Locus 2592

Sequence ID	2L_DroMel_CAF1
Location	7,180,839 – 7,180,963
Length	124
Max. P	0.999895

overview

Window 0

Location	7,180,839 – 7,180,934
Length	95
Sequences	3
Columns	102
Reading direction	reverse
Mean pairwise identity	76.59
Mean single sequence MFE	-30.00
Consensus MFE	-21.32
Energy contribution	-22.33
Covariance contribution	1.01
Combinations/Pair	1.25
Mean z-score	-1.88
Structure conservation index	0.71
SVM decision value	1.57
SVM RNA-class probability	0.964819
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7180839 95 - 22407834
GAUUGGCCUUUGGGGGCAUCCCAAUAAUGGAGCCAGACGUGGCUAACUUUUAUCAGUUAGCCG------GGCUGUAGGGC-CGGCUAAAUCAAUGCAAUUAA
(((((.((.(((((.....)))))....))((((.....(((((((((......)))))))))------((((....)))-))))).........))))).. ( -33.60)
>DroSec_CAF1 122242 95 - 1
GAUUGGCCUUUGGGGGCAACCCAAUAAUGGAGCCAGACGUGGCCAACUUUUAUUAGUUAGCCG------GGCUGUAGGGC-CUGCUAAAUCAAUGCAAUUAA
....(((((...(((....))).....((.((((.....((((.((((......)))).))))------)))).))))))-)(((.........)))..... ( -31.60)
>DroAna_CAF1 130679 94 - 1
UAUUGGCA-------AGUACUCUAUAAUGGAGAUGGAUA-GGCCAACUUUUAUCGGUUGGUUGGCUGUAGGCUGUAGGGCCCUGCUAAAUCAAUGCAAUUAA
.....(((-------....((((.....))))...(((.-((((((((..........))))))))(((((((....)).)))))...)))..)))...... ( -24.80)
>consensus
GAUUGGCCUUUGGGGGCAACCCAAUAAUGGAGCCAGACGUGGCCAACUUUUAUCAGUUAGCCG______GGCUGUAGGGC_CUGCUAAAUCAAUGCAAUUAA
..((((((....(((....))).....((.((((.....(((((((((......)))))))))......)))).))......)))))).............. (-21.32 = -22.33 +   1.01)

alignment

secondary structure

dotplot

Window 1

Location	7,180,871 – 7,180,963
Length	92
Sequences	3
Columns	106
Reading direction	forward
Mean pairwise identity	67.11
Mean single sequence MFE	-26.93
Consensus MFE	-14.45
Energy contribution	-17.90
Covariance contribution	3.45
Combinations/Pair	1.17
Mean z-score	-2.70
Structure conservation index	0.54
SVM decision value	4.25
SVM RNA-class probability	0.999850
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7180871 92 + 22407834
---CGGCUAACUGAUAAAAGUUAGCCACGUCUGGCUCCAUUAUUGGGAUGCCCCCAAAGGCCAAUC-GACAAACAAUUUCCGGAGCAUGGACUUC----------A
---.((((((((......))))))))..((((((((((....(((((.....))))).((..(((.-(.....).))).))))))).)))))...----------. ( -32.80)
>DroSec_CAF1 122274 92 + 1
---CGGCUAACUAAUAAAAGUUGGCCACGUCUGGCUCCAUUAUUGGGUUGCCCCCAAAGGCCAAUC-GACAAACAAUUUCCGGAGCAUGGACUUC----------A
---.((((((((......))))))))..((((((((((...((((.((((((......))).....-)))...))))....))))).)))))...----------. ( -31.70)
>DroAna_CAF1 130715 98 + 1
AGCCAACCAACCGAUAAAAGUUGGCC-UAUCCAUCUCCAUUAUAGAGUACU-------UGCCAAUAGGGCAACGAAUUUCCGGGACAAGAAAUUAUAAAACCGAAA
..........(((..((..((((.((-(((.((.(((.......)))....-------))...))))).))))...))..)))....................... ( -16.30)
>consensus
___CGGCUAACUGAUAAAAGUUGGCCACGUCUGGCUCCAUUAUUGGGUUGCCCCCAAAGGCCAAUC_GACAAACAAUUUCCGGAGCAUGGACUUC__________A
....((((((((......))))))))..((((((((((....(((((.....)))))...(......).............))))).))))).............. (-14.45 = -17.90 +   3.45)

alignment

secondary structure

dotplot

Window 2

Location	7,180,871 – 7,180,963
Length	92
Sequences	3
Columns	106
Reading direction	reverse
Mean pairwise identity	67.11
Mean single sequence MFE	-30.20
Consensus MFE	-19.37
Energy contribution	-20.17
Covariance contribution	0.79
Combinations/Pair	1.30
Mean z-score	-2.15
Structure conservation index	0.64
SVM decision value	4.43
SVM RNA-class probability	0.999895
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7180871 92 - 22407834
U----------GAAGUCCAUGCUCCGGAAAUUGUUUGUC-GAUUGGCCUUUGGGGGCAUCCCAAUAAUGGAGCCAGACGUGGCUAACUUUUAUCAGUUAGCCG---
.----------...(((...(((((((.(((((.....)-))))..)).(((((.....)))))....)))))..)))..((((((((......)))))))).--- ( -33.90)
>DroSec_CAF1 122274 92 - 1
U----------GAAGUCCAUGCUCCGGAAAUUGUUUGUC-GAUUGGCCUUUGGGGGCAACCCAAUAAUGGAGCCAGACGUGGCCAACUUUUAUUAGUUAGCCG---
.----------...(((...(((((((.(((((.....)-))))..))....(((....)))......)))))..)))..(((.((((......)))).))).--- ( -32.20)
>DroAna_CAF1 130715 98 - 1
UUUCGGUUUUAUAAUUUCUUGUCCCGGAAAUUCGUUGCCCUAUUGGCA-------AGUACUCUAUAAUGGAGAUGGAUA-GGCCAACUUUUAUCGGUUGGUUGGCU
((((((..(...........)..))))))((((((((((.....))))-------....((((.....)))))))))).-((((((((..........)))))))) ( -24.50)
>consensus
U__________GAAGUCCAUGCUCCGGAAAUUGUUUGUC_GAUUGGCCUUUGGGGGCAACCCAAUAAUGGAGCCAGACGUGGCCAACUUUUAUCAGUUAGCCG___
..............(((...((((((..........(((.....))).....(((....))).....))))))..)))..((((((((......)))))))).... (-19.37 = -20.17 +   0.79)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:26 2006