Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015166.1 Kokia drynarioides strain JFW-HI SEQ_130210, 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: 321671
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Warning! 30 characters in sequence are not A, C, G, or T
Found at i:667 original size:31 final size:30
Alignment explanation
Indices: 624--726 Score: 90
Period size: 31 Copynumber: 3.4 Consensus size: 30
614 AAAAAAAAAA
*
624 TTAAATACCAAATTAAGAAAAAATGTCAAG
1 TTAAGTACCAAATTAAGAAAAAATGTCAAG
*
654 TTCAAGTACCAAATTTGAAAAAAAAATGTC---
1 TT-AAGTACCAAA-TT-AAGAAAAAATGTCAAG
*
684 -TAAGTACCAAATT-AGAAAAAAGTGTTAAG
1 TTAAGTACCAAATTAAGAAAAAA-TGTCAAG
*
713 TTTAGGTACCAAAT
1 -TTAAGTACCAAAT
727 AAAATATTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
25 7 0.12
26 3 0.05
27 2 0.03
28 10 0.17
29 1 0.02
30 2 0.03
31 20 0.34
32 2 0.03
33 12 0.20
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (30 bp):
TTAAGTACCAAATTAAGAAAAAATGTCAAG
Found at i:8097 original size:16 final size:16
Alignment explanation
Indices: 8051--8097 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
8041 CTCAGTCACT
**
8051 TGAAAAAGAAAAATGA
1 TGAAAAAGAAAAAAAA
* *
8067 -GAAAAAGGAAGAAAA
1 TGAAAAAGAAAAAAAA
8082 TGAAAAAGAAAAAAAA
1 TGAAAAAGAAAAAAAA
8098 ATTATTTATG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.06
Consensus pattern (16 bp):
TGAAAAAGAAAAAAAA
Found at i:12816 original size:20 final size:20
Alignment explanation
Indices: 12771--12822 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
12761 TTTGAAGTGA
* *
12771 TAAAATGATTTTGACTTAGT
1 TAAAATAATTTTGACATAGT
* *
12791 TCAAATTATTTTGACAT-GTT
1 TAAAATAATTTTGACATAG-T
12811 TAAAATAATTTT
1 TAAAATAATTTT
12823 AACTTGATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.48
Consensus pattern (20 bp):
TAAAATAATTTTGACATAGT
Found at i:20763 original size:45 final size:44
Alignment explanation
Indices: 20625--20871 Score: 167
Period size: 45 Copynumber: 5.5 Consensus size: 44
20615 GCTTTGACAT
* ** *
20625 TAGTTGAAAGATACTATGGCATCAAACCGGAAGCGTGCAAGACCA
1 TAGTTGAAAGATACTATGGCATC-AACCCGAAATGTGTAAGACCA
* * * * * **
20670 TAGTTAAAAGATACCATGACAT-TACATCGACTTAG-GTAAGACCA
1 TAGTTGAAAGATACTATGGCATCAAC-CCGAAAT-GTGTAAGACCA
* *
20714 TAGTTGAAAGATACTATGGCATTAACCCGAGAATGTGTAAGACCG
1 TAGTTGAAAGATACTATGGCATCAACCCGA-AATGTGTAAGACCA
* * * * * * *
20759 TAGTTGAAAGATACTAAGACATCATATCTGATATGTATAAGACCT
1 TAGTTGAAAGATACTATGGCATCA-ACCCGAAATGTGTAAGACCA
* * * * * *
20804 TAGTTGAAAGATACTATGGCATCATATCAGGAACGAT-CAAGACCT
1 TAGTTGAAAGATACTATGGCATCA-ACCCGAAATG-TGTAAGACCA
*
20849 TAGTTGAAAGATACTTTGGCATC
1 TAGTTGAAAGATACTATGGCATC
20872 TTTCTGGATT
Statistics
Matches: 161, Mismatches: 34, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
43 2 0.01
44 33 0.20
45 121 0.75
46 5 0.03
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (44 bp):
TAGTTGAAAGATACTATGGCATCAACCCGAAATGTGTAAGACCA
Found at i:20846 original size:90 final size:88
Alignment explanation
Indices: 20624--20863 Score: 261
Period size: 89 Copynumber: 2.7 Consensus size: 88
20614 GGCTTTGACA
* * *
20624 TTAGTTGAAAGATACTATGGCATCAAACCGGAAGCGTGCAAGACCATAGTTAAAAGATACCATGA
1 TTAGTTGAAAGATACTATGGCATCAAACCGGAA-CGTGCAAGACCATAGTTGAAAGATACTAAGA
* *
20689 CATTACATCGACTTAGGTAAGACC
65 CATCACATCGACTTAGATAAGACC
* * * * * *
20713 ATAGTTGAAAGATACTATGGCATTAACCCGAGAATGTGTAAGACCGTAGTTGAAAGATACTAAGA
1 TTAGTTGAAAGATACTATGGCATCAAACCG-GAACGTGCAAGACCATAGTTGAAAGATACTAAGA
*
20778 CATCATATCTGA--TATGTATAAGACC
65 CATCACATC-GACTTA-G-ATAAGACC
* * *
20803 TTAGTTGAAAGATACTATGGCATCATATCAGGAACGAT-CAAGACCTTAGTTGAAAGATACT
1 TTAGTTGAAAGATACTATGGCATCA-AACCGGAACG-TGCAAGACCATAGTTGAAAGATACT
20864 TTGGCATCTT
Statistics
Matches: 126, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
88 2 0.02
89 60 0.48
90 60 0.48
91 4 0.03
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.25
Consensus pattern (88 bp):
TTAGTTGAAAGATACTATGGCATCAAACCGGAACGTGCAAGACCATAGTTGAAAGATACTAAGAC
ATCACATCGACTTAGATAAGACC
Found at i:20890 original size:45 final size:44
Alignment explanation
Indices: 20752--20924 Score: 156
Period size: 45 Copynumber: 3.9 Consensus size: 44
20742 GAGAATGTGT
* * * * *
20752 AAGACCGTAGTTGAAAGATACTAAGACATCATATCT-GATATGTAT-
1 AAGACCTTAGTTGAAAGATACTATGGCATC-TTTCTGGA-ACG-ATC
* *
20797 AAGACCTTAGTTGAAAGATACTATGGCATCATATCAGGAACGATC
1 AAGACCTTAGTTGAAAGATACTATGGCATC-TTTCTGGAACGATC
* *
20842 AAGACCTTAGTTGAAAGATACTTTGGCATCTTTCTGGATTCG-TCC
1 AAGACCTTAGTTGAAAGATACTATGGCATCTTTCTGGA-ACGAT-C
* * *
20887 AAGACCATGGTTGAAAGATACCATGGCATC-TTCTGGAA
1 AAGACCTTAGTTGAAAGATACTATGGCATCTTTCTGGAA
20925 TGACGGATTA
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
44 16 0.15
45 92 0.84
46 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (44 bp):
AAGACCTTAGTTGAAAGATACTATGGCATCTTTCTGGAACGATC
Found at i:21483 original size:26 final size:26
Alignment explanation
Indices: 21454--21506 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
21444 CATTTCAATG
21454 TGGTTTGGTTTGATAGATGAGTTATT
1 TGGTTTGGTTTGATAGATGAGTTATT
21480 TGGTTTGGTTTGATAGATGAGTTATT
1 TGGTTTGGTTTGATAGATGAGTTATT
21506 T
1 T
21507 TGCAAGTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (26 bp):
TGGTTTGGTTTGATAGATGAGTTATT
Found at i:25874 original size:76 final size:75
Alignment explanation
Indices: 25780--25992 Score: 259
Period size: 76 Copynumber: 2.8 Consensus size: 75
25770 CTTGTTGGTA
*
25780 TATCCAACTAGTGCTGGGCACACATTTAATATCGTCGGTTTATTCGACTAACGCTGTGCGCAATC
1 TATCCGACTAGTGCTGGGCACACATTTAATATCGTCGGTTTATTCGACTAACGCTG-GCGCAATC
*
25845 CATCGTCGGTT
65 CATCGTCGATT
* * * * * *
25856 TATCCGACTAGTGCTGGGCACATATTTAATACCATCGATTTATTCGACTAGCGCTGGACTCAATC
1 TATCCGACTAGTGCTGGGCACACATTTAATATCGTCGGTTTATTCGACTAACGCTGG-CGCAATC
25921 CATCGTCGATT
65 CATCGTCGATT
* * * * *
25932 TATTCGTA-TAGTGCTGGGCACACATTTGATATCGTC-GATTATCCGACTAACTCTGGGCGCA
1 TATCCG-ACTAGTGCTGGGCACACATTTAATATCGTCGGTTTATTCGACTAACGCT-GGCGCA
25993 TAACATTGTT
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
75 17 0.15
76 97 0.84
77 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.31
Consensus pattern (75 bp):
TATCCGACTAGTGCTGGGCACACATTTAATATCGTCGGTTTATTCGACTAACGCTGGCGCAATCC
ATCGTCGATT
Found at i:25904 original size:40 final size:38
Alignment explanation
Indices: 25786--25968 Score: 115
Period size: 36 Copynumber: 4.8 Consensus size: 38
25776 GGTATATCCA
*
25786 ACTAGTGCTGGGCACACATTTAATATCGTCGGTTTATTCG
1 ACTAGCGCTGGGCACA-ATTTAATA-CGTCGGTTTATTCG
* * * ** *
25826 ACTAACGCTGTGCGCAA-TCCAT-CGTCGGTTTATCCG
1 ACTAGCGCTGGGCACAATTTAATACGTCGGTTTATTCG
* * *
25862 ACTAGTGCTGGGCACATATTTAATACCATCGATTTATTCG
1 ACTAGCGCTGGGCACA-ATTTAATA-CGTCGGTTTATTCG
* * ** *
25902 ACTAGCGCTGGACTCAA-TCCAT-CGTCGATTTATTCG
1 ACTAGCGCTGGGCACAATTTAATACGTCGGTTTATTCG
* *
25938 TA-TAGTGCTGGGCACACATTTGATATCGTCG
1 -ACTAGCGCTGGGCACA-ATTTAATA-CGTCG
25969 ATTATCCGAC
Statistics
Matches: 107, Mismatches: 27, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
36 49 0.46
37 3 0.03
38 12 0.11
39 2 0.02
40 41 0.38
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (38 bp):
ACTAGCGCTGGGCACAATTTAATACGTCGGTTTATTCG
Found at i:42674 original size:10 final size:10
Alignment explanation
Indices: 42652--42682 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
42642 AAATTTAAAG
42652 AGAAAAAGCAA
1 AGAAAAAG-AA
42663 AGAAAAAGAA
1 AGAAAAAGAA
42673 AGAAAAAGAA
1 AGAAAAAGAA
42683 GAGGGAAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.60
11 8 0.40
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:43452 original size:17 final size:18
Alignment explanation
Indices: 43414--43450 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
43404 TTGTGGCCCA
43414 TTAATATGATTGAAATTT
1 TTAATATGATTGAAATTT
43432 TTAATATGATTGAAATTT
1 TTAATATGATTGAAATTT
43450 T
1 T
43451 AAGTATCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
TTAATATGATTGAAATTT
Found at i:46547 original size:22 final size:22
Alignment explanation
Indices: 46519--46600 Score: 78
Period size: 22 Copynumber: 3.7 Consensus size: 22
46509 CCTAAACCCT
*
46519 TTTAAAACCTAAACCCAAATCC
1 TTTAAAACCTAAACCCAAAACC
* *
46541 TTTAAAA-TTAAATCCAATAACC
1 TTTAAAACCTAAACCCAA-AACC
* *
46563 TTTTTAAACCTAAACCCAAACCC
1 -TTTAAAACCTAAACCCAAAACC
46586 TTTAAAATCC-AAACC
1 TTTAAAA-CCTAAACC
46601 AAACCCAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 8 0.17
22 21 0.44
23 11 0.23
24 8 0.17
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.27
Consensus pattern (22 bp):
TTTAAAACCTAAACCCAAAACC
Found at i:46576 original size:24 final size:23
Alignment explanation
Indices: 46516--46588 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 23
46506 AAGCCTAAAC
* *
46516 CCTTTTAAAACCTAAACCCAAAT
1 CCTTTTTAAACCTAAACCCAAAA
** *
46539 CC--TTTAAAATTAAATCCAATAA
1 CCTTTTTAAACCTAAACCCAA-AA
*
46561 CCTTTTTAAACCTAAACCCAAAC
1 CCTTTTTAAACCTAAACCCAAAA
46584 CCTTT
1 CCTTT
46589 AAAATCCAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 13 0.34
22 3 0.08
23 8 0.21
24 14 0.37
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.30
Consensus pattern (23 bp):
CCTTTTTAAACCTAAACCCAAAA
Found at i:48918 original size:10 final size:10
Alignment explanation
Indices: 48896--48926 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
48886 AAATTTAAAG
48896 AGAAAAAGCAA
1 AGAAAAAG-AA
48907 AGAAAAAGAA
1 AGAAAAAGAA
48917 AGAAAAAGAA
1 AGAAAAAGAA
48927 GAGGGAAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.60
11 8 0.40
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:49696 original size:17 final size:18
Alignment explanation
Indices: 49658--49694 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
49648 TTGTGGCCCA
49658 TTAATATGATTGAAATTT
1 TTAATATGATTGAAATTT
49676 TTAATATGATTGAAATTT
1 TTAATATGATTGAAATTT
49694 T
1 T
49695 AAGTATCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
TTAATATGATTGAAATTT
Found at i:52791 original size:22 final size:22
Alignment explanation
Indices: 52763--52844 Score: 78
Period size: 22 Copynumber: 3.7 Consensus size: 22
52753 CCTAAACCCT
*
52763 TTTAAAACCTAAACCCAAATCC
1 TTTAAAACCTAAACCCAAAACC
* *
52785 TTTAAAA-TTAAATCCAATAACC
1 TTTAAAACCTAAACCCAA-AACC
* *
52807 TTTTTAAACCTAAACCCAAACCC
1 -TTTAAAACCTAAACCCAAAACC
52830 TTTAAAATCC-AAACC
1 TTTAAAA-CCTAAACC
52845 AAACCCAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 8 0.17
22 21 0.44
23 11 0.23
24 8 0.17
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.27
Consensus pattern (22 bp):
TTTAAAACCTAAACCCAAAACC
Found at i:52820 original size:24 final size:23
Alignment explanation
Indices: 52760--52832 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 23
52750 AAGCCTAAAC
* *
52760 CCTTTTAAAACCTAAACCCAAAT
1 CCTTTTTAAACCTAAACCCAAAA
** *
52783 CC--TTTAAAATTAAATCCAATAA
1 CCTTTTTAAACCTAAACCCAA-AA
*
52805 CCTTTTTAAACCTAAACCCAAAC
1 CCTTTTTAAACCTAAACCCAAAA
52828 CCTTT
1 CCTTT
52833 AAAATCCAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 13 0.34
22 3 0.08
23 8 0.21
24 14 0.37
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.30
Consensus pattern (23 bp):
CCTTTTTAAACCTAAACCCAAAA
Found at i:53593 original size:2 final size:2
Alignment explanation
Indices: 53586--53635 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
53576 ATTGAGATAA
53586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 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
*
53628 AT TT AT AT
1 AT AT AT AT
53636 TGAGTATGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:58073 original size:22 final size:23
Alignment explanation
Indices: 58029--58132 Score: 99
Period size: 23 Copynumber: 4.7 Consensus size: 23
58019 CAAATTTGTG
*
58029 CCTAAGCCCAAACCCTTTTAAAA
1 CCTAAACCCAAACCCTTTTAAAA
*
58052 CCTAAACCCAAATCC-TTTAAAA
1 CCTAAACCCAAACCCTTTTAAAA
* * * *
58074 -TTAAATCCAATAACCTTTTTAAA
1 CCTAAACCCAA-ACCCTTTTAAAA
* *
58097 CCCAAACCCAAACCCTTTAAAAA
1 CCTAAACCCAAACCCTTTTAAAA
58120 CC-AAA-CCAAACCC
1 CCTAAACCCAAACCC
58133 AATTGAACCA
Statistics
Matches: 66, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
21 16 0.24
22 13 0.20
23 30 0.45
24 7 0.11
ACGTcount: A:0.44, C:0.34, G:0.01, T:0.21
Consensus pattern (23 bp):
CCTAAACCCAAACCCTTTTAAAA
Found at i:61939 original size:17 final size:16
Alignment explanation
Indices: 61917--61960 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
61907 AAAATTGGTC
*
61917 TGAGAAAATTATTTAAT
1 TGAG-AAATTAATTAAT
61934 TGAGAAATTAATTAAT
1 TGAGAAATTAATTAAT
61950 T-A-AAATTAATT
1 TGAGAAATTAATT
61961 TAAGATGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.35
15 1 0.04
16 12 0.46
17 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (16 bp):
TGAGAAATTAATTAAT
Found at i:76925 original size:17 final size:17
Alignment explanation
Indices: 76905--76947 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
76895 AAAAAAACTA
* *
76905 ACAAGTAAAATGCAACG
1 ACAACTAAAATGAAACG
*
76922 ACAACTAAAATGAAATG
1 ACAACTAAAATGAAACG
*
76939 ACAATTAAA
1 ACAACTAAA
76948 TGAGATGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.58, C:0.14, G:0.12, T:0.16
Consensus pattern (17 bp):
ACAACTAAAATGAAACG
Found at i:110874 original size:156 final size:156
Alignment explanation
Indices: 110590--110885 Score: 432
Period size: 156 Copynumber: 1.9 Consensus size: 156
110580 TGTGCCCAAC
* * *
110590 GCTAGTTGGATAAACCGACAGTATTAATAGTAAGCCCAGCTCTAGTTGGATTAACCAACAATAAA
1 GCTAGTCGAATAAACCGACAGTATTAATAGTAAGCCCAACTCTAGTTGGATTAACCAACAATAAA
* * * * * *
110655 TTCGTCAATTCTTGGCATCTAGTTCCTGGCGATTAAACCGCAATAAGTGAGCACAGCTCTAGTTG
66 TCCGTCAATTCTTGGCACCCAGTGCCTAGCGATTAAACCGCAATAAGTGAGCACAACTCTAGTTG
110720 GATTAACCAATGGTTTTGCGCCCTGT
131 GATTAACCAATGGTTTTGCGCCCTGT
* * *
110746 GCTAGTCGAATAAACCGACAGTATTAATAGTTAGCCTAACTCTAGTTGGATTAACCAACACTAAA
1 GCTAGTCGAATAAACCGACAGTATTAATAGTAAGCCCAACTCTAGTTGGATTAACCAACAATAAA
* * * *
110811 TCCGTCAATTTTTGGCACCCAGTGCCTAGTGGTTAAACCGTAATAAGTGAGCTA-AACTCTAGTT
66 TCCGTCAATTCTTGGCACCCAGTGCCTAGCGATTAAACCGCAATAAGTGAGC-ACAACTCTAGTT
110875 GGATTAACCAA
130 GGATTAACCAA
110886 CAATTTTGCG
Statistics
Matches: 123, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
156 122 0.99
157 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (156 bp):
GCTAGTCGAATAAACCGACAGTATTAATAGTAAGCCCAACTCTAGTTGGATTAACCAACAATAAA
TCCGTCAATTCTTGGCACCCAGTGCCTAGCGATTAAACCGCAATAAGTGAGCACAACTCTAGTTG
GATTAACCAATGGTTTTGCGCCCTGT
Found at i:110906 original size:156 final size:156
Alignment explanation
Indices: 110576--110921 Score: 430
Period size: 156 Copynumber: 2.2 Consensus size: 156
110566 TCAGCAATAT
* * *
110576 AATTTGTGC-CCAA-CGCTAGTTGGATAAACCGACAGTATTAATAGTAAGCCCAGCTCTAGTTGG
1 AATTT-TGCGCCAAGCGCTAGTCGAATAAACCGACAGTATTAATAGTAAGCCCAACTCTAGTTGG
* * * * *
110639 ATTAACCAACAATAAATTCGTCAATTCTTGGCATCTAGTTCCTGGCGATTAAACCGCAATAAGTG
65 ATTAACCAACAATAAATCCGTCAATTCTTGGCACCCAGTGCCTAGCGATTAAACCGCAATAAGTG
* *
110704 AGCACAGCTCTAGTTGGATTAACCAAT
130 AGCACAACTCTAGTTGGATTAACCAAC
** ** * * *
110731 GGTTTTGCGCCCTGTGCTAGTCGAATAAACCGACAGTATTAATAGTTAGCCTAACTCTAGTTGGA
1 AATTTTGCGCCAAGCGCTAGTCGAATAAACCGACAGTATTAATAGTAAGCCCAACTCTAGTTGGA
* * * * *
110796 TTAACCAACACTAAATCCGTCAATTTTTGGCACCCAGTGCCTAGTGGTTAAACCGTAATAAGTGA
66 TTAACCAACAATAAATCCGTCAATTCTTGGCACCCAGTGCCTAGCGATTAAACCGCAATAAGTGA
110861 GCTA-AACTCTAGTTGGATTAACCAAC
131 GC-ACAACTCTAGTTGGATTAACCAAC
*
110887 AATTTTGCGCCAAGCGCTAGTC-AATTAAACTGACA
1 AATTTTGCGCCAAGCGCTAGTCGAA-TAAACCGACA
110922 ACATAAATAA
Statistics
Matches: 159, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
154 3 0.02
155 7 0.04
156 148 0.93
157 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.28
Consensus pattern (156 bp):
AATTTTGCGCCAAGCGCTAGTCGAATAAACCGACAGTATTAATAGTAAGCCCAACTCTAGTTGGA
TTAACCAACAATAAATCCGTCAATTCTTGGCACCCAGTGCCTAGCGATTAAACCGCAATAAGTGA
GCACAACTCTAGTTGGATTAACCAAC
Found at i:116580 original size:28 final size:28
Alignment explanation
Indices: 116549--116619 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 28
116539 TTTGTATTTG
*
116549 GCTCAAATGAGCAATAAATCTGTATCTA
1 GCTCAAATGAGAAATAAATCTGTATCTA
* * * * *
116577 GCTCGAATAAGAAATTAGTCTAT-TCTA
1 GCTCAAATGAGAAATAAATCTGTATCTA
116604 GCTCAAATGAGAAATA
1 GCTCAAATGAGAAATA
116620 TTTTGTATTT
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (28 bp):
GCTCAAATGAGAAATAAATCTGTATCTA
Found at i:117616 original size:22 final size:22
Alignment explanation
Indices: 117518--117610 Score: 152
Period size: 22 Copynumber: 4.2 Consensus size: 22
117508 AGACACAGGT
* *
117518 GTGTGGATGAGGGCACACAGGT
1 GTGTGGATGAGGGCACACGGGA
117540 GTGTGGATGAGGGCACACGGGA
1 GTGTGGATGAGGGCACACGGGA
117562 GTGTGGATGAGGGCACACGGGA
1 GTGTGGATGAGGGCACACGGGA
117584 GTGTGGATGAGGGCACACTGGG-
1 GTGTGGATGAGGGCACAC-GGGA
117606 GTGTG
1 GTGTG
117611 TTTGAGACAC
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
22 65 0.96
23 3 0.04
ACGTcount: A:0.20, C:0.13, G:0.49, T:0.17
Consensus pattern (22 bp):
GTGTGGATGAGGGCACACGGGA
Found at i:121278 original size:23 final size:23
Alignment explanation
Indices: 121252--121305 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
121242 AACACTAGCG
* *
121252 TGCTTGCTGTTCAGCACTGTGTA
1 TGCTTACTGATCAGCACTGTGTA
* *
121275 TGCTTACTGATCCGCACTGTGTG
1 TGCTTACTGATCAGCACTGTGTA
121298 TGCTTACT
1 TGCTTACT
121306 AAATTGCACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.39
Consensus pattern (23 bp):
TGCTTACTGATCAGCACTGTGTA
Found at i:121314 original size:23 final size:23
Alignment explanation
Indices: 121265--121354 Score: 110
Period size: 23 Copynumber: 3.8 Consensus size: 23
121255 TTGCTGTTCA
* * *
121265 GCACTGTGTATGCTTACT-GATCC
1 GCACTGTGTGTGCTTACTAAAT-T
121288 GCACTGTGTGTGCTTACTAAATT
1 GCACTGTGTGTGCTTACTAAATT
*
121311 GCACTATGTGTGCTTACTAAATT
1 GCACTGTGTGTGCTTACTAAATT
121334 GCACTATGTGTGTGCTTACTA
1 GCAC--TGTGTGTGCTTACTA
121355 TTGCCCAGCA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
23 43 0.73
24 2 0.03
25 14 0.24
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (23 bp):
GCACTGTGTGTGCTTACTAAATT
Found at i:121320 original size:25 final size:25
Alignment explanation
Indices: 121292--121354 Score: 112
Period size: 23 Copynumber: 2.6 Consensus size: 25
121282 TGATCCGCAC
121292 TGTGTGTGCTTACTAAATTGCACTA
1 TGTGTGTGCTTACTAAATTGCACTA
121317 --TGTGTGCTTACTAAATTGCACTA
1 TGTGTGTGCTTACTAAATTGCACTA
121340 TGTGTGTGCTTACTA
1 TGTGTGTGCTTACTA
121355 TTGCCCAGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
23 23 0.64
25 13 0.36
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (25 bp):
TGTGTGTGCTTACTAAATTGCACTA
Found at i:122222 original size:19 final size:20
Alignment explanation
Indices: 122205--122245 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
122195 TTGGTATCGT
122205 TTTTAAGCAAAAGTATCGATA
1 TTTTAAG-AAAAGTATCGATA
* *
122226 TTTTACGAAAAGTATTGATA
1 TTTTAAGAAAAGTATCGATA
122246 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (20 bp):
TTTTAAGAAAAGTATCGATA
Found at i:122260 original size:20 final size:19
Alignment explanation
Indices: 122213--122268 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
122203 GTTTTTAAGC
*
122213 AAAAGTATCGATA-TTTTACG
1 AAAAGTATCGATACCTTT--G
*
122233 AAAAGTATTGATACCTTTG
1 AAAAGTATCGATACCTTTG
122252 AAAAGGTATCGATACCT
1 AAAA-GTATCGATACCT
122269 GAGTTACAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (19 bp):
AAAAGTATCGATACCTTTG
Found at i:123756 original size:34 final size:34
Alignment explanation
Indices: 123713--123798 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
123703 TTAATAGTGA
123713 GCCCAGCTCTAGTTAGATTAACCAACAGTTTTGC
1 GCCCAGCTCTAGTTAGATTAACCAACAGTTTTGC
* *
123747 GCCCAGCTCTAGTTGGATTAACCAACGGTTTTGC
1 GCCCAGCTCTAGTTAGATTAACCAACAGTTTTGC
* * *
123781 GTCCAGCGCTAGTCAGAT
1 GCCCAGCTCTAGTTAGAT
123799 GAACTGACAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (34 bp):
GCCCAGCTCTAGTTAGATTAACCAACAGTTTTGC
Found at i:128349 original size:46 final size:46
Alignment explanation
Indices: 128207--128349 Score: 214
Period size: 46 Copynumber: 3.1 Consensus size: 46
128197 GCTTCTATGA
* **
128207 GATGGTAGCTTCAATCTGCCCCTCTTTATTTTAGGGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTC-TTAACTTAGGGGTAAAAGATTG
* *
128254 GATAGTGGCTTCAATCTACCCCTCTTAACTTAGGGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTAACTTAGGGGTAAAAGATTG
* *
128300 GATGGTGGCTTCAATTTGCCCCTCTTGACTTAGGGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTAACTTAGGGGTAAAAGATTG
128346 GATG
1 GATG
128350 ACTTCAATTT
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
46 66 0.76
47 21 0.24
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (46 bp):
GATGGTGGCTTCAATCTGCCCCTCTTAACTTAGGGGTAAAAGATTG
Found at i:128419 original size:42 final size:41
Alignment explanation
Indices: 128286--128505 Score: 150
Period size: 42 Copynumber: 5.4 Consensus size: 41
128276 TCTTAACTTA
* * * * *
128286 GGGGTAAAAGATTGGATGGTGGCTTCAATTTGCCCCTCTTGACTTA
1 GGGGTAAGAGATTGGATGAT-GCTTCAATCTG--CCTCATGA--TC
* * *
128332 GGGGTAAAAGATTGGATGA--CTTCAATTTGCCTTATGATC
1 GGGGTAAGAGATTGGATGATGCTTCAATCTGCCTCATGATC
* * *
128371 GAGGTAAGAGATTGGATGATGTCTTTAATCTGCCCCATGATC
1 GGGGTAAGAGATTGGATGATG-CTTCAATCTGCCTCATGATC
*
128413 GGGGTAAGAGATTGG-TG-TGTCTTCAATCTGTCCTC-TGATT
1 GGGGTAAGAGATTGGATGATG-CTTCAATCTG-CCTCATGATC
* *** *
128453 AGGGT-AGA-ATACTA-GATGCTTTAATCTGCCTCATGATC
1 GGGGTAAGAGATTGGATGATGCTTCAATCTGCCTCATGATC
*
128491 AGGGTAAGAGATTGG
1 GGGGTAAGAGATTGG
128506 TGTGTTTTTG
Statistics
Matches: 142, Mismatches: 23, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
37 4 0.03
38 21 0.15
39 26 0.18
40 22 0.15
41 11 0.08
42 30 0.21
43 10 0.07
46 18 0.13
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (41 bp):
GGGGTAAGAGATTGGATGATGCTTCAATCTGCCTCATGATC
Found at i:128906 original size:99 final size:98
Alignment explanation
Indices: 128752--129318 Score: 694
Period size: 99 Copynumber: 5.8 Consensus size: 98
128742 CGCCGTTATG
* * * *** * *
128752 GCCTCAATCTTTCCCTTCATATC-T-TAAGGTATAAAGTTCGCCATTGCAGCTTCAACCTTTCCC
1 GCCTCAATCCTTCCCATCACATCTTCTAAGGTATCGGGTTCGCCATTACAGCCTCAACCTTTCCC
* * *
128815 -TCTATATCTCCATGGTACAAGATTCATCGTTGCA
66 TTC-ATATCTTCATGGTAC-GGATTCGTCGTTGCA
* * *
128849 GCCTTAATCCTTCCCATCACATCTTCTAAGGTATCGGGTTCGCCATTGCGGCCTCAA-CTTTCCC
1 GCCTCAATCCTTCCCATCACATCTTCTAAGGTATCGGGTTCGCCATTACAGCCTCAACCTTTCCC
* *
128913 TTCATATCTTCATGGTATCGGATTC-ACTATTGCA
66 TTCATATCTTCATGGTA-CGGATTCGTC-GTTGCA
* * * ** * *
128947 GCCTCAATCCTTTCCATCACATCTTCTAAGTTATTGGGTTCGCTGTTGCGGCCTCAACCTTTCCC
1 GCCTCAATCCTTCCCATCACATCTTCTAAGGTATCGGGTTCGCCATTACAGCCTCAACCTTTCCC
* * * *
129012 TTTATATCTTCATGGTACTGAATTTGTCGTTGTA
66 TTCATATCTTCATGGTAC-GGATTCGTCGTTGCA
* * *
129046 GCCTCAATTCTTCCCATCACATCTTCTAAGGTATCGGGTTCGCCGTTACGGCCTCAACCTTTCCC
1 GCCTCAATCCTTCCCATCACATCTTCTAAGGTATCGGGTTCGCCATTACAGCCTCAACCTTTCCC
129111 TTCATATCTTCATGGTACCGGATTCGTCGTTGCA
66 TTCATATCTTCATGGTA-CGGATTCGTCGTTGCA
* *
129145 GCCTCAATCCTTCCCATCACATCTTTTAAGGTATCGGGTTCGCCATTACAACCTCAACCTTTCCC
1 GCCTCAATCCTTCCCATCACATCTTCTAAGGTATCGGGTTCGCCATTACAGCCTCAACCTTTCCC
* * *
129210 TTCATATCTTCATGGTATTGGATTCGTCATTGCG
66 TTCATATCTTCATGGTA-CGGATTCGTCGTTGCA
* * *
129244 GCCTCAATCCTTCCCATCACATCTTCTAAGTTATCGGGTTTGCCGTTACAGCCTCAACCTTTCCC
1 GCCTCAATCCTTCCCATCACATCTTCTAAGGTATCGGGTTCGCCATTACAGCCTCAACCTTTCCC
129309 TTCATATCTT
66 TTCATATCTT
129319 TATGTTCGCT
Statistics
Matches: 412, Mismatches: 49, Indels: 16
0.86 0.10 0.03
Matches are distributed among these distances:
97 20 0.05
98 83 0.20
99 307 0.75
100 2 0.00
ACGTcount: A:0.19, C:0.30, G:0.14, T:0.36
Consensus pattern (98 bp):
GCCTCAATCCTTCCCATCACATCTTCTAAGGTATCGGGTTCGCCATTACAGCCTCAACCTTTCCC
TTCATATCTTCATGGTACGGATTCGTCGTTGCA
Found at i:129308 original size:50 final size:50
Alignment explanation
Indices: 128842--129318 Score: 382
Period size: 50 Copynumber: 9.6 Consensus size: 50
128832 CAAGATTCAT
*
128842 CGTTGCAGCCTTAATCC-TTCCCATCACATCTTCTAAGGTATCGGGTTCGC
1 CGTTGCAGCCTCAA-CCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGC
* * * * * * *
128892 CATTGCGGCCTCAA-CTTTCCCTTCATATCTTC-ATGGTATCGGATTCAC
1 CGTTGCAGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGC
** * *
128940 TATTGCAGCCTCAATCCTTT-CCATCACATCTTCTAAGTTATTGGGTTCGC
1 CGTTGCAGCCTCAA-CCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGC
* * * * * * ** * *
128990 TGTTGCGGCCTCAACCTTTCCCTTTATATCTTC-ATGGTA-CTGAATTTGT
1 CGTTGCAGCCTCAACCTTTCCCATCACATCTTCTAAGGTATC-GGGTTCGC
* *
129039 CGTTGTAGCCTCAA-TTCTTCCCATCACATCTTCTAAGGTATCGGGTTCGC
1 CGTTGCAGCCTCAACCT-TTCCCATCACATCTTCTAAGGTATCGGGTTCGC
* * * * * * * *
129089 CGTTACGGCCTCAACCTTTCCCTTCATATCTTC-ATGGTACCGGATTCGT
1 CGTTGCAGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGC
*
129138 CGTTGCAGCCTCAATCC-TTCCCATCACATCTTTTAAGGTATCGGGTTCGC
1 CGTTGCAGCCTCAA-CCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGC
* * * * * * * * *
129188 CATTACAACCTCAACCTTTCCCTTCATATCTTC-ATGGTATTGGATTCGT
1 CGTTGCAGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGC
* * * *
129237 CATTGCGGCCTCAATCC-TTCCCATCACATCTTCTAAGTTATCGGGTTTGC
1 CGTTGCAGCCTCAA-CCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGC
* * *
129287 CGTTACAGCCTCAACCTTTCCCTTCATATCTT
1 CGTTGCAGCCTCAACCTTTCCCATCACATCTT
129319 TATGTTCGCT
Statistics
Matches: 325, Mismatches: 86, Indels: 32
0.73 0.19 0.07
Matches are distributed among these distances:
48 27 0.08
49 140 0.43
50 156 0.48
51 2 0.01
ACGTcount: A:0.18, C:0.31, G:0.15, T:0.36
Consensus pattern (50 bp):
CGTTGCAGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGC
Found at i:130309 original size:6 final size:6
Alignment explanation
Indices: 130298--130337 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
130288 TTCCTTTTTC
130298 TTCTTT TTCTTT TTCTTT TT-TTT CTT-TTT TTC-TT TTCTTT
1 TTCTTT TTCTTT TTCTTT TTCTTT -TTCTTT TTCTTT TTCTTT
130338 CTCTCTCCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTCTTT
Found at i:130311 original size:15 final size:15
Alignment explanation
Indices: 130291--130337 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
130281 TTTTTCCTTC
130291 CTTTTTCTTCTTTTT
1 CTTTTTCTTCTTTTT
*
130306 CTTTTTCTTTTTTTT
1 CTTTTTCTTCTTTTT
130321 CTTTTT-TTC-TTTT
1 CTTTTTCTTCTTTTT
130334 CTTT
1 CTTT
130338 CTCTCTCCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 8 0.27
14 2 0.07
15 20 0.67
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
CTTTTTCTTCTTTTT
Found at i:130317 original size:32 final size:28
Alignment explanation
Indices: 130274--130337 Score: 74
Period size: 32 Copynumber: 2.1 Consensus size: 28
130264 TTGACCTCTC
*
130274 CTTTTTGTTTTTCCTTCCTTTTTCTTCTTTTT
1 CTTTTTCTTTTT--TTCCTTTTT-TTC-TTTT
*
130306 CTTTTTCTTTTTTTTCTTTTTTTCTTTT
1 CTTTTTCTTTTTTTCCTTTTTTTCTTTT
130334 CTTT
1 CTTT
130338 CTCTCTCCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 8 0.27
29 3 0.10
30 8 0.27
32 11 0.37
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.80
Consensus pattern (28 bp):
CTTTTTCTTTTTTTCCTTTTTTTCTTTT
Found at i:130338 original size:9 final size:8
Alignment explanation
Indices: 130292--130339 Score: 62
Period size: 8 Copynumber: 5.9 Consensus size: 8
130282 TTTTCCTTCC
130292 TTTTTCTT
1 TTTTTCTT
130300 CTTTTTCTT
1 -TTTTTCTT
*
130309 TTTCT-TT
1 TTTTTCTT
130316 TTTTTCTT
1 TTTTTCTT
130324 TTTTTCTT
1 TTTTTCTT
130332 TTCTTTCT
1 TT-TTTCT
130340 CTCTCCTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 6 0.17
8 16 0.46
9 13 0.37
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTCTT
Found at i:130349 original size:23 final size:23
Alignment explanation
Indices: 130301--130349 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
130291 CTTTTTCTTC
* * *
130301 TTTTTCTTTTTCTTTTTTTTCTT
1 TTTTTCTTTTTCTTTTCTCTCCT
130324 TTTTTC-TTTTCTTTCTCTCTCCT
1 TTTTTCTTTTTCTTT-TCTCTCCT
130347 TTT
1 TTT
130350 ATTATTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTCTTTTTCTTTTCTCTCCT
Found at i:131253 original size:3 final size:3
Alignment explanation
Indices: 131242--131282 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
131232 TTTTTCCTTT
131242 TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC TT- TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
131283 TTAAATGCCC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 6 0.17
3 29 0.83
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:141229 original size:20 final size:21
Alignment explanation
Indices: 141192--141231 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
141182 AAATCTTAGA
*
141192 ATAAAAATTATTACAAAATCT
1 ATAAAAATAATTACAAAATCT
141213 ATAAAAATAATTA-AAAATC
1 ATAAAAATAATTACAAAATC
141232 GTAGTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAAAAATAATTACAAAATCT
Found at i:141532 original size:23 final size:23
Alignment explanation
Indices: 141501--141548 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
141491 TCCTTACTGA
*
141501 AATTGATTTTT-ATATGATTTTTT
1 AATTGATTTTTAATAT-ATATTTT
*
141524 AATTTATTTTTAATATATATTTT
1 AATTGATTTTTAATATATATTTT
141547 AA
1 AA
141549 AAATTTTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
AATTGATTTTTAATATATATTTT
Found at i:141782 original size:27 final size:27
Alignment explanation
Indices: 141704--141774 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
141694 CCCAACCCGA
* * *
141704 ATATATTATGCTA-TAAAAAATAATTAT
1 ATATATTAT-ATATTAAATAATAATTAC
141731 ATATATTATATATTAAATAATAATTAC
1 ATATATTATATATTAAATAATAATTAC
141758 ATATATT-TATATTAAAT
1 ATATATTATATATTAAAT
141775 CGTTAATTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 12 0.30
27 28 0.70
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (27 bp):
ATATATTATATATTAAATAATAATTAC
Found at i:144467 original size:11 final size:11
Alignment explanation
Indices: 144453--144479 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
144443 GAGGTCTTTG
144453 TTTTTCTTTTC
1 TTTTTCTTTTC
144464 TTTTTCTTTTC
1 TTTTTCTTTTC
144475 TTTTT
1 TTTTT
144480 GGGCCTGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:144966 original size:51 final size:51
Alignment explanation
Indices: 144904--145068 Score: 135
Period size: 51 Copynumber: 3.3 Consensus size: 51
144894 AAAAAGGAAT
*
144904 GTTTAGATTTTTAAAAATAAAATTTTATTTTTAGGCATTTTAAAAGAAAAA
1 GTTTAAATTTTTAAAAATAAAATTTTATTTTTAGGCATTTTAAAAGAAAAA
* * * ***
144955 GTTTAAATTTTT--AAACAAAGTTTGATTTTTTTAATTATTTTGAAAA-AAAAA
1 GTTTAAATTTTTAAAAATAAAATTT--TATTTTTAGGCATTTT-AAAAGAAAAA
* * * * * *
145006 --TT-GATTTTTAAAAATAAAAATATGTTTTTAGGCATTTTTAAAGAAAAG
1 GTTTAAATTTTTAAAAATAAAATTTTATTTTTAGGCATTTTAAAAGAAAAA
*
145054 GTTTAACTTTTTAAA
1 GTTTAAATTTTTAAA
145069 CAAAGTTTGA
Statistics
Matches: 85, Mismatches: 20, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
47 3 0.04
48 22 0.26
49 11 0.13
50 9 0.11
51 36 0.42
52 4 0.05
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (51 bp):
GTTTAAATTTTTAAAAATAAAATTTTATTTTTAGGCATTTTAAAAGAAAAA
Found at i:145012 original size:18 final size:18
Alignment explanation
Indices: 144987--145024 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
144977 TGATTTTTTT
144987 AATTATTTTGAAAAA-AA
1 AATTATTTTGAAAAATAA
*
145004 AATTGATTTTTAAAAATAA
1 AATT-ATTTTGAAAAATAA
145023 AA
1 AA
145025 ATATGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 10 0.56
19 4 0.22
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
AATTATTTTGAAAAATAA
Found at i:145019 original size:19 final size:20
Alignment explanation
Indices: 144992--145035 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
144982 TTTTTAATTA
*
144992 TTTTGAAAA-AAAAAT-TGAT
1 TTTTAAAAATAAAAATATG-T
145011 TTTTAAAAATAAAAATATGT
1 TTTTAAAAATAAAAATATGT
145031 TTTTA
1 TTTTA
145036 GGCATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 12 0.55
21 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (20 bp):
TTTTAAAAATAAAAATATGT
Found at i:145085 original size:51 final size:49
Alignment explanation
Indices: 144931--145085 Score: 136
Period size: 48 Copynumber: 3.1 Consensus size: 49
144921 TAAAATTTTA
144931 TTTTTAGGCATTTTAAAAGAAAAAGTTTAAATTTTTAAACAAAGTTTGATT
1 TTTTTAGGCATTTTAAAAG-AAAAGTTT-AATTTTTAAACAAAGTTTGATT
*** * * * *** *
144982 TTTTTAATTATTTTGAAAA-AAAA-ATTGATTTTTAAAAATAAAAAT-ATG
1 TTTTTAGGCATTTT-AAAAGAAAAGTTTAATTTTTAAACA-AAGTTTGATT
*
145030 TTTTTAGGCATTTTTAAAGAAAAGGTTTAACTTTTTAAACAAAGTTTGATT
1 TTTTTAGGCATTTTAAAAGAAAA-GTTTAA-TTTTTAAACAAAGTTTGATT
145081 TTTTT
1 TTTTT
145086 TTAACTATTT
Statistics
Matches: 76, Mismatches: 21, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
47 3 0.04
48 27 0.36
49 5 0.07
50 10 0.13
51 27 0.36
52 4 0.05
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (49 bp):
TTTTTAGGCATTTTAAAAGAAAAGTTTAATTTTTAAACAAAGTTTGATT
Found at i:145147 original size:99 final size:98
Alignment explanation
Indices: 144909--145119 Score: 278
Period size: 99 Copynumber: 2.1 Consensus size: 98
144899 GGAATGTTTA
* * * *
144909 GATTTTTAAAAATAAAATTTTATTTTTAGGCATTTTAAAAGAAAAAGTTTAAATTTTTAAACAAA
1 GATTTTT-AAAATAAAAATATGTTTTTAGGCATTTTTAAAGAAAAAGTTTAAATTTTTAAACAAA
* *
144974 GTTTGATTTTTTTAATTATTTTGAAAAAAAAATT
65 GTTTGATTTTTTTAACTATTTCGAAAAAAAAATT
* *
145008 GATTTTTAAAAATAAAAATATGTTTTTAGGCATTTTTAAAGAAAAGGTTTAACTTTTTAAACAAA
1 GATTTTT-AAAATAAAAATATGTTTTTAGGCATTTTTAAAGAAAAAGTTTAAATTTTTAAACAAA
**
145073 GTTTGATTTTTTTTTAACTATTTCGAAATAAAAGTTTT
65 GTTTGA--TTTTTTTAACTATTTCGAAA-AAAA-AATT
145111 GATTTTTAA
1 GATTTTTAA
145120 GTAAAGTAGT
Statistics
Matches: 98, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
99 65 0.66
101 18 0.18
102 6 0.06
103 9 0.09
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.46
Consensus pattern (98 bp):
GATTTTTAAAATAAAAATATGTTTTTAGGCATTTTTAAAGAAAAAGTTTAAATTTTTAAACAAAG
TTTGATTTTTTTAACTATTTCGAAAAAAAAATT
Found at i:145186 original size:144 final size:144
Alignment explanation
Indices: 145008--145273 Score: 412
Period size: 144 Copynumber: 1.8 Consensus size: 144
144998 AAAAAAAATT
* **
145008 GATTTTTAAAAATAAAAATATGTTTTTAGGCATTTTTAAAGA-AAAGGTTTAACTTTTTAAACAA
1 GATTTTTAAAAATAAAAATATGTTTTTAGGCA-TTTTAAAGAGAAAAGTTTAAAATTTTAAACAA
* *
145072 AGTTTGATTTTTTTTTAACTATTTCGAAATAAAAGTTTTGA-TTTTTAAGT-AAAGTAGTTTTTT
65 AATTTGA-TTCTTTTTAACTATTTCGAAATAAAAGTTTTGATTTTTTAA-TAAAAGTAGTTTTTT
145135 TTTTTTTTTAAAGTTTG
128 TTTTTTTTTAAAGTTTG
* * *
145152 GATTTTTAAAAATAAAAATATGTTTTTAGTCATTTTAAAGAGAAAATTTTAAAATTTTAAATAAA
1 GATTTTTAAAAATAAAAATATGTTTTTAGGCATTTTAAAGAGAAAAGTTTAAAATTTTAAACAAA
145217 ATTTGATTCTTTTTAACTATTTCGAAATAAAAGTTTTGATTTTTTAATAAAAGTAGT
66 ATTTGATTCTTTTTAACTATTTCGAAATAAAAGTTTTGATTTTTTAATAAAAGTAGT
145274 AATTTTGTTT
Statistics
Matches: 111, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
143 42 0.38
144 69 0.62
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.48
Consensus pattern (144 bp):
GATTTTTAAAAATAAAAATATGTTTTTAGGCATTTTAAAGAGAAAAGTTTAAAATTTTAAACAAA
ATTTGATTCTTTTTAACTATTTCGAAATAAAAGTTTTGATTTTTTAATAAAAGTAGTTTTTTTTT
TTTTTTAAAGTTTG
Found at i:145313 original size:144 final size:144
Alignment explanation
Indices: 145009--145304 Score: 346
Period size: 144 Copynumber: 2.0 Consensus size: 144
144999 AAAAAAATTG
* * ** *
145009 ATTTTTAAAAATAAAAATATGTTTTTAGGCATTTTTAAAGAAAAGGTTTAACTTTTTAAACAAAG
1 ATTTTGAAAAATAAAAATATGTTTTTAGGCATTTTTAAAGAAAAAGTTTAAAATTTTAAACAAAA
* ** *
145074 TTTGATTTTTTTTTAACTATTTCGAAATAAAAGTTTTGATTTTTAAGTAAAGTAGTTTTTTTTTT
66 TTTGATTTCTTTTTAACTATTTCGAAATAAAAGTTTTGATTTTTAAGTAAAGTAGTAATTTTGTT
*** *****
145139 TTTTTAAAGTTTGG
131 TTAAAAAAGAGAAA
* * * *
145153 ATTTTTAAAAATAAAAATATGTTTTTAGTCA-TTTTAAAGAGAAAATTTTAAAATTTTAAATAAA
1 ATTTTGAAAAATAAAAATATGTTTTTAGGCATTTTTAAAGA-AAAAGTTTAAAATTTTAAACAAA
145217 ATTTGA-TTCTTTTTAACTATTTCGAAATAAAAGTTTTGATTTTTTAA-TAAAAGTAGTAATTTT
65 ATTTGATTTCTTTTTAACTATTTCGAAATAAAAGTTTTGA-TTTTTAAGT-AAAGTAGTAATTTT
145280 GTTTTAAAAAAGAGAAA
128 GTTTTAAAAAAGAGAAA
145297 ACTTTTGA
1 A-TTTTGA
145305 TTTAAAAAAA
Statistics
Matches: 128, Mismatches: 20, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
143 42 0.33
144 81 0.63
145 5 0.04
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.47
Consensus pattern (144 bp):
ATTTTGAAAAATAAAAATATGTTTTTAGGCATTTTTAAAGAAAAAGTTTAAAATTTTAAACAAAA
TTTGATTTCTTTTTAACTATTTCGAAATAAAAGTTTTGATTTTTAAGTAAAGTAGTAATTTTGTT
TTAAAAAAGAGAAA
Found at i:145903 original size:16 final size:16
Alignment explanation
Indices: 145864--145905 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
145854 TTTATTCTTA
* *
145864 TTTCATCTTTATTTAT
1 TTTCATGTTTATTAAT
145880 TTTCATGTTTATTAAT
1 TTTCATGTTTATTAAT
145896 ATTT-ATGTTT
1 -TTTCATGTTT
145906 TTTTTACACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (16 bp):
TTTCATGTTTATTAAT
Found at i:150159 original size:30 final size:30
Alignment explanation
Indices: 150092--150159 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
150082 ACACCGTCGG
*
150092 ACATCAAA-ATGTAGCACAGACAGAAATAC
1 ACATCAAATATGTAGCACAGACAGAAACAC
*
150121 ACAGCAAATATGTAGCACAGTA-AGAAACAC
1 ACATCAAATATGTAGCACAG-ACAGAAACAC
*
150151 ACCTCAAAT
1 ACATCAAAT
150160 CGACAGAAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 7 0.21
30 25 0.76
31 1 0.03
ACGTcount: A:0.50, C:0.22, G:0.13, T:0.15
Consensus pattern (30 bp):
ACATCAAATATGTAGCACAGACAGAAACAC
Found at i:151858 original size:8 final size:8
Alignment explanation
Indices: 151845--151870 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
151835 TAAATTCAAT
151845 TTCTTTTC
1 TTCTTTTC
151853 TTCTTTTC
1 TTCTTTTC
151861 TTCTTTTC
1 TTCTTTTC
151869 TT
1 TT
151871 TTCAAGCCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (8 bp):
TTCTTTTC
Found at i:152637 original size:27 final size:27
Alignment explanation
Indices: 152596--152697 Score: 159
Period size: 27 Copynumber: 3.7 Consensus size: 27
152586 AGGAGTAATT
152596 TGATTTTGGCTCGAAAGAGCATTATTC
1 TGATTTTGGCTCGAAAGAGCATTATTC
* *
152623 TGATTCTGGCCCGAAAGAGCATTATTC
1 TGATTTTGGCTCGAAAGAGCATTATTC
*
152650 TGATTTTGGCTCGAAAGAACATTATTC
1 TGATTTTGGCTCGAAAGAGCATTATTC
*
152677 TGATTTTGGGCTCGTAAGAGC
1 TGATTTT-GGCTCGAAAGAGC
152698 TAATCATTCT
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
27 56 0.84
28 11 0.16
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (27 bp):
TGATTTTGGCTCGAAAGAGCATTATTC
Found at i:154252 original size:29 final size:30
Alignment explanation
Indices: 154220--154282 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
154210 CTAAAACTCA
*
154220 AATTAAATCCCAAACTTT-ACTAAAATTTC
1 AATTAAACCCCAAACTTTCACTAAAATTTC
* * * *
154249 AATTTAGCCCCTAAGTTTCACTAAAATTTC
1 AATTAAACCCCAAACTTTCACTAAAATTTC
154279 AATT
1 AATT
154283 TAGTCCTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 13 0.46
30 15 0.54
ACGTcount: A:0.40, C:0.21, G:0.03, T:0.37
Consensus pattern (30 bp):
AATTAAACCCCAAACTTTCACTAAAATTTC
Found at i:155296 original size:17 final size:17
Alignment explanation
Indices: 155274--155308 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
155264 TTATTAAACC
155274 TCTCTAACATATGTCTA
1 TCTCTAACATATGTCTA
155291 TCTCTAACATATGTCTA
1 TCTCTAACATATGTCTA
155308 T
1 T
155309 GTTAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.43
Consensus pattern (17 bp):
TCTCTAACATATGTCTA
Found at i:155955 original size:26 final size:27
Alignment explanation
Indices: 155926--155976 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
155916 GAACAATTGA
155926 AAATGGGAAAGG-GAAAATAAGAGAGT
1 AAATGGGAAAGGCGAAAATAAGAGAGT
*
155952 AAATGGGAAAGGCGAGAATAAGAGA
1 AAATGGGAAAGGCGAAAATAAGAGA
155977 AATGGATGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.53, C:0.02, G:0.35, T:0.10
Consensus pattern (27 bp):
AAATGGGAAAGGCGAAAATAAGAGAGT
Found at i:156417 original size:20 final size:20
Alignment explanation
Indices: 156388--156446 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
156378 ATTTTAAAAT
*
156388 CAAGTTAAAATGATTTTAGA-
1 CAAGTCAAAATGATTTTA-AC
*
156408 CAAGTCAAAATGATTTCAAC
1 CAAGTCAAAATGATTTTAAC
*
156428 CAAGTCAAAATCATTTTAA
1 CAAGTCAAAATGATTTTAA
156447 TACATCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.31
Consensus pattern (20 bp):
CAAGTCAAAATGATTTTAAC
Found at i:158099 original size:31 final size:31
Alignment explanation
Indices: 158061--158122 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
158051 TAATATTTGC
158061 TTTGAATTTTCTTTGAATGTATGTCTCAAAA
1 TTTGAATTTTCTTTGAATGTATGTCTCAAAA
158092 TTTGAATTTTCTTTGAATGTATGTCTCAAAA
1 TTTGAATTTTCTTTGAATGTATGTCTCAAAA
158123 AAATTCTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (31 bp):
TTTGAATTTTCTTTGAATGTATGTCTCAAAA
Found at i:158857 original size:45 final size:45
Alignment explanation
Indices: 158779--159368 Score: 531
Period size: 45 Copynumber: 12.9 Consensus size: 45
158769 GGTGTTGTAA
* * * *
158779 CTTCAATCTGTCCCTTTGGGTTTAGGGGTAAAAGATTGGATGGTGA
1 CTTCAATCTGCCCCTCT-GGATTAGGGGTAAAAGATTGGATGGTGG
* * *
158825 CTTTAATCTACCCCTTTGGATTAGGGGTAAAAGATTGGATGGTGG
1 CTTCAATCTGCCCCTCTGGATTAGGGGTAAAAGATTGGATGGTGG
*
158870 CTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATGGTGG
1 CTTCAATCTGCCCCTCTGGA-TTAGGGGTAAAAGATTGGATGGTGG
* * * * *
158916 CCTCAATTTGCCCTTTTGGATTTAGGTGTAAAAGATTGGATGGTGG
1 CTTCAATCTGCCCCTCTGGA-TTAGGGGTAAAAGATTGGATGGTGG
* * *
158962 CTTCAATCTGCCCCTCTGGATTAGGGATAAAAGATTGGTTGGTAG
1 CTTCAATCTGCCCCTCTGGATTAGGGGTAAAAGATTGGATGGTGG
* * * * *
159007 ATTCAATCTGCCGCTCTGGATTTAGGTGTGAAAGATTGGATGGTGA
1 CTTCAATCTGCCCCTCTGGA-TTAGGGGTAAAAGATTGGATGGTGG
* * * * * * *
159053 CATCTATTTTCCCCTCTAGATTAGGGGT-AAACATTGGATAGTGG
1 CTTCAATCTGCCCCTCTGGATTAGGGGTAAAAGATTGGATGGTGG
* *
159097 CTTCAATCTGCCCCTCTGGATTAGGGGTAAAACATTGGATTGTGG
1 CTTCAATCTGCCCCTCTGGATTAGGGGTAAAAGATTGGATGGTGG
* ** *
159142 CTTCAATCTGCCCCTCTAGATTTA-GGGTAAAAGATTATATGGAGG
1 CTTCAATCTGCCCCTCTGGA-TTAGGGGTAAAAGATTGGATGGTGG
* * * *
159187 TTTCAATCTGCCCCTTTCGATTAGGGGTAAAAGATTGGATGGCGG
1 CTTCAATCTGCCCCTCTGGATTAGGGGTAAAAGATTGGATGGTGG
* * * * * *
159232 CTTTAATCTACCCCTCTGAATTTAAGGGTATAAGATT-GATTGTGGTAG
1 CTTCAATCTGCCCCTCTGGA-TTAGGGGTAAAAGATTGGA---TGGTGG
* * * ** * * *
159280 CTTCAATCTACCCATCTAGATTTAAAGGTATAA-ATTAGATGTGGTAG
1 CTTCAATCTGCCCCTCTGGA-TTAGGGGTAAAAGATTGGA--TGGTGG
*** *
159327 CTTCAATCCAACCCTCTGGATTTAGGGGTATAAGATTGGATG
1 CTTCAATCTGCCCCTCTGGA-TTAGGGGTAAAAGATTGGATG
159369 TGGTAGTTTC
Statistics
Matches: 451, Mismatches: 82, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
44 39 0.09
45 189 0.42
46 146 0.32
47 38 0.08
48 39 0.09
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (45 bp):
CTTCAATCTGCCCCTCTGGATTAGGGGTAAAAGATTGGATGGTGG
Found at i:158934 original size:91 final size:91
Alignment explanation
Indices: 158779--159269 Score: 560
Period size: 91 Copynumber: 5.4 Consensus size: 91
158769 GGTGTTGTAA
* * * * * * *
158779 CTTCAATCTGTCCCTTTGGGTTTAGGGGTAAAAGATTGGATGGTGACTTTAATCTACCCCTTTGG
1 CTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTTTGG
158844 ATTAGGGGTAAAAGATTGGATGGTGG
66 ATTAGGGGTAAAAGATTGGATGGTGG
* * *
158870 CTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATGGTGGCCTCAATTTGCCCTTTTGG
1 CTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTTTGG
*
158935 ATTTAGGTGTAAAAGATTGGATGGTGG
66 A-TTAGGGGTAAAAGATTGGATGGTGG
* * * * * * *
158962 CTTCAATCTGCCCCTCTGGA-TTAGGGATAAAAGATTGGTTGGTAGATTCAATCTGCCGCTCTGG
1 CTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTTTGG
* * *
159026 ATTTAGGTGTGAAAGATTGGATGGTGA
66 A-TTAGGGGTAAAAGATTGGATGGTGG
* * * * * * *
159053 CATCTATTTTCCCCTCTAGA-TTAGGGGT-AAACATTGGATAGTGGCTTCAATCTGCCCCTCTGG
1 CTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTTTGG
* *
159116 ATTAGGGGTAAAACATTGGATTGTGG
66 ATTAGGGGTAAAAGATTGGATGGTGG
** * * *
159142 CTTCAATCTGCCCCTCTAGATTTA-GGGTAAAAGATTATATGGAGGTTTCAATCTGCCCCTTTCG
1 CTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTTTGG
*
159206 ATTAGGGGTAAAAGATTGGATGGCGG
66 ATTAGGGGTAAAAGATTGGATGGTGG
* * * *
159232 CTTTAATCTACCCCTCT-GAATTTAAGGGTATAAGATTG
1 CTTCAATCTGCCCCTCTAG-ATTTAGGGGTAAAAGATTG
159270 ATTGTGGTAG
Statistics
Matches: 336, Mismatches: 59, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
89 41 0.12
90 103 0.31
91 149 0.44
92 43 0.13
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.33
Consensus pattern (91 bp):
CTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTTTGG
ATTAGGGGTAAAAGATTGGATGGTGG
Found at i:159364 original size:95 final size:96
Alignment explanation
Indices: 159243--159427 Score: 250
Period size: 95 Copynumber: 1.9 Consensus size: 96
159233 TTTAATCTAC
*
159243 CCCTCTGAATTTAAGGGTATAAGATT-GATTGTGGTAGCTTCAAT-CTACCCATCTAGATTTAAA
1 CCCTCTGAATTTAAGGGTATAAGATTGGA-TGTGGTAGCTTCAATCCGA-CCATCTAGATTTAAA
159306 GGTATAA-ATTAGATGTGGTAGCTTCAATCCAA
64 GGTATAAGATTAGATGTGGTAGCTTCAATCCAA
* * * * * *
159338 CCCTCTGGATTTAGGGGTATAAGATTGGATGTGGTAGTTTCAATCCGACCTTTTAGATTTAGAGG
1 CCCTCTGAATTTAAGGGTATAAGATTGGATGTGGTAGCTTCAATCCGACCATCTAGATTTAAAGG
* *
159403 TATAAGATTGGATGTGTTAGCTTCA
66 TATAAGATTAGATGTGGTAGCTTCA
159428 CTTCACTGCA
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
95 57 0.73
96 21 0.27
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (96 bp):
CCCTCTGAATTTAAGGGTATAAGATTGGATGTGGTAGCTTCAATCCGACCATCTAGATTTAAAGG
TATAAGATTAGATGTGGTAGCTTCAATCCAA
Found at i:159383 original size:48 final size:48
Alignment explanation
Indices: 159243--159427 Score: 207
Period size: 48 Copynumber: 3.9 Consensus size: 48
159233 TTTAATCTAC
* *
159243 CCCTCT-GAATTTAAGGGTATAAGATT-GATTGTGGTAGCTTCAAT-CTA
1 CCCTCTAG-ATTTAAAGGTATAAGATTGGA-TGTGGTAGCTTCAATCCAA
*
159290 CCCATCTAGATTTAAAGGTATAA-ATTAGATGTGGTAGCTTCAATCCAA
1 CCC-TCTAGATTTAAAGGTATAAGATTGGATGTGGTAGCTTCAATCCAA
* ** * *
159338 CCCTCTGGATTTAGGGGTATAAGATTGGATGTGGTAGTTTCAATCCGA
1 CCCTCTAGATTTAAAGGTATAAGATTGGATGTGGTAGCTTCAATCCAA
* * * *
159386 CCTTTTAGATTTAGAGGTATAAGATTGGATGTGTTAGCTTCA
1 CCCTCTAGATTTAAAGGTATAAGATTGGATGTGGTAGCTTCA
159428 CTTCACTGCA
Statistics
Matches: 119, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
47 37 0.31
48 81 0.68
49 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (48 bp):
CCCTCTAGATTTAAAGGTATAAGATTGGATGTGGTAGCTTCAATCCAA
Found at i:164375 original size:7 final size:7
Alignment explanation
Indices: 164363--164436 Score: 66
Period size: 7 Copynumber: 11.0 Consensus size: 7
164353 TATTTAAGGA
164363 TTTTTAT
1 TTTTTAT
164370 TTTTTA-
1 TTTTTAT
164376 -TTTTAT
1 TTTTTAT
164382 TTTTTAAT
1 TTTTT-AT
*
164390 TGTTTAT
1 TTTTTAT
*
164397 TTTTCA-
1 TTTTTAT
*
164403 TTATTAT
1 TTTTTAT
164410 TTTTTAT
1 TTTTTAT
*
164417 TTTTCA-
1 TTTTTAT
*
164423 TTATTAT
1 TTTTTAT
164430 TTTTTAT
1 TTTTTAT
164437 GAAATTTAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
5 5 0.10
6 8 0.15
7 33 0.63
8 6 0.12
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (7 bp):
TTTTTAT
Found at i:164415 original size:20 final size:20
Alignment explanation
Indices: 164366--164436 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
164356 TTAAGGATTT
*
164366 TTATTTTTTA-TTTT-ATTTT
1 TTATTTTTTATTTTTCA-TTA
*
164385 TTAATTGTTTATTTTTCATTA
1 TT-ATTTTTTATTTTTCATTA
164406 TTATTTTTTATTTTTCATTA
1 TTATTTTTTATTTTTCATTA
164426 TTATTTTTTAT
1 TTATTTTTTAT
164437 GAAATTTAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.04
20 35 0.76
21 8 0.17
22 1 0.02
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (20 bp):
TTATTTTTTATTTTTCATTA
Found at i:174987 original size:17 final size:18
Alignment explanation
Indices: 174967--175006 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
174957 TTAGTTTTAA
174967 TGCATTTT-TATTATCAC
1 TGCATTTTATATTATCAC
* *
174984 TGCATTTTATTTTGTCAC
1 TGCATTTTATATTATCAC
175002 TGCAT
1 TGCAT
175007 CATTTTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.53
Consensus pattern (18 bp):
TGCATTTTATATTATCAC
Found at i:179823 original size:11 final size:12
Alignment explanation
Indices: 179809--179851 Score: 58
Period size: 11 Copynumber: 3.9 Consensus size: 12
179799 AAAATAACAC
179809 ATAAA-TAAATA
1 ATAAATTAAATA
179820 ATAAA-T-AATA
1 ATAAATTAAATA
179830 ATAAATTAAATA
1 ATAAATTAAATA
179842 A-AAATTAAAT
1 ATAAATTAAAT
179852 GTTGAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.30
11 16 0.53
12 5 0.17
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATAAATTAAATA
Found at i:179883 original size:13 final size:14
Alignment explanation
Indices: 179856--179888 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
179846 TTAAATGTTG
179856 AAATAAACAAATAA
1 AAATAAACAAATAA
*
179870 ATATAAAC-AATAA
1 AAATAAACAAATAA
179883 AAATAA
1 AAATAA
179889 TTGAGATTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (14 bp):
AAATAAACAAATAA
Found at i:179947 original size:25 final size:27
Alignment explanation
Indices: 179918--179976 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
179908 TAAATGACAA
179918 ATAAATAAACAAAA-AAATCAA-TAAAT
1 ATAAATAAACAAAATAAA-CAACTAAAT
*
179944 -TAAAT-ACCAAAATAAACAACTAAAT
1 ATAAATAAACAAAATAAACAACTAAAT
179969 ATAAATAA
1 ATAAATAA
179977 TAATAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 9 0.32
25 13 0.46
26 5 0.18
27 1 0.04
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.20
Consensus pattern (27 bp):
ATAAATAAACAAAATAAACAACTAAAT
Found at i:203370 original size:12 final size:12
Alignment explanation
Indices: 203353--203377 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
203343 CTCAATTTAT
203353 ACATATCATTTC
1 ACATATCATTTC
203365 ACATATCATTTC
1 ACATATCATTTC
203377 A
1 A
203378 TGTAATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (12 bp):
ACATATCATTTC
Found at i:203818 original size:24 final size:24
Alignment explanation
Indices: 203786--203903 Score: 155
Period size: 24 Copynumber: 4.9 Consensus size: 24
203776 GTTCAGTACA
* * * *
203786 TTTACGCTCGTCAACTAAGATACT
1 TTTACGCTCGCCAGCTAATATACG
* *
203810 TTTACGCTCACCAGCTAATATGCG
1 TTTACGCTCGCCAGCTAATATACG
*
203834 TTTACGCTAGCCAGCTAATATACG
1 TTTACGCTCGCCAGCTAATATACG
* *
203858 TTTACGCTCGTCAGCTAATATGCG
1 TTTACGCTCGCCAGCTAATATACG
203882 TTTACGCTCGCCAGCTAATATA
1 TTTACGCTCGCCAGCTAATATA
203904 AGAAATATTA
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 80 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (24 bp):
TTTACGCTCGCCAGCTAATATACG
Found at i:203863 original size:48 final size:48
Alignment explanation
Indices: 203786--203903 Score: 173
Period size: 48 Copynumber: 2.5 Consensus size: 48
203776 GTTCAGTACA
* * * *
203786 TTTACGCTCGTCAACTAAGATACTTTTACGCTCACCAGCTAATATGCG
1 TTTACGCTCGCCAGCTAATATACGTTTACGCTCACCAGCTAATATGCG
* **
203834 TTTACGCTAGCCAGCTAATATACGTTTACGCTCGTCAGCTAATATGCG
1 TTTACGCTCGCCAGCTAATATACGTTTACGCTCACCAGCTAATATGCG
203882 TTTACGCTCGCCAGCTAATATA
1 TTTACGCTCGCCAGCTAATATA
203904 AGAAATATTA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (48 bp):
TTTACGCTCGCCAGCTAATATACGTTTACGCTCACCAGCTAATATGCG
Found at i:206173 original size:53 final size:53
Alignment explanation
Indices: 206110--206219 Score: 202
Period size: 53 Copynumber: 2.1 Consensus size: 53
206100 CTAAACCATT
*
206110 TAAACACATTCAATACAGTCCAAGGATCGACTGAACTATAGCTCTGATGCCAC
1 TAAACACATTCAATACAGTCCAAGGATCGACTAAACTATAGCTCTGATGCCAC
*
206163 TAAACACATTCAATATAGTCCAAGGATCGACTAAACTATAGCTCTGATGCCAC
1 TAAACACATTCAATACAGTCCAAGGATCGACTAAACTATAGCTCTGATGCCAC
206216 TAAA
1 TAAA
206220 TGTAACACCG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.24
Consensus pattern (53 bp):
TAAACACATTCAATACAGTCCAAGGATCGACTAAACTATAGCTCTGATGCCAC
Found at i:213306 original size:21 final size:24
Alignment explanation
Indices: 213264--213306 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
213254 GGATAATATG
213264 TTTTGATATAACAAGTTAAAGTGT
1 TTTTGATATAACAAGTTAAAGTGT
213288 TTTTGAT-TAA-AAG-TAAAGT
1 TTTTGATATAACAAGTTAAAGT
213307 TGTGCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 3 0.16
24 7 0.37
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (24 bp):
TTTTGATATAACAAGTTAAAGTGT
Found at i:215026 original size:21 final size:21
Alignment explanation
Indices: 215002--215055 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
214992 CTTGTGATAG
*
215002 TTCTACCGATACAAGT-GTAGC
1 TTCTACCGATACAAGTCAT-GC
* *
215023 TTCTACTGAAACAAGTCATGC
1 TTCTACCGATACAAGTCATGC
215044 TTCTACCGATAC
1 TTCTACCGATAC
215056 TAAAAACTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (21 bp):
TTCTACCGATACAAGTCATGC
Found at i:222356 original size:21 final size:21
Alignment explanation
Indices: 222326--222385 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
222316 CCGATACTTG
*
222326 TGATAGTTCTACCGATACAAC
1 TGATACTTCTACCGATACAAC
* *
222347 TG-TAACTTCTACCGAAACAAG
1 TGAT-ACTTCTACCGATACAAC
*
222368 TGATGCTTCTACCGATAC
1 TGATACTTCTACCGATAC
222386 TAAAAACTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (21 bp):
TGATACTTCTACCGATACAAC
Found at i:227853 original size:16 final size:17
Alignment explanation
Indices: 227832--227870 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
227822 TTGTTAATAA
227832 TGTCAATGCAA-TAAGT
1 TGTCAATGCAAGTAAGT
227848 TGTCAATGCAAGTTAAGT
1 TGTCAATGCAAG-TAAGT
227866 TGTCA
1 TGTCA
227871 GAGCAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.52
18 10 0.48
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (17 bp):
TGTCAATGCAAGTAAGT
Found at i:230820 original size:22 final size:22
Alignment explanation
Indices: 230792--230878 Score: 131
Period size: 22 Copynumber: 4.0 Consensus size: 22
230782 GCCCTAAAGA
*
230792 ACGGAGAGCACCAA-GGTGCTAG
1 ACGGAGAGCA-CAATCGTGCTAG
230814 ACGGAGAGCACAATCGTGCTAG
1 ACGGAGAGCACAATCGTGCTAG
*
230836 ACGGAGAGCACAATCGTGCAAG
1 ACGGAGAGCACAATCGTGCTAG
*
230858 ACAGAGAGCACAATCGTGCTA
1 ACGGAGAGCACAATCGTGCTA
230879 AACGAAAAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
21 3 0.05
22 57 0.95
ACGTcount: A:0.34, C:0.23, G:0.31, T:0.11
Consensus pattern (22 bp):
ACGGAGAGCACAATCGTGCTAG
Found at i:232442 original size:19 final size:20
Alignment explanation
Indices: 232415--232454 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
232405 TTTCGAGAAA
*
232415 AAATAAACGGTCAATG-GTC
1 AAATAAACGATCAATGAGTC
*
232434 AAATCAACGATCAATGAGTC
1 AAATAAACGATCAATGAGTC
232454 A
1 A
232455 GGTCAAAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATAAACGATCAATGAGTC
Found at i:237255 original size:29 final size:29
Alignment explanation
Indices: 237222--237278 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
237212 ACCCTAAATT
237222 TCATT-AAATTCAAATTTAATCCTCAAAAC
1 TCATTAAAATTCAAATTTAATCC-CAAAAC
**
237251 TCATTAAAATTTTAATTTAATCCCAAAA
1 TCATTAAAATTCAAATTTAATCCCAAAA
237279 ATAAAAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.37
Consensus pattern (29 bp):
TCATTAAAATTCAAATTTAATCCCAAAAC
Found at i:238265 original size:16 final size:17
Alignment explanation
Indices: 238238--238272 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
238228 AACTTACATG
238238 AAATATTGGTTTTAACA
1 AAATATTGGTTTTAACA
*
238255 AAATA-TGGTTTTAGCA
1 AAATATTGGTTTTAACA
238271 AA
1 AA
238273 TTTCTCATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (17 bp):
AAATATTGGTTTTAACA
Found at i:239078 original size:434 final size:435
Alignment explanation
Indices: 238337--239206 Score: 1573
Period size: 434 Copynumber: 2.0 Consensus size: 435
238327 AATTCTGAGA
238337 AACAAGTTTTTGATAAAGTTAAAATGTTTTCCAAATAATGAGGAATAACCAAGTTCTCTAGTTTT
1 AACAAGTTTTTGATAAAGTTAAAATGTTTTCCAAATAATGAGGAATAACCAAGTTCTCTAGTTTT
*
238402 GAAGAGTAAGACAAAAGATTTTGAAATATGATTGAAATTATGAATGTTTTTGTTAAACTAAGCCT
66 GAAGAGAAAGACAAAAGATTTTGAAATATGATTGAAATTATGAATGTTTTTGTTAAACTAAGCCT
* *
238467 TATTGGATAATATGTTTTGATATAACAAATTAAAGTGTTTTTGAATAAAAGTAAAGTTGAGTAAT
131 TATTGGATAATATGTTCTGATATAACAAATTAAAGTGTTTTTGAATAAAAGTAAAGTTGAGCAAT
*
238532 TTGATAAAATCAAGTTGAAATGTTTTCAATTGACTCAAACATTTTCAAAATGTTTTAACCATTTT
196 TTGATAAAATCAAGTTGAAATGTTTTCAATTGAATCAAACATTTTCAAAATGTTTTAACCATTTT
* *
238597 CTAACAAGTTAGAATTGCTCCAAGATAAAAAGTATCGATATTTTACAACATATTGATACCCCTTT
261 CAAACAAGTTAGAATTGCTCCAAGATAAAAAGTATCGATATTTTACAACATATCGATACCCCTTT
* *
238662 GTTAATCGATACCAAATTGACATTTTGCCATTTTCAAATTCAGGAAAG-TCGATACCTTTTGTAA
326 GTTAATCGATACCAAATTGACATTCTGCCATTTTCAAATTCAGCAAAGATCGATACCTTTTGTAA
* *
238726 GGTATCAATAAAATCCAATATGTATTGATATTCTTGCTCCAACGG
391 GGTATCAATAAAATACAATATGTATTGATATTCTTACTCCAACGG
238771 AACAAGTTTTTGATAAAGTTAAAATGTTTTCCAAATAATGAGGAATAACCAAGTTCTCTAGTTTT
1 AACAAGTTTTTGATAAAGTTAAAATGTTTTCCAAATAATGAGGAATAACCAAGTTCTCTAGTTTT
238836 GAAGAGAAAGACAAAAGATTTTGAAATATGATTGAAATTATGAATGTTTTTGTTAAACTAAGCCT
66 GAAGAGAAAGACAAAAGATTTTGAAATATGATTGAAATTATGAATGTTTTTGTTAAACTAAGCCT
238901 TATTGGATAATATGTTCTGATATAACAAATTAAAGTGTTTTTGAATAAAAGTAAAGTTGAGCAAT
131 TATTGGATAATATGTTCTGATATAACAAATTAAAGTGTTTTTGAATAAAAGTAAAGTTGAGCAAT
238966 TTGATAAAATCAAGTTGAAATGTTTTCAATTGAATCAAACATTTTCAAATATGTTTTAACCATTT
196 TTGATAAAATCAAGTTGAAATGTTTTCAATTGAATCAAACATTTTCAAA-ATGTTTTAACCATTT
* * *
239031 TCAAACAAGTTAGAATTGCTCCAGGATAAAAAGTATTGATA-TTTACAAGATATCGATACCCCTT
260 TCAAACAAGTTAGAATTGCTCCAAGATAAAAAGTATCGATATTTTACAACATATCGATACCCCTT
*
239095 TGTTAATTGATACCAAATTGACATTCTGCCATTTTCAAATTCAGCAAAGTATCGATACCTTTTGT
325 TGTTAATCGATACCAAATTGACATTCTGCCATTTTCAAATTCAGCAAAG-ATCGATACCTTTTGT
*
239160 AAGGTATCGATAAAATACAATATGTATTGATATTCTTACTCCAACGG
389 AAGGTATCAATAAAATACAATATGTATTGATATTCTTACTCCAACGG
239207 TCACTGAAAT
Statistics
Matches: 418, Mismatches: 15, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
434 307 0.73
435 53 0.13
436 58 0.14
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (435 bp):
AACAAGTTTTTGATAAAGTTAAAATGTTTTCCAAATAATGAGGAATAACCAAGTTCTCTAGTTTT
GAAGAGAAAGACAAAAGATTTTGAAATATGATTGAAATTATGAATGTTTTTGTTAAACTAAGCCT
TATTGGATAATATGTTCTGATATAACAAATTAAAGTGTTTTTGAATAAAAGTAAAGTTGAGCAAT
TTGATAAAATCAAGTTGAAATGTTTTCAATTGAATCAAACATTTTCAAAATGTTTTAACCATTTT
CAAACAAGTTAGAATTGCTCCAAGATAAAAAGTATCGATATTTTACAACATATCGATACCCCTTT
GTTAATCGATACCAAATTGACATTCTGCCATTTTCAAATTCAGCAAAGATCGATACCTTTTGTAA
GGTATCAATAAAATACAATATGTATTGATATTCTTACTCCAACGG
Found at i:245067 original size:88 final size:88
Alignment explanation
Indices: 244918--245092 Score: 350
Period size: 88 Copynumber: 2.0 Consensus size: 88
244908 GAATAGGCCA
244918 ATAAGAGATTTTGTTGTGCCTCTTCTCGATGATCTACAACCAGGGGTTGTGAGACTAGCAATTCA
1 ATAAGAGATTTTGTTGTGCCTCTTCTCGATGATCTACAACCAGGGGTTGTGAGACTAGCAATTCA
244983 GGCTGGTAACTTTGAATTGAAAC
66 GGCTGGTAACTTTGAATTGAAAC
245006 ATAAGAGATTTTGTTGTGCCTCTTCTCGATGATCTACAACCAGGGGTTGTGAGACTAGCAATTCA
1 ATAAGAGATTTTGTTGTGCCTCTTCTCGATGATCTACAACCAGGGGTTGTGAGACTAGCAATTCA
245071 GGCTGGTAACTTTGAATTGAAA
66 GGCTGGTAACTTTGAATTGAAA
245093 TCGATGATGT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (88 bp):
ATAAGAGATTTTGTTGTGCCTCTTCTCGATGATCTACAACCAGGGGTTGTGAGACTAGCAATTCA
GGCTGGTAACTTTGAATTGAAAC
Found at i:253299 original size:14 final size:14
Alignment explanation
Indices: 253263--253301 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
253253 TAAAAAAATG
253263 AGAAAAAGAAAGAGA
1 AGAAAAA-AAAGAGA
* *
253278 AGAGAAAAGAGAGA
1 AGAAAAAAAAGAGA
253292 AGAAAAAAAA
1 AGAAAAAAAA
253302 TTATGTTGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAGAGA
Found at i:256963 original size:21 final size:22
Alignment explanation
Indices: 256932--256973 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
256922 ATTCACATGT
256932 TTTCTTACTCATGATTCTTTTG
1 TTTCTTACTCATGATTCTTTTG
**
256954 TTTC-TACTCATTTTTCTTTT
1 TTTCTTACTCATGATTCTTTT
256974 CTTTTTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.12, C:0.19, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTCTTACTCATGATTCTTTTG
Found at i:261532 original size:16 final size:17
Alignment explanation
Indices: 261496--261547 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
261486 CATAAACCAA
*
261496 AAATAAATAAGAAACAAAT
1 AAATAAA-AATAAA-AAAT
* *
261515 AAA-AAATATGAAAAAT
1 AAATAAAAATAAAAAAT
261531 AAATAAAAATAAAAAAT
1 AAATAAAAATAAAAAAT
261548 CGTATCTATA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 7 0.26
17 14 0.52
18 3 0.11
19 3 0.11
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (17 bp):
AAATAAAAATAAAAAAT
Found at i:261539 original size:11 final size:11
Alignment explanation
Indices: 261494--261543 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
261484 GTCATAAACC
261494 AAAAATAAATA
1 AAAAATAAATA
* *
261505 AGAAACAAATA
1 AAAAATAAATA
*
261516 AAAAAT--ATG
1 AAAAATAAATA
261525 AAAAATAAAT-
1 AAAAATAAATA
261535 AAAAATAAA
1 AAAAATAAA
261544 AAATCGTATC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:266305 original size:33 final size:33
Alignment explanation
Indices: 266263--266331 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
266253 TTGTTCAATC
266263 TTGCTCGGATTTGCTTGGCGTTCGACCTCATTA
1 TTGCTCGGATTTGCTTGGCGTTCGACCTCATTA
266296 TTGCTCGGATTTGCTTGGCGTTCGACCTCATTA
1 TTGCTCGGATTTGCTTGGCGTTCGACCTCATTA
266329 TTG
1 TTG
266332 GGCCTTGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.12, C:0.23, G:0.25, T:0.41
Consensus pattern (33 bp):
TTGCTCGGATTTGCTTGGCGTTCGACCTCATTA
Found at i:267314 original size:16 final size:16
Alignment explanation
Indices: 267293--267323 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
267283 ACTCAAAGCG
267293 TCAGCAACAACATTCT
1 TCAGCAACAACATTCT
267309 TCAGCAACAACATTC
1 TCAGCAACAACATTC
267324 GCCTTACTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.32, G:0.06, T:0.23
Consensus pattern (16 bp):
TCAGCAACAACATTCT
Found at i:270392 original size:106 final size:107
Alignment explanation
Indices: 270233--270436 Score: 311
Period size: 106 Copynumber: 1.9 Consensus size: 107
270223 ACACTTATCG
* * * * *
270233 ATTTTAAATAGGATATTCAGTTACTTAGGTTCAAAGAAAAATCATACCCAGTACTTTAGGGCACA
1 ATTTTAAATAGGATATTCAATTA--TAGGTTAAAAGAAAAATCATACCAAGTACATTAGGACACA
* *
270298 ATTTCTTGAGTCCCCTAAAATAAAAGAGCATTGAACATTTGTCA
64 ATTTCTCGAGTCCCCTAAAATAAAAGAACATTGAACATTTGTCA
270342 ATTTTAAATAGGATATTCAATTA-AGGTTAAAAGAAAAATCATACCAAGTACATTAGGACACAAT
1 ATTTTAAATAGGATATTCAATTATAGGTTAAAAGAAAAATCATACCAAGTACATTAGGACACAAT
*
270406 TTCTCGAGTTCCCTAAAATAAAAGAACATTG
66 TTCTCGAGTCCCCTAAAATAAAAGAACATTG
270437 CCTCGATTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
106 65 0.75
109 22 0.25
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (107 bp):
ATTTTAAATAGGATATTCAATTATAGGTTAAAAGAAAAATCATACCAAGTACATTAGGACACAAT
TTCTCGAGTCCCCTAAAATAAAAGAACATTGAACATTTGTCA
Found at i:270760 original size:18 final size:19
Alignment explanation
Indices: 270721--270760 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
270711 AAATAAAGTG
**
270721 AAAAAGGATTAAATTTTCA
1 AAAAAGGATTAAATTTAAA
270740 AAAAAGGATTAAA-TTAAA
1 AAAAAGGATTAAATTTAAA
270758 AAA
1 AAA
270761 GATATAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.62, C:0.03, G:0.10, T:0.25
Consensus pattern (19 bp):
AAAAAGGATTAAATTTAAA
Found at i:272493 original size:17 final size:17
Alignment explanation
Indices: 272473--272516 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
272463 TTAATATTAC
272473 TTTTAAGATAAAAATAT
1 TTTTAAGATAAAAATAT
* *
272490 TTTTGAGATAAAAGTAT
1 TTTTAAGATAAAAATAT
*
272507 TGTTAA-ATAA
1 TTTTAAGATAA
272517 GATACTTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
TTTTAAGATAAAAATAT
Found at i:276944 original size:24 final size:24
Alignment explanation
Indices: 276917--276962 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
276907 TGGAGAGGCT
*
276917 GAGGGTGAGGGTGAAGATGAAGGA
1 GAGGATGAGGGTGAAGATGAAGGA
* *
276941 GAGGATGATGGTGATGATGAAG
1 GAGGATGAGGGTGAAGATGAAG
276963 AGGGTGAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.50, T:0.17
Consensus pattern (24 bp):
GAGGATGAGGGTGAAGATGAAGGA
Found at i:281995 original size:24 final size:26
Alignment explanation
Indices: 281957--282005 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
281947 GCAAAAATTT
*
281957 AATTATTTTTTTAAA-ATTAATTTAA
1 AATTATTTTTTTAAATATAAATTTAA
281982 AATTA-TTTTTTAAATATAAATTTA
1 AATTATTTTTTTAAATATAAATTTA
282006 TTAAAATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AATTATTTTTTTAAATATAAATTTAA
Found at i:288383 original size:55 final size:55
Alignment explanation
Indices: 288312--288445 Score: 196
Period size: 55 Copynumber: 2.4 Consensus size: 55
288302 TGGCCATGAC
* * * * *
288312 AAGACCATATCATGTAAGACCTAGTCTGGGACTATGGCATCATATGGGGTTTGTG
1 AAGACCATATCGTGTAAGACCTAGTCTGGGACTATGACATCATATCGAGTATGTG
288367 AAGACCATATCGTGTAAGACCTAGTCTGGGACTATGACATCATATCGAGTATGTG
1 AAGACCATATCGTGTAAGACCTAGTCTGGGACTATGACATCATATCGAGTATGTG
* * *
288422 AAGTCCATATAGTGTAAGGCCTAG
1 AAGACCATATCGTGTAAGACCTAG
288446 CCGTATTGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 71 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (55 bp):
AAGACCATATCGTGTAAGACCTAGTCTGGGACTATGACATCATATCGAGTATGTG
Found at i:289395 original size:52 final size:52
Alignment explanation
Indices: 289334--289438 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
289324 ACCTTTGTAC
*
289334 ATAGTCAAAATTTACCATATCACTGAAATAATTTAATTTAATGGATGCATAT
1 ATAGTCAAAACTTACCATATCACTGAAATAATTTAATTTAATGGATGCATAT
289386 ATAGTCAAAACTTACCATATCACTGAAATAATTTAATTTAATGGATGCATAT
1 ATAGTCAAAACTTACCATATCACTGAAATAATTTAATTTAATGGATGCATAT
289438 A
1 A
289439 CTACATTTAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (52 bp):
ATAGTCAAAACTTACCATATCACTGAAATAATTTAATTTAATGGATGCATAT
Found at i:290995 original size:36 final size:36
Alignment explanation
Indices: 290970--291040 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
290960 TGGATATATT
*
290970 AATGATGTTTTTTGCCCAACGCTAGTCAGATAAACC
1 AATGATGTTTTGTGCCCAACGCTAGTCAGATAAACC
* *
291006 AATGATGTTTTGTGCCCAGCGCTAGTCAAATAAAC
1 AATGATGTTTTGTGCCCAACGCTAGTCAGATAAAC
291041 TGATGAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (36 bp):
AATGATGTTTTGTGCCCAACGCTAGTCAGATAAACC
Found at i:290995 original size:77 final size:76
Alignment explanation
Indices: 290837--291004 Score: 210
Period size: 77 Copynumber: 2.2 Consensus size: 76
290827 TGTGCCCAGT
* * *
290837 GCTAGTCGGATAAACTGATGATTTCAATTGTGAGCCCAACTCTAGTTGGATATACCAACAATATT
1 GCTAGTCGGATAAACTGAGGATATCAAATGTGAGCCCAACTCTAGTTGGATATACCAACAATATT
290902 TTGCGCCCAAC
66 TTGCGCCCAAC
* * ** ** *
290913 ACTAGTCGGATAAACTGACGGATATCAAATGTGAGCCCAGCTCTAGTTGGATATATTAATGATGT
1 GCTAGTCGGATAAACTGA-GGATATCAAATGTGAGCCCAACTCTAGTTGGATATACCAACAATAT
**
290978 TTTTTGCCCAAC
65 TTTGCGCCCAAC
*
290990 GCTAGTCAGATAAAC
1 GCTAGTCGGATAAAC
291005 CAATGATGTT
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
76 17 0.22
77 60 0.78
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (76 bp):
GCTAGTCGGATAAACTGAGGATATCAAATGTGAGCCCAACTCTAGTTGGATATACCAACAATATT
TTGCGCCCAAC
Found at i:291007 original size:113 final size:111
Alignment explanation
Indices: 290870--291127 Score: 282
Period size: 113 Copynumber: 2.3 Consensus size: 111
290860 TCAATTGTGA
* * * ** *
290870 GCCCAACTCTAGTTGGATATACCAACAATATTTTGCGCCCAACACTAGTCGGATAAACTGACGGA
1 GCCCAACGCTAGTCGGATAAACCAACAATATTTTGCGCCCAACACTAGTCAAATAAACTGACGAA
* * **
290935 TATCAAATGTGAGCCCAGCTCTAGTTGGATATATTAATGATGTTTTTT
66 TATAAAATGTGAGCCCAGCTCTAGTTGGATAAACCAATGATG--TTTT
* ** * * * * *
290983 GCCCAACGCTAGTCAGATAAACCAATGATGTTTTGTGCCCAGCGCTAGTCAAATAAACTGATGAA
1 GCCCAACGCTAGTCGGATAAACCAACAATATTTTGCGCCCAACACTAGTCAAATAAACTGACGAA
*
291048 TATAAAATGTGAGCCCAGTTCTAGTTGGATAAACCAATGATGTTTT
66 TATAAAATGTGAGCCCAGCTCTAGTTGGATAAACCAATGATGTTTT
* *
291094 GCACCTAGCGCTAGTCGGATAAACCGACGAATAT
1 GC-CC-AACGCTAGTCGGATAAACCAAC-AATAT
291128 CAAATGTGAG
Statistics
Matches: 117, Mismatches: 25, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
111 6 0.05
112 2 0.02
113 106 0.91
114 3 0.03
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (111 bp):
GCCCAACGCTAGTCGGATAAACCAACAATATTTTGCGCCCAACACTAGTCAAATAAACTGACGAA
TATAAAATGTGAGCCCAGCTCTAGTTGGATAAACCAATGATGTTTT
Found at i:291142 original size:77 final size:77
Alignment explanation
Indices: 290998--291154 Score: 233
Period size: 77 Copynumber: 2.0 Consensus size: 77
290988 ACGCTAGTCA
** * *
290998 GATAAACCAATGATGTTTTGTGCCCAGCGCTAGTCAAATAAACTGATGAATATAAAATGTGAGCC
1 GATAAACCAATGATGTTTTGCACCCAGCGCTAGTCAAATAAACCGACGAATATAAAATGTGAGCC
*
291063 CAGTTCTAGTTG
66 CAGCTCTAGTTG
* ** *
291075 GATAAACCAATGATGTTTTGCACCTAGCGCTAGTCGGATAAACCGACGAATATCAAATGTGAGCC
1 GATAAACCAATGATGTTTTGCACCCAGCGCTAGTCAAATAAACCGACGAATATAAAATGTGAGCC
291140 CAGCTCTAGTTG
66 CAGCTCTAGTTG
291152 GAT
1 GAT
291155 GAATCAACGA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (77 bp):
GATAAACCAATGATGTTTTGCACCCAGCGCTAGTCAAATAAACCGACGAATATAAAATGTGAGCC
CAGCTCTAGTTG
Found at i:294478 original size:17 final size:17
Alignment explanation
Indices: 294442--294480 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
294432 AAATGCGTTA
* *
294442 ACAAATAAAATGTAGGG
1 ACAATTAAAATGTAAGG
*
294459 ACAATTAAAATGTAATG
1 ACAATTAAAATGTAAGG
294476 ACAAT
1 ACAAT
294481 GCAATTATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (17 bp):
ACAATTAAAATGTAAGG
Found at i:301056 original size:18 final size:18
Alignment explanation
Indices: 301008--301058 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
300998 TGTAGTCTGC
*
301008 TGTGGCTGCATTCGAGCA
1 TGTGGCTGCATTTGAGCA
*
301026 TGTGGTTGCATTTGAGCA
1 TGTGGCTGCATTTGAGCA
*
301044 TGTGACTGCATTTGA
1 TGTGGCTGCATTTGA
301059 CCATAATGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.18, C:0.16, G:0.31, T:0.35
Consensus pattern (18 bp):
TGTGGCTGCATTTGAGCA
Found at i:305582 original size:43 final size:43
Alignment explanation
Indices: 305521--305716 Score: 227
Period size: 43 Copynumber: 4.6 Consensus size: 43
305511 GAAACACTTG
* *
305521 ATGTATAAATA-GAAGACTCATGTCTCGAAATGTGCATGAGATT
1 ATGTATAAA-AGGAAGACTCATGTCTCGAGATGAGCATGAGATT
* * *
305564 ATGTATAAATGGAAGACTCGTGACTCGAGATGAGCATGAGATT
1 ATGTATAAAAGGAAGACTCATGTCTCGAGATGAGCATGAGATT
* * *
305607 ATGTATAAAGGGAAGATTCATGTCTCGAGATAAGCATGAGATT
1 ATGTATAAAAGGAAGACTCATGTCTCGAGATGAGCATGAGATT
** * *
305650 ACATATAAAAGAAAGACTCATGTCTCCG-GGTGAGCATGAGATT
1 ATGTATAAAAGGAAGACTCATGTCT-CGAGATGAGCATGAGATT
*
305693 ATG-ATTAAAAGGAAGACTTATGTC
1 ATGTA-TAAAAGGAAGACTCATGTC
305717 GTATAAGATT
Statistics
Matches: 129, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.01
43 126 0.98
44 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (43 bp):
ATGTATAAAAGGAAGACTCATGTCTCGAGATGAGCATGAGATT
Done.