Multiple sequence alignment - TraesCS7B01G157900

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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 TraesCS7B01G157900 chr7B 100.000 2749 0 0 1 2749 213257780 213255032 0.000000e+00 5077
1 TraesCS7B01G157900 chr7B 100.000 484 0 0 3008 3491 213254773 213254290 0.000000e+00 894
2 TraesCS7B01G157900 chr7D 94.292 2225 84 16 515 2734 236648133 236645947 0.000000e+00 3365
3 TraesCS7B01G157900 chr7D 93.919 1332 65 10 1029 2352 429707986 429709309 0.000000e+00 1997
4 TraesCS7B01G157900 chr7D 91.188 522 38 8 1 517 236648681 236648163 0.000000e+00 702
5 TraesCS7B01G157900 chr7D 94.989 439 17 5 2256 2693 429709351 429709785 0.000000e+00 684
6 TraesCS7B01G157900 chr7D 93.540 387 22 3 515 899 37557517 37557902 1.090000e-159 573
7 TraesCS7B01G157900 chr7D 92.564 390 22 4 513 900 33243346 33242962 1.420000e-153 553
8 TraesCS7B01G157900 chr7D 93.878 98 4 2 2256 2352 429709282 429709378 2.810000e-31 147
9 TraesCS7B01G157900 chr7A 94.485 1106 48 8 1440 2538 251750104 251749005 0.000000e+00 1692
10 TraesCS7B01G157900 chr7A 93.968 431 17 6 954 1381 251750893 251750469 0.000000e+00 643
11 TraesCS7B01G157900 chr7A 93.243 148 9 1 2587 2734 251749010 251748864 2.110000e-52 217
12 TraesCS7B01G157900 chr2B 96.901 484 15 0 3008 3491 84772722 84773205 0.000000e+00 811
13 TraesCS7B01G157900 chr2B 94.643 112 5 1 3008 3119 607317689 607317579 4.630000e-39 172
14 TraesCS7B01G157900 chr3A 95.661 484 21 0 3008 3491 687597921 687598404 0.000000e+00 778
15 TraesCS7B01G157900 chr1B 95.445 483 17 2 3009 3491 559572980 559573457 0.000000e+00 765
16 TraesCS7B01G157900 chr5A 94.835 484 25 0 3008 3491 340597797 340598280 0.000000e+00 756
17 TraesCS7B01G157900 chr5A 79.718 710 95 24 1854 2537 680077388 680076702 5.280000e-128 468
18 TraesCS7B01G157900 chr5A 77.799 527 63 24 1202 1697 680078503 680078000 3.430000e-70 276
19 TraesCS7B01G157900 chr6B 88.212 509 50 10 8 513 125077675 125077174 1.790000e-167 599
20 TraesCS7B01G157900 chr6B 90.716 377 20 4 3115 3488 615605790 615605426 4.050000e-134 488
21 TraesCS7B01G157900 chrUn 87.170 530 38 13 9 517 310309915 310310435 3.020000e-160 575
22 TraesCS7B01G157900 chrUn 87.170 530 38 13 9 517 315280464 315279944 3.020000e-160 575
23 TraesCS7B01G157900 chrUn 89.976 409 35 6 515 920 311218709 311219114 1.110000e-144 523
24 TraesCS7B01G157900 chrUn 94.643 112 5 1 3008 3119 68202727 68202617 4.630000e-39 172
25 TraesCS7B01G157900 chr3B 86.981 530 39 13 9 517 754853694 754854214 1.410000e-158 569
26 TraesCS7B01G157900 chr6D 92.746 386 26 2 516 899 436423032 436422647 1.090000e-154 556
27 TraesCS7B01G157900 chr6D 91.489 376 26 2 3115 3487 409655576 409655204 2.400000e-141 512
28 TraesCS7B01G157900 chr6D 82.946 516 71 13 5 511 415647163 415647670 1.910000e-122 449
29 TraesCS7B01G157900 chr6D 83.012 518 62 19 5 511 416528954 416529456 2.470000e-121 446
30 TraesCS7B01G157900 chr6D 78.068 383 54 17 3115 3476 409519415 409519042 7.590000e-52 215
31 TraesCS7B01G157900 chr4A 92.288 389 28 2 513 899 133830751 133830363 5.090000e-153 551
32 TraesCS7B01G157900 chr6A 91.990 387 29 2 515 899 32877883 32877497 3.070000e-150 542
33 TraesCS7B01G157900 chr6A 88.947 380 28 7 3115 3487 555089344 555088972 1.140000e-124 457
34 TraesCS7B01G157900 chr6A 81.560 141 15 8 3322 3454 554868621 554868484 4.770000e-19 106
35 TraesCS7B01G157900 chr1A 92.010 388 28 3 515 900 18303556 18303170 3.070000e-150 542
36 TraesCS7B01G157900 chr1A 91.045 402 30 3 515 910 77916296 77915895 3.960000e-149 538
37 TraesCS7B01G157900 chr1A 82.330 515 64 20 5 510 528797530 528798026 4.170000e-114 422
38 TraesCS7B01G157900 chr1A 83.333 432 40 19 8 420 18304081 18303663 1.530000e-98 370
39 TraesCS7B01G157900 chr5B 85.472 530 50 12 9 517 211476608 211476085 8.580000e-146 527
40 TraesCS7B01G157900 chr4D 81.108 704 81 27 1854 2537 499292517 499291846 1.860000e-142 516
41 TraesCS7B01G157900 chr3D 83.366 511 69 13 5 508 32728228 32728729 3.180000e-125 459
42 TraesCS7B01G157900 chr3D 82.524 515 69 17 5 511 608575772 608576273 1.920000e-117 433
43 TraesCS7B01G157900 chr3D 95.413 109 4 1 3008 3116 122594847 122594954 4.630000e-39 172
44 TraesCS7B01G157900 chr3D 95.413 109 4 1 3008 3116 136563667 136563774 4.630000e-39 172
45 TraesCS7B01G157900 chr4B 85.232 237 13 10 1155 1377 642088939 642088711 1.260000e-54 224
46 TraesCS7B01G157900 chr1D 95.536 112 4 1 3008 3119 291490424 291490314 9.960000e-41 178


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 TraesCS7B01G157900 chr7B 213254290 213257780 3490 True 2985.500000 5077 100.000000 1 3491 2 chr7B.!!$R1 3490
1 TraesCS7B01G157900 chr7D 236645947 236648681 2734 True 2033.500000 3365 92.740000 1 2734 2 chr7D.!!$R2 2733
2 TraesCS7B01G157900 chr7D 429707986 429709785 1799 False 942.666667 1997 94.262000 1029 2693 3 chr7D.!!$F2 1664
3 TraesCS7B01G157900 chr7A 251748864 251750893 2029 True 850.666667 1692 93.898667 954 2734 3 chr7A.!!$R1 1780
4 TraesCS7B01G157900 chr5A 680076702 680078503 1801 True 372.000000 468 78.758500 1202 2537 2 chr5A.!!$R1 1335
5 TraesCS7B01G157900 chr6B 125077174 125077675 501 True 599.000000 599 88.212000 8 513 1 chr6B.!!$R1 505
6 TraesCS7B01G157900 chrUn 310309915 310310435 520 False 575.000000 575 87.170000 9 517 1 chrUn.!!$F1 508
7 TraesCS7B01G157900 chrUn 315279944 315280464 520 True 575.000000 575 87.170000 9 517 1 chrUn.!!$R2 508
8 TraesCS7B01G157900 chr3B 754853694 754854214 520 False 569.000000 569 86.981000 9 517 1 chr3B.!!$F1 508
9 TraesCS7B01G157900 chr6D 415647163 415647670 507 False 449.000000 449 82.946000 5 511 1 chr6D.!!$F1 506
10 TraesCS7B01G157900 chr6D 416528954 416529456 502 False 446.000000 446 83.012000 5 511 1 chr6D.!!$F2 506
11 TraesCS7B01G157900 chr1A 18303170 18304081 911 True 456.000000 542 87.671500 8 900 2 chr1A.!!$R2 892
12 TraesCS7B01G157900 chr5B 211476085 211476608 523 True 527.000000 527 85.472000 9 517 1 chr5B.!!$R1 508
13 TraesCS7B01G157900 chr4D 499291846 499292517 671 True 516.000000 516 81.108000 1854 2537 1 chr4D.!!$R1 683
14 TraesCS7B01G157900 chr3D 32728228 32728729 501 False 459.000000 459 83.366000 5 508 1 chr3D.!!$F1 503
15 TraesCS7B01G157900 chr3D 608575772 608576273 501 False 433.000000 433 82.524000 5 511 1 chr3D.!!$F4 506

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
576 647 1.001974 CATGTGGTCGGGTCTTTGAGA 59.998 52.381 0.0 0.0 0.0 3.27 F
1106 1186 0.103208 CAGCCCGCTAGAAATCGACT 59.897 55.000 0.0 0.0 0.0 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2111 3012 2.035449 GCACCCCCAAAAGTACTGAAAC 59.965 50.0 0.00 0.00 0.00 2.78 R
3028 4076 0.106708 TGTGAGGAGTCCAACACTGC 59.893 55.0 27.51 12.06 43.82 4.40 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
261 271 8.939201 TCTTTGCATTAAAAGACACATTTTCA 57.061 26.923 0.00 0.00 40.41 2.69
576 647 1.001974 CATGTGGTCGGGTCTTTGAGA 59.998 52.381 0.00 0.00 0.00 3.27
636 707 1.369091 CCGGCGCATTCAGCTAAGTT 61.369 55.000 10.83 0.00 42.61 2.66
792 863 1.947456 GGCTCTAATTAAAGGGTGCCG 59.053 52.381 0.00 0.00 0.00 5.69
811 882 4.021807 TGCCGTGTTGAACTAGAGAATACA 60.022 41.667 0.00 0.00 0.00 2.29
812 883 4.927425 GCCGTGTTGAACTAGAGAATACAA 59.073 41.667 0.00 0.00 0.00 2.41
838 911 3.019564 GTGGGGTCTTGATCCATTCTTG 58.980 50.000 2.08 0.00 32.71 3.02
1035 1109 3.055719 CCTGGTGCGCGAAATGGT 61.056 61.111 12.10 0.00 0.00 3.55
1042 1122 0.605319 TGCGCGAAATGGTCCTTCTT 60.605 50.000 12.10 0.00 0.00 2.52
1043 1123 0.521735 GCGCGAAATGGTCCTTCTTT 59.478 50.000 12.10 0.00 0.00 2.52
1044 1124 1.729149 GCGCGAAATGGTCCTTCTTTG 60.729 52.381 12.10 0.00 0.00 2.77
1045 1125 1.804151 CGCGAAATGGTCCTTCTTTGA 59.196 47.619 0.00 0.00 0.00 2.69
1046 1126 2.412847 CGCGAAATGGTCCTTCTTTGAC 60.413 50.000 0.00 0.00 0.00 3.18
1047 1127 2.814336 GCGAAATGGTCCTTCTTTGACT 59.186 45.455 0.00 0.00 33.22 3.41
1048 1128 3.365364 GCGAAATGGTCCTTCTTTGACTG 60.365 47.826 0.00 0.00 33.22 3.51
1049 1129 4.065088 CGAAATGGTCCTTCTTTGACTGA 58.935 43.478 0.00 0.00 33.22 3.41
1050 1130 4.697352 CGAAATGGTCCTTCTTTGACTGAT 59.303 41.667 0.00 0.00 33.22 2.90
1051 1131 5.163814 CGAAATGGTCCTTCTTTGACTGATC 60.164 44.000 0.00 0.00 33.22 2.92
1052 1132 5.511386 AATGGTCCTTCTTTGACTGATCT 57.489 39.130 0.00 0.00 33.22 2.75
1053 1133 4.543590 TGGTCCTTCTTTGACTGATCTC 57.456 45.455 0.00 0.00 33.22 2.75
1054 1134 3.056536 TGGTCCTTCTTTGACTGATCTCG 60.057 47.826 0.00 0.00 33.22 4.04
1055 1135 3.516615 GTCCTTCTTTGACTGATCTCGG 58.483 50.000 0.00 0.00 0.00 4.63
1056 1136 3.193691 GTCCTTCTTTGACTGATCTCGGA 59.806 47.826 0.00 0.00 0.00 4.55
1057 1137 3.445450 TCCTTCTTTGACTGATCTCGGAG 59.555 47.826 0.00 0.00 0.00 4.63
1098 1178 1.749634 GACTACTTTCAGCCCGCTAGA 59.250 52.381 0.00 0.00 0.00 2.43
1106 1186 0.103208 CAGCCCGCTAGAAATCGACT 59.897 55.000 0.00 0.00 0.00 4.18
1108 1188 1.202428 AGCCCGCTAGAAATCGACTTC 60.202 52.381 0.00 0.00 0.00 3.01
1153 1233 3.006967 GTCTTCTGTCTTAGCCCACAAGA 59.993 47.826 0.00 0.00 0.00 3.02
1162 1242 0.912486 AGCCCACAAGACCATAGTCC 59.088 55.000 0.00 0.00 44.72 3.85
1406 1488 2.044053 CCCCGTCCGTACCTACCA 60.044 66.667 0.00 0.00 0.00 3.25
1604 2027 1.354368 AGATTCCGAAGCTTTTCCCCA 59.646 47.619 0.00 0.00 0.00 4.96
2024 2913 2.159184 TGCGTTGACATTTTGCTGGAAA 60.159 40.909 0.00 0.00 0.00 3.13
2096 2997 4.943705 TCATTGATTGGTCTGTAAAGCTCC 59.056 41.667 0.00 0.00 0.00 4.70
2111 3012 0.800631 GCTCCCCGTTAAGAAAACCG 59.199 55.000 0.00 0.00 0.00 4.44
2478 3523 2.832201 GGCCATGGAGAAGCAGCC 60.832 66.667 18.40 2.22 0.00 4.85
2505 3550 6.814954 AGCACTTAGGAAAGGATGATTCTA 57.185 37.500 0.00 0.00 37.01 2.10
2506 3551 6.825610 AGCACTTAGGAAAGGATGATTCTAG 58.174 40.000 0.00 0.00 37.01 2.43
2507 3552 5.468409 GCACTTAGGAAAGGATGATTCTAGC 59.532 44.000 0.00 0.00 37.01 3.42
2693 3739 3.418995 TCTGTCTTTACTGGTCTACGCT 58.581 45.455 0.00 0.00 0.00 5.07
2706 3754 3.576648 GTCTACGCTATAGGGTTGATGC 58.423 50.000 27.56 16.94 42.28 3.91
2741 3789 2.274920 GAGCATCTCCAAGCTTTTGC 57.725 50.000 0.00 1.58 42.04 3.68
3024 4072 3.636231 CCACTCGTTGCCTCCCCA 61.636 66.667 0.00 0.00 0.00 4.96
3025 4073 2.358737 CACTCGTTGCCTCCCCAC 60.359 66.667 0.00 0.00 0.00 4.61
3026 4074 4.003788 ACTCGTTGCCTCCCCACG 62.004 66.667 0.00 0.00 0.00 4.94
3027 4075 3.691342 CTCGTTGCCTCCCCACGA 61.691 66.667 0.00 0.00 0.00 4.35
3028 4076 3.649277 CTCGTTGCCTCCCCACGAG 62.649 68.421 6.56 6.56 42.98 4.18
3030 4078 4.329545 GTTGCCTCCCCACGAGCA 62.330 66.667 0.00 0.00 37.27 4.26
3031 4079 4.020617 TTGCCTCCCCACGAGCAG 62.021 66.667 0.00 0.00 37.27 4.24
3040 4088 4.758692 CACGAGCAGTGTTGGACT 57.241 55.556 4.42 0.00 45.51 3.85
3041 4089 2.522060 CACGAGCAGTGTTGGACTC 58.478 57.895 4.42 0.00 45.51 3.36
3042 4090 0.946221 CACGAGCAGTGTTGGACTCC 60.946 60.000 4.42 0.00 45.51 3.85
3043 4091 1.115930 ACGAGCAGTGTTGGACTCCT 61.116 55.000 0.00 0.00 29.75 3.69
3044 4092 0.389166 CGAGCAGTGTTGGACTCCTC 60.389 60.000 0.00 0.00 36.26 3.71
3045 4093 0.681733 GAGCAGTGTTGGACTCCTCA 59.318 55.000 0.00 0.00 39.12 3.86
3046 4094 0.394565 AGCAGTGTTGGACTCCTCAC 59.605 55.000 12.83 12.83 29.75 3.51
3047 4095 0.106708 GCAGTGTTGGACTCCTCACA 59.893 55.000 18.98 10.22 34.00 3.58
3048 4096 1.475034 GCAGTGTTGGACTCCTCACAA 60.475 52.381 18.98 0.00 34.00 3.33
3049 4097 2.917933 CAGTGTTGGACTCCTCACAAA 58.082 47.619 18.98 0.00 34.00 2.83
3050 4098 2.614057 CAGTGTTGGACTCCTCACAAAC 59.386 50.000 18.98 7.27 34.00 2.93
3051 4099 1.597663 GTGTTGGACTCCTCACAAACG 59.402 52.381 14.71 0.00 32.75 3.60
3052 4100 1.226746 GTTGGACTCCTCACAAACGG 58.773 55.000 0.00 0.00 0.00 4.44
3053 4101 1.124780 TTGGACTCCTCACAAACGGA 58.875 50.000 0.00 0.00 0.00 4.69
3056 4104 3.862124 CTCCTCACAAACGGAGCG 58.138 61.111 0.00 0.00 40.27 5.03
3057 4105 1.738099 CTCCTCACAAACGGAGCGG 60.738 63.158 0.00 0.00 40.27 5.52
3058 4106 3.423154 CCTCACAAACGGAGCGGC 61.423 66.667 0.00 0.00 0.00 6.53
3059 4107 2.664851 CTCACAAACGGAGCGGCA 60.665 61.111 1.45 0.00 0.00 5.69
3060 4108 2.031919 TCACAAACGGAGCGGCAT 59.968 55.556 1.45 0.00 0.00 4.40
3061 4109 1.577328 CTCACAAACGGAGCGGCATT 61.577 55.000 1.45 0.00 0.00 3.56
3062 4110 1.169661 TCACAAACGGAGCGGCATTT 61.170 50.000 1.45 0.00 0.00 2.32
3063 4111 0.729140 CACAAACGGAGCGGCATTTC 60.729 55.000 1.45 0.00 0.00 2.17
3064 4112 1.511887 CAAACGGAGCGGCATTTCG 60.512 57.895 1.45 2.78 0.00 3.46
3065 4113 1.964373 AAACGGAGCGGCATTTCGT 60.964 52.632 1.45 3.44 35.48 3.85
3066 4114 1.908066 AAACGGAGCGGCATTTCGTC 61.908 55.000 1.45 0.00 33.34 4.20
3073 4121 2.785258 GGCATTTCGTCGAGCACC 59.215 61.111 7.20 0.00 0.00 5.01
3074 4122 1.741770 GGCATTTCGTCGAGCACCT 60.742 57.895 7.20 0.00 0.00 4.00
3075 4123 1.298859 GGCATTTCGTCGAGCACCTT 61.299 55.000 7.20 0.00 0.00 3.50
3076 4124 0.179215 GCATTTCGTCGAGCACCTTG 60.179 55.000 0.00 0.00 0.00 3.61
3077 4125 1.428448 CATTTCGTCGAGCACCTTGA 58.572 50.000 0.00 0.00 0.00 3.02
3078 4126 1.126846 CATTTCGTCGAGCACCTTGAC 59.873 52.381 0.00 3.08 40.46 3.18
3079 4127 0.599204 TTTCGTCGAGCACCTTGACC 60.599 55.000 6.96 0.00 40.69 4.02
3080 4128 2.742710 TTCGTCGAGCACCTTGACCG 62.743 60.000 6.96 3.63 40.69 4.79
3081 4129 3.112709 GTCGAGCACCTTGACCGC 61.113 66.667 1.89 0.00 38.56 5.68
3082 4130 4.717629 TCGAGCACCTTGACCGCG 62.718 66.667 0.00 0.00 0.00 6.46
3106 4154 4.803426 GCGACGACCTCCAGCCAG 62.803 72.222 0.00 0.00 0.00 4.85
3107 4155 4.803426 CGACGACCTCCAGCCAGC 62.803 72.222 0.00 0.00 0.00 4.85
3108 4156 4.803426 GACGACCTCCAGCCAGCG 62.803 72.222 0.00 0.00 0.00 5.18
3110 4158 4.069232 CGACCTCCAGCCAGCGAA 62.069 66.667 0.00 0.00 0.00 4.70
3111 4159 2.125350 GACCTCCAGCCAGCGAAG 60.125 66.667 0.00 0.00 0.00 3.79
3112 4160 3.672295 GACCTCCAGCCAGCGAAGG 62.672 68.421 6.49 6.49 0.00 3.46
3113 4161 3.393970 CCTCCAGCCAGCGAAGGA 61.394 66.667 0.00 2.65 0.00 3.36
3114 4162 2.186384 CTCCAGCCAGCGAAGGAG 59.814 66.667 12.26 12.26 41.43 3.69
3115 4163 4.087892 TCCAGCCAGCGAAGGAGC 62.088 66.667 0.00 0.00 37.41 4.70
3116 4164 4.399395 CCAGCCAGCGAAGGAGCA 62.399 66.667 0.00 0.00 40.15 4.26
3117 4165 3.123620 CAGCCAGCGAAGGAGCAC 61.124 66.667 0.00 0.00 40.15 4.40
3118 4166 4.749310 AGCCAGCGAAGGAGCACG 62.749 66.667 0.00 0.00 40.15 5.34
3125 4173 3.706373 GAAGGAGCACGCCCCTGA 61.706 66.667 0.00 0.00 32.12 3.86
3126 4174 3.249189 AAGGAGCACGCCCCTGAA 61.249 61.111 0.00 0.00 32.12 3.02
3127 4175 3.553095 AAGGAGCACGCCCCTGAAC 62.553 63.158 0.00 0.00 32.12 3.18
3128 4176 4.021925 GGAGCACGCCCCTGAACT 62.022 66.667 0.00 0.00 0.00 3.01
3129 4177 2.032681 GAGCACGCCCCTGAACTT 59.967 61.111 0.00 0.00 0.00 2.66
3130 4178 2.281761 AGCACGCCCCTGAACTTG 60.282 61.111 0.00 0.00 0.00 3.16
3131 4179 4.043200 GCACGCCCCTGAACTTGC 62.043 66.667 0.00 0.00 0.00 4.01
3132 4180 2.281761 CACGCCCCTGAACTTGCT 60.282 61.111 0.00 0.00 0.00 3.91
3133 4181 2.032681 ACGCCCCTGAACTTGCTC 59.967 61.111 0.00 0.00 0.00 4.26
3134 4182 2.747855 CGCCCCTGAACTTGCTCC 60.748 66.667 0.00 0.00 0.00 4.70
3135 4183 2.361737 GCCCCTGAACTTGCTCCC 60.362 66.667 0.00 0.00 0.00 4.30
3136 4184 2.045926 CCCCTGAACTTGCTCCCG 60.046 66.667 0.00 0.00 0.00 5.14
3137 4185 2.747855 CCCTGAACTTGCTCCCGC 60.748 66.667 0.00 0.00 0.00 6.13
3138 4186 2.747855 CCTGAACTTGCTCCCGCC 60.748 66.667 0.00 0.00 34.43 6.13
3139 4187 3.121030 CTGAACTTGCTCCCGCCG 61.121 66.667 0.00 0.00 34.43 6.46
3201 4249 4.803426 CGTGGCCGAGCACTCCTC 62.803 72.222 0.00 0.00 37.22 3.71
3202 4250 4.459089 GTGGCCGAGCACTCCTCC 62.459 72.222 0.00 0.00 37.27 4.30
3206 4254 4.787280 CCGAGCACTCCTCCCCCT 62.787 72.222 0.00 0.00 37.27 4.79
3207 4255 3.151022 CGAGCACTCCTCCCCCTC 61.151 72.222 0.00 0.00 37.27 4.30
3208 4256 3.151022 GAGCACTCCTCCCCCTCG 61.151 72.222 0.00 0.00 34.35 4.63
3211 4259 3.465403 CACTCCTCCCCCTCGCTG 61.465 72.222 0.00 0.00 0.00 5.18
3249 4297 4.090057 GGCCGCAGCGACAAACTC 62.090 66.667 18.75 0.00 41.24 3.01
3250 4298 4.430423 GCCGCAGCGACAAACTCG 62.430 66.667 18.75 0.00 45.97 4.18
3257 4305 2.733218 CGACAAACTCGCAGCCGA 60.733 61.111 0.00 0.00 42.01 5.54
3384 4432 3.052082 GTCCTCGGACACGACGGA 61.052 66.667 11.12 0.00 45.59 4.69
3385 4433 2.745100 TCCTCGGACACGACGGAG 60.745 66.667 0.00 0.00 45.59 4.63
3386 4434 2.745100 CCTCGGACACGACGGAGA 60.745 66.667 0.00 0.00 45.59 3.71
3387 4435 2.113433 CCTCGGACACGACGGAGAT 61.113 63.158 0.00 0.00 45.59 2.75
3388 4436 1.062685 CTCGGACACGACGGAGATG 59.937 63.158 0.00 0.00 45.59 2.90
3389 4437 1.366854 CTCGGACACGACGGAGATGA 61.367 60.000 0.00 0.00 45.59 2.92
3390 4438 1.062685 CGGACACGACGGAGATGAG 59.937 63.158 0.00 0.00 44.60 2.90
3391 4439 1.366854 CGGACACGACGGAGATGAGA 61.367 60.000 0.00 0.00 44.60 3.27
3392 4440 0.378962 GGACACGACGGAGATGAGAG 59.621 60.000 0.00 0.00 0.00 3.20
3393 4441 0.248296 GACACGACGGAGATGAGAGC 60.248 60.000 0.00 0.00 0.00 4.09
3394 4442 0.960861 ACACGACGGAGATGAGAGCA 60.961 55.000 0.00 0.00 0.00 4.26
3395 4443 0.524392 CACGACGGAGATGAGAGCAC 60.524 60.000 0.00 0.00 0.00 4.40
3396 4444 1.297967 CGACGGAGATGAGAGCACG 60.298 63.158 0.00 0.00 0.00 5.34
3397 4445 1.064946 GACGGAGATGAGAGCACGG 59.935 63.158 0.00 0.00 0.00 4.94
3398 4446 1.377366 GACGGAGATGAGAGCACGGA 61.377 60.000 0.00 0.00 0.00 4.69
3399 4447 1.358402 CGGAGATGAGAGCACGGAG 59.642 63.158 0.00 0.00 0.00 4.63
3400 4448 1.739049 GGAGATGAGAGCACGGAGG 59.261 63.158 0.00 0.00 0.00 4.30
3401 4449 0.753479 GGAGATGAGAGCACGGAGGA 60.753 60.000 0.00 0.00 0.00 3.71
3402 4450 1.107114 GAGATGAGAGCACGGAGGAA 58.893 55.000 0.00 0.00 0.00 3.36
3403 4451 1.066908 GAGATGAGAGCACGGAGGAAG 59.933 57.143 0.00 0.00 0.00 3.46
3404 4452 1.107114 GATGAGAGCACGGAGGAAGA 58.893 55.000 0.00 0.00 0.00 2.87
3405 4453 1.066908 GATGAGAGCACGGAGGAAGAG 59.933 57.143 0.00 0.00 0.00 2.85
3406 4454 0.967887 TGAGAGCACGGAGGAAGAGG 60.968 60.000 0.00 0.00 0.00 3.69
3407 4455 1.671901 GAGAGCACGGAGGAAGAGGG 61.672 65.000 0.00 0.00 0.00 4.30
3408 4456 1.682684 GAGCACGGAGGAAGAGGGA 60.683 63.158 0.00 0.00 0.00 4.20
3409 4457 1.671901 GAGCACGGAGGAAGAGGGAG 61.672 65.000 0.00 0.00 0.00 4.30
3410 4458 1.985116 GCACGGAGGAAGAGGGAGT 60.985 63.158 0.00 0.00 0.00 3.85
3411 4459 1.545706 GCACGGAGGAAGAGGGAGTT 61.546 60.000 0.00 0.00 0.00 3.01
3412 4460 0.533032 CACGGAGGAAGAGGGAGTTC 59.467 60.000 0.00 0.00 0.00 3.01
3413 4461 0.410270 ACGGAGGAAGAGGGAGTTCT 59.590 55.000 0.00 0.00 0.00 3.01
3414 4462 1.107945 CGGAGGAAGAGGGAGTTCTC 58.892 60.000 0.00 0.00 0.00 2.87
3415 4463 1.491668 GGAGGAAGAGGGAGTTCTCC 58.508 60.000 10.13 10.13 34.46 3.71
3416 4464 1.007842 GGAGGAAGAGGGAGTTCTCCT 59.992 57.143 16.95 4.99 37.33 3.69
3417 4465 2.107366 GAGGAAGAGGGAGTTCTCCTG 58.893 57.143 16.95 0.00 34.21 3.86
3418 4466 0.539518 GGAAGAGGGAGTTCTCCTGC 59.460 60.000 16.95 10.09 34.21 4.85
3419 4467 1.567357 GAAGAGGGAGTTCTCCTGCT 58.433 55.000 16.95 11.87 34.21 4.24
3420 4468 1.480545 GAAGAGGGAGTTCTCCTGCTC 59.519 57.143 16.95 15.02 34.21 4.26
3421 4469 0.682855 AGAGGGAGTTCTCCTGCTCG 60.683 60.000 16.95 0.00 34.21 5.03
3422 4470 1.671901 GAGGGAGTTCTCCTGCTCGG 61.672 65.000 16.95 0.00 34.21 4.63
3423 4471 1.682684 GGGAGTTCTCCTGCTCGGA 60.683 63.158 16.95 0.00 40.30 4.55
3430 4478 3.003173 TCCTGCTCGGAGTTGGGG 61.003 66.667 6.90 4.45 36.69 4.96
3431 4479 3.003173 CCTGCTCGGAGTTGGGGA 61.003 66.667 6.90 0.00 33.16 4.81
3432 4480 2.581354 CTGCTCGGAGTTGGGGAG 59.419 66.667 6.90 0.00 0.00 4.30
3433 4481 2.203788 TGCTCGGAGTTGGGGAGT 60.204 61.111 6.90 0.00 0.00 3.85
3434 4482 1.831652 CTGCTCGGAGTTGGGGAGTT 61.832 60.000 6.90 0.00 0.00 3.01
3435 4483 1.376037 GCTCGGAGTTGGGGAGTTG 60.376 63.158 6.90 0.00 0.00 3.16
3436 4484 1.296715 CTCGGAGTTGGGGAGTTGG 59.703 63.158 0.00 0.00 0.00 3.77
3437 4485 1.152204 TCGGAGTTGGGGAGTTGGA 60.152 57.895 0.00 0.00 0.00 3.53
3438 4486 0.765135 TCGGAGTTGGGGAGTTGGAA 60.765 55.000 0.00 0.00 0.00 3.53
3439 4487 0.605589 CGGAGTTGGGGAGTTGGAAC 60.606 60.000 0.00 0.00 0.00 3.62
3440 4488 0.251209 GGAGTTGGGGAGTTGGAACC 60.251 60.000 0.00 0.00 0.00 3.62
3441 4489 0.251209 GAGTTGGGGAGTTGGAACCC 60.251 60.000 0.00 0.00 44.94 4.11
3444 4492 3.647771 GGGGAGTTGGAACCCGCT 61.648 66.667 0.00 0.00 46.42 5.52
3445 4493 2.359975 GGGAGTTGGAACCCGCTG 60.360 66.667 0.00 0.00 36.56 5.18
3446 4494 3.056328 GGAGTTGGAACCCGCTGC 61.056 66.667 0.00 0.00 0.00 5.25
3447 4495 3.056328 GAGTTGGAACCCGCTGCC 61.056 66.667 0.00 0.00 0.00 4.85
3470 4518 4.666253 GCTCCAGCCTTGGCACCA 62.666 66.667 14.54 0.00 44.63 4.17
3471 4519 2.357836 CTCCAGCCTTGGCACCAT 59.642 61.111 14.54 0.00 44.63 3.55
3472 4520 2.036098 TCCAGCCTTGGCACCATG 59.964 61.111 14.54 3.17 44.63 3.66
3473 4521 3.072468 CCAGCCTTGGCACCATGG 61.072 66.667 11.19 11.19 42.20 3.66
3481 4529 3.520862 GGCACCATGGCGATGTGG 61.521 66.667 13.04 0.00 41.35 4.17
3482 4530 2.438254 GCACCATGGCGATGTGGA 60.438 61.111 13.04 0.00 38.86 4.02
3483 4531 2.475466 GCACCATGGCGATGTGGAG 61.475 63.158 13.04 0.00 38.86 3.86
3484 4532 1.078214 CACCATGGCGATGTGGAGT 60.078 57.895 13.04 0.00 38.86 3.85
3485 4533 1.091771 CACCATGGCGATGTGGAGTC 61.092 60.000 13.04 0.00 38.86 3.36
3486 4534 1.524621 CCATGGCGATGTGGAGTCC 60.525 63.158 7.98 0.73 37.72 3.85
3487 4535 1.524002 CATGGCGATGTGGAGTCCT 59.476 57.895 11.33 0.00 0.00 3.85
3488 4536 0.812811 CATGGCGATGTGGAGTCCTG 60.813 60.000 11.33 0.00 0.00 3.86
3489 4537 2.512515 GGCGATGTGGAGTCCTGC 60.513 66.667 11.33 6.56 0.00 4.85
3490 4538 2.887568 GCGATGTGGAGTCCTGCG 60.888 66.667 11.33 9.60 0.00 5.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
237 247 9.985318 TTTGAAAATGTGTCTTTTAATGCAAAG 57.015 25.926 0.00 0.00 35.39 2.77
327 358 9.545105 TCACAAACATTTCTTAAAAGCATGAAT 57.455 25.926 0.00 0.00 0.00 2.57
384 415 6.257411 TCCACACGTTTTATAAAAGACGAACA 59.743 34.615 22.71 5.40 43.76 3.18
385 416 6.648502 TCCACACGTTTTATAAAAGACGAAC 58.351 36.000 22.71 7.24 43.76 3.95
388 419 8.496872 AAATTCCACACGTTTTATAAAAGACG 57.503 30.769 16.92 16.92 45.78 4.18
498 536 6.041069 ACCAATGGTCGGATTCAAAACTTTTA 59.959 34.615 0.00 0.00 0.00 1.52
513 552 1.393539 CGTTCTGCTAACCAATGGTCG 59.606 52.381 4.95 0.88 33.12 4.79
627 698 3.141398 TCTGAACAAGCCAACTTAGCTG 58.859 45.455 0.00 0.00 40.49 4.24
636 707 3.073798 TGTCCCTTATTCTGAACAAGCCA 59.926 43.478 2.91 0.00 0.00 4.75
792 863 8.774586 ACATGTTTGTATTCTCTAGTTCAACAC 58.225 33.333 0.00 0.00 33.16 3.32
811 882 2.109834 TGGATCAAGACCCCACATGTTT 59.890 45.455 0.00 0.00 0.00 2.83
812 883 1.710244 TGGATCAAGACCCCACATGTT 59.290 47.619 0.00 0.00 0.00 2.71
838 911 7.736447 AAAATACATGCCTCTAGCTCAATAC 57.264 36.000 0.00 0.00 44.23 1.89
976 1050 1.303309 GGCTCATCGAAATCACTGGG 58.697 55.000 0.00 0.00 0.00 4.45
1035 1109 3.431415 TCCGAGATCAGTCAAAGAAGGA 58.569 45.455 0.00 0.00 0.00 3.36
1042 1122 1.107114 GGAGCTCCGAGATCAGTCAA 58.893 55.000 19.06 0.00 30.96 3.18
1043 1123 0.257328 AGGAGCTCCGAGATCAGTCA 59.743 55.000 26.95 0.00 42.08 3.41
1044 1124 0.951558 GAGGAGCTCCGAGATCAGTC 59.048 60.000 26.95 12.60 42.08 3.51
1045 1125 0.257328 TGAGGAGCTCCGAGATCAGT 59.743 55.000 26.95 6.87 42.08 3.41
1046 1126 0.953727 CTGAGGAGCTCCGAGATCAG 59.046 60.000 26.50 26.50 42.08 2.90
1047 1127 0.257328 ACTGAGGAGCTCCGAGATCA 59.743 55.000 30.87 25.01 42.08 2.92
1048 1128 1.398692 AACTGAGGAGCTCCGAGATC 58.601 55.000 30.87 22.34 42.08 2.75
1049 1129 2.738587 TAACTGAGGAGCTCCGAGAT 57.261 50.000 30.87 24.28 42.08 2.75
1050 1130 2.302260 CATAACTGAGGAGCTCCGAGA 58.698 52.381 30.87 18.02 42.08 4.04
1051 1131 1.339610 CCATAACTGAGGAGCTCCGAG 59.660 57.143 26.95 26.05 42.08 4.63
1052 1132 1.403814 CCATAACTGAGGAGCTCCGA 58.596 55.000 26.95 16.49 42.08 4.55
1053 1133 0.249657 GCCATAACTGAGGAGCTCCG 60.250 60.000 26.95 15.50 42.08 4.63
1054 1134 0.107643 GGCCATAACTGAGGAGCTCC 59.892 60.000 26.22 26.22 0.00 4.70
1055 1135 0.107643 GGGCCATAACTGAGGAGCTC 59.892 60.000 4.39 4.71 0.00 4.09
1056 1136 0.621571 TGGGCCATAACTGAGGAGCT 60.622 55.000 0.00 0.00 0.00 4.09
1057 1137 0.475906 ATGGGCCATAACTGAGGAGC 59.524 55.000 19.68 0.00 0.00 4.70
1098 1178 0.389948 AGCGAAGGCGAAGTCGATTT 60.390 50.000 4.59 0.00 46.35 2.17
1106 1186 2.506217 CGTAGCAGCGAAGGCGAA 60.506 61.111 0.00 0.00 46.35 4.70
1406 1488 2.765699 GAGGGAGCAGAGATGAGAAGTT 59.234 50.000 0.00 0.00 0.00 2.66
1604 2027 3.710722 CTCGGGCAGCACCTCCTT 61.711 66.667 0.00 0.00 39.10 3.36
1721 2144 9.453572 TTCAGATTAAATGTTCATAAGACAGCT 57.546 29.630 0.00 0.00 0.00 4.24
2006 2895 7.437862 TCAAGTAATTTCCAGCAAAATGTCAAC 59.562 33.333 0.00 0.00 0.00 3.18
2010 2899 7.816031 CAGATCAAGTAATTTCCAGCAAAATGT 59.184 33.333 0.00 0.00 0.00 2.71
2096 2997 3.313249 ACTGAAACGGTTTTCTTAACGGG 59.687 43.478 7.65 0.00 41.64 5.28
2111 3012 2.035449 GCACCCCCAAAAGTACTGAAAC 59.965 50.000 0.00 0.00 0.00 2.78
2367 3412 6.934083 ACGTTGAATTGCAAAAGGGAAAATAT 59.066 30.769 1.71 0.00 38.44 1.28
2478 3523 4.836825 TCATCCTTTCCTAAGTGCTTCTG 58.163 43.478 0.00 0.00 0.00 3.02
2538 3584 7.470935 TTTACATATGGGTCGCTTATAGCTA 57.529 36.000 7.80 0.00 39.60 3.32
2546 3592 5.036117 AGTGAATTTACATATGGGTCGCT 57.964 39.130 7.80 5.78 0.00 4.93
2671 3717 4.017808 AGCGTAGACCAGTAAAGACAGAT 58.982 43.478 0.00 0.00 0.00 2.90
2706 3754 3.565764 TGCTCTTATCTCCCATGTTGG 57.434 47.619 0.00 0.00 37.25 3.77
2717 3765 5.732810 GCAAAAGCTTGGAGATGCTCTTATC 60.733 44.000 0.00 0.00 38.75 1.75
3007 4055 3.636231 TGGGGAGGCAACGAGTGG 61.636 66.667 0.00 0.00 46.39 4.00
3008 4056 2.358737 GTGGGGAGGCAACGAGTG 60.359 66.667 0.00 0.00 46.39 3.51
3009 4057 4.003788 CGTGGGGAGGCAACGAGT 62.004 66.667 0.00 0.00 46.39 4.18
3010 4058 3.691342 TCGTGGGGAGGCAACGAG 61.691 66.667 0.00 0.00 41.08 4.18
3011 4059 3.691342 CTCGTGGGGAGGCAACGA 61.691 66.667 0.00 0.00 43.50 3.85
3013 4061 4.329545 TGCTCGTGGGGAGGCAAC 62.330 66.667 0.00 0.00 43.36 4.17
3014 4062 4.020617 CTGCTCGTGGGGAGGCAA 62.021 66.667 0.00 0.00 43.36 4.52
3016 4064 4.767255 CACTGCTCGTGGGGAGGC 62.767 72.222 0.00 0.00 43.36 4.70
3024 4072 1.367840 GGAGTCCAACACTGCTCGT 59.632 57.895 3.60 0.00 40.32 4.18
3025 4073 4.268687 GGAGTCCAACACTGCTCG 57.731 61.111 3.60 0.00 40.32 5.03
3028 4076 0.106708 TGTGAGGAGTCCAACACTGC 59.893 55.000 27.51 12.06 43.82 4.40
3029 4077 2.614057 GTTTGTGAGGAGTCCAACACTG 59.386 50.000 27.51 0.00 34.41 3.66
3030 4078 2.741878 CGTTTGTGAGGAGTCCAACACT 60.742 50.000 27.51 4.60 38.45 3.55
3031 4079 1.597663 CGTTTGTGAGGAGTCCAACAC 59.402 52.381 23.67 23.67 35.15 3.32
3032 4080 1.474320 CCGTTTGTGAGGAGTCCAACA 60.474 52.381 12.86 12.61 0.00 3.33
3033 4081 1.202604 TCCGTTTGTGAGGAGTCCAAC 60.203 52.381 12.86 9.95 31.95 3.77
3034 4082 1.070134 CTCCGTTTGTGAGGAGTCCAA 59.930 52.381 12.86 0.00 46.68 3.53
3035 4083 0.679505 CTCCGTTTGTGAGGAGTCCA 59.320 55.000 12.86 0.00 46.68 4.02
3036 4084 3.516578 CTCCGTTTGTGAGGAGTCC 57.483 57.895 0.00 0.00 46.68 3.85
3040 4088 2.342279 CCGCTCCGTTTGTGAGGA 59.658 61.111 0.00 0.00 34.93 3.71
3041 4089 3.423154 GCCGCTCCGTTTGTGAGG 61.423 66.667 0.00 0.00 0.00 3.86
3042 4090 1.577328 AATGCCGCTCCGTTTGTGAG 61.577 55.000 0.00 0.00 0.00 3.51
3043 4091 1.169661 AAATGCCGCTCCGTTTGTGA 61.170 50.000 0.00 0.00 0.00 3.58
3044 4092 0.729140 GAAATGCCGCTCCGTTTGTG 60.729 55.000 0.00 0.00 0.00 3.33
3045 4093 1.579429 GAAATGCCGCTCCGTTTGT 59.421 52.632 0.00 0.00 0.00 2.83
3046 4094 1.511887 CGAAATGCCGCTCCGTTTG 60.512 57.895 0.00 0.00 0.00 2.93
3047 4095 1.908066 GACGAAATGCCGCTCCGTTT 61.908 55.000 0.00 0.00 33.32 3.60
3048 4096 2.358247 ACGAAATGCCGCTCCGTT 60.358 55.556 0.00 0.00 0.00 4.44
3049 4097 2.813908 GACGAAATGCCGCTCCGT 60.814 61.111 0.00 0.00 36.08 4.69
3050 4098 3.913573 CGACGAAATGCCGCTCCG 61.914 66.667 0.00 0.00 0.00 4.63
3051 4099 2.508439 TCGACGAAATGCCGCTCC 60.508 61.111 0.00 0.00 0.00 4.70
3052 4100 2.998667 CTCGACGAAATGCCGCTC 59.001 61.111 0.00 0.00 0.00 5.03
3053 4101 3.188786 GCTCGACGAAATGCCGCT 61.189 61.111 0.00 0.00 0.00 5.52
3054 4102 3.487202 TGCTCGACGAAATGCCGC 61.487 61.111 0.00 0.00 0.00 6.53
3055 4103 2.395690 GTGCTCGACGAAATGCCG 59.604 61.111 0.00 0.00 0.00 5.69
3056 4104 1.298859 AAGGTGCTCGACGAAATGCC 61.299 55.000 0.00 0.00 0.00 4.40
3057 4105 0.179215 CAAGGTGCTCGACGAAATGC 60.179 55.000 0.00 0.00 0.00 3.56
3058 4106 1.126846 GTCAAGGTGCTCGACGAAATG 59.873 52.381 0.00 0.00 0.00 2.32
3059 4107 1.429463 GTCAAGGTGCTCGACGAAAT 58.571 50.000 0.00 0.00 0.00 2.17
3060 4108 0.599204 GGTCAAGGTGCTCGACGAAA 60.599 55.000 0.00 0.00 0.00 3.46
3061 4109 1.006571 GGTCAAGGTGCTCGACGAA 60.007 57.895 0.00 0.00 0.00 3.85
3062 4110 2.649034 GGTCAAGGTGCTCGACGA 59.351 61.111 0.00 0.00 0.00 4.20
3063 4111 2.805353 CGGTCAAGGTGCTCGACG 60.805 66.667 0.00 0.00 0.00 5.12
3064 4112 3.112709 GCGGTCAAGGTGCTCGAC 61.113 66.667 0.00 0.00 0.00 4.20
3065 4113 4.717629 CGCGGTCAAGGTGCTCGA 62.718 66.667 0.00 0.00 0.00 4.04
3089 4137 4.803426 CTGGCTGGAGGTCGTCGC 62.803 72.222 0.00 0.00 0.00 5.19
3090 4138 4.803426 GCTGGCTGGAGGTCGTCG 62.803 72.222 0.00 0.00 0.00 5.12
3091 4139 4.803426 CGCTGGCTGGAGGTCGTC 62.803 72.222 0.00 0.00 0.00 4.20
3093 4141 3.997064 CTTCGCTGGCTGGAGGTCG 62.997 68.421 0.00 0.00 0.00 4.79
3094 4142 2.125350 CTTCGCTGGCTGGAGGTC 60.125 66.667 0.00 0.00 0.00 3.85
3095 4143 3.710722 CCTTCGCTGGCTGGAGGT 61.711 66.667 0.00 0.00 0.00 3.85
3096 4144 3.382803 CTCCTTCGCTGGCTGGAGG 62.383 68.421 13.89 10.14 41.59 4.30
3097 4145 2.186384 CTCCTTCGCTGGCTGGAG 59.814 66.667 10.03 10.03 39.87 3.86
3098 4146 4.087892 GCTCCTTCGCTGGCTGGA 62.088 66.667 0.00 0.00 0.00 3.86
3099 4147 4.399395 TGCTCCTTCGCTGGCTGG 62.399 66.667 0.00 0.00 0.00 4.85
3100 4148 3.123620 GTGCTCCTTCGCTGGCTG 61.124 66.667 0.00 0.00 0.00 4.85
3101 4149 4.749310 CGTGCTCCTTCGCTGGCT 62.749 66.667 0.00 0.00 0.00 4.75
3108 4156 3.254024 TTCAGGGGCGTGCTCCTTC 62.254 63.158 11.44 0.00 46.69 3.46
3109 4157 3.249189 TTCAGGGGCGTGCTCCTT 61.249 61.111 11.44 0.00 46.69 3.36
3111 4159 3.553095 AAGTTCAGGGGCGTGCTCC 62.553 63.158 1.41 1.41 36.66 4.70
3112 4160 2.032681 AAGTTCAGGGGCGTGCTC 59.967 61.111 0.00 0.00 0.00 4.26
3113 4161 2.281761 CAAGTTCAGGGGCGTGCT 60.282 61.111 0.00 0.00 0.00 4.40
3114 4162 4.043200 GCAAGTTCAGGGGCGTGC 62.043 66.667 0.00 0.00 33.59 5.34
3115 4163 2.281761 AGCAAGTTCAGGGGCGTG 60.282 61.111 0.00 0.00 0.00 5.34
3116 4164 2.032681 GAGCAAGTTCAGGGGCGT 59.967 61.111 0.00 0.00 0.00 5.68
3117 4165 2.747855 GGAGCAAGTTCAGGGGCG 60.748 66.667 0.00 0.00 0.00 6.13
3118 4166 2.361737 GGGAGCAAGTTCAGGGGC 60.362 66.667 0.00 0.00 0.00 5.80
3119 4167 2.045926 CGGGAGCAAGTTCAGGGG 60.046 66.667 0.00 0.00 0.00 4.79
3160 4208 4.072088 GTGAAGAACGGCGGCGTG 62.072 66.667 38.07 10.46 0.00 5.34
3184 4232 4.803426 GAGGAGTGCTCGGCCACG 62.803 72.222 2.24 0.00 40.59 4.94
3185 4233 4.459089 GGAGGAGTGCTCGGCCAC 62.459 72.222 2.24 0.00 35.98 5.01
3189 4237 4.787280 AGGGGGAGGAGTGCTCGG 62.787 72.222 5.49 0.00 0.00 4.63
3190 4238 3.151022 GAGGGGGAGGAGTGCTCG 61.151 72.222 5.49 0.00 0.00 5.03
3191 4239 3.151022 CGAGGGGGAGGAGTGCTC 61.151 72.222 2.44 2.44 0.00 4.26
3194 4242 3.465403 CAGCGAGGGGGAGGAGTG 61.465 72.222 0.00 0.00 0.00 3.51
3232 4280 4.090057 GAGTTTGTCGCTGCGGCC 62.090 66.667 24.84 14.37 34.44 6.13
3233 4281 4.430423 CGAGTTTGTCGCTGCGGC 62.430 66.667 21.13 21.13 43.03 6.53
3241 4289 2.383527 CCTCGGCTGCGAGTTTGTC 61.384 63.158 16.25 0.00 34.46 3.18
3242 4290 2.357517 CCTCGGCTGCGAGTTTGT 60.358 61.111 16.25 0.00 34.46 2.83
3243 4291 3.793144 GCCTCGGCTGCGAGTTTG 61.793 66.667 16.25 6.41 38.26 2.93
3244 4292 4.314440 TGCCTCGGCTGCGAGTTT 62.314 61.111 9.65 0.00 42.51 2.66
3310 4358 4.803908 CCCTTTGCTCCCGCTCCC 62.804 72.222 0.00 0.00 36.97 4.30
3369 4417 2.113433 ATCTCCGTCGTGTCCGAGG 61.113 63.158 0.00 0.00 45.26 4.63
3370 4418 1.062685 CATCTCCGTCGTGTCCGAG 59.937 63.158 0.00 0.00 45.26 4.63
3371 4419 1.366854 CTCATCTCCGTCGTGTCCGA 61.367 60.000 0.00 0.00 41.73 4.55
3372 4420 1.062685 CTCATCTCCGTCGTGTCCG 59.937 63.158 0.00 0.00 0.00 4.79
3373 4421 0.378962 CTCTCATCTCCGTCGTGTCC 59.621 60.000 0.00 0.00 0.00 4.02
3374 4422 0.248296 GCTCTCATCTCCGTCGTGTC 60.248 60.000 0.00 0.00 0.00 3.67
3375 4423 0.960861 TGCTCTCATCTCCGTCGTGT 60.961 55.000 0.00 0.00 0.00 4.49
3376 4424 0.524392 GTGCTCTCATCTCCGTCGTG 60.524 60.000 0.00 0.00 0.00 4.35
3377 4425 1.803943 GTGCTCTCATCTCCGTCGT 59.196 57.895 0.00 0.00 0.00 4.34
3378 4426 1.297967 CGTGCTCTCATCTCCGTCG 60.298 63.158 0.00 0.00 0.00 5.12
3379 4427 1.064946 CCGTGCTCTCATCTCCGTC 59.935 63.158 0.00 0.00 0.00 4.79
3380 4428 1.378646 TCCGTGCTCTCATCTCCGT 60.379 57.895 0.00 0.00 0.00 4.69
3381 4429 1.358402 CTCCGTGCTCTCATCTCCG 59.642 63.158 0.00 0.00 0.00 4.63
3382 4430 0.753479 TCCTCCGTGCTCTCATCTCC 60.753 60.000 0.00 0.00 0.00 3.71
3383 4431 1.066908 CTTCCTCCGTGCTCTCATCTC 59.933 57.143 0.00 0.00 0.00 2.75
3384 4432 1.110442 CTTCCTCCGTGCTCTCATCT 58.890 55.000 0.00 0.00 0.00 2.90
3385 4433 1.066908 CTCTTCCTCCGTGCTCTCATC 59.933 57.143 0.00 0.00 0.00 2.92
3386 4434 1.110442 CTCTTCCTCCGTGCTCTCAT 58.890 55.000 0.00 0.00 0.00 2.90
3387 4435 0.967887 CCTCTTCCTCCGTGCTCTCA 60.968 60.000 0.00 0.00 0.00 3.27
3388 4436 1.671901 CCCTCTTCCTCCGTGCTCTC 61.672 65.000 0.00 0.00 0.00 3.20
3389 4437 1.684049 CCCTCTTCCTCCGTGCTCT 60.684 63.158 0.00 0.00 0.00 4.09
3390 4438 1.671901 CTCCCTCTTCCTCCGTGCTC 61.672 65.000 0.00 0.00 0.00 4.26
3391 4439 1.684049 CTCCCTCTTCCTCCGTGCT 60.684 63.158 0.00 0.00 0.00 4.40
3392 4440 1.545706 AACTCCCTCTTCCTCCGTGC 61.546 60.000 0.00 0.00 0.00 5.34
3393 4441 0.533032 GAACTCCCTCTTCCTCCGTG 59.467 60.000 0.00 0.00 0.00 4.94
3394 4442 0.410270 AGAACTCCCTCTTCCTCCGT 59.590 55.000 0.00 0.00 0.00 4.69
3395 4443 1.107945 GAGAACTCCCTCTTCCTCCG 58.892 60.000 0.00 0.00 0.00 4.63
3396 4444 1.491668 GGAGAACTCCCTCTTCCTCC 58.508 60.000 9.50 0.00 43.94 4.30
3406 4454 4.019983 TCCGAGCAGGAGAACTCC 57.980 61.111 12.42 12.42 45.98 3.85
3414 4462 3.003173 TCCCCAACTCCGAGCAGG 61.003 66.667 0.00 0.00 42.97 4.85
3415 4463 1.831652 AACTCCCCAACTCCGAGCAG 61.832 60.000 0.00 0.00 0.00 4.24
3416 4464 1.841556 AACTCCCCAACTCCGAGCA 60.842 57.895 0.00 0.00 0.00 4.26
3417 4465 1.376037 CAACTCCCCAACTCCGAGC 60.376 63.158 0.00 0.00 0.00 5.03
3418 4466 1.192146 TCCAACTCCCCAACTCCGAG 61.192 60.000 0.00 0.00 0.00 4.63
3419 4467 0.765135 TTCCAACTCCCCAACTCCGA 60.765 55.000 0.00 0.00 0.00 4.55
3420 4468 0.605589 GTTCCAACTCCCCAACTCCG 60.606 60.000 0.00 0.00 0.00 4.63
3421 4469 0.251209 GGTTCCAACTCCCCAACTCC 60.251 60.000 0.00 0.00 0.00 3.85
3422 4470 0.251209 GGGTTCCAACTCCCCAACTC 60.251 60.000 0.00 0.00 38.37 3.01
3423 4471 1.851267 GGGTTCCAACTCCCCAACT 59.149 57.895 0.00 0.00 38.37 3.16
3424 4472 1.602605 CGGGTTCCAACTCCCCAAC 60.603 63.158 0.00 0.00 40.54 3.77
3425 4473 2.840576 CGGGTTCCAACTCCCCAA 59.159 61.111 0.00 0.00 40.54 4.12
3426 4474 3.961414 GCGGGTTCCAACTCCCCA 61.961 66.667 0.00 0.00 40.54 4.96
3427 4475 3.647771 AGCGGGTTCCAACTCCCC 61.648 66.667 0.00 0.00 40.54 4.81
3428 4476 2.359975 CAGCGGGTTCCAACTCCC 60.360 66.667 0.00 0.00 40.26 4.30
3429 4477 3.056328 GCAGCGGGTTCCAACTCC 61.056 66.667 0.00 0.00 0.00 3.85
3430 4478 3.056328 GGCAGCGGGTTCCAACTC 61.056 66.667 0.00 0.00 0.00 3.01
3453 4501 3.951769 ATGGTGCCAAGGCTGGAGC 62.952 63.158 12.96 2.45 46.92 4.70
3454 4502 2.050350 CATGGTGCCAAGGCTGGAG 61.050 63.158 12.96 0.00 46.92 3.86
3455 4503 2.036098 CATGGTGCCAAGGCTGGA 59.964 61.111 12.96 0.00 46.92 3.86
3456 4504 3.072468 CCATGGTGCCAAGGCTGG 61.072 66.667 12.96 7.64 46.65 4.85
3460 4508 2.440796 ATCGCCATGGTGCCAAGG 60.441 61.111 20.97 8.04 37.80 3.61
3461 4509 2.048023 ACATCGCCATGGTGCCAAG 61.048 57.895 20.97 11.72 33.82 3.61
3462 4510 2.035469 ACATCGCCATGGTGCCAA 59.965 55.556 20.97 3.82 33.82 4.52
3463 4511 2.751036 CACATCGCCATGGTGCCA 60.751 61.111 20.97 4.63 33.82 4.92
3464 4512 3.520862 CCACATCGCCATGGTGCC 61.521 66.667 20.97 0.00 33.82 5.01
3465 4513 2.438254 TCCACATCGCCATGGTGC 60.438 61.111 20.97 1.72 37.27 5.01
3466 4514 1.078214 ACTCCACATCGCCATGGTG 60.078 57.895 19.75 19.75 37.27 4.17
3467 4515 1.221840 GACTCCACATCGCCATGGT 59.778 57.895 14.67 0.00 37.27 3.55
3468 4516 1.524621 GGACTCCACATCGCCATGG 60.525 63.158 7.63 7.63 37.32 3.66
3469 4517 0.812811 CAGGACTCCACATCGCCATG 60.813 60.000 0.00 0.00 35.92 3.66
3470 4518 1.524002 CAGGACTCCACATCGCCAT 59.476 57.895 0.00 0.00 0.00 4.40
3471 4519 2.981302 CAGGACTCCACATCGCCA 59.019 61.111 0.00 0.00 0.00 5.69
3472 4520 2.512515 GCAGGACTCCACATCGCC 60.513 66.667 0.00 0.00 0.00 5.54
3473 4521 2.887568 CGCAGGACTCCACATCGC 60.888 66.667 0.00 0.00 0.00 4.58


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

AutoCloner maintained by Alex Coulton.