Locus 3657

Sequence ID	X_DroMel_CAF1
Location	9,794,024 – 9,794,132
Length	108
Max. P	0.886900

overview

Window 5

Location	9,794,024 – 9,794,132
Length	108
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	73.70
Mean single sequence MFE	-25.54
Consensus MFE	-7.26
Energy contribution	-6.78
Covariance contribution	-0.48
Combinations/Pair	1.11
Mean z-score	-1.94
Structure conservation index	0.28
SVM decision value	0.94
SVM RNA-class probability	0.886900
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9794024 108 + 22224390
UUUUCACUUCUC------CUCUGUUGGCAGUAUUUGUCUAUUACUUGUCCUGCUUUUGGGCAU-UUGCAGUUUUUAAUCUAGCCAUAGUGC---CCACCUGAAUCAAAUCGGAUAUCU--
..........((------(......(((((.((..((.....))..)).)))))..(((((((-(.((((........)).))...)))))---))).............))).....-- ( -22.30)
>DroPse_CAF1 19246 107 + 1
UUUCCGCUUUUCGUUCGCUUUUGUUGCCACCAAA-----AGCACU-----CGCUUUUGGGCAU-UUGCAGUGUUUAAUCUUGGCAACGAGAAUGCCAGCUG--CCAAAUGAGAUUUCUAC
.....(((...(((((....((((((((((((((-----(((...-----.))))))))((..-..))............))))))))))))))..)))..--................. ( -30.90)
>DroSec_CAF1 8744 109 + 1
UUUUCACUUCUC------CUCUGUUGGCAGCAUUUGUCUAUUACUCGUCCUGCUUUUGGGCAUUUUGCAGUUUUUAAUCUCGCCAUUGUGC---CCACCUGAACCAAAUCGGAAAUCU--
..........((------(....(((((((.((..((.....))..)).))))...(((((((..(((((........)).).))..))))---))).......)))...))).....-- ( -21.30)
>DroSim_CAF1 9878 109 + 1
UUUUCACUUCUC------CUCUGUUGGCAGCAUUUGUCUAUUACUAGUCCUGCUUUUGGGCAUUUUGCAGUUUUUAAUCUCGCCAUUGUGC---CCACCUGAACCAAAUCGGAAAUCU--
..........((------(....((((.((((...(.(((....))).).))))..(((((((..(((((........)).).))..))))---)))......))))...))).....-- ( -22.30)
>DroPer_CAF1 16021 107 + 1
UUUCCGCUUUUCGUUCGCUUUUGUUGCCACCAAA-----AGCACU-----CGCUUUUGGGCAU-UUGCAGUGUUUAAUCUUGGCAACGAGAAUGCCAGCUG--CCAAAUGAGAUUUCUAC
.....(((...(((((....((((((((((((((-----(((...-----.))))))))((..-..))............))))))))))))))..)))..--................. ( -30.90)
>consensus
UUUUCACUUCUC______CUCUGUUGGCAGCAUUUGUCUAUUACU_GUCCUGCUUUUGGGCAU_UUGCAGUUUUUAAUCUCGCCAUCGUGC___CCACCUGAACCAAAUCGGAUAUCU__
........................((((.......................(((....))).......((........)).))))................................... ( -7.26 =  -6.78 +  -0.48)

alignment

secondary structure

dotplot

Window 6

Location	9,794,024 – 9,794,132
Length	108
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	73.70
Mean single sequence MFE	-26.30
Consensus MFE	-7.50
Energy contribution	-7.14
Covariance contribution	-0.36
Combinations/Pair	1.28
Mean z-score	-1.75
Structure conservation index	0.29
SVM decision value	0.31
SVM RNA-class probability	0.683100
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9794024 108 - 22224390
--AGAUAUCCGAUUUGAUUCAGGUGG---GCACUAUGGCUAGAUUAAAAACUGCAA-AUGCCCAAAAGCAGGACAAGUAAUAGACAAAUACUGCCAACAGAG------GAGAAGUGAAAA
--.....(((..((((.......(((---(((.....((.((........))))..-.))))))...((((.....((.....)).....))))...)))))------)).......... ( -19.50)
>DroPse_CAF1 19246 107 - 1
GUAGAAAUCUCAUUUGG--CAGCUGGCAUUCUCGUUGCCAAGAUUAAACACUGCAA-AUGCCCAAAAGCG-----AGUGCU-----UUUGGUGGCAACAAAAGCGAACGAAAAGCGGAAA
.....(((((....(((--((((.((....)).)))))))))))).....((((..-....((((((((.-----...)))-----)))))((....))..............))))... ( -30.00)
>DroSec_CAF1 8744 109 - 1
--AGAUUUCCGAUUUGGUUCAGGUGG---GCACAAUGGCGAGAUUAAAAACUGCAAAAUGCCCAAAAGCAGGACGAGUAAUAGACAAAUGCUGCCAACAGAG------GAGAAGUGAAAA
--...(((((...(((((.....(((---(((.....((.((........))))....))))))..((((.(.(........).)...)))))))))....)------))))........ ( -24.10)
>DroSim_CAF1 9878 109 - 1
--AGAUUUCCGAUUUGGUUCAGGUGG---GCACAAUGGCGAGAUUAAAAACUGCAAAAUGCCCAAAAGCAGGACUAGUAAUAGACAAAUGCUGCCAACAGAG------GAGAAGUGAAAA
--...(((((...(((((.....(((---(((.....((.((........))))....))))))..((((.(.(((....))).)...)))))))))....)------))))........ ( -27.90)
>DroPer_CAF1 16021 107 - 1
GUAGAAAUCUCAUUUGG--CAGCUGGCAUUCUCGUUGCCAAGAUUAAACACUGCAA-AUGCCCAAAAGCG-----AGUGCU-----UUUGGUGGCAACAAAAGCGAACGAAAAGCGGAAA
.....(((((....(((--((((.((....)).)))))))))))).....((((..-....((((((((.-----...)))-----)))))((....))..............))))... ( -30.00)
>consensus
__AGAUAUCCGAUUUGGUUCAGGUGG___GCACAAUGGCAAGAUUAAAAACUGCAA_AUGCCCAAAAGCAGGAC_AGUAAUAGACAAAUGCUGCCAACAGAG______GAGAAGUGAAAA
............((((......(((.....)))..(((((...........(((....(((......)))......)))............))))).))))................... ( -7.50 =  -7.14 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:51 2006