Locus 1783

Sequence ID 2L_DroMel_CAF1
Location 4,879,055 – 4,879,242
Length 187
Max. P 0.983802
window2870 window2871 window2872 window2873

overview

Window 0

Location 4,879,055 – 4,879,175
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 89.11
Mean single sequence MFE -43.12
Consensus MFE -31.01
Energy contribution -32.23
Covariance contribution 1.23
Combinations/Pair 1.14
Mean z-score -3.62
Structure conservation index 0.72
SVM decision value 0.34
SVM RNA-class probability 0.694683
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4879055 120 - 22407834
GUUACUGCGAGAAGUCCUUCAGCGUGAAGGACUAUCUGACCAAGCACAUACGGACGCACACCGGCGAGAAGCCGUACACCUGUCCGUAUUGCGACAAGCGCUUCACGCAGCGCAGCGCCC
......((((((((((((((.....)))))))).)))......(((.(((((((((.....((((.....))))......)))))))))))).....(((((......)))))..))).. ( -47.30)
>DroVir_CAF1 48063 120 - 1
GCUACUGUGAGAAGUCCUUCAGCGUUAAGGACUAUCUCACGAAACACAUACGCACACACACCGGCGAAAAGCCGUACACCUGUCCGUACUGUGACAAACGAUUCACGCAACGCAGCGCCU
(((..((((((((((((((.......))))))).)))))))...((((((((.(((.....((((.....))))......))).)))).))))....................))).... ( -36.60)
>DroGri_CAF1 40733 120 - 1
GCUACUGUGAGAAGUCCUUCAGCGUGAAGGACUAUCUCACGAAACACAUACGCACACACACCGGCGAAAAGCCGUACACCUGUCCGUACUGUGACAAACGAUUUACGCAACGAAGCGCAC
(((..(((((((((((((((.....)))))))).)))))))...((((((((.(((.....((((.....))))......))).)))).))))....................))).... ( -41.10)
>DroWil_CAF1 48159 120 - 1
GAUACUGUGAGAAGUCCUUUAGCGUUAAGGACUAUCUCACCAAACAUAUACGGACACAUACGGGCGAAAAGCCGUAUACCUGUCCGUAUUGUGACAAGCGUUUUACGCAACGCAGUGCAC
(.(((((((((((((((((.......))))))).))))))....((((((((((((.((((((.(.....)))))))...)))))))).))))....(((((......)))))))))).. ( -45.40)
>DroMoj_CAF1 46253 120 - 1
GCUACUGUGAGAAGUCCUUCAGUGUGAAGGACUAUCUUACGAAACACAUACGCACACACACCGGCGAAAAGCCGUACACCUGUCCGUACUGUGACAAGCGAUUCACGCAACGCAGCGCAC
(((..(((((((((((((((.....)))))))).)))))))...((((((((.(((.....((((.....))))......))).)))).))))....(((.....))).....))).... ( -41.70)
>DroAna_CAF1 34151 120 - 1
GCUACUGUGAGAAGUCCUUCAGCGUGAAGGACUACCUAACCAAGCAUAUACGGACACACACCGGCGAAAAGCCGUACACCUGUCCGUAUUGCGAUAAGCGCUUCACCCAGCGCAGUGCAC
((.((((((...((((((((.....))))))))........((((..(((((((((.....((((.....))))......))))))))).((.....)))))).......)))))))).. ( -46.60)
>consensus
GCUACUGUGAGAAGUCCUUCAGCGUGAAGGACUAUCUCACCAAACACAUACGCACACACACCGGCGAAAAGCCGUACACCUGUCCGUACUGUGACAAGCGAUUCACGCAACGCAGCGCAC
(((...((((((((((((((.....)))))))).))))))....((((((((.(((.....((((.....))))......))).)))).))))....(((..........)))))).... (-31.01 = -32.23 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 4,879,095 – 4,879,215
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 85.57
Mean single sequence MFE -38.00
Consensus MFE -28.10
Energy contribution -29.02
Covariance contribution 0.92
Combinations/Pair 1.14
Mean z-score -2.71
Structure conservation index 0.74
SVM decision value 0.31
SVM RNA-class probability 0.684502
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4879095 120 - 22407834
AAUCGUGGCUGUUUUGCAGGAGAGAAGCCGUUCCACUGCGGUUACUGCGAGAAGUCCUUCAGCGUGAAGGACUAUCUGACCAAGCACAUACGGACGCACACCGGCGAGAAGCCGUACACC
......((((.((((((.((..((.((((((......)))))).))((((((((((((((.....)))))))).)))..((..........)).)))...)).))))))))))....... ( -42.00)
>DroVir_CAF1 48103 113 - 1
--UCGU-----AAUUGCAGGUGAAAAACCAUUUCAUUGUGGCUACUGUGAGAAGUCCUUCAGCGUUAAGGACUAUCUCACGAAACACAUACGCACACACACCGGCGAAAAGCCGUACACC
--..((-----(..(((.(((.....))).......((((.....((((((((((((((.......))))))).)))))))...))))...))).......((((.....)))))))... ( -34.90)
>DroGri_CAF1 40773 113 - 1
--GCGU-----UAUUGCAGGUGAAAAACCGUUUCAUUGUGGCUACUGUGAGAAGUCCUUCAGCGUGAAGGACUAUCUCACGAAACACAUACGCACACACACCGGCGAAAAGCCGUACACC
--((((-----...((..(((.....)))(((((.....(....).((((((((((((((.....)))))))).))))))))))).)).))))........((((.....))))...... ( -40.60)
>DroWil_CAF1 48199 113 - 1
--UCGUA-----AUUGCAGGUGAAAAGCCGUUUCACUGUGGAUACUGUGAGAAGUCCUUUAGCGUUAAGGACUAUCUCACCAAACAUAUACGGACACAUACGGGCGAAAAGCCGUAUACC
--(((((-----.(..(((.(((((.....))))))))..).....(((((((((((((.......))))))).))))))........)))))....((((((.(.....)))))))... ( -35.80)
>DroMoj_CAF1 46293 113 - 1
--UCGU-----AAUUGCAGGUGAAAAACCGUUUCAUUGUGGCUACUGUGAGAAGUCCUUCAGUGUGAAGGACUAUCUUACGAAACACAUACGCACACACACCGGCGAAAAGCCGUACACC
--..((-----(..(((.(((.....)))(((((.....(....).((((((((((((((.....)))))))).)))))))))))......))).......((((.....)))))))... ( -37.50)
>DroAna_CAF1 34191 116 - 1
----UUGGUUGUUUUGCAGGAGAGAAACCGUUCCAUUGCGGCUACUGUGAGAAGUCCUUCAGCGUGAAGGACUACCUAACCAAGCAUAUACGGACACACACCGGCGAAAAGCCGUACACC
----((((((((((..(((...((...((((......)))))).)))..)))((((((((.....))))))))...))))))).....(((((.......))(((.....)))))).... ( -37.20)
>consensus
__UCGU_____UAUUGCAGGUGAAAAACCGUUUCAUUGUGGCUACUGUGAGAAGUCCUUCAGCGUGAAGGACUAUCUCACCAAACACAUACGCACACACACCGGCGAAAAGCCGUACACC
..............(((.((((.....((((......)))).....((((((((((((((.....)))))))).))))))..................))))(((.....)))))).... (-28.10 = -29.02 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 4,879,135 – 4,879,242
Length 107
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 75.51
Mean single sequence MFE -30.61
Consensus MFE -20.89
Energy contribution -21.33
Covariance contribution 0.45
Combinations/Pair 1.19
Mean z-score -2.07
Structure conservation index 0.68
SVM decision value 1.84
SVM RNA-class probability 0.979683
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4879135 107 + 22407834
GUCAGAUAGUCCUUCACGCUGAAGGACUUCUCGCAGUAACCGCAGUGGAACGGCUUCUCUCCUGCAAAACAGCCACGAUUGGCGAAACGGA-GAAAG----------UUGGGAUACUC
((.(((.((((((((.....))))))))))).)).........((((...((((((.(((((((.....))((((....)))).....)))-)))))----------)))...)))). ( -35.30)
>DroVir_CAF1 48143 92 + 1
GUGAGAUAGUCCUUAACGCUGAAGGACUUCUCACAGUAGCCACAAUGAAAUGGUUUUUCACCUGCAAUU-----ACGA-----GAGAUGGC--AAUU------U---UCGAGA-----
((((((.(((((((.......)))))))))))))....((((...(((((.....))))).........-----.(..-----..).))))--....------.---......----- ( -26.40)
>DroPse_CAF1 37695 102 + 1
GUGAGAUAGUCCUUCACGCUGAAGGACUUCUCACAGUAGCCGCAAUGAAACGGUUUCUCACCUGCAACA-AACAACGA-AGGCGAAAGGAA-GA-------------UUGGGACACUU
((((((.((((((((.....))))))))))))))((((((((........)))))((((((((......-........-)))(....)...-..-------------.))))).))). ( -31.64)
>DroWil_CAF1 48239 105 + 1
GUGAGAUAGUCCUUAACGCUAAAGGACUUCUCACAGUAUCCACAGUGAAACGGCUUUUCACCUGCAAU-----UACGA-----GAAAUGGAAGAAAAGCACAUUUUUUUGCGAUA---
((((((.(((((((.......)))))))))))))..((((..(((.((((.((((((((.((......-----.....-----.....))..))))))).).)))).))).))))--- ( -28.99)
>DroAna_CAF1 34231 103 + 1
GUUAGGUAGUCCUUCACGCUGAAGGACUUCUCACAGUAGCCGCAAUGGAACGGUUUCUCUCCUGCAAAACAACCAA----GGCGAAAGGGA-GAAAG----------UUGGGAUACUC
((.(((.((((((((.....))))))))))).))((((.((.((((.......(((((((..(((...........----.)))..)))))-))..)----------))))).)))). ( -29.70)
>DroPer_CAF1 37492 102 + 1
GUGAGAUAGUCCUUCACGCUGAAGGACUUCUCACAGUAGCCGCAAUGAAACGGUUUCUCACCUGCAACA-AACAACGA-AGGCGAAAGGAA-GA-------------UUGGGACACUU
((((((.((((((((.....))))))))))))))((((((((........)))))((((((((......-........-)))(....)...-..-------------.))))).))). ( -31.64)
>consensus
GUGAGAUAGUCCUUCACGCUGAAGGACUUCUCACAGUAGCCGCAAUGAAACGGUUUCUCACCUGCAAAA_AACAACGA__GGCGAAAGGGA_GAAA___________UUGGGAUACU_
((((((.((((((((.....))))))))))))))((.(((((........))))).))............................................................ (-20.89 = -21.33 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 4,879,135 – 4,879,242
Length 107
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 75.51
Mean single sequence MFE -31.86
Consensus MFE -19.94
Energy contribution -20.05
Covariance contribution 0.11
Combinations/Pair 1.17
Mean z-score -2.28
Structure conservation index 0.63
SVM decision value 1.95
SVM RNA-class probability 0.983802
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4879135 107 - 22407834
GAGUAUCCCAA----------CUUUC-UCCGUUUCGCCAAUCGUGGCUGUUUUGCAGGAGAGAAGCCGUUCCACUGCGGUUACUGCGAGAAGUCCUUCAGCGUGAAGGACUAUCUGAC
..(((......----------.((((-(((.....((((....))))((.....)))))))))((((((......))))))..))).(((((((((((.....)))))))).)))... ( -35.90)
>DroVir_CAF1 48143 92 - 1
-----UCUCGA---A------AAUU--GCCAUCUC-----UCGU-----AAUUGCAGGUGAAAAACCAUUUCAUUGUGGCUACUGUGAGAAGUCCUUCAGCGUUAAGGACUAUCUCAC
-----......---.------....--(((((...-----..((-----....)).(((((((.....))))))))))))....(((((((((((((.......))))))).)))))) ( -24.80)
>DroPse_CAF1 37695 102 - 1
AAGUGUCCCAA-------------UC-UUCCUUUCGCCU-UCGUUGUU-UGUUGCAGGUGAGAAACCGUUUCAUUGCGGCUACUGUGAGAAGUCCUUCAGCGUGAAGGACUAUCUCAC
.((((......-------------..-....((((((((-.((.....-...)).))))))))..((((......)))).))))((((((((((((((.....)))))))).)))))) ( -35.60)
>DroWil_CAF1 48239 105 - 1
---UAUCGCAAAAAAAUGUGCUUUUCUUCCAUUUC-----UCGUA-----AUUGCAGGUGAAAAGCCGUUUCACUGUGGAUACUGUGAGAAGUCCUUUAGCGUUAAGGACUAUCUCAC
---..(((((...(((((.(((((((..((.....-----.....-----......)).))))))))))))...))))).....(((((((((((((.......))))))).)))))) ( -32.19)
>DroAna_CAF1 34231 103 - 1
GAGUAUCCCAA----------CUUUC-UCCCUUUCGCC----UUGGUUGUUUUGCAGGAGAGAAACCGUUCCAUUGCGGCUACUGUGAGAAGUCCUUCAGCGUGAAGGACUACCUAAC
((((......)----------)))..-....((((((.----.(((((((..((..((.......))....))..)))))))..))))))((((((((.....))))))))....... ( -27.10)
>DroPer_CAF1 37492 102 - 1
AAGUGUCCCAA-------------UC-UUCCUUUCGCCU-UCGUUGUU-UGUUGCAGGUGAGAAACCGUUUCAUUGCGGCUACUGUGAGAAGUCCUUCAGCGUGAAGGACUAUCUCAC
.((((......-------------..-....((((((((-.((.....-...)).))))))))..((((......)))).))))((((((((((((((.....)))))))).)))))) ( -35.60)
>consensus
_AGUAUCCCAA___________UUUC_UCCCUUUCGCC__UCGUGGUU_UAUUGCAGGUGAGAAACCGUUUCAUUGCGGCUACUGUGAGAAGUCCUUCAGCGUGAAGGACUAUCUCAC
...................................................((((((..(((......)))..)))))).....((((((((((((((.....)))))))).)))))) (-19.94 = -20.05 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:11 2006