Locus 8359

Sequence ID	X_DroMel_CAF1
Location	20,750,525 – 20,750,617
Length	92
Max. P	0.821335

overview

Window 6

Location	20,750,525 – 20,750,617
Length	92
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	79.04
Mean single sequence MFE	-24.70
Consensus MFE	-16.31
Energy contribution	-14.23
Covariance contribution	-2.08
Combinations/Pair	1.35
Mean z-score	-1.70
Structure conservation index	0.66
SVM decision value	0.68
SVM RNA-class probability	0.821335
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20750525 92 + 22224390
-----GCC-------CAUAGUUUAUCGUCGUCGCACCUUUGCGUUUUAUGGCUUAAAGCGACCAACUGCCGCGUGCGGCGUCAAAACAAUAAACAAAAA----GUCGC
-----...-------....((((((.((((((((((....((........)).....(((.........))))))))))).....)).)))))).....----..... ( -21.30)
>DroVir_CAF1 91714 96 + 1
ACCCCCUU-------UAUUGUUUAUCGCCAUGGCACCUUUGUUUUUUAUGGCAUUAAGCGGCCAACUGCCGCGCA--CCGCCAAAACAAUAAAUAAGAAAC---UCGC
......((-------((((((((...((....))..............((((.....(((((.....)))))...--..))))))))))))))........---.... ( -25.70)
>DroPse_CAF1 97911 96 + 1
-----CUU-------UAUUGUUUAUUGUCGUGGCACCUUUGCUUUUUAUGGCCCUAAGCGACCAACUGCCGCGCACGCCGUCAAAACAAUAAACAAGAAACUCGUGGC
-----...-------..((((((((((((((((((...((((((...........)))))).....)))))))............)))))))))))............ ( -23.30)
>DroYak_CAF1 57923 99 + 1
-----GCCCAUUGCCCAUUGUUUAUCGCCGUCGCACCUUUGCGUUUUAUGGCGUAAAGCGACCAACUGCCGCGUGCGGCGUCAAAACAAUAAACAAAAA----GUCGC
-----.....(((...(((((((..(((((((((...((((((((....))))))))(((......))).))).))))))...)))))))...)))...----..... ( -28.80)
>DroMoj_CAF1 134463 96 + 1
AUCCUCUU-------UAUUGUUUAUCGCCAUGGCACCUUUGUUUUUUAUGGCAUUAAGCGGCCAACUGCCGCGCA--CCGCCAAAACAAUAAAUAAGAAGC---UCGC
.((...((-------((((((((...((....))..............((((.....(((((.....)))))...--..))))))))))))))...))...---.... ( -25.80)
>DroPer_CAF1 99491 96 + 1
-----CUU-------UAUUGUUUAUUGUCGUGGCACCUUUGCUUUUUAUGGCCCUAAGCGACCAACUGCCGCGCACGCCGUCAAAACAAUAAACAAGAAACUCGUGGC
-----...-------..((((((((((((((((((...((((((...........)))))).....)))))))............)))))))))))............ ( -23.30)
>consensus
_____CUU_______UAUUGUUUAUCGCCGUGGCACCUUUGCUUUUUAUGGCAUUAAGCGACCAACUGCCGCGCACGCCGUCAAAACAAUAAACAAGAAAC__GUCGC
.................((((((((.(((((((((....))))....))))).......(((....(((...)))....)))......))))))))............ (-16.31 = -14.23 +  -2.08)

alignment

secondary structure

dotplot

Window 7

Location	20,750,525 – 20,750,617
Length	92
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	79.04
Mean single sequence MFE	-29.55
Consensus MFE	-18.98
Energy contribution	-19.12
Covariance contribution	0.14
Combinations/Pair	1.14
Mean z-score	-1.61
Structure conservation index	0.64
SVM decision value	0.46
SVM RNA-class probability	0.746397
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20750525 92 - 22224390
GCGAC----UUUUUGUUUAUUGUUUUGACGCCGCACGCGGCAGUUGGUCGCUUUAAGCCAUAAAACGCAAAGGUGCGACGACGAUAAACUAUG-------GGC-----
....(----((...((((((((((..(((((((....)))).))).(((((.....((........))......)))))))))))))))...)-------)).----- ( -26.90)
>DroVir_CAF1 91714 96 - 1
GCGA---GUUUCUUAUUUAUUGUUUUGGCGG--UGCGCGGCAGUUGGCCGCUUAAUGCCAUAAAAAACAAAGGUGCCAUGGCGAUAAACAAUA-------AAGGGGGU
....---...(((..(((((((((((((((.--((.(((((.....))))).)).))))).............(((....)))..))))))))-------))..))). ( -29.40)
>DroPse_CAF1 97911 96 - 1
GCCACGAGUUUCUUGUUUAUUGUUUUGACGGCGUGCGCGGCAGUUGGUCGCUUAGGGCCAUAAAAAGCAAAGGUGCCACGACAAUAAACAAUA-------AAG-----
........(((.((((((((((((.((..(((.(..(((((.....)))))...).))).......(((....))))).)))))))))))).)-------)).----- ( -28.30)
>DroYak_CAF1 57923 99 - 1
GCGAC----UUUUUGUUUAUUGUUUUGACGCCGCACGCGGCAGUUGGUCGCUUUACGCCAUAAAACGCAAAGGUGCGACGGCGAUAAACAAUGGGCAAUGGGC-----
....(----(..(((((((((((((...(((((...(((((.....)))))..............((((....)))).)))))..)))))))))))))..)).----- ( -34.70)
>DroMoj_CAF1 134463 96 - 1
GCGA---GCUUCUUAUUUAUUGUUUUGGCGG--UGCGCGGCAGUUGGCCGCUUAAUGCCAUAAAAAACAAAGGUGCCAUGGCGAUAAACAAUA-------AAGAGGAU
....---...((((.(((((((((((((((.--((.(((((.....))))).)).))))).............(((....)))..))))))))-------)).)))). ( -29.70)
>DroPer_CAF1 99491 96 - 1
GCCACGAGUUUCUUGUUUAUUGUUUUGACGGCGUGCGCGGCAGUUGGUCGCUUAGGGCCAUAAAAAGCAAAGGUGCCACGACAAUAAACAAUA-------AAG-----
........(((.((((((((((((.((..(((.(..(((((.....)))))...).))).......(((....))))).)))))))))))).)-------)).----- ( -28.30)
>consensus
GCGAC__GUUUCUUGUUUAUUGUUUUGACGGCGUGCGCGGCAGUUGGUCGCUUAAGGCCAUAAAAAGCAAAGGUGCCACGACGAUAAACAAUA_______AAG_____
............(((((((((((..((.(.......(((((.....))))).....(((............)))).))..)))))))))))................. (-18.98 = -19.12 +   0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:00 2006