Locus 4585

Sequence ID	3R_DroMel_CAF1
Location	12,080,021 – 12,080,135
Length	114
Max. P	0.999397

overview

Window 9

Location	12,080,021 – 12,080,135
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.45
Mean single sequence MFE	-39.44
Consensus MFE	-36.16
Energy contribution	-36.84
Covariance contribution	0.68
Combinations/Pair	1.03
Mean z-score	-1.76
Structure conservation index	0.92
SVM decision value	2.19
SVM RNA-class probability	0.989873
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12080021 114 + 27905053
ACUGGCUUUUGUGUUGCUGCUGCGGUGCUUGGUUGCU------GUUGCCGCUUGAAACUGCCUGAGUGAUGUUGGUGUGGCAAUAAAAUUCAACUUCCAGCAACAUAGCCAGCGAACGCA
.((((((...(((((((((..(((((....(((.((.------...)).)))....))))).(((((..(((((......)))))..))))).....)))))))))))))))........ ( -40.00)
>DroSec_CAF1 16764 114 + 1
ACUGGCUUUUGUGUUGCUGCUGCUGUGCUUGGUUGCU------GUUGCCGCUUGAAACUGCCUGAGUGAUGUUGGUGUGGCAAUAAAAUUCAACUUCCAGCAACAUAGCCAGCGAACGCA
.((((((...(((((((((.......((......))(------(((((((((..(.(((.....)))....)..).)))))))))............)))))))))))))))........ ( -37.80)
>DroSim_CAF1 16956 114 + 1
ACUGGCUUUUGUGUUGCUGCUGCGGUGCUUGGUUGCU------GUUGCCGCUUGAAACUGCCUGAGUGAUGUUGGUGUGGCAAUAAAAUUCAACUUCCAGCAACAUAGCCAGCGAACGCA
.((((((...(((((((((..(((((....(((.((.------...)).)))....))))).(((((..(((((......)))))..))))).....)))))))))))))))........ ( -40.00)
>DroEre_CAF1 18799 120 + 1
ACUGGCUUUUGUAUUGCUGCUGCAGUGCUUGGUUGCUGUUGCUGUUGCCGCUUGAAACUGCCUGAGUGAUGUUGGUGUGGCAAUAAAAUUCAACUUCCAGCAACAUUGCCAGCGAACGCA
.(((((....(((((((....)))))))...((((((((((.((((((((((..(.(((.....)))....)..).))))))))).....))))....))))))...)))))........ ( -39.90)
>DroYak_CAF1 19156 114 + 1
ACUGGCUUUUGUGUUGCUGCUGCGGUGCCUGGUCGCU------GUUGCCGCUUAAAACUGCCUGAGUGAUGUUGGUGUGGCAAUAAAAUUCAACUUCCAGCAACAUUGCCAGCGAACGCA
.(((((....(((((((((..(((((....(((.((.------...)).)))....))))).(((((..(((((......)))))..))))).....))))))))).)))))........ ( -39.50)
>consensus
ACUGGCUUUUGUGUUGCUGCUGCGGUGCUUGGUUGCU______GUUGCCGCUUGAAACUGCCUGAGUGAUGUUGGUGUGGCAAUAAAAUUCAACUUCCAGCAACAUAGCCAGCGAACGCA
.((((((...(((((((((..(((((....(((.((..........)).)))....))))).(((((..(((((......)))))..))))).....)))))))))))))))........ (-36.16 = -36.84 +   0.68)

alignment

secondary structure

dotplot

Window 0

Location	12,080,021 – 12,080,135
Length	114
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.45
Mean single sequence MFE	-35.45
Consensus MFE	-32.27
Energy contribution	-32.51
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-2.35
Structure conservation index	0.91
SVM decision value	3.57
SVM RNA-class probability	0.999397
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12080021 114 - 27905053
UGCGUUCGCUGGCUAUGUUGCUGGAAGUUGAAUUUUAUUGCCACACCAACAUCACUCAGGCAGUUUCAAGCGGCAAC------AGCAACCAAGCACCGCAGCAGCAACACAAAAGCCAGU
.......(((((((.((((((((....(((((....((((((................)))))))))))((((....------.((......)).))))..))))))))....))))))) ( -36.39)
>DroSec_CAF1 16764 114 - 1
UGCGUUCGCUGGCUAUGUUGCUGGAAGUUGAAUUUUAUUGCCACACCAACAUCACUCAGGCAGUUUCAAGCGGCAAC------AGCAACCAAGCACAGCAGCAGCAACACAAAAGCCAGU
((((((.(((((((..(((((((...((((......((((((................))))))......))))..)------))))))..))).))))))).))).............. ( -35.39)
>DroSim_CAF1 16956 114 - 1
UGCGUUCGCUGGCUAUGUUGCUGGAAGUUGAAUUUUAUUGCCACACCAACAUCACUCAGGCAGUUUCAAGCGGCAAC------AGCAACCAAGCACCGCAGCAGCAACACAAAAGCCAGU
.......(((((((.((((((((....(((((....((((((................)))))))))))((((....------.((......)).))))..))))))))....))))))) ( -36.39)
>DroEre_CAF1 18799 120 - 1
UGCGUUCGCUGGCAAUGUUGCUGGAAGUUGAAUUUUAUUGCCACACCAACAUCACUCAGGCAGUUUCAAGCGGCAACAGCAACAGCAACCAAGCACUGCAGCAGCAAUACAAAAGCCAGU
.......((((((..((((((((...((((......((((((................))))))......))))..))))))))((......))..(((....)))........)))))) ( -35.69)
>DroYak_CAF1 19156 114 - 1
UGCGUUCGCUGGCAAUGUUGCUGGAAGUUGAAUUUUAUUGCCACACCAACAUCACUCAGGCAGUUUUAAGCGGCAAC------AGCGACCAGGCACCGCAGCAGCAACACAAAAGCCAGU
.......((((((..((((((((...((((......((((((................))))))......))))...------.(((.........)))..)))))))).....)))))) ( -33.39)
>consensus
UGCGUUCGCUGGCUAUGUUGCUGGAAGUUGAAUUUUAUUGCCACACCAACAUCACUCAGGCAGUUUCAAGCGGCAAC______AGCAACCAAGCACCGCAGCAGCAACACAAAAGCCAGU
.......(((((((.((((((((...((((......((((((................))))))......))))..........((......)).......))))))))....))))))) (-32.27 = -32.51 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:42 2006