGGC-------AUG------CCACUA---CCCCAUGAAUCCCUAUCGCCUUCUGAACGA
.....................((((((.(((((((((....)))))))((((((....).)))))-------...------......---.................)).)))))).... ( -29.70)
>DroWil_CAF1 129522 86 + 1
CUUUUCUAUGCUUGCUUUUUAUUAGAAUGUGUCCAUGGAGACGUGGGCGCCAGCCAUUGUCUGGC-------------------CUU---UUGUGUGAAUCUC------CU------CAA
...(((.((((.................(((((((((....)))))))))..((((.....))))-------------------...---..)))))))....------..------... ( -23.30)
>DroAna_CAF1 123863 113 + 1
AUUCC-----CCUGCUUUUUAUUAGAAUGUGUCCAUGGGGACGUGGGCGCCAGCCAUUGUCUGGAUGCUCUCAGCCGAGUGC--CUCGUUCCCCAUGAAUCUCUAUCGCUCCCCGCACGG
....(-----(.(((.......((((....((.((((((((((.((((.(((((....).))))..((((......))))))--)))).)))))))).)).)))).........))).)) ( -34.39)
>consensus
AUUCUCUGUGCUUGCUUUUUAUUAGAAUGCGUCCAUGGAGACGUGGGCGCCAGCCAUUGUCUGGC_______AGC_________CUC___CUCCAUGAAUCCCUAUCGCCUUCAGAACGA
.................(((((......(((((((((....)))))))))..((((.....)))).............................)))))..................... (-20.95 = -20.73 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:47 2006