Locus 2018

Sequence ID	2R_DroMel_CAF1
Location	7,594,032 – 7,594,134
Length	102
Max. P	0.988322

overview

Window 9

Location	7,594,032 – 7,594,134
Length	102
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	75.57
Mean single sequence MFE	-23.65
Consensus MFE	-13.22
Energy contribution	-13.47
Covariance contribution	0.25
Combinations/Pair	1.16
Mean z-score	-2.54
Structure conservation index	0.56
SVM decision value	2.12
SVM RNA-class probability	0.988322
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7594032 102 + 20766785
---------CAGC------CCCUUUUGGCCAUUGGCCAUAAAUCAACGACAGUGCGAAAUAAUCAAAUGGUGGCAUCUGCAUAAAUACAGAAGCCAAUUGAUUUAUUCGG-CCUGAAA
---------....------......(((((...)))))...........(((..((((..((((((....((((.((((........)))).)))).))))))..)))).-.)))... ( -28.40)
>DroVir_CAF1 55697 92 + 1
AAAGGC--------------------AUCCA-CGCCCAUAAAUCAACGACUGUGUGAAAUAAUCAAAUGGUGGCAUCUGCAUAAAUACG---GCCAAUUGAUUUAUUU-G-CACGAAA
...(((--------------------.....-.)))..............((((..((..((((((.((((.(.((........)).).---)))).))))))..)).-.-))))... ( -21.00)
>DroWil_CAF1 53330 88 + 1
-----------------------------AAUUCAUCGUAAAUCAACGACAGUGCGAAAUAAUCAAAUGGUGGCAUCUGCAUAAAUACAGAAACCAAUUGAUUUAUUUGC-CCUGAAA
-----------------------------......((((......))))(((.(((((..((((((.((((....((((........)))).)))).))))))..)))))-.)))... ( -23.60)
>DroMoj_CAF1 67600 92 + 1
AAAGCC--------------------GUCCA-CGCCCAUAAAUCAACGACUGUGUGAAAUAAUCAAAUGCUGGCAUCUGCAUAAAUACG---GCCAAUUGAUUUAUUU-G-CACGAAA
......--------------------.....-.((..(((((((((...((((((((.....))..((((........))))..)))))---)....)))))))))..-)-)...... ( -16.90)
>DroAna_CAF1 37698 109 + 1
C---ACACUCCAC-----AUCCUUUUGGCCAUUGGCCAUAAAUCAACGACAGUGCGAAAUAAUCAAAUGGUGGCAUCUGCAUAAAUACAGAAGCCAAUUGAUUUAUUCGG-CCCCAAA
.---.((((....-----.......(((((...)))))............))))((((..((((((....((((.((((........)))).)))).))))))..)))).-....... ( -27.00)
>DroPer_CAF1 36198 109 + 1
---------CAACCCAACCCCCCUUUGGCCAUUGGCCAUAAAUCAACGACAGUGCGAAAUAAUCAAAUGGUGGCAUCUGCAUAAAUACAGAAGCCAAUUGAUUUAUUCAGGCCCGAAA
---------....((((.......)))).....(((((((((((((((......))..............((((.((((........)))).)))).)))))))))...))))..... ( -25.00)
>consensus
__________________________GGCCAUUGGCCAUAAAUCAACGACAGUGCGAAAUAAUCAAAUGGUGGCAUCUGCAUAAAUACAGAAGCCAAUUGAUUUAUUCGG_CCCGAAA
.....................................(((((((((((......))..............((((.((((........)))).)))).)))))))))............ (-13.22 = -13.47 +   0.25)

alignment

secondary structure

dotplot

Window 0

Location	7,594,032 – 7,594,134
Length	102
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	75.57
Mean single sequence MFE	-28.36
Consensus MFE	-16.78
Energy contribution	-17.58
Covariance contribution	0.81
Combinations/Pair	1.09
Mean z-score	-2.23
Structure conservation index	0.59
SVM decision value	1.76
SVM RNA-class probability	0.975725
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7594032 102 - 20766785
UUUCAGG-CCGAAUAAAUCAAUUGGCUUCUGUAUUUAUGCAGAUGCCACCAUUUGAUUAUUUCGCACUGUCGUUGAUUUAUGGCCAAUGGCCAAAAGGG------GCUG---------
.....((-((..((((((((((((((.((((((....)))))).))))......(((...........)))))))))))))))))...((((......)------))).--------- ( -33.60)
>DroVir_CAF1 55697 92 - 1
UUUCGUG-C-AAAUAAAUCAAUUGGC---CGUAUUUAUGCAGAUGCCACCAUUUGAUUAUUUCACACAGUCGUUGAUUUAUGGGCG-UGGAU--------------------GCCUUU
.((((((-(-..((((((((((.(((---.((.......((((((....))))))..........)).)))))))))))))..)))-)))).--------------------...... ( -21.63)
>DroWil_CAF1 53330 88 - 1
UUUCAGG-GCAAAUAAAUCAAUUGGUUUCUGUAUUUAUGCAGAUGCCACCAUUUGAUUAUUUCGCACUGUCGUUGAUUUACGAUGAAUU-----------------------------
...(((.-((((((((.((((.((((.((((((....))))))....)))).)))))))))).)).)))((((((.....))))))...----------------------------- ( -25.10)
>DroMoj_CAF1 67600 92 - 1
UUUCGUG-C-AAAUAAAUCAAUUGGC---CGUAUUUAUGCAGAUGCCAGCAUUUGAUUAUUUCACACAGUCGUUGAUUUAUGGGCG-UGGAC--------------------GGCUUU
.((((((-(-..((((((((((.(((---.((.......((((((....))))))..........)).)))))))))))))..)))-)))).--------------------...... ( -23.23)
>DroAna_CAF1 37698 109 - 1
UUUGGGG-CCGAAUAAAUCAAUUGGCUUCUGUAUUUAUGCAGAUGCCACCAUUUGAUUAUUUCGCACUGUCGUUGAUUUAUGGCCAAUGGCCAAAAGGAU-----GUGGAGUGU---G
.......-..(((..((((((.((((.((((((....)))))).))))....))))))..)))(((((.(((((..(((.(((((...)))))))).)))-----).).)))))---. ( -33.10)
>DroPer_CAF1 36198 109 - 1
UUUCGGGCCUGAAUAAAUCAAUUGGCUUCUGUAUUUAUGCAGAUGCCACCAUUUGAUUAUUUCGCACUGUCGUUGAUUUAUGGCCAAUGGCCAAAGGGGGGUUGGGUUG---------
..((.(((((..((((((((((((((.((((((....)))))).))))......(((...........)))))))))))))((((...))))......))))).))...--------- ( -33.50)
>consensus
UUUCGGG_CCAAAUAAAUCAAUUGGCUUCUGUAUUUAUGCAGAUGCCACCAUUUGAUUAUUUCGCACUGUCGUUGAUUUAUGGCCAAUGGCC__________________________
............((((((((((((((.((((((....)))))).)))).....(((.....))).......))))))))))..................................... (-16.78 = -17.58 +   0.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:00 2006