Multiple sequence alignment - TraesCS6B01G092400

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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 TraesCS6B01G092400 chr6B 100.000 2846 0 0 2725 5570 68292183 68295028 0.000000e+00 5256.0
1 TraesCS6B01G092400 chr6B 100.000 1922 0 0 1 1922 68289459 68291380 0.000000e+00 3550.0
2 TraesCS6B01G092400 chr6B 76.718 524 60 20 2830 3352 663174051 663173589 9.330000e-58 235.0
3 TraesCS6B01G092400 chr6B 81.743 241 22 11 2982 3222 264351 264133 1.230000e-41 182.0
4 TraesCS6B01G092400 chr6A 89.466 2003 93 43 2725 4671 36947454 36949394 0.000000e+00 2422.0
5 TraesCS6B01G092400 chr6A 89.722 1868 162 13 1 1856 36939748 36941597 0.000000e+00 2359.0
6 TraesCS6B01G092400 chr6A 92.068 1286 94 6 579 1860 36945016 36946297 0.000000e+00 1803.0
7 TraesCS6B01G092400 chr6A 91.628 1278 97 6 582 1856 36942673 36943943 0.000000e+00 1759.0
8 TraesCS6B01G092400 chr6A 85.503 745 63 24 4815 5531 36949686 36950413 0.000000e+00 736.0
9 TraesCS6B01G092400 chr6A 80.674 445 42 14 2982 3426 479105262 479104862 7.010000e-79 305.0
10 TraesCS6B01G092400 chr6A 84.385 301 32 6 3052 3352 55365556 55365271 1.180000e-71 281.0
11 TraesCS6B01G092400 chr6A 80.380 316 45 14 5250 5556 412060673 412060980 2.020000e-54 224.0
12 TraesCS6B01G092400 chr6A 77.451 408 51 14 2863 3269 577295055 577294688 7.310000e-49 206.0
13 TraesCS6B01G092400 chr6A 78.819 288 45 14 5250 5526 221544896 221544614 4.430000e-41 180.0
14 TraesCS6B01G092400 chr6A 76.225 408 58 19 2863 3270 577497065 577496697 4.430000e-41 180.0
15 TraesCS6B01G092400 chr6A 80.995 221 33 8 5248 5461 36950541 36950759 3.450000e-37 167.0
16 TraesCS6B01G092400 chr6A 89.474 57 6 0 2725 2781 577295181 577295125 7.740000e-09 73.1
17 TraesCS6B01G092400 chr6D 91.379 1624 129 9 1 1618 32456034 32457652 0.000000e+00 2213.0
18 TraesCS6B01G092400 chr6D 91.200 1000 33 11 2725 3716 32458713 32459665 0.000000e+00 1308.0
19 TraesCS6B01G092400 chr6D 91.531 921 46 19 3830 4738 32459692 32460592 0.000000e+00 1240.0
20 TraesCS6B01G092400 chr6D 88.722 931 91 7 17 935 104935861 104934933 0.000000e+00 1125.0
21 TraesCS6B01G092400 chr6D 87.889 900 93 9 48 935 294163341 294164236 0.000000e+00 1044.0
22 TraesCS6B01G092400 chr6D 84.915 769 61 24 4828 5570 32460813 32461552 0.000000e+00 726.0
23 TraesCS6B01G092400 chr6D 78.244 524 61 18 2830 3352 62244501 62244030 2.540000e-73 287.0
24 TraesCS6B01G092400 chr6D 91.379 174 14 1 1686 1858 32457655 32457828 2.590000e-58 237.0
25 TraesCS6B01G092400 chr6D 79.167 288 42 12 5250 5528 162112954 162112676 3.430000e-42 183.0
26 TraesCS6B01G092400 chr1D 89.244 939 95 6 1 935 74247942 74248878 0.000000e+00 1170.0
27 TraesCS6B01G092400 chr5B 88.173 947 95 11 1 935 544927550 544926609 0.000000e+00 1112.0
28 TraesCS6B01G092400 chr5B 85.730 932 118 10 17 938 137051127 137050201 0.000000e+00 970.0
29 TraesCS6B01G092400 chr5B 86.984 315 30 10 5248 5556 292485813 292486122 1.490000e-90 344.0
30 TraesCS6B01G092400 chr5B 86.096 187 20 3 3533 3716 166694401 166694218 4.400000e-46 196.0
31 TraesCS6B01G092400 chr5B 77.895 285 36 10 3057 3339 384320632 384320373 9.660000e-33 152.0
32 TraesCS6B01G092400 chr5B 79.012 162 26 4 3181 3339 384000571 384000727 2.740000e-18 104.0
33 TraesCS6B01G092400 chr7A 87.487 927 107 5 17 935 297935800 297936725 0.000000e+00 1061.0
34 TraesCS6B01G092400 chr7A 85.561 187 20 4 3533 3716 95948136 95947954 7.370000e-44 189.0
35 TraesCS6B01G092400 chr7A 78.327 263 28 13 3671 3918 310911337 310911089 5.820000e-30 143.0
36 TraesCS6B01G092400 chr1A 86.901 939 104 11 17 937 481763410 481762473 0.000000e+00 1035.0
37 TraesCS6B01G092400 chr1A 80.899 445 41 14 2979 3423 14356715 14357115 1.510000e-80 311.0
38 TraesCS6B01G092400 chr1A 77.946 331 53 15 5246 5569 23212044 23211727 7.370000e-44 189.0
39 TraesCS6B01G092400 chr3A 87.633 566 55 6 14 567 594616623 594616061 1.310000e-180 643.0
40 TraesCS6B01G092400 chr3A 85.627 327 33 7 5247 5570 427763978 427763663 1.160000e-86 331.0
41 TraesCS6B01G092400 chr3A 84.043 282 34 4 1 273 649176898 649176619 1.540000e-65 261.0
42 TraesCS6B01G092400 chr3A 75.433 289 27 26 2830 3115 229621060 229620813 3.550000e-17 100.0
43 TraesCS6B01G092400 chr7B 86.644 584 60 11 1 571 579847517 579848095 1.020000e-176 630.0
44 TraesCS6B01G092400 chr7B 85.666 586 71 3 2 574 33894591 33894006 6.170000e-169 604.0
45 TraesCS6B01G092400 chr7B 85.030 334 38 10 5248 5570 384192490 384192158 4.160000e-86 329.0
46 TraesCS6B01G092400 chr2A 86.426 582 66 6 1 571 29912024 29912603 4.740000e-175 625.0
47 TraesCS6B01G092400 chr2A 76.426 526 58 36 2830 3352 659629470 659629008 2.020000e-54 224.0
48 TraesCS6B01G092400 chr2A 76.154 520 57 38 2830 3346 735656404 735655949 1.570000e-50 211.0
49 TraesCS6B01G092400 chr2A 91.358 81 7 0 2864 2944 191906007 191906087 1.640000e-20 111.0
50 TraesCS6B01G092400 chr3B 85.938 576 70 5 1 566 456622007 456622581 6.170000e-169 604.0
51 TraesCS6B01G092400 chr5A 86.751 317 29 12 5248 5556 343063421 343063110 1.920000e-89 340.0
52 TraesCS6B01G092400 chr5A 79.684 443 49 22 2910 3352 155216929 155216528 1.180000e-71 281.0
53 TraesCS6B01G092400 chr5A 85.792 183 20 3 3537 3716 611124671 611124850 7.370000e-44 189.0
54 TraesCS6B01G092400 chr5A 83.621 116 7 2 2912 3027 696305230 696305333 1.280000e-16 99.0
55 TraesCS6B01G092400 chr5D 85.987 314 37 7 5248 5556 258256038 258256349 4.160000e-86 329.0
56 TraesCS6B01G092400 chr5D 84.498 329 42 7 5248 5570 511950730 511950405 3.240000e-82 316.0
57 TraesCS6B01G092400 chr5D 82.051 312 45 7 5248 5550 234143764 234144073 7.160000e-64 255.0
58 TraesCS6B01G092400 chr5D 84.739 249 26 8 5330 5570 236944378 236944622 7.210000e-59 239.0
59 TraesCS6B01G092400 chr3D 85.241 332 34 10 5246 5570 542850050 542849727 1.500000e-85 327.0
60 TraesCS6B01G092400 chr2D 85.152 330 37 9 5248 5569 70636506 70636831 1.500000e-85 327.0
61 TraesCS6B01G092400 chr2D 79.644 393 44 15 2863 3255 231721031 231721387 3.330000e-62 250.0
62 TraesCS6B01G092400 chr2D 83.165 297 25 7 2969 3264 245324913 245325185 1.200000e-61 248.0
63 TraesCS6B01G092400 chr2D 89.831 59 6 0 2726 2784 231720905 231720963 5.980000e-10 76.8
64 TraesCS6B01G092400 chr7D 80.328 488 46 19 2939 3426 514661919 514661482 1.940000e-84 324.0
65 TraesCS6B01G092400 chr7D 83.871 341 33 13 5248 5570 388995804 388995468 7.010000e-79 305.0
66 TraesCS6B01G092400 chr7D 80.228 263 26 10 3672 3919 430406214 430405963 2.060000e-39 174.0
67 TraesCS6B01G092400 chr7D 90.566 106 9 1 2859 2964 430406528 430406424 7.520000e-29 139.0
68 TraesCS6B01G092400 chr7D 93.902 82 5 0 3080 3161 430406384 430406303 2.110000e-24 124.0
69 TraesCS6B01G092400 chr4B 78.743 541 59 23 2726 3264 580959806 580960292 1.510000e-80 311.0
70 TraesCS6B01G092400 chr1B 80.674 445 42 14 2979 3423 531115927 531116327 7.010000e-79 305.0
71 TraesCS6B01G092400 chrUn 77.477 333 54 14 5246 5569 268838 268518 4.430000e-41 180.0
72 TraesCS6B01G092400 chr2B 92.593 81 6 0 2864 2944 188448142 188448062 3.530000e-22 117.0
73 TraesCS6B01G092400 chr4A 85.088 114 5 5 2912 3025 505272719 505272618 7.630000e-19 106.0
74 TraesCS6B01G092400 chr4A 96.226 53 2 0 2912 2964 504950920 504950972 2.760000e-13 87.9


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 TraesCS6B01G092400 chr6B 68289459 68295028 5569 False 4403.0 5256 100.000000 1 5570 2 chr6B.!!$F1 5569
1 TraesCS6B01G092400 chr6A 36939748 36950759 11011 False 1541.0 2422 88.230333 1 5531 6 chr6A.!!$F2 5530
2 TraesCS6B01G092400 chr6D 32456034 32461552 5518 False 1144.8 2213 90.080800 1 5570 5 chr6D.!!$F2 5569
3 TraesCS6B01G092400 chr6D 104934933 104935861 928 True 1125.0 1125 88.722000 17 935 1 chr6D.!!$R2 918
4 TraesCS6B01G092400 chr6D 294163341 294164236 895 False 1044.0 1044 87.889000 48 935 1 chr6D.!!$F1 887
5 TraesCS6B01G092400 chr1D 74247942 74248878 936 False 1170.0 1170 89.244000 1 935 1 chr1D.!!$F1 934
6 TraesCS6B01G092400 chr5B 544926609 544927550 941 True 1112.0 1112 88.173000 1 935 1 chr5B.!!$R4 934
7 TraesCS6B01G092400 chr5B 137050201 137051127 926 True 970.0 970 85.730000 17 938 1 chr5B.!!$R1 921
8 TraesCS6B01G092400 chr7A 297935800 297936725 925 False 1061.0 1061 87.487000 17 935 1 chr7A.!!$F1 918
9 TraesCS6B01G092400 chr1A 481762473 481763410 937 True 1035.0 1035 86.901000 17 937 1 chr1A.!!$R2 920
10 TraesCS6B01G092400 chr3A 594616061 594616623 562 True 643.0 643 87.633000 14 567 1 chr3A.!!$R3 553
11 TraesCS6B01G092400 chr7B 579847517 579848095 578 False 630.0 630 86.644000 1 571 1 chr7B.!!$F1 570
12 TraesCS6B01G092400 chr7B 33894006 33894591 585 True 604.0 604 85.666000 2 574 1 chr7B.!!$R1 572
13 TraesCS6B01G092400 chr2A 29912024 29912603 579 False 625.0 625 86.426000 1 571 1 chr2A.!!$F1 570
14 TraesCS6B01G092400 chr3B 456622007 456622581 574 False 604.0 604 85.938000 1 566 1 chr3B.!!$F1 565

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
584 610 1.501604 ACCACAACCTAACCCCACATT 59.498 47.619 0.0 0.0 0.0 2.71 F
1734 6449 0.882927 TTACGTGTGAAGCAGTGGGC 60.883 55.000 0.0 0.0 45.3 5.36 F
3272 8295 0.465097 CTCCATCAATTCAGCCCGCT 60.465 55.000 0.0 0.0 0.0 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1756 6471 0.324645 GGTTGGGTGATTCATGGCCT 60.325 55.0 3.32 0.00 0.00 5.19 R
3292 8315 0.031721 GGAGGAACACGTCAACGAGT 59.968 55.0 9.88 4.55 44.50 4.18 R
4823 10137 0.034767 AGTCCGACGTATGGTCTCCA 60.035 55.0 6.24 0.00 43.79 3.86 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
26 27 9.244799 CAGTAGAAACACGCTAATGATATAACA 57.755 33.333 0.00 0.00 36.37 2.41
103 106 6.182627 TCATGGAAGATGCATGTAAACTCTT 58.817 36.000 2.46 0.00 44.99 2.85
205 216 6.349243 AGAAAGATGATGCAATGGTTTGAA 57.651 33.333 0.00 0.00 34.60 2.69
208 219 5.733620 AGATGATGCAATGGTTTGAACTT 57.266 34.783 0.00 0.00 34.60 2.66
212 223 5.291178 TGATGCAATGGTTTGAACTTTCTG 58.709 37.500 0.00 0.00 34.60 3.02
360 378 2.493278 GCCTTGCACATATTCCACTTGT 59.507 45.455 0.00 0.00 0.00 3.16
442 460 5.122869 GCTCAATGAAGACTAGTTGATTGCA 59.877 40.000 0.00 0.00 32.78 4.08
479 498 2.202676 GCGAGCCACTCTTCGGAG 60.203 66.667 0.00 0.00 46.82 4.63
502 521 4.157289 GCATCTTCACAAGACCATTGTCAT 59.843 41.667 0.00 0.00 44.33 3.06
584 610 1.501604 ACCACAACCTAACCCCACATT 59.498 47.619 0.00 0.00 0.00 2.71
638 665 2.710377 AGCGTAATGGACAATGCTTGA 58.290 42.857 3.37 0.00 34.29 3.02
715 744 6.075762 TGATCAACTTGATTCACACTTTGG 57.924 37.500 5.73 0.00 37.20 3.28
806 835 4.536090 ACCTTGGTCATCTCATAAACTCCA 59.464 41.667 0.00 0.00 0.00 3.86
819 848 5.242838 TCATAAACTCCATGAAACCAACACC 59.757 40.000 0.00 0.00 29.55 4.16
839 869 2.490903 CCTGGACTTCAAGAAATGCCTG 59.509 50.000 0.00 0.00 0.00 4.85
915 945 5.689961 GTCATCAATTACCAAAACCACACAC 59.310 40.000 0.00 0.00 0.00 3.82
998 5711 4.202264 ACTGGTTTGTTTTGTGACCAAACA 60.202 37.500 10.47 10.47 46.04 2.83
1011 5724 5.582665 TGTGACCAAACAACAATAAAAAGCC 59.417 36.000 0.00 0.00 0.00 4.35
1032 5745 7.383102 AGCCAAGTACATATTTCTCACAAAG 57.617 36.000 0.00 0.00 0.00 2.77
1064 5777 4.514401 AGTACGAAAGGCTAGGGATTTTG 58.486 43.478 0.00 0.00 0.00 2.44
1175 5888 6.908825 TCTTGTTTATATCACACAAACTGCC 58.091 36.000 0.00 0.00 34.12 4.85
1178 5891 5.048364 TGTTTATATCACACAAACTGCCACC 60.048 40.000 0.00 0.00 34.12 4.61
1360 6074 7.637511 AGATTTGATTCTACATGAAGGTCCTT 58.362 34.615 2.95 2.95 38.18 3.36
1409 6123 1.068434 ACAAAAATGGCACCACCTTCG 59.932 47.619 0.00 0.00 40.22 3.79
1431 6145 2.043227 GATCTCTCCCAACCGATTCCT 58.957 52.381 0.00 0.00 0.00 3.36
1438 6152 2.237893 TCCCAACCGATTCCTAACCTTC 59.762 50.000 0.00 0.00 0.00 3.46
1491 6205 3.017048 TGTTGACCATGATCCAATCCC 57.983 47.619 0.00 0.00 0.00 3.85
1522 6236 2.743183 GCCGCCACTTGATTACTCAGAT 60.743 50.000 0.00 0.00 31.68 2.90
1538 6252 4.697352 ACTCAGATTTCTTGTTGAATCGGG 59.303 41.667 0.00 0.00 34.24 5.14
1600 6314 4.256462 TGCAACAGAAAGCAGCCA 57.744 50.000 0.00 0.00 35.51 4.75
1602 6316 1.908344 TGCAACAGAAAGCAGCCATA 58.092 45.000 0.00 0.00 35.51 2.74
1610 6324 2.157738 GAAAGCAGCCATAGCCATAGG 58.842 52.381 0.00 0.00 41.25 2.57
1622 6336 3.922426 CCATAGGCATTTGGTGGGA 57.078 52.632 0.00 0.00 0.00 4.37
1678 6393 2.169769 TCTACAATGGCGGGGTAAAGAG 59.830 50.000 0.00 0.00 0.00 2.85
1720 6435 4.280436 TCCATCCAATGTGTTCTTACGT 57.720 40.909 0.00 0.00 0.00 3.57
1733 6448 1.148310 CTTACGTGTGAAGCAGTGGG 58.852 55.000 0.00 0.00 0.00 4.61
1734 6449 0.882927 TTACGTGTGAAGCAGTGGGC 60.883 55.000 0.00 0.00 45.30 5.36
1756 6471 3.374367 CGAGTCAGATCGAGGACAAACTA 59.626 47.826 14.60 0.00 45.56 2.24
1765 6480 2.354704 CGAGGACAAACTAGGCCATGAA 60.355 50.000 5.01 0.00 0.00 2.57
1806 6521 1.858091 CACGATGGTGGTAGATCTGC 58.142 55.000 5.18 3.29 40.58 4.26
1822 6537 3.717400 TCTGCGCTATGAAGGTAGAAG 57.283 47.619 9.73 0.00 0.00 2.85
1832 6547 5.568620 ATGAAGGTAGAAGTTGTGAGGTT 57.431 39.130 0.00 0.00 0.00 3.50
1870 6774 1.673920 TCCGCTCAACTGGTTTGTTTC 59.326 47.619 0.00 0.00 36.49 2.78
2817 7834 0.996762 AGAACCCACCCAAGACCCAA 60.997 55.000 0.00 0.00 0.00 4.12
2972 7992 2.818714 CGCCAGCAGGAGAAGCAG 60.819 66.667 0.00 0.00 36.74 4.24
2973 7993 3.132801 GCCAGCAGGAGAAGCAGC 61.133 66.667 0.00 0.00 36.89 5.25
2974 7994 2.350134 CCAGCAGGAGAAGCAGCA 59.650 61.111 0.00 0.00 36.89 4.41
2975 7995 1.745864 CCAGCAGGAGAAGCAGCAG 60.746 63.158 0.00 0.00 36.89 4.24
2976 7996 2.046120 AGCAGGAGAAGCAGCAGC 60.046 61.111 0.00 0.00 42.56 5.25
3092 8112 2.281070 GTGGCGGCCGATGATGAT 60.281 61.111 33.48 0.00 0.00 2.45
3098 8121 0.891373 CGGCCGATGATGATAGGAGT 59.109 55.000 24.07 0.00 0.00 3.85
3197 8220 4.821589 GAGGACGAGGCCAAGGCG 62.822 72.222 5.01 5.57 43.06 5.52
3263 8286 0.471617 CTCGCCTCCCTCCATCAATT 59.528 55.000 0.00 0.00 0.00 2.32
3272 8295 0.465097 CTCCATCAATTCAGCCCGCT 60.465 55.000 0.00 0.00 0.00 5.52
3291 8314 2.539750 GCTTCGATTCCGATTTCTTGCC 60.540 50.000 0.00 0.00 45.10 4.52
3292 8315 2.394930 TCGATTCCGATTTCTTGCCA 57.605 45.000 0.00 0.00 40.30 4.92
3308 8331 1.828331 GCCACTCGTTGACGTGTTCC 61.828 60.000 8.33 0.47 43.06 3.62
3314 8337 1.002250 CGTTGACGTGTTCCTCCTCG 61.002 60.000 0.00 0.00 34.11 4.63
3315 8338 0.031721 GTTGACGTGTTCCTCCTCGT 59.968 55.000 0.00 0.00 39.21 4.18
3316 8339 4.863984 GACGTGTTCCTCCTCGTC 57.136 61.111 0.00 0.00 43.81 4.20
3317 8340 2.255430 GACGTGTTCCTCCTCGTCT 58.745 57.895 0.00 0.00 45.69 4.18
3392 8415 1.811266 CCACGAGAACGCCCATCTG 60.811 63.158 0.00 0.00 43.96 2.90
3433 8456 2.158519 TCCGCCTTTTCTTTTCCTCCTT 60.159 45.455 0.00 0.00 0.00 3.36
3491 8517 4.831307 GCCGATCTCGTCACGCGT 62.831 66.667 5.58 5.58 42.13 6.01
3502 8528 3.753434 CACGCGTCCTCCTCTGCT 61.753 66.667 9.86 0.00 0.00 4.24
3584 8617 1.086696 CTTGATCGCAAATCGGTGGT 58.913 50.000 0.00 0.00 39.05 4.16
3725 8760 0.398381 AGGTGATGAGCTCTCCTCCC 60.398 60.000 16.19 8.43 42.94 4.30
3728 8763 2.123077 ATGAGCTCTCCTCCCCCG 60.123 66.667 16.19 0.00 39.98 5.73
3735 8770 0.830023 CTCTCCTCCCCCGAATCTCC 60.830 65.000 0.00 0.00 0.00 3.71
3780 8819 3.252484 CCGTTCGATCCGGTTCGC 61.252 66.667 26.43 14.53 40.59 4.70
3787 8826 0.457166 CGATCCGGTTCGCTGTTACA 60.457 55.000 21.00 0.00 31.60 2.41
3799 8838 2.795121 CTGTTACAGCGCAGTGATTC 57.205 50.000 16.48 3.93 0.00 2.52
3805 8844 1.078848 AGCGCAGTGATTCCCTGTC 60.079 57.895 11.47 0.00 32.41 3.51
3828 8867 3.143675 TTGCGGTGCAATCTCTCTC 57.856 52.632 0.00 0.00 43.99 3.20
4059 9116 3.610669 CGAGGGGCGGAGATGGAG 61.611 72.222 0.00 0.00 36.03 3.86
4201 9261 1.604593 GCACCACCACCAGCAGAAT 60.605 57.895 0.00 0.00 0.00 2.40
4381 9445 1.004918 AGTTGAGGCGTGCTGGTAC 60.005 57.895 0.00 0.00 0.00 3.34
4382 9446 1.004918 GTTGAGGCGTGCTGGTACT 60.005 57.895 0.00 0.00 0.00 2.73
4383 9447 0.245539 GTTGAGGCGTGCTGGTACTA 59.754 55.000 0.00 0.00 0.00 1.82
4387 9451 2.582498 GCGTGCTGGTACTAGCGG 60.582 66.667 24.04 19.20 46.61 5.52
4388 9452 2.882876 CGTGCTGGTACTAGCGGT 59.117 61.111 24.04 0.00 46.61 5.68
4389 9453 1.996786 GCGTGCTGGTACTAGCGGTA 61.997 60.000 24.04 6.20 46.61 4.02
4448 9513 2.712057 CTTGGAATTTTGCGAGCTGT 57.288 45.000 0.00 0.00 0.00 4.40
4489 9554 2.577593 GAGGTAGTGCCGGTGGTC 59.422 66.667 1.90 0.00 43.70 4.02
4504 9575 4.331168 CCGGTGGTCGTATACTAGTATAGC 59.669 50.000 20.62 13.06 38.76 2.97
4520 9591 2.723322 TAGCGGTAGAACTCCAGCTA 57.277 50.000 0.00 0.00 36.68 3.32
4521 9592 1.848652 AGCGGTAGAACTCCAGCTAA 58.151 50.000 0.00 0.00 34.84 3.09
4652 9735 2.979678 AGTGGGTTAGTGTGTTCATCCT 59.020 45.455 0.00 0.00 0.00 3.24
4657 9740 5.300792 TGGGTTAGTGTGTTCATCCTTTTTC 59.699 40.000 0.00 0.00 0.00 2.29
4664 9758 5.748630 GTGTGTTCATCCTTTTTCTTTGACC 59.251 40.000 0.00 0.00 0.00 4.02
4684 9778 9.887406 TTTGACCTTTTGAAATCGTATTAGAAC 57.113 29.630 0.00 0.00 0.00 3.01
4687 9781 9.704098 GACCTTTTGAAATCGTATTAGAACATC 57.296 33.333 0.00 0.00 0.00 3.06
4688 9782 9.449719 ACCTTTTGAAATCGTATTAGAACATCT 57.550 29.630 0.00 0.00 0.00 2.90
4689 9783 9.708222 CCTTTTGAAATCGTATTAGAACATCTG 57.292 33.333 0.00 0.00 0.00 2.90
4706 9800 6.849085 ACATCTGTTCATCTTGAGACTAGT 57.151 37.500 0.00 0.00 0.00 2.57
4708 9802 8.354711 ACATCTGTTCATCTTGAGACTAGTAA 57.645 34.615 0.00 0.00 0.00 2.24
4710 9804 6.857956 TCTGTTCATCTTGAGACTAGTAAGC 58.142 40.000 0.00 0.00 0.00 3.09
4723 9817 2.887151 AGTAAGCTTGGCACTCCATT 57.113 45.000 9.86 0.00 43.05 3.16
4751 9994 3.072330 TGGTTAGCACTTCTCATCACCAA 59.928 43.478 0.00 0.00 30.01 3.67
4752 9995 4.263462 TGGTTAGCACTTCTCATCACCAAT 60.263 41.667 0.00 0.00 30.01 3.16
4754 9997 5.163713 GGTTAGCACTTCTCATCACCAATTC 60.164 44.000 0.00 0.00 0.00 2.17
4756 9999 4.597004 AGCACTTCTCATCACCAATTCAT 58.403 39.130 0.00 0.00 0.00 2.57
4757 10000 4.639310 AGCACTTCTCATCACCAATTCATC 59.361 41.667 0.00 0.00 0.00 2.92
4758 10001 4.397103 GCACTTCTCATCACCAATTCATCA 59.603 41.667 0.00 0.00 0.00 3.07
4760 10003 6.261603 GCACTTCTCATCACCAATTCATCATA 59.738 38.462 0.00 0.00 0.00 2.15
4762 10005 6.481313 ACTTCTCATCACCAATTCATCATACG 59.519 38.462 0.00 0.00 0.00 3.06
4764 10007 3.814842 TCATCACCAATTCATCATACGGC 59.185 43.478 0.00 0.00 0.00 5.68
4765 10008 3.558931 TCACCAATTCATCATACGGCT 57.441 42.857 0.00 0.00 0.00 5.52
4766 10009 3.884895 TCACCAATTCATCATACGGCTT 58.115 40.909 0.00 0.00 0.00 4.35
4767 10010 3.627123 TCACCAATTCATCATACGGCTTG 59.373 43.478 0.00 0.00 0.00 4.01
4780 10094 0.168788 CGGCTTGAAATCGTGTGCAT 59.831 50.000 0.00 0.00 0.00 3.96
4781 10095 1.396648 CGGCTTGAAATCGTGTGCATA 59.603 47.619 0.00 0.00 0.00 3.14
4784 10098 3.119849 GGCTTGAAATCGTGTGCATAGTT 60.120 43.478 0.00 0.00 0.00 2.24
4785 10099 4.094294 GGCTTGAAATCGTGTGCATAGTTA 59.906 41.667 0.00 0.00 0.00 2.24
4786 10100 5.258622 GCTTGAAATCGTGTGCATAGTTAG 58.741 41.667 0.00 0.00 0.00 2.34
4787 10101 5.163854 GCTTGAAATCGTGTGCATAGTTAGT 60.164 40.000 0.00 0.00 0.00 2.24
4788 10102 6.035650 GCTTGAAATCGTGTGCATAGTTAGTA 59.964 38.462 0.00 0.00 0.00 1.82
4793 10107 3.442625 TCGTGTGCATAGTTAGTAGTGCT 59.557 43.478 0.00 0.00 38.37 4.40
4794 10108 4.082408 TCGTGTGCATAGTTAGTAGTGCTT 60.082 41.667 0.00 0.00 38.37 3.91
4795 10109 4.265556 CGTGTGCATAGTTAGTAGTGCTTC 59.734 45.833 0.00 0.00 38.37 3.86
4796 10110 5.411781 GTGTGCATAGTTAGTAGTGCTTCT 58.588 41.667 0.00 0.00 38.37 2.85
4798 10112 5.185056 TGTGCATAGTTAGTAGTGCTTCTCA 59.815 40.000 0.00 0.00 38.37 3.27
4799 10113 5.517054 GTGCATAGTTAGTAGTGCTTCTCAC 59.483 44.000 0.00 0.00 45.98 3.51
4802 10116 6.684111 GCATAGTTAGTAGTGCTTCTCACCAT 60.684 42.308 0.00 0.00 46.81 3.55
4803 10117 7.470147 GCATAGTTAGTAGTGCTTCTCACCATA 60.470 40.741 0.00 0.00 46.81 2.74
4804 10118 6.210287 AGTTAGTAGTGCTTCTCACCATAC 57.790 41.667 0.00 0.00 46.81 2.39
4805 10119 3.784701 AGTAGTGCTTCTCACCATACG 57.215 47.619 0.00 0.00 46.81 3.06
4806 10120 3.090037 AGTAGTGCTTCTCACCATACGT 58.910 45.455 0.00 0.00 46.81 3.57
4807 10121 3.510360 AGTAGTGCTTCTCACCATACGTT 59.490 43.478 0.00 0.00 46.81 3.99
4808 10122 2.688507 AGTGCTTCTCACCATACGTTG 58.311 47.619 0.00 0.00 46.81 4.10
4876 10205 3.868369 GCTTGTGGTGCACCTAAGACATA 60.868 47.826 36.39 22.50 34.84 2.29
4937 10267 7.274904 GGGATACGCAATAACCTTTTCTTTTTC 59.725 37.037 0.00 0.00 37.60 2.29
4938 10268 7.007995 GGATACGCAATAACCTTTTCTTTTTCG 59.992 37.037 0.00 0.00 0.00 3.46
4939 10269 4.443063 ACGCAATAACCTTTTCTTTTTCGC 59.557 37.500 0.00 0.00 0.00 4.70
4940 10270 4.431086 CGCAATAACCTTTTCTTTTTCGCG 60.431 41.667 0.00 0.00 0.00 5.87
4944 10274 0.955905 CCTTTTCTTTTTCGCGGGGA 59.044 50.000 6.13 0.00 0.00 4.81
4945 10275 1.068541 CCTTTTCTTTTTCGCGGGGAG 60.069 52.381 6.13 0.00 0.00 4.30
5046 10381 5.560966 AACAATATCGACAATGACCCAAC 57.439 39.130 0.00 0.00 0.00 3.77
5073 10408 2.854424 GCGCGGCTTACATTACGTACTA 60.854 50.000 8.83 0.00 0.00 1.82
5079 10414 6.399354 GCGGCTTACATTACGTACTATTTAGC 60.399 42.308 0.00 0.62 0.00 3.09
5129 10464 9.391006 GACCTGTGTTACAATATGGATTTAGAA 57.609 33.333 0.00 0.00 0.00 2.10
5213 10548 7.639113 AAATTCTAAACGCATTTATGGGAGA 57.361 32.000 12.97 3.79 42.66 3.71
5223 10558 1.303898 TTATGGGAGATGGGTGCCAA 58.696 50.000 0.00 0.00 41.90 4.52
5258 10593 2.667473 CGGTACACGGAAGAGGATTT 57.333 50.000 0.00 0.00 39.42 2.17
5259 10594 2.268298 CGGTACACGGAAGAGGATTTG 58.732 52.381 0.00 0.00 39.42 2.32
5260 10595 2.353406 CGGTACACGGAAGAGGATTTGT 60.353 50.000 0.00 0.00 39.42 2.83
5261 10596 3.119388 CGGTACACGGAAGAGGATTTGTA 60.119 47.826 0.00 0.00 39.42 2.41
5262 10597 4.430908 GGTACACGGAAGAGGATTTGTAG 58.569 47.826 0.00 0.00 0.00 2.74
5263 10598 2.973945 ACACGGAAGAGGATTTGTAGC 58.026 47.619 0.00 0.00 0.00 3.58
5264 10599 2.301870 ACACGGAAGAGGATTTGTAGCA 59.698 45.455 0.00 0.00 0.00 3.49
5265 10600 2.673368 CACGGAAGAGGATTTGTAGCAC 59.327 50.000 0.00 0.00 0.00 4.40
5266 10601 2.280628 CGGAAGAGGATTTGTAGCACC 58.719 52.381 0.00 0.00 0.00 5.01
5376 10713 2.416547 CTGTGTGCCCAATCTACTTTCG 59.583 50.000 0.00 0.00 0.00 3.46
5381 10718 2.037902 TGCCCAATCTACTTTCGTGTCA 59.962 45.455 0.00 0.00 0.00 3.58
5424 10769 3.915437 AACGTATCTGTGGCAAAAAGG 57.085 42.857 0.00 0.00 0.00 3.11
5438 10783 5.941733 GGCAAAAAGGCAAAATTCTTATGG 58.058 37.500 0.00 0.00 43.51 2.74
5475 10821 7.176690 ACAGTTTGGATGAATTTTAGTTCGGAT 59.823 33.333 0.00 0.00 0.00 4.18
5527 10873 9.581289 TTCCTGGTATTTTTCTATGAAACTTCA 57.419 29.630 0.00 0.00 42.14 3.02
5536 10882 9.753674 TTTTTCTATGAAACTTCATATGGGAGT 57.246 29.630 11.58 4.96 45.95 3.85
5539 10885 9.832445 TTCTATGAAACTTCATATGGGAGTAAC 57.168 33.333 11.58 9.60 45.95 2.50
5540 10886 9.213777 TCTATGAAACTTCATATGGGAGTAACT 57.786 33.333 11.58 2.71 45.95 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 9.158364 GTTTCACATTGTTATATCATTAGCGTG 57.842 33.333 0.00 0.00 0.00 5.34
24 25 7.502226 TCTTTGTTCATAGAGGTTTCACATTGT 59.498 33.333 0.00 0.00 0.00 2.71
25 26 7.874940 TCTTTGTTCATAGAGGTTTCACATTG 58.125 34.615 0.00 0.00 0.00 2.82
26 27 8.352942 GTTCTTTGTTCATAGAGGTTTCACATT 58.647 33.333 0.00 0.00 0.00 2.71
205 216 4.613944 TGATCGTTACGTTCACAGAAAGT 58.386 39.130 13.55 3.99 31.91 2.66
208 219 3.427528 GCTTGATCGTTACGTTCACAGAA 59.572 43.478 16.61 3.45 35.72 3.02
212 223 4.164294 AGTAGCTTGATCGTTACGTTCAC 58.836 43.478 16.61 7.89 35.72 3.18
360 378 4.582240 AGTCAAGATCGTCATCATCTAGCA 59.418 41.667 0.00 0.00 29.97 3.49
442 460 2.118403 CCATAGTGGAGTATGGGGGT 57.882 55.000 11.42 0.00 44.12 4.95
463 481 2.202676 GCTCCGAAGAGTGGCTCG 60.203 66.667 0.00 0.00 42.59 5.03
479 498 3.503363 TGACAATGGTCTTGTGAAGATGC 59.497 43.478 1.02 0.00 44.61 3.91
502 521 1.606668 GAAGTTTGCCGTCCATTGTGA 59.393 47.619 0.00 0.00 0.00 3.58
600 626 4.855531 ACGCTTTGTGTACTTTTCCATTC 58.144 39.130 0.00 0.00 0.00 2.67
607 633 4.817464 TGTCCATTACGCTTTGTGTACTTT 59.183 37.500 0.00 0.00 0.00 2.66
638 665 4.978099 GATCAAGTGATCCCATGGTATGT 58.022 43.478 11.73 0.00 43.85 2.29
667 694 1.527793 GCAAAGCGTAGAAGATGCACG 60.528 52.381 0.00 0.00 43.13 5.34
715 744 6.818644 TGATACAAGGTTGATCAAGACTAAGC 59.181 38.462 8.80 0.00 0.00 3.09
819 848 3.057736 CACAGGCATTTCTTGAAGTCCAG 60.058 47.826 0.00 0.00 0.00 3.86
839 869 8.956426 TGAGTTATATTTGAAGGATTTGTCCAC 58.044 33.333 0.00 0.00 0.00 4.02
915 945 2.359900 GTGAAAGAGTATGGTGCCCAG 58.640 52.381 0.41 0.00 36.75 4.45
1064 5777 3.570550 AGTCGAAGGGAGTATGTAGATGC 59.429 47.826 0.00 0.00 0.00 3.91
1152 5865 6.582295 GTGGCAGTTTGTGTGATATAAACAAG 59.418 38.462 4.60 0.00 41.31 3.16
1161 5874 0.465460 ACGGTGGCAGTTTGTGTGAT 60.465 50.000 0.00 0.00 0.00 3.06
1240 5954 7.022979 TGCTTTGATCAAAAACATCTCGTATG 58.977 34.615 20.82 6.60 0.00 2.39
1258 5972 6.494842 GCGGTTATAGAAATTCATGCTTTGA 58.505 36.000 0.00 0.00 0.00 2.69
1280 5994 1.071071 TGATCCCTATTTAACCCCGCG 59.929 52.381 0.00 0.00 0.00 6.46
1360 6074 2.866750 CACTTATTGGTGCGCGCA 59.133 55.556 33.09 33.09 0.00 6.09
1370 6084 4.032960 TGTTGGATCTGGTGCACTTATT 57.967 40.909 17.98 0.00 0.00 1.40
1371 6085 3.719268 TGTTGGATCTGGTGCACTTAT 57.281 42.857 17.98 7.79 0.00 1.73
1381 6095 3.244146 TGGTGCCATTTTTGTTGGATCTG 60.244 43.478 0.00 0.00 36.26 2.90
1409 6123 2.483889 GGAATCGGTTGGGAGAGATCAC 60.484 54.545 0.00 0.00 0.00 3.06
1431 6145 5.045432 ACGGGACATTATGGAAAGAAGGTTA 60.045 40.000 0.00 0.00 0.00 2.85
1438 6152 3.275617 TCCACGGGACATTATGGAAAG 57.724 47.619 0.00 0.00 0.00 2.62
1513 6227 6.371548 CCCGATTCAACAAGAAATCTGAGTAA 59.628 38.462 0.00 0.00 40.22 2.24
1522 6236 4.261801 GAGGATCCCGATTCAACAAGAAA 58.738 43.478 8.55 0.00 40.22 2.52
1610 6324 2.224257 TGCTCTTTTTCCCACCAAATGC 60.224 45.455 0.00 0.00 0.00 3.56
1613 6327 2.745968 AGTGCTCTTTTTCCCACCAAA 58.254 42.857 0.00 0.00 0.00 3.28
1641 6355 9.241317 GCCATTGTAGAAATTGTTGATTATCTG 57.759 33.333 0.00 0.00 0.00 2.90
1642 6356 8.131100 CGCCATTGTAGAAATTGTTGATTATCT 58.869 33.333 0.00 0.00 0.00 1.98
1643 6357 7.379529 CCGCCATTGTAGAAATTGTTGATTATC 59.620 37.037 0.00 0.00 0.00 1.75
1644 6358 7.202526 CCGCCATTGTAGAAATTGTTGATTAT 58.797 34.615 0.00 0.00 0.00 1.28
1645 6359 6.405286 CCCGCCATTGTAGAAATTGTTGATTA 60.405 38.462 0.00 0.00 0.00 1.75
1646 6360 5.410067 CCGCCATTGTAGAAATTGTTGATT 58.590 37.500 0.00 0.00 0.00 2.57
1648 6362 3.192422 CCCGCCATTGTAGAAATTGTTGA 59.808 43.478 0.00 0.00 0.00 3.18
1650 6364 2.495669 CCCCGCCATTGTAGAAATTGTT 59.504 45.455 0.00 0.00 0.00 2.83
1652 6366 2.099405 ACCCCGCCATTGTAGAAATTG 58.901 47.619 0.00 0.00 0.00 2.32
1661 6376 0.751643 CCCTCTTTACCCCGCCATTG 60.752 60.000 0.00 0.00 0.00 2.82
1720 6435 2.031012 CTCGCCCACTGCTTCACA 59.969 61.111 0.00 0.00 38.05 3.58
1733 6448 0.452184 TTGTCCTCGATCTGACTCGC 59.548 55.000 10.15 0.00 38.52 5.03
1734 6449 2.162608 AGTTTGTCCTCGATCTGACTCG 59.837 50.000 10.15 3.99 39.99 4.18
1756 6471 0.324645 GGTTGGGTGATTCATGGCCT 60.325 55.000 3.32 0.00 0.00 5.19
1765 6480 1.381867 TCCTTGATGGGTTGGGTGAT 58.618 50.000 0.00 0.00 36.20 3.06
1806 6521 4.744570 TCACAACTTCTACCTTCATAGCG 58.255 43.478 0.00 0.00 0.00 4.26
1822 6537 3.187842 CGGCCTAAAAGTAACCTCACAAC 59.812 47.826 0.00 0.00 0.00 3.32
1832 6547 2.242797 GACGGGCCGGCCTAAAAGTA 62.243 60.000 42.70 0.00 36.10 2.24
2894 7911 4.115199 AGAATGGCGGCCACCTCC 62.115 66.667 26.48 13.30 35.80 4.30
3076 8096 1.293179 CTATCATCATCGGCCGCCA 59.707 57.895 23.51 4.04 0.00 5.69
3085 8105 1.898472 CGCCCTCACTCCTATCATCAT 59.102 52.381 0.00 0.00 0.00 2.45
3092 8112 3.138798 GCGACGCCCTCACTCCTA 61.139 66.667 9.14 0.00 0.00 2.94
3197 8220 4.681978 ACCTTGTCCTGCGCGGTC 62.682 66.667 16.49 11.56 0.00 4.79
3245 8268 0.469917 GAATTGATGGAGGGAGGCGA 59.530 55.000 0.00 0.00 0.00 5.54
3257 8280 0.107703 TCGAAGCGGGCTGAATTGAT 60.108 50.000 0.00 0.00 0.00 2.57
3258 8281 0.107703 ATCGAAGCGGGCTGAATTGA 60.108 50.000 0.00 0.00 0.00 2.57
3263 8286 2.186903 GGAATCGAAGCGGGCTGA 59.813 61.111 0.00 0.00 0.00 4.26
3291 8314 1.129326 GAGGAACACGTCAACGAGTG 58.871 55.000 9.88 0.54 41.97 3.51
3292 8315 0.031721 GGAGGAACACGTCAACGAGT 59.968 55.000 9.88 4.55 44.50 4.18
3308 8331 0.682855 AGGCAGAGGAAGACGAGGAG 60.683 60.000 0.00 0.00 0.00 3.69
3314 8337 1.620819 TGAACAGAGGCAGAGGAAGAC 59.379 52.381 0.00 0.00 0.00 3.01
3315 8338 1.898472 CTGAACAGAGGCAGAGGAAGA 59.102 52.381 0.00 0.00 34.06 2.87
3316 8339 1.622811 ACTGAACAGAGGCAGAGGAAG 59.377 52.381 8.87 0.00 36.07 3.46
3317 8340 1.345741 CACTGAACAGAGGCAGAGGAA 59.654 52.381 8.87 0.00 36.07 3.36
3491 8517 0.267054 ATCCATGGAGCAGAGGAGGA 59.733 55.000 21.33 0.00 32.91 3.71
3698 8733 0.392729 AGCTCATCACCTTGCTCTGC 60.393 55.000 0.00 0.00 0.00 4.26
3719 8754 2.123425 CGGAGATTCGGGGGAGGA 60.123 66.667 0.00 0.00 0.00 3.71
3725 8760 1.589196 GTTCGAGCGGAGATTCGGG 60.589 63.158 0.00 0.00 36.92 5.14
3728 8763 0.173708 ACTGGTTCGAGCGGAGATTC 59.826 55.000 4.29 0.00 0.00 2.52
3780 8819 1.394917 GGAATCACTGCGCTGTAACAG 59.605 52.381 20.04 7.83 39.86 3.16
3787 8826 1.078848 GACAGGGAATCACTGCGCT 60.079 57.895 13.18 0.00 39.55 5.92
3789 8828 1.363744 GAAGACAGGGAATCACTGCG 58.636 55.000 13.18 0.00 39.55 5.18
3790 8829 1.280421 AGGAAGACAGGGAATCACTGC 59.720 52.381 13.18 5.64 39.55 4.40
3827 8866 0.901114 TTGAATCGGGGAGTCCACGA 60.901 55.000 37.08 37.08 39.05 4.35
3828 8867 0.178068 ATTGAATCGGGGAGTCCACG 59.822 55.000 28.46 28.46 34.36 4.94
4039 9093 2.835431 CATCTCCGCCCCTCGTCT 60.835 66.667 0.00 0.00 36.19 4.18
4189 9249 1.654954 GCTGCTGATTCTGCTGGTGG 61.655 60.000 19.08 6.61 0.00 4.61
4300 9360 0.173708 CCGCGCTCTATCCTTATCCC 59.826 60.000 5.56 0.00 0.00 3.85
4387 9451 2.029623 TCTTGATCTAGCACGGGGTAC 58.970 52.381 0.00 0.00 0.00 3.34
4388 9452 2.307768 CTCTTGATCTAGCACGGGGTA 58.692 52.381 0.00 0.00 0.00 3.69
4389 9453 1.115467 CTCTTGATCTAGCACGGGGT 58.885 55.000 0.00 0.00 0.00 4.95
4399 9463 1.153745 GGCGTCGCACTCTTGATCT 60.154 57.895 20.50 0.00 0.00 2.75
4425 9489 1.986698 CTCGCAAAATTCCAAGCCAG 58.013 50.000 0.00 0.00 0.00 4.85
4445 9510 2.096496 GCTCGTCCATGGAAAATCACAG 59.904 50.000 18.20 5.80 0.00 3.66
4448 9513 2.358957 CAGCTCGTCCATGGAAAATCA 58.641 47.619 18.20 0.00 0.00 2.57
4482 9547 4.032217 CGCTATACTAGTATACGACCACCG 59.968 50.000 24.90 13.92 45.44 4.94
4489 9554 7.221838 GGAGTTCTACCGCTATACTAGTATACG 59.778 44.444 23.55 23.55 0.00 3.06
4504 9575 4.189639 ACTTTTAGCTGGAGTTCTACCG 57.810 45.455 0.00 0.00 0.00 4.02
4520 9591 6.403866 TTGCCAACAGATGATACAACTTTT 57.596 33.333 0.00 0.00 0.00 2.27
4521 9592 6.594788 ATTGCCAACAGATGATACAACTTT 57.405 33.333 0.00 0.00 0.00 2.66
4601 9679 6.058833 ACGCCATAATGAACACATAATACCA 58.941 36.000 0.00 0.00 0.00 3.25
4612 9690 5.351465 CCCACTCATATACGCCATAATGAAC 59.649 44.000 0.00 0.00 0.00 3.18
4652 9735 9.810545 ATACGATTTCAAAAGGTCAAAGAAAAA 57.189 25.926 0.00 0.00 32.65 1.94
4684 9778 7.434897 GCTTACTAGTCTCAAGATGAACAGATG 59.565 40.741 0.00 0.00 0.00 2.90
4687 9781 6.862209 AGCTTACTAGTCTCAAGATGAACAG 58.138 40.000 0.00 0.00 0.00 3.16
4688 9782 6.842437 AGCTTACTAGTCTCAAGATGAACA 57.158 37.500 0.00 0.00 0.00 3.18
4689 9783 6.533367 CCAAGCTTACTAGTCTCAAGATGAAC 59.467 42.308 0.00 0.00 0.00 3.18
4692 9786 4.808364 GCCAAGCTTACTAGTCTCAAGATG 59.192 45.833 0.00 1.41 0.00 2.90
4693 9787 4.467795 TGCCAAGCTTACTAGTCTCAAGAT 59.532 41.667 0.00 0.00 0.00 2.40
4695 9789 3.929610 GTGCCAAGCTTACTAGTCTCAAG 59.070 47.826 0.00 0.00 0.00 3.02
4696 9790 3.578716 AGTGCCAAGCTTACTAGTCTCAA 59.421 43.478 0.00 0.00 0.00 3.02
4697 9791 3.165875 AGTGCCAAGCTTACTAGTCTCA 58.834 45.455 0.00 0.00 0.00 3.27
4698 9792 3.429684 GGAGTGCCAAGCTTACTAGTCTC 60.430 52.174 0.00 3.12 0.00 3.36
4699 9793 2.498078 GGAGTGCCAAGCTTACTAGTCT 59.502 50.000 0.00 0.00 0.00 3.24
4700 9794 2.233922 TGGAGTGCCAAGCTTACTAGTC 59.766 50.000 0.00 0.56 42.49 2.59
4701 9795 2.257207 TGGAGTGCCAAGCTTACTAGT 58.743 47.619 0.00 0.00 42.49 2.57
4723 9817 4.617253 TGAGAAGTGCTAACCAAAGCTA 57.383 40.909 0.00 0.00 43.19 3.32
4751 9994 4.816385 ACGATTTCAAGCCGTATGATGAAT 59.184 37.500 0.00 0.00 34.52 2.57
4752 9995 4.033932 CACGATTTCAAGCCGTATGATGAA 59.966 41.667 0.00 0.00 34.91 2.57
4754 9997 3.309682 ACACGATTTCAAGCCGTATGATG 59.690 43.478 0.00 0.00 34.91 3.07
4756 9999 2.670905 CACACGATTTCAAGCCGTATGA 59.329 45.455 0.00 0.00 33.13 2.15
4757 10000 2.787723 GCACACGATTTCAAGCCGTATG 60.788 50.000 0.00 0.00 34.31 2.39
4758 10001 1.396996 GCACACGATTTCAAGCCGTAT 59.603 47.619 0.00 0.00 34.91 3.06
4760 10003 1.163420 TGCACACGATTTCAAGCCGT 61.163 50.000 0.00 0.00 36.95 5.68
4762 10005 2.420022 ACTATGCACACGATTTCAAGCC 59.580 45.455 0.00 0.00 0.00 4.35
4764 10007 6.408858 ACTAACTATGCACACGATTTCAAG 57.591 37.500 0.00 0.00 0.00 3.02
4765 10008 7.062956 CACTACTAACTATGCACACGATTTCAA 59.937 37.037 0.00 0.00 0.00 2.69
4766 10009 6.530181 CACTACTAACTATGCACACGATTTCA 59.470 38.462 0.00 0.00 0.00 2.69
4767 10010 6.508088 GCACTACTAACTATGCACACGATTTC 60.508 42.308 0.00 0.00 38.00 2.17
4780 10094 6.037940 CGTATGGTGAGAAGCACTACTAACTA 59.962 42.308 0.00 0.00 46.86 2.24
4781 10095 5.163642 CGTATGGTGAGAAGCACTACTAACT 60.164 44.000 0.00 0.00 46.86 2.24
4784 10098 4.267536 ACGTATGGTGAGAAGCACTACTA 58.732 43.478 0.00 0.00 46.86 1.82
4785 10099 3.090037 ACGTATGGTGAGAAGCACTACT 58.910 45.455 0.00 0.00 46.86 2.57
4786 10100 3.505464 ACGTATGGTGAGAAGCACTAC 57.495 47.619 0.00 0.00 46.86 2.73
4787 10101 3.368013 CCAACGTATGGTGAGAAGCACTA 60.368 47.826 0.14 0.00 46.86 2.74
4788 10102 2.612972 CCAACGTATGGTGAGAAGCACT 60.613 50.000 0.14 0.00 46.86 4.40
4820 10134 2.225963 GTCCGACGTATGGTCTCCATAG 59.774 54.545 8.52 6.32 45.76 2.23
4823 10137 0.034767 AGTCCGACGTATGGTCTCCA 60.035 55.000 6.24 0.00 43.79 3.86
4905 10235 3.199071 AGGTTATTGCGTATCCCTGTCAA 59.801 43.478 0.00 0.00 0.00 3.18
4918 10248 4.143410 CCGCGAAAAAGAAAAGGTTATTGC 60.143 41.667 8.23 0.00 0.00 3.56
4937 10267 3.423154 GTTCTTGTGCTCCCCGCG 61.423 66.667 0.00 0.00 43.27 6.46
4938 10268 3.056328 GGTTCTTGTGCTCCCCGC 61.056 66.667 0.00 0.00 39.77 6.13
4939 10269 2.725203 TTCGGTTCTTGTGCTCCCCG 62.725 60.000 0.00 0.00 36.83 5.73
4940 10270 1.072505 TTCGGTTCTTGTGCTCCCC 59.927 57.895 0.00 0.00 0.00 4.81
4944 10274 8.500753 TTTTATATATGTTCGGTTCTTGTGCT 57.499 30.769 0.00 0.00 0.00 4.40
4945 10275 9.730420 AATTTTATATATGTTCGGTTCTTGTGC 57.270 29.630 0.00 0.00 0.00 4.57
5035 10370 1.733389 GCGCTTCATGTTGGGTCATTG 60.733 52.381 0.00 0.00 0.00 2.82
5046 10381 0.378257 AATGTAAGCCGCGCTTCATG 59.622 50.000 16.96 0.00 46.77 3.07
5073 10408 8.871686 AAAAAGAGACAAAATCAACGCTAAAT 57.128 26.923 0.00 0.00 0.00 1.40
5194 10529 4.216257 CCCATCTCCCATAAATGCGTTTAG 59.784 45.833 15.88 4.75 33.57 1.85
5199 10534 1.881973 CACCCATCTCCCATAAATGCG 59.118 52.381 0.00 0.00 0.00 4.73
5223 10558 2.272146 CGGGGCTTATGGTGTGCT 59.728 61.111 0.00 0.00 0.00 4.40
5248 10583 3.274288 CCAGGTGCTACAAATCCTCTTC 58.726 50.000 0.00 0.00 0.00 2.87
5412 10752 3.883669 AGAATTTTGCCTTTTTGCCACA 58.116 36.364 0.00 0.00 0.00 4.17
5447 10792 7.651704 CCGAACTAAAATTCATCCAAACTGTTT 59.348 33.333 0.00 0.00 0.00 2.83
5450 10795 6.908825 TCCGAACTAAAATTCATCCAAACTG 58.091 36.000 0.00 0.00 0.00 3.16
5451 10796 7.703058 ATCCGAACTAAAATTCATCCAAACT 57.297 32.000 0.00 0.00 0.00 2.66
5452 10797 7.812669 ACAATCCGAACTAAAATTCATCCAAAC 59.187 33.333 0.00 0.00 0.00 2.93
5475 10821 8.731275 ATGTATCCATGACGAAGAAAATACAA 57.269 30.769 0.00 0.00 33.52 2.41
5484 10830 4.512944 CCAGGAAATGTATCCATGACGAAG 59.487 45.833 0.00 0.00 42.27 3.79
5527 10873 2.174854 GGTGCCCAAGTTACTCCCATAT 59.825 50.000 0.00 0.00 0.00 1.78
5528 10874 1.562475 GGTGCCCAAGTTACTCCCATA 59.438 52.381 0.00 0.00 0.00 2.74
5529 10875 0.331616 GGTGCCCAAGTTACTCCCAT 59.668 55.000 0.00 0.00 0.00 4.00
5531 10877 1.001269 GGGTGCCCAAGTTACTCCC 60.001 63.158 1.66 0.00 35.81 4.30
5532 10878 1.765074 TGGGTGCCCAAGTTACTCC 59.235 57.895 7.63 0.00 44.12 3.85


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

AutoCloner maintained by Alex Coulton.