Multiple sequence alignment - TraesCS3B01G203200

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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 TraesCS3B01G203200 chr3B 100.000 3228 0 0 1 3228 237337264 237334037 0.000000e+00 5962.0
1 TraesCS3B01G203200 chr3D 89.451 2806 162 62 15 2769 160703551 160700829 0.000000e+00 3419.0
2 TraesCS3B01G203200 chr3D 92.399 421 18 4 2809 3228 160700804 160700397 3.590000e-164 588.0
3 TraesCS3B01G203200 chr3A 89.552 2699 163 55 15 2683 187252730 187250121 0.000000e+00 3312.0
4 TraesCS3B01G203200 chr3A 92.823 418 20 4 2812 3228 187250123 187249715 5.960000e-167 597.0
5 TraesCS3B01G203200 chr5D 97.917 48 0 1 2925 2971 407527348 407527301 7.420000e-12 82.4
6 TraesCS3B01G203200 chr5A 97.917 48 0 1 2925 2971 512831222 512831175 7.420000e-12 82.4
7 TraesCS3B01G203200 chr6D 100.000 43 0 0 2931 2973 471069897 471069939 2.670000e-11 80.5
8 TraesCS3B01G203200 chr2B 97.826 46 0 1 2931 2976 323085417 323085373 9.600000e-11 78.7
9 TraesCS3B01G203200 chr2A 97.826 46 0 1 2931 2976 285622345 285622301 9.600000e-11 78.7
10 TraesCS3B01G203200 chr1A 100.000 42 0 0 2931 2972 12091254 12091213 9.600000e-11 78.7
11 TraesCS3B01G203200 chr4B 92.308 52 2 2 2931 2981 615160783 615160733 4.470000e-09 73.1


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 TraesCS3B01G203200 chr3B 237334037 237337264 3227 True 5962.0 5962 100.0000 1 3228 1 chr3B.!!$R1 3227
1 TraesCS3B01G203200 chr3D 160700397 160703551 3154 True 2003.5 3419 90.9250 15 3228 2 chr3D.!!$R1 3213
2 TraesCS3B01G203200 chr3A 187249715 187252730 3015 True 1954.5 3312 91.1875 15 3228 2 chr3A.!!$R1 3213

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
176 196 0.397957 GAACTCCCCTCTCCTCCTCC 60.398 65.0 0.00 0.00 0.00 4.30 F
184 204 0.478507 CTCTCCTCCTCCTCCTCCTC 59.521 65.0 0.00 0.00 0.00 3.71 F
1537 1587 0.310854 GTTCCTGAACCGGTTTGCTG 59.689 55.0 23.22 13.12 35.36 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1512 1562 0.106918 ACCGGTTCAGGAACAAAGCA 60.107 50.0 0.0 0.0 42.85 3.91 R
1730 1780 2.409948 ACTCTGTTCTGCCCAATAGC 57.590 50.0 0.0 0.0 0.00 2.97 R
2674 2747 0.109597 GCACAAATCAGGTGGCTTCG 60.110 55.0 0.0 0.0 36.76 3.79 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
63 64 2.677848 GCTCCCTCTCCCAAACCC 59.322 66.667 0.00 0.00 0.00 4.11
121 140 3.499737 CTTCAGCGCCGCCGAATT 61.500 61.111 8.35 0.00 36.29 2.17
161 181 2.968206 GGTACGCCACCTCGAACT 59.032 61.111 0.00 0.00 44.79 3.01
167 187 3.020237 GCCACCTCGAACTCCCCTC 62.020 68.421 0.00 0.00 0.00 4.30
168 188 1.305381 CCACCTCGAACTCCCCTCT 60.305 63.158 0.00 0.00 0.00 3.69
169 189 1.324005 CCACCTCGAACTCCCCTCTC 61.324 65.000 0.00 0.00 0.00 3.20
170 190 1.000612 ACCTCGAACTCCCCTCTCC 59.999 63.158 0.00 0.00 0.00 3.71
171 191 1.308326 CCTCGAACTCCCCTCTCCT 59.692 63.158 0.00 0.00 0.00 3.69
172 192 0.753848 CCTCGAACTCCCCTCTCCTC 60.754 65.000 0.00 0.00 0.00 3.71
173 193 0.753848 CTCGAACTCCCCTCTCCTCC 60.754 65.000 0.00 0.00 0.00 4.30
174 194 1.215679 TCGAACTCCCCTCTCCTCCT 61.216 60.000 0.00 0.00 0.00 3.69
175 195 0.753848 CGAACTCCCCTCTCCTCCTC 60.754 65.000 0.00 0.00 0.00 3.71
176 196 0.397957 GAACTCCCCTCTCCTCCTCC 60.398 65.000 0.00 0.00 0.00 4.30
177 197 0.858139 AACTCCCCTCTCCTCCTCCT 60.858 60.000 0.00 0.00 0.00 3.69
178 198 1.293683 ACTCCCCTCTCCTCCTCCTC 61.294 65.000 0.00 0.00 0.00 3.71
184 204 0.478507 CTCTCCTCCTCCTCCTCCTC 59.521 65.000 0.00 0.00 0.00 3.71
190 210 0.556380 TCCTCCTCCTCCTCCTCCTT 60.556 60.000 0.00 0.00 0.00 3.36
193 213 1.074850 CCTCCTCCTCCTCCTTCCC 60.075 68.421 0.00 0.00 0.00 3.97
199 219 2.359967 CCTCCTCCTTCCCCACGTC 61.360 68.421 0.00 0.00 0.00 4.34
206 226 2.284847 TTCCCCACGTCCCCTACC 60.285 66.667 0.00 0.00 0.00 3.18
319 343 2.603560 CAGTTTAAATCGGTCCTCGCTC 59.396 50.000 0.00 0.00 39.05 5.03
348 372 2.095853 CCAATCGAATCCGGAAACACAG 59.904 50.000 9.01 0.00 36.24 3.66
364 388 2.525105 ACAGTTTTGTGGGTGGTCTT 57.475 45.000 0.00 0.00 35.83 3.01
365 389 2.099405 ACAGTTTTGTGGGTGGTCTTG 58.901 47.619 0.00 0.00 35.83 3.02
367 391 2.495669 CAGTTTTGTGGGTGGTCTTGTT 59.504 45.455 0.00 0.00 0.00 2.83
368 392 3.056179 CAGTTTTGTGGGTGGTCTTGTTT 60.056 43.478 0.00 0.00 0.00 2.83
369 393 3.194755 AGTTTTGTGGGTGGTCTTGTTTC 59.805 43.478 0.00 0.00 0.00 2.78
370 394 1.384525 TTGTGGGTGGTCTTGTTTCG 58.615 50.000 0.00 0.00 0.00 3.46
371 395 0.542333 TGTGGGTGGTCTTGTTTCGA 59.458 50.000 0.00 0.00 0.00 3.71
392 416 1.883021 GGTGGCGGTGATTCCTTTG 59.117 57.895 0.00 0.00 0.00 2.77
396 420 1.202879 TGGCGGTGATTCCTTTGTTCT 60.203 47.619 0.00 0.00 0.00 3.01
409 433 3.131223 CCTTTGTTCTATCGGAGCTCTCA 59.869 47.826 14.64 0.06 0.00 3.27
439 463 3.153130 TCGGATTTGTTTCTGGCATGAA 58.847 40.909 0.00 0.00 0.00 2.57
442 466 4.488879 GGATTTGTTTCTGGCATGAACTC 58.511 43.478 0.00 4.42 0.00 3.01
450 474 6.597672 TGTTTCTGGCATGAACTCGTTAATAT 59.402 34.615 0.00 0.00 0.00 1.28
454 478 7.097192 TCTGGCATGAACTCGTTAATATATCC 58.903 38.462 0.00 0.00 0.00 2.59
459 483 8.383619 GCATGAACTCGTTAATATATCCATCAC 58.616 37.037 0.00 0.00 0.00 3.06
480 504 8.771766 CATCACTTGATCGATATGATTGAGTTT 58.228 33.333 0.00 0.00 37.47 2.66
481 505 8.722480 TCACTTGATCGATATGATTGAGTTTT 57.278 30.769 0.00 0.00 37.47 2.43
482 506 9.166173 TCACTTGATCGATATGATTGAGTTTTT 57.834 29.630 0.00 0.00 37.47 1.94
507 531 6.757897 TTTTTGCGAGGATATGATTGAGTT 57.242 33.333 0.00 0.00 0.00 3.01
508 532 7.857734 TTTTTGCGAGGATATGATTGAGTTA 57.142 32.000 0.00 0.00 0.00 2.24
509 533 7.857734 TTTTGCGAGGATATGATTGAGTTAA 57.142 32.000 0.00 0.00 0.00 2.01
510 534 8.450578 TTTTGCGAGGATATGATTGAGTTAAT 57.549 30.769 0.00 0.00 0.00 1.40
511 535 7.425577 TTGCGAGGATATGATTGAGTTAATG 57.574 36.000 0.00 0.00 0.00 1.90
514 538 7.041848 TGCGAGGATATGATTGAGTTAATGTTG 60.042 37.037 0.00 0.00 0.00 3.33
518 542 9.261180 AGGATATGATTGAGTTAATGTTGTACG 57.739 33.333 0.00 0.00 0.00 3.67
540 564 1.819229 AGCGCGAGATCAATCCACT 59.181 52.632 12.10 0.00 0.00 4.00
572 597 2.265589 TCTGATGTGCATATGCCCTG 57.734 50.000 24.54 13.97 41.18 4.45
601 626 5.968676 AACCACTGAAATGTAGGGCTATA 57.031 39.130 0.00 0.00 0.00 1.31
630 655 6.421485 AGCATGTGATTTAGAGAGGTCATTT 58.579 36.000 0.00 0.00 0.00 2.32
633 658 6.500684 TGTGATTTAGAGAGGTCATTTTGC 57.499 37.500 0.00 0.00 0.00 3.68
707 733 8.615878 AACATAAGTTGTTAATGCTGTCACTA 57.384 30.769 0.00 0.00 46.75 2.74
708 734 8.029642 ACATAAGTTGTTAATGCTGTCACTAC 57.970 34.615 0.00 0.00 33.74 2.73
724 750 5.998454 TCACTACCGTGAACTATAGTAGC 57.002 43.478 5.65 2.32 46.61 3.58
728 754 3.629087 ACCGTGAACTATAGTAGCCACT 58.371 45.455 20.84 0.00 38.91 4.00
745 795 4.120589 GCCACTATAGTAGCCAAACTGTC 58.879 47.826 11.78 0.00 0.00 3.51
763 813 5.994250 ACTGTCTGGTTAATCAGCATGTAT 58.006 37.500 11.09 0.00 37.40 2.29
764 814 6.418101 ACTGTCTGGTTAATCAGCATGTATT 58.582 36.000 11.09 0.00 37.40 1.89
765 815 6.317140 ACTGTCTGGTTAATCAGCATGTATTG 59.683 38.462 11.09 2.96 37.40 1.90
766 816 6.179756 TGTCTGGTTAATCAGCATGTATTGT 58.820 36.000 11.09 0.00 37.40 2.71
767 817 6.658816 TGTCTGGTTAATCAGCATGTATTGTT 59.341 34.615 11.09 0.00 37.40 2.83
768 818 6.968904 GTCTGGTTAATCAGCATGTATTGTTG 59.031 38.462 11.09 0.00 37.86 3.33
769 819 6.658816 TCTGGTTAATCAGCATGTATTGTTGT 59.341 34.615 11.09 0.00 37.75 3.32
770 820 7.826744 TCTGGTTAATCAGCATGTATTGTTGTA 59.173 33.333 11.09 0.00 37.75 2.41
771 821 8.518430 TGGTTAATCAGCATGTATTGTTGTAT 57.482 30.769 0.00 0.00 37.75 2.29
772 822 8.620416 TGGTTAATCAGCATGTATTGTTGTATC 58.380 33.333 0.00 0.00 37.75 2.24
773 823 8.840321 GGTTAATCAGCATGTATTGTTGTATCT 58.160 33.333 0.00 0.00 37.75 1.98
787 837 6.252599 TGTTGTATCTTGCTCATCCCTAAT 57.747 37.500 0.00 0.00 0.00 1.73
788 838 6.662755 TGTTGTATCTTGCTCATCCCTAATT 58.337 36.000 0.00 0.00 0.00 1.40
789 839 7.118723 TGTTGTATCTTGCTCATCCCTAATTT 58.881 34.615 0.00 0.00 0.00 1.82
824 874 4.396166 GCTGACACTTTGTAGCATGGTTAT 59.604 41.667 1.12 0.00 36.24 1.89
825 875 5.447818 GCTGACACTTTGTAGCATGGTTATC 60.448 44.000 1.12 0.00 36.24 1.75
835 885 6.459066 TGTAGCATGGTTATCTCTTATCAGC 58.541 40.000 1.12 0.00 0.00 4.26
836 886 4.564041 AGCATGGTTATCTCTTATCAGCG 58.436 43.478 0.00 0.00 0.00 5.18
842 892 2.988010 ATCTCTTATCAGCGCCACAA 57.012 45.000 2.29 0.00 0.00 3.33
857 907 3.399330 GCCACAACTTTAGCTACACTGA 58.601 45.455 0.00 0.00 0.00 3.41
858 908 4.003648 GCCACAACTTTAGCTACACTGAT 58.996 43.478 0.00 0.00 0.00 2.90
893 943 3.367703 GCAATCTTCTTCCATGTGGTTGG 60.368 47.826 0.00 0.00 38.18 3.77
916 966 3.758425 TGGCATGATGGAATGACTATGG 58.242 45.455 0.00 0.00 36.46 2.74
920 970 5.014858 GCATGATGGAATGACTATGGGATT 58.985 41.667 0.00 0.00 0.00 3.01
934 984 8.739039 TGACTATGGGATTTGTCAATTTACTTG 58.261 33.333 0.00 0.00 36.64 3.16
1020 1070 4.293494 AGATGGATACTTCAGCTCCTTCA 58.707 43.478 11.49 0.00 42.97 3.02
1055 1105 4.221703 TGGAGAGACTCTGAAGATGTTTCC 59.778 45.833 10.44 1.41 0.00 3.13
1155 1205 2.497675 TCAGTTGACTATCAGAGGTGCC 59.502 50.000 0.00 0.00 0.00 5.01
1156 1206 2.234661 CAGTTGACTATCAGAGGTGCCA 59.765 50.000 0.00 0.00 0.00 4.92
1185 1235 2.224769 CCCTGAACCACCACACTACATT 60.225 50.000 0.00 0.00 0.00 2.71
1274 1324 4.510038 ACTTTGGTGAGATTTGATGTGC 57.490 40.909 0.00 0.00 0.00 4.57
1276 1326 2.885135 TGGTGAGATTTGATGTGCCT 57.115 45.000 0.00 0.00 0.00 4.75
1308 1358 8.621532 TTATAGTGTCTTTCTTTGCACTTCAT 57.378 30.769 0.00 0.00 41.67 2.57
1313 1363 6.634436 GTGTCTTTCTTTGCACTTCATTACAG 59.366 38.462 0.00 0.00 0.00 2.74
1351 1401 4.095483 AGTTAATTCTTCTCGCTGCAATGG 59.905 41.667 0.00 0.00 0.00 3.16
1458 1508 6.386927 TGATGTTCCATTACCACCTTAGATCT 59.613 38.462 0.00 0.00 0.00 2.75
1481 1531 5.734720 TGTGAGGAGAAGGTGAATGAATAC 58.265 41.667 0.00 0.00 0.00 1.89
1496 1546 8.736742 GTGAATGAATACGAAGCATACATTTTG 58.263 33.333 0.00 0.00 0.00 2.44
1498 1548 9.669353 GAATGAATACGAAGCATACATTTTGAT 57.331 29.630 0.00 0.00 0.00 2.57
1533 1583 1.407618 GCTTTGTTCCTGAACCGGTTT 59.592 47.619 23.22 4.98 40.46 3.27
1537 1587 0.310854 GTTCCTGAACCGGTTTGCTG 59.689 55.000 23.22 13.12 35.36 4.41
1563 1613 3.119495 ACCGCATGGCTTTGTTATTCTTC 60.119 43.478 0.00 0.00 39.70 2.87
1569 1619 6.584563 GCATGGCTTTGTTATTCTTCGTTTAA 59.415 34.615 0.00 0.00 0.00 1.52
1628 1678 3.401033 TTTGTTTGAGAGCATCGGAGA 57.599 42.857 0.00 0.00 42.67 3.71
1635 1685 0.984230 AGAGCATCGGAGAAACCCAA 59.016 50.000 0.00 0.00 43.58 4.12
1642 1692 1.070134 TCGGAGAAACCCAAGTGACTG 59.930 52.381 0.00 0.00 34.64 3.51
1653 1703 3.569701 CCCAAGTGACTGCTTGTGTTTAT 59.430 43.478 5.30 0.00 43.03 1.40
1660 1710 6.072838 AGTGACTGCTTGTGTTTATCTGAATG 60.073 38.462 0.00 0.00 0.00 2.67
1667 1717 7.970061 TGCTTGTGTTTATCTGAATGCTAAATC 59.030 33.333 0.00 0.00 0.00 2.17
1683 1733 5.045578 TGCTAAATCTAGAAGCTGTTTCCCT 60.046 40.000 14.42 0.00 36.40 4.20
1690 1740 9.975218 AATCTAGAAGCTGTTTCCCTTTTATTA 57.025 29.630 0.00 0.00 36.40 0.98
1742 1792 3.682718 GCTGACTTAAGCTATTGGGCAGA 60.683 47.826 13.58 0.00 40.20 4.26
1745 1795 4.261801 GACTTAAGCTATTGGGCAGAACA 58.738 43.478 1.29 0.00 34.17 3.18
1753 1803 6.400242 AGCTATTGGGCAGAACAGAGTATCT 61.400 44.000 0.00 0.00 39.86 1.98
1754 1804 7.147407 AGCTATTGGGCAGAACAGAGTATCTA 61.147 42.308 0.00 0.00 37.91 1.98
1800 1850 9.905713 ATGCTCTAATTAACTTAGTTTCATCCA 57.094 29.630 1.94 0.00 38.40 3.41
1853 1903 5.593095 ACCATCATCTTTGGATTGATGTCAG 59.407 40.000 10.28 0.31 40.46 3.51
1870 1920 2.427232 CAGGGTGACTGCAAACATTG 57.573 50.000 0.00 0.00 40.97 2.82
1877 1927 4.616802 GGTGACTGCAAACATTGTTTATCG 59.383 41.667 14.13 8.03 0.00 2.92
1883 1933 4.165779 GCAAACATTGTTTATCGTGGGAG 58.834 43.478 14.13 1.04 0.00 4.30
1903 1953 7.226918 GTGGGAGGAGAATTTATTGTAGCTTAC 59.773 40.741 0.00 0.00 0.00 2.34
1928 1978 6.091849 CGAGCAATCATTCTGAATATGTAGGG 59.908 42.308 1.98 0.00 0.00 3.53
1976 2026 4.103357 GCAGCATTTCTTATGACAGCTTG 58.897 43.478 0.00 0.00 0.00 4.01
1983 2033 4.226427 TCTTATGACAGCTTGCCAAGAT 57.774 40.909 9.04 0.00 0.00 2.40
1999 2049 7.031226 TGCCAAGATATCTTCATTAACAAGC 57.969 36.000 15.24 7.69 33.11 4.01
2000 2050 6.602803 TGCCAAGATATCTTCATTAACAAGCA 59.397 34.615 15.24 9.80 33.11 3.91
2039 2089 8.276252 TGTAGTTATTTTATTCTGCACTTCCC 57.724 34.615 0.00 0.00 0.00 3.97
2040 2090 7.885922 TGTAGTTATTTTATTCTGCACTTCCCA 59.114 33.333 0.00 0.00 0.00 4.37
2045 2095 2.363306 ATTCTGCACTTCCCACACAA 57.637 45.000 0.00 0.00 0.00 3.33
2212 2262 3.187227 AGCTTGCGAATGACAAGTACAAG 59.813 43.478 5.50 0.00 45.09 3.16
2248 2298 4.008330 AGAATTCAGCATCACACAGAAGG 58.992 43.478 8.44 0.00 0.00 3.46
2408 2458 6.202202 TCTATGTAGTAGCTGTATGAGGGT 57.798 41.667 0.00 0.00 0.00 4.34
2411 2461 8.391699 TCTATGTAGTAGCTGTATGAGGGTAAT 58.608 37.037 0.00 0.00 0.00 1.89
2419 2469 5.188948 AGCTGTATGAGGGTAATTGTGTGTA 59.811 40.000 0.00 0.00 0.00 2.90
2515 2565 2.111613 ACATGGATTTGGACCCTGGAAA 59.888 45.455 0.00 0.00 0.00 3.13
2517 2567 1.077005 TGGATTTGGACCCTGGAAAGG 59.923 52.381 0.00 0.00 0.00 3.11
2520 2570 2.375014 TTTGGACCCTGGAAAGGTTC 57.625 50.000 0.00 0.00 37.88 3.62
2521 2571 1.227249 TTGGACCCTGGAAAGGTTCA 58.773 50.000 0.00 0.00 41.36 3.18
2522 2572 0.476771 TGGACCCTGGAAAGGTTCAC 59.523 55.000 0.00 0.00 38.01 3.18
2525 2575 2.230660 GACCCTGGAAAGGTTCACTTG 58.769 52.381 0.00 0.00 39.96 3.16
2529 2594 1.264288 CTGGAAAGGTTCACTTGCGTC 59.736 52.381 0.00 0.00 39.96 5.19
2539 2604 1.827344 TCACTTGCGTCTGATGATCCT 59.173 47.619 0.00 0.00 0.00 3.24
2569 2634 6.039493 GCACCTTGATGATTTCTGATGAATCT 59.961 38.462 4.29 0.00 31.56 2.40
2613 2686 2.407090 GCTGAATGCTTTGGTGGAAAC 58.593 47.619 0.00 0.00 38.95 2.78
2620 2693 7.118723 TGAATGCTTTGGTGGAAACTATATCT 58.881 34.615 0.00 0.00 0.00 1.98
2632 2705 8.116753 GTGGAAACTATATCTGTTGATCAAACG 58.883 37.037 10.35 4.31 42.10 3.60
2645 2718 2.421751 TCAAACGGGTCCTGTTGAAA 57.578 45.000 17.08 3.03 0.00 2.69
2777 2851 4.911514 ACCCAAGTGATTGTGTTAACAC 57.088 40.909 28.13 28.13 46.59 3.32
2789 2863 3.815337 TGTTAACACACACACACACAC 57.185 42.857 3.59 0.00 0.00 3.82
2790 2864 3.139077 TGTTAACACACACACACACACA 58.861 40.909 3.59 0.00 0.00 3.72
2791 2865 3.058846 TGTTAACACACACACACACACAC 60.059 43.478 3.59 0.00 0.00 3.82
2792 2866 1.598882 AACACACACACACACACACA 58.401 45.000 0.00 0.00 0.00 3.72
2793 2867 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2794 2868 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2795 2869 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2796 2870 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2797 2871 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2798 2872 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2799 2873 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2800 2874 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2801 2875 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2802 2876 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2803 2877 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2804 2878 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2805 2879 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2806 2880 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2807 2881 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2840 2914 3.424703 ACTGATGGTGGTGAATTCAAGG 58.575 45.455 10.35 0.00 0.00 3.61
2863 2938 2.093711 AGCTTTTTGGTTGGTGTTGGAC 60.094 45.455 0.00 0.00 0.00 4.02
2903 2979 2.549754 CCAAGTTCAGTGTAGCACAAGG 59.450 50.000 2.01 0.00 36.74 3.61
2927 3003 9.866655 AGGCCAATTTTATGATCTAATCAAGTA 57.133 29.630 5.01 0.00 43.50 2.24
2969 3045 7.980099 CGTCTTATATTTGTTTACAGAGGGAGT 59.020 37.037 0.00 0.00 0.00 3.85
2992 3068 7.300658 AGTAATTATCAATCCTTTCCCTGCAT 58.699 34.615 0.00 0.00 0.00 3.96
2995 3071 6.872585 TTATCAATCCTTTCCCTGCATTTT 57.127 33.333 0.00 0.00 0.00 1.82
3040 3116 1.111277 GTTCCACCAAACAGCCTGTT 58.889 50.000 3.74 3.74 43.41 3.16
3080 3156 4.074970 TCACTCCTGAAGCCAAGAAAATC 58.925 43.478 0.00 0.00 0.00 2.17
3085 3161 4.520492 TCCTGAAGCCAAGAAAATCAACTC 59.480 41.667 0.00 0.00 0.00 3.01
3131 3207 9.300681 AGATGTGAATCATTCCTTTGAACTTAA 57.699 29.630 0.00 0.00 36.83 1.85
3132 3208 9.565213 GATGTGAATCATTCCTTTGAACTTAAG 57.435 33.333 0.00 0.00 36.83 1.85
3133 3209 8.690203 TGTGAATCATTCCTTTGAACTTAAGA 57.310 30.769 10.09 0.00 32.13 2.10
3134 3210 8.786898 TGTGAATCATTCCTTTGAACTTAAGAG 58.213 33.333 10.09 0.00 32.13 2.85
3135 3211 8.787852 GTGAATCATTCCTTTGAACTTAAGAGT 58.212 33.333 10.09 0.00 37.87 3.24
3176 3252 0.531974 GCCGACACCAACTTGACAGA 60.532 55.000 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.084289 GTACTTTACTTGCCAGCGGG 58.916 55.000 0.00 0.00 37.18 6.13
1 2 2.000447 GAGTACTTTACTTGCCAGCGG 59.000 52.381 0.00 0.00 39.59 5.52
2 3 2.683968 TGAGTACTTTACTTGCCAGCG 58.316 47.619 0.00 0.00 39.59 5.18
3 4 4.508662 AGATGAGTACTTTACTTGCCAGC 58.491 43.478 0.00 0.00 39.59 4.85
4 5 4.800993 CGAGATGAGTACTTTACTTGCCAG 59.199 45.833 0.00 0.00 39.59 4.85
5 6 4.461431 TCGAGATGAGTACTTTACTTGCCA 59.539 41.667 0.00 0.00 39.59 4.92
6 7 4.995124 TCGAGATGAGTACTTTACTTGCC 58.005 43.478 0.00 0.00 39.59 4.52
63 64 1.823899 GCGGCTATGGAAACTGGGG 60.824 63.158 0.00 0.00 0.00 4.96
150 170 1.305381 AGAGGGGAGTTCGAGGTGG 60.305 63.158 0.00 0.00 0.00 4.61
153 173 0.753848 GAGGAGAGGGGAGTTCGAGG 60.754 65.000 0.00 0.00 0.00 4.63
161 181 2.015726 GGAGGAGGAGGAGAGGGGA 61.016 68.421 0.00 0.00 0.00 4.81
167 187 0.998945 AGGAGGAGGAGGAGGAGGAG 60.999 65.000 0.00 0.00 0.00 3.69
168 188 0.996762 GAGGAGGAGGAGGAGGAGGA 60.997 65.000 0.00 0.00 0.00 3.71
169 189 1.541672 GAGGAGGAGGAGGAGGAGG 59.458 68.421 0.00 0.00 0.00 4.30
170 190 0.998945 AGGAGGAGGAGGAGGAGGAG 60.999 65.000 0.00 0.00 0.00 3.69
171 191 0.556380 AAGGAGGAGGAGGAGGAGGA 60.556 60.000 0.00 0.00 0.00 3.71
172 192 0.105709 GAAGGAGGAGGAGGAGGAGG 60.106 65.000 0.00 0.00 0.00 4.30
173 193 0.105709 GGAAGGAGGAGGAGGAGGAG 60.106 65.000 0.00 0.00 0.00 3.69
174 194 1.595058 GGGAAGGAGGAGGAGGAGGA 61.595 65.000 0.00 0.00 0.00 3.71
175 195 1.074850 GGGAAGGAGGAGGAGGAGG 60.075 68.421 0.00 0.00 0.00 4.30
176 196 1.074850 GGGGAAGGAGGAGGAGGAG 60.075 68.421 0.00 0.00 0.00 3.69
177 197 1.866997 TGGGGAAGGAGGAGGAGGA 60.867 63.158 0.00 0.00 0.00 3.71
178 198 1.690985 GTGGGGAAGGAGGAGGAGG 60.691 68.421 0.00 0.00 0.00 4.30
184 204 3.400054 GGGACGTGGGGAAGGAGG 61.400 72.222 0.00 0.00 0.00 4.30
190 210 4.764771 CGGTAGGGGACGTGGGGA 62.765 72.222 0.00 0.00 0.00 4.81
193 213 2.556840 TAGACCGGTAGGGGACGTGG 62.557 65.000 7.34 0.00 43.47 4.94
206 226 2.278596 CACCGATGCCGTAGACCG 60.279 66.667 0.00 0.00 0.00 4.79
319 343 1.636340 GATTCGATTGGTCACGGCG 59.364 57.895 4.80 4.80 0.00 6.46
348 372 3.517602 GAAACAAGACCACCCACAAAAC 58.482 45.455 0.00 0.00 0.00 2.43
364 388 2.433491 CCGCCACCGATCGAAACA 60.433 61.111 18.66 0.00 36.29 2.83
365 389 2.433664 ACCGCCACCGATCGAAAC 60.434 61.111 18.66 1.88 36.29 2.78
367 391 2.233605 AATCACCGCCACCGATCGAA 62.234 55.000 18.66 0.00 36.29 3.71
368 392 2.622903 GAATCACCGCCACCGATCGA 62.623 60.000 18.66 0.00 36.29 3.59
369 393 2.202878 AATCACCGCCACCGATCG 60.203 61.111 8.51 8.51 36.29 3.69
370 394 1.887707 GGAATCACCGCCACCGATC 60.888 63.158 0.00 0.00 36.29 3.69
371 395 1.910580 AAGGAATCACCGCCACCGAT 61.911 55.000 0.00 0.00 44.74 4.18
392 416 2.292292 GGAGTGAGAGCTCCGATAGAAC 59.708 54.545 10.93 0.00 44.64 3.01
409 433 5.648092 CCAGAAACAAATCCGATAAAGGAGT 59.352 40.000 0.00 0.00 44.55 3.85
439 463 9.862371 GATCAAGTGATGGATATATTAACGAGT 57.138 33.333 0.00 0.00 34.37 4.18
442 466 8.911247 TCGATCAAGTGATGGATATATTAACG 57.089 34.615 0.00 0.00 34.95 3.18
454 478 7.886405 ACTCAATCATATCGATCAAGTGATG 57.114 36.000 0.00 0.00 34.37 3.07
484 508 6.757897 AACTCAATCATATCCTCGCAAAAA 57.242 33.333 0.00 0.00 0.00 1.94
485 509 7.857734 TTAACTCAATCATATCCTCGCAAAA 57.142 32.000 0.00 0.00 0.00 2.44
486 510 7.498900 ACATTAACTCAATCATATCCTCGCAAA 59.501 33.333 0.00 0.00 0.00 3.68
487 511 6.992123 ACATTAACTCAATCATATCCTCGCAA 59.008 34.615 0.00 0.00 0.00 4.85
488 512 6.524734 ACATTAACTCAATCATATCCTCGCA 58.475 36.000 0.00 0.00 0.00 5.10
489 513 7.041780 ACAACATTAACTCAATCATATCCTCGC 60.042 37.037 0.00 0.00 0.00 5.03
490 514 8.370493 ACAACATTAACTCAATCATATCCTCG 57.630 34.615 0.00 0.00 0.00 4.63
492 516 9.261180 CGTACAACATTAACTCAATCATATCCT 57.739 33.333 0.00 0.00 0.00 3.24
493 517 8.495949 CCGTACAACATTAACTCAATCATATCC 58.504 37.037 0.00 0.00 0.00 2.59
494 518 9.256477 TCCGTACAACATTAACTCAATCATATC 57.744 33.333 0.00 0.00 0.00 1.63
495 519 9.261180 CTCCGTACAACATTAACTCAATCATAT 57.739 33.333 0.00 0.00 0.00 1.78
496 520 8.471609 TCTCCGTACAACATTAACTCAATCATA 58.528 33.333 0.00 0.00 0.00 2.15
497 521 7.327975 TCTCCGTACAACATTAACTCAATCAT 58.672 34.615 0.00 0.00 0.00 2.45
498 522 6.693466 TCTCCGTACAACATTAACTCAATCA 58.307 36.000 0.00 0.00 0.00 2.57
499 523 6.237861 GCTCTCCGTACAACATTAACTCAATC 60.238 42.308 0.00 0.00 0.00 2.67
500 524 5.581085 GCTCTCCGTACAACATTAACTCAAT 59.419 40.000 0.00 0.00 0.00 2.57
501 525 4.927425 GCTCTCCGTACAACATTAACTCAA 59.073 41.667 0.00 0.00 0.00 3.02
502 526 4.491676 GCTCTCCGTACAACATTAACTCA 58.508 43.478 0.00 0.00 0.00 3.41
503 527 3.546670 CGCTCTCCGTACAACATTAACTC 59.453 47.826 0.00 0.00 0.00 3.01
504 528 3.508762 CGCTCTCCGTACAACATTAACT 58.491 45.455 0.00 0.00 0.00 2.24
505 529 2.028883 GCGCTCTCCGTACAACATTAAC 59.971 50.000 0.00 0.00 39.71 2.01
506 530 2.264813 GCGCTCTCCGTACAACATTAA 58.735 47.619 0.00 0.00 39.71 1.40
507 531 1.796253 CGCGCTCTCCGTACAACATTA 60.796 52.381 5.56 0.00 39.71 1.90
508 532 1.076533 CGCGCTCTCCGTACAACATT 61.077 55.000 5.56 0.00 39.71 2.71
509 533 1.516386 CGCGCTCTCCGTACAACAT 60.516 57.895 5.56 0.00 39.71 2.71
510 534 2.126618 CGCGCTCTCCGTACAACA 60.127 61.111 5.56 0.00 39.71 3.33
511 535 1.868251 CTCGCGCTCTCCGTACAAC 60.868 63.158 5.56 0.00 39.71 3.32
514 538 1.082627 GATCTCGCGCTCTCCGTAC 60.083 63.158 5.56 0.00 39.71 3.67
518 542 0.665972 GGATTGATCTCGCGCTCTCC 60.666 60.000 5.56 0.00 0.00 3.71
533 557 2.154567 TCCCTACGCTACAGTGGATT 57.845 50.000 0.00 0.00 0.00 3.01
540 564 2.623416 CACATCAGATCCCTACGCTACA 59.377 50.000 0.00 0.00 0.00 2.74
592 617 5.366482 TCACATGCTTGTTTATAGCCCTA 57.634 39.130 1.83 0.00 37.85 3.53
601 626 6.006449 ACCTCTCTAAATCACATGCTTGTTT 58.994 36.000 1.83 0.00 32.34 2.83
630 655 7.938490 TCAAAATCTGCTCATATATACTGGCAA 59.062 33.333 0.00 0.00 0.00 4.52
683 709 7.119262 GGTAGTGACAGCATTAACAACTTATGT 59.881 37.037 0.00 0.00 46.82 2.29
684 710 7.464358 GGTAGTGACAGCATTAACAACTTATG 58.536 38.462 0.00 0.00 0.00 1.90
685 711 6.312918 CGGTAGTGACAGCATTAACAACTTAT 59.687 38.462 0.00 0.00 0.00 1.73
686 712 5.636121 CGGTAGTGACAGCATTAACAACTTA 59.364 40.000 0.00 0.00 0.00 2.24
687 713 4.451096 CGGTAGTGACAGCATTAACAACTT 59.549 41.667 0.00 0.00 0.00 2.66
688 714 3.994392 CGGTAGTGACAGCATTAACAACT 59.006 43.478 0.00 0.00 0.00 3.16
689 715 3.744426 ACGGTAGTGACAGCATTAACAAC 59.256 43.478 0.00 0.00 0.00 3.32
690 716 3.997762 ACGGTAGTGACAGCATTAACAA 58.002 40.909 0.00 0.00 0.00 2.83
691 717 3.671008 ACGGTAGTGACAGCATTAACA 57.329 42.857 0.00 0.00 0.00 2.41
707 733 3.629087 AGTGGCTACTATAGTTCACGGT 58.371 45.455 11.40 1.19 37.26 4.83
708 734 5.961396 ATAGTGGCTACTATAGTTCACGG 57.039 43.478 20.10 0.00 45.87 4.94
724 750 5.352284 CAGACAGTTTGGCTACTATAGTGG 58.648 45.833 15.90 13.72 29.42 4.00
728 754 7.484993 TTAACCAGACAGTTTGGCTACTATA 57.515 36.000 10.13 0.00 29.42 1.31
733 783 5.235850 TGATTAACCAGACAGTTTGGCTA 57.764 39.130 10.13 0.00 29.42 3.93
734 784 4.074970 CTGATTAACCAGACAGTTTGGCT 58.925 43.478 10.13 0.36 34.86 4.75
745 795 6.855836 ACAACAATACATGCTGATTAACCAG 58.144 36.000 0.00 0.00 37.23 4.00
763 813 4.574674 AGGGATGAGCAAGATACAACAA 57.425 40.909 0.00 0.00 0.00 2.83
764 814 5.692115 TTAGGGATGAGCAAGATACAACA 57.308 39.130 0.00 0.00 0.00 3.33
765 815 7.573968 AAATTAGGGATGAGCAAGATACAAC 57.426 36.000 0.00 0.00 0.00 3.32
766 816 8.593945 AAAAATTAGGGATGAGCAAGATACAA 57.406 30.769 0.00 0.00 0.00 2.41
794 844 1.401761 ACAAAGTGTCAGCCATGCAA 58.598 45.000 0.00 0.00 0.00 4.08
797 847 2.153645 TGCTACAAAGTGTCAGCCATG 58.846 47.619 0.00 0.00 30.98 3.66
798 848 2.566833 TGCTACAAAGTGTCAGCCAT 57.433 45.000 0.00 0.00 30.98 4.40
810 860 6.931281 GCTGATAAGAGATAACCATGCTACAA 59.069 38.462 0.00 0.00 0.00 2.41
824 874 1.550524 AGTTGTGGCGCTGATAAGAGA 59.449 47.619 7.64 0.00 0.00 3.10
825 875 2.015736 AGTTGTGGCGCTGATAAGAG 57.984 50.000 7.64 0.00 0.00 2.85
835 885 2.157668 CAGTGTAGCTAAAGTTGTGGCG 59.842 50.000 0.00 0.00 0.00 5.69
836 886 3.399330 TCAGTGTAGCTAAAGTTGTGGC 58.601 45.455 0.00 0.00 0.00 5.01
842 892 4.030913 TGCCCTATCAGTGTAGCTAAAGT 58.969 43.478 0.00 0.00 0.00 2.66
872 922 3.828451 ACCAACCACATGGAAGAAGATTG 59.172 43.478 4.53 0.00 43.54 2.67
893 943 4.022589 CCATAGTCATTCCATCATGCCAAC 60.023 45.833 0.00 0.00 0.00 3.77
916 966 7.657336 TGGAGAACAAGTAAATTGACAAATCC 58.343 34.615 0.00 0.00 41.83 3.01
920 970 6.265196 AGCATGGAGAACAAGTAAATTGACAA 59.735 34.615 0.00 0.00 41.83 3.18
934 984 4.953667 TGTCATCAGATAGCATGGAGAAC 58.046 43.478 0.00 0.00 0.00 3.01
975 1025 1.818060 GCATGGTGTGGCATCAAACTA 59.182 47.619 0.00 0.00 31.82 2.24
1131 1181 4.382470 GCACCTCTGATAGTCAACTGATGT 60.382 45.833 0.00 0.00 0.00 3.06
1185 1235 2.115427 TCAGCGATCCCAATAACCTCA 58.885 47.619 0.00 0.00 0.00 3.86
1274 1324 9.846248 CAAAGAAAGACACTATAATCCAAAAGG 57.154 33.333 0.00 0.00 0.00 3.11
1276 1326 8.855110 TGCAAAGAAAGACACTATAATCCAAAA 58.145 29.630 0.00 0.00 0.00 2.44
1328 1378 4.095483 CCATTGCAGCGAGAAGAATTAACT 59.905 41.667 0.00 0.00 0.00 2.24
1341 1391 1.080569 GTCAAACCCCATTGCAGCG 60.081 57.895 0.00 0.00 0.00 5.18
1351 1401 9.853555 AATTTTGAAAAATTGAAAGTCAAACCC 57.146 25.926 11.88 0.00 44.46 4.11
1458 1508 4.916041 ATTCATTCACCTTCTCCTCACA 57.084 40.909 0.00 0.00 0.00 3.58
1481 1531 9.803130 CATAGAGTAATCAAAATGTATGCTTCG 57.197 33.333 0.00 0.00 0.00 3.79
1496 1546 6.648725 ACAAAGCACGTTCATAGAGTAATC 57.351 37.500 0.00 0.00 0.00 1.75
1498 1548 5.407387 GGAACAAAGCACGTTCATAGAGTAA 59.593 40.000 12.95 0.00 43.70 2.24
1512 1562 0.106918 ACCGGTTCAGGAACAAAGCA 60.107 50.000 0.00 0.00 42.85 3.91
1594 1644 9.468532 GCTCTCAAACAAAATTAGATTTGAACT 57.531 29.630 6.76 0.00 41.73 3.01
1635 1685 4.960938 TCAGATAAACACAAGCAGTCACT 58.039 39.130 0.00 0.00 0.00 3.41
1642 1692 8.186821 AGATTTAGCATTCAGATAAACACAAGC 58.813 33.333 0.00 0.00 40.52 4.01
1653 1703 6.882656 ACAGCTTCTAGATTTAGCATTCAGA 58.117 36.000 15.52 0.00 37.37 3.27
1660 1710 5.432645 AGGGAAACAGCTTCTAGATTTAGC 58.567 41.667 6.78 6.78 34.17 3.09
1667 1717 9.620259 AGATAATAAAAGGGAAACAGCTTCTAG 57.380 33.333 0.00 0.00 34.17 2.43
1730 1780 2.409948 ACTCTGTTCTGCCCAATAGC 57.590 50.000 0.00 0.00 0.00 2.97
1753 1803 8.079211 AGCATCTGAAGAAACATAACTAGGTA 57.921 34.615 0.00 0.00 0.00 3.08
1754 1804 6.951971 AGCATCTGAAGAAACATAACTAGGT 58.048 36.000 0.00 0.00 0.00 3.08
1824 1874 6.704289 TCAATCCAAAGATGATGGTCAATC 57.296 37.500 0.00 0.00 39.09 2.67
1825 1875 6.610020 ACATCAATCCAAAGATGATGGTCAAT 59.390 34.615 16.60 0.00 43.28 2.57
1837 1887 3.441572 GTCACCCTGACATCAATCCAAAG 59.558 47.826 0.00 0.00 46.22 2.77
1853 1903 2.888834 AACAATGTTTGCAGTCACCC 57.111 45.000 0.00 0.00 0.00 4.61
1860 1910 3.570125 TCCCACGATAAACAATGTTTGCA 59.430 39.130 20.40 2.72 0.00 4.08
1870 1920 7.282450 ACAATAAATTCTCCTCCCACGATAAAC 59.718 37.037 0.00 0.00 0.00 2.01
1877 1927 5.685728 AGCTACAATAAATTCTCCTCCCAC 58.314 41.667 0.00 0.00 0.00 4.61
1883 1933 6.878908 GCTCGTAAGCTACAATAAATTCTCC 58.121 40.000 0.00 0.00 45.55 3.71
1976 2026 6.914757 GTGCTTGTTAATGAAGATATCTTGGC 59.085 38.462 22.61 9.70 36.11 4.52
1983 2033 7.970061 GCTGAAATGTGCTTGTTAATGAAGATA 59.030 33.333 2.24 0.00 0.00 1.98
1999 2049 8.816640 AAATAACTACAAAAGGCTGAAATGTG 57.183 30.769 0.00 0.00 0.00 3.21
2007 2057 8.802267 TGCAGAATAAAATAACTACAAAAGGCT 58.198 29.630 0.00 0.00 0.00 4.58
2045 2095 9.397280 GAAGGGCTAAGTAGAATTATTTCTGTT 57.603 33.333 9.62 6.22 42.25 3.16
2212 2262 4.870991 GCTGAATTCTACAGGAACAGGTAC 59.129 45.833 7.05 0.00 36.70 3.34
2248 2298 2.159801 GCATGCTTGATTTTCCAAACGC 60.160 45.455 11.37 0.00 0.00 4.84
2337 2387 4.062991 CGCAAAGTTGACCCTAAGTAACT 58.937 43.478 0.00 0.00 35.06 2.24
2408 2458 2.428491 CAAGGGGCGTACACACAATTA 58.572 47.619 0.00 0.00 0.00 1.40
2411 2461 1.894756 GCAAGGGGCGTACACACAA 60.895 57.895 0.00 0.00 0.00 3.33
2525 2575 2.064762 GCATACAGGATCATCAGACGC 58.935 52.381 0.00 0.00 0.00 5.19
2529 2594 3.766068 AGGTGCATACAGGATCATCAG 57.234 47.619 0.00 0.00 0.00 2.90
2539 2604 5.499313 TCAGAAATCATCAAGGTGCATACA 58.501 37.500 0.00 0.00 0.00 2.29
2569 2634 3.263170 TGCAAGTAGTCTGGGCTATGAAA 59.737 43.478 0.00 0.00 0.00 2.69
2577 2650 1.002430 TCAGCTTGCAAGTAGTCTGGG 59.998 52.381 26.55 8.48 0.00 4.45
2613 2686 5.696724 GGACCCGTTTGATCAACAGATATAG 59.303 44.000 7.89 0.00 34.68 1.31
2620 2693 1.142060 ACAGGACCCGTTTGATCAACA 59.858 47.619 7.89 0.00 34.68 3.33
2632 2705 4.990426 CACAAATCATTTTCAACAGGACCC 59.010 41.667 0.00 0.00 0.00 4.46
2665 2738 0.400213 AGGTGGCTTCGGACATTCAA 59.600 50.000 0.00 0.00 34.34 2.69
2674 2747 0.109597 GCACAAATCAGGTGGCTTCG 60.110 55.000 0.00 0.00 36.76 3.79
2721 2795 8.842358 AAACAGAGATCTAAACCATAAAACGA 57.158 30.769 0.00 0.00 0.00 3.85
2769 2843 3.058846 GTGTGTGTGTGTGTGTGTTAACA 60.059 43.478 3.59 3.59 0.00 2.41
2770 2844 3.058846 TGTGTGTGTGTGTGTGTGTTAAC 60.059 43.478 0.00 0.00 0.00 2.01
2771 2845 3.058846 GTGTGTGTGTGTGTGTGTGTTAA 60.059 43.478 0.00 0.00 0.00 2.01
2773 2847 1.265635 GTGTGTGTGTGTGTGTGTGTT 59.734 47.619 0.00 0.00 0.00 3.32
2774 2848 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2775 2849 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2776 2850 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2777 2851 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2779 2853 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2780 2854 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2781 2855 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2782 2856 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2783 2857 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2784 2858 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2785 2859 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2786 2860 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2787 2861 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2788 2862 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2789 2863 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2790 2864 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2791 2865 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2792 2866 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2793 2867 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2794 2868 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2795 2869 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2796 2870 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2797 2871 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2798 2872 1.598882 TTGTGTGTGTGTGTGTGTGT 58.401 45.000 0.00 0.00 0.00 3.72
2799 2873 2.695613 TTTGTGTGTGTGTGTGTGTG 57.304 45.000 0.00 0.00 0.00 3.82
2800 2874 2.621055 AGTTTTGTGTGTGTGTGTGTGT 59.379 40.909 0.00 0.00 0.00 3.72
2801 2875 2.979151 CAGTTTTGTGTGTGTGTGTGTG 59.021 45.455 0.00 0.00 0.00 3.82
2802 2876 2.881513 TCAGTTTTGTGTGTGTGTGTGT 59.118 40.909 0.00 0.00 0.00 3.72
2803 2877 3.550950 TCAGTTTTGTGTGTGTGTGTG 57.449 42.857 0.00 0.00 0.00 3.82
2804 2878 3.119531 CCATCAGTTTTGTGTGTGTGTGT 60.120 43.478 0.00 0.00 0.00 3.72
2805 2879 3.119531 ACCATCAGTTTTGTGTGTGTGTG 60.120 43.478 0.00 0.00 0.00 3.82
2806 2880 3.088532 ACCATCAGTTTTGTGTGTGTGT 58.911 40.909 0.00 0.00 0.00 3.72
2807 2881 3.437428 CACCATCAGTTTTGTGTGTGTG 58.563 45.455 0.00 0.00 0.00 3.82
2840 2914 2.549926 CAACACCAACCAAAAAGCTCC 58.450 47.619 0.00 0.00 0.00 4.70
2863 2938 7.693969 ACTTGGAGGAAATTTCAACTGATAG 57.306 36.000 19.49 9.61 0.00 2.08
2969 3045 8.551682 AAATGCAGGGAAAGGATTGATAATTA 57.448 30.769 0.00 0.00 0.00 1.40
2970 3046 7.441903 AAATGCAGGGAAAGGATTGATAATT 57.558 32.000 0.00 0.00 0.00 1.40
2971 3047 7.092757 ACAAAATGCAGGGAAAGGATTGATAAT 60.093 33.333 0.00 0.00 0.00 1.28
2992 3068 6.913873 AAAGTACTCAAGAACGCTACAAAA 57.086 33.333 0.00 0.00 0.00 2.44
2995 3071 5.461078 GTGAAAAGTACTCAAGAACGCTACA 59.539 40.000 0.00 0.00 0.00 2.74
3056 3132 2.015456 TCTTGGCTTCAGGAGTGAGA 57.985 50.000 0.00 0.00 32.98 3.27
3080 3156 2.333389 AGTTAGTCAGTCGCGAGTTG 57.667 50.000 15.15 13.86 0.00 3.16
3085 3161 4.111198 TCTAGTCTAGTTAGTCAGTCGCG 58.889 47.826 0.00 0.00 0.00 5.87
3131 3207 5.654209 GGGGCTTCTTGATCAATTTTACTCT 59.346 40.000 8.96 0.00 0.00 3.24
3132 3208 5.654209 AGGGGCTTCTTGATCAATTTTACTC 59.346 40.000 8.96 0.17 0.00 2.59
3133 3209 5.420104 CAGGGGCTTCTTGATCAATTTTACT 59.580 40.000 8.96 0.00 0.00 2.24
3134 3210 5.654497 CAGGGGCTTCTTGATCAATTTTAC 58.346 41.667 8.96 0.08 0.00 2.01
3135 3211 4.160252 GCAGGGGCTTCTTGATCAATTTTA 59.840 41.667 8.96 0.00 36.96 1.52
3176 3252 3.764237 ACATCACGAGTGGTTACCTTT 57.236 42.857 2.07 0.00 0.00 3.11


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

AutoCloner maintained by Alex Coulton.