Locus 5120

Sequence ID	2L_DroMel_CAF1
Location	14,547,226 – 14,547,369
Length	143
Max. P	0.894399

overview

Window 3

Location	14,547,226 – 14,547,334
Length	108
Sequences	6
Columns	115
Reading direction	forward
Mean pairwise identity	75.92
Mean single sequence MFE	-32.15
Consensus MFE	-21.62
Energy contribution	-21.48
Covariance contribution	-0.14
Combinations/Pair	1.22
Mean z-score	-1.55
Structure conservation index	0.67
SVM decision value	0.98
SVM RNA-class probability	0.894399
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14547226 108 + 22407834
CACGACAGGGCAA--GAUUUAUUUUCGGUAUUCCAUGGGCGACUAAAAUGCGCUGUCAGCGCAGCAGUUGCUGCCAUACGUCGCCG----UCGCCCGGCUAUGGU-CAUGCCUUG
.....(((((((.--((((.((..((((....))..(((((((......(((.(((..(.(((((....))))))..))).))).)----))))))))..)))))-).))))))) ( -40.80)
>DroVir_CAF1 20382 100 + 1
CACGACAUGCCAA--GAUUUAUUUUUGGUAUUCCACGAGCGACUAAAAUGCGCUGUCAGCGCAGCAGUUGCUGCCAUACGUCGACCCA--UCGUUCCG------UCCUCU-----
..(((((((((((--((.....)))))))))......(((((((....(((((.....)))))..))))))).......)))).....--........------......----- ( -31.40)
>DroEre_CAF1 73649 91 + 1
CACGACAGGGCAA--GAUUUAUUUUCGGCCUUCCAUGGGCGACUAAAAUGCGCUGUCAGCGCAGCAGUUGCUGCCAUACGUCGCCG----------------------UGGAUUC
.......((((..--((......))..))))(((((((.((((.....(((((.....)))))((((...)))).....)))))))----------------------))))... ( -33.70)
>DroMoj_CAF1 24915 100 + 1
CACGACAUGCCAA--GAUUUAUUUUCGGUAUUCCACGAGCAACCCAAAUGCGCUGUCAGCACAGCAGUUGCUGCCAUACGUCGUCCCA--UCGCUCGG------UCCUCU-----
...((((((((.(--((.....))).)))))....(((((........(((.......)))((((....))))...............--..))))))------))....----- ( -23.20)
>DroAna_CAF1 17835 103 + 1
CAUGACAUGAAAA--GAUUUAUUUUCGGUAUUCCAUGGGCGACUAAAAUGCGCUGUCAGCGCAGCAGUUGCUGCCAUACGUCGCCGCGUUUUCCCCAGCUC-----CG-----UG
((((.((((((((--......)))))((....)))))((((((.....(((((.....)))))((((...)))).....))))))((..........))..-----))-----)) ( -29.70)
>DroPer_CAF1 93109 106 + 1
CACGAGAUGGCAAGAGAUUUAUUUUCGGUAUUCCAUGGGCGACUAAAAUGCGCUGUCAGCGCACCAGUUGCCGCCAUACGUCGCCC----CAGCCAGGCACAGAUCCACA-----
.(((..(((((..((((.....))))((....))...(((((((....(((((.....)))))..)))))))))))).))).(((.----......)))...........----- ( -34.10)
>consensus
CACGACAUGGCAA__GAUUUAUUUUCGGUAUUCCAUGGGCGACUAAAAUGCGCUGUCAGCGCAGCAGUUGCUGCCAUACGUCGCCC____UCGCCCGG______U_CACG_____
..((((....................((....))...(((((((....(((((.....)))))..))))))).......))))................................ (-21.62 = -21.48 +  -0.14)

alignment

secondary structure

dotplot

Window 4

Location	14,547,264 – 14,547,369
Length	105
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	82.11
Mean single sequence MFE	-41.28
Consensus MFE	-28.69
Energy contribution	-29.77
Covariance contribution	1.08
Combinations/Pair	1.08
Mean z-score	-2.32
Structure conservation index	0.69
SVM decision value	0.69
SVM RNA-class probability	0.822949
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14547264 105 + 22407834
GACUAAAAUGCGCUGUCAGCGCAGCAGUUGCUGCCAUACGUCGCCG----UCGC-----CCGGCUAUGGUCAUGCCUUGGGCUUGGGCCAUAUAGAUACAUUAGCUGAUGGUGG
..........(((((((((((((((....))))).....(((((((----....-----.))))(((((((..(((...)))...)))))))..)))......)))))))))). ( -44.30)
>DroSec_CAF1 79118 105 + 1
GACUAGAAUGCGCUGUCAGCGCAGCAGUUGCUGCCAUACGUCGCCG----UCGC-----CCGGCUAUGGCCAUAGCUUGGGCUUGGGCCAUAUAGAUACAUUAGCUGAUGGUGG
..........(((((((((((((((....))))).....(((((((----....-----.))))(((((((..(((....)))..)))))))..)))......)))))))))). ( -46.20)
>DroSim_CAF1 64926 105 + 1
GACUAAAAUGCGCUGUCAGCGCAGCAGUUGCUGCCAUACGUCGCCG----UCGC-----CCGGCUAUGGCCAUGGCUUGGGCUUGGGCCAUAUAGAUACAUUAGCUGAUGGUGG
..........(((((((((((((((....))))).....(((((((----....-----.))))(((((((..(((....)))..)))))))..)))......)))))))))). ( -46.20)
>DroEre_CAF1 73687 88 + 1
GACUAAAAUGCGCUGUCAGCGCAGCAGUUGCUGCCAUACGUCGCCG--------------------------UGGAUUCGGCUUGGGCCAUAUAGAUACAUUAGCUGAUGGUGG
..........(((((((((((((((....))))).....(((((((--------------------------......))))...)))...............)))))))))). ( -31.30)
>DroYak_CAF1 70033 109 + 1
GACUAAAAUGCGCUGUCAGCGCAGCAGUUGCUGCCAUACUUCGCCG----UCUCCGUCUCCGGCAAUGGCCAUGGCAUCGGCUUG-GCCAUAGAGAUACAUUAGCUGAUGGUGG
..........(((((((((((((((....))))).....(((((((----..........)))).(((((((.(((....)))))-))))).)))........)))))))))). ( -44.40)
>DroAna_CAF1 17873 97 + 1
GACUAAAAUGCGCUGUCAGCGCAGCAGUUGCUGCCAUACGUCGCCGCGUUUUCC-----CCAGCUC----CG-----UGGAACUG---CCUAUGGGCACAUUAGCUGAUGGUGG
..........(((((((((((((((....)))))...((((....)))).....-----...((.(----((-----(((.....---.))))))))......)))))))))). ( -35.30)
>consensus
GACUAAAAUGCGCUGUCAGCGCAGCAGUUGCUGCCAUACGUCGCCG____UCGC_____CCGGCUAUGGCCAUGGCUUGGGCUUGGGCCAUAUAGAUACAUUAGCUGAUGGUGG
..........(((((((((((((((....))))).....(((((((..............))))...............(((....))).....)))......)))))))))). (-28.69 = -29.77 +   1.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:31 2006