Multiple sequence alignment - TraesCS2D01G416000

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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 TraesCS2D01G416000 chr2D 100.000 3961 0 0 1 3961 529669798 529673758 0.000000e+00 7315.0
1 TraesCS2D01G416000 chr2D 97.938 194 4 0 3768 3961 629825332 629825139 1.760000e-88 337.0
2 TraesCS2D01G416000 chr2A 92.387 3113 150 45 411 3465 674506668 674509751 0.000000e+00 4355.0
3 TraesCS2D01G416000 chr2A 90.625 384 28 6 1 379 674506300 674506680 1.640000e-138 503.0
4 TraesCS2D01G416000 chr2A 91.429 105 9 0 3613 3717 674509896 674510000 1.150000e-30 145.0
5 TraesCS2D01G416000 chr2A 86.992 123 10 1 3462 3584 674509780 674509896 2.480000e-27 134.0
6 TraesCS2D01G416000 chr2A 93.333 60 4 0 3711 3770 674510017 674510076 5.450000e-14 89.8
7 TraesCS2D01G416000 chr2B 90.099 1717 108 34 177 1857 629806915 629808605 0.000000e+00 2172.0
8 TraesCS2D01G416000 chr2B 91.386 1219 62 14 1886 3066 629808601 629809814 0.000000e+00 1629.0
9 TraesCS2D01G416000 chr2B 92.095 253 14 3 3461 3709 629810374 629810624 6.300000e-93 351.0
10 TraesCS2D01G416000 chr2B 86.378 323 23 3 3063 3364 629809957 629810279 2.280000e-87 333.0
11 TraesCS2D01G416000 chr2B 97.143 175 5 0 1 175 629806463 629806637 2.990000e-76 296.0
12 TraesCS2D01G416000 chr2B 97.143 35 0 1 188 222 798162889 798162856 1.540000e-04 58.4


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G416000 chr2D 529669798 529673758 3960 False 7315.00 7315 100.0000 1 3961 1 chr2D.!!$F1 3960
1 TraesCS2D01G416000 chr2A 674506300 674510076 3776 False 1045.36 4355 90.9532 1 3770 5 chr2A.!!$F1 3769
2 TraesCS2D01G416000 chr2B 629806463 629810624 4161 False 956.20 2172 91.4202 1 3709 5 chr2B.!!$F1 3708

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
514 795 0.704664 GGTCCTTTGTCATCCCCCTT 59.295 55.0 0.00 0.00 0.0 3.95 F
1380 1711 0.099436 GATCTTTGTGGCCACGATGC 59.901 55.0 30.07 14.64 0.0 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1876 2250 0.375803 ACGACCACTGTTGTTTTCGC 59.624 50.000 0.0 0.0 35.47 4.70 R
3237 3818 1.417890 CGGCTAAGGTTCCAGATCCAT 59.582 52.381 0.0 0.0 0.00 3.41 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
92 93 6.299023 TGTGATGTTTGTACAACTCATGAC 57.701 37.500 22.84 22.84 37.91 3.06
175 176 6.533723 TCAGCGGTATAACTTTTGTGTCATAG 59.466 38.462 0.00 0.00 0.00 2.23
272 549 4.036262 GCCAAGGCATCATATTTTCGTACA 59.964 41.667 6.14 0.00 41.49 2.90
368 647 5.752955 GGCATTTGCAACTTTTCTTTACTGA 59.247 36.000 0.00 0.00 44.36 3.41
371 650 7.201513 GCATTTGCAACTTTTCTTTACTGACAA 60.202 33.333 0.00 0.00 41.59 3.18
379 658 9.803315 AACTTTTCTTTACTGACAATTTCTTCC 57.197 29.630 0.00 0.00 0.00 3.46
382 661 7.979444 TTCTTTACTGACAATTTCTTCCGAT 57.021 32.000 0.00 0.00 0.00 4.18
395 674 9.499585 CAATTTCTTCCGATATGCATGATATTC 57.500 33.333 10.16 0.00 0.00 1.75
422 701 9.017509 TCTTCAGAATAGCATGACAATTTCTTT 57.982 29.630 0.00 0.00 0.00 2.52
480 760 4.665212 TGATCTCGCGTCGTAACTAAAAT 58.335 39.130 5.77 0.00 0.00 1.82
490 770 6.461698 GCGTCGTAACTAAAATTGTCATCAAG 59.538 38.462 0.00 0.00 36.97 3.02
496 776 9.559958 GTAACTAAAATTGTCATCAAGATGTGG 57.440 33.333 9.66 0.00 39.72 4.17
499 779 5.649782 AAATTGTCATCAAGATGTGGTCC 57.350 39.130 9.66 0.00 39.72 4.46
514 795 0.704664 GGTCCTTTGTCATCCCCCTT 59.295 55.000 0.00 0.00 0.00 3.95
538 822 4.033358 CCAGAGAACGTCAGCATAACAATC 59.967 45.833 0.00 0.00 0.00 2.67
544 828 2.365582 GTCAGCATAACAATCCCGGTT 58.634 47.619 0.00 0.00 0.00 4.44
634 924 3.777465 ACAACACTAGATCATACGCGT 57.223 42.857 19.17 19.17 0.00 6.01
638 928 2.885266 ACACTAGATCATACGCGTCCAT 59.115 45.455 18.63 6.04 0.00 3.41
649 939 6.046593 TCATACGCGTCCATAATTCTTTTCT 58.953 36.000 18.63 0.00 0.00 2.52
681 972 1.276622 CAACCACCTAGGCACCTACT 58.723 55.000 9.30 0.00 43.14 2.57
694 985 3.056035 GGCACCTACTACAAGCTACAACT 60.056 47.826 0.00 0.00 0.00 3.16
699 990 7.149973 CACCTACTACAAGCTACAACTACAAA 58.850 38.462 0.00 0.00 0.00 2.83
700 991 7.115947 CACCTACTACAAGCTACAACTACAAAC 59.884 40.741 0.00 0.00 0.00 2.93
701 992 7.149973 CCTACTACAAGCTACAACTACAAACA 58.850 38.462 0.00 0.00 0.00 2.83
702 993 6.839820 ACTACAAGCTACAACTACAAACAC 57.160 37.500 0.00 0.00 0.00 3.32
703 994 6.342906 ACTACAAGCTACAACTACAAACACA 58.657 36.000 0.00 0.00 0.00 3.72
704 995 6.819649 ACTACAAGCTACAACTACAAACACAA 59.180 34.615 0.00 0.00 0.00 3.33
706 997 5.163693 ACAAGCTACAACTACAAACACAACC 60.164 40.000 0.00 0.00 0.00 3.77
707 998 4.777463 AGCTACAACTACAAACACAACCT 58.223 39.130 0.00 0.00 0.00 3.50
711 1002 3.692593 ACAACTACAAACACAACCTCCAC 59.307 43.478 0.00 0.00 0.00 4.02
715 1006 1.032014 CAAACACAACCTCCACCTGG 58.968 55.000 0.00 0.00 0.00 4.45
736 1027 1.957877 GGAGGACTCGGAAAGATCGAT 59.042 52.381 0.00 0.00 36.01 3.59
741 1032 3.552294 GGACTCGGAAAGATCGATGTTTC 59.448 47.826 30.14 30.14 38.79 2.78
758 1049 1.204786 TTCGGAGGAGGGGCAATTCA 61.205 55.000 0.00 0.00 0.00 2.57
770 1061 2.094026 GGGCAATTCAGTCAATTCCCAC 60.094 50.000 3.27 0.00 39.42 4.61
773 1064 4.240096 GCAATTCAGTCAATTCCCACAAG 58.760 43.478 0.00 0.00 31.79 3.16
922 1227 3.515330 TTCTCGATTCCCCTCGTTAAC 57.485 47.619 0.00 0.00 39.62 2.01
1042 1358 4.129737 GGGCGCACGAGCTCTACA 62.130 66.667 10.83 0.00 39.10 2.74
1179 1495 1.341531 CACGACTTCCACAAGGTCTCT 59.658 52.381 0.00 0.00 33.37 3.10
1181 1497 2.434702 ACGACTTCCACAAGGTCTCTTT 59.565 45.455 0.00 0.00 33.37 2.52
1206 1529 2.091541 CGGCTTCCCTTTGCTGATTAA 58.908 47.619 0.00 0.00 37.75 1.40
1207 1530 2.689983 CGGCTTCCCTTTGCTGATTAAT 59.310 45.455 0.00 0.00 37.75 1.40
1333 1664 2.556287 CGCGAACTTGTGGGCTTC 59.444 61.111 0.00 0.00 0.00 3.86
1350 1681 0.960364 TTCAGGGTGCTTGAATCGCC 60.960 55.000 0.00 0.00 30.03 5.54
1358 1689 2.289002 GTGCTTGAATCGCCCTCTTATG 59.711 50.000 0.00 0.00 0.00 1.90
1379 1710 1.452110 TGATCTTTGTGGCCACGATG 58.548 50.000 30.07 27.97 0.00 3.84
1380 1711 0.099436 GATCTTTGTGGCCACGATGC 59.901 55.000 30.07 14.64 0.00 3.91
1438 1776 2.890311 TGTGGTGTCTAAATTTGGCTGG 59.110 45.455 0.00 0.00 0.00 4.85
1439 1777 2.231235 GTGGTGTCTAAATTTGGCTGGG 59.769 50.000 0.00 0.00 0.00 4.45
1456 1794 3.193479 GCTGGGCTGCTGTTAAATTTAGT 59.807 43.478 0.00 0.00 0.00 2.24
1491 1829 8.044908 GGGTATCAAAATCCAGTTTACTGTCTA 58.955 37.037 8.91 0.00 42.27 2.59
1500 1838 7.159322 TCCAGTTTACTGTCTAGACTGAATC 57.841 40.000 29.91 18.78 42.27 2.52
1621 1967 3.555956 CCGATGTACTAGTCAACAATGCC 59.444 47.826 0.00 0.00 0.00 4.40
1636 1982 4.929479 ACAATGCCTAAACCATGGACTTA 58.071 39.130 21.47 14.03 0.00 2.24
1638 1984 4.584638 ATGCCTAAACCATGGACTTACA 57.415 40.909 21.47 9.57 0.00 2.41
1642 1988 5.242838 TGCCTAAACCATGGACTTACAAAAG 59.757 40.000 21.47 5.10 38.77 2.27
1649 1996 7.891498 ACCATGGACTTACAAAAGTTTAACT 57.109 32.000 21.47 0.00 46.09 2.24
1780 2127 8.500837 TGTGATGTTAAATGTGAAATTTCGTC 57.499 30.769 13.34 9.44 0.00 4.20
1813 2186 9.866798 TCAAGTATATCTGCATTGATGATCTAC 57.133 33.333 0.00 0.77 0.00 2.59
1865 2239 7.563888 TTACGAAGCATACTGTAGTAGATGT 57.436 36.000 0.00 0.00 33.52 3.06
1870 2244 6.531503 AGCATACTGTAGTAGATGTTGTGT 57.468 37.500 0.00 0.00 33.52 3.72
1871 2245 6.936279 AGCATACTGTAGTAGATGTTGTGTT 58.064 36.000 0.00 0.00 33.52 3.32
1876 2250 1.808411 AGTAGATGTTGTGTTGGCGG 58.192 50.000 0.00 0.00 0.00 6.13
1878 2252 1.295357 TAGATGTTGTGTTGGCGGCG 61.295 55.000 0.51 0.51 0.00 6.46
1893 2267 0.316689 CGGCGAAAACAACAGTGGTC 60.317 55.000 0.00 0.00 0.00 4.02
1922 2296 6.546428 TTTCTCTGGAATAAGTACTCCTGG 57.454 41.667 0.00 0.00 32.91 4.45
2122 2497 5.580691 CAGTCGGCTCTATTTGATGTAAACA 59.419 40.000 0.00 0.00 0.00 2.83
2125 2500 4.876107 CGGCTCTATTTGATGTAAACAGGT 59.124 41.667 0.00 0.00 0.00 4.00
2786 3198 1.216710 GTCTCCCAGTCTGCCTTCG 59.783 63.158 0.00 0.00 0.00 3.79
2912 3324 2.028203 TGATGACGAAGATGACTTGCCA 60.028 45.455 0.00 0.00 36.39 4.92
2921 3333 4.060038 AGATGACTTGCCACGGTATAAG 57.940 45.455 0.00 0.00 0.00 1.73
2967 3379 2.418197 CGTACCGTGAAGTGAATGGGAT 60.418 50.000 0.00 0.00 0.00 3.85
3162 3733 3.165071 TCATGCTCAGGTAGTTCTCACA 58.835 45.455 0.00 0.00 0.00 3.58
3163 3734 3.578282 TCATGCTCAGGTAGTTCTCACAA 59.422 43.478 0.00 0.00 0.00 3.33
3188 3769 9.852091 AAATTCAGATTTCACTAGATTTTGAGC 57.148 29.630 0.00 0.00 29.53 4.26
3237 3818 7.618502 ATGTTCACATTATTACGCAGGTTTA 57.381 32.000 0.00 0.00 31.37 2.01
3328 3909 3.733236 CACAGCATGCAAATCCTGG 57.267 52.632 21.98 1.03 42.53 4.45
3388 3969 5.178096 TCTTAGCCCATTGTTCATCTTCA 57.822 39.130 0.00 0.00 0.00 3.02
3420 4001 2.692557 AGCCTAGCAGTCTCTGTACATG 59.307 50.000 0.00 0.00 33.43 3.21
3543 4156 3.557185 TGCGATGAATGTGCTGATTAGTC 59.443 43.478 0.00 0.00 0.00 2.59
3544 4157 3.557185 GCGATGAATGTGCTGATTAGTCA 59.443 43.478 0.00 0.00 0.00 3.41
3546 4159 4.567959 CGATGAATGTGCTGATTAGTCACA 59.432 41.667 14.00 14.00 41.60 3.58
3549 4162 5.247862 TGAATGTGCTGATTAGTCACACAT 58.752 37.500 20.36 20.36 46.65 3.21
3586 4199 2.584835 AAGTTTCTGCCATGCTACCA 57.415 45.000 0.00 0.00 0.00 3.25
3600 4213 1.542547 GCTACCACATTGATACCCGGG 60.543 57.143 22.25 22.25 0.00 5.73
3679 4292 3.678056 TGACATGACTAGAACCACACC 57.322 47.619 0.00 0.00 0.00 4.16
3684 4297 6.182507 ACATGACTAGAACCACACCTTTTA 57.817 37.500 0.00 0.00 0.00 1.52
3740 4380 4.233789 CAGCAAGACAGAGTAAGACTGAC 58.766 47.826 0.00 0.00 38.55 3.51
3749 4389 6.682746 ACAGAGTAAGACTGACATAACTGTG 58.317 40.000 0.00 0.00 38.55 3.66
3755 4395 8.589338 AGTAAGACTGACATAACTGTGAAATCT 58.411 33.333 0.00 0.00 35.14 2.40
3763 4403 7.823799 TGACATAACTGTGAAATCTAGCATCAA 59.176 33.333 0.00 0.00 35.14 2.57
3770 4410 9.053840 ACTGTGAAATCTAGCATCAAGATTATG 57.946 33.333 0.00 0.00 41.68 1.90
3771 4411 8.387190 TGTGAAATCTAGCATCAAGATTATGG 57.613 34.615 0.00 0.00 41.68 2.74
3772 4412 8.212995 TGTGAAATCTAGCATCAAGATTATGGA 58.787 33.333 0.00 0.00 41.68 3.41
3773 4413 9.060347 GTGAAATCTAGCATCAAGATTATGGAA 57.940 33.333 0.00 0.00 41.68 3.53
3774 4414 9.631257 TGAAATCTAGCATCAAGATTATGGAAA 57.369 29.630 0.00 0.00 41.68 3.13
3777 4417 9.638176 AATCTAGCATCAAGATTATGGAAAAGT 57.362 29.630 0.00 0.00 40.93 2.66
3782 4422 9.638176 AGCATCAAGATTATGGAAAAGTATCTT 57.362 29.630 0.00 0.00 36.32 2.40
3791 4431 6.743575 ATGGAAAAGTATCTTTCTCAACCG 57.256 37.500 0.00 0.00 35.91 4.44
3792 4432 5.860611 TGGAAAAGTATCTTTCTCAACCGA 58.139 37.500 0.00 0.00 35.91 4.69
3793 4433 5.699458 TGGAAAAGTATCTTTCTCAACCGAC 59.301 40.000 0.00 0.00 35.91 4.79
3794 4434 5.932883 GGAAAAGTATCTTTCTCAACCGACT 59.067 40.000 0.00 0.00 35.91 4.18
3795 4435 6.128526 GGAAAAGTATCTTTCTCAACCGACTG 60.129 42.308 0.00 0.00 35.91 3.51
3796 4436 5.723672 AAGTATCTTTCTCAACCGACTGA 57.276 39.130 0.00 0.00 0.00 3.41
3797 4437 5.923733 AGTATCTTTCTCAACCGACTGAT 57.076 39.130 0.00 0.00 0.00 2.90
3798 4438 6.287589 AGTATCTTTCTCAACCGACTGATT 57.712 37.500 0.00 0.00 0.00 2.57
3799 4439 6.702329 AGTATCTTTCTCAACCGACTGATTT 58.298 36.000 0.00 0.00 0.00 2.17
3800 4440 6.814146 AGTATCTTTCTCAACCGACTGATTTC 59.186 38.462 0.00 0.00 0.00 2.17
3801 4441 5.215252 TCTTTCTCAACCGACTGATTTCT 57.785 39.130 0.00 0.00 0.00 2.52
3802 4442 5.611374 TCTTTCTCAACCGACTGATTTCTT 58.389 37.500 0.00 0.00 0.00 2.52
3803 4443 6.055588 TCTTTCTCAACCGACTGATTTCTTT 58.944 36.000 0.00 0.00 0.00 2.52
3804 4444 5.673337 TTCTCAACCGACTGATTTCTTTG 57.327 39.130 0.00 0.00 0.00 2.77
3805 4445 4.703897 TCTCAACCGACTGATTTCTTTGT 58.296 39.130 0.00 0.00 0.00 2.83
3806 4446 4.511454 TCTCAACCGACTGATTTCTTTGTG 59.489 41.667 0.00 0.00 0.00 3.33
3807 4447 4.447290 TCAACCGACTGATTTCTTTGTGA 58.553 39.130 0.00 0.00 0.00 3.58
3808 4448 4.878971 TCAACCGACTGATTTCTTTGTGAA 59.121 37.500 0.00 0.00 0.00 3.18
3818 4458 2.679355 TCTTTGTGAAATCAACCGCG 57.321 45.000 0.00 0.00 0.00 6.46
3819 4459 1.944024 TCTTTGTGAAATCAACCGCGT 59.056 42.857 4.92 0.00 0.00 6.01
3820 4460 2.032377 TCTTTGTGAAATCAACCGCGTC 60.032 45.455 4.92 0.00 0.00 5.19
3821 4461 0.233590 TTGTGAAATCAACCGCGTCG 59.766 50.000 4.92 0.00 0.00 5.12
3822 4462 1.509162 GTGAAATCAACCGCGTCGC 60.509 57.895 7.29 7.29 0.00 5.19
3823 4463 2.097728 GAAATCAACCGCGTCGCC 59.902 61.111 12.44 0.00 0.00 5.54
3824 4464 3.376914 GAAATCAACCGCGTCGCCC 62.377 63.158 12.44 0.00 0.00 6.13
3835 4475 4.901520 GTCGCCCGACGTCCGATC 62.902 72.222 16.45 8.43 44.19 3.69
3838 4478 4.570663 GCCCGACGTCCGATCCAG 62.571 72.222 10.58 0.00 41.76 3.86
3839 4479 4.570663 CCCGACGTCCGATCCAGC 62.571 72.222 10.58 0.00 41.76 4.85
3840 4480 3.518998 CCGACGTCCGATCCAGCT 61.519 66.667 10.58 0.00 41.76 4.24
3841 4481 2.278206 CGACGTCCGATCCAGCTG 60.278 66.667 10.58 6.78 41.76 4.24
3842 4482 2.105128 GACGTCCGATCCAGCTGG 59.895 66.667 27.87 27.87 0.00 4.85
3851 4491 4.147449 TCCAGCTGGATCGTGCGG 62.147 66.667 32.00 2.50 39.78 5.69
3859 4499 3.696426 GATCGTGCGGCGCTCATC 61.696 66.667 33.26 25.73 41.07 2.92
3860 4500 4.212913 ATCGTGCGGCGCTCATCT 62.213 61.111 33.26 13.26 41.07 2.90
3861 4501 4.854784 TCGTGCGGCGCTCATCTC 62.855 66.667 33.26 14.18 41.07 2.75
3863 4503 2.815211 GTGCGGCGCTCATCTCAA 60.815 61.111 33.26 6.83 0.00 3.02
3864 4504 2.815211 TGCGGCGCTCATCTCAAC 60.815 61.111 33.26 0.00 0.00 3.18
3865 4505 2.510238 GCGGCGCTCATCTCAACT 60.510 61.111 26.86 0.00 0.00 3.16
3866 4506 2.806856 GCGGCGCTCATCTCAACTG 61.807 63.158 26.86 0.00 0.00 3.16
3867 4507 2.169789 CGGCGCTCATCTCAACTGG 61.170 63.158 7.64 0.00 0.00 4.00
3868 4508 1.078848 GGCGCTCATCTCAACTGGT 60.079 57.895 7.64 0.00 0.00 4.00
3869 4509 1.086634 GGCGCTCATCTCAACTGGTC 61.087 60.000 7.64 0.00 0.00 4.02
3870 4510 1.416813 GCGCTCATCTCAACTGGTCG 61.417 60.000 0.00 0.00 0.00 4.79
3871 4511 0.109086 CGCTCATCTCAACTGGTCGT 60.109 55.000 0.00 0.00 0.00 4.34
3872 4512 1.132453 CGCTCATCTCAACTGGTCGTA 59.868 52.381 0.00 0.00 0.00 3.43
3873 4513 2.415491 CGCTCATCTCAACTGGTCGTAA 60.415 50.000 0.00 0.00 0.00 3.18
3874 4514 3.585862 GCTCATCTCAACTGGTCGTAAA 58.414 45.455 0.00 0.00 0.00 2.01
3875 4515 3.994392 GCTCATCTCAACTGGTCGTAAAA 59.006 43.478 0.00 0.00 0.00 1.52
3876 4516 4.143094 GCTCATCTCAACTGGTCGTAAAAC 60.143 45.833 0.00 0.00 0.00 2.43
3877 4517 4.951254 TCATCTCAACTGGTCGTAAAACA 58.049 39.130 0.00 0.00 0.00 2.83
3878 4518 4.748102 TCATCTCAACTGGTCGTAAAACAC 59.252 41.667 0.00 0.00 0.00 3.32
3879 4519 4.126208 TCTCAACTGGTCGTAAAACACA 57.874 40.909 0.00 0.00 0.00 3.72
3880 4520 3.866910 TCTCAACTGGTCGTAAAACACAC 59.133 43.478 0.00 0.00 0.00 3.82
3881 4521 3.597255 TCAACTGGTCGTAAAACACACA 58.403 40.909 0.00 0.00 0.00 3.72
3882 4522 4.001652 TCAACTGGTCGTAAAACACACAA 58.998 39.130 0.00 0.00 0.00 3.33
3883 4523 4.092816 CAACTGGTCGTAAAACACACAAC 58.907 43.478 0.00 0.00 0.00 3.32
3884 4524 2.349275 ACTGGTCGTAAAACACACAACG 59.651 45.455 0.00 0.00 36.71 4.10
3885 4525 1.062294 TGGTCGTAAAACACACAACGC 59.938 47.619 0.00 0.00 35.40 4.84
3886 4526 1.328374 GGTCGTAAAACACACAACGCT 59.672 47.619 0.00 0.00 35.40 5.07
3887 4527 2.223089 GGTCGTAAAACACACAACGCTT 60.223 45.455 0.00 0.00 35.40 4.68
3888 4528 3.024313 GTCGTAAAACACACAACGCTTC 58.976 45.455 0.00 0.00 35.40 3.86
3889 4529 2.030701 TCGTAAAACACACAACGCTTCC 59.969 45.455 0.00 0.00 35.40 3.46
3890 4530 2.723209 GTAAAACACACAACGCTTCCC 58.277 47.619 0.00 0.00 0.00 3.97
3891 4531 1.470051 AAAACACACAACGCTTCCCT 58.530 45.000 0.00 0.00 0.00 4.20
3892 4532 0.738389 AAACACACAACGCTTCCCTG 59.262 50.000 0.00 0.00 0.00 4.45
3893 4533 1.101049 AACACACAACGCTTCCCTGG 61.101 55.000 0.00 0.00 0.00 4.45
3894 4534 2.594592 ACACAACGCTTCCCTGGC 60.595 61.111 0.00 0.00 0.00 4.85
3895 4535 3.365265 CACAACGCTTCCCTGGCC 61.365 66.667 0.00 0.00 0.00 5.36
3896 4536 4.660938 ACAACGCTTCCCTGGCCC 62.661 66.667 0.00 0.00 0.00 5.80
3911 4551 3.061848 CCCCACGCACCATCCAAC 61.062 66.667 0.00 0.00 0.00 3.77
3912 4552 3.061848 CCCACGCACCATCCAACC 61.062 66.667 0.00 0.00 0.00 3.77
3913 4553 3.430862 CCACGCACCATCCAACCG 61.431 66.667 0.00 0.00 0.00 4.44
3914 4554 4.101790 CACGCACCATCCAACCGC 62.102 66.667 0.00 0.00 0.00 5.68
3920 4560 2.816083 CCATCCAACCGCGCGTTA 60.816 61.111 29.95 9.17 31.77 3.18
3921 4561 2.701006 CATCCAACCGCGCGTTAG 59.299 61.111 29.95 16.31 31.77 2.34
3922 4562 3.192922 ATCCAACCGCGCGTTAGC 61.193 61.111 29.95 0.00 40.74 3.09
3934 4574 1.553308 GCGTTAGCGACCGTTTATCT 58.447 50.000 2.07 0.00 41.33 1.98
3935 4575 1.516042 GCGTTAGCGACCGTTTATCTC 59.484 52.381 2.07 0.00 41.33 2.75
3936 4576 2.114825 CGTTAGCGACCGTTTATCTCC 58.885 52.381 0.00 0.00 41.33 3.71
3937 4577 2.467838 GTTAGCGACCGTTTATCTCCC 58.532 52.381 0.00 0.00 0.00 4.30
3938 4578 2.062971 TAGCGACCGTTTATCTCCCT 57.937 50.000 0.00 0.00 0.00 4.20
3939 4579 2.062971 AGCGACCGTTTATCTCCCTA 57.937 50.000 0.00 0.00 0.00 3.53
3940 4580 1.955080 AGCGACCGTTTATCTCCCTAG 59.045 52.381 0.00 0.00 0.00 3.02
3941 4581 1.952296 GCGACCGTTTATCTCCCTAGA 59.048 52.381 0.00 0.00 35.80 2.43
3942 4582 2.360165 GCGACCGTTTATCTCCCTAGAA 59.640 50.000 0.00 0.00 34.73 2.10
3943 4583 3.794812 GCGACCGTTTATCTCCCTAGAAC 60.795 52.174 0.00 0.00 34.73 3.01
3944 4584 3.243334 CGACCGTTTATCTCCCTAGAACC 60.243 52.174 0.00 0.00 34.73 3.62
3945 4585 3.703052 GACCGTTTATCTCCCTAGAACCA 59.297 47.826 0.00 0.00 34.73 3.67
3946 4586 3.450096 ACCGTTTATCTCCCTAGAACCAC 59.550 47.826 0.00 0.00 34.73 4.16
3947 4587 3.449737 CCGTTTATCTCCCTAGAACCACA 59.550 47.826 0.00 0.00 34.73 4.17
3948 4588 4.101119 CCGTTTATCTCCCTAGAACCACAT 59.899 45.833 0.00 0.00 34.73 3.21
3949 4589 5.290386 CGTTTATCTCCCTAGAACCACATC 58.710 45.833 0.00 0.00 34.73 3.06
3950 4590 5.069251 CGTTTATCTCCCTAGAACCACATCT 59.931 44.000 0.00 0.00 34.73 2.90
3951 4591 6.407074 CGTTTATCTCCCTAGAACCACATCTT 60.407 42.308 0.00 0.00 34.73 2.40
3952 4592 6.732896 TTATCTCCCTAGAACCACATCTTC 57.267 41.667 0.00 0.00 34.73 2.87
3953 4593 3.024547 TCTCCCTAGAACCACATCTTCG 58.975 50.000 0.00 0.00 0.00 3.79
3954 4594 2.761208 CTCCCTAGAACCACATCTTCGT 59.239 50.000 0.00 0.00 0.00 3.85
3955 4595 2.758979 TCCCTAGAACCACATCTTCGTC 59.241 50.000 0.00 0.00 0.00 4.20
3956 4596 2.761208 CCCTAGAACCACATCTTCGTCT 59.239 50.000 0.00 0.00 0.00 4.18
3957 4597 3.181485 CCCTAGAACCACATCTTCGTCTC 60.181 52.174 0.00 0.00 0.00 3.36
3958 4598 3.697045 CCTAGAACCACATCTTCGTCTCT 59.303 47.826 0.00 0.00 0.00 3.10
3959 4599 4.882427 CCTAGAACCACATCTTCGTCTCTA 59.118 45.833 0.00 0.00 0.00 2.43
3960 4600 5.357314 CCTAGAACCACATCTTCGTCTCTAA 59.643 44.000 0.00 0.00 0.00 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
92 93 6.519353 TGTGACACGTAACTCACATTTAAG 57.481 37.500 15.36 0.00 41.46 1.85
175 176 8.035394 TCAGTTAGACCAATATTCAGTGAGTTC 58.965 37.037 0.00 0.00 0.00 3.01
302 579 9.903682 CTGTCATGAATGAAAGTTTCAAACTAT 57.096 29.630 21.57 11.13 43.95 2.12
313 590 6.149973 TCCTAGCAAACTGTCATGAATGAAAG 59.850 38.462 8.65 8.65 45.62 2.62
314 591 6.003326 TCCTAGCAAACTGTCATGAATGAAA 58.997 36.000 0.00 0.00 38.75 2.69
315 592 5.559770 TCCTAGCAAACTGTCATGAATGAA 58.440 37.500 0.00 0.00 38.75 2.57
316 593 5.164620 TCCTAGCAAACTGTCATGAATGA 57.835 39.130 0.00 0.00 0.00 2.57
317 594 4.334759 CCTCCTAGCAAACTGTCATGAATG 59.665 45.833 0.00 0.00 0.00 2.67
318 595 4.521146 CCTCCTAGCAAACTGTCATGAAT 58.479 43.478 0.00 0.00 0.00 2.57
319 596 3.307691 CCCTCCTAGCAAACTGTCATGAA 60.308 47.826 0.00 0.00 0.00 2.57
320 597 2.237143 CCCTCCTAGCAAACTGTCATGA 59.763 50.000 0.00 0.00 0.00 3.07
321 598 2.237143 TCCCTCCTAGCAAACTGTCATG 59.763 50.000 0.00 0.00 0.00 3.07
322 599 2.551270 TCCCTCCTAGCAAACTGTCAT 58.449 47.619 0.00 0.00 0.00 3.06
323 600 2.024176 TCCCTCCTAGCAAACTGTCA 57.976 50.000 0.00 0.00 0.00 3.58
325 602 1.561542 CCATCCCTCCTAGCAAACTGT 59.438 52.381 0.00 0.00 0.00 3.55
326 603 1.748591 GCCATCCCTCCTAGCAAACTG 60.749 57.143 0.00 0.00 0.00 3.16
379 658 8.699283 TTCTGAAGAGAATATCATGCATATCG 57.301 34.615 0.00 0.00 32.98 2.92
382 661 9.597170 GCTATTCTGAAGAGAATATCATGCATA 57.403 33.333 15.71 0.00 45.89 3.14
395 674 8.211116 AGAAATTGTCATGCTATTCTGAAGAG 57.789 34.615 7.65 7.65 0.00 2.85
436 716 9.166126 GATCAAACAGTAACCGTTTTTAGAAAG 57.834 33.333 0.00 0.00 34.40 2.62
448 728 2.334838 ACGCGAGATCAAACAGTAACC 58.665 47.619 15.93 0.00 0.00 2.85
451 731 1.198408 ACGACGCGAGATCAAACAGTA 59.802 47.619 15.93 0.00 0.00 2.74
480 760 4.371624 AAGGACCACATCTTGATGACAA 57.628 40.909 16.43 0.00 34.65 3.18
490 770 2.369394 GGGATGACAAAGGACCACATC 58.631 52.381 0.00 0.00 37.29 3.06
496 776 1.341089 GGAAGGGGGATGACAAAGGAC 60.341 57.143 0.00 0.00 0.00 3.85
499 779 1.635487 TCTGGAAGGGGGATGACAAAG 59.365 52.381 0.00 0.00 0.00 2.77
514 795 2.560981 TGTTATGCTGACGTTCTCTGGA 59.439 45.455 0.00 0.00 0.00 3.86
609 895 6.034256 ACGCGTATGATCTAGTGTTGTTTAAC 59.966 38.462 11.67 0.00 37.32 2.01
649 939 4.993705 AGGTGGTTGGTGAGAGAAAATA 57.006 40.909 0.00 0.00 0.00 1.40
658 949 1.758592 GTGCCTAGGTGGTTGGTGA 59.241 57.895 11.31 0.00 38.35 4.02
681 972 6.037391 GGTTGTGTTTGTAGTTGTAGCTTGTA 59.963 38.462 0.00 0.00 0.00 2.41
694 985 2.422235 CCAGGTGGAGGTTGTGTTTGTA 60.422 50.000 0.00 0.00 37.39 2.41
699 990 2.460853 CCCCAGGTGGAGGTTGTGT 61.461 63.158 0.00 0.00 37.39 3.72
700 991 2.129555 CTCCCCAGGTGGAGGTTGTG 62.130 65.000 13.79 0.00 46.85 3.33
701 992 1.847968 CTCCCCAGGTGGAGGTTGT 60.848 63.158 13.79 0.00 46.85 3.32
702 993 3.081554 CTCCCCAGGTGGAGGTTG 58.918 66.667 13.79 0.00 46.85 3.77
707 998 2.450243 GAGTCCTCCCCAGGTGGA 59.550 66.667 0.00 0.24 42.26 4.02
711 1002 1.612442 TTTCCGAGTCCTCCCCAGG 60.612 63.158 0.00 0.00 42.01 4.45
715 1006 0.386113 CGATCTTTCCGAGTCCTCCC 59.614 60.000 0.00 0.00 0.00 4.30
736 1027 1.497309 ATTGCCCCTCCTCCGAAACA 61.497 55.000 0.00 0.00 0.00 2.83
741 1032 1.153086 CTGAATTGCCCCTCCTCCG 60.153 63.158 0.00 0.00 0.00 4.63
758 1049 4.993705 TTACTCCTTGTGGGAATTGACT 57.006 40.909 0.00 0.00 44.58 3.41
770 1061 1.275291 TGTCTCGCCCTTTACTCCTTG 59.725 52.381 0.00 0.00 0.00 3.61
773 1064 2.168728 AGATTGTCTCGCCCTTTACTCC 59.831 50.000 0.00 0.00 0.00 3.85
823 1128 4.030452 GTTGTCGGGTGCTGCTGC 62.030 66.667 8.89 8.89 40.20 5.25
824 1129 3.357079 GGTTGTCGGGTGCTGCTG 61.357 66.667 0.00 0.00 0.00 4.41
825 1130 4.643387 GGGTTGTCGGGTGCTGCT 62.643 66.667 0.00 0.00 0.00 4.24
829 1134 3.675619 ATAGCGGGTTGTCGGGTGC 62.676 63.158 0.00 0.00 0.00 5.01
830 1135 1.520787 GATAGCGGGTTGTCGGGTG 60.521 63.158 0.00 0.00 0.00 4.61
831 1136 1.335132 ATGATAGCGGGTTGTCGGGT 61.335 55.000 0.00 0.00 0.00 5.28
922 1227 2.446435 AGTCGTGAAATTTGGGGGATG 58.554 47.619 0.00 0.00 0.00 3.51
1179 1495 2.475172 AAAGGGAAGCCGGGGGAAA 61.475 57.895 2.18 0.00 0.00 3.13
1181 1497 3.657350 CAAAGGGAAGCCGGGGGA 61.657 66.667 2.18 0.00 0.00 4.81
1206 1529 6.725364 AGTCAAATCAATCCAGGACAAGTAT 58.275 36.000 0.00 0.00 0.00 2.12
1207 1530 6.013379 AGAGTCAAATCAATCCAGGACAAGTA 60.013 38.462 0.00 0.00 0.00 2.24
1333 1664 2.409870 GGGCGATTCAAGCACCCTG 61.410 63.158 0.00 0.00 37.59 4.45
1350 1681 4.518211 GGCCACAAAGATCATCATAAGAGG 59.482 45.833 0.00 0.00 0.00 3.69
1358 1689 1.737838 TCGTGGCCACAAAGATCATC 58.262 50.000 34.16 4.55 0.00 2.92
1379 1710 1.730501 TTCATGAGCTGTGCTAGTGC 58.269 50.000 0.00 0.00 39.88 4.40
1380 1711 2.538861 CGATTCATGAGCTGTGCTAGTG 59.461 50.000 0.00 0.00 39.88 2.74
1438 1776 4.168760 CAGCACTAAATTTAACAGCAGCC 58.831 43.478 14.71 0.00 0.00 4.85
1439 1777 4.798574 ACAGCACTAAATTTAACAGCAGC 58.201 39.130 14.71 7.34 0.00 5.25
1456 1794 4.017958 TGGATTTTGATACCCCTTACAGCA 60.018 41.667 0.00 0.00 0.00 4.41
1491 1829 1.674221 GCAGCTTCACCGATTCAGTCT 60.674 52.381 0.00 0.00 0.00 3.24
1517 1855 4.215109 ACAACCAAGCAAGGTATCACTTT 58.785 39.130 0.09 0.00 42.25 2.66
1636 1982 5.163652 GCCTGAGACACAGTTAAACTTTTGT 60.164 40.000 0.00 0.00 44.40 2.83
1638 1984 5.193679 AGCCTGAGACACAGTTAAACTTTT 58.806 37.500 0.00 0.00 44.40 2.27
1642 1988 3.743396 CAGAGCCTGAGACACAGTTAAAC 59.257 47.826 0.00 0.00 44.40 2.01
1649 1996 0.681733 GGTTCAGAGCCTGAGACACA 59.318 55.000 0.00 0.00 41.75 3.72
1759 2106 7.581476 ACTCGACGAAATTTCACATTTAACAT 58.419 30.769 17.99 0.00 0.00 2.71
1780 2127 7.363431 TCAATGCAGATATACTTGACTACTCG 58.637 38.462 0.00 0.00 0.00 4.18
1840 2214 8.167605 ACATCTACTACAGTATGCTTCGTAAT 57.832 34.615 0.00 0.00 42.53 1.89
1865 2239 1.226717 GTTTTCGCCGCCAACACAA 60.227 52.632 0.00 0.00 0.00 3.33
1870 2244 1.064946 CTGTTGTTTTCGCCGCCAA 59.935 52.632 0.00 0.00 0.00 4.52
1871 2245 2.115911 ACTGTTGTTTTCGCCGCCA 61.116 52.632 0.00 0.00 0.00 5.69
1876 2250 0.375803 ACGACCACTGTTGTTTTCGC 59.624 50.000 0.00 0.00 35.47 4.70
1878 2252 4.806342 ATACACGACCACTGTTGTTTTC 57.194 40.909 0.00 0.00 36.96 2.29
1893 2267 7.648510 GGAGTACTTATTCCAGAGAAATACACG 59.351 40.741 0.00 0.00 35.09 4.49
1957 2332 6.463995 AGAAAATTCAGTGTTGCTAACCAA 57.536 33.333 0.00 0.00 0.00 3.67
1996 2371 1.604185 GCACTCTTCTGCGGCCTATAG 60.604 57.143 0.00 0.00 0.00 1.31
2004 2379 0.720027 CAGATGTGCACTCTTCTGCG 59.280 55.000 22.82 8.91 40.31 5.18
2122 2497 8.953665 AGAGGATGGATTTATCTCAATTAACCT 58.046 33.333 0.00 0.00 0.00 3.50
2282 2667 8.408043 TGCATTCGAATTATTGAAGGGATATT 57.592 30.769 8.21 0.00 32.52 1.28
2397 2809 4.796038 AGAATTGTTTGAGCATCCAAGG 57.204 40.909 0.00 0.00 0.00 3.61
2635 3047 3.879295 CACTTCAACCTTCAGAGCTTTCA 59.121 43.478 0.00 0.00 0.00 2.69
2636 3048 3.304324 GCACTTCAACCTTCAGAGCTTTC 60.304 47.826 0.00 0.00 0.00 2.62
2912 3324 5.930569 GGTTCTGACTTTGAACTTATACCGT 59.069 40.000 0.00 0.00 42.27 4.83
2921 3333 3.058914 CACCGATGGTTCTGACTTTGAAC 60.059 47.826 0.00 0.00 42.00 3.18
3162 3733 9.852091 GCTCAAAATCTAGTGAAATCTGAATTT 57.148 29.630 0.00 0.00 37.80 1.82
3163 3734 8.465201 GGCTCAAAATCTAGTGAAATCTGAATT 58.535 33.333 0.00 0.00 0.00 2.17
3237 3818 1.417890 CGGCTAAGGTTCCAGATCCAT 59.582 52.381 0.00 0.00 0.00 3.41
3388 3969 8.748412 CAGAGACTGCTAGGCTATAAAATCTAT 58.252 37.037 0.00 0.00 30.20 1.98
3420 4001 3.450578 ACATGATGAATGCGCAAAATCC 58.549 40.909 17.11 4.72 40.22 3.01
3459 4040 9.524106 TGAAATATTAGCATCAAATTTGCAGAG 57.476 29.630 13.54 4.30 42.62 3.35
3543 4156 6.544038 TTCTGATTACAGTGTGAATGTGTG 57.456 37.500 5.88 0.00 43.81 3.82
3544 4157 7.283127 ACTTTTCTGATTACAGTGTGAATGTGT 59.717 33.333 5.88 0.00 43.81 3.72
3546 4159 7.807977 ACTTTTCTGATTACAGTGTGAATGT 57.192 32.000 5.88 0.74 43.81 2.71
3549 4162 8.506168 AGAAACTTTTCTGATTACAGTGTGAA 57.494 30.769 5.88 0.00 45.27 3.18
3661 4274 4.706842 AAAGGTGTGGTTCTAGTCATGT 57.293 40.909 0.00 0.00 0.00 3.21
3740 4380 8.429493 TCTTGATGCTAGATTTCACAGTTATG 57.571 34.615 0.00 0.00 0.00 1.90
3770 4410 5.932883 AGTCGGTTGAGAAAGATACTTTTCC 59.067 40.000 0.00 0.00 37.70 3.13
3771 4411 6.645415 TCAGTCGGTTGAGAAAGATACTTTTC 59.355 38.462 0.00 0.00 37.34 2.29
3772 4412 6.522054 TCAGTCGGTTGAGAAAGATACTTTT 58.478 36.000 0.00 0.00 0.00 2.27
3773 4413 6.097915 TCAGTCGGTTGAGAAAGATACTTT 57.902 37.500 0.00 0.00 0.00 2.66
3774 4414 5.723672 TCAGTCGGTTGAGAAAGATACTT 57.276 39.130 0.00 0.00 0.00 2.24
3775 4415 5.923733 ATCAGTCGGTTGAGAAAGATACT 57.076 39.130 0.00 0.00 0.00 2.12
3776 4416 6.814146 AGAAATCAGTCGGTTGAGAAAGATAC 59.186 38.462 0.00 0.00 0.00 2.24
3777 4417 6.936279 AGAAATCAGTCGGTTGAGAAAGATA 58.064 36.000 0.00 0.00 0.00 1.98
3778 4418 5.799213 AGAAATCAGTCGGTTGAGAAAGAT 58.201 37.500 0.00 0.00 0.00 2.40
3779 4419 5.215252 AGAAATCAGTCGGTTGAGAAAGA 57.785 39.130 0.00 0.00 0.00 2.52
3780 4420 5.931441 AAGAAATCAGTCGGTTGAGAAAG 57.069 39.130 0.00 0.00 0.00 2.62
3781 4421 5.588648 ACAAAGAAATCAGTCGGTTGAGAAA 59.411 36.000 0.00 0.00 0.00 2.52
3782 4422 5.007626 CACAAAGAAATCAGTCGGTTGAGAA 59.992 40.000 0.00 0.00 0.00 2.87
3783 4423 4.511454 CACAAAGAAATCAGTCGGTTGAGA 59.489 41.667 0.00 0.00 0.00 3.27
3784 4424 4.511454 TCACAAAGAAATCAGTCGGTTGAG 59.489 41.667 0.00 0.00 0.00 3.02
3785 4425 4.447290 TCACAAAGAAATCAGTCGGTTGA 58.553 39.130 0.00 0.00 0.00 3.18
3786 4426 4.811555 TCACAAAGAAATCAGTCGGTTG 57.188 40.909 0.00 0.00 0.00 3.77
3787 4427 5.828299 TTTCACAAAGAAATCAGTCGGTT 57.172 34.783 0.00 0.00 41.17 4.44
3798 4438 2.356382 ACGCGGTTGATTTCACAAAGAA 59.644 40.909 12.47 0.00 0.00 2.52
3799 4439 1.944024 ACGCGGTTGATTTCACAAAGA 59.056 42.857 12.47 0.00 0.00 2.52
3800 4440 2.307049 GACGCGGTTGATTTCACAAAG 58.693 47.619 12.47 0.00 0.00 2.77
3801 4441 1.333347 CGACGCGGTTGATTTCACAAA 60.333 47.619 12.47 0.00 0.00 2.83
3802 4442 0.233590 CGACGCGGTTGATTTCACAA 59.766 50.000 12.47 0.00 0.00 3.33
3803 4443 1.856688 CGACGCGGTTGATTTCACA 59.143 52.632 12.47 0.00 0.00 3.58
3804 4444 1.509162 GCGACGCGGTTGATTTCAC 60.509 57.895 12.47 0.00 0.00 3.18
3805 4445 2.673114 GGCGACGCGGTTGATTTCA 61.673 57.895 14.61 0.00 0.00 2.69
3806 4446 2.097728 GGCGACGCGGTTGATTTC 59.902 61.111 14.61 0.00 0.00 2.17
3807 4447 3.428282 GGGCGACGCGGTTGATTT 61.428 61.111 14.61 0.00 0.00 2.17
3818 4458 4.901520 GATCGGACGTCGGGCGAC 62.902 72.222 21.27 1.35 44.77 5.19
3821 4461 4.570663 CTGGATCGGACGTCGGGC 62.571 72.222 21.27 13.95 39.77 6.13
3822 4462 4.570663 GCTGGATCGGACGTCGGG 62.571 72.222 21.27 10.73 39.77 5.14
3823 4463 3.518998 AGCTGGATCGGACGTCGG 61.519 66.667 16.37 16.37 39.77 4.79
3824 4464 2.278206 CAGCTGGATCGGACGTCG 60.278 66.667 9.92 5.26 40.90 5.12
3825 4465 2.105128 CCAGCTGGATCGGACGTC 59.895 66.667 29.88 7.13 37.39 4.34
3826 4466 2.362503 TCCAGCTGGATCGGACGT 60.363 61.111 32.00 0.00 39.78 4.34
3846 4486 2.815211 TTGAGATGAGCGCCGCAC 60.815 61.111 13.36 5.47 0.00 5.34
3847 4487 2.815211 GTTGAGATGAGCGCCGCA 60.815 61.111 13.36 2.63 0.00 5.69
3848 4488 2.510238 AGTTGAGATGAGCGCCGC 60.510 61.111 2.29 0.00 0.00 6.53
3849 4489 2.169789 CCAGTTGAGATGAGCGCCG 61.170 63.158 2.29 0.00 0.00 6.46
3850 4490 1.078848 ACCAGTTGAGATGAGCGCC 60.079 57.895 2.29 0.00 0.00 6.53
3851 4491 1.416813 CGACCAGTTGAGATGAGCGC 61.417 60.000 0.00 0.00 0.00 5.92
3852 4492 0.109086 ACGACCAGTTGAGATGAGCG 60.109 55.000 0.00 0.00 0.00 5.03
3853 4493 2.941453 TACGACCAGTTGAGATGAGC 57.059 50.000 0.00 0.00 0.00 4.26
3854 4494 4.988540 TGTTTTACGACCAGTTGAGATGAG 59.011 41.667 0.00 0.00 0.00 2.90
3855 4495 4.748102 GTGTTTTACGACCAGTTGAGATGA 59.252 41.667 0.00 0.00 0.00 2.92
3856 4496 4.509970 TGTGTTTTACGACCAGTTGAGATG 59.490 41.667 0.00 0.00 0.00 2.90
3857 4497 4.510340 GTGTGTTTTACGACCAGTTGAGAT 59.490 41.667 0.00 0.00 0.00 2.75
3858 4498 3.866910 GTGTGTTTTACGACCAGTTGAGA 59.133 43.478 0.00 0.00 0.00 3.27
3859 4499 3.619483 TGTGTGTTTTACGACCAGTTGAG 59.381 43.478 0.00 0.00 0.00 3.02
3860 4500 3.597255 TGTGTGTTTTACGACCAGTTGA 58.403 40.909 0.00 0.00 0.00 3.18
3861 4501 4.092816 GTTGTGTGTTTTACGACCAGTTG 58.907 43.478 0.00 0.00 0.00 3.16
3862 4502 3.181518 CGTTGTGTGTTTTACGACCAGTT 60.182 43.478 0.00 0.00 36.16 3.16
3863 4503 2.349275 CGTTGTGTGTTTTACGACCAGT 59.651 45.455 0.00 0.00 36.16 4.00
3864 4504 2.848002 GCGTTGTGTGTTTTACGACCAG 60.848 50.000 0.00 0.00 36.16 4.00
3865 4505 1.062294 GCGTTGTGTGTTTTACGACCA 59.938 47.619 0.00 0.00 36.16 4.02
3866 4506 1.328374 AGCGTTGTGTGTTTTACGACC 59.672 47.619 0.00 0.00 36.16 4.79
3867 4507 2.724744 AGCGTTGTGTGTTTTACGAC 57.275 45.000 0.00 0.00 36.16 4.34
3868 4508 2.030701 GGAAGCGTTGTGTGTTTTACGA 59.969 45.455 0.00 0.00 36.16 3.43
3869 4509 2.368685 GGAAGCGTTGTGTGTTTTACG 58.631 47.619 0.00 0.00 37.09 3.18
3870 4510 2.356695 AGGGAAGCGTTGTGTGTTTTAC 59.643 45.455 0.00 0.00 0.00 2.01
3871 4511 2.356382 CAGGGAAGCGTTGTGTGTTTTA 59.644 45.455 0.00 0.00 0.00 1.52
3872 4512 1.134175 CAGGGAAGCGTTGTGTGTTTT 59.866 47.619 0.00 0.00 0.00 2.43
3873 4513 0.738389 CAGGGAAGCGTTGTGTGTTT 59.262 50.000 0.00 0.00 0.00 2.83
3874 4514 1.101049 CCAGGGAAGCGTTGTGTGTT 61.101 55.000 0.00 0.00 0.00 3.32
3875 4515 1.525995 CCAGGGAAGCGTTGTGTGT 60.526 57.895 0.00 0.00 0.00 3.72
3876 4516 2.908073 GCCAGGGAAGCGTTGTGTG 61.908 63.158 0.00 0.00 0.00 3.82
3877 4517 2.594592 GCCAGGGAAGCGTTGTGT 60.595 61.111 0.00 0.00 0.00 3.72
3878 4518 3.365265 GGCCAGGGAAGCGTTGTG 61.365 66.667 0.00 0.00 0.00 3.33
3879 4519 4.660938 GGGCCAGGGAAGCGTTGT 62.661 66.667 4.39 0.00 0.00 3.32
3894 4534 3.061848 GTTGGATGGTGCGTGGGG 61.062 66.667 0.00 0.00 0.00 4.96
3895 4535 3.061848 GGTTGGATGGTGCGTGGG 61.062 66.667 0.00 0.00 0.00 4.61
3896 4536 3.430862 CGGTTGGATGGTGCGTGG 61.431 66.667 0.00 0.00 0.00 4.94
3897 4537 4.101790 GCGGTTGGATGGTGCGTG 62.102 66.667 0.00 0.00 0.00 5.34
3902 4542 3.592856 TAACGCGCGGTTGGATGGT 62.593 57.895 35.22 6.31 39.75 3.55
3903 4543 2.808958 CTAACGCGCGGTTGGATGG 61.809 63.158 35.22 10.55 39.28 3.51
3904 4544 2.701006 CTAACGCGCGGTTGGATG 59.299 61.111 35.22 12.14 39.28 3.51
3905 4545 3.192922 GCTAACGCGCGGTTGGAT 61.193 61.111 35.22 8.98 39.28 3.41
3915 4555 1.516042 GAGATAAACGGTCGCTAACGC 59.484 52.381 0.00 0.00 39.84 4.84
3916 4556 2.114825 GGAGATAAACGGTCGCTAACG 58.885 52.381 0.00 0.00 42.01 3.18
3917 4557 2.100418 AGGGAGATAAACGGTCGCTAAC 59.900 50.000 0.00 0.00 32.16 2.34
3918 4558 2.381911 AGGGAGATAAACGGTCGCTAA 58.618 47.619 0.00 0.00 32.16 3.09
3919 4559 2.062971 AGGGAGATAAACGGTCGCTA 57.937 50.000 0.00 0.00 32.16 4.26
3920 4560 1.955080 CTAGGGAGATAAACGGTCGCT 59.045 52.381 0.00 0.00 37.30 4.93
3921 4561 1.952296 TCTAGGGAGATAAACGGTCGC 59.048 52.381 0.00 0.00 0.00 5.19
3922 4562 3.243334 GGTTCTAGGGAGATAAACGGTCG 60.243 52.174 0.00 0.00 0.00 4.79
3923 4563 3.703052 TGGTTCTAGGGAGATAAACGGTC 59.297 47.826 0.00 0.00 0.00 4.79
3924 4564 3.450096 GTGGTTCTAGGGAGATAAACGGT 59.550 47.826 0.00 0.00 0.00 4.83
3925 4565 3.449737 TGTGGTTCTAGGGAGATAAACGG 59.550 47.826 0.00 0.00 0.00 4.44
3926 4566 4.730949 TGTGGTTCTAGGGAGATAAACG 57.269 45.455 0.00 0.00 0.00 3.60
3927 4567 6.487299 AGATGTGGTTCTAGGGAGATAAAC 57.513 41.667 0.00 0.00 0.00 2.01
3928 4568 6.183360 CGAAGATGTGGTTCTAGGGAGATAAA 60.183 42.308 0.00 0.00 0.00 1.40
3929 4569 5.302059 CGAAGATGTGGTTCTAGGGAGATAA 59.698 44.000 0.00 0.00 0.00 1.75
3930 4570 4.827835 CGAAGATGTGGTTCTAGGGAGATA 59.172 45.833 0.00 0.00 0.00 1.98
3931 4571 3.639094 CGAAGATGTGGTTCTAGGGAGAT 59.361 47.826 0.00 0.00 0.00 2.75
3932 4572 3.024547 CGAAGATGTGGTTCTAGGGAGA 58.975 50.000 0.00 0.00 0.00 3.71
3933 4573 2.761208 ACGAAGATGTGGTTCTAGGGAG 59.239 50.000 0.00 0.00 0.00 4.30
3934 4574 2.758979 GACGAAGATGTGGTTCTAGGGA 59.241 50.000 0.00 0.00 0.00 4.20
3935 4575 2.761208 AGACGAAGATGTGGTTCTAGGG 59.239 50.000 0.00 0.00 0.00 3.53
3936 4576 3.697045 AGAGACGAAGATGTGGTTCTAGG 59.303 47.826 0.00 0.00 0.00 3.02
3937 4577 4.974368 AGAGACGAAGATGTGGTTCTAG 57.026 45.455 0.00 0.00 0.00 2.43


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

AutoCloner maintained by Alex Coulton.