Multiple sequence alignment - TraesCS7D01G109500

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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 TraesCS7D01G109500 chr7D 100.000 2380 0 0 1 2380 65941310 65938931 0.000000e+00 4396.0
1 TraesCS7D01G109500 chr7D 100.000 2304 0 0 2788 5091 65938523 65936220 0.000000e+00 4255.0
2 TraesCS7D01G109500 chr7D 92.761 746 32 8 939 1675 69041523 69042255 0.000000e+00 1059.0
3 TraesCS7D01G109500 chr7D 96.552 551 12 3 4032 4580 69043998 69044543 0.000000e+00 905.0
4 TraesCS7D01G109500 chr7D 87.648 761 62 15 939 1675 66105606 66104854 0.000000e+00 856.0
5 TraesCS7D01G109500 chr7D 95.992 499 17 3 3494 3992 69043504 69043999 0.000000e+00 808.0
6 TraesCS7D01G109500 chr7D 88.133 691 57 9 953 1643 66348365 66347700 0.000000e+00 798.0
7 TraesCS7D01G109500 chr7D 94.488 508 26 2 6 511 263888341 263888848 0.000000e+00 782.0
8 TraesCS7D01G109500 chr7D 87.273 660 32 21 1747 2380 69042282 69042915 0.000000e+00 706.0
9 TraesCS7D01G109500 chr7D 95.041 363 17 1 4573 4935 69048027 69048388 2.060000e-158 569.0
10 TraesCS7D01G109500 chr7D 84.061 527 66 15 3494 4010 85346894 85347412 4.580000e-135 492.0
11 TraesCS7D01G109500 chr7D 97.683 259 5 1 3142 3400 69043178 69043435 1.300000e-120 444.0
12 TraesCS7D01G109500 chr7D 83.740 369 46 3 1710 2076 66347687 66347331 2.270000e-88 337.0
13 TraesCS7D01G109500 chr7D 97.368 114 3 0 4978 5091 69048385 69048498 1.450000e-45 195.0
14 TraesCS7D01G109500 chr7D 81.707 246 30 10 1689 1923 66104806 66104565 1.870000e-44 191.0
15 TraesCS7D01G109500 chr7D 96.491 114 4 0 3032 3145 68909352 68909465 6.730000e-44 189.0
16 TraesCS7D01G109500 chr7D 93.860 114 7 0 3032 3145 68903253 68903366 6.780000e-39 172.0
17 TraesCS7D01G109500 chr7D 76.724 348 54 16 3789 4111 44555790 44555445 8.770000e-38 169.0
18 TraesCS7D01G109500 chr7D 95.283 106 5 0 3047 3152 66346522 66346417 8.770000e-38 169.0
19 TraesCS7D01G109500 chrUn 91.127 1837 68 33 3142 4935 308154416 308152632 0.000000e+00 2401.0
20 TraesCS7D01G109500 chrUn 91.072 1837 69 33 3142 4935 308150308 308148524 0.000000e+00 2396.0
21 TraesCS7D01G109500 chrUn 89.768 1036 35 25 3142 4153 305656011 305656999 0.000000e+00 1260.0
22 TraesCS7D01G109500 chrUn 89.257 754 42 13 933 1675 305654292 305655017 0.000000e+00 907.0
23 TraesCS7D01G109500 chrUn 91.339 635 53 2 1747 2380 305655044 305655677 0.000000e+00 867.0
24 TraesCS7D01G109500 chrUn 91.456 632 52 2 1750 2380 308151272 308150642 0.000000e+00 867.0
25 TraesCS7D01G109500 chrUn 91.456 632 52 2 1750 2380 308155380 308154750 0.000000e+00 867.0
26 TraesCS7D01G109500 chrUn 91.748 618 33 5 1067 1675 308151910 308151302 0.000000e+00 843.0
27 TraesCS7D01G109500 chrUn 91.748 618 33 5 1067 1675 308156018 308155410 0.000000e+00 843.0
28 TraesCS7D01G109500 chrUn 97.297 259 6 1 3142 3400 32229447 32229190 6.050000e-119 438.0
29 TraesCS7D01G109500 chrUn 96.522 115 3 1 4978 5091 308148527 308148413 6.730000e-44 189.0
30 TraesCS7D01G109500 chrUn 96.522 115 3 1 4978 5091 308152635 308152521 6.730000e-44 189.0
31 TraesCS7D01G109500 chr7B 91.127 1837 68 33 3142 4935 10882641 10884425 0.000000e+00 2401.0
32 TraesCS7D01G109500 chr7B 92.070 971 38 15 4142 5091 10895954 10896906 0.000000e+00 1330.0
33 TraesCS7D01G109500 chr7B 91.397 895 27 11 3142 4014 10894886 10895752 0.000000e+00 1181.0
34 TraesCS7D01G109500 chr7B 89.390 754 41 13 933 1675 10880922 10881647 0.000000e+00 913.0
35 TraesCS7D01G109500 chr7B 91.339 635 53 2 1747 2380 10881674 10882307 0.000000e+00 867.0
36 TraesCS7D01G109500 chr7B 90.966 642 50 2 1747 2380 10893908 10894549 0.000000e+00 857.0
37 TraesCS7D01G109500 chr7B 88.717 452 29 10 933 1381 10891963 10892395 2.700000e-147 532.0
38 TraesCS7D01G109500 chr7B 82.794 587 80 12 3422 3995 32896447 32895869 5.880000e-139 505.0
39 TraesCS7D01G109500 chr7B 86.393 463 56 5 3527 3989 10069544 10069999 2.740000e-137 499.0
40 TraesCS7D01G109500 chr7B 90.728 302 19 1 1374 1675 10893589 10893881 1.330000e-105 394.0
41 TraesCS7D01G109500 chr7B 94.891 137 5 2 4031 4166 10895811 10895946 3.990000e-51 213.0
42 TraesCS7D01G109500 chr7B 96.522 115 3 1 4978 5091 10884422 10884536 6.730000e-44 189.0
43 TraesCS7D01G109500 chr7A 91.308 1185 56 19 3236 4381 70735035 70733859 0.000000e+00 1574.0
44 TraesCS7D01G109500 chr7A 96.918 649 19 1 4442 5090 70733835 70733188 0.000000e+00 1086.0
45 TraesCS7D01G109500 chr7A 90.644 823 45 9 1571 2380 74685084 74685887 0.000000e+00 1064.0
46 TraesCS7D01G109500 chr7A 93.295 701 18 7 1546 2236 70735763 70735082 0.000000e+00 1007.0
47 TraesCS7D01G109500 chr7A 92.090 708 23 9 841 1547 70737298 70736623 0.000000e+00 966.0
48 TraesCS7D01G109500 chr7A 91.828 673 29 6 3495 4166 74686784 74687431 0.000000e+00 915.0
49 TraesCS7D01G109500 chr7A 88.138 725 67 8 939 1663 70767395 70766690 0.000000e+00 845.0
50 TraesCS7D01G109500 chr7A 88.961 462 48 3 3528 3989 74594170 74594628 7.400000e-158 568.0
51 TraesCS7D01G109500 chr7A 88.683 486 26 9 933 1415 74684602 74685061 2.660000e-157 566.0
52 TraesCS7D01G109500 chr7A 95.480 354 14 2 4384 4736 74697130 74697482 9.570000e-157 564.0
53 TraesCS7D01G109500 chr7A 87.174 499 43 8 939 1421 70754379 70753886 9.640000e-152 547.0
54 TraesCS7D01G109500 chr7A 98.684 304 4 0 2797 3100 10314389 10314692 1.610000e-149 540.0
55 TraesCS7D01G109500 chr7A 95.370 324 6 3 2795 3118 74686167 74686481 1.640000e-139 507.0
56 TraesCS7D01G109500 chr7A 96.911 259 7 1 3142 3400 6036104 6036361 2.820000e-117 433.0
57 TraesCS7D01G109500 chr7A 96.538 260 7 2 3142 3400 161141141 161140883 3.640000e-116 429.0
58 TraesCS7D01G109500 chr7A 96.154 260 8 2 3148 3407 653102415 653102158 1.690000e-114 424.0
59 TraesCS7D01G109500 chr7A 90.076 262 4 10 4142 4384 74687439 74687697 2.290000e-83 320.0
60 TraesCS7D01G109500 chr7A 76.906 446 80 14 1087 1516 78080694 78080256 1.100000e-56 231.0
61 TraesCS7D01G109500 chr7A 85.567 194 16 11 2959 3145 74593978 74594166 5.200000e-45 193.0
62 TraesCS7D01G109500 chr7A 90.511 137 13 0 3009 3145 47050837 47050973 1.130000e-41 182.0
63 TraesCS7D01G109500 chr7A 94.318 88 4 1 4810 4897 74697622 74697708 3.200000e-27 134.0
64 TraesCS7D01G109500 chr2B 93.065 721 41 7 6 721 508652807 508652091 0.000000e+00 1046.0
65 TraesCS7D01G109500 chr2B 90.977 133 12 0 3013 3145 76515857 76515725 4.050000e-41 180.0
66 TraesCS7D01G109500 chr2A 92.276 725 37 11 6 721 565766825 565767539 0.000000e+00 1011.0
67 TraesCS7D01G109500 chr2A 90.960 531 37 8 126 651 551374911 551374387 0.000000e+00 704.0
68 TraesCS7D01G109500 chr2A 96.262 321 12 0 2795 3115 743643246 743643566 1.260000e-145 527.0
69 TraesCS7D01G109500 chr6B 91.484 728 44 8 1 721 557940493 557941209 0.000000e+00 985.0
70 TraesCS7D01G109500 chr6B 90.981 632 55 2 1750 2380 360922804 360922174 0.000000e+00 850.0
71 TraesCS7D01G109500 chr3A 91.840 723 34 9 7 721 27550000 27550705 0.000000e+00 985.0
72 TraesCS7D01G109500 chr3A 96.911 259 7 1 3142 3400 144059489 144059232 2.820000e-117 433.0
73 TraesCS7D01G109500 chr4A 91.160 724 56 8 1 720 641399703 641398984 0.000000e+00 976.0
74 TraesCS7D01G109500 chr4A 98.921 278 3 0 2795 3072 296418564 296418841 9.840000e-137 497.0
75 TraesCS7D01G109500 chr4A 98.921 278 3 0 2795 3072 542966452 542966729 9.840000e-137 497.0
76 TraesCS7D01G109500 chr4A 90.511 137 13 0 3009 3145 656743653 656743789 1.130000e-41 182.0
77 TraesCS7D01G109500 chr4A 81.197 117 17 5 3999 4111 656745710 656745595 7.020000e-14 89.8
78 TraesCS7D01G109500 chr5A 94.685 508 23 3 6 511 514676705 514676200 0.000000e+00 785.0
79 TraesCS7D01G109500 chr2D 94.521 511 24 4 1 509 538595996 538595488 0.000000e+00 785.0
80 TraesCS7D01G109500 chr2D 94.314 510 28 1 3 511 206197464 206197973 0.000000e+00 780.0
81 TraesCS7D01G109500 chr2D 96.889 225 5 2 498 721 308478098 308477875 4.810000e-100 375.0
82 TraesCS7D01G109500 chr2D 96.000 225 7 2 498 721 23315834 23316057 1.040000e-96 364.0
83 TraesCS7D01G109500 chr1D 94.685 508 24 3 6 511 58117407 58116901 0.000000e+00 785.0
84 TraesCS7D01G109500 chr6A 99.275 276 2 0 2797 3072 527455231 527455506 2.740000e-137 499.0
85 TraesCS7D01G109500 chr6A 98.921 278 3 0 2795 3072 527378436 527378713 9.840000e-137 497.0
86 TraesCS7D01G109500 chr6A 96.911 259 7 1 3142 3400 527455519 527455776 2.820000e-117 433.0
87 TraesCS7D01G109500 chr1A 98.921 278 3 0 2795 3072 8508023 8508300 9.840000e-137 497.0
88 TraesCS7D01G109500 chr1A 98.577 281 4 0 2795 3075 103031073 103030793 9.840000e-137 497.0
89 TraesCS7D01G109500 chr1A 96.911 259 7 1 3142 3400 8508313 8508570 2.820000e-117 433.0
90 TraesCS7D01G109500 chr1A 96.911 259 7 1 3142 3400 8566756 8567013 2.820000e-117 433.0
91 TraesCS7D01G109500 chr3D 95.982 224 8 1 498 721 94517067 94516845 3.750000e-96 363.0
92 TraesCS7D01G109500 chr5B 80.282 284 44 7 3787 4058 589021970 589021687 2.400000e-48 204.0


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 TraesCS7D01G109500 chr7D 65936220 65941310 5090 True 4325.500000 4396 100.000000 1 5091 2 chr7D.!!$R2 5090
1 TraesCS7D01G109500 chr7D 263888341 263888848 507 False 782.000000 782 94.488000 6 511 1 chr7D.!!$F4 505
2 TraesCS7D01G109500 chr7D 69041523 69048498 6975 False 669.428571 1059 94.667143 939 5091 7 chr7D.!!$F5 4152
3 TraesCS7D01G109500 chr7D 66104565 66105606 1041 True 523.500000 856 84.677500 939 1923 2 chr7D.!!$R3 984
4 TraesCS7D01G109500 chr7D 85346894 85347412 518 False 492.000000 492 84.061000 3494 4010 1 chr7D.!!$F3 516
5 TraesCS7D01G109500 chr7D 66346417 66348365 1948 True 434.666667 798 89.052000 953 3152 3 chr7D.!!$R4 2199
6 TraesCS7D01G109500 chrUn 308148413 308156018 7605 True 1074.375000 2401 92.706375 1067 5091 8 chrUn.!!$R2 4024
7 TraesCS7D01G109500 chrUn 305654292 305656999 2707 False 1011.333333 1260 90.121333 933 4153 3 chrUn.!!$F1 3220
8 TraesCS7D01G109500 chr7B 10880922 10884536 3614 False 1092.500000 2401 92.094500 933 5091 4 chr7B.!!$F2 4158
9 TraesCS7D01G109500 chr7B 10891963 10896906 4943 False 751.166667 1330 91.461500 933 5091 6 chr7B.!!$F3 4158
10 TraesCS7D01G109500 chr7B 32895869 32896447 578 True 505.000000 505 82.794000 3422 3995 1 chr7B.!!$R1 573
11 TraesCS7D01G109500 chr7A 70733188 70737298 4110 True 1158.250000 1574 93.402750 841 5090 4 chr7A.!!$R6 4249
12 TraesCS7D01G109500 chr7A 70766690 70767395 705 True 845.000000 845 88.138000 939 1663 1 chr7A.!!$R2 724
13 TraesCS7D01G109500 chr7A 74684602 74687697 3095 False 674.400000 1064 91.320200 933 4384 5 chr7A.!!$F5 3451
14 TraesCS7D01G109500 chr7A 74593978 74594628 650 False 380.500000 568 87.264000 2959 3989 2 chr7A.!!$F4 1030
15 TraesCS7D01G109500 chr7A 74697130 74697708 578 False 349.000000 564 94.899000 4384 4897 2 chr7A.!!$F6 513
16 TraesCS7D01G109500 chr2B 508652091 508652807 716 True 1046.000000 1046 93.065000 6 721 1 chr2B.!!$R2 715
17 TraesCS7D01G109500 chr2A 565766825 565767539 714 False 1011.000000 1011 92.276000 6 721 1 chr2A.!!$F1 715
18 TraesCS7D01G109500 chr2A 551374387 551374911 524 True 704.000000 704 90.960000 126 651 1 chr2A.!!$R1 525
19 TraesCS7D01G109500 chr6B 557940493 557941209 716 False 985.000000 985 91.484000 1 721 1 chr6B.!!$F1 720
20 TraesCS7D01G109500 chr6B 360922174 360922804 630 True 850.000000 850 90.981000 1750 2380 1 chr6B.!!$R1 630
21 TraesCS7D01G109500 chr3A 27550000 27550705 705 False 985.000000 985 91.840000 7 721 1 chr3A.!!$F1 714
22 TraesCS7D01G109500 chr4A 641398984 641399703 719 True 976.000000 976 91.160000 1 720 1 chr4A.!!$R1 719
23 TraesCS7D01G109500 chr5A 514676200 514676705 505 True 785.000000 785 94.685000 6 511 1 chr5A.!!$R1 505
24 TraesCS7D01G109500 chr2D 538595488 538595996 508 True 785.000000 785 94.521000 1 509 1 chr2D.!!$R2 508
25 TraesCS7D01G109500 chr2D 206197464 206197973 509 False 780.000000 780 94.314000 3 511 1 chr2D.!!$F2 508
26 TraesCS7D01G109500 chr1D 58116901 58117407 506 True 785.000000 785 94.685000 6 511 1 chr1D.!!$R1 505
27 TraesCS7D01G109500 chr6A 527455231 527455776 545 False 466.000000 499 98.093000 2797 3400 2 chr6A.!!$F2 603
28 TraesCS7D01G109500 chr1A 8508023 8508570 547 False 465.000000 497 97.916000 2795 3400 2 chr1A.!!$F2 605

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
928 958 0.106918 ACCGCAACCTGGTCTTGAAA 60.107 50.000 0.00 0.0 33.35 2.69 F
1061 1106 0.631212 AAGAACCCACCCATCATCCC 59.369 55.000 0.00 0.0 0.00 3.85 F
1675 7925 2.034053 TGCGTGAATTGGTTTCTTGGAC 59.966 45.455 0.00 0.0 35.23 4.02 F
3072 9544 2.028658 TCTGCCTAGTTCAGCTTCACAG 60.029 50.000 4.79 0.0 0.00 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2275 8688 1.303561 AGCCGGCACAATGTCATGT 60.304 52.632 31.54 0.00 0.00 3.21 R
2353 8773 2.286294 GCAACATTCTAGCATCTGTCCG 59.714 50.000 0.00 0.00 0.00 4.79 R
3110 9582 0.030504 TCCGCACGTTACTCGAAACA 59.969 50.000 1.26 0.00 42.86 2.83 R
4556 11248 1.705873 ACAGGTGAAGAGTCGAACCT 58.294 50.000 8.22 8.22 43.92 3.50 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
67 69 9.379791 CATCCTTATCTTTTAAACCGTAACTCT 57.620 33.333 0.00 0.00 0.00 3.24
363 373 5.554822 TTTATAGCGCAAGATCCGTTTTT 57.445 34.783 11.47 0.00 43.02 1.94
519 539 2.769663 AGAGAGAGAGAGACGCCTTAGA 59.230 50.000 0.00 0.00 0.00 2.10
590 612 4.388499 GCCGGCGAGGGTGAGAAA 62.388 66.667 12.58 0.00 41.48 2.52
649 671 7.922811 GCAAAAATAAAGGAGATGGACCTATTG 59.077 37.037 0.00 0.00 36.67 1.90
710 740 4.853924 ATGTTTTCTCTTCCGTTGCAAT 57.146 36.364 0.59 0.00 0.00 3.56
722 752 2.511373 TGCAATCGCACGGGCTAG 60.511 61.111 8.62 0.00 45.36 3.42
723 753 2.511600 GCAATCGCACGGGCTAGT 60.512 61.111 8.62 0.00 38.36 2.57
724 754 1.227147 GCAATCGCACGGGCTAGTA 60.227 57.895 8.62 0.00 38.36 1.82
725 755 0.600255 GCAATCGCACGGGCTAGTAT 60.600 55.000 8.62 0.00 38.36 2.12
726 756 1.139989 CAATCGCACGGGCTAGTATG 58.860 55.000 8.62 0.00 38.10 2.39
727 757 1.037493 AATCGCACGGGCTAGTATGA 58.963 50.000 8.62 0.00 38.10 2.15
728 758 1.257743 ATCGCACGGGCTAGTATGAT 58.742 50.000 8.62 0.00 38.10 2.45
729 759 1.037493 TCGCACGGGCTAGTATGATT 58.963 50.000 8.62 0.00 38.10 2.57
730 760 1.411246 TCGCACGGGCTAGTATGATTT 59.589 47.619 8.62 0.00 38.10 2.17
731 761 2.624364 TCGCACGGGCTAGTATGATTTA 59.376 45.455 8.62 0.00 38.10 1.40
732 762 3.257375 TCGCACGGGCTAGTATGATTTAT 59.743 43.478 8.62 0.00 38.10 1.40
733 763 4.460034 TCGCACGGGCTAGTATGATTTATA 59.540 41.667 8.62 0.00 38.10 0.98
734 764 5.126545 TCGCACGGGCTAGTATGATTTATAT 59.873 40.000 8.62 0.00 38.10 0.86
735 765 6.319405 TCGCACGGGCTAGTATGATTTATATA 59.681 38.462 8.62 0.00 38.10 0.86
736 766 6.976349 CGCACGGGCTAGTATGATTTATATAA 59.024 38.462 8.62 0.00 38.10 0.98
737 767 7.167635 CGCACGGGCTAGTATGATTTATATAAG 59.832 40.741 8.62 0.00 38.10 1.73
738 768 7.042658 GCACGGGCTAGTATGATTTATATAAGC 60.043 40.741 0.00 0.00 36.96 3.09
739 769 7.979537 CACGGGCTAGTATGATTTATATAAGCA 59.020 37.037 0.00 0.00 35.33 3.91
740 770 8.198109 ACGGGCTAGTATGATTTATATAAGCAG 58.802 37.037 0.00 0.00 35.33 4.24
741 771 8.414003 CGGGCTAGTATGATTTATATAAGCAGA 58.586 37.037 0.00 0.00 35.33 4.26
742 772 9.535878 GGGCTAGTATGATTTATATAAGCAGAC 57.464 37.037 13.17 13.17 35.33 3.51
743 773 9.239002 GGCTAGTATGATTTATATAAGCAGACG 57.761 37.037 14.29 7.21 35.33 4.18
746 776 8.918961 AGTATGATTTATATAAGCAGACGAGC 57.081 34.615 14.29 0.00 0.00 5.03
747 777 8.523658 AGTATGATTTATATAAGCAGACGAGCA 58.476 33.333 14.29 2.15 36.85 4.26
748 778 9.307121 GTATGATTTATATAAGCAGACGAGCAT 57.693 33.333 8.48 4.24 36.85 3.79
749 779 7.586714 TGATTTATATAAGCAGACGAGCATG 57.413 36.000 0.00 0.00 36.85 4.06
750 780 7.378181 TGATTTATATAAGCAGACGAGCATGA 58.622 34.615 0.00 0.00 36.85 3.07
751 781 8.037166 TGATTTATATAAGCAGACGAGCATGAT 58.963 33.333 0.00 0.00 36.85 2.45
752 782 9.521503 GATTTATATAAGCAGACGAGCATGATA 57.478 33.333 0.00 0.00 36.85 2.15
753 783 8.689251 TTTATATAAGCAGACGAGCATGATAC 57.311 34.615 0.00 0.00 36.85 2.24
754 784 4.862902 ATAAGCAGACGAGCATGATACT 57.137 40.909 0.00 0.00 36.85 2.12
755 785 3.533606 AAGCAGACGAGCATGATACTT 57.466 42.857 0.00 0.00 36.85 2.24
756 786 3.090952 AGCAGACGAGCATGATACTTC 57.909 47.619 0.00 0.00 36.85 3.01
757 787 2.692557 AGCAGACGAGCATGATACTTCT 59.307 45.455 0.00 0.00 36.85 2.85
758 788 3.049206 GCAGACGAGCATGATACTTCTC 58.951 50.000 0.00 0.00 0.00 2.87
759 789 3.489908 GCAGACGAGCATGATACTTCTCA 60.490 47.826 0.00 0.00 0.00 3.27
760 790 4.041049 CAGACGAGCATGATACTTCTCAC 58.959 47.826 0.00 0.00 0.00 3.51
761 791 3.039405 GACGAGCATGATACTTCTCACG 58.961 50.000 0.00 0.00 0.00 4.35
762 792 2.423892 ACGAGCATGATACTTCTCACGT 59.576 45.455 0.00 0.00 0.00 4.49
763 793 2.786027 CGAGCATGATACTTCTCACGTG 59.214 50.000 9.94 9.94 0.00 4.49
764 794 3.119291 GAGCATGATACTTCTCACGTGG 58.881 50.000 17.00 6.71 0.00 4.94
765 795 1.594862 GCATGATACTTCTCACGTGGC 59.405 52.381 17.00 2.28 0.00 5.01
766 796 2.892374 CATGATACTTCTCACGTGGCA 58.108 47.619 17.00 0.00 0.00 4.92
767 797 3.461061 CATGATACTTCTCACGTGGCAT 58.539 45.455 17.00 4.33 0.00 4.40
768 798 3.165058 TGATACTTCTCACGTGGCATC 57.835 47.619 17.00 5.80 0.00 3.91
769 799 2.120232 GATACTTCTCACGTGGCATCG 58.880 52.381 17.00 7.71 0.00 3.84
770 800 0.457853 TACTTCTCACGTGGCATCGC 60.458 55.000 17.00 0.00 0.00 4.58
782 812 4.108902 CATCGCGTGCACCTATGT 57.891 55.556 12.15 0.00 0.00 2.29
783 813 3.266282 CATCGCGTGCACCTATGTA 57.734 52.632 12.15 0.00 0.00 2.29
784 814 1.783284 CATCGCGTGCACCTATGTAT 58.217 50.000 12.15 0.00 0.00 2.29
785 815 2.135139 CATCGCGTGCACCTATGTATT 58.865 47.619 12.15 0.00 0.00 1.89
786 816 2.303163 TCGCGTGCACCTATGTATTT 57.697 45.000 12.15 0.00 0.00 1.40
787 817 2.623535 TCGCGTGCACCTATGTATTTT 58.376 42.857 12.15 0.00 0.00 1.82
788 818 2.605818 TCGCGTGCACCTATGTATTTTC 59.394 45.455 12.15 0.00 0.00 2.29
789 819 2.596575 CGCGTGCACCTATGTATTTTCG 60.597 50.000 12.15 0.00 0.00 3.46
790 820 2.350498 GCGTGCACCTATGTATTTTCGT 59.650 45.455 12.15 0.00 0.00 3.85
791 821 3.181514 GCGTGCACCTATGTATTTTCGTT 60.182 43.478 12.15 0.00 0.00 3.85
792 822 4.670735 GCGTGCACCTATGTATTTTCGTTT 60.671 41.667 12.15 0.00 0.00 3.60
793 823 5.387279 CGTGCACCTATGTATTTTCGTTTT 58.613 37.500 12.15 0.00 0.00 2.43
794 824 5.854338 CGTGCACCTATGTATTTTCGTTTTT 59.146 36.000 12.15 0.00 0.00 1.94
795 825 6.032042 CGTGCACCTATGTATTTTCGTTTTTC 59.968 38.462 12.15 0.00 0.00 2.29
796 826 6.307077 GTGCACCTATGTATTTTCGTTTTTCC 59.693 38.462 5.22 0.00 0.00 3.13
797 827 6.207810 TGCACCTATGTATTTTCGTTTTTCCT 59.792 34.615 0.00 0.00 0.00 3.36
798 828 6.526674 GCACCTATGTATTTTCGTTTTTCCTG 59.473 38.462 0.00 0.00 0.00 3.86
799 829 7.574217 GCACCTATGTATTTTCGTTTTTCCTGA 60.574 37.037 0.00 0.00 0.00 3.86
800 830 7.962918 CACCTATGTATTTTCGTTTTTCCTGAG 59.037 37.037 0.00 0.00 0.00 3.35
801 831 6.967199 CCTATGTATTTTCGTTTTTCCTGAGC 59.033 38.462 0.00 0.00 0.00 4.26
802 832 5.116069 TGTATTTTCGTTTTTCCTGAGCC 57.884 39.130 0.00 0.00 0.00 4.70
803 833 2.766970 TTTTCGTTTTTCCTGAGCCG 57.233 45.000 0.00 0.00 0.00 5.52
804 834 1.956297 TTTCGTTTTTCCTGAGCCGA 58.044 45.000 0.00 0.00 0.00 5.54
805 835 1.956297 TTCGTTTTTCCTGAGCCGAA 58.044 45.000 0.00 0.00 32.57 4.30
806 836 1.956297 TCGTTTTTCCTGAGCCGAAA 58.044 45.000 0.00 0.00 0.00 3.46
807 837 2.290464 TCGTTTTTCCTGAGCCGAAAA 58.710 42.857 0.00 0.00 37.42 2.29
808 838 2.289547 TCGTTTTTCCTGAGCCGAAAAG 59.710 45.455 0.00 0.00 39.62 2.27
809 839 2.289547 CGTTTTTCCTGAGCCGAAAAGA 59.710 45.455 0.00 0.00 39.62 2.52
810 840 3.058224 CGTTTTTCCTGAGCCGAAAAGAT 60.058 43.478 0.00 0.00 39.62 2.40
811 841 4.556699 CGTTTTTCCTGAGCCGAAAAGATT 60.557 41.667 0.00 0.00 39.62 2.40
812 842 5.289595 GTTTTTCCTGAGCCGAAAAGATTT 58.710 37.500 0.00 0.00 39.62 2.17
813 843 5.529581 TTTTCCTGAGCCGAAAAGATTTT 57.470 34.783 0.00 0.00 34.98 1.82
814 844 5.529581 TTTCCTGAGCCGAAAAGATTTTT 57.470 34.783 0.00 0.00 0.00 1.94
852 882 3.550820 ACAGTATTGTGTGCTTGTGGAA 58.449 40.909 0.00 0.00 35.83 3.53
878 908 1.067635 GGCGTGCTGGATCAAAATTGT 60.068 47.619 0.00 0.00 0.00 2.71
879 909 2.610232 GGCGTGCTGGATCAAAATTGTT 60.610 45.455 0.00 0.00 0.00 2.83
885 915 2.493278 CTGGATCAAAATTGTTCGGGCT 59.507 45.455 0.00 0.00 0.00 5.19
889 919 1.059942 CAAAATTGTTCGGGCTTCGC 58.940 50.000 0.00 0.00 39.05 4.70
898 928 2.162754 CGGGCTTCGCGACGTATTT 61.163 57.895 9.15 0.00 42.31 1.40
904 934 0.709467 TTCGCGACGTATTTCCAACG 59.291 50.000 9.15 0.00 45.64 4.10
923 953 3.953775 CCCACCGCAACCTGGTCT 61.954 66.667 0.00 0.00 37.72 3.85
924 954 2.113139 CCACCGCAACCTGGTCTT 59.887 61.111 0.00 0.00 37.72 3.01
925 955 2.260869 CCACCGCAACCTGGTCTTG 61.261 63.158 0.00 0.00 37.72 3.02
926 956 1.227823 CACCGCAACCTGGTCTTGA 60.228 57.895 0.00 0.00 37.72 3.02
927 957 0.817634 CACCGCAACCTGGTCTTGAA 60.818 55.000 0.00 0.00 37.72 2.69
928 958 0.106918 ACCGCAACCTGGTCTTGAAA 60.107 50.000 0.00 0.00 33.35 2.69
929 959 1.247567 CCGCAACCTGGTCTTGAAAT 58.752 50.000 0.00 0.00 0.00 2.17
930 960 1.613437 CCGCAACCTGGTCTTGAAATT 59.387 47.619 0.00 0.00 0.00 1.82
931 961 2.607771 CCGCAACCTGGTCTTGAAATTG 60.608 50.000 0.00 0.00 0.00 2.32
936 966 1.962807 CCTGGTCTTGAAATTGGTGCA 59.037 47.619 0.00 0.00 0.00 4.57
937 967 2.564062 CCTGGTCTTGAAATTGGTGCAT 59.436 45.455 0.00 0.00 0.00 3.96
1061 1106 0.631212 AAGAACCCACCCATCATCCC 59.369 55.000 0.00 0.00 0.00 3.85
1675 7925 2.034053 TGCGTGAATTGGTTTCTTGGAC 59.966 45.455 0.00 0.00 35.23 4.02
2063 8398 2.249557 CTTCGTCGTCATCGTCGGGT 62.250 60.000 7.27 0.00 45.17 5.28
2094 8444 5.244178 GTGAGAAACCTTCCTACTCTTCTCA 59.756 44.000 7.95 7.95 43.85 3.27
2275 8688 4.974645 AAATCAGTAGGTGGTCAACAGA 57.025 40.909 0.00 0.00 0.00 3.41
2312 8732 4.686122 CGGCTGGGTTTATGGAAATAGTCT 60.686 45.833 0.00 0.00 0.00 3.24
2865 9285 7.027778 ACAGTTTATGTGGTCTGAAACTTTC 57.972 36.000 0.00 0.00 41.91 2.62
3072 9544 2.028658 TCTGCCTAGTTCAGCTTCACAG 60.029 50.000 4.79 0.00 0.00 3.66
3077 9549 4.431809 CCTAGTTCAGCTTCACAGAGATG 58.568 47.826 0.00 0.00 34.46 2.90
3078 9550 4.159321 CCTAGTTCAGCTTCACAGAGATGA 59.841 45.833 0.00 0.00 40.04 2.92
3080 9552 5.929058 AGTTCAGCTTCACAGAGATGATA 57.071 39.130 0.00 0.00 41.23 2.15
3083 9555 6.762187 AGTTCAGCTTCACAGAGATGATAATG 59.238 38.462 0.00 0.00 41.23 1.90
3084 9556 6.475596 TCAGCTTCACAGAGATGATAATGA 57.524 37.500 0.00 0.00 37.17 2.57
3085 9557 7.063934 TCAGCTTCACAGAGATGATAATGAT 57.936 36.000 0.00 0.00 37.17 2.45
3086 9558 7.506971 TCAGCTTCACAGAGATGATAATGATT 58.493 34.615 0.00 0.00 37.17 2.57
3087 9559 7.991460 TCAGCTTCACAGAGATGATAATGATTT 59.009 33.333 0.00 0.00 37.17 2.17
3088 9560 8.283992 CAGCTTCACAGAGATGATAATGATTTC 58.716 37.037 0.00 0.00 35.10 2.17
3089 9561 8.212312 AGCTTCACAGAGATGATAATGATTTCT 58.788 33.333 0.00 0.00 0.00 2.52
3090 9562 8.283992 GCTTCACAGAGATGATAATGATTTCTG 58.716 37.037 0.00 0.00 37.26 3.02
3091 9563 9.327628 CTTCACAGAGATGATAATGATTTCTGT 57.672 33.333 2.92 2.92 43.10 3.41
3092 9564 9.676861 TTCACAGAGATGATAATGATTTCTGTT 57.323 29.630 5.46 0.00 41.11 3.16
3093 9565 9.322773 TCACAGAGATGATAATGATTTCTGTTC 57.677 33.333 5.46 0.00 41.11 3.18
3094 9566 9.327628 CACAGAGATGATAATGATTTCTGTTCT 57.672 33.333 5.46 0.00 41.11 3.01
3095 9567 9.545105 ACAGAGATGATAATGATTTCTGTTCTC 57.455 33.333 2.92 0.00 40.42 2.87
3096 9568 9.767228 CAGAGATGATAATGATTTCTGTTCTCT 57.233 33.333 0.00 0.00 37.33 3.10
3099 9571 9.709495 AGATGATAATGATTTCTGTTCTCTAGC 57.291 33.333 0.00 0.00 0.00 3.42
3100 9572 8.845413 ATGATAATGATTTCTGTTCTCTAGCC 57.155 34.615 0.00 0.00 0.00 3.93
3101 9573 8.027524 TGATAATGATTTCTGTTCTCTAGCCT 57.972 34.615 0.00 0.00 0.00 4.58
3102 9574 9.147732 TGATAATGATTTCTGTTCTCTAGCCTA 57.852 33.333 0.00 0.00 0.00 3.93
3103 9575 9.418045 GATAATGATTTCTGTTCTCTAGCCTAC 57.582 37.037 0.00 0.00 0.00 3.18
3104 9576 7.430760 AATGATTTCTGTTCTCTAGCCTACT 57.569 36.000 0.00 0.00 0.00 2.57
3105 9577 6.214191 TGATTTCTGTTCTCTAGCCTACTG 57.786 41.667 0.00 0.00 0.00 2.74
3106 9578 5.717178 TGATTTCTGTTCTCTAGCCTACTGT 59.283 40.000 0.00 0.00 0.00 3.55
3107 9579 6.890268 TGATTTCTGTTCTCTAGCCTACTGTA 59.110 38.462 0.00 0.00 0.00 2.74
3108 9580 7.396339 TGATTTCTGTTCTCTAGCCTACTGTAA 59.604 37.037 0.00 0.00 0.00 2.41
3109 9581 7.719871 TTTCTGTTCTCTAGCCTACTGTAAT 57.280 36.000 0.00 0.00 0.00 1.89
3110 9582 7.719871 TTCTGTTCTCTAGCCTACTGTAATT 57.280 36.000 0.00 0.00 0.00 1.40
3111 9583 7.101652 TCTGTTCTCTAGCCTACTGTAATTG 57.898 40.000 0.00 0.00 0.00 2.32
3112 9584 6.663953 TCTGTTCTCTAGCCTACTGTAATTGT 59.336 38.462 0.00 0.00 0.00 2.71
3113 9585 7.178628 TCTGTTCTCTAGCCTACTGTAATTGTT 59.821 37.037 0.00 0.00 0.00 2.83
3114 9586 7.676947 TGTTCTCTAGCCTACTGTAATTGTTT 58.323 34.615 0.00 0.00 0.00 2.83
3115 9587 7.817962 TGTTCTCTAGCCTACTGTAATTGTTTC 59.182 37.037 0.00 0.00 0.00 2.78
3116 9588 6.561614 TCTCTAGCCTACTGTAATTGTTTCG 58.438 40.000 0.00 0.00 0.00 3.46
3117 9589 6.376299 TCTCTAGCCTACTGTAATTGTTTCGA 59.624 38.462 0.00 0.00 0.00 3.71
3118 9590 6.561614 TCTAGCCTACTGTAATTGTTTCGAG 58.438 40.000 0.00 0.00 0.00 4.04
3119 9591 5.148651 AGCCTACTGTAATTGTTTCGAGT 57.851 39.130 0.00 0.00 0.00 4.18
3120 9592 6.276832 AGCCTACTGTAATTGTTTCGAGTA 57.723 37.500 0.00 0.00 0.00 2.59
3121 9593 6.694447 AGCCTACTGTAATTGTTTCGAGTAA 58.306 36.000 0.00 0.00 0.00 2.24
3122 9594 6.589139 AGCCTACTGTAATTGTTTCGAGTAAC 59.411 38.462 0.00 0.00 0.00 2.50
3123 9595 6.453396 GCCTACTGTAATTGTTTCGAGTAACG 60.453 42.308 0.00 0.00 44.09 3.18
3124 9596 6.583806 CCTACTGTAATTGTTTCGAGTAACGT 59.416 38.462 0.00 0.00 43.13 3.99
3125 9597 6.206600 ACTGTAATTGTTTCGAGTAACGTG 57.793 37.500 0.00 0.00 43.13 4.49
3126 9598 5.009048 TGTAATTGTTTCGAGTAACGTGC 57.991 39.130 0.00 0.00 43.13 5.34
3127 9599 2.848562 ATTGTTTCGAGTAACGTGCG 57.151 45.000 0.00 0.00 43.13 5.34
3128 9600 0.854062 TTGTTTCGAGTAACGTGCGG 59.146 50.000 0.00 0.00 43.13 5.69
3129 9601 0.030504 TGTTTCGAGTAACGTGCGGA 59.969 50.000 0.00 0.00 43.13 5.54
3130 9602 0.432361 GTTTCGAGTAACGTGCGGAC 59.568 55.000 0.00 0.00 43.13 4.79
3131 9603 0.030504 TTTCGAGTAACGTGCGGACA 59.969 50.000 8.11 0.00 43.13 4.02
3132 9604 0.030504 TTCGAGTAACGTGCGGACAA 59.969 50.000 8.11 0.00 43.13 3.18
3133 9605 0.030504 TCGAGTAACGTGCGGACAAA 59.969 50.000 8.11 0.00 43.13 2.83
3134 9606 0.854062 CGAGTAACGTGCGGACAAAA 59.146 50.000 8.11 0.00 37.22 2.44
3135 9607 1.458064 CGAGTAACGTGCGGACAAAAT 59.542 47.619 8.11 0.00 37.22 1.82
3136 9608 2.096614 CGAGTAACGTGCGGACAAAATT 60.097 45.455 8.11 0.00 37.22 1.82
3137 9609 3.476181 GAGTAACGTGCGGACAAAATTC 58.524 45.455 8.11 0.00 0.00 2.17
3138 9610 2.873472 AGTAACGTGCGGACAAAATTCA 59.127 40.909 8.11 0.00 0.00 2.57
3139 9611 2.399396 AACGTGCGGACAAAATTCAG 57.601 45.000 8.11 0.00 0.00 3.02
3140 9612 0.591170 ACGTGCGGACAAAATTCAGG 59.409 50.000 8.11 0.00 0.00 3.86
3294 9768 4.627741 GCCTGTTGGGTTTATGGACAGATA 60.628 45.833 3.56 0.00 39.97 1.98
3333 9807 3.844211 AGATAGTTGTTTGCTAGGGGTGA 59.156 43.478 0.00 0.00 0.00 4.02
3384 9859 6.018588 CACACTGAACCTTTGATACGTAAACA 60.019 38.462 0.00 0.11 0.00 2.83
3776 10341 2.159226 CGACGAGATAAGAGCCCAGTTT 60.159 50.000 0.00 0.00 0.00 2.66
3781 10346 4.938226 CGAGATAAGAGCCCAGTTTCTTTT 59.062 41.667 0.00 0.00 35.42 2.27
3783 10348 5.880901 AGATAAGAGCCCAGTTTCTTTTGA 58.119 37.500 0.00 0.00 35.42 2.69
3784 10349 5.707764 AGATAAGAGCCCAGTTTCTTTTGAC 59.292 40.000 0.00 0.00 35.42 3.18
3850 10425 7.399245 TGCTACTTAAACTTGGTTTGTTCTT 57.601 32.000 5.99 0.00 36.37 2.52
3881 10456 4.886579 AGGAAACTTATTTGCTTTGCCAG 58.113 39.130 0.00 0.00 43.34 4.85
4047 10666 5.592282 TGAGCACTTGAGTTTTGTTATTCCA 59.408 36.000 0.00 0.00 0.00 3.53
4051 10670 6.417930 GCACTTGAGTTTTGTTATTCCACTTC 59.582 38.462 0.00 0.00 0.00 3.01
4054 10673 8.695456 ACTTGAGTTTTGTTATTCCACTTCAAT 58.305 29.630 0.00 0.00 0.00 2.57
4307 10955 2.558795 TCCTTCTCGGTTTCTGTCTCTG 59.441 50.000 0.00 0.00 0.00 3.35
4315 10963 3.254657 CGGTTTCTGTCTCTGTCTCTCTT 59.745 47.826 0.00 0.00 0.00 2.85
4316 10964 4.614993 CGGTTTCTGTCTCTGTCTCTCTTC 60.615 50.000 0.00 0.00 0.00 2.87
4725 14908 3.369756 TCGTCAATTAACGGTGATCAAGC 59.630 43.478 0.32 0.00 42.80 4.01
4780 15079 3.817084 CAGAATGTGTGAAGCAGAGGAAA 59.183 43.478 0.00 0.00 0.00 3.13
4864 15163 6.897966 AGATATTTCACAACCACCTCTCTCTA 59.102 38.462 0.00 0.00 0.00 2.43
4959 15258 3.651803 GGAGATCTCCCAACATACTCG 57.348 52.381 28.84 0.00 43.94 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
334 341 8.542497 ACGGATCTTGCGCTATAAATTATAAA 57.458 30.769 9.73 0.00 33.30 1.40
363 373 2.023414 ATCGCCGCCGGTATGAAAGA 62.023 55.000 4.45 0.00 34.56 2.52
590 612 0.613260 TGTGTTGCCGCTTATCCTCT 59.387 50.000 0.00 0.00 0.00 3.69
649 671 2.851195 ACAACCATCACTCAAGACCAC 58.149 47.619 0.00 0.00 0.00 4.16
710 740 1.037493 AATCATACTAGCCCGTGCGA 58.963 50.000 0.00 0.00 44.33 5.10
721 751 8.523658 TGCTCGTCTGCTTATATAAATCATACT 58.476 33.333 0.00 0.00 0.00 2.12
722 752 8.689251 TGCTCGTCTGCTTATATAAATCATAC 57.311 34.615 0.00 1.14 0.00 2.39
723 753 9.305925 CATGCTCGTCTGCTTATATAAATCATA 57.694 33.333 0.00 0.00 0.00 2.15
724 754 8.037166 TCATGCTCGTCTGCTTATATAAATCAT 58.963 33.333 0.00 0.00 0.00 2.45
725 755 7.378181 TCATGCTCGTCTGCTTATATAAATCA 58.622 34.615 0.00 0.00 0.00 2.57
726 756 7.818493 TCATGCTCGTCTGCTTATATAAATC 57.182 36.000 0.00 0.00 0.00 2.17
727 757 9.307121 GTATCATGCTCGTCTGCTTATATAAAT 57.693 33.333 0.00 0.00 0.00 1.40
728 758 8.523658 AGTATCATGCTCGTCTGCTTATATAAA 58.476 33.333 0.00 0.00 0.00 1.40
729 759 8.056407 AGTATCATGCTCGTCTGCTTATATAA 57.944 34.615 0.00 0.00 0.00 0.98
730 760 7.631717 AGTATCATGCTCGTCTGCTTATATA 57.368 36.000 0.00 0.00 0.00 0.86
731 761 6.522625 AGTATCATGCTCGTCTGCTTATAT 57.477 37.500 0.00 0.00 0.00 0.86
732 762 5.966742 AGTATCATGCTCGTCTGCTTATA 57.033 39.130 0.00 0.00 0.00 0.98
733 763 4.862902 AGTATCATGCTCGTCTGCTTAT 57.137 40.909 0.00 0.00 0.00 1.73
734 764 4.339530 AGAAGTATCATGCTCGTCTGCTTA 59.660 41.667 0.00 0.00 0.00 3.09
735 765 3.131933 AGAAGTATCATGCTCGTCTGCTT 59.868 43.478 0.00 0.00 0.00 3.91
736 766 2.692557 AGAAGTATCATGCTCGTCTGCT 59.307 45.455 0.00 0.00 0.00 4.24
737 767 3.049206 GAGAAGTATCATGCTCGTCTGC 58.951 50.000 0.00 0.00 0.00 4.26
738 768 4.041049 GTGAGAAGTATCATGCTCGTCTG 58.959 47.826 0.00 0.00 0.00 3.51
739 769 3.242903 CGTGAGAAGTATCATGCTCGTCT 60.243 47.826 0.00 0.00 29.93 4.18
740 770 3.039405 CGTGAGAAGTATCATGCTCGTC 58.961 50.000 0.00 0.00 29.93 4.20
741 771 2.423892 ACGTGAGAAGTATCATGCTCGT 59.576 45.455 0.00 0.00 39.39 4.18
742 772 2.786027 CACGTGAGAAGTATCATGCTCG 59.214 50.000 10.90 0.00 39.39 5.03
743 773 3.119291 CCACGTGAGAAGTATCATGCTC 58.881 50.000 19.30 0.00 39.39 4.26
744 774 2.739932 GCCACGTGAGAAGTATCATGCT 60.740 50.000 19.30 0.00 39.39 3.79
745 775 1.594862 GCCACGTGAGAAGTATCATGC 59.405 52.381 19.30 2.93 39.39 4.06
746 776 2.892374 TGCCACGTGAGAAGTATCATG 58.108 47.619 19.30 0.00 41.18 3.07
747 777 3.722147 GATGCCACGTGAGAAGTATCAT 58.278 45.455 19.30 6.67 32.51 2.45
748 778 2.479560 CGATGCCACGTGAGAAGTATCA 60.480 50.000 19.30 2.00 32.05 2.15
749 779 2.120232 CGATGCCACGTGAGAAGTATC 58.880 52.381 19.30 13.15 0.00 2.24
750 780 1.802880 GCGATGCCACGTGAGAAGTAT 60.803 52.381 19.30 4.86 35.59 2.12
751 781 0.457853 GCGATGCCACGTGAGAAGTA 60.458 55.000 19.30 0.00 35.59 2.24
752 782 1.738099 GCGATGCCACGTGAGAAGT 60.738 57.895 19.30 0.00 35.59 3.01
753 783 2.792290 CGCGATGCCACGTGAGAAG 61.792 63.158 19.30 0.29 44.86 2.85
754 784 2.809174 CGCGATGCCACGTGAGAA 60.809 61.111 19.30 1.53 44.86 2.87
755 785 4.050934 ACGCGATGCCACGTGAGA 62.051 61.111 19.30 2.56 44.86 3.27
765 795 1.783284 ATACATAGGTGCACGCGATG 58.217 50.000 15.93 19.33 0.00 3.84
766 796 2.526304 AATACATAGGTGCACGCGAT 57.474 45.000 15.93 3.02 0.00 4.58
767 797 2.303163 AAATACATAGGTGCACGCGA 57.697 45.000 15.93 0.48 0.00 5.87
768 798 2.596575 CGAAAATACATAGGTGCACGCG 60.597 50.000 11.45 3.53 0.00 6.01
769 799 2.350498 ACGAAAATACATAGGTGCACGC 59.650 45.455 11.45 3.85 0.00 5.34
770 800 4.593597 AACGAAAATACATAGGTGCACG 57.406 40.909 11.45 0.00 0.00 5.34
771 801 6.307077 GGAAAAACGAAAATACATAGGTGCAC 59.693 38.462 8.80 8.80 0.00 4.57
772 802 6.207810 AGGAAAAACGAAAATACATAGGTGCA 59.792 34.615 0.00 0.00 0.00 4.57
773 803 6.526674 CAGGAAAAACGAAAATACATAGGTGC 59.473 38.462 0.00 0.00 0.00 5.01
774 804 7.812648 TCAGGAAAAACGAAAATACATAGGTG 58.187 34.615 0.00 0.00 0.00 4.00
775 805 7.361799 GCTCAGGAAAAACGAAAATACATAGGT 60.362 37.037 0.00 0.00 0.00 3.08
776 806 6.967199 GCTCAGGAAAAACGAAAATACATAGG 59.033 38.462 0.00 0.00 0.00 2.57
777 807 6.967199 GGCTCAGGAAAAACGAAAATACATAG 59.033 38.462 0.00 0.00 0.00 2.23
778 808 6.402766 CGGCTCAGGAAAAACGAAAATACATA 60.403 38.462 0.00 0.00 0.00 2.29
779 809 5.619086 CGGCTCAGGAAAAACGAAAATACAT 60.619 40.000 0.00 0.00 0.00 2.29
780 810 4.319911 CGGCTCAGGAAAAACGAAAATACA 60.320 41.667 0.00 0.00 0.00 2.29
781 811 4.083696 TCGGCTCAGGAAAAACGAAAATAC 60.084 41.667 0.00 0.00 0.00 1.89
782 812 4.066490 TCGGCTCAGGAAAAACGAAAATA 58.934 39.130 0.00 0.00 0.00 1.40
783 813 2.882137 TCGGCTCAGGAAAAACGAAAAT 59.118 40.909 0.00 0.00 0.00 1.82
784 814 2.290464 TCGGCTCAGGAAAAACGAAAA 58.710 42.857 0.00 0.00 0.00 2.29
785 815 1.956297 TCGGCTCAGGAAAAACGAAA 58.044 45.000 0.00 0.00 0.00 3.46
786 816 1.956297 TTCGGCTCAGGAAAAACGAA 58.044 45.000 0.00 0.00 37.91 3.85
787 817 1.956297 TTTCGGCTCAGGAAAAACGA 58.044 45.000 0.00 0.00 30.91 3.85
788 818 2.289547 TCTTTTCGGCTCAGGAAAAACG 59.710 45.455 1.95 0.00 41.36 3.60
789 819 3.982576 TCTTTTCGGCTCAGGAAAAAC 57.017 42.857 1.95 0.00 41.36 2.43
790 820 5.529581 AAATCTTTTCGGCTCAGGAAAAA 57.470 34.783 1.95 0.00 41.36 1.94
791 821 5.529581 AAAATCTTTTCGGCTCAGGAAAA 57.470 34.783 0.51 0.51 40.12 2.29
792 822 5.529581 AAAAATCTTTTCGGCTCAGGAAA 57.470 34.783 0.00 0.00 0.00 3.13
816 846 9.826574 ACACAATACTGTTCTGTTTCTAGTAAA 57.173 29.630 0.00 0.00 31.64 2.01
817 847 9.256477 CACACAATACTGTTCTGTTTCTAGTAA 57.744 33.333 0.00 0.00 31.64 2.24
818 848 7.384115 GCACACAATACTGTTCTGTTTCTAGTA 59.616 37.037 0.00 0.00 31.64 1.82
819 849 6.202954 GCACACAATACTGTTCTGTTTCTAGT 59.797 38.462 0.00 0.00 31.64 2.57
820 850 6.425114 AGCACACAATACTGTTCTGTTTCTAG 59.575 38.462 0.00 0.00 31.64 2.43
821 851 6.288294 AGCACACAATACTGTTCTGTTTCTA 58.712 36.000 0.00 0.00 31.64 2.10
822 852 5.126067 AGCACACAATACTGTTCTGTTTCT 58.874 37.500 0.00 0.00 31.64 2.52
823 853 5.424121 AGCACACAATACTGTTCTGTTTC 57.576 39.130 0.00 0.00 31.64 2.78
824 854 5.125417 ACAAGCACACAATACTGTTCTGTTT 59.875 36.000 0.00 0.00 31.64 2.83
825 855 4.640201 ACAAGCACACAATACTGTTCTGTT 59.360 37.500 0.00 0.00 31.64 3.16
826 856 4.035558 CACAAGCACACAATACTGTTCTGT 59.964 41.667 0.00 0.00 31.64 3.41
827 857 4.530388 CACAAGCACACAATACTGTTCTG 58.470 43.478 0.00 0.00 31.64 3.02
828 858 3.565482 CCACAAGCACACAATACTGTTCT 59.435 43.478 0.00 0.00 31.64 3.01
829 859 3.563808 TCCACAAGCACACAATACTGTTC 59.436 43.478 0.00 0.00 31.64 3.18
830 860 3.550820 TCCACAAGCACACAATACTGTT 58.449 40.909 0.00 0.00 31.64 3.16
831 861 3.207265 TCCACAAGCACACAATACTGT 57.793 42.857 0.00 0.00 35.63 3.55
832 862 3.814842 TCTTCCACAAGCACACAATACTG 59.185 43.478 0.00 0.00 0.00 2.74
833 863 4.085357 TCTTCCACAAGCACACAATACT 57.915 40.909 0.00 0.00 0.00 2.12
834 864 5.376854 AATCTTCCACAAGCACACAATAC 57.623 39.130 0.00 0.00 0.00 1.89
835 865 5.647658 CCTAATCTTCCACAAGCACACAATA 59.352 40.000 0.00 0.00 0.00 1.90
836 866 4.460382 CCTAATCTTCCACAAGCACACAAT 59.540 41.667 0.00 0.00 0.00 2.71
837 867 3.820467 CCTAATCTTCCACAAGCACACAA 59.180 43.478 0.00 0.00 0.00 3.33
838 868 3.411446 CCTAATCTTCCACAAGCACACA 58.589 45.455 0.00 0.00 0.00 3.72
839 869 2.162408 GCCTAATCTTCCACAAGCACAC 59.838 50.000 0.00 0.00 0.00 3.82
852 882 1.123077 TGATCCAGCACGCCTAATCT 58.877 50.000 0.00 0.00 0.00 2.40
885 915 0.709467 CGTTGGAAATACGTCGCGAA 59.291 50.000 12.06 0.00 34.47 4.70
889 919 1.698714 GGGCCGTTGGAAATACGTCG 61.699 60.000 0.00 0.00 37.30 5.12
912 942 2.365293 ACCAATTTCAAGACCAGGTTGC 59.635 45.455 0.00 0.00 0.00 4.17
913 943 3.799917 GCACCAATTTCAAGACCAGGTTG 60.800 47.826 0.00 0.00 0.00 3.77
914 944 2.365293 GCACCAATTTCAAGACCAGGTT 59.635 45.455 0.00 0.00 0.00 3.50
915 945 1.963515 GCACCAATTTCAAGACCAGGT 59.036 47.619 0.00 0.00 0.00 4.00
916 946 1.962807 TGCACCAATTTCAAGACCAGG 59.037 47.619 0.00 0.00 0.00 4.45
917 947 3.947910 ATGCACCAATTTCAAGACCAG 57.052 42.857 0.00 0.00 0.00 4.00
918 948 5.782047 CTTTATGCACCAATTTCAAGACCA 58.218 37.500 0.00 0.00 0.00 4.02
919 949 4.627035 GCTTTATGCACCAATTTCAAGACC 59.373 41.667 0.00 0.00 42.31 3.85
920 950 5.346822 CAGCTTTATGCACCAATTTCAAGAC 59.653 40.000 0.00 0.00 45.94 3.01
921 951 5.243507 TCAGCTTTATGCACCAATTTCAAGA 59.756 36.000 0.00 0.00 45.94 3.02
922 952 5.472148 TCAGCTTTATGCACCAATTTCAAG 58.528 37.500 0.00 0.00 45.94 3.02
923 953 5.465532 TCAGCTTTATGCACCAATTTCAA 57.534 34.783 0.00 0.00 45.94 2.69
924 954 4.618927 GCTCAGCTTTATGCACCAATTTCA 60.619 41.667 0.00 0.00 45.94 2.69
925 955 3.861689 GCTCAGCTTTATGCACCAATTTC 59.138 43.478 0.00 0.00 45.94 2.17
926 956 3.368739 GGCTCAGCTTTATGCACCAATTT 60.369 43.478 0.00 0.00 45.94 1.82
927 957 2.167075 GGCTCAGCTTTATGCACCAATT 59.833 45.455 0.00 0.00 45.94 2.32
928 958 1.753073 GGCTCAGCTTTATGCACCAAT 59.247 47.619 0.00 0.00 45.94 3.16
929 959 1.176527 GGCTCAGCTTTATGCACCAA 58.823 50.000 0.00 0.00 45.94 3.67
930 960 0.329261 AGGCTCAGCTTTATGCACCA 59.671 50.000 0.00 0.00 45.94 4.17
931 961 1.133790 CAAGGCTCAGCTTTATGCACC 59.866 52.381 0.00 0.00 45.94 5.01
936 966 6.541641 CAGAGTATTTCAAGGCTCAGCTTTAT 59.458 38.462 0.00 0.00 0.00 1.40
937 967 5.877012 CAGAGTATTTCAAGGCTCAGCTTTA 59.123 40.000 0.00 0.00 0.00 1.85
1061 1106 1.348775 GGAAGGAGAGGTGGGGATGG 61.349 65.000 0.00 0.00 0.00 3.51
1596 7829 2.106683 CCCAATCGGACGTGGAAGC 61.107 63.158 10.41 0.00 37.03 3.86
1622 7864 3.814268 CAAGGAACGGGCATGGCG 61.814 66.667 13.76 11.05 0.00 5.69
1627 7869 1.613255 GGAAGAATCAAGGAACGGGCA 60.613 52.381 0.00 0.00 0.00 5.36
1666 7916 2.888414 GGTCAAATTCCGGTCCAAGAAA 59.112 45.455 0.00 0.00 0.00 2.52
1675 7925 5.914898 AGAAAATTAGGGTCAAATTCCGG 57.085 39.130 0.00 0.00 0.00 5.14
1748 8081 4.142315 CCATCGTCAAATCAAAGAAGCCAT 60.142 41.667 0.00 0.00 0.00 4.40
2094 8444 5.105797 TGCGAATATGAGTTTCTTGCCAAAT 60.106 36.000 0.00 0.00 0.00 2.32
2275 8688 1.303561 AGCCGGCACAATGTCATGT 60.304 52.632 31.54 0.00 0.00 3.21
2312 8732 6.445357 TGTCTATAATCGTACTGCAGTTCA 57.555 37.500 27.06 9.67 0.00 3.18
2353 8773 2.286294 GCAACATTCTAGCATCTGTCCG 59.714 50.000 0.00 0.00 0.00 4.79
2787 9207 7.520451 ACTTTTACTAAATTTGGAGGTCACC 57.480 36.000 8.72 0.00 0.00 4.02
2788 9208 9.244799 CAAACTTTTACTAAATTTGGAGGTCAC 57.755 33.333 8.72 0.00 0.00 3.67
2865 9285 6.246420 CTGAAAGTCTGAAACACATTAGGG 57.754 41.667 0.00 0.00 0.00 3.53
3077 9549 9.418045 GTAGGCTAGAGAACAGAAATCATTATC 57.582 37.037 0.00 0.00 0.00 1.75
3078 9550 9.153479 AGTAGGCTAGAGAACAGAAATCATTAT 57.847 33.333 0.00 0.00 0.00 1.28
3080 9552 7.093112 ACAGTAGGCTAGAGAACAGAAATCATT 60.093 37.037 0.00 0.00 0.00 2.57
3083 9555 6.215495 ACAGTAGGCTAGAGAACAGAAATC 57.785 41.667 0.00 0.00 0.00 2.17
3084 9556 7.719871 TTACAGTAGGCTAGAGAACAGAAAT 57.280 36.000 0.00 0.00 0.00 2.17
3085 9557 7.719871 ATTACAGTAGGCTAGAGAACAGAAA 57.280 36.000 0.00 0.00 0.00 2.52
3086 9558 7.178628 ACAATTACAGTAGGCTAGAGAACAGAA 59.821 37.037 0.00 0.00 0.00 3.02
3087 9559 6.663953 ACAATTACAGTAGGCTAGAGAACAGA 59.336 38.462 0.00 0.00 0.00 3.41
3088 9560 6.868622 ACAATTACAGTAGGCTAGAGAACAG 58.131 40.000 0.00 0.00 0.00 3.16
3089 9561 6.852420 ACAATTACAGTAGGCTAGAGAACA 57.148 37.500 0.00 0.00 0.00 3.18
3090 9562 7.009357 CGAAACAATTACAGTAGGCTAGAGAAC 59.991 40.741 0.00 0.00 0.00 3.01
3091 9563 7.033791 CGAAACAATTACAGTAGGCTAGAGAA 58.966 38.462 0.00 0.00 0.00 2.87
3092 9564 6.376299 TCGAAACAATTACAGTAGGCTAGAGA 59.624 38.462 0.00 0.00 0.00 3.10
3093 9565 6.561614 TCGAAACAATTACAGTAGGCTAGAG 58.438 40.000 0.00 0.00 0.00 2.43
3094 9566 6.152323 ACTCGAAACAATTACAGTAGGCTAGA 59.848 38.462 0.00 0.00 0.00 2.43
3095 9567 6.331061 ACTCGAAACAATTACAGTAGGCTAG 58.669 40.000 0.00 0.00 0.00 3.42
3096 9568 6.276832 ACTCGAAACAATTACAGTAGGCTA 57.723 37.500 0.00 0.00 0.00 3.93
3097 9569 5.148651 ACTCGAAACAATTACAGTAGGCT 57.851 39.130 0.00 0.00 0.00 4.58
3098 9570 6.453396 CGTTACTCGAAACAATTACAGTAGGC 60.453 42.308 1.26 0.00 42.86 3.93
3099 9571 6.583806 ACGTTACTCGAAACAATTACAGTAGG 59.416 38.462 1.26 0.00 42.86 3.18
3100 9572 7.434764 CACGTTACTCGAAACAATTACAGTAG 58.565 38.462 1.26 0.00 42.86 2.57
3101 9573 6.129115 GCACGTTACTCGAAACAATTACAGTA 60.129 38.462 1.26 0.00 42.86 2.74
3102 9574 5.332808 GCACGTTACTCGAAACAATTACAGT 60.333 40.000 1.26 0.00 42.86 3.55
3103 9575 5.070862 GCACGTTACTCGAAACAATTACAG 58.929 41.667 1.26 0.00 42.86 2.74
3104 9576 4.375205 CGCACGTTACTCGAAACAATTACA 60.375 41.667 1.26 0.00 42.86 2.41
3105 9577 4.070224 CGCACGTTACTCGAAACAATTAC 58.930 43.478 1.26 0.00 42.86 1.89
3106 9578 3.121611 CCGCACGTTACTCGAAACAATTA 59.878 43.478 1.26 0.00 42.86 1.40
3107 9579 2.096614 CCGCACGTTACTCGAAACAATT 60.097 45.455 1.26 0.00 42.86 2.32
3108 9580 1.458064 CCGCACGTTACTCGAAACAAT 59.542 47.619 1.26 0.00 42.86 2.71
3109 9581 0.854062 CCGCACGTTACTCGAAACAA 59.146 50.000 1.26 0.00 42.86 2.83
3110 9582 0.030504 TCCGCACGTTACTCGAAACA 59.969 50.000 1.26 0.00 42.86 2.83
3111 9583 0.432361 GTCCGCACGTTACTCGAAAC 59.568 55.000 0.00 0.00 42.86 2.78
3112 9584 0.030504 TGTCCGCACGTTACTCGAAA 59.969 50.000 0.00 0.00 42.86 3.46
3113 9585 0.030504 TTGTCCGCACGTTACTCGAA 59.969 50.000 0.00 0.00 42.86 3.71
3114 9586 0.030504 TTTGTCCGCACGTTACTCGA 59.969 50.000 0.00 0.00 42.86 4.04
3115 9587 0.854062 TTTTGTCCGCACGTTACTCG 59.146 50.000 0.00 0.00 46.00 4.18
3116 9588 3.059461 TGAATTTTGTCCGCACGTTACTC 60.059 43.478 0.00 0.00 0.00 2.59
3117 9589 2.873472 TGAATTTTGTCCGCACGTTACT 59.127 40.909 0.00 0.00 0.00 2.24
3118 9590 3.223157 CTGAATTTTGTCCGCACGTTAC 58.777 45.455 0.00 0.00 0.00 2.50
3119 9591 2.224549 CCTGAATTTTGTCCGCACGTTA 59.775 45.455 0.00 0.00 0.00 3.18
3120 9592 1.001815 CCTGAATTTTGTCCGCACGTT 60.002 47.619 0.00 0.00 0.00 3.99
3121 9593 0.591170 CCTGAATTTTGTCCGCACGT 59.409 50.000 0.00 0.00 0.00 4.49
3122 9594 0.591170 ACCTGAATTTTGTCCGCACG 59.409 50.000 0.00 0.00 0.00 5.34
3123 9595 2.293399 AGAACCTGAATTTTGTCCGCAC 59.707 45.455 0.00 0.00 0.00 5.34
3124 9596 2.582052 AGAACCTGAATTTTGTCCGCA 58.418 42.857 0.00 0.00 0.00 5.69
3125 9597 3.426292 GCTAGAACCTGAATTTTGTCCGC 60.426 47.826 0.00 0.00 0.00 5.54
3126 9598 3.127030 GGCTAGAACCTGAATTTTGTCCG 59.873 47.826 0.00 0.00 0.00 4.79
3127 9599 4.336280 AGGCTAGAACCTGAATTTTGTCC 58.664 43.478 0.00 0.00 39.13 4.02
3128 9600 6.092807 CAGTAGGCTAGAACCTGAATTTTGTC 59.907 42.308 0.00 0.00 41.34 3.18
3129 9601 5.940470 CAGTAGGCTAGAACCTGAATTTTGT 59.060 40.000 0.00 0.00 41.34 2.83
3130 9602 5.940470 ACAGTAGGCTAGAACCTGAATTTTG 59.060 40.000 14.64 0.00 41.34 2.44
3131 9603 6.128138 ACAGTAGGCTAGAACCTGAATTTT 57.872 37.500 14.64 0.00 41.34 1.82
3132 9604 5.763876 ACAGTAGGCTAGAACCTGAATTT 57.236 39.130 14.64 0.00 41.34 1.82
3133 9605 6.869206 TTACAGTAGGCTAGAACCTGAATT 57.131 37.500 14.64 0.00 41.34 2.17
3134 9606 7.092846 ACAATTACAGTAGGCTAGAACCTGAAT 60.093 37.037 14.64 8.41 41.34 2.57
3135 9607 6.212791 ACAATTACAGTAGGCTAGAACCTGAA 59.787 38.462 14.64 6.91 41.34 3.02
3136 9608 5.720041 ACAATTACAGTAGGCTAGAACCTGA 59.280 40.000 14.64 0.00 41.34 3.86
3137 9609 5.978814 ACAATTACAGTAGGCTAGAACCTG 58.021 41.667 7.99 7.99 41.34 4.00
3138 9610 6.351966 GGAACAATTACAGTAGGCTAGAACCT 60.352 42.308 0.00 0.00 44.31 3.50
3139 9611 5.816258 GGAACAATTACAGTAGGCTAGAACC 59.184 44.000 0.00 0.00 0.00 3.62
3140 9612 5.519206 CGGAACAATTACAGTAGGCTAGAAC 59.481 44.000 0.00 0.00 0.00 3.01
3294 9768 7.233757 ACAACTATCTTCAGACAACCTTCTAGT 59.766 37.037 0.00 0.00 0.00 2.57
3372 9847 7.810282 CCATCAAAACCATTTGTTTACGTATCA 59.190 33.333 0.00 0.00 46.39 2.15
3384 9859 7.992033 TGAAGAAATGAACCATCAAAACCATTT 59.008 29.630 0.00 0.00 39.49 2.32
3761 10326 5.473504 TGTCAAAAGAAACTGGGCTCTTATC 59.526 40.000 0.00 0.00 31.61 1.75
3776 10341 6.373005 TGAACCCATATCTCTGTCAAAAGA 57.627 37.500 0.00 0.00 0.00 2.52
3781 10346 3.994317 TCCTGAACCCATATCTCTGTCA 58.006 45.455 0.00 0.00 0.00 3.58
3783 10348 5.501156 GTTTTCCTGAACCCATATCTCTGT 58.499 41.667 0.00 0.00 0.00 3.41
3784 10349 4.884164 GGTTTTCCTGAACCCATATCTCTG 59.116 45.833 0.00 0.00 42.63 3.35
3850 10425 6.769512 AGCAAATAAGTTTCCTACTGTCAGA 58.230 36.000 6.91 0.00 37.12 3.27
3881 10456 5.625311 CAGTTTCAGAATTTTAGAACCGTGC 59.375 40.000 0.00 0.00 0.00 5.34
4307 10955 8.736244 AGTAGTCAATACTGAAAGAAGAGAGAC 58.264 37.037 0.00 0.00 43.35 3.36
4556 11248 1.705873 ACAGGTGAAGAGTCGAACCT 58.294 50.000 8.22 8.22 43.92 3.50
4838 15137 6.897966 AGAGAGAGGTGGTTGTGAAATATCTA 59.102 38.462 0.00 0.00 0.00 1.98
4959 15258 5.348724 TGAAGCATCATTGAACGACTCTTAC 59.651 40.000 0.00 0.00 0.00 2.34


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

AutoCloner maintained by Alex Coulton.