Locus 7410

Sequence ID	3R_DroMel_CAF1
Location	19,715,620 – 19,715,842
Length	222
Max. P	0.983766

overview

Window 5

Location	19,715,620 – 19,715,723
Length	103
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	92.53
Mean single sequence MFE	-31.04
Consensus MFE	-25.39
Energy contribution	-26.19
Covariance contribution	0.80
Combinations/Pair	1.11
Mean z-score	-2.03
Structure conservation index	0.82
SVM decision value	1.56
SVM RNA-class probability	0.963874
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19715620 103 + 27905053
UUCGCGGGCUUCUCUU-AAAGUGAAGGCAGUGCCUGCCGUUCCUGUUAUUGUUUUGUUGUUAAUUGUCAGCGAUUAAACGGCGUAGACAACAACAAAUAACGAU
...((((((...((((-......))))....))))))((((..((((.((((((((((((((((((....))))).))))))).)))))).))))...)))).. ( -30.70)
>DroSec_CAF1 27998 103 + 1
UUCGCGGGCUUCUCUC-AAAGCGAAGGCAGUGCCUGCCGUUCCUGUUUUUGUUUUGCUGUUAAUUGUCAGCGAUUAAACGGCGUAGACAACAACAAAUAACGAU
...((((((....((.-...((....)))).))))))((((..((((.((((((((((((((((((....))))).))))))).)))))).))))...)))).. ( -34.20)
>DroSim_CAF1 33750 103 + 1
UUCGCGGGCUUCUCUC-AAAGCAAAGGCAGUGCCUGCCGUUCCUGUUUUUGUUUUGCUGUUAAUUGUCAGCGAUUAAACGGCGUAGACAACAACAAAUAACGAU
...((((((..((.((-........)).)).))))))((((..((((.((((((((((((((((((....))))).))))))).)))))).))))...)))).. ( -32.80)
>DroEre_CAF1 29226 101 + 1
GUCGCGGUCUUCUCUCAAAAGCGAAGGCAGUGCCUGCCGUUCU---UUUUGUUUUGUUGUUAAUUGUCAGCGAUUGAACGGCGGAGACAACAACAAAUAACGAU
(((((.((((((.((....)).))))))...))(((((((((.---.......((((((........))))))..))))))))).)))................ ( -31.10)
>DroYak_CAF1 29590 100 + 1
GUCGCGGUUUUCUCUG-AAAGCGAAGGCAGUGCCUGCCGUUCC---UUUUGUUUUGUUGUUAAUUGUCAGCGAUUGAACGGCGUAGACAACAACAAAUAACGAU
((((..((((.....(-((((.((((((((...))))).))))---))))((((((((((((((((....)))))).)))))).))))......))))..)))) ( -26.40)
>consensus
UUCGCGGGCUUCUCUC_AAAGCGAAGGCAGUGCCUGCCGUUCCUGUUUUUGUUUUGUUGUUAAUUGUCAGCGAUUAAACGGCGUAGACAACAACAAAUAACGAU
...((((((..((.......((....)))).))))))((((..((((.((((((((((((((((((....)))))).)))))).)))))).))))...)))).. (-25.39 = -26.19 +   0.80)

alignment

secondary structure

dotplot

Window 6

Location	19,715,620 – 19,715,723
Length	103
Sequences	5
Columns	104
Reading direction	reverse
Mean pairwise identity	92.53
Mean single sequence MFE	-25.44
Consensus MFE	-21.78
Energy contribution	-21.38
Covariance contribution	-0.40
Combinations/Pair	1.08
Mean z-score	-1.21
Structure conservation index	0.86
SVM decision value	-0.01
SVM RNA-class probability	0.527375
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19715620 103 - 27905053
AUCGUUAUUUGUUGUUGUCUACGCCGUUUAAUCGCUGACAAUUAACAACAAAACAAUAACAGGAACGGCAGGCACUGCCUUCACUUU-AAGAGAAGCCCGCGAA
.((((..((((((((((((..((.........))..))))....)))))))).........((...(((((...)))))....((((-....)))).)))))). ( -22.20)
>DroSec_CAF1 27998 103 - 1
AUCGUUAUUUGUUGUUGUCUACGCCGUUUAAUCGCUGACAAUUAACAGCAAAACAAAAACAGGAACGGCAGGCACUGCCUUCGCUUU-GAGAGAAGCCCGCGAA
.((((..((((((((((((..((.........))..))))....)))))))).........((...(((((...)))))...(((((-....))))))))))). ( -28.60)
>DroSim_CAF1 33750 103 - 1
AUCGUUAUUUGUUGUUGUCUACGCCGUUUAAUCGCUGACAAUUAACAGCAAAACAAAAACAGGAACGGCAGGCACUGCCUUUGCUUU-GAGAGAAGCCCGCGAA
.((((..((((((((((((..((.........))..))))....)))))))).........((...(((((...)))))...(((((-....))))))))))). ( -28.30)
>DroEre_CAF1 29226 101 - 1
AUCGUUAUUUGUUGUUGUCUCCGCCGUUCAAUCGCUGACAAUUAACAACAAAACAAAA---AGAACGGCAGGCACUGCCUUCGCUUUUGAGAGAAGACCGCGAC
.((((..((((((((((..((.((.(......))).))....)))))))))).(((((---.(((.(((((...))))))))..)))))..........)))). ( -24.90)
>DroYak_CAF1 29590 100 - 1
AUCGUUAUUUGUUGUUGUCUACGCCGUUCAAUCGCUGACAAUUAACAACAAAACAAAA---GGAACGGCAGGCACUGCCUUCGCUUU-CAGAGAAAACCGCGAC
.((((..((((((((((((..((.........))..))))....))))))))...(((---((((.(((((...)))))))).))))-...........)))). ( -23.20)
>consensus
AUCGUUAUUUGUUGUUGUCUACGCCGUUUAAUCGCUGACAAUUAACAACAAAACAAAAACAGGAACGGCAGGCACUGCCUUCGCUUU_GAGAGAAGCCCGCGAA
.((((..((((((((((((..((.........))..))))....))))))))..........(((.(((((...)))))))).................)))). (-21.78 = -21.38 +  -0.40)

alignment

secondary structure

dotplot

Window 7

Location	19,715,654 – 19,715,763
Length	109
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	94.94
Mean single sequence MFE	-33.08
Consensus MFE	-30.46
Energy contribution	-31.18
Covariance contribution	0.72
Combinations/Pair	1.05
Mean z-score	-1.65
Structure conservation index	0.92
SVM decision value	1.95
SVM RNA-class probability	0.983766
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19715654 109 + 27905053
GCCGUUCCUGUUAUUGUUUUGUUGUUAAUUGUCAGCGAUUAAACGGCGUAGACAACAACAAAUAACGAUGCGUGGUUAUGCGGGCGGUGGUUUUUGUUCGUUGGAGCAA
(((((((.((((.((((((((((((((((((....))))).))))))).)))))).)))).........((((....))))))))))).....((((((....)))))) ( -32.30)
>DroSec_CAF1 28032 109 + 1
GCCGUUCCUGUUUUUGUUUUGCUGUUAAUUGUCAGCGAUUAAACGGCGUAGACAACAACAAAUAACGAUGCGUGGUUAUGCGGGCGGUGGUUUUUGUUCGUUGGAGCAA
(((((((.((((.((((((((((((((((((....))))).))))))).)))))).)))).........((((....))))))))))).....((((((....)))))) ( -34.80)
>DroSim_CAF1 33784 109 + 1
GCCGUUCCUGUUUUUGUUUUGCUGUUAAUUGUCAGCGAUUAAACGGCGUAGACAACAACAAAUAACGAUGCGUGGUUAUGCGGGCGGUGGUUUUUGUUCGUUGGAGCAA
(((((((.((((.((((((((((((((((((....))))).))))))).)))))).)))).........((((....))))))))))).....((((((....)))))) ( -34.80)
>DroEre_CAF1 29261 106 + 1
GCCGUUCU---UUUUGUUUUGUUGUUAAUUGUCAGCGAUUGAACGGCGGAGACAACAACAAAUAACGAUGCGUGAUGAUGCGGGCGGUGGUUUUUGUUCGUUGGAGCAA
(((((((.---..((((((((((((((((((....))))).......(....)))))))))..))))).((((....))))))))))).....((((((....)))))) ( -30.00)
>DroYak_CAF1 29624 106 + 1
GCCGUUCC---UUUUGUUUUGUUGUUAAUUGUCAGCGAUUGAACGGCGUAGACAACAACAAAUAACGAUGCGUGCUGAUGCGGGCGGUGGUUUUUGUUCGUUGGAGCAA
(((((((.---.......((((((........))))))..)))))))((...((((((((((.(((.((((.(((....))).)).)).))))))))).))))..)).. ( -33.50)
>consensus
GCCGUUCCUGUUUUUGUUUUGUUGUUAAUUGUCAGCGAUUAAACGGCGUAGACAACAACAAAUAACGAUGCGUGGUUAUGCGGGCGGUGGUUUUUGUUCGUUGGAGCAA
(((((((.((((.((((((((((((((((((....)))))).)))))).)))))).)))).........((((....))))))))))).....((((((....)))))) (-30.46 = -31.18 +   0.72)

alignment

secondary structure

dotplot

Window 8

Location	19,715,723 – 19,715,842
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.65
Mean single sequence MFE	-37.92
Consensus MFE	-30.72
Energy contribution	-31.32
Covariance contribution	0.60
Combinations/Pair	1.11
Mean z-score	-1.35
Structure conservation index	0.81
SVM decision value	0.02
SVM RNA-class probability	0.544325
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19715723 119 + 27905053
GCGUGGUUAUGCGGGCGGUGGUUUUUGUUCGUUGGAGCAAGUGUGACUGCAGGUCGCGAGGCUAGCGAGCCCACUCGAAAUGGCUACACCAAAAAGUGUGACUAAAAAAUACCAAA-AUA
...((((((((((((((((.(..(((((((....)))))))..).)))((.((((....)))).))..))))........(((.....)))....)))))))))............-... ( -38.20)
>DroSec_CAF1 28101 119 + 1
GCGUGGUUAUGCGGGCGGUGGUUUUUGUUCGUUGGAGCAAGUGUGACUGCAGGUCGCGAGGCUAGCGAGCCCACUCGAAAUGGCUACACCGAAAAGUGUGACUAAAAAAUACCAAA-AUA
...(((((((((...(((((...(((((((....)))))))((((((.....)))))).(((((.((((....))))...))))).)))))....)))))))))............-... ( -40.30)
>DroSim_CAF1 33853 119 + 1
GCGUGGUUAUGCGGGCGGUGGUUUUUGUUCGUUGGAGCAAGUGUGACUGCAGGUCGCGAGGCUAGCGAGCCCACUCGAAAUGGCUACACCGAAAAGUGUGACUAAAAAAUACCAAA-AUA
...(((((((((...(((((...(((((((....)))))))((((((.....)))))).(((((.((((....))))...))))).)))))....)))))))))............-... ( -40.30)
>DroEre_CAF1 29327 119 + 1
GCGUGAUGAUGCGGGCGGUGGUUUUUGUUCGUUGGAGCAAGUGUGACUGCAGGUCGCGAAACUGGAGAGCUCACUCGAUGUGGCUGCACAGA-AAGUAUGACUAAAAAAUACCAAACAAA
((((....))))(((((((.(..(((((((....)))))))..).))))).(((((.....(((...(((.(((.....))))))...))).-.....)))))........))....... ( -33.80)
>DroYak_CAF1 29690 120 + 1
GCGUGCUGAUGCGGGCGGUGGUUUUUGUUCGUUGGAGCAAGUGUGACUGCAGGUCGCGAAACUGGAGAGCCCACUCGAAACGCCUACACUGAAAAGUGUGCCUAAAAAAUACCAAGCAAA
((((..(((.(.((((..((((((((((((....)))))...(((((.....))))))))))))....)))).))))..)))).((((((....)))))).................... ( -37.00)
>consensus
GCGUGGUUAUGCGGGCGGUGGUUUUUGUUCGUUGGAGCAAGUGUGACUGCAGGUCGCGAGGCUAGCGAGCCCACUCGAAAUGGCUACACCGAAAAGUGUGACUAAAAAAUACCAAA_AUA
((((....))))(((((((.(..(((((((....)))))))..).))))).((((....(((((.((((....))))...)))))((((......))))))))........))....... (-30.72 = -31.32 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:16 2006