Locus 7733

Sequence ID	X_DroMel_CAF1
Location	19,243,142 – 19,243,322
Length	180
Max. P	0.896502

overview

Window 5

Location	19,243,142 – 19,243,247
Length	105
Sequences	4
Columns	105
Reading direction	reverse
Mean pairwise identity	85.39
Mean single sequence MFE	-22.18
Consensus MFE	-18.59
Energy contribution	-19.21
Covariance contribution	0.62
Combinations/Pair	1.08
Mean z-score	-1.54
Structure conservation index	0.84
SVM decision value	0.24
SVM RNA-class probability	0.649539
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19243142 105 - 22224390
UGACCAUGUCGGGUCACAAAACCACGUGACCCAUCUUUUGUCUCCACGCACCCAAUCAGAUAACCGCGAAGCGGAGCUGCCACUACCACUACCCCCAACCUCUCG
.(((...(..(((((((........)))))))..)....)))..............(((....((((...))))..))).......................... ( -21.40)
>DroSec_CAF1 30078 98 - 1
UGACCAUGUCGGGUCACAA-ACCACGUGACCCAUCUUUUGUCUCCACGCACCCAAUCAGAUAACCGCGAAGCGGAGCAGUCACUCCC----CCCCCAC--CCUCG
((((..(((((((((((..-.....)))))))......(((......)))........)))).((((...))))....)))).....----.......--..... ( -23.40)
>DroSim_CAF1 26657 97 - 1
UGACCAUGUCGGGUCACCA-ACCACGUGACCCAUCUUUUGUCUCCACGCACCCAAUCAGAUAACCGCGAAGCGGAGCAGUCACUCCC-----CCCCAC--CCUCG
((((..(((((((((((..-.....)))))))......(((......)))........)))).((((...))))....)))).....-----......--..... ( -22.80)
>DroEre_CAF1 27888 89 - 1
UGACCAUGCUGGGUCACAA-ACCACGUGACCCAUCUUUUGUCUCCACGCACCCAACCAGACAACCGCGAAGCGAAGCAGCCACUCCC----CUU-----------
......(((((((((((..-.....))))))).....((((((..............)))))).(((...))).)))).........----...----------- ( -21.14)
>consensus
UGACCAUGUCGGGUCACAA_ACCACGUGACCCAUCUUUUGUCUCCACGCACCCAAUCAGAUAACCGCGAAGCGGAGCAGCCACUCCC____CCCCCAC__CCUCG
((((..(((.(((((((........))))))).....((((((..............))))))((((...)))).)))))))....................... (-18.59 = -19.21 +   0.62)

alignment

secondary structure

dotplot

Window 6

Location	19,243,173 – 19,243,286
Length	113
Sequences	5
Columns	117
Reading direction	forward
Mean pairwise identity	90.77
Mean single sequence MFE	-38.91
Consensus MFE	-33.46
Energy contribution	-33.38
Covariance contribution	-0.08
Combinations/Pair	1.10
Mean z-score	-1.44
Structure conservation index	0.86
SVM decision value	0.57
SVM RNA-class probability	0.784247
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19243173 113 + 22224390
CCGCUUCGCGGUUAUCUGAUUGGGUGCGUGGAGACAAAAGAUGGGUCACGUGGUUUUGUGACC---CGACAUGGUCAUGCAGAAA-AGGAACGAGGCGGAGUAGUUCAUUUCGGCAG
(((((((((((((....)))))..(((((((...((...(.(((((((((......)))))))---)).).)).)))))))....-.....)))))))).................. ( -37.80)
>DroSec_CAF1 30103 111 + 1
CCGCUUCGCGGUUAUCUGAUUGGGUGCGUGGAGACAAAAGAUGGGUCACGUGGU-UUGUGACC---CGACAUGGUCACGCAGAAA-AUAAACGAGGCGGAGGAGUUCAUUUCGGCA-
(((((((((((((....)))))..(((((((...((...(.(((((((((....-.)))))))---)).).)).)))))))....-.....))))))))..(((.....)))....- ( -39.60)
>DroSim_CAF1 26681 111 + 1
CCGCUUCGCGGUUAUCUGAUUGGGUGCGUGGAGACAAAAGAUGGGUCACGUGGU-UGGUGACC---CGACAUGGUCACGCAGAAA-AUAAACGAGGCGGAGGAGUUCAUUUUGGCG-
(((((((((((((....)))))..(((((((...((...(.((((((((.....-..))))))---)).).)).)))))))....-.....)))))))).................- ( -38.20)
>DroEre_CAF1 27904 112 + 1
UCGCUUCGCGGUUGUCUGGUUGGGUGCGUGGAGACAAAAGAUGGGUCACGUGGU-UUGUGACC---CAGCAUGGUCACGCAAAAAGAUGAACGAGGCGGAGAAGCUCAUUUCGGCA-
((((((((...(..(((..(((.((((.((....))...(.(((((((((....-.)))))))---)).)...).))).)))..)))..).))))))))....(((......))).- ( -44.80)
>DroYak_CAF1 29319 115 + 1
CCGCUACGCGGUUAUCUGGUUGGAUGCGUGGAGACAAAAGAUGGGUCACGUGGU-UUGUGACCAGACACCAUGGUCACGCAGAAAAAUGAACGAGGCGGAGGAGUUCAUUUCGGCG-
((((...)))).......((((..(((((((...((.......(((((((....-.)))))))........)).)))))))...((((((((...........)))))))))))).- ( -34.16)
>consensus
CCGCUUCGCGGUUAUCUGAUUGGGUGCGUGGAGACAAAAGAUGGGUCACGUGGU_UUGUGACC___CGACAUGGUCACGCAGAAA_AUGAACGAGGCGGAGGAGUUCAUUUCGGCA_
(((((((((((....)))......(((((((...((.......(((((((......)))))))........)).)))))))..........))))))))....(((......))).. (-33.46 = -33.38 +  -0.08)

alignment

secondary structure

dotplot

Window 7

Location	19,243,173 – 19,243,286
Length	113
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	90.77
Mean single sequence MFE	-29.56
Consensus MFE	-22.18
Energy contribution	-22.62
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-1.71
Structure conservation index	0.75
SVM decision value	0.18
SVM RNA-class probability	0.623708
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19243173 113 - 22224390
CUGCCGAAAUGAACUACUCCGCCUCGUUCCU-UUUCUGCAUGACCAUGUCG---GGUCACAAAACCACGUGACCCAUCUUUUGUCUCCACGCACCCAAUCAGAUAACCGCGAAGCGG
..................((((.((((....-..((((...(((...)))(---((((((........)))))))........................)))).....)))).)))) ( -28.10)
>DroSec_CAF1 30103 111 - 1
-UGCCGAAAUGAACUCCUCCGCCUCGUUUAU-UUUCUGCGUGACCAUGUCG---GGUCACAA-ACCACGUGACCCAUCUUUUGUCUCCACGCACCCAAUCAGAUAACCGCGAAGCGG
-.................((((.((((((((-((..((((((..((.(..(---((((((..-.....)))))))..)...))....)))))).......))))))..)))).)))) ( -30.90)
>DroSim_CAF1 26681 111 - 1
-CGCCAAAAUGAACUCCUCCGCCUCGUUUAU-UUUCUGCGUGACCAUGUCG---GGUCACCA-ACCACGUGACCCAUCUUUUGUCUCCACGCACCCAAUCAGAUAACCGCGAAGCGG
-.................((((.((((((((-((..((((((..((.(..(---((((((..-.....)))))))..)...))....)))))).......))))))..)))).)))) ( -30.30)
>DroEre_CAF1 27904 112 - 1
-UGCCGAAAUGAGCUUCUCCGCCUCGUUCAUCUUUUUGCGUGACCAUGCUG---GGUCACAA-ACCACGUGACCCAUCUUUUGUCUCCACGCACCCAACCAGACAACCGCGAAGCGA
-...........(((((..((....(((........((((((..((.(.((---((((((..-.....)))))))).)...))....))))))........)))...)).))))).. ( -28.99)
>DroYak_CAF1 29319 115 - 1
-CGCCGAAAUGAACUCCUCCGCCUCGUUCAUUUUUCUGCGUGACCAUGGUGUCUGGUCACAA-ACCACGUGACCCAUCUUUUGUCUCCACGCAUCCAACCAGAUAACCGCGUAGCGG
-....(((((((((...........)))))))))..((((((..((.((((...((((((..-.....))))))))))...))....)))))).............((((...)))) ( -29.50)
>consensus
_UGCCGAAAUGAACUCCUCCGCCUCGUUCAU_UUUCUGCGUGACCAUGUCG___GGUCACAA_ACCACGUGACCCAUCUUUUGUCUCCACGCACCCAAUCAGAUAACCGCGAAGCGG
..................((((.((((.......((((.((((((.........)))))).......(((((..((.....))..).))))........)))).....)))).)))) (-22.18 = -22.62 +   0.44)

alignment

secondary structure

dotplot

Window 8

Location	19,243,210 – 19,243,322
Length	112
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	84.40
Mean single sequence MFE	-30.44
Consensus MFE	-19.72
Energy contribution	-19.80
Covariance contribution	0.08
Combinations/Pair	1.14
Mean z-score	-2.56
Structure conservation index	0.65
SVM decision value	0.99
SVM RNA-class probability	0.896502
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19243210 112 - 22224390
CUUGUACG----CUUACAGGGUAUUUAAGUCUCUGCCUGCCUGCCGAAAUGAACUACUCCGCCUCGUUCCU-UUUCUGCAUGACCAUGUCG---GGUCACAAAACCACGUGACCCAUCUU
.......(----(...(((((.........)))))...)).(((.((((.((((...........))))..-)))).))).(((...)))(---((((((........)))))))..... ( -27.80)
>DroSec_CAF1 30140 107 - 1
UUUGUACG----CUUACAGGGUAUUUAAAUCUCCGCG----UGCCGAAAUGAACUCCUCCGCCUCGUUUAU-UUUCUGCGUGACCAUGUCG---GGUCACAA-ACCACGUGACCCAUCUU
..((((..----..))))((((...........((((----((..(((((((((...........))))))-)))....((((((......---))))))..-..))))))))))..... ( -27.10)
>DroSim_CAF1 26718 100 - 1
-------G----GUUACAGGGUAUUUAAAUCUCUGCC----CGCCAAAAUGAACUCCUCCGCCUCGUUUAU-UUUCUGCGUGACCAUGUCG---GGUCACCA-ACCACGUGACCCAUCUU
-------(----(((((.(((((..........))))----)((.(((((((((...........))))))-)))..)))))))).....(---((((((..-.....)))))))..... ( -33.80)
>DroEre_CAF1 27941 107 - 1
-UUGUACG----CUUACAGGGUAUUCAAACCUCUGCC----UGCCGAAAUGAGCUUCUCCGCCUCGUUCAUCUUUUUGCGUGACCAUGCUG---GGUCACAA-ACCACGUGACCCAUCUU
-...((((----(...((((((......))).)))..----....(((.(((((......).)))))))........))))).......((---((((((..-.....)))))))).... ( -29.10)
>DroYak_CAF1 29356 114 - 1
-UUGCAAGAUGUUUUACAGGGUAUUUAAAUCUCUGCC----CGCCGAAAUGAACUCCUCCGCCUCGUUCAUUUUUCUGCGUGACCAUGGUGUCUGGUCACAA-ACCACGUGACCCAUCUU
-....((((((..((((.(((((..........))))----)((.(((((((((...........)))))))))...))(((((((.......)))))))..-.....))))..)))))) ( -34.40)
>consensus
_UUGUACG____CUUACAGGGUAUUUAAAUCUCUGCC____UGCCGAAAUGAACUCCUCCGCCUCGUUCAU_UUUCUGCGUGACCAUGUCG___GGUCACAA_ACCACGUGACCCAUCUU
..................((((....................((.(((((((((...........)))))..)))).))((((((.........))))))...........))))..... (-19.72 = -19.80 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:14 2006