Locus 7696

Sequence ID	2L_DroMel_CAF1
Location	21,760,738 – 21,760,858
Length	120
Max. P	0.962646

overview

Window 2

Location	21,760,738 – 21,760,858
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	74.42
Mean single sequence MFE	-34.92
Consensus MFE	-21.02
Energy contribution	-21.78
Covariance contribution	0.76
Combinations/Pair	1.39
Mean z-score	-1.60
Structure conservation index	0.60
SVM decision value	0.25
SVM RNA-class probability	0.652829
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21760738 120 + 22407834
AAAUUUCUGAAGGCACUCAGUGCAUUCAAAAAUUUUUUCAUUUGUAUGGUUCCUUAGGUGAGCCCUAAGCGAGUGCUUUUUGAAAUUCUUCGGGCACAAAGGGCACUGAAGAACCUCGUU
...((((.((((((((((.(((((..................))))).....((((((.....)))))).)))))))))).))))((((((((((.......)).))))))))....... ( -36.17)
>DroGri_CAF1 14211 120 + 1
AAACUUGGCCGAGCACUCGACACACUCGAAGAUCCUUUCGUCCGUAUGAUUGCGCAGAUGGGGACGCAGUGAGUGCUUGCGAAACUGUUUGGGGCACAGCGGACACUGGAGCAGCUCAUU
..........((((..((((.....)))).(.(((....((((((.(.(((((((.......).)))))).)((((((.((((....)))))))))).))))))...))).).))))... ( -36.80)
>DroSim_CAF1 13781 120 + 1
AAAUUUCUGAAGGCACUCCGUGCAUUCAAAUAUUUUUUCAUUUGUAUGGUUCCUUAGGUGAGCCCGAAGAGAGUGCUUUUUGAAAUUCUUCGGGCACAAAGGGCACUGAAGAACCUCGUU
...((((.((((((((((((((((..................)))))((((((....).)))))....).)))))))))).))))((((((((((.......)).))))))))....... ( -35.07)
>DroWil_CAF1 36243 120 + 1
AAACUUUUGCAAACACUCGGGGCAUUGAAAUAUCUUCUCAUCCGUGUGAUUACGUAAAUGCGCUCUUAGGGAAUGUUUACGAAAUUUUUUACUGCAUAGUGGACAUUGAAGAAGCUCAUU
.............(((.((((.....(((.....)))...)))).)))........((((.((((((....(((((((((..................))))))))).))).))).)))) ( -23.17)
>DroYak_CAF1 15663 120 + 1
AAAUUUCUGAAGGCACUCCGUGCAUUCAAAAAUUUUUUCAUUUGUAUGGUUCCUUAGGUGAGGCCUAAGGGAGUGCUUUUUGAAAUUCUUCGGGCACAAGGGGCACUGAAGAAGCUCGUU
...((((.((((((((.(((((((..................)))))))(((((((((.....))))))))))))))))).))))((((((((((.......)).))))))))....... ( -43.37)
>consensus
AAAUUUCUGAAGGCACUCCGUGCAUUCAAAAAUUUUUUCAUUUGUAUGGUUCCUUAGGUGAGCCCUAAGGGAGUGCUUUUUGAAAUUCUUCGGGCACAAAGGGCACUGAAGAAGCUCGUU
....(((.((((((((((...................((((....))))...((((((.....)))))).)))))))))).))).((((((((((.......)).))))))))....... (-21.02 = -21.78 +   0.76)

alignment

secondary structure

dotplot

Window 3

Location	21,760,738 – 21,760,858
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	74.42
Mean single sequence MFE	-32.24
Consensus MFE	-18.24
Energy contribution	-19.04
Covariance contribution	0.80
Combinations/Pair	1.38
Mean z-score	-2.09
Structure conservation index	0.57
SVM decision value	1.54
SVM RNA-class probability	0.962646
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21760738 120 - 22407834
AACGAGGUUCUUCAGUGCCCUUUGUGCCCGAAGAAUUUCAAAAAGCACUCGCUUAGGGCUCACCUAAGGAACCAUACAAAUGAAAAAAUUUUUGAAUGCACUGAGUGCCUUCAGAAAUUU
...((((((((((.(..(.....)..)..)))))))))).........((.((((((.....))))))))...............(((((((((((.((((...)))).))))))))))) ( -35.50)
>DroGri_CAF1 14211 120 - 1
AAUGAGCUGCUCCAGUGUCCGCUGUGCCCCAAACAGUUUCGCAAGCACUCACUGCGUCCCCAUCUGCGCAAUCAUACGGACGAAAGGAUCUUCGAGUGUGUCGAGUGCUCGGCCAAGUUU
...(((((...((.(((...(((((.......)))))..))).(((((((..(((((........)))))..(((((...((((......)))).)))))..))))))).))...))))) ( -36.60)
>DroSim_CAF1 13781 120 - 1
AACGAGGUUCUUCAGUGCCCUUUGUGCCCGAAGAAUUUCAAAAAGCACUCUCUUCGGGCUCACCUAAGGAACCAUACAAAUGAAAAAAUAUUUGAAUGCACGGAGUGCCUUCAGAAAUUU
...(((((.((((.((((((((((.(((((((((................))))))))).))...)))).......((((((......))))))...)))))))).)))))......... ( -36.99)
>DroWil_CAF1 36243 120 - 1
AAUGAGCUUCUUCAAUGUCCACUAUGCAGUAAAAAAUUUCGUAAACAUUCCCUAAGAGCGCAUUUACGUAAUCACACGGAUGAGAAGAUAUUUCAAUGCCCCGAGUGUUUGCAAAAGUUU
((((.(((.(((.(((((....((((.(((.....))).)))).)))))....)))))).))))...((((.(((.(((.(((((.....))))).....))).))).))))........ ( -19.10)
>DroYak_CAF1 15663 120 - 1
AACGAGCUUCUUCAGUGCCCCUUGUGCCCGAAGAAUUUCAAAAAGCACUCCCUUAGGCCUCACCUAAGGAACCAUACAAAUGAAAAAAUUUUUGAAUGCACGGAGUGCCUUCAGAAAUUU
...(((.((((((.(..(.....)..)..)))))).)))...........(((((((.....)))))))................(((((((((((.((((...)))).))))))))))) ( -33.00)
>consensus
AACGAGCUUCUUCAGUGCCCUUUGUGCCCGAAGAAUUUCAAAAAGCACUCCCUUAGGGCUCACCUAAGGAACCAUACAAAUGAAAAAAUAUUUGAAUGCACCGAGUGCCUUCAGAAAUUU
...((((((((((.(.((.......))).)))))))))).....((((((.((((((.....))))))....(((.((((..........)))).)))....))))))............ (-18.24 = -19.04 +   0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:00 2006