Locus 9800

Sequence ID	3R_DroMel_CAF1
Location	26,033,539 – 26,033,757
Length	218
Max. P	0.922356

overview

Window 9

Location	26,033,539 – 26,033,647
Length	108
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	79.22
Mean single sequence MFE	-25.20
Consensus MFE	-20.15
Energy contribution	-19.60
Covariance contribution	-0.55
Combinations/Pair	1.30
Mean z-score	-1.85
Structure conservation index	0.80
SVM decision value	1.15
SVM RNA-class probability	0.922356
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26033539 108 - 27905053
CCUGCAUCUCCAAAUAUUGGCCACAGU-UGGUCUUUUGAUAC-----AUCGUUCUUGUGUUUUUCGCUGGCUG-UCCUUCCAAAGCCAGUGAUUGUCAAACAGAACGUACAUUAA
..........((((....(((((....-))))).))))....-----..((((((..((....(((((((((.-.........)))))))))....))...))))))........ ( -29.50)
>DroPse_CAF1 30036 106 - 1
CUUGCAUCUCCAUAUAUUGGCCACAGU-----C---UGGUACCCUUGACCGUUCUUGUGUUAUUCGCUAGACU-UACCUUCUAGUCCAGCGAUUGUCAAACAGAACGUACACUAA
...................((((....-----.---)))).....((..((((((..((.((.(((((.((((-........)))).))))).)).))...))))))..)).... ( -23.90)
>DroEre_CAF1 27749 105 - 1
CCUGCAUCUCCAAAUAUUGGUCACAGU-UGAUC---UGAUAC-----ACCGUUCUUGUGUUUUUCGCUGGUUG-UCUCACCAAAACCAGUGAUUGUCAAACAGAACGUAAAUUAA
..............(((..((((....-))).)---..))).-----..((((((..((....(((((((((.-.........)))))))))....))...))))))........ ( -24.30)
>DroYak_CAF1 27213 105 - 1
CCUGCAUCUCCAAAUAUUGGCCACACU-UGGUC---UGAUAC-----ACCGUUCUUGUGUUUUUCGCUGGUUG-UCCUACCAAAACCAGGGAUUGUCAAACAGAACGCAAAUUAA
..(((.........(((..((((....-))).)---..))).-----...(((((..((....((.((((((.-.........)))))).))....))...))))))))...... ( -26.20)
>DroAna_CAF1 29191 107 - 1
CCUGCAUCUCCAUAUAUUGGCCACAUUCUGGUC---UAUCCG-----UCCGUUCUUGUGUUAUUUGCUGGAUAAUCUCCUCAAGACCAGUGAUUGUCAAAAAGAACGAAGACUAA
..................(((((.....)))))---.....(-----(((((((((.((.((.(..((((....(((.....)))))))..).)).))..)))))))..)))... ( -23.40)
>DroPer_CAF1 30684 106 - 1
CUUGCAUCUCCAUAUAUUGGCCACAGU-----C---UGGUACCCUUGACCGUUCUUGUGUUAUUCGCUAGACU-UACCUUCUAGUCCAGCGAUUGUCAAACAGAACGUACACUAA
...................((((....-----.---)))).....((..((((((..((.((.(((((.((((-........)))).))))).)).))...))))))..)).... ( -23.90)
>consensus
CCUGCAUCUCCAAAUAUUGGCCACAGU_UGGUC___UGAUAC_____ACCGUUCUUGUGUUAUUCGCUGGAUG_UCCCUCCAAAACCAGUGAUUGUCAAACAGAACGUACACUAA
.........(((.....))).............................((((((..((....(((((((((...........)))))))))....))...))))))........ (-20.15 = -19.60 +  -0.55)

alignment

secondary structure

dotplot

Window 0

Location	26,033,647 – 26,033,757
Length	110
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	72.96
Mean single sequence MFE	-37.02
Consensus MFE	-23.16
Energy contribution	-20.72
Covariance contribution	-2.44
Combinations/Pair	1.48
Mean z-score	-1.19
Structure conservation index	0.63
SVM decision value	0.12
SVM RNA-class probability	0.593514
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26033647 110 - 27905053
GUACCCUCGAUAUUUGGGCCUUCCGUGCCAUGGAGCUCAAUCUUCGCCAGGGGACGCAGAACAGUCAGGGCCAAUUACUCGUUAUUGCAGGCAUUAGAAGCC--AUUGCGGU
...(((((((...((((((..(((((...)))))))))))...)))..))))..(((((..((((..(((.......)))...))))..(((.......)))--.))))).. ( -31.40)
>DroPse_CAF1 30142 110 - 1
GUCCCCGUGUUAUUUGCGACGCCUUUUCCAAGCGUUGCGAUCGUCA-AAGGGGACGCACAUCAUCAAGUGCCAAUAACUCGUUAUUGUAUGCCACAGACGCGU-UUUGCGGG
((((((.((....(((((((((.........)))))))))....))-..))))))((((........))))((((((....))))))....((.((((.....-)))).)). ( -37.20)
>DroGri_CAF1 37282 108 - 1
GUCCCCGUGUUAUUUGCGGCGCGUCUGCCAAGCGUCGUGAUUGUCA-CAGGGGACACACAGCA---UUCGCCAAUAACUCGUUAUUGUGCACCACUAACGCCGCCGUGCCGG
(((((((((.((.(..((((((.........))))))..).)).))-).)))))).(((.((.---...((((((((....)))))).))....(....)..)).))).... ( -41.10)
>DroEre_CAF1 27854 110 - 1
GUACCCUCGAUAUUUGGGCCUUCCCUGCCAUGGAGCCCAAUCUUCGCCAGGGGACGCAGAGCAGCCAGGGCCAAUUACUCGUUAUUGCAGGCAUUAGAAGCC--AUUGCGGU
...(((((((...((((((..(((.......)))))))))...)))..))))..(((((.((((...(((.......)))....)))).(((.......)))--.))))).. ( -35.30)
>DroYak_CAF1 27318 110 - 1
GUACCCUCGAUAUUUGGGCUUCAUUUGUCAUGGAGCCCAAUCUUCGCCAGGGGACGCAGAGCAUCCAGGGCCAAUUACUCGUUAUUGCAGGCAUUAGAAGCC--AAUGCGGU
...(((((((...(((((((((((.....)))))))))))...)))..))))..((((..(((....(((.......))).....))).(((.......)))--..)))).. ( -39.90)
>DroPer_CAF1 30790 110 - 1
GUCCCCGUGUUAUUUGCGACGCCUUUUCCAAGCGUUGCGAUCGUCA-AAGGGGACGCACAUCACCAAGUGCCAAUAACUCGUUAUUGUAUGCCACAGACGCGU-UUUGCGGG
((((((.((....(((((((((.........)))))))))....))-..))))))((((........))))((((((....))))))....((.((((.....-)))).)). ( -37.20)
>consensus
GUACCCGCGAUAUUUGCGCCGCCUUUGCCAAGCAGCGCAAUCGUCA_CAGGGGACGCACAGCAGCCAGGGCCAAUAACUCGUUAUUGCAGGCAACAGAAGCC__AUUGCGGG
...(((.((....(((((((((.........)))))))))....))...)))..((((.............((((........))))..(((.......)))....)))).. (-23.16 = -20.72 +  -2.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:42:27 2006