Locus 7918

Sequence ID	3R_DroMel_CAF1
Location	21,238,485 – 21,238,641
Length	156
Max. P	0.981939

overview

Window 0

Location	21,238,485 – 21,238,601
Length	116
Sequences	3
Columns	116
Reading direction	forward
Mean pairwise identity	92.08
Mean single sequence MFE	-35.27
Consensus MFE	-35.24
Energy contribution	-34.80
Covariance contribution	-0.44
Combinations/Pair	1.07
Mean z-score	-2.22
Structure conservation index	1.00
SVM decision value	1.90
SVM RNA-class probability	0.981939
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21238485 116 + 27905053
UUUACGUUUUUGUCUUCAAGAGCCUCGAGGGCGUUUUUCUGGGGCUUUGGCUUCCUUUGAGUCCUGGGAAUUGGCCAUGGCCAUCUCGCUCACUCCAGCCAUCUCUCAUCUCCCAU
.....(((((((....))))))).....(((((..((((..((((((.((...))...))))))..)))).((((....))))...)))))......................... ( -33.30)
>DroSim_CAF1 65441 109 + 1
UUUACGCUUUUGUCUUCAAGAGCCUCGAGGGCGUUUUUCUGGGGCUUUGGCUUCCUUUGAGUCCUGGGAAUUGGCCAUGGCCAUCUCGCUCACUCCACCC-------AUCUACCAU
.....(((((((....))))))).....(((((..((((..((((((.((...))...))))))..)))).((((....))))...))))).........-------......... ( -35.70)
>DroEre_CAF1 67268 109 + 1
UUUACGCUUUUGUCUUCGAGAGCCUCGAGGGCGUUUUUCUGGGGCUUUGGCUUCCUUUGAGUCCUGGGAAUUGGCCAUGGCCAUCUCGCUCACUCCAGCU-------AUUUGCCAU
...........(((((((((...)))))))))..........(((..(((((.....(((((...((((..((((....)))))))))))))....))))-------)...))).. ( -36.80)
>consensus
UUUACGCUUUUGUCUUCAAGAGCCUCGAGGGCGUUUUUCUGGGGCUUUGGCUUCCUUUGAGUCCUGGGAAUUGGCCAUGGCCAUCUCGCUCACUCCAGCC_______AUCUACCAU
.....(((((((....))))))).....(((((..((((..((((((.((...))...))))))..)))).((((....))))...)))))......................... (-35.24 = -34.80 +  -0.44)

alignment

secondary structure

dotplot

Window 1

Location	21,238,524 – 21,238,641
Length	117
Sequences	4
Columns	119
Reading direction	forward
Mean pairwise identity	82.54
Mean single sequence MFE	-26.40
Consensus MFE	-18.29
Energy contribution	-18.35
Covariance contribution	0.06
Combinations/Pair	1.06
Mean z-score	-1.51
Structure conservation index	0.69
SVM decision value	-0.04
SVM RNA-class probability	0.514378
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21238524 117 + 27905053
UGGGGCUUUGGCUUCCUUUGAGUCCUGGGAAUUGGCCAUGGCCAU--CUCGCUCACUCCAGCCAUCUCUCAUCUCCCAUCGCCUAUUGCCCACCCCCCGUCGCUCACCACACUCACACA
.((((...(((((.....(((((...((((..((((....)))))--))))))))....)))))................((.....)).....))))..................... ( -28.00)
>DroSim_CAF1 65480 110 + 1
UGGGGCUUUGGCUUCCUUUGAGUCCUGGGAAUUGGCCAUGGCCAU--CUCGCUCACUCCACCC-------AUCUACCAUCGCCUAUCGCCCUCCCGCCGUCGCUCACCACACACACACA
..((((..((((......(((((...((((..((((....)))))--))))))))........-------..........((.....))......))))..)))).............. ( -26.40)
>DroEre_CAF1 67307 99 + 1
UGGGGCUUUGGCUUCCUUUGAGUCCUGGGAAUUGGCCAUGGCCAU--CUCGCUCACUCCAGCU-------AUUUGCCAUC-------GCCCUCCC----ACGCUCACCACACUCACACA
.(((((....)))))...(((((..(((((...(((.(((((...--...(((......))).-------....))))).-------))).))))----).)))))............. ( -30.10)
>DroYak_CAF1 72530 101 + 1
UGGGGCUUUGGCUUCCUUUGAGUCCUGGGAAUUGGCCAUCGUCCUCUCUCGCUCACUCCAUUC-------AUCUGCUAUC-------GCCCUCCC----UCGCUCAGCACACCCACACA
.(((((..((((.......((((..(((((...(((....)))...)))))...)))).....-------....))))..-------)))))...----.................... ( -21.09)
>consensus
UGGGGCUUUGGCUUCCUUUGAGUCCUGGGAAUUGGCCAUGGCCAU__CUCGCUCACUCCAGCC_______AUCUGCCAUC_______GCCCUCCC____UCGCUCACCACACUCACACA
..((((...((...))..(((((...(((...((((....))))...))))))))................................))))............................ (-18.29 = -18.35 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:00 2006