Locus 5128

Sequence ID	2L_DroMel_CAF1
Location	14,565,041 – 14,565,181
Length	140
Max. P	0.526260

overview

Window 7

Location	14,565,041 – 14,565,142
Length	101
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	83.27
Mean single sequence MFE	-27.17
Consensus MFE	-16.61
Energy contribution	-18.17
Covariance contribution	1.56
Combinations/Pair	1.12
Mean z-score	-2.21
Structure conservation index	0.61
SVM decision value	-0.04
SVM RNA-class probability	0.511859
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14565041 101 + 22407834
---UCUGUCUGUGGUUGUCGGUUUGGUUUGCAUUGGUUUGCUUCGGUGGUGCAUAUUUGUCGUUUGCGGUUUUCAGCUGCAAAUAUUAUAGCAAAUUGAACUGU
---...............(((((..((((((....(((..(....)..).)).........(((((((((.....)))))))))......))))))..))))). ( -30.40)
>DroVir_CAF1 38038 85 + 1
CUGCCAGUCUGCGGUUGCUGCUUUUGUUGCC------------------GGCAUAUUUGUCGUUUGUGGUU-UCAACUGCAAAUAUUAUAGCAAAUUGAACUGU
....((((.((((((.((.......)).)))------------------((((....))))(((((..((.-...))..)))))......))).))))...... ( -21.60)
>DroSim_CAF1 84130 101 + 1
---UCUGUCUGUGGUUGUCGGUUUGGUUUGCAUUGGUUUGCUUCGGUGGUGCAUAUUUGUCGUUUGCGGUUUUCAGCUGCAAAUAUUAUAGCAAAUUGAACUGU
---...............(((((..((((((....(((..(....)..).)).........(((((((((.....)))))))))......))))))..))))). ( -30.40)
>DroEre_CAF1 90764 99 + 1
----CUGUCUGUGGCUGUCGGUUUGGUUUGCAUUGGUUUGCUUCGGUGGUGCAUAUUUGUCGUUUGCGGUUUUC-GCUGCAAAUAUUAUAGCAAAUUGAACUGU
----..............(((((..((((((....(((..(....)..).)).........(((((((((....-)))))))))......))))))..))))). ( -29.90)
>DroYak_CAF1 88604 101 + 1
---UCUGUCUGUGGUUGUCGGUUUGGUUUGCAUUGGUUUGCUUCGGUGGUGCAUAUUUGUCGUUUGCGGUUUUCAGCUGCAAAUAUUAUAGCAAAUUGAACUGU
---...............(((((..((((((....(((..(....)..).)).........(((((((((.....)))))))))......))))))..))))). ( -30.40)
>DroAna_CAF1 34896 95 + 1
---CCUGUCUGUGGCUGU--GUUUGUU----GUUAGCUCGGUUUGGUGGUGCAUAUUUGUCGUUUGUGGCUUUCAACUGCAAAUAUUAUAGCAAAUUGAACUGU
---...((..(..((...--....)).----.)..)).(((((..((..(((((((((((.(((.(......).))).))))))))....))).))..))))). ( -20.30)
>consensus
___UCUGUCUGUGGUUGUCGGUUUGGUUUGCAUUGGUUUGCUUCGGUGGUGCAUAUUUGUCGUUUGCGGUUUUCAGCUGCAAAUAUUAUAGCAAAUUGAACUGU
..................(((((((((((((...................(((....))).(((((((((.....)))))))))......))))))))))))). (-16.61 = -18.17 +   1.56)

alignment

secondary structure

dotplot

Window 8

Location	14,565,064 – 14,565,181
Length	117
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.92
Mean single sequence MFE	-30.20
Consensus MFE	-19.35
Energy contribution	-20.68
Covariance contribution	1.33
Combinations/Pair	1.10
Mean z-score	-1.61
Structure conservation index	0.64
SVM decision value	-0.01
SVM RNA-class probability	0.526260
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14565064 117 + 22407834
UUUGCAUUGGUUUGCUUCGGUGGUGCAUAUUUGUCGUUUGCGGU--UUUCAGCUGCAAAUAUUAUAGCAAAUUGAACUGUAAAUAGUUUUUAUUGCCCUUUUUGCCACAGAGCCGGAGU-
.............((((((((.(((((........(((((((((--.....)))))))))......((((...((((((....))))))...))))......)).)))...))))))))- ( -32.90)
>DroVir_CAF1 38064 96 + 1
UUGCC------------------GGCAUAUUUGUCGUUUGUGGU--U-UCAACUGCAAAUAUUAUAGCAAAUUGAACUGUAAAUAGUU-UUAUUGCCCCU-AAGCCACAAGCCGAGAAU-
.....------------------((((....))))(((((((((--(-(.....((((..(((((.(((........)))..))))).-...))))....-))))))))))).......- ( -21.50)
>DroPse_CAF1 108824 120 + 1
UUCGUUUCGUUUCGGUUUGGUGGUGCAUAUUUGUCGUUUGCGGUCCUCUCAGCUGCAAAUAUUAUAGCAAAUUGAACUGUAAAUAGUUUUUAUUGCCCUUUAGGCCACAGAGCCAGAGUG
.............(((((.(((((...........(((((((((.......)))))))))......((((...((((((....))))))...)))).......))))).)))))...... ( -31.10)
>DroYak_CAF1 88627 117 + 1
UUUGCAUUGGUUUGCUUCGGUGGUGCAUAUUUGUCGUUUGCGGU--UUUCAGCUGCAAAUAUUAUAGCAAAUUGAACUGUAAAUAGUUUUUAUGGCCCCUUCUGCCACAGAGACGGAGU-
(((((((..(((((((..((..(.......)..))(((((((((--.....))))))))).....)))))))..)..))))))..((((((.((((.......)))).)))))).....- ( -33.90)
>DroAna_CAF1 34917 112 + 1
U----GUUAGCUCGGUUUGGUGGUGCAUAUUUGUCGUUUGUGGC--UUUCAACUGCAAAUAUUAUAGCAAAUUGAACUGUAAAUAGUUUUUAUUGCCCUU-UAGCCACAGAGCCAGAGU-
.----....(((((((((.(((((..((((((((.(((.(....--..).))).))))))))....((((...((((((....))))))...))))....-..))))).))))).))))- ( -30.70)
>DroPer_CAF1 113101 120 + 1
UUCGUUUCGUUUCGGUUUGGUGGUGCAUAUUUGUCGUUUGCGGUCCUCUCAGCUGCAAAUAUUAUAGCAAAUUGAACUGUAAAUAGUUUUUAUUGCCCUUUAGGCCACAGAGCCAGAGUG
.............(((((.(((((...........(((((((((.......)))))))))......((((...((((((....))))))...)))).......))))).)))))...... ( -31.10)
>consensus
UUCGCAUUGGUUCGGUUUGGUGGUGCAUAUUUGUCGUUUGCGGU__UUUCAGCUGCAAAUAUUAUAGCAAAUUGAACUGUAAAUAGUUUUUAUUGCCCUUUAAGCCACAGAGCCAGAGU_
...............((((((.((((.........(((((((((.......)))))))))......((((...((((((....))))))...)))).......).)))...))))))... (-19.35 = -20.68 +   1.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:44 2006