Locus 6793

Sequence ID	X_DroMel_CAF1
Location	16,912,651 – 16,912,807
Length	156
Max. P	0.999270

overview

Window 4

Location	16,912,651 – 16,912,767
Length	116
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	79.02
Mean single sequence MFE	-26.44
Consensus MFE	-20.82
Energy contribution	-22.50
Covariance contribution	1.68
Combinations/Pair	1.15
Mean z-score	-3.22
Structure conservation index	0.79
SVM decision value	3.47
SVM RNA-class probability	0.999270
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16912651 116 + 22224390
AAAAUAGUUGAAGAAAUUCUAGUGAUUAACCUAAAAACAUCGAUAGUCUGAAAUAAGCAUCGAUGUUUGGAAUAUUUAAAAAAAAACCUCGGUGCAUCGAUAUU----AGCAUCGAUGUU
.........(((....)))................(((((((((.(.((((.((..(((((((.((((...............)))).)))))))....)).))----)))))))))))) ( -26.06)
>DroSec_CAF1 7997 107 + 1
AAAAUAGU----------UAGGUGAUUAACCUAAAGAUAUCGAUAGUCUGAAAUAAACAUCGAUGUGCGGGAUAAAUAAA---AAACAUCGGUGCAUCGAUAUUAGUUAGCAUAGAUGUU
.......(----------(((((.....)))))).((((((....(.((((.......(((((((..(.((.........---.....)).)..))))))).....)))))...)))))) ( -23.74)
>DroSim_CAF1 8501 103 + 1
-----AUU----------UAGGUGAUUAACCUAAAGAUAUCGAUAGUCUGAAAUAAACAUCGAUGUGCGGCAUAAAUAAA--AAAACAUCGGUGCAUCGAUAUUAGUUAGCAUCGAUGUU
-----.((----------(((((.....)))))))(((((((((.(.((((.......(((((((..(.(..........--.......).)..))))))).....)))))))))))))) ( -29.53)
>consensus
AAAAUAGU__________UAGGUGAUUAACCUAAAGAUAUCGAUAGUCUGAAAUAAACAUCGAUGUGCGGAAUAAAUAAA__AAAACAUCGGUGCAUCGAUAUUAGUUAGCAUCGAUGUU
..................(((((.....)))))..(((((((((.(.((((....((.((((((((((.((.................)).)))))))))).))..)))))))))))))) (-20.82 = -22.50 +   1.68)

alignment

secondary structure

dotplot

Window 5

Location	16,912,651 – 16,912,767
Length	116
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	79.02
Mean single sequence MFE	-22.05
Consensus MFE	-15.05
Energy contribution	-15.61
Covariance contribution	0.56
Combinations/Pair	1.08
Mean z-score	-2.83
Structure conservation index	0.68
SVM decision value	2.69
SVM RNA-class probability	0.996380
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16912651 116 - 22224390
AACAUCGAUGCU----AAUAUCGAUGCACCGAGGUUUUUUUUUAAAUAUUCCAAACAUCGAUGCUUAUUUCAGACUAUCGAUGUUUUUAGGUUAAUCACUAGAAUUUCUUCAACUAUUUU
..((((((((..----..))))))))....((((...((((.........(((((((((((((.((......)).)))))))))))...)).........))))...))))......... ( -24.87)
>DroSec_CAF1 7997 107 - 1
AACAUCUAUGCUAACUAAUAUCGAUGCACCGAUGUUU---UUUAUUUAUCCCGCACAUCGAUGUUUAUUUCAGACUAUCGAUAUCUUUAGGUUAAUCACCUA----------ACUAUUUU
((((((..(((..............)))..)))))).---................((((((((((.....)))).))))))....((((((.....)))))----------)....... ( -18.64)
>DroSim_CAF1 8501 103 - 1
AACAUCGAUGCUAACUAAUAUCGAUGCACCGAUGUUUU--UUUAUUUAUGCCGCACAUCGAUGUUUAUUUCAGACUAUCGAUAUCUUUAGGUUAAUCACCUA----------AAU-----
(((((((.(((..............))).)))))))..--................((((((((((.....)))).))))))...(((((((.....)))))----------)).----- ( -22.64)
>consensus
AACAUCGAUGCUAACUAAUAUCGAUGCACCGAUGUUUU__UUUAUUUAUCCCGCACAUCGAUGUUUAUUUCAGACUAUCGAUAUCUUUAGGUUAAUCACCUA__________ACUAUUUU
(((((((.(((..............))).)))))))....................(((((((.((......)).))))))).....(((((.....))))).................. (-15.05 = -15.61 +   0.56)

alignment

secondary structure

dotplot

Window 6

Location	16,912,691 – 16,912,807
Length	116
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	90.78
Mean single sequence MFE	-28.70
Consensus MFE	-24.54
Energy contribution	-26.43
Covariance contribution	1.89
Combinations/Pair	1.03
Mean z-score	-1.83
Structure conservation index	0.86
SVM decision value	0.08
SVM RNA-class probability	0.571241
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16912691 116 - 22224390
UAUUAUCGGUAUCGGGAUGAGUUUUUAAUAGAGGUGCCGAAACAUCGAUGCU----AAUAUCGAUGCACCGAGGUUUUUUUUUAAAUAUUCCAAACAUCGAUGCUUAUUUCAGACUAUCG
.......((((((((...((((.(((((.(((((.(((....((((((((..----..))))))))......))).)))))))))).))))......))))))))............... ( -25.10)
>DroSec_CAF1 8027 117 - 1
UAUUAUCGGUAUCGGGAUGAGUUUUUAAUAGAGGUGCCAAAACAUCUAUGCUAACUAAUAUCGAUGCACCGAUGUUU---UUUAUUUAUCCCGCACAUCGAUGUUUAUUUCAGACUAUCG
...(((((((..((((((((((....((((..(((((......(((.(((........))).))))))))..)))).---...))))))))))...)))))))................. ( -30.20)
>DroSim_CAF1 8526 118 - 1
UAUUAUCGGUAUCGGGAUGAGUUUUUAAUAGAGGUGCCAAAACAUCGAUGCUAACUAAUAUCGAUGCACCGAUGUUUU--UUUAUUUAUGCCGCACAUCGAUGUUUAUUUCAGACUAUCG
...(((((((..(((.((((((....((((..(((((......(((((((........))))))))))))..))))..--...)))))).)))...)))))))................. ( -30.80)
>consensus
UAUUAUCGGUAUCGGGAUGAGUUUUUAAUAGAGGUGCCAAAACAUCGAUGCUAACUAAUAUCGAUGCACCGAUGUUUU__UUUAUUUAUCCCGCACAUCGAUGUUUAUUUCAGACUAUCG
...(((((((..((((((((((....((((..(((((......(((((((........))))))))))))..)))).......))))))))))...)))))))................. (-24.54 = -26.43 +   1.89)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:05 2006