Multiple sequence alignment - TraesCS6A01G371300

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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 TraesCS6A01G371300 chr6A 100.000 4664 0 0 1 4664 595623970 595628633 0.000000e+00 8613.0
1 TraesCS6A01G371300 chr6D 91.310 3901 223 59 1 3834 450109540 450113391 0.000000e+00 5219.0
2 TraesCS6A01G371300 chr6D 86.620 568 40 20 3998 4552 450113702 450114246 3.110000e-166 595.0
3 TraesCS6A01G371300 chr6D 91.045 67 5 1 3934 3999 450113588 450113654 6.430000e-14 89.8
4 TraesCS6A01G371300 chr6B 89.666 1645 100 32 571 2191 682559994 682561592 0.000000e+00 2032.0
5 TraesCS6A01G371300 chr6B 89.256 1089 85 22 2781 3841 682562347 682563431 0.000000e+00 1334.0
6 TraesCS6A01G371300 chr6B 94.876 683 31 4 2115 2796 682561650 682562329 0.000000e+00 1064.0
7 TraesCS6A01G371300 chr6B 87.101 690 56 19 3999 4664 682563702 682564382 0.000000e+00 750.0
8 TraesCS6A01G371300 chr6B 92.925 424 29 1 1353 1776 591787470 591787048 2.380000e-172 616.0
9 TraesCS6A01G371300 chr6B 92.689 424 30 1 1353 1776 42693887 42694309 1.110000e-170 610.0
10 TraesCS6A01G371300 chr6B 92.453 424 31 1 1353 1776 83635686 83635264 5.160000e-169 604.0
11 TraesCS6A01G371300 chr6B 86.809 561 49 11 1 543 682559343 682559896 1.860000e-168 603.0
12 TraesCS6A01G371300 chr6B 94.805 77 4 0 2115 2191 682561583 682561659 2.280000e-23 121.0
13 TraesCS6A01G371300 chr4B 88.808 688 59 10 1094 1780 591213179 591213849 0.000000e+00 828.0
14 TraesCS6A01G371300 chr4A 89.857 631 57 5 1150 1780 731452997 731452374 0.000000e+00 804.0
15 TraesCS6A01G371300 chr4A 87.887 388 33 7 1094 1480 699840426 699840800 1.190000e-120 444.0
16 TraesCS6A01G371300 chr7B 88.536 567 53 7 1165 1724 18364868 18364307 0.000000e+00 676.0
17 TraesCS6A01G371300 chr1B 92.689 424 30 1 1353 1776 62849310 62848888 1.110000e-170 610.0
18 TraesCS6A01G371300 chr1B 92.689 424 30 1 1353 1776 585229313 585228891 1.110000e-170 610.0
19 TraesCS6A01G371300 chr5B 87.371 388 35 7 1094 1480 34585904 34585530 2.580000e-117 433.0


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 TraesCS6A01G371300 chr6A 595623970 595628633 4663 False 8613.000000 8613 100.000000 1 4664 1 chr6A.!!$F1 4663
1 TraesCS6A01G371300 chr6D 450109540 450114246 4706 False 1967.933333 5219 89.658333 1 4552 3 chr6D.!!$F1 4551
2 TraesCS6A01G371300 chr6B 682559343 682564382 5039 False 984.000000 2032 90.418833 1 4664 6 chr6B.!!$F2 4663
3 TraesCS6A01G371300 chr4B 591213179 591213849 670 False 828.000000 828 88.808000 1094 1780 1 chr4B.!!$F1 686
4 TraesCS6A01G371300 chr4A 731452374 731452997 623 True 804.000000 804 89.857000 1150 1780 1 chr4A.!!$R1 630
5 TraesCS6A01G371300 chr7B 18364307 18364868 561 True 676.000000 676 88.536000 1165 1724 1 chr7B.!!$R1 559

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
107 108 0.671781 CTGCAGTTGAGAACGAGGGG 60.672 60.000 5.25 0.0 36.23 4.79 F
263 278 0.803768 CGCGACATCCCTCTGTTCTG 60.804 60.000 0.00 0.0 0.00 3.02 F
1504 1616 0.535102 AGAGGGTGCGTTTTCCTGTG 60.535 55.000 0.00 0.0 0.00 3.66 F
2255 2520 1.349688 TGACCTTCTTGGCGGTGTAAT 59.650 47.619 0.00 0.0 40.22 1.89 F
3543 3863 0.682852 TAACTCACCCGGTCTGTTGG 59.317 55.000 0.00 0.0 0.00 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1265 1368 0.250901 GCAAAGCAGAGGGGTTCAGA 60.251 55.0 0.0 0.0 35.85 3.27 R
1571 1683 0.804989 GCAAGCACGCAAACCTCTAT 59.195 50.0 0.0 0.0 0.00 1.98 R
3301 3606 0.250727 GAGTTAAGGTGCCAGTGCCA 60.251 55.0 0.0 0.0 36.33 4.92 R
3591 3911 0.539438 AGTCGCCCAATTTTCTGCCA 60.539 50.0 0.0 0.0 0.00 4.92 R
4394 4885 0.109597 CTGAAGGCATGTGTTTCGGC 60.110 55.0 0.0 0.0 0.00 5.54 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
82 83 2.901839 ACCAAGCAAGGCTGAAATCATT 59.098 40.909 0.00 0.00 39.62 2.57
83 84 3.259064 CCAAGCAAGGCTGAAATCATTG 58.741 45.455 0.00 0.00 39.62 2.82
91 92 3.383825 AGGCTGAAATCATTGAATCCTGC 59.616 43.478 0.00 0.99 0.00 4.85
107 108 0.671781 CTGCAGTTGAGAACGAGGGG 60.672 60.000 5.25 0.00 36.23 4.79
129 130 2.335712 GCTCCTGTTTCAAGGCCGG 61.336 63.158 0.00 0.00 37.24 6.13
155 156 1.428448 CGGCGTCTGTGAAATGAGAA 58.572 50.000 0.00 0.00 0.00 2.87
159 160 3.059884 GCGTCTGTGAAATGAGAACTCA 58.940 45.455 6.98 6.98 44.59 3.41
161 162 3.677121 CGTCTGTGAAATGAGAACTCAGG 59.323 47.826 10.26 0.00 43.61 3.86
164 165 2.040278 TGTGAAATGAGAACTCAGGGGG 59.960 50.000 10.26 0.00 43.61 5.40
170 171 3.414759 TGAGAACTCAGGGGGCTTATA 57.585 47.619 0.00 0.00 34.14 0.98
172 173 3.039011 GAGAACTCAGGGGGCTTATACA 58.961 50.000 0.00 0.00 0.00 2.29
173 174 2.772515 AGAACTCAGGGGGCTTATACAC 59.227 50.000 0.00 0.00 0.00 2.90
174 175 2.570386 ACTCAGGGGGCTTATACACT 57.430 50.000 0.00 0.00 0.00 3.55
175 176 2.846950 ACTCAGGGGGCTTATACACTT 58.153 47.619 0.00 0.00 0.00 3.16
176 177 2.505819 ACTCAGGGGGCTTATACACTTG 59.494 50.000 0.00 0.00 0.00 3.16
177 178 2.505819 CTCAGGGGGCTTATACACTTGT 59.494 50.000 0.00 0.00 0.00 3.16
206 207 8.239314 CAGTTTCATGTATCATTACCATATGCC 58.761 37.037 0.00 0.00 0.00 4.40
246 261 3.496884 TGAAACACACTCTGGTAATTCGC 59.503 43.478 0.00 0.00 0.00 4.70
248 263 1.271379 ACACACTCTGGTAATTCGCGA 59.729 47.619 3.71 3.71 0.00 5.87
253 268 2.128035 CTCTGGTAATTCGCGACATCC 58.872 52.381 9.15 10.07 0.00 3.51
263 278 0.803768 CGCGACATCCCTCTGTTCTG 60.804 60.000 0.00 0.00 0.00 3.02
271 286 1.843851 TCCCTCTGTTCTGTGTTGGTT 59.156 47.619 0.00 0.00 0.00 3.67
276 291 4.881850 CCTCTGTTCTGTGTTGGTTTACTT 59.118 41.667 0.00 0.00 0.00 2.24
280 297 9.436957 CTCTGTTCTGTGTTGGTTTACTTATAT 57.563 33.333 0.00 0.00 0.00 0.86
282 299 9.214957 CTGTTCTGTGTTGGTTTACTTATATCA 57.785 33.333 0.00 0.00 0.00 2.15
303 320 6.164408 TCAATCTTGTGTATTTACTGCGTG 57.836 37.500 0.00 0.00 0.00 5.34
306 323 4.878439 TCTTGTGTATTTACTGCGTGTCT 58.122 39.130 0.00 0.00 0.00 3.41
341 358 2.993471 GCCCTGTGAATTGGCACCG 61.993 63.158 0.00 0.00 44.70 4.94
371 388 4.598257 GCTGAAGGTTGCGAGCTA 57.402 55.556 5.98 0.00 32.23 3.32
390 407 3.921257 TGCTCCTCGCATATCCATG 57.079 52.632 0.00 0.00 45.47 3.66
400 417 1.150827 CATATCCATGTCGCGTGCAT 58.849 50.000 5.77 9.59 0.00 3.96
407 424 1.638388 ATGTCGCGTGCATGAACCTG 61.638 55.000 10.93 0.00 0.00 4.00
426 443 1.702401 TGGTCAACAGAAGCATACCCA 59.298 47.619 0.00 0.00 0.00 4.51
460 477 1.048601 GAGGACAGTTGAGGTGGTGA 58.951 55.000 0.00 0.00 0.00 4.02
463 480 2.158755 AGGACAGTTGAGGTGGTGAAAG 60.159 50.000 0.00 0.00 0.00 2.62
489 507 1.591703 CTGTGCGGGTAGAAGCAGA 59.408 57.895 0.00 0.00 44.70 4.26
512 530 7.113404 CAGAACATGTTTGATACTTTGGTTTCG 59.887 37.037 13.36 0.00 0.00 3.46
623 711 4.245660 GTTTAGGGAAAAGGAAGCAATGC 58.754 43.478 0.00 0.00 0.00 3.56
660 748 1.067565 TCTGAGCTCAACAAGGTAGCG 60.068 52.381 18.85 1.75 41.19 4.26
711 799 3.944087 AGACTACATTTGGCCTGTTCTC 58.056 45.455 3.32 0.00 0.00 2.87
728 816 2.402564 TCTCTTCTGGGTGGATCCATC 58.597 52.381 19.62 18.47 36.05 3.51
909 998 1.609208 CCCAACCCAAGTGACAGAAG 58.391 55.000 0.00 0.00 0.00 2.85
940 1029 3.714798 TGACCCACTGGAGTTACTTCTTT 59.285 43.478 0.00 0.00 34.81 2.52
1014 1108 1.971505 TAACCATGCCGCTGCTAGCT 61.972 55.000 17.23 0.00 39.60 3.32
1037 1131 0.888619 GCAGCTAAAACCCTGTTCCC 59.111 55.000 0.00 0.00 0.00 3.97
1038 1132 1.545841 CAGCTAAAACCCTGTTCCCC 58.454 55.000 0.00 0.00 0.00 4.81
1306 1416 6.905578 TGCTACTGTATGTATGTACGTATGG 58.094 40.000 0.00 0.00 31.09 2.74
1309 1419 6.323203 ACTGTATGTATGTACGTATGGACC 57.677 41.667 0.00 0.00 31.09 4.46
1459 1571 4.148825 GCCATCCTCGGCGACAGT 62.149 66.667 4.99 0.00 43.52 3.55
1504 1616 0.535102 AGAGGGTGCGTTTTCCTGTG 60.535 55.000 0.00 0.00 0.00 3.66
1571 1683 5.801350 GTGCATCTGCTGTACTGAAATTA 57.199 39.130 3.61 0.00 42.66 1.40
1615 1727 1.478510 CAGATACAAGAGAGGGTGCGT 59.521 52.381 0.00 0.00 0.00 5.24
1618 1730 2.167398 TACAAGAGAGGGTGCGTGCC 62.167 60.000 0.00 0.00 0.00 5.01
1781 1902 4.193826 TCTGGACAGCTTCAATCAGTAC 57.806 45.455 0.00 0.00 0.00 2.73
1782 1903 3.834813 TCTGGACAGCTTCAATCAGTACT 59.165 43.478 0.00 0.00 0.00 2.73
1783 1904 4.284490 TCTGGACAGCTTCAATCAGTACTT 59.716 41.667 0.00 0.00 0.00 2.24
1784 1905 4.569943 TGGACAGCTTCAATCAGTACTTC 58.430 43.478 0.00 0.00 0.00 3.01
1785 1906 4.040339 TGGACAGCTTCAATCAGTACTTCA 59.960 41.667 0.00 0.00 0.00 3.02
1786 1907 4.629200 GGACAGCTTCAATCAGTACTTCAG 59.371 45.833 0.00 0.00 0.00 3.02
1788 1909 6.346477 ACAGCTTCAATCAGTACTTCAGTA 57.654 37.500 0.00 0.00 0.00 2.74
1789 1910 6.393990 ACAGCTTCAATCAGTACTTCAGTAG 58.606 40.000 0.00 0.00 0.00 2.57
1790 1911 6.015010 ACAGCTTCAATCAGTACTTCAGTAGT 60.015 38.462 0.00 0.00 41.04 2.73
1791 1912 7.176865 ACAGCTTCAATCAGTACTTCAGTAGTA 59.823 37.037 0.00 0.00 38.33 1.82
1792 1913 7.700234 CAGCTTCAATCAGTACTTCAGTAGTAG 59.300 40.741 0.00 0.00 39.98 2.57
1793 1914 6.474102 GCTTCAATCAGTACTTCAGTAGTAGC 59.526 42.308 0.00 0.00 39.98 3.58
1794 1915 7.462571 TTCAATCAGTACTTCAGTAGTAGCA 57.537 36.000 0.00 0.00 39.98 3.49
1795 1916 6.853720 TCAATCAGTACTTCAGTAGTAGCAC 58.146 40.000 0.00 0.00 39.98 4.40
1798 1919 4.630505 TCAGTACTTCAGTAGTAGCACTCG 59.369 45.833 0.00 0.00 39.98 4.18
2011 2140 7.166473 GCATAATCAACAATGTAACAGCTAAGC 59.834 37.037 0.00 0.00 0.00 3.09
2037 2167 2.839975 TCAACATTGCACAGACGGTTA 58.160 42.857 0.00 0.00 0.00 2.85
2042 2172 4.794169 ACATTGCACAGACGGTTAATTTC 58.206 39.130 0.00 0.00 0.00 2.17
2106 2237 6.317140 TGATAGCAGTGAAAGCAATAGGAAAG 59.683 38.462 0.00 0.00 0.00 2.62
2139 2270 7.605691 AGTTCAAAGATGTGGAGTCTTATGAAG 59.394 37.037 10.67 0.00 35.69 3.02
2255 2520 1.349688 TGACCTTCTTGGCGGTGTAAT 59.650 47.619 0.00 0.00 40.22 1.89
2331 2596 2.031258 TGACGGCAACTGTTTCTTCA 57.969 45.000 0.00 0.00 0.00 3.02
2423 2688 9.699410 TGGACTTGTTTGATATTTGAATCCTAT 57.301 29.630 0.00 0.00 0.00 2.57
2436 2701 4.989277 TGAATCCTATATTGCAGCCATGT 58.011 39.130 0.00 0.00 0.00 3.21
2889 3193 8.359875 TGATATTTATGTTTTTCCCTTGCTCA 57.640 30.769 0.00 0.00 0.00 4.26
2968 3272 2.422479 TGACCCTTCGTACGATTCTGAG 59.578 50.000 20.27 12.69 0.00 3.35
3001 3305 4.439289 GCTGTAATGCCTTCATCTTTCCAC 60.439 45.833 0.00 0.00 31.27 4.02
3082 3386 6.715347 ACATTCAGTAAGTTTGAAGCCTTT 57.285 33.333 0.00 0.00 37.91 3.11
3221 3525 2.425312 AGTAAGGCATCTCTCACTGACG 59.575 50.000 0.00 0.00 0.00 4.35
3248 3553 7.612677 AGTACAATACAGTAGCAGTTTAGCTT 58.387 34.615 0.00 0.00 43.70 3.74
3252 3557 3.931578 ACAGTAGCAGTTTAGCTTGGAG 58.068 45.455 0.00 0.00 43.70 3.86
3264 3569 6.385467 AGTTTAGCTTGGAGGAAGTATCATCT 59.615 38.462 0.00 0.00 36.62 2.90
3270 3575 6.416631 TTGGAGGAAGTATCATCTCAGATG 57.583 41.667 8.54 8.54 36.62 2.90
3278 3583 7.718753 GGAAGTATCATCTCAGATGATGGTTTT 59.281 37.037 32.43 21.85 42.82 2.43
3323 3628 1.543429 GCACTGGCACCTTAACTCTGT 60.543 52.381 0.00 0.00 40.72 3.41
3330 3635 4.532916 TGGCACCTTAACTCTGTAACCATA 59.467 41.667 0.00 0.00 0.00 2.74
3348 3653 6.468972 ACCATATATTAGCTGAACCCCAAT 57.531 37.500 0.00 0.00 0.00 3.16
3355 3660 1.425066 AGCTGAACCCCAATTGTGAGA 59.575 47.619 4.43 0.00 0.00 3.27
3357 3662 1.806542 CTGAACCCCAATTGTGAGACG 59.193 52.381 4.43 0.00 0.00 4.18
3360 3665 2.185004 ACCCCAATTGTGAGACGAAG 57.815 50.000 4.43 0.00 0.00 3.79
3361 3666 1.697432 ACCCCAATTGTGAGACGAAGA 59.303 47.619 4.43 0.00 0.00 2.87
3370 3675 8.830580 CCAATTGTGAGACGAAGATAATTGTAT 58.169 33.333 4.43 0.00 34.14 2.29
3395 3700 9.961265 ATAACCAAACTAGTAGCTTTTTGTTTC 57.039 29.630 0.00 0.00 0.00 2.78
3396 3701 7.399245 ACCAAACTAGTAGCTTTTTGTTTCA 57.601 32.000 0.00 0.00 0.00 2.69
3397 3702 8.007405 ACCAAACTAGTAGCTTTTTGTTTCAT 57.993 30.769 0.00 0.00 0.00 2.57
3399 3704 9.313118 CCAAACTAGTAGCTTTTTGTTTCATTT 57.687 29.630 0.00 0.00 0.00 2.32
3426 3745 7.489574 AGTTTGCTAGCTCTATAATTTCTGC 57.510 36.000 17.23 0.00 0.00 4.26
3430 3749 7.488187 TGCTAGCTCTATAATTTCTGCTTTG 57.512 36.000 17.23 0.00 32.72 2.77
3431 3750 7.275183 TGCTAGCTCTATAATTTCTGCTTTGA 58.725 34.615 17.23 0.00 32.72 2.69
3445 3765 4.141251 TCTGCTTTGAAAACCCTCCTAAGT 60.141 41.667 0.00 0.00 0.00 2.24
3447 3767 5.313712 TGCTTTGAAAACCCTCCTAAGTAG 58.686 41.667 0.00 0.00 0.00 2.57
3454 3774 5.717119 AAACCCTCCTAAGTAGCATCATT 57.283 39.130 0.00 0.00 0.00 2.57
3516 3836 7.770433 CACAGTTCTCCAGATTTAACCATCATA 59.230 37.037 0.00 0.00 0.00 2.15
3517 3837 7.989741 ACAGTTCTCCAGATTTAACCATCATAG 59.010 37.037 0.00 0.00 0.00 2.23
3520 3840 7.675161 TCTCCAGATTTAACCATCATAGTGA 57.325 36.000 0.00 0.00 0.00 3.41
3521 3841 7.500992 TCTCCAGATTTAACCATCATAGTGAC 58.499 38.462 0.00 0.00 0.00 3.67
3522 3842 7.345653 TCTCCAGATTTAACCATCATAGTGACT 59.654 37.037 0.00 0.00 0.00 3.41
3523 3843 7.275183 TCCAGATTTAACCATCATAGTGACTG 58.725 38.462 0.00 0.00 0.00 3.51
3534 3854 3.442625 TCATAGTGACTGTAACTCACCCG 59.557 47.826 0.00 0.00 39.15 5.28
3543 3863 0.682852 TAACTCACCCGGTCTGTTGG 59.317 55.000 0.00 0.00 0.00 3.77
3582 3902 2.705127 ACATTTGGGCATCAAACAGGTT 59.295 40.909 6.61 0.00 46.72 3.50
3633 3953 1.522580 GGAAGGCATGACGAGCTCC 60.523 63.158 8.47 0.00 0.00 4.70
3703 4023 1.813192 CTCGAAGCCTCTGAGGGAC 59.187 63.158 24.43 9.37 35.37 4.46
3722 4043 1.378514 CACGCAGCCCCCAATAGTT 60.379 57.895 0.00 0.00 0.00 2.24
3843 4224 2.046892 CTGGTGTCCTTGCTCCGG 60.047 66.667 0.00 0.00 0.00 5.14
3881 4266 5.070981 GGAAGGTGGATGAGAGATTCACATA 59.929 44.000 0.00 0.00 38.99 2.29
3900 4285 4.832266 ACATATTTGGAGTTGAAGGTTGCA 59.168 37.500 0.00 0.00 0.00 4.08
3921 4306 5.885230 CATCCTTTGCTAGTGATGTCAAA 57.115 39.130 0.00 0.00 31.90 2.69
3922 4307 5.877031 CATCCTTTGCTAGTGATGTCAAAG 58.123 41.667 9.88 9.88 42.82 2.77
3923 4308 4.973168 TCCTTTGCTAGTGATGTCAAAGT 58.027 39.130 13.68 0.00 42.08 2.66
3924 4309 4.997395 TCCTTTGCTAGTGATGTCAAAGTC 59.003 41.667 13.68 0.00 42.08 3.01
3925 4310 4.756642 CCTTTGCTAGTGATGTCAAAGTCA 59.243 41.667 13.68 0.00 42.08 3.41
3926 4311 5.106791 CCTTTGCTAGTGATGTCAAAGTCAG 60.107 44.000 13.68 0.83 42.08 3.51
3927 4312 4.607293 TGCTAGTGATGTCAAAGTCAGT 57.393 40.909 0.00 0.00 32.98 3.41
3929 4314 4.281941 TGCTAGTGATGTCAAAGTCAGTCT 59.718 41.667 0.00 0.00 30.99 3.24
3930 4315 5.476945 TGCTAGTGATGTCAAAGTCAGTCTA 59.523 40.000 0.00 0.00 30.99 2.59
3931 4316 6.033341 GCTAGTGATGTCAAAGTCAGTCTAG 58.967 44.000 0.00 0.00 30.99 2.43
3932 4317 6.349777 GCTAGTGATGTCAAAGTCAGTCTAGT 60.350 42.308 0.00 0.00 30.99 2.57
3939 4369 6.759272 TGTCAAAGTCAGTCTAGTAAATGCT 58.241 36.000 0.00 0.00 0.00 3.79
3948 4378 6.378280 TCAGTCTAGTAAATGCTGAGTGATGA 59.622 38.462 0.00 0.00 33.73 2.92
3952 4382 7.381948 GTCTAGTAAATGCTGAGTGATGATGAG 59.618 40.741 0.00 0.00 0.00 2.90
3955 4385 2.598686 TGCTGAGTGATGATGAGAGC 57.401 50.000 0.00 0.00 0.00 4.09
4013 4493 3.190874 CTCAGTGTTCCGGAATCTTAGC 58.809 50.000 22.04 6.73 0.00 3.09
4080 4561 1.853963 AGACTAGACGGCTTCATGGT 58.146 50.000 0.00 0.00 0.00 3.55
4082 4563 3.362706 AGACTAGACGGCTTCATGGTTA 58.637 45.455 0.00 0.00 0.00 2.85
4086 4567 5.497474 ACTAGACGGCTTCATGGTTATTTT 58.503 37.500 0.00 0.00 0.00 1.82
4087 4568 4.701956 AGACGGCTTCATGGTTATTTTG 57.298 40.909 0.00 0.00 0.00 2.44
4088 4569 4.331968 AGACGGCTTCATGGTTATTTTGA 58.668 39.130 0.00 0.00 0.00 2.69
4092 4573 5.010617 ACGGCTTCATGGTTATTTTGAGTTT 59.989 36.000 0.00 0.00 0.00 2.66
4093 4574 5.345741 CGGCTTCATGGTTATTTTGAGTTTG 59.654 40.000 0.00 0.00 0.00 2.93
4095 4576 6.223120 GCTTCATGGTTATTTTGAGTTTGGT 58.777 36.000 0.00 0.00 0.00 3.67
4105 4596 8.793592 GTTATTTTGAGTTTGGTGGTAGAATCT 58.206 33.333 0.00 0.00 0.00 2.40
4115 4606 4.833380 TGGTGGTAGAATCTATGGCTAGAC 59.167 45.833 0.00 0.00 36.81 2.59
4135 4626 2.037511 ACAGCATTTTCATGTGGTTGGG 59.962 45.455 0.00 0.00 32.28 4.12
4136 4627 2.299582 CAGCATTTTCATGTGGTTGGGA 59.700 45.455 0.00 0.00 32.28 4.37
4137 4628 2.299867 AGCATTTTCATGTGGTTGGGAC 59.700 45.455 0.00 0.00 32.28 4.46
4139 4630 3.244181 GCATTTTCATGTGGTTGGGACTT 60.244 43.478 0.00 0.00 32.28 3.01
4140 4631 4.559153 CATTTTCATGTGGTTGGGACTTC 58.441 43.478 0.00 0.00 0.00 3.01
4142 4633 3.304911 TTCATGTGGTTGGGACTTCAA 57.695 42.857 0.00 0.00 0.00 2.69
4145 4636 4.222336 TCATGTGGTTGGGACTTCAATTT 58.778 39.130 0.00 0.00 0.00 1.82
4146 4637 4.653341 TCATGTGGTTGGGACTTCAATTTT 59.347 37.500 0.00 0.00 0.00 1.82
4147 4638 4.399004 TGTGGTTGGGACTTCAATTTTG 57.601 40.909 0.00 0.00 0.00 2.44
4149 4640 4.467795 TGTGGTTGGGACTTCAATTTTGAA 59.532 37.500 5.67 5.67 44.31 2.69
4151 4642 5.466393 GTGGTTGGGACTTCAATTTTGAATG 59.534 40.000 6.21 4.23 45.26 2.67
4153 4644 5.466393 GGTTGGGACTTCAATTTTGAATGTG 59.534 40.000 6.21 0.00 45.26 3.21
4165 4656 8.912988 TCAATTTTGAATGTGTTTTCTACTCCT 58.087 29.630 0.00 0.00 33.55 3.69
4179 4670 5.762179 TCTACTCCTGTGAATGAACCAAT 57.238 39.130 0.00 0.00 0.00 3.16
4278 4769 4.098914 TGCAGAGTTTGGGTATCTTGTT 57.901 40.909 0.00 0.00 0.00 2.83
4290 4781 4.158394 GGGTATCTTGTTGTGCATGAATGT 59.842 41.667 0.00 0.00 35.34 2.71
4309 4800 2.035704 TGTGATGAACCAACATGGCAAC 59.964 45.455 0.00 0.00 42.67 4.17
4370 4861 3.996150 AGCACAATCCTGAAACAACAG 57.004 42.857 0.00 0.00 37.61 3.16
4394 4885 5.954296 AGACATGTCCTTGAAACATCTTG 57.046 39.130 22.21 0.00 35.19 3.02
4405 4896 3.317711 TGAAACATCTTGCCGAAACACAT 59.682 39.130 0.00 0.00 0.00 3.21
4427 4918 0.386478 CTTCAGCAGGCAAAACGAGC 60.386 55.000 0.00 0.00 0.00 5.03
4439 4930 3.482786 CAAAACGAGCAAGACATAGCAC 58.517 45.455 0.00 0.00 0.00 4.40
4461 4952 3.997021 CGATCTTGAAACAACAGTAGGCT 59.003 43.478 0.00 0.00 0.00 4.58
4469 4960 5.700832 TGAAACAACAGTAGGCTATTCACTG 59.299 40.000 12.46 12.46 44.20 3.66
4472 4963 5.482908 ACAACAGTAGGCTATTCACTGAAG 58.517 41.667 19.26 13.37 41.80 3.02
4486 4977 9.897744 CTATTCACTGAAGCATCTTAACAAAAA 57.102 29.630 0.00 0.00 0.00 1.94
4497 4988 8.633561 AGCATCTTAACAAAAATATAGGCCTTC 58.366 33.333 12.58 0.00 0.00 3.46
4544 5035 7.689953 GCACTATGCTTAGGAATTGATTTTG 57.310 36.000 11.03 0.00 40.96 2.44
4545 5036 7.260603 GCACTATGCTTAGGAATTGATTTTGT 58.739 34.615 11.03 0.00 40.96 2.83
4546 5037 7.221452 GCACTATGCTTAGGAATTGATTTTGTG 59.779 37.037 11.03 0.00 40.96 3.33
4547 5038 7.221452 CACTATGCTTAGGAATTGATTTTGTGC 59.779 37.037 11.03 0.00 0.00 4.57
4548 5039 5.465532 TGCTTAGGAATTGATTTTGTGCA 57.534 34.783 0.00 0.00 0.00 4.57
4549 5040 6.040209 TGCTTAGGAATTGATTTTGTGCAT 57.960 33.333 0.00 0.00 0.00 3.96
4550 5041 6.101332 TGCTTAGGAATTGATTTTGTGCATC 58.899 36.000 0.00 0.00 0.00 3.91
4551 5042 6.101332 GCTTAGGAATTGATTTTGTGCATCA 58.899 36.000 0.00 0.00 0.00 3.07
4552 5043 6.759827 GCTTAGGAATTGATTTTGTGCATCAT 59.240 34.615 0.00 0.00 30.63 2.45
4553 5044 7.922278 GCTTAGGAATTGATTTTGTGCATCATA 59.078 33.333 0.00 0.00 30.63 2.15
4554 5045 9.459640 CTTAGGAATTGATTTTGTGCATCATAG 57.540 33.333 0.00 0.00 30.63 2.23
4555 5046 6.812998 AGGAATTGATTTTGTGCATCATAGG 58.187 36.000 0.00 0.00 30.63 2.57
4556 5047 5.464389 GGAATTGATTTTGTGCATCATAGGC 59.536 40.000 0.00 0.00 30.63 3.93
4557 5048 5.601583 ATTGATTTTGTGCATCATAGGCA 57.398 34.783 0.00 0.00 39.32 4.75
4558 5049 5.601583 TTGATTTTGTGCATCATAGGCAT 57.398 34.783 0.00 0.00 44.11 4.40
4559 5050 5.190992 TGATTTTGTGCATCATAGGCATC 57.809 39.130 0.00 0.00 44.11 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 1.271597 ACACACTCTTCCCAATCAGGC 60.272 52.381 0.00 0.00 35.39 4.85
72 73 5.578005 ACTGCAGGATTCAATGATTTCAG 57.422 39.130 19.93 0.00 0.00 3.02
82 83 2.037121 TCGTTCTCAACTGCAGGATTCA 59.963 45.455 19.93 0.00 0.00 2.57
83 84 2.670414 CTCGTTCTCAACTGCAGGATTC 59.330 50.000 19.93 0.87 0.00 2.52
91 92 0.036010 ATGCCCCTCGTTCTCAACTG 60.036 55.000 0.00 0.00 0.00 3.16
107 108 0.108945 GCCTTGAAACAGGAGCATGC 60.109 55.000 10.51 10.51 35.71 4.06
134 135 1.970917 CTCATTTCACAGACGCCGGC 61.971 60.000 19.07 19.07 0.00 6.13
145 146 1.004745 GCCCCCTGAGTTCTCATTTCA 59.995 52.381 2.89 0.00 0.00 2.69
155 156 2.505819 CAAGTGTATAAGCCCCCTGAGT 59.494 50.000 0.00 0.00 0.00 3.41
159 160 1.564348 CCACAAGTGTATAAGCCCCCT 59.436 52.381 0.00 0.00 0.00 4.79
161 162 1.340600 TGCCACAAGTGTATAAGCCCC 60.341 52.381 0.00 0.00 0.00 5.80
164 165 4.215399 TGAAACTGCCACAAGTGTATAAGC 59.785 41.667 0.00 0.00 0.00 3.09
170 171 2.378038 ACATGAAACTGCCACAAGTGT 58.622 42.857 0.00 0.00 0.00 3.55
172 173 4.397420 TGATACATGAAACTGCCACAAGT 58.603 39.130 0.00 0.00 0.00 3.16
173 174 5.571784 ATGATACATGAAACTGCCACAAG 57.428 39.130 0.00 0.00 0.00 3.16
174 175 5.981088 AATGATACATGAAACTGCCACAA 57.019 34.783 0.00 0.00 0.00 3.33
175 176 5.356751 GGTAATGATACATGAAACTGCCACA 59.643 40.000 0.00 0.00 33.45 4.17
176 177 5.356751 TGGTAATGATACATGAAACTGCCAC 59.643 40.000 0.00 0.00 33.45 5.01
177 178 5.504853 TGGTAATGATACATGAAACTGCCA 58.495 37.500 0.00 0.00 33.45 4.92
210 211 4.062293 TGTGTTTCATACCCTTTCACGAG 58.938 43.478 0.00 0.00 0.00 4.18
224 239 3.496884 GCGAATTACCAGAGTGTGTTTCA 59.503 43.478 0.00 0.00 0.00 2.69
246 261 1.273606 ACACAGAACAGAGGGATGTCG 59.726 52.381 0.00 0.00 31.50 4.35
248 263 2.224621 CCAACACAGAACAGAGGGATGT 60.225 50.000 0.00 0.00 33.96 3.06
253 268 4.451900 AGTAAACCAACACAGAACAGAGG 58.548 43.478 0.00 0.00 0.00 3.69
276 291 9.758651 ACGCAGTAAATACACAAGATTGATATA 57.241 29.630 0.00 0.00 41.94 0.86
280 297 5.699001 ACACGCAGTAAATACACAAGATTGA 59.301 36.000 0.00 0.00 41.61 2.57
282 299 5.932303 AGACACGCAGTAAATACACAAGATT 59.068 36.000 0.00 0.00 41.61 2.40
287 304 7.661127 ATTTTAGACACGCAGTAAATACACA 57.339 32.000 0.00 0.00 41.61 3.72
301 318 5.462068 GGCACCTGAAAACAATTTTAGACAC 59.538 40.000 0.00 0.00 34.88 3.67
334 351 2.267351 CCAACAAGATGCGGTGCCA 61.267 57.895 0.00 0.00 0.00 4.92
335 352 2.568090 CCAACAAGATGCGGTGCC 59.432 61.111 0.00 0.00 0.00 5.01
341 358 0.455633 CTTCAGCGCCAACAAGATGC 60.456 55.000 2.29 0.00 0.00 3.91
390 407 2.476051 CAGGTTCATGCACGCGAC 59.524 61.111 15.93 4.74 0.00 5.19
400 417 1.211703 TGCTTCTGTTGACCAGGTTCA 59.788 47.619 0.00 0.00 41.83 3.18
407 424 2.489938 TGGGTATGCTTCTGTTGACC 57.510 50.000 0.00 0.00 0.00 4.02
423 440 1.679680 CTCTTGCTGCCATACATTGGG 59.320 52.381 0.00 0.00 46.55 4.12
426 443 2.025981 TGTCCTCTTGCTGCCATACATT 60.026 45.455 0.00 0.00 0.00 2.71
441 458 1.048601 TCACCACCTCAACTGTCCTC 58.951 55.000 0.00 0.00 0.00 3.71
471 489 0.037326 TTCTGCTTCTACCCGCACAG 60.037 55.000 0.00 0.00 31.95 3.66
473 491 0.320421 TGTTCTGCTTCTACCCGCAC 60.320 55.000 0.00 0.00 31.95 5.34
474 492 0.613260 ATGTTCTGCTTCTACCCGCA 59.387 50.000 0.00 0.00 34.54 5.69
475 493 1.009829 CATGTTCTGCTTCTACCCGC 58.990 55.000 0.00 0.00 0.00 6.13
479 497 7.602517 AGTATCAAACATGTTCTGCTTCTAC 57.397 36.000 12.39 7.27 0.00 2.59
489 507 5.689961 GCGAAACCAAAGTATCAAACATGTT 59.310 36.000 4.92 4.92 0.00 2.71
512 530 0.744414 TTGCGCTGTGAATCCCTAGC 60.744 55.000 9.73 0.00 0.00 3.42
586 674 8.713708 TTTCCCTAAACAGAATTTGGTATCAA 57.286 30.769 0.00 0.00 0.00 2.57
592 680 6.664428 TCCTTTTCCCTAAACAGAATTTGG 57.336 37.500 0.00 0.00 0.00 3.28
600 688 4.262420 GCATTGCTTCCTTTTCCCTAAACA 60.262 41.667 0.16 0.00 0.00 2.83
623 711 5.178996 AGCTCAGAAAATAGATAAGCATGCG 59.821 40.000 13.01 0.00 0.00 4.73
660 748 6.930731 TCTGGGTTTTATTTGCCTATTTGTC 58.069 36.000 0.00 0.00 0.00 3.18
832 920 5.083533 AGCCACACAAATCTGTTTTTCAA 57.916 34.783 0.00 0.00 31.64 2.69
834 922 5.220643 CCAAAGCCACACAAATCTGTTTTTC 60.221 40.000 0.00 0.00 31.64 2.29
909 998 1.003118 TCCAGTGGGTCAATACTGCAC 59.997 52.381 9.92 0.00 42.21 4.57
940 1029 7.068839 CACCTTATCTTCTTCTTCCTGTAGCTA 59.931 40.741 0.00 0.00 0.00 3.32
1014 1108 0.771127 ACAGGGTTTTAGCTGCTGGA 59.229 50.000 13.43 0.00 0.00 3.86
1020 1114 1.354705 GAGGGGAACAGGGTTTTAGCT 59.645 52.381 0.00 0.00 0.00 3.32
1051 1151 4.821589 GTGGAGGCGAGGCGAAGG 62.822 72.222 0.00 0.00 0.00 3.46
1265 1368 0.250901 GCAAAGCAGAGGGGTTCAGA 60.251 55.000 0.00 0.00 35.85 3.27
1306 1416 0.872388 GGATCCAAACACACACGGTC 59.128 55.000 6.95 0.00 0.00 4.79
1309 1419 1.573829 CCGGGATCCAAACACACACG 61.574 60.000 15.23 4.13 0.00 4.49
1504 1616 8.780846 AATCAAAACCCCGGTTATTTATTTTC 57.219 30.769 0.00 0.00 37.35 2.29
1571 1683 0.804989 GCAAGCACGCAAACCTCTAT 59.195 50.000 0.00 0.00 0.00 1.98
1618 1730 1.304464 GAACCCCTCCCTGCCTTTG 60.304 63.158 0.00 0.00 0.00 2.77
1663 1775 0.944386 GGAAGCTGACTTTGAACGCA 59.056 50.000 0.00 0.00 35.82 5.24
1726 1838 9.039165 TCATCTATCATACATGCCAAGAAGATA 57.961 33.333 0.00 0.00 0.00 1.98
1741 1853 8.927411 TGTCCAGAATCACTTTCATCTATCATA 58.073 33.333 0.00 0.00 36.75 2.15
1749 1861 4.298103 AGCTGTCCAGAATCACTTTCAT 57.702 40.909 0.00 0.00 36.75 2.57
1793 1914 0.865111 TCGATGTTTGGCAACGAGTG 59.135 50.000 0.00 0.00 45.24 3.51
1794 1915 3.299050 TCGATGTTTGGCAACGAGT 57.701 47.368 0.00 0.00 45.24 4.18
1798 1919 2.663119 GAGCAAATCGATGTTTGGCAAC 59.337 45.455 12.19 0.00 39.03 4.17
1883 2011 6.126390 TGGATTATGGATGTTTCTGGAGATGT 60.126 38.462 0.00 0.00 0.00 3.06
2011 2140 3.666111 CGTCTGTGCAATGTTGATGTCAG 60.666 47.826 0.00 0.00 0.00 3.51
2066 2197 4.485163 TGCTATCATCATATCAACCGTCG 58.515 43.478 0.00 0.00 0.00 5.12
2106 2237 5.067805 ACTCCACATCTTTGAACTTGGAAAC 59.932 40.000 0.00 0.00 32.78 2.78
2331 2596 4.018415 ACATACCAAGCCTGAATAACCTGT 60.018 41.667 0.00 0.00 0.00 4.00
3001 3305 5.273944 TGAAACTCGACATCACTGATATCG 58.726 41.667 12.62 12.62 39.87 2.92
3082 3386 6.953101 TCCAGAATAGCATACACCACTTTAA 58.047 36.000 0.00 0.00 0.00 1.52
3221 3525 8.189460 AGCTAAACTGCTACTGTATTGTACTAC 58.811 37.037 0.00 0.00 42.10 2.73
3227 3531 5.874810 TCCAAGCTAAACTGCTACTGTATTG 59.125 40.000 0.00 0.00 43.24 1.90
3232 3536 3.055819 TCCTCCAAGCTAAACTGCTACTG 60.056 47.826 0.00 0.00 43.24 2.74
3248 3553 5.709594 TCATCTGAGATGATACTTCCTCCA 58.290 41.667 20.51 0.00 0.00 3.86
3252 3557 6.357579 ACCATCATCTGAGATGATACTTCC 57.642 41.667 31.08 0.00 46.51 3.46
3264 3569 9.246670 ACAATCTAATTGAAAACCATCATCTGA 57.753 29.630 6.67 0.00 42.83 3.27
3270 3575 8.055279 TCTCCACAATCTAATTGAAAACCATC 57.945 34.615 6.67 0.00 42.83 3.51
3278 3583 8.632679 GCCAATTTATCTCCACAATCTAATTGA 58.367 33.333 6.67 0.00 42.83 2.57
3301 3606 0.250727 GAGTTAAGGTGCCAGTGCCA 60.251 55.000 0.00 0.00 36.33 4.92
3323 3628 7.395525 TTGGGGTTCAGCTAATATATGGTTA 57.604 36.000 0.00 0.00 0.00 2.85
3330 3635 5.765510 TCACAATTGGGGTTCAGCTAATAT 58.234 37.500 8.08 0.00 0.00 1.28
3348 3653 9.309516 GGTTATACAATTATCTTCGTCTCACAA 57.690 33.333 0.00 0.00 0.00 3.33
3370 3675 8.958506 TGAAACAAAAAGCTACTAGTTTGGTTA 58.041 29.630 0.00 0.00 40.12 2.85
3400 3705 9.213799 GCAGAAATTATAGAGCTAGCAAACTAT 57.786 33.333 18.83 21.36 0.00 2.12
3401 3706 8.424918 AGCAGAAATTATAGAGCTAGCAAACTA 58.575 33.333 18.83 16.48 0.00 2.24
3402 3707 7.278875 AGCAGAAATTATAGAGCTAGCAAACT 58.721 34.615 18.83 14.87 0.00 2.66
3403 3708 7.489574 AGCAGAAATTATAGAGCTAGCAAAC 57.510 36.000 18.83 7.96 0.00 2.93
3426 3745 5.313712 TGCTACTTAGGAGGGTTTTCAAAG 58.686 41.667 0.00 0.00 0.00 2.77
3430 3749 5.099042 TGATGCTACTTAGGAGGGTTTTC 57.901 43.478 0.00 0.00 0.00 2.29
3431 3750 5.717119 ATGATGCTACTTAGGAGGGTTTT 57.283 39.130 0.00 0.00 0.00 2.43
3497 3817 7.440556 CAGTCACTATGATGGTTAAATCTGGAG 59.559 40.741 0.00 0.00 0.00 3.86
3502 3822 9.601217 AGTTACAGTCACTATGATGGTTAAATC 57.399 33.333 0.00 0.00 0.00 2.17
3516 3836 0.966920 CCGGGTGAGTTACAGTCACT 59.033 55.000 10.75 0.00 45.48 3.41
3517 3837 0.677842 ACCGGGTGAGTTACAGTCAC 59.322 55.000 6.32 3.48 45.45 3.67
3520 3840 0.966920 CAGACCGGGTGAGTTACAGT 59.033 55.000 3.30 0.00 0.00 3.55
3521 3841 0.966920 ACAGACCGGGTGAGTTACAG 59.033 55.000 3.30 0.00 0.00 2.74
3522 3842 1.069513 CAACAGACCGGGTGAGTTACA 59.930 52.381 3.30 0.00 0.00 2.41
3523 3843 1.607251 CCAACAGACCGGGTGAGTTAC 60.607 57.143 3.30 0.00 0.00 2.50
3534 3854 1.205893 TGTTTGCCAAACCAACAGACC 59.794 47.619 17.16 0.00 40.67 3.85
3582 3902 3.944015 CCAATTTTCTGCCACCAAAAACA 59.056 39.130 0.00 0.00 0.00 2.83
3591 3911 0.539438 AGTCGCCCAATTTTCTGCCA 60.539 50.000 0.00 0.00 0.00 4.92
3633 3953 4.682787 TGAAGTGCTTGTATCCATAGTCG 58.317 43.478 0.00 0.00 0.00 4.18
3703 4023 2.516930 CTATTGGGGGCTGCGTGG 60.517 66.667 0.00 0.00 0.00 4.94
3843 4224 1.551883 ACCTTCCCAAATGCATCTTGC 59.448 47.619 0.00 0.00 45.29 4.01
3857 4238 3.198635 TGTGAATCTCTCATCCACCTTCC 59.801 47.826 0.00 0.00 36.14 3.46
3881 4266 3.259123 GGATGCAACCTTCAACTCCAAAT 59.741 43.478 5.61 0.00 0.00 2.32
3900 4285 5.564550 ACTTTGACATCACTAGCAAAGGAT 58.435 37.500 17.23 1.15 46.93 3.24
3921 4306 5.712446 TCACTCAGCATTTACTAGACTGACT 59.288 40.000 0.00 0.00 33.95 3.41
3922 4307 5.955488 TCACTCAGCATTTACTAGACTGAC 58.045 41.667 0.00 0.00 33.95 3.51
3923 4308 6.378280 TCATCACTCAGCATTTACTAGACTGA 59.622 38.462 0.00 0.00 36.08 3.41
3924 4309 6.567959 TCATCACTCAGCATTTACTAGACTG 58.432 40.000 0.00 0.00 0.00 3.51
3925 4310 6.782082 TCATCACTCAGCATTTACTAGACT 57.218 37.500 0.00 0.00 0.00 3.24
3926 4311 7.205992 TCATCATCACTCAGCATTTACTAGAC 58.794 38.462 0.00 0.00 0.00 2.59
3927 4312 7.286316 TCTCATCATCACTCAGCATTTACTAGA 59.714 37.037 0.00 0.00 0.00 2.43
3929 4314 7.352079 TCTCATCATCACTCAGCATTTACTA 57.648 36.000 0.00 0.00 0.00 1.82
3930 4315 6.231258 TCTCATCATCACTCAGCATTTACT 57.769 37.500 0.00 0.00 0.00 2.24
3931 4316 5.050227 GCTCTCATCATCACTCAGCATTTAC 60.050 44.000 0.00 0.00 0.00 2.01
3932 4317 5.055144 GCTCTCATCATCACTCAGCATTTA 58.945 41.667 0.00 0.00 0.00 1.40
3939 4369 2.545322 GCATCGCTCTCATCATCACTCA 60.545 50.000 0.00 0.00 0.00 3.41
3948 4378 1.937278 CACTGAAGCATCGCTCTCAT 58.063 50.000 0.00 0.00 38.25 2.90
3952 4382 1.427592 GAGGCACTGAAGCATCGCTC 61.428 60.000 0.00 0.00 41.55 5.03
3955 4385 1.088340 CAGGAGGCACTGAAGCATCG 61.088 60.000 3.43 0.00 45.55 3.84
4013 4493 3.964031 AGAAGAGCTAACATCCCACTAGG 59.036 47.826 0.00 0.00 0.00 3.02
4063 4544 4.755266 AATAACCATGAAGCCGTCTAGT 57.245 40.909 0.00 0.00 0.00 2.57
4080 4561 8.934023 AGATTCTACCACCAAACTCAAAATAA 57.066 30.769 0.00 0.00 0.00 1.40
4082 4563 8.960591 CATAGATTCTACCACCAAACTCAAAAT 58.039 33.333 0.00 0.00 0.00 1.82
4086 4567 5.629133 GCCATAGATTCTACCACCAAACTCA 60.629 44.000 0.00 0.00 0.00 3.41
4087 4568 4.816925 GCCATAGATTCTACCACCAAACTC 59.183 45.833 0.00 0.00 0.00 3.01
4088 4569 4.475016 AGCCATAGATTCTACCACCAAACT 59.525 41.667 0.00 0.00 0.00 2.66
4092 4573 4.833380 GTCTAGCCATAGATTCTACCACCA 59.167 45.833 0.00 0.00 40.16 4.17
4093 4574 4.833380 TGTCTAGCCATAGATTCTACCACC 59.167 45.833 0.00 0.00 40.16 4.61
4095 4576 4.524714 GCTGTCTAGCCATAGATTCTACCA 59.475 45.833 0.00 0.00 44.33 3.25
4115 4606 2.299582 TCCCAACCACATGAAAATGCTG 59.700 45.455 0.00 0.00 0.00 4.41
4139 4630 8.912988 AGGAGTAGAAAACACATTCAAAATTGA 58.087 29.630 0.00 0.00 34.92 2.57
4140 4631 8.971321 CAGGAGTAGAAAACACATTCAAAATTG 58.029 33.333 0.00 0.00 0.00 2.32
4142 4633 8.137437 CACAGGAGTAGAAAACACATTCAAAAT 58.863 33.333 0.00 0.00 0.00 1.82
4145 4636 6.353323 TCACAGGAGTAGAAAACACATTCAA 58.647 36.000 0.00 0.00 0.00 2.69
4146 4637 5.924356 TCACAGGAGTAGAAAACACATTCA 58.076 37.500 0.00 0.00 0.00 2.57
4147 4638 6.861065 TTCACAGGAGTAGAAAACACATTC 57.139 37.500 0.00 0.00 0.00 2.67
4149 4640 6.533730 TCATTCACAGGAGTAGAAAACACAT 58.466 36.000 0.00 0.00 0.00 3.21
4151 4642 6.293462 GGTTCATTCACAGGAGTAGAAAACAC 60.293 42.308 0.00 0.00 0.00 3.32
4153 4644 5.763204 TGGTTCATTCACAGGAGTAGAAAAC 59.237 40.000 0.00 0.00 0.00 2.43
4179 4670 9.540538 TTTCATAGAAACTCAATTCCCCAAATA 57.459 29.630 0.00 0.00 0.00 1.40
4197 4688 3.991773 CGGGAAAACACGAGTTTCATAGA 59.008 43.478 11.41 0.00 46.79 1.98
4198 4689 3.744426 ACGGGAAAACACGAGTTTCATAG 59.256 43.478 11.41 6.86 46.79 2.23
4216 4707 3.560068 GCAACATATAAACAGAGGACGGG 59.440 47.826 0.00 0.00 0.00 5.28
4251 4742 2.959507 ACCCAAACTCTGCAAAACAC 57.040 45.000 0.00 0.00 0.00 3.32
4255 4746 4.469657 ACAAGATACCCAAACTCTGCAAA 58.530 39.130 0.00 0.00 0.00 3.68
4278 4769 3.155501 TGGTTCATCACATTCATGCACA 58.844 40.909 0.00 0.00 0.00 4.57
4290 4781 2.596346 AGTTGCCATGTTGGTTCATCA 58.404 42.857 0.00 0.00 40.46 3.07
4370 4861 6.621596 GCAAGATGTTTCAAGGACATGTCTAC 60.622 42.308 24.50 9.75 37.83 2.59
4394 4885 0.109597 CTGAAGGCATGTGTTTCGGC 60.110 55.000 0.00 0.00 0.00 5.54
4427 4918 5.120674 TGTTTCAAGATCGTGCTATGTCTTG 59.879 40.000 3.49 12.95 45.47 3.02
4439 4930 3.997021 AGCCTACTGTTGTTTCAAGATCG 59.003 43.478 0.00 0.00 0.00 3.69
4469 4960 8.633561 AGGCCTATATTTTTGTTAAGATGCTTC 58.366 33.333 1.29 0.00 0.00 3.86
4472 4963 8.413229 TGAAGGCCTATATTTTTGTTAAGATGC 58.587 33.333 5.16 0.00 0.00 3.91
4486 4977 4.283467 TGTTACATCGCTGAAGGCCTATAT 59.717 41.667 5.16 0.00 37.74 0.86
4497 4988 1.732259 GTCCTGGTTGTTACATCGCTG 59.268 52.381 0.00 0.00 0.00 5.18
4543 5034 3.782656 ATGAGATGCCTATGATGCACA 57.217 42.857 0.00 0.00 42.38 4.57
4544 5035 5.243981 ACTTATGAGATGCCTATGATGCAC 58.756 41.667 0.00 0.00 42.38 4.57
4545 5036 5.494390 ACTTATGAGATGCCTATGATGCA 57.506 39.130 0.00 0.00 43.97 3.96
4546 5037 7.270779 TGATACTTATGAGATGCCTATGATGC 58.729 38.462 0.00 0.00 0.00 3.91
4547 5038 9.833917 AATGATACTTATGAGATGCCTATGATG 57.166 33.333 0.00 0.00 0.00 3.07
4553 5044 9.228949 GATGAAAATGATACTTATGAGATGCCT 57.771 33.333 0.00 0.00 0.00 4.75
4554 5045 9.228949 AGATGAAAATGATACTTATGAGATGCC 57.771 33.333 0.00 0.00 0.00 4.40
4637 5153 6.605194 ACATTTGGCAAAATTTAGGGTTTTGT 59.395 30.769 17.70 8.99 44.40 2.83


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

AutoCloner maintained by Alex Coulton.