Multiple sequence alignment - TraesCS7B01G166700

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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 TraesCS7B01G166700 chr7B 100.000 6032 0 0 1 6032 230207616 230213647 0.000000e+00 11140.0
1 TraesCS7B01G166700 chr7B 87.342 237 30 0 4745 4981 77187465 77187701 7.700000e-69 272.0
2 TraesCS7B01G166700 chr7B 87.879 198 17 4 4498 4695 77187275 77187465 6.080000e-55 226.0
3 TraesCS7B01G166700 chr7B 92.929 99 7 0 1517 1615 230209024 230209122 1.750000e-30 145.0
4 TraesCS7B01G166700 chr7B 92.929 99 7 0 1409 1507 230209132 230209230 1.750000e-30 145.0
5 TraesCS7B01G166700 chr7B 92.000 75 4 2 5082 5155 77187713 77187786 2.970000e-18 104.0
6 TraesCS7B01G166700 chr7B 96.774 31 1 0 6002 6032 230213679 230213709 1.100000e-02 52.8
7 TraesCS7B01G166700 chr7D 93.568 3125 133 24 2929 6006 253152224 253155327 0.000000e+00 4595.0
8 TraesCS7B01G166700 chr7D 94.948 1049 46 6 1886 2930 253151098 253152143 0.000000e+00 1637.0
9 TraesCS7B01G166700 chr7D 95.383 823 24 7 690 1507 253150046 253150859 0.000000e+00 1297.0
10 TraesCS7B01G166700 chr7D 94.477 344 17 1 1516 1859 253150760 253151101 4.140000e-146 529.0
11 TraesCS7B01G166700 chr7D 94.346 283 15 1 406 688 45055926 45056207 3.340000e-117 433.0
12 TraesCS7B01G166700 chr7D 92.580 283 20 1 406 688 2511515 2511796 7.280000e-109 405.0
13 TraesCS7B01G166700 chr7D 93.617 47 3 0 642 688 22088638 22088592 3.020000e-08 71.3
14 TraesCS7B01G166700 chr7A 94.358 2127 86 13 3907 6006 266978319 266976200 0.000000e+00 3232.0
15 TraesCS7B01G166700 chr7A 94.010 1419 69 5 1517 2933 266980811 266979407 0.000000e+00 2135.0
16 TraesCS7B01G166700 chr7A 95.344 988 28 9 2929 3909 266979329 266978353 0.000000e+00 1554.0
17 TraesCS7B01G166700 chr7A 94.505 819 24 7 698 1507 266981519 266980713 0.000000e+00 1243.0
18 TraesCS7B01G166700 chr7A 88.235 289 34 0 4694 4982 27487895 27488183 4.480000e-91 346.0
19 TraesCS7B01G166700 chr7A 86.942 291 27 6 3417 3702 697199464 697199180 3.510000e-82 316.0
20 TraesCS7B01G166700 chr7A 86.598 291 28 6 3417 3702 697176854 697176570 1.630000e-80 311.0
21 TraesCS7B01G166700 chr7A 92.105 114 5 3 5064 5176 27488178 27488288 2.250000e-34 158.0
22 TraesCS7B01G166700 chr7A 100.000 28 0 0 6005 6032 266976162 266976135 1.100000e-02 52.8
23 TraesCS7B01G166700 chr3B 94.194 689 28 7 1 688 719851817 719852494 0.000000e+00 1040.0
24 TraesCS7B01G166700 chr3B 98.936 94 1 0 5594 5687 380513194 380513287 1.040000e-37 169.0
25 TraesCS7B01G166700 chr3B 91.000 100 7 2 5082 5180 573600359 573600457 3.790000e-27 134.0
26 TraesCS7B01G166700 chr4A 92.743 689 44 3 1 688 610048802 610049485 0.000000e+00 990.0
27 TraesCS7B01G166700 chr4A 94.000 100 4 2 5082 5180 703413137 703413235 3.770000e-32 150.0
28 TraesCS7B01G166700 chr2A 90.137 659 41 6 31 687 378840516 378839880 0.000000e+00 835.0
29 TraesCS7B01G166700 chr4D 81.883 701 86 19 3 687 487059311 487058636 2.460000e-153 553.0
30 TraesCS7B01G166700 chr6A 80.742 701 76 25 3 687 256471509 256472166 5.430000e-135 492.0
31 TraesCS7B01G166700 chr6A 85.246 61 9 0 628 688 24461604 24461664 5.050000e-06 63.9
32 TraesCS7B01G166700 chr6D 92.568 296 19 3 406 701 38533280 38532988 7.230000e-114 422.0
33 TraesCS7B01G166700 chr1D 87.797 295 25 4 3413 3702 437805196 437805484 9.690000e-88 335.0
34 TraesCS7B01G166700 chr4B 87.500 288 36 0 4695 4982 322656654 322656367 3.480000e-87 333.0
35 TraesCS7B01G166700 chr4B 84.192 291 35 5 4695 4982 621863955 621863673 7.700000e-69 272.0
36 TraesCS7B01G166700 chr4B 91.525 118 5 4 5064 5180 322656372 322656259 2.250000e-34 158.0
37 TraesCS7B01G166700 chr4B 88.983 118 9 3 5064 5180 621863678 621863564 6.300000e-30 143.0
38 TraesCS7B01G166700 chr5B 86.395 294 30 4 3413 3702 534609912 534610199 4.540000e-81 313.0
39 TraesCS7B01G166700 chr6B 85.766 274 35 2 4712 4982 712639766 712640038 2.750000e-73 287.0
40 TraesCS7B01G166700 chr6B 88.983 118 9 3 5064 5180 712640033 712640147 6.300000e-30 143.0
41 TraesCS7B01G166700 chr5A 89.041 219 20 2 4745 4959 37615514 37615732 9.970000e-68 268.0
42 TraesCS7B01G166700 chr5A 91.716 169 14 0 4239 4407 37615092 37615260 1.010000e-57 235.0
43 TraesCS7B01G166700 chr5A 88.384 198 17 5 4498 4695 37615323 37615514 3.640000e-57 233.0
44 TraesCS7B01G166700 chrUn 88.000 200 21 2 2574 2772 94388228 94388031 3.640000e-57 233.0
45 TraesCS7B01G166700 chrUn 87.940 199 21 2 2574 2771 94444908 94444712 1.310000e-56 231.0
46 TraesCS7B01G166700 chrUn 87.437 199 22 2 2574 2771 94309456 94309260 6.080000e-55 226.0
47 TraesCS7B01G166700 chrUn 87.437 199 22 2 2574 2771 94363579 94363383 6.080000e-55 226.0
48 TraesCS7B01G166700 chrUn 87.437 199 22 2 2574 2771 94412990 94412794 6.080000e-55 226.0
49 TraesCS7B01G166700 chrUn 87.662 154 17 1 2574 2727 470498393 470498242 1.730000e-40 178.0
50 TraesCS7B01G166700 chr2B 89.062 64 7 0 625 688 6539334 6539271 5.010000e-11 80.5


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 TraesCS7B01G166700 chr7B 230207616 230213647 6031 False 11140.000000 11140 100.000000 1 6032 1 chr7B.!!$F1 6031
1 TraesCS7B01G166700 chr7B 77187275 77187786 511 False 200.666667 272 89.073667 4498 5155 3 chr7B.!!$F3 657
2 TraesCS7B01G166700 chr7D 253150046 253155327 5281 False 2014.500000 4595 94.594000 690 6006 4 chr7D.!!$F3 5316
3 TraesCS7B01G166700 chr7A 266976135 266981519 5384 True 1643.360000 3232 95.643400 698 6032 5 chr7A.!!$R3 5334
4 TraesCS7B01G166700 chr3B 719851817 719852494 677 False 1040.000000 1040 94.194000 1 688 1 chr3B.!!$F3 687
5 TraesCS7B01G166700 chr4A 610048802 610049485 683 False 990.000000 990 92.743000 1 688 1 chr4A.!!$F1 687
6 TraesCS7B01G166700 chr2A 378839880 378840516 636 True 835.000000 835 90.137000 31 687 1 chr2A.!!$R1 656
7 TraesCS7B01G166700 chr4D 487058636 487059311 675 True 553.000000 553 81.883000 3 687 1 chr4D.!!$R1 684
8 TraesCS7B01G166700 chr6A 256471509 256472166 657 False 492.000000 492 80.742000 3 687 1 chr6A.!!$F2 684
9 TraesCS7B01G166700 chr5A 37615092 37615732 640 False 245.333333 268 89.713667 4239 4959 3 chr5A.!!$F1 720

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
844 869 0.180642 GCCCTAACTCACCCTAAGCC 59.819 60.000 0.00 0.00 0.00 4.35 F
1539 1577 0.036388 TTTGAGACGTGGAGATGGCC 60.036 55.000 0.00 0.00 0.00 5.36 F
2756 2795 0.318614 ACGTTTGCTGGCCAAAATCG 60.319 50.000 21.23 21.23 44.48 3.34 F
2978 3101 1.962100 TGCATGCCATTCTTTGTGTGA 59.038 42.857 16.68 0.00 0.00 3.58 F
4653 4859 0.179062 AGGCTGCGGATGAAGATGAC 60.179 55.000 0.00 0.00 0.00 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1656 1694 1.302907 AAGCCATTCCCTGATGTCCT 58.697 50.000 0.00 0.00 0.00 3.85 R
2952 3075 0.323999 AAGAATGGCATGCAGCTCCA 60.324 50.000 21.36 8.12 44.79 3.86 R
3848 3990 1.202114 GATTTGCCGGCAGAAATGTCA 59.798 47.619 30.75 9.52 0.00 3.58 R
4878 5089 0.179000 GAGGAGTGCCGATTGGATGT 59.821 55.000 1.98 0.00 39.96 3.06 R
5917 6142 0.971386 CCCAAAACATCAGCCAAGCT 59.029 50.000 0.00 0.00 40.77 3.74 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 68 1.112315 ACGGTTCCAGCAAATGCCAA 61.112 50.000 0.94 0.00 43.38 4.52
149 165 1.794222 CCGGTTCCAGCAAATCGTC 59.206 57.895 0.00 0.00 0.00 4.20
170 186 1.952990 ACGATGGTTGCAACATTGTCA 59.047 42.857 29.55 18.32 38.28 3.58
435 457 0.684805 GGAGGAGGTGTGGATCTCGT 60.685 60.000 0.00 0.00 28.76 4.18
688 712 1.643880 CGCCGGGTATAAACGTTTCT 58.356 50.000 18.42 10.67 0.00 2.52
691 715 2.554142 CCGGGTATAAACGTTTCTCCC 58.446 52.381 25.27 25.27 0.00 4.30
695 719 4.637091 CGGGTATAAACGTTTCTCCCATTT 59.363 41.667 29.80 8.23 33.70 2.32
698 722 6.071784 GGGTATAAACGTTTCTCCCATTTGTT 60.072 38.462 27.86 4.84 34.20 2.83
708 732 5.975988 TCTCCCATTTGTTAATCTAGCCT 57.024 39.130 0.00 0.00 0.00 4.58
752 776 9.715121 AATTAACTCCATCGTAACTACTTGAAA 57.285 29.630 0.00 0.00 0.00 2.69
753 777 9.715121 ATTAACTCCATCGTAACTACTTGAAAA 57.285 29.630 0.00 0.00 0.00 2.29
844 869 0.180642 GCCCTAACTCACCCTAAGCC 59.819 60.000 0.00 0.00 0.00 4.35
895 925 1.284715 GTGTGGCCGCCTTTTGTAC 59.715 57.895 15.15 0.00 0.00 2.90
925 957 0.468029 CTCCTCCTCCCTGCTCTCTC 60.468 65.000 0.00 0.00 0.00 3.20
926 958 0.923729 TCCTCCTCCCTGCTCTCTCT 60.924 60.000 0.00 0.00 0.00 3.10
1412 1450 5.806955 ATGAGGTTTAGATGGGGGTTTTA 57.193 39.130 0.00 0.00 0.00 1.52
1434 1472 1.000993 AGACGTGGAGATGGCCTCT 59.999 57.895 3.32 4.09 41.66 3.69
1435 1473 1.142748 GACGTGGAGATGGCCTCTG 59.857 63.158 3.32 0.00 41.66 3.35
1436 1474 1.305297 ACGTGGAGATGGCCTCTGA 60.305 57.895 3.32 0.00 41.66 3.27
1437 1475 0.689080 ACGTGGAGATGGCCTCTGAT 60.689 55.000 3.32 0.00 41.66 2.90
1438 1476 0.467384 CGTGGAGATGGCCTCTGATT 59.533 55.000 3.32 0.00 41.66 2.57
1439 1477 1.134280 CGTGGAGATGGCCTCTGATTT 60.134 52.381 3.32 0.00 41.66 2.17
1440 1478 2.295885 GTGGAGATGGCCTCTGATTTG 58.704 52.381 3.32 0.00 41.66 2.32
1441 1479 2.092753 GTGGAGATGGCCTCTGATTTGA 60.093 50.000 3.32 0.00 41.66 2.69
1442 1480 2.781757 TGGAGATGGCCTCTGATTTGAT 59.218 45.455 3.32 0.00 41.66 2.57
1443 1481 3.203710 TGGAGATGGCCTCTGATTTGATT 59.796 43.478 3.32 0.00 41.66 2.57
1444 1482 3.568853 GGAGATGGCCTCTGATTTGATTG 59.431 47.826 3.32 0.00 41.66 2.67
1445 1483 4.205587 GAGATGGCCTCTGATTTGATTGT 58.794 43.478 3.32 0.00 38.86 2.71
1446 1484 4.607239 AGATGGCCTCTGATTTGATTGTT 58.393 39.130 3.32 0.00 31.12 2.83
1447 1485 4.643784 AGATGGCCTCTGATTTGATTGTTC 59.356 41.667 3.32 0.00 31.12 3.18
1448 1486 2.749076 TGGCCTCTGATTTGATTGTTCG 59.251 45.455 3.32 0.00 0.00 3.95
1449 1487 2.478539 GGCCTCTGATTTGATTGTTCGC 60.479 50.000 0.00 0.00 0.00 4.70
1450 1488 2.421424 GCCTCTGATTTGATTGTTCGCT 59.579 45.455 0.00 0.00 0.00 4.93
1451 1489 3.119708 GCCTCTGATTTGATTGTTCGCTT 60.120 43.478 0.00 0.00 0.00 4.68
1452 1490 4.409570 CCTCTGATTTGATTGTTCGCTTG 58.590 43.478 0.00 0.00 0.00 4.01
1453 1491 3.825308 TCTGATTTGATTGTTCGCTTGC 58.175 40.909 0.00 0.00 0.00 4.01
1454 1492 3.503363 TCTGATTTGATTGTTCGCTTGCT 59.497 39.130 0.00 0.00 0.00 3.91
1455 1493 3.567530 TGATTTGATTGTTCGCTTGCTG 58.432 40.909 0.00 0.00 0.00 4.41
1456 1494 1.769733 TTTGATTGTTCGCTTGCTGC 58.230 45.000 0.00 0.00 38.57 5.25
1457 1495 0.953727 TTGATTGTTCGCTTGCTGCT 59.046 45.000 0.00 0.00 40.11 4.24
1458 1496 0.518636 TGATTGTTCGCTTGCTGCTC 59.481 50.000 0.00 0.00 40.11 4.26
1459 1497 0.179179 GATTGTTCGCTTGCTGCTCC 60.179 55.000 0.00 0.00 40.11 4.70
1460 1498 0.890542 ATTGTTCGCTTGCTGCTCCA 60.891 50.000 0.00 0.00 40.11 3.86
1461 1499 0.890542 TTGTTCGCTTGCTGCTCCAT 60.891 50.000 0.00 0.00 40.11 3.41
1462 1500 0.036483 TGTTCGCTTGCTGCTCCATA 60.036 50.000 0.00 0.00 40.11 2.74
1463 1501 1.086696 GTTCGCTTGCTGCTCCATAA 58.913 50.000 0.00 0.00 40.11 1.90
1464 1502 1.086696 TTCGCTTGCTGCTCCATAAC 58.913 50.000 0.00 0.00 40.11 1.89
1465 1503 0.250234 TCGCTTGCTGCTCCATAACT 59.750 50.000 0.00 0.00 40.11 2.24
1466 1504 0.654683 CGCTTGCTGCTCCATAACTC 59.345 55.000 0.00 0.00 40.11 3.01
1467 1505 1.020437 GCTTGCTGCTCCATAACTCC 58.980 55.000 0.00 0.00 38.95 3.85
1468 1506 1.293924 CTTGCTGCTCCATAACTCCG 58.706 55.000 0.00 0.00 0.00 4.63
1469 1507 0.613260 TTGCTGCTCCATAACTCCGT 59.387 50.000 0.00 0.00 0.00 4.69
1470 1508 0.175760 TGCTGCTCCATAACTCCGTC 59.824 55.000 0.00 0.00 0.00 4.79
1471 1509 0.175760 GCTGCTCCATAACTCCGTCA 59.824 55.000 0.00 0.00 0.00 4.35
1472 1510 1.927895 CTGCTCCATAACTCCGTCAC 58.072 55.000 0.00 0.00 0.00 3.67
1473 1511 1.204704 CTGCTCCATAACTCCGTCACA 59.795 52.381 0.00 0.00 0.00 3.58
1474 1512 1.067142 TGCTCCATAACTCCGTCACAC 60.067 52.381 0.00 0.00 0.00 3.82
1475 1513 1.067142 GCTCCATAACTCCGTCACACA 60.067 52.381 0.00 0.00 0.00 3.72
1476 1514 2.418746 GCTCCATAACTCCGTCACACAT 60.419 50.000 0.00 0.00 0.00 3.21
1477 1515 3.448686 CTCCATAACTCCGTCACACATC 58.551 50.000 0.00 0.00 0.00 3.06
1478 1516 2.159296 TCCATAACTCCGTCACACATCG 60.159 50.000 0.00 0.00 0.00 3.84
1479 1517 2.159296 CCATAACTCCGTCACACATCGA 60.159 50.000 0.00 0.00 0.00 3.59
1480 1518 3.490933 CCATAACTCCGTCACACATCGAT 60.491 47.826 0.00 0.00 0.00 3.59
1481 1519 2.279582 AACTCCGTCACACATCGATC 57.720 50.000 0.00 0.00 0.00 3.69
1482 1520 1.173913 ACTCCGTCACACATCGATCA 58.826 50.000 0.00 0.00 0.00 2.92
1483 1521 1.751351 ACTCCGTCACACATCGATCAT 59.249 47.619 0.00 0.00 0.00 2.45
1484 1522 2.949644 ACTCCGTCACACATCGATCATA 59.050 45.455 0.00 0.00 0.00 2.15
1485 1523 3.003793 ACTCCGTCACACATCGATCATAG 59.996 47.826 0.00 0.00 0.00 2.23
1486 1524 2.949644 TCCGTCACACATCGATCATAGT 59.050 45.455 0.00 0.00 0.00 2.12
1487 1525 4.131596 TCCGTCACACATCGATCATAGTA 58.868 43.478 0.00 0.00 0.00 1.82
1488 1526 4.760204 TCCGTCACACATCGATCATAGTAT 59.240 41.667 0.00 0.00 0.00 2.12
1489 1527 5.089411 CCGTCACACATCGATCATAGTATC 58.911 45.833 0.00 0.00 0.00 2.24
1490 1528 5.334879 CCGTCACACATCGATCATAGTATCA 60.335 44.000 0.00 0.00 0.00 2.15
1491 1529 5.565638 CGTCACACATCGATCATAGTATCAC 59.434 44.000 0.00 0.00 0.00 3.06
1492 1530 5.565638 GTCACACATCGATCATAGTATCACG 59.434 44.000 0.00 0.00 0.00 4.35
1493 1531 4.322009 CACACATCGATCATAGTATCACGC 59.678 45.833 0.00 0.00 0.00 5.34
1494 1532 3.539954 CACATCGATCATAGTATCACGCG 59.460 47.826 3.53 3.53 0.00 6.01
1495 1533 3.188667 ACATCGATCATAGTATCACGCGT 59.811 43.478 5.58 5.58 0.00 6.01
1496 1534 3.891056 TCGATCATAGTATCACGCGTT 57.109 42.857 10.22 0.00 0.00 4.84
1497 1535 3.551551 TCGATCATAGTATCACGCGTTG 58.448 45.455 10.22 3.18 0.00 4.10
1498 1536 2.656897 CGATCATAGTATCACGCGTTGG 59.343 50.000 10.22 0.00 0.00 3.77
1499 1537 1.847818 TCATAGTATCACGCGTTGGC 58.152 50.000 10.22 0.00 0.00 4.52
1500 1538 1.135333 TCATAGTATCACGCGTTGGCA 59.865 47.619 10.22 0.00 39.92 4.92
1501 1539 1.930503 CATAGTATCACGCGTTGGCAA 59.069 47.619 10.22 0.00 39.92 4.52
1502 1540 2.081725 TAGTATCACGCGTTGGCAAA 57.918 45.000 10.22 0.00 39.92 3.68
1503 1541 1.448985 AGTATCACGCGTTGGCAAAT 58.551 45.000 10.22 0.00 39.92 2.32
1504 1542 1.810151 AGTATCACGCGTTGGCAAATT 59.190 42.857 10.22 0.00 39.92 1.82
1505 1543 2.227865 AGTATCACGCGTTGGCAAATTT 59.772 40.909 10.22 0.00 39.92 1.82
1506 1544 2.999507 ATCACGCGTTGGCAAATTTA 57.000 40.000 10.22 0.00 39.92 1.40
1507 1545 2.039327 TCACGCGTTGGCAAATTTAC 57.961 45.000 10.22 0.00 39.92 2.01
1508 1546 1.333931 TCACGCGTTGGCAAATTTACA 59.666 42.857 10.22 0.00 39.92 2.41
1509 1547 2.030717 TCACGCGTTGGCAAATTTACAT 60.031 40.909 10.22 0.00 39.92 2.29
1510 1548 2.090349 CACGCGTTGGCAAATTTACATG 59.910 45.455 10.22 0.00 39.92 3.21
1511 1549 1.653114 CGCGTTGGCAAATTTACATGG 59.347 47.619 0.00 0.00 39.92 3.66
1512 1550 2.682836 GCGTTGGCAAATTTACATGGT 58.317 42.857 0.00 0.00 39.62 3.55
1513 1551 3.063485 GCGTTGGCAAATTTACATGGTT 58.937 40.909 0.00 0.00 39.62 3.67
1514 1552 3.496507 GCGTTGGCAAATTTACATGGTTT 59.503 39.130 0.00 0.00 39.62 3.27
1515 1553 4.024472 GCGTTGGCAAATTTACATGGTTTT 60.024 37.500 0.00 0.00 39.62 2.43
1516 1554 5.504830 GCGTTGGCAAATTTACATGGTTTTT 60.505 36.000 0.00 0.00 39.62 1.94
1538 1576 1.808411 TTTTGAGACGTGGAGATGGC 58.192 50.000 0.00 0.00 0.00 4.40
1539 1577 0.036388 TTTGAGACGTGGAGATGGCC 60.036 55.000 0.00 0.00 0.00 5.36
1540 1578 0.904865 TTGAGACGTGGAGATGGCCT 60.905 55.000 3.32 0.00 0.00 5.19
1541 1579 0.904865 TGAGACGTGGAGATGGCCTT 60.905 55.000 3.32 0.00 0.00 4.35
1585 1623 5.255687 TGCTCCATAACTTCATCACACATT 58.744 37.500 0.00 0.00 0.00 2.71
1656 1694 3.449377 TGTTGGCAATAGAGATGACCGTA 59.551 43.478 1.92 0.00 0.00 4.02
1687 1725 6.322201 TCAGGGAATGGCTTTCTTGAATATTC 59.678 38.462 8.60 8.60 34.56 1.75
1702 1740 8.136800 TCTTGAATATTCGTATACGGTTAAGCA 58.863 33.333 24.18 13.43 40.29 3.91
1794 1832 5.435686 TCTGGCTTTACAGATGTATGGTT 57.564 39.130 0.00 0.00 42.26 3.67
1808 1846 8.197439 CAGATGTATGGTTGTGAGATTGTACTA 58.803 37.037 0.00 0.00 0.00 1.82
1813 1851 6.860790 TGGTTGTGAGATTGTACTATGGTA 57.139 37.500 0.00 0.00 0.00 3.25
1882 1920 7.402071 TGGGTGGGGTTAGATATAAGATGATAC 59.598 40.741 0.00 0.00 0.00 2.24
1883 1921 7.624077 GGGTGGGGTTAGATATAAGATGATACT 59.376 40.741 0.00 0.00 0.00 2.12
1911 1949 5.182190 TGAGCAATGGTATTTTTGTAAGCGA 59.818 36.000 0.00 0.00 0.00 4.93
2014 2053 6.379579 TGTGGTATTTTGGGTTAGGGTTAAA 58.620 36.000 0.00 0.00 0.00 1.52
2040 2079 0.320247 GAGTGGAGCGGCATGGATAG 60.320 60.000 1.45 0.00 0.00 2.08
2132 2171 4.574828 CAGTTTATCAGTTACCGATTGGGG 59.425 45.833 3.39 0.00 41.60 4.96
2192 2231 8.840833 TGTTATCTTTCTGTAGTATTGCAACA 57.159 30.769 0.00 0.00 0.00 3.33
2209 2248 4.077063 CAACAGTTGTATTGCATGCGTA 57.923 40.909 14.09 5.84 0.00 4.42
2255 2294 7.699709 TTGAGGGTAATATGGTTGAATAGGA 57.300 36.000 0.00 0.00 0.00 2.94
2293 2332 3.131933 TGTCAATTTTGTGGTGTTCCCTG 59.868 43.478 0.00 0.00 0.00 4.45
2403 2442 6.761714 CGTTATTATAGTCTGCACCCTTTCTT 59.238 38.462 0.00 0.00 0.00 2.52
2455 2494 7.727181 AGTTGAAATTGACTCTGTGTACTAGT 58.273 34.615 0.00 0.00 0.00 2.57
2462 2501 6.336842 TGACTCTGTGTACTAGTTTTACCC 57.663 41.667 0.00 0.00 0.00 3.69
2526 2565 7.692460 AACTTTCATCAGTTGCTTGATATGA 57.308 32.000 0.00 0.00 36.08 2.15
2553 2592 6.987992 TCTTTATAACCGTGTATCCATTGGAC 59.012 38.462 7.76 0.00 32.98 4.02
2562 2601 6.277605 CGTGTATCCATTGGACACTGTAATA 58.722 40.000 19.71 1.37 32.98 0.98
2613 2652 4.764172 ACTTCAGTGATGTCAATCTAGCC 58.236 43.478 5.86 0.00 33.61 3.93
2696 2735 8.601845 AACCTGTTAAATTTGAATAAAGCACC 57.398 30.769 0.00 0.00 0.00 5.01
2712 2751 1.949525 GCACCCGATCATGCTGTTTAT 59.050 47.619 6.39 0.00 38.84 1.40
2756 2795 0.318614 ACGTTTGCTGGCCAAAATCG 60.319 50.000 21.23 21.23 44.48 3.34
2885 2925 5.412904 AGTTAAGGAATAAGTTGTGCTCAGC 59.587 40.000 0.00 0.00 0.00 4.26
2952 3075 6.347402 GGCTACGCATCATTAATTCATTACGT 60.347 38.462 0.00 0.00 0.00 3.57
2978 3101 1.962100 TGCATGCCATTCTTTGTGTGA 59.038 42.857 16.68 0.00 0.00 3.58
3200 3325 4.965532 AGAGCTGGTAAGTATCTCAACCAT 59.034 41.667 0.00 0.00 41.04 3.55
3237 3363 7.898014 ACCTGTTTACTCTTTCTTTTGGATT 57.102 32.000 0.00 0.00 0.00 3.01
3420 3556 5.211973 ACCATCCTACTGAAAGAGCTATCA 58.788 41.667 0.00 0.00 37.43 2.15
3460 3598 3.554960 GCACTCTTGTTCAATTTTCCCCC 60.555 47.826 0.00 0.00 0.00 5.40
3484 3622 5.967674 CGATCCAAACACAAGAAATGATAGC 59.032 40.000 0.00 0.00 0.00 2.97
3505 3643 3.883489 GCCTGTGTGGTTCTTTACTTTCT 59.117 43.478 0.00 0.00 38.35 2.52
3611 3749 2.769663 AGGTTAGCATGTAATCCGTGGA 59.230 45.455 0.00 0.00 0.00 4.02
3612 3750 3.199071 AGGTTAGCATGTAATCCGTGGAA 59.801 43.478 0.00 0.00 0.00 3.53
3613 3751 4.134563 GGTTAGCATGTAATCCGTGGAAT 58.865 43.478 0.00 0.00 0.00 3.01
3614 3752 4.213482 GGTTAGCATGTAATCCGTGGAATC 59.787 45.833 0.00 0.00 0.00 2.52
3650 3788 5.106436 TGCTATGTCATGCTTCTGAAACTTG 60.106 40.000 0.00 1.48 0.00 3.16
3909 4087 8.889717 TGCTTTTTGCTAATAAGGTCTGTATAC 58.110 33.333 0.00 0.00 43.37 1.47
4384 4565 6.688578 TGTGTTCCTTGTCTGTCTTACTATC 58.311 40.000 0.00 0.00 0.00 2.08
4492 4681 4.508662 GAGTGTAAGCCTGCTTAGTGAAT 58.491 43.478 11.68 0.00 38.95 2.57
4495 4684 6.284459 AGTGTAAGCCTGCTTAGTGAATATC 58.716 40.000 11.68 0.00 38.95 1.63
4496 4685 5.175856 GTGTAAGCCTGCTTAGTGAATATCG 59.824 44.000 11.68 0.00 38.95 2.92
4653 4859 0.179062 AGGCTGCGGATGAAGATGAC 60.179 55.000 0.00 0.00 0.00 3.06
4674 4880 3.450457 ACCCTGAAGAGTATGAAGCAGAG 59.550 47.826 0.00 0.00 0.00 3.35
4878 5089 3.147595 CAGAGTCGGGATGGCGGA 61.148 66.667 0.00 0.00 0.00 5.54
5027 5238 1.375140 CCGCAGTGCTGTCTGATGT 60.375 57.895 14.33 0.00 37.61 3.06
5080 5291 3.353836 TTGGCAGAACGGCGCTTC 61.354 61.111 6.90 10.41 45.16 3.86
5254 5465 6.630443 CGACAAATCAACAGAAAGAAGTCTTG 59.370 38.462 0.00 0.00 36.12 3.02
5284 5495 7.545615 GGGAGGAGCAAATTTTTATAGTTGTTG 59.454 37.037 0.00 0.00 0.00 3.33
5319 5532 7.164171 GCTTTTGCAAACATATACTACATGTCG 59.836 37.037 12.39 0.00 46.58 4.35
5376 5592 1.153568 TCTCCGCTCATTCTTGCCG 60.154 57.895 0.00 0.00 0.00 5.69
5383 5599 1.537202 GCTCATTCTTGCCGTCTGTTT 59.463 47.619 0.00 0.00 0.00 2.83
5483 5699 2.115910 CACAGCCTTGCCCTTGGA 59.884 61.111 0.00 0.00 0.00 3.53
5528 5744 1.377994 CCTGCAGCTCCTTGGAAGT 59.622 57.895 8.66 0.00 0.00 3.01
5723 5939 2.332654 CCTTGGCCGTACTTGCACC 61.333 63.158 0.00 0.00 0.00 5.01
5770 5995 3.851845 TACGTGTGCGAGTGTGCCC 62.852 63.158 0.00 0.00 42.00 5.36
5774 5999 4.996434 GTGCGAGTGTGCCCTGCT 62.996 66.667 0.00 0.00 0.00 4.24
5814 6039 2.025037 AGTATTGGCTTTGGCATCTGGA 60.025 45.455 0.00 0.00 38.08 3.86
5862 6087 4.930592 GCTGAAGCTGGTCTCCTC 57.069 61.111 0.00 0.00 38.21 3.71
5913 6138 0.106708 TGCTTGACGAAGAACCTGCT 59.893 50.000 0.00 0.00 0.00 4.24
5917 6142 0.756294 TGACGAAGAACCTGCTGGAA 59.244 50.000 17.64 0.00 37.04 3.53
5936 6161 0.971386 AGCTTGGCTGATGTTTTGGG 59.029 50.000 0.00 0.00 37.57 4.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 2.755655 TGGAACCGTTGTCACATTTTGT 59.244 40.909 0.00 0.00 0.00 2.83
149 165 2.287487 TGACAATGTTGCAACCATCGTG 60.287 45.455 26.14 17.47 0.00 4.35
154 170 1.270199 GCCATGACAATGTTGCAACCA 60.270 47.619 26.14 16.44 31.27 3.67
262 282 3.189285 GCGAGCCAATTATTGTTGCAAT 58.811 40.909 0.59 0.00 0.00 3.56
366 386 0.687354 AATCTGCAACCACCGAGAGT 59.313 50.000 0.00 0.00 0.00 3.24
667 691 0.673022 AAACGTTTATACCCGGCGCA 60.673 50.000 12.83 0.00 0.00 6.09
688 712 5.708736 TGAGGCTAGATTAACAAATGGGA 57.291 39.130 0.00 0.00 0.00 4.37
695 719 9.982651 GATAGTACATTTGAGGCTAGATTAACA 57.017 33.333 0.00 0.00 0.00 2.41
701 725 6.098266 TGCAAGATAGTACATTTGAGGCTAGA 59.902 38.462 0.00 0.00 0.00 2.43
752 776 4.142227 GGCTCTTCACAAATGATGCTGATT 60.142 41.667 0.00 0.00 33.85 2.57
753 777 3.380637 GGCTCTTCACAAATGATGCTGAT 59.619 43.478 0.00 0.00 33.85 2.90
895 925 0.827368 GAGGAGGAGGCCAACACTAG 59.173 60.000 5.01 0.00 0.00 2.57
925 957 1.275291 TCCGCTTCAGGTACAAGGAAG 59.725 52.381 13.15 13.15 40.69 3.46
926 958 1.275291 CTCCGCTTCAGGTACAAGGAA 59.725 52.381 0.00 0.00 0.00 3.36
1308 1346 0.249447 TATCGCAGCAATCGACTGGG 60.249 55.000 11.07 11.07 46.34 4.45
1309 1347 1.723542 GATATCGCAGCAATCGACTGG 59.276 52.381 0.00 0.00 38.88 4.00
1412 1450 0.179000 GGCCATCTCCACGTCTCAAT 59.821 55.000 0.00 0.00 0.00 2.57
1434 1472 3.567530 CAGCAAGCGAACAATCAAATCA 58.432 40.909 0.00 0.00 0.00 2.57
1435 1473 2.343544 GCAGCAAGCGAACAATCAAATC 59.656 45.455 0.00 0.00 0.00 2.17
1436 1474 2.331194 GCAGCAAGCGAACAATCAAAT 58.669 42.857 0.00 0.00 0.00 2.32
1437 1475 1.769733 GCAGCAAGCGAACAATCAAA 58.230 45.000 0.00 0.00 0.00 2.69
1438 1476 3.477504 GCAGCAAGCGAACAATCAA 57.522 47.368 0.00 0.00 0.00 2.57
1448 1486 1.020437 GGAGTTATGGAGCAGCAAGC 58.980 55.000 0.00 0.00 46.19 4.01
1449 1487 1.293924 CGGAGTTATGGAGCAGCAAG 58.706 55.000 0.00 0.00 0.00 4.01
1450 1488 0.613260 ACGGAGTTATGGAGCAGCAA 59.387 50.000 0.00 0.00 37.78 3.91
1451 1489 2.286826 ACGGAGTTATGGAGCAGCA 58.713 52.632 0.00 0.00 37.78 4.41
1464 1502 2.498807 ATGATCGATGTGTGACGGAG 57.501 50.000 0.54 0.00 0.00 4.63
1465 1503 2.949644 ACTATGATCGATGTGTGACGGA 59.050 45.455 0.54 0.00 0.00 4.69
1466 1504 3.355626 ACTATGATCGATGTGTGACGG 57.644 47.619 0.54 0.00 0.00 4.79
1467 1505 5.565638 GTGATACTATGATCGATGTGTGACG 59.434 44.000 0.54 0.00 0.00 4.35
1468 1506 5.565638 CGTGATACTATGATCGATGTGTGAC 59.434 44.000 0.54 0.00 0.00 3.67
1469 1507 5.689819 CGTGATACTATGATCGATGTGTGA 58.310 41.667 0.54 0.00 0.00 3.58
1470 1508 4.322009 GCGTGATACTATGATCGATGTGTG 59.678 45.833 0.54 0.00 0.00 3.82
1471 1509 4.476862 GCGTGATACTATGATCGATGTGT 58.523 43.478 0.54 0.00 0.00 3.72
1472 1510 3.539954 CGCGTGATACTATGATCGATGTG 59.460 47.826 0.54 0.00 0.00 3.21
1473 1511 3.188667 ACGCGTGATACTATGATCGATGT 59.811 43.478 12.93 0.00 0.00 3.06
1474 1512 3.748298 ACGCGTGATACTATGATCGATG 58.252 45.455 12.93 0.00 0.00 3.84
1475 1513 4.159120 CAACGCGTGATACTATGATCGAT 58.841 43.478 14.98 0.00 0.00 3.59
1476 1514 3.551551 CAACGCGTGATACTATGATCGA 58.448 45.455 14.98 0.00 0.00 3.59
1477 1515 2.656897 CCAACGCGTGATACTATGATCG 59.343 50.000 14.98 0.00 0.00 3.69
1478 1516 2.408704 GCCAACGCGTGATACTATGATC 59.591 50.000 14.98 0.00 0.00 2.92
1479 1517 2.223947 TGCCAACGCGTGATACTATGAT 60.224 45.455 14.98 0.00 38.08 2.45
1480 1518 1.135333 TGCCAACGCGTGATACTATGA 59.865 47.619 14.98 0.00 38.08 2.15
1481 1519 1.566404 TGCCAACGCGTGATACTATG 58.434 50.000 14.98 4.95 38.08 2.23
1482 1520 2.303163 TTGCCAACGCGTGATACTAT 57.697 45.000 14.98 0.00 38.08 2.12
1483 1521 2.081725 TTTGCCAACGCGTGATACTA 57.918 45.000 14.98 0.00 38.08 1.82
1484 1522 1.448985 ATTTGCCAACGCGTGATACT 58.551 45.000 14.98 0.00 38.08 2.12
1485 1523 2.256445 AATTTGCCAACGCGTGATAC 57.744 45.000 14.98 3.35 38.08 2.24
1486 1524 2.999507 AAATTTGCCAACGCGTGATA 57.000 40.000 14.98 0.00 38.08 2.15
1487 1525 2.030717 TGTAAATTTGCCAACGCGTGAT 60.031 40.909 14.98 0.00 38.08 3.06
1488 1526 1.333931 TGTAAATTTGCCAACGCGTGA 59.666 42.857 14.98 0.00 38.08 4.35
1489 1527 1.759994 TGTAAATTTGCCAACGCGTG 58.240 45.000 14.98 7.16 38.08 5.34
1490 1528 2.323959 CATGTAAATTTGCCAACGCGT 58.676 42.857 5.58 5.58 38.08 6.01
1491 1529 1.653114 CCATGTAAATTTGCCAACGCG 59.347 47.619 3.53 3.53 38.08 6.01
1492 1530 2.682836 ACCATGTAAATTTGCCAACGC 58.317 42.857 0.00 0.00 0.00 4.84
1493 1531 5.665381 AAAACCATGTAAATTTGCCAACG 57.335 34.783 0.00 0.00 0.00 4.10
1518 1556 2.151202 GCCATCTCCACGTCTCAAAAA 58.849 47.619 0.00 0.00 0.00 1.94
1519 1557 1.610624 GGCCATCTCCACGTCTCAAAA 60.611 52.381 0.00 0.00 0.00 2.44
1520 1558 0.036388 GGCCATCTCCACGTCTCAAA 60.036 55.000 0.00 0.00 0.00 2.69
1521 1559 0.904865 AGGCCATCTCCACGTCTCAA 60.905 55.000 5.01 0.00 0.00 3.02
1522 1560 0.904865 AAGGCCATCTCCACGTCTCA 60.905 55.000 5.01 0.00 0.00 3.27
1523 1561 0.250513 AAAGGCCATCTCCACGTCTC 59.749 55.000 5.01 0.00 0.00 3.36
1524 1562 0.036010 CAAAGGCCATCTCCACGTCT 60.036 55.000 5.01 0.00 0.00 4.18
1525 1563 0.036388 TCAAAGGCCATCTCCACGTC 60.036 55.000 5.01 0.00 0.00 4.34
1526 1564 0.620556 ATCAAAGGCCATCTCCACGT 59.379 50.000 5.01 0.00 0.00 4.49
1527 1565 1.755179 AATCAAAGGCCATCTCCACG 58.245 50.000 5.01 0.00 0.00 4.94
1528 1566 3.091545 TCAAATCAAAGGCCATCTCCAC 58.908 45.455 5.01 0.00 0.00 4.02
1529 1567 3.454719 TCAAATCAAAGGCCATCTCCA 57.545 42.857 5.01 0.00 0.00 3.86
1530 1568 4.161001 ACAATCAAATCAAAGGCCATCTCC 59.839 41.667 5.01 0.00 0.00 3.71
1531 1569 5.334724 ACAATCAAATCAAAGGCCATCTC 57.665 39.130 5.01 0.00 0.00 2.75
1532 1570 5.622914 CGAACAATCAAATCAAAGGCCATCT 60.623 40.000 5.01 0.00 0.00 2.90
1533 1571 4.563976 CGAACAATCAAATCAAAGGCCATC 59.436 41.667 5.01 0.00 0.00 3.51
1534 1572 4.497300 CGAACAATCAAATCAAAGGCCAT 58.503 39.130 5.01 0.00 0.00 4.40
1535 1573 3.860378 GCGAACAATCAAATCAAAGGCCA 60.860 43.478 5.01 0.00 0.00 5.36
1536 1574 2.667969 GCGAACAATCAAATCAAAGGCC 59.332 45.455 0.00 0.00 0.00 5.19
1537 1575 3.578688 AGCGAACAATCAAATCAAAGGC 58.421 40.909 0.00 0.00 0.00 4.35
1538 1576 4.143263 GCAAGCGAACAATCAAATCAAAGG 60.143 41.667 0.00 0.00 0.00 3.11
1539 1577 4.682860 AGCAAGCGAACAATCAAATCAAAG 59.317 37.500 0.00 0.00 0.00 2.77
1540 1578 4.445052 CAGCAAGCGAACAATCAAATCAAA 59.555 37.500 0.00 0.00 0.00 2.69
1541 1579 3.982701 CAGCAAGCGAACAATCAAATCAA 59.017 39.130 0.00 0.00 0.00 2.57
1585 1623 3.727726 CCAACGCATGGTACTATGATCA 58.272 45.455 22.13 0.00 44.85 2.92
1656 1694 1.302907 AAGCCATTCCCTGATGTCCT 58.697 50.000 0.00 0.00 0.00 3.85
1661 1699 3.744940 TCAAGAAAGCCATTCCCTGAT 57.255 42.857 0.00 0.00 38.94 2.90
1668 1706 8.495949 CGTATACGAATATTCAAGAAAGCCATT 58.504 33.333 20.58 0.00 43.02 3.16
1687 1725 3.973657 AGGATGTGCTTAACCGTATACG 58.026 45.455 18.40 18.40 39.44 3.06
1826 1864 6.094603 TCTCAGGTCCATCGTTTAGTACTTAC 59.905 42.308 0.00 0.00 0.00 2.34
1882 1920 8.586570 TTACAAAAATACCATTGCTCAACAAG 57.413 30.769 0.00 0.00 42.87 3.16
1883 1921 7.170658 GCTTACAAAAATACCATTGCTCAACAA 59.829 33.333 0.00 0.00 44.01 2.83
1976 2014 8.257306 CCAAAATACCACATAATAAGGCAGTTT 58.743 33.333 0.00 0.00 0.00 2.66
1986 2024 6.747931 ACCCTAACCCAAAATACCACATAAT 58.252 36.000 0.00 0.00 0.00 1.28
2014 2053 3.023949 GCCGCTCCACTCCTGTCAT 62.024 63.158 0.00 0.00 0.00 3.06
2192 2231 4.024048 GCCTATTACGCATGCAATACAACT 60.024 41.667 19.57 0.00 0.00 3.16
2209 2248 6.267471 TCAAAAGGTGAAACATTCTGCCTATT 59.733 34.615 7.04 3.54 41.66 1.73
2255 2294 6.655078 AATTGACAGGAGTTACATGCTTTT 57.345 33.333 0.00 0.00 33.22 2.27
2293 2332 7.665561 TTTTATTTGCTCCCACATAAAAAGC 57.334 32.000 5.68 0.00 39.10 3.51
2374 2413 6.827727 AGGGTGCAGACTATAATAACGAAAT 58.172 36.000 0.00 0.00 0.00 2.17
2553 2592 7.858382 TGTCACGTTTCCAAAAATATTACAGTG 59.142 33.333 0.00 0.00 0.00 3.66
2562 2601 3.181480 CCACCTGTCACGTTTCCAAAAAT 60.181 43.478 0.00 0.00 0.00 1.82
2613 2652 4.321718 ACTTCATCAGATGGTCAGTTGTG 58.678 43.478 10.67 0.00 0.00 3.33
2696 2735 5.237996 ACATGAGAATAAACAGCATGATCGG 59.762 40.000 0.00 0.00 39.69 4.18
2712 2751 8.939929 GTCAGATGAAAGAAACATACATGAGAA 58.060 33.333 0.00 0.00 0.00 2.87
2868 2908 4.470462 CACAAGCTGAGCACAACTTATTC 58.530 43.478 7.39 0.00 32.19 1.75
2885 2925 1.899814 TGCCAGAGGTAGTACCACAAG 59.100 52.381 21.49 11.12 41.95 3.16
2952 3075 0.323999 AAGAATGGCATGCAGCTCCA 60.324 50.000 21.36 8.12 44.79 3.86
2978 3101 8.147058 GGCAAAATAAAACCCAAATGGAAAAAT 58.853 29.630 0.00 0.00 37.39 1.82
3058 3182 8.888716 ACAAAAGAAAACAGTGAAAACAGTTTT 58.111 25.926 11.22 11.22 44.22 2.43
3073 3197 4.733405 CGGCACTGTAAGACAAAAGAAAAC 59.267 41.667 0.00 0.00 37.43 2.43
3237 3363 8.791675 TGTGTCAATAACAGAAAGAATATGCAA 58.208 29.630 0.00 0.00 38.97 4.08
3251 3377 3.222173 ACTTGGGCTGTGTCAATAACA 57.778 42.857 0.00 0.00 34.78 2.41
3460 3598 5.967674 GCTATCATTTCTTGTGTTTGGATCG 59.032 40.000 0.00 0.00 0.00 3.69
3484 3622 6.451064 AAAGAAAGTAAAGAACCACACAGG 57.549 37.500 0.00 0.00 45.67 4.00
3612 3750 8.512956 GCATGACATAGCAAATAGAAGATTGAT 58.487 33.333 0.00 0.00 0.00 2.57
3613 3751 7.718314 AGCATGACATAGCAAATAGAAGATTGA 59.282 33.333 0.00 0.00 0.00 2.57
3614 3752 7.872881 AGCATGACATAGCAAATAGAAGATTG 58.127 34.615 0.00 0.00 0.00 2.67
3650 3788 8.587950 CAATAATTCGAGACTGAGTACAGAAAC 58.412 37.037 0.00 0.00 46.03 2.78
3807 3949 3.722555 ACGTATTGATTTCACACTGCG 57.277 42.857 0.00 0.00 35.56 5.18
3848 3990 1.202114 GATTTGCCGGCAGAAATGTCA 59.798 47.619 30.75 9.52 0.00 3.58
3851 3993 2.159212 TGATGATTTGCCGGCAGAAATG 60.159 45.455 30.75 0.00 0.00 2.32
4160 4341 3.074412 CTCGGCAACCTGTAAACAGAAT 58.926 45.455 11.69 0.00 46.59 2.40
4384 4565 7.933577 TGTTAATGACAAATAGATCTAGCCAGG 59.066 37.037 8.70 0.00 34.69 4.45
4421 4602 4.210331 AGAATGATGCAAGTGGATAACCC 58.790 43.478 0.00 0.00 34.81 4.11
4582 4788 1.281867 CCCATGTTTCTAGTGCCCAGA 59.718 52.381 0.00 0.00 0.00 3.86
4587 4793 3.356290 ACCAATCCCATGTTTCTAGTGC 58.644 45.455 0.00 0.00 0.00 4.40
4653 4859 3.181467 CCTCTGCTTCATACTCTTCAGGG 60.181 52.174 0.00 0.00 0.00 4.45
4674 4880 1.352083 TAGATACCTGGGCAGCATCC 58.648 55.000 0.00 0.00 0.00 3.51
4878 5089 0.179000 GAGGAGTGCCGATTGGATGT 59.821 55.000 1.98 0.00 39.96 3.06
5080 5291 6.947644 TCACATCAAAATGGGTCATCATAG 57.052 37.500 0.00 0.00 37.57 2.23
5254 5465 5.921962 ATAAAAATTTGCTCCTCCCACTC 57.078 39.130 0.00 0.00 0.00 3.51
5284 5495 1.713932 GTTTGCAAAAGCGACGATTCC 59.286 47.619 14.67 0.00 0.00 3.01
5319 5532 3.129638 AGTGAAGAACGAGCCTATCAGTC 59.870 47.826 0.00 0.00 0.00 3.51
5367 5583 2.604614 GCGAAAAACAGACGGCAAGAAT 60.605 45.455 0.00 0.00 0.00 2.40
5376 5592 3.643159 AAGGGAATGCGAAAAACAGAC 57.357 42.857 0.00 0.00 0.00 3.51
5483 5699 2.711542 CCAGGAAGAATGCTTTACCGT 58.288 47.619 0.00 0.00 33.61 4.83
5705 5921 2.332654 GGTGCAAGTACGGCCAAGG 61.333 63.158 2.24 0.00 0.00 3.61
5706 5922 2.677003 CGGTGCAAGTACGGCCAAG 61.677 63.158 2.24 0.00 0.00 3.61
5723 5939 3.429141 CAAGCCAGGACAGCAGCG 61.429 66.667 0.00 0.00 0.00 5.18
5814 6039 4.428845 CCCAACAGGCAGCAGAAT 57.571 55.556 0.00 0.00 0.00 2.40
5862 6087 3.114616 CAGCCTTGCACGACCGAG 61.115 66.667 0.00 0.00 0.00 4.63
5913 6138 1.999648 AAACATCAGCCAAGCTTCCA 58.000 45.000 0.00 0.00 36.40 3.53
5917 6142 0.971386 CCCAAAACATCAGCCAAGCT 59.029 50.000 0.00 0.00 40.77 3.74
5952 6177 1.210478 TCTTGGCTAGGGCAGTTCATC 59.790 52.381 0.00 0.00 39.75 2.92


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

AutoCloner maintained by Alex Coulton.