Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013663.1 Kokia drynarioides strain JFW-HI SEQ_128691, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17275
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Warning! 6 characters in sequence are not A, C, G, or T
Found at i:1434 original size:30 final size:30
Alignment explanation
Indices: 1398--1696 Score: 308
Period size: 29 Copynumber: 10.1 Consensus size: 30
1388 GTTTACCCTG
* *
1398 AACTTCCAAAAATCCCATTTTCAACCTCAA
1 AACTTCCAAAAATCCCATTTTTAACCCCAA
* * ** *
1428 AACTTCCAAAAATTCAAAATTT-ACCCTC-G
1 AACTTCCAAAAATCCCATTTTTAACCC-CAA
* *
1457 AACTTCCAAAAATCCCATTTTTTACCCCGA
1 AACTTCCAAAAATCCCATTTTTAACCCCAA
* * *
1487 AACTTCCAAAAATTCTATTTTT-ACCCTC-G
1 AACTTCCAAAAATCCCATTTTTAACCC-CAA
1516 AACTTCC-AAAATCCCATTTTTAACCCCAA
1 AACTTCCAAAAATCCCATTTTTAACCCCAA
*
1545 AACTTCCAAAAATTCCATTTTT-ACCCTC-A
1 AACTTCCAAAAATCCCATTTTTAACCC-CAA
* *
1574 AACTTCCAAAAATCTCATTTTTGACCCCAA
1 AACTTCCAAAAATCCCATTTTTAACCCCAA
**
1604 AACTTCCAAAAATTTCATTTTT-ACCCCAA
1 AACTTCCAAAAATCCCATTTTTAACCCCAA
* * * *
1633 AACTTCAAAAAATTCCATTTTTACCCACCTA
1 AACTTCCAAAAATCCCATTTTTAACC-CCAA
*
1664 AACTTCCAAAAATCCCATTTTTAACCCCGA
1 AACTTCCAAAAATCCCATTTTTAACCCCAA
1694 AAC
1 AAC
1697 ATTTTTACCC
Statistics
Matches: 227, Mismatches: 30, Indels: 24
0.81 0.11 0.09
Matches are distributed among these distances:
28 13 0.06
29 97 0.43
30 91 0.40
31 26 0.11
ACGTcount: A:0.37, C:0.31, G:0.02, T:0.30
Consensus pattern (30 bp):
AACTTCCAAAAATCCCATTTTTAACCCCAA
Found at i:1475 original size:59 final size:59
Alignment explanation
Indices: 1372--1694 Score: 379
Period size: 59 Copynumber: 5.5 Consensus size: 59
1362 GTCCCTAAAC
* * * *
1372 CTTCCAAAAATTTC-GTGTTTACCCT-GAACTTCCAAAAATCCCATTTTCAACCTCAAAA
1 CTTCCAAAAA-TTCAATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTAACCCCAAAA
** * *
1430 CTTCCAAAAATTCAAAATTTACCCTCGAACTTCCAAAAATCCCATTTTTTACCCCGAAA
1 CTTCCAAAAATTCAATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTAACCCCAAAA
*
1489 CTTCCAAAAATTCTATTTTTACCCTCGAACTTCC-AAAATCCCATTTTTAACCCCAAAA
1 CTTCCAAAAATTCAATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTAACCCCAAAA
* * * *
1547 CTTCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCTCATTTTTGACCCCAAAA
1 CTTCCAAAAATTCAATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTAACCCCAAAA
* * * * *
1606 CTTCCAAAAATTTC-ATTTTTACCC-CAAAACTTCAAAAAATTCCATTTTTACCCACCTAAA
1 CTTCCAAAAA-TTCAATTTTTACCCTC-GAACTTCCAAAAATCCCATTTTTAACC-CCAAAA
* *
1666 CTTCCAAAAATCCCATTTTTAACCC-CGAA
1 CTTCCAAAAATTCAATTTTT-ACCCTCGAA
1695 ACATTTTTAC
Statistics
Matches: 233, Mismatches: 24, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
57 3 0.01
58 73 0.31
59 126 0.54
60 26 0.11
61 5 0.02
ACGTcount: A:0.36, C:0.30, G:0.02, T:0.31
Consensus pattern (59 bp):
CTTCCAAAAATTCAATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTAACCCCAAAA
Found at i:1578 original size:117 final size:117
Alignment explanation
Indices: 1372--1686 Score: 411
Period size: 117 Copynumber: 2.7 Consensus size: 117
1362 GTCCCTAAAC
* * * *
1372 CTTCCAAAAATTTCGTGTTTACCCT-GAACTTCCAAAAATCCCATTTTCAACCTCAAAACTTCCA
1 CTTCCAAAAATTTCATTTTTACCCTCGAACTTCC-AAAATCCCATTTTTAACCCCAAAACTTCCA
* ** * * *
1436 AAAATTCAAAATTTACCCTCGAACTTCCAAAAATCCCATTTTTTACCCCGAAA
65 AAAATTCCATTTTTACCCTCAAACTTCCAAAAATCCCATTTTTGACCCCAAAA
1489 CTTCCAAAAA-TTCTATTTTTACCCTCGAACTTCCAAAATCCCATTTTTAACCCCAAAACTTCCA
1 CTTCCAAAAATTTC-ATTTTTACCCTCGAACTTCCAAAATCCCATTTTTAACCCCAAAACTTCCA
*
1553 AAAATTCCATTTTTACCCTCAAACTTCCAAAAATCTCATTTTTGACCCCAAAA
65 AAAATTCCATTTTTACCCTCAAACTTCCAAAAATCCCATTTTTGACCCCAAAA
* * * * *
1606 CTTCCAAAAATTTCATTTTTACCC-CAAAACTTCAAAAAATTCCATTTTTACCCACCTAAACTTC
1 CTTCCAAAAATTTCATTTTTACCCTC-GAACTTC-CAAAATCCCATTTTTAACC-CCAAAACTTC
*
1670 CAAAAATCCCATTTTTA
63 CAAAAATTCCATTTTTA
1687 ACCCCGAAAC
Statistics
Matches: 175, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
116 4 0.02
117 119 0.68
118 27 0.15
119 25 0.14
ACGTcount: A:0.36, C:0.30, G:0.02, T:0.32
Consensus pattern (117 bp):
CTTCCAAAAATTTCATTTTTACCCTCGAACTTCCAAAATCCCATTTTTAACCCCAAAACTTCCAA
AAATTCCATTTTTACCCTCAAACTTCCAAAAATCCCATTTTTGACCCCAAAA
Found at i:1706 original size:16 final size:17
Alignment explanation
Indices: 1679--1716 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
1669 CCAAAAATCC
*
1679 CATTTTTAACCCCGAAA
1 CATTTTTAACCCCCAAA
1696 CATTTTT-ACCCCCAAA
1 CATTTTTAACCCCCAAA
1712 C-TTTT
1 CATTTT
1717 AAAAAAATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 9 0.45
17 7 0.35
ACGTcount: A:0.29, C:0.32, G:0.03, T:0.37
Consensus pattern (17 bp):
CATTTTTAACCCCCAAA
Found at i:1774 original size:29 final size:29
Alignment explanation
Indices: 1742--1910 Score: 127
Period size: 29 Copynumber: 5.8 Consensus size: 29
1732 TTAACCCCGT
* *
1742 AACTTCCCAAAATTCCATTTTTACCCTCG
1 AACTTCCAAAAATTCCATTTTTACCCTTG
* *
1771 AACTTCCAAAAATACCATTTTTAACCTTG
1 AACTTCCAAAAATTCCATTTTTACCCTTG
* * *
1800 AAAC-TACAAAAAGTTCCATTTTTGCCCTTA
1 -AACTTCCAAAAA-TTCCATTTTTACCCTTG
1830 AACTTCC-AAAATCTCCATTTTTGA-CCTTG
1 AACTTCCAAAAAT-TCCATTTTT-ACCCTTG
* *
1859 AAAC-TCTCAAAACTTACC--TTTTACCCTCG
1 -AACTTC-CAAAAATT-CCATTTTTACCCTTG
*
1888 AA-TGTCTAAAAATTCCATTTTTA
1 AACT-TCCAAAAATTCCATTTTTA
1911 AACCATAAAT
Statistics
Matches: 110, Mismatches: 16, Indels: 28
0.71 0.10 0.18
Matches are distributed among these distances:
27 2 0.02
28 10 0.09
29 69 0.63
30 23 0.21
31 6 0.05
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.36
Consensus pattern (29 bp):
AACTTCCAAAAATTCCATTTTTACCCTTG
Found at i:1819 original size:59 final size:58
Alignment explanation
Indices: 1750--1911 Score: 172
Period size: 59 Copynumber: 2.8 Consensus size: 58
1740 GTAACTTCCC
*
1750 AAAATTCCATTTTTACCCTCGAACTTCCAAAAATACCATTTTTAACCTTGAAACTAC-A
1 AAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCTTGAAACT-CTA
* ** *
1808 AAAAGTTCCATTTTTGCCCTTAAACTTCC-AAAATCTCCATTTTTGACCTTGAAACTCTCA
1 AAAA-TTCCATTTTTACCCTCGAACTTCCAAAAAT-TCCATTTTTAACCTTGAAACTCT-A
* *
1868 AAACTTACC--TTTTACCCTCGAA-TGTCTAAAAATTCCATTTTTAA
1 AAAATT-CCATTTTTACCCTCGAACT-TCCAAAAATTCCATTTTTAA
1912 ACCATAAATT
Statistics
Matches: 86, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
57 1 0.01
58 32 0.37
59 47 0.55
60 6 0.07
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (58 bp):
AAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCTTGAAACTCTA
Found at i:10412 original size:28 final size:28
Alignment explanation
Indices: 10372--10428 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
10362 ATTAACCCGG
10372 ATAAAGTCAAAGACATATAGGAGCTACC
1 ATAAAGTCAAAGACATATAGGAGCTACC
10400 ATAAAGTCAAAGACATATAGGAGCTACC
1 ATAAAGTCAAAGACATATAGGAGCTACC
10428 A
1 A
10429 CCACCCAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (28 bp):
ATAAAGTCAAAGACATATAGGAGCTACC
Found at i:14208 original size:201 final size:192
Alignment explanation
Indices: 13730--14260 Score: 697
Period size: 201 Copynumber: 2.7 Consensus size: 192
13720 AAAGCGAGCA
* * * *
13730 AAATCTTCAAACCCCAACTTCCTGATGAGATATGGAGAAGCAGGGCGAAGCAATAAAAGGTTAGC
1 AAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAAGGTTAGC
*
13795 TTCCTGATGAGACACTGAGAAGTGGACCAAATTCATCTTCCTAATGAGGTACAGAGAAGCGAATT
66 TTCCTGATGAGACACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGGTACAGAGAAGCG-ATT
* ** * * *
13860 GAAA-AAATGGGGTGGTTATCTTCCTGATGAGATACAAAGAAGTATACCAACTCAATGCAAAT
130 GAAACAAATGCGACGGTTATCTTCCTAATGAGATACAAAGAAGTATACCAACTCAAGGCAAAC
* *
13922 AAATCTTCGAACCCCAGCTTCCTGATAAGATACTGAGAAGCAAGGT-GAAGCAATAGAAAGGTTA
1 AAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGAAGC-AGGTCGAAGCAATA-AAAGGTTA
* * * *
13986 GCTTCATGATGAGACACTGAGAAGTGGACCAAATTCATCTTCTTGATGATGTATAGAGAAGCAGA
64 GCTTCCTGATGAGACACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGGTACAGAGAAGC-GA
* *
14051 TTGAAACAAATGCGACGGTTATCTTCCTAATGAGATACAGAGAAGTATACCAACTCAGGGCCCAA
128 TTGAAACAAATGCGACGGTTATCTTCCTAATGAGATACAAAGAAGTATACCAACTCAAGG--CAA
14116 TGTGAGC
191 ----A-C
* *
14123 AAATCTTTGAATCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAATGGTTAG
1 AAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAA-GGTTAG
* * * * *
14188 CTTCCTGATGAAATACTGAGAAGTAGACCAAATTTATCTTCCTGAGGAGGTACAGAGAAGCGGAT
65 CTTCCTGATGAGACACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGGTACAGAGAAGC-GAT
14253 TGAAACAA
129 TGAAACAA
14261 GTAATGCGGT
Statistics
Matches: 293, Mismatches: 33, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
192 45 0.15
193 75 0.26
194 47 0.16
196 3 0.01
200 8 0.03
201 115 0.39
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (192 bp):
AAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAAGGTTAGC
TTCCTGATGAGACACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGGTACAGAGAAGCGATTG
AAACAAATGCGACGGTTATCTTCCTAATGAGATACAAAGAAGTATACCAACTCAAGGCAAAC
Found at i:14747 original size:13 final size:14
Alignment explanation
Indices: 14729--14757 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14719 AAAATTTAAT
14729 AATGTCC-AATTAC
1 AATGTCCAAATTAC
14742 AATGTCCAAATTAC
1 AATGTCCAAATTAC
14756 AA
1 AA
14758 ATTGGGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.28
Consensus pattern (14 bp):
AATGTCCAAATTAC
Found at i:15417 original size:28 final size:27
Alignment explanation
Indices: 15382--15435 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
15372 ATAATGCTTA
** *
15382 ATAATAATATTGTTATTAATAATAACC
1 ATAATAATATTAATAATAATAATAACC
15409 ATAATTAATATTAATAATAATAATAAC
1 ATAA-TAATATTAATAATAATAATAAC
15436 TGTTTTTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.39
Consensus pattern (27 bp):
ATAATAATATTAATAATAATAATAACC
Found at i:15426 original size:9 final size:9
Alignment explanation
Indices: 15414--15473 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
15404 TAACCATAAT
15414 TAATATTAA
1 TAATATTAA
*
15423 TAATAATAA
1 TAATATTAA
* *
15432 TAACTGTT-T
1 TAA-TATTAA
* *
15441 TTACATTAA
1 TAATATTAA
15450 TAATATTAA
1 TAATATTAA
15459 TAATATTAA
1 TAATATTAA
15468 TTAATA
1 -TAATA
15474 AATAAATAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
8 2 0.05
9 29 0.76
10 7 0.18
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (9 bp):
TAATATTAA
Found at i:16536 original size:30 final size:29
Alignment explanation
Indices: 16474--16796 Score: 324
Period size: 29 Copynumber: 11.0 Consensus size: 29
16464 GTCCCTAAAT
*** * *
16474 CTTCCAAAAATTATATTTTTATCCCTGAA
1 CTTCCAAAAATCCCATTTTTACCCCCGAA
16503 CTTCCAAAAATCCCATTTTTACCCCCCGAA
1 CTTCCAAAAATCCCATTTTTA-CCCCCGAA
* *
16533 CTTCCAAAAATCCCATTTTTAACCTCGAAA
1 CTTCCAAAAATCCCATTTTTACCCCCG-AA
* *
16563 CTTCCAAAAATTCCATTTTTACCCCCAAA
1 CTTCCAAAAATCCCATTTTTACCCCCGAA
* *
16592 CTTCTAAAAATCCCATTTTTAACCCCGAAA
1 CTTCCAAAAATCCCATTTTTACCCCCG-AA
* * *
16622 CTTCCAAAAATTCTATTTTTTACCCTCGAA
1 CTTCCAAAAATCCCA-TTTTTACCCCCGAA
* **
16652 CTTCC-AAAATCCCATTTTTAACCTTGAAA
1 CTTCCAAAAATCCCATTTTTACCCCCG-AA
* * * *
16681 CTTCCAAAAATTCTAATTTTACCTCCGAA
1 CTTCCAAAAATCCCATTTTTACCCCCGAA
* **
16710 CTTCCAAAAATCCCATTTTAACCCCAAAA
1 CTTCCAAAAATCCCATTTTTACCCCCGAA
* * *
16739 CTTCCAAAAATTCTATTTTTACCCCCAAA
1 CTTCCAAAAATCCCATTTTTACCCCCGAA
* * *
16768 CTTCCAAATATCTCATTTTTAACCCCGAA
1 CTTCCAAAAATCCCATTTTTACCCCCGAA
16797 AAATTTTTAC
Statistics
Matches: 240, Mismatches: 48, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
28 10 0.04
29 133 0.55
30 87 0.36
31 10 0.04
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.33
Consensus pattern (29 bp):
CTTCCAAAAATCCCATTTTTACCCCCGAA
Found at i:16588 original size:59 final size:59
Alignment explanation
Indices: 16474--16797 Score: 429
Period size: 59 Copynumber: 5.5 Consensus size: 59
16464 GTCCCTAAAT
*** * * * *
16474 CTTCCAAAAATTATATTTTTATCCCTG-AACTTCCAAAAATCCCATTTTTACCCCCCGAA
1 CTTCCAAAAATCCCATTTTTAACCCCGAAACTTCCAAAAATTCTATTTTTA-CCCCCGAA
* * *
16533 CTTCCAAAAATCCCATTTTTAACCTCGAAACTTCCAAAAATTCCATTTTTACCCCCAAA
1 CTTCCAAAAATCCCATTTTTAACCCCGAAACTTCCAAAAATTCTATTTTTACCCCCGAA
* *
16592 CTTCTAAAAATCCCATTTTTAACCCCGAAACTTCCAAAAATTCTATTTTTTACCCTCGAA
1 CTTCCAAAAATCCCATTTTTAACCCCGAAACTTCCAAAAATTCTA-TTTTTACCCCCGAA
** * *
16652 CTTCC-AAAATCCCATTTTTAACCTTGAAACTTCCAAAAATTCTAATTTTACCTCCGAA
1 CTTCCAAAAATCCCATTTTTAACCCCGAAACTTCCAAAAATTCTATTTTTACCCCCGAA
* *
16710 CTTCCAAAAATCCCA-TTTTAACCCCAAAACTTCCAAAAATTCTATTTTTACCCCCAAA
1 CTTCCAAAAATCCCATTTTTAACCCCGAAACTTCCAAAAATTCTATTTTTACCCCCGAA
* *
16768 CTTCCAAATATCTCATTTTTAACCCCGAAA
1 CTTCCAAAAATCCCATTTTTAACCCCGAAA
16798 AATTTTTACC
Statistics
Matches: 233, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
58 66 0.28
59 129 0.55
60 38 0.16
ACGTcount: A:0.35, C:0.30, G:0.02, T:0.33
Consensus pattern (59 bp):
CTTCCAAAAATCCCATTTTTAACCCCGAAACTTCCAAAAATTCTATTTTTACCCCCGAA
Found at i:16869 original size:29 final size:29
Alignment explanation
Indices: 16799--17045 Score: 170
Period size: 29 Copynumber: 8.3 Consensus size: 29
16789 ACCCCGAAAA
*
16799 ATTTTTACCC-CAAACTTCCAAAAAAATCC
1 ATTTTTACCCTCAAACTTCC-AAAAATTCC
* *
16828 TATTATTAACCCTAAAACTTCCAAAAATTCC
1 -ATT-TTTACCCTCAAACTTCCAAAAATTCC
*
16859 ATTTTTACCCTCAAACTTCCAAAAATGCC
1 ATTTTTACCCTCAAACTTCCAAAAATTCC
16888 ATTTTTGACCC-CGAAACTTCCAAAAATTCC
1 ATTTTT-ACCCTC-AAACTTCCAAAAATTCC
* **
16918 ATTTTTGCCCTTGAACTTCC-AAAATCTCC
1 ATTTTTACCCTCAAACTTCCAAAAAT-TCC
* *
16947 ATTTTCGA-CCTCGAAAC-TCTCAAAATTTCC
1 ATTTT-TACCCTC-AAACTTC-CAAAAATTCC
* * * *
16977 -CTTTTACCCCCGAA-TGTCTAAAAATTCC
1 ATTTTTACCCTCAAACT-TCCAAAAATTCC
* *
17005 ATTTTTAAACCCT-AAATTTTCCTAAAATTACC
1 ATTTTT--ACCCTCAAA-CTTCCAAAAATT-CC
17037 A-TTTTACCC
1 ATTTTTACCC
17046 CCGGGTATCC
Statistics
Matches: 172, Mismatches: 26, Indels: 39
0.73 0.11 0.16
Matches are distributed among these distances:
28 16 0.09
29 69 0.40
30 41 0.24
31 34 0.20
32 12 0.07
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.34
Consensus pattern (29 bp):
ATTTTTACCCTCAAACTTCCAAAAATTCC
Found at i:16877 original size:106 final size:104
Alignment explanation
Indices: 16697--16903 Score: 301
Period size: 106 Copynumber: 2.0 Consensus size: 104
16687 AAAATTCTAA
* *
16697 TTTTACCTCCGAACTTCCAAAAATCCCATTTTAACCCCAAAACTTCCAAAAATTCTATTTTTACC
1 TTTTACCTCCAAACTTCCAAAAATCCCATTTTAACCCCAAAACTTCCAAAAATTCCATTTTTACC
*
16762 CCCAAACTTCCAAATAT-CTCATTTTTAACCCCGAAAAAT
66 CCCAAACTTCCAAAAATGC-CATTTTTAACCCCGAAAAAT
* *
16801 TTTTACC-CCAAACTTCCAAAAAAATCCTATTATTAACCCTAAAACTTCCAAAAATTCCATTTTT
1 TTTTACCTCCAAACTTCC--AAAAATCCCATT-TTAACCCCAAAACTTCCAAAAATTCCATTTTT
* *
16865 ACCCTCAAACTTCCAAAAATGCCATTTTTGACCCCGAAA
63 ACCCCCAAACTTCCAAAAATGCCATTTTTAACCCCGAAA
16904 CTTCCAAAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
103 9 0.10
104 7 0.08
105 11 0.12
106 64 0.70
107 1 0.01
ACGTcount: A:0.37, C:0.30, G:0.02, T:0.31
Consensus pattern (104 bp):
TTTTACCTCCAAACTTCCAAAAATCCCATTTTAACCCCAAAACTTCCAAAAATTCCATTTTTACC
CCCAAACTTCCAAAAATGCCATTTTTAACCCCGAAAAAT
Found at i:16909 original size:59 final size:58
Alignment explanation
Indices: 16799--16985 Score: 191
Period size: 59 Copynumber: 3.2 Consensus size: 58
16789 ACCCCGAAAA
* * **
16799 ATTTTTACCC-CAAACTTCCAAAAAAATCCTATTATTAACCCTAAAACTTCCAAAAATTCC
1 ATTTTTACCCTCAAACTTCC--AAAAATCC-ATTTTTGACCCCGAAACTTCCAAAAATTCC
16859 ATTTTTACCCTCAAACTTCCAAAAATGCCATTTTTGACCCCGAAACTTCCAAAAATTCC
1 ATTTTTACCCTCAAACTTCCAAAAAT-CCATTTTTGACCCCGAAACTTCCAAAAATTCC
* ** * * * *
16918 ATTTTTGCCCTTGAACTTCCAAAATCTCCATTTTCGACCTCGAAAC-TCTCAAAATTTCC
1 ATTTTTACCCTCAAACTTCCAAAA-ATCCATTTTTGACCCCGAAACTTC-CAAAAATTCC
*
16977 -CTTTTACCC
1 ATTTTTACCC
16986 CCGAATGTCT
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
58 9 0.08
59 79 0.72
60 13 0.12
61 9 0.08
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (58 bp):
ATTTTTACCCTCAAACTTCCAAAAATCCATTTTTGACCCCGAAACTTCCAAAAATTCC
Done.