Multiple sequence alignment - TraesCS3B01G204800

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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 TraesCS3B01G204800 chr3B 100.000 2875 0 0 2002 4876 239310175 239307301 0.000000e+00 5310.0
1 TraesCS3B01G204800 chr3B 100.000 1706 0 0 1 1706 239312176 239310471 0.000000e+00 3151.0
2 TraesCS3B01G204800 chr3B 93.103 261 14 3 3760 4018 422225608 422225350 3.560000e-101 379.0
3 TraesCS3B01G204800 chr3B 83.761 234 14 10 1491 1700 239310152 239309919 2.980000e-47 200.0
4 TraesCS3B01G204800 chr3B 85.890 163 11 9 1556 1706 239310150 239309988 3.910000e-36 163.0
5 TraesCS3B01G204800 chr3B 86.755 151 14 4 1493 1637 239310621 239310471 3.910000e-36 163.0
6 TraesCS3B01G204800 chr3B 86.755 151 14 4 1556 1706 239310684 239310540 3.910000e-36 163.0
7 TraesCS3B01G204800 chr3B 94.340 106 5 1 4 108 43335916 43336021 1.400000e-35 161.0
8 TraesCS3B01G204800 chr3B 93.578 109 5 2 1 107 436409353 436409461 1.400000e-35 161.0
9 TraesCS3B01G204800 chr3D 96.140 2798 86 9 2093 4876 162409855 162407066 0.000000e+00 4549.0
10 TraesCS3B01G204800 chr3D 92.482 1636 65 17 114 1706 162411799 162410179 0.000000e+00 2287.0
11 TraesCS3B01G204800 chr3D 86.182 275 29 4 2002 2273 162410363 162410095 6.180000e-74 289.0
12 TraesCS3B01G204800 chr3D 92.784 194 14 0 2002 2195 162410288 162410095 1.030000e-71 281.0
13 TraesCS3B01G204800 chr3D 85.253 217 19 6 2099 2315 162410413 162410210 1.380000e-50 211.0
14 TraesCS3B01G204800 chr3D 87.898 157 7 5 1556 1700 162409849 162409693 1.800000e-39 174.0
15 TraesCS3B01G204800 chr3D 94.393 107 4 2 1 105 380491562 380491668 3.910000e-36 163.0
16 TraesCS3B01G204800 chr3D 80.508 236 25 9 1486 1700 162410345 162410110 1.400000e-35 161.0
17 TraesCS3B01G204800 chr3D 84.426 122 10 5 2002 2117 162410213 162410095 1.430000e-20 111.0
18 TraesCS3B01G204800 chr3A 95.574 2847 94 8 2053 4876 194707734 194704897 0.000000e+00 4530.0
19 TraesCS3B01G204800 chr3A 91.267 1626 81 24 114 1700 194709881 194708278 0.000000e+00 2159.0
20 TraesCS3B01G204800 chr3A 87.308 260 27 1 2002 2255 194708462 194708203 4.770000e-75 292.0
21 TraesCS3B01G204800 chr3A 84.859 284 37 2 2025 2305 194708514 194708234 1.030000e-71 281.0
22 TraesCS3B01G204800 chr3A 87.402 254 17 9 2002 2246 194708387 194708140 1.340000e-70 278.0
23 TraesCS3B01G204800 chr3A 92.941 170 9 1 2002 2168 194708309 194708140 1.360000e-60 244.0
24 TraesCS3B01G204800 chr3A 84.058 207 27 2 2099 2305 194708512 194708312 1.380000e-45 195.0
25 TraesCS3B01G204800 chr3A 81.124 249 18 13 1486 1706 194708444 194708197 6.490000e-39 172.0
26 TraesCS3B01G204800 chr3A 80.738 244 21 11 1454 1678 194708392 194708156 3.020000e-37 167.0
27 TraesCS3B01G204800 chr3A 93.519 108 4 3 1 107 653223066 653223171 1.820000e-34 158.0
28 TraesCS3B01G204800 chr3A 91.579 95 5 1 2002 2096 194708231 194708140 1.420000e-25 128.0
29 TraesCS3B01G204800 chr3A 97.059 34 1 0 3542 3575 194706155 194706122 1.900000e-04 58.4
30 TraesCS3B01G204800 chr5B 92.720 261 15 3 3760 4018 452131827 452132085 1.660000e-99 374.0
31 TraesCS3B01G204800 chr7A 89.655 174 13 5 3847 4018 642738396 642738566 2.960000e-52 217.0
32 TraesCS3B01G204800 chr6B 94.286 105 4 2 1 103 202126134 202126030 5.050000e-35 159.0
33 TraesCS3B01G204800 chr4D 94.286 105 4 2 1 103 336940457 336940353 5.050000e-35 159.0
34 TraesCS3B01G204800 chr2B 94.340 106 2 4 1 104 158907009 158907112 5.050000e-35 159.0
35 TraesCS3B01G204800 chr5D 93.396 106 7 0 1 106 232838519 232838414 1.820000e-34 158.0
36 TraesCS3B01G204800 chr5A 89.516 124 8 3 1 119 38799580 38799457 8.450000e-33 152.0


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 TraesCS3B01G204800 chr3B 239307301 239312176 4875 True 1525.000000 5310 90.526833 1 4876 6 chr3B.!!$R2 4875
1 TraesCS3B01G204800 chr3D 162407066 162411799 4733 True 1007.875000 4549 88.209125 114 4876 8 chr3D.!!$R1 4762
2 TraesCS3B01G204800 chr3A 194704897 194709881 4984 True 773.127273 4530 88.537182 114 4876 11 chr3A.!!$R1 4762

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
517 536 0.035739 GTTCCGTGGGCAGTTTCCTA 59.964 55.0 0.00 0.0 0.00 2.94 F
1565 1590 0.322008 CCTGAACCAGAGAAGGCCAC 60.322 60.0 5.01 0.0 32.44 5.01 F
1689 1714 0.117140 TGGAGCCCTCAGAGAAGGAA 59.883 55.0 0.00 0.0 38.87 3.36 F
2814 3795 0.251341 ACAAAGCCCCAGTGGTGATC 60.251 55.0 8.74 0.0 36.04 2.92 F
3342 4341 0.621571 TGATGAGGTCTGGAAGGGGG 60.622 60.0 0.00 0.0 0.00 5.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1601 1626 0.117140 TTCCTTCTCTGAGGGCTCCA 59.883 55.0 4.59 0.00 37.41 3.86 R
2999 3995 0.040692 CTTCACCGTCGTCGAAGTCA 60.041 55.0 2.98 0.00 39.71 3.41 R
3034 4030 0.546267 ACCTCTCCATCCACAGCTGT 60.546 55.0 15.25 15.25 0.00 4.40 R
3635 4634 1.805428 ATTCGCACCACCCTTGTTGC 61.805 55.0 0.00 0.00 0.00 4.17 R
4315 5315 2.039084 CAGCAAGTCCTAACTGGGAAGT 59.961 50.0 0.00 0.00 37.10 3.01 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
24 25 7.696992 TTGTTTTCAGACTTTAAGACCTTGT 57.303 32.000 0.00 0.00 0.00 3.16
25 26 7.696992 TGTTTTCAGACTTTAAGACCTTGTT 57.303 32.000 0.00 0.00 0.00 2.83
26 27 7.535139 TGTTTTCAGACTTTAAGACCTTGTTG 58.465 34.615 0.00 0.00 0.00 3.33
27 28 7.392113 TGTTTTCAGACTTTAAGACCTTGTTGA 59.608 33.333 0.00 0.00 0.00 3.18
28 29 7.931578 TTTCAGACTTTAAGACCTTGTTGAA 57.068 32.000 0.00 0.00 0.00 2.69
29 30 6.920569 TCAGACTTTAAGACCTTGTTGAAC 57.079 37.500 0.00 0.00 0.00 3.18
30 31 5.820947 TCAGACTTTAAGACCTTGTTGAACC 59.179 40.000 0.00 0.00 0.00 3.62
31 32 5.823045 CAGACTTTAAGACCTTGTTGAACCT 59.177 40.000 0.00 0.00 0.00 3.50
32 33 6.017852 CAGACTTTAAGACCTTGTTGAACCTC 60.018 42.308 0.00 0.00 0.00 3.85
33 34 6.002653 ACTTTAAGACCTTGTTGAACCTCT 57.997 37.500 0.00 0.00 0.00 3.69
34 35 6.424032 ACTTTAAGACCTTGTTGAACCTCTT 58.576 36.000 0.00 0.00 0.00 2.85
35 36 6.890268 ACTTTAAGACCTTGTTGAACCTCTTT 59.110 34.615 0.00 0.00 0.00 2.52
36 37 7.396339 ACTTTAAGACCTTGTTGAACCTCTTTT 59.604 33.333 0.00 0.00 0.00 2.27
37 38 8.810990 TTTAAGACCTTGTTGAACCTCTTTTA 57.189 30.769 0.00 0.00 0.00 1.52
38 39 8.990163 TTAAGACCTTGTTGAACCTCTTTTAT 57.010 30.769 0.00 0.00 0.00 1.40
39 40 7.898014 AAGACCTTGTTGAACCTCTTTTATT 57.102 32.000 0.00 0.00 0.00 1.40
40 41 7.898014 AGACCTTGTTGAACCTCTTTTATTT 57.102 32.000 0.00 0.00 0.00 1.40
41 42 8.990163 AGACCTTGTTGAACCTCTTTTATTTA 57.010 30.769 0.00 0.00 0.00 1.40
42 43 9.588096 AGACCTTGTTGAACCTCTTTTATTTAT 57.412 29.630 0.00 0.00 0.00 1.40
52 53 9.529325 GAACCTCTTTTATTTATAAATGTGGGC 57.471 33.333 18.98 14.23 40.99 5.36
53 54 7.712797 ACCTCTTTTATTTATAAATGTGGGCG 58.287 34.615 18.98 5.49 40.99 6.13
54 55 7.340999 ACCTCTTTTATTTATAAATGTGGGCGT 59.659 33.333 18.98 6.02 40.99 5.68
55 56 8.842280 CCTCTTTTATTTATAAATGTGGGCGTA 58.158 33.333 18.98 0.00 37.38 4.42
58 59 8.804688 TTTTATTTATAAATGTGGGCGTATGC 57.195 30.769 18.98 0.00 34.75 3.14
59 60 7.511959 TTATTTATAAATGTGGGCGTATGCA 57.488 32.000 18.98 0.00 45.35 3.96
60 61 6.588719 ATTTATAAATGTGGGCGTATGCAT 57.411 33.333 9.93 3.79 45.35 3.96
61 62 5.621197 TTATAAATGTGGGCGTATGCATC 57.379 39.130 0.19 0.86 45.35 3.91
62 63 0.662619 AAATGTGGGCGTATGCATCG 59.337 50.000 0.19 8.36 45.35 3.84
63 64 0.463654 AATGTGGGCGTATGCATCGT 60.464 50.000 0.19 0.00 45.35 3.73
64 65 0.463654 ATGTGGGCGTATGCATCGTT 60.464 50.000 0.19 0.00 45.35 3.85
65 66 1.087202 TGTGGGCGTATGCATCGTTC 61.087 55.000 0.19 4.71 45.35 3.95
66 67 0.810031 GTGGGCGTATGCATCGTTCT 60.810 55.000 0.19 0.00 45.35 3.01
67 68 0.809636 TGGGCGTATGCATCGTTCTG 60.810 55.000 0.19 0.00 45.35 3.02
68 69 0.529773 GGGCGTATGCATCGTTCTGA 60.530 55.000 0.19 0.00 45.35 3.27
69 70 1.502231 GGCGTATGCATCGTTCTGAT 58.498 50.000 0.19 0.00 45.35 2.90
77 78 3.376218 ATCGTTCTGATGCAGAGGC 57.624 52.632 0.00 0.00 41.75 4.70
78 79 0.179062 ATCGTTCTGATGCAGAGGCC 60.179 55.000 0.00 0.00 41.75 5.19
79 80 2.169789 CGTTCTGATGCAGAGGCCG 61.170 63.158 0.00 0.00 41.75 6.13
80 81 1.817099 GTTCTGATGCAGAGGCCGG 60.817 63.158 0.00 0.00 41.75 6.13
81 82 3.035173 TTCTGATGCAGAGGCCGGG 62.035 63.158 2.18 0.00 41.75 5.73
82 83 4.559063 CTGATGCAGAGGCCGGGG 62.559 72.222 2.18 0.00 40.13 5.73
84 85 4.247380 GATGCAGAGGCCGGGGAG 62.247 72.222 2.18 0.00 40.13 4.30
131 132 3.304324 GCTCCTTCTTGCTTGAAGAACAC 60.304 47.826 16.89 4.38 44.32 3.32
202 203 5.471556 TTGTTCATGCTCAAAATGTCCAT 57.528 34.783 0.00 0.00 0.00 3.41
267 274 6.892456 TGCATAAAAGGATTTGTGGGTATACA 59.108 34.615 5.01 0.00 39.02 2.29
268 275 7.563188 TGCATAAAAGGATTTGTGGGTATACAT 59.437 33.333 5.01 0.00 39.02 2.29
291 298 7.329962 ACATATGTCATGTCAATTGCAACTTTG 59.670 33.333 0.00 3.52 0.00 2.77
317 324 4.160065 TGATTGATGTGCTTGGTAAATGGG 59.840 41.667 0.00 0.00 0.00 4.00
457 469 5.501413 GCATACAACTCATGTCACAATCTCG 60.501 44.000 0.00 0.00 42.70 4.04
464 476 3.193479 TCATGTCACAATCTCGTACTGCT 59.807 43.478 0.00 0.00 0.00 4.24
465 477 4.398044 TCATGTCACAATCTCGTACTGCTA 59.602 41.667 0.00 0.00 0.00 3.49
466 478 4.983671 TGTCACAATCTCGTACTGCTAT 57.016 40.909 0.00 0.00 0.00 2.97
467 479 4.921547 TGTCACAATCTCGTACTGCTATC 58.078 43.478 0.00 0.00 0.00 2.08
468 480 4.640647 TGTCACAATCTCGTACTGCTATCT 59.359 41.667 0.00 0.00 0.00 1.98
469 481 5.125578 TGTCACAATCTCGTACTGCTATCTT 59.874 40.000 0.00 0.00 0.00 2.40
470 482 6.037098 GTCACAATCTCGTACTGCTATCTTT 58.963 40.000 0.00 0.00 0.00 2.52
471 483 6.531948 GTCACAATCTCGTACTGCTATCTTTT 59.468 38.462 0.00 0.00 0.00 2.27
498 510 0.867086 TAAAAGAACGAAACGGCCGG 59.133 50.000 31.76 14.36 0.00 6.13
502 514 2.958204 GAACGAAACGGCCGGTTCC 61.958 63.158 41.80 28.18 38.51 3.62
517 536 0.035739 GTTCCGTGGGCAGTTTCCTA 59.964 55.000 0.00 0.00 0.00 2.94
518 537 0.766131 TTCCGTGGGCAGTTTCCTAA 59.234 50.000 0.00 0.00 0.00 2.69
568 587 5.144100 TGAAAAGAACCCCAAAATCTGCTA 58.856 37.500 0.00 0.00 0.00 3.49
577 596 4.897670 CCCCAAAATCTGCTATTGGAGAAT 59.102 41.667 2.11 0.00 45.14 2.40
604 624 1.030488 CGAGAGTGGCCCTAGTTCGA 61.030 60.000 0.00 0.00 0.00 3.71
672 692 2.280389 CTCACGCACACTGCCTGT 60.280 61.111 0.00 0.00 41.12 4.00
740 761 4.024545 GCCCGAACCCTCCCGAAA 62.025 66.667 0.00 0.00 0.00 3.46
741 762 2.046604 CCCGAACCCTCCCGAAAC 60.047 66.667 0.00 0.00 0.00 2.78
742 763 2.590114 CCCGAACCCTCCCGAAACT 61.590 63.158 0.00 0.00 0.00 2.66
753 774 4.220602 CCCTCCCGAAACTGATTTTGAAAT 59.779 41.667 0.00 0.00 31.55 2.17
767 788 4.789012 TTTGAAATCTCATTCACAGGCC 57.211 40.909 0.00 0.00 38.95 5.19
988 1012 2.042843 ATCGAGTTCCTCCCGCCT 60.043 61.111 0.00 0.00 0.00 5.52
1058 1083 3.883744 CTCAACGGCAAGCCCTCGT 62.884 63.158 5.34 0.00 38.89 4.18
1160 1185 1.152881 ATTCGGATCCCAAGCCTGC 60.153 57.895 6.06 0.00 0.00 4.85
1312 1337 1.338200 ACACGCAGAAGGAAGATCCAC 60.338 52.381 0.00 0.00 39.61 4.02
1407 1432 2.782341 AGCAGAGCCCCTATTTGAGATT 59.218 45.455 0.00 0.00 0.00 2.40
1445 1470 2.755876 TCGCCGTGGAGAGCAGAT 60.756 61.111 0.00 0.00 0.00 2.90
1543 1568 2.796651 GGAAGAATGCTGCGCAGG 59.203 61.111 36.47 19.58 43.65 4.85
1556 1581 3.650950 GCAGGCCCCTGAACCAGA 61.651 66.667 18.20 0.00 46.30 3.86
1557 1582 2.673523 CAGGCCCCTGAACCAGAG 59.326 66.667 8.67 0.00 46.30 3.35
1558 1583 1.920325 CAGGCCCCTGAACCAGAGA 60.920 63.158 8.67 0.00 46.30 3.10
1559 1584 1.151810 AGGCCCCTGAACCAGAGAA 60.152 57.895 0.00 0.00 32.44 2.87
1560 1585 1.204113 AGGCCCCTGAACCAGAGAAG 61.204 60.000 0.00 0.00 32.44 2.85
1561 1586 1.301293 GCCCCTGAACCAGAGAAGG 59.699 63.158 0.00 0.00 32.44 3.46
1562 1587 1.301293 CCCCTGAACCAGAGAAGGC 59.699 63.158 0.00 0.00 32.44 4.35
1563 1588 1.301293 CCCTGAACCAGAGAAGGCC 59.699 63.158 0.00 0.00 32.44 5.19
1564 1589 1.492133 CCCTGAACCAGAGAAGGCCA 61.492 60.000 5.01 0.00 32.44 5.36
1565 1590 0.322008 CCTGAACCAGAGAAGGCCAC 60.322 60.000 5.01 0.00 32.44 5.01
1566 1591 0.397941 CTGAACCAGAGAAGGCCACA 59.602 55.000 5.01 0.00 32.44 4.17
1567 1592 0.397941 TGAACCAGAGAAGGCCACAG 59.602 55.000 5.01 0.00 0.00 3.66
1568 1593 0.957888 GAACCAGAGAAGGCCACAGC 60.958 60.000 5.01 0.00 38.76 4.40
1569 1594 2.435586 CCAGAGAAGGCCACAGCG 60.436 66.667 5.01 0.00 41.24 5.18
1570 1595 2.435586 CAGAGAAGGCCACAGCGG 60.436 66.667 5.01 0.00 41.24 5.52
1571 1596 2.925170 AGAGAAGGCCACAGCGGT 60.925 61.111 5.01 0.00 41.24 5.68
1572 1597 2.743928 GAGAAGGCCACAGCGGTG 60.744 66.667 14.13 14.13 44.85 4.94
1595 1620 2.032528 CCGTGGCAGGCAGAAGAA 59.967 61.111 0.00 0.00 0.00 2.52
1596 1621 1.377725 CCGTGGCAGGCAGAAGAAT 60.378 57.895 0.00 0.00 0.00 2.40
1597 1622 1.651240 CCGTGGCAGGCAGAAGAATG 61.651 60.000 0.00 0.00 0.00 2.67
1598 1623 0.957395 CGTGGCAGGCAGAAGAATGT 60.957 55.000 0.00 0.00 0.00 2.71
1599 1624 1.251251 GTGGCAGGCAGAAGAATGTT 58.749 50.000 0.00 0.00 0.00 2.71
1600 1625 1.068055 GTGGCAGGCAGAAGAATGTTG 60.068 52.381 0.00 0.00 0.00 3.33
1601 1626 1.251251 GGCAGGCAGAAGAATGTTGT 58.749 50.000 0.00 0.00 0.00 3.32
1602 1627 1.068055 GGCAGGCAGAAGAATGTTGTG 60.068 52.381 0.00 0.00 0.00 3.33
1603 1628 1.068055 GCAGGCAGAAGAATGTTGTGG 60.068 52.381 0.00 0.00 0.00 4.17
1604 1629 2.507484 CAGGCAGAAGAATGTTGTGGA 58.493 47.619 0.00 0.00 0.00 4.02
1605 1630 2.486982 CAGGCAGAAGAATGTTGTGGAG 59.513 50.000 0.00 0.00 0.00 3.86
1606 1631 1.200948 GGCAGAAGAATGTTGTGGAGC 59.799 52.381 0.00 0.00 0.00 4.70
1607 1632 1.200948 GCAGAAGAATGTTGTGGAGCC 59.799 52.381 0.00 0.00 0.00 4.70
1608 1633 1.815003 CAGAAGAATGTTGTGGAGCCC 59.185 52.381 0.00 0.00 0.00 5.19
1609 1634 1.707427 AGAAGAATGTTGTGGAGCCCT 59.293 47.619 0.00 0.00 0.00 5.19
1637 1662 0.962855 GAAAAGGAGGAGGCCACAGC 60.963 60.000 5.01 0.00 38.76 4.40
1680 1705 1.067295 AGAATGTTGTGGAGCCCTCA 58.933 50.000 0.00 0.00 0.00 3.86
1683 1708 0.617413 ATGTTGTGGAGCCCTCAGAG 59.383 55.000 0.00 0.00 0.00 3.35
1684 1709 0.471780 TGTTGTGGAGCCCTCAGAGA 60.472 55.000 0.00 0.00 0.00 3.10
1685 1710 0.687354 GTTGTGGAGCCCTCAGAGAA 59.313 55.000 0.00 0.00 0.00 2.87
1686 1711 0.979665 TTGTGGAGCCCTCAGAGAAG 59.020 55.000 0.00 0.00 0.00 2.85
1687 1712 0.906756 TGTGGAGCCCTCAGAGAAGG 60.907 60.000 0.00 0.00 36.08 3.46
1688 1713 0.616111 GTGGAGCCCTCAGAGAAGGA 60.616 60.000 0.00 0.00 38.87 3.36
1689 1714 0.117140 TGGAGCCCTCAGAGAAGGAA 59.883 55.000 0.00 0.00 38.87 3.36
1690 1715 1.280457 GGAGCCCTCAGAGAAGGAAA 58.720 55.000 0.00 0.00 38.87 3.13
1691 1716 1.630878 GGAGCCCTCAGAGAAGGAAAA 59.369 52.381 0.00 0.00 38.87 2.29
1692 1717 2.355615 GGAGCCCTCAGAGAAGGAAAAG 60.356 54.545 0.00 0.00 38.87 2.27
1693 1718 1.632920 AGCCCTCAGAGAAGGAAAAGG 59.367 52.381 0.00 0.00 38.87 3.11
1694 1719 1.630878 GCCCTCAGAGAAGGAAAAGGA 59.369 52.381 0.00 0.00 38.87 3.36
1695 1720 2.355615 GCCCTCAGAGAAGGAAAAGGAG 60.356 54.545 0.00 0.00 38.87 3.69
1696 1721 2.238395 CCCTCAGAGAAGGAAAAGGAGG 59.762 54.545 0.00 0.00 38.87 4.30
1697 1722 3.177228 CCTCAGAGAAGGAAAAGGAGGA 58.823 50.000 0.00 0.00 42.32 3.71
1698 1723 3.197549 CCTCAGAGAAGGAAAAGGAGGAG 59.802 52.174 0.00 0.00 42.32 3.69
1699 1724 3.177228 TCAGAGAAGGAAAAGGAGGAGG 58.823 50.000 0.00 0.00 0.00 4.30
1700 1725 1.912731 AGAGAAGGAAAAGGAGGAGGC 59.087 52.381 0.00 0.00 0.00 4.70
1701 1726 0.995803 AGAAGGAAAAGGAGGAGGCC 59.004 55.000 0.00 0.00 0.00 5.19
1702 1727 0.698818 GAAGGAAAAGGAGGAGGCCA 59.301 55.000 5.01 0.00 0.00 5.36
1703 1728 0.405973 AAGGAAAAGGAGGAGGCCAC 59.594 55.000 5.01 0.00 0.00 5.01
1704 1729 0.772124 AGGAAAAGGAGGAGGCCACA 60.772 55.000 5.01 0.00 0.00 4.17
1705 1730 0.322906 GGAAAAGGAGGAGGCCACAG 60.323 60.000 5.01 0.00 0.00 3.66
2178 3153 3.327439 ACCAGAGAAGGAAAAGGAGGAA 58.673 45.455 0.00 0.00 0.00 3.36
2179 3154 3.329225 ACCAGAGAAGGAAAAGGAGGAAG 59.671 47.826 0.00 0.00 0.00 3.46
2180 3155 3.584848 CCAGAGAAGGAAAAGGAGGAAGA 59.415 47.826 0.00 0.00 0.00 2.87
2331 3309 2.045045 CCTCCGCAATTGCCTCCA 60.045 61.111 24.24 5.08 37.91 3.86
2538 3516 1.296715 CGTAGAAGGGGCTGCAGTT 59.703 57.895 16.64 0.51 0.00 3.16
2708 3686 2.493675 CTCATGAACCAGAGAAGGACGA 59.506 50.000 0.00 0.00 33.74 4.20
2709 3687 2.493675 TCATGAACCAGAGAAGGACGAG 59.506 50.000 0.00 0.00 0.00 4.18
2710 3688 1.257743 TGAACCAGAGAAGGACGAGG 58.742 55.000 0.00 0.00 0.00 4.63
2719 3697 0.256464 GAAGGACGAGGAGGAGGAGA 59.744 60.000 0.00 0.00 0.00 3.71
2782 3763 3.261897 GGAACCTCATGAACCAGAGAAGA 59.738 47.826 0.00 0.00 33.74 2.87
2814 3795 0.251341 ACAAAGCCCCAGTGGTGATC 60.251 55.000 8.74 0.00 36.04 2.92
2998 3994 2.360350 CACGCACAGGGAAGCCAT 60.360 61.111 0.00 0.00 0.00 4.40
2999 3995 1.973281 CACGCACAGGGAAGCCATT 60.973 57.895 0.00 0.00 0.00 3.16
3034 4030 2.025321 GTGAAGAAGGGGGATAAGGCAA 60.025 50.000 0.00 0.00 0.00 4.52
3189 4188 1.734047 GCTACAGAAGCGTCTCACCAG 60.734 57.143 0.00 0.00 42.53 4.00
3240 4239 5.364735 TGAACTAGAGAATGATGAGGATGCA 59.635 40.000 0.00 0.00 0.00 3.96
3297 4296 3.712881 GTGGTGAAGCGCCGTGTC 61.713 66.667 2.29 0.00 36.72 3.67
3342 4341 0.621571 TGATGAGGTCTGGAAGGGGG 60.622 60.000 0.00 0.00 0.00 5.40
3379 4378 4.489306 AGGACTAGTGCAAGGAATAACC 57.511 45.455 17.34 0.00 39.35 2.85
3571 4570 3.458189 CAGTCTTCTTCCGACAACAAGT 58.542 45.455 0.00 0.00 33.89 3.16
3589 4588 1.149288 AGTGTGAGGAGGAACAGGGTA 59.851 52.381 0.00 0.00 0.00 3.69
3635 4634 1.376037 GTGCCCAGTCTTCTTCCGG 60.376 63.158 0.00 0.00 0.00 5.14
3732 4731 5.407407 ACAGAGAGGTACAGTAAACATGG 57.593 43.478 0.00 0.00 0.00 3.66
3842 4841 2.493675 CTCGACTCCCTTTGATGTCAGA 59.506 50.000 0.00 0.00 0.00 3.27
3941 4940 6.620877 TGTGTGGATAGGTTCTGTTTCTAT 57.379 37.500 0.00 0.00 0.00 1.98
3998 4997 6.418819 GTCTGAATCCAACTGAATTTTGTGTG 59.581 38.462 0.00 0.00 0.00 3.82
4022 5021 5.353123 GCATTGAAATGGAGATGCATGTTTT 59.647 36.000 2.46 0.00 43.23 2.43
4131 5131 6.266786 TGGTTGTTATTCTTCTTTCCCTTTCC 59.733 38.462 0.00 0.00 0.00 3.13
4274 5274 5.948162 AGCAAAGAAGGCAAGATCAAGATAA 59.052 36.000 0.00 0.00 0.00 1.75
4296 5296 9.601217 GATAATCCTGTCTGCTACTTCTAAAAA 57.399 33.333 0.00 0.00 0.00 1.94
4350 5350 4.151157 GGACTTGCTGTTTCATTTTGATGC 59.849 41.667 0.00 0.00 0.00 3.91
4363 5363 5.528690 TCATTTTGATGCCTTCTATCCTTCG 59.471 40.000 0.00 0.00 0.00 3.79
4430 5430 4.410099 TGAGGAAATTCAGCATTCTTGGT 58.590 39.130 0.00 0.00 0.00 3.67
4457 5457 3.624326 TTCGCTCAAACTGTCCAAATG 57.376 42.857 0.00 0.00 0.00 2.32
4577 5578 4.051661 AGCCAAGGAAGGATGAAATTCA 57.948 40.909 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.696992 ACAAGGTCTTAAAGTCTGAAAACAA 57.303 32.000 0.00 0.00 0.00 2.83
1 2 7.392113 TCAACAAGGTCTTAAAGTCTGAAAACA 59.608 33.333 0.00 0.00 0.00 2.83
2 3 7.758495 TCAACAAGGTCTTAAAGTCTGAAAAC 58.242 34.615 0.00 0.00 0.00 2.43
3 4 7.931578 TCAACAAGGTCTTAAAGTCTGAAAA 57.068 32.000 0.00 0.00 0.00 2.29
4 5 7.148137 GGTTCAACAAGGTCTTAAAGTCTGAAA 60.148 37.037 0.00 0.00 0.00 2.69
5 6 6.317893 GGTTCAACAAGGTCTTAAAGTCTGAA 59.682 38.462 0.00 0.00 0.00 3.02
6 7 5.820947 GGTTCAACAAGGTCTTAAAGTCTGA 59.179 40.000 0.00 0.00 0.00 3.27
7 8 5.823045 AGGTTCAACAAGGTCTTAAAGTCTG 59.177 40.000 0.00 0.00 0.00 3.51
8 9 6.002653 AGGTTCAACAAGGTCTTAAAGTCT 57.997 37.500 0.00 0.00 0.00 3.24
9 10 6.056236 AGAGGTTCAACAAGGTCTTAAAGTC 58.944 40.000 0.00 0.00 0.00 3.01
10 11 6.002653 AGAGGTTCAACAAGGTCTTAAAGT 57.997 37.500 0.00 0.00 0.00 2.66
11 12 6.944234 AAGAGGTTCAACAAGGTCTTAAAG 57.056 37.500 0.00 0.00 0.00 1.85
12 13 7.712204 AAAAGAGGTTCAACAAGGTCTTAAA 57.288 32.000 0.00 0.00 0.00 1.52
13 14 8.990163 ATAAAAGAGGTTCAACAAGGTCTTAA 57.010 30.769 0.00 0.00 0.00 1.85
14 15 8.990163 AATAAAAGAGGTTCAACAAGGTCTTA 57.010 30.769 0.00 0.00 0.00 2.10
15 16 7.898014 AATAAAAGAGGTTCAACAAGGTCTT 57.102 32.000 0.00 0.00 0.00 3.01
16 17 7.898014 AAATAAAAGAGGTTCAACAAGGTCT 57.102 32.000 0.00 0.00 0.00 3.85
26 27 9.529325 GCCCACATTTATAAATAAAAGAGGTTC 57.471 33.333 10.34 0.00 36.02 3.62
27 28 8.194769 CGCCCACATTTATAAATAAAAGAGGTT 58.805 33.333 10.34 0.00 36.02 3.50
28 29 7.340999 ACGCCCACATTTATAAATAAAAGAGGT 59.659 33.333 10.34 0.48 36.02 3.85
29 30 7.712797 ACGCCCACATTTATAAATAAAAGAGG 58.287 34.615 10.34 6.57 36.02 3.69
32 33 8.911662 GCATACGCCCACATTTATAAATAAAAG 58.088 33.333 10.34 1.57 36.02 2.27
33 34 8.414003 TGCATACGCCCACATTTATAAATAAAA 58.586 29.630 10.34 0.00 35.05 1.52
34 35 7.941919 TGCATACGCCCACATTTATAAATAAA 58.058 30.769 10.34 0.00 37.32 1.40
35 36 7.511959 TGCATACGCCCACATTTATAAATAA 57.488 32.000 10.34 0.00 37.32 1.40
36 37 7.413548 CGATGCATACGCCCACATTTATAAATA 60.414 37.037 10.34 0.00 37.32 1.40
37 38 6.588719 ATGCATACGCCCACATTTATAAAT 57.411 33.333 4.81 4.81 37.32 1.40
38 39 5.334491 CGATGCATACGCCCACATTTATAAA 60.334 40.000 0.00 0.00 37.32 1.40
39 40 4.153296 CGATGCATACGCCCACATTTATAA 59.847 41.667 0.00 0.00 37.32 0.98
40 41 3.682377 CGATGCATACGCCCACATTTATA 59.318 43.478 0.00 0.00 37.32 0.98
41 42 2.483877 CGATGCATACGCCCACATTTAT 59.516 45.455 0.00 0.00 37.32 1.40
42 43 1.870402 CGATGCATACGCCCACATTTA 59.130 47.619 0.00 0.00 37.32 1.40
43 44 0.662619 CGATGCATACGCCCACATTT 59.337 50.000 0.00 0.00 37.32 2.32
44 45 0.463654 ACGATGCATACGCCCACATT 60.464 50.000 15.41 0.00 37.32 2.71
45 46 0.463654 AACGATGCATACGCCCACAT 60.464 50.000 15.41 0.00 37.32 3.21
46 47 1.078778 AACGATGCATACGCCCACA 60.079 52.632 15.41 0.00 37.32 4.17
47 48 0.810031 AGAACGATGCATACGCCCAC 60.810 55.000 15.41 7.27 37.32 4.61
48 49 0.809636 CAGAACGATGCATACGCCCA 60.810 55.000 15.41 0.00 37.32 5.36
49 50 0.529773 TCAGAACGATGCATACGCCC 60.530 55.000 15.41 9.32 37.32 6.13
50 51 1.193203 CATCAGAACGATGCATACGCC 59.807 52.381 15.41 9.59 44.95 5.68
51 52 2.567065 CATCAGAACGATGCATACGC 57.433 50.000 15.41 4.13 44.95 4.42
59 60 0.179062 GGCCTCTGCATCAGAACGAT 60.179 55.000 0.00 0.00 40.18 3.73
60 61 1.219124 GGCCTCTGCATCAGAACGA 59.781 57.895 0.00 0.00 40.18 3.85
61 62 2.169789 CGGCCTCTGCATCAGAACG 61.170 63.158 0.00 0.63 40.18 3.95
62 63 1.817099 CCGGCCTCTGCATCAGAAC 60.817 63.158 0.00 0.00 40.18 3.01
63 64 2.586245 CCGGCCTCTGCATCAGAA 59.414 61.111 0.00 0.00 40.18 3.02
64 65 3.473647 CCCGGCCTCTGCATCAGA 61.474 66.667 0.00 0.00 38.25 3.27
65 66 4.559063 CCCCGGCCTCTGCATCAG 62.559 72.222 0.00 0.00 40.13 2.90
67 68 4.247380 CTCCCCGGCCTCTGCATC 62.247 72.222 0.00 0.00 40.13 3.91
98 99 7.933033 TCAAGCAAGAAGGAGCATTTTATTTTT 59.067 29.630 0.00 0.00 0.00 1.94
99 100 7.444299 TCAAGCAAGAAGGAGCATTTTATTTT 58.556 30.769 0.00 0.00 0.00 1.82
100 101 6.996509 TCAAGCAAGAAGGAGCATTTTATTT 58.003 32.000 0.00 0.00 0.00 1.40
101 102 6.594788 TCAAGCAAGAAGGAGCATTTTATT 57.405 33.333 0.00 0.00 0.00 1.40
102 103 6.435277 TCTTCAAGCAAGAAGGAGCATTTTAT 59.565 34.615 15.43 0.00 44.01 1.40
103 104 5.769662 TCTTCAAGCAAGAAGGAGCATTTTA 59.230 36.000 15.43 0.00 44.01 1.52
104 105 4.586001 TCTTCAAGCAAGAAGGAGCATTTT 59.414 37.500 15.43 0.00 44.01 1.82
105 106 4.147321 TCTTCAAGCAAGAAGGAGCATTT 58.853 39.130 15.43 0.00 44.01 2.32
106 107 3.759581 TCTTCAAGCAAGAAGGAGCATT 58.240 40.909 15.43 0.00 44.01 3.56
107 108 3.430042 TCTTCAAGCAAGAAGGAGCAT 57.570 42.857 15.43 0.00 44.01 3.79
108 109 2.936919 TCTTCAAGCAAGAAGGAGCA 57.063 45.000 15.43 0.00 44.01 4.26
131 132 6.667386 GCTTTCAACAGTTTTCACTTTTCACG 60.667 38.462 0.00 0.00 0.00 4.35
149 150 1.138464 TGCAACTTGGCATGCTTTCAA 59.862 42.857 18.92 12.36 42.97 2.69
151 152 1.868469 TTGCAACTTGGCATGCTTTC 58.132 45.000 18.92 0.95 44.48 2.62
186 187 7.568349 TCTCTAACTATGGACATTTTGAGCAT 58.432 34.615 0.00 0.00 0.00 3.79
202 203 2.961741 CTGGAGGCTGCATCTCTAACTA 59.038 50.000 9.81 0.00 0.00 2.24
267 274 7.604549 TCAAAGTTGCAATTGACATGACATAT 58.395 30.769 10.34 0.00 30.94 1.78
268 275 6.979465 TCAAAGTTGCAATTGACATGACATA 58.021 32.000 10.34 0.00 30.94 2.29
272 279 6.514063 TCAATCAAAGTTGCAATTGACATGA 58.486 32.000 15.77 17.88 38.29 3.07
291 298 6.477688 CCATTTACCAAGCACATCAATCAATC 59.522 38.462 0.00 0.00 0.00 2.67
317 324 8.709386 ATGAGCGTCATAAAAGGATACATATC 57.291 34.615 0.00 0.00 34.88 1.63
336 343 2.596862 TGAACACGAAACGATATGAGCG 59.403 45.455 0.00 0.00 0.00 5.03
388 400 6.582636 TGGTTTATGTTTGTTAACCAATGCA 58.417 32.000 2.48 0.00 45.05 3.96
401 413 7.067737 CGTCCATAATACCCTTGGTTTATGTTT 59.932 37.037 17.27 0.00 36.34 2.83
423 435 3.064207 TGAGTTGTATGCTGAAACGTCC 58.936 45.455 0.00 0.00 0.00 4.79
469 481 8.744923 GCCGTTTCGTTCTTTTAAAAGATTAAA 58.255 29.630 26.90 22.21 43.92 1.52
470 482 7.379262 GGCCGTTTCGTTCTTTTAAAAGATTAA 59.621 33.333 26.90 18.77 43.92 1.40
471 483 6.857451 GGCCGTTTCGTTCTTTTAAAAGATTA 59.143 34.615 26.90 13.59 43.92 1.75
498 510 0.035739 TAGGAAACTGCCCACGGAAC 59.964 55.000 0.00 0.00 43.88 3.62
502 514 3.506067 AGATTTTTAGGAAACTGCCCACG 59.494 43.478 0.00 0.00 43.88 4.94
517 536 7.965718 TCCACATTCTCCAAAATCAGATTTTT 58.034 30.769 17.12 1.01 40.27 1.94
518 537 7.543359 TCCACATTCTCCAAAATCAGATTTT 57.457 32.000 14.43 14.43 42.81 1.82
537 556 1.478654 GGGGTTCTTTTCAGCTCCACA 60.479 52.381 0.00 0.00 0.00 4.17
568 587 3.242867 TCTCGGCTCCATATTCTCCAAT 58.757 45.455 0.00 0.00 0.00 3.16
604 624 0.486879 TGGGATTTGGAGGCCAAGTT 59.513 50.000 5.01 0.00 44.84 2.66
647 667 2.681706 CAGTGTGCGTGAGAGAGAATT 58.318 47.619 0.00 0.00 0.00 2.17
737 758 9.467258 TGTGAATGAGATTTCAAAATCAGTTTC 57.533 29.630 15.75 13.83 45.59 2.78
738 759 9.472361 CTGTGAATGAGATTTCAAAATCAGTTT 57.528 29.630 15.75 7.17 45.59 2.66
739 760 8.086522 CCTGTGAATGAGATTTCAAAATCAGTT 58.913 33.333 15.75 8.32 45.59 3.16
740 761 7.600065 CCTGTGAATGAGATTTCAAAATCAGT 58.400 34.615 15.75 5.04 45.59 3.41
741 762 6.530534 GCCTGTGAATGAGATTTCAAAATCAG 59.469 38.462 15.75 4.58 45.59 2.90
742 763 6.392354 GCCTGTGAATGAGATTTCAAAATCA 58.608 36.000 15.75 6.04 45.59 2.57
753 774 1.361204 TTCCTGGCCTGTGAATGAGA 58.639 50.000 3.32 0.00 0.00 3.27
1160 1185 4.278513 TGGAACTGGGGTTGGCGG 62.279 66.667 0.00 0.00 35.58 6.13
1312 1337 4.463879 CGCCACTCCCTCTGCCTG 62.464 72.222 0.00 0.00 0.00 4.85
1389 1414 3.393941 CCTCAATCTCAAATAGGGGCTCT 59.606 47.826 0.00 0.00 0.00 4.09
1407 1432 1.979155 CGCCTCCACAGTCTCCTCA 60.979 63.158 0.00 0.00 0.00 3.86
1445 1470 3.249189 AAGGCTCCACGGGCTTCA 61.249 61.111 0.00 0.00 46.76 3.02
1543 1568 1.301293 CCTTCTCTGGTTCAGGGGC 59.699 63.158 0.00 0.00 31.91 5.80
1553 1578 2.435586 CCGCTGTGGCCTTCTCTG 60.436 66.667 3.32 0.00 34.44 3.35
1554 1579 2.925170 ACCGCTGTGGCCTTCTCT 60.925 61.111 7.27 0.00 43.94 3.10
1555 1580 2.743928 CACCGCTGTGGCCTTCTC 60.744 66.667 7.27 0.00 43.94 2.87
1556 1581 3.241530 TCACCGCTGTGGCCTTCT 61.242 61.111 7.27 0.00 43.94 2.85
1557 1582 3.050275 GTCACCGCTGTGGCCTTC 61.050 66.667 7.27 0.00 41.34 3.46
1558 1583 3.872603 TGTCACCGCTGTGGCCTT 61.873 61.111 10.51 0.00 46.74 4.35
1559 1584 4.626081 GTGTCACCGCTGTGGCCT 62.626 66.667 10.51 0.00 46.74 5.19
1578 1603 1.377725 ATTCTTCTGCCTGCCACGG 60.378 57.895 0.00 0.00 0.00 4.94
1579 1604 0.957395 ACATTCTTCTGCCTGCCACG 60.957 55.000 0.00 0.00 0.00 4.94
1580 1605 1.068055 CAACATTCTTCTGCCTGCCAC 60.068 52.381 0.00 0.00 0.00 5.01
1581 1606 1.250328 CAACATTCTTCTGCCTGCCA 58.750 50.000 0.00 0.00 0.00 4.92
1582 1607 1.068055 CACAACATTCTTCTGCCTGCC 60.068 52.381 0.00 0.00 0.00 4.85
1583 1608 1.068055 CCACAACATTCTTCTGCCTGC 60.068 52.381 0.00 0.00 0.00 4.85
1584 1609 2.486982 CTCCACAACATTCTTCTGCCTG 59.513 50.000 0.00 0.00 0.00 4.85
1585 1610 2.787994 CTCCACAACATTCTTCTGCCT 58.212 47.619 0.00 0.00 0.00 4.75
1586 1611 1.200948 GCTCCACAACATTCTTCTGCC 59.799 52.381 0.00 0.00 0.00 4.85
1587 1612 1.200948 GGCTCCACAACATTCTTCTGC 59.799 52.381 0.00 0.00 0.00 4.26
1588 1613 1.815003 GGGCTCCACAACATTCTTCTG 59.185 52.381 0.00 0.00 0.00 3.02
1589 1614 1.707427 AGGGCTCCACAACATTCTTCT 59.293 47.619 0.00 0.00 0.00 2.85
1590 1615 2.087646 GAGGGCTCCACAACATTCTTC 58.912 52.381 0.00 0.00 0.00 2.87
1591 1616 1.425066 TGAGGGCTCCACAACATTCTT 59.575 47.619 0.00 0.00 0.00 2.52
1592 1617 1.004044 CTGAGGGCTCCACAACATTCT 59.996 52.381 0.00 0.00 0.00 2.40
1593 1618 1.003580 TCTGAGGGCTCCACAACATTC 59.996 52.381 0.00 0.00 0.00 2.67
1594 1619 1.004044 CTCTGAGGGCTCCACAACATT 59.996 52.381 0.00 0.00 0.00 2.71
1595 1620 0.617413 CTCTGAGGGCTCCACAACAT 59.383 55.000 0.00 0.00 0.00 2.71
1596 1621 0.471780 TCTCTGAGGGCTCCACAACA 60.472 55.000 4.59 0.00 0.00 3.33
1597 1622 0.687354 TTCTCTGAGGGCTCCACAAC 59.313 55.000 4.59 0.00 0.00 3.32
1598 1623 0.979665 CTTCTCTGAGGGCTCCACAA 59.020 55.000 4.59 0.00 0.00 3.33
1599 1624 0.906756 CCTTCTCTGAGGGCTCCACA 60.907 60.000 4.59 0.00 32.94 4.17
1600 1625 0.616111 TCCTTCTCTGAGGGCTCCAC 60.616 60.000 4.59 0.00 37.41 4.02
1601 1626 0.117140 TTCCTTCTCTGAGGGCTCCA 59.883 55.000 4.59 0.00 37.41 3.86
1602 1627 1.280457 TTTCCTTCTCTGAGGGCTCC 58.720 55.000 4.59 0.00 37.41 4.70
1603 1628 2.355615 CCTTTTCCTTCTCTGAGGGCTC 60.356 54.545 4.59 0.00 37.41 4.70
1604 1629 1.632920 CCTTTTCCTTCTCTGAGGGCT 59.367 52.381 4.59 0.00 37.41 5.19
1605 1630 1.630878 TCCTTTTCCTTCTCTGAGGGC 59.369 52.381 4.59 0.00 37.41 5.19
1606 1631 2.238395 CCTCCTTTTCCTTCTCTGAGGG 59.762 54.545 4.59 0.00 37.41 4.30
1607 1632 3.177228 TCCTCCTTTTCCTTCTCTGAGG 58.823 50.000 4.59 0.00 39.38 3.86
1608 1633 3.197549 CCTCCTCCTTTTCCTTCTCTGAG 59.802 52.174 0.00 0.00 0.00 3.35
1609 1634 3.177228 CCTCCTCCTTTTCCTTCTCTGA 58.823 50.000 0.00 0.00 0.00 3.27
1659 1684 2.087646 GAGGGCTCCACAACATTCTTC 58.912 52.381 0.00 0.00 0.00 2.87
1680 1705 1.912731 GCCTCCTCCTTTTCCTTCTCT 59.087 52.381 0.00 0.00 0.00 3.10
1683 1708 0.698818 TGGCCTCCTCCTTTTCCTTC 59.301 55.000 3.32 0.00 0.00 3.46
1684 1709 0.405973 GTGGCCTCCTCCTTTTCCTT 59.594 55.000 3.32 0.00 0.00 3.36
1685 1710 0.772124 TGTGGCCTCCTCCTTTTCCT 60.772 55.000 3.32 0.00 0.00 3.36
1686 1711 0.322906 CTGTGGCCTCCTCCTTTTCC 60.323 60.000 3.32 0.00 0.00 3.13
1687 1712 3.256281 CTGTGGCCTCCTCCTTTTC 57.744 57.895 3.32 0.00 0.00 2.29
2005 2030 3.169099 CCTCTTCCTTCTCTGGTTCAGA 58.831 50.000 0.00 0.00 38.25 3.27
2006 2031 3.169099 TCCTCTTCCTTCTCTGGTTCAG 58.831 50.000 0.00 0.00 0.00 3.02
2007 2032 3.169099 CTCCTCTTCCTTCTCTGGTTCA 58.831 50.000 0.00 0.00 0.00 3.18
2008 2033 2.499693 CCTCCTCTTCCTTCTCTGGTTC 59.500 54.545 0.00 0.00 0.00 3.62
2009 2034 2.112691 TCCTCCTCTTCCTTCTCTGGTT 59.887 50.000 0.00 0.00 0.00 3.67
2050 2078 0.403271 ACATTCTTCTGCCTGCCACT 59.597 50.000 0.00 0.00 0.00 4.00
2178 3153 2.872388 CGTCACCACTGTGGCCTCT 61.872 63.158 26.20 4.16 44.39 3.69
2179 3154 2.357517 CGTCACCACTGTGGCCTC 60.358 66.667 26.20 14.69 44.39 4.70
2180 3155 4.626081 GCGTCACCACTGTGGCCT 62.626 66.667 26.20 5.36 44.39 5.19
2331 3309 2.239907 GCCCCTTACTGACCTCATCTTT 59.760 50.000 0.00 0.00 0.00 2.52
2538 3516 2.795329 GGCACTTTCTCCTCCAATGAA 58.205 47.619 0.00 0.00 0.00 2.57
2584 3562 1.295792 GCACCATTATCGAAAGCGGA 58.704 50.000 0.00 0.00 38.28 5.54
2708 3686 0.326048 CACCATGGTCTCCTCCTCCT 60.326 60.000 16.53 0.00 0.00 3.69
2709 3687 1.341156 CCACCATGGTCTCCTCCTCC 61.341 65.000 16.53 0.00 31.35 4.30
2710 3688 2.216148 CCACCATGGTCTCCTCCTC 58.784 63.158 16.53 0.00 31.35 3.71
2782 3763 2.224892 GGGCTTTGTCCTCCTTCTCTTT 60.225 50.000 0.00 0.00 0.00 2.52
2814 3795 3.326889 CTTCGTTGCGCCATGGTGG 62.327 63.158 26.23 13.53 41.55 4.61
2998 3994 0.381445 TTCACCGTCGTCGAAGTCAA 59.619 50.000 2.98 0.00 39.71 3.18
2999 3995 0.040692 CTTCACCGTCGTCGAAGTCA 60.041 55.000 2.98 0.00 39.71 3.41
3034 4030 0.546267 ACCTCTCCATCCACAGCTGT 60.546 55.000 15.25 15.25 0.00 4.40
3297 4296 1.506262 CACATCCTTTTTCCCGGCG 59.494 57.895 0.00 0.00 0.00 6.46
3342 4341 1.377333 CCTTCCAACCCTTCCTCGC 60.377 63.158 0.00 0.00 0.00 5.03
3392 4391 3.153919 TCCTTTTCTACCACCATGTTGC 58.846 45.455 0.00 0.00 0.00 4.17
3516 4515 2.556114 CCCCTTTGGCAATTCAGACTCT 60.556 50.000 0.00 0.00 0.00 3.24
3571 4570 1.149288 ACTACCCTGTTCCTCCTCACA 59.851 52.381 0.00 0.00 0.00 3.58
3589 4588 1.884579 TCTAGAAGAACCGTTCGCACT 59.115 47.619 5.62 8.77 34.02 4.40
3635 4634 1.805428 ATTCGCACCACCCTTGTTGC 61.805 55.000 0.00 0.00 0.00 4.17
3842 4841 6.838612 AGTATTTCTTCAGAGCTCTATCCAGT 59.161 38.462 17.75 3.02 0.00 4.00
3941 4940 6.178324 TCTACGAGTCATTCTTCCTACAGAA 58.822 40.000 0.00 0.00 37.20 3.02
3998 4997 4.054780 ACATGCATCTCCATTTCAATGC 57.945 40.909 0.00 0.00 43.71 3.56
4022 5021 6.299805 ACTTCTGTATCAAGCATAGGAACA 57.700 37.500 0.00 0.00 0.00 3.18
4075 5075 6.928492 TCTTCCCAATAAACATTTGCAAAGTC 59.072 34.615 18.19 0.00 0.00 3.01
4297 5297 6.004574 GGGAAGTAGACAGGACAATCTTTTT 58.995 40.000 0.00 0.00 0.00 1.94
4298 5298 5.073144 TGGGAAGTAGACAGGACAATCTTTT 59.927 40.000 0.00 0.00 0.00 2.27
4305 5305 2.696526 ACTGGGAAGTAGACAGGACA 57.303 50.000 0.00 0.00 36.57 4.02
4315 5315 2.039084 CAGCAAGTCCTAACTGGGAAGT 59.961 50.000 0.00 0.00 37.10 3.01
4350 5350 4.876679 GGAAAAAGGACGAAGGATAGAAGG 59.123 45.833 0.00 0.00 0.00 3.46
4363 5363 4.353383 AGTGTGAGTAGGGAAAAAGGAC 57.647 45.455 0.00 0.00 0.00 3.85
4430 5430 4.636648 TGGACAGTTTGAGCGAAAAAGTAA 59.363 37.500 0.00 0.00 0.00 2.24
4457 5457 2.604614 GCGGTCAAACCAAGTGAATGAC 60.605 50.000 0.00 0.00 38.47 3.06


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

AutoCloner maintained by Alex Coulton.