Locus 4880

Sequence ID	2R_DroMel_CAF1
Location	15,957,528 – 15,957,628
Length	100
Max. P	0.659170

overview

Window 7

Location	15,957,528 – 15,957,628
Length	100
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	83.23
Mean single sequence MFE	-29.55
Consensus MFE	-20.92
Energy contribution	-22.45
Covariance contribution	1.53
Combinations/Pair	1.04
Mean z-score	-2.02
Structure conservation index	0.71
SVM decision value	0.26
SVM RNA-class probability	0.659170
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15957528 100 + 20766785
--------CGCGUGUG----------UGUGUGGGUGACUGAGCACUGACGACAUUAGCGCCAUUUUGUCGUAAUUAAUGUGCGCCAUAUUAGUUGCUAUUUGGCCAUUUUUCACACAC
--------...(((((----------(((((.((((......)))).)))......(.((((....((.((((((((((((...)))))))))))).)).)))))......))))))) ( -31.80)
>DroSec_CAF1 13392 102 + 1
--------CGCGUGUG--------UGUGUGUGGGUGACUGAGCACUGACGACAUUAGCGCCAUUUUGUCGUAAUUAAUGUGCGCCAUAUUAGUUGCUAUUUGGCCAUUUUUCACACAC
--------...(((((--------(((((((.((((......)))).)).)))...(.((((....((.((((((((((((...)))))))))))).)).)))))......))))))) ( -32.80)
>DroSim_CAF1 13388 102 + 1
--------CGCGUAUG--------UCUGUGUGGGUGACUGAGCACUGACGACAUUAGCGCCAUUUUGUCGUAAUUAAUGUGCGCCAUAUUAGUUGCUAUUUGGCCAUUUUUCACACAC
--------.((..(((--------((.((((((....))..))))....)))))..))((((....((.((((((((((((...)))))))))))).)).)))).............. ( -28.90)
>DroWil_CAF1 160122 112 + 1
UUUCUUUCUCUGUGUGUA------UUUGUGUGCGUGUGUGAGCACUGACGACAUUAGCGCCAUUUUGUCGUAAUUAAUGUGCGCCAUAUUAGUUGCUAUUUGGCCAUUUUUCACACAC
...............(((------(....))))((((((((((((..((((((..(......)..)))))).......))))((((...(((...)))..))))......)))))))) ( -30.60)
>DroYak_CAF1 20662 110 + 1
--------CGUGGGUGUAUAUGAGUGUGUGUGGGUGACUGAGCACUGACGACAUUAGCGCCAUUUUGUCGUAAUUAAUGUGCGCCAUAUUAGUUGCUAUUUGGCCAUUUUUCACACAC
--------.(((.(((...((((((((.(((.((((......)))).))))))))...((((....((.((((((((((((...)))))))))))).)).)))))))....))).))) ( -32.60)
>DroMoj_CAF1 93603 77 + 1
-----------------------------------------GCCCUGGCGACAUUAGCGCCAUUUUGUCGUAAUUAAUGUGCGCCAUAUUAGUUGCUAUUUGGCCAUUUUUCACAUAC
-----------------------------------------(((.(((((.(....)))))).......((((((((((((...)))))))))))).....))).............. ( -20.60)
>consensus
________CGCGUGUG________U_UGUGUGGGUGACUGAGCACUGACGACAUUAGCGCCAUUUUGUCGUAAUUAAUGUGCGCCAUAUUAGUUGCUAUUUGGCCAUUUUUCACACAC
..........................((((((((.......((((..((((((..(......)..)))))).......))))((((...(((...)))..)))).....)))))))). (-20.92 = -22.45 +   1.53)

alignment

secondary structure

dotplot

Window 8

Location	15,957,528 – 15,957,628
Length	100
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	83.23
Mean single sequence MFE	-23.97
Consensus MFE	-17.80
Energy contribution	-19.05
Covariance contribution	1.25
Combinations/Pair	1.12
Mean z-score	-1.72
Structure conservation index	0.74
SVM decision value	0.17
SVM RNA-class probability	0.615343
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15957528 100 - 20766785
GUGUGUGAAAAAUGGCCAAAUAGCAACUAAUAUGGCGCACAUUAAUUACGACAAAAUGGCGCUAAUGUCGUCAGUGCUCAGUCACCCACACA----------CACACGCG--------
(((((((.....((((.....((((....(((((((((.((((...........))))))))).))))......))))..))))....))))----------))).....-------- ( -26.00)
>DroSec_CAF1 13392 102 - 1
GUGUGUGAAAAAUGGCCAAAUAGCAACUAAUAUGGCGCACAUUAAUUACGACAAAAUGGCGCUAAUGUCGUCAGUGCUCAGUCACCCACACACA--------CACACGCG--------
(((((((.....((((.....((((....(((((((((.((((...........))))))))).))))......))))..))))....))))))--------).......-------- ( -26.00)
>DroSim_CAF1 13388 102 - 1
GUGUGUGAAAAAUGGCCAAAUAGCAACUAAUAUGGCGCACAUUAAUUACGACAAAAUGGCGCUAAUGUCGUCAGUGCUCAGUCACCCACACAGA--------CAUACGCG--------
(((((((.....(((......((((....(((((((((.((((...........))))))))).))))......)))).......)))......--------))))))).-------- ( -23.22)
>DroWil_CAF1 160122 112 - 1
GUGUGUGAAAAAUGGCCAAAUAGCAACUAAUAUGGCGCACAUUAAUUACGACAAAAUGGCGCUAAUGUCGUCAGUGCUCACACACGCACACAAA------UACACACAGAGAAAGAAA
(((((((.....((((....(((...)))...((((((.((((...........)))))))))).....))))((((........)))).....------)))))))........... ( -26.80)
>DroYak_CAF1 20662 110 - 1
GUGUGUGAAAAAUGGCCAAAUAGCAACUAAUAUGGCGCACAUUAAUUACGACAAAAUGGCGCUAAUGUCGUCAGUGCUCAGUCACCCACACACACUCAUAUACACCCACG--------
(((((((.....((((.....((((....(((((((((.((((...........))))))))).))))......))))..))))....)))))))...............-------- ( -25.50)
>DroMoj_CAF1 93603 77 - 1
GUAUGUGAAAAAUGGCCAAAUAGCAACUAAUAUGGCGCACAUUAAUUACGACAAAAUGGCGCUAAUGUCGCCAGGGC-----------------------------------------
((.(((((..((((((((.((........)).))))...))))..)))))))....((((((....).)))))....----------------------------------------- ( -16.30)
>consensus
GUGUGUGAAAAAUGGCCAAAUAGCAACUAAUAUGGCGCACAUUAAUUACGACAAAAUGGCGCUAAUGUCGUCAGUGCUCAGUCACCCACACA_A________CACACGCG________
(((((((.......((((.((........)).))))((((.....((......)).((((((....).))))))))).........................)))))))......... (-17.80 = -19.05 +   1.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:22 2006