Locus 2583

Sequence ID	X_DroMel_CAF1
Location	6,926,474 – 6,926,606
Length	132
Max. P	0.685698

overview

Window 1

Location	6,926,474 – 6,926,570
Length	96
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	73.07
Mean single sequence MFE	-25.77
Consensus MFE	-14.26
Energy contribution	-14.42
Covariance contribution	0.16
Combinations/Pair	1.27
Mean z-score	-1.58
Structure conservation index	0.55
SVM decision value	-0.01
SVM RNA-class probability	0.530805
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6926474 96 + 22224390
UUUUUAACAUUUCUUUUGUCAACAACAAUCAAUAAAAAUGAGAUGAGUCGGUCGUUUUUCCUUCUACUGAAGGA---AGGAAAAGCGAUCAGUUCUGGG
.......((((((((((.................)))).))))))....((((((((((((((((......)))---)))))))))))))......... ( -28.23)
>DroPse_CAF1 10792 92 + 1
UUU------UUUUUUCUGUCAACAACAAUCAAUGAAAAUGAGUUGAAUGGACCACCGUUCCCCAGGCCUGGGGCUCGGGGAAGGACGAUCGGU-UCGGG
...------........(((.....((((..((....))..))))....)))..((.((((((..(((...)))..))))))((((.....))-)))). ( -26.30)
>DroSec_CAF1 11496 94 + 1
UUUUUAACAUU-AUUUUGUCAACAACAAUCAAUAAAAAUGAGAUGAGUCGAUCGUUUUUCCUGCGGCUGA-GGA---AGGAAAAGCGAUCAGUUCUGGG
.(((((...((-(((((((.....))))..)))))...))))).(((..(((((((((((((.(......-)..---)))))))))))))..))).... ( -22.60)
>DroEre_CAF1 19942 95 + 1
UUUUAAACAUUUCUUUUGUCAACAACAAUCAAUGAAAAUGAGUUAAGUCGGUCGUUUUUCCUUCGGCUGA-GGA---AGGAAAAGCGAUCGGUUCGGGG
.......((((((..((((.....)))).....).)))))..(..(..((((((((((((((((......-.))---))))))))))))))..)..).. ( -27.80)
>DroPer_CAF1 10799 92 + 1
UUU------UUUUUCCUGUCAACAACAAUCAAUGAAAAUGAGUUAAAUGGACCACCGUUCCCGUGGCCAGGGGCUCGGGGAAGGACGAUCGUU-CGGGU
..(------((((((((..............((....))(((((...(((.((((.......)))))))..))))))))))))))(((....)-))... ( -23.90)
>consensus
UUUU_AACAUUUCUUUUGUCAACAACAAUCAAUGAAAAUGAGUUGAGUCGAUCGUUUUUCCUGCGGCUGA_GGA___AGGAAAAGCGAUCGGUUCGGGG
.................................................(((((((((((((....((...))....)))))))))))))......... (-14.26 = -14.42 +   0.16)

alignment

secondary structure

dotplot

Window 2

Location	6,926,497 – 6,926,606
Length	109
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	78.73
Mean single sequence MFE	-18.85
Consensus MFE	-11.99
Energy contribution	-11.49
Covariance contribution	-0.50
Combinations/Pair	1.21
Mean z-score	-1.51
Structure conservation index	0.64
SVM decision value	0.32
SVM RNA-class probability	0.685698
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6926497 109 - 22224390
AUACUCUAUUGUACUUUUA----UCUACUCACAGCACUAACCCAGAACUGAUCGCUUUUCCU---UCCUUCAGUAGAAGGAAAAACGACCGACUCAUCUCAUUUUUAUUGAUUGUU
.(((......)))......----.......((((((.(((....((..((((((.(((((((---((........))))))))).))).....)))..))....))).)).)))). ( -16.00)
>DroPse_CAF1 10809 115 - 1
AUACUCUACUCCACUUUAAUCGAUCUACUCACAGCACUAACCCGA-ACCGAUCGUCCUUCCCCGAGCCCCAGGCCUGGGGAACGGUGGUCCAUUCAACUCAUUUUCAUUGAUUGUU
................((((((((((......)).........((-(..(((((.(((((((((.(((...))).))))))).)))))))..)))...........)))))))).. ( -27.10)
>DroSec_CAF1 11518 108 - 1
AUACUCUAUUGUACUUUUA----UCUACUCACAGCACUAACCCAGAACUGAUCGCUUUUCCU---UCC-UCAGCCGCAGGAAAAACGAUCGACUCAUCUCAUUUUUAUUGAUUGUU
.(((......)))......----.........((((........((..((((((.(((((((---.(.-......).))))))).))))))..))...(((.......))).)))) ( -15.70)
>DroEre_CAF1 19965 108 - 1
AUACUCUAUUGUACUUUUA----UCUACUCACCGCACUAACCCCGAACCGAUCGCUUUUCCU---UCC-UCAGCCGAAGGAAAAACGACCGACUUAACUCAUUUUCAUUGAUUGUU
.(((......)))......----.........................((.(((.(((((((---((.-......))))))))).))).))......................... ( -15.60)
>DroYak_CAF1 12159 109 - 1
AUACUCUAUUGUAAUUUUA----UCUACUCACAGCACUAACCCAGUACCGAUCGCUUUUCCUU--UUC-UCAGACGAAGGAAAAUCGAUCGACUCAUCUCAUUUUCAUUGAUUGUU
.(((......)))......----.........((((............((((((.((((((((--(..-......))))))))).)))))).......(((.......))).)))) ( -19.40)
>DroPer_CAF1 10816 115 - 1
AUACUCUACUCCACUUUAAUCGAUCUACUCACAGCACUAAACCCG-AACGAUCGUCCUUCCCCGAGCCCCUGGCCACGGGAACGGUGGUCCAUUUAACUCAUUUUCAUUGAUUGUU
................((((((((((......))...........-...(((((.(((((((...(((...)))...))))).)))))))................)))))))).. ( -19.30)
>consensus
AUACUCUAUUGUACUUUUA____UCUACUCACAGCACUAACCCAGAACCGAUCGCUUUUCCU___UCC_UCAGCCGAAGGAAAAACGAUCGACUCAACUCAUUUUCAUUGAUUGUU
................................((((.............(((((.(((((((...............))))))).)))))........(((.......))).)))) (-11.99 = -11.49 +  -0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:20 2006