Locus 2823

Sequence ID	2L_DroMel_CAF1
Location	8,060,240 – 8,060,347
Length	107
Max. P	0.994631

overview

Window 7

Location	8,060,240 – 8,060,347
Length	107
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	74.11
Mean single sequence MFE	-39.58
Consensus MFE	-22.86
Energy contribution	-21.70
Covariance contribution	-1.16
Combinations/Pair	1.36
Mean z-score	-2.61
Structure conservation index	0.58
SVM decision value	2.50
SVM RNA-class probability	0.994631
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8060240 107 + 22407834
GGCCUGCUUAGAUCCAC------UAG-GAGGGGGUAAGUUGCAAACGGCCGCCUGUAGCAAUUGUAUAAUAAUAGGCGACACGCCAUCAUCCAACUGAUAACAGGCGAUUUCCA
(((((((....((((.(------(..-..)))))).....)))...))))((((((..................((((...))))((((......)))).))))))........ ( -31.70)
>DroPse_CAF1 64469 104 + 1
UUGCUGCUG----CUGC------UUGUUGGCUGGCAUAUUGCAAACGGCCGCCUGCAGCAGCUGUAUAAUAAUGGGAGACACGCCAUCAUCUAGCUGAUAGCAGGCAAUCUCCA
.(((.((((----((((------..((.(((((((.....))...)))))))..)))))))).)))........(((((...(((...(((.....)))....)))..))))). ( -40.30)
>DroGri_CAF1 19071 110 + 1
C---UGCUUGAGACCCCCCGAAAUGG-GCUGUGGCAAAUUGCAAACAGCCGCCUGCAGCAGCUGUAUAAUGAUGGGUGAGACACCAUCGUCCAGCUGAUAGCAGGCAAUCUCCA
.---.....((((............(-(((((.((.....))..))))))((((((..((((((....(((((((........))))))).))))))...))))))..)))).. ( -46.70)
>DroMoj_CAF1 17184 105 + 1
-----GUUUGAUGCCGGCC---AUGG-CCUGUGGUAUAUUGCAAACGGCCGCUUGUAGCAGUUGAAUAAUAAUGGGCGAGACGCCAUCGUCCAGCUGAUAGCAGGCAAUCUCCA
-----(((((((((((((.---...)-))...)))))....))))).((((((..((((.(((....)))..(((((((.......)))))))))))..))).)))........ ( -33.60)
>DroAna_CAF1 18574 107 + 1
CACCUGCUUAGACCCGU------UCG-GAGCGGGAAGAUUGCACACGGCAGCCUGCAGCAGUUGGAUUAUAAUGGGAGACACCCCGUCGUCCAGCUGGUAGCAGGCAAUCUCCA
..(((((((.((.....------)).-))))))).(((((((.....)).(((((((.(((((((((....(((((......))))).))))))))).).)))))))))))... ( -47.10)
>DroPer_CAF1 85120 101 + 1
UUGCUG-------CUGC------UUGUUGGCUGGCAUAUUGCAAACGGCCGCCUGCAGCAGCUGUAUAAUAAUGGGAGACACGCCAUCAUCUAGCUGAUAGCAGGCAAUCUCCA
..((((-------((((------..((.(((((((.....))...)))))))..))))))))............(((((...(((...(((.....)))....)))..))))). ( -38.10)
>consensus
C__CUGCUU____CCGC______UGG_GAGCUGGCAUAUUGCAAACGGCCGCCUGCAGCAGCUGUAUAAUAAUGGGAGACACGCCAUCAUCCAGCUGAUAGCAGGCAAUCUCCA
................................((......((.....)).((((((..((((((....((.((((........)))).)).))))))...)))))).....)). (-22.86 = -21.70 +  -1.16)

alignment

secondary structure

dotplot

Window 8

Location	8,060,240 – 8,060,347
Length	107
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	74.11
Mean single sequence MFE	-37.30
Consensus MFE	-21.35
Energy contribution	-21.77
Covariance contribution	0.42
Combinations/Pair	1.26
Mean z-score	-1.94
Structure conservation index	0.57
SVM decision value	1.34
SVM RNA-class probability	0.943680
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8060240 107 - 22407834
UGGAAAUCGCCUGUUAUCAGUUGGAUGAUGGCGUGUCGCCUAUUAUUAUACAAUUGCUACAGGCGGCCGUUUGCAACUUACCCCCUC-CUA------GUGGAUCUAAGCAGGCC
.((...((((((((...((((((((((((((((...)))).))))))...))))))..))))))))))((((((......((.(...-...------).))......)))))). ( -32.80)
>DroPse_CAF1 64469 104 - 1
UGGAGAUUGCCUGCUAUCAGCUAGAUGAUGGCGUGUCUCCCAUUAUUAUACAGCUGCUGCAGGCGGCCGUUUGCAAUAUGCCAGCCAACAA------GCAG----CAGCAGCAA
.((((((....((((((((......)))))))).))))))............((((((((.((((((.....))....)))).((......------)).)----))))))).. ( -40.80)
>DroGri_CAF1 19071 110 - 1
UGGAGAUUGCCUGCUAUCAGCUGGACGAUGGUGUCUCACCCAUCAUUAUACAGCUGCUGCAGGCGGCUGUUUGCAAUUUGCCACAGC-CCAUUUCGGGGGGUCUCAAGCA---G
..((((((((((((...((((((...(((((((.......)))))))...))))))..))))))((((((..((.....)).)))))-)..........)))))).....---. ( -46.50)
>DroMoj_CAF1 17184 105 - 1
UGGAGAUUGCCUGCUAUCAGCUGGACGAUGGCGUCUCGCCCAUUAUUAUUCAACUGCUACAAGCGGCCGUUUGCAAUAUACCACAGG-CCAU---GGCCGGCAUCAAAC-----
....(((.(((.((((((((.((((..((((((...))))....))..)))).)))........((((...((........))..))-))))---))).))))))....----- ( -29.40)
>DroAna_CAF1 18574 107 - 1
UGGAGAUUGCCUGCUACCAGCUGGACGACGGGGUGUCUCCCAUUAUAAUCCAACUGCUGCAGGCUGCCGUGUGCAAUCUUCCCGCUC-CGA------ACGGGUCUAAGCAGGUG
........((((((...(((.((((.....(((.....))).......)))).)))..)))))).(((.(((........((((...-...------.)))).....)))))). ( -34.12)
>DroPer_CAF1 85120 101 - 1
UGGAGAUUGCCUGCUAUCAGCUAGAUGAUGGCGUGUCUCCCAUUAUUAUACAGCUGCUGCAGGCGGCCGUUUGCAAUAUGCCAGCCAACAA------GCAG-------CAGCAA
.((((((....((((((((......)))))))).))))))............((((((((.((((((............))).))).....------))))-------)))).. ( -40.20)
>consensus
UGGAGAUUGCCUGCUAUCAGCUGGACGAUGGCGUGUCUCCCAUUAUUAUACAACUGCUGCAGGCGGCCGUUUGCAAUAUGCCACCCC_CAA______GCGG____AAGCAG__A
.((....(((((((...((((((...(((((.(.....))))))......))))))..)))))))((.....))......))................................ (-21.35 = -21.77 +   0.42)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:09 2006