Locus 7705

Sequence ID	2L_DroMel_CAF1
Location	21,794,064 – 21,794,159
Length	95
Max. P	0.967144

overview

Window 5

Location	21,794,064 – 21,794,159
Length	95
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	76.30
Mean single sequence MFE	-24.99
Consensus MFE	-14.05
Energy contribution	-15.28
Covariance contribution	1.22
Combinations/Pair	1.16
Mean z-score	-2.30
Structure conservation index	0.56
SVM decision value	1.61
SVM RNA-class probability	0.967144
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21794064 95 + 22407834
AGCAAUCCAUCAACUUUUGGGGGUUGUUUUACCCGAGGUCGAG---GU-UUUUUCUAUAGCAACCCUUAAAAAGUUAUUGAUUGUUGUCUGCCAGUAGA
(((((((.((.(((((((((((((((((..(((((....)).)---))-.........)))))))))).))))))))).))))))).((((....)))) ( -29.30)
>DroSec_CAF1 37410 94 + 1
AGCAAUCCAUCAGCUUUUGGGGGUUGUUUUACUG-GGGUCGAA---GU-UUUUUCUAUAGCAACCCUUAAAAAGUUAUUGAUUGUUGUCUGCCAGUAGA
(((((((.((.(((((((((((((((((....((-(((.....---..-...))))).)))))))))).))))))))).))))))).((((....)))) ( -26.70)
>DroSim_CAF1 29792 94 + 1
AGCAAUCCAUCAGCUUUUGGGGGUUGUUUUACUU-GGGUCGAG---GU-UUUUUCUAUAGCAACCCUUAAAAAGUUAUUGAUUGUUGUCUGCCAGUAGA
(((((((.((.(((((((((((((((((.....(-(((.....---..-....)))).)))))))))).))))))))).))))))).((((....)))) ( -26.10)
>DroEre_CAF1 40778 83 + 1
AGCAAUCCAUCAAAUUUUAGGGGUAGUUUUUCUU-AUGU---------------AUAUAGCAACCCCUAAAAAGUUAUUGAUUGAUGUGUGCGGGUAGA
.(((...((((((.((((((((((.(((......-....---------------....))).)))))))))).........))))))..)))....... ( -21.34)
>DroYak_CAF1 30418 94 + 1
AGCAAUCCAUCAAAAUUAAGGGGUAGUUCUCCUU-AGGUCGAG---UU-AUUUUCUAUAGCAACCCUUAAAAUGUUAUUGAUUGCUGUCUGCCAGUAGA
(((((((.........(((((((.....))))))-)(((...(---((-((.....))))).)))..............))))))).((((....)))) ( -20.90)
>DroPer_CAF1 52446 90 + 1
AGCAAUCCAUCAACUUCUAGGGGUAGUUUUUCCUUCGAACCAGGGUGAAAUUUU-------CACCCUUAAAAUGUGAUUGAUCUCUGUCGA--AAGAGA
..((((((((....(((.(((((.......))))).)))..(((((((.....)-------))))))....))).))))).(((((.....--.))))) ( -25.60)
>consensus
AGCAAUCCAUCAACUUUUAGGGGUAGUUUUACUU_AGGUCGAG___GU_UUUUUCUAUAGCAACCCUUAAAAAGUUAUUGAUUGUUGUCUGCCAGUAGA
(((((((.((.(((((((((((((.(((..............................))).)))))))))).))))).)))))))............. (-14.05 = -15.28 +   1.22)

alignment

secondary structure

dotplot

Window 6

Location	21,794,064 – 21,794,159
Length	95
Sequences	6
Columns	99
Reading direction	reverse
Mean pairwise identity	76.30
Mean single sequence MFE	-18.32
Consensus MFE	-10.10
Energy contribution	-11.26
Covariance contribution	1.17
Combinations/Pair	1.21
Mean z-score	-1.56
Structure conservation index	0.55
SVM decision value	-0.01
SVM RNA-class probability	0.527846
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21794064 95 - 22407834
UCUACUGGCAGACAACAAUCAAUAACUUUUUAAGGGUUGCUAUAGAAAAA-AC---CUCGACCUCGGGUAAAACAACCCCCAAAAGUUGAUGGAUUGCU
...............(((((..((((((((...(((((((....).....-((---(.((....)))))....))))))..))))))))...))))).. ( -21.30)
>DroSec_CAF1 37410 94 - 1
UCUACUGGCAGACAACAAUCAAUAACUUUUUAAGGGUUGCUAUAGAAAAA-AC---UUCGACCC-CAGUAAAACAACCCCCAAAAGCUGAUGGAUUGCU
......(((((.(....((((....(((((...((((((.....(((...-..---))).((..-..))....))))))..))))).)))).).))))) ( -14.80)
>DroSim_CAF1 29792 94 - 1
UCUACUGGCAGACAACAAUCAAUAACUUUUUAAGGGUUGCUAUAGAAAAA-AC---CUCGACCC-AAGUAAAACAACCCCCAAAAGCUGAUGGAUUGCU
......(((((.(....((((....(((((...((((((...........-..---........-........))))))..))))).)))).).))))) ( -13.65)
>DroEre_CAF1 40778 83 - 1
UCUACCCGCACACAUCAAUCAAUAACUUUUUAGGGGUUGCUAUAU---------------ACAU-AAGAAAAACUACCCCUAAAAUUUGAUGGAUUGCU
.......(((..((((((.........((((((((((........---------------....-..........)))))))))).))))))...))). ( -19.85)
>DroYak_CAF1 30418 94 - 1
UCUACUGGCAGACAGCAAUCAAUAACAUUUUAAGGGUUGCUAUAGAAAAU-AA---CUCGACCU-AAGGAGAACUACCCCUUAAUUUUGAUGGAUUGCU
.............(((((((.....((..(((((((....(((.....))-).---(((.....-...)))......)))))))...))...))))))) ( -17.30)
>DroPer_CAF1 52446 90 - 1
UCUCUU--UCGACAGAGAUCAAUCACAUUUUAAGGGUG-------AAAAUUUCACCCUGGUUCGAAGGAAAAACUACCCCUAGAAGUUGAUGGAUUGCU
(((((.--.....))))).(((((.((((...((((((-------(.....)))))))..(((..(((..........))).)))...))))))))).. ( -23.00)
>consensus
UCUACUGGCAGACAACAAUCAAUAACUUUUUAAGGGUUGCUAUAGAAAAA_AC___CUCGACCU_AAGUAAAACAACCCCCAAAAGUUGAUGGAUUGCU
...............(((((..((((((((...((((((..................................))))))..))))))))...))))).. (-10.10 = -11.26 +   1.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:11 2006