Locus 5118

Sequence ID	2L_DroMel_CAF1
Location	14,544,217 – 14,544,316
Length	99
Max. P	0.966545

overview

Window 9

Location	14,544,217 – 14,544,316
Length	99
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	87.78
Mean single sequence MFE	-23.16
Consensus MFE	-18.68
Energy contribution	-20.00
Covariance contribution	1.32
Combinations/Pair	1.09
Mean z-score	-2.22
Structure conservation index	0.81
SVM decision value	1.60
SVM RNA-class probability	0.966545
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14544217 99 + 22407834
GCACCCGCUUCGAGCGCAAAGCCCAAAGCCCGAAGCCCCUUUUGGCCCCGGUAGAAUUCUACCCCAAAUUCAGCAGAAAAGAUAUAUAUUUUGUCUGCA
......((((((.((............)).))))))....(((((....(((((....))))))))))....(((((.(((((....))))).))))). ( -29.20)
>DroSec_CAF1 76075 98 + 1
GCACCCGCUUCGAGCGCAAAGCCCAAAGCCCGAAGCCCCU-UUGGCCCCGGUAGAAUUCUACCCCAAAUUCAGCAGAAAAGAUAUAUAUUUUGUCUGCA
......((((((.((............)).))))))...(-((((....(((((....))))))))))....(((((.(((((....))))).))))). ( -29.10)
>DroSim_CAF1 61887 98 + 1
GCACCCGCUUCGAGCGCAAAGCCCAAAGCCCGAAGCCCCU-UUGGCCCCUGUAGAAUUCUACCCCAAAUUCAGCAGAAAAGAUAUAUAUUUUGUCUGCA
......((((((.((............)).))))))...(-((((.....((((....)))).)))))....(((((.(((((....))))).))))). ( -25.40)
>DroEre_CAF1 70986 86 + 1
GCACCCGCCUCGAGCGCAAAGCCCAAAGCCCAAGGCCC----------A--AACAAUUCUACCCCA-AUUCAGCAGAAAAGAUAUAUAUUUUGUCUGCA
......((((.(.((............)).).))))..----------.--...............-.....(((((.(((((....))))).))))). ( -16.40)
>DroYak_CAF1 67017 88 + 1
GCACCCGCUUCUAGUGCAAAGCCCAAAGCCCAAAGCCC----------CGGUACCAUUCUACCCCA-GUUCAGCAGAAAAGAUAUAUAUUUUGUCUGCA
((((.........)))).....................----------.((((......))))...-.....(((((.(((((....))))).))))). ( -15.70)
>consensus
GCACCCGCUUCGAGCGCAAAGCCCAAAGCCCGAAGCCCCU_UUGGCCCCGGUAGAAUUCUACCCCAAAUUCAGCAGAAAAGAUAUAUAUUUUGUCUGCA
......((((((.((............)).)))))).............(((((....))))).........(((((.(((((....))))).))))). (-18.68 = -20.00 +   1.32)

alignment

secondary structure

dotplot

Window 0

Location	14,544,217 – 14,544,316
Length	99
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	87.78
Mean single sequence MFE	-31.28
Consensus MFE	-24.66
Energy contribution	-27.58
Covariance contribution	2.92
Combinations/Pair	1.07
Mean z-score	-1.70
Structure conservation index	0.79
SVM decision value	0.47
SVM RNA-class probability	0.748850
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14544217 99 - 22407834
UGCAGACAAAAUAUAUAUCUUUUCUGCUGAAUUUGGGGUAGAAUUCUACCGGGGCCAAAAGGGGCUUCGGGCUUUGGGCUUUGCGCUCGAAGCGGGUGC
.(((..(..............(((((((........))))))).....((((((((......))))))))(((((((((.....))))))))))..))) ( -37.00)
>DroSec_CAF1 76075 98 - 1
UGCAGACAAAAUAUAUAUCUUUUCUGCUGAAUUUGGGGUAGAAUUCUACCGGGGCCAA-AGGGGCUUCGGGCUUUGGGCUUUGCGCUCGAAGCGGGUGC
.(((..(..............(((((((........))))))).....((((((((..-...))))))))(((((((((.....))))))))))..))) ( -36.80)
>DroSim_CAF1 61887 98 - 1
UGCAGACAAAAUAUAUAUCUUUUCUGCUGAAUUUGGGGUAGAAUUCUACAGGGGCCAA-AGGGGCUUCGGGCUUUGGGCUUUGCGCUCGAAGCGGGUGC
.(((..(..............(((((((........))))))).......((((((..-...))))))..(((((((((.....))))))))))..))) ( -31.20)
>DroEre_CAF1 70986 86 - 1
UGCAGACAAAAUAUAUAUCUUUUCUGCUGAAU-UGGGGUAGAAUUGUU--U----------GGGCCUUGGGCUUUGGGCUUUGCGCUCGAGGCGGGUGC
..(((((((..(((...((..(((....))).-.)).)))...)))))--)----------).((((...(((((((((.....))))))))))))).. ( -26.40)
>DroYak_CAF1 67017 88 - 1
UGCAGACAAAAUAUAUAUCUUUUCUGCUGAAC-UGGGGUAGAAUGGUACCG----------GGGCUUUGGGCUUUGGGCUUUGCACUAGAAGCGGGUGC
.(((..(........((((..(((((((....-...))))))).))))(((----------((((.....)))))))(((((......))))))..))) ( -25.00)
>consensus
UGCAGACAAAAUAUAUAUCUUUUCUGCUGAAUUUGGGGUAGAAUUCUACCGGGGCCAA_AGGGGCUUCGGGCUUUGGGCUUUGCGCUCGAAGCGGGUGC
.(((..(..............(((((((........))))))).....((((((((......))))))))(((((((((.....))))))))))..))) (-24.66 = -27.58 +   2.92)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:28 2006