Multiple sequence alignment - TraesCS2A01G440800

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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 TraesCS2A01G440800 chr2A 100.000 4238 0 0 1 4238 691180078 691184315 0.000000e+00 7827
1 TraesCS2A01G440800 chr2A 81.962 693 103 10 1 673 535252325 535253015 6.150000e-158 568
2 TraesCS2A01G440800 chr2A 79.858 705 85 28 4 674 598631154 598630473 2.990000e-126 462
3 TraesCS2A01G440800 chr2A 85.321 327 43 4 2231 2553 691182112 691182437 2.440000e-87 333
4 TraesCS2A01G440800 chr2A 85.321 327 43 4 2035 2360 691182308 691182630 2.440000e-87 333
5 TraesCS2A01G440800 chr2D 92.992 2497 103 25 753 3233 547765191 547762751 0.000000e+00 3576
6 TraesCS2A01G440800 chr2D 85.995 407 37 12 3849 4238 547696197 547695794 6.550000e-113 418
7 TraesCS2A01G440800 chr2D 85.437 412 33 14 3849 4238 547762365 547761959 1.840000e-108 403
8 TraesCS2A01G440800 chr2D 86.571 350 16 4 3275 3621 547762749 547762428 1.450000e-94 357
9 TraesCS2A01G440800 chr2D 94.372 231 13 0 3308 3538 547696728 547696498 5.210000e-94 355
10 TraesCS2A01G440800 chr2D 85.758 330 40 5 2035 2363 547763723 547763400 4.060000e-90 342
11 TraesCS2A01G440800 chr2D 84.545 330 44 5 2231 2556 547763919 547763593 1.900000e-83 320
12 TraesCS2A01G440800 chr2D 91.589 214 10 1 3607 3820 547696476 547696271 5.360000e-74 289
13 TraesCS2A01G440800 chr2D 93.985 133 8 0 2885 3017 74863079 74862947 7.190000e-48 202
14 TraesCS2A01G440800 chr2B 93.134 1471 73 13 2133 3595 654358466 654357016 0.000000e+00 2132
15 TraesCS2A01G440800 chr2B 85.025 788 52 39 802 1571 654360939 654360200 0.000000e+00 741
16 TraesCS2A01G440800 chr2B 83.757 708 96 13 4 698 658453514 658452813 0.000000e+00 652
17 TraesCS2A01G440800 chr2B 89.538 325 26 7 1564 1885 654359958 654359639 5.100000e-109 405
18 TraesCS2A01G440800 chr2B 85.330 409 33 13 3849 4238 654356755 654356355 8.540000e-107 398
19 TraesCS2A01G440800 chr2B 86.610 351 35 8 3896 4238 654325437 654325091 1.110000e-100 377
20 TraesCS2A01G440800 chr2B 94.372 231 13 0 3308 3538 654352953 654352723 5.210000e-94 355
21 TraesCS2A01G440800 chr2B 89.474 285 16 5 3569 3849 654352728 654352454 8.720000e-92 348
22 TraesCS2A01G440800 chr2B 85.196 331 43 5 2035 2363 654358370 654358044 6.790000e-88 335
23 TraesCS2A01G440800 chr2B 88.987 227 21 4 2331 2556 654358461 654358238 1.160000e-70 278
24 TraesCS2A01G440800 chr2B 91.667 168 10 3 2863 3030 113613373 113613210 3.300000e-56 230
25 TraesCS2A01G440800 chr2B 88.384 198 14 5 3636 3833 654357019 654356831 3.300000e-56 230
26 TraesCS2A01G440800 chr2B 78.571 168 29 7 2389 2553 654358238 654358401 2.080000e-18 104
27 TraesCS2A01G440800 chr7D 82.985 717 90 17 4 697 500812507 500813214 1.670000e-173 619
28 TraesCS2A01G440800 chr7D 81.458 631 77 20 1 598 94742058 94742681 8.240000e-132 481
29 TraesCS2A01G440800 chr5B 81.414 764 108 23 4 742 575831713 575832467 1.010000e-165 593
30 TraesCS2A01G440800 chr6A 79.948 773 99 26 1 744 449401065 449401810 6.280000e-143 518
31 TraesCS2A01G440800 chr6A 79.606 711 84 27 4 680 481161302 481160619 1.800000e-123 453
32 TraesCS2A01G440800 chrUn 83.826 507 71 8 246 746 8042372 8041871 4.960000e-129 472
33 TraesCS2A01G440800 chrUn 83.432 507 73 8 246 746 448650668 448651169 1.070000e-125 460
34 TraesCS2A01G440800 chr1B 83.826 507 71 8 246 746 632892648 632892147 4.960000e-129 472
35 TraesCS2A01G440800 chr1B 83.826 507 71 8 246 746 632908130 632907629 4.960000e-129 472
36 TraesCS2A01G440800 chr1B 83.629 507 72 8 246 746 632895522 632895021 2.310000e-127 466
37 TraesCS2A01G440800 chr1B 83.629 507 72 8 246 746 632911004 632910503 2.310000e-127 466
38 TraesCS2A01G440800 chr1B 78.646 768 108 24 4 732 499657491 499656741 3.860000e-125 459
39 TraesCS2A01G440800 chr1B 78.349 739 108 32 4 697 299706136 299705405 8.420000e-117 431
40 TraesCS2A01G440800 chr6B 78.889 720 105 29 4 697 719492818 719492120 1.080000e-120 444
41 TraesCS2A01G440800 chr5A 78.852 714 106 26 1 680 472499555 472500257 1.400000e-119 440
42 TraesCS2A01G440800 chr4A 77.732 723 103 34 4 691 87969324 87970023 1.430000e-104 390
43 TraesCS2A01G440800 chr3B 76.786 784 105 33 4 747 691482675 691481929 6.690000e-98 368
44 TraesCS2A01G440800 chr7B 76.505 681 103 25 1 659 474488600 474489245 6.840000e-83 318
45 TraesCS2A01G440800 chr7B 79.152 283 39 15 1 266 6889654 6889933 1.210000e-40 178
46 TraesCS2A01G440800 chr3D 79.585 289 38 14 4 274 340437754 340438039 2.010000e-43 187


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 TraesCS2A01G440800 chr2A 691180078 691184315 4237 False 2831.000000 7827 90.214000 1 4238 3 chr2A.!!$F2 4237
1 TraesCS2A01G440800 chr2A 535252325 535253015 690 False 568.000000 568 81.962000 1 673 1 chr2A.!!$F1 672
2 TraesCS2A01G440800 chr2A 598630473 598631154 681 True 462.000000 462 79.858000 4 674 1 chr2A.!!$R1 670
3 TraesCS2A01G440800 chr2D 547761959 547765191 3232 True 999.600000 3576 87.060600 753 4238 5 chr2D.!!$R3 3485
4 TraesCS2A01G440800 chr2D 547695794 547696728 934 True 354.000000 418 90.652000 3308 4238 3 chr2D.!!$R2 930
5 TraesCS2A01G440800 chr2B 658452813 658453514 701 True 652.000000 652 83.757000 4 698 1 chr2B.!!$R3 694
6 TraesCS2A01G440800 chr2B 654352454 654360939 8485 True 580.222222 2132 88.826667 802 4238 9 chr2B.!!$R4 3436
7 TraesCS2A01G440800 chr7D 500812507 500813214 707 False 619.000000 619 82.985000 4 697 1 chr7D.!!$F2 693
8 TraesCS2A01G440800 chr7D 94742058 94742681 623 False 481.000000 481 81.458000 1 598 1 chr7D.!!$F1 597
9 TraesCS2A01G440800 chr5B 575831713 575832467 754 False 593.000000 593 81.414000 4 742 1 chr5B.!!$F1 738
10 TraesCS2A01G440800 chr6A 449401065 449401810 745 False 518.000000 518 79.948000 1 744 1 chr6A.!!$F1 743
11 TraesCS2A01G440800 chr6A 481160619 481161302 683 True 453.000000 453 79.606000 4 680 1 chr6A.!!$R1 676
12 TraesCS2A01G440800 chrUn 8041871 8042372 501 True 472.000000 472 83.826000 246 746 1 chrUn.!!$R1 500
13 TraesCS2A01G440800 chrUn 448650668 448651169 501 False 460.000000 460 83.432000 246 746 1 chrUn.!!$F1 500
14 TraesCS2A01G440800 chr1B 632892147 632895522 3375 True 469.000000 472 83.727500 246 746 2 chr1B.!!$R3 500
15 TraesCS2A01G440800 chr1B 632907629 632911004 3375 True 469.000000 472 83.727500 246 746 2 chr1B.!!$R4 500
16 TraesCS2A01G440800 chr1B 499656741 499657491 750 True 459.000000 459 78.646000 4 732 1 chr1B.!!$R2 728
17 TraesCS2A01G440800 chr1B 299705405 299706136 731 True 431.000000 431 78.349000 4 697 1 chr1B.!!$R1 693
18 TraesCS2A01G440800 chr6B 719492120 719492818 698 True 444.000000 444 78.889000 4 697 1 chr6B.!!$R1 693
19 TraesCS2A01G440800 chr5A 472499555 472500257 702 False 440.000000 440 78.852000 1 680 1 chr5A.!!$F1 679
20 TraesCS2A01G440800 chr4A 87969324 87970023 699 False 390.000000 390 77.732000 4 691 1 chr4A.!!$F1 687
21 TraesCS2A01G440800 chr3B 691481929 691482675 746 True 368.000000 368 76.786000 4 747 1 chr3B.!!$R1 743
22 TraesCS2A01G440800 chr7B 474488600 474489245 645 False 318.000000 318 76.505000 1 659 1 chr7B.!!$F2 658

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
53 54 0.033920 TCCCGCTGATGGATGAATCG 59.966 55.0 0.0 0.0 0.00 3.34 F
454 6265 0.179171 CATACTGCGTCTTCGACCGT 60.179 55.0 0.0 0.0 39.71 4.83 F
749 6585 0.249741 GCTGGATTTGCCCATCATGC 60.250 55.0 0.0 0.0 35.33 4.06 F
1180 7020 0.328258 CTCCGTGGGGATCTGGTTTT 59.672 55.0 0.0 0.0 42.83 2.43 F
1182 7022 0.328258 CCGTGGGGATCTGGTTTTCT 59.672 55.0 0.0 0.0 34.06 2.52 F
1967 8109 0.821301 GCAGCCTAATCTCCCTTGGC 60.821 60.0 0.0 0.0 43.52 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1097 6937 0.039618 ACCCACTTCCGCATGGATTT 59.960 50.0 0.00 0.00 45.91 2.17 R
1348 7190 0.105504 ATAGGCCTGAATTTGGGGGC 60.106 55.0 17.99 9.65 44.57 5.80 R
2030 8172 0.819259 AGCTCGCTGTCAGCCAAAAA 60.819 50.0 19.14 0.00 38.18 1.94 R
3082 10126 0.326264 ACACCCTCATTGCTCAGGAC 59.674 55.0 0.00 0.00 30.32 3.85 R
3174 10218 6.121590 TGTTATGTCCAGTGCAACATCATAT 58.878 36.0 5.04 0.00 41.43 1.78 R
3631 10678 0.821711 TGGACCTTTGTTTCTGGCCG 60.822 55.0 0.00 0.00 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
53 54 0.033920 TCCCGCTGATGGATGAATCG 59.966 55.000 0.00 0.00 0.00 3.34
145 162 3.406595 CTCCTTCCCCATCACCGGC 62.407 68.421 0.00 0.00 0.00 6.13
228 250 1.883084 GGCCCGTATCACAGCGAAG 60.883 63.158 0.00 0.00 0.00 3.79
244 269 3.918253 AAGAATGGCGGCGGCAGAA 62.918 57.895 37.95 18.36 42.43 3.02
454 6265 0.179171 CATACTGCGTCTTCGACCGT 60.179 55.000 0.00 0.00 39.71 4.83
480 6291 2.657237 CGAGAAGGACGGCAAGGT 59.343 61.111 0.00 0.00 0.00 3.50
530 6349 1.737793 GAACTCCACCATAGCCAAACG 59.262 52.381 0.00 0.00 0.00 3.60
553 6373 5.863397 CGTGCCAAATTTGATAGTTTGATGT 59.137 36.000 19.86 0.00 37.48 3.06
556 6376 7.546667 GTGCCAAATTTGATAGTTTGATGTCAT 59.453 33.333 19.86 0.00 37.48 3.06
557 6377 7.546316 TGCCAAATTTGATAGTTTGATGTCATG 59.454 33.333 19.86 0.00 37.48 3.07
558 6378 7.546667 GCCAAATTTGATAGTTTGATGTCATGT 59.453 33.333 19.86 0.00 37.48 3.21
574 6401 6.465439 TGTCATGTAGTTAGTAGTGATGGG 57.535 41.667 0.00 0.00 0.00 4.00
732 6568 1.247567 CGTTTGACATTTGAGGGGCT 58.752 50.000 0.00 0.00 0.00 5.19
747 6583 2.830475 GGCTGGATTTGCCCATCAT 58.170 52.632 0.00 0.00 44.32 2.45
748 6584 0.391597 GGCTGGATTTGCCCATCATG 59.608 55.000 0.00 0.00 44.32 3.07
749 6585 0.249741 GCTGGATTTGCCCATCATGC 60.250 55.000 0.00 0.00 35.33 4.06
750 6586 1.410004 CTGGATTTGCCCATCATGCT 58.590 50.000 0.00 0.00 35.33 3.79
751 6587 1.340248 CTGGATTTGCCCATCATGCTC 59.660 52.381 0.00 0.00 35.33 4.26
752 6588 1.063492 TGGATTTGCCCATCATGCTCT 60.063 47.619 0.00 0.00 34.97 4.09
753 6589 2.175284 TGGATTTGCCCATCATGCTCTA 59.825 45.455 0.00 0.00 34.97 2.43
754 6590 3.225104 GGATTTGCCCATCATGCTCTAA 58.775 45.455 0.00 0.00 0.00 2.10
755 6591 3.830755 GGATTTGCCCATCATGCTCTAAT 59.169 43.478 0.00 0.00 0.00 1.73
756 6592 4.282703 GGATTTGCCCATCATGCTCTAATT 59.717 41.667 0.00 0.00 0.00 1.40
757 6593 5.477984 GGATTTGCCCATCATGCTCTAATTA 59.522 40.000 0.00 0.00 0.00 1.40
758 6594 5.772825 TTTGCCCATCATGCTCTAATTAC 57.227 39.130 0.00 0.00 0.00 1.89
759 6595 4.436113 TGCCCATCATGCTCTAATTACA 57.564 40.909 0.00 0.00 0.00 2.41
760 6596 4.136796 TGCCCATCATGCTCTAATTACAC 58.863 43.478 0.00 0.00 0.00 2.90
791 6627 0.958876 TAGACGCGGAGAAGCAGACA 60.959 55.000 12.47 0.00 36.85 3.41
792 6628 2.049063 ACGCGGAGAAGCAGACAC 60.049 61.111 12.47 0.00 36.85 3.67
800 6639 3.120408 CGGAGAAGCAGACACATTTTGAG 60.120 47.826 0.00 0.00 0.00 3.02
812 6651 6.984474 AGACACATTTTGAGAGAGAAAACGTA 59.016 34.615 0.00 0.00 0.00 3.57
861 6700 0.391661 GAGCCCGACATGTCACATGT 60.392 55.000 23.79 23.79 34.52 3.21
862 6701 0.391661 AGCCCGACATGTCACATGTC 60.392 55.000 32.92 32.92 43.55 3.06
863 6702 0.673333 GCCCGACATGTCACATGTCA 60.673 55.000 37.92 4.79 46.38 3.58
864 6703 1.078709 CCCGACATGTCACATGTCAC 58.921 55.000 37.92 21.39 46.38 3.67
865 6704 1.607767 CCCGACATGTCACATGTCACA 60.608 52.381 37.92 4.59 46.38 3.58
866 6705 2.349590 CCGACATGTCACATGTCACAT 58.650 47.619 37.92 9.86 46.38 3.21
926 6765 4.946784 AAACGAATTCCAGATTTCTCCG 57.053 40.909 0.00 0.00 0.00 4.63
951 6790 1.382420 AAACCAGCAAACAGGCCCA 60.382 52.632 0.00 0.00 0.00 5.36
977 6816 0.389426 TAAAGCAGAGGCCGACGAAC 60.389 55.000 0.00 0.00 42.56 3.95
984 6823 4.452733 GGCCGACGAACCTCCCAG 62.453 72.222 0.00 0.00 0.00 4.45
1012 6851 3.085533 TCGAGAAAACAGAGAGGGAGAG 58.914 50.000 0.00 0.00 0.00 3.20
1013 6852 3.085533 CGAGAAAACAGAGAGGGAGAGA 58.914 50.000 0.00 0.00 0.00 3.10
1014 6853 3.128589 CGAGAAAACAGAGAGGGAGAGAG 59.871 52.174 0.00 0.00 0.00 3.20
1097 6937 2.688666 AGGCCCCGAGCAAGATCA 60.689 61.111 0.00 0.00 46.50 2.92
1165 7005 2.736670 ATCCCCTCCAAATTTCTCCG 57.263 50.000 0.00 0.00 0.00 4.63
1166 7006 1.368374 TCCCCTCCAAATTTCTCCGT 58.632 50.000 0.00 0.00 0.00 4.69
1167 7007 1.004277 TCCCCTCCAAATTTCTCCGTG 59.996 52.381 0.00 0.00 0.00 4.94
1170 7010 1.463674 CTCCAAATTTCTCCGTGGGG 58.536 55.000 0.00 0.00 0.00 4.96
1171 7011 1.004277 CTCCAAATTTCTCCGTGGGGA 59.996 52.381 0.00 0.00 41.08 4.81
1174 7014 2.357154 CCAAATTTCTCCGTGGGGATCT 60.357 50.000 0.00 0.00 42.83 2.75
1175 7015 2.684881 CAAATTTCTCCGTGGGGATCTG 59.315 50.000 0.00 0.00 42.83 2.90
1176 7016 0.839946 ATTTCTCCGTGGGGATCTGG 59.160 55.000 0.00 0.00 42.83 3.86
1180 7020 0.328258 CTCCGTGGGGATCTGGTTTT 59.672 55.000 0.00 0.00 42.83 2.43
1182 7022 0.328258 CCGTGGGGATCTGGTTTTCT 59.672 55.000 0.00 0.00 34.06 2.52
1183 7023 1.271926 CCGTGGGGATCTGGTTTTCTT 60.272 52.381 0.00 0.00 34.06 2.52
1186 7026 1.786441 TGGGGATCTGGTTTTCTTGGT 59.214 47.619 0.00 0.00 0.00 3.67
1195 7035 2.907696 TGGTTTTCTTGGTCCGGATCTA 59.092 45.455 17.40 7.60 0.00 1.98
1196 7036 3.268330 GGTTTTCTTGGTCCGGATCTAC 58.732 50.000 17.40 0.00 0.00 2.59
1217 7057 8.842358 TCTACATATTTCGAGTTTGTTTCCTT 57.158 30.769 2.42 0.00 0.00 3.36
1219 7059 7.272037 ACATATTTCGAGTTTGTTTCCTTGT 57.728 32.000 0.00 0.00 0.00 3.16
1302 7142 4.386954 TCTGATTTGATCTCGCGATTATGC 59.613 41.667 10.36 0.00 0.00 3.14
1308 7148 4.309933 TGATCTCGCGATTATGCTTCAAT 58.690 39.130 10.36 0.00 0.00 2.57
1309 7149 4.151157 TGATCTCGCGATTATGCTTCAATG 59.849 41.667 10.36 0.00 0.00 2.82
1315 7157 5.465056 TCGCGATTATGCTTCAATGTATTCA 59.535 36.000 3.71 0.00 0.00 2.57
1320 7162 7.479603 CGATTATGCTTCAATGTATTCATTCGG 59.520 37.037 0.00 0.00 41.66 4.30
1348 7190 1.032114 GCGGGGGACTCCTTGATTTG 61.032 60.000 0.00 0.00 35.33 2.32
1373 7221 4.901250 CCCCAAATTCAGGCCTATGTATTT 59.099 41.667 3.98 4.25 32.41 1.40
1374 7222 5.366477 CCCCAAATTCAGGCCTATGTATTTT 59.634 40.000 3.98 0.00 30.55 1.82
1478 7326 1.675641 GCGGCCCAACATGAAGACT 60.676 57.895 0.00 0.00 0.00 3.24
1551 7407 6.230472 GTTTCACCCCATTCTTTTTATGCTT 58.770 36.000 0.00 0.00 0.00 3.91
1590 7697 5.063204 TGGTAGTTTCAGTCTCATTTGTGG 58.937 41.667 0.00 0.00 0.00 4.17
1602 7709 3.616219 TCATTTGTGGGAGAATTACCGG 58.384 45.455 0.00 0.00 0.00 5.28
1620 7727 5.041191 ACCGGCTATCTTGATTTTCATCT 57.959 39.130 0.00 0.00 0.00 2.90
1672 7784 1.136363 CATGGTTGTGCTTGTACGACG 60.136 52.381 0.00 0.00 36.10 5.12
1683 7795 3.720920 GCTTGTACGACGCAAACTGTATG 60.721 47.826 0.00 0.00 0.00 2.39
1912 8054 3.976169 TGCTGCCAAGTATTTTGTGTTC 58.024 40.909 0.00 0.00 0.00 3.18
1915 8057 5.048782 TGCTGCCAAGTATTTTGTGTTCTAG 60.049 40.000 0.00 0.00 0.00 2.43
1967 8109 0.821301 GCAGCCTAATCTCCCTTGGC 60.821 60.000 0.00 0.00 43.52 4.52
1980 8122 2.645297 TCCCTTGGCAGTGTATTGGTAA 59.355 45.455 0.00 0.00 0.00 2.85
2016 8158 1.577468 TATGTATGGGCTTCGCGTTG 58.423 50.000 5.77 0.75 0.00 4.10
2021 8163 1.578583 ATGGGCTTCGCGTTGTATAC 58.421 50.000 5.77 0.00 0.00 1.47
2060 8948 2.126307 GCGAGCTCTGCTTCGACA 60.126 61.111 19.01 0.00 39.88 4.35
2241 9278 1.747355 CTCAATTGGTGGCTGACATCC 59.253 52.381 5.42 0.00 0.00 3.51
2253 9290 3.049708 CTGACATCCAGCTCTGTTTCA 57.950 47.619 0.00 0.00 35.89 2.69
2275 9312 5.047590 TCAACGTGTCCTATACTGTCACAAT 60.048 40.000 0.00 0.00 0.00 2.71
2586 9626 1.903183 GCAGTGACTTTCCCTAGGACT 59.097 52.381 11.48 0.00 0.00 3.85
2620 9660 1.337703 TGATGTTTGTCTGCCAGTTGC 59.662 47.619 0.00 0.00 41.77 4.17
2651 9691 6.427242 GGTTTGACTAGAGTTTGAAACCCTAG 59.573 42.308 20.58 20.58 43.22 3.02
2660 9700 7.746703 AGAGTTTGAAACCCTAGACAGTATTT 58.253 34.615 4.14 0.00 0.00 1.40
3019 10063 1.856873 TGGGCTCCATCAAAGGGGT 60.857 57.895 0.00 0.00 0.00 4.95
3082 10126 3.287867 AATGATACTTGCCAGGTCCTG 57.712 47.619 12.40 12.40 0.00 3.86
3192 10236 6.925610 TCTTTATATGATGTTGCACTGGAC 57.074 37.500 0.00 0.00 0.00 4.02
3208 10252 4.134563 ACTGGACATAACAACAGTGTTCC 58.865 43.478 5.27 3.12 45.00 3.62
3260 10304 4.333649 GTCATGTGGTACCTCATGTTCATG 59.666 45.833 37.45 23.64 43.93 3.07
3336 10380 4.853924 AAGGCAGTTTTGTGTCTAATGG 57.146 40.909 0.00 0.00 30.14 3.16
3338 10382 4.215109 AGGCAGTTTTGTGTCTAATGGTT 58.785 39.130 0.00 0.00 27.80 3.67
3382 10426 1.967779 ACCAACACCAAATAAGCACCC 59.032 47.619 0.00 0.00 0.00 4.61
3433 10477 9.233232 ACAACAAAGAAAAATAACTAGAAAGCG 57.767 29.630 0.00 0.00 0.00 4.68
3498 10542 2.099756 GGCATCCAGAACTTAATGTGGC 59.900 50.000 0.00 0.00 33.86 5.01
3648 10695 0.310854 CACGGCCAGAAACAAAGGTC 59.689 55.000 2.24 0.00 0.00 3.85
3711 10758 0.462759 CCATGAGGGCGAAGAGGAAC 60.463 60.000 0.00 0.00 0.00 3.62
3712 10759 0.250234 CATGAGGGCGAAGAGGAACA 59.750 55.000 0.00 0.00 0.00 3.18
3713 10760 1.134280 CATGAGGGCGAAGAGGAACAT 60.134 52.381 0.00 0.00 0.00 2.71
3714 10761 1.860641 TGAGGGCGAAGAGGAACATA 58.139 50.000 0.00 0.00 0.00 2.29
3715 10762 2.184533 TGAGGGCGAAGAGGAACATAA 58.815 47.619 0.00 0.00 0.00 1.90
3716 10763 2.771943 TGAGGGCGAAGAGGAACATAAT 59.228 45.455 0.00 0.00 0.00 1.28
3717 10764 3.964688 TGAGGGCGAAGAGGAACATAATA 59.035 43.478 0.00 0.00 0.00 0.98
3718 10765 4.407621 TGAGGGCGAAGAGGAACATAATAA 59.592 41.667 0.00 0.00 0.00 1.40
3731 10778 7.112122 AGGAACATAATAAGAGTGTGCATGAA 58.888 34.615 0.00 0.00 0.00 2.57
3734 10781 9.793252 GAACATAATAAGAGTGTGCATGAAAAT 57.207 29.630 0.00 0.00 0.00 1.82
3776 10823 7.186021 AGAAAGTGTAATGGTGACTAAAACG 57.814 36.000 0.00 0.00 0.00 3.60
3823 10878 9.442047 ACTTCAAAAACATCTCTAGTCTTATGG 57.558 33.333 0.00 0.00 0.00 2.74
3824 10879 9.442047 CTTCAAAAACATCTCTAGTCTTATGGT 57.558 33.333 0.00 0.00 0.00 3.55
3825 10880 9.436957 TTCAAAAACATCTCTAGTCTTATGGTC 57.563 33.333 0.00 0.00 0.00 4.02
3826 10881 8.041323 TCAAAAACATCTCTAGTCTTATGGTCC 58.959 37.037 0.00 0.00 0.00 4.46
3827 10882 7.741554 AAAACATCTCTAGTCTTATGGTCCT 57.258 36.000 0.00 0.00 0.00 3.85
3828 10883 8.840200 AAAACATCTCTAGTCTTATGGTCCTA 57.160 34.615 0.00 0.00 0.00 2.94
3829 10884 7.826918 AACATCTCTAGTCTTATGGTCCTAC 57.173 40.000 0.00 0.00 0.00 3.18
3830 10885 6.308566 ACATCTCTAGTCTTATGGTCCTACC 58.691 44.000 0.00 0.00 39.22 3.18
3832 10887 6.593759 TCTCTAGTCTTATGGTCCTACCTT 57.406 41.667 0.00 0.00 39.58 3.50
3833 10888 6.982899 TCTCTAGTCTTATGGTCCTACCTTT 58.017 40.000 0.00 0.00 39.58 3.11
3835 10890 6.738635 TCTAGTCTTATGGTCCTACCTTTCA 58.261 40.000 0.00 0.00 39.58 2.69
3837 10892 4.717280 AGTCTTATGGTCCTACCTTTCAGG 59.283 45.833 0.00 0.00 39.58 3.86
3839 10894 2.361085 ATGGTCCTACCTTTCAGGGT 57.639 50.000 0.00 0.00 40.58 4.34
3840 10895 1.652947 TGGTCCTACCTTTCAGGGTC 58.347 55.000 0.00 0.00 40.58 4.46
3842 10897 1.555058 GGTCCTACCTTTCAGGGTCCT 60.555 57.143 0.00 0.00 40.58 3.85
3846 10901 3.842436 TCCTACCTTTCAGGGTCCTAAAC 59.158 47.826 0.00 0.00 40.58 2.01
3847 10902 3.585732 CCTACCTTTCAGGGTCCTAAACA 59.414 47.826 0.00 0.00 40.58 2.83
3942 11057 7.504924 AATTCGGACTTTTGAATGAAGTACA 57.495 32.000 0.00 0.00 37.74 2.90
3943 11058 7.687941 ATTCGGACTTTTGAATGAAGTACAT 57.312 32.000 0.00 0.00 37.74 2.29
3944 11059 8.786826 ATTCGGACTTTTGAATGAAGTACATA 57.213 30.769 0.00 0.00 37.74 2.29
3983 11100 2.549926 ACATATCGCTGTCGCATTTGA 58.450 42.857 0.00 0.00 35.30 2.69
4048 11168 4.163458 TCACCTTGGAAGCGGAAAGTATAT 59.837 41.667 0.00 0.00 0.00 0.86
4049 11169 5.364446 TCACCTTGGAAGCGGAAAGTATATA 59.636 40.000 0.00 0.00 0.00 0.86
4050 11170 6.042781 TCACCTTGGAAGCGGAAAGTATATAT 59.957 38.462 0.00 0.00 0.00 0.86
4051 11171 7.233962 TCACCTTGGAAGCGGAAAGTATATATA 59.766 37.037 0.00 0.00 0.00 0.86
4052 11172 7.876068 CACCTTGGAAGCGGAAAGTATATATAA 59.124 37.037 0.00 0.00 0.00 0.98
4053 11173 8.434392 ACCTTGGAAGCGGAAAGTATATATAAA 58.566 33.333 0.00 0.00 0.00 1.40
4054 11174 9.449719 CCTTGGAAGCGGAAAGTATATATAAAT 57.550 33.333 0.00 0.00 0.00 1.40
4056 11176 8.786826 TGGAAGCGGAAAGTATATATAAATGG 57.213 34.615 0.00 0.00 0.00 3.16
4057 11177 8.598916 TGGAAGCGGAAAGTATATATAAATGGA 58.401 33.333 0.00 0.00 0.00 3.41
4058 11178 9.444600 GGAAGCGGAAAGTATATATAAATGGAA 57.555 33.333 0.00 0.00 0.00 3.53
4120 11273 2.740981 GAGTTGGATGATGGATCGCATC 59.259 50.000 14.03 14.03 40.05 3.91
4129 11282 1.587054 GGATCGCATCCCTAGGACG 59.413 63.158 11.48 8.69 43.88 4.79
4153 11306 6.964934 CGGGCTGTATTTTGTAATGACTAAAC 59.035 38.462 0.00 0.00 33.95 2.01
4181 11334 4.924305 TCCATGAATATCTTTTGCCAGC 57.076 40.909 0.00 0.00 0.00 4.85
4192 11345 0.473755 TTTGCCAGCTGAGTTCCTCA 59.526 50.000 17.39 0.00 38.25 3.86
4210 11363 3.438087 CCTCACGTTCTTTGCTCATGAAT 59.562 43.478 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 0.033920 CGATTCATCCATCAGCGGGA 59.966 55.000 0.00 0.00 39.14 5.14
94 95 2.342279 CGGGACTGCGAAAGGACA 59.658 61.111 0.00 0.00 0.00 4.02
124 141 0.978146 CGGTGATGGGGAAGGAGAGT 60.978 60.000 0.00 0.00 0.00 3.24
145 162 1.299468 GGACTCATAGTCTGCGCGG 60.299 63.158 10.86 10.86 44.46 6.46
148 165 0.103208 GGTGGGACTCATAGTCTGCG 59.897 60.000 6.99 0.00 44.46 5.18
228 250 3.880846 CTTCTGCCGCCGCCATTC 61.881 66.667 0.00 0.00 0.00 2.67
269 297 3.077556 GGCTTCCTCCTCTGCGGA 61.078 66.667 0.00 0.00 40.30 5.54
336 6115 2.522060 CGATTATGCTCTCGGGTGC 58.478 57.895 1.47 1.47 0.00 5.01
480 6291 2.434331 CTTTGCCCTTCCCGGTGA 59.566 61.111 0.00 0.00 0.00 4.02
530 6349 6.867816 TGACATCAAACTATCAAATTTGGCAC 59.132 34.615 17.90 0.00 36.62 5.01
553 6373 5.525484 ACCCCATCACTACTAACTACATGA 58.475 41.667 0.00 0.00 0.00 3.07
556 6376 4.891756 GCTACCCCATCACTACTAACTACA 59.108 45.833 0.00 0.00 0.00 2.74
557 6377 4.280425 GGCTACCCCATCACTACTAACTAC 59.720 50.000 0.00 0.00 0.00 2.73
558 6378 4.477249 GGCTACCCCATCACTACTAACTA 58.523 47.826 0.00 0.00 0.00 2.24
559 6379 3.306613 GGCTACCCCATCACTACTAACT 58.693 50.000 0.00 0.00 0.00 2.24
560 6380 2.035576 CGGCTACCCCATCACTACTAAC 59.964 54.545 0.00 0.00 0.00 2.34
574 6401 0.389426 ACACACATCGTTCGGCTACC 60.389 55.000 0.00 0.00 0.00 3.18
628 6458 5.871524 CCGGACACCTCAATTATCATATCAG 59.128 44.000 0.00 0.00 0.00 2.90
716 6552 0.776810 TCCAGCCCCTCAAATGTCAA 59.223 50.000 0.00 0.00 0.00 3.18
717 6553 1.002069 ATCCAGCCCCTCAAATGTCA 58.998 50.000 0.00 0.00 0.00 3.58
732 6568 1.063492 AGAGCATGATGGGCAAATCCA 60.063 47.619 0.00 0.00 41.60 3.41
747 6583 2.568062 TGGTTCCGGTGTAATTAGAGCA 59.432 45.455 11.78 0.00 0.00 4.26
748 6584 3.255969 TGGTTCCGGTGTAATTAGAGC 57.744 47.619 0.00 1.85 0.00 4.09
749 6585 6.753107 AAATTGGTTCCGGTGTAATTAGAG 57.247 37.500 0.00 0.00 0.00 2.43
750 6586 7.550196 GTCTAAATTGGTTCCGGTGTAATTAGA 59.450 37.037 0.00 6.13 0.00 2.10
751 6587 7.464977 CGTCTAAATTGGTTCCGGTGTAATTAG 60.465 40.741 0.00 3.89 0.00 1.73
752 6588 6.313411 CGTCTAAATTGGTTCCGGTGTAATTA 59.687 38.462 0.00 0.00 0.00 1.40
753 6589 5.122711 CGTCTAAATTGGTTCCGGTGTAATT 59.877 40.000 0.00 2.25 0.00 1.40
754 6590 4.632688 CGTCTAAATTGGTTCCGGTGTAAT 59.367 41.667 0.00 0.00 0.00 1.89
755 6591 3.995705 CGTCTAAATTGGTTCCGGTGTAA 59.004 43.478 0.00 0.00 0.00 2.41
756 6592 3.587923 CGTCTAAATTGGTTCCGGTGTA 58.412 45.455 0.00 0.00 0.00 2.90
757 6593 2.419667 CGTCTAAATTGGTTCCGGTGT 58.580 47.619 0.00 0.00 0.00 4.16
758 6594 1.129811 GCGTCTAAATTGGTTCCGGTG 59.870 52.381 0.00 0.00 0.00 4.94
759 6595 1.445871 GCGTCTAAATTGGTTCCGGT 58.554 50.000 0.00 0.00 0.00 5.28
760 6596 0.372334 CGCGTCTAAATTGGTTCCGG 59.628 55.000 0.00 0.00 0.00 5.14
791 6627 6.018180 GGTGTACGTTTTCTCTCTCAAAATGT 60.018 38.462 0.00 7.65 42.75 2.71
792 6628 6.018262 TGGTGTACGTTTTCTCTCTCAAAATG 60.018 38.462 0.00 0.00 36.30 2.32
800 6639 2.036862 AGGGTGGTGTACGTTTTCTCTC 59.963 50.000 0.00 0.00 0.00 3.20
812 6651 0.549469 AACGGAAGAAAGGGTGGTGT 59.451 50.000 0.00 0.00 0.00 4.16
863 6702 2.844946 TCCGTTTCACATGTGACATGT 58.155 42.857 27.88 24.38 39.66 3.21
864 6703 3.181507 GGATCCGTTTCACATGTGACATG 60.182 47.826 27.88 24.59 39.66 3.21
865 6704 3.009723 GGATCCGTTTCACATGTGACAT 58.990 45.455 27.88 14.16 39.66 3.06
866 6705 2.224402 TGGATCCGTTTCACATGTGACA 60.224 45.455 27.88 19.32 39.66 3.58
867 6706 2.422597 TGGATCCGTTTCACATGTGAC 58.577 47.619 27.88 16.86 39.66 3.67
926 6765 2.846754 TTTGCTGGTTTGGCCCCC 60.847 61.111 0.00 0.00 36.04 5.40
951 6790 3.258622 GTCGGCCTCTGCTTTATATAGGT 59.741 47.826 0.00 0.00 37.74 3.08
977 6816 5.880332 TGTTTTCTCGATTTAATCTGGGAGG 59.120 40.000 3.34 0.00 0.00 4.30
984 6823 7.042335 TCCCTCTCTGTTTTCTCGATTTAATC 58.958 38.462 0.00 0.00 0.00 1.75
1012 6851 2.135664 TATTAGGCGCTCGCTTTCTC 57.864 50.000 7.64 0.00 41.60 2.87
1013 6852 2.596904 TTATTAGGCGCTCGCTTTCT 57.403 45.000 7.64 5.58 41.60 2.52
1014 6853 2.608090 AGTTTATTAGGCGCTCGCTTTC 59.392 45.455 7.64 0.00 41.60 2.62
1055 6895 3.825160 TTTGCTTCGCCGCCTCTGT 62.825 57.895 0.00 0.00 0.00 3.41
1097 6937 0.039618 ACCCACTTCCGCATGGATTT 59.960 50.000 0.00 0.00 45.91 2.17
1154 6994 2.684881 CAGATCCCCACGGAGAAATTTG 59.315 50.000 0.00 0.00 43.12 2.32
1165 7005 2.171003 CCAAGAAAACCAGATCCCCAC 58.829 52.381 0.00 0.00 0.00 4.61
1166 7006 1.786441 ACCAAGAAAACCAGATCCCCA 59.214 47.619 0.00 0.00 0.00 4.96
1167 7007 2.447443 GACCAAGAAAACCAGATCCCC 58.553 52.381 0.00 0.00 0.00 4.81
1170 7010 2.084546 CCGGACCAAGAAAACCAGATC 58.915 52.381 0.00 0.00 0.00 2.75
1171 7011 1.702957 TCCGGACCAAGAAAACCAGAT 59.297 47.619 0.00 0.00 0.00 2.90
1174 7014 1.702957 AGATCCGGACCAAGAAAACCA 59.297 47.619 6.12 0.00 0.00 3.67
1175 7015 2.491675 AGATCCGGACCAAGAAAACC 57.508 50.000 6.12 0.00 0.00 3.27
1176 7016 3.934068 TGTAGATCCGGACCAAGAAAAC 58.066 45.455 6.12 0.00 0.00 2.43
1180 7020 5.278808 CGAAATATGTAGATCCGGACCAAGA 60.279 44.000 6.12 0.00 0.00 3.02
1182 7022 4.585581 TCGAAATATGTAGATCCGGACCAA 59.414 41.667 6.12 0.00 0.00 3.67
1183 7023 4.146564 TCGAAATATGTAGATCCGGACCA 58.853 43.478 6.12 1.15 0.00 4.02
1186 7026 6.183360 ACAAACTCGAAATATGTAGATCCGGA 60.183 38.462 6.61 6.61 0.00 5.14
1195 7035 7.272037 ACAAGGAAACAAACTCGAAATATGT 57.728 32.000 0.00 0.00 0.00 2.29
1196 7036 9.277565 CATACAAGGAAACAAACTCGAAATATG 57.722 33.333 0.00 0.00 0.00 1.78
1217 7057 2.124122 CGATCGAAACATCGGCATACA 58.876 47.619 10.26 0.00 41.71 2.29
1251 7091 0.878961 AACTCGGAATAATCGCCGCC 60.879 55.000 0.00 0.00 46.79 6.13
1266 7106 3.436704 TCAAATCAGATGCGGTGAAACTC 59.563 43.478 0.00 0.00 36.74 3.01
1272 7112 2.220363 CGAGATCAAATCAGATGCGGTG 59.780 50.000 0.00 0.00 0.00 4.94
1302 7142 4.336433 AGCCACCGAATGAATACATTGAAG 59.664 41.667 0.00 0.00 45.30 3.02
1308 7148 3.492656 GCTAGAGCCACCGAATGAATACA 60.493 47.826 0.00 0.00 34.31 2.29
1309 7149 3.060602 GCTAGAGCCACCGAATGAATAC 58.939 50.000 0.00 0.00 34.31 1.89
1315 7157 2.797278 CCCGCTAGAGCCACCGAAT 61.797 63.158 0.00 0.00 37.91 3.34
1320 7162 3.851128 GTCCCCCGCTAGAGCCAC 61.851 72.222 0.00 0.00 37.91 5.01
1348 7190 0.105504 ATAGGCCTGAATTTGGGGGC 60.106 55.000 17.99 9.65 44.57 5.80
1373 7221 9.838339 GGAAAAGAAGGATGTCATAGATTAGAA 57.162 33.333 0.00 0.00 0.00 2.10
1374 7222 8.144478 CGGAAAAGAAGGATGTCATAGATTAGA 58.856 37.037 0.00 0.00 0.00 2.10
1385 7233 0.323629 TCGCCGGAAAAGAAGGATGT 59.676 50.000 5.05 0.00 0.00 3.06
1390 7238 2.399356 GCCCTCGCCGGAAAAGAAG 61.399 63.158 5.05 0.00 33.16 2.85
1512 7360 6.072397 TGGGGTGAAACGTAAATAAATGACAG 60.072 38.462 0.00 0.00 38.12 3.51
1514 7362 6.256912 TGGGGTGAAACGTAAATAAATGAC 57.743 37.500 0.00 0.00 38.12 3.06
1551 7407 9.130661 TGAAACTACCAATCTCAAATCAAAAGA 57.869 29.630 0.00 0.00 0.00 2.52
1583 7690 2.025321 AGCCGGTAATTCTCCCACAAAT 60.025 45.455 1.90 0.00 0.00 2.32
1590 7697 4.602340 TCAAGATAGCCGGTAATTCTCC 57.398 45.455 1.90 0.00 0.00 3.71
1602 7709 7.325660 TGGTCAAGATGAAAATCAAGATAGC 57.674 36.000 0.00 0.00 0.00 2.97
1620 7727 5.606348 AGTAACAAAGGCAAATTGGTCAA 57.394 34.783 0.00 0.00 32.02 3.18
1672 7784 6.314784 CACCTAACTTAAGCATACAGTTTGC 58.685 40.000 7.86 7.86 40.45 3.68
1683 7795 3.351794 AAGAGGCCACCTAACTTAAGC 57.648 47.619 5.01 0.00 31.76 3.09
1912 8054 2.565841 GCAAGATGGGGCTACAACTAG 58.434 52.381 0.00 0.00 0.00 2.57
1915 8057 1.376609 CGGCAAGATGGGGCTACAAC 61.377 60.000 0.00 0.00 0.00 3.32
1967 8109 7.764695 TCACGTATCAATTACCAATACACTG 57.235 36.000 0.00 0.00 0.00 3.66
1980 8122 7.765819 CCCATACATATGTGATCACGTATCAAT 59.234 37.037 29.64 23.20 46.17 2.57
2030 8172 0.819259 AGCTCGCTGTCAGCCAAAAA 60.819 50.000 19.14 0.00 38.18 1.94
2060 8948 3.682718 GCAATAGTGGCAGTGTAGGACAT 60.683 47.826 4.76 0.00 0.00 3.06
2189 9226 3.724478 TGGTCATCCTAACATGAGAGGT 58.276 45.455 14.65 3.44 33.29 3.85
2241 9278 1.261619 GGACACGTTGAAACAGAGCTG 59.738 52.381 0.00 0.00 0.00 4.24
2253 9290 4.859304 TTGTGACAGTATAGGACACGTT 57.141 40.909 0.00 0.00 34.72 3.99
2275 9312 6.233905 TCTATAATGTTGCCTACTCTGCAA 57.766 37.500 0.00 0.00 45.83 4.08
2312 9349 4.401202 TCAATTAGTAGCTGACACGATCCA 59.599 41.667 0.00 0.00 0.00 3.41
2351 9388 7.961325 AAAAATGTTTACAATGTTAGGCTGG 57.039 32.000 0.00 0.00 0.00 4.85
2586 9626 5.178061 ACAAACATCATCGACTAAGCATGA 58.822 37.500 0.00 0.00 0.00 3.07
2620 9660 9.665264 GTTTCAAACTCTAGTCAAACCTAATTG 57.335 33.333 0.00 0.00 0.00 2.32
2660 9700 6.700081 CAGCGTCTATATAGTTGCAAGGTAAA 59.300 38.462 22.17 0.00 0.00 2.01
2682 9722 6.126568 TGTAGAGTTTTAAACACAACCAGC 57.873 37.500 10.60 0.00 0.00 4.85
3038 10082 7.410800 TTCGTTTCGCAATAAAGAAGACTTA 57.589 32.000 0.00 0.00 35.05 2.24
3082 10126 0.326264 ACACCCTCATTGCTCAGGAC 59.674 55.000 0.00 0.00 30.32 3.85
3163 10207 9.655769 CAGTGCAACATCATATAAAGATACAAC 57.344 33.333 0.00 0.00 41.43 3.32
3169 10213 6.413892 TGTCCAGTGCAACATCATATAAAGA 58.586 36.000 0.00 0.00 41.43 2.52
3170 10214 6.682423 TGTCCAGTGCAACATCATATAAAG 57.318 37.500 0.00 0.00 41.43 1.85
3171 10215 8.620416 GTTATGTCCAGTGCAACATCATATAAA 58.380 33.333 5.04 0.00 41.43 1.40
3174 10218 6.121590 TGTTATGTCCAGTGCAACATCATAT 58.878 36.000 5.04 0.00 41.43 1.78
3192 10236 5.146460 CAACATCGGAACACTGTTGTTATG 58.854 41.667 12.00 2.87 46.43 1.90
3208 10252 2.352651 CAGGTAATCCAGTGCAACATCG 59.647 50.000 0.00 0.00 41.43 3.84
3336 10380 7.813645 ACTCTTTCGTATAAATTTGGTCCAAC 58.186 34.615 2.98 0.00 0.00 3.77
3338 10382 7.550196 GGTACTCTTTCGTATAAATTTGGTCCA 59.450 37.037 0.00 0.00 0.00 4.02
3440 10484 7.410120 AACTTTGAGAAGGTTGTGATCTTTT 57.590 32.000 0.00 0.00 37.19 2.27
3498 10542 3.916172 CGGTTTTCAGTTGATTGATGCAG 59.084 43.478 0.00 0.00 0.00 4.41
3626 10673 2.159382 CCTTTGTTTCTGGCCGTGTAT 58.841 47.619 0.00 0.00 0.00 2.29
3631 10678 0.821711 TGGACCTTTGTTTCTGGCCG 60.822 55.000 0.00 0.00 0.00 6.13
3714 10761 8.970020 TCCATTATTTTCATGCACACTCTTATT 58.030 29.630 0.00 0.00 0.00 1.40
3715 10762 8.523915 TCCATTATTTTCATGCACACTCTTAT 57.476 30.769 0.00 0.00 0.00 1.73
3716 10763 7.936496 TCCATTATTTTCATGCACACTCTTA 57.064 32.000 0.00 0.00 0.00 2.10
3717 10764 6.839124 TCCATTATTTTCATGCACACTCTT 57.161 33.333 0.00 0.00 0.00 2.85
3718 10765 8.573885 CATATCCATTATTTTCATGCACACTCT 58.426 33.333 0.00 0.00 0.00 3.24
3751 10798 7.496591 TCGTTTTAGTCACCATTACACTTTCTT 59.503 33.333 0.00 0.00 0.00 2.52
3801 10848 8.043710 AGGACCATAAGACTAGAGATGTTTTTG 58.956 37.037 0.00 0.00 0.00 2.44
3808 10855 6.790177 AGGTAGGACCATAAGACTAGAGAT 57.210 41.667 0.00 0.00 41.95 2.75
3830 10885 7.557719 ACAATATCATGTTTAGGACCCTGAAAG 59.442 37.037 0.00 0.00 0.00 2.62
3832 10887 6.969043 ACAATATCATGTTTAGGACCCTGAA 58.031 36.000 0.00 0.00 0.00 3.02
3833 10888 6.575244 ACAATATCATGTTTAGGACCCTGA 57.425 37.500 0.00 0.00 0.00 3.86
3835 10890 6.731467 ACAACAATATCATGTTTAGGACCCT 58.269 36.000 0.00 0.00 41.44 4.34
3837 10892 8.050778 TCAACAACAATATCATGTTTAGGACC 57.949 34.615 0.00 0.00 41.44 4.46
3869 10975 6.202516 ACTTCATTCAAAAGAACGGACAAA 57.797 33.333 0.00 0.00 0.00 2.83
3911 11026 2.478894 TCAAAAGTCCGAATTCGACAGC 59.521 45.455 28.76 14.53 43.02 4.40
3970 11087 4.229096 TCAAAAGATTCAAATGCGACAGC 58.771 39.130 0.00 0.00 45.41 4.40
4012 11132 7.383029 CGCTTCCAAGGTGATACGTAATAATTA 59.617 37.037 0.00 0.00 0.00 1.40
4027 11147 4.772886 ATATACTTTCCGCTTCCAAGGT 57.227 40.909 0.00 0.00 0.00 3.50
4128 11281 6.671614 TTAGTCATTACAAAATACAGCCCG 57.328 37.500 0.00 0.00 0.00 6.13
4129 11282 7.255569 GGTTTAGTCATTACAAAATACAGCCC 58.744 38.462 0.00 0.00 0.00 5.19
4153 11306 5.738208 GCAAAAGATATTCATGGAAGCAGGG 60.738 44.000 0.00 0.00 0.00 4.45
4192 11345 4.002982 TGCTATTCATGAGCAAAGAACGT 58.997 39.130 5.70 0.00 46.71 3.99
4210 11363 6.887545 TGATGGATATGCAAATGATGATGCTA 59.112 34.615 0.00 0.00 42.97 3.49


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

AutoCloner maintained by Alex Coulton.