Locus 4723

Sequence ID	2R_DroMel_CAF1
Location	15,490,267 – 15,490,395
Length	128
Max. P	0.755630

overview

Window 8

Location	15,490,267 – 15,490,370
Length	103
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	76.86
Mean single sequence MFE	-20.11
Consensus MFE	-12.60
Energy contribution	-12.60
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.39
Structure conservation index	0.63
SVM decision value	0.25
SVM RNA-class probability	0.651100
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15490267 103 + 20766785
CA--CAGCCCAGCCAC---GCCCAUUUGGGAGAA---GCCACUGCAUUUCAUCGCUAAUUUAAGUUAAUGGUCAUUGUUGUAAAUUACAUUAAUUUUAAUGCGAUUUCGCA
..--..((...((..(---.(((....))).)..---))...........(((((......(((((((((...(((......)))..)))))))))....)))))...)). ( -19.50)
>DroVir_CAF1 381392 106 + 1
CA--CUUUCGAUGCACUGUGUGCAUCUGUCUG---UGUGCGCUGCAUUUCAUCGCUAAUUUAAGUUAAUGUUCAUUGUUGUAAAUUACAUUAAUUUUAAUGCGAUUUCGCA
..--.....((((((..(((..(((......)---))..)))))))))..(((((......((((((((((..(((......))).))))))))))....)))))...... ( -26.10)
>DroPse_CAF1 322811 93 + 1
CC--CUG---CACCAC---GCACCAUG----------UACAGUGCAUUUCAUCGCUAAUUUAAGUUAAUGGUCAUUGUUGUAAAUUACAUUAAUUUUAAUGCGAUUUCGCA
..--..(---(.....---((((....----------....)))).....(((((......(((((((((...(((......)))..)))))))))....)))))...)). ( -19.30)
>DroGri_CAF1 342088 99 + 1
CGUCCUUUUGUUGA-------CCAUGUGUC-----CGUGCAUUGCAUUUCAUCGCUAAUUUAAGUUAAUGUUCAUUGUUGUAAAUUACAUUAAUUUUAAUGCGAUUUCGCA
.(((........))-------)..((((..-----..((((((((........))......((((((((((..(((......))).)))))))))).))))))....)))) ( -16.70)
>DroAna_CAF1 262220 101 + 1
AG--G-----AGUCCC---GCCUCCCUGGCCCCAACGAACAUUGCAUUUCAUCGCUAAUUUAAGUUAAUGGUCAUUGUUGUAAAUUACAUUAAUUUUAAUGCGAUUUCGCA
.(--(-----....))---(((.....))).....((((.((((((((.............(((((((((...(((......)))..))))))))).)))))))))))).. ( -19.74)
>DroPer_CAF1 285435 93 + 1
CC--CUG---CACCAC---GCACCAUG----------UACAGUGCAUUUCAUCGCUAAUUUAAGUUAAUGGUCAUUGUUGUAAAUUACAUUAAUUUUAAUGCGAUUUCGCA
..--..(---(.....---((((....----------....)))).....(((((......(((((((((...(((......)))..)))))))))....)))))...)). ( -19.30)
>consensus
CA__CUG___AACCAC___GCCCAUUUG_C_______UACACUGCAUUUCAUCGCUAAUUUAAGUUAAUGGUCAUUGUUGUAAAUUACAUUAAUUUUAAUGCGAUUUCGCA
..........................................(((.....(((((......(((((((((...(((......)))..)))))))))....)))))...))) (-12.60 = -12.60 +  -0.00)

alignment

secondary structure

dotplot

Window 9

Location	15,490,294 – 15,490,395
Length	101
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.02
Mean single sequence MFE	-23.77
Consensus MFE	-12.67
Energy contribution	-13.33
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-2.10
Structure conservation index	0.53
SVM decision value	0.49
SVM RNA-class probability	0.755630
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15490294 101 + 20766785
-AA---GCCACUGCAUUUCAUCGCUAAUUUAAGUUAAUGGUCAUUGUUGUAAAUUACAUUAAUUUUAAUGCGAUUUCGCACACACGCAUGCACCGG--AAGUGCUCC-------------
-..---......((((((((((((......(((((((((...(((......)))..)))))))))....)))))...(((........)))....)--))))))...------------- ( -22.80)
>DroVir_CAF1 381422 94 + 1
----UGUGCGCUGCAUUUCAUCGCUAAUUUAAGUUAAUGUUCAUUGUUGUAAAUUACAUUAAUUUUAAUGCGAUUUCGCACACGCGCCUGCACUGGGC----------------------
----...(((.(((.....(((((......((((((((((..(((......))).))))))))))....)))))...)))..)))((((.....))))---------------------- ( -22.90)
>DroGri_CAF1 342111 116 + 1
----CGUGCAUUGCAUUUCAUCGCUAAUUUAAGUUAAUGUUCAUUGUUGUAAAUUACAUUAAUUUUAAUGCGAUUUCGCACACGCGCCUGCACUGCGUAAGCGUCGGCACUGUUGUUGUA
----.((((..(((.....(((((......((((((((((..(((......))).))))))))))....)))))...)))..(((((.(((.....))).))).)))))).......... ( -28.60)
>DroMoj_CAF1 434999 91 + 1
CUGCUGUGCGUUGCAUUUCAUCGCUAAUUUAAGUUAAUGUUCAUUGUUGUAAAUUACAUUAAUUUUAAUGCGAUUUCACACACACGCACAC-----------------------------
....(((((((((......(((((......((((((((((..(((......))).))))))))))....)))))......)).))))))).----------------------------- ( -23.00)
>DroAna_CAF1 262242 104 + 1
-CAACGAACAUUGCAUUUCAUCGCUAAUUUAAGUUAAUGGUCAUUGUUGUAAAUUACAUUAAUUUUAAUGCGAUUUCGCACACACGCAUGCACCGG--AAGUGCCCC-------------
-...........((((((((((((......(((((((((...(((......)))..)))))))))....)))))...(((........)))....)--))))))...------------- ( -22.40)
>DroPer_CAF1 285454 99 + 1
------UACAGUGCAUUUCAUCGCUAAUUUAAGUUAAUGGUCAUUGUUGUAAAUUACAUUAAUUUUAAUGCGAUUUCGCACACACGCAUGCACCGG--AAGUGCUCC-------------
------....(.((((((((((((......(((((((((...(((......)))..)))))))))....)))))...(((........)))....)--)))))).).------------- ( -22.90)
>consensus
_____GUGCAUUGCAUUUCAUCGCUAAUUUAAGUUAAUGGUCAUUGUUGUAAAUUACAUUAAUUUUAAUGCGAUUUCGCACACACGCAUGCACCGG__AAGUGC_CC_____________
...........((((....(((((......(((((((((...(((......)))..)))))))))....)))))...((......)).))))............................ (-12.67 = -13.33 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:42 2006