Multiple sequence alignment - TraesCS7D01G379900

Loading Multiple Alignment...

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 TraesCS7D01G379900 chr7D 100.000 3397 0 0 1 3397 492147695 492151091 0.000000e+00 6274.0
1 TraesCS7D01G379900 chr7D 98.901 182 2 0 2616 2797 492150129 492150310 3.270000e-85 326.0
2 TraesCS7D01G379900 chr7D 98.901 182 2 0 2435 2616 492150310 492150491 3.270000e-85 326.0
3 TraesCS7D01G379900 chr7D 77.665 197 29 11 1134 1324 63325778 63325965 4.640000e-19 106.0
4 TraesCS7D01G379900 chr7D 88.732 71 7 1 3117 3186 443425677 443425607 6.040000e-13 86.1
5 TraesCS7D01G379900 chr7D 82.667 75 8 5 3118 3189 83622568 83622496 1.020000e-05 62.1
6 TraesCS7D01G379900 chr7B 93.724 2374 97 28 166 2519 521577129 521579470 0.000000e+00 3511.0
7 TraesCS7D01G379900 chr7B 96.471 170 6 0 1 170 521575266 521575435 7.180000e-72 281.0
8 TraesCS7D01G379900 chr7B 93.567 171 9 1 3227 3397 521580044 521580212 1.560000e-63 254.0
9 TraesCS7D01G379900 chr7B 93.548 62 3 1 3117 3177 475661819 475661880 1.300000e-14 91.6
10 TraesCS7D01G379900 chr7A 93.587 1840 64 18 456 2274 558402096 558403902 0.000000e+00 2695.0
11 TraesCS7D01G379900 chr7A 95.023 221 9 1 2333 2553 558403975 558404193 2.510000e-91 346.0
12 TraesCS7D01G379900 chr7A 96.639 119 4 0 2616 2734 558404075 558404193 7.440000e-47 198.0
13 TraesCS7D01G379900 chr7A 88.591 149 11 3 304 451 558401751 558401894 3.480000e-40 176.0
14 TraesCS7D01G379900 chr7A 96.000 50 1 1 2267 2316 558403933 558403981 2.810000e-11 80.5
15 TraesCS7D01G379900 chr2D 87.730 163 18 2 1122 1283 491429578 491429739 4.470000e-44 189.0
16 TraesCS7D01G379900 chr2D 91.429 70 4 2 3113 3180 2310807 2310738 1.000000e-15 95.3
17 TraesCS7D01G379900 chr2D 97.059 34 1 0 3222 3255 270476975 270477008 1.320000e-04 58.4
18 TraesCS7D01G379900 chr6B 83.590 195 27 4 1131 1324 514119173 514118983 9.690000e-41 178.0
19 TraesCS7D01G379900 chr2A 86.875 160 19 2 1122 1280 635723010 635723168 9.690000e-41 178.0
20 TraesCS7D01G379900 chr2A 94.595 37 0 2 3227 3263 177665297 177665331 4.740000e-04 56.5
21 TraesCS7D01G379900 chr6D 81.567 217 28 10 1119 1324 312763265 312763480 5.830000e-38 169.0
22 TraesCS7D01G379900 chr2B 85.625 160 21 2 1122 1280 575903795 575903953 2.100000e-37 167.0
23 TraesCS7D01G379900 chr2B 100.000 34 0 0 3228 3261 669438731 669438698 2.830000e-06 63.9
24 TraesCS7D01G379900 chr2B 100.000 32 0 0 3227 3258 674033348 674033317 3.660000e-05 60.2
25 TraesCS7D01G379900 chr6A 80.645 217 30 8 1119 1324 449584436 449584651 1.260000e-34 158.0
26 TraesCS7D01G379900 chr6A 85.897 78 7 4 2744 2819 143009963 143010038 2.810000e-11 80.5
27 TraesCS7D01G379900 chr6A 91.837 49 1 3 2744 2791 143009068 143009114 7.870000e-07 65.8
28 TraesCS7D01G379900 chr6A 92.683 41 2 1 3227 3267 137532462 137532501 1.320000e-04 58.4
29 TraesCS7D01G379900 chr5A 93.421 76 5 0 2744 2819 510889474 510889399 2.770000e-21 113.0
30 TraesCS7D01G379900 chr5A 94.595 37 2 0 3227 3263 21453297 21453333 1.320000e-04 58.4
31 TraesCS7D01G379900 chr5A 82.857 70 7 5 3118 3184 673214889 673214822 1.320000e-04 58.4
32 TraesCS7D01G379900 chr1B 93.846 65 3 1 3117 3180 654502997 654502933 2.790000e-16 97.1
33 TraesCS7D01G379900 chr1B 92.308 65 4 1 3117 3180 194375543 194375607 1.300000e-14 91.6
34 TraesCS7D01G379900 chr5D 95.082 61 2 1 3118 3177 284177552 284177612 1.000000e-15 95.3
35 TraesCS7D01G379900 chr3D 92.537 67 4 1 3111 3176 600609837 600609771 1.000000e-15 95.3
36 TraesCS7D01G379900 chr3D 90.909 66 5 1 3116 3180 547439734 547439669 1.680000e-13 87.9
37 TraesCS7D01G379900 chr3D 100.000 33 0 0 2742 2774 513387688 513387656 1.020000e-05 62.1
38 TraesCS7D01G379900 chr4A 92.424 66 4 1 3116 3180 139014293 139014358 3.610000e-15 93.5
39 TraesCS7D01G379900 chrUn 92.188 64 4 1 3118 3180 124699914 124699851 4.670000e-14 89.8
40 TraesCS7D01G379900 chrUn 100.000 32 0 0 3227 3258 194666137 194666106 3.660000e-05 60.2
41 TraesCS7D01G379900 chr1D 89.474 57 2 4 2744 2798 479828529 479828475 6.080000e-08 69.4
42 TraesCS7D01G379900 chr3B 90.196 51 5 0 2746 2796 622401949 622401899 2.190000e-07 67.6
43 TraesCS7D01G379900 chr1A 82.432 74 8 5 3117 3187 8040597 8040668 3.660000e-05 60.2
44 TraesCS7D01G379900 chr5B 94.595 37 2 0 3227 3263 24233351 24233387 1.320000e-04 58.4


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 TraesCS7D01G379900 chr7D 492147695 492151091 3396 False 2308.666667 6274 99.267333 1 3397 3 chr7D.!!$F2 3396
1 TraesCS7D01G379900 chr7B 521575266 521580212 4946 False 1348.666667 3511 94.587333 1 3397 3 chr7B.!!$F2 3396
2 TraesCS7D01G379900 chr7A 558401751 558404193 2442 False 699.100000 2695 93.968000 304 2734 5 chr7A.!!$F1 2430

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
596 2496 0.108186 TGATAGCGTGGCCTCACAAG 60.108 55.0 3.32 0.0 43.79 3.16 F
1403 3332 0.601311 AGCTGAGCTGACGGTGTTTC 60.601 55.0 5.97 0.0 37.57 2.78 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1406 3335 0.169672 CTCCTGCAAACAATCCAGCG 59.830 55.0 0.0 0.0 0.00 5.18 R
2606 4707 0.031994 ACGTGCAATTTGGCAAGGAC 59.968 50.0 0.0 0.0 46.93 3.85 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
62 63 7.040201 AGCTGCTTCACTTGAATTTTATCTTGA 60.040 33.333 0.00 0.00 33.01 3.02
77 78 9.626045 ATTTTATCTTGAAAGCTTTTAGTTCCG 57.374 29.630 14.05 0.00 0.00 4.30
164 165 8.920174 TCTAGTCGATACCTTTAATCCATCAAA 58.080 33.333 0.00 0.00 0.00 2.69
179 1878 2.452491 AAAGCACCCCCTCACCCT 60.452 61.111 0.00 0.00 0.00 4.34
180 1879 2.539081 AAAGCACCCCCTCACCCTC 61.539 63.158 0.00 0.00 0.00 4.30
208 1907 6.368791 GCCAACATATGACATACACATACGAT 59.631 38.462 10.38 0.00 33.89 3.73
227 1926 6.019779 ACGATAAGCCATAGTCTTGAGATC 57.980 41.667 0.00 0.00 0.00 2.75
228 1927 5.047660 ACGATAAGCCATAGTCTTGAGATCC 60.048 44.000 0.00 0.00 0.00 3.36
229 1928 5.623368 CGATAAGCCATAGTCTTGAGATCCC 60.623 48.000 0.00 0.00 0.00 3.85
241 1940 1.762957 TGAGATCCCGAATCTTGACCC 59.237 52.381 2.37 0.00 45.06 4.46
278 1977 1.922545 GCTTTGATCGCCAATTTGAGC 59.077 47.619 0.00 0.00 34.23 4.26
350 2049 7.458409 AGAAGAAGCAAATCAATTAAGCTCA 57.542 32.000 0.00 0.00 32.40 4.26
485 2382 6.820152 GTCACTCGGTAACCAAATAACCTAAT 59.180 38.462 0.00 0.00 0.00 1.73
559 2459 1.006832 CCTTGTAACGGGCTTCGATG 58.993 55.000 6.97 0.00 42.43 3.84
596 2496 0.108186 TGATAGCGTGGCCTCACAAG 60.108 55.000 3.32 0.00 43.79 3.16
665 2565 2.708216 TTGTGGAGCAACAAGTCTGA 57.292 45.000 0.00 0.00 35.16 3.27
670 2571 5.316167 TGTGGAGCAACAAGTCTGATAAAT 58.684 37.500 0.00 0.00 0.00 1.40
1050 2975 1.070134 TCCTCGCATTATTTCCCTCCG 59.930 52.381 0.00 0.00 0.00 4.63
1066 2991 2.187946 CGCCTCCTTCCTCGCATT 59.812 61.111 0.00 0.00 0.00 3.56
1079 3004 2.507769 GCATTCAGCCGCAAAGCC 60.508 61.111 0.00 0.00 37.23 4.35
1403 3332 0.601311 AGCTGAGCTGACGGTGTTTC 60.601 55.000 5.97 0.00 37.57 2.78
1406 3335 1.795286 CTGAGCTGACGGTGTTTCTTC 59.205 52.381 0.00 0.00 0.00 2.87
1506 3435 2.742372 ATCCACAGCGCCAACGAC 60.742 61.111 2.29 0.00 43.93 4.34
1653 3582 1.973812 GGAAGCCCCTGCAGTTCAC 60.974 63.158 13.81 0.00 41.13 3.18
1689 3618 1.230650 TGGAGGAGGAGGAGGAGGA 60.231 63.158 0.00 0.00 0.00 3.71
1704 3633 0.545646 GAGGAGGAGGAAGCAGCATT 59.454 55.000 0.00 0.00 0.00 3.56
1786 3715 2.157073 GCCTTCGTCGCCGTAAGTC 61.157 63.158 0.00 0.00 35.01 3.01
1787 3716 1.866496 CCTTCGTCGCCGTAAGTCG 60.866 63.158 0.00 0.00 39.52 4.18
1788 3717 2.494591 CTTCGTCGCCGTAAGTCGC 61.495 63.158 0.00 0.00 38.35 5.19
1902 3832 3.858868 GACGAGCAGGTGCCGTTCA 62.859 63.158 16.15 0.00 43.88 3.18
1916 3846 1.810030 GTTCATGGACGCCGACCTC 60.810 63.158 7.20 0.00 0.00 3.85
2174 4104 1.941812 GTTCTGGTGCCTGTGAACG 59.058 57.895 0.00 0.00 31.25 3.95
2179 4109 1.598130 GGTGCCTGTGAACGAGCTT 60.598 57.895 0.00 0.00 0.00 3.74
2295 4263 1.959042 AGCTTGGTGTGACTGAAGTG 58.041 50.000 0.00 0.00 0.00 3.16
2317 4285 0.450983 ACCGAACTCTAGTAGCGCAC 59.549 55.000 11.47 5.97 0.00 5.34
2326 4294 4.011023 CTCTAGTAGCGCACCTATGGTAT 58.989 47.826 11.47 0.00 32.11 2.73
2327 4295 5.169992 TCTAGTAGCGCACCTATGGTATA 57.830 43.478 11.47 0.00 32.11 1.47
2372 4340 8.743085 ATGTATAAGAATGAGATGTTGCTGTT 57.257 30.769 0.00 0.00 0.00 3.16
2553 4537 3.388024 TGTTGTGCTTCTGTTCTACTCCT 59.612 43.478 0.00 0.00 0.00 3.69
2554 4538 3.944055 TGTGCTTCTGTTCTACTCCTC 57.056 47.619 0.00 0.00 0.00 3.71
2556 4540 1.819288 TGCTTCTGTTCTACTCCTCCG 59.181 52.381 0.00 0.00 0.00 4.63
2557 4541 1.470112 GCTTCTGTTCTACTCCTCCGC 60.470 57.143 0.00 0.00 0.00 5.54
2558 4542 1.819288 CTTCTGTTCTACTCCTCCGCA 59.181 52.381 0.00 0.00 0.00 5.69
2560 4544 1.819288 TCTGTTCTACTCCTCCGCAAG 59.181 52.381 0.00 0.00 0.00 4.01
2561 4545 1.546476 CTGTTCTACTCCTCCGCAAGT 59.454 52.381 0.00 0.00 0.00 3.16
2563 4547 2.029290 TGTTCTACTCCTCCGCAAGTTC 60.029 50.000 0.00 0.00 0.00 3.01
2564 4548 1.183549 TCTACTCCTCCGCAAGTTCC 58.816 55.000 0.00 0.00 0.00 3.62
2565 4549 0.175989 CTACTCCTCCGCAAGTTCCC 59.824 60.000 0.00 0.00 0.00 3.97
2583 4684 2.499685 GATGGGAGTCGAACCCCG 59.500 66.667 21.37 0.00 46.21 5.73
2593 4694 0.251297 TCGAACCCCGGTCTACAAGA 60.251 55.000 0.00 0.00 39.14 3.02
2598 4699 2.823959 ACCCCGGTCTACAAGATAACA 58.176 47.619 0.00 0.00 0.00 2.41
2599 4700 2.498885 ACCCCGGTCTACAAGATAACAC 59.501 50.000 0.00 0.00 0.00 3.32
2600 4701 2.159000 CCCCGGTCTACAAGATAACACC 60.159 54.545 0.00 0.00 0.00 4.16
2601 4702 2.498481 CCCGGTCTACAAGATAACACCA 59.502 50.000 0.00 0.00 0.00 4.17
2602 4703 3.518590 CCGGTCTACAAGATAACACCAC 58.481 50.000 0.00 0.00 0.00 4.16
2603 4704 3.194968 CCGGTCTACAAGATAACACCACT 59.805 47.826 0.00 0.00 0.00 4.00
2604 4705 4.174009 CGGTCTACAAGATAACACCACTG 58.826 47.826 0.00 0.00 0.00 3.66
2605 4706 3.933332 GGTCTACAAGATAACACCACTGC 59.067 47.826 0.00 0.00 0.00 4.40
2606 4707 3.612860 GTCTACAAGATAACACCACTGCG 59.387 47.826 0.00 0.00 0.00 5.18
2607 4708 2.543777 ACAAGATAACACCACTGCGT 57.456 45.000 0.00 0.00 0.00 5.24
2608 4709 2.413837 ACAAGATAACACCACTGCGTC 58.586 47.619 0.00 0.00 0.00 5.19
2609 4710 1.732259 CAAGATAACACCACTGCGTCC 59.268 52.381 0.00 0.00 0.00 4.79
2610 4711 1.267121 AGATAACACCACTGCGTCCT 58.733 50.000 0.00 0.00 0.00 3.85
2611 4712 1.623811 AGATAACACCACTGCGTCCTT 59.376 47.619 0.00 0.00 0.00 3.36
2612 4713 1.732259 GATAACACCACTGCGTCCTTG 59.268 52.381 0.00 0.00 0.00 3.61
2613 4714 0.882927 TAACACCACTGCGTCCTTGC 60.883 55.000 0.00 0.00 0.00 4.01
2614 4715 3.357079 CACCACTGCGTCCTTGCC 61.357 66.667 0.00 0.00 0.00 4.52
2615 4716 3.872603 ACCACTGCGTCCTTGCCA 61.873 61.111 0.00 0.00 0.00 4.92
2616 4717 2.594303 CCACTGCGTCCTTGCCAA 60.594 61.111 0.00 0.00 0.00 4.52
2617 4718 2.192861 CCACTGCGTCCTTGCCAAA 61.193 57.895 0.00 0.00 0.00 3.28
2618 4719 1.526575 CCACTGCGTCCTTGCCAAAT 61.527 55.000 0.00 0.00 0.00 2.32
2619 4720 0.314935 CACTGCGTCCTTGCCAAATT 59.685 50.000 0.00 0.00 0.00 1.82
2620 4721 0.314935 ACTGCGTCCTTGCCAAATTG 59.685 50.000 0.00 0.00 0.00 2.32
2621 4722 1.006337 TGCGTCCTTGCCAAATTGC 60.006 52.632 0.00 0.00 0.00 3.56
2622 4723 1.006337 GCGTCCTTGCCAAATTGCA 60.006 52.632 0.00 0.00 40.07 4.08
2623 4724 1.284297 GCGTCCTTGCCAAATTGCAC 61.284 55.000 0.00 0.00 41.88 4.57
2624 4725 1.003262 CGTCCTTGCCAAATTGCACG 61.003 55.000 0.00 0.00 41.88 5.34
2625 4726 0.031994 GTCCTTGCCAAATTGCACGT 59.968 50.000 0.00 0.00 41.88 4.49
2626 4727 1.268352 GTCCTTGCCAAATTGCACGTA 59.732 47.619 0.00 0.00 41.88 3.57
2627 4728 1.268352 TCCTTGCCAAATTGCACGTAC 59.732 47.619 0.00 0.00 41.88 3.67
2628 4729 1.326576 CTTGCCAAATTGCACGTACG 58.673 50.000 15.01 15.01 41.88 3.67
2629 4730 0.039978 TTGCCAAATTGCACGTACGG 60.040 50.000 21.06 9.73 41.88 4.02
2630 4731 0.885150 TGCCAAATTGCACGTACGGA 60.885 50.000 21.06 2.73 36.04 4.69
2631 4732 0.238817 GCCAAATTGCACGTACGGAA 59.761 50.000 21.06 9.54 0.00 4.30
2632 4733 1.335142 GCCAAATTGCACGTACGGAAA 60.335 47.619 21.06 9.79 0.00 3.13
2633 4734 2.312348 CCAAATTGCACGTACGGAAAC 58.688 47.619 21.06 6.19 0.00 2.78
2634 4735 2.312348 CAAATTGCACGTACGGAAACC 58.688 47.619 21.06 3.25 0.00 3.27
2635 4736 1.595466 AATTGCACGTACGGAAACCA 58.405 45.000 21.06 5.90 0.00 3.67
2636 4737 1.595466 ATTGCACGTACGGAAACCAA 58.405 45.000 21.06 14.07 0.00 3.67
2637 4738 1.376543 TTGCACGTACGGAAACCAAA 58.623 45.000 21.06 1.21 0.00 3.28
2638 4739 1.595466 TGCACGTACGGAAACCAAAT 58.405 45.000 21.06 0.00 0.00 2.32
2639 4740 1.264557 TGCACGTACGGAAACCAAATG 59.735 47.619 21.06 6.29 0.00 2.32
2640 4741 1.264826 GCACGTACGGAAACCAAATGT 59.735 47.619 21.06 0.00 0.00 2.71
2641 4742 2.479656 GCACGTACGGAAACCAAATGTA 59.520 45.455 21.06 0.00 0.00 2.29
2642 4743 3.125658 GCACGTACGGAAACCAAATGTAT 59.874 43.478 21.06 0.00 0.00 2.29
2643 4744 4.725737 GCACGTACGGAAACCAAATGTATC 60.726 45.833 21.06 0.00 0.00 2.24
2644 4745 4.628333 CACGTACGGAAACCAAATGTATCT 59.372 41.667 21.06 0.00 0.00 1.98
2645 4746 4.866486 ACGTACGGAAACCAAATGTATCTC 59.134 41.667 21.06 0.00 0.00 2.75
2646 4747 4.269363 CGTACGGAAACCAAATGTATCTCC 59.731 45.833 7.57 0.00 0.00 3.71
2647 4748 4.295141 ACGGAAACCAAATGTATCTCCA 57.705 40.909 0.00 0.00 0.00 3.86
2648 4749 4.658063 ACGGAAACCAAATGTATCTCCAA 58.342 39.130 0.00 0.00 0.00 3.53
2649 4750 4.700213 ACGGAAACCAAATGTATCTCCAAG 59.300 41.667 0.00 0.00 0.00 3.61
2650 4751 4.438744 CGGAAACCAAATGTATCTCCAAGC 60.439 45.833 0.00 0.00 0.00 4.01
2651 4752 4.462483 GGAAACCAAATGTATCTCCAAGCA 59.538 41.667 0.00 0.00 0.00 3.91
2652 4753 5.047377 GGAAACCAAATGTATCTCCAAGCAA 60.047 40.000 0.00 0.00 0.00 3.91
2653 4754 5.649782 AACCAAATGTATCTCCAAGCAAG 57.350 39.130 0.00 0.00 0.00 4.01
2654 4755 4.666512 ACCAAATGTATCTCCAAGCAAGT 58.333 39.130 0.00 0.00 0.00 3.16
2655 4756 5.815581 ACCAAATGTATCTCCAAGCAAGTA 58.184 37.500 0.00 0.00 0.00 2.24
2656 4757 6.245408 ACCAAATGTATCTCCAAGCAAGTAA 58.755 36.000 0.00 0.00 0.00 2.24
2657 4758 6.891908 ACCAAATGTATCTCCAAGCAAGTAAT 59.108 34.615 0.00 0.00 0.00 1.89
2658 4759 7.148018 ACCAAATGTATCTCCAAGCAAGTAATG 60.148 37.037 0.00 0.00 0.00 1.90
2659 4760 7.148018 CCAAATGTATCTCCAAGCAAGTAATGT 60.148 37.037 0.00 0.00 0.00 2.71
2660 4761 6.932356 ATGTATCTCCAAGCAAGTAATGTG 57.068 37.500 0.00 0.00 0.00 3.21
2661 4762 5.804639 TGTATCTCCAAGCAAGTAATGTGT 58.195 37.500 0.00 0.00 0.00 3.72
2662 4763 6.941857 TGTATCTCCAAGCAAGTAATGTGTA 58.058 36.000 0.00 0.00 0.00 2.90
2663 4764 7.564793 TGTATCTCCAAGCAAGTAATGTGTAT 58.435 34.615 0.00 0.00 0.00 2.29
2664 4765 6.932356 ATCTCCAAGCAAGTAATGTGTATG 57.068 37.500 0.00 0.00 0.00 2.39
2665 4766 6.048732 TCTCCAAGCAAGTAATGTGTATGA 57.951 37.500 0.00 0.00 0.00 2.15
2666 4767 6.108687 TCTCCAAGCAAGTAATGTGTATGAG 58.891 40.000 0.00 0.00 0.00 2.90
2667 4768 6.048732 TCCAAGCAAGTAATGTGTATGAGA 57.951 37.500 0.00 0.00 0.00 3.27
2668 4769 5.874810 TCCAAGCAAGTAATGTGTATGAGAC 59.125 40.000 0.00 0.00 0.00 3.36
2669 4770 5.877012 CCAAGCAAGTAATGTGTATGAGACT 59.123 40.000 0.00 0.00 0.00 3.24
2670 4771 6.183360 CCAAGCAAGTAATGTGTATGAGACTG 60.183 42.308 0.00 0.00 0.00 3.51
2671 4772 6.042638 AGCAAGTAATGTGTATGAGACTGT 57.957 37.500 0.00 0.00 0.00 3.55
2672 4773 7.170393 AGCAAGTAATGTGTATGAGACTGTA 57.830 36.000 0.00 0.00 0.00 2.74
2673 4774 7.786030 AGCAAGTAATGTGTATGAGACTGTAT 58.214 34.615 0.00 0.00 0.00 2.29
2674 4775 8.260818 AGCAAGTAATGTGTATGAGACTGTATT 58.739 33.333 0.00 0.00 0.00 1.89
2675 4776 8.883731 GCAAGTAATGTGTATGAGACTGTATTT 58.116 33.333 0.00 0.00 0.00 1.40
2678 4779 9.302345 AGTAATGTGTATGAGACTGTATTTTCG 57.698 33.333 0.00 0.00 0.00 3.46
2679 4780 9.297586 GTAATGTGTATGAGACTGTATTTTCGA 57.702 33.333 0.00 0.00 0.00 3.71
2680 4781 7.993821 ATGTGTATGAGACTGTATTTTCGAG 57.006 36.000 0.00 0.00 0.00 4.04
2681 4782 7.153217 TGTGTATGAGACTGTATTTTCGAGA 57.847 36.000 0.00 0.00 0.00 4.04
2682 4783 7.251281 TGTGTATGAGACTGTATTTTCGAGAG 58.749 38.462 0.00 0.00 0.00 3.20
2683 4784 7.120726 TGTGTATGAGACTGTATTTTCGAGAGA 59.879 37.037 0.00 0.00 39.20 3.10
2707 4808 5.751243 AAAAGTAATGTATGCGACCCATC 57.249 39.130 0.00 0.00 35.34 3.51
2719 4820 1.009829 GACCCATCGAGATGTTGTGC 58.990 55.000 11.59 1.56 37.11 4.57
2720 4821 0.615331 ACCCATCGAGATGTTGTGCT 59.385 50.000 11.59 0.00 37.11 4.40
2721 4822 1.003580 ACCCATCGAGATGTTGTGCTT 59.996 47.619 11.59 0.00 37.11 3.91
2722 4823 1.667724 CCCATCGAGATGTTGTGCTTC 59.332 52.381 11.59 0.00 37.11 3.86
2723 4824 2.625737 CCATCGAGATGTTGTGCTTCT 58.374 47.619 11.59 0.00 37.11 2.85
2724 4825 2.350804 CCATCGAGATGTTGTGCTTCTG 59.649 50.000 11.59 0.00 37.11 3.02
2725 4826 2.820059 TCGAGATGTTGTGCTTCTGT 57.180 45.000 0.00 0.00 32.52 3.41
2726 4827 3.111853 TCGAGATGTTGTGCTTCTGTT 57.888 42.857 0.00 0.00 32.52 3.16
2727 4828 3.059884 TCGAGATGTTGTGCTTCTGTTC 58.940 45.455 0.00 0.00 32.52 3.18
2728 4829 3.062763 CGAGATGTTGTGCTTCTGTTCT 58.937 45.455 0.00 0.00 32.52 3.01
2729 4830 4.022329 TCGAGATGTTGTGCTTCTGTTCTA 60.022 41.667 0.00 0.00 32.52 2.10
2730 4831 4.090642 CGAGATGTTGTGCTTCTGTTCTAC 59.909 45.833 0.00 0.00 32.52 2.59
2731 4832 5.220710 AGATGTTGTGCTTCTGTTCTACT 57.779 39.130 0.00 0.00 31.35 2.57
2732 4833 5.233988 AGATGTTGTGCTTCTGTTCTACTC 58.766 41.667 0.00 0.00 31.35 2.59
2733 4834 3.728845 TGTTGTGCTTCTGTTCTACTCC 58.271 45.455 0.00 0.00 0.00 3.85
2734 4835 3.388024 TGTTGTGCTTCTGTTCTACTCCT 59.612 43.478 0.00 0.00 0.00 3.69
2735 4836 3.944055 TGTGCTTCTGTTCTACTCCTC 57.056 47.619 0.00 0.00 0.00 3.71
2736 4837 2.563179 TGTGCTTCTGTTCTACTCCTCC 59.437 50.000 0.00 0.00 0.00 4.30
2737 4838 1.819288 TGCTTCTGTTCTACTCCTCCG 59.181 52.381 0.00 0.00 0.00 4.63
2738 4839 1.470112 GCTTCTGTTCTACTCCTCCGC 60.470 57.143 0.00 0.00 0.00 5.54
2739 4840 1.819288 CTTCTGTTCTACTCCTCCGCA 59.181 52.381 0.00 0.00 0.00 5.69
2740 4841 1.919240 TCTGTTCTACTCCTCCGCAA 58.081 50.000 0.00 0.00 0.00 4.85
2741 4842 1.819288 TCTGTTCTACTCCTCCGCAAG 59.181 52.381 0.00 0.00 0.00 4.01
2742 4843 1.546476 CTGTTCTACTCCTCCGCAAGT 59.454 52.381 0.00 0.00 0.00 3.16
2743 4844 1.968493 TGTTCTACTCCTCCGCAAGTT 59.032 47.619 0.00 0.00 0.00 2.66
2744 4845 2.029290 TGTTCTACTCCTCCGCAAGTTC 60.029 50.000 0.00 0.00 0.00 3.01
2745 4846 1.183549 TCTACTCCTCCGCAAGTTCC 58.816 55.000 0.00 0.00 0.00 3.62
2746 4847 0.175989 CTACTCCTCCGCAAGTTCCC 59.824 60.000 0.00 0.00 0.00 3.97
2747 4848 1.601419 TACTCCTCCGCAAGTTCCCG 61.601 60.000 0.00 0.00 0.00 5.14
2748 4849 2.602267 TCCTCCGCAAGTTCCCGA 60.602 61.111 0.00 0.00 0.00 5.14
2749 4850 2.434359 CCTCCGCAAGTTCCCGAC 60.434 66.667 0.00 0.00 0.00 4.79
2750 4851 2.809601 CTCCGCAAGTTCCCGACG 60.810 66.667 0.00 0.00 0.00 5.12
2751 4852 4.367023 TCCGCAAGTTCCCGACGG 62.367 66.667 6.99 6.99 45.15 4.79
2767 4868 3.767806 GGGAGTCGAACCCCGGTC 61.768 72.222 15.61 0.00 41.38 4.79
2768 4869 2.679287 GGAGTCGAACCCCGGTCT 60.679 66.667 0.00 0.00 39.14 3.85
2769 4870 2.572284 GAGTCGAACCCCGGTCTG 59.428 66.667 0.00 0.00 39.14 3.51
2770 4871 3.644399 GAGTCGAACCCCGGTCTGC 62.644 68.421 0.00 0.00 39.14 4.26
2771 4872 3.998672 GTCGAACCCCGGTCTGCA 61.999 66.667 0.00 0.00 39.14 4.41
2772 4873 3.235481 TCGAACCCCGGTCTGCAA 61.235 61.111 0.00 0.00 39.14 4.08
2773 4874 2.742372 CGAACCCCGGTCTGCAAG 60.742 66.667 0.00 0.00 33.91 4.01
2774 4875 2.747686 GAACCCCGGTCTGCAAGA 59.252 61.111 0.00 0.00 43.69 3.02
2801 4902 2.031012 TGCGTCCTTGCCACTGAG 59.969 61.111 0.00 0.00 0.00 3.35
2821 4922 2.510382 AGCTACAGCCTAGTCCTCACTA 59.490 50.000 0.00 0.00 43.38 2.74
2823 4924 2.146920 ACAGCCTAGTCCTCACTACC 57.853 55.000 0.00 0.00 33.62 3.18
2825 4926 2.043252 ACAGCCTAGTCCTCACTACCTT 59.957 50.000 0.00 0.00 33.62 3.50
2826 4927 2.691011 CAGCCTAGTCCTCACTACCTTC 59.309 54.545 0.00 0.00 33.62 3.46
2827 4928 2.312140 AGCCTAGTCCTCACTACCTTCA 59.688 50.000 0.00 0.00 33.62 3.02
2876 4978 3.655276 TGTCACCGAGGAAGTTTCTAC 57.345 47.619 0.00 0.00 0.00 2.59
2886 4988 6.016610 CCGAGGAAGTTTCTACCAAAATTTGA 60.017 38.462 7.37 0.00 0.00 2.69
2900 5002 8.080363 ACCAAAATTTGAAAACTAACTGGGTA 57.920 30.769 7.37 0.00 0.00 3.69
2909 5011 8.897872 TGAAAACTAACTGGGTAACTTTAGAG 57.102 34.615 0.00 0.00 31.75 2.43
2924 5026 5.958955 ACTTTAGAGCATTGCTGATTTTCC 58.041 37.500 17.51 0.00 39.88 3.13
2930 5032 4.755411 AGCATTGCTGATTTTCCAGATTG 58.245 39.130 11.09 0.00 37.57 2.67
2934 5036 6.018994 GCATTGCTGATTTTCCAGATTGAATC 60.019 38.462 0.16 0.00 36.29 2.52
2972 5074 0.181114 AGTTGACTGGTGAGCTTGCA 59.819 50.000 0.00 0.00 0.00 4.08
2973 5075 1.202855 AGTTGACTGGTGAGCTTGCAT 60.203 47.619 0.00 0.00 0.00 3.96
2974 5076 1.610522 GTTGACTGGTGAGCTTGCATT 59.389 47.619 0.00 0.00 0.00 3.56
2994 5096 2.927553 ATCGTGTACCCTCGTGTTAC 57.072 50.000 0.00 0.00 0.00 2.50
3021 5123 6.533185 CAGACAACAATTGTTTGTCAAAACC 58.467 36.000 32.04 18.50 45.30 3.27
3031 5133 6.532365 TGTTTGTCAAAACCAAAACTGAAC 57.468 33.333 0.00 0.00 44.29 3.18
3033 5135 3.839293 TGTCAAAACCAAAACTGAACCG 58.161 40.909 0.00 0.00 0.00 4.44
3078 5181 1.203994 AGTTAGATTAGGCGTGTGCGT 59.796 47.619 0.00 0.00 44.10 5.24
3081 5184 3.420222 GATTAGGCGTGTGCGTGCG 62.420 63.158 0.00 0.00 44.10 5.34
3082 5185 4.953868 TTAGGCGTGTGCGTGCGT 62.954 61.111 0.00 0.00 44.10 5.24
3087 5190 4.217111 CGTGTGCGTGCGTGTGTT 62.217 61.111 0.00 0.00 0.00 3.32
3088 5191 2.647481 GTGTGCGTGCGTGTGTTG 60.647 61.111 0.00 0.00 0.00 3.33
3089 5192 3.121676 TGTGCGTGCGTGTGTTGT 61.122 55.556 0.00 0.00 0.00 3.32
3090 5193 2.099446 GTGCGTGCGTGTGTTGTT 59.901 55.556 0.00 0.00 0.00 2.83
3105 5208 4.218635 TGTGTTGTTGTGTGTTGTAATGGT 59.781 37.500 0.00 0.00 0.00 3.55
3122 5225 9.826574 TTGTAATGGTGTACTATGAAATACTCC 57.173 33.333 0.00 0.00 36.11 3.85
3130 5233 4.805744 ACTATGAAATACTCCCTCCGTCT 58.194 43.478 0.00 0.00 0.00 4.18
3132 5235 3.095912 TGAAATACTCCCTCCGTCTCA 57.904 47.619 0.00 0.00 0.00 3.27
3148 5251 5.694910 TCCGTCTCAAAATAAGTGTCTCAAC 59.305 40.000 0.00 0.00 0.00 3.18
3153 5256 9.052759 GTCTCAAAATAAGTGTCTCAACCTTAA 57.947 33.333 0.00 0.00 0.00 1.85
3222 5325 6.464530 AGTAAAAGATTACTCAAAGGGGGT 57.535 37.500 0.00 0.00 46.97 4.95
3223 5326 6.860034 AGTAAAAGATTACTCAAAGGGGGTT 58.140 36.000 0.00 0.00 46.97 4.11
3224 5327 7.302948 AGTAAAAGATTACTCAAAGGGGGTTT 58.697 34.615 0.00 0.00 46.97 3.27
3225 5328 7.787904 AGTAAAAGATTACTCAAAGGGGGTTTT 59.212 33.333 0.00 0.00 46.97 2.43
3238 5341 6.428083 AAGGGGGTTTTACACTTATTTTGG 57.572 37.500 0.00 0.00 0.00 3.28
3298 5401 0.034477 AACTTATGGGGGCAAGTCGG 60.034 55.000 0.00 0.00 33.92 4.79
3336 5439 1.003839 GGTGACCCACAATCGAGCA 60.004 57.895 0.00 0.00 35.86 4.26
3339 5442 2.047274 ACCCACAATCGAGCACGG 60.047 61.111 3.11 0.00 40.21 4.94
3393 5496 0.879765 CCTCAGGCACTTCTTTGCTG 59.120 55.000 0.00 0.00 42.56 4.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 6.830873 AGATAAAATTCAAGTGAAGCAGCT 57.169 33.333 0.00 0.00 37.48 4.24
37 38 7.086376 TCAAGATAAAATTCAAGTGAAGCAGC 58.914 34.615 0.00 0.00 37.48 5.25
39 40 9.467258 CTTTCAAGATAAAATTCAAGTGAAGCA 57.533 29.630 0.00 0.00 37.48 3.91
179 1878 2.436173 TGTATGTCATATGTTGGCGGGA 59.564 45.455 1.90 0.00 30.28 5.14
180 1879 2.548057 GTGTATGTCATATGTTGGCGGG 59.452 50.000 1.90 0.00 30.28 6.13
182 1881 5.388371 CGTATGTGTATGTCATATGTTGGCG 60.388 44.000 1.90 0.00 33.00 5.69
208 1907 3.574396 CGGGATCTCAAGACTATGGCTTA 59.426 47.826 0.00 0.00 0.00 3.09
227 1926 3.877508 GACTAAATGGGTCAAGATTCGGG 59.122 47.826 0.00 0.00 34.23 5.14
228 1927 4.770795 AGACTAAATGGGTCAAGATTCGG 58.229 43.478 0.00 0.00 36.29 4.30
229 1928 5.419542 TGAGACTAAATGGGTCAAGATTCG 58.580 41.667 0.00 0.00 36.29 3.34
241 1940 7.269937 CGATCAAAGCAAAGTTGAGACTAAATG 59.730 37.037 0.00 0.00 38.34 2.32
278 1977 1.308998 GTAATCATGGCGGGAGGTTG 58.691 55.000 0.00 0.00 0.00 3.77
363 2062 8.862325 TTCCAGATTACTGTACAATTCAATGT 57.138 30.769 0.00 0.00 42.05 2.71
404 2103 4.927049 AGCTGGAAGGAGATCATGAAAAA 58.073 39.130 0.00 0.00 0.00 1.94
409 2108 3.842007 AGAAGCTGGAAGGAGATCATG 57.158 47.619 0.00 0.00 0.00 3.07
485 2382 0.596577 CGAGGTGAGAAAGGTGACGA 59.403 55.000 0.00 0.00 0.00 4.20
596 2496 2.084546 CTTTCGATTTCCCCTGTGGTC 58.915 52.381 0.00 0.00 34.77 4.02
884 2795 1.646189 TTGTTCAAAAGTTTGGCGGC 58.354 45.000 0.00 0.00 38.66 6.53
885 2796 2.350192 GGTTTGTTCAAAAGTTTGGCGG 59.650 45.455 4.04 0.00 38.66 6.13
886 2797 2.350192 GGGTTTGTTCAAAAGTTTGGCG 59.650 45.455 4.04 0.00 38.66 5.69
887 2798 3.339141 TGGGTTTGTTCAAAAGTTTGGC 58.661 40.909 4.04 0.00 38.66 4.52
888 2799 4.201901 GCATGGGTTTGTTCAAAAGTTTGG 60.202 41.667 4.04 0.00 38.66 3.28
892 2803 2.482839 CCGCATGGGTTTGTTCAAAAGT 60.483 45.455 9.14 0.00 0.00 2.66
914 2826 2.000447 ACGCCGAGTTTTATTCTGCTC 59.000 47.619 0.00 0.00 0.00 4.26
1050 2975 0.813210 CTGAATGCGAGGAAGGAGGC 60.813 60.000 0.00 0.00 0.00 4.70
1079 3004 3.440127 AGTCAAAGGAGGAGGAGAGAAG 58.560 50.000 0.00 0.00 0.00 2.85
1383 3312 0.601311 AAACACCGTCAGCTCAGCTC 60.601 55.000 0.00 0.00 36.40 4.09
1384 3313 0.601311 GAAACACCGTCAGCTCAGCT 60.601 55.000 0.00 0.00 40.77 4.24
1385 3314 0.601311 AGAAACACCGTCAGCTCAGC 60.601 55.000 0.00 0.00 0.00 4.26
1386 3315 1.795286 GAAGAAACACCGTCAGCTCAG 59.205 52.381 0.00 0.00 0.00 3.35
1403 3332 1.401931 CCTGCAAACAATCCAGCGAAG 60.402 52.381 0.00 0.00 0.00 3.79
1406 3335 0.169672 CTCCTGCAAACAATCCAGCG 59.830 55.000 0.00 0.00 0.00 5.18
1671 3600 1.230650 TCCTCCTCCTCCTCCTCCA 60.231 63.158 0.00 0.00 0.00 3.86
1689 3618 1.632409 TCTGAAATGCTGCTTCCTCCT 59.368 47.619 0.00 0.00 0.00 3.69
1704 3633 4.021104 CAGATGTTGGTGAGGTAGTCTGAA 60.021 45.833 0.00 0.00 35.13 3.02
1787 3716 1.448893 TAAACAGATGGTCGGCGGC 60.449 57.895 7.21 4.32 0.00 6.53
1788 3717 1.087771 GGTAAACAGATGGTCGGCGG 61.088 60.000 7.21 0.00 0.00 6.13
1801 3730 1.516161 GTGGACAGAACCGGGTAAAC 58.484 55.000 6.32 0.00 0.00 2.01
1902 3832 2.893398 GAAGAGGTCGGCGTCCAT 59.107 61.111 24.24 10.24 0.00 3.41
2295 4263 1.003008 GCGCTACTAGAGTTCGGTACC 60.003 57.143 0.16 0.16 0.00 3.34
2317 4285 6.171921 ACAGCGTACTCTACTATACCATAGG 58.828 44.000 0.00 0.00 0.00 2.57
2372 4340 9.687210 ATTCGTTCGCTACTTATTTATGATACA 57.313 29.630 0.00 0.00 0.00 2.29
2536 4520 1.819288 CGGAGGAGTAGAACAGAAGCA 59.181 52.381 0.00 0.00 0.00 3.91
2553 4537 2.267642 CCATCGGGAACTTGCGGA 59.732 61.111 0.00 0.00 35.59 5.54
2563 4547 2.499685 GGTTCGACTCCCATCGGG 59.500 66.667 0.00 0.00 46.11 5.14
2564 4548 2.499685 GGGTTCGACTCCCATCGG 59.500 66.667 17.12 0.00 44.05 4.18
2565 4549 2.499685 GGGGTTCGACTCCCATCG 59.500 66.667 21.69 0.00 46.26 3.84
2583 4684 3.933332 GCAGTGGTGTTATCTTGTAGACC 59.067 47.826 0.00 0.00 0.00 3.85
2602 4703 1.010419 GCAATTTGGCAAGGACGCAG 61.010 55.000 0.00 0.00 0.00 5.18
2603 4704 1.006337 GCAATTTGGCAAGGACGCA 60.006 52.632 0.00 0.00 0.00 5.24
2604 4705 1.006337 TGCAATTTGGCAAGGACGC 60.006 52.632 0.00 3.14 41.65 5.19
2605 4706 1.003262 CGTGCAATTTGGCAAGGACG 61.003 55.000 15.22 15.22 46.93 4.79
2606 4707 0.031994 ACGTGCAATTTGGCAAGGAC 59.968 50.000 0.00 0.00 46.93 3.85
2607 4708 1.268352 GTACGTGCAATTTGGCAAGGA 59.732 47.619 0.00 0.00 46.93 3.36
2608 4709 1.696988 GTACGTGCAATTTGGCAAGG 58.303 50.000 0.00 0.00 46.93 3.61
2609 4710 1.326576 CGTACGTGCAATTTGGCAAG 58.673 50.000 7.22 2.83 46.93 4.01
2610 4711 0.039978 CCGTACGTGCAATTTGGCAA 60.040 50.000 15.21 0.00 46.93 4.52
2611 4712 0.885150 TCCGTACGTGCAATTTGGCA 60.885 50.000 15.21 0.00 42.53 4.92
2612 4713 0.238817 TTCCGTACGTGCAATTTGGC 59.761 50.000 15.21 0.00 0.00 4.52
2613 4714 2.312348 GTTTCCGTACGTGCAATTTGG 58.688 47.619 15.21 0.00 0.00 3.28
2614 4715 2.287069 TGGTTTCCGTACGTGCAATTTG 60.287 45.455 15.21 0.00 0.00 2.32
2615 4716 1.948145 TGGTTTCCGTACGTGCAATTT 59.052 42.857 15.21 0.00 0.00 1.82
2616 4717 1.595466 TGGTTTCCGTACGTGCAATT 58.405 45.000 15.21 0.00 0.00 2.32
2617 4718 1.595466 TTGGTTTCCGTACGTGCAAT 58.405 45.000 15.21 0.00 0.00 3.56
2618 4719 1.376543 TTTGGTTTCCGTACGTGCAA 58.623 45.000 15.21 0.85 0.00 4.08
2619 4720 1.264557 CATTTGGTTTCCGTACGTGCA 59.735 47.619 15.21 0.00 0.00 4.57
2620 4721 1.264826 ACATTTGGTTTCCGTACGTGC 59.735 47.619 15.21 0.00 0.00 5.34
2621 4722 4.628333 AGATACATTTGGTTTCCGTACGTG 59.372 41.667 15.21 5.96 0.00 4.49
2622 4723 4.824289 AGATACATTTGGTTTCCGTACGT 58.176 39.130 15.21 0.00 0.00 3.57
2623 4724 4.269363 GGAGATACATTTGGTTTCCGTACG 59.731 45.833 8.69 8.69 0.00 3.67
2624 4725 5.180271 TGGAGATACATTTGGTTTCCGTAC 58.820 41.667 0.00 0.00 0.00 3.67
2625 4726 5.423704 TGGAGATACATTTGGTTTCCGTA 57.576 39.130 0.00 0.00 0.00 4.02
2626 4727 4.295141 TGGAGATACATTTGGTTTCCGT 57.705 40.909 0.00 0.00 0.00 4.69
2627 4728 4.438744 GCTTGGAGATACATTTGGTTTCCG 60.439 45.833 0.00 0.00 0.00 4.30
2628 4729 4.462483 TGCTTGGAGATACATTTGGTTTCC 59.538 41.667 0.00 0.00 0.00 3.13
2629 4730 5.643379 TGCTTGGAGATACATTTGGTTTC 57.357 39.130 0.00 0.00 0.00 2.78
2630 4731 5.539955 ACTTGCTTGGAGATACATTTGGTTT 59.460 36.000 0.00 0.00 0.00 3.27
2631 4732 5.079643 ACTTGCTTGGAGATACATTTGGTT 58.920 37.500 0.00 0.00 0.00 3.67
2632 4733 4.666512 ACTTGCTTGGAGATACATTTGGT 58.333 39.130 0.00 0.00 0.00 3.67
2633 4734 6.757897 TTACTTGCTTGGAGATACATTTGG 57.242 37.500 0.00 0.00 0.00 3.28
2634 4735 7.699391 CACATTACTTGCTTGGAGATACATTTG 59.301 37.037 0.00 0.00 0.00 2.32
2635 4736 7.394359 ACACATTACTTGCTTGGAGATACATTT 59.606 33.333 0.00 0.00 0.00 2.32
2636 4737 6.886459 ACACATTACTTGCTTGGAGATACATT 59.114 34.615 0.00 0.00 0.00 2.71
2637 4738 6.418101 ACACATTACTTGCTTGGAGATACAT 58.582 36.000 0.00 0.00 0.00 2.29
2638 4739 5.804639 ACACATTACTTGCTTGGAGATACA 58.195 37.500 0.00 0.00 0.00 2.29
2639 4740 7.710907 TCATACACATTACTTGCTTGGAGATAC 59.289 37.037 0.00 0.00 0.00 2.24
2640 4741 7.791029 TCATACACATTACTTGCTTGGAGATA 58.209 34.615 0.00 0.00 0.00 1.98
2641 4742 6.653020 TCATACACATTACTTGCTTGGAGAT 58.347 36.000 0.00 0.00 0.00 2.75
2642 4743 6.048732 TCATACACATTACTTGCTTGGAGA 57.951 37.500 0.00 0.00 0.00 3.71
2643 4744 6.036517 GTCTCATACACATTACTTGCTTGGAG 59.963 42.308 0.00 0.00 0.00 3.86
2644 4745 5.874810 GTCTCATACACATTACTTGCTTGGA 59.125 40.000 0.00 0.00 0.00 3.53
2645 4746 5.877012 AGTCTCATACACATTACTTGCTTGG 59.123 40.000 0.00 0.00 0.00 3.61
2646 4747 6.369890 ACAGTCTCATACACATTACTTGCTTG 59.630 38.462 0.00 0.00 0.00 4.01
2647 4748 6.467677 ACAGTCTCATACACATTACTTGCTT 58.532 36.000 0.00 0.00 0.00 3.91
2648 4749 6.042638 ACAGTCTCATACACATTACTTGCT 57.957 37.500 0.00 0.00 0.00 3.91
2649 4750 8.425577 AATACAGTCTCATACACATTACTTGC 57.574 34.615 0.00 0.00 0.00 4.01
2652 4753 9.302345 CGAAAATACAGTCTCATACACATTACT 57.698 33.333 0.00 0.00 0.00 2.24
2653 4754 9.297586 TCGAAAATACAGTCTCATACACATTAC 57.702 33.333 0.00 0.00 0.00 1.89
2654 4755 9.516314 CTCGAAAATACAGTCTCATACACATTA 57.484 33.333 0.00 0.00 0.00 1.90
2655 4756 8.251026 TCTCGAAAATACAGTCTCATACACATT 58.749 33.333 0.00 0.00 0.00 2.71
2656 4757 7.772166 TCTCGAAAATACAGTCTCATACACAT 58.228 34.615 0.00 0.00 0.00 3.21
2657 4758 7.120726 TCTCTCGAAAATACAGTCTCATACACA 59.879 37.037 0.00 0.00 0.00 3.72
2658 4759 7.473366 TCTCTCGAAAATACAGTCTCATACAC 58.527 38.462 0.00 0.00 0.00 2.90
2659 4760 7.625828 TCTCTCGAAAATACAGTCTCATACA 57.374 36.000 0.00 0.00 0.00 2.29
2660 4761 8.912787 TTTCTCTCGAAAATACAGTCTCATAC 57.087 34.615 0.00 0.00 36.26 2.39
2661 4762 9.923143 TTTTTCTCTCGAAAATACAGTCTCATA 57.077 29.630 1.61 0.00 45.60 2.15
2662 4763 8.833231 TTTTTCTCTCGAAAATACAGTCTCAT 57.167 30.769 1.61 0.00 45.60 2.90
2684 4785 5.220777 CGATGGGTCGCATACATTACTTTTT 60.221 40.000 1.78 0.00 41.49 1.94
2685 4786 4.272504 CGATGGGTCGCATACATTACTTTT 59.727 41.667 1.78 0.00 41.49 2.27
2686 4787 3.807622 CGATGGGTCGCATACATTACTTT 59.192 43.478 1.78 0.00 41.49 2.66
2687 4788 3.390135 CGATGGGTCGCATACATTACTT 58.610 45.455 1.78 0.00 41.49 2.24
2688 4789 3.026630 CGATGGGTCGCATACATTACT 57.973 47.619 1.78 0.00 41.49 2.24
2700 4801 1.009829 GCACAACATCTCGATGGGTC 58.990 55.000 11.25 1.71 42.91 4.46
2701 4802 0.615331 AGCACAACATCTCGATGGGT 59.385 50.000 11.25 6.32 42.91 4.51
2702 4803 1.667724 GAAGCACAACATCTCGATGGG 59.332 52.381 11.25 5.76 42.91 4.00
2703 4804 2.350804 CAGAAGCACAACATCTCGATGG 59.649 50.000 11.25 0.00 42.91 3.51
2704 4805 2.998670 ACAGAAGCACAACATCTCGATG 59.001 45.455 5.40 5.40 44.15 3.84
2705 4806 3.325293 ACAGAAGCACAACATCTCGAT 57.675 42.857 0.00 0.00 0.00 3.59
2706 4807 2.820059 ACAGAAGCACAACATCTCGA 57.180 45.000 0.00 0.00 0.00 4.04
2707 4808 3.062763 AGAACAGAAGCACAACATCTCG 58.937 45.455 0.00 0.00 0.00 4.04
2708 4809 5.233988 AGTAGAACAGAAGCACAACATCTC 58.766 41.667 0.00 0.00 0.00 2.75
2709 4810 5.220710 AGTAGAACAGAAGCACAACATCT 57.779 39.130 0.00 0.00 0.00 2.90
2710 4811 4.390297 GGAGTAGAACAGAAGCACAACATC 59.610 45.833 0.00 0.00 0.00 3.06
2711 4812 4.040952 AGGAGTAGAACAGAAGCACAACAT 59.959 41.667 0.00 0.00 0.00 2.71
2712 4813 3.388024 AGGAGTAGAACAGAAGCACAACA 59.612 43.478 0.00 0.00 0.00 3.33
2713 4814 3.991121 GAGGAGTAGAACAGAAGCACAAC 59.009 47.826 0.00 0.00 0.00 3.32
2714 4815 3.006967 GGAGGAGTAGAACAGAAGCACAA 59.993 47.826 0.00 0.00 0.00 3.33
2715 4816 2.563179 GGAGGAGTAGAACAGAAGCACA 59.437 50.000 0.00 0.00 0.00 4.57
2716 4817 2.416162 CGGAGGAGTAGAACAGAAGCAC 60.416 54.545 0.00 0.00 0.00 4.40
2717 4818 1.819288 CGGAGGAGTAGAACAGAAGCA 59.181 52.381 0.00 0.00 0.00 3.91
2718 4819 1.470112 GCGGAGGAGTAGAACAGAAGC 60.470 57.143 0.00 0.00 0.00 3.86
2719 4820 1.819288 TGCGGAGGAGTAGAACAGAAG 59.181 52.381 0.00 0.00 0.00 2.85
2720 4821 1.919240 TGCGGAGGAGTAGAACAGAA 58.081 50.000 0.00 0.00 0.00 3.02
2721 4822 1.819288 CTTGCGGAGGAGTAGAACAGA 59.181 52.381 0.00 0.00 0.00 3.41
2722 4823 1.546476 ACTTGCGGAGGAGTAGAACAG 59.454 52.381 0.00 0.00 0.00 3.16
2723 4824 1.629043 ACTTGCGGAGGAGTAGAACA 58.371 50.000 0.00 0.00 0.00 3.18
2724 4825 2.608268 GAACTTGCGGAGGAGTAGAAC 58.392 52.381 0.00 0.00 0.00 3.01
2725 4826 1.549170 GGAACTTGCGGAGGAGTAGAA 59.451 52.381 0.00 0.00 0.00 2.10
2726 4827 1.183549 GGAACTTGCGGAGGAGTAGA 58.816 55.000 0.00 0.00 0.00 2.59
2727 4828 0.175989 GGGAACTTGCGGAGGAGTAG 59.824 60.000 0.00 0.00 0.00 2.57
2728 4829 1.601419 CGGGAACTTGCGGAGGAGTA 61.601 60.000 0.00 0.00 0.00 2.59
2729 4830 2.943978 CGGGAACTTGCGGAGGAGT 61.944 63.158 0.00 0.00 0.00 3.85
2730 4831 2.125512 CGGGAACTTGCGGAGGAG 60.126 66.667 0.00 0.00 0.00 3.69
2731 4832 2.602267 TCGGGAACTTGCGGAGGA 60.602 61.111 0.00 0.00 0.00 3.71
2732 4833 2.434359 GTCGGGAACTTGCGGAGG 60.434 66.667 0.00 0.00 0.00 4.30
2733 4834 2.809601 CGTCGGGAACTTGCGGAG 60.810 66.667 0.00 0.00 0.00 4.63
2734 4835 4.367023 CCGTCGGGAACTTGCGGA 62.367 66.667 2.34 0.00 44.57 5.54
2750 4851 3.767806 GACCGGGGTTCGACTCCC 61.768 72.222 6.32 14.53 34.38 4.30
2751 4852 2.679287 AGACCGGGGTTCGACTCC 60.679 66.667 6.32 0.00 42.43 3.85
2752 4853 2.572284 CAGACCGGGGTTCGACTC 59.428 66.667 6.32 0.00 42.43 3.36
2753 4854 3.692406 GCAGACCGGGGTTCGACT 61.692 66.667 6.32 0.00 42.43 4.18
2754 4855 3.524648 TTGCAGACCGGGGTTCGAC 62.525 63.158 6.32 0.00 42.43 4.20
2755 4856 3.234630 CTTGCAGACCGGGGTTCGA 62.235 63.158 6.32 0.00 42.43 3.71
2756 4857 2.521958 ATCTTGCAGACCGGGGTTCG 62.522 60.000 6.32 0.00 38.88 3.95
2757 4858 0.539986 TATCTTGCAGACCGGGGTTC 59.460 55.000 6.32 0.00 0.00 3.62
2758 4859 0.988832 TTATCTTGCAGACCGGGGTT 59.011 50.000 6.32 0.00 0.00 4.11
2759 4860 0.252197 GTTATCTTGCAGACCGGGGT 59.748 55.000 6.32 0.00 0.00 4.95
2760 4861 0.251916 TGTTATCTTGCAGACCGGGG 59.748 55.000 6.32 0.00 0.00 5.73
2761 4862 1.369625 GTGTTATCTTGCAGACCGGG 58.630 55.000 6.32 0.00 0.00 5.73
2762 4863 1.338674 TGGTGTTATCTTGCAGACCGG 60.339 52.381 0.00 0.00 0.00 5.28
2763 4864 1.732259 GTGGTGTTATCTTGCAGACCG 59.268 52.381 0.00 0.00 0.00 4.79
2764 4865 2.744202 CAGTGGTGTTATCTTGCAGACC 59.256 50.000 0.00 0.00 0.00 3.85
2765 4866 2.160417 GCAGTGGTGTTATCTTGCAGAC 59.840 50.000 0.00 0.00 0.00 3.51
2766 4867 2.426522 GCAGTGGTGTTATCTTGCAGA 58.573 47.619 0.00 0.00 0.00 4.26
2767 4868 1.129251 CGCAGTGGTGTTATCTTGCAG 59.871 52.381 0.00 0.00 0.00 4.41
2768 4869 1.155889 CGCAGTGGTGTTATCTTGCA 58.844 50.000 0.00 0.00 0.00 4.08
2769 4870 1.156736 ACGCAGTGGTGTTATCTTGC 58.843 50.000 0.00 0.00 42.51 4.01
2801 4902 1.770294 AGTGAGGACTAGGCTGTAGC 58.230 55.000 0.00 0.00 41.14 3.58
2807 4908 2.736347 TGAAGGTAGTGAGGACTAGGC 58.264 52.381 0.00 0.00 35.24 3.93
2809 4910 7.648039 AAGTTATGAAGGTAGTGAGGACTAG 57.352 40.000 0.00 0.00 35.24 2.57
2810 4911 8.964772 GTTAAGTTATGAAGGTAGTGAGGACTA 58.035 37.037 0.00 0.00 33.21 2.59
2855 4957 3.243975 GGTAGAAACTTCCTCGGTGACAA 60.244 47.826 0.00 0.00 0.00 3.18
2857 4959 2.298163 TGGTAGAAACTTCCTCGGTGAC 59.702 50.000 0.00 0.00 0.00 3.67
2876 4978 8.822855 GTTACCCAGTTAGTTTTCAAATTTTGG 58.177 33.333 9.18 0.00 0.00 3.28
2886 4988 7.284820 TGCTCTAAAGTTACCCAGTTAGTTTT 58.715 34.615 0.00 0.00 0.00 2.43
2900 5002 6.015180 TGGAAAATCAGCAATGCTCTAAAGTT 60.015 34.615 4.03 0.00 36.40 2.66
2909 5011 4.751060 TCAATCTGGAAAATCAGCAATGC 58.249 39.130 0.00 0.00 34.91 3.56
2934 5036 9.761504 AGTCAACTATTCTATCAGATTGATGTG 57.238 33.333 1.94 0.00 37.70 3.21
2943 5045 5.982516 GCTCACCAGTCAACTATTCTATCAG 59.017 44.000 0.00 0.00 0.00 2.90
2953 5055 0.181114 TGCAAGCTCACCAGTCAACT 59.819 50.000 0.00 0.00 0.00 3.16
2972 5074 4.398988 TGTAACACGAGGGTACACGATAAT 59.601 41.667 11.91 0.00 34.36 1.28
2973 5075 3.755905 TGTAACACGAGGGTACACGATAA 59.244 43.478 11.91 0.00 34.36 1.75
2974 5076 3.342719 TGTAACACGAGGGTACACGATA 58.657 45.455 11.91 2.19 34.36 2.92
3021 5123 7.198306 ACTAATAACCTTCGGTTCAGTTTTG 57.802 36.000 0.85 0.00 43.05 2.44
3064 5167 3.487202 CGCACGCACACGCCTAAT 61.487 61.111 0.00 0.00 45.53 1.73
3078 5181 0.593618 AACACACAACAACACACGCA 59.406 45.000 0.00 0.00 0.00 5.24
3081 5184 4.560819 CCATTACAACACACAACAACACAC 59.439 41.667 0.00 0.00 0.00 3.82
3082 5185 4.218635 ACCATTACAACACACAACAACACA 59.781 37.500 0.00 0.00 0.00 3.72
3083 5186 4.560819 CACCATTACAACACACAACAACAC 59.439 41.667 0.00 0.00 0.00 3.32
3084 5187 4.218635 ACACCATTACAACACACAACAACA 59.781 37.500 0.00 0.00 0.00 3.33
3085 5188 4.739195 ACACCATTACAACACACAACAAC 58.261 39.130 0.00 0.00 0.00 3.32
3086 5189 5.648526 AGTACACCATTACAACACACAACAA 59.351 36.000 0.00 0.00 0.00 2.83
3087 5190 5.186942 AGTACACCATTACAACACACAACA 58.813 37.500 0.00 0.00 0.00 3.33
3088 5191 5.744666 AGTACACCATTACAACACACAAC 57.255 39.130 0.00 0.00 0.00 3.32
3089 5192 7.217906 TCATAGTACACCATTACAACACACAA 58.782 34.615 0.00 0.00 0.00 3.33
3090 5193 6.760291 TCATAGTACACCATTACAACACACA 58.240 36.000 0.00 0.00 0.00 3.72
3105 5208 5.452255 ACGGAGGGAGTATTTCATAGTACA 58.548 41.667 0.00 0.00 0.00 2.90
3122 5225 4.822026 AGACACTTATTTTGAGACGGAGG 58.178 43.478 0.00 0.00 0.00 4.30
3200 5303 7.534723 AAACCCCCTTTGAGTAATCTTTTAC 57.465 36.000 0.00 0.00 38.39 2.01
3201 5304 9.081204 GTAAAACCCCCTTTGAGTAATCTTTTA 57.919 33.333 0.00 0.00 0.00 1.52
3202 5305 7.565768 TGTAAAACCCCCTTTGAGTAATCTTTT 59.434 33.333 0.00 0.00 0.00 2.27
3203 5306 7.014905 GTGTAAAACCCCCTTTGAGTAATCTTT 59.985 37.037 0.00 0.00 0.00 2.52
3204 5307 6.492429 GTGTAAAACCCCCTTTGAGTAATCTT 59.508 38.462 0.00 0.00 0.00 2.40
3205 5308 6.008331 GTGTAAAACCCCCTTTGAGTAATCT 58.992 40.000 0.00 0.00 0.00 2.40
3206 5309 6.008331 AGTGTAAAACCCCCTTTGAGTAATC 58.992 40.000 0.00 0.00 0.00 1.75
3207 5310 5.960704 AGTGTAAAACCCCCTTTGAGTAAT 58.039 37.500 0.00 0.00 0.00 1.89
3208 5311 5.391577 AGTGTAAAACCCCCTTTGAGTAA 57.608 39.130 0.00 0.00 0.00 2.24
3209 5312 5.391577 AAGTGTAAAACCCCCTTTGAGTA 57.608 39.130 0.00 0.00 0.00 2.59
3210 5313 3.965470 AGTGTAAAACCCCCTTTGAGT 57.035 42.857 0.00 0.00 0.00 3.41
3211 5314 6.911250 AATAAGTGTAAAACCCCCTTTGAG 57.089 37.500 0.00 0.00 0.00 3.02
3212 5315 7.419172 CCAAAATAAGTGTAAAACCCCCTTTGA 60.419 37.037 0.00 0.00 0.00 2.69
3213 5316 6.708502 CCAAAATAAGTGTAAAACCCCCTTTG 59.291 38.462 0.00 0.00 0.00 2.77
3214 5317 6.183361 CCCAAAATAAGTGTAAAACCCCCTTT 60.183 38.462 0.00 0.00 0.00 3.11
3215 5318 5.308497 CCCAAAATAAGTGTAAAACCCCCTT 59.692 40.000 0.00 0.00 0.00 3.95
3216 5319 4.841813 CCCAAAATAAGTGTAAAACCCCCT 59.158 41.667 0.00 0.00 0.00 4.79
3217 5320 4.839550 TCCCAAAATAAGTGTAAAACCCCC 59.160 41.667 0.00 0.00 0.00 5.40
3218 5321 5.565242 CGTCCCAAAATAAGTGTAAAACCCC 60.565 44.000 0.00 0.00 0.00 4.95
3219 5322 5.463286 CGTCCCAAAATAAGTGTAAAACCC 58.537 41.667 0.00 0.00 0.00 4.11
3220 5323 5.241285 TCCGTCCCAAAATAAGTGTAAAACC 59.759 40.000 0.00 0.00 0.00 3.27
3221 5324 6.316440 TCCGTCCCAAAATAAGTGTAAAAC 57.684 37.500 0.00 0.00 0.00 2.43
3222 5325 5.474189 CCTCCGTCCCAAAATAAGTGTAAAA 59.526 40.000 0.00 0.00 0.00 1.52
3223 5326 5.005094 CCTCCGTCCCAAAATAAGTGTAAA 58.995 41.667 0.00 0.00 0.00 2.01
3224 5327 4.566070 CCCTCCGTCCCAAAATAAGTGTAA 60.566 45.833 0.00 0.00 0.00 2.41
3225 5328 3.054948 CCCTCCGTCCCAAAATAAGTGTA 60.055 47.826 0.00 0.00 0.00 2.90
3238 5341 1.777941 ATCAACTACTCCCTCCGTCC 58.222 55.000 0.00 0.00 0.00 4.79
3320 5423 1.374125 CGTGCTCGATTGTGGGTCA 60.374 57.895 1.00 0.00 39.71 4.02


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

AutoCloner maintained by Alex Coulton.