Locus 6948

Sequence ID	3L_DroMel_CAF1
Location	18,720,663 – 18,720,808
Length	145
Max. P	0.602306

overview

Window 0

Location	18,720,663 – 18,720,770
Length	107
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	80.47
Mean single sequence MFE	-43.67
Consensus MFE	-26.94
Energy contribution	-26.87
Covariance contribution	-0.08
Combinations/Pair	1.26
Mean z-score	-1.51
Structure conservation index	0.62
SVM decision value	-0.04
SVM RNA-class probability	0.514982
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18720663 107 + 23771897
UGGGCGUGGCUAUAACACCG---CCCGUGCUCGCGUUCACCUGUCCCAACGCAAUUGCUAUGGGGCUGGGCGACGAGUCCGGAGAUUGGGUGAGUGAGGAUACCUGAAG----------A
.(((((((.......)).))---)))((.(((((..((((((((((((..((....))..))))))(((((.....)))))......))))))))))).))........----------. ( -43.50)
>DroVir_CAF1 10113 107 + 1
GGGGCGUGGCUAUCACACCG---CCCGCGCCUGCAUUCACCUGGCCCAAGGCGAUCGCAAUGGGGCUGGGCGACGAGUCCGGCGAUUGCGUGAGUGAGGAUACCUGCAA----------A
.(((((((.......)).))---)))((((((.(((((((((......))((((((((....(((((.(....).))))).)))))))))))))))))).....)))..----------. ( -48.00)
>DroGri_CAF1 16633 107 + 1
UCGGCGUGGCUAUCACACCG---CCCCCGCUCGCAUUCACCUGACCCAAGGCAAUUGCAAUGGGGCUGGGUGAUGAAUCUGGCGAUUGUGUGAGUGAGGAUACCUAUAU----------A
..((((((.......)).))---))((((((((((((((((((.((((..((....))..))))..)))))))..((((....))))))))))))).))..........----------. ( -41.20)
>DroWil_CAF1 12298 120 + 1
UGGGCGUGGUUAUCACACCGCCGCCUGUACUCGCAUUCACUUGUCCCAAUGCAAUGGCAAUGGGGCUGGGCGAUGAGUCGGGCGAUUGUGUAAGUGAGGAUACCUACAACGACGAAAAGA
....(((.(((...((((...((((((.(((((...((.(((((((((.(((....))).)))))).))).)))))))))))))...))))..((.(((...)))))))).)))...... ( -42.60)
>DroMoj_CAF1 14812 107 + 1
GGGGCGUGGCUAUCACACCG---CCAGCGCCAGCAUUUACCUGUCCUAAGGCAAUGGCUAUGGGACUGGGUGAUGAGUCCGGCGAUUGCGUGAGUGAGGAUACCUAGGG----------G
....(.(((.((((.(((((---((((((((.((..((((((((((((.(((....))).)))))).))))))...))..)))).))).))).)))..)))).))).).----------. ( -41.70)
>DroAna_CAF1 10730 112 + 1
UGGCCGUGGCUAUCACACCG---CCCGUACUGGCAUUCACCUGACCCAACGCAAUCGCAAUGGGGCUGGGCGACGAGUCCGGCGAUUGGGUGAGUGAGGAUACCUAAAAAAUGG-----A
.(((.(((.......))).)---)).(((((..((((((((..(((((..((....))..))))(((((((.....)))))))..)..)))))))).)).)))...........-----. ( -45.00)
>consensus
UGGGCGUGGCUAUCACACCG___CCCGCGCUCGCAUUCACCUGUCCCAAGGCAAUCGCAAUGGGGCUGGGCGACGAGUCCGGCGAUUGCGUGAGUGAGGAUACCUAAAA__________A
..((.(((.....))).))..........((..(((((((....((((..((....))..))))(((((((.....)))))))......))))))).))..................... (-26.94 = -26.87 +  -0.08)

alignment

secondary structure

dotplot

Window 1

Location	18,720,700 – 18,720,808
Length	108
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	73.18
Mean single sequence MFE	-31.18
Consensus MFE	-19.73
Energy contribution	-19.73
Covariance contribution	-0.00
Combinations/Pair	1.05
Mean z-score	-1.18
Structure conservation index	0.63
SVM decision value	0.14
SVM RNA-class probability	0.602306
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18720700 108 + 23771897
CUGUCCCAACGCAAUUGCUAUGGGGCUGGGCGACGAGUCCGGAGAUUGGGUGAGUGAGGAUACCUGAAGAUAUAAGCAGAAAUUCGUUCAUAACUAUAGGUUGUAUUC
..((((((((.(((((....(.(((((.(....).))))).).))))).))...)).))))(((((.((.(((.(((........))).))).)).)))))....... ( -27.70)
>DroVir_CAF1 10150 82 + 1
CUGGCCCAAGGCGAUCGCAAUGGGGCUGGGCGACGAGUCCGGCGAUUGCGUGAGUGAGGAUACCUGCAAAU----------UACAGGGUAU--U--------------
...((((...((((((((....(((((.(....).))))).))))))))((((.(((((...))).))..)----------))).))))..--.-------------- ( -34.30)
>DroPse_CAF1 48108 92 + 1
CUGGCCCAGAGCAAUGGCAAUGGGGCUGGGCGACGAGUCCGGCGACUGGGUGAGUGAGGAUACCUGGUGGUGGA--GAAAAUGCCGCAUAUUAU--------------
....((((..((....))..))))(((((((.....))))))).((..((((........))))..)).((((.--.......)))).......-------------- ( -33.40)
>DroEre_CAF1 16845 108 + 1
CUGCCCCAACGCAAUCGCUAUGGGGCUGGGCGACGAGUCCGGAGAUUGGGUGAGUGAGGAUACCUGAGGAUAUGAACAGAAAUUCGUUUAUUGCCAUAGAAUUCAACC
..((((((..((....))..))))))(((((.....)))))(((.(..((((........))))..)((..((((((........))))))..))......))).... ( -30.30)
>DroYak_CAF1 12608 101 + 1
CUGUCCCAACGCAAUCGCAAUGGGGCUGGGCGACGAGUCCGGAGAUUGGGUGAGUGAGGAUACCUGAAGAUGUAAACAGAAAUUCGUUUAUUACUAUAGAA-------
.(((((((((.(((((....(.(((((.(....).))))).).))))).))...)).))))).(((.((..((((((........))))))..)).)))..------- ( -28.00)
>DroPer_CAF1 50937 92 + 1
CUGGCCCAGAGCAAUGGCAAUGGGGCUGGGCGACGAGUCCGGCGACUGGGUGAGUGAGGAUACCUGGUGGUGGA--GAAAAUGCCGCAUAUUAU--------------
....((((..((....))..))))(((((((.....))))))).((..((((........))))..)).((((.--.......)))).......-------------- ( -33.40)
>consensus
CUGGCCCAACGCAAUCGCAAUGGGGCUGGGCGACGAGUCCGGAGAUUGGGUGAGUGAGGAUACCUGAAGAUGUA__CAGAAAUCCGUUUAUUAC______________
....((((..((....))..)))).((((((.....))))))...(((((((........)))))))......................................... (-19.73 = -19.73 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:53 2006