Multiple sequence alignment - TraesCS4B01G320400

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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 TraesCS4B01G320400 chr4B 100.000 4132 0 0 1 4132 611851824 611855955 0.000000e+00 7631.0
1 TraesCS4B01G320400 chr4B 95.205 146 6 1 2652 2796 292187283 292187428 3.210000e-56 230.0
2 TraesCS4B01G320400 chr4D 93.770 2183 68 24 503 2653 482157440 482159586 0.000000e+00 3216.0
3 TraesCS4B01G320400 chr4D 91.506 624 18 20 2805 3420 482159696 482160292 0.000000e+00 826.0
4 TraesCS4B01G320400 chr4D 88.889 288 14 6 3862 4132 482161249 482161535 5.120000e-89 339.0
5 TraesCS4B01G320400 chr4D 87.960 299 13 8 3425 3720 482160609 482160887 8.560000e-87 331.0
6 TraesCS4B01G320400 chr4D 80.851 329 29 10 2 324 482156710 482157010 1.160000e-55 228.0
7 TraesCS4B01G320400 chr4D 94.545 110 6 0 3710 3819 482161037 482161146 1.980000e-38 171.0
8 TraesCS4B01G320400 chr4D 90.411 73 3 3 2776 2847 482159584 482159653 4.400000e-15 93.5
9 TraesCS4B01G320400 chr5A 88.612 2248 98 55 424 2619 660444075 660441934 0.000000e+00 2588.0
10 TraesCS4B01G320400 chr5A 91.966 697 40 12 2805 3499 660441795 660441113 0.000000e+00 963.0
11 TraesCS4B01G320400 chr5A 90.184 163 12 3 3970 4132 660440996 660440838 4.190000e-50 209.0
12 TraesCS4B01G320400 chr5A 90.789 76 6 1 4057 4132 59027920 59027846 2.630000e-17 100.0
13 TraesCS4B01G320400 chr5A 89.041 73 4 2 3485 3556 474816623 474816554 2.050000e-13 87.9
14 TraesCS4B01G320400 chr2A 100.000 127 0 0 2652 2778 738175101 738174975 6.910000e-58 235.0
15 TraesCS4B01G320400 chr2A 96.269 134 5 0 2645 2778 194169668 194169801 1.930000e-53 220.0
16 TraesCS4B01G320400 chr2A 94.030 67 4 0 4059 4125 585818883 585818949 7.310000e-18 102.0
17 TraesCS4B01G320400 chr6B 99.225 129 1 0 2651 2779 191198134 191198006 2.480000e-57 233.0
18 TraesCS4B01G320400 chr6B 89.286 84 6 1 3485 3568 278674619 278674699 7.310000e-18 102.0
19 TraesCS4B01G320400 chr1A 97.778 135 3 0 2649 2783 24469139 24469005 2.480000e-57 233.0
20 TraesCS4B01G320400 chr1A 83.058 242 26 8 1511 1749 337150716 337150945 5.410000e-49 206.0
21 TraesCS4B01G320400 chr1A 87.671 146 17 1 1901 2046 337151038 337151182 7.100000e-38 169.0
22 TraesCS4B01G320400 chr1A 90.110 91 9 0 2124 2214 337151304 337151394 7.260000e-23 119.0
23 TraesCS4B01G320400 chr1B 97.761 134 3 0 2651 2784 102627854 102627721 8.930000e-57 231.0
24 TraesCS4B01G320400 chr1B 83.058 242 26 9 1511 1749 348862312 348862541 5.410000e-49 206.0
25 TraesCS4B01G320400 chr1B 89.431 123 13 0 1901 2023 348862632 348862754 5.530000e-34 156.0
26 TraesCS4B01G320400 chr1B 89.011 91 10 0 2124 2214 348862893 348862983 3.380000e-21 113.0
27 TraesCS4B01G320400 chr2B 97.744 133 3 0 2646 2778 517437015 517436883 3.210000e-56 230.0
28 TraesCS4B01G320400 chr7B 95.683 139 6 0 2652 2790 254383049 254382911 1.490000e-54 224.0
29 TraesCS4B01G320400 chr6A 94.483 145 7 1 2640 2784 147336893 147336750 5.380000e-54 222.0
30 TraesCS4B01G320400 chr6A 89.286 84 6 1 3485 3568 209391347 209391427 7.310000e-18 102.0
31 TraesCS4B01G320400 chr6A 91.549 71 6 0 4062 4132 603028701 603028771 9.450000e-17 99.0
32 TraesCS4B01G320400 chr1D 86.986 146 18 1 1901 2046 263072786 263072930 3.310000e-36 163.0
33 TraesCS4B01G320400 chr1D 89.011 91 10 0 2124 2214 263073046 263073136 3.380000e-21 113.0
34 TraesCS4B01G320400 chr1D 93.056 72 5 0 4061 4132 338915896 338915967 5.650000e-19 106.0
35 TraesCS4B01G320400 chr7A 92.958 71 2 1 3487 3557 205123830 205123897 2.630000e-17 100.0
36 TraesCS4B01G320400 chr6D 90.667 75 7 0 4058 4132 368113859 368113933 2.630000e-17 100.0
37 TraesCS4B01G320400 chr6D 88.095 84 7 1 3485 3568 155601967 155602047 3.400000e-16 97.1
38 TraesCS4B01G320400 chr3A 89.873 79 5 1 3485 3563 8632809 8632884 9.450000e-17 99.0
39 TraesCS4B01G320400 chr3A 93.846 65 4 0 4061 4125 17853068 17853132 9.450000e-17 99.0
40 TraesCS4B01G320400 chr3A 90.541 74 7 0 4059 4132 399898439 399898366 9.450000e-17 99.0
41 TraesCS4B01G320400 chr3A 85.882 85 9 1 3484 3568 482404475 482404556 2.050000e-13 87.9
42 TraesCS4B01G320400 chr3D 87.059 85 8 1 3484 3568 362199631 362199712 4.400000e-15 93.5


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 TraesCS4B01G320400 chr4B 611851824 611855955 4131 False 7631.000000 7631 100.000000 1 4132 1 chr4B.!!$F2 4131
1 TraesCS4B01G320400 chr4D 482156710 482161535 4825 False 743.500000 3216 89.704571 2 4132 7 chr4D.!!$F1 4130
2 TraesCS4B01G320400 chr5A 660440838 660444075 3237 True 1253.333333 2588 90.254000 424 4132 3 chr5A.!!$R3 3708

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
419 505 0.034059 CCGCTTGCATCCCTAGTAGG 59.966 60.000 9.48 9.48 34.30 3.18 F
1101 1409 1.007271 CGTGGTCGAGCACTCTGTT 60.007 57.895 36.35 0.00 39.71 3.16 F
1876 2197 0.107066 TGCGCTGTGGATCATGGAAT 60.107 50.000 9.73 0.00 0.00 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1845 2166 1.068333 CACAGCGCATTTTAGGCAAGT 60.068 47.619 11.47 0.0 0.00 3.16 R
2651 3028 0.032813 ATTTCCGGACGGAGGGAGTA 60.033 55.000 13.64 0.0 46.06 2.59 R
3778 4737 0.107508 CTGATTCACGCATCCACCCT 60.108 55.000 0.00 0.0 0.00 4.34 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
50 51 5.174037 TCCCATCGTTTATCTTTTCCACT 57.826 39.130 0.00 0.00 0.00 4.00
51 52 6.302535 TCCCATCGTTTATCTTTTCCACTA 57.697 37.500 0.00 0.00 0.00 2.74
64 65 7.244886 TCTTTTCCACTAGTCATTGATGAGA 57.755 36.000 0.00 0.00 37.51 3.27
76 77 1.210538 TGATGAGATTCCAGCTGGCT 58.789 50.000 28.91 19.34 34.44 4.75
78 79 2.773661 TGATGAGATTCCAGCTGGCTTA 59.226 45.455 28.91 16.18 34.44 3.09
247 248 7.843490 TCATGGGCTAGCGTATTAAAATATC 57.157 36.000 9.00 0.00 0.00 1.63
302 383 9.478019 CTTTTTCTAAGATGCACGTAAAGTATG 57.522 33.333 0.00 0.00 0.00 2.39
349 435 2.612672 GTGCTTCCTACCGCTTATTTCC 59.387 50.000 0.00 0.00 0.00 3.13
353 439 2.754465 TCCTACCGCTTATTTCCTCCA 58.246 47.619 0.00 0.00 0.00 3.86
355 441 2.434702 CCTACCGCTTATTTCCTCCACT 59.565 50.000 0.00 0.00 0.00 4.00
358 444 1.065418 CCGCTTATTTCCTCCACTGGT 60.065 52.381 0.00 0.00 0.00 4.00
416 502 2.911143 CCCGCTTGCATCCCTAGT 59.089 61.111 0.00 0.00 0.00 2.57
419 505 0.034059 CCGCTTGCATCCCTAGTAGG 59.966 60.000 9.48 9.48 34.30 3.18
434 520 1.152504 TAGGGGTGACACGTGGACA 60.153 57.895 21.57 16.35 40.46 4.02
454 540 2.592861 GCCCGCTTGCATCCCTAG 60.593 66.667 0.00 0.00 0.00 3.02
456 542 2.190313 CCGCTTGCATCCCTAGCA 59.810 61.111 8.00 0.00 41.54 3.49
468 554 1.153745 CCTAGCAGAGGTGACACGC 60.154 63.158 0.00 0.00 40.98 5.34
470 556 3.626680 TAGCAGAGGTGACACGCGC 62.627 63.158 5.73 0.00 0.00 6.86
495 581 1.635817 GCTCCATAAGGTGAGCCCCA 61.636 60.000 0.08 0.00 34.86 4.96
512 809 1.651987 CCACAGGTAACATAGGTGCG 58.348 55.000 0.00 0.00 41.41 5.34
518 815 1.604693 GGTAACATAGGTGCGGGATCG 60.605 57.143 0.00 0.00 39.81 3.69
618 915 2.707849 CGTACTAGCCACGGCCAGT 61.708 63.158 13.68 13.68 44.54 4.00
873 1170 3.371063 GTCGTCTCCCACCGCTCA 61.371 66.667 0.00 0.00 0.00 4.26
916 1213 2.697761 ATCACCACCGTCTCGACCG 61.698 63.158 0.00 0.00 0.00 4.79
933 1230 2.359478 GGCACGACCCATTTCCGT 60.359 61.111 0.00 0.00 36.95 4.69
960 1262 3.606065 CTGCTCGCTTTGCACTGCC 62.606 63.158 0.00 0.00 36.37 4.85
1098 1406 4.057428 GGCGTGGTCGAGCACTCT 62.057 66.667 36.35 0.00 39.71 3.24
1101 1409 1.007271 CGTGGTCGAGCACTCTGTT 60.007 57.895 36.35 0.00 39.71 3.16
1599 1913 2.665603 GGGAGGCTCAACTTCGCT 59.334 61.111 17.69 0.00 0.00 4.93
1708 2025 2.351244 ATGGCCGACGAGAAGCTGA 61.351 57.895 0.00 0.00 0.00 4.26
1749 2066 1.352156 CCAAGCGCGTCAAGAGGTAC 61.352 60.000 8.43 0.00 0.00 3.34
1751 2068 1.135489 CAAGCGCGTCAAGAGGTACTA 60.135 52.381 8.43 0.00 41.55 1.82
1777 2098 1.813513 AATCCATTCGATCATCGCCC 58.186 50.000 0.80 0.00 40.21 6.13
1799 2120 5.278169 CCCCAATCAATCAATCGATCAAGAC 60.278 44.000 0.00 0.00 0.00 3.01
1845 2166 2.524569 TTGATGATCGGCGATTGCTA 57.475 45.000 24.81 11.26 42.25 3.49
1859 2180 4.037690 CGATTGCTACTTGCCTAAAATGC 58.962 43.478 0.00 0.00 42.00 3.56
1869 2190 1.268743 GCCTAAAATGCGCTGTGGATC 60.269 52.381 9.73 0.00 0.00 3.36
1876 2197 0.107066 TGCGCTGTGGATCATGGAAT 60.107 50.000 9.73 0.00 0.00 3.01
1897 2218 5.808042 ATTGAGATCGAGTTTGGATTGTG 57.192 39.130 0.00 0.00 0.00 3.33
1898 2219 3.002791 TGAGATCGAGTTTGGATTGTGC 58.997 45.455 0.00 0.00 0.00 4.57
2049 2372 1.833630 CTCCTGCAGGTACCATCTTCA 59.166 52.381 31.58 7.96 36.34 3.02
2053 2380 1.138859 TGCAGGTACCATCTTCATCCG 59.861 52.381 15.94 0.00 0.00 4.18
2058 2385 1.048601 TACCATCTTCATCCGCCTCC 58.951 55.000 0.00 0.00 0.00 4.30
2059 2386 0.692419 ACCATCTTCATCCGCCTCCT 60.692 55.000 0.00 0.00 0.00 3.69
2061 2388 0.883814 CATCTTCATCCGCCTCCTGC 60.884 60.000 0.00 0.00 0.00 4.85
2086 2429 9.760077 GCTCCATTTTTAATCTCATTGATTGAT 57.240 29.630 0.00 0.00 44.40 2.57
2295 2669 0.107456 ATCCATCCACCGATGTGCTC 59.893 55.000 0.00 0.00 43.87 4.26
2446 2820 2.190756 GGTACGCAGGTAGCTGAGT 58.809 57.895 29.56 29.56 42.46 3.41
2485 2859 1.324435 CGTTGGCATGTACTCGATGTG 59.676 52.381 0.00 0.00 0.00 3.21
2489 2866 1.290203 GCATGTACTCGATGTGGGTG 58.710 55.000 0.00 0.00 0.00 4.61
2511 2888 0.394216 AATCCATTACGCCAGCAGCA 60.394 50.000 0.00 0.00 44.04 4.41
2513 2890 2.406401 CATTACGCCAGCAGCAGC 59.594 61.111 0.00 0.00 44.04 5.25
2594 2971 6.183359 GCTCATGTTTTTAAATTGACTCTGCG 60.183 38.462 0.00 0.00 0.00 5.18
2595 2972 5.629020 TCATGTTTTTAAATTGACTCTGCGC 59.371 36.000 0.00 0.00 0.00 6.09
2619 2996 7.538575 GCATAAAATAGGTTGCTTTCTCTCAA 58.461 34.615 0.00 0.00 32.41 3.02
2626 3003 4.019860 AGGTTGCTTTCTCTCAAGATGCTA 60.020 41.667 0.00 0.00 34.44 3.49
2637 3014 1.600957 CAAGATGCTATGGAGTTGCCG 59.399 52.381 0.00 0.00 40.66 5.69
2652 3029 2.811747 CCGGCATGAACGCACGTA 60.812 61.111 0.00 0.00 0.00 3.57
2653 3030 2.394136 CGGCATGAACGCACGTAC 59.606 61.111 0.00 0.00 0.00 3.67
2654 3031 2.092291 CGGCATGAACGCACGTACT 61.092 57.895 0.00 0.00 0.00 2.73
2655 3032 1.708027 GGCATGAACGCACGTACTC 59.292 57.895 0.00 0.00 0.00 2.59
2656 3033 1.693083 GGCATGAACGCACGTACTCC 61.693 60.000 0.00 0.00 0.00 3.85
2657 3034 1.693083 GCATGAACGCACGTACTCCC 61.693 60.000 0.00 0.00 0.00 4.30
2658 3035 0.108804 CATGAACGCACGTACTCCCT 60.109 55.000 0.00 0.00 0.00 4.20
2659 3036 0.172803 ATGAACGCACGTACTCCCTC 59.827 55.000 0.00 0.00 0.00 4.30
2660 3037 1.153881 GAACGCACGTACTCCCTCC 60.154 63.158 0.00 0.00 0.00 4.30
2661 3038 2.862347 GAACGCACGTACTCCCTCCG 62.862 65.000 0.00 0.00 0.00 4.63
2662 3039 3.437795 CGCACGTACTCCCTCCGT 61.438 66.667 0.00 0.00 34.71 4.69
2663 3040 2.488820 GCACGTACTCCCTCCGTC 59.511 66.667 0.00 0.00 31.46 4.79
2664 3041 3.061260 GCACGTACTCCCTCCGTCC 62.061 68.421 0.00 0.00 31.46 4.79
2665 3042 2.437359 ACGTACTCCCTCCGTCCG 60.437 66.667 0.00 0.00 0.00 4.79
2666 3043 3.207669 CGTACTCCCTCCGTCCGG 61.208 72.222 0.00 0.00 0.00 5.14
2667 3044 2.273449 GTACTCCCTCCGTCCGGA 59.727 66.667 0.00 0.00 42.90 5.14
2668 3045 1.379044 GTACTCCCTCCGTCCGGAA 60.379 63.158 5.23 0.00 44.66 4.30
2669 3046 0.967380 GTACTCCCTCCGTCCGGAAA 60.967 60.000 5.23 0.00 44.66 3.13
2670 3047 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
2671 3048 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
2672 3049 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
2673 3050 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
2674 3051 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
2675 3052 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
2676 3053 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
2677 3054 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
2678 3055 1.894466 TCCGTCCGGAAATACTTGTCA 59.106 47.619 5.23 0.00 42.05 3.58
2679 3056 2.498481 TCCGTCCGGAAATACTTGTCAT 59.502 45.455 5.23 0.00 42.05 3.06
2680 3057 2.864343 CCGTCCGGAAATACTTGTCATC 59.136 50.000 5.23 0.00 37.50 2.92
2681 3058 3.517602 CGTCCGGAAATACTTGTCATCA 58.482 45.455 5.23 0.00 0.00 3.07
2682 3059 3.930229 CGTCCGGAAATACTTGTCATCAA 59.070 43.478 5.23 0.00 0.00 2.57
2683 3060 4.390603 CGTCCGGAAATACTTGTCATCAAA 59.609 41.667 5.23 0.00 32.87 2.69
2684 3061 5.106869 CGTCCGGAAATACTTGTCATCAAAA 60.107 40.000 5.23 0.00 32.87 2.44
2685 3062 6.403200 CGTCCGGAAATACTTGTCATCAAAAT 60.403 38.462 5.23 0.00 32.87 1.82
2686 3063 6.747280 GTCCGGAAATACTTGTCATCAAAATG 59.253 38.462 5.23 0.00 32.87 2.32
2687 3064 6.657117 TCCGGAAATACTTGTCATCAAAATGA 59.343 34.615 0.00 0.00 39.63 2.57
2688 3065 7.175816 TCCGGAAATACTTGTCATCAAAATGAA 59.824 33.333 0.00 0.00 43.42 2.57
2689 3066 7.975616 CCGGAAATACTTGTCATCAAAATGAAT 59.024 33.333 0.00 0.00 43.42 2.57
2697 3074 9.439500 ACTTGTCATCAAAATGAATAAAATGGG 57.561 29.630 0.00 0.00 43.42 4.00
2698 3075 9.656040 CTTGTCATCAAAATGAATAAAATGGGA 57.344 29.630 0.00 0.00 43.42 4.37
2700 3077 9.602568 TGTCATCAAAATGAATAAAATGGGATG 57.397 29.630 0.00 0.00 43.42 3.51
2701 3078 9.603921 GTCATCAAAATGAATAAAATGGGATGT 57.396 29.630 0.00 0.00 43.42 3.06
2741 3118 9.886132 TTAGTTCTAGATACATCCCTTTTTGTC 57.114 33.333 0.00 0.00 0.00 3.18
2742 3119 7.339482 AGTTCTAGATACATCCCTTTTTGTCC 58.661 38.462 0.00 0.00 0.00 4.02
2743 3120 6.884472 TCTAGATACATCCCTTTTTGTCCA 57.116 37.500 0.00 0.00 0.00 4.02
2744 3121 7.451731 TCTAGATACATCCCTTTTTGTCCAT 57.548 36.000 0.00 0.00 0.00 3.41
2745 3122 7.872138 TCTAGATACATCCCTTTTTGTCCATT 58.128 34.615 0.00 0.00 0.00 3.16
2746 3123 8.336235 TCTAGATACATCCCTTTTTGTCCATTT 58.664 33.333 0.00 0.00 0.00 2.32
2747 3124 7.797121 AGATACATCCCTTTTTGTCCATTTT 57.203 32.000 0.00 0.00 0.00 1.82
2748 3125 7.614494 AGATACATCCCTTTTTGTCCATTTTG 58.386 34.615 0.00 0.00 0.00 2.44
2749 3126 5.885449 ACATCCCTTTTTGTCCATTTTGA 57.115 34.783 0.00 0.00 0.00 2.69
2750 3127 6.438186 ACATCCCTTTTTGTCCATTTTGAT 57.562 33.333 0.00 0.00 0.00 2.57
2751 3128 6.232692 ACATCCCTTTTTGTCCATTTTGATG 58.767 36.000 0.00 0.00 33.80 3.07
2752 3129 6.043012 ACATCCCTTTTTGTCCATTTTGATGA 59.957 34.615 0.00 0.00 32.39 2.92
2753 3130 5.852827 TCCCTTTTTGTCCATTTTGATGAC 58.147 37.500 0.00 0.00 0.00 3.06
2754 3131 5.365025 TCCCTTTTTGTCCATTTTGATGACA 59.635 36.000 0.00 0.00 0.00 3.58
2755 3132 6.054295 CCCTTTTTGTCCATTTTGATGACAA 58.946 36.000 0.00 0.00 34.47 3.18
2756 3133 6.018016 CCCTTTTTGTCCATTTTGATGACAAC 60.018 38.462 3.97 0.00 35.79 3.32
2757 3134 6.762661 CCTTTTTGTCCATTTTGATGACAACT 59.237 34.615 3.97 0.00 35.79 3.16
2758 3135 7.925483 CCTTTTTGTCCATTTTGATGACAACTA 59.075 33.333 3.97 0.00 35.79 2.24
2759 3136 9.480053 CTTTTTGTCCATTTTGATGACAACTAT 57.520 29.630 3.97 0.00 35.79 2.12
2760 3137 9.829507 TTTTTGTCCATTTTGATGACAACTATT 57.170 25.926 3.97 0.00 35.79 1.73
2761 3138 9.829507 TTTTGTCCATTTTGATGACAACTATTT 57.170 25.926 3.97 0.00 35.79 1.40
2762 3139 9.829507 TTTGTCCATTTTGATGACAACTATTTT 57.170 25.926 3.97 0.00 35.79 1.82
2763 3140 9.474920 TTGTCCATTTTGATGACAACTATTTTC 57.525 29.630 0.00 0.00 35.63 2.29
2764 3141 7.807433 TGTCCATTTTGATGACAACTATTTTCG 59.193 33.333 0.00 0.00 35.63 3.46
2765 3142 7.273381 GTCCATTTTGATGACAACTATTTTCGG 59.727 37.037 0.00 0.00 35.63 4.30
2766 3143 7.175816 TCCATTTTGATGACAACTATTTTCGGA 59.824 33.333 0.00 0.00 35.63 4.55
2767 3144 7.273381 CCATTTTGATGACAACTATTTTCGGAC 59.727 37.037 0.00 0.00 35.63 4.79
2768 3145 5.524511 TTGATGACAACTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
2769 3146 3.930229 TGATGACAACTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
2770 3147 3.663995 TGACAACTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
2771 3148 3.581755 TGACAACTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
2772 3149 2.928116 GACAACTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
2773 3150 2.277084 CAACTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
2774 3151 1.856629 ACTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
2847 3311 8.911247 ACTAGTTTTGCAAGTGTTTCTTTAAG 57.089 30.769 0.00 0.00 33.63 1.85
2867 3331 5.886960 AAGCTCATGGTTCTAACATTCAC 57.113 39.130 0.00 0.00 0.00 3.18
2998 3462 3.449227 CATGGCCCAGCAGCACAG 61.449 66.667 0.00 0.00 0.00 3.66
3008 3472 0.959372 AGCAGCACAGCCTCATGTTC 60.959 55.000 0.00 0.00 34.23 3.18
3022 3486 2.595463 GTTCCAGCACCAGCAGCA 60.595 61.111 0.00 0.00 45.49 4.41
3059 3523 4.141574 GCTACACCCATACCATTCTACCAA 60.142 45.833 0.00 0.00 0.00 3.67
3080 3544 1.141449 GCAGCACCAACAACAGCAA 59.859 52.632 0.00 0.00 0.00 3.91
3085 3549 0.457035 CACCAACAACAGCAACAGCT 59.543 50.000 0.00 0.00 39.75 4.24
3125 3589 2.232941 AGCCAACAAGCATGAATCAAGG 59.767 45.455 0.00 0.00 34.23 3.61
3155 3619 2.407090 CGATGATCGCAGAGGCATTTA 58.593 47.619 0.41 0.00 43.63 1.40
3156 3620 2.998670 CGATGATCGCAGAGGCATTTAT 59.001 45.455 0.41 0.00 43.63 1.40
3172 3636 7.278875 AGGCATTTATTTGGACTAGAGAAGAG 58.721 38.462 0.00 0.00 0.00 2.85
3229 3693 6.861065 TGGTTTAGAGTTGAACTGTGAATC 57.139 37.500 0.90 2.64 0.00 2.52
3629 4425 0.320697 GTGGCTAGACAAGGTCCGTT 59.679 55.000 0.00 0.00 32.18 4.44
3645 4442 7.444629 AGGTCCGTTTTCTTTAACTAAATCC 57.555 36.000 0.00 0.00 0.00 3.01
3662 4459 0.691078 TCCAATCTCGCCTAGGCCTT 60.691 55.000 28.09 13.23 37.98 4.35
3664 4461 1.303309 CAATCTCGCCTAGGCCTTTG 58.697 55.000 28.09 20.01 37.98 2.77
3673 4470 2.753452 GCCTAGGCCTTTGGTACTTTTC 59.247 50.000 24.19 0.00 34.56 2.29
3674 4471 3.812882 GCCTAGGCCTTTGGTACTTTTCA 60.813 47.826 24.19 0.00 34.56 2.69
3711 4508 6.638096 TCCGTGCATGAATCAAAATCATAT 57.362 33.333 7.72 0.00 35.80 1.78
3712 4509 6.671190 TCCGTGCATGAATCAAAATCATATC 58.329 36.000 7.72 0.00 35.80 1.63
3717 4676 7.325338 GTGCATGAATCAAAATCATATCTTCCG 59.675 37.037 0.00 0.00 35.80 4.30
3778 4737 6.276092 TCTTTGGAAATCCCCTACTCCTTTTA 59.724 38.462 0.00 0.00 34.29 1.52
3788 4747 2.808906 ACTCCTTTTAGGGTGGATGC 57.191 50.000 0.00 0.00 35.59 3.91
3797 4756 0.107508 AGGGTGGATGCGTGAATCAG 60.108 55.000 0.00 0.00 0.00 2.90
3932 4952 6.283544 AGATCTCATGAATACAGCATCGAT 57.716 37.500 0.00 0.00 0.00 3.59
3939 4959 5.009854 TGAATACAGCATCGATTGAGACA 57.990 39.130 4.12 0.00 0.00 3.41
3940 4960 5.604565 TGAATACAGCATCGATTGAGACAT 58.395 37.500 4.12 0.00 0.00 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 9.196139 TGGAAAAGATAAACGATGGGATTTTAT 57.804 29.630 0.00 0.00 0.00 1.40
23 24 8.463607 GTGGAAAAGATAAACGATGGGATTTTA 58.536 33.333 0.00 0.00 0.00 1.52
36 37 9.958180 TCATCAATGACTAGTGGAAAAGATAAA 57.042 29.630 0.00 0.00 0.00 1.40
43 44 7.050377 GGAATCTCATCAATGACTAGTGGAAA 58.950 38.462 0.00 0.00 32.50 3.13
50 51 5.454329 CCAGCTGGAATCTCATCAATGACTA 60.454 44.000 29.88 0.00 37.39 2.59
51 52 4.452825 CAGCTGGAATCTCATCAATGACT 58.547 43.478 5.57 0.00 32.50 3.41
64 65 2.907458 AAAGGTAAGCCAGCTGGAAT 57.093 45.000 37.21 24.60 37.39 3.01
213 214 3.257393 GCTAGCCCATGATTATCTGTCG 58.743 50.000 2.29 0.00 0.00 4.35
228 229 9.473640 GGGTATAGATATTTTAATACGCTAGCC 57.526 37.037 9.66 0.00 35.82 3.93
282 363 7.757097 AAGACATACTTTACGTGCATCTTAG 57.243 36.000 0.00 0.00 34.94 2.18
283 364 8.542497 AAAAGACATACTTTACGTGCATCTTA 57.458 30.769 0.00 0.00 46.55 2.10
284 365 7.435068 AAAAGACATACTTTACGTGCATCTT 57.565 32.000 0.00 0.00 46.55 2.40
331 417 3.134081 TGGAGGAAATAAGCGGTAGGAAG 59.866 47.826 0.00 0.00 0.00 3.46
349 435 2.201436 CTCGTCGGTGACCAGTGGAG 62.201 65.000 18.40 0.00 0.00 3.86
353 439 2.203451 ACCTCGTCGGTGACCAGT 60.203 61.111 1.11 0.00 46.80 4.00
370 456 1.525077 GTGTCCGTGCCAACTGGAA 60.525 57.895 0.00 0.00 37.39 3.53
371 457 2.110213 GTGTCCGTGCCAACTGGA 59.890 61.111 0.00 0.00 37.39 3.86
376 462 4.893601 TTCGCGTGTCCGTGCCAA 62.894 61.111 5.77 0.00 44.08 4.52
416 502 1.152504 TGTCCACGTGTCACCCCTA 60.153 57.895 15.65 0.00 0.00 3.53
419 505 2.280592 GGTGTCCACGTGTCACCC 60.281 66.667 31.98 21.26 43.84 4.61
456 542 4.664677 GTGGCGCGTGTCACCTCT 62.665 66.667 22.73 0.00 45.07 3.69
468 554 0.464373 ACCTTATGGAGCATGTGGCG 60.464 55.000 0.81 0.00 41.81 5.69
470 556 2.569059 CTCACCTTATGGAGCATGTGG 58.431 52.381 0.81 0.00 37.04 4.17
495 581 0.539986 CCCGCACCTATGTTACCTGT 59.460 55.000 0.00 0.00 0.00 4.00
587 884 0.812549 TAGTACGCATCGACTGGCAA 59.187 50.000 6.40 0.00 0.00 4.52
618 915 1.159285 GCATTCAGTGTACTGCTGCA 58.841 50.000 22.89 0.88 44.44 4.41
843 1140 0.319297 AGACGACGCGCTTTTAAGGT 60.319 50.000 5.73 0.00 0.00 3.50
873 1170 4.531426 ATCGCGAGGGAGGGAGCT 62.531 66.667 16.66 0.00 36.53 4.09
916 1213 2.359478 ACGGAAATGGGTCGTGCC 60.359 61.111 0.00 0.00 35.70 5.01
947 1244 3.968568 TGCTGGCAGTGCAAAGCG 61.969 61.111 27.18 5.38 40.87 4.68
948 1245 2.355481 GTGCTGGCAGTGCAAAGC 60.355 61.111 26.73 26.73 42.41 3.51
949 1246 2.050714 CGTGCTGGCAGTGCAAAG 60.051 61.111 18.61 14.63 42.41 2.77
950 1247 3.594775 CCGTGCTGGCAGTGCAAA 61.595 61.111 18.61 3.27 42.41 3.68
989 1291 2.528743 CGCTCCATGCTTACCTGCG 61.529 63.158 0.00 0.00 40.11 5.18
1749 2066 4.779987 TGATCGAATGGATTACGACGTAG 58.220 43.478 7.89 0.00 38.79 3.51
1750 2067 4.816786 TGATCGAATGGATTACGACGTA 57.183 40.909 2.97 2.97 38.79 3.57
1751 2068 3.703286 TGATCGAATGGATTACGACGT 57.297 42.857 5.52 5.52 38.79 4.34
1777 2098 5.559608 CGGTCTTGATCGATTGATTGATTGG 60.560 44.000 0.00 0.00 34.09 3.16
1799 2120 1.137404 CTTTGGCAAGGATTCGCGG 59.863 57.895 6.13 0.00 0.00 6.46
1845 2166 1.068333 CACAGCGCATTTTAGGCAAGT 60.068 47.619 11.47 0.00 0.00 3.16
1859 2180 2.289820 CTCAATTCCATGATCCACAGCG 59.710 50.000 0.00 0.00 0.00 5.18
1869 2190 4.877823 TCCAAACTCGATCTCAATTCCATG 59.122 41.667 0.00 0.00 0.00 3.66
1876 2197 3.436704 GCACAATCCAAACTCGATCTCAA 59.563 43.478 0.00 0.00 0.00 3.02
2053 2380 3.956848 AGATTAAAAATGGAGCAGGAGGC 59.043 43.478 0.00 0.00 45.30 4.70
2058 2385 9.031360 CAATCAATGAGATTAAAAATGGAGCAG 57.969 33.333 0.00 0.00 45.06 4.24
2059 2386 8.751242 TCAATCAATGAGATTAAAAATGGAGCA 58.249 29.630 0.00 0.00 45.06 4.26
2485 2859 1.235724 GGCGTAATGGATTAGCACCC 58.764 55.000 0.00 0.00 0.00 4.61
2489 2866 1.532868 CTGCTGGCGTAATGGATTAGC 59.467 52.381 0.00 0.00 0.00 3.09
2594 2971 7.088589 TGAGAGAAAGCAACCTATTTTATGC 57.911 36.000 0.00 0.00 39.06 3.14
2595 2972 8.950210 TCTTGAGAGAAAGCAACCTATTTTATG 58.050 33.333 0.00 0.00 0.00 1.90
2619 2996 0.107456 CCGGCAACTCCATAGCATCT 59.893 55.000 0.00 0.00 34.01 2.90
2626 3003 1.001020 TTCATGCCGGCAACTCCAT 60.001 52.632 36.33 13.75 34.01 3.41
2637 3014 1.693083 GGAGTACGTGCGTTCATGCC 61.693 60.000 1.66 0.00 32.47 4.40
2650 3027 0.967380 TTTCCGGACGGAGGGAGTAC 60.967 60.000 13.64 0.00 46.06 2.73
2651 3028 0.032813 ATTTCCGGACGGAGGGAGTA 60.033 55.000 13.64 0.00 46.06 2.59
2652 3029 0.032813 TATTTCCGGACGGAGGGAGT 60.033 55.000 13.64 0.00 46.06 3.85
2653 3030 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
2654 3031 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
2655 3032 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
2656 3033 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
2657 3034 2.094390 TGACAAGTATTTCCGGACGGAG 60.094 50.000 13.64 3.15 46.06 4.63
2658 3035 1.894466 TGACAAGTATTTCCGGACGGA 59.106 47.619 1.83 9.76 43.52 4.69
2659 3036 2.373540 TGACAAGTATTTCCGGACGG 57.626 50.000 1.83 3.96 0.00 4.79
2660 3037 3.517602 TGATGACAAGTATTTCCGGACG 58.482 45.455 1.83 0.00 0.00 4.79
2661 3038 5.873179 TTTGATGACAAGTATTTCCGGAC 57.127 39.130 1.83 0.00 37.32 4.79
2662 3039 6.657117 TCATTTTGATGACAAGTATTTCCGGA 59.343 34.615 0.00 0.00 37.32 5.14
2663 3040 6.851609 TCATTTTGATGACAAGTATTTCCGG 58.148 36.000 0.00 0.00 37.32 5.14
2664 3041 8.915871 ATTCATTTTGATGACAAGTATTTCCG 57.084 30.769 0.00 0.00 37.32 4.30
2671 3048 9.439500 CCCATTTTATTCATTTTGATGACAAGT 57.561 29.630 0.00 0.00 37.32 3.16
2672 3049 9.656040 TCCCATTTTATTCATTTTGATGACAAG 57.344 29.630 0.00 0.00 37.32 3.16
2674 3051 9.602568 CATCCCATTTTATTCATTTTGATGACA 57.397 29.630 0.00 0.00 0.00 3.58
2675 3052 9.603921 ACATCCCATTTTATTCATTTTGATGAC 57.396 29.630 0.00 0.00 32.39 3.06
2715 3092 9.886132 GACAAAAAGGGATGTATCTAGAACTAA 57.114 33.333 0.00 0.00 0.00 2.24
2716 3093 8.483758 GGACAAAAAGGGATGTATCTAGAACTA 58.516 37.037 0.00 0.00 0.00 2.24
2717 3094 7.037586 TGGACAAAAAGGGATGTATCTAGAACT 60.038 37.037 0.00 0.00 0.00 3.01
2718 3095 7.110155 TGGACAAAAAGGGATGTATCTAGAAC 58.890 38.462 0.00 0.00 0.00 3.01
2719 3096 7.265599 TGGACAAAAAGGGATGTATCTAGAA 57.734 36.000 0.00 0.00 0.00 2.10
2720 3097 6.884472 TGGACAAAAAGGGATGTATCTAGA 57.116 37.500 0.00 0.00 0.00 2.43
2721 3098 8.525290 AAATGGACAAAAAGGGATGTATCTAG 57.475 34.615 0.00 0.00 0.00 2.43
2722 3099 8.748412 CAAAATGGACAAAAAGGGATGTATCTA 58.252 33.333 0.00 0.00 0.00 1.98
2723 3100 7.454380 TCAAAATGGACAAAAAGGGATGTATCT 59.546 33.333 0.00 0.00 0.00 1.98
2724 3101 7.610865 TCAAAATGGACAAAAAGGGATGTATC 58.389 34.615 0.00 0.00 0.00 2.24
2725 3102 7.552050 TCAAAATGGACAAAAAGGGATGTAT 57.448 32.000 0.00 0.00 0.00 2.29
2726 3103 6.985653 TCAAAATGGACAAAAAGGGATGTA 57.014 33.333 0.00 0.00 0.00 2.29
2727 3104 5.885449 TCAAAATGGACAAAAAGGGATGT 57.115 34.783 0.00 0.00 0.00 3.06
2728 3105 6.369615 GTCATCAAAATGGACAAAAAGGGATG 59.630 38.462 0.00 0.00 33.42 3.51
2729 3106 6.043012 TGTCATCAAAATGGACAAAAAGGGAT 59.957 34.615 0.00 0.00 33.42 3.85
2730 3107 5.365025 TGTCATCAAAATGGACAAAAAGGGA 59.635 36.000 0.00 0.00 33.42 4.20
2731 3108 5.609423 TGTCATCAAAATGGACAAAAAGGG 58.391 37.500 0.00 0.00 33.42 3.95
2732 3109 6.762661 AGTTGTCATCAAAATGGACAAAAAGG 59.237 34.615 7.89 0.00 36.05 3.11
2733 3110 7.775397 AGTTGTCATCAAAATGGACAAAAAG 57.225 32.000 7.89 0.00 36.05 2.27
2734 3111 9.829507 AATAGTTGTCATCAAAATGGACAAAAA 57.170 25.926 7.89 1.05 36.05 1.94
2735 3112 9.829507 AAATAGTTGTCATCAAAATGGACAAAA 57.170 25.926 7.89 1.36 36.05 2.44
2736 3113 9.829507 AAAATAGTTGTCATCAAAATGGACAAA 57.170 25.926 7.89 0.00 36.05 2.83
2737 3114 9.474920 GAAAATAGTTGTCATCAAAATGGACAA 57.525 29.630 0.00 0.00 35.20 3.18
2738 3115 7.807433 CGAAAATAGTTGTCATCAAAATGGACA 59.193 33.333 0.00 0.00 35.20 4.02
2739 3116 7.273381 CCGAAAATAGTTGTCATCAAAATGGAC 59.727 37.037 0.00 0.00 35.20 4.02
2740 3117 7.175816 TCCGAAAATAGTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 35.20 3.41
2741 3118 7.273381 GTCCGAAAATAGTTGTCATCAAAATGG 59.727 37.037 0.00 0.00 35.20 3.16
2742 3119 7.007367 CGTCCGAAAATAGTTGTCATCAAAATG 59.993 37.037 0.00 0.00 35.20 2.32
2743 3120 7.021196 CGTCCGAAAATAGTTGTCATCAAAAT 58.979 34.615 0.00 0.00 35.20 1.82
2744 3121 6.367421 CGTCCGAAAATAGTTGTCATCAAAA 58.633 36.000 0.00 0.00 35.20 2.44
2745 3122 5.106869 CCGTCCGAAAATAGTTGTCATCAAA 60.107 40.000 0.00 0.00 35.20 2.69
2746 3123 4.390603 CCGTCCGAAAATAGTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
2747 3124 3.930229 CCGTCCGAAAATAGTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
2748 3125 4.178540 TCCGTCCGAAAATAGTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
2749 3126 4.181578 CTCCGTCCGAAAATAGTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
2750 3127 3.581755 CTCCGTCCGAAAATAGTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
2751 3128 2.928116 CCTCCGTCCGAAAATAGTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
2752 3129 2.354403 CCCTCCGTCCGAAAATAGTTGT 60.354 50.000 0.00 0.00 0.00 3.32
2753 3130 2.093869 TCCCTCCGTCCGAAAATAGTTG 60.094 50.000 0.00 0.00 0.00 3.16
2754 3131 2.167900 CTCCCTCCGTCCGAAAATAGTT 59.832 50.000 0.00 0.00 0.00 2.24
2755 3132 1.755380 CTCCCTCCGTCCGAAAATAGT 59.245 52.381 0.00 0.00 0.00 2.12
2756 3133 1.755380 ACTCCCTCCGTCCGAAAATAG 59.245 52.381 0.00 0.00 0.00 1.73
2757 3134 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
2758 3135 1.755380 CTACTCCCTCCGTCCGAAAAT 59.245 52.381 0.00 0.00 0.00 1.82
2759 3136 1.180029 CTACTCCCTCCGTCCGAAAA 58.820 55.000 0.00 0.00 0.00 2.29
2760 3137 1.318158 GCTACTCCCTCCGTCCGAAA 61.318 60.000 0.00 0.00 0.00 3.46
2761 3138 1.751927 GCTACTCCCTCCGTCCGAA 60.752 63.158 0.00 0.00 0.00 4.30
2762 3139 2.124403 GCTACTCCCTCCGTCCGA 60.124 66.667 0.00 0.00 0.00 4.55
2763 3140 2.124236 AGCTACTCCCTCCGTCCG 60.124 66.667 0.00 0.00 0.00 4.79
2764 3141 0.468400 ATCAGCTACTCCCTCCGTCC 60.468 60.000 0.00 0.00 0.00 4.79
2765 3142 1.404843 AATCAGCTACTCCCTCCGTC 58.595 55.000 0.00 0.00 0.00 4.79
2766 3143 2.175069 TCTAATCAGCTACTCCCTCCGT 59.825 50.000 0.00 0.00 0.00 4.69
2767 3144 2.865079 TCTAATCAGCTACTCCCTCCG 58.135 52.381 0.00 0.00 0.00 4.63
2768 3145 5.816955 ATTTCTAATCAGCTACTCCCTCC 57.183 43.478 0.00 0.00 0.00 4.30
2769 3146 7.768807 TCTATTTCTAATCAGCTACTCCCTC 57.231 40.000 0.00 0.00 0.00 4.30
2770 3147 8.592809 CAATCTATTTCTAATCAGCTACTCCCT 58.407 37.037 0.00 0.00 0.00 4.20
2771 3148 8.589338 TCAATCTATTTCTAATCAGCTACTCCC 58.411 37.037 0.00 0.00 0.00 4.30
2815 3192 8.801715 AAACACTTGCAAAACTAGTATGAATG 57.198 30.769 11.66 6.79 32.22 2.67
2816 3193 8.850156 AGAAACACTTGCAAAACTAGTATGAAT 58.150 29.630 11.66 0.00 32.22 2.57
2817 3194 8.220755 AGAAACACTTGCAAAACTAGTATGAA 57.779 30.769 11.66 0.00 32.22 2.57
2819 3196 8.856490 AAAGAAACACTTGCAAAACTAGTATG 57.144 30.769 0.00 0.00 38.98 2.39
2821 3198 9.997482 CTTAAAGAAACACTTGCAAAACTAGTA 57.003 29.630 0.00 0.00 38.98 1.82
2822 3199 7.488150 GCTTAAAGAAACACTTGCAAAACTAGT 59.512 33.333 0.00 0.00 38.98 2.57
2823 3200 7.702348 AGCTTAAAGAAACACTTGCAAAACTAG 59.298 33.333 0.00 0.00 38.98 2.57
2824 3201 7.543756 AGCTTAAAGAAACACTTGCAAAACTA 58.456 30.769 0.00 0.00 38.98 2.24
2825 3202 6.398095 AGCTTAAAGAAACACTTGCAAAACT 58.602 32.000 0.00 0.00 38.98 2.66
2826 3203 6.310224 TGAGCTTAAAGAAACACTTGCAAAAC 59.690 34.615 0.00 0.00 38.98 2.43
2847 3311 5.645497 AGAAGTGAATGTTAGAACCATGAGC 59.355 40.000 0.00 0.00 0.00 4.26
2867 3331 4.213059 GCTCAAGAACACAAGGAGAAGAAG 59.787 45.833 0.00 0.00 0.00 2.85
2943 3407 4.838152 GCCGATGCCGAGCTCCAA 62.838 66.667 8.47 0.00 38.22 3.53
2998 3462 1.303561 TGGTGCTGGAACATGAGGC 60.304 57.895 0.00 0.00 38.20 4.70
3031 3495 0.341961 TGGTATGGGTGTAGCCTCCT 59.658 55.000 1.44 0.00 37.43 3.69
3032 3496 1.435256 ATGGTATGGGTGTAGCCTCC 58.565 55.000 1.44 2.89 37.43 4.30
3033 3497 2.706190 AGAATGGTATGGGTGTAGCCTC 59.294 50.000 1.44 0.00 37.43 4.70
3059 3523 2.008268 GCTGTTGTTGGTGCTGCAGT 62.008 55.000 16.64 0.00 0.00 4.40
3125 3589 2.819667 CGATCATCGCCATCACTCC 58.180 57.895 0.00 0.00 31.14 3.85
3155 3619 6.112058 GCAATGTCTCTTCTCTAGTCCAAAT 58.888 40.000 0.00 0.00 0.00 2.32
3156 3620 5.012046 TGCAATGTCTCTTCTCTAGTCCAAA 59.988 40.000 0.00 0.00 0.00 3.28
3191 3655 5.274015 TCTAAACCAAAGTTTTCCCTTGGT 58.726 37.500 0.00 0.00 43.82 3.67
3196 3660 6.459670 TCAACTCTAAACCAAAGTTTTCCC 57.540 37.500 0.00 0.00 43.82 3.97
3229 3693 9.927668 AACAAAAGAGTCAATAAAACCATATGG 57.072 29.630 20.68 20.68 42.17 2.74
3427 3898 9.120538 GCAGAAAATACCCAACAGATATAGAAA 57.879 33.333 0.00 0.00 0.00 2.52
3431 3902 6.486657 GCTGCAGAAAATACCCAACAGATATA 59.513 38.462 20.43 0.00 0.00 0.86
3432 3903 5.300286 GCTGCAGAAAATACCCAACAGATAT 59.700 40.000 20.43 0.00 0.00 1.63
3436 4217 2.821969 AGCTGCAGAAAATACCCAACAG 59.178 45.455 20.43 0.00 0.00 3.16
3545 4326 7.706281 TTTGTACGACCGTTGTTTCTAAATA 57.294 32.000 0.00 0.00 0.00 1.40
3557 4338 4.201647 CGCATTCTTATTTTGTACGACCGT 60.202 41.667 0.00 0.00 0.00 4.83
3562 4343 5.675444 GCTTACCGCATTCTTATTTTGTACG 59.325 40.000 0.00 0.00 38.92 3.67
3590 4386 5.683770 GCCACACCCTTCAAAATAAAACTGT 60.684 40.000 0.00 0.00 0.00 3.55
3593 4389 4.956085 AGCCACACCCTTCAAAATAAAAC 58.044 39.130 0.00 0.00 0.00 2.43
3629 4425 7.610305 AGGCGAGATTGGATTTAGTTAAAGAAA 59.390 33.333 0.00 0.00 0.00 2.52
3645 4442 1.303309 CAAAGGCCTAGGCGAGATTG 58.697 55.000 27.24 22.15 43.06 2.67
3662 4459 3.955551 GTCACCCCTTTGAAAAGTACCAA 59.044 43.478 2.33 0.00 34.20 3.67
3664 4461 2.551032 CGTCACCCCTTTGAAAAGTACC 59.449 50.000 2.33 0.00 34.20 3.34
3673 4470 2.398554 CGGATGCGTCACCCCTTTG 61.399 63.158 8.47 0.00 0.00 2.77
3674 4471 2.046314 CGGATGCGTCACCCCTTT 60.046 61.111 8.47 0.00 0.00 3.11
3711 4508 9.111613 TCACTTGACTAAAAATAAAACGGAAGA 57.888 29.630 0.00 0.00 0.00 2.87
3712 4509 9.893305 ATCACTTGACTAAAAATAAAACGGAAG 57.107 29.630 0.00 0.00 0.00 3.46
3778 4737 0.107508 CTGATTCACGCATCCACCCT 60.108 55.000 0.00 0.00 0.00 4.34
3784 4743 2.831333 ACCATCTCTGATTCACGCATC 58.169 47.619 0.00 0.00 0.00 3.91
3788 4747 8.706936 CATATTTAGAACCATCTCTGATTCACG 58.293 37.037 0.00 0.00 37.10 4.35
3888 4908 8.216423 AGATCTTACATTAGGATCTGTGCAAAT 58.784 33.333 6.95 0.00 46.12 2.32
3925 4945 4.147306 GTCGACTTATGTCTCAATCGATGC 59.853 45.833 8.70 0.00 40.34 3.91
3932 4952 7.962964 AAATTTCAGTCGACTTATGTCTCAA 57.037 32.000 17.26 0.00 40.86 3.02
3939 4959 9.877178 AGTCTTGATAAATTTCAGTCGACTTAT 57.123 29.630 17.26 10.14 31.36 1.73
3940 4960 9.140286 CAGTCTTGATAAATTTCAGTCGACTTA 57.860 33.333 17.26 5.05 32.25 2.24
3958 4994 6.370593 GTGCGATTTCAAAATACAGTCTTGA 58.629 36.000 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.