Multiple sequence alignment - TraesCS3A01G452600

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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 TraesCS3A01G452600 chr3A 100.000 4027 0 0 1 4027 690895333 690899359 0.000000e+00 7437.0
1 TraesCS3A01G452600 chr3A 91.193 2112 127 31 1168 3238 690784842 690786935 0.000000e+00 2815.0
2 TraesCS3A01G452600 chr3A 91.007 1957 131 21 1298 3250 690857614 690859529 0.000000e+00 2597.0
3 TraesCS3A01G452600 chr3A 80.240 835 86 38 328 1116 690856790 690857591 4.550000e-154 555.0
4 TraesCS3A01G452600 chr3A 86.508 378 36 6 766 1133 690784362 690784734 6.270000e-108 401.0
5 TraesCS3A01G452600 chr3A 87.013 231 28 2 288 517 690795401 690795630 3.990000e-65 259.0
6 TraesCS3A01G452600 chr3A 76.344 465 64 25 248 703 690783901 690784328 1.470000e-49 207.0
7 TraesCS3A01G452600 chr3A 87.912 91 5 3 622 712 690752391 690752475 7.120000e-18 102.0
8 TraesCS3A01G452600 chr3A 83.178 107 14 4 9 111 690751559 690751665 1.190000e-15 95.3
9 TraesCS3A01G452600 chr3A 88.312 77 9 0 3825 3901 690860355 690860431 4.290000e-15 93.5
10 TraesCS3A01G452600 chr3D 94.045 2351 132 4 1302 3644 554328786 554331136 0.000000e+00 3559.0
11 TraesCS3A01G452600 chr3D 90.991 2098 147 22 1168 3238 554216745 554218827 0.000000e+00 2789.0
12 TraesCS3A01G452600 chr3D 85.714 406 41 7 793 1184 554216330 554216732 2.900000e-111 412.0
13 TraesCS3A01G452600 chr3D 94.660 206 11 0 3822 4027 554331122 554331327 1.810000e-83 320.0
14 TraesCS3A01G452600 chr3D 80.494 405 45 18 328 703 554317203 554317602 3.060000e-71 279.0
15 TraesCS3A01G452600 chr3D 85.714 231 32 1 288 517 554177318 554177548 4.020000e-60 243.0
16 TraesCS3A01G452600 chr3D 85.714 231 32 1 288 517 554223524 554223754 4.020000e-60 243.0
17 TraesCS3A01G452600 chr3D 79.793 193 28 8 2 184 554169249 554169440 3.270000e-26 130.0
18 TraesCS3A01G452600 chr3D 87.000 100 12 1 3929 4027 158362194 158362095 1.180000e-20 111.0
19 TraesCS3A01G452600 chr3D 88.636 88 10 0 3822 3909 554219377 554219464 1.530000e-19 108.0
20 TraesCS3A01G452600 chr3B 92.437 2023 130 15 1299 3307 736325006 736327019 0.000000e+00 2867.0
21 TraesCS3A01G452600 chr3B 91.378 2111 127 30 1168 3238 736310840 736312935 0.000000e+00 2839.0
22 TraesCS3A01G452600 chr3B 88.291 1153 75 25 156 1280 736323822 736324942 0.000000e+00 1327.0
23 TraesCS3A01G452600 chr3B 83.871 434 43 13 766 1177 736310392 736310820 4.880000e-104 388.0
24 TraesCS3A01G452600 chr3B 77.801 473 72 19 248 705 736309905 736310359 1.110000e-65 261.0
25 TraesCS3A01G452600 chr3B 89.349 169 11 3 1 162 736323358 736323526 5.280000e-49 206.0
26 TraesCS3A01G452600 chr3B 81.356 118 14 6 1 111 736314636 736314752 5.540000e-14 89.8
27 TraesCS3A01G452600 chr3B 84.337 83 9 4 19 97 736252847 736252929 1.200000e-10 78.7
28 TraesCS3A01G452600 chr1D 90.867 1730 154 2 1321 3050 78066974 78065249 0.000000e+00 2316.0
29 TraesCS3A01G452600 chr1B 88.548 1921 182 20 1321 3221 121715450 121713548 0.000000e+00 2294.0
30 TraesCS3A01G452600 chr1B 87.500 96 11 1 3933 4027 426473473 426473378 4.260000e-20 110.0
31 TraesCS3A01G452600 chr1A 89.088 1732 180 7 1321 3050 105302947 105304671 0.000000e+00 2143.0
32 TraesCS3A01G452600 chr1A 88.061 1449 171 2 1602 3050 109416571 109415125 0.000000e+00 1716.0
33 TraesCS3A01G452600 chr5D 91.089 101 8 1 3928 4027 78407848 78407748 7.020000e-28 135.0
34 TraesCS3A01G452600 chr5D 92.105 38 3 0 183 220 449506466 449506503 2.000000e-03 54.7
35 TraesCS3A01G452600 chr5D 92.105 38 3 0 183 220 449506525 449506562 2.000000e-03 54.7
36 TraesCS3A01G452600 chr7B 88.119 101 7 5 3930 4027 190099607 190099705 9.150000e-22 115.0
37 TraesCS3A01G452600 chr7B 88.172 93 10 1 3921 4012 717535191 717535283 4.260000e-20 110.0
38 TraesCS3A01G452600 chr7B 97.059 34 0 1 183 215 641326234 641326201 5.620000e-04 56.5
39 TraesCS3A01G452600 chr4B 89.247 93 9 1 3932 4023 396716027 396716119 9.150000e-22 115.0
40 TraesCS3A01G452600 chr2A 85.586 111 15 1 3822 3932 102345606 102345497 9.150000e-22 115.0
41 TraesCS3A01G452600 chr2D 87.129 101 11 2 3923 4022 426427011 426427110 3.290000e-21 113.0
42 TraesCS3A01G452600 chr4D 88.172 93 10 1 3932 4023 319269608 319269700 4.260000e-20 110.0


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 TraesCS3A01G452600 chr3A 690895333 690899359 4026 False 7437.000000 7437 100.000000 1 4027 1 chr3A.!!$F2 4026
1 TraesCS3A01G452600 chr3A 690783901 690786935 3034 False 1141.000000 2815 84.681667 248 3238 3 chr3A.!!$F4 2990
2 TraesCS3A01G452600 chr3A 690856790 690860431 3641 False 1081.833333 2597 86.519667 328 3901 3 chr3A.!!$F5 3573
3 TraesCS3A01G452600 chr3D 554328786 554331327 2541 False 1939.500000 3559 94.352500 1302 4027 2 chr3D.!!$F6 2725
4 TraesCS3A01G452600 chr3D 554216330 554219464 3134 False 1103.000000 2789 88.447000 793 3909 3 chr3D.!!$F5 3116
5 TraesCS3A01G452600 chr3B 736323358 736327019 3661 False 1466.666667 2867 90.025667 1 3307 3 chr3B.!!$F3 3306
6 TraesCS3A01G452600 chr3B 736309905 736314752 4847 False 894.450000 2839 83.601500 1 3238 4 chr3B.!!$F2 3237
7 TraesCS3A01G452600 chr1D 78065249 78066974 1725 True 2316.000000 2316 90.867000 1321 3050 1 chr1D.!!$R1 1729
8 TraesCS3A01G452600 chr1B 121713548 121715450 1902 True 2294.000000 2294 88.548000 1321 3221 1 chr1B.!!$R1 1900
9 TraesCS3A01G452600 chr1A 105302947 105304671 1724 False 2143.000000 2143 89.088000 1321 3050 1 chr1A.!!$F1 1729
10 TraesCS3A01G452600 chr1A 109415125 109416571 1446 True 1716.000000 1716 88.061000 1602 3050 1 chr1A.!!$R1 1448

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
454 777 0.381801 GATCCCGCGTTAACTCGGTA 59.618 55.000 29.44 18.85 42.23 4.02 F
786 1135 0.665068 TACTGTGCTTGCGTACGTGG 60.665 55.000 17.90 8.37 0.00 4.94 F
2474 3000 1.005512 CCACCCGACGAACACATCA 60.006 57.895 0.00 0.00 0.00 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2375 2901 0.249699 ATGTCTTGTTGGTGTCGCGA 60.250 50.0 3.71 3.71 0.00 5.87 R
2496 3022 0.179078 TACACGCCACTTGTCCGTTT 60.179 50.0 0.00 0.00 32.18 3.60 R
3718 4765 0.031010 GGGCCTCCTCCCTCTTCTTA 60.031 60.0 0.84 0.00 43.13 2.10 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
55 56 1.000145 GTCTTGCGGCTAACAGCTAC 59.000 55.000 0.00 0.00 41.99 3.58
57 58 0.736325 CTTGCGGCTAACAGCTACGT 60.736 55.000 0.00 0.00 41.99 3.57
62 63 0.458669 GGCTAACAGCTACGTGCCTA 59.541 55.000 0.00 0.00 41.99 3.93
69 77 2.202703 CTACGTGCCTACCGTGCC 60.203 66.667 0.00 0.00 39.22 5.01
120 128 7.194761 AGGTTACCTACAAATAGTACTCCCTT 58.805 38.462 0.15 0.00 28.47 3.95
162 170 7.343357 TCCTATAAATTTGTCCCGAGTCAAAT 58.657 34.615 0.00 0.00 41.52 2.32
163 171 7.282224 TCCTATAAATTTGTCCCGAGTCAAATG 59.718 37.037 3.21 0.00 39.71 2.32
326 636 7.823745 ATTTGGTATTGTAGCTATTGGAAGG 57.176 36.000 0.00 0.00 0.00 3.46
370 685 5.695851 ACTTTGCACTATTTGACTTGAGG 57.304 39.130 0.00 0.00 0.00 3.86
421 744 3.240861 GCGAGAGTACGTGATTTGATGTC 59.759 47.826 0.00 0.00 35.59 3.06
422 745 4.412207 CGAGAGTACGTGATTTGATGTCA 58.588 43.478 0.00 0.00 0.00 3.58
454 777 0.381801 GATCCCGCGTTAACTCGGTA 59.618 55.000 29.44 18.85 42.23 4.02
456 779 1.517039 CCCGCGTTAACTCGGTACC 60.517 63.158 29.44 0.16 42.23 3.34
537 868 2.053627 GCCGCTTTTGACTTGTCATTG 58.946 47.619 4.18 0.19 0.00 2.82
540 871 3.003689 CCGCTTTTGACTTGTCATTGTCT 59.996 43.478 4.18 0.00 34.57 3.41
541 872 3.970610 CGCTTTTGACTTGTCATTGTCTG 59.029 43.478 4.18 0.00 34.57 3.51
542 873 4.260743 CGCTTTTGACTTGTCATTGTCTGA 60.261 41.667 4.18 0.00 34.57 3.27
543 874 5.581605 GCTTTTGACTTGTCATTGTCTGAA 58.418 37.500 4.18 0.00 35.07 3.02
544 875 6.211515 GCTTTTGACTTGTCATTGTCTGAAT 58.788 36.000 4.18 0.00 35.07 2.57
589 934 3.323775 TCAAGGAGAAAGGTTAGGTGGT 58.676 45.455 0.00 0.00 0.00 4.16
591 936 2.986050 AGGAGAAAGGTTAGGTGGTCA 58.014 47.619 0.00 0.00 0.00 4.02
609 955 2.031157 GTCATTTACCAGCGCAACAACT 60.031 45.455 11.47 0.00 0.00 3.16
651 997 6.373774 CCAATGATGCTAATCTGTAATCTCCC 59.626 42.308 0.00 0.00 33.61 4.30
786 1135 0.665068 TACTGTGCTTGCGTACGTGG 60.665 55.000 17.90 8.37 0.00 4.94
787 1136 3.295228 CTGTGCTTGCGTACGTGGC 62.295 63.158 17.90 17.62 0.00 5.01
835 1188 1.468054 CGCTTGGTTTGATTAGCCTGC 60.468 52.381 0.00 0.00 0.00 4.85
919 1272 1.686325 CCACGGTACAGGCCTAGCAT 61.686 60.000 3.98 0.00 0.00 3.79
990 1364 7.148507 GCATATATAGCACTTAGTTTGCAGAGG 60.149 40.741 0.00 0.00 42.83 3.69
993 1367 3.142174 AGCACTTAGTTTGCAGAGGAAC 58.858 45.455 0.00 0.00 42.83 3.62
1039 1413 2.434884 CGACCATGTTCTGCGCCT 60.435 61.111 4.18 0.00 0.00 5.52
1119 1493 5.004440 CACCTTTGTCGTGAGTACAATATCG 59.996 44.000 0.00 0.00 36.75 2.92
1126 1500 7.519002 TGTCGTGAGTACAATATCGATCTATG 58.481 38.462 0.00 2.11 0.00 2.23
1169 1587 4.399618 TCTTCTTGATCACTTCTCGGTAGG 59.600 45.833 0.00 0.00 0.00 3.18
1177 1624 5.382618 TCACTTCTCGGTAGGTTTACTTC 57.617 43.478 0.00 0.00 0.00 3.01
1311 1822 6.681729 ACTGTCACCATCTTTAACCTCTTA 57.318 37.500 0.00 0.00 0.00 2.10
1347 1861 5.539582 TGACCAATCAGTTACGTATTTGC 57.460 39.130 0.00 0.00 0.00 3.68
1427 1944 2.693762 CGTGGTGAATGGGCAGCTG 61.694 63.158 10.11 10.11 37.20 4.24
1469 1986 2.963320 GACGGCGACACGGTTGTT 60.963 61.111 16.62 0.00 35.47 2.83
1475 1992 1.503818 GCGACACGGTTGTTGTCCAT 61.504 55.000 0.00 0.00 39.16 3.41
1538 2055 1.305297 TGTCCGGCAGATGAGGAGT 60.305 57.895 0.00 0.00 34.29 3.85
1550 2067 1.079750 GAGGAGTTGCTGGTCCGAC 60.080 63.158 0.00 0.00 37.97 4.79
1606 2123 2.263227 CGGCGACCATGTGTACCA 59.737 61.111 0.00 0.00 0.00 3.25
1619 2136 2.166870 TGTGTACCACTTCAACGTCACT 59.833 45.455 0.00 0.00 35.11 3.41
1958 2476 2.048127 AACACGGCGCTCTTCTCC 60.048 61.111 6.90 0.00 0.00 3.71
1994 2512 3.660111 GCTGGGCACACGTTCACC 61.660 66.667 0.00 0.00 0.00 4.02
2221 2747 2.049185 ACAACAACAACGGGCTGCA 61.049 52.632 0.50 0.00 0.00 4.41
2375 2901 3.474570 GGCCTCGGCTCCATCTGT 61.475 66.667 8.00 0.00 41.60 3.41
2405 2931 3.121030 AAGACATGCCAGCGTCGC 61.121 61.111 9.80 9.80 37.23 5.19
2471 2997 4.953868 CGCCACCCGACGAACACA 62.954 66.667 0.00 0.00 40.02 3.72
2474 3000 1.005512 CCACCCGACGAACACATCA 60.006 57.895 0.00 0.00 0.00 3.07
2480 3006 1.336887 CCGACGAACACATCACTCCTT 60.337 52.381 0.00 0.00 0.00 3.36
2496 3022 3.607741 CTCCTTGAGAGGTACTACGACA 58.392 50.000 0.00 0.00 41.55 4.35
2497 3023 4.008330 CTCCTTGAGAGGTACTACGACAA 58.992 47.826 0.00 0.00 41.55 3.18
2498 3024 4.401022 TCCTTGAGAGGTACTACGACAAA 58.599 43.478 0.00 0.00 41.55 2.83
2511 3037 1.278637 GACAAACGGACAAGTGGCG 59.721 57.895 0.00 0.00 0.00 5.69
2717 3243 1.978617 CAACCCCATGCACCTCCAC 60.979 63.158 0.00 0.00 0.00 4.02
2783 3309 0.109723 CCAAGACGGACCCCAAGAAA 59.890 55.000 0.00 0.00 36.56 2.52
2918 3444 2.577563 TGAGTTCCACATCATCATGGGT 59.422 45.455 0.00 0.00 36.56 4.51
3058 3591 1.614903 CTGGGTAAGGACGTGTGTGTA 59.385 52.381 0.00 0.00 0.00 2.90
3075 3608 1.073284 TGTAGAAGTTGGGCCCTGAAC 59.927 52.381 25.70 20.05 0.00 3.18
3153 3693 4.038282 TGCATGGATCCTTCATTGTATTGC 59.962 41.667 14.23 3.77 0.00 3.56
3360 3957 3.502211 GGAAACCACATCAGTGTTGGTAG 59.498 47.826 12.33 1.51 44.39 3.18
3635 4682 6.672266 CATGGTCATGTATAGAGGGTACTT 57.328 41.667 2.97 0.00 34.23 2.24
3636 4683 7.067496 CATGGTCATGTATAGAGGGTACTTT 57.933 40.000 2.97 0.00 34.23 2.66
3637 4684 6.726490 TGGTCATGTATAGAGGGTACTTTC 57.274 41.667 0.00 0.00 0.00 2.62
3638 4685 6.199376 TGGTCATGTATAGAGGGTACTTTCA 58.801 40.000 0.00 0.00 0.00 2.69
3639 4686 6.844388 TGGTCATGTATAGAGGGTACTTTCAT 59.156 38.462 0.00 0.00 0.00 2.57
3640 4687 7.015292 TGGTCATGTATAGAGGGTACTTTCATC 59.985 40.741 0.00 0.00 0.00 2.92
3641 4688 7.085116 GTCATGTATAGAGGGTACTTTCATCG 58.915 42.308 0.00 0.00 0.00 3.84
3642 4689 5.449107 TGTATAGAGGGTACTTTCATCGC 57.551 43.478 0.00 0.00 0.00 4.58
3643 4690 4.891168 TGTATAGAGGGTACTTTCATCGCA 59.109 41.667 0.00 0.00 0.00 5.10
3644 4691 5.361571 TGTATAGAGGGTACTTTCATCGCAA 59.638 40.000 0.00 0.00 0.00 4.85
3645 4692 2.973945 AGAGGGTACTTTCATCGCAAC 58.026 47.619 0.00 0.00 0.00 4.17
3646 4693 1.659098 GAGGGTACTTTCATCGCAACG 59.341 52.381 0.00 0.00 0.00 4.10
3647 4694 1.274167 AGGGTACTTTCATCGCAACGA 59.726 47.619 0.00 0.00 41.13 3.85
3662 4709 3.416119 CAACGATGCTAGACTTACGGA 57.584 47.619 0.00 0.00 0.00 4.69
3663 4710 3.106672 CAACGATGCTAGACTTACGGAC 58.893 50.000 0.00 0.00 0.00 4.79
3664 4711 2.362736 ACGATGCTAGACTTACGGACA 58.637 47.619 0.00 0.00 0.00 4.02
3665 4712 2.751259 ACGATGCTAGACTTACGGACAA 59.249 45.455 0.00 0.00 0.00 3.18
3666 4713 3.106672 CGATGCTAGACTTACGGACAAC 58.893 50.000 0.00 0.00 0.00 3.32
3667 4714 3.181499 CGATGCTAGACTTACGGACAACT 60.181 47.826 0.00 0.00 0.00 3.16
3668 4715 4.674623 CGATGCTAGACTTACGGACAACTT 60.675 45.833 0.00 0.00 0.00 2.66
3669 4716 4.595762 TGCTAGACTTACGGACAACTTT 57.404 40.909 0.00 0.00 0.00 2.66
3670 4717 4.553323 TGCTAGACTTACGGACAACTTTC 58.447 43.478 0.00 0.00 0.00 2.62
3671 4718 4.280174 TGCTAGACTTACGGACAACTTTCT 59.720 41.667 0.00 0.00 0.00 2.52
3672 4719 5.474532 TGCTAGACTTACGGACAACTTTCTA 59.525 40.000 0.00 0.00 0.00 2.10
3673 4720 5.799435 GCTAGACTTACGGACAACTTTCTAC 59.201 44.000 0.00 0.00 0.00 2.59
3674 4721 4.791974 AGACTTACGGACAACTTTCTACG 58.208 43.478 0.00 0.00 0.00 3.51
3675 4722 4.516698 AGACTTACGGACAACTTTCTACGA 59.483 41.667 0.00 0.00 0.00 3.43
3676 4723 5.009010 AGACTTACGGACAACTTTCTACGAA 59.991 40.000 0.00 0.00 0.00 3.85
3677 4724 5.591099 ACTTACGGACAACTTTCTACGAAA 58.409 37.500 0.00 0.00 0.00 3.46
3678 4725 6.218746 ACTTACGGACAACTTTCTACGAAAT 58.781 36.000 0.00 0.00 0.00 2.17
3679 4726 6.703165 ACTTACGGACAACTTTCTACGAAATT 59.297 34.615 0.00 0.00 0.00 1.82
3680 4727 5.338614 ACGGACAACTTTCTACGAAATTG 57.661 39.130 0.00 0.00 0.00 2.32
3681 4728 5.051816 ACGGACAACTTTCTACGAAATTGA 58.948 37.500 13.33 0.00 0.00 2.57
3682 4729 5.524646 ACGGACAACTTTCTACGAAATTGAA 59.475 36.000 13.33 0.00 0.00 2.69
3683 4730 6.071463 CGGACAACTTTCTACGAAATTGAAG 58.929 40.000 13.33 0.00 0.00 3.02
3684 4731 5.851703 GGACAACTTTCTACGAAATTGAAGC 59.148 40.000 13.33 0.00 0.00 3.86
3685 4732 6.293462 GGACAACTTTCTACGAAATTGAAGCT 60.293 38.462 13.33 0.00 0.00 3.74
3686 4733 7.095355 GGACAACTTTCTACGAAATTGAAGCTA 60.095 37.037 13.33 0.00 0.00 3.32
3687 4734 7.573627 ACAACTTTCTACGAAATTGAAGCTAC 58.426 34.615 13.33 0.00 0.00 3.58
3688 4735 7.225931 ACAACTTTCTACGAAATTGAAGCTACA 59.774 33.333 13.33 0.00 0.00 2.74
3689 4736 7.352719 ACTTTCTACGAAATTGAAGCTACAG 57.647 36.000 0.00 0.00 0.00 2.74
3690 4737 7.152645 ACTTTCTACGAAATTGAAGCTACAGA 58.847 34.615 0.00 0.00 0.00 3.41
3691 4738 6.946229 TTCTACGAAATTGAAGCTACAGAC 57.054 37.500 0.00 0.00 0.00 3.51
3692 4739 5.408356 TCTACGAAATTGAAGCTACAGACC 58.592 41.667 0.00 0.00 0.00 3.85
3693 4740 2.993899 ACGAAATTGAAGCTACAGACCG 59.006 45.455 0.00 0.00 0.00 4.79
3694 4741 3.250744 CGAAATTGAAGCTACAGACCGA 58.749 45.455 0.00 0.00 0.00 4.69
3695 4742 3.865745 CGAAATTGAAGCTACAGACCGAT 59.134 43.478 0.00 0.00 0.00 4.18
3696 4743 4.259970 CGAAATTGAAGCTACAGACCGATG 60.260 45.833 0.00 0.00 0.00 3.84
3697 4744 2.672961 TTGAAGCTACAGACCGATGG 57.327 50.000 0.00 0.00 0.00 3.51
3698 4745 0.824109 TGAAGCTACAGACCGATGGG 59.176 55.000 0.00 0.00 40.11 4.00
3699 4746 0.105039 GAAGCTACAGACCGATGGGG 59.895 60.000 0.00 0.00 43.62 4.96
3700 4747 1.972660 AAGCTACAGACCGATGGGGC 61.973 60.000 0.00 0.00 44.27 5.80
3706 4753 2.440065 GACCGATGGGGCAATGCA 60.440 61.111 7.79 0.00 42.95 3.96
3707 4754 1.829533 GACCGATGGGGCAATGCAT 60.830 57.895 7.79 0.00 42.95 3.96
3708 4755 2.079020 GACCGATGGGGCAATGCATG 62.079 60.000 7.79 0.00 42.95 4.06
3709 4756 1.829096 CCGATGGGGCAATGCATGA 60.829 57.895 7.79 0.00 0.00 3.07
3710 4757 1.183030 CCGATGGGGCAATGCATGAT 61.183 55.000 7.79 0.00 0.00 2.45
3711 4758 0.677288 CGATGGGGCAATGCATGATT 59.323 50.000 7.79 0.00 0.00 2.57
3712 4759 1.604438 CGATGGGGCAATGCATGATTG 60.604 52.381 7.79 5.25 43.97 2.67
3713 4760 0.762418 ATGGGGCAATGCATGATTGG 59.238 50.000 7.79 0.00 41.74 3.16
3714 4761 0.325390 TGGGGCAATGCATGATTGGA 60.325 50.000 7.79 0.00 41.74 3.53
3715 4762 0.831966 GGGGCAATGCATGATTGGAA 59.168 50.000 7.79 0.00 41.74 3.53
3716 4763 1.209990 GGGGCAATGCATGATTGGAAA 59.790 47.619 7.79 0.00 41.74 3.13
3717 4764 2.158726 GGGGCAATGCATGATTGGAAAT 60.159 45.455 7.79 0.00 41.74 2.17
3718 4765 3.547746 GGGCAATGCATGATTGGAAATT 58.452 40.909 7.79 0.00 41.74 1.82
3719 4766 4.444591 GGGGCAATGCATGATTGGAAATTA 60.445 41.667 7.79 0.00 41.74 1.40
3720 4767 5.124645 GGGCAATGCATGATTGGAAATTAA 58.875 37.500 7.79 0.00 41.74 1.40
3721 4768 5.237779 GGGCAATGCATGATTGGAAATTAAG 59.762 40.000 7.79 0.00 41.74 1.85
3722 4769 6.050432 GGCAATGCATGATTGGAAATTAAGA 58.950 36.000 7.79 0.00 41.74 2.10
3723 4770 6.539464 GGCAATGCATGATTGGAAATTAAGAA 59.461 34.615 7.79 0.00 41.74 2.52
3724 4771 7.254658 GGCAATGCATGATTGGAAATTAAGAAG 60.255 37.037 7.79 0.00 41.74 2.85
3725 4772 7.493320 GCAATGCATGATTGGAAATTAAGAAGA 59.507 33.333 0.00 0.00 41.74 2.87
3726 4773 9.031360 CAATGCATGATTGGAAATTAAGAAGAG 57.969 33.333 0.00 0.00 38.27 2.85
3727 4774 7.104043 TGCATGATTGGAAATTAAGAAGAGG 57.896 36.000 0.00 0.00 0.00 3.69
3728 4775 6.097270 TGCATGATTGGAAATTAAGAAGAGGG 59.903 38.462 0.00 0.00 0.00 4.30
3729 4776 6.322201 GCATGATTGGAAATTAAGAAGAGGGA 59.678 38.462 0.00 0.00 0.00 4.20
3730 4777 7.469732 GCATGATTGGAAATTAAGAAGAGGGAG 60.470 40.741 0.00 0.00 0.00 4.30
3731 4778 6.426587 TGATTGGAAATTAAGAAGAGGGAGG 58.573 40.000 0.00 0.00 0.00 4.30
3732 4779 6.217487 TGATTGGAAATTAAGAAGAGGGAGGA 59.783 38.462 0.00 0.00 0.00 3.71
3733 4780 5.700402 TGGAAATTAAGAAGAGGGAGGAG 57.300 43.478 0.00 0.00 0.00 3.69
3734 4781 4.475016 TGGAAATTAAGAAGAGGGAGGAGG 59.525 45.833 0.00 0.00 0.00 4.30
3735 4782 4.456535 GAAATTAAGAAGAGGGAGGAGGC 58.543 47.826 0.00 0.00 0.00 4.70
3736 4783 1.880941 TTAAGAAGAGGGAGGAGGCC 58.119 55.000 0.00 0.00 0.00 5.19
3744 4791 3.495729 GGAGGAGGCCCAAGTGAA 58.504 61.111 0.00 0.00 33.88 3.18
3745 4792 1.767692 GGAGGAGGCCCAAGTGAAA 59.232 57.895 0.00 0.00 33.88 2.69
3746 4793 0.112412 GGAGGAGGCCCAAGTGAAAA 59.888 55.000 0.00 0.00 33.88 2.29
3747 4794 1.272704 GGAGGAGGCCCAAGTGAAAAT 60.273 52.381 0.00 0.00 33.88 1.82
3748 4795 2.529632 GAGGAGGCCCAAGTGAAAATT 58.470 47.619 0.00 0.00 33.88 1.82
3749 4796 3.563479 GGAGGAGGCCCAAGTGAAAATTA 60.563 47.826 0.00 0.00 33.88 1.40
3750 4797 3.696548 GAGGAGGCCCAAGTGAAAATTAG 59.303 47.826 0.00 0.00 33.88 1.73
3751 4798 2.760650 GGAGGCCCAAGTGAAAATTAGG 59.239 50.000 0.00 0.00 0.00 2.69
3752 4799 2.760650 GAGGCCCAAGTGAAAATTAGGG 59.239 50.000 0.00 0.00 36.02 3.53
3753 4800 1.831106 GGCCCAAGTGAAAATTAGGGG 59.169 52.381 0.00 0.00 34.36 4.79
3754 4801 1.831106 GCCCAAGTGAAAATTAGGGGG 59.169 52.381 0.00 0.00 34.36 5.40
3768 4815 4.785575 GGGGGAGGAAATTGGTGG 57.214 61.111 0.00 0.00 0.00 4.61
3769 4816 2.092585 GGGGGAGGAAATTGGTGGA 58.907 57.895 0.00 0.00 0.00 4.02
3770 4817 0.033109 GGGGGAGGAAATTGGTGGAG 60.033 60.000 0.00 0.00 0.00 3.86
3771 4818 0.999712 GGGGAGGAAATTGGTGGAGA 59.000 55.000 0.00 0.00 0.00 3.71
3772 4819 1.570979 GGGGAGGAAATTGGTGGAGAT 59.429 52.381 0.00 0.00 0.00 2.75
3773 4820 2.659428 GGGAGGAAATTGGTGGAGATG 58.341 52.381 0.00 0.00 0.00 2.90
3774 4821 2.659428 GGAGGAAATTGGTGGAGATGG 58.341 52.381 0.00 0.00 0.00 3.51
3775 4822 2.242196 GGAGGAAATTGGTGGAGATGGA 59.758 50.000 0.00 0.00 0.00 3.41
3776 4823 3.549794 GAGGAAATTGGTGGAGATGGAG 58.450 50.000 0.00 0.00 0.00 3.86
3777 4824 2.922283 AGGAAATTGGTGGAGATGGAGT 59.078 45.455 0.00 0.00 0.00 3.85
3778 4825 3.054065 AGGAAATTGGTGGAGATGGAGTC 60.054 47.826 0.00 0.00 0.00 3.36
3779 4826 3.282885 GAAATTGGTGGAGATGGAGTCC 58.717 50.000 0.73 0.73 34.31 3.85
3780 4827 0.833287 ATTGGTGGAGATGGAGTCCG 59.167 55.000 4.30 0.00 36.82 4.79
3781 4828 0.544357 TTGGTGGAGATGGAGTCCGT 60.544 55.000 2.64 2.64 36.82 4.69
3782 4829 0.333652 TGGTGGAGATGGAGTCCGTA 59.666 55.000 3.13 0.00 36.82 4.02
3783 4830 1.033574 GGTGGAGATGGAGTCCGTAG 58.966 60.000 3.13 0.00 36.82 3.51
3799 4846 3.515330 CGTAGGGTGTTTCCGTAGATT 57.485 47.619 0.00 0.00 37.26 2.40
3800 4847 3.184541 CGTAGGGTGTTTCCGTAGATTG 58.815 50.000 0.00 0.00 37.26 2.67
3801 4848 3.367703 CGTAGGGTGTTTCCGTAGATTGT 60.368 47.826 0.00 0.00 37.26 2.71
3802 4849 3.782656 AGGGTGTTTCCGTAGATTGTT 57.217 42.857 0.00 0.00 37.00 2.83
3803 4850 4.094830 AGGGTGTTTCCGTAGATTGTTT 57.905 40.909 0.00 0.00 37.00 2.83
3804 4851 4.466827 AGGGTGTTTCCGTAGATTGTTTT 58.533 39.130 0.00 0.00 37.00 2.43
3805 4852 4.517832 AGGGTGTTTCCGTAGATTGTTTTC 59.482 41.667 0.00 0.00 37.00 2.29
3806 4853 4.460505 GGTGTTTCCGTAGATTGTTTTCG 58.539 43.478 0.00 0.00 0.00 3.46
3807 4854 4.024641 GGTGTTTCCGTAGATTGTTTTCGT 60.025 41.667 0.00 0.00 0.00 3.85
3808 4855 5.177327 GGTGTTTCCGTAGATTGTTTTCGTA 59.823 40.000 0.00 0.00 0.00 3.43
3809 4856 6.292811 GGTGTTTCCGTAGATTGTTTTCGTAA 60.293 38.462 0.00 0.00 0.00 3.18
3810 4857 6.788930 GTGTTTCCGTAGATTGTTTTCGTAAG 59.211 38.462 0.00 0.00 0.00 2.34
3811 4858 6.479660 TGTTTCCGTAGATTGTTTTCGTAAGT 59.520 34.615 0.00 0.00 39.48 2.24
3812 4859 6.456447 TTCCGTAGATTGTTTTCGTAAGTG 57.544 37.500 0.00 0.00 39.48 3.16
3813 4860 5.531634 TCCGTAGATTGTTTTCGTAAGTGT 58.468 37.500 0.00 0.00 39.48 3.55
3814 4861 6.676950 TCCGTAGATTGTTTTCGTAAGTGTA 58.323 36.000 0.00 0.00 39.48 2.90
3815 4862 7.315142 TCCGTAGATTGTTTTCGTAAGTGTAT 58.685 34.615 0.00 0.00 39.48 2.29
3816 4863 7.485913 TCCGTAGATTGTTTTCGTAAGTGTATC 59.514 37.037 0.00 0.00 39.48 2.24
3817 4864 7.274033 CCGTAGATTGTTTTCGTAAGTGTATCA 59.726 37.037 0.00 0.00 39.48 2.15
3818 4865 8.804743 CGTAGATTGTTTTCGTAAGTGTATCAT 58.195 33.333 0.00 0.00 39.48 2.45
3821 4868 9.825972 AGATTGTTTTCGTAAGTGTATCATTTG 57.174 29.630 0.00 0.00 39.48 2.32
3822 4869 9.607285 GATTGTTTTCGTAAGTGTATCATTTGT 57.393 29.630 0.00 0.00 39.48 2.83
3823 4870 8.775220 TTGTTTTCGTAAGTGTATCATTTGTG 57.225 30.769 0.00 0.00 39.48 3.33
3903 4950 5.365895 GTGATATACCTCTACAAGTGGGGTT 59.634 44.000 0.00 0.00 33.33 4.11
3914 5608 2.282816 TGGGGTTGCATTGGTCGG 60.283 61.111 0.00 0.00 0.00 4.79
3964 5658 2.334946 GCACATGTGTGGCACGGAT 61.335 57.895 26.01 4.19 45.72 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 2.803956 GACTTAGGTTACGCAAAGTGCA 59.196 45.455 0.61 0.00 45.36 4.57
34 35 0.035458 AGCTGTTAGCCGCAAGACTT 59.965 50.000 0.00 0.00 43.77 3.01
81 89 3.956848 AGGTAACCTAGTTATCCGTCCAC 59.043 47.826 0.00 0.00 30.16 4.02
154 162 5.177511 TGATCGAAGTTGTGTCATTTGACTC 59.822 40.000 11.67 8.71 44.99 3.36
162 170 4.322080 AACTCTGATCGAAGTTGTGTCA 57.678 40.909 10.73 0.00 0.00 3.58
163 171 5.700846 TCTAACTCTGATCGAAGTTGTGTC 58.299 41.667 18.06 0.00 0.00 3.67
166 174 6.151985 AGTGATCTAACTCTGATCGAAGTTGT 59.848 38.462 18.06 7.87 42.18 3.32
397 720 1.542472 TCAAATCACGTACTCTCGCCA 59.458 47.619 0.00 0.00 0.00 5.69
421 744 2.476185 GCGGGATCAAAAGACGTTCATG 60.476 50.000 0.00 0.00 0.00 3.07
422 745 1.737793 GCGGGATCAAAAGACGTTCAT 59.262 47.619 0.00 0.00 0.00 2.57
454 777 0.601841 CGTAAGAAAGTGCGGTGGGT 60.602 55.000 0.00 0.00 43.02 4.51
456 779 1.495951 GCGTAAGAAAGTGCGGTGG 59.504 57.895 0.00 0.00 43.02 4.61
589 934 2.226330 AGTTGTTGCGCTGGTAAATGA 58.774 42.857 9.73 0.00 0.00 2.57
591 936 4.320935 CCTTTAGTTGTTGCGCTGGTAAAT 60.321 41.667 9.73 0.64 0.00 1.40
598 943 4.324267 AGAATACCTTTAGTTGTTGCGCT 58.676 39.130 9.73 0.00 0.00 5.92
609 955 5.979993 TCATTGGCACGTAGAATACCTTTA 58.020 37.500 0.00 0.00 38.71 1.85
651 997 0.898320 ACCGTGATGTGAAGGGAGAG 59.102 55.000 0.00 0.00 0.00 3.20
756 1105 3.241678 GCAAGCACAGTAGAATTCGTACG 60.242 47.826 9.53 9.53 0.00 3.67
835 1188 2.966708 CGTTTGCAATCGTTGACTTGAG 59.033 45.455 19.32 0.00 0.00 3.02
913 1266 3.136443 TCAATGGAAGGGTGGTATGCTAG 59.864 47.826 0.00 0.00 0.00 3.42
919 1272 1.281867 CTGCTCAATGGAAGGGTGGTA 59.718 52.381 0.00 0.00 0.00 3.25
990 1364 2.157738 AGCTTCTCCATGCTTGTGTTC 58.842 47.619 0.00 0.00 35.86 3.18
993 1367 2.008329 GAGAGCTTCTCCATGCTTGTG 58.992 52.381 0.00 0.00 39.91 3.33
1017 1391 2.741985 CAGAACATGGTCGCCGCA 60.742 61.111 4.80 0.00 0.00 5.69
1080 1454 3.698463 GTGTGTTCCACGACGGCG 61.698 66.667 10.39 10.39 44.79 6.46
1083 1457 0.303493 CAAAGGTGTGTTCCACGACG 59.697 55.000 0.00 0.00 45.52 5.12
1136 1554 8.622157 AGAAGTGATCAAGAAGATGCATTAATG 58.378 33.333 11.27 11.27 37.00 1.90
1142 1560 4.179298 CGAGAAGTGATCAAGAAGATGCA 58.821 43.478 0.00 0.00 37.00 3.96
1143 1561 3.555139 CCGAGAAGTGATCAAGAAGATGC 59.445 47.826 0.00 0.00 37.00 3.91
1147 1565 4.158764 ACCTACCGAGAAGTGATCAAGAAG 59.841 45.833 0.00 0.00 0.00 2.85
1169 1587 2.728318 GTCACGACCTTCGGAAGTAAAC 59.272 50.000 16.07 4.36 45.59 2.01
1177 1624 0.318445 ACTTTCGTCACGACCTTCGG 60.318 55.000 0.00 0.00 45.59 4.30
1179 1626 4.047142 AGTTTACTTTCGTCACGACCTTC 58.953 43.478 0.00 0.00 34.89 3.46
1290 1748 9.667107 CTAATTAAGAGGTTAAAGATGGTGACA 57.333 33.333 0.00 0.00 36.82 3.58
1304 1815 6.935208 GGTCAACAGTCAACTAATTAAGAGGT 59.065 38.462 0.00 0.00 0.00 3.85
1311 1822 6.772716 ACTGATTGGTCAACAGTCAACTAATT 59.227 34.615 10.73 0.00 43.99 1.40
1319 1830 4.056050 ACGTAACTGATTGGTCAACAGTC 58.944 43.478 14.41 0.00 42.81 3.51
1347 1861 3.684305 TCGTGCACCTGAACATCATTAAG 59.316 43.478 12.15 0.00 0.00 1.85
1469 1986 1.623311 AGACGGTTGATGACATGGACA 59.377 47.619 0.00 0.00 0.00 4.02
1475 1992 0.895530 GAGGGAGACGGTTGATGACA 59.104 55.000 0.00 0.00 0.00 3.58
1606 2123 0.532862 CTGGCCAGTGACGTTGAAGT 60.533 55.000 25.53 0.00 0.00 3.01
1847 2365 2.435586 CTGAGGTCGCCCAGCTTG 60.436 66.667 0.00 0.00 30.88 4.01
1958 2476 3.921021 CAGCAACCTTGAAGTAGTACTCG 59.079 47.826 2.58 0.00 0.00 4.18
2054 2572 4.088351 TCGATGGCCTCCCCTGGA 62.088 66.667 3.32 0.00 0.00 3.86
2342 2868 2.448705 GCCGAGCGTGAAGAAGAGC 61.449 63.158 0.00 0.00 0.00 4.09
2375 2901 0.249699 ATGTCTTGTTGGTGTCGCGA 60.250 50.000 3.71 3.71 0.00 5.87
2465 2991 3.007398 ACCTCTCAAGGAGTGATGTGTTC 59.993 47.826 0.00 0.00 46.67 3.18
2471 2997 4.080469 TCGTAGTACCTCTCAAGGAGTGAT 60.080 45.833 0.00 0.00 46.67 3.06
2474 3000 3.008813 TGTCGTAGTACCTCTCAAGGAGT 59.991 47.826 0.00 0.00 46.67 3.85
2480 3006 2.485426 CCGTTTGTCGTAGTACCTCTCA 59.515 50.000 0.00 0.00 37.94 3.27
2496 3022 0.179078 TACACGCCACTTGTCCGTTT 60.179 50.000 0.00 0.00 32.18 3.60
2497 3023 0.877213 GTACACGCCACTTGTCCGTT 60.877 55.000 0.00 0.00 32.18 4.44
2498 3024 1.300388 GTACACGCCACTTGTCCGT 60.300 57.895 0.00 0.00 35.29 4.69
2511 3037 1.888736 GGAGGTCCTCCGTGTACAC 59.111 63.158 22.53 16.32 41.08 2.90
2614 3140 2.100631 CGTAGCTTGGTCGCCTTGG 61.101 63.158 0.00 0.00 0.00 3.61
2783 3309 3.486383 CTGTGGGTTGTGGTAGTTGAAT 58.514 45.455 0.00 0.00 0.00 2.57
2918 3444 1.590525 GATGAACGCCGTCGCCATA 60.591 57.895 0.00 0.00 39.84 2.74
3058 3591 0.853530 AAGTTCAGGGCCCAACTTCT 59.146 50.000 26.96 15.22 38.22 2.85
3153 3693 8.673711 TCAACTTTTACAATAAGAATCATCCGG 58.326 33.333 0.00 0.00 0.00 5.14
3235 3788 7.310485 CCTCTCTTTAAAACTGAACCCTAGCTA 60.310 40.741 0.00 0.00 0.00 3.32
3236 3789 6.435292 TCTCTTTAAAACTGAACCCTAGCT 57.565 37.500 0.00 0.00 0.00 3.32
3237 3790 5.644206 CCTCTCTTTAAAACTGAACCCTAGC 59.356 44.000 0.00 0.00 0.00 3.42
3238 3791 6.770542 ACCTCTCTTTAAAACTGAACCCTAG 58.229 40.000 0.00 0.00 0.00 3.02
3347 3942 3.006537 ACGCACTTACTACCAACACTGAT 59.993 43.478 0.00 0.00 0.00 2.90
3360 3957 1.154197 GGGAGGTTTGACGCACTTAC 58.846 55.000 0.00 0.00 0.00 2.34
3496 4538 7.463961 AAGAGTCAAAATGCATCAAGATTCT 57.536 32.000 0.00 7.01 0.00 2.40
3642 4689 3.106672 GTCCGTAAGTCTAGCATCGTTG 58.893 50.000 0.00 0.00 0.00 4.10
3643 4690 2.751259 TGTCCGTAAGTCTAGCATCGTT 59.249 45.455 0.00 0.00 0.00 3.85
3644 4691 2.362736 TGTCCGTAAGTCTAGCATCGT 58.637 47.619 0.00 0.00 0.00 3.73
3645 4692 3.106672 GTTGTCCGTAAGTCTAGCATCG 58.893 50.000 0.00 0.00 0.00 3.84
3646 4693 4.373348 AGTTGTCCGTAAGTCTAGCATC 57.627 45.455 0.00 0.00 0.00 3.91
3647 4694 4.803098 AAGTTGTCCGTAAGTCTAGCAT 57.197 40.909 0.00 0.00 0.00 3.79
3648 4695 4.280174 AGAAAGTTGTCCGTAAGTCTAGCA 59.720 41.667 0.00 0.00 0.00 3.49
3649 4696 4.807443 AGAAAGTTGTCCGTAAGTCTAGC 58.193 43.478 0.00 0.00 0.00 3.42
3650 4697 6.020372 CGTAGAAAGTTGTCCGTAAGTCTAG 58.980 44.000 0.00 0.00 0.00 2.43
3651 4698 5.700832 TCGTAGAAAGTTGTCCGTAAGTCTA 59.299 40.000 0.00 0.00 0.00 2.59
3652 4699 4.516698 TCGTAGAAAGTTGTCCGTAAGTCT 59.483 41.667 0.00 0.00 0.00 3.24
3653 4700 4.787598 TCGTAGAAAGTTGTCCGTAAGTC 58.212 43.478 0.00 0.00 0.00 3.01
3654 4701 4.836125 TCGTAGAAAGTTGTCCGTAAGT 57.164 40.909 0.00 0.00 0.00 2.24
3655 4702 6.701432 ATTTCGTAGAAAGTTGTCCGTAAG 57.299 37.500 1.70 0.00 45.90 2.34
3656 4703 6.700960 TCAATTTCGTAGAAAGTTGTCCGTAA 59.299 34.615 1.70 0.00 45.90 3.18
3657 4704 6.215121 TCAATTTCGTAGAAAGTTGTCCGTA 58.785 36.000 1.70 0.00 45.90 4.02
3658 4705 5.051816 TCAATTTCGTAGAAAGTTGTCCGT 58.948 37.500 1.70 0.00 45.90 4.69
3659 4706 5.585500 TCAATTTCGTAGAAAGTTGTCCG 57.415 39.130 1.70 0.00 45.90 4.79
3660 4707 5.851703 GCTTCAATTTCGTAGAAAGTTGTCC 59.148 40.000 1.70 0.00 45.90 4.02
3661 4708 6.659776 AGCTTCAATTTCGTAGAAAGTTGTC 58.340 36.000 1.70 2.67 45.90 3.18
3662 4709 6.619801 AGCTTCAATTTCGTAGAAAGTTGT 57.380 33.333 1.70 0.00 45.90 3.32
3663 4710 7.572759 TGTAGCTTCAATTTCGTAGAAAGTTG 58.427 34.615 0.00 6.42 45.90 3.16
3664 4711 7.656137 TCTGTAGCTTCAATTTCGTAGAAAGTT 59.344 33.333 0.00 0.00 45.90 2.66
3665 4712 7.116519 GTCTGTAGCTTCAATTTCGTAGAAAGT 59.883 37.037 0.00 0.00 45.90 2.66
3666 4713 7.412020 GGTCTGTAGCTTCAATTTCGTAGAAAG 60.412 40.741 0.00 0.00 45.90 2.62
3667 4714 6.367969 GGTCTGTAGCTTCAATTTCGTAGAAA 59.632 38.462 0.00 0.00 45.90 2.52
3668 4715 5.867716 GGTCTGTAGCTTCAATTTCGTAGAA 59.132 40.000 0.00 0.00 45.90 2.10
3669 4716 5.408356 GGTCTGTAGCTTCAATTTCGTAGA 58.592 41.667 0.00 0.00 0.00 2.59
3670 4717 4.265556 CGGTCTGTAGCTTCAATTTCGTAG 59.734 45.833 0.00 0.00 0.00 3.51
3671 4718 4.082625 TCGGTCTGTAGCTTCAATTTCGTA 60.083 41.667 0.00 0.00 0.00 3.43
3672 4719 2.993899 CGGTCTGTAGCTTCAATTTCGT 59.006 45.455 0.00 0.00 0.00 3.85
3673 4720 3.250744 TCGGTCTGTAGCTTCAATTTCG 58.749 45.455 0.00 0.00 0.00 3.46
3674 4721 4.034510 CCATCGGTCTGTAGCTTCAATTTC 59.965 45.833 0.00 0.00 0.00 2.17
3675 4722 3.941483 CCATCGGTCTGTAGCTTCAATTT 59.059 43.478 0.00 0.00 0.00 1.82
3676 4723 3.535561 CCATCGGTCTGTAGCTTCAATT 58.464 45.455 0.00 0.00 0.00 2.32
3677 4724 2.158900 CCCATCGGTCTGTAGCTTCAAT 60.159 50.000 0.00 0.00 0.00 2.57
3678 4725 1.207089 CCCATCGGTCTGTAGCTTCAA 59.793 52.381 0.00 0.00 0.00 2.69
3679 4726 0.824109 CCCATCGGTCTGTAGCTTCA 59.176 55.000 0.00 0.00 0.00 3.02
3680 4727 0.105039 CCCCATCGGTCTGTAGCTTC 59.895 60.000 0.00 0.00 0.00 3.86
3681 4728 1.972660 GCCCCATCGGTCTGTAGCTT 61.973 60.000 0.00 0.00 0.00 3.74
3682 4729 2.435693 GCCCCATCGGTCTGTAGCT 61.436 63.158 0.00 0.00 0.00 3.32
3683 4730 2.109181 GCCCCATCGGTCTGTAGC 59.891 66.667 0.00 0.00 0.00 3.58
3684 4731 0.469917 ATTGCCCCATCGGTCTGTAG 59.530 55.000 0.00 0.00 0.00 2.74
3685 4732 0.180171 CATTGCCCCATCGGTCTGTA 59.820 55.000 0.00 0.00 0.00 2.74
3686 4733 1.077501 CATTGCCCCATCGGTCTGT 60.078 57.895 0.00 0.00 0.00 3.41
3687 4734 2.484062 GCATTGCCCCATCGGTCTG 61.484 63.158 0.00 0.00 0.00 3.51
3688 4735 2.124151 GCATTGCCCCATCGGTCT 60.124 61.111 0.00 0.00 0.00 3.85
3689 4736 1.829533 ATGCATTGCCCCATCGGTC 60.830 57.895 6.12 0.00 0.00 4.79
3690 4737 2.129146 CATGCATTGCCCCATCGGT 61.129 57.895 6.12 0.00 0.00 4.69
3691 4738 1.183030 ATCATGCATTGCCCCATCGG 61.183 55.000 6.12 0.00 0.00 4.18
3692 4739 0.677288 AATCATGCATTGCCCCATCG 59.323 50.000 6.12 0.00 0.00 3.84
3693 4740 1.270625 CCAATCATGCATTGCCCCATC 60.271 52.381 6.12 0.00 40.75 3.51
3694 4741 0.762418 CCAATCATGCATTGCCCCAT 59.238 50.000 6.12 0.00 40.75 4.00
3695 4742 0.325390 TCCAATCATGCATTGCCCCA 60.325 50.000 6.12 0.00 40.75 4.96
3696 4743 0.831966 TTCCAATCATGCATTGCCCC 59.168 50.000 6.12 0.00 40.75 5.80
3697 4744 2.695127 TTTCCAATCATGCATTGCCC 57.305 45.000 6.12 0.00 40.75 5.36
3698 4745 6.050432 TCTTAATTTCCAATCATGCATTGCC 58.950 36.000 6.12 0.00 40.75 4.52
3699 4746 7.493320 TCTTCTTAATTTCCAATCATGCATTGC 59.507 33.333 0.00 0.46 40.75 3.56
3700 4747 8.936070 TCTTCTTAATTTCCAATCATGCATTG 57.064 30.769 0.00 9.58 41.64 2.82
3701 4748 8.202137 CCTCTTCTTAATTTCCAATCATGCATT 58.798 33.333 0.00 0.00 0.00 3.56
3702 4749 7.201974 CCCTCTTCTTAATTTCCAATCATGCAT 60.202 37.037 0.00 0.00 0.00 3.96
3703 4750 6.097270 CCCTCTTCTTAATTTCCAATCATGCA 59.903 38.462 0.00 0.00 0.00 3.96
3704 4751 6.322201 TCCCTCTTCTTAATTTCCAATCATGC 59.678 38.462 0.00 0.00 0.00 4.06
3705 4752 7.014038 CCTCCCTCTTCTTAATTTCCAATCATG 59.986 40.741 0.00 0.00 0.00 3.07
3706 4753 7.065504 CCTCCCTCTTCTTAATTTCCAATCAT 58.934 38.462 0.00 0.00 0.00 2.45
3707 4754 6.217487 TCCTCCCTCTTCTTAATTTCCAATCA 59.783 38.462 0.00 0.00 0.00 2.57
3708 4755 6.663734 TCCTCCCTCTTCTTAATTTCCAATC 58.336 40.000 0.00 0.00 0.00 2.67
3709 4756 6.354301 CCTCCTCCCTCTTCTTAATTTCCAAT 60.354 42.308 0.00 0.00 0.00 3.16
3710 4757 5.044846 CCTCCTCCCTCTTCTTAATTTCCAA 60.045 44.000 0.00 0.00 0.00 3.53
3711 4758 4.475016 CCTCCTCCCTCTTCTTAATTTCCA 59.525 45.833 0.00 0.00 0.00 3.53
3712 4759 4.687494 GCCTCCTCCCTCTTCTTAATTTCC 60.687 50.000 0.00 0.00 0.00 3.13
3713 4760 4.456535 GCCTCCTCCCTCTTCTTAATTTC 58.543 47.826 0.00 0.00 0.00 2.17
3714 4761 3.203263 GGCCTCCTCCCTCTTCTTAATTT 59.797 47.826 0.00 0.00 0.00 1.82
3715 4762 2.780592 GGCCTCCTCCCTCTTCTTAATT 59.219 50.000 0.00 0.00 0.00 1.40
3716 4763 2.413601 GGCCTCCTCCCTCTTCTTAAT 58.586 52.381 0.00 0.00 0.00 1.40
3717 4764 1.625508 GGGCCTCCTCCCTCTTCTTAA 60.626 57.143 0.84 0.00 43.13 1.85
3718 4765 0.031010 GGGCCTCCTCCCTCTTCTTA 60.031 60.000 0.84 0.00 43.13 2.10
3719 4766 1.307430 GGGCCTCCTCCCTCTTCTT 60.307 63.158 0.84 0.00 43.13 2.52
3720 4767 2.125066 TTGGGCCTCCTCCCTCTTCT 62.125 60.000 4.53 0.00 46.67 2.85
3721 4768 1.616628 TTGGGCCTCCTCCCTCTTC 60.617 63.158 4.53 0.00 46.67 2.87
3722 4769 1.617839 CTTGGGCCTCCTCCCTCTT 60.618 63.158 4.53 0.00 46.67 2.85
3723 4770 2.041928 CTTGGGCCTCCTCCCTCT 59.958 66.667 4.53 0.00 46.67 3.69
3724 4771 2.285743 ACTTGGGCCTCCTCCCTC 60.286 66.667 4.53 0.00 46.67 4.30
3725 4772 2.612115 CACTTGGGCCTCCTCCCT 60.612 66.667 4.53 0.00 46.67 4.20
3726 4773 1.789576 TTTCACTTGGGCCTCCTCCC 61.790 60.000 4.53 0.00 46.73 4.30
3727 4774 0.112412 TTTTCACTTGGGCCTCCTCC 59.888 55.000 4.53 0.00 0.00 4.30
3728 4775 2.222227 ATTTTCACTTGGGCCTCCTC 57.778 50.000 4.53 0.00 0.00 3.71
3729 4776 2.702270 AATTTTCACTTGGGCCTCCT 57.298 45.000 4.53 0.00 0.00 3.69
3730 4777 2.760650 CCTAATTTTCACTTGGGCCTCC 59.239 50.000 4.53 0.00 0.00 4.30
3731 4778 2.760650 CCCTAATTTTCACTTGGGCCTC 59.239 50.000 4.53 0.00 0.00 4.70
3732 4779 2.559705 CCCCTAATTTTCACTTGGGCCT 60.560 50.000 4.53 0.00 33.63 5.19
3733 4780 1.831106 CCCCTAATTTTCACTTGGGCC 59.169 52.381 0.00 0.00 33.63 5.80
3734 4781 1.831106 CCCCCTAATTTTCACTTGGGC 59.169 52.381 0.00 0.00 33.63 5.36
3751 4798 0.033109 CTCCACCAATTTCCTCCCCC 60.033 60.000 0.00 0.00 0.00 5.40
3752 4799 0.999712 TCTCCACCAATTTCCTCCCC 59.000 55.000 0.00 0.00 0.00 4.81
3753 4800 2.659428 CATCTCCACCAATTTCCTCCC 58.341 52.381 0.00 0.00 0.00 4.30
3754 4801 2.242196 TCCATCTCCACCAATTTCCTCC 59.758 50.000 0.00 0.00 0.00 4.30
3755 4802 3.054065 ACTCCATCTCCACCAATTTCCTC 60.054 47.826 0.00 0.00 0.00 3.71
3756 4803 2.922283 ACTCCATCTCCACCAATTTCCT 59.078 45.455 0.00 0.00 0.00 3.36
3757 4804 3.282885 GACTCCATCTCCACCAATTTCC 58.717 50.000 0.00 0.00 0.00 3.13
3758 4805 3.282885 GGACTCCATCTCCACCAATTTC 58.717 50.000 0.00 0.00 0.00 2.17
3759 4806 2.356125 CGGACTCCATCTCCACCAATTT 60.356 50.000 0.00 0.00 0.00 1.82
3760 4807 1.210478 CGGACTCCATCTCCACCAATT 59.790 52.381 0.00 0.00 0.00 2.32
3761 4808 0.833287 CGGACTCCATCTCCACCAAT 59.167 55.000 0.00 0.00 0.00 3.16
3762 4809 0.544357 ACGGACTCCATCTCCACCAA 60.544 55.000 0.00 0.00 0.00 3.67
3763 4810 0.333652 TACGGACTCCATCTCCACCA 59.666 55.000 0.00 0.00 0.00 4.17
3764 4811 1.033574 CTACGGACTCCATCTCCACC 58.966 60.000 0.00 0.00 0.00 4.61
3765 4812 1.033574 CCTACGGACTCCATCTCCAC 58.966 60.000 0.00 0.00 0.00 4.02
3766 4813 0.106167 CCCTACGGACTCCATCTCCA 60.106 60.000 0.00 0.00 0.00 3.86
3767 4814 0.106116 ACCCTACGGACTCCATCTCC 60.106 60.000 0.00 0.00 0.00 3.71
3768 4815 1.033574 CACCCTACGGACTCCATCTC 58.966 60.000 0.00 0.00 0.00 2.75
3769 4816 0.335361 ACACCCTACGGACTCCATCT 59.665 55.000 0.00 0.00 0.00 2.90
3770 4817 1.192428 AACACCCTACGGACTCCATC 58.808 55.000 0.00 0.00 0.00 3.51
3771 4818 1.553704 GAAACACCCTACGGACTCCAT 59.446 52.381 0.00 0.00 0.00 3.41
3772 4819 0.971386 GAAACACCCTACGGACTCCA 59.029 55.000 0.00 0.00 0.00 3.86
3773 4820 0.248565 GGAAACACCCTACGGACTCC 59.751 60.000 0.00 0.00 0.00 3.85
3774 4821 0.108945 CGGAAACACCCTACGGACTC 60.109 60.000 0.00 0.00 34.64 3.36
3775 4822 0.829182 ACGGAAACACCCTACGGACT 60.829 55.000 0.00 0.00 34.64 3.85
3776 4823 0.887933 TACGGAAACACCCTACGGAC 59.112 55.000 0.00 0.00 34.64 4.79
3777 4824 1.176527 CTACGGAAACACCCTACGGA 58.823 55.000 0.00 0.00 34.64 4.69
3778 4825 1.176527 TCTACGGAAACACCCTACGG 58.823 55.000 0.00 0.00 34.64 4.02
3779 4826 3.184541 CAATCTACGGAAACACCCTACG 58.815 50.000 0.00 0.00 34.64 3.51
3780 4827 4.198028 ACAATCTACGGAAACACCCTAC 57.802 45.455 0.00 0.00 34.64 3.18
3781 4828 4.895668 AACAATCTACGGAAACACCCTA 57.104 40.909 0.00 0.00 34.64 3.53
3782 4829 3.782656 AACAATCTACGGAAACACCCT 57.217 42.857 0.00 0.00 34.64 4.34
3783 4830 4.612033 CGAAAACAATCTACGGAAACACCC 60.612 45.833 0.00 0.00 34.64 4.61
3784 4831 4.024641 ACGAAAACAATCTACGGAAACACC 60.025 41.667 0.00 0.00 0.00 4.16
3785 4832 5.086888 ACGAAAACAATCTACGGAAACAC 57.913 39.130 0.00 0.00 0.00 3.32
3786 4833 6.479660 ACTTACGAAAACAATCTACGGAAACA 59.520 34.615 0.00 0.00 0.00 2.83
3787 4834 6.788930 CACTTACGAAAACAATCTACGGAAAC 59.211 38.462 0.00 0.00 0.00 2.78
3788 4835 6.479660 ACACTTACGAAAACAATCTACGGAAA 59.520 34.615 0.00 0.00 0.00 3.13
3789 4836 5.984926 ACACTTACGAAAACAATCTACGGAA 59.015 36.000 0.00 0.00 0.00 4.30
3790 4837 5.531634 ACACTTACGAAAACAATCTACGGA 58.468 37.500 0.00 0.00 0.00 4.69
3791 4838 5.834239 ACACTTACGAAAACAATCTACGG 57.166 39.130 0.00 0.00 0.00 4.02
3792 4839 8.165212 TGATACACTTACGAAAACAATCTACG 57.835 34.615 0.00 0.00 0.00 3.51
3795 4842 9.825972 CAAATGATACACTTACGAAAACAATCT 57.174 29.630 0.00 0.00 0.00 2.40
3796 4843 9.607285 ACAAATGATACACTTACGAAAACAATC 57.393 29.630 0.00 0.00 0.00 2.67
3797 4844 9.393249 CACAAATGATACACTTACGAAAACAAT 57.607 29.630 0.00 0.00 0.00 2.71
3798 4845 7.377397 GCACAAATGATACACTTACGAAAACAA 59.623 33.333 0.00 0.00 0.00 2.83
3799 4846 6.853872 GCACAAATGATACACTTACGAAAACA 59.146 34.615 0.00 0.00 0.00 2.83
3800 4847 7.075741 AGCACAAATGATACACTTACGAAAAC 58.924 34.615 0.00 0.00 0.00 2.43
3801 4848 7.197071 AGCACAAATGATACACTTACGAAAA 57.803 32.000 0.00 0.00 0.00 2.29
3802 4849 6.795098 AGCACAAATGATACACTTACGAAA 57.205 33.333 0.00 0.00 0.00 3.46
3803 4850 6.795098 AAGCACAAATGATACACTTACGAA 57.205 33.333 0.00 0.00 0.00 3.85
3804 4851 6.128391 GGAAAGCACAAATGATACACTTACGA 60.128 38.462 0.00 0.00 0.00 3.43
3805 4852 6.021596 GGAAAGCACAAATGATACACTTACG 58.978 40.000 0.00 0.00 0.00 3.18
3806 4853 6.908825 TGGAAAGCACAAATGATACACTTAC 58.091 36.000 0.00 0.00 0.00 2.34
3807 4854 7.413988 CGATGGAAAGCACAAATGATACACTTA 60.414 37.037 0.00 0.00 0.00 2.24
3808 4855 6.594788 ATGGAAAGCACAAATGATACACTT 57.405 33.333 0.00 0.00 0.00 3.16
3809 4856 5.163723 CGATGGAAAGCACAAATGATACACT 60.164 40.000 0.00 0.00 0.00 3.55
3810 4857 5.030295 CGATGGAAAGCACAAATGATACAC 58.970 41.667 0.00 0.00 0.00 2.90
3811 4858 4.438608 GCGATGGAAAGCACAAATGATACA 60.439 41.667 0.00 0.00 0.00 2.29
3812 4859 4.037690 GCGATGGAAAGCACAAATGATAC 58.962 43.478 0.00 0.00 0.00 2.24
3813 4860 3.693578 TGCGATGGAAAGCACAAATGATA 59.306 39.130 0.00 0.00 38.59 2.15
3814 4861 2.492881 TGCGATGGAAAGCACAAATGAT 59.507 40.909 0.00 0.00 38.59 2.45
3815 4862 1.885233 TGCGATGGAAAGCACAAATGA 59.115 42.857 0.00 0.00 38.59 2.57
3816 4863 2.350899 TGCGATGGAAAGCACAAATG 57.649 45.000 0.00 0.00 38.59 2.32
3817 4864 3.489738 GCTATGCGATGGAAAGCACAAAT 60.490 43.478 0.00 0.00 46.83 2.32
3818 4865 2.159393 GCTATGCGATGGAAAGCACAAA 60.159 45.455 0.00 0.00 46.83 2.83
3819 4866 1.401552 GCTATGCGATGGAAAGCACAA 59.598 47.619 0.00 0.00 46.83 3.33
3820 4867 1.016627 GCTATGCGATGGAAAGCACA 58.983 50.000 0.00 0.00 46.83 4.57
3821 4868 0.308993 GGCTATGCGATGGAAAGCAC 59.691 55.000 0.00 0.00 46.83 4.40
3823 4870 0.536006 AGGGCTATGCGATGGAAAGC 60.536 55.000 0.00 0.00 0.00 3.51
3872 4919 8.478877 CACTTGTAGAGGTATATCACTTTTCCT 58.521 37.037 0.00 0.00 0.00 3.36
3903 4950 3.552132 ATATGTGTACCGACCAATGCA 57.448 42.857 0.00 0.00 0.00 3.96
3964 5658 0.601576 ACGTTCGCAGTTGCCATGTA 60.602 50.000 0.00 0.00 37.91 2.29
3991 5685 3.674997 TCCTCATGTCACTAAACTTGCC 58.325 45.455 0.00 0.00 0.00 4.52


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

AutoCloner maintained by Alex Coulton.