Locus 5275

Sequence ID 2L_DroMel_CAF1
Location 14,873,721 – 14,873,817
Length 96
Max. P 0.924443
window8393 window8394

overview

Window 3

Location 14,873,721 – 14,873,817
Length 96
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 74.00
Mean single sequence MFE -28.03
Consensus MFE -12.94
Energy contribution -13.69
Covariance contribution 0.75
Combinations/Pair 1.11
Mean z-score -1.96
Structure conservation index 0.46
SVM decision value 0.63
SVM RNA-class probability 0.804620
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14873721 96 + 22407834
----AACUACC-UUGGCUUGGCCCUAAUGUGUGUCAUUUGG------CCGGCAGUUAUCUU--UGGGCCAAAUGCACAAAGGAGCGGUAAUUUUCC-----GAACAUUUCCU--UU----
----.......-((((....(((((....((((.(((((((------((.(.((....)).--).)))))))))))))....)).)))......))-----)).........--..---- ( -29.60)
>DroPse_CAF1 82391 92 + 1
----GUAUACCUUUGGCAUGGCCCUAAUGUGUGUCAUUUGGCCUCGGCCGGCAGUUAUCUC--CAGGCCAAAUUCACAAAGGGGCGGUAAUUUUCC---------------U--U-----
----((...((((((....((((..((((.....)))).))))..((((((.((....)))--).)))).......)))))).))((.......))---------------.--.----- ( -29.50)
>DroEre_CAF1 33416 100 + 1
----AACUACC-UUGGCUUGGCCCUAAUGUGUGUCAUUUGG------CCGGCAGUUAUCUU--AGGGCCAAAUGCACAAAGGGGCGGUAAUUUUGC-----GAACAUUUCCU--UUUCUU
----.......-..((..(((((((....((((.(((((((------((...((....)).--..)))))))))))))..))))).(((....)))-----...))...)).--...... ( -30.30)
>DroWil_CAF1 196936 101 + 1
GGCUGCCUACC-UUGG------CCUAAUAUGUGUCAUUUGG------CCGGCAGUUAUCUUUUUUGGCCAAAUUUACAAAGGGGCGGUAAUUUUCUUUUUUUCACAUUUCCU--UU----
.((((((..((-((((------((......).)))((((((------((((.((......)).)))))))))).....))))))))))........................--..---- ( -25.90)
>DroAna_CAF1 32411 92 + 1
----GUGUACC-U-----UGGUCCUAAUAUAUGUCAUUUGG------CCGGCAGUUAUCUU--CGGCCCAAAUGCACAAAGGGGCGGUAAUUUUCU------UACAUUUUCUCCUU----
----...((((-.-----..(((((......((((((((((------((((.((....)))--))).))))))).)))..))))))))).......------..............---- ( -23.40)
>DroPer_CAF1 64994 92 + 1
----GUAUACCUUUGGCAUGGCCCUAAUGUGUGUCAUUUGGCCUCGGCCGGCAGUUAUCUC--CAGGCCAAAUUCACAAAGGGGCGGUAAUUUUCC---------------U--U-----
----((...((((((....((((..((((.....)))).))))..((((((.((....)))--).)))).......)))))).))((.......))---------------.--.----- ( -29.50)
>consensus
____GUCUACC_UUGGC_UGGCCCUAAUGUGUGUCAUUUGG______CCGGCAGUUAUCUU__CGGGCCAAAUGCACAAAGGGGCGGUAAUUUUCC_______ACAUUUCCU__UU____
.......((((.........(((((....((((......(((....)))(((..............))).....))))..)))))))))............................... (-12.94 = -13.69 +   0.75)

alignment

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secondary structure

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dotplot

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Window 4

Location 14,873,721 – 14,873,817
Length 96
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 74.00
Mean single sequence MFE -26.92
Consensus MFE -11.91
Energy contribution -12.44
Covariance contribution 0.53
Combinations/Pair 1.17
Mean z-score -2.21
Structure conservation index 0.44
SVM decision value 1.16
SVM RNA-class probability 0.924443
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14873721 96 - 22407834
----AA--AGGAAAUGUUC-----GGAAAAUUACCGCUCCUUUGUGCAUUUGGCCCA--AAGAUAACUGCCGG------CCAAAUGACACACAUUAGGGCCAAGCCAA-GGUAGUU----
----..--...........-----....(((((((.......(((((((((((((..--.((....))...))------))))))).))))......(((...)))..-)))))))---- ( -28.80)
>DroPse_CAF1 82391 92 - 1
-----A--A---------------GGAAAAUUACCGCCCCUUUGUGAAUUUGGCCUG--GAGAUAACUGCCGGCCGAGGCCAAAUGACACACAUUAGGGCCAUGCCAAAGGUAUAC----
-----.--.---------------((.......))((((...((((.((((((((((--(.(........)..)).)))))))))....))))...)))).(((((...)))))..---- ( -29.90)
>DroEre_CAF1 33416 100 - 1
AAGAAA--AGGAAAUGUUC-----GCAAAAUUACCGCCCCUUUGUGCAUUUGGCCCU--AAGAUAACUGCCGG------CCAAAUGACACACAUUAGGGCCAAGCCAA-GGUAGUU----
......--...........-----....(((((((((((((.(((((((((((((..--.((....))...))------))))))).))))....))))....))...-)))))))---- ( -29.90)
>DroWil_CAF1 196936 101 - 1
----AA--AGGAAAUGUGAAAAAAAGAAAAUUACCGCCCCUUUGUAAAUUUGGCCAAAAAAGAUAACUGCCGG------CCAAAUGACACAUAUUAGG------CCAA-GGUAGGCAGCC
----..--.((...(((.............((((((((....(((..((((((((.....((....))...))------))))))...))).....))------)...-)))))))).)) ( -20.11)
>DroAna_CAF1 32411 92 - 1
----AAGGAGAAAAUGUA------AGAAAAUUACCGCCCCUUUGUGCAUUUGGGCCG--AAGAUAACUGCCGG------CCAAAUGACAUAUAUUAGGACCA-----A-GGUACAC----
----..............------.......((((...(((.(((((((((((.(((--.((....))..)))------))))))).))))....)))....-----.-))))...---- ( -22.90)
>DroPer_CAF1 64994 92 - 1
-----A--A---------------GGAAAAUUACCGCCCCUUUGUGAAUUUGGCCUG--GAGAUAACUGCCGGCCGAGGCCAAAUGACACACAUUAGGGCCAUGCCAAAGGUAUAC----
-----.--.---------------((.......))((((...((((.((((((((((--(.(........)..)).)))))))))....))))...)))).(((((...)))))..---- ( -29.90)
>consensus
____AA__AGGAAAUGU_______GGAAAAUUACCGCCCCUUUGUGAAUUUGGCCCG__AAGAUAACUGCCGG______CCAAAUGACACACAUUAGGGCCA_GCCAA_GGUAGAC____
...............................((((((((...((((.....(((..............)))(((....)))........))))...)))).........))))....... (-11.91 = -12.44 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:19 2006