Locus 5082

Sequence ID 2L_DroMel_CAF1
Location 14,510,519 – 14,510,638
Length 119
Max. P 0.900458
window8089 window8090 window8091

overview

Window 9

Location 14,510,519 – 14,510,618
Length 99
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 69.82
Mean single sequence MFE -34.77
Consensus MFE -19.73
Energy contribution -21.87
Covariance contribution 2.14
Combinations/Pair 1.22
Mean z-score -1.65
Structure conservation index 0.57
SVM decision value 1.01
SVM RNA-class probability 0.900458
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14510519 99 + 22407834
GCCACUUGAGCGCUCCUCGGG--------------------CAACUUCGGGGCCUUGCGUUCCUUUCGUUCAGCUGACAGUCACUUCCUGUCAGCGUGGAGCAGCUCGAUCCCCUGGAA-
.(((.(((((((((((.((((--------------------(..(....).)))).................((((((((.......))))))))).))))).)))))).....)))..- ( -39.00)
>DroPse_CAF1 40958 112 + 1
GACACUUCAUCGCUCUCCUUACCCAUGGGGGGUUCAUGCCACAAAAGCGCGACUUGGCGUUCCUUUCAUUCGGCUGACAGUUACUUCCUGUCAGUUCCCCCCAGCUCCUGCC--------
.........................(((((((.............(((((......)))))..........(((((((((.......))))))))))))))))((....)).-------- ( -32.10)
>DroSec_CAF1 42101 91 + 1
GCCACUUGAGUGCUCCUCCGG--------------------CAACUUCGGGGCCUUGCGUUCCUUUCGUUCAGCUGACAGUCACUUCCUGUCAGCGUGGAGCAGCUCGAUC---------
.....(((((((((((.(.((--------------------(..(....).)))..................((((((((.......))))))))).)))))).)))))..--------- ( -35.00)
>DroSim_CAF1 27234 98 + 1
GCCACUUGAGUGCUCCUCCGG--------------------CAACUU-GCGGCCUUGCGUUCCUUUCGUUCAGCUGACAGUCACUUCCUGUCAGCGUGGAGCAGCUCGAUCCACUGGAA-
.(((.(((((((((((.(.((--------------------(.....-...)))..................((((((((.......))))))))).)))))).))))).....)))..- ( -34.40)
>DroEre_CAF1 35500 100 + 1
GCCACUUGAGUGCUGCUCGGG--------------------CCGCUGCGGUGCCUCGCGUUCCUGUCGCUCGGCUGACAGUCACUUCCUGUCGGCGUGGAGCAGCUCGAUCCCCUCAGAG
.....(((((.((((((((((--------------------(.(((((((....))))).....)).)))).((((((((.......))))))))...)))))))........))))).. ( -37.30)
>DroYak_CAF1 31726 81 + 1
GCCA---------------------------------------ACUACGGGGCCUCGCGUUCCUUUCGUUCAGCUGACAGUCACUUCCUGUCAGCGUGGAGCAGCUCGAUCCCCUAGUAG
....---------------------------------------((((.((((..(((.(((......((((.((((((((.......))))))))...))))))).))).)))))))).. ( -30.80)
>consensus
GCCACUUGAGUGCUCCUCCGG____________________CAACUUCGGGGCCUUGCGUUCCUUUCGUUCAGCUGACAGUCACUUCCUGUCAGCGUGGAGCAGCUCGAUCCCCU_G_A_
.....((((((.....................................(((((.....)))))....((((.((((((((.......))))))))...)))).))))))........... (-19.73 = -21.87 +   2.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 14,510,540 – 14,510,638
Length 98
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 68.89
Mean single sequence MFE -30.00
Consensus MFE -18.44
Energy contribution -19.08
Covariance contribution 0.64
Combinations/Pair 1.24
Mean z-score -1.29
Structure conservation index 0.61
SVM decision value 0.54
SVM RNA-class probability 0.775031
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14510540 98 + 22407834
-CAACUUCGGGGCCUUGCGUUCCUUUCGUUCAGCUGACAGUCACUUCCUGUCAGCGUGGAGCAGCUCGAUCCCCUGGAA------------------CCCCCUCUAAGCCCCG---CCUG
-......((((((...(((((((.........((((((((.......))))))))..))))).)).........((((.------------------.....)))).))))))---.... ( -33.30)
>DroPse_CAF1 40998 92 + 1
ACAAAAGCGCGACUUGGCGUUCCUUUCAUUCGGCUGACAGUUACUUCCUGUCAGUUCCCCCCAGCUCCUGCC---------------------------CCC-CCACACACCGUCACUCC
.....(((((......))))).........((((((((((.......))))))).........((....)).---------------------------...-.......)))....... ( -17.40)
>DroSec_CAF1 42122 84 + 1
-CAACUUCGGGGCCUUGCGUUCCUUUCGUUCAGCUGACAGUCACUUCCUGUCAGCGUGGAGCAGCUCGAUC--------------------------------CUAAACCCCG---CCUG
-......(((((..(((.(.((.....((((.((((((((.......))))))))...)))).....)).)--------------------------------.))).)))))---.... ( -26.50)
>DroSim_CAF1 27255 96 + 1
-CAACUU-GCGGCCUUGCGUUCCUUUCGUUCAGCUGACAGUCACUUCCUGUCAGCGUGGAGCAGCUCGAUCCACUGGAA------------------GCCUC-CUAAACCCCG---CCUG
-......-((((..(((.(...(((((.....((((((((.......))))))))(((((.(.....).))))).))))------------------)...)-.)))...)))---)... ( -29.00)
>DroEre_CAF1 35521 116 + 1
-CCGCUGCGGUGCCUCGCGUUCCUGUCGCUCGGCUGACAGUCACUUCCUGUCGGCGUGGAGCAGCUCGAUCCCCUCAGAGCCCUGGCUCCCCAAGAAGCCCCCCAAAAAGCCG---CCUG
-.....(((((((.(((((.......)))...((((((((.......))))))))(.(((((.((((..........))))....))))).)..)).))..........))))---)... ( -38.10)
>DroYak_CAF1 31730 106 + 1
---ACUACGGGGCCUCGCGUUCCUUUCGUUCAGCUGACAGUCACUUCCUGUCAGCGUGGAGCAGCUCGAUCCCCUAGUAGCCC-----CCUCUAGAACCCCCU---AGCCCCG---CCUG
---....((((((...(((((((.........((((((((.......))))))))..))))).))........((((.((...-----.))))))........---.))))))---.... ( -35.70)
>consensus
_CAACUUCGGGGCCUUGCGUUCCUUUCGUUCAGCUGACAGUCACUUCCUGUCAGCGUGGAGCAGCUCGAUCCCCU_G_A___________________CCCC_CUAAACCCCG___CCUG
........(((((.....)))))....((((.((((((((.......))))))))...)))).......................................................... (-18.44 = -19.08 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 14,510,540 – 14,510,638
Length 98
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 68.89
Mean single sequence MFE -37.75
Consensus MFE -19.19
Energy contribution -20.38
Covariance contribution 1.20
Combinations/Pair 1.18
Mean z-score -1.46
Structure conservation index 0.51
SVM decision value 0.14
SVM RNA-class probability 0.604018
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14510540 98 - 22407834
CAGG---CGGGGCUUAGAGGGGG------------------UUCCAGGGGAUCGAGCUGCUCCACGCUGACAGGAAGUGACUGUCAGCUGAACGAAAGGAACGCAAGGCCCCGAAGUUG-
....---((((((((.....(.(------------------((((.((((.........))))..((((((((.......)))))))).........))))).).))))))))......- ( -42.00)
>DroPse_CAF1 40998 92 - 1
GGAGUGACGGUGUGUGG-GGG---------------------------GGCAGGAGCUGGGGGGAACUGACAGGAAGUAACUGUCAGCCGAAUGAAAGGAACGCCAAGUCGCGCUUUUGU
...((((((((((....-...---------------------------(((....)))....((..(((((((.......)))))))))...........)))))..)))))........ ( -26.60)
>DroSec_CAF1 42122 84 - 1
CAGG---CGGGGUUUAG--------------------------------GAUCGAGCUGCUCCACGCUGACAGGAAGUGACUGUCAGCUGAACGAAAGGAACGCAAGGCCCCGAAGUUG-
....---((((((((.(--------------------------------((.(.....).)))..((((((((.......))))))))....(....).......))))))))......- ( -30.50)
>DroSim_CAF1 27255 96 - 1
CAGG---CGGGGUUUAG-GAGGC------------------UUCCAGUGGAUCGAGCUGCUCCACGCUGACAGGAAGUGACUGUCAGCUGAACGAAAGGAACGCAAGGCCGC-AAGUUG-
...(---(((.((((((-(((((------------------((((...)))...)))..))))..((((((((.......)))))))))))))........(....).))))-......- ( -34.60)
>DroEre_CAF1 35521 116 - 1
CAGG---CGGCUUUUUGGGGGGCUUCUUGGGGAGCCAGGGCUCUGAGGGGAUCGAGCUGCUCCACGCCGACAGGAAGUGACUGUCAGCCGAGCGACAGGAACGCGAGGCACCGCAGCGG-
...(---(((.....(((((((((((....))))))..(((((.((.....))))))).)))))....(((((.......))))).(((..(((.......)))..))).)))).....- ( -47.00)
>DroYak_CAF1 31730 106 - 1
CAGG---CGGGGCU---AGGGGGUUCUAGAGG-----GGGCUACUAGGGGAUCGAGCUGCUCCACGCUGACAGGAAGUGACUGUCAGCUGAACGAAAGGAACGCGAGGCCCCGUAGU---
...(---(((((((---...(.(((((....(-----((((..((.(.....).))..)))))..((((((((.......)))))))).........))))).)..))))))))...--- ( -45.80)
>consensus
CAGG___CGGGGUUUAG_GGGG___________________U_C_AGGGGAUCGAGCUGCUCCACGCUGACAGGAAGUGACUGUCAGCUGAACGAAAGGAACGCAAGGCCCCGAAGUUG_
.......((((((((..................................................((((((((.......))))))))....(....).......))))))))....... (-19.19 = -20.38 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:32 2006