Locus 3019

Sequence ID	2R_DroMel_CAF1
Location	10,418,478 – 10,418,580
Length	102
Max. P	0.798661

overview

Window 9

Location	10,418,478 – 10,418,580
Length	102
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	78.27
Mean single sequence MFE	-32.80
Consensus MFE	-21.59
Energy contribution	-21.82
Covariance contribution	0.22
Combinations/Pair	1.26
Mean z-score	-1.31
Structure conservation index	0.66
SVM decision value	0.20
SVM RNA-class probability	0.632741
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10418478 102 + 20766785
AAAUCCU----AAACCCACGUUACUAGCAGAGCCGAGCAUCCGCUGACCAGCAGCGGAUAGCACGUGAAACUGCUCAGGCUGGAAAACAUUGGCAGCACCAUGCGA
.......----....(((.(((...(((((..(((.((((((((((.....)))))))).)).)).)...)))))..)))))).........(((......))).. ( -31.50)
>DroVir_CAF1 30346 100 + 1
U----CUGA-AGGACGCACGUUAGCAACAGCGCUGAGCAGCCGCUGACCACCAGUGGGUAGCAGGUGAAGCUGCUCAGGCCGGAAAACAUCGAGAACACCAUGG-A
(----(((.-.....((......))....((.(((((((((((((..(.(((....))).)..))))..)))))))))))))))....................-. ( -30.70)
>DroPse_CAF1 20584 105 + 1
AAAGCCAGA-AAGACCCACGUUAGAACCAGGGCCGAGCACCCGCUGACCAGCAGCGGGUAGCACGUGAAGCUGCUCAGGCUGGAGAACAUUGGCAAAACCAUUCGG
...(((((.-..(((....)))....(((..(((((((((((((((.....))))))))(((.......))))))).))))))......)))))............ ( -37.10)
>DroGri_CAF1 17694 102 + 1
U----AUUAUAGAACCCACGUUAGCAGGAGCGCUGAACAGCCGCUGACCACCAGUGGGUAGCAGGUGAAGCUGCUCAGGCCGGAAAACAUCGAGAACACCAUCGAG
.----...............(..((..(((((((.....(((((((.(((....))).)))).)))..))).))))..))..)......((((........)))). ( -29.00)
>DroAna_CAF1 26710 98 + 1
GGG--------CAACCCACGUUAGCAGCAAAGCCGAGCAUCCACUGACCAGCAGUGGAUAGCACGUGAAACUGCUCAGGCUGGAAAACAUUGGCACCACCAUGCGG
((.--------...))(((((..((......))...((((((((((.....)))))))).)))))))...((((...((.(((............)))))..)))) ( -31.40)
>DroPer_CAF1 26670 105 + 1
AAAGCCAGA-AAGACCCACGUUAGCACCAGGGCCGAGCACCCGCUGACCAGCAGCGGGUAGCACGUGAAGCUGCUCAGGCUGGAGAACAUUGGCAAAACCAUUCGG
...(((((.-..(((....)))....(((..(((((((((((((((.....))))))))(((.......))))))).))))))......)))))............ ( -37.10)
>consensus
AAA__CUGA_AAAACCCACGUUAGCAGCAGAGCCGAGCACCCGCUGACCAGCAGCGGGUAGCACGUGAAGCUGCUCAGGCUGGAAAACAUUGGCAACACCAUGCGG
..............................((((((((((((((((.....))))))))(((.......))))))).))))......................... (-21.59 = -21.82 +   0.22)

alignment

secondary structure

dotplot

Window 0

Location	10,418,478 – 10,418,580
Length	102
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	78.27
Mean single sequence MFE	-36.97
Consensus MFE	-25.24
Energy contribution	-25.02
Covariance contribution	-0.22
Combinations/Pair	1.29
Mean z-score	-1.48
Structure conservation index	0.68
SVM decision value	0.61
SVM RNA-class probability	0.798661
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10418478 102 - 20766785
UCGCAUGGUGCUGCCAAUGUUUUCCAGCCUGAGCAGUUUCACGUGCUAUCCGCUGCUGGUCAGCGGAUGCUCGGCUCUGCUAGUAACGUGGGUUU----AGGAUUU
..((((((.....)).))))..((((((((.(((((.....((.((.((((((((.....)))))))))).))...)))))........))))).----.)))... ( -33.60)
>DroVir_CAF1 30346 100 - 1
U-CCAUGGUGUUCUCGAUGUUUUCCGGCCUGAGCAGCUUCACCUGCUACCCACUGGUGGUCAGCGGCUGCUCAGCGCUGUUGCUAACGUGCGUCCU-UCAG----A
.-.............(((((....((((((((((((((....((((((((....))))).))).)))))))))).))))..((....)))))))..-....----. ( -37.40)
>DroPse_CAF1 20584 105 - 1
CCGAAUGGUUUUGCCAAUGUUCUCCAGCCUGAGCAGCUUCACGUGCUACCCGCUGCUGGUCAGCGGGUGCUCGGCCCUGGUUCUAACGUGGGUCUU-UCUGGCUUU
.....(((.....))).........((((.(((((((.......)))((((((((.....))))))))))))(((((((.......)).)))))..-...)))).. ( -39.10)
>DroGri_CAF1 17694 102 - 1
CUCGAUGGUGUUCUCGAUGUUUUCCGGCCUGAGCAGCUUCACCUGCUACCCACUGGUGGUCAGCGGCUGUUCAGCGCUCCUGCUAACGUGGGUUCUAUAAU----A
.((((........))))........(((((((((((((....((((((((....))))).))).)))))))))).)))((..(....)..)).........----. ( -36.20)
>DroAna_CAF1 26710 98 - 1
CCGCAUGGUGGUGCCAAUGUUUUCCAGCCUGAGCAGUUUCACGUGCUAUCCACUGCUGGUCAGUGGAUGCUCGGCUUUGCUGCUAACGUGGGUUG--------CCC
..((((((.....)).))))....((((((.((((((....((.((.((((((((.....)))))))))).)).....)))))).....))))))--------... ( -35.80)
>DroPer_CAF1 26670 105 - 1
CCGAAUGGUUUUGCCAAUGUUCUCCAGCCUGAGCAGCUUCACGUGCUACCCGCUGCUGGUCAGCGGGUGCUCGGCCCUGGUGCUAACGUGGGUCUU-UCUGGCUUU
.....(((.....))).........((((.(((((((.......)))((((((((.....))))))))))))(((((..((....))..)))))..-...)))).. ( -39.70)
>consensus
CCGCAUGGUGUUGCCAAUGUUUUCCAGCCUGAGCAGCUUCACGUGCUACCCACUGCUGGUCAGCGGAUGCUCGGCCCUGCUGCUAACGUGGGUCUU_UCAG__UUU
............(((.(((((...(((.(((((((((.......)))((((((((.....))))))))))))))..))).....))))).)))............. (-25.24 = -25.02 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:22 2006