Locus 2659

Sequence ID	3R_DroMel_CAF1
Location	7,142,045 – 7,142,143
Length	98
Max. P	0.986908

overview

Window 8

Location	7,142,045 – 7,142,143
Length	98
Sequences	5
Columns	105
Reading direction	forward
Mean pairwise identity	87.52
Mean single sequence MFE	-27.32
Consensus MFE	-20.28
Energy contribution	-21.48
Covariance contribution	1.20
Combinations/Pair	1.00
Mean z-score	-3.11
Structure conservation index	0.74
SVM decision value	2.06
SVM RNA-class probability	0.986908
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7142045 98 + 27905053
---AA--AAAGAUUAAAACCGGAGGAAAA-AAAACGUGUAAAAGGUUAAGAGUAGCGAAGCGAGGUCCACGCAUGUGGAUG-UGUGGCCCUCACUUUGAACUUAG
---..--.........((((.........-.............))))..((((..(((((.((((.((((((((....)))-))))).)))).))))).)))).. ( -28.75)
>DroSec_CAF1 75082 98 + 1
---AA--AAAGAUUAAAACCGUAGGGAAA-AAAACGGGUAAAAGGUUAAGAGUGGCGAAGCGAGGCCCACGCAUGUGGAUG-UGUGGCCCUCACUUUGAACUUAG
---..--...........((((.......-...))))............((((..(((((.((((.((((((((....)))-))))).)))).))))).)))).. ( -31.90)
>DroSim_CAF1 86037 100 + 1
---AA--AAAGAUUAAAACCGUAGGGAAAAAAAACGUGUAAAAGGUUAAGAGUAGCGAAGCGAGGCCCACGCAUGUGGAUGGUGUGGCCCUCACUUUGAACUUAG
---..--.........((((.......................))))..((((..(((((.((((.((((((.........)))))).)))).))))).)))).. ( -25.40)
>DroEre_CAF1 76315 99 + 1
AAUAAAAAACAGAUAAAACCGGAGGAA---AAAACGGGGAAAAGGUUAAGAGUAGCGAAGCGAGGACCACGCAUGUGGAUG---CGGCCCUCACUUUGAACUUAG
.......(((........(((......---....))).......)))..((((..(((((.((((....(((((....)))---))..)))).))))).)))).. ( -23.76)
>DroYak_CAF1 78317 96 + 1
---AAAGAAUAGAUAAAACCGUAGGAA---AAAACGGGGAAAAGGUUAAGAGUAGCGAAGCGAGGAGCACGCAUGUGGAUG---UGGCCCUCACUUUGAACUUAG
---...............((((.....---...))))............((((..(((((.((((.((.(((((....)))---)))))))).))))).)))).. ( -26.80)
>consensus
___AA__AAAGAUUAAAACCGUAGGAAAA_AAAACGGGUAAAAGGUUAAGAGUAGCGAAGCGAGGACCACGCAUGUGGAUG_UGUGGCCCUCACUUUGAACUUAG
................((((.......................))))..((((..(((((.((((.((((((((....))).))))).)))).))))).)))).. (-20.28 = -21.48 +   1.20)

alignment

secondary structure

dotplot

Window 9

Location	7,142,045 – 7,142,143
Length	98
Sequences	5
Columns	105
Reading direction	reverse
Mean pairwise identity	87.52
Mean single sequence MFE	-22.43
Consensus MFE	-15.78
Energy contribution	-16.22
Covariance contribution	0.44
Combinations/Pair	1.05
Mean z-score	-2.89
Structure conservation index	0.70
SVM decision value	1.33
SVM RNA-class probability	0.942859
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7142045 98 - 27905053
CUAAGUUCAAAGUGAGGGCCACA-CAUCCACAUGCGUGGACCUCGCUUCGCUACUCUUAACCUUUUACACGUUUU-UUUUCCUCCGGUUUUAAUCUUU--UU---
...(((...((((((((.((((.-(((....))).)))).)))))))).)))......((((.............-.........)))).........--..--- ( -21.25)
>DroSec_CAF1 75082 98 - 1
CUAAGUUCAAAGUGAGGGCCACA-CAUCCACAUGCGUGGGCCUCGCUUCGCCACUCUUAACCUUUUACCCGUUUU-UUUCCCUACGGUUUUAAUCUUU--UU---
.((((..(.((((((((.((((.-(((....))).)))).)))))))).).....)))).........((((...-.......))))...........--..--- ( -26.20)
>DroSim_CAF1 86037 100 - 1
CUAAGUUCAAAGUGAGGGCCACACCAUCCACAUGCGUGGGCCUCGCUUCGCUACUCUUAACCUUUUACACGUUUUUUUUCCCUACGGUUUUAAUCUUU--UU---
...(((...((((((((.((((..(((....))).)))).)))))))).))).................(((...........)))............--..--- ( -21.50)
>DroEre_CAF1 76315 99 - 1
CUAAGUUCAAAGUGAGGGCCG---CAUCCACAUGCGUGGUCCUCGCUUCGCUACUCUUAACCUUUUCCCCGUUUU---UUCCUCCGGUUUUAUCUGUUUUUUAUU
...(((...((((((((((((---(..........))))))))))))).)))................(((....---......))).................. ( -23.00)
>DroYak_CAF1 78317 96 - 1
CUAAGUUCAAAGUGAGGGCCA---CAUCCACAUGCGUGCUCCUCGCUUCGCUACUCUUAACCUUUUCCCCGUUUU---UUCCUACGGUUUUAUCUAUUCUUU---
...(((...(((((((((((.---(((....))).).)).)))))))).)))................((((...---.....))))...............--- ( -20.20)
>consensus
CUAAGUUCAAAGUGAGGGCCACA_CAUCCACAUGCGUGGGCCUCGCUUCGCUACUCUUAACCUUUUACCCGUUUU_UUUUCCUACGGUUUUAAUCUUU__UU___
...(((.(.((((((((.((((.............)))).)))))))).)..)))...((((.......................))))................ (-15.78 = -16.22 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:34 2006