Locus 961

Sequence ID	3L_DroMel_CAF1
Location	2,858,788 – 2,858,879
Length	91
Max. P	0.774562

overview

Window 7

Location	2,858,788 – 2,858,879
Length	91
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	92.45
Mean single sequence MFE	-29.82
Consensus MFE	-22.06
Energy contribution	-22.86
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-2.23
Structure conservation index	0.74
SVM decision value	0.54
SVM RNA-class probability	0.774562
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2858788 91 + 23771897
CGGUUUAGAAUCUAGGUGACUGCGAGGGCUGUUUUUUGGCAGUA--UAUA----CAUAUGUG--UAUUAUGUGGAGGGGCAGGGAGCCUCACAGAACGA
..((((.(....(((....))).((((.(((((((((.(((..(--((((----(....)))--)))..))).)))))))))....)))).).)))).. ( -27.30)
>DroSec_CAF1 103542 95 + 1
CGGUUUAGAAUCUAGGUGACUGCGAGGGCUGUUUUUUGGCAGUA--UAUACAUACAUAUGUG--UAUUGUGUGGAGGGGCAGGGAGCCUCACAGGACGA
..(((..(....(((....))).((((.(((((((((.(((..(--(((((((....)))))--)))..))).)))))))))....)))).)..))).. ( -29.50)
>DroSim_CAF1 94224 95 + 1
CGGUUUAGAAUCUAGGUGACUGCGAGGGCUGUUUUUUGGCAGUA--UAUACAUACAUAUGUG--UAUUAUGUGGAGGGGCAGGGAGCCUCACAGGACGA
..(((..(....(((....))).((((.(((((((((.(((..(--(((((((....)))))--)))..))).)))))))))....)))).)..))).. ( -29.20)
>DroEre_CAF1 107216 91 + 1
CGGUAUAGAAUCUAGGUGACUGCGAGGGCUGUUUUUUGGCAGUA--UAUA----CAUACGUG--UAUUAUGUGGAGGGGCAGGGAGCCUCGCAGGACGA
...............((..((((((((.(((((((((.(((..(--((((----(....)))--)))..))).)))))))))....)))))))).)).. ( -32.30)
>DroYak_CAF1 108866 95 + 1
CGGUAUAGAAUCUAGGUGACUGCGAGGGCUGUUUUUUGGCAGUACAUAUA----CAUAUGUGUGUUUUAUGUAGAGGGGCAGGGAGCCUCGCAGGACGA
...............((..((((((((.(((((((((.(((..(((((((----....)))))))....))).)))))))))....)))))))).)).. ( -30.80)
>consensus
CGGUUUAGAAUCUAGGUGACUGCGAGGGCUGUUUUUUGGCAGUA__UAUA____CAUAUGUG__UAUUAUGUGGAGGGGCAGGGAGCCUCACAGGACGA
...............((..(((.((((.(((((((((.((((((((((((........)))))))))..))).)))))))))....)))).))).)).. (-22.06 = -22.86 +   0.80)

alignment

secondary structure

dotplot

Window 8

Location	2,858,788 – 2,858,879
Length	91
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	92.45
Mean single sequence MFE	-16.34
Consensus MFE	-12.92
Energy contribution	-12.88
Covariance contribution	-0.04
Combinations/Pair	1.07
Mean z-score	-1.62
Structure conservation index	0.79
SVM decision value	0.38
SVM RNA-class probability	0.711862
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2858788 91 - 23771897
UCGUUCUGUGAGGCUCCCUGCCCCUCCACAUAAUA--CACAUAUG----UAUA--UACUGCCAAAAAACAGCCCUCGCAGUCACCUAGAUUCUAAACCG
..(..((((((((...................(((--((....))----))).--..(((........))).)))))))).)................. ( -15.10)
>DroSec_CAF1 103542 95 - 1
UCGUCCUGUGAGGCUCCCUGCCCCUCCACACAAUA--CACAUAUGUAUGUAUA--UACUGCCAAAAAACAGCCCUCGCAGUCACCUAGAUUCUAAACCG
.....((((((((................(((.((--((....)))))))...--..(((........))).))))))))................... ( -15.70)
>DroSim_CAF1 94224 95 - 1
UCGUCCUGUGAGGCUCCCUGCCCCUCCACAUAAUA--CACAUAUGUAUGUAUA--UACUGCCAAAAAACAGCCCUCGCAGUCACCUAGAUUCUAAACCG
.....((((((((...................(((--((....))))).....--..(((........))).))))))))................... ( -15.20)
>DroEre_CAF1 107216 91 - 1
UCGUCCUGCGAGGCUCCCUGCCCCUCCACAUAAUA--CACGUAUG----UAUA--UACUGCCAAAAAACAGCCCUCGCAGUCACCUAGAUUCUAUACCG
.....((((((((...................(((--((....))----))).--..(((........))).))))))))................... ( -17.10)
>DroYak_CAF1 108866 95 - 1
UCGUCCUGCGAGGCUCCCUGCCCCUCUACAUAAAACACACAUAUG----UAUAUGUACUGCCAAAAAACAGCCCUCGCAGUCACCUAGAUUCUAUACCG
.....((((((((.............((((((..(((......))----).))))))(((........))).))))))))................... ( -18.60)
>consensus
UCGUCCUGUGAGGCUCCCUGCCCCUCCACAUAAUA__CACAUAUG____UAUA__UACUGCCAAAAAACAGCCCUCGCAGUCACCUAGAUUCUAAACCG
.....((((((((...............((((.........))))............(((........))).))))))))................... (-12.92 = -12.88 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:26 2006