Multiple sequence alignment - TraesCS3B01G208100

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 TraesCS3B01G208100 chr3B 100.000 3894 0 0 1 3894 243938211 243942104 0.000000e+00 7191.0
1 TraesCS3B01G208100 chr3B 78.216 964 193 13 1938 2895 244236766 244237718 5.570000e-168 601.0
2 TraesCS3B01G208100 chr3A 95.567 1895 50 9 1686 3549 198491515 198489624 0.000000e+00 3003.0
3 TraesCS3B01G208100 chr3A 94.114 1529 68 11 1 1517 198493443 198491925 0.000000e+00 2305.0
4 TraesCS3B01G208100 chr3A 77.676 981 202 13 1957 2928 197862015 197861043 2.020000e-162 582.0
5 TraesCS3B01G208100 chr3A 89.916 119 6 4 1564 1681 198491836 198491723 8.720000e-32 148.0
6 TraesCS3B01G208100 chr3A 91.346 104 6 3 1481 1583 747595935 747596036 5.250000e-29 139.0
7 TraesCS3B01G208100 chr3A 91.346 104 6 3 1481 1583 747598855 747598956 5.250000e-29 139.0
8 TraesCS3B01G208100 chr3D 96.353 1700 35 7 1718 3412 168853353 168855030 0.000000e+00 2771.0
9 TraesCS3B01G208100 chr3D 92.702 1521 61 16 1 1500 168851294 168852785 0.000000e+00 2148.0
10 TraesCS3B01G208100 chr3D 78.049 984 193 19 1957 2928 169426753 169427725 2.000000e-167 599.0
11 TraesCS3B01G208100 chr3D 95.455 44 2 0 1679 1722 168853080 168853123 1.940000e-08 71.3
12 TraesCS3B01G208100 chr7D 94.769 325 13 4 3568 3891 422346670 422346991 1.610000e-138 503.0
13 TraesCS3B01G208100 chr5B 94.154 325 16 2 3568 3891 454685063 454685385 3.500000e-135 492.0
14 TraesCS3B01G208100 chr5B 93.189 323 18 3 3570 3891 302058757 302059076 4.550000e-129 472.0
15 TraesCS3B01G208100 chr5B 95.789 95 3 1 1495 1589 559407975 559408068 6.740000e-33 152.0
16 TraesCS3B01G208100 chr7B 93.231 325 20 2 3568 3891 384100156 384100479 9.790000e-131 477.0
17 TraesCS3B01G208100 chr7B 90.476 105 9 1 1483 1587 66196606 66196709 1.890000e-28 137.0
18 TraesCS3B01G208100 chr7A 93.272 327 13 6 3568 3891 189340380 189340700 1.270000e-129 473.0
19 TraesCS3B01G208100 chr2B 93.231 325 16 4 3568 3891 235076382 235076701 1.270000e-129 473.0
20 TraesCS3B01G208100 chr2D 93.189 323 19 3 3568 3889 619861562 619861242 4.550000e-129 472.0
21 TraesCS3B01G208100 chr2D 94.845 97 4 1 1491 1587 87247205 87247300 2.420000e-32 150.0
22 TraesCS3B01G208100 chr2D 92.381 105 5 3 1488 1592 638323173 638323072 3.140000e-31 147.0
23 TraesCS3B01G208100 chr4D 92.638 326 19 4 3568 3891 447913614 447913936 7.620000e-127 464.0
24 TraesCS3B01G208100 chr1B 92.615 325 19 3 3568 3891 593929049 593929369 2.740000e-126 462.0
25 TraesCS3B01G208100 chr5A 95.745 94 2 2 1492 1584 38014614 38014706 2.420000e-32 150.0
26 TraesCS3B01G208100 chr2A 93.814 97 5 1 1491 1587 87444965 87445060 1.130000e-30 145.0
27 TraesCS3B01G208100 chr4A 93.750 96 5 1 1491 1586 712733801 712733707 4.060000e-30 143.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3B01G208100 chr3B 243938211 243942104 3893 False 7191.000000 7191 100.000000 1 3894 1 chr3B.!!$F1 3893
1 TraesCS3B01G208100 chr3B 244236766 244237718 952 False 601.000000 601 78.216000 1938 2895 1 chr3B.!!$F2 957
2 TraesCS3B01G208100 chr3A 198489624 198493443 3819 True 1818.666667 3003 93.199000 1 3549 3 chr3A.!!$R2 3548
3 TraesCS3B01G208100 chr3A 197861043 197862015 972 True 582.000000 582 77.676000 1957 2928 1 chr3A.!!$R1 971
4 TraesCS3B01G208100 chr3D 168851294 168855030 3736 False 1663.433333 2771 94.836667 1 3412 3 chr3D.!!$F2 3411
5 TraesCS3B01G208100 chr3D 169426753 169427725 972 False 599.000000 599 78.049000 1957 2928 1 chr3D.!!$F1 971

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
142 143 0.178990 ACCTGGTGCCCAAGAAAGAC 60.179 55.0 0.0 0.0 30.8 3.01 F
1297 1317 0.404040 ACCCGGCAAGAAGATGGAAA 59.596 50.0 0.0 0.0 0.0 3.13 F
1586 1648 0.257039 TGGGACGGAGGGAGTACTAC 59.743 60.0 0.0 0.0 0.0 2.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1306 1326 0.843309 TGAGGACCAGCTTTGGAACA 59.157 50.000 0.0 0.0 0.00 3.18 R
2293 2795 0.107703 TGCGAGTTGACCATCCATCC 60.108 55.000 0.0 0.0 0.00 3.51 R
3585 4119 1.007524 CATTTTAAAATGCGGACGCGC 60.008 47.619 24.0 0.0 45.51 6.86 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
66 67 7.306749 CGATTTATTATTGTTGGGAAATGCAGC 60.307 37.037 0.00 0.00 0.00 5.25
90 91 7.284034 AGCCATAGTAACCATCAATTTCAGAAG 59.716 37.037 0.00 0.00 0.00 2.85
128 129 5.461032 TTTGCCAGTGTAATTTAACCTGG 57.539 39.130 14.21 14.21 44.43 4.45
130 131 3.823873 TGCCAGTGTAATTTAACCTGGTG 59.176 43.478 17.48 0.00 43.68 4.17
142 143 0.178990 ACCTGGTGCCCAAGAAAGAC 60.179 55.000 0.00 0.00 30.80 3.01
146 147 0.804989 GGTGCCCAAGAAAGACATCG 59.195 55.000 0.00 0.00 0.00 3.84
147 148 0.804989 GTGCCCAAGAAAGACATCGG 59.195 55.000 0.00 0.00 0.00 4.18
168 169 1.354337 CGTGTCATTCAGCCTCGTGG 61.354 60.000 0.00 0.00 0.00 4.94
197 205 7.060600 TCAATTCTCGATTTCACATACACAC 57.939 36.000 0.00 0.00 0.00 3.82
214 222 3.005897 ACACACAAGTACGAGATGCTCTT 59.994 43.478 0.00 0.00 0.00 2.85
215 223 3.366121 CACACAAGTACGAGATGCTCTTG 59.634 47.826 0.00 0.00 40.54 3.02
228 236 1.269361 TGCTCTTGCATTGCACACAAG 60.269 47.619 11.66 13.73 45.31 3.16
240 248 3.674997 TGCACACAAGGGATAAGTTCTC 58.325 45.455 0.00 0.00 0.00 2.87
254 262 3.266510 AGTTCTCTTTGAGTGTGCACA 57.733 42.857 17.42 17.42 0.00 4.57
271 279 5.163513 GTGCACAGGTTTTGGAATATCTTG 58.836 41.667 13.17 0.00 0.00 3.02
272 280 4.220382 TGCACAGGTTTTGGAATATCTTGG 59.780 41.667 0.00 0.00 0.00 3.61
276 284 3.448660 AGGTTTTGGAATATCTTGGCAGC 59.551 43.478 0.00 0.00 0.00 5.25
294 302 1.280998 AGCGGTACCTAACATGCCTTT 59.719 47.619 10.90 0.00 32.91 3.11
311 328 3.243873 GCCTTTCTTCCCTTGAAAGTTGG 60.244 47.826 13.04 3.21 45.13 3.77
506 523 4.347000 TCACCCAAACTTAAGTGAGCTACT 59.653 41.667 9.34 0.00 42.89 2.57
513 530 7.348201 CAAACTTAAGTGAGCTACTTCTGTTG 58.652 38.462 9.34 1.37 46.55 3.33
538 555 8.585018 TGAGATGTCTAGAAAACACACTTGATA 58.415 33.333 0.00 0.00 0.00 2.15
543 560 8.085909 TGTCTAGAAAACACACTTGATATTCGA 58.914 33.333 0.00 0.00 0.00 3.71
679 698 3.907474 TCCAGTAGACAATTGTCCCAAGA 59.093 43.478 30.34 19.39 45.85 3.02
694 713 2.490902 CCCAAGAAAGGGGTTTAGCTGT 60.491 50.000 0.00 0.00 45.60 4.40
716 736 9.296400 GCTGTCTCAAAGTTAAATAAACAACAA 57.704 29.630 0.00 0.00 40.83 2.83
744 764 2.483877 TGCATCGTCTTAAACAAGCCTG 59.516 45.455 0.00 0.00 0.00 4.85
745 765 2.742053 GCATCGTCTTAAACAAGCCTGA 59.258 45.455 0.00 0.00 0.00 3.86
788 808 7.864379 TCTTGCTAAGATTGCTTTCTTCTTTTG 59.136 33.333 5.19 0.00 37.20 2.44
855 875 6.208644 CCATGTTTCGTCATTTCTTTGAAGT 58.791 36.000 0.00 0.00 0.00 3.01
882 902 5.978919 TGTCATTGTTTTGCAGTTTCATCTC 59.021 36.000 0.00 0.00 0.00 2.75
914 934 9.182214 GGTGAATATGCTATTTGTGATATCCAT 57.818 33.333 0.00 0.00 0.00 3.41
1185 1205 3.659786 TCACAGTAGTGGAAACATTCGG 58.340 45.455 1.92 0.00 45.91 4.30
1281 1301 2.547007 CGGGGTCAAATGTCAAAAACCC 60.547 50.000 0.00 0.00 44.63 4.11
1283 1303 2.547007 GGGTCAAATGTCAAAAACCCGG 60.547 50.000 0.00 0.00 37.21 5.73
1297 1317 0.404040 ACCCGGCAAGAAGATGGAAA 59.596 50.000 0.00 0.00 0.00 3.13
1364 1384 8.816640 AATAAATTGGTGTTCTGTGATTTCAC 57.183 30.769 3.72 3.72 46.59 3.18
1365 1385 4.853924 ATTGGTGTTCTGTGATTTCACC 57.146 40.909 8.16 5.80 45.88 4.02
1366 1386 3.576078 TGGTGTTCTGTGATTTCACCT 57.424 42.857 8.16 0.00 45.82 4.00
1367 1387 3.476552 TGGTGTTCTGTGATTTCACCTC 58.523 45.455 8.16 0.00 45.82 3.85
1373 1393 6.876257 GTGTTCTGTGATTTCACCTCTATCTT 59.124 38.462 8.16 0.00 45.88 2.40
1390 1410 7.011857 CCTCTATCTTTGCTTCTTTATGTGGTC 59.988 40.741 0.00 0.00 0.00 4.02
1392 1412 8.103305 TCTATCTTTGCTTCTTTATGTGGTCTT 58.897 33.333 0.00 0.00 0.00 3.01
1393 1413 6.959639 TCTTTGCTTCTTTATGTGGTCTTT 57.040 33.333 0.00 0.00 0.00 2.52
1396 1416 7.706179 TCTTTGCTTCTTTATGTGGTCTTTTTG 59.294 33.333 0.00 0.00 0.00 2.44
1437 1458 8.262227 TCATATTTACGGTCTCAATAGTTGGTT 58.738 33.333 0.00 0.00 0.00 3.67
1466 1487 7.386573 TGCATGTTGTATATATTTAGGACCACG 59.613 37.037 0.00 0.00 0.00 4.94
1487 1508 0.383231 AATGAAGCTGCTTATGGCGC 59.617 50.000 15.95 0.00 45.43 6.53
1496 1517 3.607078 GCTGCTTATGGCGCTGTAAATAC 60.607 47.826 7.64 0.87 45.43 1.89
1509 1530 4.261530 GCTGTAAATACTACTCCCTCCGTC 60.262 50.000 0.00 0.00 0.00 4.79
1513 1534 1.229131 TACTACTCCCTCCGTCCCAT 58.771 55.000 0.00 0.00 0.00 4.00
1515 1536 1.572415 ACTACTCCCTCCGTCCCATAA 59.428 52.381 0.00 0.00 0.00 1.90
1517 1538 1.424638 ACTCCCTCCGTCCCATAATG 58.575 55.000 0.00 0.00 0.00 1.90
1518 1539 1.344087 ACTCCCTCCGTCCCATAATGT 60.344 52.381 0.00 0.00 0.00 2.71
1519 1540 2.090943 ACTCCCTCCGTCCCATAATGTA 60.091 50.000 0.00 0.00 0.00 2.29
1520 1541 2.969950 CTCCCTCCGTCCCATAATGTAA 59.030 50.000 0.00 0.00 0.00 2.41
1521 1542 3.386063 TCCCTCCGTCCCATAATGTAAA 58.614 45.455 0.00 0.00 0.00 2.01
1527 1569 5.996644 TCCGTCCCATAATGTAAAGATGTT 58.003 37.500 0.00 0.00 0.00 2.71
1529 1571 6.887545 TCCGTCCCATAATGTAAAGATGTTTT 59.112 34.615 0.00 0.00 0.00 2.43
1562 1604 6.378757 GACTAGAGTCAAAAAGCGTCTTAC 57.621 41.667 4.77 0.00 44.18 2.34
1566 1628 8.086522 ACTAGAGTCAAAAAGCGTCTTACATTA 58.913 33.333 0.00 0.00 0.00 1.90
1570 1632 6.027749 GTCAAAAAGCGTCTTACATTATGGG 58.972 40.000 0.00 0.00 0.00 4.00
1584 1646 1.229131 TATGGGACGGAGGGAGTACT 58.771 55.000 0.00 0.00 0.00 2.73
1585 1647 1.229131 ATGGGACGGAGGGAGTACTA 58.771 55.000 0.00 0.00 0.00 1.82
1586 1648 0.257039 TGGGACGGAGGGAGTACTAC 59.743 60.000 0.00 0.00 0.00 2.73
1592 1654 3.022406 ACGGAGGGAGTACTACATGAAC 58.978 50.000 7.57 0.00 0.00 3.18
1638 1701 1.564348 ACCCACCTCACTTTGTCTTGT 59.436 47.619 0.00 0.00 0.00 3.16
1760 2259 9.252962 CAAACTTCACTAAAGAAATGAGCAAAT 57.747 29.630 0.00 0.00 38.44 2.32
1814 2313 4.261405 CCTGTTTCATGTTTTCAGCCGTTA 60.261 41.667 0.00 0.00 0.00 3.18
2086 2588 3.006752 CAGATCCTTCATCCTCTAGGTGC 59.993 52.174 0.00 0.00 36.34 5.01
2293 2795 2.631267 TCACAACATGGTGGATCATCG 58.369 47.619 16.70 0.00 39.27 3.84
2500 3002 3.492309 GGTCTACATGGAGTGCTCATGAG 60.492 52.174 18.84 18.84 43.25 2.90
3295 3803 7.432252 CCATTCTCTTTTGTAATCGTTATTGGC 59.568 37.037 0.00 0.00 0.00 4.52
3319 3827 8.343366 GGCCAGTTAGCATAATTTAAAGACTAC 58.657 37.037 0.00 0.00 0.00 2.73
3367 3875 2.042464 TGAGTGTTTGGAGACTGCTCT 58.958 47.619 0.00 0.00 41.06 4.09
3428 3936 0.249615 TAGCTCATCTGGCGATGCAC 60.250 55.000 12.44 8.16 45.32 4.57
3445 3954 4.665833 TGCACATGTACTATGTACTCCC 57.334 45.455 0.00 1.01 0.00 4.30
3452 3961 4.789807 TGTACTATGTACTCCCTCTGTCC 58.210 47.826 8.94 0.00 0.00 4.02
3460 3969 7.604657 ATGTACTCCCTCTGTCCTAAAATAG 57.395 40.000 0.00 0.00 0.00 1.73
3462 3971 6.606395 TGTACTCCCTCTGTCCTAAAATAGAC 59.394 42.308 0.00 0.00 0.00 2.59
3463 3972 5.590818 ACTCCCTCTGTCCTAAAATAGACA 58.409 41.667 0.00 0.00 0.00 3.41
3517 4051 6.639632 AGATTTTACAAGATGTGCAAGTGT 57.360 33.333 0.00 0.00 0.00 3.55
3522 4056 1.948834 CAAGATGTGCAAGTGTCACCA 59.051 47.619 0.00 0.00 33.71 4.17
3549 4083 5.031066 TGAATGGTTAACCCGAGGATTAG 57.969 43.478 21.97 0.00 35.15 1.73
3550 4084 4.717778 TGAATGGTTAACCCGAGGATTAGA 59.282 41.667 21.97 0.00 35.15 2.10
3551 4085 4.957684 ATGGTTAACCCGAGGATTAGAG 57.042 45.455 21.97 0.00 35.15 2.43
3552 4086 2.433239 TGGTTAACCCGAGGATTAGAGC 59.567 50.000 21.97 0.00 35.15 4.09
3553 4087 2.433239 GGTTAACCCGAGGATTAGAGCA 59.567 50.000 14.16 0.00 0.00 4.26
3554 4088 3.118519 GGTTAACCCGAGGATTAGAGCAA 60.119 47.826 14.16 0.00 0.00 3.91
3555 4089 2.693267 AACCCGAGGATTAGAGCAAC 57.307 50.000 0.00 0.00 0.00 4.17
3556 4090 1.867363 ACCCGAGGATTAGAGCAACT 58.133 50.000 0.00 0.00 0.00 3.16
3557 4091 1.757699 ACCCGAGGATTAGAGCAACTC 59.242 52.381 0.00 0.00 0.00 3.01
3558 4092 1.069358 CCCGAGGATTAGAGCAACTCC 59.931 57.143 0.00 0.00 0.00 3.85
3559 4093 1.757118 CCGAGGATTAGAGCAACTCCA 59.243 52.381 0.00 0.00 0.00 3.86
3560 4094 2.168521 CCGAGGATTAGAGCAACTCCAA 59.831 50.000 0.00 0.00 0.00 3.53
3561 4095 3.190874 CGAGGATTAGAGCAACTCCAAC 58.809 50.000 0.00 0.00 0.00 3.77
3562 4096 3.368427 CGAGGATTAGAGCAACTCCAACA 60.368 47.826 0.00 0.00 0.00 3.33
3563 4097 4.187694 GAGGATTAGAGCAACTCCAACAG 58.812 47.826 0.00 0.00 0.00 3.16
3564 4098 3.054802 AGGATTAGAGCAACTCCAACAGG 60.055 47.826 0.00 0.00 0.00 4.00
3565 4099 2.859165 TTAGAGCAACTCCAACAGGG 57.141 50.000 0.00 0.00 38.37 4.45
3566 4100 0.324943 TAGAGCAACTCCAACAGGGC 59.675 55.000 0.00 0.00 36.21 5.19
3567 4101 2.281761 AGCAACTCCAACAGGGCG 60.282 61.111 0.00 0.00 36.21 6.13
3568 4102 3.365265 GCAACTCCAACAGGGCGG 61.365 66.667 0.00 0.00 36.21 6.13
3569 4103 2.113139 CAACTCCAACAGGGCGGT 59.887 61.111 0.00 0.00 36.21 5.68
3570 4104 1.966451 CAACTCCAACAGGGCGGTC 60.966 63.158 0.00 0.00 36.21 4.79
3571 4105 3.530910 AACTCCAACAGGGCGGTCG 62.531 63.158 0.00 0.00 36.21 4.79
3572 4106 4.760047 CTCCAACAGGGCGGTCGG 62.760 72.222 0.00 0.00 36.21 4.79
3605 4139 2.949965 CGCGTCCGCATTTTAAAATG 57.050 45.000 28.85 28.85 46.55 2.32
3606 4140 1.581602 CGCGTCCGCATTTTAAAATGG 59.418 47.619 31.89 23.69 44.54 3.16
3613 4147 3.245518 GCATTTTAAAATGGGTCGGCT 57.754 42.857 31.89 1.65 44.54 5.52
3614 4148 3.595173 GCATTTTAAAATGGGTCGGCTT 58.405 40.909 31.89 0.97 44.54 4.35
3615 4149 3.370672 GCATTTTAAAATGGGTCGGCTTG 59.629 43.478 31.89 12.85 44.54 4.01
3616 4150 4.815269 CATTTTAAAATGGGTCGGCTTGA 58.185 39.130 26.58 0.00 41.54 3.02
3617 4151 4.625311 CATTTTAAAATGGGTCGGCTTGAC 59.375 41.667 26.58 1.60 41.54 3.18
3618 4152 5.566627 CATTTTAAAATGGGTCGGCTTGACT 60.567 40.000 26.58 0.00 41.73 3.41
3619 4153 7.551274 CATTTTAAAATGGGTCGGCTTGACTG 61.551 42.308 26.58 3.45 41.73 3.51
3620 4154 9.813470 CATTTTAAAATGGGTCGGCTTGACTGT 62.813 40.741 26.58 0.00 41.73 3.55
3624 4158 4.771127 GTCGGCTTGACTGTCCAA 57.229 55.556 5.17 0.00 44.58 3.53
3625 4159 2.235546 GTCGGCTTGACTGTCCAAC 58.764 57.895 5.17 0.00 44.58 3.77
3626 4160 1.300620 TCGGCTTGACTGTCCAACG 60.301 57.895 5.17 5.29 0.00 4.10
3627 4161 2.317609 CGGCTTGACTGTCCAACGG 61.318 63.158 5.17 0.00 0.00 4.44
3628 4162 1.966451 GGCTTGACTGTCCAACGGG 60.966 63.158 5.17 0.00 0.00 5.28
3629 4163 1.966451 GCTTGACTGTCCAACGGGG 60.966 63.158 5.17 0.00 38.37 5.73
3630 4164 1.752198 CTTGACTGTCCAACGGGGA 59.248 57.895 5.17 0.00 45.89 4.81
3644 4178 2.440247 GGGAGGCCGACCCAAATG 60.440 66.667 28.20 0.00 46.05 2.32
3645 4179 2.355115 GGAGGCCGACCCAAATGT 59.645 61.111 10.32 0.00 36.11 2.71
3646 4180 2.046285 GGAGGCCGACCCAAATGTG 61.046 63.158 10.32 0.00 36.11 3.21
3647 4181 1.303317 GAGGCCGACCCAAATGTGT 60.303 57.895 0.00 0.00 36.11 3.72
3648 4182 1.303317 AGGCCGACCCAAATGTGTC 60.303 57.895 0.00 0.00 36.11 3.67
3649 4183 1.602323 GGCCGACCCAAATGTGTCA 60.602 57.895 0.00 0.00 0.00 3.58
3650 4184 1.586154 GGCCGACCCAAATGTGTCAG 61.586 60.000 0.00 0.00 0.00 3.51
3651 4185 1.875963 CCGACCCAAATGTGTCAGC 59.124 57.895 0.00 0.00 0.00 4.26
3652 4186 1.497278 CGACCCAAATGTGTCAGCG 59.503 57.895 0.00 0.00 0.00 5.18
3653 4187 1.227999 CGACCCAAATGTGTCAGCGT 61.228 55.000 0.00 0.00 0.00 5.07
3654 4188 0.238289 GACCCAAATGTGTCAGCGTG 59.762 55.000 0.00 0.00 0.00 5.34
3655 4189 0.179032 ACCCAAATGTGTCAGCGTGA 60.179 50.000 0.00 0.00 0.00 4.35
3656 4190 0.950836 CCCAAATGTGTCAGCGTGAA 59.049 50.000 0.00 0.00 0.00 3.18
3657 4191 1.336440 CCCAAATGTGTCAGCGTGAAA 59.664 47.619 0.00 0.00 0.00 2.69
3658 4192 2.223688 CCCAAATGTGTCAGCGTGAAAA 60.224 45.455 0.00 0.00 0.00 2.29
3659 4193 3.443037 CCAAATGTGTCAGCGTGAAAAA 58.557 40.909 0.00 0.00 0.00 1.94
3686 4220 6.952935 AAACAAGTTTGCACGAAATAAACA 57.047 29.167 0.00 0.00 36.91 2.83
3687 4221 7.532682 AAACAAGTTTGCACGAAATAAACAT 57.467 28.000 0.00 0.00 36.91 2.71
3688 4222 8.635877 AAACAAGTTTGCACGAAATAAACATA 57.364 26.923 0.00 0.00 36.91 2.29
3689 4223 8.635877 AACAAGTTTGCACGAAATAAACATAA 57.364 26.923 0.00 0.00 36.91 1.90
3690 4224 8.810652 ACAAGTTTGCACGAAATAAACATAAT 57.189 26.923 0.00 0.00 36.91 1.28
3691 4225 9.255304 ACAAGTTTGCACGAAATAAACATAATT 57.745 25.926 0.00 0.00 36.91 1.40
3707 4241 8.696410 AAACATAATTAAACATAAAGTGGCCG 57.304 30.769 0.00 0.00 0.00 6.13
3708 4242 6.801575 ACATAATTAAACATAAAGTGGCCGG 58.198 36.000 0.00 0.00 0.00 6.13
3709 4243 6.378848 ACATAATTAAACATAAAGTGGCCGGT 59.621 34.615 1.90 0.00 0.00 5.28
3710 4244 4.976224 ATTAAACATAAAGTGGCCGGTC 57.024 40.909 0.00 0.00 0.00 4.79
3711 4245 2.279935 AAACATAAAGTGGCCGGTCA 57.720 45.000 3.51 3.51 0.00 4.02
3712 4246 2.279935 AACATAAAGTGGCCGGTCAA 57.720 45.000 12.16 0.00 0.00 3.18
3713 4247 2.279935 ACATAAAGTGGCCGGTCAAA 57.720 45.000 12.16 0.00 0.00 2.69
3714 4248 1.883926 ACATAAAGTGGCCGGTCAAAC 59.116 47.619 12.16 0.00 0.00 2.93
3715 4249 1.135803 CATAAAGTGGCCGGTCAAACG 60.136 52.381 12.16 0.00 0.00 3.60
3716 4250 1.508808 TAAAGTGGCCGGTCAAACGC 61.509 55.000 12.16 0.00 0.00 4.84
3723 4257 3.955101 CGGTCAAACGCCGGCAAA 61.955 61.111 28.98 2.82 44.98 3.68
3724 4258 2.050442 GGTCAAACGCCGGCAAAG 60.050 61.111 28.98 13.29 0.00 2.77
3725 4259 2.719354 GTCAAACGCCGGCAAAGT 59.281 55.556 28.98 14.07 0.00 2.66
3726 4260 1.370051 GTCAAACGCCGGCAAAGTC 60.370 57.895 28.98 8.01 0.00 3.01
3727 4261 2.050442 CAAACGCCGGCAAAGTCC 60.050 61.111 28.98 0.00 0.00 3.85
3728 4262 2.517402 AAACGCCGGCAAAGTCCA 60.517 55.556 28.98 0.00 0.00 4.02
3729 4263 2.841160 AAACGCCGGCAAAGTCCAC 61.841 57.895 28.98 0.00 0.00 4.02
3732 4266 2.349755 GCCGGCAAAGTCCACCTA 59.650 61.111 24.80 0.00 0.00 3.08
3733 4267 1.302993 GCCGGCAAAGTCCACCTAA 60.303 57.895 24.80 0.00 0.00 2.69
3734 4268 0.891904 GCCGGCAAAGTCCACCTAAA 60.892 55.000 24.80 0.00 0.00 1.85
3735 4269 1.834188 CCGGCAAAGTCCACCTAAAT 58.166 50.000 0.00 0.00 0.00 1.40
3736 4270 1.743394 CCGGCAAAGTCCACCTAAATC 59.257 52.381 0.00 0.00 0.00 2.17
3737 4271 2.618045 CCGGCAAAGTCCACCTAAATCT 60.618 50.000 0.00 0.00 0.00 2.40
3738 4272 3.370103 CCGGCAAAGTCCACCTAAATCTA 60.370 47.826 0.00 0.00 0.00 1.98
3739 4273 4.258543 CGGCAAAGTCCACCTAAATCTAA 58.741 43.478 0.00 0.00 0.00 2.10
3740 4274 4.881850 CGGCAAAGTCCACCTAAATCTAAT 59.118 41.667 0.00 0.00 0.00 1.73
3741 4275 6.053005 CGGCAAAGTCCACCTAAATCTAATA 58.947 40.000 0.00 0.00 0.00 0.98
3742 4276 6.540914 CGGCAAAGTCCACCTAAATCTAATAA 59.459 38.462 0.00 0.00 0.00 1.40
3743 4277 7.066525 CGGCAAAGTCCACCTAAATCTAATAAA 59.933 37.037 0.00 0.00 0.00 1.40
3744 4278 8.188799 GGCAAAGTCCACCTAAATCTAATAAAC 58.811 37.037 0.00 0.00 0.00 2.01
3745 4279 8.736244 GCAAAGTCCACCTAAATCTAATAAACA 58.264 33.333 0.00 0.00 0.00 2.83
3779 4313 3.443588 AAAAAGTCTGTGCCCGCC 58.556 55.556 0.00 0.00 0.00 6.13
3780 4314 1.152756 AAAAAGTCTGTGCCCGCCT 60.153 52.632 0.00 0.00 0.00 5.52
3781 4315 1.455383 AAAAAGTCTGTGCCCGCCTG 61.455 55.000 0.00 0.00 0.00 4.85
3805 4339 4.845580 CCCTGCACGCTGCCCTAG 62.846 72.222 7.38 0.00 44.23 3.02
3806 4340 3.774528 CCTGCACGCTGCCCTAGA 61.775 66.667 7.38 0.00 44.23 2.43
3807 4341 2.510238 CTGCACGCTGCCCTAGAC 60.510 66.667 7.38 0.00 44.23 2.59
3808 4342 4.435436 TGCACGCTGCCCTAGACG 62.435 66.667 7.38 0.00 44.23 4.18
3809 4343 4.436998 GCACGCTGCCCTAGACGT 62.437 66.667 0.00 0.00 37.42 4.34
3810 4344 2.202623 CACGCTGCCCTAGACGTC 60.203 66.667 7.70 7.70 37.16 4.34
3811 4345 3.812019 ACGCTGCCCTAGACGTCG 61.812 66.667 10.46 0.00 35.33 5.12
3812 4346 3.812019 CGCTGCCCTAGACGTCGT 61.812 66.667 10.46 0.00 0.00 4.34
3813 4347 2.102553 GCTGCCCTAGACGTCGTC 59.897 66.667 17.70 17.70 0.00 4.20
3814 4348 2.403987 CTGCCCTAGACGTCGTCG 59.596 66.667 19.11 6.52 37.67 5.12
3815 4349 3.109612 CTGCCCTAGACGTCGTCGG 62.110 68.421 19.11 15.24 41.85 4.79
3816 4350 4.549516 GCCCTAGACGTCGTCGGC 62.550 72.222 21.69 21.69 46.75 5.54
3822 4356 3.774702 GACGTCGTCGGCTTTGCC 61.775 66.667 10.05 0.00 46.75 4.52
3831 4365 2.924635 GGCTTTGCCCTTGCCCTT 60.925 61.111 0.00 0.00 44.06 3.95
3832 4366 2.344872 GCTTTGCCCTTGCCCTTG 59.655 61.111 0.00 0.00 36.33 3.61
3833 4367 2.344872 CTTTGCCCTTGCCCTTGC 59.655 61.111 0.00 0.00 36.33 4.01
3834 4368 3.240770 TTTGCCCTTGCCCTTGCC 61.241 61.111 0.00 0.00 36.33 4.52
3838 4372 2.999063 CCCTTGCCCTTGCCCTTG 60.999 66.667 0.00 0.00 36.33 3.61
3839 4373 2.118076 CCTTGCCCTTGCCCTTGA 59.882 61.111 0.00 0.00 36.33 3.02
3840 4374 2.278330 CCTTGCCCTTGCCCTTGAC 61.278 63.158 0.00 0.00 36.33 3.18
3841 4375 2.597217 TTGCCCTTGCCCTTGACG 60.597 61.111 0.00 0.00 36.33 4.35
3863 4397 3.417224 CGTCGTCGGTGAGGTCGA 61.417 66.667 0.00 0.00 32.80 4.20
3864 4398 2.747822 CGTCGTCGGTGAGGTCGAT 61.748 63.158 0.00 0.00 38.93 3.59
3865 4399 1.226323 GTCGTCGGTGAGGTCGATG 60.226 63.158 0.00 0.00 42.86 3.84
3866 4400 1.376295 TCGTCGGTGAGGTCGATGA 60.376 57.895 4.56 4.56 46.30 2.92
3867 4401 0.956902 TCGTCGGTGAGGTCGATGAA 60.957 55.000 6.01 0.00 45.76 2.57
3868 4402 0.523546 CGTCGGTGAGGTCGATGAAG 60.524 60.000 0.00 0.00 43.83 3.02
3869 4403 0.809385 GTCGGTGAGGTCGATGAAGA 59.191 55.000 0.00 0.00 38.93 2.87
3870 4404 0.809385 TCGGTGAGGTCGATGAAGAC 59.191 55.000 0.00 0.00 40.25 3.01
3876 4410 4.403976 GTCGATGAAGACCGGAGC 57.596 61.111 9.46 0.00 35.22 4.70
3877 4411 1.511305 GTCGATGAAGACCGGAGCA 59.489 57.895 9.46 0.00 35.22 4.26
3878 4412 0.526524 GTCGATGAAGACCGGAGCAG 60.527 60.000 9.46 0.00 35.22 4.24
3879 4413 1.227089 CGATGAAGACCGGAGCAGG 60.227 63.158 9.46 0.00 37.30 4.85
3880 4414 1.144936 GATGAAGACCGGAGCAGGG 59.855 63.158 9.46 0.00 35.02 4.45
3881 4415 2.932130 GATGAAGACCGGAGCAGGGC 62.932 65.000 9.46 0.00 40.48 5.19
3882 4416 4.475135 GAAGACCGGAGCAGGGCC 62.475 72.222 9.46 0.00 41.33 5.80
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
66 67 8.737168 TCTTCTGAAATTGATGGTTACTATGG 57.263 34.615 0.00 0.00 0.00 2.74
128 129 0.804989 CCGATGTCTTTCTTGGGCAC 59.195 55.000 0.00 0.00 0.00 5.01
130 131 1.087501 GTCCGATGTCTTTCTTGGGC 58.912 55.000 0.00 0.00 0.00 5.36
142 143 0.647410 GCTGAATGACACGTCCGATG 59.353 55.000 0.00 0.00 0.00 3.84
146 147 1.078759 CGAGGCTGAATGACACGTCC 61.079 60.000 0.00 0.00 33.08 4.79
147 148 2.363807 CGAGGCTGAATGACACGTC 58.636 57.895 0.00 0.00 33.08 4.34
168 169 5.862924 TGTGAAATCGAGAATTGAGGAAC 57.137 39.130 0.00 0.00 0.00 3.62
214 222 2.212812 TATCCCTTGTGTGCAATGCA 57.787 45.000 2.72 2.72 35.60 3.96
215 223 2.493278 ACTTATCCCTTGTGTGCAATGC 59.507 45.455 0.00 0.00 33.65 3.56
228 236 4.393371 GCACACTCAAAGAGAACTTATCCC 59.607 45.833 0.31 0.00 35.05 3.85
240 248 3.181397 CAAAACCTGTGCACACTCAAAG 58.819 45.455 17.42 4.85 0.00 2.77
254 262 3.448660 GCTGCCAAGATATTCCAAAACCT 59.551 43.478 0.00 0.00 0.00 3.50
271 279 1.436983 GCATGTTAGGTACCGCTGCC 61.437 60.000 6.18 0.00 0.00 4.85
272 280 1.436983 GGCATGTTAGGTACCGCTGC 61.437 60.000 6.18 11.70 0.00 5.25
276 284 3.261981 AGAAAGGCATGTTAGGTACCG 57.738 47.619 6.18 0.00 0.00 4.02
294 302 2.944129 CCACCAACTTTCAAGGGAAGA 58.056 47.619 0.00 0.00 33.82 2.87
311 328 2.246719 CAGTATGCTAGGAAGGCCAC 57.753 55.000 5.01 0.00 36.29 5.01
473 490 8.237267 CACTTAAGTTTGGGTGATTAACTGATC 58.763 37.037 5.07 0.00 32.76 2.92
506 523 7.224753 GTGTGTTTTCTAGACATCTCAACAGAA 59.775 37.037 0.00 0.00 32.03 3.02
513 530 7.897575 ATCAAGTGTGTTTTCTAGACATCTC 57.102 36.000 0.00 0.00 32.03 2.75
601 620 7.511028 AGGGGTCCAAATTTAATTGTCACTTTA 59.489 33.333 0.00 0.00 0.00 1.85
679 698 3.876309 TTGAGACAGCTAAACCCCTTT 57.124 42.857 0.00 0.00 0.00 3.11
711 730 1.131126 GACGATGCAGGACCATTGTTG 59.869 52.381 0.00 0.00 39.37 3.33
716 736 3.270877 GTTTAAGACGATGCAGGACCAT 58.729 45.455 0.00 0.00 0.00 3.55
744 764 5.098211 GCAAGAATAACAAGCATCAAGGTC 58.902 41.667 0.00 0.00 0.00 3.85
745 765 4.768968 AGCAAGAATAACAAGCATCAAGGT 59.231 37.500 0.00 0.00 0.00 3.50
788 808 1.269448 GCATCGAGAGACTCCAGATCC 59.731 57.143 0.00 0.00 46.97 3.36
855 875 5.718146 TGAAACTGCAAAACAATGACAGAA 58.282 33.333 0.00 0.00 32.45 3.02
882 902 3.703001 AATAGCATATTCACCCTCCCG 57.297 47.619 0.00 0.00 0.00 5.14
960 980 4.974645 TCAATGTCCCTTACTGTCTTGT 57.025 40.909 0.00 0.00 0.00 3.16
1185 1205 3.075148 GGAACCACTCTTTAGTTCTGGC 58.925 50.000 0.00 0.00 39.82 4.85
1281 1301 2.098117 GGATGTTTCCATCTTCTTGCCG 59.902 50.000 3.01 0.00 45.66 5.69
1306 1326 0.843309 TGAGGACCAGCTTTGGAACA 59.157 50.000 0.00 0.00 0.00 3.18
1362 1382 7.201679 CCACATAAAGAAGCAAAGATAGAGGTG 60.202 40.741 0.00 0.00 0.00 4.00
1363 1383 6.825721 CCACATAAAGAAGCAAAGATAGAGGT 59.174 38.462 0.00 0.00 0.00 3.85
1364 1384 6.825721 ACCACATAAAGAAGCAAAGATAGAGG 59.174 38.462 0.00 0.00 0.00 3.69
1365 1385 7.768120 AGACCACATAAAGAAGCAAAGATAGAG 59.232 37.037 0.00 0.00 0.00 2.43
1366 1386 7.624549 AGACCACATAAAGAAGCAAAGATAGA 58.375 34.615 0.00 0.00 0.00 1.98
1367 1387 7.856145 AGACCACATAAAGAAGCAAAGATAG 57.144 36.000 0.00 0.00 0.00 2.08
1373 1393 6.872920 ACAAAAAGACCACATAAAGAAGCAA 58.127 32.000 0.00 0.00 0.00 3.91
1466 1487 2.724349 CGCCATAAGCAGCTTCATTTC 58.276 47.619 12.07 0.00 44.04 2.17
1487 1508 4.277921 GGACGGAGGGAGTAGTATTTACAG 59.722 50.000 0.00 0.00 0.00 2.74
1496 1517 2.376695 TTATGGGACGGAGGGAGTAG 57.623 55.000 0.00 0.00 0.00 2.57
1539 1581 5.919141 TGTAAGACGCTTTTTGACTCTAGTC 59.081 40.000 3.08 3.08 44.97 2.59
1542 1584 8.869897 CATAATGTAAGACGCTTTTTGACTCTA 58.130 33.333 0.00 0.00 0.00 2.43
1545 1587 6.128007 CCCATAATGTAAGACGCTTTTTGACT 60.128 38.462 0.00 0.00 0.00 3.41
1546 1588 6.027749 CCCATAATGTAAGACGCTTTTTGAC 58.972 40.000 0.00 0.00 0.00 3.18
1548 1590 6.027749 GTCCCATAATGTAAGACGCTTTTTG 58.972 40.000 0.00 0.00 0.00 2.44
1549 1591 5.163794 CGTCCCATAATGTAAGACGCTTTTT 60.164 40.000 0.00 0.00 43.07 1.94
1551 1593 3.869246 CGTCCCATAATGTAAGACGCTTT 59.131 43.478 0.00 0.00 43.07 3.51
1553 1595 2.223971 CCGTCCCATAATGTAAGACGCT 60.224 50.000 5.39 0.00 46.66 5.07
1554 1596 2.132762 CCGTCCCATAATGTAAGACGC 58.867 52.381 5.39 0.00 46.66 5.19
1556 1598 3.244112 CCCTCCGTCCCATAATGTAAGAC 60.244 52.174 0.00 0.00 0.00 3.01
1557 1599 2.969950 CCCTCCGTCCCATAATGTAAGA 59.030 50.000 0.00 0.00 0.00 2.10
1558 1600 2.969950 TCCCTCCGTCCCATAATGTAAG 59.030 50.000 0.00 0.00 0.00 2.34
1560 1602 2.090943 ACTCCCTCCGTCCCATAATGTA 60.091 50.000 0.00 0.00 0.00 2.29
1561 1603 1.344087 ACTCCCTCCGTCCCATAATGT 60.344 52.381 0.00 0.00 0.00 2.71
1562 1604 1.424638 ACTCCCTCCGTCCCATAATG 58.575 55.000 0.00 0.00 0.00 1.90
1566 1628 1.133544 GTAGTACTCCCTCCGTCCCAT 60.134 57.143 0.00 0.00 0.00 4.00
1570 1632 2.928334 TCATGTAGTACTCCCTCCGTC 58.072 52.381 0.00 0.00 0.00 4.79
1584 1646 5.107104 GCTTCTCGTGTCAATTGTTCATGTA 60.107 40.000 17.75 9.96 0.00 2.29
1585 1647 4.319766 GCTTCTCGTGTCAATTGTTCATGT 60.320 41.667 17.75 0.00 0.00 3.21
1586 1648 4.153986 GCTTCTCGTGTCAATTGTTCATG 58.846 43.478 5.13 11.26 0.00 3.07
1622 1685 3.452627 AGTGAGACAAGACAAAGTGAGGT 59.547 43.478 0.00 0.00 0.00 3.85
1638 1701 1.402852 CGCATTTGGACTCGAGTGAGA 60.403 52.381 25.58 4.76 45.57 3.27
1760 2259 8.885494 AAAAACTGCTCAATATAAGTGCAAAA 57.115 26.923 0.00 0.00 35.40 2.44
1814 2313 3.375299 GGTGAATTGCTCGCTGTAGATTT 59.625 43.478 0.00 0.00 34.75 2.17
1856 2355 8.682936 AGTTAGCAAATATAGCTGCAATACTT 57.317 30.769 11.67 0.00 43.33 2.24
1878 2377 7.814587 GCAATTGGAAAATAAGAGTGCTAAGTT 59.185 33.333 7.72 0.00 0.00 2.66
1948 2447 5.772672 TGCCTACACAAAAATAGTGATTGGT 59.227 36.000 0.00 0.00 40.16 3.67
2086 2588 4.212143 TGAGTCCACATGAAGAGAATGG 57.788 45.455 0.00 0.00 0.00 3.16
2293 2795 0.107703 TGCGAGTTGACCATCCATCC 60.108 55.000 0.00 0.00 0.00 3.51
2500 3002 3.336138 AAAACAGCTACTACTCCCAGC 57.664 47.619 0.00 0.00 35.49 4.85
2506 3008 7.005709 ACCACAGAATAAAACAGCTACTACT 57.994 36.000 0.00 0.00 0.00 2.57
3086 3589 8.511321 CAAAGTGTGCTTTAATGAATAGTACCA 58.489 33.333 0.00 0.00 42.54 3.25
3150 3653 1.542915 CAACAATCCTCAGTTGCAGGG 59.457 52.381 0.00 0.00 38.69 4.45
3293 3801 7.334844 AGTCTTTAAATTATGCTAACTGGCC 57.665 36.000 0.00 0.00 0.00 5.36
3295 3803 9.391006 TGGTAGTCTTTAAATTATGCTAACTGG 57.609 33.333 0.00 0.00 0.00 4.00
3319 3827 5.362143 TCTGTGAAGAGAACTATCTGGATGG 59.638 44.000 0.00 0.00 35.54 3.51
3367 3875 6.942005 TGCATCTTTTAGTCTGAAATCCTTCA 59.058 34.615 0.00 0.00 39.30 3.02
3383 3891 8.506168 TTTATATTCGAACTCCTGCATCTTTT 57.494 30.769 0.00 0.00 0.00 2.27
3428 3936 5.241949 GGACAGAGGGAGTACATAGTACATG 59.758 48.000 9.68 0.00 0.00 3.21
3473 4007 3.146104 ACTCCCACTGTCTCAAAATGG 57.854 47.619 0.00 0.00 0.00 3.16
3517 4051 3.146066 GTTAACCATTCAGCACTGGTGA 58.854 45.455 6.84 6.84 44.97 4.02
3522 4056 1.349688 TCGGGTTAACCATTCAGCACT 59.650 47.619 25.71 0.00 40.22 4.40
3549 4083 2.328099 CGCCCTGTTGGAGTTGCTC 61.328 63.158 0.00 0.00 35.39 4.26
3550 4084 2.281761 CGCCCTGTTGGAGTTGCT 60.282 61.111 0.00 0.00 35.39 3.91
3551 4085 3.365265 CCGCCCTGTTGGAGTTGC 61.365 66.667 0.00 0.00 35.39 4.17
3552 4086 1.966451 GACCGCCCTGTTGGAGTTG 60.966 63.158 0.00 0.00 35.39 3.16
3553 4087 2.430367 GACCGCCCTGTTGGAGTT 59.570 61.111 0.00 0.00 35.39 3.01
3554 4088 4.003788 CGACCGCCCTGTTGGAGT 62.004 66.667 0.00 0.00 35.39 3.85
3555 4089 4.760047 CCGACCGCCCTGTTGGAG 62.760 72.222 0.00 0.00 41.65 3.86
3585 4119 1.007524 CATTTTAAAATGCGGACGCGC 60.008 47.619 24.00 0.00 45.51 6.86
3586 4120 1.581602 CCATTTTAAAATGCGGACGCG 59.418 47.619 28.17 3.53 43.38 6.01
3587 4121 1.923864 CCCATTTTAAAATGCGGACGC 59.076 47.619 28.17 10.13 43.38 5.19
3588 4122 3.175929 GACCCATTTTAAAATGCGGACG 58.824 45.455 32.81 21.59 43.38 4.79
3589 4123 3.175929 CGACCCATTTTAAAATGCGGAC 58.824 45.455 32.81 28.34 43.38 4.79
3590 4124 2.164624 CCGACCCATTTTAAAATGCGGA 59.835 45.455 32.72 5.31 44.78 5.54
3591 4125 2.535331 CCGACCCATTTTAAAATGCGG 58.465 47.619 28.28 28.28 43.38 5.69
3592 4126 1.923864 GCCGACCCATTTTAAAATGCG 59.076 47.619 28.17 24.84 43.38 4.73
3593 4127 3.245518 AGCCGACCCATTTTAAAATGC 57.754 42.857 28.17 18.71 43.38 3.56
3594 4128 4.625311 GTCAAGCCGACCCATTTTAAAATG 59.375 41.667 27.09 27.09 39.15 2.32
3595 4129 4.526650 AGTCAAGCCGACCCATTTTAAAAT 59.473 37.500 7.64 7.64 46.69 1.82
3596 4130 3.892588 AGTCAAGCCGACCCATTTTAAAA 59.107 39.130 2.51 2.51 46.69 1.52
3597 4131 3.254657 CAGTCAAGCCGACCCATTTTAAA 59.745 43.478 0.40 0.00 46.69 1.52
3598 4132 2.817258 CAGTCAAGCCGACCCATTTTAA 59.183 45.455 0.40 0.00 46.69 1.52
3599 4133 2.224670 ACAGTCAAGCCGACCCATTTTA 60.225 45.455 0.40 0.00 46.69 1.52
3600 4134 1.247567 CAGTCAAGCCGACCCATTTT 58.752 50.000 0.40 0.00 46.69 1.82
3601 4135 0.110486 ACAGTCAAGCCGACCCATTT 59.890 50.000 0.40 0.00 46.69 2.32
3602 4136 0.321653 GACAGTCAAGCCGACCCATT 60.322 55.000 0.00 0.00 46.69 3.16
3603 4137 1.296715 GACAGTCAAGCCGACCCAT 59.703 57.895 0.00 0.00 46.69 4.00
3604 4138 2.741092 GACAGTCAAGCCGACCCA 59.259 61.111 0.00 0.00 46.69 4.51
3605 4139 2.047179 GGACAGTCAAGCCGACCC 60.047 66.667 2.17 0.00 46.69 4.46
3606 4140 1.070786 TTGGACAGTCAAGCCGACC 59.929 57.895 2.17 0.00 46.69 4.79
3607 4141 1.557443 CGTTGGACAGTCAAGCCGAC 61.557 60.000 2.17 0.00 45.77 4.79
3608 4142 1.300620 CGTTGGACAGTCAAGCCGA 60.301 57.895 2.17 0.00 0.00 5.54
3609 4143 2.317609 CCGTTGGACAGTCAAGCCG 61.318 63.158 2.17 0.00 0.00 5.52
3610 4144 1.966451 CCCGTTGGACAGTCAAGCC 60.966 63.158 2.17 0.00 0.00 4.35
3611 4145 1.966451 CCCCGTTGGACAGTCAAGC 60.966 63.158 2.17 0.00 35.39 4.01
3612 4146 0.320771 CTCCCCGTTGGACAGTCAAG 60.321 60.000 2.17 0.00 38.61 3.02
3613 4147 1.752198 CTCCCCGTTGGACAGTCAA 59.248 57.895 2.17 0.00 38.61 3.18
3614 4148 2.214216 CCTCCCCGTTGGACAGTCA 61.214 63.158 2.17 0.00 38.61 3.41
3615 4149 2.663196 CCTCCCCGTTGGACAGTC 59.337 66.667 0.00 0.00 38.61 3.51
3616 4150 3.637273 GCCTCCCCGTTGGACAGT 61.637 66.667 0.00 0.00 38.61 3.55
3617 4151 4.410400 GGCCTCCCCGTTGGACAG 62.410 72.222 0.00 0.00 38.61 3.51
3626 4160 3.739613 ATTTGGGTCGGCCTCCCC 61.740 66.667 24.16 21.11 44.00 4.81
3627 4161 2.440247 CATTTGGGTCGGCCTCCC 60.440 66.667 21.54 21.54 44.81 4.30
3628 4162 2.046285 CACATTTGGGTCGGCCTCC 61.046 63.158 5.77 2.82 34.45 4.30
3629 4163 1.303317 ACACATTTGGGTCGGCCTC 60.303 57.895 5.77 0.00 34.45 4.70
3630 4164 1.303317 GACACATTTGGGTCGGCCT 60.303 57.895 5.77 0.00 38.85 5.19
3631 4165 3.274067 GACACATTTGGGTCGGCC 58.726 61.111 0.00 0.00 38.85 6.13
3636 4170 0.179032 TCACGCTGACACATTTGGGT 60.179 50.000 0.00 0.00 0.00 4.51
3637 4171 0.950836 TTCACGCTGACACATTTGGG 59.049 50.000 0.00 0.00 0.00 4.12
3638 4172 2.772568 TTTCACGCTGACACATTTGG 57.227 45.000 0.00 0.00 0.00 3.28
3661 4195 7.797819 TGTTTATTTCGTGCAAACTTGTTTTT 58.202 26.923 0.00 0.00 34.12 1.94
3662 4196 7.352719 TGTTTATTTCGTGCAAACTTGTTTT 57.647 28.000 0.00 0.00 34.12 2.43
3663 4197 6.952935 TGTTTATTTCGTGCAAACTTGTTT 57.047 29.167 0.00 0.00 34.12 2.83
3664 4198 8.635877 TTATGTTTATTTCGTGCAAACTTGTT 57.364 26.923 0.00 0.00 34.12 2.83
3665 4199 8.810652 ATTATGTTTATTTCGTGCAAACTTGT 57.189 26.923 0.00 0.00 34.12 3.16
3681 4215 9.790389 CGGCCACTTTATGTTTAATTATGTTTA 57.210 29.630 2.24 0.00 0.00 2.01
3682 4216 7.762159 CCGGCCACTTTATGTTTAATTATGTTT 59.238 33.333 2.24 0.00 0.00 2.83
3683 4217 7.093684 ACCGGCCACTTTATGTTTAATTATGTT 60.094 33.333 0.00 0.00 0.00 2.71
3684 4218 6.378848 ACCGGCCACTTTATGTTTAATTATGT 59.621 34.615 0.00 0.00 0.00 2.29
3685 4219 6.801575 ACCGGCCACTTTATGTTTAATTATG 58.198 36.000 0.00 0.00 0.00 1.90
3686 4220 6.603997 TGACCGGCCACTTTATGTTTAATTAT 59.396 34.615 0.00 0.00 0.00 1.28
3687 4221 5.944599 TGACCGGCCACTTTATGTTTAATTA 59.055 36.000 0.00 0.00 0.00 1.40
3688 4222 4.767928 TGACCGGCCACTTTATGTTTAATT 59.232 37.500 0.00 0.00 0.00 1.40
3689 4223 4.337145 TGACCGGCCACTTTATGTTTAAT 58.663 39.130 0.00 0.00 0.00 1.40
3690 4224 3.752665 TGACCGGCCACTTTATGTTTAA 58.247 40.909 0.00 0.00 0.00 1.52
3691 4225 3.420300 TGACCGGCCACTTTATGTTTA 57.580 42.857 0.00 0.00 0.00 2.01
3692 4226 2.279935 TGACCGGCCACTTTATGTTT 57.720 45.000 0.00 0.00 0.00 2.83
3693 4227 2.279935 TTGACCGGCCACTTTATGTT 57.720 45.000 0.00 0.00 0.00 2.71
3694 4228 1.883926 GTTTGACCGGCCACTTTATGT 59.116 47.619 0.00 0.00 0.00 2.29
3695 4229 1.135803 CGTTTGACCGGCCACTTTATG 60.136 52.381 0.00 0.00 0.00 1.90
3696 4230 1.161843 CGTTTGACCGGCCACTTTAT 58.838 50.000 0.00 0.00 0.00 1.40
3697 4231 1.508808 GCGTTTGACCGGCCACTTTA 61.509 55.000 0.00 0.00 0.00 1.85
3698 4232 2.841160 GCGTTTGACCGGCCACTTT 61.841 57.895 0.00 0.00 0.00 2.66
3699 4233 3.284449 GCGTTTGACCGGCCACTT 61.284 61.111 0.00 0.00 0.00 3.16
3707 4241 2.050442 CTTTGCCGGCGTTTGACC 60.050 61.111 23.90 0.00 0.00 4.02
3708 4242 1.370051 GACTTTGCCGGCGTTTGAC 60.370 57.895 23.90 8.51 0.00 3.18
3709 4243 2.548295 GGACTTTGCCGGCGTTTGA 61.548 57.895 23.90 0.00 0.00 2.69
3710 4244 2.050442 GGACTTTGCCGGCGTTTG 60.050 61.111 23.90 14.20 0.00 2.93
3711 4245 2.517402 TGGACTTTGCCGGCGTTT 60.517 55.556 23.90 5.52 0.00 3.60
3712 4246 3.284449 GTGGACTTTGCCGGCGTT 61.284 61.111 23.90 5.10 0.00 4.84
3714 4248 3.599285 TAGGTGGACTTTGCCGGCG 62.599 63.158 23.90 10.49 0.00 6.46
3715 4249 0.891904 TTTAGGTGGACTTTGCCGGC 60.892 55.000 22.73 22.73 0.00 6.13
3716 4250 1.743394 GATTTAGGTGGACTTTGCCGG 59.257 52.381 0.00 0.00 0.00 6.13
3717 4251 2.711542 AGATTTAGGTGGACTTTGCCG 58.288 47.619 0.00 0.00 0.00 5.69
3718 4252 7.875327 TTATTAGATTTAGGTGGACTTTGCC 57.125 36.000 0.00 0.00 0.00 4.52
3719 4253 8.736244 TGTTTATTAGATTTAGGTGGACTTTGC 58.264 33.333 0.00 0.00 0.00 3.68
3762 4296 1.152756 AGGCGGGCACAGACTTTTT 60.153 52.632 3.78 0.00 40.62 1.94
3763 4297 1.898574 CAGGCGGGCACAGACTTTT 60.899 57.895 3.78 0.00 40.62 2.27
3764 4298 2.281761 CAGGCGGGCACAGACTTT 60.282 61.111 3.78 0.00 40.62 2.66
3792 4326 4.436998 ACGTCTAGGGCAGCGTGC 62.437 66.667 1.92 1.92 44.08 5.34
3793 4327 2.202623 GACGTCTAGGGCAGCGTG 60.203 66.667 8.70 0.00 37.21 5.34
3794 4328 3.812019 CGACGTCTAGGGCAGCGT 61.812 66.667 14.70 0.00 38.92 5.07
3795 4329 3.736482 GACGACGTCTAGGGCAGCG 62.736 68.421 20.52 0.00 0.00 5.18
3796 4330 2.102553 GACGACGTCTAGGGCAGC 59.897 66.667 20.52 0.00 0.00 5.25
3797 4331 2.403987 CGACGACGTCTAGGGCAG 59.596 66.667 24.36 4.53 34.56 4.85
3798 4332 3.129502 CCGACGACGTCTAGGGCA 61.130 66.667 24.36 0.00 37.88 5.36
3799 4333 4.549516 GCCGACGACGTCTAGGGC 62.550 72.222 23.47 23.47 37.88 5.19
3800 4334 1.930908 AAAGCCGACGACGTCTAGGG 61.931 60.000 24.36 18.86 37.88 3.53
3801 4335 0.797249 CAAAGCCGACGACGTCTAGG 60.797 60.000 24.36 19.52 37.88 3.02
3802 4336 1.403972 GCAAAGCCGACGACGTCTAG 61.404 60.000 24.36 16.64 37.88 2.43
3803 4337 1.443194 GCAAAGCCGACGACGTCTA 60.443 57.895 24.36 0.00 37.88 2.59
3804 4338 2.733593 GCAAAGCCGACGACGTCT 60.734 61.111 24.36 4.39 37.88 4.18
3805 4339 3.774702 GGCAAAGCCGACGACGTC 61.775 66.667 18.04 18.04 39.62 4.34
3815 4349 2.344872 CAAGGGCAAGGGCAAAGC 59.655 61.111 0.00 0.00 43.71 3.51
3816 4350 2.344872 GCAAGGGCAAGGGCAAAG 59.655 61.111 0.00 0.00 43.71 2.77
3817 4351 3.240770 GGCAAGGGCAAGGGCAAA 61.241 61.111 0.00 0.00 43.71 3.68
3821 4355 2.999063 CAAGGGCAAGGGCAAGGG 60.999 66.667 0.00 0.00 43.71 3.95
3822 4356 2.118076 TCAAGGGCAAGGGCAAGG 59.882 61.111 0.00 0.00 43.71 3.61
3823 4357 2.629656 CGTCAAGGGCAAGGGCAAG 61.630 63.158 0.00 0.00 43.71 4.01
3824 4358 2.597217 CGTCAAGGGCAAGGGCAA 60.597 61.111 0.00 0.00 43.71 4.52
3846 4380 2.747822 ATCGACCTCACCGACGACG 61.748 63.158 0.00 0.00 38.97 5.12
3847 4381 1.226323 CATCGACCTCACCGACGAC 60.226 63.158 0.00 0.00 38.97 4.34
3848 4382 0.956902 TTCATCGACCTCACCGACGA 60.957 55.000 0.00 0.00 38.97 4.20
3849 4383 0.523546 CTTCATCGACCTCACCGACG 60.524 60.000 0.00 0.00 38.97 5.12
3850 4384 0.809385 TCTTCATCGACCTCACCGAC 59.191 55.000 0.00 0.00 38.97 4.79
3851 4385 0.809385 GTCTTCATCGACCTCACCGA 59.191 55.000 0.00 0.00 40.53 4.69
3852 4386 3.330766 GTCTTCATCGACCTCACCG 57.669 57.895 0.00 0.00 0.00 4.94
3859 4393 0.526524 CTGCTCCGGTCTTCATCGAC 60.527 60.000 0.00 0.00 0.00 4.20
3860 4394 1.667154 CCTGCTCCGGTCTTCATCGA 61.667 60.000 0.00 0.00 0.00 3.59
3861 4395 1.227089 CCTGCTCCGGTCTTCATCG 60.227 63.158 0.00 0.00 0.00 3.84
3862 4396 1.144936 CCCTGCTCCGGTCTTCATC 59.855 63.158 0.00 0.00 0.00 2.92
3863 4397 3.036429 GCCCTGCTCCGGTCTTCAT 62.036 63.158 0.00 0.00 0.00 2.57
3864 4398 3.706373 GCCCTGCTCCGGTCTTCA 61.706 66.667 0.00 0.00 0.00 3.02
3865 4399 4.475135 GGCCCTGCTCCGGTCTTC 62.475 72.222 0.00 0.00 0.00 2.87


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

AutoCloner maintained by Alex Coulton.