Locus 8468

Sequence ID	3R_DroMel_CAF1
Location	22,586,605 – 22,586,699
Length	94
Max. P	0.632620

overview

Window 3

Location	22,586,605 – 22,586,699
Length	94
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	76.39
Mean single sequence MFE	-20.57
Consensus MFE	-10.10
Energy contribution	-11.47
Covariance contribution	1.36
Combinations/Pair	1.05
Mean z-score	-1.87
Structure conservation index	0.49
SVM decision value	0.20
SVM RNA-class probability	0.632620
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22586605 94 + 27905053
---------GUUGGCACAAUCCUUUUUGCCUGAUUGAAAUGCAAAAACCCAAUUUGUUGAAAUUCGAAUUGGCAAGC--GAAUGCA---ACAAAUCAAUCAGUUUCCA-
---------...((((.((....)).))))(((((((..((((.....((((((((........)))))))).....--...))))---.....))))))).......- ( -20.52)
>DroVir_CAF1 47085 103 + 1
UUUGCCAGUAAAUAUGUAAAGCUUUUUAUCUGAUUAAAAUGCAAAAACCCAAUUUGUUGAAAUUCGAAUUGGCUAGC--GAAUCCA---GCAUAUCAAUCAGUCGCAG-
..(((..(((((...(.....)..)))))((((((.(.((((......((((((((........)))))))).....--(....).---)))).).))))))..))).- ( -17.20)
>DroPse_CAF1 40425 97 + 1
---------AAUGGUACAAACCUUUUUAGCUGAUUGAAAUGCAAAAACCCAAUUUGUUGAAAUACCUAUUGGCAUAC--GAAUGCAGCAGCAAAUCAAUCAGUUCCCA-
---------...(((....))).....((((((((((..(((.......((((..((......))..))))((((..--..))))....)))..))))))))))....- ( -22.90)
>DroGri_CAF1 63109 101 + 1
UCUGA--CAAAAUAUGUAAAGCUUUUUAUCUGAUUAAAAUGCAAAAAUCCAAUUUGUUCAAACUCGAAUUGGCUGGC--GAAUUCA---GCAUAUCAAUCAGUUUCGG-
.((((--....((((((...((.(((((......))))).))......((((((((........)))))))).....--.......---))))))...))))......- ( -18.50)
>DroWil_CAF1 94185 97 + 1
---------AAUCAUGGAAAGCUUUUUAGCUGAUUGAAAUGCAAAAACCCAAUUUGUUGAAAUUUGUAUUGGCAUUUUGAAAUGCA---ACAAAUCAAUCAGUAGUCAG
---------...................(((((((((((((((((....(((....)))...)))))))).(((((....))))).---.....)))))))))...... ( -20.50)
>DroPer_CAF1 44672 97 + 1
---------AAUGGUACAAACCUUUUUAGCUGAUUGAAAUGCAAAAACCCAAUUUGUUGAAAUACGUAUUGGCAUAC--GAAUGCAGCAGCAAAUCAAUCAGUUCCCA-
---------...(((....))).....((((((((((..(((.......((((.(((......))).))))((((..--..))))....)))..))))))))))....- ( -23.80)
>consensus
_________AAUGAUACAAACCUUUUUAGCUGAUUGAAAUGCAAAAACCCAAUUUGUUGAAAUUCGAAUUGGCAUGC__GAAUGCA___GCAAAUCAAUCAGUUCCCA_
.............................((((((((..(((.......((((.((........)).))))(((........)))....)))..))))))))....... (-10.10 = -11.47 +   1.36)

alignment

secondary structure

dotplot

Window 4

Location	22,586,605 – 22,586,699
Length	94
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	76.39
Mean single sequence MFE	-20.55
Consensus MFE	-13.27
Energy contribution	-13.16
Covariance contribution	-0.11
Combinations/Pair	1.11
Mean z-score	-1.17
Structure conservation index	0.65
SVM decision value	-0.02
SVM RNA-class probability	0.525527
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22586605 94 - 27905053
-UGGAAACUGAUUGAUUUGU---UGCAUUC--GCUUGCCAAUUCGAAUUUCAACAAAUUGGGUUUUUGCAUUUCAAUCAGGCAAAAAGGAUUGUGCCAAC---------
-(((...((((((((..(((---.((....--))...((((((.(........).))))))......)))..))))))))((((......)))).)))..--------- ( -22.20)
>DroVir_CAF1 47085 103 - 1
-CUGCGACUGAUUGAUAUGC---UGGAUUC--GCUAGCCAAUUCGAAUUUCAACAAAUUGGGUUUUUGCAUUUUAAUCAGAUAAAAAGCUUUACAUAUUUACUGGCAAA
-......((((((((.((((---(((....--.))).((((((.(........).))))))......)))).)))))))).......(((.............)))... ( -19.02)
>DroPse_CAF1 40425 97 - 1
-UGGGAACUGAUUGAUUUGCUGCUGCAUUC--GUAUGCCAAUAGGUAUUUCAACAAAUUGGGUUUUUGCAUUUCAAUCAGCUAAAAAGGUUUGUACCAUU---------
-......((((((((..(((.(((((((..--..))))((((..((......))..)))))))....)))..)))))))).......(((....)))...--------- ( -24.10)
>DroGri_CAF1 63109 101 - 1
-CCGAAACUGAUUGAUAUGC---UGAAUUC--GCCAGCCAAUUCGAGUUUGAACAAAUUGGAUUUUUGCAUUUUAAUCAGAUAAAAAGCUUUACAUAUUUUG--UCAGA
-......((((((((.((((---.(((((.--(....).)))))(((((..(.....)..)))))..)))).))))))))......................--..... ( -19.00)
>DroWil_CAF1 94185 97 - 1
CUGACUACUGAUUGAUUUGU---UGCAUUUCAAAAUGCCAAUACAAAUUUCAACAAAUUGGGUUUUUGCAUUUCAAUCAGCUAAAAAGCUUUCCAUGAUU---------
.......((((((((..((.---.(((((....))))).....((((.(((((....)))))..))))))..))))))))....................--------- ( -16.30)
>DroPer_CAF1 44672 97 - 1
-UGGGAACUGAUUGAUUUGCUGCUGCAUUC--GUAUGCCAAUACGUAUUUCAACAAAUUGGGUUUUUGCAUUUCAAUCAGCUAAAAAGGUUUGUACCAUU---------
-......((((((((..(((.(((((((..--..))))((((..((......))..)))))))....)))..)))))))).......(((....)))...--------- ( -22.70)
>consensus
_UGGAAACUGAUUGAUUUGC___UGCAUUC__GCAUGCCAAUACGAAUUUCAACAAAUUGGGUUUUUGCAUUUCAAUCAGCUAAAAAGCUUUGCACCAUU_________
.......((((((((..(((....((...........(((((..............)))))))....)))..))))))))............................. (-13.27 = -13.16 +  -0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:12:04 2006