Locus 879

Sequence ID	2L_DroMel_CAF1
Location	2,502,910 – 2,503,003
Length	93
Max. P	0.991188

overview

Window 3

Location	2,502,910 – 2,503,003
Length	93
Sequences	6
Columns	103
Reading direction	forward
Mean pairwise identity	76.03
Mean single sequence MFE	-26.92
Consensus MFE	-14.95
Energy contribution	-14.87
Covariance contribution	-0.08
Combinations/Pair	1.24
Mean z-score	-1.99
Structure conservation index	0.56
SVM decision value	1.03
SVM RNA-class probability	0.904045
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2502910 93 + 22407834
UUGCCAAAAACAAUUUAUG------GCAGCACA---CUGUGUCGUUCAGAAUUUUGCGCACAAUUGAGAAUUGUGCAAUUGCAUUUUGGCCGG-CGGAAGACG
((((((.((.....)).))------))))....---((.(((((..(((((...((((((((((.....)))))))....))))))))..)))-))..))... ( -25.20)
>DroPse_CAF1 96227 103 + 1
UUGCCAAAAACAAUUUAUGCUUCUCGCAGUACAAUAUUGUGUCGUGCAACAUUUUGCGCGCAAUCGAGAAUUGUGCAAUUGCAUUUGGGCCAAAAAGCAGAGG
...(((((..(((((..(((.....)))(((((((.(((((.(((((((....)))))))))..)))..))))))))))))..)))))((......))..... ( -27.30)
>DroYak_CAF1 85263 93 + 1
UUGCCAAAAACAAUUUAUG------GCAGCACA---CUGUGUCGUUCUGAAUUUUGCGCACAAUUGGGAAUUGUGCAAUUGCAUUUUGGCCGG-CGCAAGACG
((((((.((.....)).))------))))....---.(((((((..(..((...((((((((((.....)))))))....))).))..).)))-))))..... ( -26.10)
>DroMoj_CAF1 126203 90 + 1
UUGCCAA-AACAAUUUAUG------UUCGCA-----UUUUGGCCAACAAUAUUUCGUGCACAAUUGGAAAUUGUGCAAUUGCAUUU-GGCCAGCAGGCAGAGC
(((((..-((((.....))------)).((.-----...(((((((..........((((((((.....)))))))).......))-))))))).)))))... ( -26.93)
>DroAna_CAF1 105236 87 + 1
CUGCCAAAAACAAUUUAUG------CAAGUA-----UUGUGUAUUGCAGCGUUUUGCGCACAAUUGGGAAUUGUGCAAUUGCAUUU-GGCUGC-AG---GCUG
..(((..........((((------((....-----.)))))).((((((....((((((((((.....)))))))....)))...-.)))))-))---)).. ( -26.90)
>DroPer_CAF1 93592 103 + 1
UUGCCAAAAACAAUUUAUGAUUCUCGCAGUACAAUAUUGUGUCGUGCAACAUUUUGCGCACAAUCGAGAAUUGUGCAAUUGCAUUUGGGCCAAAAAGCAGAGG
...(((((..(((((((..((((((((((((...))))))((.((((((....))))))))....))))))..)).)))))..)))))((......))..... ( -29.10)
>consensus
UUGCCAAAAACAAUUUAUG______GCAGCACA___UUGUGUCGUGCAACAUUUUGCGCACAAUUGAGAAUUGUGCAAUUGCAUUU_GGCCAG_AGGCAGAGG
..((((((..(((((.............(((.....((((.....)))).....)))(((((((.....))))))))))))..))).)))............. (-14.95 = -14.87 +  -0.08)

alignment

secondary structure

dotplot

Window 4

Location	2,502,910 – 2,503,003
Length	93
Sequences	6
Columns	103
Reading direction	reverse
Mean pairwise identity	76.03
Mean single sequence MFE	-25.98
Consensus MFE	-16.80
Energy contribution	-17.13
Covariance contribution	0.33
Combinations/Pair	1.13
Mean z-score	-2.63
Structure conservation index	0.65
SVM decision value	2.25
SVM RNA-class probability	0.991188
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2502910 93 - 22407834
CGUCUUCCG-CCGGCCAAAAUGCAAUUGCACAAUUCUCAAUUGUGCGCAAAAUUCUGAACGACACAG---UGUGCUGC------CAUAAAUUGUUUUUGGCAA
.........-...(((((((.(((((((((((((.....)))))))(((..((.(((.......)))---.))..)))------....))))))))))))).. ( -26.30)
>DroPse_CAF1 96227 103 - 1
CCUCUGCUUUUUGGCCCAAAUGCAAUUGCACAAUUCUCGAUUGCGCGCAAAAUGUUGCACGACACAAUAUUGUACUGCGAGAAGCAUAAAUUGUUUUUGGCAA
.....(((....)))(((((.((((((......((((((....((.((((....)))).))(((......)))....)))))).....)))))).)))))... ( -24.70)
>DroYak_CAF1 85263 93 - 1
CGUCUUGCG-CCGGCCAAAAUGCAAUUGCACAAUUCCCAAUUGUGCGCAAAAUUCAGAACGACACAG---UGUGCUGC------CAUAAAUUGUUUUUGGCAA
.........-...(((((((.(((((((((((((.....)))))))........(((.((......)---)...))).------....))))))))))))).. ( -24.10)
>DroMoj_CAF1 126203 90 - 1
GCUCUGCCUGCUGGCC-AAAUGCAAUUGCACAAUUUCCAAUUGUGCACGAAAUAUUGUUGGCCAAAA-----UGCGAA------CAUAAAUUGUU-UUGGCAA
....((((.(((((((-(...(((((((((((((.....))))))))......)))))))))))...-----.))(((------((.....))))-).)))). ( -28.50)
>DroAna_CAF1 105236 87 - 1
CAGC---CU-GCAGCC-AAAUGCAAUUGCACAAUUCCCAAUUGUGCGCAAAACGCUGCAAUACACAA-----UACUUG------CAUAAAUUGUUUUUGGCAG
....---..-...(((-(((.(((((((((((((.....)))))))((.....))(((((.......-----...)))------))..)))))).)))))).. ( -25.30)
>DroPer_CAF1 93592 103 - 1
CCUCUGCUUUUUGGCCCAAAUGCAAUUGCACAAUUCUCGAUUGUGCGCAAAAUGUUGCACGACACAAUAUUGUACUGCGAGAAUCAUAAAUUGUUUUUGGCAA
.....(((....)))(((((.((((((.....(((((((...(((((....((((((.......)))))))))))..)))))))....)))))).)))))... ( -27.00)
>consensus
CCUCUGCCU_CCGGCC_AAAUGCAAUUGCACAAUUCCCAAUUGUGCGCAAAAUGCUGCACGACACAA___UGUACUGC______CAUAAAUUGUUUUUGGCAA
.............(((.(((.((((((((((((((...))))))))(((......)))..............................)))))).)))))).. (-16.80 = -17.13 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:48 2006