Multiple sequence alignment - TraesCS2B01G154800

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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 TraesCS2B01G154800 chr2B 100.000 4221 0 0 1 4221 122757934 122753714 0.000000e+00 7795
1 TraesCS2B01G154800 chr2D 94.937 1896 59 14 1 1892 79069144 79067282 0.000000e+00 2935
2 TraesCS2B01G154800 chr2D 92.418 1253 48 16 2418 3642 79066760 79065527 0.000000e+00 1744
3 TraesCS2B01G154800 chr2D 88.403 526 17 10 1913 2417 79067293 79066791 1.010000e-165 593
4 TraesCS2B01G154800 chr2D 84.545 110 9 2 3821 3929 79065466 79065364 7.470000e-18 102
5 TraesCS2B01G154800 chr2A 95.238 1365 48 10 539 1892 79333907 79332549 0.000000e+00 2145
6 TraesCS2B01G154800 chr2A 91.661 1439 80 21 2418 3826 79332009 79330581 0.000000e+00 1956
7 TraesCS2B01G154800 chr2A 92.030 527 12 7 1914 2417 79332559 79332040 0.000000e+00 713
8 TraesCS2B01G154800 chr2A 94.940 415 6 6 13 424 79334525 79334123 1.660000e-178 636
9 TraesCS2B01G154800 chr2A 84.932 292 32 7 3930 4219 79330409 79330128 6.910000e-73 285
10 TraesCS2B01G154800 chr2A 95.139 144 5 2 409 550 79334088 79333945 4.250000e-55 226
11 TraesCS2B01G154800 chr7B 83.239 1062 126 26 654 1703 500233684 500234705 0.000000e+00 928
12 TraesCS2B01G154800 chr7A 84.960 758 96 15 956 1706 519674058 519673312 0.000000e+00 752
13 TraesCS2B01G154800 chr7A 77.072 881 135 33 2418 3262 519672501 519671652 2.990000e-121 446
14 TraesCS2B01G154800 chr7D 83.454 828 91 15 654 1460 476031374 476032176 0.000000e+00 728


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 TraesCS2B01G154800 chr2B 122753714 122757934 4220 True 7795.0 7795 100.000000 1 4221 1 chr2B.!!$R1 4220
1 TraesCS2B01G154800 chr2D 79065364 79069144 3780 True 1343.5 2935 90.075750 1 3929 4 chr2D.!!$R1 3928
2 TraesCS2B01G154800 chr2A 79330128 79334525 4397 True 993.5 2145 92.323333 13 4219 6 chr2A.!!$R1 4206
3 TraesCS2B01G154800 chr7B 500233684 500234705 1021 False 928.0 928 83.239000 654 1703 1 chr7B.!!$F1 1049
4 TraesCS2B01G154800 chr7A 519671652 519674058 2406 True 599.0 752 81.016000 956 3262 2 chr7A.!!$R1 2306
5 TraesCS2B01G154800 chr7D 476031374 476032176 802 False 728.0 728 83.454000 654 1460 1 chr7D.!!$F1 806

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
829 937 0.529555 GAGAGATGGCGCTGAGAACC 60.530 60.000 7.64 0.0 0.00 3.62 F
1468 1606 4.229096 GACCATGTGCTTGTGTAATTGTG 58.771 43.478 0.00 0.0 0.00 3.33 F
2983 3491 0.316522 ATCAGCCATGATCCTCGTCG 59.683 55.000 0.00 0.0 42.76 5.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2701 3208 1.471684 CCTGCCAGTTCATCAAAGAGC 59.528 52.381 0.00 0.0 0.00 4.09 R
3159 3687 0.870393 GTGTGATGCGGCTATCATGG 59.130 55.000 14.89 0.0 39.13 3.66 R
3829 4543 0.107643 TGAAGCACAACCATCGTCCA 59.892 50.000 0.00 0.0 0.00 4.02 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
185 188 1.001269 AGCTGCACATGCCACATCT 60.001 52.632 1.02 0.00 41.18 2.90
309 312 7.708051 TCACTCTTCATAGCTGTATGTTAGAC 58.292 38.462 0.00 0.00 37.81 2.59
428 483 8.054236 CACTACTACCGAAAGCAATATTAAACG 58.946 37.037 0.00 0.00 0.00 3.60
456 512 9.357652 GCATAGATAGAAGCAACAAATTGAAAA 57.642 29.630 0.00 0.00 38.15 2.29
497 554 6.530120 TGTTTTGTCCACTGTACATGTCTAT 58.470 36.000 0.00 0.00 0.00 1.98
592 699 3.472652 ACCAAACAGATCGTAACTTGCA 58.527 40.909 0.00 0.00 0.00 4.08
643 751 2.543687 TCGACACCGAGCTAGCAAGC 62.544 60.000 18.83 4.81 40.30 4.01
829 937 0.529555 GAGAGATGGCGCTGAGAACC 60.530 60.000 7.64 0.00 0.00 3.62
1121 1255 5.876357 TGTTCTAGACCCATTTGTTAGCTT 58.124 37.500 0.00 0.00 0.00 3.74
1468 1606 4.229096 GACCATGTGCTTGTGTAATTGTG 58.771 43.478 0.00 0.00 0.00 3.33
1586 1724 7.818446 TGTTTTGTCATATTTTACTGCATGCAT 59.182 29.630 22.97 13.83 0.00 3.96
1888 2111 9.998106 ACTTCATACCTTAATATGTGATACACC 57.002 33.333 0.00 0.00 34.65 4.16
1895 2118 8.989131 ACCTTAATATGTGATACACCTTACTGT 58.011 33.333 0.00 0.00 32.73 3.55
1896 2119 9.261180 CCTTAATATGTGATACACCTTACTGTG 57.739 37.037 0.00 0.00 42.05 3.66
2173 2409 7.904977 CACGGTTAGACATTTCACATCAATTAG 59.095 37.037 0.00 0.00 0.00 1.73
2174 2410 7.606456 ACGGTTAGACATTTCACATCAATTAGT 59.394 33.333 0.00 0.00 0.00 2.24
2442 2918 7.660208 AGTGATTACAAGTAACCAACTACCAAG 59.340 37.037 0.00 0.00 37.50 3.61
2471 2949 5.998363 CCATGTTAATTAGGGTAGGAAGAGC 59.002 44.000 0.00 0.00 0.00 4.09
2479 2957 4.936685 AGGGTAGGAAGAGCAAAATTCT 57.063 40.909 0.00 0.00 0.00 2.40
2577 3070 6.379703 TGTTATTTTCCACATATCCCACCTTG 59.620 38.462 0.00 0.00 0.00 3.61
2641 3138 6.093357 ACAAATGCAGTAAAAACCACAAAAGG 59.907 34.615 0.00 0.00 0.00 3.11
2701 3208 6.316390 ACGCTTAACTTATCTGAATTCCCTTG 59.684 38.462 2.27 0.00 0.00 3.61
2848 3355 0.601046 CACGCCAGAGCTTCAACTCA 60.601 55.000 0.00 0.00 39.26 3.41
2920 3427 3.872603 AACTGCCAGCGTCCCACA 61.873 61.111 0.00 0.00 0.00 4.17
2926 3433 4.320456 CAGCGTCCCACAGGCACT 62.320 66.667 0.00 0.00 38.45 4.40
2983 3491 0.316522 ATCAGCCATGATCCTCGTCG 59.683 55.000 0.00 0.00 42.76 5.12
2985 3493 2.663188 GCCATGATCCTCGTCGCC 60.663 66.667 0.00 0.00 0.00 5.54
3159 3687 3.483558 GCGTGCTTACTAATACGTACACC 59.516 47.826 0.00 0.00 38.67 4.16
3243 3774 6.950041 TGTACTTGTAGGCTCTTAAGTAAGGA 59.050 38.462 15.36 5.19 37.37 3.36
3391 3922 9.554395 TTTGTGAGTTAGATTAGAACAATCACA 57.446 29.630 0.00 0.00 38.85 3.58
3406 3937 1.890876 TCACAAGCGTAATGTTGGCT 58.109 45.000 0.00 0.00 39.01 4.75
3407 3938 1.804151 TCACAAGCGTAATGTTGGCTC 59.196 47.619 0.00 0.00 35.64 4.70
3558 4089 6.338937 ACGATCTACCAGTACATTTTTCCTC 58.661 40.000 0.00 0.00 0.00 3.71
3560 4091 6.816640 CGATCTACCAGTACATTTTTCCTCAA 59.183 38.462 0.00 0.00 0.00 3.02
3568 4099 7.384932 CCAGTACATTTTTCCTCAATTGTTTCC 59.615 37.037 5.13 0.00 0.00 3.13
3618 4155 4.380531 ACTCATGCAAACTTCTCGAAGAA 58.619 39.130 13.22 0.00 40.79 2.52
3642 4311 1.899814 TGCCTCGAGATGTAGTTTGGT 59.100 47.619 15.71 0.00 0.00 3.67
3643 4312 2.271800 GCCTCGAGATGTAGTTTGGTG 58.728 52.381 15.71 0.00 0.00 4.17
3644 4313 2.893637 CCTCGAGATGTAGTTTGGTGG 58.106 52.381 15.71 0.00 0.00 4.61
3645 4314 2.496070 CCTCGAGATGTAGTTTGGTGGA 59.504 50.000 15.71 0.00 0.00 4.02
3646 4315 3.133003 CCTCGAGATGTAGTTTGGTGGAT 59.867 47.826 15.71 0.00 0.00 3.41
3647 4316 4.115516 CTCGAGATGTAGTTTGGTGGATG 58.884 47.826 6.58 0.00 0.00 3.51
3648 4317 2.609459 CGAGATGTAGTTTGGTGGATGC 59.391 50.000 0.00 0.00 0.00 3.91
3649 4318 2.609459 GAGATGTAGTTTGGTGGATGCG 59.391 50.000 0.00 0.00 0.00 4.73
3650 4319 1.670811 GATGTAGTTTGGTGGATGCGG 59.329 52.381 0.00 0.00 0.00 5.69
3651 4320 0.958382 TGTAGTTTGGTGGATGCGGC 60.958 55.000 0.00 0.00 0.00 6.53
3652 4321 0.676782 GTAGTTTGGTGGATGCGGCT 60.677 55.000 0.00 0.00 0.00 5.52
3653 4322 0.676466 TAGTTTGGTGGATGCGGCTG 60.676 55.000 0.00 0.00 0.00 4.85
3654 4323 2.115052 TTTGGTGGATGCGGCTGT 59.885 55.556 0.00 0.00 0.00 4.40
3655 4324 0.958382 GTTTGGTGGATGCGGCTGTA 60.958 55.000 0.00 0.00 0.00 2.74
3656 4325 0.676466 TTTGGTGGATGCGGCTGTAG 60.676 55.000 0.00 0.00 0.00 2.74
3657 4326 1.549243 TTGGTGGATGCGGCTGTAGA 61.549 55.000 0.00 0.00 0.00 2.59
3658 4327 1.220749 GGTGGATGCGGCTGTAGAA 59.779 57.895 0.00 0.00 0.00 2.10
3659 4328 0.179045 GGTGGATGCGGCTGTAGAAT 60.179 55.000 0.00 0.00 0.00 2.40
3660 4329 1.070134 GGTGGATGCGGCTGTAGAATA 59.930 52.381 0.00 0.00 0.00 1.75
3661 4330 2.135933 GTGGATGCGGCTGTAGAATAC 58.864 52.381 0.00 0.00 43.42 1.89
3662 4331 1.070134 TGGATGCGGCTGTAGAATACC 59.930 52.381 0.00 0.00 42.12 2.73
3664 4333 0.033504 ATGCGGCTGTAGAATACCGG 59.966 55.000 0.00 0.00 45.72 5.28
3665 4334 1.324740 TGCGGCTGTAGAATACCGGT 61.325 55.000 13.98 13.98 45.72 5.28
3666 4335 0.874607 GCGGCTGTAGAATACCGGTG 60.875 60.000 19.93 0.00 45.72 4.94
3667 4336 0.249322 CGGCTGTAGAATACCGGTGG 60.249 60.000 19.93 0.00 42.12 4.61
3668 4337 0.106149 GGCTGTAGAATACCGGTGGG 59.894 60.000 19.93 0.00 42.12 4.61
3669 4338 0.532196 GCTGTAGAATACCGGTGGGC 60.532 60.000 19.93 5.77 42.12 5.36
3670 4339 1.120530 CTGTAGAATACCGGTGGGCT 58.879 55.000 19.93 13.50 42.12 5.19
3671 4340 0.828022 TGTAGAATACCGGTGGGCTG 59.172 55.000 19.93 0.00 42.12 4.85
3672 4341 0.532196 GTAGAATACCGGTGGGCTGC 60.532 60.000 19.93 10.86 34.89 5.25
3673 4342 0.978667 TAGAATACCGGTGGGCTGCA 60.979 55.000 19.93 0.00 36.48 4.41
3674 4343 1.152963 GAATACCGGTGGGCTGCAT 60.153 57.895 19.93 0.00 36.48 3.96
3675 4344 1.447317 GAATACCGGTGGGCTGCATG 61.447 60.000 19.93 0.00 36.48 4.06
3676 4345 2.210144 AATACCGGTGGGCTGCATGT 62.210 55.000 19.93 0.00 36.48 3.21
3677 4346 2.608970 ATACCGGTGGGCTGCATGTC 62.609 60.000 19.93 0.00 36.48 3.06
3679 4348 4.758251 CGGTGGGCTGCATGTCGA 62.758 66.667 0.50 0.00 0.00 4.20
3680 4349 3.127533 GGTGGGCTGCATGTCGAC 61.128 66.667 9.11 9.11 0.00 4.20
3681 4350 3.490759 GTGGGCTGCATGTCGACG 61.491 66.667 11.62 0.00 0.00 5.12
3682 4351 4.758251 TGGGCTGCATGTCGACGG 62.758 66.667 11.62 6.88 0.00 4.79
3684 4353 4.760047 GGCTGCATGTCGACGGGT 62.760 66.667 11.62 0.00 0.00 5.28
3685 4354 2.742372 GCTGCATGTCGACGGGTT 60.742 61.111 11.62 0.00 0.00 4.11
3686 4355 3.027170 GCTGCATGTCGACGGGTTG 62.027 63.158 11.62 7.12 0.00 3.77
3687 4356 2.358125 TGCATGTCGACGGGTTGG 60.358 61.111 11.62 0.00 0.00 3.77
3688 4357 3.124921 GCATGTCGACGGGTTGGG 61.125 66.667 11.62 0.00 0.00 4.12
3689 4358 2.435938 CATGTCGACGGGTTGGGG 60.436 66.667 11.62 0.00 0.00 4.96
3690 4359 2.605295 ATGTCGACGGGTTGGGGA 60.605 61.111 11.62 0.00 0.00 4.81
3691 4360 1.993391 ATGTCGACGGGTTGGGGAT 60.993 57.895 11.62 0.00 0.00 3.85
3692 4361 1.968050 ATGTCGACGGGTTGGGGATC 61.968 60.000 11.62 0.00 0.00 3.36
3693 4362 3.078836 TCGACGGGTTGGGGATCC 61.079 66.667 1.92 1.92 0.00 3.36
3694 4363 4.171103 CGACGGGTTGGGGATCCC 62.171 72.222 23.95 23.95 45.71 3.85
3706 4375 3.510531 GGGGATCCCAAGGTAGATTTC 57.489 52.381 32.07 6.31 44.65 2.17
3707 4376 2.783510 GGGGATCCCAAGGTAGATTTCA 59.216 50.000 32.07 0.00 44.65 2.69
3708 4377 3.181439 GGGGATCCCAAGGTAGATTTCAG 60.181 52.174 32.07 0.00 44.65 3.02
3709 4378 3.459969 GGGATCCCAAGGTAGATTTCAGT 59.540 47.826 26.95 0.00 35.81 3.41
3710 4379 4.658901 GGGATCCCAAGGTAGATTTCAGTA 59.341 45.833 26.95 0.00 35.81 2.74
3711 4380 5.132144 GGGATCCCAAGGTAGATTTCAGTAA 59.868 44.000 26.95 0.00 35.81 2.24
3712 4381 6.353602 GGGATCCCAAGGTAGATTTCAGTAAA 60.354 42.308 26.95 0.00 35.81 2.01
3713 4382 7.116736 GGATCCCAAGGTAGATTTCAGTAAAA 58.883 38.462 0.00 0.00 0.00 1.52
3714 4383 7.614192 GGATCCCAAGGTAGATTTCAGTAAAAA 59.386 37.037 0.00 0.00 0.00 1.94
3715 4384 7.754851 TCCCAAGGTAGATTTCAGTAAAAAC 57.245 36.000 0.00 0.00 0.00 2.43
3716 4385 7.291566 TCCCAAGGTAGATTTCAGTAAAAACA 58.708 34.615 0.00 0.00 0.00 2.83
3717 4386 7.780745 TCCCAAGGTAGATTTCAGTAAAAACAA 59.219 33.333 0.00 0.00 0.00 2.83
3718 4387 8.417884 CCCAAGGTAGATTTCAGTAAAAACAAA 58.582 33.333 0.00 0.00 0.00 2.83
3719 4388 9.244799 CCAAGGTAGATTTCAGTAAAAACAAAC 57.755 33.333 0.00 0.00 0.00 2.93
3720 4389 9.796120 CAAGGTAGATTTCAGTAAAAACAAACA 57.204 29.630 0.00 0.00 0.00 2.83
3738 4407 8.527567 AACAAACATTTTTATCGTGTTATGGG 57.472 30.769 0.00 0.00 35.19 4.00
3739 4408 7.887381 ACAAACATTTTTATCGTGTTATGGGA 58.113 30.769 0.00 0.00 35.19 4.37
3740 4409 7.810759 ACAAACATTTTTATCGTGTTATGGGAC 59.189 33.333 0.00 0.00 35.19 4.46
3741 4410 7.810282 CAAACATTTTTATCGTGTTATGGGACA 59.190 33.333 0.00 0.00 37.72 4.02
3742 4411 8.026607 AAACATTTTTATCGTGTTATGGGACAG 58.973 33.333 0.00 0.00 37.06 3.51
3757 4426 5.523438 TGGGACAGGTTGAAACATTTAAC 57.477 39.130 0.00 0.00 0.00 2.01
3758 4427 4.956700 TGGGACAGGTTGAAACATTTAACA 59.043 37.500 0.00 0.00 0.00 2.41
3759 4428 5.422331 TGGGACAGGTTGAAACATTTAACAA 59.578 36.000 0.00 0.00 0.00 2.83
3760 4429 5.751509 GGGACAGGTTGAAACATTTAACAAC 59.248 40.000 0.00 0.00 40.90 3.32
3761 4430 6.334202 GGACAGGTTGAAACATTTAACAACA 58.666 36.000 0.00 0.00 42.61 3.33
3762 4431 6.814146 GGACAGGTTGAAACATTTAACAACAA 59.186 34.615 0.00 0.00 42.61 2.83
3763 4432 7.010091 GGACAGGTTGAAACATTTAACAACAAG 59.990 37.037 0.00 0.00 42.61 3.16
3764 4433 7.607250 ACAGGTTGAAACATTTAACAACAAGA 58.393 30.769 0.00 0.00 42.61 3.02
3765 4434 8.257306 ACAGGTTGAAACATTTAACAACAAGAT 58.743 29.630 0.00 0.00 42.61 2.40
3766 4435 9.097257 CAGGTTGAAACATTTAACAACAAGATT 57.903 29.630 0.00 0.00 42.61 2.40
3767 4436 9.313118 AGGTTGAAACATTTAACAACAAGATTC 57.687 29.630 0.00 0.00 42.61 2.52
3768 4437 8.547894 GGTTGAAACATTTAACAACAAGATTCC 58.452 33.333 0.00 0.00 42.61 3.01
3769 4438 8.547894 GTTGAAACATTTAACAACAAGATTCCC 58.452 33.333 0.00 0.00 41.16 3.97
3770 4439 7.786030 TGAAACATTTAACAACAAGATTCCCA 58.214 30.769 0.00 0.00 0.00 4.37
3771 4440 8.428063 TGAAACATTTAACAACAAGATTCCCAT 58.572 29.630 0.00 0.00 0.00 4.00
3772 4441 8.606040 AAACATTTAACAACAAGATTCCCATG 57.394 30.769 0.00 0.00 0.00 3.66
3773 4442 6.700352 ACATTTAACAACAAGATTCCCATGG 58.300 36.000 4.14 4.14 0.00 3.66
3774 4443 5.736951 TTTAACAACAAGATTCCCATGGG 57.263 39.130 26.30 26.30 0.00 4.00
3775 4444 1.560505 ACAACAAGATTCCCATGGGC 58.439 50.000 27.41 12.59 34.68 5.36
3776 4445 0.457035 CAACAAGATTCCCATGGGCG 59.543 55.000 27.41 11.69 34.68 6.13
3796 4465 1.757118 GCCCTTAAATTCCTTGGGAGC 59.243 52.381 9.17 0.00 40.23 4.70
3798 4467 2.023984 CCCTTAAATTCCTTGGGAGCCT 60.024 50.000 0.00 0.00 40.23 4.58
3801 4470 4.570719 CCTTAAATTCCTTGGGAGCCTCTT 60.571 45.833 0.00 0.00 31.21 2.85
3819 4488 5.049828 CCTCTTTTGTGATGTTGTTTTCCC 58.950 41.667 0.00 0.00 0.00 3.97
3829 4543 6.986231 GTGATGTTGTTTTCCCTTCTTTGATT 59.014 34.615 0.00 0.00 0.00 2.57
3840 4554 3.758554 CCTTCTTTGATTGGACGATGGTT 59.241 43.478 0.00 0.00 0.00 3.67
3884 4599 0.698238 TGGGGACATTGTCTTGGAGG 59.302 55.000 16.02 0.00 33.40 4.30
3885 4600 0.698818 GGGGACATTGTCTTGGAGGT 59.301 55.000 16.02 0.00 32.47 3.85
3886 4601 1.075536 GGGGACATTGTCTTGGAGGTT 59.924 52.381 16.02 0.00 32.47 3.50
3887 4602 2.162681 GGGACATTGTCTTGGAGGTTG 58.837 52.381 16.02 0.00 32.47 3.77
3888 4603 2.162681 GGACATTGTCTTGGAGGTTGG 58.837 52.381 16.02 0.00 32.47 3.77
3889 4604 2.224769 GGACATTGTCTTGGAGGTTGGA 60.225 50.000 16.02 0.00 32.47 3.53
3890 4605 3.077359 GACATTGTCTTGGAGGTTGGAG 58.923 50.000 9.59 0.00 0.00 3.86
3891 4606 2.711009 ACATTGTCTTGGAGGTTGGAGA 59.289 45.455 0.00 0.00 0.00 3.71
3900 4615 2.100989 GGAGGTTGGAGACGATGTAGT 58.899 52.381 0.00 0.00 0.00 2.73
3902 4617 3.429135 GGAGGTTGGAGACGATGTAGTTC 60.429 52.174 0.00 0.00 0.00 3.01
3906 4621 4.167268 GTTGGAGACGATGTAGTTCTGAC 58.833 47.826 0.00 0.00 0.00 3.51
3953 4707 1.132643 CTCGGGTCGTAGAGAAACTGG 59.867 57.143 0.00 0.00 36.95 4.00
3961 4715 5.508657 GGTCGTAGAGAAACTGGTGTTAGTT 60.509 44.000 0.00 0.00 39.09 2.24
3971 4725 1.349688 TGGTGTTAGTTGGGCTAGGTG 59.650 52.381 0.00 0.00 0.00 4.00
3972 4726 1.450025 GTGTTAGTTGGGCTAGGTGC 58.550 55.000 0.00 0.00 41.94 5.01
3981 4735 2.417936 GCTAGGTGCCTAGGTCGC 59.582 66.667 22.52 9.28 44.48 5.19
3982 4736 2.423898 GCTAGGTGCCTAGGTCGCA 61.424 63.158 22.52 0.00 44.48 5.10
3983 4737 1.749334 GCTAGGTGCCTAGGTCGCAT 61.749 60.000 22.52 9.64 44.48 4.73
3984 4738 0.315568 CTAGGTGCCTAGGTCGCATC 59.684 60.000 15.67 2.38 41.58 3.91
3993 4747 2.167693 CCTAGGTCGCATCACAACCTTA 59.832 50.000 0.00 0.00 40.53 2.69
3997 4751 3.196901 AGGTCGCATCACAACCTTATACA 59.803 43.478 0.00 0.00 40.53 2.29
3998 4752 4.127171 GGTCGCATCACAACCTTATACAT 58.873 43.478 0.00 0.00 0.00 2.29
3999 4753 4.574828 GGTCGCATCACAACCTTATACATT 59.425 41.667 0.00 0.00 0.00 2.71
4066 4820 0.526954 GGCGAAACGAAGCTCCGATA 60.527 55.000 0.00 0.00 0.00 2.92
4072 4826 3.520290 AACGAAGCTCCGATATCACAA 57.480 42.857 0.00 0.00 0.00 3.33
4076 4830 2.783828 AGCTCCGATATCACAAGACG 57.216 50.000 3.12 0.00 0.00 4.18
4078 4833 2.033550 AGCTCCGATATCACAAGACGAC 59.966 50.000 3.12 0.00 0.00 4.34
4093 4848 2.046892 GACATGGCAGTGGCGACT 60.047 61.111 12.58 0.00 42.47 4.18
4096 4851 0.673644 ACATGGCAGTGGCGACTAAC 60.674 55.000 12.58 0.00 42.47 2.34
4099 4854 1.004918 GGCAGTGGCGACTAACTGT 60.005 57.895 10.19 0.00 44.59 3.55
4100 4855 1.291877 GGCAGTGGCGACTAACTGTG 61.292 60.000 10.19 0.00 44.59 3.66
4103 4858 2.688507 CAGTGGCGACTAACTGTGATT 58.311 47.619 0.00 0.00 39.17 2.57
4104 4859 2.413112 CAGTGGCGACTAACTGTGATTG 59.587 50.000 0.00 0.00 39.17 2.67
4126 4881 1.730451 GGTTTGGTGGGTGGTGTTCG 61.730 60.000 0.00 0.00 0.00 3.95
4166 4921 0.181114 TGTCAGTGGCAAGCTCTTGT 59.819 50.000 10.86 0.00 42.31 3.16
4167 4922 0.871057 GTCAGTGGCAAGCTCTTGTC 59.129 55.000 7.24 7.24 44.84 3.18
4179 4934 5.426504 CAAGCTCTTGTCAATGTCTCCTAT 58.573 41.667 1.61 0.00 35.92 2.57
4185 4940 3.378512 TGTCAATGTCTCCTATGAGGCT 58.621 45.455 1.23 0.00 43.86 4.58
4189 4944 3.510531 ATGTCTCCTATGAGGCTCGTA 57.489 47.619 15.36 15.36 43.86 3.43
4190 4945 3.292492 TGTCTCCTATGAGGCTCGTAA 57.708 47.619 16.75 3.24 43.86 3.18
4214 4969 6.506500 CTGAAAATCAGTATTCTGCCTTGT 57.493 37.500 0.00 0.00 39.58 3.16
4216 4971 5.415701 TGAAAATCAGTATTCTGCCTTGTCC 59.584 40.000 0.00 0.00 41.10 4.02
4217 4972 4.851639 AATCAGTATTCTGCCTTGTCCT 57.148 40.909 0.00 0.00 41.10 3.85
4218 4973 3.895232 TCAGTATTCTGCCTTGTCCTC 57.105 47.619 0.00 0.00 41.10 3.71
4219 4974 2.166459 TCAGTATTCTGCCTTGTCCTCG 59.834 50.000 0.00 0.00 41.10 4.63
4220 4975 1.134670 AGTATTCTGCCTTGTCCTCGC 60.135 52.381 0.00 0.00 0.00 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
282 285 9.574516 TCTAACATACAGCTATGAAGAGTGATA 57.425 33.333 3.45 0.00 34.77 2.15
283 286 8.356657 GTCTAACATACAGCTATGAAGAGTGAT 58.643 37.037 3.45 0.00 34.77 3.06
284 287 7.201830 GGTCTAACATACAGCTATGAAGAGTGA 60.202 40.741 3.45 0.00 34.77 3.41
346 350 3.439825 ACTCACGCATGCACAATAAATCA 59.560 39.130 19.57 0.00 0.00 2.57
354 358 2.094234 ACTGTATACTCACGCATGCACA 60.094 45.455 19.57 10.59 0.00 4.57
428 483 7.475015 TCAATTTGTTGCTTCTATCTATGCAC 58.525 34.615 0.00 0.00 35.01 4.57
439 494 6.843069 TTAGGCTTTTCAATTTGTTGCTTC 57.157 33.333 0.00 0.00 0.00 3.86
456 512 7.068226 GGACAAAACATATGTGGTATTTAGGCT 59.932 37.037 9.63 0.00 0.00 4.58
497 554 9.231297 CTCATTAAATTTAACTCTGACAGGGAA 57.769 33.333 9.98 0.00 0.00 3.97
592 699 6.267928 CCCAGTGCTTGGTATAGTACTTCTAT 59.732 42.308 0.00 0.00 46.25 1.98
643 751 5.712004 TCATTGGCAATTGGCGATATATTG 58.288 37.500 28.83 19.92 46.16 1.90
829 937 5.360591 ACATTATTCCTTCGTCTTGCTAGG 58.639 41.667 0.00 0.00 0.00 3.02
1121 1255 1.977854 ACATCACAGTTAGAGGCACCA 59.022 47.619 0.00 0.00 0.00 4.17
1468 1606 7.175641 CAGGATCCACCATAACCTATTTGATTC 59.824 40.741 15.82 0.00 42.04 2.52
1578 1716 2.219458 CCCAACAAAAACATGCATGCA 58.781 42.857 26.53 25.04 0.00 3.96
1870 2093 9.261180 CACAGTAAGGTGTATCACATATTAAGG 57.739 37.037 2.41 0.00 35.86 2.69
1899 2122 3.013921 GGTGTATCATCCCTCGCAAAAA 58.986 45.455 0.00 0.00 0.00 1.94
1900 2123 2.238646 AGGTGTATCATCCCTCGCAAAA 59.761 45.455 0.00 0.00 0.00 2.44
1901 2124 1.837439 AGGTGTATCATCCCTCGCAAA 59.163 47.619 0.00 0.00 0.00 3.68
1902 2125 1.496060 AGGTGTATCATCCCTCGCAA 58.504 50.000 0.00 0.00 0.00 4.85
1903 2126 1.496060 AAGGTGTATCATCCCTCGCA 58.504 50.000 0.00 0.00 0.00 5.10
1904 2127 2.628657 ACTAAGGTGTATCATCCCTCGC 59.371 50.000 0.00 0.00 0.00 5.03
1905 2128 4.939052 AACTAAGGTGTATCATCCCTCG 57.061 45.455 0.00 0.00 0.00 4.63
1906 2129 7.120923 TGTTAACTAAGGTGTATCATCCCTC 57.879 40.000 7.22 0.00 0.00 4.30
1907 2130 7.504926 TTGTTAACTAAGGTGTATCATCCCT 57.495 36.000 7.22 0.00 0.00 4.20
1908 2131 7.201705 GCTTTGTTAACTAAGGTGTATCATCCC 60.202 40.741 24.66 6.09 31.06 3.85
1909 2132 7.335924 TGCTTTGTTAACTAAGGTGTATCATCC 59.664 37.037 24.66 9.61 31.06 3.51
1910 2133 8.263940 TGCTTTGTTAACTAAGGTGTATCATC 57.736 34.615 24.66 10.16 31.06 2.92
1911 2134 7.883311 ACTGCTTTGTTAACTAAGGTGTATCAT 59.117 33.333 24.66 6.82 31.06 2.45
1912 2135 7.221450 ACTGCTTTGTTAACTAAGGTGTATCA 58.779 34.615 24.66 14.79 31.06 2.15
1981 2204 9.959721 ATCACTTTTAGTTAATCCACATACTGT 57.040 29.630 0.00 0.00 0.00 3.55
2442 2918 2.927028 ACCCTAATTAACATGGGCGAC 58.073 47.619 7.31 0.00 43.25 5.19
2479 2957 7.962441 TGAAGCTACTATTGAAGTATATGCCA 58.038 34.615 0.00 0.00 39.96 4.92
2509 2987 6.910433 GGGCGTACATGTATTATTTTGTTCAG 59.090 38.462 9.18 0.00 0.00 3.02
2641 3138 6.863126 CCGGAAAATGGAATAAATAGCATGTC 59.137 38.462 0.00 0.00 0.00 3.06
2701 3208 1.471684 CCTGCCAGTTCATCAAAGAGC 59.528 52.381 0.00 0.00 0.00 4.09
2920 3427 2.608988 CTCCTCCCACCAGTGCCT 60.609 66.667 0.00 0.00 0.00 4.75
2926 3433 1.846124 GGTGAACCTCCTCCCACCA 60.846 63.158 0.00 0.00 46.13 4.17
2985 3493 3.449227 TACCGGTGAGCTCAGGCG 61.449 66.667 18.89 9.47 44.37 5.52
3119 3647 1.571919 GCAGACATAAGTACCGGCAG 58.428 55.000 0.00 0.00 0.00 4.85
3159 3687 0.870393 GTGTGATGCGGCTATCATGG 59.130 55.000 14.89 0.00 39.13 3.66
3387 3918 1.804151 GAGCCAACATTACGCTTGTGA 59.196 47.619 0.00 0.00 31.61 3.58
3390 3921 4.818534 ATATGAGCCAACATTACGCTTG 57.181 40.909 0.00 0.00 31.61 4.01
3391 3922 5.853936 TCTATATGAGCCAACATTACGCTT 58.146 37.500 0.00 0.00 31.61 4.68
3406 3937 7.157347 GTGCCATCACTTTGATCTCTATATGA 58.843 38.462 0.00 0.00 40.03 2.15
3407 3938 6.932960 TGTGCCATCACTTTGATCTCTATATG 59.067 38.462 0.00 0.00 43.49 1.78
3428 3959 5.974158 CGATAGAGGTATATAGTGCATGTGC 59.026 44.000 0.00 0.00 39.46 4.57
3438 3969 6.904463 TTTGTGGCACGATAGAGGTATATA 57.096 37.500 13.77 0.00 41.38 0.86
3558 4089 2.224233 TGCACACCATGGGAAACAATTG 60.224 45.455 18.09 3.24 0.00 2.32
3560 4091 1.714541 TGCACACCATGGGAAACAAT 58.285 45.000 18.09 0.00 0.00 2.71
3568 4099 6.819649 AGAAATAAATTCAATGCACACCATGG 59.180 34.615 11.19 11.19 40.72 3.66
3624 4161 2.496070 TCCACCAAACTACATCTCGAGG 59.504 50.000 13.56 0.00 0.00 4.63
3642 4311 1.070134 GGTATTCTACAGCCGCATCCA 59.930 52.381 0.00 0.00 0.00 3.41
3643 4312 1.797025 GGTATTCTACAGCCGCATCC 58.203 55.000 0.00 0.00 0.00 3.51
3644 4313 1.419374 CGGTATTCTACAGCCGCATC 58.581 55.000 0.00 0.00 37.69 3.91
3645 4314 0.033504 CCGGTATTCTACAGCCGCAT 59.966 55.000 0.00 0.00 42.54 4.73
3646 4315 1.324740 ACCGGTATTCTACAGCCGCA 61.325 55.000 4.49 0.00 42.54 5.69
3647 4316 0.874607 CACCGGTATTCTACAGCCGC 60.875 60.000 6.87 0.00 42.54 6.53
3648 4317 0.249322 CCACCGGTATTCTACAGCCG 60.249 60.000 6.87 0.00 43.40 5.52
3649 4318 0.106149 CCCACCGGTATTCTACAGCC 59.894 60.000 6.87 0.00 0.00 4.85
3650 4319 0.532196 GCCCACCGGTATTCTACAGC 60.532 60.000 6.87 0.00 0.00 4.40
3651 4320 1.120530 AGCCCACCGGTATTCTACAG 58.879 55.000 6.87 0.00 0.00 2.74
3652 4321 0.828022 CAGCCCACCGGTATTCTACA 59.172 55.000 6.87 0.00 0.00 2.74
3653 4322 0.532196 GCAGCCCACCGGTATTCTAC 60.532 60.000 6.87 0.00 0.00 2.59
3654 4323 0.978667 TGCAGCCCACCGGTATTCTA 60.979 55.000 6.87 0.00 0.00 2.10
3655 4324 1.635817 ATGCAGCCCACCGGTATTCT 61.636 55.000 6.87 0.51 0.00 2.40
3656 4325 1.152963 ATGCAGCCCACCGGTATTC 60.153 57.895 6.87 0.00 0.00 1.75
3657 4326 1.453745 CATGCAGCCCACCGGTATT 60.454 57.895 6.87 0.00 0.00 1.89
3658 4327 2.192979 CATGCAGCCCACCGGTAT 59.807 61.111 6.87 0.00 0.00 2.73
3659 4328 3.323758 GACATGCAGCCCACCGGTA 62.324 63.158 6.87 0.00 0.00 4.02
3660 4329 4.722700 GACATGCAGCCCACCGGT 62.723 66.667 0.00 0.00 0.00 5.28
3662 4331 4.758251 TCGACATGCAGCCCACCG 62.758 66.667 0.00 0.00 0.00 4.94
3663 4332 3.127533 GTCGACATGCAGCCCACC 61.128 66.667 11.55 0.00 0.00 4.61
3664 4333 3.490759 CGTCGACATGCAGCCCAC 61.491 66.667 17.16 0.00 0.00 4.61
3665 4334 4.758251 CCGTCGACATGCAGCCCA 62.758 66.667 17.16 0.00 0.00 5.36
3667 4336 4.760047 ACCCGTCGACATGCAGCC 62.760 66.667 17.16 0.00 0.00 4.85
3668 4337 2.742372 AACCCGTCGACATGCAGC 60.742 61.111 17.16 0.00 0.00 5.25
3669 4338 2.390599 CCAACCCGTCGACATGCAG 61.391 63.158 17.16 1.84 0.00 4.41
3670 4339 2.358125 CCAACCCGTCGACATGCA 60.358 61.111 17.16 0.00 0.00 3.96
3671 4340 3.124921 CCCAACCCGTCGACATGC 61.125 66.667 17.16 0.00 0.00 4.06
3672 4341 2.252072 ATCCCCAACCCGTCGACATG 62.252 60.000 17.16 8.09 0.00 3.21
3673 4342 1.968050 GATCCCCAACCCGTCGACAT 61.968 60.000 17.16 0.00 0.00 3.06
3674 4343 2.605295 ATCCCCAACCCGTCGACA 60.605 61.111 17.16 0.00 0.00 4.35
3675 4344 2.186125 GATCCCCAACCCGTCGAC 59.814 66.667 5.18 5.18 0.00 4.20
3676 4345 3.078836 GGATCCCCAACCCGTCGA 61.079 66.667 0.00 0.00 0.00 4.20
3677 4346 4.171103 GGGATCCCCAACCCGTCG 62.171 72.222 21.42 0.00 44.65 5.12
3686 4355 2.783510 TGAAATCTACCTTGGGATCCCC 59.216 50.000 28.58 10.76 45.71 4.81
3687 4356 3.459969 ACTGAAATCTACCTTGGGATCCC 59.540 47.826 25.22 25.22 0.00 3.85
3688 4357 4.779993 ACTGAAATCTACCTTGGGATCC 57.220 45.455 1.92 1.92 0.00 3.36
3689 4358 8.459635 GTTTTTACTGAAATCTACCTTGGGATC 58.540 37.037 0.00 0.00 0.00 3.36
3690 4359 7.947890 TGTTTTTACTGAAATCTACCTTGGGAT 59.052 33.333 0.00 0.00 0.00 3.85
3691 4360 7.291566 TGTTTTTACTGAAATCTACCTTGGGA 58.708 34.615 0.00 0.00 0.00 4.37
3692 4361 7.519032 TGTTTTTACTGAAATCTACCTTGGG 57.481 36.000 0.00 0.00 0.00 4.12
3693 4362 9.244799 GTTTGTTTTTACTGAAATCTACCTTGG 57.755 33.333 0.00 0.00 0.00 3.61
3694 4363 9.796120 TGTTTGTTTTTACTGAAATCTACCTTG 57.204 29.630 0.00 0.00 0.00 3.61
3712 4381 8.983724 CCCATAACACGATAAAAATGTTTGTTT 58.016 29.630 0.00 0.00 37.68 2.83
3713 4382 8.361139 TCCCATAACACGATAAAAATGTTTGTT 58.639 29.630 0.00 0.00 37.68 2.83
3714 4383 7.810759 GTCCCATAACACGATAAAAATGTTTGT 59.189 33.333 0.00 0.00 37.68 2.83
3715 4384 7.810282 TGTCCCATAACACGATAAAAATGTTTG 59.190 33.333 0.00 0.00 37.68 2.93
3716 4385 7.887381 TGTCCCATAACACGATAAAAATGTTT 58.113 30.769 0.00 0.00 37.68 2.83
3717 4386 7.362574 CCTGTCCCATAACACGATAAAAATGTT 60.363 37.037 0.00 0.00 39.75 2.71
3718 4387 6.094881 CCTGTCCCATAACACGATAAAAATGT 59.905 38.462 0.00 0.00 0.00 2.71
3719 4388 6.094881 ACCTGTCCCATAACACGATAAAAATG 59.905 38.462 0.00 0.00 0.00 2.32
3720 4389 6.184789 ACCTGTCCCATAACACGATAAAAAT 58.815 36.000 0.00 0.00 0.00 1.82
3721 4390 5.562635 ACCTGTCCCATAACACGATAAAAA 58.437 37.500 0.00 0.00 0.00 1.94
3722 4391 5.168647 ACCTGTCCCATAACACGATAAAA 57.831 39.130 0.00 0.00 0.00 1.52
3723 4392 4.829872 ACCTGTCCCATAACACGATAAA 57.170 40.909 0.00 0.00 0.00 1.40
3724 4393 4.223255 TCAACCTGTCCCATAACACGATAA 59.777 41.667 0.00 0.00 0.00 1.75
3725 4394 3.770388 TCAACCTGTCCCATAACACGATA 59.230 43.478 0.00 0.00 0.00 2.92
3726 4395 2.569853 TCAACCTGTCCCATAACACGAT 59.430 45.455 0.00 0.00 0.00 3.73
3727 4396 1.972075 TCAACCTGTCCCATAACACGA 59.028 47.619 0.00 0.00 0.00 4.35
3728 4397 2.465860 TCAACCTGTCCCATAACACG 57.534 50.000 0.00 0.00 0.00 4.49
3729 4398 3.886505 TGTTTCAACCTGTCCCATAACAC 59.113 43.478 0.00 0.00 0.00 3.32
3730 4399 4.171878 TGTTTCAACCTGTCCCATAACA 57.828 40.909 0.00 0.00 0.00 2.41
3731 4400 5.722021 AATGTTTCAACCTGTCCCATAAC 57.278 39.130 0.00 0.00 0.00 1.89
3732 4401 7.287927 TGTTAAATGTTTCAACCTGTCCCATAA 59.712 33.333 0.00 0.00 0.00 1.90
3733 4402 6.778069 TGTTAAATGTTTCAACCTGTCCCATA 59.222 34.615 0.00 0.00 0.00 2.74
3734 4403 5.600484 TGTTAAATGTTTCAACCTGTCCCAT 59.400 36.000 0.00 0.00 0.00 4.00
3735 4404 4.956700 TGTTAAATGTTTCAACCTGTCCCA 59.043 37.500 0.00 0.00 0.00 4.37
3736 4405 5.523438 TGTTAAATGTTTCAACCTGTCCC 57.477 39.130 0.00 0.00 0.00 4.46
3737 4406 6.334202 TGTTGTTAAATGTTTCAACCTGTCC 58.666 36.000 0.00 0.00 39.22 4.02
3738 4407 7.757624 TCTTGTTGTTAAATGTTTCAACCTGTC 59.242 33.333 0.00 0.00 39.22 3.51
3739 4408 7.607250 TCTTGTTGTTAAATGTTTCAACCTGT 58.393 30.769 0.00 0.00 39.22 4.00
3740 4409 8.647143 ATCTTGTTGTTAAATGTTTCAACCTG 57.353 30.769 0.00 0.00 39.22 4.00
3741 4410 9.313118 GAATCTTGTTGTTAAATGTTTCAACCT 57.687 29.630 0.00 0.00 39.22 3.50
3742 4411 8.547894 GGAATCTTGTTGTTAAATGTTTCAACC 58.452 33.333 0.00 0.00 39.22 3.77
3743 4412 8.547894 GGGAATCTTGTTGTTAAATGTTTCAAC 58.452 33.333 0.00 0.00 40.03 3.18
3744 4413 8.260818 TGGGAATCTTGTTGTTAAATGTTTCAA 58.739 29.630 0.00 0.00 0.00 2.69
3745 4414 7.786030 TGGGAATCTTGTTGTTAAATGTTTCA 58.214 30.769 0.00 0.00 0.00 2.69
3746 4415 8.711457 CATGGGAATCTTGTTGTTAAATGTTTC 58.289 33.333 0.00 0.00 0.00 2.78
3747 4416 7.661027 CCATGGGAATCTTGTTGTTAAATGTTT 59.339 33.333 2.85 0.00 0.00 2.83
3748 4417 7.160726 CCATGGGAATCTTGTTGTTAAATGTT 58.839 34.615 2.85 0.00 0.00 2.71
3749 4418 6.295802 CCCATGGGAATCTTGTTGTTAAATGT 60.296 38.462 28.27 0.00 37.50 2.71
3750 4419 6.108015 CCCATGGGAATCTTGTTGTTAAATG 58.892 40.000 28.27 0.00 37.50 2.32
3751 4420 5.338300 GCCCATGGGAATCTTGTTGTTAAAT 60.338 40.000 36.00 0.00 37.50 1.40
3752 4421 4.020662 GCCCATGGGAATCTTGTTGTTAAA 60.021 41.667 36.00 0.00 37.50 1.52
3753 4422 3.513515 GCCCATGGGAATCTTGTTGTTAA 59.486 43.478 36.00 0.00 37.50 2.01
3754 4423 3.096092 GCCCATGGGAATCTTGTTGTTA 58.904 45.455 36.00 0.00 37.50 2.41
3755 4424 1.901833 GCCCATGGGAATCTTGTTGTT 59.098 47.619 36.00 0.00 37.50 2.83
3756 4425 1.560505 GCCCATGGGAATCTTGTTGT 58.439 50.000 36.00 0.00 37.50 3.32
3757 4426 0.457035 CGCCCATGGGAATCTTGTTG 59.543 55.000 36.00 3.73 37.50 3.33
3758 4427 1.322538 GCGCCCATGGGAATCTTGTT 61.323 55.000 36.00 0.00 37.50 2.83
3759 4428 1.754234 GCGCCCATGGGAATCTTGT 60.754 57.895 36.00 0.00 37.50 3.16
3760 4429 2.492773 GGCGCCCATGGGAATCTTG 61.493 63.158 36.00 15.97 37.50 3.02
3761 4430 2.123726 GGCGCCCATGGGAATCTT 60.124 61.111 36.00 0.00 37.50 2.40
3762 4431 4.209866 GGGCGCCCATGGGAATCT 62.210 66.667 40.73 0.00 37.50 2.40
3763 4432 2.351924 TAAGGGCGCCCATGGGAATC 62.352 60.000 45.13 20.49 38.92 2.52
3764 4433 1.943730 TTAAGGGCGCCCATGGGAAT 61.944 55.000 45.13 22.35 38.92 3.01
3765 4434 2.156496 TTTAAGGGCGCCCATGGGAA 62.156 55.000 45.13 27.74 38.92 3.97
3766 4435 1.943730 ATTTAAGGGCGCCCATGGGA 61.944 55.000 45.13 26.95 38.92 4.37
3767 4436 1.048160 AATTTAAGGGCGCCCATGGG 61.048 55.000 45.13 27.87 38.92 4.00
3768 4437 0.389025 GAATTTAAGGGCGCCCATGG 59.611 55.000 45.13 4.14 38.92 3.66
3769 4438 0.389025 GGAATTTAAGGGCGCCCATG 59.611 55.000 45.13 0.00 38.92 3.66
3770 4439 0.261696 AGGAATTTAAGGGCGCCCAT 59.738 50.000 45.13 37.20 38.92 4.00
3771 4440 0.040499 AAGGAATTTAAGGGCGCCCA 59.960 50.000 45.13 27.20 38.92 5.36
3772 4441 0.459899 CAAGGAATTTAAGGGCGCCC 59.540 55.000 39.29 39.29 0.00 6.13
3773 4442 0.459899 CCAAGGAATTTAAGGGCGCC 59.540 55.000 21.18 21.18 0.00 6.53
3774 4443 0.459899 CCCAAGGAATTTAAGGGCGC 59.540 55.000 0.00 0.00 31.81 6.53
3775 4444 2.024414 CTCCCAAGGAATTTAAGGGCG 58.976 52.381 0.00 0.00 39.42 6.13
3776 4445 1.757118 GCTCCCAAGGAATTTAAGGGC 59.243 52.381 0.00 0.00 39.42 5.19
3796 4465 5.049828 GGGAAAACAACATCACAAAAGAGG 58.950 41.667 0.00 0.00 0.00 3.69
3798 4467 5.930837 AGGGAAAACAACATCACAAAAGA 57.069 34.783 0.00 0.00 0.00 2.52
3801 4470 5.930837 AGAAGGGAAAACAACATCACAAA 57.069 34.783 0.00 0.00 0.00 2.83
3819 4488 4.216257 ACAACCATCGTCCAATCAAAGAAG 59.784 41.667 0.00 0.00 0.00 2.85
3829 4543 0.107643 TGAAGCACAACCATCGTCCA 59.892 50.000 0.00 0.00 0.00 4.02
3884 4599 4.167268 GTCAGAACTACATCGTCTCCAAC 58.833 47.826 0.00 0.00 0.00 3.77
3885 4600 3.824443 TGTCAGAACTACATCGTCTCCAA 59.176 43.478 0.00 0.00 0.00 3.53
3886 4601 3.190744 GTGTCAGAACTACATCGTCTCCA 59.809 47.826 0.00 0.00 0.00 3.86
3887 4602 3.427773 GGTGTCAGAACTACATCGTCTCC 60.428 52.174 0.00 0.00 0.00 3.71
3888 4603 3.728268 CGGTGTCAGAACTACATCGTCTC 60.728 52.174 0.92 0.00 44.42 3.36
3889 4604 2.161808 CGGTGTCAGAACTACATCGTCT 59.838 50.000 0.92 0.00 44.42 4.18
3890 4605 2.516923 CGGTGTCAGAACTACATCGTC 58.483 52.381 0.92 0.00 44.42 4.20
3891 4606 2.631418 CGGTGTCAGAACTACATCGT 57.369 50.000 0.92 0.00 44.42 3.73
3900 4615 2.425592 CAGCCACCGGTGTCAGAA 59.574 61.111 31.80 0.00 32.64 3.02
3940 4694 4.684703 CCAACTAACACCAGTTTCTCTACG 59.315 45.833 0.00 0.00 36.61 3.51
3942 4696 4.504340 GCCCAACTAACACCAGTTTCTCTA 60.504 45.833 0.00 0.00 36.61 2.43
3953 4707 1.450025 GCACCTAGCCCAACTAACAC 58.550 55.000 0.00 0.00 37.23 3.32
3971 4725 1.090052 GGTTGTGATGCGACCTAGGC 61.090 60.000 9.30 0.36 46.15 3.93
3972 4726 3.065575 GGTTGTGATGCGACCTAGG 57.934 57.895 7.41 7.41 46.15 3.02
3977 4731 5.293324 TCAATGTATAAGGTTGTGATGCGAC 59.707 40.000 0.00 0.00 0.00 5.19
3978 4732 5.423886 TCAATGTATAAGGTTGTGATGCGA 58.576 37.500 0.00 0.00 0.00 5.10
3979 4733 5.733226 TCAATGTATAAGGTTGTGATGCG 57.267 39.130 0.00 0.00 0.00 4.73
3998 4752 9.912634 GAGAACCAAATGAAGTTGAATAATCAA 57.087 29.630 0.00 0.00 43.18 2.57
3999 4753 9.300681 AGAGAACCAAATGAAGTTGAATAATCA 57.699 29.630 0.00 0.00 0.00 2.57
4008 4762 4.767409 GCCCTAAGAGAACCAAATGAAGTT 59.233 41.667 0.00 0.00 0.00 2.66
4026 4780 1.570857 CCAATGAGTGGGGTGCCCTA 61.571 60.000 7.26 0.00 45.70 3.53
4027 4781 2.765969 CAATGAGTGGGGTGCCCT 59.234 61.111 7.26 0.00 45.70 5.19
4066 4820 1.002430 ACTGCCATGTCGTCTTGTGAT 59.998 47.619 0.00 0.00 0.00 3.06
4072 4826 2.046892 GCCACTGCCATGTCGTCT 60.047 61.111 0.00 0.00 0.00 4.18
4076 4830 0.391130 TTAGTCGCCACTGCCATGTC 60.391 55.000 0.00 0.00 33.62 3.06
4078 4833 0.391661 AGTTAGTCGCCACTGCCATG 60.392 55.000 0.00 0.00 33.62 3.66
4090 4845 4.023193 CCAAACCACCAATCACAGTTAGTC 60.023 45.833 0.00 0.00 0.00 2.59
4092 4847 3.888930 ACCAAACCACCAATCACAGTTAG 59.111 43.478 0.00 0.00 0.00 2.34
4093 4848 3.634448 CACCAAACCACCAATCACAGTTA 59.366 43.478 0.00 0.00 0.00 2.24
4096 4851 1.340889 CCACCAAACCACCAATCACAG 59.659 52.381 0.00 0.00 0.00 3.66
4099 4854 0.263172 ACCCACCAAACCACCAATCA 59.737 50.000 0.00 0.00 0.00 2.57
4100 4855 0.678950 CACCCACCAAACCACCAATC 59.321 55.000 0.00 0.00 0.00 2.67
4103 4858 2.280416 CCACCCACCAAACCACCA 59.720 61.111 0.00 0.00 0.00 4.17
4104 4859 2.131067 CACCACCCACCAAACCACC 61.131 63.158 0.00 0.00 0.00 4.61
4126 4881 1.103398 AGCCCATCGCAATAGTTGGC 61.103 55.000 0.00 0.00 41.38 4.52
4131 4886 2.016318 TGACAAAGCCCATCGCAATAG 58.984 47.619 0.00 0.00 41.38 1.73
4138 4893 0.895100 TGCCACTGACAAAGCCCATC 60.895 55.000 0.00 0.00 0.00 3.51
4166 4921 2.625314 CGAGCCTCATAGGAGACATTGA 59.375 50.000 5.84 0.00 44.26 2.57
4167 4922 2.363680 ACGAGCCTCATAGGAGACATTG 59.636 50.000 5.84 0.00 44.26 2.82
4171 4926 3.003897 CAGTTACGAGCCTCATAGGAGAC 59.996 52.174 5.84 0.00 44.26 3.36
4179 4934 4.245660 CTGATTTTCAGTTACGAGCCTCA 58.754 43.478 0.00 0.00 39.58 3.86


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

AutoCloner maintained by Alex Coulton.