Locus 6338

Sequence ID	2R_DroMel_CAF1
Location	19,870,637 – 19,870,739
Length	102
Max. P	0.933885

overview

Window 1

Location	19,870,637 – 19,870,739
Length	102
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	76.88
Mean single sequence MFE	-31.95
Consensus MFE	-21.76
Energy contribution	-23.32
Covariance contribution	1.56
Combinations/Pair	1.08
Mean z-score	-1.77
Structure conservation index	0.68
SVM decision value	1.23
SVM RNA-class probability	0.933885
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19870637 102 + 20766785
-------CUUCGCCGUUGUGCAAC-GACUUUAAAAAGCUGUUAACAUGCGUUGUCAUCGCUGCCAUAUGUUGCACGACAGGCGACUCCUGGUCGCCACCAGCAGCCGUAC
-------..(((((((((((((((-(.........(((((.((((....)))).))..)))......))))))))))).)))))((.(((((....))))).))...... ( -34.06)
>DroGri_CAF1 139199 82 + 1
-------UGUUGUUGUUGUGCAAUUGCCUUUAAAAAGCUGUUAACAUGCGUUGUCAUCGCUGCCAUAUGUUGCACGACGCG--ACGC----GCAG---------------
-------.(((((.((((((((((...........(((((.((((....)))).))..))).......)))))))))))))--))..----....--------------- ( -22.17)
>DroSim_CAF1 81133 102 + 1
-------CUCCGGCGUUGUGCAAC-GACUUUAAAAAGCUGUUAACAUGCGUUGUCAUCGCUGCCAUAUGUUGCACGACAGGCGACUCCUGGUCGCCACCAGCAGCCGUAC
-------...((((((((((((((-(.........(((((.((((....)))).))..)))......))))))))))).((((((.....)))))).......))))... ( -38.76)
>DroEre_CAF1 106298 109 + 1
CCAUUGGUUCCAGCGUUGUGCAAC-GACUUUAAAAAGCUGUUAACAUGCGUUGUCAUCGCUGCCAUAUGUUGCACGACAGGCGACUCCUGGUCGCCACCAGCAGCCGUAC
.....((((...((((((((((((-(.........(((((.((((....)))).))..)))......))))))))))).((((((.....))))))....)))))).... ( -36.56)
>DroYak_CAF1 104411 102 + 1
-------UUGCAGCGUUGUGCAAC-GACUUUAAAAAGCUGUUAACAUGCGUUGUCAUCGCUGCCAUAUGUUGCACGACAGGCGACUCCUGGUCGCCACCAGCAGCCGUAC
-------.(((.((((((((((((-(.........(((((.((((....)))).))..)))......))))))))))).((((((.....)))))).......)).))). ( -35.46)
>DroMoj_CAF1 189615 89 + 1
--AU---UGUUGCAGUUGUGCAAUUGCCUUUAAAAAGCUAUUAACAUGCGUUGUCAUCGCUGCCAUAUGUUGCACGACGCA--UCGC----GGCGCGGCG----------
--..---.(((((.((((((((((...........(((...((((....)))).....))).......))))))))))((.--....----.))))))).---------- ( -24.67)
>consensus
_______UUUCGGCGUUGUGCAAC_GACUUUAAAAAGCUGUUAACAUGCGUUGUCAUCGCUGCCAUAUGUUGCACGACAGGCGACUCCUGGUCGCCACCAGCAGCCGUAC
..............((((((((((...........(((((.((((....)))).))..))).......)))))))))).((((((.....)))))).............. (-21.76 = -23.32 +   1.56)

alignment

secondary structure

dotplot

Window 2

Location	19,870,637 – 19,870,739
Length	102
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	76.88
Mean single sequence MFE	-32.38
Consensus MFE	-21.14
Energy contribution	-24.02
Covariance contribution	2.88
Combinations/Pair	1.00
Mean z-score	-1.60
Structure conservation index	0.65
SVM decision value	0.83
SVM RNA-class probability	0.862012
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19870637 102 - 20766785
GUACGGCUGCUGGUGGCGACCAGGAGUCGCCUGUCGUGCAACAUAUGGCAGCGAUGACAACGCAUGUUAACAGCUUUUUAAAGUC-GUUGCACAACGGCGAAG-------
....((((.(((((....))))).))))(((.((.(((((((...((((((((.......))).)))))...((((....)))).-))))))).)))))....------- ( -38.70)
>DroGri_CAF1 139199 82 - 1
---------------CUGC----GCGU--CGCGUCGUGCAACAUAUGGCAGCGAUGACAACGCAUGUUAACAGCUUUUUAAAGGCAAUUGCACAACAACAACA-------
---------------.(((----((((--.(((((((((........))).))))).).)))).........((((.....))))....)))...........------- ( -21.20)
>DroSim_CAF1 81133 102 - 1
GUACGGCUGCUGGUGGCGACCAGGAGUCGCCUGUCGUGCAACAUAUGGCAGCGAUGACAACGCAUGUUAACAGCUUUUUAAAGUC-GUUGCACAACGCCGGAG-------
...((((.......((((((.....)))))).((.(((((((...((((((((.......))).)))))...((((....)))).-))))))).))))))...------- ( -37.30)
>DroEre_CAF1 106298 109 - 1
GUACGGCUGCUGGUGGCGACCAGGAGUCGCCUGUCGUGCAACAUAUGGCAGCGAUGACAACGCAUGUUAACAGCUUUUUAAAGUC-GUUGCACAACGCUGGAACCAAUGG
....((...(..((((((((.....)))))).((.(((((((...((((((((.......))).)))))...((((....)))).-))))))).))))..)..))..... ( -36.20)
>DroYak_CAF1 104411 102 - 1
GUACGGCUGCUGGUGGCGACCAGGAGUCGCCUGUCGUGCAACAUAUGGCAGCGAUGACAACGCAUGUUAACAGCUUUUUAAAGUC-GUUGCACAACGCUGCAA-------
(((((((....((((((........)))))).)))))))........((((((.((.(((((.((.((((.......)))).)))-))))..)).))))))..------- ( -37.00)
>DroMoj_CAF1 189615 89 - 1
----------CGCCGCGCC----GCGA--UGCGUCGUGCAACAUAUGGCAGCGAUGACAACGCAUGUUAAUAGCUUUUUAAAGGCAAUUGCACAACUGCAACA---AU--
----------......(((----(((.--((((((((((........))).))))).)).)))...((((.......)))).)))..(((((....)))))..---..-- ( -23.90)
>consensus
GUACGGCUGCUGGUGGCGACCAGGAGUCGCCUGUCGUGCAACAUAUGGCAGCGAUGACAACGCAUGUUAACAGCUUUUUAAAGUC_GUUGCACAACGCCGAAA_______
...(((((.(((((....))))).)))))...((.(((((((...((((((((.......))).)))))...((((....))))..))))))).)).............. (-21.14 = -24.02 +   2.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:42 2006