Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011925.1 Kokia drynarioides strain JFW-HI SEQ_126923, 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: 187545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 34 characters in sequence are not A, C, G, or T
Found at i:1802 original size:28 final size:28
Alignment explanation
Indices: 1741--1805 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
1731 TCATTTTAAT
*
1741 TTTTTGAAACAAATTATACAGTTTAATAA
1 TTTTT-AAACAAATTATAAAGTTTAATAA
*
1770 ATTTTAAACAAATTATAAAAGTTCT-AT-A
1 TTTTTAAACAAATTAT-AAAGTT-TAATAA
1798 TTTTTAAA
1 TTTTTAAA
1806 AATTAACTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 19 0.61
29 11 0.35
30 1 0.03
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (28 bp):
TTTTTAAACAAATTATAAAGTTTAATAA
Found at i:3774 original size:19 final size:19
Alignment explanation
Indices: 3746--3797 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
3736 TTCAAGTAAT
3746 AATT-ATAATTATAATTTA
1 AATTGATAATTATAATTTA
**
3764 AATTGATAATTATTTTTTA
1 AATTGATAATTATAATTTA
3783 AATGTG-TAATT-TAAT
1 AAT-TGATAATTATAAT
3798 ATAATTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 6 0.21
19 20 0.71
20 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (19 bp):
AATTGATAATTATAATTTA
Found at i:14167 original size:85 final size:84
Alignment explanation
Indices: 14070--14320 Score: 403
Period size: 84 Copynumber: 3.0 Consensus size: 84
14060 GTTGACCATG
* * * *
14070 TAATGTGTTGATTTGACAATACATTATTTACTAAATTTAAATATTTAAATAAAAAATTTATTATT
1 TAATGTGTTGATTTGACAATACATTATTTATTAATTTTAAATATTTAAATCAACAA-TTATTATT
*
14135 ATATTATAATTTTTATCAAA
65 ATATTACAATTTTTATCAAA
* * *
14155 TAATGTGTTGATTTTATAAAACATTATTTATTAATTTTAAATATTTAAATCAACAATTATTATTA
1 TAATGTGTTGATTTGACAATACATTATTTATTAATTTTAAATATTTAAATCAACAATTATTATTA
*
14220 TATTACAATTTTTTTCAAA
66 TATTACAATTTTTATCAAA
*
14239 AAATGTGTTGATTTGACAATACATTATTTATTAATTTTAAATATTTAAATCAACAATTATTATTA
1 TAATGTGTTGATTTGACAATACATTATTTATTAATTTTAAATATTTAAATCAACAATTATTATTA
14304 TATTACAATTTTTATCA
66 TATTACAATTTTTATCA
14321 TATTTTAAAT
Statistics
Matches: 152, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
84 103 0.68
85 49 0.32
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.48
Consensus pattern (84 bp):
TAATGTGTTGATTTGACAATACATTATTTATTAATTTTAAATATTTAAATCAACAATTATTATTA
TATTACAATTTTTATCAAA
Found at i:14313 original size:17 final size:17
Alignment explanation
Indices: 14291--14324 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14281 ATTTAAATCA
*
14291 ACAATTATTATTATATT
1 ACAATTATTATCATATT
*
14308 ACAATTTTTATCATATT
1 ACAATTATTATCATATT
14325 TTAAATTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (17 bp):
ACAATTATTATCATATT
Found at i:14444 original size:22 final size:22
Alignment explanation
Indices: 14419--14476 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
14409 ACCACCCAAT
* * *
14419 TTCCAGCTCACCTAAATCGATA
1 TTCCAGCTCACCAAAACCGAAA
* *
14441 TTCCATCTCAGCAAAACCGAAA
1 TTCCAGCTCACCAAAACCGAAA
14463 TTCCAGCTCACCAA
1 TTCCAGCTCACCAA
14477 CACCTCAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.34, C:0.34, G:0.09, T:0.22
Consensus pattern (22 bp):
TTCCAGCTCACCAAAACCGAAA
Found at i:15517 original size:21 final size:21
Alignment explanation
Indices: 15491--15539 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
15481 ATATTTTCGA
*
15491 ATTTTTTATAACATTTTTTTCT
1 ATTTTTTA-AACATTTTTTTAT
*
15513 ATTTTTTAAACGTTTTTTTAT
1 ATTTTTTAAACATTTTTTTAT
15534 ATTTTT
1 ATTTTT
15540 GAATTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.69
Consensus pattern (21 bp):
ATTTTTTAAACATTTTTTTAT
Found at i:16781 original size:23 final size:24
Alignment explanation
Indices: 16755--16809 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
16745 TTTATTTTAA
*
16755 ATTTAATTTT-TAATTTCCTGTAT
1 ATTTAATTTTCTAATTTCCCGTAT
*
16778 ATTT-TTTTTCTAATTTCCCGTAT
1 ATTTAATTTTCTAATTTCCCGTAT
16801 ATTCTAATT
1 ATT-TAATT
16810 ATTTTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 4 0.15
23 19 0.73
24 1 0.04
25 2 0.08
ACGTcount: A:0.24, C:0.13, G:0.04, T:0.60
Consensus pattern (24 bp):
ATTTAATTTTCTAATTTCCCGTAT
Found at i:16781 original size:30 final size:30
Alignment explanation
Indices: 16719--16782 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
16709 TCCGTTTACT
* * *
16719 TTTTAAATTTAATTTGTAATTTCGTTTTTA
1 TTTTAAATTTAATTTGTAATTTCCTGTATA
*
16749 TTTTAAATTTAATTTTTAATTTCCTGTATA
1 TTTTAAATTTAATTTGTAATTTCCTGTATA
16779 TTTT
1 TTTT
16783 TTTTCTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (30 bp):
TTTTAAATTTAATTTGTAATTTCCTGTATA
Found at i:17702 original size:59 final size:61
Alignment explanation
Indices: 17620--18114 Score: 430
Period size: 61 Copynumber: 8.2 Consensus size: 61
17610 AGGGGAAGTT
* * * *
17620 GGTGTCGGCCATTACATGGCCAACACCAAAAAATTT-AA-TTTTTTACCAAATAAAAAGGG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAATTTGAATTTTTTTATCAGATAAAAAGGG
* * * ** *
17679 GGTATCGGCCATTGCATGACCAACA-CAAAAAAAATGTAATTTTTTTATCTG--AAAAAGGG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAATTTG-AATTTTTTTATCAGATAAAAAGGG
** * ** *
17738 GGTGTTGGCCATTGCAT-ACCAACACCAAAAAAATTTGAATTTTTTTTATTTGAGAAAAA-GG
1 GGTGTCAGCCATTGCATGGCCAACACC-AAAAAATTTGAA-TTTTTTTATCAGATAAAAAGGG
* * * * * *
17799 GGTATCAACCATTGCATGGCCAACACTAAAAATTTTGAAAATTTTTTATCTGA-AAAAAGGG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAATTTG-AATTTTTTTATCAGATAAAAAGGG
* * * *
17860 GGTGTCAGCCATTGCTTGGCCTACACCAAAAAAATTTGAAATTTTTTTTATCTG--AAAAAGTG
1 GGTGTCAGCCATTGCATGGCCAACACC-AAAAAATTTG-AA-TTTTTTTATCAGATAAAAAGGG
* * * * * *
17922 GGTATTAGCCATTGCATGGCCCACACCAAAAAA-ATGCAATTTTTTTTATCTGA-AAAAA-GA
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAATTTG-AA-TTTTTTTATCAGATAAAAAGGG
* * * *
17982 GGTGTCAACCATTGCATGGCCAACACAAAAAAAATTTGAATTTTTTTATCTGA-GAAAAGGG
1 GGTGTCAGCCATTGCATGGCCAACAC-CAAAAAATTTGAATTTTTTTATCAGATAAAAAGGG
18043 GGTGTC-GTCCATTGCATGGCCAACACCAAAAAATTT-AATTTTTTTATCAGATTAAAAA-GG
1 GGTGTCAG-CCATTGCATGGCCAACACCAAAAAATTTGAATTTTTTTATCAGA-TAAAAAGGG
*
18103 GGTGTCTGCCAT
1 GGTGTCAGCCAT
18115 GCAAAATTTT
Statistics
Matches: 365, Mismatches: 50, Indels: 41
0.80 0.11 0.09
Matches are distributed among these distances:
58 15 0.04
59 62 0.17
60 103 0.28
61 116 0.32
62 58 0.16
63 11 0.03
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (61 bp):
GGTGTCAGCCATTGCATGGCCAACACCAAAAAATTTGAATTTTTTTATCAGATAAAAAGGG
Found at i:17811 original size:61 final size:61
Alignment explanation
Indices: 17620--18114 Score: 491
Period size: 60 Copynumber: 8.2 Consensus size: 61
17610 AGGGGAAGTT
* * * **
17620 GGTGTCGGCCATTACATGGCCAACACC-AAAAAATTT-AA--TTTTTTACCAAATAAAAAGGG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGA-AAAAA-GG
* * * * * *
17679 GGTATCGGCCATTGCATGACCAACACAAAAAAAATGT-AA-TTTTTTTATCTGAAAAAGGG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGAAAAAAGG
** * *
17738 GGTGTTGGCCATTGCAT-ACCAACACCAAAAAAATTTGAATTTTTTTTATTTGAGAAAAAGG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGA-AAAAAGG
* * * * **
17799 GGTATCAACCATTGCATGGCCAACA-CTAAAAATTTTGAAAATTTTTTATCTGAAAAAAGGG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGAAAAAA-GG
* *
17860 GGTGTCAGCCATTGCTTGGCCTACACCAAAAAAATTTGAAATTTTTTTTATCTG-AAAAAGTG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAAATTTG-AATTTTTTTTATCTGAAAAAAG-G
* * * *
17922 GGTATTAGCCATTGCATGGCCCACACCAAAAAAA--TGCAATTTTTTTTATCTGAAAAAAGA
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAAATTTG-AATTTTTTTTATCTGAAAAAAGG
* * *
17982 GGTGTCAACCATTGCATGGCCAACACAAAAAAAATTTGAA-TTTTTTTATCTGAGAAAAGGG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGA-AAAAAGG
*
18043 GGTGTC-GTCCATTGCATGGCCAACACC-AAAAAATTT-AA-TTTTTTTATCAGATTAAAAAGG
1 GGTGTCAG-CCATTGCATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGA--AAAAAGG
*
18103 GGTGTCTGCCAT
1 GGTGTCAGCCAT
18115 GCAAAATTTT
Statistics
Matches: 368, Mismatches: 51, Indels: 33
0.81 0.11 0.07
Matches are distributed among these distances:
58 17 0.05
59 56 0.15
60 115 0.31
61 113 0.31
62 54 0.15
63 13 0.04
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (61 bp):
GGTGTCAGCCATTGCATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGAAAAAAGG
Found at i:18029 original size:183 final size:179
Alignment explanation
Indices: 17628--18087 Score: 565
Period size: 183 Copynumber: 2.5 Consensus size: 179
17618 TTGGTGTCGG
* * * ** *
17628 CCATTACATGGCCAACACCAAAAAATTT-AATTTTTTACCAAATAAAAAGGGGGTATCGGCCATT
1 CCATTGCATGGCCAACACAAAAAAATTTGAATTTTTTATCTGA-AAAAAGGGGGTGTC-GCCATT
* * * * *
17692 GCATGACCAACACAAAAAAAATGT-AA-TTTTTTTATCTGAAAAAGGGGGTGTTGGCCATTGCAT
64 GCATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGAAAAAGGGGGTATTAGCCATTGCAT
* *
17755 ACCAACACCAAAAAAATTTGAATTTTTTTTATTTGAGAAAAAGGGGTATCAA
129 ACCAACACCAAAAAAA-TTGAATTTTTTTTATCTGAGAAAAAGAGGTATCAA
* *
17807 CCATTGCATGGCCAACACTAAAAATTTTGAAAATTTTTTATCTGAAAAAAGGGGGTGTCAGCCAT
1 CCATTGCATGGCCAACACAAAAAAATTTG--AATTTTTTATCTGAAAAAAGGGGGTGTC-GCCAT
* * *
17872 TGCTTGGCCTACACCAAAAAAATTTGAAATTTTTTTTATCTGAAAAAGTGGGTATTAGCCATTGC
63 TGCATGGCCAACACCAAAAAAATTTG-AATTTTTTTTATCTGAAAAAGGGGGTATTAGCCATTGC
* * *
17937 ATGGCCCACACCAAAAAAA-TGCAATTTTTTTTATCTGA-AAAAAGAGGTGTCAA
127 AT-ACCAACACCAAAAAAATTG-AATTTTTTTTATCTGAGAAAAAGAGGTATCAA
*
17990 CCATTGCATGGCCAACACAAAAAAAATTTGAATTTTTTTATCTGAGAAAAGGGGGTGTCGTCCAT
1 CCATTGCATGGCCAACAC-AAAAAAATTTGAA-TTTTTTATCTGAAAAAAGGGGGTGTCG-CCAT
18055 TGCATGGCCAACACC-AAAAAATTT-AATTTTTTT
63 TGCATGGCCAACACCAAAAAAATTTGAATTTTTTT
18088 ATCAGATTAA
Statistics
Matches: 244, Mismatches: 26, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
179 25 0.10
180 9 0.04
181 38 0.16
182 23 0.09
183 77 0.32
184 58 0.24
185 14 0.06
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (179 bp):
CCATTGCATGGCCAACACAAAAAAATTTGAATTTTTTATCTGAAAAAAGGGGGTGTCGCCATTGC
ATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGAAAAAGGGGGTATTAGCCATTGCATAC
CAACACCAAAAAAATTGAATTTTTTTTATCTGAGAAAAAGAGGTATCAA
Found at i:19784 original size:23 final size:24
Alignment explanation
Indices: 19758--19812 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
19748 TTTATTTTAA
*
19758 ATTTAATTTT-TAATTTCCTGTAT
1 ATTTAATTTTCTAATTTCCCGTAT
*
19781 ATTT-TTTTTCTAATTTCCCGTAT
1 ATTTAATTTTCTAATTTCCCGTAT
19804 ATTCTAATT
1 ATT-TAATT
19813 ATTTTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 4 0.15
23 19 0.73
24 1 0.04
25 2 0.08
ACGTcount: A:0.24, C:0.13, G:0.04, T:0.60
Consensus pattern (24 bp):
ATTTAATTTTCTAATTTCCCGTAT
Found at i:19784 original size:30 final size:30
Alignment explanation
Indices: 19722--19785 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
19712 TCCGTTTACT
* * *
19722 TTTTAAATTTAATTTGTAATTTCGTTTTTA
1 TTTTAAATTTAATTTGTAATTTCCTGTATA
*
19752 TTTTAAATTTAATTTTTAATTTCCTGTATA
1 TTTTAAATTTAATTTGTAATTTCCTGTATA
19782 TTTT
1 TTTT
19786 TTTTCTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (30 bp):
TTTTAAATTTAATTTGTAATTTCCTGTATA
Found at i:20705 original size:59 final size:61
Alignment explanation
Indices: 20623--21117 Score: 430
Period size: 61 Copynumber: 8.2 Consensus size: 61
20613 AGGGGAAGTT
* * * *
20623 GGTGTCGGCCATTACATGGCCAACACCAAAAAATTT-AA-TTTTTTACCAAATAAAAAGGG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAATTTGAATTTTTTTATCAGATAAAAAGGG
* * * ** *
20682 GGTATCGGCCATTGCATGACCAACA-CAAAAAAAATGTAATTTTTTTATCTG--AAAAAGGG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAATTTG-AATTTTTTTATCAGATAAAAAGGG
** * ** *
20741 GGTGTTGGCCATTGCAT-ACCAACACCAAAAAAATTTGAATTTTTTTTATTTGAGAAAAA-GG
1 GGTGTCAGCCATTGCATGGCCAACACC-AAAAAATTTGAA-TTTTTTTATCAGATAAAAAGGG
* * * * * *
20802 GGTATCAACCATTGCATGGCCAACACTAAAAATTTTGAAAATTTTTTATCTGA-AAAAAGGG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAATTTG-AATTTTTTTATCAGATAAAAAGGG
* * * *
20863 GGTGTCAGCCATTGCTTGGCCTACACCAAAAAAATTTGAAATTTTTTTTATCTG--AAAAAGTG
1 GGTGTCAGCCATTGCATGGCCAACACC-AAAAAATTTG-AA-TTTTTTTATCAGATAAAAAGGG
* * * * * *
20925 GGTATTAGCCATTGCATGGCCCACACCAAAAAA-ATGCAATTTTTTTTATCTGA-AAAAA-GA
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAATTTG-AA-TTTTTTTATCAGATAAAAAGGG
* * * *
20985 GGTGTCAACCATTGCATGGCCAACACAAAAAAAATTTGAATTTTTTTATCTGA-GAAAAGGG
1 GGTGTCAGCCATTGCATGGCCAACAC-CAAAAAATTTGAATTTTTTTATCAGATAAAAAGGG
21046 GGTGTC-GTCCATTGCATGGCCAACACCAAAAAATTT-AATTTTTTTATCAGATTAAAAA-GG
1 GGTGTCAG-CCATTGCATGGCCAACACCAAAAAATTTGAATTTTTTTATCAGA-TAAAAAGGG
*
21106 GGTGTCTGCCAT
1 GGTGTCAGCCAT
21118 GCAAAATTTT
Statistics
Matches: 365, Mismatches: 50, Indels: 41
0.80 0.11 0.09
Matches are distributed among these distances:
58 15 0.04
59 62 0.17
60 103 0.28
61 116 0.32
62 58 0.16
63 11 0.03
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (61 bp):
GGTGTCAGCCATTGCATGGCCAACACCAAAAAATTTGAATTTTTTTATCAGATAAAAAGGG
Found at i:20814 original size:61 final size:61
Alignment explanation
Indices: 20623--21117 Score: 491
Period size: 60 Copynumber: 8.2 Consensus size: 61
20613 AGGGGAAGTT
* * * **
20623 GGTGTCGGCCATTACATGGCCAACACC-AAAAAATTT-AA--TTTTTTACCAAATAAAAAGGG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGA-AAAAA-GG
* * * * * *
20682 GGTATCGGCCATTGCATGACCAACACAAAAAAAATGT-AA-TTTTTTTATCTGAAAAAGGG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGAAAAAAGG
** * *
20741 GGTGTTGGCCATTGCAT-ACCAACACCAAAAAAATTTGAATTTTTTTTATTTGAGAAAAAGG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGA-AAAAAGG
* * * * **
20802 GGTATCAACCATTGCATGGCCAACA-CTAAAAATTTTGAAAATTTTTTATCTGAAAAAAGGG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGAAAAAA-GG
* *
20863 GGTGTCAGCCATTGCTTGGCCTACACCAAAAAAATTTGAAATTTTTTTTATCTG-AAAAAGTG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAAATTTG-AATTTTTTTTATCTGAAAAAAG-G
* * * *
20925 GGTATTAGCCATTGCATGGCCCACACCAAAAAAA--TGCAATTTTTTTTATCTGAAAAAAGA
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAAATTTG-AATTTTTTTTATCTGAAAAAAGG
* * *
20985 GGTGTCAACCATTGCATGGCCAACACAAAAAAAATTTGAA-TTTTTTTATCTGAGAAAAGGG
1 GGTGTCAGCCATTGCATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGA-AAAAAGG
*
21046 GGTGTC-GTCCATTGCATGGCCAACACC-AAAAAATTT-AA-TTTTTTTATCAGATTAAAAAGG
1 GGTGTCAG-CCATTGCATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGA--AAAAAGG
*
21106 GGTGTCTGCCAT
1 GGTGTCAGCCAT
21118 GCAAAATTTT
Statistics
Matches: 368, Mismatches: 51, Indels: 33
0.81 0.11 0.07
Matches are distributed among these distances:
58 17 0.05
59 56 0.15
60 115 0.31
61 113 0.31
62 54 0.15
63 13 0.04
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (61 bp):
GGTGTCAGCCATTGCATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGAAAAAAGG
Found at i:21032 original size:183 final size:179
Alignment explanation
Indices: 20631--21090 Score: 565
Period size: 183 Copynumber: 2.5 Consensus size: 179
20621 TTGGTGTCGG
* * * ** *
20631 CCATTACATGGCCAACACCAAAAAATTT-AATTTTTTACCAAATAAAAAGGGGGTATCGGCCATT
1 CCATTGCATGGCCAACACAAAAAAATTTGAATTTTTTATCTGA-AAAAAGGGGGTGTC-GCCATT
* * * * *
20695 GCATGACCAACACAAAAAAAATGT-AA-TTTTTTTATCTGAAAAAGGGGGTGTTGGCCATTGCAT
64 GCATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGAAAAAGGGGGTATTAGCCATTGCAT
* *
20758 ACCAACACCAAAAAAATTTGAATTTTTTTTATTTGAGAAAAAGGGGTATCAA
129 ACCAACACCAAAAAAA-TTGAATTTTTTTTATCTGAGAAAAAGAGGTATCAA
* *
20810 CCATTGCATGGCCAACACTAAAAATTTTGAAAATTTTTTATCTGAAAAAAGGGGGTGTCAGCCAT
1 CCATTGCATGGCCAACACAAAAAAATTTG--AATTTTTTATCTGAAAAAAGGGGGTGTC-GCCAT
* * *
20875 TGCTTGGCCTACACCAAAAAAATTTGAAATTTTTTTTATCTGAAAAAGTGGGTATTAGCCATTGC
63 TGCATGGCCAACACCAAAAAAATTTG-AATTTTTTTTATCTGAAAAAGGGGGTATTAGCCATTGC
* * *
20940 ATGGCCCACACCAAAAAAA-TGCAATTTTTTTTATCTGA-AAAAAGAGGTGTCAA
127 AT-ACCAACACCAAAAAAATTG-AATTTTTTTTATCTGAGAAAAAGAGGTATCAA
*
20993 CCATTGCATGGCCAACACAAAAAAAATTTGAATTTTTTTATCTGAGAAAAGGGGGTGTCGTCCAT
1 CCATTGCATGGCCAACAC-AAAAAAATTTGAA-TTTTTTATCTGAAAAAAGGGGGTGTCG-CCAT
21058 TGCATGGCCAACACC-AAAAAATTT-AATTTTTTT
63 TGCATGGCCAACACCAAAAAAATTTGAATTTTTTT
21091 ATCAGATTAA
Statistics
Matches: 244, Mismatches: 26, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
179 25 0.10
180 9 0.04
181 38 0.16
182 23 0.09
183 77 0.32
184 58 0.24
185 14 0.06
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (179 bp):
CCATTGCATGGCCAACACAAAAAAATTTGAATTTTTTATCTGAAAAAAGGGGGTGTCGCCATTGC
ATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGAAAAAGGGGGTATTAGCCATTGCATAC
CAACACCAAAAAAATTGAATTTTTTTTATCTGAGAAAAAGAGGTATCAA
Found at i:26595 original size:31 final size:31
Alignment explanation
Indices: 26560--26618 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
26550 GTGTAATTCA
26560 TATTCTGA-TTAAACTGAAAAACTTAATTTTT
1 TATTC-GAGTTAAACTGAAAAACTTAATTTTT
* * *
26591 TATTCGAGTTGATCTGAATAACTTAATT
1 TATTCGAGTTAAACTGAAAAACTTAATT
26619 AACTCAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 22 0.92
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (31 bp):
TATTCGAGTTAAACTGAAAAACTTAATTTTT
Found at i:54837 original size:28 final size:29
Alignment explanation
Indices: 54772--54837 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
54762 TTGTACTTTG
* *
54772 TTTATATTTTTATAATTTTTAAATTAAAT
1 TTTATATTTTTATAATGTTAAAATTAAAT
*
54801 TTTATTATTTTTA-ACTGTTAAAA-TATAAT
1 TTTA-TATTTTTATAATGTTAAAATTA-AAT
54830 TTTATATT
1 TTTATATT
54838 GAACTTATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 6 0.19
29 18 0.56
30 8 0.25
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (29 bp):
TTTATATTTTTATAATGTTAAAATTAAAT
Found at i:99258 original size:39 final size:39
Alignment explanation
Indices: 99204--99281 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
99194 CTTGGATATT
99204 GTGAAAGAGAAGACAATGAGAAACAGATTAAGGAAACCC
1 GTGAAAGAGAAGACAATGAGAAACAGATTAAGGAAACCC
99243 GTGAAAGAGAAGACAATGAGAAACAGATTAAGGAAACCC
1 GTGAAAGAGAAGACAATGAGAAACAGATTAAGGAAACCC
99282 CATCATGGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.51, C:0.13, G:0.26, T:0.10
Consensus pattern (39 bp):
GTGAAAGAGAAGACAATGAGAAACAGATTAAGGAAACCC
Found at i:101982 original size:116 final size:117
Alignment explanation
Indices: 101735--102328 Score: 336
Period size: 116 Copynumber: 5.1 Consensus size: 117
101725 TAATGAGTTG
* * * * *
101735 TGGGTGTTATGCCGTATTTTGCTATATCGATGCTAATACCTAACAATGGTTCATCGCCGAATTAT
1 TGGGTGTTATGCCATATTTTGCAATATCGATGCTAATACCTAACAATGGCTCATCGCCAAATTAC
* * * * * *
101800 ATTCCTTTTAAGTCATTGAACTAGGTTCTACAAGCCTATTTCCCATGAGTCA
66 ATTCCTTGTAAGTCATTGAACCAAGTCCTACAAGCCAATTTCCCATGAGCCA
* * *
101852 TGGGTGTTATGCCATATTTTGCAATGTTGATGCTAATGCCTAACAATGGCTCATCGCCAAATGT-
1 TGGGTGTTATGCCATATTTTGCAATATCGATGCTAATACCTAACAATGGCTCATCGCCAAAT-TA
101916 CATT-CTTGTAAGTCATTGAACCAAGTCCTACAAGCCAATTTCCCATGAGCCA
65 CATTCCTTGTAAGTCATTGAACCAAGTCCTACAAGCCAATTTCCCATGAGCCA
* * ** * ** * * * * * * *
101968 TGGGTGCTAAGCCATATCGTGAAAGGTCAATACTAATGCC-CACTGAT-GTTCATTGCCAACATG
1 TGGGTGTTATGCCATATTTTGCAATATCGATGCTAATACCTAAC-AATGGCTCATCGCCAA-AT-
* * * * * * *
102031 T--ATTCC--CTAACTCATTGAACCAAGTCCAATAAGCCCATTTCCAATGAGTCA
63 TACATTCCTTGTAAGTCATTGAACCAAGTCCTACAAGCCAATTTCCCATGAGCCA
* * ** ** * * * *
102082 CGGGTGTTATCCCATACCGTT-CAAGGTCAATGCTAATAGCTATCAATGGCTCATTGCCAGAA-T
1 TGGGTGTTATGCCATA-TTTTGCAATATCGATGCTAATACCTAACAATGGCTCATCGCCA-AATT
** * * * ** * **
102145 ACATTCC-CAT-AGTTATTGTACTTAAGTCCTATGAGCCTATTTCCCAAAAGCCA
64 ACATTCCTTGTAAGTCATTGAAC-CAAGTCCTACAAGCCAATTTCCCATGAGCCA
* ** * * * * * * *
102198 TGGGTGTTATGCCATATTGTGCAAGGTCAATGCCAATACCTATCAAAGCCTCATCACCAAATTAT
1 TGGGTGTTATGCCATATTTTGCAATATCGATGCTAATACCTAACAATGGCTCATCGCCAAATTAC
* * * * ** * **
102263 ATTCCTACGT--GTTATTGAACTAAAT-CTACAAGCTTATTTCCAATGAGTAA
66 ATTCCT-TGTAAGTCATTGAACCAAGTCCTACAAGCCAATTTCCCATGAGCCA
*
102313 TGGGTGTAATGCCATA
1 TGGGTGTTATGCCATA
102329 CTGGCTTGAT
Statistics
Matches: 376, Mismatches: 85, Indels: 34
0.76 0.17 0.07
Matches are distributed among these distances:
113 1 0.00
114 67 0.18
115 76 0.20
116 162 0.43
117 67 0.18
118 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (117 bp):
TGGGTGTTATGCCATATTTTGCAATATCGATGCTAATACCTAACAATGGCTCATCGCCAAATTAC
ATTCCTTGTAAGTCATTGAACCAAGTCCTACAAGCCAATTTCCCATGAGCCA
Found at i:104251 original size:5 final size:5
Alignment explanation
Indices: 104241--104282 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
104231 GAGTATTGGA
*
104241 TCGAG TCGAG TCGAG TCGAG TCGAG TCGAG TCAAG TCGAG TC
1 TCGAG TCGAG TCGAG TCGAG TCGAG TCGAG TCGAG TCGAG TC
104283 AAAAAATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.21
Consensus pattern (5 bp):
TCGAG
Found at i:104454 original size:16 final size:17
Alignment explanation
Indices: 104432--104473 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
104422 GTAGACGAAG
*
104432 TATAAAAGAATAAAATC
1 TATAAAAGAAAAAAATC
104449 -ATAAAA-AAAAAAATC
1 TATAAAAGAAAAAAATC
104464 TATGAAAAGA
1 TAT-AAAAGA
104474 GGAAAGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
15 8 0.38
16 8 0.38
17 4 0.19
18 1 0.05
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.19
Consensus pattern (17 bp):
TATAAAAGAAAAAAATC
Found at i:105076 original size:2 final size:2
Alignment explanation
Indices: 105071--105112 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
105061 TGATTAAAAA
105071 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105112 A
1 A
105113 AAAATTTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:105247 original size:28 final size:27
Alignment explanation
Indices: 105215--105283 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
105205 TATAATGTGG
*
105215 AAATTTTATAAAAATGAAAAAA-ATATTT
1 AAATTTTA-AAAAATGAAAAAAGA-ATTA
* *
105243 AAATTTTAGAAATTGAAAAAAGAATTA
1 AAATTTTAAAAAATGAAAAAAGAATTA
105270 AAATTTTAAAAAAT
1 AAATTTTAAAAAAT
105284 ATATATTCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 26 0.74
28 9 0.26
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (27 bp):
AAATTTTAAAAAATGAAAAAAGAATTA
Found at i:105446 original size:2 final size:2
Alignment explanation
Indices: 105441--105465 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
105431 AAAAAAAAAA
105441 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
105466 AAGTTTAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:116763 original size:8 final size:8
Alignment explanation
Indices: 116752--116776 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
116742 ATGAGTAGAA
116752 TGGATGGT
1 TGGATGGT
116760 TGGATGGT
1 TGGATGGT
116768 TGGATGGT
1 TGGATGGT
116776 T
1 T
116777 TAAAATTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (8 bp):
TGGATGGT
Found at i:117627 original size:13 final size:13
Alignment explanation
Indices: 117602--117635 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
117592 GAACCCAGAC
117602 CCTAAACTTTAAAT
1 CCTAAA-TTTAAAT
*
117616 CTTAAATTTAAAT
1 CCTAAATTTAAAT
117629 CCTAAAT
1 CCTAAAT
117636 CTTGGGGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (13 bp):
CCTAAATTTAAAT
Found at i:125632 original size:60 final size:60
Alignment explanation
Indices: 125567--125721 Score: 172
Period size: 60 Copynumber: 2.6 Consensus size: 60
125557 TTAATCTAAT
* * * * *
125567 AAAAAATCAAATTTTTGGATATTGGCCATGCAATGGTCGACATCCCTTTTTGTCAGAT-AA
1 AAAAAATCAATTTTTTGGATGTTGG-CATGCAATGGTCGACACCCCTATTTATCAGATAAA
** * *
125627 AAAAAATCAATTTTTTTTATGTTGGTCATGTC-ATGATCGACACCCCTATTTATCTGATAAA
1 AAAAAATCAATTTTTTGGATGTTGG-CATG-CAATGGTCGACACCCCTATTTATCAGATAAA
*
125688 AAAAAATCATTTTTTTGG-TGTTGGCATGCAATGG
1 AAAAAATCAATTTTTTGGATGTTGGCATGCAATGG
125722 CATGGCATGA
Statistics
Matches: 78, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
58 1 0.01
59 7 0.09
60 52 0.67
61 18 0.23
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (60 bp):
AAAAAATCAATTTTTTGGATGTTGGCATGCAATGGTCGACACCCCTATTTATCAGATAAA
Found at i:125805 original size:60 final size:60
Alignment explanation
Indices: 125733--125885 Score: 163
Period size: 58 Copynumber: 2.5 Consensus size: 60
125723 ATGGCATGAC
* * *
125733 CAACACAAAAAAAATTCGAATTTTTTATCTGACA-AAAAAG-GATATCGGTCATGAC-ATTGT
1 CAACACAAAAAAAATT-GAATTTTTTATCTGAAATAAAAAGAG-TATCGGCCAT-ACAATGGT
* * *
125793 CAACATAAAAAAAATTG-ATTTTTTAT-TCAAATAAAAAGAGTGTCGGCCATACAATGGT
1 CAACACAAAAAAAATTGAATTTTTTATCTGAAATAAAAAGAGTATCGGCCATACAATGGT
*
125851 CAACACCAAAAAAATTTGAAATTTTTTATCTGAAA
1 CAACA-CAAAAAAAATTG-AATTTTTTATCTGAAA
125886 ATAGAGGGTG
Statistics
Matches: 77, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
57 5 0.06
58 32 0.42
59 12 0.16
60 15 0.19
61 9 0.12
62 4 0.05
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (60 bp):
CAACACAAAAAAAATTGAATTTTTTATCTGAAATAAAAAGAGTATCGGCCATACAATGGT
Found at i:126057 original size:56 final size:53
Alignment explanation
Indices: 125975--126090 Score: 142
Period size: 56 Copynumber: 2.1 Consensus size: 53
125965 AAAAATTTGA
* * *
125975 TTTTTTTATCAGATTAAAAGGAGGTGTAGCCCATGTAATGACCAATACCCGAATT
1 TTTTTTTATCAGATAAAAAAGAGGTGTAGCCCATGTAATGACCAACA-CC-AATT
* * * *
126030 TTTTTTTGTCATATAAAAAAGAGGGTGTTGGCCATGTAATGACCAACACCAATT
1 TTTTTTTATCAGATAAAAAAGA-GGTGTAGCCCATGTAATGACCAACACCAATT
126084 TTTTTTT
1 TTTTTTT
126091 TAAATTATCG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
54 11 0.21
55 20 0.38
56 22 0.42
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (53 bp):
TTTTTTTATCAGATAAAAAAGAGGTGTAGCCCATGTAATGACCAACACCAATT
Found at i:180533 original size:56 final size:56
Alignment explanation
Indices: 180467--180582 Score: 214
Period size: 56 Copynumber: 2.1 Consensus size: 56
180457 TTTAAATTTT
180467 AAATATCAAATTATATTAACAATTCAAAATTCAAATTGTATTCAATAAACAATATG
1 AAATATCAAATTATATTAACAATTCAAAATTCAAATTGTATTCAATAAACAATATG
* *
180523 AAATATCAAATTATATTAACAATTCAAAATTTAAATTGTATTCAATATACAATATG
1 AAATATCAAATTATATTAACAATTCAAAATTCAAATTGTATTCAATAAACAATATG
180579 AAAT
1 AAAT
180583 GATTTTACTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.35
Consensus pattern (56 bp):
AAATATCAAATTATATTAACAATTCAAAATTCAAATTGTATTCAATAAACAATATG
Found at i:180564 original size:25 final size:25
Alignment explanation
Indices: 180467--180564 Score: 81
Period size: 26 Copynumber: 3.6 Consensus size: 25
180457 TTTAAATTTT
180467 AAATATCAAATTATATTAACAATTCA
1 AAAT-TCAAATTATATTAACAATTCA
* *
180493 AAATTCAAATTGTATTCAATAAACAATAT-G
1 AAATTCAAA-T-TA-T--ATTAACAAT-TCA
180523 AAATATCAAATTATATTAACAATTCA
1 AAAT-TCAAATTATATTAACAATTCA
* *
180549 AAATTTAAATTGTATT
1 AAATTCAAATTATATT
180565 CAATATACAA
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
25 16 0.28
26 17 0.29
27 2 0.03
28 2 0.03
29 2 0.03
30 13 0.22
31 6 0.10
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (25 bp):
AAATTCAAATTATATTAACAATTCA
Found at i:181689 original size:16 final size:16
Alignment explanation
Indices: 181668--181699 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
181658 TTTTTCTTAC
181668 TTTTATTTTAAAATTT
1 TTTTATTTTAAAATTT
*
181684 TTTTATTTTTAAATTT
1 TTTTATTTTAAAATTT
181700 AAATTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATTTTAAAATTT
Found at i:181700 original size:23 final size:23
Alignment explanation
Indices: 181657--181702 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
181647 TTTAGAATTT
*
181657 ATTTTTCTTACTTTTATTTTAAA
1 ATTTTTCTTACTTTTAATTTAAA
*
181680 ATTTTT-TTATTTTTAAATTTAAA
1 ATTTTTCTTACTTTT-AATTTAAA
181703 TTTAATAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (23 bp):
ATTTTTCTTACTTTTAATTTAAA
Found at i:185171 original size:23 final size:23
Alignment explanation
Indices: 185139--185198 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
185129 ACGCAAGCGC
*
185139 GCTTATTGTTTTGCA-CTTCGTGT
1 GCTTACTGTTTTGCACCTT-GTGT
* *
185162 GCTTACTGTTTCGTACCTTGTGT
1 GCTTACTGTTTTGCACCTTGTGT
* *
185185 GCCTACTGATTTGC
1 GCTTACTGTTTTGC
185199 GCTATGTGCG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.47
Consensus pattern (23 bp):
GCTTACTGTTTTGCACCTTGTGT
Found at i:185206 original size:23 final size:22
Alignment explanation
Indices: 185180--185260 Score: 90
Period size: 23 Copynumber: 3.6 Consensus size: 22
185170 TTTCGTACCT
*
185180 TGTGTGCCTACTGATTTGCGCTA
1 TGTGTGCCTACTGA-TTGCACTA
* *
185203 TGTGCGCCTATTGATTGCACTA
1 TGTGTGCCTACTGATTGCACTA
* *
185225 TGTGTGCCTACTGGATTGCATTG
1 TGTGTGCCTACT-GATTGCACTA
*
185248 TGTGTGCTTACTG
1 TGTGTGCCTACTG
185261 TTTCCCCAGC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
22 18 0.37
23 31 0.63
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.40
Consensus pattern (22 bp):
TGTGTGCCTACTGATTGCACTA
Found at i:185774 original size:20 final size:21
Alignment explanation
Indices: 185736--185774 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
185726 TTTGTACTAA
**
185736 AAATCATATTTTATTTCTTTT
1 AAATCATATTTTAAGTCTTTT
185757 AAATCA-ATTTTAAGTCTT
1 AAATCATATTTTAAGTCTT
185775 GATCTTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (21 bp):
AAATCATATTTTAAGTCTTTT
Done.