Locus 7318

Sequence ID X_DroMel_CAF1
Location 18,259,869 – 18,260,010
Length 141
Max. P 0.985303
window11981 window11982

overview

Window 1

Location 18,259,869 – 18,259,971
Length 102
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 82.01
Mean single sequence MFE -27.54
Consensus MFE -19.50
Energy contribution -19.90
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.71
Structure conservation index 0.71
SVM decision value 2.00
SVM RNA-class probability 0.985303
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18259869 102 - 22224390
ACUUAAAGGUUGUCAAUGGCAACCACCUGAGAUGGCCUGACCA-CCACCACCA------CCACCCACUGGACCGGUGGCACAACAUUCCUGCACAGGGCC-AAAAUUCAU
.((((..((((((.....))))))...)))).(((((((.(((-((....(((------........)))...)))))))........((....))))))-)........ ( -28.70)
>DroSec_CAF1 33683 99 - 1
ACUUAAAGGUUGUCAACGGCAACCACCUGACAUGGCCUGACCA-CCAC---CA------CCACCCCCUAGGCCGGUGGCACAAGAUUCCUGCACAGGGUC-AAAAUCCAU
.......((((((.....)))))).......((((..(((((.-((((---(.------((........))..)))))..........((....))))))-)....)))) ( -27.30)
>DroSim_CAF1 8231 99 - 1
ACUUAAAGGUUGUCAACGGCAACCACCUGAGAUGGCCUGACCA-CCAG---CA------CCACCCACUAGGCCGGUGGCACAAGAUUCCUGCACAGGGCC-AAAAUCCAU
.((((..((((((.....))))))...)))).(((((((.(((-((.(---(.------...........)).))))))...((....)).....)))))-)........ ( -29.20)
>DroEre_CAF1 36836 94 - 1
ACUUAAAGGUUGUCAACGGCAACCACCUGACCUGGCCUAUCCA----------------CCACCCACUAGGCCGGUGGCACAACAUUAUUGCCCAGGCCCUAAAGCACAU
.......((((((.....)))))).(((((((.((((((....----------------........)))))))))((((.........))))))))............. ( -29.30)
>DroYak_CAF1 30045 98 - 1
ACUUAAAGGUUGUCAACGGCAACCACCUGACAUGGCCUAACCAACCAC---CAACUUACCCACCCACUUG----GUG----AACAUUGCUGCACAGGGCC-AAAAUACAU
.......((((((.....))))))........((((((.......(((---(((.............)))----)))----.....((.....)))))))-)........ ( -23.22)
>consensus
ACUUAAAGGUUGUCAACGGCAACCACCUGACAUGGCCUGACCA_CCAC___CA______CCACCCACUAGGCCGGUGGCACAACAUUCCUGCACAGGGCC_AAAAUACAU
.......((((((.....)))))).((((...(((.....)))................(((((.........)))))...............))))............. (-19.50 = -19.90 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 18,259,908 – 18,260,010
Length 102
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 71.48
Mean single sequence MFE -25.12
Consensus MFE -10.87
Energy contribution -12.28
Covariance contribution 1.42
Combinations/Pair 1.08
Mean z-score -1.73
Structure conservation index 0.43
SVM decision value 0.10
SVM RNA-class probability 0.584677
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18259908 102 - 22224390
AUAC-ACCAGCCAGCCCCAGGGCUGCUCGCCCAAUGUGCCACUUAAAGGUUGUCAAUGGCAACCACCUGAGAUG-GCCUGACCA-CCACCACCA------CCACCCACUGG
....-.((((.(((((....)))))............((((((((..((((((.....))))))...)))).))-)).......-.........------.......)))) ( -29.70)
>DroSec_CAF1 33722 99 - 1
AUAC-ACCAGCCAGCCCCAGGGCUCCCCGUCCAAUGCGCCACUUAAAGGUUGUCAACGGCAACCACCUGACAUG-GCCUGACCA-CCAC---CA------CCACCCCCUAG
....-..((((((....((((((............))..........((((((.....)))))).))))...))-).)))....-....---..------........... ( -22.40)
>DroSim_CAF1 8270 99 - 1
AUAC-ACCAGCCAGCCCGAGGGCUCCCCGCCCAAUGCGCCACUUAAAGGUUGUCAACGGCAACCACCUGAGAUG-GCCUGACCA-CCAG---CA------CCACCCACUAG
....-..(((...((....((((.....))))...))((((((((..((((((.....))))))...)))).))-)))))....-....---..------........... ( -26.90)
>DroEre_CAF1 36876 79 - 1
ACAC-A--AGCU---GC---------CCGCCCCAUGCGCCACUUAAAGGUUGUCAACGGCAACCACCUGACCUG-GCCUAUCCA----------------CCACCCACUAG
....-.--....---((---------((((.....))).........((((((.....)))))).........)-)).......----------------........... ( -14.40)
>DroYak_CAF1 30076 101 - 1
AUAC-ACCAGCC---UCCGGGGCU--CCGCCCAAUGCGGCACUUAAAGGUUGUCAACGGCAACCACCUGACAUG-GCCUAACCAACCAC---CAACUUACCCACCCACUUG
....-....(((---..((((...--((((.....))))........((((((.....)))))).))))....)-))............---................... ( -23.20)
>DroAna_CAF1 39401 91 - 1
AUUCUACGAGUCC-UUCGAGAACGGACGACCCCAC---ACACUUAACGGUUGUCAGCGGCAACCACCUGUCACAAGACGGGGGG----------------UCACCCACGAG
......((.((((-.........))))((((((..---.........((((((.....))))))..(((((....)))))))))----------------)).....)).. ( -34.10)
>consensus
AUAC_ACCAGCCA_CCCCAGGGCU_CCCGCCCAAUGCGCCACUUAAAGGUUGUCAACGGCAACCACCUGACAUG_GCCUGACCA_CCAC___CA______CCACCCACUAG
.......(((.........((((.....))))...............((((((.....))))))..))).......................................... (-10.87 = -12.28 +   1.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:49 2006