Locus 7455

Sequence ID	2L_DroMel_CAF1
Location	20,692,278 – 20,692,388
Length	110
Max. P	0.707153

overview

Window 5

Location	20,692,278 – 20,692,388
Length	110
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	72.10
Mean single sequence MFE	-30.22
Consensus MFE	-15.61
Energy contribution	-16.28
Covariance contribution	0.67
Combinations/Pair	1.30
Mean z-score	-1.58
Structure conservation index	0.52
SVM decision value	0.21
SVM RNA-class probability	0.636827
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20692278 110 + 22407834
UCGCUGUCGCCGCUUCAAUUAAGCCAAUCUUGAUGCGGCUGAU-------UGCGAUGGCAUCUUGGCUCGAAGCCAGC---UAGCAGCUAGCAUCUAGCUCCCCAGCGAUUUCAUUUGUA
((((.((((((((.((((...........)))).))))).)))-------.))))(((.(((.((((.....))))((---(.(.((((((...)))))).)..)))))).)))...... ( -37.30)
>DroSec_CAF1 15465 103 + 1
UCGCUGUCGCCGCUUCAAUUAAGCCAAUCUCGAUGCGGCUGAU-------UGCGAUGGCAUCUUGGCUCGAAGCCAGC---UUCCAGCC-------AGCUCCCCAGUGAUUUCAUUUGUA
((((((..((((...((((((.(((.((....))..)))))))-------))...))))...((((((.((((....)---))).))))-------)).....))))))........... ( -33.70)
>DroEre_CAF1 13358 99 + 1
UCGCUGUCGCCGCUUCAAUUAAGCCAAUCUUGAUGCGGCUGAU-------UGCGAUGGCAUCUUGGCUCGAAGCCAGC---GUGCAG-----------CUCGCCAGCUAUUUUACUCGUU
..((((..(((((.((((...........)))).)))))....-------.((((..((((.(((((.....))))).---))))..-----------.))))))))............. ( -35.20)
>DroYak_CAF1 15571 99 + 1
UCGCUGUCGCCGCUUCAAUUAAGCCAAUCUUGAUGCGGUUGAU-------UGCGAUGGCAUCUUGGCUCGAAGCCAGC---UUGCAC-----------ACCAGCAGCGAUUUUAUUUGUA
(((((((.((.(((((.....((((((....(((((.((((..-------..)))).))))))))))).)))))..))---.((...-----------..)))))))))........... ( -32.30)
>DroAna_CAF1 18000 83 + 1
UCGCUGUCGGUGCUUCAAUUAAGCCAAUCUUGAUGAGGCUGAU-------UGCGAUGCCAUCUUA-----UAGCCAUC--------------------CUCACCAGCAAC-----UUGCA
((((.((((..((((((.(((((.....)))))))))))))))-------.))))..........-----........--------------------.......((...-----..)). ( -18.70)
>DroPer_CAF1 19529 105 + 1
UCGUUGUCGCUUCUUCAAUUAAGCCAAUCUUGAUGCCGUUGAUGAUUGUGUGCGAUGGCAUCUUCACUGUG----AUUUUUAUGCAA-----------UUUGCAAGCGCAUAUGAGUGUG
((((((.((((....................((((((((((((......)).)))))))))).........----.......(((..-----------...))))))))).))))..... ( -24.10)
>consensus
UCGCUGUCGCCGCUUCAAUUAAGCCAAUCUUGAUGCGGCUGAU_______UGCGAUGGCAUCUUGGCUCGAAGCCAGC___UUGCAG___________CUCACCAGCGAUUUUAUUUGUA
..((((((((...........((((...........))))...........))))))))....((((.....)))).............................((((......)))). (-15.61 = -16.28 +   0.67)

alignment

secondary structure

dotplot

Window 6

Location	20,692,278 – 20,692,388
Length	110
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	72.10
Mean single sequence MFE	-30.85
Consensus MFE	-13.40
Energy contribution	-16.42
Covariance contribution	3.02
Combinations/Pair	1.29
Mean z-score	-1.84
Structure conservation index	0.43
SVM decision value	0.37
SVM RNA-class probability	0.707153
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20692278 110 - 22407834
UACAAAUGAAAUCGCUGGGGAGCUAGAUGCUAGCUGCUA---GCUGGCUUCGAGCCAAGAUGCCAUCGCA-------AUCAGCCGCAUCAAGAUUGGCUUAAUUGAAGCGGCGACAGCGA
...........((((((((.((((((...)))))).)).---((((.((((((((((((((((....((.-------....)).)))))....)))))))....))))))))..)))))) ( -42.10)
>DroSec_CAF1 15465 103 - 1
UACAAAUGAAAUCACUGGGGAGCU-------GGCUGGAA---GCUGGCUUCGAGCCAAGAUGCCAUCGCA-------AUCAGCCGCAUCGAGAUUGGCUUAAUUGAAGCGGCGACAGCGA
.................((.(..(-------((((.(((---(....)))).)))))...).)).((((.-------.((.(((((.((((...........)))).)))))))..)))) ( -35.70)
>DroEre_CAF1 13358 99 - 1
AACGAGUAAAAUAGCUGGCGAG-----------CUGCAC---GCUGGCUUCGAGCCAAGAUGCCAUCGCA-------AUCAGCCGCAUCAAGAUUGGCUUAAUUGAAGCGGCGACAGCGA
.............((((((((.-----------..((((---..((((.....)))).).)))..)))).-------....(((((.((((...........)))).)))))..)))).. ( -35.30)
>DroYak_CAF1 15571 99 - 1
UACAAAUAAAAUCGCUGCUGGU-----------GUGCAA---GCUGGCUUCGAGCCAAGAUGCCAUCGCA-------AUCAACCGCAUCAAGAUUGGCUUAAUUGAAGCGGCGACAGCGA
...........(((((((.(((-----------(.(((.---..((((.....))))...)))))))...-------.....((((.((((...........)))).)))).).)))))) ( -30.70)
>DroAna_CAF1 18000 83 - 1
UGCAA-----GUUGCUGGUGAG--------------------GAUGGCUA-----UAAGAUGGCAUCGCA-------AUCAGCCUCAUCAAGAUUGGCUUAAUUGAAGCACCGACAGCGA
.....-----((((.(((((..--------------------((((.(..-----......).)))).((-------((.((((...........))))..))))...))))).)))).. ( -23.10)
>DroPer_CAF1 19529 105 - 1
CACACUCAUAUGCGCUUGCAAA-----------UUGCAUAAAAAU----CACAGUGAAGAUGCCAUCGCACACAAUCAUCAACGGCAUCAAGAUUGGCUUAAUUGAAGAAGCGACAACGA
..........(((((((((...-----------..))........----..((((...((((((...................))))))...))))............))))).)).... ( -18.21)
>consensus
UACAAAUAAAAUCGCUGGCGAG___________CUGCAA___GCUGGCUUCGAGCCAAGAUGCCAUCGCA_______AUCAGCCGCAUCAAGAUUGGCUUAAUUGAAGCGGCGACAGCGA
...........((((((...(((((.....))))).......((((.((((((((((((((((.....................)))))....)))))))....))))))))..)))))) (-13.40 = -16.42 +   3.02)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:18 2006