Locus 3642

Sequence ID	3L_DroMel_CAF1
Location	10,695,578 – 10,695,676
Length	98
Max. P	0.906150

overview

Window 8

Location	10,695,578 – 10,695,676
Length	98
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	96.28
Mean single sequence MFE	-26.66
Consensus MFE	-23.64
Energy contribution	-23.64
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.20
Structure conservation index	0.89
SVM decision value	-0.04
SVM RNA-class probability	0.511588
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10695578 98 + 23771897
UUUUU--UUUUUAGGUGGUAAAUGGUGUUGGUGGUGCUGCUGCUGCUGGUGAUGCUUCCUGCGCUGCCGUUUAGAGAGGCUGCCAAAAAACAUUUAUACA
.....--.......(((.((((((...((((..((.((.(((..((.(((..(((.....)))..))))).)))))..))..))))....))))))))). ( -27.30)
>DroSec_CAF1 29978 93 + 1
-UUUU---UUUUAGGUGGUAAAUGGUGUUGGUGGUGCUG---CUGCUGGUGAUGCUUCCUGCGCUGCCGUUUAGAGAGGCUGCCAAAAAACAUUUAUACA
-....---......(((.((((((...((((..((.((.---(((.((((..(((.....)))..))))..)))))..))..))))....))))))))). ( -26.70)
>DroSim_CAF1 31628 94 + 1
-UUUU--UUUUUAGGUGGUAAAUGGUGUUGGUGGUGCUG---CUGCUGGUGAUGCUUCCUGCGCUGCCGUUUAGAGAGGCUGCCAAAAAACAUUUAUACA
-....--.......(((.((((((...((((..((.((.---(((.((((..(((.....)))..))))..)))))..))..))))....))))))))). ( -26.70)
>DroEre_CAF1 33554 96 + 1
-UUUUUUUUUUUAGGUGGUAAAUGGUGUUGGUGGUGGUG---CUGCUGGUGAUGCUUCCUGCGCUGCCGUUUAGAGAGGCUGCCAAAAAACAUUUAUACA
-.............(((.((((((...(((((((..(((---(.(..((.....))..).))))..))((((....)))).)))))....))))))))). ( -26.30)
>DroYak_CAF1 42779 95 + 1
-UUUUU-UUUUUAGGUGGUAAAUGGUGUUGGUGGUGGUG---CUGCUGGUGAUGCUUCCUGCGCUGCCGUUUAGAGAGGCUGCCAAAAAACAUUUAUACA
-.....-.......(((.((((((...(((((((..(((---(.(..((.....))..).))))..))((((....)))).)))))....))))))))). ( -26.30)
>consensus
_UUUU__UUUUUAGGUGGUAAAUGGUGUUGGUGGUGCUG___CUGCUGGUGAUGCUUCCUGCGCUGCCGUUUAGAGAGGCUGCCAAAAAACAUUUAUACA
..............(((.((((((...((((..((..(......((.(((..(((.....)))..))))).....)..))..))))....))))))))). (-23.64 = -23.64 +   0.00)

alignment

secondary structure

dotplot

Window 9

Location	10,695,578 – 10,695,676
Length	98
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	96.28
Mean single sequence MFE	-16.32
Consensus MFE	-15.80
Energy contribution	-15.80
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.31
Structure conservation index	0.97
SVM decision value	1.05
SVM RNA-class probability	0.906150
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10695578 98 - 23771897
UGUAUAAAUGUUUUUUGGCAGCCUCUCUAAACGGCAGCGCAGGAAGCAUCACCAGCAGCAGCAGCACCACCAACACCAUUUACCACCUAAAAA--AAAAA
(((....((((((((((((.(((.........))).)).)))))))))).....)))((....))............................--..... ( -17.00)
>DroSec_CAF1 29978 93 - 1
UGUAUAAAUGUUUUUUGGCAGCCUCUCUAAACGGCAGCGCAGGAAGCAUCACCAGCAG---CAGCACCACCAACACCAUUUACCACCUAAAA---AAAA-
(((....((((((((((((.(((.........))).)).)))))))))).....((..---..)).......))).................---....- ( -16.50)
>DroSim_CAF1 31628 94 - 1
UGUAUAAAUGUUUUUUGGCAGCCUCUCUAAACGGCAGCGCAGGAAGCAUCACCAGCAG---CAGCACCACCAACACCAUUUACCACCUAAAAA--AAAA-
(((....((((((((((((.(((.........))).)).)))))))))).....((..---..)).......)))..................--....- ( -16.50)
>DroEre_CAF1 33554 96 - 1
UGUAUAAAUGUUUUUUGGCAGCCUCUCUAAACGGCAGCGCAGGAAGCAUCACCAGCAG---CACCACCACCAACACCAUUUACCACCUAAAAAAAAAAA-
(((....((((((((((((.(((.........))).)).)))))))))).....))).---......................................- ( -15.80)
>DroYak_CAF1 42779 95 - 1
UGUAUAAAUGUUUUUUGGCAGCCUCUCUAAACGGCAGCGCAGGAAGCAUCACCAGCAG---CACCACCACCAACACCAUUUACCACCUAAAAA-AAAAA-
(((....((((((((((((.(((.........))).)).)))))))))).....))).---................................-.....- ( -15.80)
>consensus
UGUAUAAAUGUUUUUUGGCAGCCUCUCUAAACGGCAGCGCAGGAAGCAUCACCAGCAG___CAGCACCACCAACACCAUUUACCACCUAAAAA__AAAA_
(((....((((((((((((.(((.........))).)).)))))))))).....)))........................................... (-15.80 = -15.80 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:01 2006