Multiple sequence alignment - TraesCS6B01G279500

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS6B01G279500 chr6B 100.000 2182 0 0 407 2588 505709537 505711718 0.000000e+00 4030.0
1 TraesCS6B01G279500 chr6B 100.000 130 0 0 1 130 505709131 505709260 9.250000e-60 241.0
2 TraesCS6B01G279500 chr6B 93.827 81 5 0 407 487 377483408 377483328 3.500000e-24 122.0
3 TraesCS6B01G279500 chr6B 93.421 76 5 0 410 485 650601936 650601861 2.100000e-21 113.0
4 TraesCS6B01G279500 chr6B 96.552 58 2 0 73 130 650602044 650601987 2.120000e-16 97.1
5 TraesCS6B01G279500 chr6A 91.772 1507 75 18 501 1967 455986090 455984593 0.000000e+00 2050.0
6 TraesCS6B01G279500 chr6A 87.692 195 17 6 1979 2168 455984053 455983861 1.210000e-53 220.0
7 TraesCS6B01G279500 chr6A 86.170 94 11 2 2351 2444 455983679 455983588 1.640000e-17 100.0
8 TraesCS6B01G279500 chr6D 91.813 1136 47 16 484 1590 318360537 318359419 0.000000e+00 1541.0
9 TraesCS6B01G279500 chr6D 86.431 737 77 14 1629 2347 318359422 318358691 0.000000e+00 785.0
10 TraesCS6B01G279500 chr2A 100.000 77 0 0 407 483 406798825 406798901 2.680000e-30 143.0
11 TraesCS6B01G279500 chr2A 96.491 57 2 0 74 130 406798721 406798777 7.620000e-16 95.3
12 TraesCS6B01G279500 chr4B 94.521 73 4 0 410 482 536642661 536642589 2.100000e-21 113.0
13 TraesCS6B01G279500 chr4B 96.667 60 2 0 423 482 58970920 58970861 1.640000e-17 100.0
14 TraesCS6B01G279500 chr4B 96.429 56 2 0 75 130 536642767 536642712 2.740000e-15 93.5
15 TraesCS6B01G279500 chr4A 92.208 77 6 0 407 483 47388157 47388081 2.720000e-20 110.0
16 TraesCS6B01G279500 chr3B 96.154 52 1 1 70 121 622010533 622010583 1.650000e-12 84.2
17 TraesCS6B01G279500 chr3B 92.857 56 4 0 427 482 17285358 17285303 5.940000e-12 82.4


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G279500 chr6B 505709131 505711718 2587 False 2135.5 4030 100.000000 1 2588 2 chr6B.!!$F1 2587
1 TraesCS6B01G279500 chr6A 455983588 455986090 2502 True 790.0 2050 88.544667 501 2444 3 chr6A.!!$R1 1943
2 TraesCS6B01G279500 chr6D 318358691 318360537 1846 True 1163.0 1541 89.122000 484 2347 2 chr6D.!!$R1 1863

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
667 669 0.030235 CGCACATCGATTCCTACGGA 59.97 55.0 0.0 0.0 41.67 4.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2316 2906 0.60478 GCAAGGAGCTGAGCTGAACA 60.605 55.0 13.71 0.0 39.88 3.18 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 6.627395 TCGTTTATTTGCTCAGAAAAGGAA 57.373 33.333 0.00 0.00 0.00 3.36
24 25 7.214467 TCGTTTATTTGCTCAGAAAAGGAAT 57.786 32.000 0.00 0.00 0.00 3.01
25 26 7.657336 TCGTTTATTTGCTCAGAAAAGGAATT 58.343 30.769 0.00 0.00 0.00 2.17
26 27 7.807907 TCGTTTATTTGCTCAGAAAAGGAATTC 59.192 33.333 0.00 0.00 0.00 2.17
27 28 7.062255 CGTTTATTTGCTCAGAAAAGGAATTCC 59.938 37.037 17.31 17.31 0.00 3.01
39 40 3.872459 AGGAATTCCTGCTAATCCTGG 57.128 47.619 26.52 0.00 46.55 4.45
40 41 3.126453 AGGAATTCCTGCTAATCCTGGT 58.874 45.455 26.52 0.00 46.55 4.00
41 42 4.307259 AGGAATTCCTGCTAATCCTGGTA 58.693 43.478 26.52 0.00 46.55 3.25
42 43 4.349342 AGGAATTCCTGCTAATCCTGGTAG 59.651 45.833 26.52 0.00 46.55 3.18
43 44 3.778954 ATTCCTGCTAATCCTGGTAGC 57.221 47.619 8.89 8.89 43.57 3.58
44 45 2.478872 TCCTGCTAATCCTGGTAGCT 57.521 50.000 15.02 0.00 43.65 3.32
45 46 2.764269 TCCTGCTAATCCTGGTAGCTT 58.236 47.619 15.02 0.01 43.65 3.74
46 47 3.115390 TCCTGCTAATCCTGGTAGCTTT 58.885 45.455 15.02 0.00 43.65 3.51
47 48 3.118261 TCCTGCTAATCCTGGTAGCTTTG 60.118 47.826 15.02 7.37 43.65 2.77
48 49 3.209410 CTGCTAATCCTGGTAGCTTTGG 58.791 50.000 15.02 0.00 43.65 3.28
49 50 2.843730 TGCTAATCCTGGTAGCTTTGGA 59.156 45.455 15.02 0.00 43.65 3.53
50 51 3.206964 GCTAATCCTGGTAGCTTTGGAC 58.793 50.000 8.62 0.00 40.71 4.02
51 52 3.118223 GCTAATCCTGGTAGCTTTGGACT 60.118 47.826 8.62 0.00 40.71 3.85
52 53 3.636153 AATCCTGGTAGCTTTGGACTC 57.364 47.619 0.00 0.00 0.00 3.36
53 54 2.327325 TCCTGGTAGCTTTGGACTCT 57.673 50.000 0.00 0.00 0.00 3.24
54 55 1.902508 TCCTGGTAGCTTTGGACTCTG 59.097 52.381 0.00 0.00 0.00 3.35
55 56 1.677217 CCTGGTAGCTTTGGACTCTGC 60.677 57.143 0.00 0.00 0.00 4.26
56 57 1.277557 CTGGTAGCTTTGGACTCTGCT 59.722 52.381 0.00 0.00 39.30 4.24
57 58 1.699634 TGGTAGCTTTGGACTCTGCTT 59.300 47.619 0.00 0.00 37.02 3.91
58 59 2.106511 TGGTAGCTTTGGACTCTGCTTT 59.893 45.455 0.00 0.00 37.02 3.51
59 60 2.485814 GGTAGCTTTGGACTCTGCTTTG 59.514 50.000 0.00 0.00 37.02 2.77
60 61 1.613836 AGCTTTGGACTCTGCTTTGG 58.386 50.000 0.00 0.00 30.96 3.28
61 62 1.143684 AGCTTTGGACTCTGCTTTGGA 59.856 47.619 0.00 0.00 30.96 3.53
62 63 1.538950 GCTTTGGACTCTGCTTTGGAG 59.461 52.381 0.00 0.00 36.92 3.86
63 64 2.811873 GCTTTGGACTCTGCTTTGGAGA 60.812 50.000 0.00 0.00 35.10 3.71
64 65 3.683802 CTTTGGACTCTGCTTTGGAGAT 58.316 45.455 0.00 0.00 35.10 2.75
65 66 3.795688 TTGGACTCTGCTTTGGAGATT 57.204 42.857 0.00 0.00 35.10 2.40
66 67 3.795688 TGGACTCTGCTTTGGAGATTT 57.204 42.857 0.00 0.00 35.10 2.17
67 68 3.679389 TGGACTCTGCTTTGGAGATTTC 58.321 45.455 0.00 0.00 35.10 2.17
68 69 3.072915 TGGACTCTGCTTTGGAGATTTCA 59.927 43.478 0.00 0.00 35.10 2.69
69 70 3.688673 GGACTCTGCTTTGGAGATTTCAG 59.311 47.826 0.00 0.00 35.10 3.02
70 71 4.564406 GGACTCTGCTTTGGAGATTTCAGA 60.564 45.833 0.00 0.00 35.10 3.27
71 72 5.176741 ACTCTGCTTTGGAGATTTCAGAT 57.823 39.130 0.00 0.00 35.10 2.90
72 73 4.942483 ACTCTGCTTTGGAGATTTCAGATG 59.058 41.667 0.00 0.00 35.10 2.90
73 74 3.693085 TCTGCTTTGGAGATTTCAGATGC 59.307 43.478 0.00 0.00 0.00 3.91
74 75 3.423749 TGCTTTGGAGATTTCAGATGCA 58.576 40.909 0.00 0.00 0.00 3.96
75 76 3.827876 TGCTTTGGAGATTTCAGATGCAA 59.172 39.130 0.00 0.00 0.00 4.08
76 77 4.281435 TGCTTTGGAGATTTCAGATGCAAA 59.719 37.500 0.00 0.00 0.00 3.68
77 78 5.221481 TGCTTTGGAGATTTCAGATGCAAAA 60.221 36.000 0.00 0.00 0.00 2.44
78 79 5.697633 GCTTTGGAGATTTCAGATGCAAAAA 59.302 36.000 0.00 0.00 0.00 1.94
79 80 6.370718 GCTTTGGAGATTTCAGATGCAAAAAT 59.629 34.615 0.00 0.00 0.00 1.82
80 81 7.623506 GCTTTGGAGATTTCAGATGCAAAAATG 60.624 37.037 0.00 0.00 0.00 2.32
81 82 5.172934 TGGAGATTTCAGATGCAAAAATGC 58.827 37.500 0.00 0.00 0.00 3.56
82 83 5.046878 TGGAGATTTCAGATGCAAAAATGCT 60.047 36.000 0.00 0.00 35.49 3.79
83 84 6.153170 TGGAGATTTCAGATGCAAAAATGCTA 59.847 34.615 0.00 0.00 35.49 3.49
84 85 6.474751 GGAGATTTCAGATGCAAAAATGCTAC 59.525 38.462 0.00 0.00 35.49 3.58
85 86 6.927416 AGATTTCAGATGCAAAAATGCTACA 58.073 32.000 0.00 0.00 35.49 2.74
86 87 6.810182 AGATTTCAGATGCAAAAATGCTACAC 59.190 34.615 0.00 0.00 35.49 2.90
87 88 4.439305 TCAGATGCAAAAATGCTACACC 57.561 40.909 0.00 0.00 35.49 4.16
88 89 4.081406 TCAGATGCAAAAATGCTACACCT 58.919 39.130 0.00 0.00 35.49 4.00
89 90 5.252547 TCAGATGCAAAAATGCTACACCTA 58.747 37.500 0.00 0.00 35.49 3.08
90 91 5.123820 TCAGATGCAAAAATGCTACACCTAC 59.876 40.000 0.00 0.00 35.49 3.18
91 92 3.822594 TGCAAAAATGCTACACCTACG 57.177 42.857 2.22 0.00 35.49 3.51
92 93 2.486203 TGCAAAAATGCTACACCTACGG 59.514 45.455 2.22 0.00 35.49 4.02
93 94 2.745281 GCAAAAATGCTACACCTACGGA 59.255 45.455 0.00 0.00 0.00 4.69
94 95 3.425758 GCAAAAATGCTACACCTACGGAC 60.426 47.826 0.00 0.00 0.00 4.79
95 96 3.688694 AAAATGCTACACCTACGGACA 57.311 42.857 0.00 0.00 0.00 4.02
96 97 3.688694 AAATGCTACACCTACGGACAA 57.311 42.857 0.00 0.00 0.00 3.18
97 98 2.667473 ATGCTACACCTACGGACAAC 57.333 50.000 0.00 0.00 0.00 3.32
98 99 1.624336 TGCTACACCTACGGACAACT 58.376 50.000 0.00 0.00 0.00 3.16
99 100 1.965643 TGCTACACCTACGGACAACTT 59.034 47.619 0.00 0.00 0.00 2.66
100 101 2.029649 TGCTACACCTACGGACAACTTC 60.030 50.000 0.00 0.00 0.00 3.01
101 102 2.230750 GCTACACCTACGGACAACTTCT 59.769 50.000 0.00 0.00 0.00 2.85
102 103 3.441572 GCTACACCTACGGACAACTTCTA 59.558 47.826 0.00 0.00 0.00 2.10
103 104 3.930634 ACACCTACGGACAACTTCTAC 57.069 47.619 0.00 0.00 0.00 2.59
104 105 2.227388 ACACCTACGGACAACTTCTACG 59.773 50.000 0.00 0.00 0.00 3.51
105 106 2.227388 CACCTACGGACAACTTCTACGT 59.773 50.000 0.00 0.00 41.10 3.57
106 107 3.436704 CACCTACGGACAACTTCTACGTA 59.563 47.826 0.00 0.00 38.79 3.57
107 108 4.072131 ACCTACGGACAACTTCTACGTAA 58.928 43.478 0.00 0.00 39.20 3.18
108 109 4.083271 ACCTACGGACAACTTCTACGTAAC 60.083 45.833 0.00 0.00 39.20 2.50
109 110 3.288809 ACGGACAACTTCTACGTAACC 57.711 47.619 0.00 0.00 35.85 2.85
110 111 2.887152 ACGGACAACTTCTACGTAACCT 59.113 45.455 0.00 0.00 35.85 3.50
111 112 4.072131 ACGGACAACTTCTACGTAACCTA 58.928 43.478 0.00 0.00 35.85 3.08
112 113 4.083271 ACGGACAACTTCTACGTAACCTAC 60.083 45.833 0.00 0.00 35.85 3.18
125 126 4.363138 CGTAACCTACGTAATCCCTTTCC 58.637 47.826 0.00 0.00 46.41 3.13
126 127 3.920231 AACCTACGTAATCCCTTTCCC 57.080 47.619 0.00 0.00 0.00 3.97
127 128 2.836667 ACCTACGTAATCCCTTTCCCA 58.163 47.619 0.00 0.00 0.00 4.37
128 129 2.502947 ACCTACGTAATCCCTTTCCCAC 59.497 50.000 0.00 0.00 0.00 4.61
129 130 2.770232 CCTACGTAATCCCTTTCCCACT 59.230 50.000 0.00 0.00 0.00 4.00
430 431 4.935352 TGGCCAATAAATATCTGCCAAC 57.065 40.909 0.61 0.00 45.23 3.77
431 432 4.545678 TGGCCAATAAATATCTGCCAACT 58.454 39.130 0.61 0.00 45.23 3.16
432 433 4.584325 TGGCCAATAAATATCTGCCAACTC 59.416 41.667 0.61 0.00 45.23 3.01
433 434 4.584325 GGCCAATAAATATCTGCCAACTCA 59.416 41.667 0.00 0.00 38.73 3.41
434 435 5.278660 GGCCAATAAATATCTGCCAACTCAG 60.279 44.000 0.00 0.00 38.73 3.35
435 436 5.766222 CCAATAAATATCTGCCAACTCAGC 58.234 41.667 0.00 0.00 34.19 4.26
436 437 5.533903 CCAATAAATATCTGCCAACTCAGCT 59.466 40.000 0.00 0.00 34.19 4.24
437 438 6.293845 CCAATAAATATCTGCCAACTCAGCTC 60.294 42.308 0.00 0.00 34.19 4.09
438 439 3.920231 AATATCTGCCAACTCAGCTCA 57.080 42.857 0.00 0.00 34.19 4.26
439 440 4.434545 AATATCTGCCAACTCAGCTCAT 57.565 40.909 0.00 0.00 34.19 2.90
440 441 5.557576 AATATCTGCCAACTCAGCTCATA 57.442 39.130 0.00 0.00 34.19 2.15
441 442 2.680312 TCTGCCAACTCAGCTCATAC 57.320 50.000 0.00 0.00 34.19 2.39
442 443 1.134995 TCTGCCAACTCAGCTCATACG 60.135 52.381 0.00 0.00 34.19 3.06
443 444 0.608130 TGCCAACTCAGCTCATACGT 59.392 50.000 0.00 0.00 0.00 3.57
444 445 1.822371 TGCCAACTCAGCTCATACGTA 59.178 47.619 0.00 0.00 0.00 3.57
445 446 2.232696 TGCCAACTCAGCTCATACGTAA 59.767 45.455 0.00 0.00 0.00 3.18
446 447 7.619205 TCTGCCAACTCAGCTCATACGTAAG 62.619 48.000 0.00 0.00 37.41 2.34
447 448 3.428999 GCCAACTCAGCTCATACGTAAGA 60.429 47.826 0.00 0.00 43.62 2.10
448 449 4.737946 GCCAACTCAGCTCATACGTAAGAT 60.738 45.833 0.00 0.00 43.62 2.40
449 450 5.507482 GCCAACTCAGCTCATACGTAAGATA 60.507 44.000 0.00 0.00 43.62 1.98
450 451 5.915758 CCAACTCAGCTCATACGTAAGATAC 59.084 44.000 0.00 0.00 43.62 2.24
476 477 8.633075 GTAACAAATATTACGTAGGTGTAGCA 57.367 34.615 0.00 0.00 0.00 3.49
477 478 9.252962 GTAACAAATATTACGTAGGTGTAGCAT 57.747 33.333 0.00 0.00 0.00 3.79
478 479 8.726870 AACAAATATTACGTAGGTGTAGCATT 57.273 30.769 0.00 0.00 0.00 3.56
479 480 8.138365 ACAAATATTACGTAGGTGTAGCATTG 57.862 34.615 0.00 0.38 0.00 2.82
480 481 6.780706 AATATTACGTAGGTGTAGCATTGC 57.219 37.500 0.00 0.00 0.00 3.56
481 482 3.880047 TTACGTAGGTGTAGCATTGCT 57.120 42.857 16.63 16.63 43.41 3.91
482 483 2.295253 ACGTAGGTGTAGCATTGCTC 57.705 50.000 15.81 7.72 40.44 4.26
498 499 5.221263 GCATTGCTCTTTCAGATGGATGAAT 60.221 40.000 0.16 0.00 38.90 2.57
561 563 1.138568 TGGTTCTTCCGTAAACCCCA 58.861 50.000 2.08 0.00 43.55 4.96
568 570 2.845363 TCCGTAAACCCCAGTCTTTC 57.155 50.000 0.00 0.00 0.00 2.62
639 641 2.659428 GGCTGTCAATATGCTTTCCCT 58.341 47.619 0.00 0.00 0.00 4.20
651 653 1.152652 TTTCCCTTTCCTTGCCGCA 60.153 52.632 0.00 0.00 0.00 5.69
665 667 1.548973 GCCGCACATCGATTCCTACG 61.549 60.000 0.00 0.00 41.67 3.51
666 668 0.939577 CCGCACATCGATTCCTACGG 60.940 60.000 0.00 1.23 41.67 4.02
667 669 0.030235 CGCACATCGATTCCTACGGA 59.970 55.000 0.00 0.00 41.67 4.69
706 708 2.899900 GGATTCCAAAACCAAAGCTCCT 59.100 45.455 0.00 0.00 0.00 3.69
707 709 3.324846 GGATTCCAAAACCAAAGCTCCTT 59.675 43.478 0.00 0.00 0.00 3.36
712 722 2.358322 AAACCAAAGCTCCTTCCGAA 57.642 45.000 0.00 0.00 0.00 4.30
714 724 0.765510 ACCAAAGCTCCTTCCGAACT 59.234 50.000 0.00 0.00 0.00 3.01
719 729 0.894184 AGCTCCTTCCGAACTCACGA 60.894 55.000 0.00 0.00 35.09 4.35
850 874 2.203788 TGACAACCTCCCCTCGCT 60.204 61.111 0.00 0.00 0.00 4.93
923 954 2.794631 CGTTTCCAACAAGCCAAGACAC 60.795 50.000 0.00 0.00 0.00 3.67
926 957 0.670162 CCAACAAGCCAAGACACAGG 59.330 55.000 0.00 0.00 0.00 4.00
936 967 1.548269 CAAGACACAGGACCTCTCTCC 59.452 57.143 0.00 0.00 0.00 3.71
938 969 0.251832 GACACAGGACCTCTCTCCCA 60.252 60.000 0.00 0.00 0.00 4.37
940 971 1.304547 ACAGGACCTCTCTCCCACG 60.305 63.158 0.00 0.00 0.00 4.94
942 973 3.462678 GGACCTCTCTCCCACGGC 61.463 72.222 0.00 0.00 0.00 5.68
943 974 2.680352 GACCTCTCTCCCACGGCA 60.680 66.667 0.00 0.00 0.00 5.69
944 975 2.039624 ACCTCTCTCCCACGGCAT 59.960 61.111 0.00 0.00 0.00 4.40
988 1019 0.744874 CATCGTCTTAAGCTCCGGGA 59.255 55.000 0.00 0.00 0.00 5.14
1179 1218 1.961277 CCGCGGCTTCAACTTCACT 60.961 57.895 14.67 0.00 0.00 3.41
1479 1518 1.125633 AGGTGTGGTTCAAGTACGGT 58.874 50.000 0.00 0.00 0.00 4.83
1594 1633 3.116300 CACGTGCATATCTGAGTGGTAC 58.884 50.000 0.82 0.00 0.00 3.34
1606 1645 1.007502 GTGGTACGTACGTGGTGCA 60.008 57.895 30.25 7.51 0.00 4.57
1677 1722 1.201181 TGTGTTTGCTTGTGTGGTGTC 59.799 47.619 0.00 0.00 0.00 3.67
1685 1730 2.643551 CTTGTGTGGTGTCTTTGGTCT 58.356 47.619 0.00 0.00 0.00 3.85
1707 1752 1.005924 AGGATTCGTTCCCCATGCTTT 59.994 47.619 3.93 0.00 46.81 3.51
1722 1770 4.262808 CCATGCTTTGGGTTATTGGTTTGA 60.263 41.667 0.00 0.00 42.33 2.69
1734 1782 7.544217 GGGTTATTGGTTTGATACATGTTGTTC 59.456 37.037 2.30 0.00 0.00 3.18
1760 1808 9.632969 CTTAATCAATCTTCGTTTGTATTACGG 57.367 33.333 0.00 0.00 39.38 4.02
1881 1931 0.178068 ACACGACACATGGCTATCCC 59.822 55.000 0.00 0.00 0.00 3.85
1937 1987 2.223144 TCATTTTCGTGCAACTTCTCCG 59.777 45.455 0.00 0.00 31.75 4.63
1960 2010 1.302913 CACCGCCCACATACACCAA 60.303 57.895 0.00 0.00 0.00 3.67
1967 2017 2.163613 GCCCACATACACCAACTTTAGC 59.836 50.000 0.00 0.00 0.00 3.09
1977 2555 2.091555 ACCAACTTTAGCCCACTGGAAA 60.092 45.455 0.00 0.00 0.00 3.13
2034 2612 4.885413 TGTTCCTTCTTGCATTGGATTTG 58.115 39.130 0.00 0.00 0.00 2.32
2054 2632 0.759346 GACCATACCAGCCTACCAGG 59.241 60.000 0.00 0.00 38.80 4.45
2062 2640 3.735725 GCCTACCAGGGGCTAACA 58.264 61.111 0.00 0.00 45.57 2.41
2064 2642 1.520666 CCTACCAGGGGCTAACACG 59.479 63.158 0.00 0.00 0.00 4.49
2072 2650 0.676782 GGGGCTAACACGTGCTTCAT 60.677 55.000 17.22 0.00 0.00 2.57
2075 2653 0.247301 GCTAACACGTGCTTCATCGC 60.247 55.000 17.22 5.18 0.00 4.58
2076 2654 1.067693 CTAACACGTGCTTCATCGCA 58.932 50.000 17.22 0.00 37.62 5.10
2091 2669 3.123453 TCATCGCATCGTTCTTGTTCTTG 59.877 43.478 0.00 0.00 0.00 3.02
2092 2670 1.194547 TCGCATCGTTCTTGTTCTTGC 59.805 47.619 0.00 0.00 0.00 4.01
2132 2720 3.663176 CGTGTGGGGCTGCTGTTG 61.663 66.667 0.00 0.00 0.00 3.33
2151 2739 5.924356 TGTTGGAGACTGTATTTGTTCTGA 58.076 37.500 0.00 0.00 0.00 3.27
2153 2741 6.183360 TGTTGGAGACTGTATTTGTTCTGAGA 60.183 38.462 0.00 0.00 0.00 3.27
2154 2742 6.611613 TGGAGACTGTATTTGTTCTGAGAT 57.388 37.500 0.00 0.00 0.00 2.75
2158 2746 5.249393 AGACTGTATTTGTTCTGAGATGGGT 59.751 40.000 0.00 0.00 0.00 4.51
2162 2750 3.855255 TTTGTTCTGAGATGGGTGTGA 57.145 42.857 0.00 0.00 0.00 3.58
2172 2760 3.631250 AGATGGGTGTGAAGTTGTTTGT 58.369 40.909 0.00 0.00 0.00 2.83
2175 2763 2.894126 TGGGTGTGAAGTTGTTTGTTGT 59.106 40.909 0.00 0.00 0.00 3.32
2176 2764 4.079970 TGGGTGTGAAGTTGTTTGTTGTA 58.920 39.130 0.00 0.00 0.00 2.41
2179 2767 5.163602 GGGTGTGAAGTTGTTTGTTGTATGA 60.164 40.000 0.00 0.00 0.00 2.15
2185 2773 6.977502 TGAAGTTGTTTGTTGTATGATTGTGG 59.022 34.615 0.00 0.00 0.00 4.17
2187 2775 6.272318 AGTTGTTTGTTGTATGATTGTGGTG 58.728 36.000 0.00 0.00 0.00 4.17
2200 2788 5.136828 TGATTGTGGTGTCCTTACATGTTT 58.863 37.500 2.30 0.00 38.08 2.83
2201 2789 6.299922 TGATTGTGGTGTCCTTACATGTTTA 58.700 36.000 2.30 0.00 38.08 2.01
2202 2790 6.773200 TGATTGTGGTGTCCTTACATGTTTAA 59.227 34.615 2.30 0.00 38.08 1.52
2204 2792 5.067273 TGTGGTGTCCTTACATGTTTAAGG 58.933 41.667 17.97 17.97 46.82 2.69
2234 2822 2.260844 AGCCGATGATGGTTATGTGG 57.739 50.000 0.00 0.00 0.00 4.17
2243 2831 1.381191 GGTTATGTGGGCCCCTTGG 60.381 63.158 22.27 0.00 0.00 3.61
2258 2846 2.441001 CCCTTGGGAGCTCATACTTCAT 59.559 50.000 17.19 0.00 0.00 2.57
2270 2859 7.112122 AGCTCATACTTCATGTTGAAACCATA 58.888 34.615 0.00 0.00 35.73 2.74
2271 2860 7.281774 AGCTCATACTTCATGTTGAAACCATAG 59.718 37.037 0.00 0.00 35.73 2.23
2274 2863 9.166173 TCATACTTCATGTTGAAACCATAGAAG 57.834 33.333 0.00 0.00 35.73 2.85
2280 2869 5.689383 TGTTGAAACCATAGAAGTGCTTC 57.311 39.130 3.89 3.89 39.78 3.86
2316 2906 1.250840 GGCCAATGAAGTTCCCGCTT 61.251 55.000 0.00 0.00 0.00 4.68
2318 2908 1.247567 CCAATGAAGTTCCCGCTTGT 58.752 50.000 0.00 0.00 0.00 3.16
2332 2922 0.321475 GCTTGTTCAGCTCAGCTCCT 60.321 55.000 0.00 0.00 46.27 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.627395 TTCCTTTTCTGAGCAAATAAACGA 57.373 33.333 0.00 0.00 0.00 3.85
1 2 7.062255 GGAATTCCTTTTCTGAGCAAATAAACG 59.938 37.037 17.73 0.00 0.00 3.60
2 3 8.090831 AGGAATTCCTTTTCTGAGCAAATAAAC 58.909 33.333 21.89 0.00 46.09 2.01
3 4 8.090214 CAGGAATTCCTTTTCTGAGCAAATAAA 58.910 33.333 24.93 0.00 46.09 1.40
4 5 7.605449 CAGGAATTCCTTTTCTGAGCAAATAA 58.395 34.615 24.93 0.00 46.09 1.40
5 6 6.350445 GCAGGAATTCCTTTTCTGAGCAAATA 60.350 38.462 24.93 0.00 46.09 1.40
6 7 5.568223 GCAGGAATTCCTTTTCTGAGCAAAT 60.568 40.000 24.93 0.00 46.09 2.32
7 8 4.262164 GCAGGAATTCCTTTTCTGAGCAAA 60.262 41.667 24.93 0.00 46.09 3.68
8 9 3.256631 GCAGGAATTCCTTTTCTGAGCAA 59.743 43.478 24.93 0.00 46.09 3.91
9 10 2.821969 GCAGGAATTCCTTTTCTGAGCA 59.178 45.455 24.93 0.00 46.09 4.26
10 11 3.087781 AGCAGGAATTCCTTTTCTGAGC 58.912 45.455 24.93 21.11 46.09 4.26
11 12 6.039159 GGATTAGCAGGAATTCCTTTTCTGAG 59.961 42.308 24.93 12.41 46.09 3.35
12 13 5.888161 GGATTAGCAGGAATTCCTTTTCTGA 59.112 40.000 24.93 17.18 46.09 3.27
13 14 5.890419 AGGATTAGCAGGAATTCCTTTTCTG 59.110 40.000 24.93 14.70 46.09 3.02
14 15 5.890419 CAGGATTAGCAGGAATTCCTTTTCT 59.110 40.000 24.93 21.31 46.09 2.52
15 16 5.068329 CCAGGATTAGCAGGAATTCCTTTTC 59.932 44.000 24.93 15.76 46.09 2.29
16 17 4.958581 CCAGGATTAGCAGGAATTCCTTTT 59.041 41.667 24.93 17.07 46.09 2.27
17 18 4.017130 ACCAGGATTAGCAGGAATTCCTTT 60.017 41.667 24.93 17.42 46.09 3.11
18 19 3.529319 ACCAGGATTAGCAGGAATTCCTT 59.471 43.478 24.93 13.90 46.09 3.36
20 21 3.584733 ACCAGGATTAGCAGGAATTCC 57.415 47.619 17.31 17.31 0.00 3.01
21 22 4.068599 GCTACCAGGATTAGCAGGAATTC 58.931 47.826 4.50 0.00 41.48 2.17
22 23 3.718956 AGCTACCAGGATTAGCAGGAATT 59.281 43.478 10.90 0.00 43.85 2.17
23 24 3.321950 AGCTACCAGGATTAGCAGGAAT 58.678 45.455 10.90 0.00 43.85 3.01
24 25 2.764269 AGCTACCAGGATTAGCAGGAA 58.236 47.619 10.90 0.00 43.85 3.36
25 26 2.478872 AGCTACCAGGATTAGCAGGA 57.521 50.000 10.90 0.00 43.85 3.86
26 27 3.209410 CAAAGCTACCAGGATTAGCAGG 58.791 50.000 10.90 0.00 43.85 4.85
27 28 3.118261 TCCAAAGCTACCAGGATTAGCAG 60.118 47.826 10.90 1.99 43.85 4.24
28 29 2.843730 TCCAAAGCTACCAGGATTAGCA 59.156 45.455 10.90 0.00 43.85 3.49
29 30 3.118223 AGTCCAAAGCTACCAGGATTAGC 60.118 47.826 0.00 0.00 42.06 3.09
30 31 4.407296 AGAGTCCAAAGCTACCAGGATTAG 59.593 45.833 0.00 0.00 31.91 1.73
31 32 4.162320 CAGAGTCCAAAGCTACCAGGATTA 59.838 45.833 0.00 0.00 31.91 1.75
32 33 3.054802 CAGAGTCCAAAGCTACCAGGATT 60.055 47.826 0.00 0.00 31.91 3.01
33 34 2.503356 CAGAGTCCAAAGCTACCAGGAT 59.497 50.000 0.00 0.00 31.91 3.24
34 35 1.902508 CAGAGTCCAAAGCTACCAGGA 59.097 52.381 0.00 0.00 0.00 3.86
35 36 1.677217 GCAGAGTCCAAAGCTACCAGG 60.677 57.143 0.00 0.00 0.00 4.45
36 37 1.277557 AGCAGAGTCCAAAGCTACCAG 59.722 52.381 0.00 0.00 35.19 4.00
37 38 1.352083 AGCAGAGTCCAAAGCTACCA 58.648 50.000 0.00 0.00 35.19 3.25
38 39 2.481289 AAGCAGAGTCCAAAGCTACC 57.519 50.000 0.00 0.00 36.07 3.18
39 40 2.485814 CCAAAGCAGAGTCCAAAGCTAC 59.514 50.000 0.00 0.00 36.07 3.58
40 41 2.371841 TCCAAAGCAGAGTCCAAAGCTA 59.628 45.455 0.00 0.00 36.07 3.32
41 42 1.143684 TCCAAAGCAGAGTCCAAAGCT 59.856 47.619 0.00 0.00 39.37 3.74
42 43 1.538950 CTCCAAAGCAGAGTCCAAAGC 59.461 52.381 0.00 0.00 0.00 3.51
43 44 3.131709 TCTCCAAAGCAGAGTCCAAAG 57.868 47.619 0.00 0.00 32.93 2.77
44 45 3.795688 ATCTCCAAAGCAGAGTCCAAA 57.204 42.857 0.00 0.00 32.93 3.28
45 46 3.795688 AATCTCCAAAGCAGAGTCCAA 57.204 42.857 0.00 0.00 32.93 3.53
46 47 3.072915 TGAAATCTCCAAAGCAGAGTCCA 59.927 43.478 0.00 0.00 32.93 4.02
47 48 3.679389 TGAAATCTCCAAAGCAGAGTCC 58.321 45.455 0.00 0.00 32.93 3.85
48 49 4.573900 TCTGAAATCTCCAAAGCAGAGTC 58.426 43.478 0.00 0.00 32.93 3.36
49 50 4.630644 TCTGAAATCTCCAAAGCAGAGT 57.369 40.909 0.00 0.00 32.93 3.24
50 51 4.201930 GCATCTGAAATCTCCAAAGCAGAG 60.202 45.833 0.00 0.00 36.04 3.35
51 52 3.693085 GCATCTGAAATCTCCAAAGCAGA 59.307 43.478 0.00 0.00 36.88 4.26
52 53 3.442625 TGCATCTGAAATCTCCAAAGCAG 59.557 43.478 0.00 0.00 0.00 4.24
53 54 3.423749 TGCATCTGAAATCTCCAAAGCA 58.576 40.909 0.00 0.00 0.00 3.91
54 55 4.445452 TTGCATCTGAAATCTCCAAAGC 57.555 40.909 0.00 0.00 0.00 3.51
55 56 7.623506 GCATTTTTGCATCTGAAATCTCCAAAG 60.624 37.037 0.00 0.00 34.41 2.77
56 57 6.148150 GCATTTTTGCATCTGAAATCTCCAAA 59.852 34.615 0.00 0.00 34.41 3.28
57 58 5.640357 GCATTTTTGCATCTGAAATCTCCAA 59.360 36.000 0.00 0.00 34.41 3.53
58 59 5.046878 AGCATTTTTGCATCTGAAATCTCCA 60.047 36.000 0.33 0.00 37.25 3.86
59 60 5.416947 AGCATTTTTGCATCTGAAATCTCC 58.583 37.500 0.33 0.00 37.25 3.71
60 61 7.008992 GTGTAGCATTTTTGCATCTGAAATCTC 59.991 37.037 0.33 0.00 37.25 2.75
61 62 6.810182 GTGTAGCATTTTTGCATCTGAAATCT 59.190 34.615 0.33 0.00 37.25 2.40
62 63 6.035327 GGTGTAGCATTTTTGCATCTGAAATC 59.965 38.462 0.33 0.00 37.25 2.17
63 64 5.870978 GGTGTAGCATTTTTGCATCTGAAAT 59.129 36.000 0.33 0.00 37.25 2.17
64 65 5.010922 AGGTGTAGCATTTTTGCATCTGAAA 59.989 36.000 0.33 0.00 37.25 2.69
65 66 4.523943 AGGTGTAGCATTTTTGCATCTGAA 59.476 37.500 0.33 0.00 37.25 3.02
66 67 4.081406 AGGTGTAGCATTTTTGCATCTGA 58.919 39.130 0.33 0.00 37.25 3.27
67 68 4.445452 AGGTGTAGCATTTTTGCATCTG 57.555 40.909 0.33 0.00 37.25 2.90
68 69 4.094887 CGTAGGTGTAGCATTTTTGCATCT 59.905 41.667 0.33 0.00 37.25 2.90
69 70 4.342772 CGTAGGTGTAGCATTTTTGCATC 58.657 43.478 0.33 0.00 37.25 3.91
70 71 4.355543 CGTAGGTGTAGCATTTTTGCAT 57.644 40.909 0.33 0.00 37.25 3.96
71 72 3.822594 CGTAGGTGTAGCATTTTTGCA 57.177 42.857 0.33 0.00 37.25 4.08
87 88 4.154918 AGGTTACGTAGAAGTTGTCCGTAG 59.845 45.833 0.00 0.00 35.68 3.51
88 89 4.072131 AGGTTACGTAGAAGTTGTCCGTA 58.928 43.478 0.00 0.00 33.32 4.02
89 90 2.887152 AGGTTACGTAGAAGTTGTCCGT 59.113 45.455 0.00 0.00 35.68 4.69
90 91 3.565905 AGGTTACGTAGAAGTTGTCCG 57.434 47.619 0.00 0.00 0.00 4.79
91 92 4.406943 CGTAGGTTACGTAGAAGTTGTCC 58.593 47.826 0.00 0.00 46.41 4.02
104 105 4.162131 TGGGAAAGGGATTACGTAGGTTAC 59.838 45.833 0.00 0.00 0.00 2.50
105 106 4.162131 GTGGGAAAGGGATTACGTAGGTTA 59.838 45.833 0.00 0.00 0.00 2.85
106 107 3.054875 GTGGGAAAGGGATTACGTAGGTT 60.055 47.826 0.00 0.00 0.00 3.50
107 108 2.502947 GTGGGAAAGGGATTACGTAGGT 59.497 50.000 0.00 0.00 0.00 3.08
108 109 2.770232 AGTGGGAAAGGGATTACGTAGG 59.230 50.000 0.00 0.00 0.00 3.18
410 411 4.584325 TGAGTTGGCAGATATTTATTGGCC 59.416 41.667 0.00 0.00 41.70 5.36
411 412 5.766222 CTGAGTTGGCAGATATTTATTGGC 58.234 41.667 0.00 0.00 38.14 4.52
412 413 5.533903 AGCTGAGTTGGCAGATATTTATTGG 59.466 40.000 0.00 0.00 38.14 3.16
413 414 6.261603 TGAGCTGAGTTGGCAGATATTTATTG 59.738 38.462 0.00 0.00 38.14 1.90
414 415 6.359804 TGAGCTGAGTTGGCAGATATTTATT 58.640 36.000 0.00 0.00 38.14 1.40
415 416 5.933617 TGAGCTGAGTTGGCAGATATTTAT 58.066 37.500 0.00 0.00 38.14 1.40
416 417 5.357742 TGAGCTGAGTTGGCAGATATTTA 57.642 39.130 0.00 0.00 38.14 1.40
417 418 4.226427 TGAGCTGAGTTGGCAGATATTT 57.774 40.909 0.00 0.00 38.14 1.40
418 419 3.920231 TGAGCTGAGTTGGCAGATATT 57.080 42.857 0.00 0.00 38.14 1.28
419 420 4.560311 CGTATGAGCTGAGTTGGCAGATAT 60.560 45.833 0.00 0.00 38.14 1.63
420 421 3.243535 CGTATGAGCTGAGTTGGCAGATA 60.244 47.826 0.00 0.00 38.14 1.98
421 422 2.482664 CGTATGAGCTGAGTTGGCAGAT 60.483 50.000 0.00 0.00 38.14 2.90
422 423 1.134995 CGTATGAGCTGAGTTGGCAGA 60.135 52.381 0.00 0.00 38.14 4.26
423 424 1.284657 CGTATGAGCTGAGTTGGCAG 58.715 55.000 0.00 0.00 38.91 4.85
424 425 0.608130 ACGTATGAGCTGAGTTGGCA 59.392 50.000 0.00 0.00 0.00 4.92
425 426 2.579207 TACGTATGAGCTGAGTTGGC 57.421 50.000 0.00 0.00 0.00 4.52
426 427 4.371855 TCTTACGTATGAGCTGAGTTGG 57.628 45.455 7.05 0.00 0.00 3.77
427 428 5.621634 CGTATCTTACGTATGAGCTGAGTTG 59.378 44.000 15.39 0.00 46.41 3.16
428 429 5.749620 CGTATCTTACGTATGAGCTGAGTT 58.250 41.667 15.39 1.58 46.41 3.01
429 430 5.345609 CGTATCTTACGTATGAGCTGAGT 57.654 43.478 15.39 2.19 46.41 3.41
451 452 8.633075 TGCTACACCTACGTAATATTTGTTAC 57.367 34.615 0.00 0.00 0.00 2.50
452 453 9.820725 AATGCTACACCTACGTAATATTTGTTA 57.179 29.630 0.00 0.00 0.00 2.41
453 454 8.609176 CAATGCTACACCTACGTAATATTTGTT 58.391 33.333 0.00 0.00 0.00 2.83
454 455 7.254658 GCAATGCTACACCTACGTAATATTTGT 60.255 37.037 0.00 0.00 0.00 2.83
455 456 7.042051 AGCAATGCTACACCTACGTAATATTTG 60.042 37.037 5.69 0.00 36.99 2.32
456 457 6.990349 AGCAATGCTACACCTACGTAATATTT 59.010 34.615 5.69 0.00 36.99 1.40
457 458 6.522054 AGCAATGCTACACCTACGTAATATT 58.478 36.000 5.69 0.00 36.99 1.28
458 459 6.015350 AGAGCAATGCTACACCTACGTAATAT 60.015 38.462 8.12 0.00 39.88 1.28
459 460 5.301045 AGAGCAATGCTACACCTACGTAATA 59.699 40.000 8.12 0.00 39.88 0.98
460 461 4.099573 AGAGCAATGCTACACCTACGTAAT 59.900 41.667 8.12 0.00 39.88 1.89
461 462 3.446161 AGAGCAATGCTACACCTACGTAA 59.554 43.478 8.12 0.00 39.88 3.18
462 463 3.021695 AGAGCAATGCTACACCTACGTA 58.978 45.455 8.12 0.00 39.88 3.57
463 464 1.825474 AGAGCAATGCTACACCTACGT 59.175 47.619 8.12 0.00 39.88 3.57
464 465 2.586258 AGAGCAATGCTACACCTACG 57.414 50.000 8.12 0.00 39.88 3.51
465 466 4.253685 TGAAAGAGCAATGCTACACCTAC 58.746 43.478 8.12 0.00 39.88 3.18
466 467 4.222810 TCTGAAAGAGCAATGCTACACCTA 59.777 41.667 8.12 0.00 38.67 3.08
467 468 3.008375 TCTGAAAGAGCAATGCTACACCT 59.992 43.478 8.12 0.00 38.67 4.00
468 469 3.338249 TCTGAAAGAGCAATGCTACACC 58.662 45.455 8.12 0.00 38.67 4.16
482 483 7.390996 CCTTCCTGATATTCATCCATCTGAAAG 59.609 40.741 0.00 0.00 38.55 2.62
498 499 1.734137 GTCTCGCGCCTTCCTGATA 59.266 57.895 0.00 0.00 0.00 2.15
639 641 0.676466 ATCGATGTGCGGCAAGGAAA 60.676 50.000 3.23 0.00 41.33 3.13
665 667 1.754226 CTTCTGGCTCACTCCTACTCC 59.246 57.143 0.00 0.00 0.00 3.85
666 668 1.754226 CCTTCTGGCTCACTCCTACTC 59.246 57.143 0.00 0.00 0.00 2.59
667 669 1.359474 TCCTTCTGGCTCACTCCTACT 59.641 52.381 0.00 0.00 0.00 2.57
706 708 2.055838 CAATTCGTCGTGAGTTCGGAA 58.944 47.619 0.00 0.00 0.00 4.30
707 709 1.267533 TCAATTCGTCGTGAGTTCGGA 59.732 47.619 0.00 0.00 0.00 4.55
712 722 1.007336 GCGGTCAATTCGTCGTGAGT 61.007 55.000 0.00 0.00 0.00 3.41
714 724 1.006825 CAGCGGTCAATTCGTCGTGA 61.007 55.000 0.00 0.00 0.00 4.35
719 729 2.034879 CAGGCAGCGGTCAATTCGT 61.035 57.895 0.00 0.00 0.00 3.85
787 802 0.040781 CAGGCGGTTTTGGTACGTTG 60.041 55.000 0.00 0.00 0.00 4.10
831 852 2.584391 GCGAGGGGAGGTTGTCAGT 61.584 63.158 0.00 0.00 0.00 3.41
834 855 0.971447 AGTAGCGAGGGGAGGTTGTC 60.971 60.000 0.00 0.00 0.00 3.18
835 856 0.971447 GAGTAGCGAGGGGAGGTTGT 60.971 60.000 0.00 0.00 0.00 3.32
850 874 0.744414 GCAGGGCGATGCTTTGAGTA 60.744 55.000 6.11 0.00 43.07 2.59
923 954 2.055042 CCGTGGGAGAGAGGTCCTG 61.055 68.421 0.00 0.00 36.75 3.86
926 957 0.755698 TATGCCGTGGGAGAGAGGTC 60.756 60.000 0.00 0.00 0.00 3.85
936 967 3.674682 GCTAGCTAGATTCTATGCCGTGG 60.675 52.174 25.15 0.00 0.00 4.94
938 969 3.426615 AGCTAGCTAGATTCTATGCCGT 58.573 45.455 25.15 0.00 0.00 5.68
940 971 5.398603 TTGAGCTAGCTAGATTCTATGCC 57.601 43.478 25.15 4.82 0.00 4.40
942 973 6.023357 TGCTTGAGCTAGCTAGATTCTATG 57.977 41.667 25.15 11.45 41.76 2.23
943 974 5.774690 ACTGCTTGAGCTAGCTAGATTCTAT 59.225 40.000 25.15 2.05 41.76 1.98
944 975 5.009510 CACTGCTTGAGCTAGCTAGATTCTA 59.990 44.000 25.15 15.19 41.76 2.10
988 1019 4.473520 CGCCATCCCTGCCTTCGT 62.474 66.667 0.00 0.00 0.00 3.85
1272 1311 2.735857 GTGTCGCCGTACCACACC 60.736 66.667 0.00 0.00 35.38 4.16
1388 1427 3.663815 ATCTCCCGCTCCACGTCCT 62.664 63.158 0.00 0.00 41.42 3.85
1455 1494 0.258774 ACTTGAACCACACCTTGCCT 59.741 50.000 0.00 0.00 0.00 4.75
1594 1633 3.411351 GCACCTGCACCACGTACG 61.411 66.667 15.01 15.01 41.59 3.67
1635 1675 4.383649 CACACCGTATAATATGTACGTGCC 59.616 45.833 15.57 0.00 42.37 5.01
1677 1722 3.003480 GGAACGAATCCTCAGACCAAAG 58.997 50.000 5.00 0.00 45.56 2.77
1707 1752 6.495181 ACAACATGTATCAAACCAATAACCCA 59.505 34.615 0.00 0.00 0.00 4.51
1710 1755 9.691362 AAGAACAACATGTATCAAACCAATAAC 57.309 29.630 0.00 0.00 0.00 1.89
1734 1782 9.632969 CCGTAATACAAACGAAGATTGATTAAG 57.367 33.333 0.00 0.00 43.19 1.85
1738 1786 7.413657 CCAACCGTAATACAAACGAAGATTGAT 60.414 37.037 0.00 0.00 43.19 2.57
1748 1796 4.977347 CACAAACCCAACCGTAATACAAAC 59.023 41.667 0.00 0.00 0.00 2.93
1760 1808 6.512297 ACATCAAAGAATACACAAACCCAAC 58.488 36.000 0.00 0.00 0.00 3.77
1888 1938 7.495901 TGCTTGATGTTCTTATTAGAGGAGAG 58.504 38.462 0.00 0.00 0.00 3.20
1892 1942 9.716531 TGATATGCTTGATGTTCTTATTAGAGG 57.283 33.333 0.00 0.00 0.00 3.69
1960 2010 3.806949 TGATTTCCAGTGGGCTAAAGT 57.193 42.857 9.92 0.00 0.00 2.66
1967 2017 5.927281 AAAAGATGATGATTTCCAGTGGG 57.073 39.130 9.92 0.00 0.00 4.61
1977 2555 6.424883 AGAAGAGGCTGAAAAAGATGATGAT 58.575 36.000 0.00 0.00 0.00 2.45
2034 2612 0.759346 CTGGTAGGCTGGTATGGTCC 59.241 60.000 0.00 0.00 0.00 4.46
2054 2632 0.727398 GATGAAGCACGTGTTAGCCC 59.273 55.000 18.38 0.00 0.00 5.19
2072 2650 1.194547 GCAAGAACAAGAACGATGCGA 59.805 47.619 0.00 0.00 0.00 5.10
2075 2653 1.531149 ACCGCAAGAACAAGAACGATG 59.469 47.619 0.00 0.00 43.02 3.84
2076 2654 1.531149 CACCGCAAGAACAAGAACGAT 59.469 47.619 0.00 0.00 43.02 3.73
2132 2720 5.814705 CCATCTCAGAACAAATACAGTCTCC 59.185 44.000 0.00 0.00 0.00 3.71
2151 2739 3.631250 ACAAACAACTTCACACCCATCT 58.369 40.909 0.00 0.00 0.00 2.90
2153 2741 3.513515 ACAACAAACAACTTCACACCCAT 59.486 39.130 0.00 0.00 0.00 4.00
2154 2742 2.894126 ACAACAAACAACTTCACACCCA 59.106 40.909 0.00 0.00 0.00 4.51
2158 2746 7.487509 CACAATCATACAACAAACAACTTCACA 59.512 33.333 0.00 0.00 0.00 3.58
2162 2750 6.756074 CACCACAATCATACAACAAACAACTT 59.244 34.615 0.00 0.00 0.00 2.66
2172 2760 5.870706 TGTAAGGACACCACAATCATACAA 58.129 37.500 0.00 0.00 0.00 2.41
2175 2763 6.061022 ACATGTAAGGACACCACAATCATA 57.939 37.500 0.00 0.00 38.76 2.15
2176 2764 4.922206 ACATGTAAGGACACCACAATCAT 58.078 39.130 0.00 0.00 38.76 2.45
2179 2767 7.214467 CTTAAACATGTAAGGACACCACAAT 57.786 36.000 0.00 0.00 38.76 2.71
2209 2797 2.038387 AACCATCATCGGCTAACACC 57.962 50.000 0.00 0.00 0.00 4.16
2234 2822 2.078665 TATGAGCTCCCAAGGGGCC 61.079 63.158 12.15 0.00 43.94 5.80
2243 2831 5.163713 GGTTTCAACATGAAGTATGAGCTCC 60.164 44.000 12.15 0.00 37.70 4.70
2250 2838 8.950210 CACTTCTATGGTTTCAACATGAAGTAT 58.050 33.333 0.00 0.00 40.48 2.12
2253 2841 6.072286 AGCACTTCTATGGTTTCAACATGAAG 60.072 38.462 0.00 10.14 37.70 3.02
2255 2843 5.316167 AGCACTTCTATGGTTTCAACATGA 58.684 37.500 0.00 0.00 0.00 3.07
2258 2846 5.689383 GAAGCACTTCTATGGTTTCAACA 57.311 39.130 3.10 0.00 40.30 3.33
2271 2860 6.647067 AGTCATGTAAGTTGTAGAAGCACTTC 59.353 38.462 2.04 2.04 39.78 3.01
2274 2863 5.120830 CCAGTCATGTAAGTTGTAGAAGCAC 59.879 44.000 0.00 0.00 0.00 4.40
2280 2869 3.937814 TGGCCAGTCATGTAAGTTGTAG 58.062 45.455 0.00 0.00 0.00 2.74
2282 2871 2.949177 TGGCCAGTCATGTAAGTTGT 57.051 45.000 0.00 0.00 0.00 3.32
2283 2872 3.758023 TCATTGGCCAGTCATGTAAGTTG 59.242 43.478 14.20 0.00 0.00 3.16
2294 2883 0.609131 CGGGAACTTCATTGGCCAGT 60.609 55.000 5.11 0.00 0.00 4.00
2316 2906 0.604780 GCAAGGAGCTGAGCTGAACA 60.605 55.000 13.71 0.00 39.88 3.18
2318 2908 1.002868 GGCAAGGAGCTGAGCTGAA 60.003 57.895 13.71 0.00 44.79 3.02


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.