Locus 7959

Sequence ID	3R_DroMel_CAF1
Location	21,351,756 – 21,351,849
Length	93
Max. P	0.732338

overview

Window 6

Location	21,351,756 – 21,351,849
Length	93
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	72.55
Mean single sequence MFE	-29.48
Consensus MFE	-9.18
Energy contribution	-10.62
Covariance contribution	1.45
Combinations/Pair	1.06
Mean z-score	-2.20
Structure conservation index	0.31
SVM decision value	0.43
SVM RNA-class probability	0.732338
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21351756 93 + 27905053
UUUCCCCCA-----GCUGGUGGAUCUUGG-----------C-UUAUUGUUAGCCUGGUUA--GAGGUUACGGCUAACAAUUACUUAAAAUUAGCUGCCAGUAGCCGGGCAAC
.....(((.-----((((.(((.....((-----------(-(.((((((((((..((..--......))))))))))))...........)))).))).)))).))).... ( -29.40)
>DroPse_CAF1 53069 102 + 1
UUUCUCCUGAACAAGCUGCUGGUUAGCCCCGUACGGGGACC-UCUUUGUUAGCCUGGUUUACGGGCUAAUGCCAAACAAUUAUUUAAAAUUAGCUGCCAUAAA---------
..............((.(((((((..((((....))))...-.....(((((((((.....))))))))).................))))))).))......--------- ( -29.90)
>DroSec_CAF1 44710 93 + 1
UUUCCCCCC-----GCUGGUGGAUCUUGG-----------C-UUAUUGUUAGCCUGGUUA--GAGGUUACGGCUAACAAUUACUUAAAAUUAGCUGCCAGUAGCCGGGCAAC
.....(((.-----((((.(((.....((-----------(-(.((((((((((..((..--......))))))))))))...........)))).))).)))).))).... ( -29.40)
>DroEre_CAF1 43990 93 + 1
UUUCCCCCA-----GCUGCUGGAUCUUGG-----------C-UUUUUGUUAGCCUGGUUA--GAGGUUACGGCUAACAAUUACUUAAAAUUAGCUGCCAGUAGCCAGGCAAC
.....((..-----((((((((.....((-----------(-(..(((((((((..((..--......)))))))))))............)))).))))))))..)).... ( -28.34)
>DroYak_CAF1 44122 96 + 1
UUUCCCCCA---AAGCUGCUGGAUCUCGC-----------UGCUUUUGUUAGCCUGGUUC--GAGGUUACGGCUAACAAUUACUUAAAAUUAGCUGCCAGUAGCCGGGCAAC
.....(((.---..(((((((((((((((-----------((((......)))..))..)--)))))..(((((((.............))))))))))))))).))).... ( -29.92)
>DroPer_CAF1 74770 102 + 1
UUUCUCCUGAACAAGCUGCUGGUUAGCCCCGUACGGGGACC-UCUUUGUUAGCCUGGUUUACGGGCUAAUGCCAAACAAUUAUUUAAAAUUAGCUGCCAUAAA---------
..............((.(((((((..((((....))))...-.....(((((((((.....))))))))).................))))))).))......--------- ( -29.90)
>consensus
UUUCCCCCA_____GCUGCUGGAUCUCGC___________C_UUUUUGUUAGCCUGGUUA__GAGGUUACGGCUAACAAUUACUUAAAAUUAGCUGCCAGUAGCCGGGCAAC
..............((((.(((.......................(((((((((................)))))))))...((.......))...))).))))........ ( -9.18 = -10.62 +   1.45)

alignment

secondary structure

dotplot

Window 7

Location	21,351,756 – 21,351,849
Length	93
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	72.55
Mean single sequence MFE	-29.18
Consensus MFE	-9.36
Energy contribution	-12.02
Covariance contribution	2.67
Combinations/Pair	1.00
Mean z-score	-2.17
Structure conservation index	0.32
SVM decision value	0.42
SVM RNA-class probability	0.730640
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21351756 93 - 27905053
GUUGCCCGGCUACUGGCAGCUAAUUUUAAGUAAUUGUUAGCCGUAACCUC--UAACCAGGCUAACAAUAA-G-----------CCAAGAUCCACCAGC-----UGGGGGAAA
.((.(((((((..((((.(((.......))).((((((((((........--......))))))))))..-)-----------))).(......))))-----)))).)).. ( -31.64)
>DroPse_CAF1 53069 102 - 1
---------UUUAUGGCAGCUAAUUUUAAAUAAUUGUUUGGCAUUAGCCCGUAAACCAGGCUAACAAAGA-GGUCCCCGUACGGGGCUAACCAGCAGCUUGUUCAGGAGAAA
---------(((((((..((((((.((((((....)))))).))))))))))))).((((((........-((((((.....)))))).......))))))........... ( -27.46)
>DroSec_CAF1 44710 93 - 1
GUUGCCCGGCUACUGGCAGCUAAUUUUAAGUAAUUGUUAGCCGUAACCUC--UAACCAGGCUAACAAUAA-G-----------CCAAGAUCCACCAGC-----GGGGGGAAA
.((.(((.(((..((((.(((.......))).((((((((((........--......))))))))))..-)-----------))).(......))))-----.))).)).. ( -29.54)
>DroEre_CAF1 43990 93 - 1
GUUGCCUGGCUACUGGCAGCUAAUUUUAAGUAAUUGUUAGCCGUAACCUC--UAACCAGGCUAACAAAAA-G-----------CCAAGAUCCAGCAGC-----UGGGGGAAA
.((.((..(((.((((..(((.......)))..(((((((((........--......)))))))))...-.-----------.......)))).)))-----..)).)).. ( -29.94)
>DroYak_CAF1 44122 96 - 1
GUUGCCCGGCUACUGGCAGCUAAUUUUAAGUAAUUGUUAGCCGUAACCUC--GAACCAGGCUAACAAAAGCA-----------GCGAGAUCCAGCAGCUU---UGGGGGAAA
.((.(((((((.((((..(((........((..(((((((((........--......)))))))))..)))-----------)).....)))).)))).---.))).)).. ( -29.04)
>DroPer_CAF1 74770 102 - 1
---------UUUAUGGCAGCUAAUUUUAAAUAAUUGUUUGGCAUUAGCCCGUAAACCAGGCUAACAAAGA-GGUCCCCGUACGGGGCUAACCAGCAGCUUGUUCAGGAGAAA
---------(((((((..((((((.((((((....)))))).))))))))))))).((((((........-((((((.....)))))).......))))))........... ( -27.46)
>consensus
GUUGCCCGGCUACUGGCAGCUAAUUUUAAGUAAUUGUUAGCCGUAACCUC__UAACCAGGCUAACAAAAA_G___________CCAAGAUCCAGCAGC_____UGGGGGAAA
((((((........)))))).............(((((((((................)))))))))............................................. ( -9.36 = -12.02 +   2.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:01 2006