Locus 1593

Sequence ID	3R_DroMel_CAF1
Location	4,573,961 – 4,574,056
Length	95
Max. P	0.999984

overview

Window 1

Location	4,573,961 – 4,574,056
Length	95
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	94.42
Mean single sequence MFE	-37.22
Consensus MFE	-35.20
Energy contribution	-36.20
Covariance contribution	1.00
Combinations/Pair	1.06
Mean z-score	-3.97
Structure conservation index	0.95
SVM decision value	5.35
SVM RNA-class probability	0.999984
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4573961 95 + 27905053
GUUAGUGUAGGUGUAUG--UGUUGUCUGUGUGUGUUUGUGGUUGCUGGCGCGGGCGAAUGGCGGGUAAUCCGCAUACACUCGCACUUAUUUUUUGCA
...((((..((((((((--(((..(.(((.(((((..((....))..))))).))).)..)).((....)))))))))))..))))........... ( -34.60)
>DroSec_CAF1 30719 97 + 1
GUUAGUGUAGGUGUAUGUGUGUUGUCUGUGUGUGUUUGUGGUUGUUGGCGCGGGCGAAUGGCGGGCAAUCCGCAUACACUCGCACUUAUUUUUUGCA
...((((..((((((((((..((((((((...((((((((.(....).))))))))....))))))))..))))))))))..))))........... ( -41.60)
>DroSim_CAF1 31282 97 + 1
GUUAGUGUAGGUGUAUGUGUGUUGUCUGUGUGUGUUUGUGGUUGUUGGCGCGGGCGAAUGGCGGGCAAUCCGCAUACACUCGCACUUAUUUUUUGCA
...((((..((((((((((..((((((((...((((((((.(....).))))))))....))))))))..))))))))))..))))........... ( -41.60)
>DroEre_CAF1 31624 95 + 1
GUUAGUGUAGGUGUAUGUGUAUAGUCUG--UGUGUUUGUGGUUGUUGGCGCGGGCGAAUGGCGGGCAAUCCGCAUACACUCGCACUUAUUUUUCGCA
...((((..((((((((((.((.(((((--(.((((((((.(....).))))))))....)))))).)).))))))))))..))))........... ( -36.40)
>DroYak_CAF1 31222 95 + 1
GUUAGUGAAGGUGUAUGUGUAUUGUCUG--UGUGUUAGUGGUUGUUGGCGCGGGCGAAUGGCGGGCAAUCCCCAUACACUCGCACUUAUUUUUUGCA
...((((..((((((((.(.((((((((--(.(((..(((.(....).)))..)))....))))))))).).))))))))..))))........... ( -31.90)
>consensus
GUUAGUGUAGGUGUAUGUGUGUUGUCUGUGUGUGUUUGUGGUUGUUGGCGCGGGCGAAUGGCGGGCAAUCCGCAUACACUCGCACUUAUUUUUUGCA
...((((..((((((((((.(((((((((...((((((((.(....).))))))))....))))))))).))))))))))..))))........... (-35.20 = -36.20 +   1.00)

alignment

secondary structure

dotplot

Window 2

Location	4,573,961 – 4,574,056
Length	95
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	94.42
Mean single sequence MFE	-17.76
Consensus MFE	-16.24
Energy contribution	-16.44
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.95
Structure conservation index	0.91
SVM decision value	2.78
SVM RNA-class probability	0.997005
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4573961 95 - 27905053
UGCAAAAAAUAAGUGCGAGUGUAUGCGGAUUACCCGCCAUUCGCCCGCGCCAGCAACCACAAACACACACAGACAACA--CAUACACCUACACUAAC
............(((((.(((.((((((.....))).))).))).)))))............................--................. ( -17.60)
>DroSec_CAF1 30719 97 - 1
UGCAAAAAAUAAGUGCGAGUGUAUGCGGAUUGCCCGCCAUUCGCCCGCGCCAACAACCACAAACACACACAGACAACACACAUACACCUACACUAAC
............(((((.(((.((((((.....))).))).))).)))))............................................... ( -17.60)
>DroSim_CAF1 31282 97 - 1
UGCAAAAAAUAAGUGCGAGUGUAUGCGGAUUGCCCGCCAUUCGCCCGCGCCAACAACCACAAACACACACAGACAACACACAUACACCUACACUAAC
............(((((.(((.((((((.....))).))).))).)))))............................................... ( -17.60)
>DroEre_CAF1 31624 95 - 1
UGCGAAAAAUAAGUGCGAGUGUAUGCGGAUUGCCCGCCAUUCGCCCGCGCCAACAACCACAAACACA--CAGACUAUACACAUACACCUACACUAAC
............(((((.(((.((((((.....))).))).))).))))).................--............................ ( -17.60)
>DroYak_CAF1 31222 95 - 1
UGCAAAAAAUAAGUGCGAGUGUAUGGGGAUUGCCCGCCAUUCGCCCGCGCCAACAACCACUAACACA--CAGACAAUACACAUACACCUUCACUAAC
............(((((.(((.((((((.....)).)))).))).))))).................--............................ ( -18.40)
>consensus
UGCAAAAAAUAAGUGCGAGUGUAUGCGGAUUGCCCGCCAUUCGCCCGCGCCAACAACCACAAACACACACAGACAACACACAUACACCUACACUAAC
............(((((.(((.((((((.....))).))).))).)))))............................................... (-16.24 = -16.44 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:26 2006