Locus 386

Sequence ID	3L_DroMel_CAF1
Location	1,109,932 – 1,110,058
Length	126
Max. P	0.846158

overview

Window 8

Location	1,109,932 – 1,110,031
Length	99
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	77.20
Mean single sequence MFE	-32.62
Consensus MFE	-16.55
Energy contribution	-17.61
Covariance contribution	1.06
Combinations/Pair	1.25
Mean z-score	-1.83
Structure conservation index	0.51
SVM decision value	0.11
SVM RNA-class probability	0.589391
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1109932 99 - 23771897
UGCAGGCGAAAAUUGCAUAUGCGUAAGCGUAGACGAACUAGGAGAGCUUCCAGGGGG-GCGAACUGGGG------GAUUGGGGUGGCU--UUCCGAGAGGGUUCUAGG------------
(((((.......)))))(((((....)))))......((((((...((((..((..(-((.(.(..(..------..)..)..).)))--..))..)))).)))))).------------ ( -32.50)
>DroSec_CAF1 3456 98 - 1
UGCAGGCGAAAAUUGCAUAUGCGUAAGCGUAGACGAACUAGGAGAGCUUCCAGG-GG-GCGAACUGGGG------GAUUGGGGUGGCU--UUCCAAGAGGGUUCUAGG------------
(((((.......)))))(((((....)))))...(((((.(((((((((((((.-..-.....))))).------.........))))--)))).....)))))....------------ ( -30.60)
>DroSim_CAF1 995 98 - 1
UGCAGGCGAAAAUUGCAUAUGCGUAAGCGUAGACGAACUAGGAGAGCUUCCAGG-GG-GCGAACUGGGG------GAUUGGGGUGGCU--UUCCGAGAGGGUUCUAGG------------
(((((.......)))))(((((....)))))...(((((.(((((((((((((.-..-.....))))).------.........))))--)))).....)))))....------------ ( -31.70)
>DroEre_CAF1 1481 97 - 1
UGCAGGCGAAAAUUGCAUAUGCGUAAGCGUAGACGA------GGAGUUUCCAGG-GG--GCGAUGGGGAAGCUGGGAGAGGGGUGGCU--UUCCGAGAGGGUUCUAGG------------
(((((.......)))))(((((....)))))..(.(------(((.(..(((..-..--....)))..)..((.((((((......))--)))).))....)))).).------------ ( -26.50)
>DroYak_CAF1 3389 114 - 1
UGCAGGCGAAAAUUGCAUAUGCGUAAGCGUAGACGAACUAGGAGAGCUUCCAGG-GG--CAAACCGGGGAACUG-GAUUGGGGUGGCU--UUCCGAGAGGGUUCUAGGGGCUGGGGGCUA
.((.(((.......(..(((((....)))))..)(((((.((((((((.((...-..--(((.((((....)))-).))).)).))))--)))).....))))).....)))....)).. ( -40.70)
>DroAna_CAF1 3751 95 - 1
UGCAGGCGAAAAUUGCAUAUGCGUAAGCGUAGACGAACCAGGAAGGUUACCAGG-AAGGUGG---GUGGUGCUG-GGCAGGAGCGGCCUGUUUCGAAAGG--------------------
.((((((.....((((.(((((....)))))......((((.(.(.(((((...-..)))))---.)..).)))-))))).....))))))..(....).-------------------- ( -33.70)
>consensus
UGCAGGCGAAAAUUGCAUAUGCGUAAGCGUAGACGAACUAGGAGAGCUUCCAGG_GG_GCGAACUGGGG______GAUUGGGGUGGCU__UUCCGAGAGGGUUCUAGG____________
(((((.......)))))(((((....)))))...(((((.(((((((((((((........................)))))..))))..)))).....)))))................ (-16.55 = -17.61 +   1.06)

alignment

secondary structure

dotplot

Window 9

Location	1,109,958 – 1,110,058
Length	100
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	78.10
Mean single sequence MFE	-38.30
Consensus MFE	-21.20
Energy contribution	-21.34
Covariance contribution	0.14
Combinations/Pair	1.09
Mean z-score	-2.06
Structure conservation index	0.55
SVM decision value	0.77
SVM RNA-class probability	0.846158
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1109958 100 - 23771897
UCCCG-CCAACCACCCACUUUGGAGGCCUGCAGGCGAAAAUUGCAUAUGCGUAAGCGUAGACGAACUAGGAGAGCUUCCAGGGGG-GCGAACUGGGG------GAUUG
((((.-(((..(.(((.((((((((((((.(((((((...)))).(((((....)))))......)).).)).))))))))))))-).)...)))))------))... ( -43.10)
>DroSec_CAF1 3482 100 - 1
UCCCGCCCAGCCACCCACUUUGGAGGCCUGCAGGCGAAAAUUGCAUAUGCGUAAGCGUAGACGAACUAGGAGAGCUUCCAGG-GG-GCGAACUGGGG------GAUUG
..((.(((((....((.((((((((((((.(((((((...)))).(((((....)))))......)).).)).)))))))))-))-)....))))))------).... ( -41.10)
>DroSim_CAF1 1021 100 - 1
UCCCGACCAGCCACCCACUUUGGAGGCCUGCAGGCGAAAAUUGCAUAUGCGUAAGCGUAGACGAACUAGGAGAGCUUCCAGG-GG-GCGAACUGGGG------GAUUG
((((..((((....((.((((((((((((.(((((((...)))).(((((....)))))......)).).)).)))))))))-))-)....))))))------))... ( -39.90)
>DroEre_CAF1 1507 90 - 1
ACC---------ACCCACUUUGGAGGCCUGCAGGCGAAAAUUGCAUAUGCGUAAGCGUAGACGA------GGAGUUUCCAGG-GG--GCGAUGGGGAAGCUGGGAGAG
...---------.(((.((((((((((((((((.......)))).(((((....))))).....------)).)))))))))-)(--((.........)))))).... ( -30.60)
>DroYak_CAF1 3427 98 - 1
ACC------ACCACCCACUUUGGAGGCCUGCAGGCGAAAAUUGCAUAUGCGUAAGCGUAGACGAACUAGGAGAGCUUCCAGG-GG--CAAACCGGGGAACUG-GAUUG
...------........((((((((((((.(((((((...)))).(((((....)))))......)).).)).)))))))))-).--(((.((((....)))-).))) ( -34.60)
>DroAna_CAF1 3771 103 - 1
UCCUGUGAGCCCUCCCCCUCCGGAGGCCUGCAGGCGAAAAUUGCAUAUGCGUAAGCGUAGACGAACCAGGAAGGUUACCAGG-AAGGUGG---GUGGUGCUG-GGCAG
..((((.(((((.((((((((((..((((((((.......)))).(((((....)))))............))))..)).))-.))).))---).)).))).-).))) ( -40.50)
>consensus
UCCCG_CCAACCACCCACUUUGGAGGCCUGCAGGCGAAAAUUGCAUAUGCGUAAGCGUAGACGAACUAGGAGAGCUUCCAGG_GG_GCGAACUGGGG______GAUUG
.............(((..(((((((((.(((((.......)))))(((((....)))))..............)))))))))...........)))............ (-21.20 = -21.34 +   0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:40 2006