Multiple sequence alignment - TraesCS2D01G584300

Loading Multiple Alignment...

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 TraesCS2D01G584300 chr2D 100.000 3889 0 0 1 3889 643851572 643855460 0.000000e+00 7182
1 TraesCS2D01G584300 chr2D 83.861 663 75 21 1 647 9672047 9671401 1.550000e-168 603
2 TraesCS2D01G584300 chr2D 84.602 578 60 18 88 653 636073731 636073171 7.350000e-152 547
3 TraesCS2D01G584300 chr2D 83.660 306 40 6 346 651 645008542 645008247 2.960000e-71 279
4 TraesCS2D01G584300 chr2A 92.290 2555 105 43 1065 3560 768981440 768983961 0.000000e+00 3542
5 TraesCS2D01G584300 chr2A 90.207 1307 80 17 1679 2970 768728834 768730107 0.000000e+00 1661
6 TraesCS2D01G584300 chr2A 92.289 843 21 6 653 1472 768728014 768728835 0.000000e+00 1157
7 TraesCS2D01G584300 chr2A 84.394 660 72 20 1 651 729542905 729542268 1.530000e-173 619
8 TraesCS2D01G584300 chr2A 88.621 290 17 10 654 933 768968366 768968649 4.810000e-89 339
9 TraesCS2D01G584300 chr2A 77.341 534 81 22 1423 1939 209385447 209384937 2.960000e-71 279
10 TraesCS2D01G584300 chr2A 87.162 148 18 1 2986 3133 768730267 768730413 2.400000e-37 167
11 TraesCS2D01G584300 chr2B 90.539 1205 82 11 2283 3459 793230347 793229147 0.000000e+00 1565
12 TraesCS2D01G584300 chr2B 87.122 629 40 17 1666 2294 793256759 793256172 0.000000e+00 675
13 TraesCS2D01G584300 chr2B 77.388 513 78 19 1412 1899 250729560 250729061 1.780000e-68 270
14 TraesCS2D01G584300 chr2B 94.286 105 6 0 3459 3563 793184430 793184326 1.120000e-35 161
15 TraesCS2D01G584300 chr2B 85.621 153 12 4 1059 1204 793259358 793259209 6.730000e-33 152
16 TraesCS2D01G584300 chr2B 87.395 119 11 4 3563 3681 761974206 761974092 2.440000e-27 134
17 TraesCS2D01G584300 chr2B 95.890 73 3 0 1402 1474 793259144 793259072 6.830000e-23 119
18 TraesCS2D01G584300 chr7A 83.537 656 76 18 3 654 80812798 80812171 5.600000e-163 584
19 TraesCS2D01G584300 chr7A 83.053 655 80 19 3 654 80710013 80709387 2.030000e-157 566
20 TraesCS2D01G584300 chr7A 82.927 656 79 19 3 654 80756450 80755824 9.440000e-156 560
21 TraesCS2D01G584300 chr1A 82.883 666 70 28 1 653 391243380 391242746 3.390000e-155 558
22 TraesCS2D01G584300 chr6B 80.455 660 89 26 10 658 157762219 157761589 5.880000e-128 468
23 TraesCS2D01G584300 chr3B 80.271 664 94 27 3 648 777811067 777811711 2.120000e-127 466
24 TraesCS2D01G584300 chr3B 91.304 207 12 4 3563 3768 13410139 13410340 1.060000e-70 278
25 TraesCS2D01G584300 chr3B 94.521 73 4 0 3817 3889 13410332 13410404 3.180000e-21 113
26 TraesCS2D01G584300 chr7B 88.991 218 18 4 3552 3768 346666247 346666459 8.290000e-67 265
27 TraesCS2D01G584300 chr7B 80.738 244 37 8 3554 3791 559136267 559136506 8.580000e-42 182


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 TraesCS2D01G584300 chr2D 643851572 643855460 3888 False 7182.000000 7182 100.000000 1 3889 1 chr2D.!!$F1 3888
1 TraesCS2D01G584300 chr2D 9671401 9672047 646 True 603.000000 603 83.861000 1 647 1 chr2D.!!$R1 646
2 TraesCS2D01G584300 chr2D 636073171 636073731 560 True 547.000000 547 84.602000 88 653 1 chr2D.!!$R2 565
3 TraesCS2D01G584300 chr2A 768981440 768983961 2521 False 3542.000000 3542 92.290000 1065 3560 1 chr2A.!!$F2 2495
4 TraesCS2D01G584300 chr2A 768728014 768730413 2399 False 995.000000 1661 89.886000 653 3133 3 chr2A.!!$F3 2480
5 TraesCS2D01G584300 chr2A 729542268 729542905 637 True 619.000000 619 84.394000 1 651 1 chr2A.!!$R2 650
6 TraesCS2D01G584300 chr2A 209384937 209385447 510 True 279.000000 279 77.341000 1423 1939 1 chr2A.!!$R1 516
7 TraesCS2D01G584300 chr2B 793229147 793230347 1200 True 1565.000000 1565 90.539000 2283 3459 1 chr2B.!!$R4 1176
8 TraesCS2D01G584300 chr2B 793256172 793259358 3186 True 315.333333 675 89.544333 1059 2294 3 chr2B.!!$R5 1235
9 TraesCS2D01G584300 chr7A 80812171 80812798 627 True 584.000000 584 83.537000 3 654 1 chr7A.!!$R3 651
10 TraesCS2D01G584300 chr7A 80709387 80710013 626 True 566.000000 566 83.053000 3 654 1 chr7A.!!$R1 651
11 TraesCS2D01G584300 chr7A 80755824 80756450 626 True 560.000000 560 82.927000 3 654 1 chr7A.!!$R2 651
12 TraesCS2D01G584300 chr1A 391242746 391243380 634 True 558.000000 558 82.883000 1 653 1 chr1A.!!$R1 652
13 TraesCS2D01G584300 chr6B 157761589 157762219 630 True 468.000000 468 80.455000 10 658 1 chr6B.!!$R1 648
14 TraesCS2D01G584300 chr3B 777811067 777811711 644 False 466.000000 466 80.271000 3 648 1 chr3B.!!$F1 645

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
354 379 0.318699 GAAAGCAAAACCGTGCCTCC 60.319 55.0 0.0 0.0 46.14 4.30 F
1474 1573 0.317269 CACAGCAACACTCGCTTTGG 60.317 55.0 0.0 0.0 37.72 3.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1481 1580 0.179215 GAGCAAATGGAGCGTCGTTG 60.179 55.0 0.0 0.0 37.01 4.10 R
3244 5678 0.388294 GGTGACCTACAGATACGCCC 59.612 60.0 0.0 0.0 0.00 6.13 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
333 358 4.408821 GCATGGCCGTGACTCCCA 62.409 66.667 29.54 0.00 0.00 4.37
354 379 0.318699 GAAAGCAAAACCGTGCCTCC 60.319 55.000 0.00 0.00 46.14 4.30
378 403 1.947456 GGAAGCAAAACCGTGACTCTT 59.053 47.619 0.00 0.00 0.00 2.85
381 406 3.188159 AGCAAAACCGTGACTCTTGTA 57.812 42.857 0.00 0.00 0.00 2.41
382 407 3.537580 AGCAAAACCGTGACTCTTGTAA 58.462 40.909 0.00 0.00 0.00 2.41
385 410 5.067283 AGCAAAACCGTGACTCTTGTAAAAT 59.933 36.000 0.00 0.00 0.00 1.82
388 419 7.593644 GCAAAACCGTGACTCTTGTAAAATAAT 59.406 33.333 0.00 0.00 0.00 1.28
463 502 5.941555 TTTGGGTTGAAAAGCTAAGGAAA 57.058 34.783 0.00 0.00 45.29 3.13
526 581 4.676586 GCCGAAAACGTGTGCGGG 62.677 66.667 26.70 8.68 43.73 6.13
661 725 3.301274 ACTAGTTGCTCCCATAGAGGAC 58.699 50.000 0.00 0.00 43.54 3.85
662 726 1.501582 AGTTGCTCCCATAGAGGACC 58.498 55.000 0.00 0.00 43.54 4.46
919 987 3.655211 CCCAGCCCAGCAAGACCT 61.655 66.667 0.00 0.00 0.00 3.85
926 994 0.824109 CCCAGCAAGACCTATCACGA 59.176 55.000 0.00 0.00 0.00 4.35
1370 1469 1.658673 CCGTAGCCCTATCCGTGTC 59.341 63.158 0.00 0.00 0.00 3.67
1400 1499 6.474140 TCGGTGCTTCTTATAGATTGGTAA 57.526 37.500 0.00 0.00 0.00 2.85
1474 1573 0.317269 CACAGCAACACTCGCTTTGG 60.317 55.000 0.00 0.00 37.72 3.28
1481 1580 1.376037 CACTCGCTTTGGACCCCTC 60.376 63.158 0.00 0.00 0.00 4.30
1504 1603 0.391661 GACGCTCCATTTGCTCTCCA 60.392 55.000 0.00 0.00 0.00 3.86
1512 1611 2.360165 CCATTTGCTCTCCATGGTAAGC 59.640 50.000 25.05 25.05 33.90 3.09
1513 1612 2.877097 TTTGCTCTCCATGGTAAGCA 57.123 45.000 28.43 28.43 42.66 3.91
1528 1637 6.466885 TGGTAAGCACTCTTCCTATCTTAC 57.533 41.667 0.00 0.00 36.70 2.34
1531 1640 6.321690 GGTAAGCACTCTTCCTATCTTACTCA 59.678 42.308 0.00 0.00 37.26 3.41
1561 1670 7.088905 TCTGAAATCTGAAGTACGTAGTTTCC 58.911 38.462 16.49 6.07 37.78 3.13
1588 1697 2.360483 TCAAACAATCACGCCACATGTT 59.640 40.909 0.00 0.00 35.86 2.71
1599 1708 6.342111 TCACGCCACATGTTAATTGTATAGA 58.658 36.000 0.00 0.00 0.00 1.98
1610 1719 7.221450 TGTTAATTGTATAGATGGTACTGGGC 58.779 38.462 0.00 0.00 0.00 5.36
1623 1732 4.262089 TGGGCCGTGCACACATCA 62.262 61.111 18.64 6.74 36.87 3.07
1624 1733 2.751436 GGGCCGTGCACACATCAT 60.751 61.111 18.64 0.00 0.00 2.45
1729 4000 5.899278 AGGGAGGTTTATTTGGTGTGTTAT 58.101 37.500 0.00 0.00 0.00 1.89
1730 4001 7.034967 AGGGAGGTTTATTTGGTGTGTTATA 57.965 36.000 0.00 0.00 0.00 0.98
1731 4002 6.888088 AGGGAGGTTTATTTGGTGTGTTATAC 59.112 38.462 0.00 0.00 0.00 1.47
1816 4091 7.831691 TGAAGAACATCCATCTTTTTGGTTA 57.168 32.000 0.00 0.00 37.26 2.85
1905 4183 6.261603 CCATCAATCTTGCTATTCTGCACTAA 59.738 38.462 0.00 0.00 43.20 2.24
1973 4251 1.218316 GGCACTTACAGGGTCCTCG 59.782 63.158 0.00 0.00 0.00 4.63
2035 4313 7.921786 TGTTTGACTGTAAATCCTAATCCTG 57.078 36.000 0.00 0.00 0.00 3.86
2128 4408 2.767505 ACCTAAAGGAACAAGTGCTCG 58.232 47.619 2.23 0.00 38.94 5.03
2543 4823 0.542467 TACACACAAGTCGCCCCCTA 60.542 55.000 0.00 0.00 0.00 3.53
2545 4825 0.035439 CACACAAGTCGCCCCCTATT 60.035 55.000 0.00 0.00 0.00 1.73
2849 5139 8.894768 AGTAAAACTATCCTAATGATCAGTGC 57.105 34.615 5.80 0.00 34.76 4.40
2913 5203 3.819368 TGAGGTCTGCAAATCTGAAACA 58.181 40.909 0.00 0.00 0.00 2.83
3012 5446 1.391157 TTGTTCTGGCCTTGTGGTGC 61.391 55.000 3.32 0.00 35.27 5.01
3054 5488 9.762381 TTTGGCCTCCTAATTTCTCTTAATTAA 57.238 29.630 3.32 0.00 31.53 1.40
3215 5649 3.234353 TCCACGCTCAATCATCCTCTAT 58.766 45.455 0.00 0.00 0.00 1.98
3263 5697 0.388294 GGGCGTATCTGTAGGTCACC 59.612 60.000 0.00 0.00 0.00 4.02
3279 5713 3.450115 CCGGAGACTCGACCCCAC 61.450 72.222 0.00 0.00 0.00 4.61
3295 5729 1.402968 CCCACGGCATCAGATTCAAAG 59.597 52.381 0.00 0.00 0.00 2.77
3454 5916 1.523154 GGCCAGCGTTCCACAATTGA 61.523 55.000 13.59 0.00 0.00 2.57
3489 5951 7.682628 TCTCCAATTGATGATGCAGATGTATA 58.317 34.615 7.12 0.00 0.00 1.47
3568 6030 9.489084 TGTAGATGTATAAAATATGACCACTGC 57.511 33.333 0.00 0.00 0.00 4.40
3569 6031 9.712305 GTAGATGTATAAAATATGACCACTGCT 57.288 33.333 0.00 0.00 0.00 4.24
3571 6033 9.712305 AGATGTATAAAATATGACCACTGCTAC 57.288 33.333 0.00 0.00 0.00 3.58
3572 6034 7.940178 TGTATAAAATATGACCACTGCTACG 57.060 36.000 0.00 0.00 0.00 3.51
3573 6035 5.924475 ATAAAATATGACCACTGCTACGC 57.076 39.130 0.00 0.00 0.00 4.42
3574 6036 1.852942 AATATGACCACTGCTACGCG 58.147 50.000 3.53 3.53 0.00 6.01
3575 6037 0.744874 ATATGACCACTGCTACGCGT 59.255 50.000 19.17 19.17 0.00 6.01
3576 6038 0.099968 TATGACCACTGCTACGCGTC 59.900 55.000 18.63 1.99 0.00 5.19
3577 6039 1.873270 ATGACCACTGCTACGCGTCA 61.873 55.000 18.63 7.95 37.81 4.35
3578 6040 1.153823 GACCACTGCTACGCGTCAT 60.154 57.895 18.63 0.00 0.00 3.06
3579 6041 1.140407 GACCACTGCTACGCGTCATC 61.140 60.000 18.63 6.70 0.00 2.92
3580 6042 1.878522 CCACTGCTACGCGTCATCC 60.879 63.158 18.63 2.88 0.00 3.51
3581 6043 2.102357 ACTGCTACGCGTCATCCG 59.898 61.111 18.63 5.06 40.40 4.18
3582 6044 2.655364 CTGCTACGCGTCATCCGG 60.655 66.667 18.63 3.73 36.94 5.14
3583 6045 4.865761 TGCTACGCGTCATCCGGC 62.866 66.667 18.63 12.29 36.94 6.13
3584 6046 4.570663 GCTACGCGTCATCCGGCT 62.571 66.667 18.63 0.00 36.94 5.52
3585 6047 2.655364 CTACGCGTCATCCGGCTG 60.655 66.667 18.63 0.00 36.94 4.85
3586 6048 3.120979 CTACGCGTCATCCGGCTGA 62.121 63.158 18.63 3.28 36.94 4.26
3587 6049 3.405592 TACGCGTCATCCGGCTGAC 62.406 63.158 25.20 25.20 41.73 3.51
3591 6053 4.492160 GTCATCCGGCTGACGCGA 62.492 66.667 21.64 0.00 42.52 5.87
3592 6054 4.193334 TCATCCGGCTGACGCGAG 62.193 66.667 15.93 0.36 42.52 5.03
3605 6067 3.249013 GACGCGAGGCAATTATAAACC 57.751 47.619 15.93 0.00 40.66 3.27
3606 6068 1.595794 ACGCGAGGCAATTATAAACCG 59.404 47.619 15.93 0.00 0.00 4.44
3607 6069 1.659211 CGCGAGGCAATTATAAACCGC 60.659 52.381 0.00 0.00 38.27 5.68
3608 6070 1.334689 GCGAGGCAATTATAAACCGCC 60.335 52.381 12.83 12.83 43.31 6.13
3612 6074 3.898517 GGCAATTATAAACCGCCTCTC 57.101 47.619 13.26 0.00 39.73 3.20
3613 6075 2.223377 GGCAATTATAAACCGCCTCTCG 59.777 50.000 13.26 0.00 39.73 4.04
3614 6076 3.128349 GCAATTATAAACCGCCTCTCGA 58.872 45.455 0.00 0.00 41.67 4.04
3615 6077 3.184581 GCAATTATAAACCGCCTCTCGAG 59.815 47.826 5.93 5.93 41.67 4.04
3616 6078 2.503920 TTATAAACCGCCTCTCGAGC 57.496 50.000 7.81 0.00 41.67 5.03
3617 6079 0.672342 TATAAACCGCCTCTCGAGCC 59.328 55.000 7.81 0.00 41.67 4.70
3618 6080 2.351336 ATAAACCGCCTCTCGAGCCG 62.351 60.000 7.81 10.05 41.67 5.52
3623 6085 3.760035 GCCTCTCGAGCCGTTGGA 61.760 66.667 7.81 0.00 0.00 3.53
3624 6086 3.082579 GCCTCTCGAGCCGTTGGAT 62.083 63.158 7.81 0.00 0.00 3.41
3625 6087 1.227089 CCTCTCGAGCCGTTGGATG 60.227 63.158 7.81 0.00 0.00 3.51
3626 6088 1.667154 CCTCTCGAGCCGTTGGATGA 61.667 60.000 7.81 0.00 0.00 2.92
3627 6089 0.248825 CTCTCGAGCCGTTGGATGAG 60.249 60.000 7.81 0.00 0.00 2.90
3628 6090 1.227089 CTCGAGCCGTTGGATGAGG 60.227 63.158 0.00 0.00 0.00 3.86
3632 6094 2.746277 GCCGTTGGATGAGGCGTT 60.746 61.111 0.00 0.00 41.53 4.84
3633 6095 3.039202 GCCGTTGGATGAGGCGTTG 62.039 63.158 0.00 0.00 41.53 4.10
3634 6096 2.480555 CGTTGGATGAGGCGTTGC 59.519 61.111 0.00 0.00 0.00 4.17
3635 6097 2.324330 CGTTGGATGAGGCGTTGCA 61.324 57.895 0.00 0.00 0.00 4.08
3636 6098 1.210155 GTTGGATGAGGCGTTGCAC 59.790 57.895 0.00 0.00 0.00 4.57
3637 6099 2.324330 TTGGATGAGGCGTTGCACG 61.324 57.895 4.61 4.61 45.88 5.34
3638 6100 3.499737 GGATGAGGCGTTGCACGG 61.500 66.667 10.02 0.00 42.82 4.94
3654 6116 3.521796 GGCTGCCCGATTTGCTCC 61.522 66.667 7.66 0.00 0.00 4.70
3655 6117 2.751436 GCTGCCCGATTTGCTCCA 60.751 61.111 0.00 0.00 0.00 3.86
3656 6118 2.342650 GCTGCCCGATTTGCTCCAA 61.343 57.895 0.00 0.00 0.00 3.53
3657 6119 1.805254 CTGCCCGATTTGCTCCAAG 59.195 57.895 0.00 0.00 0.00 3.61
3658 6120 0.962356 CTGCCCGATTTGCTCCAAGT 60.962 55.000 0.00 0.00 0.00 3.16
3659 6121 0.326595 TGCCCGATTTGCTCCAAGTA 59.673 50.000 0.00 0.00 0.00 2.24
3660 6122 1.017387 GCCCGATTTGCTCCAAGTAG 58.983 55.000 0.00 0.00 0.00 2.57
3661 6123 1.668419 CCCGATTTGCTCCAAGTAGG 58.332 55.000 0.00 0.00 39.47 3.18
3662 6124 1.209504 CCCGATTTGCTCCAAGTAGGA 59.790 52.381 2.15 0.00 46.75 2.94
3674 6136 3.428746 CAAGTAGGATCACGTGGAGAG 57.571 52.381 17.00 0.00 0.00 3.20
3675 6137 2.060050 AGTAGGATCACGTGGAGAGG 57.940 55.000 17.00 0.00 0.00 3.69
3676 6138 1.564818 AGTAGGATCACGTGGAGAGGA 59.435 52.381 17.00 0.00 0.00 3.71
3677 6139 2.025226 AGTAGGATCACGTGGAGAGGAA 60.025 50.000 17.00 0.00 0.00 3.36
3678 6140 1.187087 AGGATCACGTGGAGAGGAAC 58.813 55.000 17.00 0.00 0.00 3.62
3679 6141 0.895530 GGATCACGTGGAGAGGAACA 59.104 55.000 17.00 0.00 0.00 3.18
3680 6142 1.134965 GGATCACGTGGAGAGGAACAG 60.135 57.143 17.00 0.00 0.00 3.16
3681 6143 1.819288 GATCACGTGGAGAGGAACAGA 59.181 52.381 17.00 0.00 0.00 3.41
3682 6144 0.959553 TCACGTGGAGAGGAACAGAC 59.040 55.000 17.00 0.00 0.00 3.51
3683 6145 0.387367 CACGTGGAGAGGAACAGACG 60.387 60.000 7.95 0.00 0.00 4.18
3684 6146 1.444553 CGTGGAGAGGAACAGACGC 60.445 63.158 0.00 0.00 0.00 5.19
3685 6147 1.444553 GTGGAGAGGAACAGACGCG 60.445 63.158 3.53 3.53 0.00 6.01
3686 6148 2.182030 GGAGAGGAACAGACGCGG 59.818 66.667 12.47 0.00 0.00 6.46
3687 6149 2.507324 GAGAGGAACAGACGCGGC 60.507 66.667 12.47 7.86 0.00 6.53
3688 6150 2.992114 AGAGGAACAGACGCGGCT 60.992 61.111 9.84 9.84 0.00 5.52
3689 6151 2.811317 GAGGAACAGACGCGGCTG 60.811 66.667 39.33 39.33 41.63 4.85
3692 6154 3.345808 GAACAGACGCGGCTGCAA 61.346 61.111 40.72 0.00 42.97 4.08
3693 6155 2.892334 GAACAGACGCGGCTGCAAA 61.892 57.895 40.72 0.00 42.97 3.68
3694 6156 2.387125 GAACAGACGCGGCTGCAAAA 62.387 55.000 40.72 0.00 42.97 2.44
3695 6157 1.999071 AACAGACGCGGCTGCAAAAA 61.999 50.000 40.72 0.00 42.97 1.94
3696 6158 2.010817 CAGACGCGGCTGCAAAAAC 61.011 57.895 31.83 3.41 42.97 2.43
3697 6159 2.186826 AGACGCGGCTGCAAAAACT 61.187 52.632 17.28 5.76 42.97 2.66
3698 6160 2.010817 GACGCGGCTGCAAAAACTG 61.011 57.895 19.50 1.08 42.97 3.16
3699 6161 2.331098 CGCGGCTGCAAAAACTGA 59.669 55.556 19.50 0.00 42.97 3.41
3700 6162 1.299014 CGCGGCTGCAAAAACTGAA 60.299 52.632 19.50 0.00 42.97 3.02
3701 6163 1.539776 CGCGGCTGCAAAAACTGAAC 61.540 55.000 19.50 0.00 42.97 3.18
3702 6164 1.215014 GCGGCTGCAAAAACTGAACC 61.215 55.000 14.08 0.00 42.15 3.62
3703 6165 0.597377 CGGCTGCAAAAACTGAACCC 60.597 55.000 0.50 0.00 0.00 4.11
3704 6166 0.752658 GGCTGCAAAAACTGAACCCT 59.247 50.000 0.50 0.00 0.00 4.34
3705 6167 1.538849 GGCTGCAAAAACTGAACCCTG 60.539 52.381 0.50 0.00 0.00 4.45
3706 6168 1.136891 GCTGCAAAAACTGAACCCTGT 59.863 47.619 0.00 0.00 0.00 4.00
3707 6169 2.799562 GCTGCAAAAACTGAACCCTGTC 60.800 50.000 0.00 0.00 0.00 3.51
3708 6170 2.689983 CTGCAAAAACTGAACCCTGTCT 59.310 45.455 0.00 0.00 0.00 3.41
3709 6171 2.687935 TGCAAAAACTGAACCCTGTCTC 59.312 45.455 0.00 0.00 0.00 3.36
3710 6172 2.952310 GCAAAAACTGAACCCTGTCTCT 59.048 45.455 0.00 0.00 0.00 3.10
3711 6173 3.243201 GCAAAAACTGAACCCTGTCTCTG 60.243 47.826 0.00 0.00 0.00 3.35
3712 6174 2.262423 AAACTGAACCCTGTCTCTGC 57.738 50.000 0.00 0.00 0.00 4.26
3713 6175 1.428869 AACTGAACCCTGTCTCTGCT 58.571 50.000 0.00 0.00 0.00 4.24
3714 6176 0.683973 ACTGAACCCTGTCTCTGCTG 59.316 55.000 0.00 0.00 0.00 4.41
3715 6177 0.673022 CTGAACCCTGTCTCTGCTGC 60.673 60.000 0.00 0.00 0.00 5.25
3716 6178 1.739562 GAACCCTGTCTCTGCTGCG 60.740 63.158 0.00 0.00 0.00 5.18
3717 6179 3.890936 AACCCTGTCTCTGCTGCGC 62.891 63.158 0.00 0.00 0.00 6.09
3718 6180 4.383861 CCCTGTCTCTGCTGCGCA 62.384 66.667 10.98 10.98 36.92 6.09
3732 6194 2.906458 CGCAGCTCCTCCTCCATT 59.094 61.111 0.00 0.00 0.00 3.16
3733 6195 1.523258 CGCAGCTCCTCCTCCATTG 60.523 63.158 0.00 0.00 0.00 2.82
3734 6196 1.823041 GCAGCTCCTCCTCCATTGC 60.823 63.158 0.00 0.00 0.00 3.56
3735 6197 1.913722 CAGCTCCTCCTCCATTGCT 59.086 57.895 0.00 0.00 0.00 3.91
3736 6198 0.179051 CAGCTCCTCCTCCATTGCTC 60.179 60.000 0.00 0.00 0.00 4.26
3737 6199 1.227497 GCTCCTCCTCCATTGCTCG 60.227 63.158 0.00 0.00 0.00 5.03
3738 6200 1.965754 GCTCCTCCTCCATTGCTCGT 61.966 60.000 0.00 0.00 0.00 4.18
3739 6201 0.103937 CTCCTCCTCCATTGCTCGTC 59.896 60.000 0.00 0.00 0.00 4.20
3740 6202 1.227089 CCTCCTCCATTGCTCGTCG 60.227 63.158 0.00 0.00 0.00 5.12
3741 6203 1.880340 CTCCTCCATTGCTCGTCGC 60.880 63.158 0.00 0.00 39.77 5.19
3742 6204 2.892425 CCTCCATTGCTCGTCGCC 60.892 66.667 0.00 0.00 38.05 5.54
3743 6205 2.125552 CTCCATTGCTCGTCGCCA 60.126 61.111 0.00 0.00 38.05 5.69
3744 6206 1.741401 CTCCATTGCTCGTCGCCAA 60.741 57.895 1.58 1.58 38.05 4.52
3745 6207 1.970917 CTCCATTGCTCGTCGCCAAC 61.971 60.000 1.17 0.00 38.05 3.77
3757 6219 4.078516 GCCAACGGCCGTCCTACT 62.079 66.667 34.29 13.45 44.06 2.57
3758 6220 2.125673 CCAACGGCCGTCCTACTG 60.126 66.667 34.29 25.01 0.00 2.74
3759 6221 2.654877 CAACGGCCGTCCTACTGT 59.345 61.111 34.29 11.63 0.00 3.55
3760 6222 1.445582 CAACGGCCGTCCTACTGTC 60.446 63.158 34.29 0.00 0.00 3.51
3761 6223 1.605738 AACGGCCGTCCTACTGTCT 60.606 57.895 34.29 9.83 0.00 3.41
3762 6224 1.593296 AACGGCCGTCCTACTGTCTC 61.593 60.000 34.29 0.00 0.00 3.36
3763 6225 2.799371 GGCCGTCCTACTGTCTCG 59.201 66.667 0.00 0.00 0.00 4.04
3764 6226 2.045131 GGCCGTCCTACTGTCTCGT 61.045 63.158 0.00 0.00 0.00 4.18
3765 6227 1.136984 GCCGTCCTACTGTCTCGTG 59.863 63.158 0.00 0.00 0.00 4.35
3766 6228 1.136984 CCGTCCTACTGTCTCGTGC 59.863 63.158 0.00 0.00 0.00 5.34
3767 6229 1.583495 CCGTCCTACTGTCTCGTGCA 61.583 60.000 0.00 0.00 0.00 4.57
3768 6230 0.179187 CGTCCTACTGTCTCGTGCAG 60.179 60.000 0.00 7.17 39.67 4.41
3769 6231 0.456995 GTCCTACTGTCTCGTGCAGC 60.457 60.000 0.00 0.00 37.47 5.25
3770 6232 1.153745 CCTACTGTCTCGTGCAGCC 60.154 63.158 0.00 0.00 37.47 4.85
3771 6233 1.515088 CTACTGTCTCGTGCAGCCG 60.515 63.158 0.00 0.00 37.47 5.52
3772 6234 3.626680 TACTGTCTCGTGCAGCCGC 62.627 63.158 0.00 0.00 37.47 6.53
3787 6249 3.893763 CGCACCGGCCACAACAAA 61.894 61.111 0.00 0.00 36.38 2.83
3788 6250 2.279186 GCACCGGCCACAACAAAC 60.279 61.111 0.00 0.00 0.00 2.93
3789 6251 2.415426 CACCGGCCACAACAAACC 59.585 61.111 0.00 0.00 0.00 3.27
3790 6252 2.043852 ACCGGCCACAACAAACCA 60.044 55.556 0.00 0.00 0.00 3.67
3791 6253 2.415426 CCGGCCACAACAAACCAC 59.585 61.111 2.24 0.00 0.00 4.16
3792 6254 2.124693 CCGGCCACAACAAACCACT 61.125 57.895 2.24 0.00 0.00 4.00
3793 6255 1.358759 CGGCCACAACAAACCACTC 59.641 57.895 2.24 0.00 0.00 3.51
3794 6256 1.380403 CGGCCACAACAAACCACTCA 61.380 55.000 2.24 0.00 0.00 3.41
3795 6257 1.039856 GGCCACAACAAACCACTCAT 58.960 50.000 0.00 0.00 0.00 2.90
3796 6258 1.000274 GGCCACAACAAACCACTCATC 60.000 52.381 0.00 0.00 0.00 2.92
3797 6259 1.956477 GCCACAACAAACCACTCATCT 59.044 47.619 0.00 0.00 0.00 2.90
3798 6260 2.030805 GCCACAACAAACCACTCATCTC 60.031 50.000 0.00 0.00 0.00 2.75
3799 6261 2.554032 CCACAACAAACCACTCATCTCC 59.446 50.000 0.00 0.00 0.00 3.71
3800 6262 2.554032 CACAACAAACCACTCATCTCCC 59.446 50.000 0.00 0.00 0.00 4.30
3801 6263 2.162681 CAACAAACCACTCATCTCCCC 58.837 52.381 0.00 0.00 0.00 4.81
3802 6264 0.698818 ACAAACCACTCATCTCCCCC 59.301 55.000 0.00 0.00 0.00 5.40
3803 6265 0.698238 CAAACCACTCATCTCCCCCA 59.302 55.000 0.00 0.00 0.00 4.96
3804 6266 1.285962 CAAACCACTCATCTCCCCCAT 59.714 52.381 0.00 0.00 0.00 4.00
3805 6267 2.509548 CAAACCACTCATCTCCCCCATA 59.490 50.000 0.00 0.00 0.00 2.74
3806 6268 2.109229 ACCACTCATCTCCCCCATAG 57.891 55.000 0.00 0.00 0.00 2.23
3807 6269 0.689623 CCACTCATCTCCCCCATAGC 59.310 60.000 0.00 0.00 0.00 2.97
3808 6270 1.427809 CACTCATCTCCCCCATAGCA 58.572 55.000 0.00 0.00 0.00 3.49
3809 6271 1.770658 CACTCATCTCCCCCATAGCAA 59.229 52.381 0.00 0.00 0.00 3.91
3810 6272 2.173356 CACTCATCTCCCCCATAGCAAA 59.827 50.000 0.00 0.00 0.00 3.68
3811 6273 2.173569 ACTCATCTCCCCCATAGCAAAC 59.826 50.000 0.00 0.00 0.00 2.93
3812 6274 2.173356 CTCATCTCCCCCATAGCAAACA 59.827 50.000 0.00 0.00 0.00 2.83
3813 6275 2.173356 TCATCTCCCCCATAGCAAACAG 59.827 50.000 0.00 0.00 0.00 3.16
3814 6276 0.255890 TCTCCCCCATAGCAAACAGC 59.744 55.000 0.00 0.00 46.19 4.40
3823 6285 2.050077 GCAAACAGCCCTCGTTGC 60.050 61.111 0.00 0.00 37.23 4.17
3824 6286 2.844451 GCAAACAGCCCTCGTTGCA 61.844 57.895 2.53 0.00 37.23 4.08
3825 6287 1.008538 CAAACAGCCCTCGTTGCAC 60.009 57.895 0.00 0.00 0.00 4.57
3826 6288 1.152963 AAACAGCCCTCGTTGCACT 60.153 52.632 0.00 0.00 0.00 4.40
3827 6289 1.447317 AAACAGCCCTCGTTGCACTG 61.447 55.000 0.00 0.00 0.00 3.66
3828 6290 3.730761 CAGCCCTCGTTGCACTGC 61.731 66.667 0.00 0.00 0.00 4.40
3829 6291 4.254709 AGCCCTCGTTGCACTGCA 62.255 61.111 0.00 0.00 36.47 4.41
3830 6292 3.730761 GCCCTCGTTGCACTGCAG 61.731 66.667 13.48 13.48 40.61 4.41
3831 6293 3.730761 CCCTCGTTGCACTGCAGC 61.731 66.667 15.27 7.76 40.61 5.25
3832 6294 2.667536 CCTCGTTGCACTGCAGCT 60.668 61.111 15.27 0.00 40.61 4.24
3833 6295 2.256591 CCTCGTTGCACTGCAGCTT 61.257 57.895 15.27 0.00 40.61 3.74
3834 6296 1.206072 CTCGTTGCACTGCAGCTTC 59.794 57.895 15.27 3.39 40.61 3.86
3835 6297 1.226686 CTCGTTGCACTGCAGCTTCT 61.227 55.000 15.27 0.00 40.61 2.85
3836 6298 1.082300 CGTTGCACTGCAGCTTCTG 60.082 57.895 15.27 5.57 40.61 3.02
3856 6318 4.803426 GCCGTGCGAGGTCAGGAG 62.803 72.222 0.00 0.00 0.00 3.69
3857 6319 4.135153 CCGTGCGAGGTCAGGAGG 62.135 72.222 0.00 0.00 0.00 4.30
3858 6320 3.374402 CGTGCGAGGTCAGGAGGT 61.374 66.667 0.00 0.00 0.00 3.85
3859 6321 2.574399 GTGCGAGGTCAGGAGGTC 59.426 66.667 0.00 0.00 0.00 3.85
3860 6322 2.117423 TGCGAGGTCAGGAGGTCA 59.883 61.111 0.00 0.00 0.00 4.02
3861 6323 2.276116 TGCGAGGTCAGGAGGTCAC 61.276 63.158 0.00 0.00 0.00 3.67
3862 6324 2.878429 CGAGGTCAGGAGGTCACG 59.122 66.667 0.00 0.00 0.00 4.35
3863 6325 1.674651 CGAGGTCAGGAGGTCACGA 60.675 63.158 0.00 0.00 0.00 4.35
3864 6326 1.884444 GAGGTCAGGAGGTCACGAC 59.116 63.158 0.00 0.00 0.00 4.34
3865 6327 0.894184 GAGGTCAGGAGGTCACGACA 60.894 60.000 0.00 0.00 0.00 4.35
3866 6328 1.179814 AGGTCAGGAGGTCACGACAC 61.180 60.000 0.00 0.00 0.00 3.67
3867 6329 1.289380 GTCAGGAGGTCACGACACC 59.711 63.158 0.00 2.45 36.58 4.16
3868 6330 1.906824 TCAGGAGGTCACGACACCC 60.907 63.158 0.00 0.00 37.09 4.61
3869 6331 2.200370 AGGAGGTCACGACACCCA 59.800 61.111 0.00 0.00 37.09 4.51
3870 6332 1.908793 AGGAGGTCACGACACCCAG 60.909 63.158 0.00 0.00 37.09 4.45
3871 6333 2.657237 GAGGTCACGACACCCAGG 59.343 66.667 0.00 0.00 37.09 4.45
3872 6334 3.591254 GAGGTCACGACACCCAGGC 62.591 68.421 0.00 0.00 37.09 4.85
3873 6335 3.936203 GGTCACGACACCCAGGCA 61.936 66.667 0.00 0.00 0.00 4.75
3874 6336 2.347490 GTCACGACACCCAGGCAT 59.653 61.111 0.00 0.00 0.00 4.40
3875 6337 1.302511 GTCACGACACCCAGGCATT 60.303 57.895 0.00 0.00 0.00 3.56
3876 6338 1.302431 TCACGACACCCAGGCATTG 60.302 57.895 0.00 0.00 0.00 2.82
3877 6339 2.672996 ACGACACCCAGGCATTGC 60.673 61.111 0.00 0.00 0.00 3.56
3878 6340 2.672651 CGACACCCAGGCATTGCA 60.673 61.111 11.39 0.00 0.00 4.08
3879 6341 2.048023 CGACACCCAGGCATTGCAT 61.048 57.895 11.39 0.00 0.00 3.96
3880 6342 1.597797 CGACACCCAGGCATTGCATT 61.598 55.000 11.39 0.00 0.00 3.56
3881 6343 0.108520 GACACCCAGGCATTGCATTG 60.109 55.000 11.39 8.08 0.00 2.82
3882 6344 1.448893 CACCCAGGCATTGCATTGC 60.449 57.895 22.31 22.31 42.01 3.56
3883 6345 1.914263 ACCCAGGCATTGCATTGCA 60.914 52.632 28.93 7.38 44.59 4.08
3884 6346 1.153449 CCCAGGCATTGCATTGCAG 60.153 57.895 28.93 21.38 44.59 4.41
3885 6347 1.813753 CCAGGCATTGCATTGCAGC 60.814 57.895 28.93 16.14 44.59 5.25
3886 6348 1.218047 CAGGCATTGCATTGCAGCT 59.782 52.632 28.93 17.83 44.59 4.24
3887 6349 0.806102 CAGGCATTGCATTGCAGCTC 60.806 55.000 28.93 15.22 44.59 4.09
3888 6350 1.520787 GGCATTGCATTGCAGCTCC 60.521 57.895 28.93 13.62 44.59 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 2.669569 GCTTCCGCAAGAGGCACA 60.670 61.111 0.00 0.00 46.54 4.57
126 134 1.635663 CGGTTTTGCTTCCGCGAGAT 61.636 55.000 8.23 0.00 40.28 2.75
312 337 2.434884 AGTCACGGCCATGCTTCG 60.435 61.111 2.24 0.00 0.00 3.79
315 340 4.101448 GGGAGTCACGGCCATGCT 62.101 66.667 2.24 0.00 0.00 3.79
333 358 1.065109 GGCACGGTTTTGCTTTCGT 59.935 52.632 0.00 0.00 42.56 3.85
444 483 4.628074 GGTTTTCCTTAGCTTTTCAACCC 58.372 43.478 0.00 0.00 36.94 4.11
557 621 2.504899 CACGTGTCGCGCTCTGAT 60.505 61.111 7.58 0.00 46.11 2.90
558 622 4.700365 CCACGTGTCGCGCTCTGA 62.700 66.667 15.65 0.00 46.11 3.27
662 726 6.769134 AAAAAGTTATTCGATACAAGGGGG 57.231 37.500 0.00 0.00 0.00 5.40
703 767 9.799106 CCAGGAGTTTTATTCCATTATGATAGT 57.201 33.333 0.00 0.00 37.18 2.12
919 987 1.070134 GCCAGGGTTAGCATCGTGATA 59.930 52.381 0.00 0.00 0.00 2.15
926 994 0.461339 CGTTACGCCAGGGTTAGCAT 60.461 55.000 0.00 0.00 0.00 3.79
1026 1096 4.161295 TGGCGAGGCGATTCCAGG 62.161 66.667 0.00 0.00 37.29 4.45
1047 1117 4.803426 GTGGCGAGCGACTCCAGG 62.803 72.222 2.98 0.00 33.76 4.45
1048 1118 4.803426 GGTGGCGAGCGACTCCAG 62.803 72.222 11.60 0.00 36.82 3.86
1370 1469 2.203800 TAAGAAGCACCGATACAGCG 57.796 50.000 0.00 0.00 0.00 5.18
1474 1573 2.126031 GAGCGTCGTTGAGGGGTC 60.126 66.667 0.00 0.00 0.00 4.46
1481 1580 0.179215 GAGCAAATGGAGCGTCGTTG 60.179 55.000 0.00 0.00 37.01 4.10
1504 1603 6.841755 AGTAAGATAGGAAGAGTGCTTACCAT 59.158 38.462 0.00 0.00 38.78 3.55
1512 1611 9.349713 AGAAGTATGAGTAAGATAGGAAGAGTG 57.650 37.037 0.00 0.00 0.00 3.51
1513 1612 9.349713 CAGAAGTATGAGTAAGATAGGAAGAGT 57.650 37.037 0.00 0.00 0.00 3.24
1549 1658 8.470040 TTGTTTGATATCTGGAAACTACGTAC 57.530 34.615 14.66 0.00 32.01 3.67
1550 1659 9.309516 GATTGTTTGATATCTGGAAACTACGTA 57.690 33.333 14.66 0.00 32.01 3.57
1552 1661 8.116753 GTGATTGTTTGATATCTGGAAACTACG 58.883 37.037 14.66 0.00 32.01 3.51
1561 1670 4.094739 TGTGGCGTGATTGTTTGATATCTG 59.905 41.667 3.98 0.00 0.00 2.90
1588 1697 5.046878 CGGCCCAGTACCATCTATACAATTA 60.047 44.000 0.00 0.00 0.00 1.40
1599 1708 3.326578 TGCACGGCCCAGTACCAT 61.327 61.111 0.00 0.00 0.00 3.55
1610 1719 1.167851 AAAGGATGATGTGTGCACGG 58.832 50.000 13.13 0.00 0.00 4.94
1623 1732 7.761249 GCACAATAAGAATGCACTTAAAAGGAT 59.239 33.333 1.33 0.00 39.23 3.24
1624 1733 7.090173 GCACAATAAGAATGCACTTAAAAGGA 58.910 34.615 1.33 0.00 39.23 3.36
1652 1768 4.335315 TCAGTTGTTAGTCCTTTGCACAAG 59.665 41.667 0.00 0.00 0.00 3.16
1658 1774 5.123227 TGAACCTCAGTTGTTAGTCCTTTG 58.877 41.667 0.00 0.00 35.94 2.77
1851 4129 7.478322 ACAATGCCGATACTAGTATAATACCG 58.522 38.462 15.42 13.35 0.00 4.02
1945 4223 2.224523 CCTGTAAGTGCCTCAGTTTGGA 60.225 50.000 0.00 0.00 0.00 3.53
1973 4251 8.828688 AAAAGTCAGTTCTAGGTTGTATACAC 57.171 34.615 4.68 1.11 0.00 2.90
2035 4313 6.985188 TCATTTTTACTAGTGAGTCATGCC 57.015 37.500 5.39 0.00 37.10 4.40
2125 4405 7.489435 TGAGAAATAAGCTACAGATCAAACGAG 59.511 37.037 0.00 0.00 0.00 4.18
2128 4408 8.709386 TCTGAGAAATAAGCTACAGATCAAAC 57.291 34.615 0.00 0.00 31.02 2.93
2363 4643 6.220726 AGACAAAGGCAACAAATGTAACTT 57.779 33.333 0.00 0.00 41.41 2.66
2491 4771 2.092538 CCAGATGGAGGCATCTTCTGTT 60.093 50.000 21.65 0.00 39.69 3.16
2543 4823 1.812571 CGGTTTGCAACAGGAGCTAAT 59.187 47.619 0.00 0.00 0.00 1.73
2545 4825 1.234615 GCGGTTTGCAACAGGAGCTA 61.235 55.000 0.00 0.00 45.45 3.32
2650 4930 0.603707 AATGGATACGATGGCAGCGG 60.604 55.000 29.60 11.43 42.51 5.52
2661 4941 4.689612 TGGTAGCAAGAGGAATGGATAC 57.310 45.455 0.00 0.00 0.00 2.24
2826 5116 9.679661 TTTGCACTGATCATTAGGATAGTTTTA 57.320 29.630 0.00 0.00 36.00 1.52
2862 5152 5.878133 CAAACACCCAAAATGAGGTTTTTG 58.122 37.500 6.45 6.45 43.51 2.44
3054 5488 5.948162 ACAACTCAAATATGGATCTGCAACT 59.052 36.000 0.00 0.00 0.00 3.16
3215 5649 1.271543 CCCAGGCATGACACTGAAAGA 60.272 52.381 0.00 0.00 36.86 2.52
3244 5678 0.388294 GGTGACCTACAGATACGCCC 59.612 60.000 0.00 0.00 0.00 6.13
3263 5697 3.812019 CGTGGGGTCGAGTCTCCG 61.812 72.222 0.00 0.00 0.00 4.63
3279 5713 2.011947 TGAGCTTTGAATCTGATGCCG 58.988 47.619 0.00 0.00 0.00 5.69
3454 5916 7.658261 CATCATCAATTGGAGATGCTGTTATT 58.342 34.615 20.40 0.00 41.98 1.40
3568 6030 2.655364 CAGCCGGATGACGCGTAG 60.655 66.667 16.48 1.03 42.52 3.51
3569 6031 3.135457 TCAGCCGGATGACGCGTA 61.135 61.111 20.59 0.41 42.52 4.42
3570 6032 4.796231 GTCAGCCGGATGACGCGT 62.796 66.667 34.56 13.85 40.18 6.01
3574 6036 4.492160 TCGCGTCAGCCGGATGAC 62.492 66.667 36.97 36.97 45.01 3.06
3575 6037 4.193334 CTCGCGTCAGCCGGATGA 62.193 66.667 20.59 20.59 41.18 2.92
3581 6043 1.160329 ATAATTGCCTCGCGTCAGCC 61.160 55.000 5.77 0.00 41.18 4.85
3582 6044 1.497991 TATAATTGCCTCGCGTCAGC 58.502 50.000 5.77 8.48 40.74 4.26
3583 6045 3.303132 GGTTTATAATTGCCTCGCGTCAG 60.303 47.826 5.77 0.00 0.00 3.51
3584 6046 2.610374 GGTTTATAATTGCCTCGCGTCA 59.390 45.455 5.77 0.00 0.00 4.35
3585 6047 2.348218 CGGTTTATAATTGCCTCGCGTC 60.348 50.000 5.77 0.00 0.00 5.19
3586 6048 1.595794 CGGTTTATAATTGCCTCGCGT 59.404 47.619 5.77 0.00 0.00 6.01
3587 6049 1.659211 GCGGTTTATAATTGCCTCGCG 60.659 52.381 0.00 0.00 32.93 5.87
3588 6050 1.334689 GGCGGTTTATAATTGCCTCGC 60.335 52.381 13.16 0.00 42.44 5.03
3589 6051 2.681152 GGCGGTTTATAATTGCCTCG 57.319 50.000 13.16 0.00 42.44 4.63
3592 6054 2.223377 CGAGAGGCGGTTTATAATTGCC 59.777 50.000 12.74 12.74 46.07 4.52
3593 6055 3.128349 TCGAGAGGCGGTTTATAATTGC 58.872 45.455 0.00 0.00 41.33 3.56
3594 6056 3.184581 GCTCGAGAGGCGGTTTATAATTG 59.815 47.826 18.75 0.00 41.33 2.32
3595 6057 3.391049 GCTCGAGAGGCGGTTTATAATT 58.609 45.455 18.75 0.00 41.33 1.40
3596 6058 2.288886 GGCTCGAGAGGCGGTTTATAAT 60.289 50.000 18.75 0.00 44.15 1.28
3597 6059 1.068127 GGCTCGAGAGGCGGTTTATAA 59.932 52.381 18.75 0.00 44.15 0.98
3598 6060 0.672342 GGCTCGAGAGGCGGTTTATA 59.328 55.000 18.75 0.00 44.15 0.98
3599 6061 1.442148 GGCTCGAGAGGCGGTTTAT 59.558 57.895 18.75 0.00 44.15 1.40
3600 6062 2.890371 GGCTCGAGAGGCGGTTTA 59.110 61.111 18.75 0.00 44.15 2.01
3607 6069 1.227089 CATCCAACGGCTCGAGAGG 60.227 63.158 18.75 9.22 0.00 3.69
3608 6070 0.248825 CTCATCCAACGGCTCGAGAG 60.249 60.000 18.75 11.79 0.00 3.20
3609 6071 1.667154 CCTCATCCAACGGCTCGAGA 61.667 60.000 18.75 0.00 0.00 4.04
3610 6072 1.227089 CCTCATCCAACGGCTCGAG 60.227 63.158 8.45 8.45 0.00 4.04
3611 6073 2.892640 CCTCATCCAACGGCTCGA 59.107 61.111 1.50 0.00 0.00 4.04
3612 6074 2.892425 GCCTCATCCAACGGCTCG 60.892 66.667 0.00 0.00 40.62 5.03
3613 6075 2.892425 CGCCTCATCCAACGGCTC 60.892 66.667 0.00 0.00 41.61 4.70
3614 6076 3.254024 AACGCCTCATCCAACGGCT 62.254 57.895 0.00 0.00 41.61 5.52
3615 6077 2.746277 AACGCCTCATCCAACGGC 60.746 61.111 0.00 0.00 40.40 5.68
3616 6078 3.039202 GCAACGCCTCATCCAACGG 62.039 63.158 0.00 0.00 0.00 4.44
3617 6079 2.324330 TGCAACGCCTCATCCAACG 61.324 57.895 0.00 0.00 0.00 4.10
3618 6080 1.210155 GTGCAACGCCTCATCCAAC 59.790 57.895 0.00 0.00 0.00 3.77
3619 6081 3.667087 GTGCAACGCCTCATCCAA 58.333 55.556 0.00 0.00 0.00 3.53
3634 6096 4.481112 GCAAATCGGGCAGCCGTG 62.481 66.667 5.00 0.00 34.52 4.94
3635 6097 4.722700 AGCAAATCGGGCAGCCGT 62.723 61.111 5.00 0.00 34.52 5.68
3636 6098 3.880846 GAGCAAATCGGGCAGCCG 61.881 66.667 5.00 0.62 0.00 5.52
3637 6099 3.521796 GGAGCAAATCGGGCAGCC 61.522 66.667 1.26 1.26 0.00 4.85
3638 6100 2.275547 CTTGGAGCAAATCGGGCAGC 62.276 60.000 0.00 0.00 0.00 5.25
3639 6101 0.962356 ACTTGGAGCAAATCGGGCAG 60.962 55.000 0.00 0.00 0.00 4.85
3640 6102 0.326595 TACTTGGAGCAAATCGGGCA 59.673 50.000 0.00 0.00 0.00 5.36
3641 6103 1.017387 CTACTTGGAGCAAATCGGGC 58.983 55.000 0.00 0.00 0.00 6.13
3642 6104 1.209504 TCCTACTTGGAGCAAATCGGG 59.790 52.381 0.00 0.00 40.56 5.14
3643 6105 2.691409 TCCTACTTGGAGCAAATCGG 57.309 50.000 0.00 0.00 40.56 4.18
3653 6115 2.099921 CTCTCCACGTGATCCTACTTGG 59.900 54.545 19.30 3.09 40.32 3.61
3654 6116 2.099921 CCTCTCCACGTGATCCTACTTG 59.900 54.545 19.30 0.00 0.00 3.16
3655 6117 2.025226 TCCTCTCCACGTGATCCTACTT 60.025 50.000 19.30 0.00 0.00 2.24
3656 6118 1.564818 TCCTCTCCACGTGATCCTACT 59.435 52.381 19.30 0.00 0.00 2.57
3657 6119 2.054232 TCCTCTCCACGTGATCCTAC 57.946 55.000 19.30 0.00 0.00 3.18
3658 6120 2.291346 TGTTCCTCTCCACGTGATCCTA 60.291 50.000 19.30 0.00 0.00 2.94
3659 6121 1.187087 GTTCCTCTCCACGTGATCCT 58.813 55.000 19.30 0.00 0.00 3.24
3660 6122 0.895530 TGTTCCTCTCCACGTGATCC 59.104 55.000 19.30 0.00 0.00 3.36
3661 6123 1.819288 TCTGTTCCTCTCCACGTGATC 59.181 52.381 19.30 0.00 0.00 2.92
3662 6124 1.546476 GTCTGTTCCTCTCCACGTGAT 59.454 52.381 19.30 0.00 0.00 3.06
3663 6125 0.959553 GTCTGTTCCTCTCCACGTGA 59.040 55.000 19.30 2.03 0.00 4.35
3664 6126 0.387367 CGTCTGTTCCTCTCCACGTG 60.387 60.000 9.08 9.08 0.00 4.49
3665 6127 1.957562 CGTCTGTTCCTCTCCACGT 59.042 57.895 0.00 0.00 0.00 4.49
3666 6128 1.444553 GCGTCTGTTCCTCTCCACG 60.445 63.158 0.00 0.00 0.00 4.94
3667 6129 1.444553 CGCGTCTGTTCCTCTCCAC 60.445 63.158 0.00 0.00 0.00 4.02
3668 6130 2.636412 CCGCGTCTGTTCCTCTCCA 61.636 63.158 4.92 0.00 0.00 3.86
3669 6131 2.182030 CCGCGTCTGTTCCTCTCC 59.818 66.667 4.92 0.00 0.00 3.71
3670 6132 2.507324 GCCGCGTCTGTTCCTCTC 60.507 66.667 4.92 0.00 0.00 3.20
3671 6133 2.992114 AGCCGCGTCTGTTCCTCT 60.992 61.111 4.92 0.00 0.00 3.69
3672 6134 2.811317 CAGCCGCGTCTGTTCCTC 60.811 66.667 9.38 0.00 0.00 3.71
3675 6137 2.387125 TTTTGCAGCCGCGTCTGTTC 62.387 55.000 19.32 3.30 42.97 3.18
3676 6138 1.999071 TTTTTGCAGCCGCGTCTGTT 61.999 50.000 19.32 0.00 42.97 3.16
3677 6139 2.477176 TTTTTGCAGCCGCGTCTGT 61.477 52.632 19.32 0.00 42.97 3.41
3678 6140 2.010817 GTTTTTGCAGCCGCGTCTG 61.011 57.895 13.75 13.75 42.97 3.51
3679 6141 2.186826 AGTTTTTGCAGCCGCGTCT 61.187 52.632 4.92 0.00 42.97 4.18
3680 6142 2.010817 CAGTTTTTGCAGCCGCGTC 61.011 57.895 4.92 0.00 42.97 5.19
3681 6143 1.999071 TTCAGTTTTTGCAGCCGCGT 61.999 50.000 4.92 0.00 42.97 6.01
3682 6144 1.299014 TTCAGTTTTTGCAGCCGCG 60.299 52.632 0.00 0.00 42.97 6.46
3683 6145 1.215014 GGTTCAGTTTTTGCAGCCGC 61.215 55.000 0.00 0.00 39.24 6.53
3684 6146 0.597377 GGGTTCAGTTTTTGCAGCCG 60.597 55.000 0.00 0.00 31.14 5.52
3685 6147 0.752658 AGGGTTCAGTTTTTGCAGCC 59.247 50.000 0.00 0.00 40.37 4.85
3686 6148 1.136891 ACAGGGTTCAGTTTTTGCAGC 59.863 47.619 0.00 0.00 0.00 5.25
3687 6149 2.689983 AGACAGGGTTCAGTTTTTGCAG 59.310 45.455 0.00 0.00 0.00 4.41
3688 6150 2.687935 GAGACAGGGTTCAGTTTTTGCA 59.312 45.455 0.00 0.00 0.00 4.08
3689 6151 2.952310 AGAGACAGGGTTCAGTTTTTGC 59.048 45.455 0.00 0.00 0.00 3.68
3690 6152 3.243201 GCAGAGACAGGGTTCAGTTTTTG 60.243 47.826 0.00 0.00 0.00 2.44
3691 6153 2.952310 GCAGAGACAGGGTTCAGTTTTT 59.048 45.455 0.00 0.00 0.00 1.94
3692 6154 2.173569 AGCAGAGACAGGGTTCAGTTTT 59.826 45.455 0.00 0.00 0.00 2.43
3693 6155 1.771255 AGCAGAGACAGGGTTCAGTTT 59.229 47.619 0.00 0.00 0.00 2.66
3694 6156 1.071385 CAGCAGAGACAGGGTTCAGTT 59.929 52.381 0.00 0.00 0.00 3.16
3695 6157 0.683973 CAGCAGAGACAGGGTTCAGT 59.316 55.000 0.00 0.00 0.00 3.41
3696 6158 0.673022 GCAGCAGAGACAGGGTTCAG 60.673 60.000 0.00 0.00 0.00 3.02
3697 6159 1.372683 GCAGCAGAGACAGGGTTCA 59.627 57.895 0.00 0.00 0.00 3.18
3698 6160 1.739562 CGCAGCAGAGACAGGGTTC 60.740 63.158 0.00 0.00 0.00 3.62
3699 6161 2.345244 CGCAGCAGAGACAGGGTT 59.655 61.111 0.00 0.00 0.00 4.11
3712 6174 4.527583 GGAGGAGGAGCTGCGCAG 62.528 72.222 32.83 32.83 0.00 5.18
3714 6176 3.397613 AATGGAGGAGGAGCTGCGC 62.398 63.158 0.00 0.00 0.00 6.09
3715 6177 1.523258 CAATGGAGGAGGAGCTGCG 60.523 63.158 0.00 0.00 0.00 5.18
3716 6178 1.823041 GCAATGGAGGAGGAGCTGC 60.823 63.158 0.00 0.00 0.00 5.25
3717 6179 0.179051 GAGCAATGGAGGAGGAGCTG 60.179 60.000 0.00 0.00 31.61 4.24
3718 6180 1.684386 CGAGCAATGGAGGAGGAGCT 61.684 60.000 0.00 0.00 34.61 4.09
3719 6181 1.227497 CGAGCAATGGAGGAGGAGC 60.227 63.158 0.00 0.00 0.00 4.70
3720 6182 0.103937 GACGAGCAATGGAGGAGGAG 59.896 60.000 0.00 0.00 0.00 3.69
3721 6183 1.667154 CGACGAGCAATGGAGGAGGA 61.667 60.000 0.00 0.00 0.00 3.71
3722 6184 1.227089 CGACGAGCAATGGAGGAGG 60.227 63.158 0.00 0.00 0.00 4.30
3723 6185 4.409342 CGACGAGCAATGGAGGAG 57.591 61.111 0.00 0.00 0.00 3.69
3741 6203 2.125673 CAGTAGGACGGCCGTTGG 60.126 66.667 34.65 14.29 39.96 3.77
3742 6204 1.445582 GACAGTAGGACGGCCGTTG 60.446 63.158 34.65 27.50 39.96 4.10
3743 6205 1.593296 GAGACAGTAGGACGGCCGTT 61.593 60.000 34.65 20.81 39.96 4.44
3744 6206 2.035312 AGACAGTAGGACGGCCGT 59.965 61.111 34.89 34.89 39.96 5.68
3745 6207 2.799371 GAGACAGTAGGACGGCCG 59.201 66.667 26.86 26.86 39.96 6.13
3746 6208 2.045131 ACGAGACAGTAGGACGGCC 61.045 63.158 0.00 0.00 0.00 6.13
3747 6209 1.136984 CACGAGACAGTAGGACGGC 59.863 63.158 0.00 0.00 0.00 5.68
3748 6210 1.136984 GCACGAGACAGTAGGACGG 59.863 63.158 0.00 0.00 0.00 4.79
3749 6211 0.179187 CTGCACGAGACAGTAGGACG 60.179 60.000 0.00 0.00 0.00 4.79
3750 6212 0.456995 GCTGCACGAGACAGTAGGAC 60.457 60.000 0.00 0.00 37.47 3.85
3751 6213 1.595993 GGCTGCACGAGACAGTAGGA 61.596 60.000 0.50 0.00 37.47 2.94
3752 6214 1.153745 GGCTGCACGAGACAGTAGG 60.154 63.158 0.50 0.00 37.47 3.18
3753 6215 1.515088 CGGCTGCACGAGACAGTAG 60.515 63.158 0.50 0.00 37.47 2.57
3754 6216 2.566529 CGGCTGCACGAGACAGTA 59.433 61.111 0.50 0.00 37.47 2.74
3770 6232 3.893763 TTTGTTGTGGCCGGTGCG 61.894 61.111 1.90 0.00 38.85 5.34
3771 6233 2.279186 GTTTGTTGTGGCCGGTGC 60.279 61.111 1.90 0.00 0.00 5.01
3772 6234 2.415426 GGTTTGTTGTGGCCGGTG 59.585 61.111 1.90 0.00 0.00 4.94
3773 6235 2.043852 TGGTTTGTTGTGGCCGGT 60.044 55.556 1.90 0.00 0.00 5.28
3774 6236 2.070654 GAGTGGTTTGTTGTGGCCGG 62.071 60.000 0.00 0.00 0.00 6.13
3775 6237 1.358759 GAGTGGTTTGTTGTGGCCG 59.641 57.895 0.00 0.00 0.00 6.13
3776 6238 1.000274 GATGAGTGGTTTGTTGTGGCC 60.000 52.381 0.00 0.00 0.00 5.36
3777 6239 1.956477 AGATGAGTGGTTTGTTGTGGC 59.044 47.619 0.00 0.00 0.00 5.01
3778 6240 2.554032 GGAGATGAGTGGTTTGTTGTGG 59.446 50.000 0.00 0.00 0.00 4.17
3779 6241 2.554032 GGGAGATGAGTGGTTTGTTGTG 59.446 50.000 0.00 0.00 0.00 3.33
3780 6242 2.489073 GGGGAGATGAGTGGTTTGTTGT 60.489 50.000 0.00 0.00 0.00 3.32
3781 6243 2.162681 GGGGAGATGAGTGGTTTGTTG 58.837 52.381 0.00 0.00 0.00 3.33
3782 6244 1.075536 GGGGGAGATGAGTGGTTTGTT 59.924 52.381 0.00 0.00 0.00 2.83
3783 6245 0.698818 GGGGGAGATGAGTGGTTTGT 59.301 55.000 0.00 0.00 0.00 2.83
3784 6246 0.698238 TGGGGGAGATGAGTGGTTTG 59.302 55.000 0.00 0.00 0.00 2.93
3785 6247 1.686236 ATGGGGGAGATGAGTGGTTT 58.314 50.000 0.00 0.00 0.00 3.27
3786 6248 2.412591 CTATGGGGGAGATGAGTGGTT 58.587 52.381 0.00 0.00 0.00 3.67
3787 6249 2.042301 GCTATGGGGGAGATGAGTGGT 61.042 57.143 0.00 0.00 0.00 4.16
3788 6250 0.689623 GCTATGGGGGAGATGAGTGG 59.310 60.000 0.00 0.00 0.00 4.00
3789 6251 1.427809 TGCTATGGGGGAGATGAGTG 58.572 55.000 0.00 0.00 0.00 3.51
3790 6252 2.173569 GTTTGCTATGGGGGAGATGAGT 59.826 50.000 0.00 0.00 0.00 3.41
3791 6253 2.173356 TGTTTGCTATGGGGGAGATGAG 59.827 50.000 0.00 0.00 0.00 2.90
3792 6254 2.173356 CTGTTTGCTATGGGGGAGATGA 59.827 50.000 0.00 0.00 0.00 2.92
3793 6255 2.579873 CTGTTTGCTATGGGGGAGATG 58.420 52.381 0.00 0.00 0.00 2.90
3794 6256 1.133668 GCTGTTTGCTATGGGGGAGAT 60.134 52.381 0.00 0.00 38.95 2.75
3795 6257 0.255890 GCTGTTTGCTATGGGGGAGA 59.744 55.000 0.00 0.00 38.95 3.71
3796 6258 0.753111 GGCTGTTTGCTATGGGGGAG 60.753 60.000 0.00 0.00 42.39 4.30
3797 6259 1.306296 GGCTGTTTGCTATGGGGGA 59.694 57.895 0.00 0.00 42.39 4.81
3798 6260 1.758122 GGGCTGTTTGCTATGGGGG 60.758 63.158 0.00 0.00 42.39 5.40
3799 6261 0.753111 GAGGGCTGTTTGCTATGGGG 60.753 60.000 0.00 0.00 42.39 4.96
3800 6262 1.097547 CGAGGGCTGTTTGCTATGGG 61.098 60.000 0.00 0.00 42.39 4.00
3801 6263 0.392998 ACGAGGGCTGTTTGCTATGG 60.393 55.000 0.00 0.00 42.39 2.74
3802 6264 1.131126 CAACGAGGGCTGTTTGCTATG 59.869 52.381 0.00 0.00 42.39 2.23
3803 6265 1.453155 CAACGAGGGCTGTTTGCTAT 58.547 50.000 0.00 0.00 42.39 2.97
3804 6266 1.234615 GCAACGAGGGCTGTTTGCTA 61.235 55.000 0.00 0.00 42.39 3.49
3805 6267 2.555547 GCAACGAGGGCTGTTTGCT 61.556 57.895 0.00 0.00 42.39 3.91
3806 6268 2.050077 GCAACGAGGGCTGTTTGC 60.050 61.111 0.00 0.00 41.94 3.68
3807 6269 1.008538 GTGCAACGAGGGCTGTTTG 60.009 57.895 0.00 0.00 0.00 2.93
3808 6270 1.152963 AGTGCAACGAGGGCTGTTT 60.153 52.632 0.00 0.00 45.86 2.83
3809 6271 1.893808 CAGTGCAACGAGGGCTGTT 60.894 57.895 0.00 0.00 45.86 3.16
3810 6272 2.281070 CAGTGCAACGAGGGCTGT 60.281 61.111 0.00 0.00 45.86 4.40
3811 6273 3.730761 GCAGTGCAACGAGGGCTG 61.731 66.667 11.09 0.00 45.86 4.85
3812 6274 4.254709 TGCAGTGCAACGAGGGCT 62.255 61.111 17.26 0.00 45.86 5.19
3813 6275 3.730761 CTGCAGTGCAACGAGGGC 61.731 66.667 20.22 0.00 45.86 5.19
3814 6276 3.730761 GCTGCAGTGCAACGAGGG 61.731 66.667 20.22 7.36 45.86 4.30
3815 6277 2.180131 GAAGCTGCAGTGCAACGAGG 62.180 60.000 20.22 8.13 45.86 4.63
3816 6278 1.206072 GAAGCTGCAGTGCAACGAG 59.794 57.895 20.22 8.54 45.86 4.18
3817 6279 1.227645 AGAAGCTGCAGTGCAACGA 60.228 52.632 20.22 0.00 45.86 3.85
3818 6280 1.082300 CAGAAGCTGCAGTGCAACG 60.082 57.895 20.22 9.72 45.86 4.10
3819 6281 4.937781 CAGAAGCTGCAGTGCAAC 57.062 55.556 20.22 15.35 38.41 4.17
3839 6301 4.803426 CTCCTGACCTCGCACGGC 62.803 72.222 0.00 0.00 0.00 5.68
3840 6302 4.135153 CCTCCTGACCTCGCACGG 62.135 72.222 0.00 0.00 0.00 4.94
3841 6303 3.343788 GACCTCCTGACCTCGCACG 62.344 68.421 0.00 0.00 0.00 5.34
3842 6304 2.276116 TGACCTCCTGACCTCGCAC 61.276 63.158 0.00 0.00 0.00 5.34
3843 6305 2.117423 TGACCTCCTGACCTCGCA 59.883 61.111 0.00 0.00 0.00 5.10
3844 6306 2.574399 GTGACCTCCTGACCTCGC 59.426 66.667 0.00 0.00 0.00 5.03
3845 6307 1.674651 TCGTGACCTCCTGACCTCG 60.675 63.158 0.00 0.00 0.00 4.63
3846 6308 0.894184 TGTCGTGACCTCCTGACCTC 60.894 60.000 0.00 0.00 0.00 3.85
3847 6309 1.153061 TGTCGTGACCTCCTGACCT 59.847 57.895 0.00 0.00 0.00 3.85
3848 6310 1.289380 GTGTCGTGACCTCCTGACC 59.711 63.158 0.00 0.00 0.00 4.02
3849 6311 1.289380 GGTGTCGTGACCTCCTGAC 59.711 63.158 0.00 0.00 32.69 3.51
3850 6312 1.906824 GGGTGTCGTGACCTCCTGA 60.907 63.158 5.73 0.00 36.14 3.86
3851 6313 2.159819 CTGGGTGTCGTGACCTCCTG 62.160 65.000 5.73 6.36 36.14 3.86
3852 6314 1.908793 CTGGGTGTCGTGACCTCCT 60.909 63.158 5.73 0.00 36.14 3.69
3853 6315 2.657237 CTGGGTGTCGTGACCTCC 59.343 66.667 5.73 0.71 36.14 4.30
3854 6316 2.657237 CCTGGGTGTCGTGACCTC 59.343 66.667 5.73 0.00 36.14 3.85
3855 6317 3.626924 GCCTGGGTGTCGTGACCT 61.627 66.667 0.00 0.00 36.14 3.85
3856 6318 2.748058 AATGCCTGGGTGTCGTGACC 62.748 60.000 0.00 0.00 34.96 4.02
3857 6319 1.302511 AATGCCTGGGTGTCGTGAC 60.303 57.895 0.00 0.00 0.00 3.67
3858 6320 1.302431 CAATGCCTGGGTGTCGTGA 60.302 57.895 0.00 0.00 0.00 4.35
3859 6321 2.981560 GCAATGCCTGGGTGTCGTG 61.982 63.158 0.00 0.00 0.00 4.35
3860 6322 2.672996 GCAATGCCTGGGTGTCGT 60.673 61.111 0.00 0.00 0.00 4.34
3861 6323 1.597797 AATGCAATGCCTGGGTGTCG 61.598 55.000 1.53 0.00 0.00 4.35
3862 6324 0.108520 CAATGCAATGCCTGGGTGTC 60.109 55.000 1.53 0.00 0.00 3.67
3863 6325 1.976898 CAATGCAATGCCTGGGTGT 59.023 52.632 1.53 0.00 0.00 4.16
3864 6326 1.448893 GCAATGCAATGCCTGGGTG 60.449 57.895 16.13 0.00 40.49 4.61
3865 6327 1.895020 CTGCAATGCAATGCCTGGGT 61.895 55.000 23.47 0.00 45.83 4.51
3866 6328 1.153449 CTGCAATGCAATGCCTGGG 60.153 57.895 23.47 7.83 45.83 4.45
3867 6329 1.813753 GCTGCAATGCAATGCCTGG 60.814 57.895 23.47 14.24 45.83 4.45
3868 6330 0.806102 GAGCTGCAATGCAATGCCTG 60.806 55.000 23.47 16.64 45.83 4.85
3869 6331 1.515954 GAGCTGCAATGCAATGCCT 59.484 52.632 23.47 14.22 45.83 4.75
3870 6332 1.520787 GGAGCTGCAATGCAATGCC 60.521 57.895 23.47 9.47 45.83 4.40
3871 6333 4.104143 GGAGCTGCAATGCAATGC 57.896 55.556 19.99 19.99 46.58 3.56


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

AutoCloner maintained by Alex Coulton.