Locus 2510

Sequence ID	2L_DroMel_CAF1
Location	6,921,097 – 6,921,225
Length	128
Max. P	0.965526

overview

Window 5

Location	6,921,097 – 6,921,199
Length	102
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	82.16
Mean single sequence MFE	-21.10
Consensus MFE	-13.18
Energy contribution	-14.57
Covariance contribution	1.39
Combinations/Pair	1.04
Mean z-score	-4.27
Structure conservation index	0.62
SVM decision value	1.58
SVM RNA-class probability	0.965526
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6921097 102 + 22407834
UCGUGCCACUUUCGGCACUCUAUUUCCACCCAUCAAAGUGGAA-AAUUUCAUAUUUUUAUACAUACAUACGAAAAAAUGCUAUGUAUAACACCACACCAACGA-----------
..(((((......)))))....(((((((........))))))-)...........((((((((((((........))).)))))))))..............----------- ( -24.40)
>DroSim_CAF1 6493 102 + 1
CCGUGCCACUUUCGGCACUCUAUUUCCACCCAUCAAAGUGGAA-AAUUUCAUAUUUUUAUACAUACAUACGAAAAAAUGCUAUGUAUAACACCACACCAACGC-----------
..(((((......)))))....(((((((........))))))-)...........((((((((((((........))).)))))))))..............----------- ( -24.40)
>DroEre_CAF1 7546 102 + 1
CUGUGCCACUUUCGGCACUCUAUUUCAACCCAUCAAAGUGGAA-AAUUUCAUAUUUUUAUACAUACAUACGAAAAAAUGCUAUGUAUAACACCACACCAACGC-----------
..(((((......)))))...................((((((-(((.....)))))(((((((((((........))).))))))))...))))........----------- ( -21.20)
>DroYak_CAF1 6216 102 + 1
CCGUGCCACUUUCGGGACUCUAUUUCCACCCAUGAAAGUGGAA-AAUUUCAUAUUUUUAUACAUACAUACGAAAAAAUGCUAUGUAUAACACCACACCAACGC-----------
..((((((((((((((............)))..))))))))..-............((((((((((((........))).)))))))))...)))........----------- ( -23.80)
>DroMoj_CAF1 6085 85 + 1
---------UUUUACUUCACAUUUUC---CUAAUAUAGUGGAA-AAUUUCAUAUUUUUAUACAUAC-----GAAAAAUGCUAUGUAUAACAGCACACUAACAC-----------
---------...........((((((---(.........))))-))).........((((((((((-----(.....)).)))))))))..............----------- ( -10.50)
>DroAna_CAF1 6051 109 + 1
UCGUGCCACUUUCGGCAUUCUUUUUC----CAUCAAAGUGGAAAAAUUUCAUAUUUUUAUACAUACACA-GAAAAAAUGCUAUGUAUAACACCACACCAACACUGGCAAAGCCA
..(((((......)))))..((((((----(((....)))))))))..........(((((((((..((-.......)).)))))))))...............(((...))). ( -22.30)
>consensus
CCGUGCCACUUUCGGCACUCUAUUUCCACCCAUCAAAGUGGAA_AAUUUCAUAUUUUUAUACAUACAUACGAAAAAAUGCUAUGUAUAACACCACACCAACGC___________
..(((((......)))))...................((((((....)))......((((((((((((........))).)))))))))...)))................... (-13.18 = -14.57 +   1.39)

alignment

secondary structure

dotplot

Window 6

Location	6,921,097 – 6,921,199
Length	102
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	82.16
Mean single sequence MFE	-26.61
Consensus MFE	-16.03
Energy contribution	-17.65
Covariance contribution	1.62
Combinations/Pair	1.18
Mean z-score	-2.48
Structure conservation index	0.60
SVM decision value	0.45
SVM RNA-class probability	0.739693
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6921097 102 - 22407834
-----------UCGUUGGUGUGGUGUUAUACAUAGCAUUUUUUCGUAUGUAUGUAUAAAAAUAUGAAAUU-UUCCACUUUGAUGGGUGGAAAUAGAGUGCCGAAAGUGGCACGA
-----------...((.((((....(((((((((.(((........))))))))))))..)))).))..(-((((((((....)))))))))....((((((....)))))).. ( -30.40)
>DroSim_CAF1 6493 102 - 1
-----------GCGUUGGUGUGGUGUUAUACAUAGCAUUUUUUCGUAUGUAUGUAUAAAAAUAUGAAAUU-UUCCACUUUGAUGGGUGGAAAUAGAGUGCCGAAAGUGGCACGG
-----------...((.((((....(((((((((.(((........))))))))))))..)))).))..(-((((((((....)))))))))....((((((....)))))).. ( -30.40)
>DroEre_CAF1 7546 102 - 1
-----------GCGUUGGUGUGGUGUUAUACAUAGCAUUUUUUCGUAUGUAUGUAUAAAAAUAUGAAAUU-UUCCACUUUGAUGGGUUGAAAUAGAGUGCCGAAAGUGGCACAG
-----------.(((..(.((((..(((((((((.(((........))))))))))))............-..)))).)..)))............((((((....)))))).. ( -25.89)
>DroYak_CAF1 6216 102 - 1
-----------GCGUUGGUGUGGUGUUAUACAUAGCAUUUUUUCGUAUGUAUGUAUAAAAAUAUGAAAUU-UUCCACUUUCAUGGGUGGAAAUAGAGUCCCGAAAGUGGCACGG
-----------...((.((((....(((((((((.(((........))))))))))))..)))).))..(-((((((((....)))))))))....(((((....).)).)).. ( -26.50)
>DroMoj_CAF1 6085 85 - 1
-----------GUGUUAGUGUGCUGUUAUACAUAGCAUUUUUC-----GUAUGUAUAAAAAUAUGAAAUU-UUCCACUAUAUUAG---GAAAAUGUGAAGUAAAA---------
-----------(((((((((((....))))).))))))..(((-----((((........)))))))(((-((((.........)---))))))...........--------- ( -15.90)
>DroAna_CAF1 6051 109 - 1
UGGCUUUGCCAGUGUUGGUGUGGUGUUAUACAUAGCAUUUUUUC-UGUGUAUGUAUAAAAAUAUGAAAUUUUUCCACUUUGAUG----GAAAAAGAAUGCCGAAAGUGGCACGA
......(((((.(.(((((((....(((((((((.(((......-.))))))))))))..........((((((((......))----))))))..))))))).).)))))... ( -30.60)
>consensus
___________GCGUUGGUGUGGUGUUAUACAUAGCAUUUUUUCGUAUGUAUGUAUAAAAAUAUGAAAUU_UUCCACUUUGAUGGGUGGAAAUAGAGUGCCGAAAGUGGCACGG
............((((((.((((..(((((((((.(((........))))))))))))...............)))).))))))............((((((....)))))).. (-16.03 = -17.65 +   1.62)

alignment

secondary structure

dotplot

Window 7

Location	6,921,133 – 6,921,225
Length	92
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	79.50
Mean single sequence MFE	-13.75
Consensus MFE	-8.64
Energy contribution	-9.50
Covariance contribution	0.86
Combinations/Pair	1.05
Mean z-score	-2.01
Structure conservation index	0.63
SVM decision value	0.84
SVM RNA-class probability	0.863301
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6921133 92 + 22407834
AGUGGAAAAUUUCAUAUUUUUAUACAUACAUACGAAAAAAUGCUAUGUAUAACACCACACCAACGAUCACGCACACCAUUGCACAGCGCUCG-------
.(((((((((.....)))))(((((((((((........))).))))))))...)))).....(((...(((.............))).)))------- ( -15.32)
>DroVir_CAF1 6406 81 + 1
AGUGGAAAAUUUCAUAUUUUUAUACAUAC-----AAAAAAUGCUAUGUAUAACAGCAUACUAACACAUACAUACA------CACAAGAUACA-------
.(((((((((.....))))))((((((((-----(.....)).))))))).............))).........------...........------- (  -9.00)
>DroPse_CAF1 5813 98 + 1
AGUGGAAAAUUUCAUAUUUUUAUACAUACAUAC-AAAAAAUGCUAUGUAUAACACCACACCAACACAUACACACACGAGUACAAAUCGGUCGGUUCGGU
.(((((((((.....)))))(((((((((((..-.....))).))))))))...))))((((((........((.(((.......)))))..))).))) ( -15.90)
>DroSec_CAF1 6098 92 + 1
AGUGGAAAAUUUCAUAUUUUUAUACAUACAUACGAAAAAAUGCUAUGUAUAACACCACACCAACGCAUACGCACACCAUUGCAUAGAGCUCG-------
.(((((((((.....)))))(((((((((((........))).))))))))...))))......((.((.(((......))).))..))...------- ( -16.50)
>DroMoj_CAF1 6109 83 + 1
AGUGGAAAAUUUCAUAUUUUUAUACAUAC-----GAAAAAUGCUAUGUAUAACAGCACACUAACACAUGCAUACACA----CACAAGACACA-------
.(((...............((((((((((-----(.....)).)))))))))..(((..........)))...))).----...........------- (  -9.90)
>DroPer_CAF1 5813 98 + 1
AGUGGAAAAUUUCAUAUUUUUAUACAUACAUAC-AAAAAAUGCUAUGUAUAACACCACACCAACACAUACACACACGAGUACAAAUCGGUCGGUUCGGU
.(((((((((.....)))))(((((((((((..-.....))).))))))))...))))((((((........((.(((.......)))))..))).))) ( -15.90)
>consensus
AGUGGAAAAUUUCAUAUUUUUAUACAUACAUAC_AAAAAAUGCUAUGUAUAACACCACACCAACACAUACACACACCA_U_CACAACGCUCG_______
.(((((((((.....)))))(((((((((((........))).))))))))...))))......................................... ( -8.64 =  -9.50 +   0.86)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:36 2006