Multiple sequence alignment - TraesCS7A01G491100

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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 TraesCS7A01G491100 chr7A 100.000 2429 0 0 1 2429 680324315 680326743 0.000000e+00 4486
1 TraesCS7A01G491100 chr7A 87.899 595 54 7 2 595 701688599 701689176 0.000000e+00 684
2 TraesCS7A01G491100 chr7A 84.927 617 74 9 2 616 116896937 116896338 7.430000e-170 606
3 TraesCS7A01G491100 chr7D 90.783 1085 75 18 620 1695 588540599 588541667 0.000000e+00 1426
4 TraesCS7A01G491100 chr7D 89.964 1096 86 15 613 1696 588538605 588539688 0.000000e+00 1393
5 TraesCS7A01G491100 chr7D 92.270 815 47 8 620 1430 588432891 588432089 0.000000e+00 1142
6 TraesCS7A01G491100 chr7D 87.500 616 53 10 2 616 262357446 262358038 0.000000e+00 689
7 TraesCS7A01G491100 chr7D 86.957 621 45 13 2 616 136241394 136241984 0.000000e+00 665
8 TraesCS7A01G491100 chr7D 82.598 793 72 41 734 1510 588409063 588409805 7.320000e-180 640
9 TraesCS7A01G491100 chr7D 86.201 616 50 14 2 616 29763493 29764074 3.410000e-178 634
10 TraesCS7A01G491100 chr7D 85.377 212 22 7 1885 2096 588542037 588542239 6.800000e-51 211
11 TraesCS7A01G491100 chr7B 89.972 1067 81 14 633 1695 662651028 662652072 0.000000e+00 1354
12 TraesCS7A01G491100 chr7B 90.819 904 64 11 661 1560 662465371 662466259 0.000000e+00 1192
13 TraesCS7A01G491100 chr7B 86.287 649 55 24 964 1595 662311515 662310884 0.000000e+00 675
14 TraesCS7A01G491100 chr7B 82.828 792 85 36 717 1499 661998749 661999498 0.000000e+00 662
15 TraesCS7A01G491100 chr7B 86.622 598 45 26 925 1510 661716604 661717178 1.590000e-176 628
16 TraesCS7A01G491100 chr7B 85.347 389 45 10 1711 2096 662652289 662652668 2.260000e-105 392
17 TraesCS7A01G491100 chr7B 93.487 261 17 0 2169 2429 662652867 662653127 2.930000e-104 388
18 TraesCS7A01G491100 chr5D 88.925 614 49 8 2 615 15480979 15480385 0.000000e+00 739
19 TraesCS7A01G491100 chr3D 87.805 615 54 10 2 615 541716589 541717183 0.000000e+00 701
20 TraesCS7A01G491100 chr3D 87.561 619 55 10 2 616 451640382 451640982 0.000000e+00 697
21 TraesCS7A01G491100 chr3D 86.555 595 53 10 2 595 250024996 250024428 4.410000e-177 630
22 TraesCS7A01G491100 chr3D 82.797 622 53 21 2 621 131045464 131044895 7.750000e-140 507
23 TraesCS7A01G491100 chr2D 85.691 615 66 11 2 615 558062873 558063466 1.590000e-176 628
24 TraesCS7A01G491100 chr2D 84.228 615 46 14 2 615 25765247 25764683 3.530000e-153 551
25 TraesCS7A01G491100 chr2D 87.010 408 29 6 2 409 414953860 414954243 2.870000e-119 438
26 TraesCS7A01G491100 chr6D 85.691 615 63 14 2 615 368141749 368141159 2.050000e-175 625
27 TraesCS7A01G491100 chr6D 82.287 621 67 25 2 615 368057864 368057280 4.660000e-137 497
28 TraesCS7A01G491100 chr5A 85.252 556 55 14 65 615 704860557 704860024 4.570000e-152 547
29 TraesCS7A01G491100 chrUn 95.413 327 12 2 1108 1431 249353647 249353321 3.580000e-143 518
30 TraesCS7A01G491100 chrUn 95.413 327 12 2 1108 1431 249358015 249357689 3.580000e-143 518
31 TraesCS7A01G491100 chrUn 95.413 327 12 2 1108 1431 249362383 249362057 3.580000e-143 518
32 TraesCS7A01G491100 chrUn 95.413 327 12 2 1108 1431 249943063 249943389 3.580000e-143 518
33 TraesCS7A01G491100 chrUn 95.413 327 12 2 1108 1431 249947431 249947757 3.580000e-143 518
34 TraesCS7A01G491100 chrUn 95.413 327 12 2 1108 1431 249951799 249952125 3.580000e-143 518
35 TraesCS7A01G491100 chrUn 95.413 327 12 2 1108 1431 251171025 251171351 3.580000e-143 518
36 TraesCS7A01G491100 chr4B 82.087 642 61 35 819 1425 43061054 43061676 1.300000e-137 499
37 TraesCS7A01G491100 chr4D 82.372 624 61 25 2 616 469507502 469508085 4.660000e-137 497
38 TraesCS7A01G491100 chr1D 86.458 480 28 13 984 1430 451625158 451625633 2.170000e-135 492
39 TraesCS7A01G491100 chr1D 82.287 621 59 22 2 615 10789445 10790021 7.800000e-135 490
40 TraesCS7A01G491100 chr1A 87.893 413 20 9 1048 1430 546212467 546212879 2.200000e-125 459
41 TraesCS7A01G491100 chr1A 80.193 621 80 19 2 615 537068469 537067885 2.230000e-115 425


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 TraesCS7A01G491100 chr7A 680324315 680326743 2428 False 4486.000000 4486 100.000 1 2429 1 chr7A.!!$F1 2428
1 TraesCS7A01G491100 chr7A 701688599 701689176 577 False 684.000000 684 87.899 2 595 1 chr7A.!!$F2 593
2 TraesCS7A01G491100 chr7A 116896338 116896937 599 True 606.000000 606 84.927 2 616 1 chr7A.!!$R1 614
3 TraesCS7A01G491100 chr7D 588432089 588432891 802 True 1142.000000 1142 92.270 620 1430 1 chr7D.!!$R1 810
4 TraesCS7A01G491100 chr7D 588538605 588542239 3634 False 1010.000000 1426 88.708 613 2096 3 chr7D.!!$F5 1483
5 TraesCS7A01G491100 chr7D 262357446 262358038 592 False 689.000000 689 87.500 2 616 1 chr7D.!!$F3 614
6 TraesCS7A01G491100 chr7D 136241394 136241984 590 False 665.000000 665 86.957 2 616 1 chr7D.!!$F2 614
7 TraesCS7A01G491100 chr7D 588409063 588409805 742 False 640.000000 640 82.598 734 1510 1 chr7D.!!$F4 776
8 TraesCS7A01G491100 chr7D 29763493 29764074 581 False 634.000000 634 86.201 2 616 1 chr7D.!!$F1 614
9 TraesCS7A01G491100 chr7B 662465371 662466259 888 False 1192.000000 1192 90.819 661 1560 1 chr7B.!!$F3 899
10 TraesCS7A01G491100 chr7B 662651028 662653127 2099 False 711.333333 1354 89.602 633 2429 3 chr7B.!!$F4 1796
11 TraesCS7A01G491100 chr7B 662310884 662311515 631 True 675.000000 675 86.287 964 1595 1 chr7B.!!$R1 631
12 TraesCS7A01G491100 chr7B 661998749 661999498 749 False 662.000000 662 82.828 717 1499 1 chr7B.!!$F2 782
13 TraesCS7A01G491100 chr7B 661716604 661717178 574 False 628.000000 628 86.622 925 1510 1 chr7B.!!$F1 585
14 TraesCS7A01G491100 chr5D 15480385 15480979 594 True 739.000000 739 88.925 2 615 1 chr5D.!!$R1 613
15 TraesCS7A01G491100 chr3D 541716589 541717183 594 False 701.000000 701 87.805 2 615 1 chr3D.!!$F2 613
16 TraesCS7A01G491100 chr3D 451640382 451640982 600 False 697.000000 697 87.561 2 616 1 chr3D.!!$F1 614
17 TraesCS7A01G491100 chr3D 250024428 250024996 568 True 630.000000 630 86.555 2 595 1 chr3D.!!$R2 593
18 TraesCS7A01G491100 chr3D 131044895 131045464 569 True 507.000000 507 82.797 2 621 1 chr3D.!!$R1 619
19 TraesCS7A01G491100 chr2D 558062873 558063466 593 False 628.000000 628 85.691 2 615 1 chr2D.!!$F2 613
20 TraesCS7A01G491100 chr2D 25764683 25765247 564 True 551.000000 551 84.228 2 615 1 chr2D.!!$R1 613
21 TraesCS7A01G491100 chr6D 368141159 368141749 590 True 625.000000 625 85.691 2 615 1 chr6D.!!$R2 613
22 TraesCS7A01G491100 chr6D 368057280 368057864 584 True 497.000000 497 82.287 2 615 1 chr6D.!!$R1 613
23 TraesCS7A01G491100 chr5A 704860024 704860557 533 True 547.000000 547 85.252 65 615 1 chr5A.!!$R1 550
24 TraesCS7A01G491100 chr4B 43061054 43061676 622 False 499.000000 499 82.087 819 1425 1 chr4B.!!$F1 606
25 TraesCS7A01G491100 chr4D 469507502 469508085 583 False 497.000000 497 82.372 2 616 1 chr4D.!!$F1 614
26 TraesCS7A01G491100 chr1D 10789445 10790021 576 False 490.000000 490 82.287 2 615 1 chr1D.!!$F1 613
27 TraesCS7A01G491100 chr1A 537067885 537068469 584 True 425.000000 425 80.193 2 615 1 chr1A.!!$R1 613

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
894 2963 0.385473 CCATAAATAAAGCCGCCGCG 60.385 55.0 5.59 5.59 41.18 6.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1755 4184 0.096976 CTACAAATTGCGTCTGGCCG 59.903 55.0 0.0 0.0 42.61 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
58 59 1.712977 CGAGCAGGAAGAGCCAATGC 61.713 60.000 0.00 0.00 37.94 3.56
80 81 6.941857 TGCTTGATACTGAACCATACTACAA 58.058 36.000 0.00 0.00 0.00 2.41
119 120 0.535335 GTTGATCACCAGCTACCGGA 59.465 55.000 9.46 0.00 0.00 5.14
129 130 1.207089 CAGCTACCGGAAATCTGGACA 59.793 52.381 9.46 1.81 45.36 4.02
140 145 1.490574 ATCTGGACAGCCTACCTCAC 58.509 55.000 0.00 0.00 34.31 3.51
182 187 0.448990 CCACAGGTGCATCATCAACG 59.551 55.000 0.00 0.00 0.00 4.10
185 190 1.750399 AGGTGCATCATCAACGGCC 60.750 57.895 0.00 0.00 0.00 6.13
186 191 1.750399 GGTGCATCATCAACGGCCT 60.750 57.895 0.00 0.00 0.00 5.19
187 192 0.463654 GGTGCATCATCAACGGCCTA 60.464 55.000 0.00 0.00 0.00 3.93
188 193 1.597742 GTGCATCATCAACGGCCTAT 58.402 50.000 0.00 0.00 0.00 2.57
189 194 1.265095 GTGCATCATCAACGGCCTATG 59.735 52.381 0.00 0.00 0.00 2.23
190 195 0.877071 GCATCATCAACGGCCTATGG 59.123 55.000 0.00 0.00 0.00 2.74
191 196 1.543208 GCATCATCAACGGCCTATGGA 60.543 52.381 0.00 0.00 0.00 3.41
192 197 2.420642 CATCATCAACGGCCTATGGAG 58.579 52.381 0.00 0.00 0.00 3.86
193 198 0.758734 TCATCAACGGCCTATGGAGG 59.241 55.000 0.00 0.00 46.93 4.30
215 220 0.684479 CCGAGACCTGGATCTGGTGA 60.684 60.000 14.05 0.00 35.85 4.02
340 354 9.030301 GTTGCACTATTTTGTTGAACTATTTGT 57.970 29.630 0.00 0.00 0.00 2.83
413 441 0.528901 CCGAACCACGCCGAATATGA 60.529 55.000 0.00 0.00 41.07 2.15
435 485 2.498481 ACCGTTTCTCACCGATATTGGA 59.502 45.455 16.48 0.00 0.00 3.53
546 618 3.061848 CGCCCCCAACGCTGATTT 61.062 61.111 0.00 0.00 0.00 2.17
547 619 1.747367 CGCCCCCAACGCTGATTTA 60.747 57.895 0.00 0.00 0.00 1.40
579 651 2.181525 CCCAGGCGGCGATTTTTG 59.818 61.111 12.98 0.00 0.00 2.44
583 655 2.258286 GGCGGCGATTTTTGTGCT 59.742 55.556 12.98 0.00 0.00 4.40
602 678 1.349026 CTTTCTGAGAGGGCCAACAGA 59.651 52.381 18.40 18.40 37.56 3.41
628 704 3.705579 AGATGCTCTAGTCATGTGAAGCT 59.294 43.478 5.26 0.00 0.00 3.74
638 715 0.806868 ATGTGAAGCTGGAACATGCG 59.193 50.000 8.05 0.00 38.20 4.73
676 2741 2.948315 GAGATGCAGAGGATGGAAAACC 59.052 50.000 0.00 0.00 30.55 3.27
681 2746 3.091545 GCAGAGGATGGAAAACCATCAA 58.908 45.455 24.28 0.00 45.86 2.57
860 2927 0.419459 ACCCCTCCTCCAATCAGAGT 59.581 55.000 0.00 0.00 31.53 3.24
894 2963 0.385473 CCATAAATAAAGCCGCCGCG 60.385 55.000 5.59 5.59 41.18 6.46
936 3005 0.826062 CAGCAATCCAATTCCCCACC 59.174 55.000 0.00 0.00 0.00 4.61
937 3006 0.413037 AGCAATCCAATTCCCCACCA 59.587 50.000 0.00 0.00 0.00 4.17
942 3047 1.071314 TCCAATTCCCCACCACCAGT 61.071 55.000 0.00 0.00 0.00 4.00
1005 3124 2.434884 CAACAGCGTCCGATGGCT 60.435 61.111 9.88 0.00 40.90 4.75
1432 3587 5.422650 ACCAAGTTCACCTCCTCTTAGATAC 59.577 44.000 0.00 0.00 0.00 2.24
1435 3590 2.584236 TCACCTCCTCTTAGATACGCC 58.416 52.381 0.00 0.00 0.00 5.68
1456 3612 0.685097 TTCCCTGTCTTCTTGGTCGG 59.315 55.000 0.00 0.00 0.00 4.79
1470 3626 0.248702 GGTCGGTCGATGCTTCTCTC 60.249 60.000 0.00 0.00 0.00 3.20
1471 3627 0.736053 GTCGGTCGATGCTTCTCTCT 59.264 55.000 0.00 0.00 0.00 3.10
1491 3654 2.936498 CTGTAATGGTTAGCTGTTCGGG 59.064 50.000 0.00 0.00 0.00 5.14
1499 3663 0.750850 TAGCTGTTCGGGCTATGTCC 59.249 55.000 0.00 0.00 40.74 4.02
1541 3710 2.693797 GTGGCATCACACTGTTTCAG 57.306 50.000 0.00 0.00 43.13 3.02
1562 3731 7.543947 TCAGTATCTCGTGAAATAGTAACGA 57.456 36.000 0.00 1.79 43.50 3.85
1565 3734 7.323895 CAGTATCTCGTGAAATAGTAACGATGG 59.676 40.741 2.11 0.00 44.51 3.51
1596 3765 9.809096 TTATTCTGTCTATCATGTTCAGTTCTC 57.191 33.333 0.00 0.00 0.00 2.87
1597 3766 6.840780 TCTGTCTATCATGTTCAGTTCTCA 57.159 37.500 0.00 0.00 0.00 3.27
1598 3767 6.625362 TCTGTCTATCATGTTCAGTTCTCAC 58.375 40.000 0.00 0.00 0.00 3.51
1599 3768 5.724328 TGTCTATCATGTTCAGTTCTCACC 58.276 41.667 0.00 0.00 0.00 4.02
1600 3769 4.800993 GTCTATCATGTTCAGTTCTCACCG 59.199 45.833 0.00 0.00 0.00 4.94
1601 3770 3.685139 ATCATGTTCAGTTCTCACCGT 57.315 42.857 0.00 0.00 0.00 4.83
1602 3771 2.754472 TCATGTTCAGTTCTCACCGTG 58.246 47.619 0.00 0.00 0.00 4.94
1603 3772 2.364002 TCATGTTCAGTTCTCACCGTGA 59.636 45.455 0.29 0.29 0.00 4.35
1604 3773 3.006859 TCATGTTCAGTTCTCACCGTGAT 59.993 43.478 0.62 0.00 0.00 3.06
1605 3774 4.219725 TCATGTTCAGTTCTCACCGTGATA 59.780 41.667 0.62 0.00 0.00 2.15
1606 3775 4.801330 TGTTCAGTTCTCACCGTGATAT 57.199 40.909 0.62 0.00 0.00 1.63
1607 3776 4.744570 TGTTCAGTTCTCACCGTGATATC 58.255 43.478 0.62 0.00 0.00 1.63
1608 3777 4.113354 GTTCAGTTCTCACCGTGATATCC 58.887 47.826 0.62 0.00 0.00 2.59
1609 3778 2.693591 TCAGTTCTCACCGTGATATCCC 59.306 50.000 0.62 0.00 0.00 3.85
1610 3779 2.695666 CAGTTCTCACCGTGATATCCCT 59.304 50.000 0.62 0.00 0.00 4.20
1611 3780 3.133003 CAGTTCTCACCGTGATATCCCTT 59.867 47.826 0.62 0.00 0.00 3.95
1612 3781 3.775316 AGTTCTCACCGTGATATCCCTTT 59.225 43.478 0.62 0.00 0.00 3.11
1613 3782 4.225267 AGTTCTCACCGTGATATCCCTTTT 59.775 41.667 0.62 0.00 0.00 2.27
1614 3783 4.402056 TCTCACCGTGATATCCCTTTTC 57.598 45.455 0.62 0.00 0.00 2.29
1615 3784 4.030913 TCTCACCGTGATATCCCTTTTCT 58.969 43.478 0.62 0.00 0.00 2.52
1642 3811 6.578023 AGTAGTTCTTGCTATGATCCTGTTC 58.422 40.000 0.00 0.00 0.00 3.18
1649 3818 3.386078 TGCTATGATCCTGTTCCTGAGTC 59.614 47.826 0.00 0.00 0.00 3.36
1657 3828 2.568956 CCTGTTCCTGAGTCCATCTTGA 59.431 50.000 0.00 0.00 0.00 3.02
1663 3834 2.686915 CCTGAGTCCATCTTGATTTGGC 59.313 50.000 0.00 0.00 32.80 4.52
1664 3835 3.618351 CTGAGTCCATCTTGATTTGGCT 58.382 45.455 0.00 0.00 32.80 4.75
1695 3866 7.669427 TGCAACCTTTGTTCTGAATTATGAAT 58.331 30.769 0.00 0.00 30.42 2.57
1697 3868 9.638239 GCAACCTTTGTTCTGAATTATGAATTA 57.362 29.630 0.00 0.00 30.42 1.40
1723 4152 0.100503 GGTTTGGGCCGAATTCGATG 59.899 55.000 28.76 14.12 43.02 3.84
1734 4163 3.305744 CCGAATTCGATGGTTTGGGTTTT 60.306 43.478 28.76 0.00 43.02 2.43
1735 4164 3.672867 CGAATTCGATGGTTTGGGTTTTG 59.327 43.478 23.29 0.00 43.02 2.44
1736 4165 2.517650 TTCGATGGTTTGGGTTTTGC 57.482 45.000 0.00 0.00 0.00 3.68
1740 4169 2.939103 CGATGGTTTGGGTTTTGCAAAA 59.061 40.909 20.46 20.46 0.00 2.44
1743 4172 2.305927 TGGTTTGGGTTTTGCAAAAGGA 59.694 40.909 24.46 8.89 0.00 3.36
1744 4173 2.680841 GGTTTGGGTTTTGCAAAAGGAC 59.319 45.455 24.46 16.91 0.00 3.85
1745 4174 3.339141 GTTTGGGTTTTGCAAAAGGACA 58.661 40.909 24.46 19.06 0.00 4.02
1747 4176 1.208293 TGGGTTTTGCAAAAGGACACC 59.792 47.619 24.46 20.79 0.00 4.16
1749 4178 2.355209 GGGTTTTGCAAAAGGACACCAA 60.355 45.455 24.46 0.00 0.00 3.67
1750 4179 2.675844 GGTTTTGCAAAAGGACACCAAC 59.324 45.455 24.46 10.26 0.00 3.77
1751 4180 2.675844 GTTTTGCAAAAGGACACCAACC 59.324 45.455 24.46 5.55 0.00 3.77
1752 4181 1.561643 TTGCAAAAGGACACCAACCA 58.438 45.000 0.00 0.00 0.00 3.67
1753 4182 1.786937 TGCAAAAGGACACCAACCAT 58.213 45.000 0.00 0.00 0.00 3.55
1755 4184 2.102252 TGCAAAAGGACACCAACCATTC 59.898 45.455 0.00 0.00 0.00 2.67
1759 4188 2.340328 GGACACCAACCATTCGGCC 61.340 63.158 0.00 0.00 34.57 6.13
1763 4192 1.303317 ACCAACCATTCGGCCAGAC 60.303 57.895 2.24 0.00 34.57 3.51
1777 4206 1.135689 GCCAGACGCAATTTGTAGGTG 60.136 52.381 0.00 0.00 37.47 4.00
1778 4207 2.422597 CCAGACGCAATTTGTAGGTGA 58.577 47.619 0.00 0.00 0.00 4.02
1780 4209 2.159627 CAGACGCAATTTGTAGGTGACC 59.840 50.000 0.00 0.00 0.00 4.02
1781 4210 2.147958 GACGCAATTTGTAGGTGACCA 58.852 47.619 3.63 0.00 0.00 4.02
1825 4254 2.084930 AGGGCAGAAGGTTGTGGGT 61.085 57.895 0.00 0.00 0.00 4.51
1911 4341 6.527423 TCAAGTACGGGTCTACAAAAGAAAT 58.473 36.000 0.00 0.00 35.47 2.17
1943 4373 4.520492 CCTGCAAGTGTGAGTTTATTCCTT 59.480 41.667 0.00 0.00 0.00 3.36
2011 4441 3.799420 GCGAGTTGCATTGGTTGTAAAAA 59.201 39.130 0.00 0.00 45.45 1.94
2012 4442 4.447389 GCGAGTTGCATTGGTTGTAAAAAT 59.553 37.500 0.00 0.00 45.45 1.82
2013 4443 5.050431 GCGAGTTGCATTGGTTGTAAAAATT 60.050 36.000 0.00 0.00 45.45 1.82
2014 4444 6.144724 GCGAGTTGCATTGGTTGTAAAAATTA 59.855 34.615 0.00 0.00 45.45 1.40
2015 4445 7.148656 GCGAGTTGCATTGGTTGTAAAAATTAT 60.149 33.333 0.00 0.00 45.45 1.28
2016 4446 9.347934 CGAGTTGCATTGGTTGTAAAAATTATA 57.652 29.630 0.00 0.00 31.34 0.98
2046 4477 1.960689 GCCAGAGTTTAGGCCACAAAA 59.039 47.619 5.01 0.00 45.18 2.44
2047 4478 2.562738 GCCAGAGTTTAGGCCACAAAAT 59.437 45.455 5.01 3.67 45.18 1.82
2048 4479 3.614870 GCCAGAGTTTAGGCCACAAAATG 60.615 47.826 5.01 4.98 45.18 2.32
2049 4480 3.578688 CAGAGTTTAGGCCACAAAATGC 58.421 45.455 5.01 0.00 0.00 3.56
2051 4482 3.897505 AGAGTTTAGGCCACAAAATGCTT 59.102 39.130 5.01 0.00 0.00 3.91
2052 4483 3.989817 GAGTTTAGGCCACAAAATGCTTG 59.010 43.478 5.01 0.00 0.00 4.01
2053 4484 2.453983 TTAGGCCACAAAATGCTTGC 57.546 45.000 5.01 0.00 0.00 4.01
2054 4485 1.336131 TAGGCCACAAAATGCTTGCA 58.664 45.000 5.01 0.00 0.00 4.08
2055 4486 0.469070 AGGCCACAAAATGCTTGCAA 59.531 45.000 5.01 0.00 0.00 4.08
2056 4487 1.134159 AGGCCACAAAATGCTTGCAAA 60.134 42.857 5.01 0.00 0.00 3.68
2082 4513 5.230942 AGCATTCAGTTACATATAGGACGC 58.769 41.667 0.00 0.00 0.00 5.19
2096 4527 0.883370 GGACGCGTCCCTCTTTGTTT 60.883 55.000 41.88 1.01 43.94 2.83
2097 4528 0.942252 GACGCGTCCCTCTTTGTTTT 59.058 50.000 28.61 0.00 0.00 2.43
2098 4529 0.661020 ACGCGTCCCTCTTTGTTTTG 59.339 50.000 5.58 0.00 0.00 2.44
2110 4711 6.003950 CCTCTTTGTTTTGGTATCCAGAAGA 58.996 40.000 0.00 0.00 33.81 2.87
2125 4726 5.026121 TCCAGAAGACCAGAACATACAGAT 58.974 41.667 0.00 0.00 0.00 2.90
2126 4727 5.485353 TCCAGAAGACCAGAACATACAGATT 59.515 40.000 0.00 0.00 0.00 2.40
2127 4728 6.013379 TCCAGAAGACCAGAACATACAGATTT 60.013 38.462 0.00 0.00 0.00 2.17
2128 4729 6.656693 CCAGAAGACCAGAACATACAGATTTT 59.343 38.462 0.00 0.00 0.00 1.82
2129 4730 7.824289 CCAGAAGACCAGAACATACAGATTTTA 59.176 37.037 0.00 0.00 0.00 1.52
2130 4731 8.660373 CAGAAGACCAGAACATACAGATTTTAC 58.340 37.037 0.00 0.00 0.00 2.01
2131 4732 8.598041 AGAAGACCAGAACATACAGATTTTACT 58.402 33.333 0.00 0.00 0.00 2.24
2132 4733 9.220767 GAAGACCAGAACATACAGATTTTACTT 57.779 33.333 0.00 0.00 0.00 2.24
2133 4734 8.779354 AGACCAGAACATACAGATTTTACTTC 57.221 34.615 0.00 0.00 0.00 3.01
2134 4735 7.824779 AGACCAGAACATACAGATTTTACTTCC 59.175 37.037 0.00 0.00 0.00 3.46
2135 4736 7.458397 ACCAGAACATACAGATTTTACTTCCA 58.542 34.615 0.00 0.00 0.00 3.53
2136 4737 7.942341 ACCAGAACATACAGATTTTACTTCCAA 59.058 33.333 0.00 0.00 0.00 3.53
2137 4738 8.237267 CCAGAACATACAGATTTTACTTCCAAC 58.763 37.037 0.00 0.00 0.00 3.77
2138 4739 8.783093 CAGAACATACAGATTTTACTTCCAACA 58.217 33.333 0.00 0.00 0.00 3.33
2139 4740 8.784043 AGAACATACAGATTTTACTTCCAACAC 58.216 33.333 0.00 0.00 0.00 3.32
2140 4741 7.129109 ACATACAGATTTTACTTCCAACACG 57.871 36.000 0.00 0.00 0.00 4.49
2141 4742 6.148811 ACATACAGATTTTACTTCCAACACGG 59.851 38.462 0.00 0.00 0.00 4.94
2142 4743 4.457466 ACAGATTTTACTTCCAACACGGT 58.543 39.130 0.00 0.00 35.57 4.83
2143 4744 4.514066 ACAGATTTTACTTCCAACACGGTC 59.486 41.667 0.00 0.00 35.57 4.79
2144 4745 4.070009 AGATTTTACTTCCAACACGGTCC 58.930 43.478 0.00 0.00 35.57 4.46
2145 4746 3.278668 TTTTACTTCCAACACGGTCCA 57.721 42.857 0.00 0.00 35.57 4.02
2146 4747 3.278668 TTTACTTCCAACACGGTCCAA 57.721 42.857 0.00 0.00 35.57 3.53
2147 4748 2.243602 TACTTCCAACACGGTCCAAC 57.756 50.000 0.00 0.00 35.57 3.77
2148 4749 0.464916 ACTTCCAACACGGTCCAACC 60.465 55.000 0.00 0.00 35.57 3.77
2149 4750 0.179029 CTTCCAACACGGTCCAACCT 60.179 55.000 0.00 0.00 35.66 3.50
2150 4751 0.179040 TTCCAACACGGTCCAACCTC 60.179 55.000 0.00 0.00 35.66 3.85
2151 4752 1.147376 CCAACACGGTCCAACCTCA 59.853 57.895 0.00 0.00 35.66 3.86
2152 4753 0.250727 CCAACACGGTCCAACCTCAT 60.251 55.000 0.00 0.00 35.66 2.90
2153 4754 0.874390 CAACACGGTCCAACCTCATG 59.126 55.000 0.00 0.00 35.66 3.07
2154 4755 0.889186 AACACGGTCCAACCTCATGC 60.889 55.000 0.00 0.00 35.66 4.06
2155 4756 1.003355 CACGGTCCAACCTCATGCT 60.003 57.895 0.00 0.00 35.66 3.79
2156 4757 0.249120 CACGGTCCAACCTCATGCTA 59.751 55.000 0.00 0.00 35.66 3.49
2157 4758 0.981183 ACGGTCCAACCTCATGCTAA 59.019 50.000 0.00 0.00 35.66 3.09
2158 4759 1.066143 ACGGTCCAACCTCATGCTAAG 60.066 52.381 0.00 0.00 35.66 2.18
2159 4760 1.207089 CGGTCCAACCTCATGCTAAGA 59.793 52.381 0.00 0.00 35.66 2.10
2160 4761 2.739932 CGGTCCAACCTCATGCTAAGAG 60.740 54.545 0.00 0.00 35.66 2.85
2161 4762 2.237392 GGTCCAACCTCATGCTAAGAGT 59.763 50.000 0.00 0.00 34.73 3.24
2162 4763 3.265791 GTCCAACCTCATGCTAAGAGTG 58.734 50.000 0.00 0.00 0.00 3.51
2163 4764 2.012673 CCAACCTCATGCTAAGAGTGC 58.987 52.381 0.00 0.00 0.00 4.40
2164 4765 2.616256 CCAACCTCATGCTAAGAGTGCA 60.616 50.000 0.00 0.00 44.95 4.57
2166 4767 3.191078 ACCTCATGCTAAGAGTGCATC 57.809 47.619 0.00 0.00 46.80 3.91
2167 4768 2.158842 ACCTCATGCTAAGAGTGCATCC 60.159 50.000 0.00 0.00 46.80 3.51
2168 4769 2.158856 CCTCATGCTAAGAGTGCATCCA 60.159 50.000 0.00 0.00 46.80 3.41
2182 4783 2.279741 GCATCCAGAATCACTACGCAA 58.720 47.619 0.00 0.00 0.00 4.85
2183 4784 2.874701 GCATCCAGAATCACTACGCAAT 59.125 45.455 0.00 0.00 0.00 3.56
2188 4789 3.310774 CCAGAATCACTACGCAATTGAGG 59.689 47.826 10.34 2.27 0.00 3.86
2192 4793 2.710377 TCACTACGCAATTGAGGCATT 58.290 42.857 10.34 0.00 0.00 3.56
2235 4836 3.004734 CGTTCATTTGTTCAAAGAGGGCT 59.995 43.478 4.37 0.00 0.00 5.19
2273 4874 2.030371 GTAGGGTTCTAGTCCTTCCGG 58.970 57.143 0.00 0.00 34.75 5.14
2280 4881 0.106894 CTAGTCCTTCCGGCATTCCC 59.893 60.000 0.00 0.00 0.00 3.97
2290 4891 0.975040 CGGCATTCCCCCAAAATCCA 60.975 55.000 0.00 0.00 0.00 3.41
2303 4904 4.529897 CCAAAATCCATCACCAGAGATGA 58.470 43.478 6.64 0.00 46.51 2.92
2316 4917 4.103627 ACCAGAGATGATCATGGTATTGCA 59.896 41.667 14.30 0.00 44.15 4.08
2375 4976 1.076024 TCTGCATTTCCCCTGCTTTCT 59.924 47.619 0.00 0.00 40.34 2.52
2383 4984 1.172180 CCCCTGCTTTCTGCGTCAAA 61.172 55.000 0.00 0.00 46.63 2.69
2404 5005 7.749126 GTCAAATTTCTGTTCACTAAATACCCG 59.251 37.037 0.00 0.00 0.00 5.28
2405 5006 6.753107 AATTTCTGTTCACTAAATACCCGG 57.247 37.500 0.00 0.00 0.00 5.73
2407 5008 5.999205 TTCTGTTCACTAAATACCCGGTA 57.001 39.130 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.109705 TGTTATGCAAGATGATACAACAAGTT 57.890 30.769 0.00 0.00 0.00 2.66
58 59 7.041721 TGCTTGTAGTATGGTTCAGTATCAAG 58.958 38.462 0.00 0.00 33.93 3.02
63 64 4.161565 CCCTGCTTGTAGTATGGTTCAGTA 59.838 45.833 0.00 0.00 0.00 2.74
80 81 2.443016 CGGCTAGAGGACCCTGCT 60.443 66.667 0.00 0.00 0.00 4.24
119 120 2.237392 GTGAGGTAGGCTGTCCAGATTT 59.763 50.000 11.92 0.00 33.74 2.17
129 130 1.033574 GACGCATAGTGAGGTAGGCT 58.966 55.000 0.00 0.00 0.00 4.58
140 145 1.198867 CTCGGATCTCCTGACGCATAG 59.801 57.143 0.00 0.00 0.00 2.23
182 187 0.251832 TCTCGGATCCTCCATAGGCC 60.252 60.000 10.75 0.00 43.31 5.19
185 190 2.166829 CAGGTCTCGGATCCTCCATAG 58.833 57.143 10.75 0.00 35.91 2.23
186 191 1.203063 CCAGGTCTCGGATCCTCCATA 60.203 57.143 10.75 0.00 35.91 2.74
187 192 0.470833 CCAGGTCTCGGATCCTCCAT 60.471 60.000 10.75 0.00 35.91 3.41
188 193 1.075970 CCAGGTCTCGGATCCTCCA 60.076 63.158 10.75 0.00 35.91 3.86
189 194 0.178947 ATCCAGGTCTCGGATCCTCC 60.179 60.000 10.75 7.07 39.06 4.30
190 195 3.448469 ATCCAGGTCTCGGATCCTC 57.552 57.895 10.75 0.00 39.06 3.71
194 199 0.263172 ACCAGATCCAGGTCTCGGAT 59.737 55.000 1.70 0.00 46.20 4.18
195 200 0.684479 CACCAGATCCAGGTCTCGGA 60.684 60.000 4.53 0.00 37.23 4.55
196 201 0.684479 TCACCAGATCCAGGTCTCGG 60.684 60.000 4.53 0.00 37.23 4.63
197 202 1.135915 CTTCACCAGATCCAGGTCTCG 59.864 57.143 4.53 0.00 37.23 4.04
198 203 1.134551 GCTTCACCAGATCCAGGTCTC 60.135 57.143 4.53 0.00 37.23 3.36
199 204 0.908198 GCTTCACCAGATCCAGGTCT 59.092 55.000 4.53 0.00 37.23 3.85
200 205 0.615331 TGCTTCACCAGATCCAGGTC 59.385 55.000 4.53 0.00 37.23 3.85
201 206 0.326264 GTGCTTCACCAGATCCAGGT 59.674 55.000 1.70 1.70 40.85 4.00
202 207 3.165606 GTGCTTCACCAGATCCAGG 57.834 57.895 0.40 0.40 0.00 4.45
215 220 3.117738 CCCTTGATTCTCCATAGGTGCTT 60.118 47.826 0.00 0.00 0.00 3.91
413 441 3.055675 TCCAATATCGGTGAGAAACGGTT 60.056 43.478 0.00 0.00 0.00 4.44
435 485 5.301805 CGGCCCAGATAAATAGAAAAATGGT 59.698 40.000 0.00 0.00 0.00 3.55
498 559 4.430765 CCGTCGTTCCCAGGTCGG 62.431 72.222 0.00 0.00 0.00 4.79
561 633 2.034999 AAAAATCGCCGCCTGGGA 59.965 55.556 0.00 0.00 40.60 4.37
579 651 0.250901 TTGGCCCTCTCAGAAAGCAC 60.251 55.000 0.00 0.00 0.00 4.40
583 655 1.434188 TCTGTTGGCCCTCTCAGAAA 58.566 50.000 0.00 0.00 34.61 2.52
628 704 1.005037 AAGAGCGACGCATGTTCCA 60.005 52.632 23.70 0.00 0.00 3.53
638 715 0.179140 CTCAGCTGAGGAAGAGCGAC 60.179 60.000 32.30 0.00 41.61 5.19
676 2741 2.345876 GCGGGAATTTTGGGTTTGATG 58.654 47.619 0.00 0.00 0.00 3.07
681 2746 1.811645 CGTGGCGGGAATTTTGGGTT 61.812 55.000 0.00 0.00 0.00 4.11
809 2876 3.300765 GGTGACGTCGGGTGGTCT 61.301 66.667 11.62 0.00 34.31 3.85
860 2927 1.620515 TATGGAGAGGAGGAGGTGGA 58.379 55.000 0.00 0.00 0.00 4.02
894 2963 2.778278 TGATGGGATGGGGAGGGC 60.778 66.667 0.00 0.00 0.00 5.19
936 3005 4.394712 GGTGCGAGGGGACTGGTG 62.395 72.222 0.00 0.00 44.43 4.17
1005 3124 1.983224 CTTCTTCTCCGCCTTGGGA 59.017 57.895 0.00 0.00 38.76 4.37
1128 3283 5.053978 TCTTCTTGGCCTTCTTCTTCTTT 57.946 39.130 3.32 0.00 0.00 2.52
1432 3587 1.004918 AAGAAGACAGGGAACGGCG 60.005 57.895 4.80 4.80 0.00 6.46
1435 3590 1.797025 GACCAAGAAGACAGGGAACG 58.203 55.000 0.00 0.00 0.00 3.95
1456 3612 4.047822 CCATTACAGAGAGAAGCATCGAC 58.952 47.826 0.00 0.00 0.00 4.20
1470 3626 2.936498 CCCGAACAGCTAACCATTACAG 59.064 50.000 0.00 0.00 0.00 2.74
1471 3627 2.937873 GCCCGAACAGCTAACCATTACA 60.938 50.000 0.00 0.00 0.00 2.41
1491 3654 3.684788 CACAAGTTACACAGGGACATAGC 59.315 47.826 0.00 0.00 0.00 2.97
1499 3663 1.603802 CACCAGCACAAGTTACACAGG 59.396 52.381 0.00 0.00 0.00 4.00
1541 3710 7.137426 ACCATCGTTACTATTTCACGAGATAC 58.863 38.462 0.00 0.00 45.50 2.24
1590 3759 3.033659 AGGGATATCACGGTGAGAACT 57.966 47.619 16.84 9.14 0.00 3.01
1591 3760 3.821421 AAGGGATATCACGGTGAGAAC 57.179 47.619 16.84 10.54 0.00 3.01
1592 3761 4.469945 AGAAAAGGGATATCACGGTGAGAA 59.530 41.667 16.84 7.64 0.00 2.87
1594 3763 4.408182 AGAAAAGGGATATCACGGTGAG 57.592 45.455 16.84 0.00 0.00 3.51
1596 3765 4.513442 TCAAGAAAAGGGATATCACGGTG 58.487 43.478 4.83 0.56 0.00 4.94
1597 3766 4.225267 ACTCAAGAAAAGGGATATCACGGT 59.775 41.667 4.83 0.00 0.00 4.83
1598 3767 4.770795 ACTCAAGAAAAGGGATATCACGG 58.229 43.478 4.83 0.00 0.00 4.94
1599 3768 6.574350 ACTACTCAAGAAAAGGGATATCACG 58.426 40.000 4.83 0.00 0.00 4.35
1600 3769 8.261522 AGAACTACTCAAGAAAAGGGATATCAC 58.738 37.037 4.83 0.00 0.00 3.06
1601 3770 8.380742 AGAACTACTCAAGAAAAGGGATATCA 57.619 34.615 4.83 0.00 0.00 2.15
1602 3771 9.103861 CAAGAACTACTCAAGAAAAGGGATATC 57.896 37.037 0.00 0.00 0.00 1.63
1603 3772 7.554476 GCAAGAACTACTCAAGAAAAGGGATAT 59.446 37.037 0.00 0.00 0.00 1.63
1604 3773 6.879458 GCAAGAACTACTCAAGAAAAGGGATA 59.121 38.462 0.00 0.00 0.00 2.59
1605 3774 5.707764 GCAAGAACTACTCAAGAAAAGGGAT 59.292 40.000 0.00 0.00 0.00 3.85
1606 3775 5.063880 GCAAGAACTACTCAAGAAAAGGGA 58.936 41.667 0.00 0.00 0.00 4.20
1607 3776 5.066593 AGCAAGAACTACTCAAGAAAAGGG 58.933 41.667 0.00 0.00 0.00 3.95
1608 3777 7.604164 TCATAGCAAGAACTACTCAAGAAAAGG 59.396 37.037 0.00 0.00 0.00 3.11
1609 3778 8.539770 TCATAGCAAGAACTACTCAAGAAAAG 57.460 34.615 0.00 0.00 0.00 2.27
1610 3779 9.155975 GATCATAGCAAGAACTACTCAAGAAAA 57.844 33.333 0.00 0.00 0.00 2.29
1611 3780 7.766278 GGATCATAGCAAGAACTACTCAAGAAA 59.234 37.037 0.00 0.00 0.00 2.52
1612 3781 7.124901 AGGATCATAGCAAGAACTACTCAAGAA 59.875 37.037 0.00 0.00 0.00 2.52
1613 3782 6.609212 AGGATCATAGCAAGAACTACTCAAGA 59.391 38.462 0.00 0.00 0.00 3.02
1614 3783 6.700960 CAGGATCATAGCAAGAACTACTCAAG 59.299 42.308 0.00 0.00 0.00 3.02
1615 3784 6.155221 ACAGGATCATAGCAAGAACTACTCAA 59.845 38.462 0.00 0.00 0.00 3.02
1642 3811 2.686915 GCCAAATCAAGATGGACTCAGG 59.313 50.000 0.00 0.00 39.12 3.86
1649 3818 4.807304 GCATAACAAGCCAAATCAAGATGG 59.193 41.667 0.00 0.00 39.80 3.51
1663 3834 5.830912 TCAGAACAAAGGTTGCATAACAAG 58.169 37.500 0.00 0.00 39.50 3.16
1664 3835 5.843673 TCAGAACAAAGGTTGCATAACAA 57.156 34.783 0.00 0.00 37.36 2.83
1704 3875 0.100503 CATCGAATTCGGCCCAAACC 59.899 55.000 26.47 0.00 40.29 3.27
1705 3876 0.100503 CCATCGAATTCGGCCCAAAC 59.899 55.000 26.47 0.00 40.29 2.93
1707 3878 0.322997 AACCATCGAATTCGGCCCAA 60.323 50.000 26.47 8.32 40.29 4.12
1709 3880 0.100503 CAAACCATCGAATTCGGCCC 59.899 55.000 26.47 0.00 40.29 5.80
1714 4143 3.431912 GCAAAACCCAAACCATCGAATTC 59.568 43.478 0.00 0.00 0.00 2.17
1723 4152 2.680841 GTCCTTTTGCAAAACCCAAACC 59.319 45.455 20.46 1.63 32.40 3.27
1734 4163 1.786937 ATGGTTGGTGTCCTTTTGCA 58.213 45.000 0.00 0.00 0.00 4.08
1735 4164 2.754472 GAATGGTTGGTGTCCTTTTGC 58.246 47.619 0.00 0.00 0.00 3.68
1736 4165 2.288152 CCGAATGGTTGGTGTCCTTTTG 60.288 50.000 0.00 0.00 0.00 2.44
1740 4169 1.303317 GCCGAATGGTTGGTGTCCT 60.303 57.895 0.00 0.00 37.67 3.85
1743 4172 1.603455 CTGGCCGAATGGTTGGTGT 60.603 57.895 0.00 0.00 37.67 4.16
1744 4173 1.303236 TCTGGCCGAATGGTTGGTG 60.303 57.895 0.00 0.00 37.67 4.17
1745 4174 1.303317 GTCTGGCCGAATGGTTGGT 60.303 57.895 0.00 0.00 37.67 3.67
1747 4176 3.039202 GCGTCTGGCCGAATGGTTG 62.039 63.158 0.00 0.00 37.67 3.77
1749 4178 2.819984 ATTGCGTCTGGCCGAATGGT 62.820 55.000 0.00 0.00 42.61 3.55
1750 4179 1.656818 AATTGCGTCTGGCCGAATGG 61.657 55.000 0.00 0.00 42.61 3.16
1751 4180 0.171007 AAATTGCGTCTGGCCGAATG 59.829 50.000 0.00 0.00 42.61 2.67
1752 4181 0.171007 CAAATTGCGTCTGGCCGAAT 59.829 50.000 0.00 0.00 42.61 3.34
1753 4182 1.169661 ACAAATTGCGTCTGGCCGAA 61.170 50.000 0.00 0.00 42.61 4.30
1755 4184 0.096976 CTACAAATTGCGTCTGGCCG 59.903 55.000 0.00 0.00 42.61 6.13
1759 4188 2.159627 GGTCACCTACAAATTGCGTCTG 59.840 50.000 0.00 0.00 0.00 3.51
1763 4192 2.151202 ACTGGTCACCTACAAATTGCG 58.849 47.619 0.00 0.00 0.00 4.85
1797 4226 3.272364 TTCTGCCCTGCGCTCCATT 62.272 57.895 9.73 0.00 38.78 3.16
1802 4231 3.958860 AACCTTCTGCCCTGCGCT 61.959 61.111 9.73 0.00 38.78 5.92
1804 4233 2.281761 ACAACCTTCTGCCCTGCG 60.282 61.111 0.00 0.00 0.00 5.18
1881 4311 8.674263 TTTTGTAGACCCGTACTTGAAAAATA 57.326 30.769 0.00 0.00 0.00 1.40
1894 4324 5.682943 TGACAATTTCTTTTGTAGACCCG 57.317 39.130 0.00 0.00 39.85 5.28
1899 4329 7.277539 TGCAGGTTTTGACAATTTCTTTTGTAG 59.722 33.333 0.00 0.00 39.85 2.74
1911 4341 2.822561 TCACACTTGCAGGTTTTGACAA 59.177 40.909 0.00 0.00 0.00 3.18
1967 4397 7.250569 TCGCAAGGAATATTCAAAGTTGAATC 58.749 34.615 19.79 9.25 45.56 2.52
1976 4406 4.355543 GCAACTCGCAAGGAATATTCAA 57.644 40.909 17.07 0.00 41.79 2.69
1990 4420 6.523676 AATTTTTACAACCAATGCAACTCG 57.476 33.333 0.00 0.00 0.00 4.18
2011 4441 9.807649 CTAAACTCTGGCTTGCAAATTTATAAT 57.192 29.630 0.00 0.00 0.00 1.28
2012 4442 8.250332 CCTAAACTCTGGCTTGCAAATTTATAA 58.750 33.333 0.00 0.00 0.00 0.98
2013 4443 7.630513 GCCTAAACTCTGGCTTGCAAATTTATA 60.631 37.037 0.00 0.00 45.26 0.98
2014 4444 6.633856 CCTAAACTCTGGCTTGCAAATTTAT 58.366 36.000 0.00 0.00 0.00 1.40
2015 4445 5.566627 GCCTAAACTCTGGCTTGCAAATTTA 60.567 40.000 0.00 0.00 45.26 1.40
2016 4446 4.800582 GCCTAAACTCTGGCTTGCAAATTT 60.801 41.667 0.00 0.00 45.26 1.82
2017 4447 3.306294 GCCTAAACTCTGGCTTGCAAATT 60.306 43.478 0.00 0.00 45.26 1.82
2055 4486 8.612619 CGTCCTATATGTAACTGAATGCTTTTT 58.387 33.333 0.00 0.00 0.00 1.94
2056 4487 7.254795 GCGTCCTATATGTAACTGAATGCTTTT 60.255 37.037 0.00 0.00 0.00 2.27
2060 4491 4.090066 CGCGTCCTATATGTAACTGAATGC 59.910 45.833 0.00 0.00 0.00 3.56
2082 4513 3.439129 GGATACCAAAACAAAGAGGGACG 59.561 47.826 0.00 0.00 0.00 4.79
2096 4527 3.907474 TGTTCTGGTCTTCTGGATACCAA 59.093 43.478 0.00 0.00 42.53 3.67
2097 4528 3.516586 TGTTCTGGTCTTCTGGATACCA 58.483 45.455 0.00 0.00 40.94 3.25
2098 4529 4.762289 ATGTTCTGGTCTTCTGGATACC 57.238 45.455 0.00 0.00 0.00 2.73
2110 4711 7.458397 TGGAAGTAAAATCTGTATGTTCTGGT 58.542 34.615 0.00 0.00 0.00 4.00
2125 4726 3.278668 TGGACCGTGTTGGAAGTAAAA 57.721 42.857 0.00 0.00 42.00 1.52
2126 4727 2.944349 GTTGGACCGTGTTGGAAGTAAA 59.056 45.455 0.00 0.00 42.00 2.01
2127 4728 2.563702 GTTGGACCGTGTTGGAAGTAA 58.436 47.619 0.00 0.00 42.00 2.24
2128 4729 1.202675 GGTTGGACCGTGTTGGAAGTA 60.203 52.381 0.00 0.00 42.00 2.24
2129 4730 0.464916 GGTTGGACCGTGTTGGAAGT 60.465 55.000 0.00 0.00 42.00 3.01
2130 4731 0.179029 AGGTTGGACCGTGTTGGAAG 60.179 55.000 0.00 0.00 44.90 3.46
2131 4732 0.179040 GAGGTTGGACCGTGTTGGAA 60.179 55.000 0.00 0.00 44.90 3.53
2132 4733 1.338890 TGAGGTTGGACCGTGTTGGA 61.339 55.000 0.00 0.00 44.90 3.53
2133 4734 0.250727 ATGAGGTTGGACCGTGTTGG 60.251 55.000 0.00 0.00 44.90 3.77
2134 4735 0.874390 CATGAGGTTGGACCGTGTTG 59.126 55.000 0.00 0.00 44.90 3.33
2135 4736 0.889186 GCATGAGGTTGGACCGTGTT 60.889 55.000 0.00 0.00 44.90 3.32
2136 4737 1.302511 GCATGAGGTTGGACCGTGT 60.303 57.895 0.00 0.00 44.90 4.49
2137 4738 0.249120 TAGCATGAGGTTGGACCGTG 59.751 55.000 0.00 0.00 44.90 4.94
2138 4739 0.981183 TTAGCATGAGGTTGGACCGT 59.019 50.000 0.00 0.00 44.90 4.83
2139 4740 1.207089 TCTTAGCATGAGGTTGGACCG 59.793 52.381 0.00 0.00 44.90 4.79
2140 4741 2.237392 ACTCTTAGCATGAGGTTGGACC 59.763 50.000 0.00 0.00 38.99 4.46
2141 4742 3.265791 CACTCTTAGCATGAGGTTGGAC 58.734 50.000 0.00 0.00 35.98 4.02
2142 4743 2.355108 GCACTCTTAGCATGAGGTTGGA 60.355 50.000 0.00 0.00 35.98 3.53
2143 4744 2.012673 GCACTCTTAGCATGAGGTTGG 58.987 52.381 0.00 0.00 35.98 3.77
2144 4745 2.703416 TGCACTCTTAGCATGAGGTTG 58.297 47.619 0.00 0.00 37.02 3.77
2153 4754 3.559242 GTGATTCTGGATGCACTCTTAGC 59.441 47.826 0.00 0.00 0.00 3.09
2154 4755 5.021033 AGTGATTCTGGATGCACTCTTAG 57.979 43.478 0.00 0.00 36.98 2.18
2155 4756 5.450550 CGTAGTGATTCTGGATGCACTCTTA 60.451 44.000 0.00 0.00 41.43 2.10
2156 4757 3.996921 AGTGATTCTGGATGCACTCTT 57.003 42.857 0.00 0.00 36.98 2.85
2157 4758 3.181482 CGTAGTGATTCTGGATGCACTCT 60.181 47.826 0.00 0.00 41.43 3.24
2158 4759 3.119291 CGTAGTGATTCTGGATGCACTC 58.881 50.000 0.00 0.00 41.43 3.51
2159 4760 2.739932 GCGTAGTGATTCTGGATGCACT 60.740 50.000 0.00 0.00 43.40 4.40
2160 4761 1.594862 GCGTAGTGATTCTGGATGCAC 59.405 52.381 0.00 0.00 0.00 4.57
2161 4762 1.206849 TGCGTAGTGATTCTGGATGCA 59.793 47.619 0.00 0.00 0.00 3.96
2162 4763 1.939974 TGCGTAGTGATTCTGGATGC 58.060 50.000 0.00 0.00 0.00 3.91
2163 4764 4.571984 TCAATTGCGTAGTGATTCTGGATG 59.428 41.667 0.00 0.00 0.00 3.51
2164 4765 4.769688 TCAATTGCGTAGTGATTCTGGAT 58.230 39.130 0.00 0.00 0.00 3.41
2165 4766 4.183865 CTCAATTGCGTAGTGATTCTGGA 58.816 43.478 0.00 0.00 0.00 3.86
2166 4767 3.310774 CCTCAATTGCGTAGTGATTCTGG 59.689 47.826 0.00 0.00 0.00 3.86
2167 4768 3.242543 GCCTCAATTGCGTAGTGATTCTG 60.243 47.826 0.00 0.00 0.00 3.02
2168 4769 2.939103 GCCTCAATTGCGTAGTGATTCT 59.061 45.455 0.00 0.00 0.00 2.40
2192 4793 4.162320 ACGAGCTTCTTGAATTCCTATGGA 59.838 41.667 2.27 0.00 0.00 3.41
2213 4814 3.004734 AGCCCTCTTTGAACAAATGAACG 59.995 43.478 0.44 0.00 0.00 3.95
2273 4874 2.117865 TGATGGATTTTGGGGGAATGC 58.882 47.619 0.00 0.00 0.00 3.56
2280 4881 3.370840 TCTCTGGTGATGGATTTTGGG 57.629 47.619 0.00 0.00 0.00 4.12
2290 4891 6.473758 CAATACCATGATCATCTCTGGTGAT 58.526 40.000 23.25 12.25 41.92 3.06
2316 4917 7.631377 GCAGGAAATGGATGTAAAACTGCTATT 60.631 37.037 0.00 0.00 43.80 1.73
2335 4936 1.358787 AGATGGGGAATGTGCAGGAAA 59.641 47.619 0.00 0.00 0.00 3.13
2375 4976 5.743026 TTAGTGAACAGAAATTTGACGCA 57.257 34.783 0.00 0.00 0.00 5.24
2383 4984 5.812286 ACCGGGTATTTAGTGAACAGAAAT 58.188 37.500 6.32 0.00 0.00 2.17


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

AutoCloner maintained by Alex Coulton.