Locus 527

Sequence ID	3R_DroMel_CAF1
Location	1,941,775 – 1,941,884
Length	109
Max. P	0.827077

overview

Window 1

Location	1,941,775 – 1,941,884
Length	109
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.10
Mean single sequence MFE	-30.26
Consensus MFE	-22.60
Energy contribution	-22.60
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.84
Structure conservation index	0.75
SVM decision value	0.70
SVM RNA-class probability	0.827077
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1941775 109 + 27905053
GCUGCAAAAAUUUCAGCCAUUUGUCCUGCAUGCUUGCGGCAUAAAAAUAUGCCAGGGCCAGCAUUUUCAUGCGGGUCAUCUCCUUCGAACUC--CGAGCUC-C--------CAGCUCCAA
((((.((....))))))....((.((((((((((.((((((((....))))))...)).))))......)))))).))..............--.((((..-.--------..))))... ( -30.30)
>DroVir_CAF1 118508 115 + 1
GCGGCAAAAAUUUCAGCCAUUUGUCCUGCAUGCUUGCGGCAUAAAAAUAUGCCAGGGCCAGCAUUUUCAUGCGGGUCAUCUACUCCCGGCUA--CAG--UUCCC-AGUUCCCAGUGCCCA
(.((((........((((....((((((((....)))((((((....)))))))))))..((((....))))(((.........)))))))(--(..--.....-.))......))))). ( -33.50)
>DroPse_CAF1 83555 98 + 1
GC-GCAAAAAUUUCAGCCAUUUGUCCUGCAUGCUUGCGGCAUAAAAAUAUGCCAGGGCCAGCAUUUUCAUGCGGGUCAUCUACUUGCAGCUC--CAG--UC-CC----------------
((-((((........(((....((((((((....)))((((((....)))))))))))..((((....)))).))).......)))).))..--...--..-..---------------- ( -27.36)
>DroGri_CAF1 101333 112 + 1
GCAGCAAAAAUUUCAGCCAUUUGUCCUGCAUGCUUGCGGCAUAAAAAUAUGCCAGGGCCAGCAUUUUCAUGCGGGUCAUCUACUCCCAGCUAUACAG--UUGCCCAGUUU------CCCA
(((((.................((((((((....)))((((((....)))))))))))..((((....))))(((.........))).........)--)))).......------.... ( -29.70)
>DroWil_CAF1 99785 104 + 1
GCAGCAAAAAUUUCAGCCAUUUGUCCUGCAUGCUUGCGGCAUAAAAAUAUGCCAGAGCCAGCAUUUUCAUGCGGGUCAUCUACUUGCAUCUC--CAA--CU-CU-GG-------CUA---
((((((.......(((....))).......))).)))((((((....))))))..((((((.......((((((((.....))))))))...--...--..-))-))-------)).--- ( -30.00)
>DroAna_CAF1 84603 100 + 1
GCUGCAAAAAUUUCAGCCAUUUGUCCUGCAUGCUUGCGGCAUAAAAAUAUGCCAGGGCCAGCAUUUUCAUGCGGGUCAUCUCCUUGGAGCCG-------------------UUGCUUCA-
(..((((...((((((.....((.((((((((((.((((((((....))))))...)).))))......)))))).)).....))))))...-------------------))))..).- ( -30.70)
>consensus
GCAGCAAAAAUUUCAGCCAUUUGUCCUGCAUGCUUGCGGCAUAAAAAUAUGCCAGGGCCAGCAUUUUCAUGCGGGUCAUCUACUUCCAGCUC__CAG__UU_CC__________CUCC__
.....................((.((((((((((.((((((((....))))))...)).))))......)))))).)).......................................... (-22.60 = -22.60 +  -0.00)

alignment

secondary structure

dotplot

Window 2

Location	1,941,775 – 1,941,884
Length	109
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.10
Mean single sequence MFE	-32.72
Consensus MFE	-23.69
Energy contribution	-23.33
Covariance contribution	-0.36
Combinations/Pair	1.18
Mean z-score	-1.15
Structure conservation index	0.72
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1941775 109 - 27905053
UUGGAGCUG--------G-GAGCUCG--GAGUUCGAAGGAGAUGACCCGCAUGAAAAUGCUGGCCCUGGCAUAUUUUUAUGCCGCAAGCAUGCAGGACAAAUGGCUGAAAUUUUUGCAGC
..((.((((--------(-(...(((--...(((....))).))))))((((....)))).))))).((((((....))))))(((((....(((..(....).))).....)))))... ( -33.20)
>DroVir_CAF1 118508 115 - 1
UGGGCACUGGGAACU-GGGAA--CUG--UAGCCGGGAGUAGAUGACCCGCAUGAAAAUGCUGGCCCUGGCAUAUUUUUAUGCCGCAAGCAUGCAGGACAAAUGGCUGAAAUUUUUGCCGC
..(((((..(...).-.)...--...--((((((((.........)))((((....))))((..(((((((((....))))))(((....)))))).))...))))).......)))).. ( -35.90)
>DroPse_CAF1 83555 98 - 1
----------------GG-GA--CUG--GAGCUGCAAGUAGAUGACCCGCAUGAAAAUGCUGGCCCUGGCAUAUUUUUAUGCCGCAAGCAUGCAGGACAAAUGGCUGAAAUUUUUGC-GC
----------------.(-..--(((--.((((((..........((.((((....)))).))....((((((....)))))))).))).).)))..).....((..........))-.. ( -29.10)
>DroGri_CAF1 101333 112 - 1
UGGG------AAACUGGGCAA--CUGUAUAGCUGGGAGUAGAUGACCCGCAUGAAAAUGCUGGCCCUGGCAUAUUUUUAUGCCGCAAGCAUGCAGGACAAAUGGCUGAAAUUUUUGCUGC
.((.------...)).(((((--((((((.((((((.........((.((((....)))).))))).((((((....))))))...)))))))))..((......))......))))).. ( -34.30)
>DroWil_CAF1 99785 104 - 1
---UAG-------CC-AG-AG--UUG--GAGAUGCAAGUAGAUGACCCGCAUGAAAAUGCUGGCUCUGGCAUAUUUUUAUGCCGCAAGCAUGCAGGACAAAUGGCUGAAAUUUUUGCUGC
---(((-------((-(.-..--(((--....((((.(((((.(.((.((((....)))).))))))((((((....))))))....)).))))...))).))))))............. ( -35.00)
>DroAna_CAF1 84603 100 - 1
-UGAAGCAA-------------------CGGCUCCAAGGAGAUGACCCGCAUGAAAAUGCUGGCCCUGGCAUAUUUUUAUGCCGCAAGCAUGCAGGACAAAUGGCUGAAAUUUUUGCAGC
-....((((-------------------((((((((.((.......))((((....))))))).(((((((((....))))))(((....))))))......)))))......))))... ( -28.80)
>consensus
__GGAG__________GG_AA__CUG__GAGCUGCAAGUAGAUGACCCGCAUGAAAAUGCUGGCCCUGGCAUAUUUUUAUGCCGCAAGCAUGCAGGACAAAUGGCUGAAAUUUUUGCAGC
.............................((((............((.((((....)))).)).(((((((((....))))))(((....))))))......)))).............. (-23.69 = -23.33 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:17 2006