Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002410.1 Hibiscus syriacus cultivar Beakdansim tig00004929_pilon, 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: 198433
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:8608 original size:13 final size:12
Alignment explanation
Indices: 8585--8640 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 12
8575 TAGTATTATA
8585 AAAATTAAAATAT
1 AAAATT-AAATAT
*
8598 AAAACTTAAATTT
1 AAAA-TTAAATAT
*
8611 CAAATTTAAATAT
1 -AAAATTAAATAT
8624 AAAA-TAAATATT
1 AAAATTAAATA-T
8636 AAAAT
1 AAAAT
8641 CGATCTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
11 6 0.17
12 8 0.23
13 16 0.46
14 5 0.14
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:10724 original size:2 final size:2
Alignment explanation
Indices: 10712--10754 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
10702 CTTTTCGTCC
* * *
10712 AT AT TT AT AT AT AT AT TT AT AT TT 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
10754 A
1 A
10755 GTTGTAAACG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:10820 original size:37 final size:36
Alignment explanation
Indices: 10738--11224 Score: 460
Period size: 37 Copynumber: 13.4 Consensus size: 36
10728 TTATATTTAT
*
10738 ATATATATATATATATAG-TTGT-AAACGATTTTTGAAA
1 ATATATATA-ATATATAGTTTTTAAAAC-A-TTTTGAAA
*
10775 ATACATATATAATATGTAGTTTTTAAAATCATTTTGAAA
1 AT--ATATATAATATATAGTTTTTAAAA-CATTTTGAAA
10814 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
*
10850 ACTATATAT--TATATAGTTTTTAAAATATTTTGAAA
1 A-TATATATAATATATAGTTTTTAAAACATTTTGAAA
10885 ACTATATAT--TATATAGTTTTTAAAACATTTTAGAAA
1 A-TATATATAATATATAGTTTTTAAAACATTTT-GAAA
10921 ATATATATAATATATAGTTTTTAAAATCATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAA-CATTTTGAAA
*
10958 ACT-TATATAATATATAGTTTTGAAAACATTTTTGAAA
1 A-TATATATAATATATAGTTTTTAAAACA-TTTTGAAA
* *
10995 ATTTATATAATATATAGTTTTGAAAACA--TT----
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
11025 -TATATAT--TATATAGTTTTTAAAAACATTTTGAAA
1 ATATATATAATATATAGTTTTT-AAAACATTTTGAAA
*
11059 ATATATATAATATATAGTTTTTTTTAAAAACTTTTTTGAAA
1 ATATATATAATATATAG---TTTTT-AAAAC-ATTTTGAAA
*
11100 ATATATAT--TATATAG-TTTTAAAACGTTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAAC-ATTTTGAAA
* *
11134 ATACGA-ATAATATATAGTTTTTAAAAAACATTTTGGAA
1 ATA-TATATAATATATAGTTTTT--AAAACATTTTGAAA
* * *
11172 ATTTATATATTATAT-GTTTTTGAAAATATTTAT-ATATA
1 ATATATATAATATATAGTTTTT-AAAACATTT-TGA-A-A
11210 TATATATATAATATA
1 -ATATATATAATATA
11225 GTATTATTAT
Statistics
Matches: 391, Mismatches: 21, Indels: 74
0.80 0.04 0.15
Matches are distributed among these distances:
27 11 0.03
28 6 0.02
29 6 0.02
30 2 0.01
34 21 0.05
35 74 0.19
36 34 0.09
37 129 0.33
38 32 0.08
39 44 0.11
40 15 0.04
41 17 0.04
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTTAAAACATTTTGAAA
Found at i:11035 original size:27 final size:28
Alignment explanation
Indices: 10986--11053 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
10976 TTTGAAAACA
10986 TTTTTG-AAA-ATTTATATAATATATAG
1 TTTTTGAAAACATTTATATAATATATAG
*
11012 -TTTTGAAAACATTTATATATTATATAG
1 TTTTTGAAAACATTTATATAATATATAG
*
11039 TTTTTAAAAACATTT
1 TTTTTGAAAACATTT
11054 TGAAAATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 5 0.14
26 3 0.08
27 16 0.43
28 13 0.35
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (28 bp):
TTTTTGAAAACATTTATATAATATATAG
Found at i:11039 original size:64 final size:62
Alignment explanation
Indices: 10950--11079 Score: 199
Period size: 64 Copynumber: 2.1 Consensus size: 62
10940 TTTAAAATCA
* *
10950 TTTTGAAAACTTATATAATATATAG-TTTTGAAAACATTTTTGAAAATTTATATAATATATAG
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAAACA-TTTTGAAAATATATATAATATATAG
*
11012 TTTTGAAAACATTTATATATTATATAGTTTTTAAAAACATTTTGAAAATATATATAATATATAG
1 TTTTGAAAAC--TTATATAATATATAGTTTTTAAAAACATTTTGAAAATATATATAATATATAG
11076 TTTT
1 TTTT
11080 TTTTAAAAAC
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
62 10 0.16
64 42 0.68
65 10 0.16
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (62 bp):
TTTTGAAAACTTATATAATATATAGTTTTTAAAAACATTTTGAAAATATATATAATATATAG
Found at i:11053 original size:101 final size:99
Alignment explanation
Indices: 10924--11123 Score: 278
Period size: 101 Copynumber: 2.0 Consensus size: 99
10914 TTAGAAAATA
* *
10924 TATATAATATATAGTTTTTAAAATCATTTTGAAAACT-TATATAATATATAG-TTTTGAAAACAT
1 TATATAATATATAGTTTTTAAAAACATTTTGAAAA-TATATATAATATATAGTTTTTAAAAACAT
10987 TTTTGAAAATTTATATAATATATAGTTTTGAAAACATT
65 TTTTGAAAA--TATATAATATATAGTTTT-AAAACATT
*
11025 TATATATTATATAGTTTTTAAAAACATTTTGAAAATATATATAATATATAGTTTTTTTTAAAAAC
1 TATATAATATATAGTTTTTAAAAACATTTTGAAAATATATATAATATATAG---TTTTTAAAAAC
* *
11090 TTTTTTGAAAATATATATTATATAGTTTTAAAAC
63 ATTTTTGAAAATATATAATATATAGTTTTAAAAC
11124 GTTTTTGAAA
Statistics
Matches: 89, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
100 1 0.01
101 47 0.53
102 5 0.06
103 17 0.19
105 19 0.21
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (99 bp):
TATATAATATATAGTTTTTAAAAACATTTTGAAAATATATATAATATATAGTTTTTAAAAACATT
TTTGAAAATATATAATATATAGTTTTAAAACATT
Found at i:11063 original size:28 final size:27
Alignment explanation
Indices: 10995--11065 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
10985 ATTTTTGAAA
* *
10995 ATTTATATAATATATAGTTTTGAAAAC
1 ATTTATAAAATATATAGTTTTAAAAAC
* *
11022 ATTTATATATTATATAGTTTTTAAAAAC
1 ATTTATAAAATATATAG-TTTTAAAAAC
11050 ATTT-TGAAAATATATA
1 ATTTAT-AAAATATATA
11066 TAATATATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 17 0.45
28 21 0.55
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (27 bp):
ATTTATAAAATATATAGTTTTAAAAAC
Found at i:12537 original size:22 final size:21
Alignment explanation
Indices: 12480--12543 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
12470 ATTATTATTA
* *
12480 TATTATTGTTTTTCTTATTTTT
1 TATTATT-TTTTTATTATTTGT
* *
12502 TTTTCTTTTCTTTATTATTCTGT
1 TATTATTTT-TTTATTATT-TGT
*
12525 TATTATTTTTTTAATATTT
1 TATTATTTTTTTATTATTT
12544 TTCTTTGATT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
21 3 0.09
22 21 0.64
23 9 0.27
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (21 bp):
TATTATTTTTTTATTATTTGT
Found at i:12568 original size:2 final size:2
Alignment explanation
Indices: 12561--12590 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12551 ATTTACATTC
12561 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
12591 GTGTATGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12634 original size:6 final size:7
Alignment explanation
Indices: 12616--12654 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
12606 TTAGTTTATT
12616 ATTTTTG
1 ATTTTTG
12623 ATTTTTG
1 ATTTTTG
12630 ATTTTTG
1 ATTTTTG
*
12637 ATTTTAG
1 ATTTTTG
*
12644 -TTTTTT
1 ATTTTTG
12650 ATTTT
1 ATTTT
12655 ATTATTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.74
Consensus pattern (7 bp):
ATTTTTG
Found at i:12661 original size:21 final size:21
Alignment explanation
Indices: 12604--12675 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
12594 TATGTATCTA
* *
12604 TTTTAGTTTATTATTTTTGATT
1 TTTTATTTTATTATTTTAG-TT
* *
12626 TTTGATTTT-TGATTTTAGTT
1 TTTTATTTTATTATTTTAGTT
12646 TTTTATTTTATTATTTTA-TT
1 TTTTATTTTATTATTTTAGTT
12666 ATTTTATTTT
1 -TTTTATTTT
12676 GTATATATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
20 12 0.29
21 23 0.55
22 7 0.17
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (21 bp):
TTTTATTTTATTATTTTAGTT
Found at i:12662 original size:13 final size:13
Alignment explanation
Indices: 12602--12675 Score: 55
Period size: 13 Copynumber: 5.5 Consensus size: 13
12592 TGTATGTATC
*
12602 TATTTTAGTTTAT
1 TATTTTATTTTAT
12615 TATTTTTGATTTTTGAT
1 TA-TTTT-A-TTTT-AT
*
12632 T-TTTGATTTTAGT
1 TATTTTATTTTA-T
12645 T-TTTTATTTTAT
1 TATTTTATTTTAT
12657 TATTTTATTATT-T
1 TATTTTATT-TTAT
12670 TATTTT
1 TATTTT
12676 GTATATATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
12 3 0.06
13 31 0.61
14 7 0.14
15 4 0.08
16 3 0.06
17 3 0.06
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (13 bp):
TATTTTATTTTAT
Found at i:12671 original size:8 final size:8
Alignment explanation
Indices: 12644--12691 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
12634 TTGATTTTAG
12644 TTTT-TTA
1 TTTTATTA
12651 TTTTATTA
1 TTTTATTA
12659 TTTTATTA
1 TTTTATTA
12667 TTTTATT-
1 TTTTATTA
*
12674 TTGTATATA
1 TTTTAT-TA
12683 TATTTATTA
1 T-TTTATTA
12692 CATTTTTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
7 9 0.26
8 19 0.54
9 3 0.09
10 4 0.11
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (8 bp):
TTTTATTA
Found at i:12675 original size:34 final size:34
Alignment explanation
Indices: 12602--12675 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
12592 TGTATGTATC
12602 TATTTTAGTTTATTATTTTTGATTTTTGATTTTT
1 TATTTTAGTTTATTATTTTTGATTTTTGATTTTT
* * *
12636 GATTTTAGTTTTTTA-TTTT-ATTATTTTATTATTT
1 TATTTTAGTTTATTATTTTTGATT-TTTGATT-TTT
12670 TATTTT
1 TATTTT
12676 GTATATATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
32 3 0.09
33 10 0.29
34 21 0.62
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (34 bp):
TATTTTAGTTTATTATTTTTGATTTTTGATTTTT
Found at i:12725 original size:2 final size:2
Alignment explanation
Indices: 12718--12752 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
12708 TTTTGTTTTC
12718 AT AT AT AT AT 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 AT AT AT AT AT A
12753 CTACTTACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16884 original size:2 final size:2
Alignment explanation
Indices: 16877--16902 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16867 ACATTATAAT
16877 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
16903 CAATAAAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17077 original size:95 final size:93
Alignment explanation
Indices: 16895--17146 Score: 357
Period size: 95 Copynumber: 2.7 Consensus size: 93
16885 TATATATATA
* *
16895 TATATATACAATAAAGCTTGAGATGTCCCTCTAAAGCAATTGGTTAAACGCCCGGCTTTATGGAT
1 TATATATACAATAAAGCTTGAGATGTCCCTCTAGAGCAATTGGTTAAACCCCCGGCTTTATGGAT
16960 AAGATTCAGCTAGCCTGATAAAGGTGAT
66 AAGATTCAGCTAGCCTGATAAAGGTGAT
* * *
16988 TATAGTATACAATAAAGCTTAAGTTGTCCCTCTAGAGAAATTGGTTAAACACCCCGGCTTTATGG
1 TATA-TATACAATAAAGCTTGAGATGTCCCTCTAGAGCAATTGGTTAAAC-CCCCGGCTTTATGG
*
17053 ATAATATTCAGCTAGCCTGATAAAGGTGAT
64 ATAAGATTCAGCTAGCCTGATAAAGGTGAT
* * * *
17083 TATA-ATACAACGATA--TTGAGATGCCCCTCTAGAGCAATTGGTTAAATGCCCCGGCTTTATGG
1 TATATATACAA-TAAAGCTTGAGATGTCCCTCTAGAGCAATTGGTTAAA-CCCCCGGCTTTATGG
17145 AT
64 AT
17147 CCAGCTAGCC
Statistics
Matches: 142, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
92 43 0.30
93 10 0.07
94 43 0.30
95 46 0.32
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (93 bp):
TATATATACAATAAAGCTTGAGATGTCCCTCTAGAGCAATTGGTTAAACCCCCGGCTTTATGGAT
AAGATTCAGCTAGCCTGATAAAGGTGAT
Found at i:18255 original size:20 final size:20
Alignment explanation
Indices: 18230--18267 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
18220 CACATGTTAA
18230 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
18250 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
18268 TTAAGGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:18581 original size:18 final size:16
Alignment explanation
Indices: 18560--18599 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
18550 TGATTATACG
18560 TATATGAATGACATGAAT
1 TATATGAATG-CATG-AT
*
18578 TATATGTATGCATGAT
1 TATATGAATGCATGAT
18594 TATATG
1 TATATG
18600 TGTTAACATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
18 9 0.43
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (16 bp):
TATATGAATGCATGAT
Found at i:18597 original size:16 final size:18
Alignment explanation
Indices: 18560--18600 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
18550 TGATTATACG
*
18560 TATATGAATGACATGAAT
1 TATATGTATGACATGAAT
18578 TATATGTATG-CATG-AT
1 TATATGTATGACATGAAT
18594 TATATGT
1 TATATGT
18601 GTTAACATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 4 0.18
18 9 0.41
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (18 bp):
TATATGTATGACATGAAT
Found at i:19652 original size:18 final size:19
Alignment explanation
Indices: 19630--19685 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
19620 TCGAGGGAAA
*
19630 CAGTGGTCCTTCGGGACAT
1 CAGTGGTTCTTCGGGACAT
* *
19649 -AGTGGTTCTTCGGAATAAT
1 CAGTGGTTCTTCGGGA-CAT
19668 CAGTGGTTCTTCGGGACA
1 CAGTGGTTCTTCGGGACA
19686 AATATTCAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 13 0.43
19 3 0.10
20 14 0.47
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (19 bp):
CAGTGGTTCTTCGGGACAT
Found at i:21001 original size:21 final size:22
Alignment explanation
Indices: 20977--21017 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
20967 CATATTGAAG
20977 AATTCAAGA-TCAAGAATCAGA
1 AATTCAAGATTCAAGAATCAGA
*
20998 AATTCAAGATTCTAGAATCA
1 AATTCAAGATTCAAGAATCA
21018 AGAAGACTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (22 bp):
AATTCAAGATTCAAGAATCAGA
Found at i:21322 original size:21 final size:22
Alignment explanation
Indices: 21298--21338 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
21288 CATATTGAAG
21298 AATTCAAGA-TCAAGAATCAGA
1 AATTCAAGATTCAAGAATCAGA
*
21319 AATTCAAGATTCCAGAATCA
1 AATTCAAGATTCAAGAATCA
21339 AGAAGACTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (22 bp):
AATTCAAGATTCAAGAATCAGA
Found at i:21390 original size:321 final size:322
Alignment explanation
Indices: 20807--21694 Score: 1539
Period size: 321 Copynumber: 2.8 Consensus size: 322
20797 TTCAAAATTT
* * *
20807 GGGGCAAAATTTGATAGGGGAAGGAAAACAATTATCTTAGGTTGAGGTTTGTAAGAGTACACCTT
1 GGGGCAAAATTTGATAGGGGAAGGAAAAAAATTATCTTAGGTTGAGGTTTGCAAGAGTACACCCT
**
20872 GGTGGAAATGAAGACAAACTGAGTCAATGATAGATTGAAGACTGCTCACGTAATTATTCCCTTCA
66 GGTGGAAATGAAGACAAACTGAGTCAGGGATAGATTGAAGACTGCTCACGTAATTATTCCCTTCA
* * *
20937 TAGATCAACGTTATGCACATCGGATTTAAGCATATTGAAGAATTCAAGATCAAGAATCAGAAATT
131 TAGATCAACGTTTTGTACATCAGATTTAAGCATATTGAAGAATTCAAGATCAAGAATCAGAAATT
* *
21002 CAAGATTCTAGAATCAAGAAGACTGACAATCAGAGATTGTGATGTTCTCTGGAAGCATATCTTGA
196 CAAGATTCCAGAATCAAGAAGACTGACAATCAGAGATTGAGATGTTCTCTGGAAGCATATCTTGA
* * * * *
21067 AATTCAACAAATATCTCTCTGAAGCTCAAGATCGAAGCTGAGGCAAAGGAAGCCATTTTT-T
261 AATTCAACAAATATCTCTCCGAAACTCAAGATCGAAGCTAAAGCAAAGGAAGCCATTTTTGG
* *
21128 TGGGCAAAATTTGATAGGGGAAGGAAAAAAATTGTCTTAGGTTGAGGTTTGCAAGAGTACACCCT
1 GGGGCAAAATTTGATAGGGGAAGGAAAAAAATTATCTTAGGTTGAGGTTTGCAAGAGTACACCCT
*
21193 GGTGGAAATGAAGACAAACTGAGTCAGGGATAGATTGAAGACTGTTCAC-TCAATTATTCCCTTC
66 GGTGGAAATGAAGACAAACTGAGTCAGGGATAGATTGAAGACTGCTCACGT-AATTATTCCCTTC
* *
21257 ATAGATCAATGTTTTGTACATCATATTTAAGCATATTGAAGAATTCAAGATCAAGAATCAGAAAT
130 ATAGATCAACGTTTTGTACATCAGATTTAAGCATATTGAAGAATTCAAGATCAAGAATCAGAAAT
*
21322 TCAAGATTCCAGAATCAAGAAGACTGACAATCAGAAATTGAGATGTTCTCTGGAAGCATATCTTG
195 TCAAGATTCCAGAATCAAGAAGACTGACAATCAGAGATTGAGATGTTCTCTGGAAGCATATCTTG
21387 AAATTCAACAAATATCTCTCCGAAACTCAAGATCGAAGCTAAAGCAAAGGAAGCCATTTTTGG
260 AAATTCAACAAATATCTCTCCGAAACTCAAGATCGAAGCTAAAGCAAAGGAAGCCATTTTTGG
21450 GGGGCAAAATTTGATAGGGGAAGGAAAATAAATTATCTTAGGTTGAGGTTTGCAAGAGTACACCC
1 GGGGCAAAATTTGATAGGGGAAGGAAAA-AAATTATCTTAGGTTGAGGTTTGCAAGAGTACACCC
*
21515 TGATGGAAATGAAGACAAACTGAGTCAGGGATAGATTGAAGACTGCTCACGTAATTATTCCCTTC
65 TGGTGGAAATGAAGACAAACTGAGTCAGGGATAGATTGAAGACTGCTCACGTAATTATTCCCTTC
21580 ATAGATCAACGTTTTGTACATCAGATTTAAGCATATTGAAGAATTCAAGATCAAGAATCAGAAAT
130 ATAGATCAACGTTTTGTACATCAGATTTAAGCATATTGAAGAATTCAAGATCAAGAATCAGAAAT
21645 TCAAGATTCCAGAATCAAGAAGACTGACAATCAGAGATTGAGAT-TTCTCT
195 TCAAGATTCCAGAATCAAGAAGACTGACAATCAGAGATTGAGATGTTCTCT
21695 ACAAATCCTA
Statistics
Matches: 535, Mismatches: 28, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
320 1 0.00
321 298 0.56
322 33 0.06
323 202 0.38
324 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (322 bp):
GGGGCAAAATTTGATAGGGGAAGGAAAAAAATTATCTTAGGTTGAGGTTTGCAAGAGTACACCCT
GGTGGAAATGAAGACAAACTGAGTCAGGGATAGATTGAAGACTGCTCACGTAATTATTCCCTTCA
TAGATCAACGTTTTGTACATCAGATTTAAGCATATTGAAGAATTCAAGATCAAGAATCAGAAATT
CAAGATTCCAGAATCAAGAAGACTGACAATCAGAGATTGAGATGTTCTCTGGAAGCATATCTTGA
AATTCAACAAATATCTCTCCGAAACTCAAGATCGAAGCTAAAGCAAAGGAAGCCATTTTTGG
Found at i:21645 original size:21 final size:22
Alignment explanation
Indices: 21621--21661 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
21611 CATATTGAAG
21621 AATTCAAGA-TCAAGAATCAGA
1 AATTCAAGATTCAAGAATCAGA
*
21642 AATTCAAGATTCCAGAATCA
1 AATTCAAGATTCAAGAATCA
21662 AGAAGACTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (22 bp):
AATTCAAGATTCAAGAATCAGA
Found at i:22136 original size:37 final size:35
Alignment explanation
Indices: 22095--22224 Score: 152
Period size: 36 Copynumber: 3.6 Consensus size: 35
22085 ACAAGGGGTC
* * * *
22095 GTCTCACTTGAGACTAATTTACTCAAAACAAAGTTTT
1 GTCTCTCTTGAGAC-AGTTTCCTCGAAACAAA-TTTT
* * *
22132 GTCTCCCTCGAGACAGTTTCCCCTGAAACAAATTTT
1 GTCTCTCTTGAGACAGTTTCCTC-GAAACAAATTTT
*
22168 GTCTCTCTTGAGACAGTTTCCTTTGAAACAAATTTT
1 GTCTCTCTTGAGACAGTTTCC-TCGAAACAAATTTT
22204 GTCTCTCTTGAGACAGTTTCC
1 GTCTCTCTTGAGACAGTTTCC
22225 CTTGAAATAA
Statistics
Matches: 81, Mismatches: 10, Indels: 5
0.84 0.10 0.05
Matches are distributed among these distances:
36 62 0.77
37 19 0.23
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (35 bp):
GTCTCTCTTGAGACAGTTTCCTCGAAACAAATTTT
Found at i:22181 original size:36 final size:36
Alignment explanation
Indices: 22120--22231 Score: 179
Period size: 36 Copynumber: 3.1 Consensus size: 36
22110 AATTTACTCA
* * *
22120 AAACAAAGTTTTGTCTCCCTCGAGACAGTTTCCCCTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTG
*
22157 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCTTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
22193 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
22229 AAA
1 AAA
22232 TAAAATCTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 63 0.90
37 7 0.10
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
Found at i:22214 original size:21 final size:21
Alignment explanation
Indices: 22155--22214 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
22145 CAGTTTCCCC
22155 TGAAACAAATTTTGTCTCTCT
1 TGAAACAAATTTTGTCTCTCT
* *
22176 TGAGAC--A-GTT-TC-CT-T
1 TGAAACAAATTTTGTCTCTCT
22191 TGAAACAAATTTTGTCTCTCT
1 TGAAACAAATTTTGTCTCTCT
22212 TGA
1 TGA
22215 GACAGTTTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
15 6 0.21
16 2 0.07
17 3 0.10
18 4 0.14
19 3 0.10
20 2 0.07
21 9 0.31
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (21 bp):
TGAAACAAATTTTGTCTCTCT
Found at i:22301 original size:36 final size:36
Alignment explanation
Indices: 22253--22690 Score: 559
Period size: 36 Copynumber: 12.3 Consensus size: 36
22243 AATCTGCTTT
* *
22253 CCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
*
22289 TCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
22325 CCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTC
1 CCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTC
* *
22362 TCTTGAAACAAAATTTGTCTCTCTTGAGACAGTTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
* * *
22398 CTTTGAAATAAATTTTGTCTCTCTAGAGACAGTTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
* *
22434 TCTTGAAAAAAATTTTGTCTCTCTTGAGACAGTTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
22470 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
* * *
22506 CCTTGAAACAAA------ATCT-TTGA-ATCTGTTTT
1 CCTTGAAACAAATTTTGTCTCTCTTGAGA-CAGTTTC
* * * *
22535 CGTTAAAACTAATTTTGTCTCCCTTGAGACAGTTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
** * *
22571 TTTTGGAACTAACTTTTGTCTCTCTTGAGACAGTTTC
1 CCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTC
**
22608 TTTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
*
22644 CCTTGAAACAAAGTTTTGTCTCTCTTTAGACAGTTTC
1 CCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTC
*
22681 TCTTGAAACA
1 CCTTGAAACA
22691 CCAATATTTG
Statistics
Matches: 350, Mismatches: 40, Indels: 23
0.85 0.10 0.06
Matches are distributed among these distances:
28 1 0.00
29 18 0.05
30 3 0.01
35 2 0.01
36 226 0.65
37 100 0.29
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
Found at i:22371 original size:73 final size:72
Alignment explanation
Indices: 22253--22690 Score: 577
Period size: 73 Copynumber: 6.1 Consensus size: 72
22243 AATCTGCTTT
* *
22253 CCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA
22318 CAGTTTC
66 CAGTTTC
*
22325 CCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATTTGTCTCTCTTGAG
1 CCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAG
22390 ACAGTTTC
65 ACAGTTTC
* * * *
22398 CTTTGAAATAAATTTTGTCTCTCTAGAGACAGTTTCTCTTGAAAAAAATTTTGTCTCTCTTGAGA
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA
22463 CAGTTTC
66 CAGTTTC
* *
22470 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA------ATCT-TTGA-A
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA
* *
22527 TCTGTTTT
66 -CAGTTTC
* * * * * * *
22535 CGTTAAAACTAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAACTTTTGTCTCTCTTGAG
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAG
22600 ACAGTTTC
65 ACAGTTTC
** * *
22608 TTTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTTAG
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA-TTTTGTCTCTCTTGAG
22673 ACAGTTTC
65 ACAGTTTC
*
22681 TCTTGAAACA
1 CCTTGAAACA
22691 CCAATATTTG
Statistics
Matches: 316, Mismatches: 38, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
64 1 0.00
65 47 0.15
66 5 0.02
72 117 0.37
73 145 0.46
74 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (72 bp):
CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA
CAGTTTC
Found at i:22626 original size:282 final size:283
Alignment explanation
Indices: 22128--22688 Score: 894
Period size: 282 Copynumber: 2.0 Consensus size: 283
22118 CAAAACAAAG
* * *
22128 TTTTGTCTCCCTCGAGACAGTTTCCCCTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCTTTG
1 TTTTGTCTCCCTAGAGACAGTTTCCCCTGAAAAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* *
22193 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAAATCTTTAAATCTGCTTTCCTTG
66 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTAAATCTGCTTTCCTTA
22258 AAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
131 AAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
*
22323 TCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA-ATTTGTCTCTCTT
196 TCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGATTTGTCTCTCTT
22387 GAGACAGTTTC-CTTTGAAATAAA
261 GAGACAGTTTCTC-TTGAAATAAA
* * *
22410 TTTTGTCTCTCTAGAGACAGTTTCTCTTGAAAAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 TTTTGTCTCCCTAGAGACAGTTTCCCCTGAAAAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * *
22475 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGTTTTCGTTA
66 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTAAATCTGCTTTCCTTA
* * * * *
22540 AAACTAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAACTTTTGTCTCTCTTGAGACAGT
131 AAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGT
** *
22605 TTCTTTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCT
195 TTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGATTTGTCTCTCT
*
22669 TTAGACAGTTTCTCTTGAAA
260 TGAGACAGTTTCTCTTGAAA
22689 CACCAATATT
Statistics
Matches: 255, Mismatches: 21, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
282 190 0.75
283 64 0.25
284 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.40
Consensus pattern (283 bp):
TTTTGTCTCCCTAGAGACAGTTTCCCCTGAAAAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTAAATCTGCTTTCCTTA
AAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
TCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGATTTGTCTCTCTT
GAGACAGTTTCTCTTGAAATAAA
Found at i:22772 original size:246 final size:240
Alignment explanation
Indices: 22294--22780 Score: 586
Period size: 246 Copynumber: 2.0 Consensus size: 240
22284 GTTTCTCTTG
* *
22294 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAACTTTTGTCTCTCTTGAGACAGT
* *
22359 TTCTCTTGAAACAAAATTTGTCTCTCTTGAGACAGTTTCCTTTGAAATAAATTTTGTCTCTCTAG
66 TTCTCTTGAAACAAAATTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTAG
* * *
22424 AGACAGTTTCTCTTGAAAAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTC
131 AGACAGTTTCTCTTGAAAAAAA-----T-TATCTTGAGACAATTTCCCTTGAAACAAATTTTGCC
* *
22489 TCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTG-AATCTGTTTTCGTTA
190 TCCCTTGAGACAGTTTCCCTTGAAACAAAACCTTTGAAAT-TGTTTTCGTTA
* ** * *
22540 AAACTAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAACTTTTGTCTCTCTTGAGACAGT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAACTTTTGTCTCTCTTGAGACAGT
* * *
22605 TTCTTTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCTT
66 TTCTCTTGAAACAAAATTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA-TTTTGTCTCTCTA
* * * * *
22670 TAGACAGTTTCTCTTGAAACACCAA-TAT-TTGA-ATATATTTCTCTTGAATCAAAATTTTGCCT
130 GAGACAGTTTCTCTTGAAA-A-AAATTATCTTGAGACA-ATTTCCCTTGAAAC-AAATTTTGCCT
* *
22732 CCCTTGTGACAGTTTCTCTTGAAACACAAAAAACCTTTGAAATTGTTTT
191 CCCTTGAGACAGTTTCCCTTG-AA-AC--AAAACCTTTGAAATTGTTTT
22781 TCTTGAAACA
Statistics
Matches: 207, Mismatches: 24, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
240 2 0.01
241 15 0.07
242 30 0.14
243 2 0.01
244 2 0.01
246 120 0.58
247 33 0.16
248 1 0.00
249 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (240 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAACTTTTGTCTCTCTTGAGACAGT
TTCTCTTGAAACAAAATTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTAG
AGACAGTTTCTCTTGAAAAAAATTATCTTGAGACAATTTCCCTTGAAACAAATTTTGCCTCCCTT
GAGACAGTTTCCCTTGAAACAAAACCTTTGAAATTGTTTTCGTTA
Found at i:22809 original size:37 final size:37
Alignment explanation
Indices: 22743--22832 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
22733 CCTTGTGACA
*
22743 GTTTCTCTTGAAACAC----AAAAAACCTTTGAAATT
1 GTTTCTCTTGAAACACAAAAAAAAAACCTTTGAAAAT
*
22776 GTTTTTCTTGAAACACAAAAAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACAAAAAAAAAACCTTTGAAAAT
22813 GTTTCTCTTGAAACACAAAA
1 GTTTCTCTTGAAACACAAAA
22833 CCTTCGAGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
33 15 0.30
37 35 0.70
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (37 bp):
GTTTCTCTTGAAACACAAAAAAAAAACCTTTGAAAAT
Found at i:23485 original size:39 final size:37
Alignment explanation
Indices: 23428--23527 Score: 105
Period size: 37 Copynumber: 2.6 Consensus size: 37
23418 TTTTTATTTT
23428 ATACATATATATATTATATAGTTTGCAAACGAT-TTTTGAAA
1 ATACATATATA-A-TATATAGTTTGCAAA--ATATTTTG-AA
**
23469 ATACATATATAATATATAGTTTTTAAAATCATTTTGAA
1 ATACATATATAATATATAGTTTGCAAAAT-ATTTTGAA
*
23507 A-ACTTATATAATATATAGTTT
1 ATACATATATAATATATAGTTT
23528 TGAAAATTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
37 21 0.39
38 3 0.06
39 18 0.33
40 1 0.02
41 11 0.20
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (37 bp):
ATACATATATAATATATAGTTTGCAAAATATTTTGAA
Found at i:23515 original size:37 final size:35
Alignment explanation
Indices: 23474--23742 Score: 159
Period size: 36 Copynumber: 7.8 Consensus size: 35
23464 TGAAAATACA
23474 TATATAATATATAGTTTTTAAAATCATTTTGAAAACT
1 TATATAATATATAGTTTTTAAAA-CATTTTGAAAA-T
*
23511 TATATAATATATAG-TTTTGAAA-A---T-----T
1 TATATAATATATAGTTTTTAAAACATTTTGAAAAT
*
23536 TATATAATATATAGTTTTGAAAACA-TTT----A-
1 TATATAATATATAGTTTTTAAAACATTTTGAAAAT
*
23565 TATAT--TATATAGATTTTAAAAACATTTTGAAAAT
1 TATATAATATATAG-TTTTTAAAACATTTTGAAAAT
*
23599 ATATATAATATATAGTTTTTTTTTAAAATATTTTTGAAAA-
1 -TATATAATATATAG----TTTTTAAAACA-TTTTGAAAAT
*
23639 TATATATTATATAG-TTTTAAAACATTTTTGAAAA-
1 TATATAATATATAGTTTTTAAAACA-TTTTGAAAAT
*
23673 TACGTATAATATATAGCTTTTTAAAAAACATTTTGGAAATT
1 TA--TATAATATATAG-TTTTT--AAAACATTTT-GAAAAT
* *
23714 TATATATTATAT-GTTTTTGAAAATATTTT
1 TATATAATATATAGTTTTT-AAAACATTTT
23743 TATATATGCA
Statistics
Matches: 191, Mismatches: 14, Indels: 55
0.73 0.05 0.21
Matches are distributed among these distances:
25 15 0.08
26 6 0.03
27 8 0.04
28 10 0.05
29 9 0.05
31 1 0.01
33 1 0.01
34 22 0.12
35 5 0.03
36 27 0.14
37 26 0.14
38 5 0.03
39 26 0.14
40 19 0.10
41 11 0.06
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.48
Consensus pattern (35 bp):
TATATAATATATAGTTTTTAAAACATTTTGAAAAT
Found at i:23563 original size:27 final size:27
Alignment explanation
Indices: 23500--23591 Score: 129
Period size: 25 Copynumber: 3.5 Consensus size: 27
23490 TTTAAAATCA
23500 TTTTGAAAAC--TTATATAATATATAG
1 TTTTGAAAACATTTATATAATATATAG
23525 TTTTG-AAA-ATTTATATAATATATAG
1 TTTTGAAAACATTTATATAATATATAG
*
23550 TTTTGAAAACATTTATATATTATATAG
1 TTTTGAAAACATTTATATAATATATAG
*
23577 ATTTTAAAAACATTT
1 -TTTTGAAAACATTT
23592 TGAAAATATA
Statistics
Matches: 60, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
24 3 0.05
25 25 0.42
26 3 0.05
27 16 0.27
28 13 0.22
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (27 bp):
TTTTGAAAACATTTATATAATATATAG
Found at i:23593 original size:128 final size:124
Alignment explanation
Indices: 23430--23660 Score: 299
Period size: 128 Copynumber: 1.8 Consensus size: 124
23420 TTTATTTTAT
**
23430 ACATATATATATTATATAGTTTGCAAACGATTTTTGAAAATACATATATAATATATAG-TTTTTA
1 ACATATATATATTATATAGTTTAAAAACGATTTTTGAAAAT--ATATATAATATATAGTTTTTTA
23494 AAATCA-TTTTGAAAACTTATATAATATATAGTTTTGAAAATTTATATAATATATAGTTTTGAAA
64 AAAT-ATTTTTGAAAA--TATATAATATATAGTTTT-AAAATTTATATAATATATAGTTTTGAAA
*
23558 ACATTTATATATTATATAGATTTTAAAAAC-A-TTTTGAAAATATATATAATATATAGTTTTTTT
1 ACATATATATATTATATAG--TTTAAAAACGATTTTTGAAAATATATATAATATATAG---TTTT
*
23621 TTAAAATATTTTTGAAAATATATATTATATAGTTTTAAAA
61 TTAAAATATTTTTGAAAATATATAATATATAGTTTTAAAA
23661 CATTTTTGAA
Statistics
Matches: 92, Mismatches: 4, Indels: 15
0.83 0.04 0.14
Matches are distributed among these distances:
126 15 0.16
127 4 0.04
128 45 0.49
129 2 0.02
130 26 0.28
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.46
Consensus pattern (124 bp):
ACATATATATATTATATAGTTTAAAAACGATTTTTGAAAATATATATAATATATAGTTTTTTAAA
ATATTTTTGAAAATATATAATATATAGTTTTAAAATTTATATAATATATAGTTTTGAAA
Found at i:23601 original size:28 final size:27
Alignment explanation
Indices: 23510--23603 Score: 95
Period size: 28 Copynumber: 3.5 Consensus size: 27
23500 TTTTGAAAAC
* *
23510 TTATATAATATATAGTTTT-GAAA-AT
1 TTATAAAATATATAGTTTTAAAAACAT
* *
23535 TTATATAATATATAGTTTTGAAAACAT
1 TTATAAAATATATAGTTTTAAAAACAT
* *
23562 TTATATATTATATAGATTTTAAAAACAT
1 TTATAAAATATATAG-TTTTAAAAACAT
23590 TT-TGAAAATATATA
1 TTAT-AAAATATATA
23604 TAATATATAG
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
25 19 0.32
26 3 0.05
27 17 0.28
28 21 0.35
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (27 bp):
TTATAAAATATATAGTTTTAAAAACAT
Found at i:23657 original size:34 final size:36
Alignment explanation
Indices: 23563--23743 Score: 172
Period size: 40 Copynumber: 4.9 Consensus size: 36
23553 TGAAAACATT
*
23563 TATATATTATATAGATTTTAAAAACA-TTTTGAAAA
1 TATATATTATATAGTTTTTAAAAACATTTTTGAAAA
* *
23598 TATATATAATATATAGTTTTTTTTTAAAATATTTTTGAAAA
1 TATATAT--TATATAG---TTTTTAAAAACATTTTTGAAAA
23639 TATATATTATATAG-TTTT-AAAACATTTTTGAAAA
1 TATATATTATATAGTTTTTAAAAACATTTTTGAAAA
* * *
23673 TACGTATAATATATAGCTTTTTAAAAAACATTTTGGAAATT
1 TA--TATATTATATAG-TTTTT-AAAAACATTTTTGAAA-A
* *
23714 TATATATTATAT-GTTTTTGAAAATATTTTT
1 TATATATTATATAGTTTTTAAAAACATTTTT
23744 ATATATGCAA
Statistics
Matches: 122, Mismatches: 11, Indels: 25
0.77 0.07 0.16
Matches are distributed among these distances:
34 17 0.14
35 11 0.09
36 20 0.16
37 12 0.10
38 5 0.04
39 16 0.13
40 23 0.19
41 18 0.15
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (36 bp):
TATATATTATATAGTTTTTAAAAACATTTTTGAAAA
Found at i:23672 original size:75 final size:75
Alignment explanation
Indices: 23563--23730 Score: 216
Period size: 75 Copynumber: 2.2 Consensus size: 75
23553 TGAAAACATT
* * ** *
23563 TATATATTATATAGATTTTAAAAACATTTTGAAAATATATATAATATATAGTTTTTTTTTAAAAT
1 TATATATTATATAG-TTTTAAAAACATTTTGAAAATACATATAATATATAG-CTTTTTAAAAAAC
*
23628 ATTTTTGAAA-A
64 ATTTTGGAAATA
*
23639 TATATATTATATAGTTTT-AAAACATTTTTGAAAATACGTATAATATATAGCTTTTTAAAAAACA
1 TATATATTATATAGTTTTAAAAACA-TTTTGAAAATACATATAATATATAGCTTTTTAAAAAACA
*
23703 TTTTGGAAATT
65 TTTTGGAAATA
23714 TATATATTATAT-GTTTT
1 TATATATTATATAGTTTT
23731 TGAAAATATT
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
74 29 0.35
75 39 0.48
76 14 0.17
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (75 bp):
TATATATTATATAGTTTTAAAAACATTTTGAAAATACATATAATATATAGCTTTTTAAAAAACAT
TTTGGAAATA
Found at i:23767 original size:3 final size:3
Alignment explanation
Indices: 23759--23818 Score: 88
Period size: 3 Copynumber: 20.3 Consensus size: 3
23749 TGCAATATAG
*
23759 TAT TAT TAT TAT TAC TAT TAT TAT TAT TATT TAT T-T TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
23803 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
23819 TATGTTTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 4 0.08
3 45 0.87
4 3 0.06
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:25084 original size:14 final size:13
Alignment explanation
Indices: 25021--25088 Score: 55
Period size: 14 Copynumber: 4.9 Consensus size: 13
25011 TATTAGTATA
*
25021 TTATTGTTTTTTT
1 TTATTATTTTTTT
*
25034 CTTATTTTTTTTTTT
1 -TTA-TTATTTTTTT
* *
25049 TTATTATTCTGTTA
1 TTATTATT-TTTTT
25063 TTATTATTATTTTT
1 TTATTATT-TTTTT
*
25077 TTAATATTTTTT
1 TTATTATTTTTT
25089 CTTTGATTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
13 8 0.18
14 27 0.61
15 9 0.20
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (13 bp):
TTATTATTTTTTT
Found at i:25111 original size:2 final size:2
Alignment explanation
Indices: 25104--25135 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
25094 ATTTACATTC
25104 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
25136 TAGTTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25160 original size:20 final size:20
Alignment explanation
Indices: 25135--25176 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
25125 TATATATATA
25135 TTAGTTTTTTATTTT-TTATT
1 TTAG-TTTTTATTTTATTATT
25155 TTAGTTTTTATTTTATTATT
1 TTAGTTTTTATTTTATTATT
25175 TT
1 TT
25177 TCTTTGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.79
Consensus pattern (20 bp):
TTAGTTTTTATTTTATTATT
Found at i:25188 original size:35 final size:36
Alignment explanation
Indices: 25123--25217 Score: 81
Period size: 35 Copynumber: 2.7 Consensus size: 36
25113 TATATATATA
* * *
25123 TATATATATATATTAGTTTTT-TATT-TTTTATTTTAG
1 TATATATATTTATTAATTTTTCT-TTGATTTATTTT-G
* * *
25159 TTTTTAT-TTTATTAT-TTTTCTTTGATTTATTTTG
1 TATATATATTTATTAATTTTTCTTTGATTTATTTTG
25193 TATATATATTTATTACATTTTTCTT
1 TATATATATTTATTA-ATTTTTCTT
25218 ATTTTGTGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
34 12 0.26
35 22 0.48
36 5 0.11
37 7 0.15
ACGTcount: A:0.23, C:0.03, G:0.04, T:0.69
Consensus pattern (36 bp):
TATATATATTTATTAATTTTTCTTTGATTTATTTTG
Found at i:25361 original size:12 final size:12
Alignment explanation
Indices: 25344--25423 Score: 81
Period size: 12 Copynumber: 6.5 Consensus size: 12
25334 ATTTTTCCCT
*
25344 TTTTTTAGTTTA
1 TTTTTTATTTTA
*
25356 TTTTTTATTATTTG
1 TTTTTTA-T-TTTA
25370 TTTTTTATTTTA
1 TTTTTTATTTTA
* *
25382 TTTTTTCTTTGA
1 TTTTTTATTTTA
25394 TTTATTTA-TTTA
1 TTT-TTTATTTTA
*
25406 TTTCTTATTTTA
1 TTTTTTATTTTA
25418 TTTTTT
1 TTTTTT
25424 TCTTTTGATT
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
11 3 0.05
12 38 0.69
13 4 0.07
14 10 0.18
ACGTcount: A:0.15, C:0.03, G:0.04, T:0.79
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:25373 original size:14 final size:15
Alignment explanation
Indices: 25343--25407 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 15
25333 CATTTTTCCC
25343 TTTTT-TTAGTTTAT
1 TTTTTATTAGTTTAT
*
25357 TTTTTATTA-TTTGT
1 TTTTTATTAGTTTAT
25371 TTTTTA-T--TTTAT
1 TTTTTATTAGTTTAT
* *
25383 TTTTTCTTTGATTTAT
1 TTTTTATTAG-TTTAT
25399 TTATTTATT
1 TT-TTTATT
25408 TCTTATTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
12 9 0.22
13 2 0.05
14 15 0.37
15 3 0.07
16 7 0.17
17 5 0.12
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (15 bp):
TTTTTATTAGTTTAT
Found at i:25402 original size:4 final size:4
Alignment explanation
Indices: 25347--25465 Score: 61
Period size: 4 Copynumber: 29.8 Consensus size: 4
25337 TTTCCCTTTT
* *
25347 TTTA GTTTA TTT- TTTA -TTA TTTG TTT- TTTA TTTTA TTT- TTTC TTTGA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTT-A
* * * *
25394 TTTA TTTA TTTA TTT- CTTA TTTTA TTTT TTTCT TTTGA TTTA TTTA -GTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTT-A TTT-A TTTA TTTA TTTA
* * *
25443 GTTA TTTT TTTA TTTA CTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTT
25466 TCTCTAATAT
Statistics
Matches: 90, Mismatches: 14, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
3 16 0.18
4 53 0.59
5 21 0.23
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:25454 original size:37 final size:37
Alignment explanation
Indices: 25374--25457 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
25364 TATTTGTTTT
* * *
25374 TTATTTTA-TTTTTTCTTTGATTTATTTATTTATTTC
1 TTATTTTATTTTTTTCTTTGATTTATTTATGTAGTTA
25410 TTATTTTATTTTTTTCTTTTGATTTATTTA-GTAGTTA
1 TTATTTTATTTTTTTC-TTTGATTTATTTATGTAGTTA
*
25447 TTTTTTTATTT
1 TTATTTTATTT
25458 ACTTATTTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 8 0.19
37 21 0.50
38 13 0.31
ACGTcount: A:0.17, C:0.04, G:0.05, T:0.75
Consensus pattern (37 bp):
TTATTTTATTTTTTTCTTTGATTTATTTATGTAGTTA
Found at i:25468 original size:42 final size:37
Alignment explanation
Indices: 25359--25457 Score: 121
Period size: 36 Copynumber: 2.6 Consensus size: 37
25349 TAGTTTATTT
*
25359 TTTA-TTATTTGTTTTTTATTTTATTTTTTC-TTTGA
1 TTTATTTATTTATTTTTTATTTTATTTTTTCTTTTGA
*
25394 TTTATTTATTTATTTCTTATTTTATTTTTTTCTTTTGA
1 TTTATTTATTTATTTTTTATTTTA-TTTTTTCTTTTGA
25432 TTTATTTAGTAGTTATTTTTTTATTT
1 TTTATTTA-T--TTA-TTTTTTATTT
25458 ACTTATTTTC
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
35 4 0.07
36 17 0.31
37 7 0.13
38 13 0.24
39 1 0.02
41 3 0.06
42 9 0.17
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (37 bp):
TTTATTTATTTATTTTTTATTTTATTTTTTCTTTTGA
Found at i:28999 original size:2 final size:2
Alignment explanation
Indices: 28992--29023 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
28982 GCTTTGAATT
28992 AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
29024 TTGTTGAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:31653 original size:21 final size:21
Alignment explanation
Indices: 31603--31643 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
31593 TTCCAGATAC
31603 GCAACGCGAACATCGACTATA
1 GCAACGCGAACATCGACTATA
*
31624 GCAACGCGAACTTCGACTAT
1 GCAACGCGAACATCGACTAT
31644 CGCGATGCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.17
Consensus pattern (21 bp):
GCAACGCGAACATCGACTATA
Found at i:31693 original size:21 final size:21
Alignment explanation
Indices: 31667--31890 Score: 221
Period size: 21 Copynumber: 10.7 Consensus size: 21
31657 TCCAAATTCA
31667 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
* *
31688 TTGCGATTTATTCCAAATT--CG
1 TTGCGA--TAGTCCAAGTTCGCG
31709 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
* * *
31730 TTGCGATTTATTCCAAATT--TG
1 TTGCGA--TAGTCCAAGTTCGCG
*
31751 TTGCGATAGTCCAAGTTCGTG
1 TTGCGATAGTCCAAGTTCGCG
31772 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
*
31793 TTGCGATTGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
*
31814 TTGCGATTTATTCCAAGTT--CG
1 TTGCGA--TAGTCCAAGTTCGCG
*
31835 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
* *
31856 TTGCGATTTATTCCAAATT--CG
1 TTGCGA--TAGTCCAAGTTCGCG
31877 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
31891 AATCACAACG
Statistics
Matches: 170, Mismatches: 19, Indels: 30
0.78 0.09 0.14
Matches are distributed among these distances:
19 34 0.20
21 101 0.59
23 35 0.21
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (21 bp):
TTGCGATAGTCCAAGTTCGCG
Found at i:31713 original size:42 final size:42
Alignment explanation
Indices: 31643--31890 Score: 369
Period size: 42 Copynumber: 6.0 Consensus size: 42
31633 ACTTCGACTA
* *
31643 TCGCGATGCGA-TT-TTCCAAATTCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGT
31683 TCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGT
1 TCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGT
*
31725 TCGCGTTGCGATTTATTCCAAATTTGTTGCGATAGTCCAAGT
1 TCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGT
* * * *
31767 TCGTGTTGCGA--TAGTCCAAGTTCGCGTTGCGATTGTCCAAGT
1 TCGCGTTGCGATTTATTCCAAATT--CGTTGCGATAGTCCAAGT
* *
31809 TCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGT
31851 TCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
1 TCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
31891 AATCACAACG
Statistics
Matches: 188, Mismatches: 14, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
40 19 0.10
41 2 0.01
42 157 0.84
44 10 0.05
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (42 bp):
TCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGT
Found at i:31754 original size:63 final size:63
Alignment explanation
Indices: 31686--31883 Score: 278
Period size: 63 Copynumber: 3.1 Consensus size: 63
31676 TCCAAGTTCG
*
31686 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
* * * *
31749 TGTTGCGA--TAGTCCAAGTTCGTGTTGCGATAGTCCAAGTTCGCGTTGCGA-TT-GTCCAAGTT
1 CGTTGCGATTTATTCCAAGTTC--GTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
*
31810 CGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
31875 CGTTGCGAT
1 CGTTGCGAT
31884 AGTCCAAAAT
Statistics
Matches: 117, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
61 17 0.15
62 2 0.02
63 78 0.67
64 2 0.02
65 18 0.15
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (63 bp):
CGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:32021 original size:6 final size:6
Alignment explanation
Indices: 31980--32011 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
31970 GACACGTATT
31980 ACCACG ACCACG ACCACG ACCACG ACCACG AC
1 ACCACG ACCACG ACCACG ACCACG ACCACG AC
32012 GACCACGACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.50, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:32760 original size:21 final size:20
Alignment explanation
Indices: 32736--32805 Score: 74
Period size: 19 Copynumber: 3.5 Consensus size: 20
32726 ATTTTGGACT
32736 ATCGCAACGAATTTAGAATAA
1 ATCGCAACGAATTT-GAATAA
*
32757 ATCGCAACGCGAACTTGAACT--
1 ATCGCAA--CGAATTTGAA-TAA
32778 ATCGCAACGAATTTGAA-AA
1 ATCGCAACGAATTTGAATAA
32797 ATCGCAACG
1 ATCGCAACG
32806 CGAACTTCGA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
19 18 0.43
21 14 0.33
22 3 0.07
23 7 0.17
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (20 bp):
ATCGCAACGAATTTGAATAA
Found at i:32810 original size:40 final size:42
Alignment explanation
Indices: 32732--32826 Score: 160
Period size: 40 Copynumber: 2.3 Consensus size: 42
32722 TGCGATTTTG
32732 GACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTT-
1 GACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTTC
32773 GAACTATCGCAACGAATTT-GAA-AAATCGCAACGCGAACTTC
1 G-ACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTTC
32814 GACTATCGCAACG
1 GACTATCGCAACG
32827 CGAACTTGGA
Statistics
Matches: 52, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
40 30 0.58
41 5 0.10
42 17 0.33
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTTC
Found at i:32821 original size:21 final size:21
Alignment explanation
Indices: 32757--32851 Score: 115
Period size: 21 Copynumber: 4.6 Consensus size: 21
32747 TTTAGAATAA
32757 ATCGCAACGCGAACTTGAACT
1 ATCGCAACGCGAACTTGAACT
* **
32778 ATCGCAA--CGAATTTGAAAA
1 ATCGCAACGCGAACTTGAACT
32797 ATCGCAACGCGAACTTCG-ACT
1 ATCGCAACGCGAACTT-GAACT
*
32818 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGAACT
*
32839 ATCGCAATGCGAA
1 ATCGCAACGCGAA
32852 TATGTAAATT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
19 16 0.25
20 1 0.02
21 45 0.71
22 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGAACT
Found at i:43969 original size:16 final size:16
Alignment explanation
Indices: 43924--44012 Score: 58
Period size: 16 Copynumber: 5.4 Consensus size: 16
43914 AATGAAAAGG
**
43924 AAAAAAATTTTTAAAA
1 AAAAAAATAGTTAAAA
*
43940 AAAAAGATAGTTAAAA
1 AAAAAAATAGTTAAAA
43956 AAAATAAATA-TTAAATA
1 AAAA-AAATAGTTAAA-A
**
43973 AATGAAAAAT-GTTAACT
1 AA--AAAAATAGTTAAAA
*
43990 AAAAAAATA-ATAAAA
1 AAAAAAATAGTTAAAA
44005 AAGAAAAA
1 AA-AAAAA
44013 CAAATGCATT
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
15 11 0.19
16 27 0.47
17 9 0.16
18 8 0.14
19 2 0.04
ACGTcount: A:0.71, C:0.01, G:0.06, T:0.22
Consensus pattern (16 bp):
AAAAAAATAGTTAAAA
Found at i:45145 original size:19 final size:18
Alignment explanation
Indices: 45103--45145 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
45093 AAAAACGATT
*
45103 AAATAAATAATAAAAACA
1 AAATAAATAAAAAAAACA
*
45121 ATAATAAATAAAAAAGAATA
1 A-AATAAATAAAAAA-AACA
45141 AAATA
1 AAATA
45146 CTATATGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 16 0.76
20 4 0.19
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (18 bp):
AAATAAATAAAAAAAACA
Found at i:45218 original size:36 final size:35
Alignment explanation
Indices: 45167--45251 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 35
45157 ATAAAGAAAA
* **
45167 AAAAATGTTTT-AAAACTTTATATAATATATATTTC
1 AAAAATATTTTCAAAACCATATATAATATA-ATTTC
* * *
45202 AAAGATATTTTCAAAACCATATATTATATAATTTT
1 AAAAATATTTTCAAAACCATATATAATATAATTTC
45237 AAAAATATTTTCAAA
1 AAAAATATTTTCAAA
45252 CTATATGTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 27 0.64
36 15 0.36
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.42
Consensus pattern (35 bp):
AAAAATATTTTCAAAACCATATATAATATAATTTC
Found at i:45230 original size:34 final size:33
Alignment explanation
Indices: 45186--45312 Score: 100
Period size: 34 Copynumber: 3.8 Consensus size: 33
45176 TTAAAACTTT
* *
45186 ATATAATATATATTTCAAAGATATTTTCAAAACC
1 ATATATTATATATTTCAAAAATATTTTC-AAACC
* *
45220 ATATATTATATAATTTTAAAAATATTTTCAAACT
1 ATATATTATAT-ATTTCAAAAATATTTTCAAACC
* **
45254 ATATGTTATAGT-TTTCAAAAACGTTTT-AAA--
1 ATATATTATA-TATTTCAAAAATATTTTCAAACC
* *
45284 ATTATATTATATGTTTTCAAAAATGTTTT
1 A-TATATTATAT-ATTTCAAAAATATTTT
45313 TTTTAAAACT
Statistics
Matches: 78, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
30 2 0.03
31 8 0.10
32 17 0.22
33 12 0.15
34 23 0.29
35 16 0.21
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.46
Consensus pattern (33 bp):
ATATATTATATATTTCAAAAATATTTTCAAACC
Found at i:45328 original size:38 final size:36
Alignment explanation
Indices: 45167--45501 Score: 266
Period size: 36 Copynumber: 9.3 Consensus size: 36
45157 ATAAAGAAAA
* *
45167 AAAAATG-TTTTAAAACTTTATATAATATA-TATTTC
1 AAAAATGTTTTTAAAACTATATATTATATAGT-TTTC
* * * * *
45202 AAAGATATTTTCAAAACCATATATTATATAATTTT-
1 AAAAATGTTTTTAAAACTATATATTATATAGTTTTC
* * *
45237 AAAAAT-ATTTTCAAACTATAT-GT-TATAGTTTTC
1 AAAAATGTTTTTAAAACTATATATTATATAGTTTTC
*
45270 AAAAACG-TTTTAAAA-T-TATATTATAT-GTTTTC
1 AAAAATGTTTTTAAAACTATATATTATATAGTTTTC
**
45302 AAAAATGTTTTTTTTAAAACTATATATTATATAAATTTC
1 AAAAATG---TTTTTAAAACTATATATTATATAGTTTTC
* *
45341 -AAAATGATTTTAAAACTGTATATTATATAAGTTTTC
1 AAAAATGTTTTTAAAACTATATATTATAT-AGTTTTC
* *
45377 -AAAATGGTTTTAAAATCTACATATTATATATGTTTTC
1 AAAAATGTTTTTAAAA-CTATATATTATATA-GTTTTC
* *
45414 TAAAAACGTTTTAAAAACTATATATTATATAGTTTTC
1 -AAAAATGTTTTTAAAACTATATATTATATAGTTTTC
* *
45451 AAAGGTAT-TTTTATAAAAACTATATATTATATACATTTTC
1 AAA--AATGTTTT-T-AAAACTATATATTATATA-GTTTTC
45491 -AAAATGTTTTT
1 AAAAATGTTTTT
45502 TTTAAATCAT
Statistics
Matches: 241, Mismatches: 35, Indels: 46
0.75 0.11 0.14
Matches are distributed among these distances:
31 3 0.01
32 22 0.09
33 16 0.07
34 11 0.05
35 30 0.12
36 52 0.22
37 32 0.13
38 34 0.14
39 36 0.15
40 5 0.02
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (36 bp):
AAAAATGTTTTTAAAACTATATATTATATAGTTTTC
Found at i:45500 original size:75 final size:70
Alignment explanation
Indices: 45221--45494 Score: 231
Period size: 75 Copynumber: 3.8 Consensus size: 70
45211 TTCAAAACCA
* * * * * *
45221 TATATTATATAATTTT-AAAAATATTTT-CAAACTATAT-GT-TATAGTTTTCAAAAACGTTTTA
1 TATATTATATAGTTTTCAAATATTTTTTAAAAACTATATATTATATAATTTTCAAAAACGTTTTA
45282 AAA-T
66 AAACT
* * * *
45286 TATATTATAT-GTTTTCAAAAATGTTTTTTTTAAAACTATATATTATATAAATTTC-AAAATGAT
1 TATATTATATAGTTTTC--AAAT-ATTTTTTAAAAACTATATATTATATAATTTTCAAAAACG-T
45349 TTTAAAACT
62 TTTAAAACT
* * * *
45358 GTATATTATATAAGTTTTCAAA-ATGGTTTTAAAATCTACATATTATATATGTTTTCTAAAAACG
1 -TATATTATAT-AGTTTTCAAATAT-TTTTTAAAAACTATATATTATATA-ATTTTC-AAAAACG
45422 TTTTAAAAACT
61 TTTT-AAAACT
45433 ATATATTATATAGTTTTCAAAGGTATTTTTATAAAAACTATATATTATATACATTTTCAAAA
1 -TATATTATATAGTTTTCAAA--TATTTTT-TAAAAACTATATATTATATA-ATTTTCAAAA
45495 TGTTTTTTTT
Statistics
Matches: 165, Mismatches: 23, Indels: 31
0.75 0.11 0.14
Matches are distributed among these distances:
64 4 0.02
65 10 0.06
67 3 0.02
68 5 0.03
69 9 0.05
70 6 0.04
71 17 0.10
72 21 0.13
73 17 0.10
74 14 0.08
75 27 0.16
76 7 0.04
77 25 0.15
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (70 bp):
TATATTATATAGTTTTCAAATATTTTTTAAAAACTATATATTATATAATTTTCAAAAACGTTTTA
AAACT
Found at i:45561 original size:2 final size:2
Alignment explanation
Indices: 45550--45579 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
45540 TTTTGCGAAC
45550 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45580 GTGTGTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46270 original size:34 final size:34
Alignment explanation
Indices: 46216--46332 Score: 162
Period size: 34 Copynumber: 3.4 Consensus size: 34
46206 AGGTCTTTGG
*
46216 GTTTGAAGAGAAACATTTTCAAAGGTTTTTTTTT
1 GTTTCAAGAGAAACATTTTCAAAGGTTTTTTTTT
* * *
46250 GTTTCAAGATAAACAATTTCAAAGGTTTTTTTGT
1 GTTTCAAGAGAAACATTTTCAAAGGTTTTTTTTT
* *
46284 GTTTCAATAGAAATATTTTCAAAGGTTTTTTTTTGT
1 GTTTCAAGAGAAACATTTTCAAAGG-TTTTTTTT-T
46320 GTTTCAAGAGAAA
1 GTTTCAAGAGAAA
46333 TTGTCTTAGA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
34 51 0.72
35 7 0.10
36 13 0.18
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (34 bp):
GTTTCAAGAGAAACATTTTCAAAGGTTTTTTTTT
Found at i:46401 original size:36 final size:37
Alignment explanation
Indices: 46319--46406 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 37
46309 TTTTTTTTTG
* * * * *
46319 TGTTTCAAGAGAAATTGTCTTAGAGGAGGCAAACTTT
1 TGTTTCAAGGGAAACTGTCTAAGAGGAGACAAACATT
46356 TGTTTCAAGGGAAACTGTCTCAAGA-GAGACAAA-ATT
1 TGTTTCAAGGGAAACTGTCT-AAGAGGAGACAAACATT
46392 TGTTTCAAGGGAAAC
1 TGTTTCAAGGGAAAC
46407 AATCTCAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
36 17 0.38
37 25 0.56
38 3 0.07
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTAAGAGGAGACAAACATT
Found at i:46818 original size:165 final size:165
Alignment explanation
Indices: 46452--47370 Score: 889
Period size: 165 Copynumber: 5.6 Consensus size: 165
46442 AGCCTTGAGT
* * * * * ** *
46452 TATGCTGTAAATGATGTGCCCTCGGAGCTGAGTGTAATCGAACTCGGGGGTATTT-G--G-CAGA
1 TATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGA
* * * * *
46513 TAGCCCTTCTCA-ACTTAAGTTATGCTGCAAATGATGTGCCTTTG-AGCTGAGTGTAATCGAACT
65 TAACCCTTCT-AGACTTAAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACT
* * * * *
46576 CAAAGGTCTTTGGTTGGCAGATAACCC--CTCCATCTTAAGT
129 CGAGGGTC--T--TTGGCAGATAGCCCTTCTCGA-CTTAAGC
** * * *
46616 TAAACTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAATGTCTTTTGCTGACAGAT
1 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGAT
* * *
46681 AACCCTTCTAG-CATTGAGTTATTCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAATTC
66 AACCCTTCTAGAC-TTAAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
*
46745 GAGGGTCTTTGGCAGATAGCCATTCTCGACTTAAGC
130 GAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGC
* * *
46781 TATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
1 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGAT
* ** * * *
46846 AACCCTTCTCGACTTAAGTTATGCTACAAATGATATG-CCTTGAAGCTGAGCGTAGTCGAACTCG
66 AACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCG
* *
46910 AAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGC
131 AGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGC
** * * *
46945 TATATTGCAAATGATGTGCCTTGAAGCTGAGCGAAGTCGAACTCGAAGGTCTCTTGGTT-ACAGA
1 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT-TTGGTTGACAGA
* * * * * * *
47009 TAACCCTTCTAGCCTTGAGTTATGCTGTAAATTATGTGCCCTCGAAGCTGAATGTAATCAAACCC
65 TAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
47074 GAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGC
130 GAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGC
* * *
47110 TATGCTGCAAATGATATGCCTTGGAGCTGAACGTAGTAGAACTCGAAGGTCTTTGGTTGGCAGAT
1 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGAT
* * * ** * *
47175 AACCCTTCTCGACTTAAGTTATGCTGTAAATGATATG-CCTTGGAGCTGAGCATAGTCGAACTCA
66 AACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCG
* * * * * * *
47239 AAGGTCTTTTGGTGACAAATAACCCTTCTAGCCTTGAGT
131 AGGGTC-TTT-G-G-CAGATAGCCCTTCTCGACTTAAGC
* * * * * * * *
47278 TATGTTGTAAATAATGTGCCCTAGGAGCTGAGTGTAATCGAACTCGAGGGTCTTT-G--G-CAGA
1 TATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGA
* * * *
47339 TAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
65 TAACCCTTCTAGACTTAAGTTATGCTGTAAAT
47371 AGTTTCTTTA
Statistics
Matches: 629, Mismatches: 108, Indels: 35
0.81 0.14 0.05
Matches are distributed among these distances:
163 29 0.05
164 193 0.31
165 271 0.43
166 11 0.02
167 38 0.06
168 57 0.09
169 30 0.05
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (165 bp):
TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGAT
AACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCG
AGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGC
Found at i:47051 original size:329 final size:327
Alignment explanation
Indices: 46505--47247 Score: 1101
Period size: 329 Copynumber: 2.2 Consensus size: 327
46495 TCGGGGGTAT
* * * * *
46505 TTGGCAGATAGCCCTTCTCAACTTAAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAAT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCC-TTGAGCTGAGCGTAGT
*
46570 CGAACTCAAAGGTCTTTGGTTGGCAGATAACCCCTCCATCTTAAGTTAAACTGCAAATGATATGC
65 CGAACTCAAAGGTC--T--TTGGCAGATAACCCCTCCATCTTAAGCTAAACTGCAAATGATATGC
* * * *
46635 CTTGGAGCTGAGCGTAGTCGAACTCGAATGTCTTTTGCTGACAGATAACCCTTCTAGCATTGAGT
126 CTTGAAGCTGAGCGAAGTCGAACTCGAAGGTCTCTTGCTGACAGATAACCCTTCTAGCATTGAGT
* * * **
46700 TATTCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAATTCGAGGGTCTTTGGCAGATAGC
191 TATGCTGTAAATGATATGCCCTCGAAGCTGAATGTAATCAAACCCGAGGGTCTTTGGCAGATAGC
* * *
46765 CATTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGG
256 CATTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTAGAGCTGAACGTAGTAGAACTCGAAGG
46830 TCTTTGG
321 TCTTTGG
*
46837 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATATGCCTTGAAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTG-AGCTGAGCGTAGT
* * * * *
46902 CGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGA-CTTAAGCTATATTGCAAATGATGTGCCT
65 CGAACTCAAAGGTCTTTGGCAGATAACCC--CTCCATCTTAAGCTAAACTGCAAATGATATGCCT
* * *
46966 TGAAGCTGAGCGAAGTCGAACTCGAAGGTCTCTTGGTTACAGATAACCCTTCTAGCCTTGAGTTA
128 TGAAGCTGAGCGAAGTCGAACTCGAAGGTCTCTTGCTGACAGATAACCCTTCTAGCATTGAGTTA
* * *
47031 TGCTGTAAATTATGTGCCCTCGAAGCTGAATGTAATCAAACCCGAGGGTCTTTGGCAGATAGCCC
193 TGCTGTAAATGATATGCCCTCGAAGCTGAATGTAATCAAACCCGAGGGTCTTTGGCAGATAGCCA
*
47096 TTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAACGTAGTAGAACTCGAAGGTC
258 TTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTAGAGCTGAACGTAGTAGAACTCGAAGGTC
47161 TTTGG
323 TTTGG
* *
47166 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCATAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT-GAGCTGAGCGTAGT
47231 CGAACTCAAAGGTCTTT
65 CGAACTCAAAGGTCTTT
47248 TGGTGACAAA
Statistics
Matches: 372, Mismatches: 35, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
328 14 0.04
329 281 0.76
330 6 0.02
331 3 0.01
332 68 0.18
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (327 bp):
TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGAGCTGAGCGTAGTC
GAACTCAAAGGTCTTTGGCAGATAACCCCTCCATCTTAAGCTAAACTGCAAATGATATGCCTTGA
AGCTGAGCGAAGTCGAACTCGAAGGTCTCTTGCTGACAGATAACCCTTCTAGCATTGAGTTATGC
TGTAAATGATATGCCCTCGAAGCTGAATGTAATCAAACCCGAGGGTCTTTGGCAGATAGCCATTC
TCGACTTAAGCTATGCTGCAAATGATATGCCTTAGAGCTGAACGTAGTAGAACTCGAAGGTCTTT
GG
Found at i:47083 original size:249 final size:242
Alignment explanation
Indices: 46457--47370 Score: 943
Period size: 249 Copynumber: 3.7 Consensus size: 242
46447 TGAGTTATGC
* * * * ** * *
46457 TGTAAATGATGTGCCCTCGGAGCTGAGTGTAA-TCGAACTCGGGGGTATTTGG--CAGATAGCCC
1 TGTAAATGATATG-CCTTGAAGCTGAGCG-AAGTCGAACTCGAAGGTCTTTGGTACAGATAACCC
* * * * *
46519 TTCTCA-ACTTAAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGT
64 TTCT-AGCCTTGAGTTATGCTGCAAATGATGTGCCCTAGAGCTGAGTGTAATCGAACTCGAAGGT
* * **
46583 CTTTGGTTGGCAGATAACCC--CTCCATCTTAAGTTAAACTGCAAATGATATGCCTTGGAGCTGA
128 C--T--TTGGCAGATAACCCTTCTCGA-CTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGA
* * *
46646 GCGTAGTCGAACTCGAATGTCTTTTGCTGACAGATAACCCTTCTAG-CATTGAGTTATT
188 GCGTAGTCGAACTCGAAGGTCTTTTG--G-CAGATAACCCTTCTCGAC-TTAAGTTATT
* * * * *
46704 CTGTAAATGATATGCCCTCGAAGCTGAGTGTAA-TCGAATTCGAGGGTCTTTGG--CAGATAGCC
1 -TGTAAATGATATG-CCTTGAAGCTGAGCG-AAGTCGAACTCGAAGGTCTTTGGTACAGATAACC
* * * * * * * *
46766 ATTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGT
63 CTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTAGAGCTGAGTGTAATCGAACTCGAAGGT
* * *
46831 CTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATATGCCTTGAAGCTGAG
128 C--T--TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAG
*
46896 CGTAGTCGAACTCGAAGGTC-TTTGGCAGATAACCCTTCTCGACTTAAGCTATAT
189 CGTAGTCGAACTCGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGTTAT-T
* *
46950 TGCAAATGATGTGCCTTGAAGCTGAGCGAAGTCGAACTCGAAGGTCTCTTGGTTACAGATAACCC
1 TGTAAATGATATGCCTTGAAGCTGAGCGAAGTCGAACTCGAAGGTCT-TTGG-TACAGATAACCC
* * * * * * *
47015 TTCTAGCCTTGAGTTATGCTGTAAATTATGTGCCCTCGAAGCTGAATGTAATCAAACCCGAGGGT
64 TTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTAG-AGCTGAGTGTAATCGAACTCGAAGGT
* *
47080 CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAACGTA
128 CTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTA
* *
47145 GTAGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGC
193 GTCGAACTCGAAGGTC-TT--TTGGCAGATAACCCTTCTCGACTTAAGTTAT-T
* * *
47199 TGTAAATGATATGCCTTGGAGCTGAGC-ATAGTCGAACTCAAAGGTCTTTTGGTGACAAATAACC
1 TGTAAATGATATGCCTTGAAGCTGAGCGA-AGTCGAACTCGAAGGTC-TTTGGT-ACAGATAACC
* * * *
47263 CTTCTAGCCTTGAGTTATGTTGTAAATAATGTGCCCTAGGAGCTGAGTGTAATCGAACTCGAGGG
63 CTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTA-GAGCTGAGTGTAATCGAACTCGAAGG
*
47328 TCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
127 TCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAAT
47371 AGTTTCTTTA
Statistics
Matches: 584, Mismatches: 63, Indels: 37
0.85 0.09 0.05
Matches are distributed among these distances:
243 2 0.00
244 27 0.05
245 110 0.19
246 3 0.01
247 2 0.00
248 177 0.30
249 257 0.44
250 6 0.01
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (242 bp):
TGTAAATGATATGCCTTGAAGCTGAGCGAAGTCGAACTCGAAGGTCTTTGGTACAGATAACCCTT
CTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTAGAGCTGAGTGTAATCGAACTCGAAGGTCTT
TGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTC
GAACTCGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGTTATT
Found at i:48716 original size:95 final size:94
Alignment explanation
Indices: 48549--48744 Score: 279
Period size: 95 Copynumber: 2.1 Consensus size: 94
48539 GGACAACTTA
** * * *
48549 ATATATAAACACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCCGAGGCGTTTAACCAATTG
1 ATATATAATTACCTTTATCAGGCTAGCTAAATATTATCCATAAAGCCGAGGCGTTTAACCAATTG
48614 CCTTAGAGGGACAACTCAAACTTTATTGC
66 CCTTAGAGGGACAACTCAAACTTTATTGC
*
48643 ATAGTATAATTACCTTTATCAGGCTAGCTAAATATTATTCATAAAGCCG-GAGCGTTTAACCAAT
1 ATA-TATAATTACCTTTATCAGGCTAGCTAAATATTATCCATAAAGCCGAG-GCGTTTAACCAAT
* *
48707 TG-CTCTAGAGGGACAACTCAAGCTTTATTGT
64 TGCCT-TAGAGGGACAACTCAAACTTTATTGC
48738 ATATATA
1 ATATATA
48745 TAATATTATA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
94 10 0.11
95 81 0.89
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (94 bp):
ATATATAATTACCTTTATCAGGCTAGCTAAATATTATCCATAAAGCCGAGGCGTTTAACCAATTG
CCTTAGAGGGACAACTCAAACTTTATTGC
Found at i:49264 original size:29 final size:29
Alignment explanation
Indices: 49222--49278 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
49212 GAAATATCCA
* *
49222 AAGAACGTTC-AAAAACAAGTTCCAAACAT
1 AAGAAAGTTCAAAAAACAAATT-CAAACAT
49251 AAGAAAGTTCAAAAAACAAATTCAAACA
1 AAGAAAGTTCAAAAAACAAATTCAAACA
49279 AGACGCCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.58, C:0.18, G:0.09, T:0.16
Consensus pattern (29 bp):
AAGAAAGTTCAAAAAACAAATTCAAACAT
Found at i:53732 original size:34 final size:34
Alignment explanation
Indices: 53694--53758 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
53684 TTAAAACTTT
*
53694 ATATAATATAT-ATTTCAAAGATATTTTCAAAACC
1 ATATAATATATAATTT-AAAAATATTTTCAAAACC
* *
53728 ATATATTATATAATTTAAAAATGTTTTCAAA
1 ATATAATATATAATTTAAAAATATTTTCAAA
53759 CTATATGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 23 0.85
35 4 0.15
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.42
Consensus pattern (34 bp):
ATATAATATATAATTTAAAAATATTTTCAAAACC
Found at i:53850 original size:36 final size:35
Alignment explanation
Indices: 53676--54025 Score: 288
Period size: 36 Copynumber: 9.8 Consensus size: 35
53666 TATAAAGAAA
* *
53676 AAAATG-TTTTAAAACTTTATATAATAT-ATATTTC
1 AAAATGTTTTTAAAACTATATATTATATAAT-TTTC
* * * *
53710 AAAGATATTTTCAAAACCATATATTATATAA-TTTA
1 AAA-ATGTTTTTAAAACTATATATTATATAATTTTC
* * *
53745 AAAATG-TTTTCAAACTATAT-GT-TATAGTTTTC
1 AAAATGTTTTTAAAACTATATATTATATAATTTTC
* ** *
53777 AAAAACG-TTTTAAAA-T-TATATTATATGTTTTTA
1 -AAAATGTTTTTAAAACTATATATTATATAATTTTC
*
53810 AAAATGTTTTTTAAAACTATATATTATATAAATTTC
1 AAAATG-TTTTTAAAACTATATATTATATAATTTTC
*
53846 AAAATGATTTTAAAACTATATATTATATAAGTTTTC
1 AAAATGTTTTTAAAACTATATATTATATAA-TTTTC
** *
53882 AAAATGGATTTAAAATCTATATATTATATATGTTTTC
1 AAAATGTTTTTAAAA-CTATATATTATATA-ATTTTC
* * *
53919 TAAAAACGTTTTAAAAACTATATATTATATAGTTTTC
1 --AAAATGTTTTTAAAACTATATATTATATAATTTTC
53956 AAAGGTAT-TTTTTAAAACTATATATTATATATATTTTC
1 AAA---ATGTTTTTAAAACTATATATTATATA-ATTTTC
*
53994 AAAATGTTTTTTTAAAAATCATATATTATATA
1 AAAATG--TTTTTAAAACT-ATATATTATATA
54026 CGTATTTTTC
Statistics
Matches: 255, Mismatches: 37, Indels: 43
0.76 0.11 0.13
Matches are distributed among these distances:
31 7 0.03
32 11 0.04
33 30 0.12
34 13 0.05
35 37 0.15
36 53 0.21
37 48 0.19
38 33 0.13
39 23 0.09
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (35 bp):
AAAATGTTTTTAAAACTATATATTATATAATTTTC
Found at i:54398 original size:189 final size:189
Alignment explanation
Indices: 54078--54453 Score: 734
Period size: 189 Copynumber: 2.0 Consensus size: 189
54068 ATATATATAC
54078 GTGTGTGTATAAAAAGAAAATAAAATAAAATAAATATGGACGAAAATGAGTGTCTACACTTACTA
1 GTGTGTGTATAAAAAGAAAATAAAATAAAATAAATATGGACGAAAATGAGTGTCTACACTTACTA
*
54143 ATCATACTACAGGTTTACAACTATGCATCTAGAGATTAATATTAAATCTACATCCAAGTAGTTAG
66 ATCATACTACAAGTTTACAACTATGCATCTAGAGATTAATATTAAATCTACATCCAAGTAGTTAG
54208 TTACATCAAATAAGACGTGGGAGATGCAGCCATACAAACAAAATCATGTAACTAAATGA
131 TTACATCAAATAAGACGTGGGAGATGCAGCCATACAAACAAAATCATGTAACTAAATGA
54267 GTGTGTGTATAAAAAGAAAATAAAATAAAATAAATATGGACGAAAATGAGTGTCTACACTTACTA
1 GTGTGTGTATAAAAAGAAAATAAAATAAAATAAATATGGACGAAAATGAGTGTCTACACTTACTA
54332 ATCATACTACAAGTTTACAACTATGCATCTAGAGATTAATATTAAATCTACATCCAAGTAGTTAG
66 ATCATACTACAAGTTTACAACTATGCATCTAGAGATTAATATTAAATCTACATCCAAGTAGTTAG
*
54397 TTACATCAAATAAGACGTGGGAGATGCAGCCATACAAACAAAATCCTGTAACTAAAT
131 TTACATCAAATAAGACGTGGGAGATGCAGCCATACAAACAAAATCATGTAACTAAAT
54454 ACAAACCACA
Statistics
Matches: 185, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
189 185 1.00
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (189 bp):
GTGTGTGTATAAAAAGAAAATAAAATAAAATAAATATGGACGAAAATGAGTGTCTACACTTACTA
ATCATACTACAAGTTTACAACTATGCATCTAGAGATTAATATTAAATCTACATCCAAGTAGTTAG
TTACATCAAATAAGACGTGGGAGATGCAGCCATACAAACAAAATCATGTAACTAAATGA
Found at i:57646 original size:43 final size:43
Alignment explanation
Indices: 57589--57695 Score: 207
Period size: 43 Copynumber: 2.5 Consensus size: 43
57579 AAATATTATT
57589 TTTAG-TTATTATTATTTTATTAGGAATTAGAGTTAAGACATG
1 TTTAGTTTATTATTATTTTATTAGGAATTAGAGTTAAGACATG
57631 TTTAGTTTATTATTATTTTATTAGGAATTAGAGTTAAGACATG
1 TTTAGTTTATTATTATTTTATTAGGAATTAGAGTTAAGACATG
57674 TTTAGTTTATTATTATTTTATT
1 TTTAGTTTATTATTATTTTATT
57696 CATTAGTTAT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 5 0.08
43 59 0.92
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.53
Consensus pattern (43 bp):
TTTAGTTTATTATTATTTTATTAGGAATTAGAGTTAAGACATG
Found at i:57967 original size:50 final size:48
Alignment explanation
Indices: 57890--57984 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 48
57880 CACACTCCAA
* *
57890 TTTGCCTTTTCATCGCGACTAGAAGGGTTGGTTAGAACCATATTATCGAG
1 TTTGCCTTTTCATCGCGACTAGAAGGGTTCGATAGAA-CA-ATTATCGAG
* *
57940 TTTGCCTTTTCATTGCGACTAGGAGGGTTCGATAGAACAATTATC
1 TTTGCCTTTTCATCGCGACTAGAAGGGTTCGATAGAACAATTATC
57985 CATCTATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 6 0.15
49 2 0.05
50 33 0.80
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (48 bp):
TTTGCCTTTTCATCGCGACTAGAAGGGTTCGATAGAACAATTATCGAG
Found at i:64914 original size:35 final size:35
Alignment explanation
Indices: 64867--64952 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
64857 AAAACAGTCA
* * *
64867 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
64902 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
*
64937 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
64953 ATACTTCAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:64946 original size:21 final size:21
Alignment explanation
Indices: 64921--64963 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
64911 TTCTAAACCC
64921 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
64942 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
64963 T
1 T
64964 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:65117 original size:16 final size:18
Alignment explanation
Indices: 65085--65118 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
65075 TATTAATGTA
65085 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
65103 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
65119 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:65791 original size:130 final size:130
Alignment explanation
Indices: 65588--65835 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
65578 AATTTTCTTC
* * *
65588 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
*
65653 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
65718 TAATTAGGTGGTAACACGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
65783 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
65836 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (130 bp):
TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:67135 original size:2 final size:2
Alignment explanation
Indices: 67128--67158 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
67118 TTAATAGGCC
67128 AT AT AT 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 AT AT AT A
67159 CTAGATGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:70612 original size:20 final size:21
Alignment explanation
Indices: 70587--70638 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
70577 TTTTCCCAAT
*
70587 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
70607 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
70628 TCGCAATGCGA
1 TCGCAATGCGA
70639 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:70652 original size:20 final size:20
Alignment explanation
Indices: 70627--70740 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
70617 AATTGGGAAA
*
70627 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
70647 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
70667 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
70688 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
70708 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
70728 TTCGCAACGCGAT
1 ATCGCAACGCGAT
70741 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:70671 original size:61 final size:61
Alignment explanation
Indices: 70624--70740 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
70614 GCGAATTGGG
* * * * *
70624 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
70685 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
70741 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:71317 original size:19 final size:19
Alignment explanation
Indices: 71257--71337 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
71247 TTCGAGAATG
71257 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
** *
71277 ACTATCGCAA--CGAGAT-
1 AAAATCGCAACGCGAAATA
71293 --AATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
71310 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
71329 AAAATCGCA
1 AAAATCGCA
71338 TTGCGATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.14
16 5 0.10
17 4 0.08
18 1 0.02
19 24 0.49
20 8 0.16
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:71355 original size:19 final size:19
Alignment explanation
Indices: 71333--71442 Score: 157
Period size: 19 Copynumber: 5.7 Consensus size: 19
71323 GAAACCAAAA
71333 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
71352 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
71371 TCGCGTTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
*
71390 TCGCAGTTGCGATTTTTATT
1 TCGCA-TTGCGATTTTCATT
71410 TCGCAGTTGCGATTTTCATT
1 TCGCA-TTGCGATTTTCATT
*
71430 TCGCGTTGCGATT
1 TCGCATTGCGATT
71443 GTCTAGTCGC
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
19 48 0.56
20 37 0.44
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:71398 original size:20 final size:19
Alignment explanation
Indices: 71333--71537 Score: 187
Period size: 20 Copynumber: 11.1 Consensus size: 19
71323 GAAACCAAAA
*
71333 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
71352 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
71371 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
*
71390 TCGCAGTTGCGATTTTTATT
1 TCGC-GTTGCGATTTTCATT
71410 TCGCAGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
71430 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* * **
71446 T--AGTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
71463 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
71477 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
71496 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
71516 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
71536 TC
1 TC
71538 AACCAAAAGA
Statistics
Matches: 156, Mismatches: 17, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
14 20 0.13
16 3 0.02
17 3 0.02
19 60 0.38
20 69 0.44
21 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:71431 original size:59 final size:57
Alignment explanation
Indices: 71333--71442 Score: 193
Period size: 59 Copynumber: 1.9 Consensus size: 57
71323 GAAACCAAAA
71333 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTTATT
1 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTTATT
*
71390 TCGCAGTTGCGATTTTTATTTCGCAGTTGCGATTTTCATTTCGCGTTGCGATT
1 TCGCA-TTGCGATTTTCATTTCGC-GTTGCGATTTTCATTTCGCGTTGCGATT
71443 GTCTAGTCGC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
57 5 0.10
58 17 0.34
59 28 0.56
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (57 bp):
TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTTATT
Found at i:71462 original size:33 final size:33
Alignment explanation
Indices: 71425--71512 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
71415 GTTGCGATTT
*
71425 TCATTTCGCGTTGCGATTGTCTAGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTAGTCGCGATAG
* *
71458 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTAGTCGCGATAG
71491 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
71513 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTAGTCGCGATAG
Found at i:73619 original size:42 final size:42
Alignment explanation
Indices: 73539--73661 Score: 106
Period size: 42 Copynumber: 2.9 Consensus size: 42
73529 GCCCGACTCG
* * * *
73539 CCTATCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCC
1 CCTATCATACCTCAAGAGTCCACTCCCACCATTCAAGAGGCC
* * *
73581 CCTATCATACCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATACCTCAAGAGTCCACTCCCACCATTCAAGAGGCC
* * * * *
73623 ACTGTCAT-CGTTGAAGAGGT-CTCTCCCACCATTCAAGAG
1 CCTATCATAC-CTCAAGA-GTCCACTCCCACCATTCAAGAG
73662 CCCGATTCAC
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
41 1 0.02
42 62 0.95
43 2 0.03
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.23
Consensus pattern (42 bp):
CCTATCATACCTCAAGAGTCCACTCCCACCATTCAAGAGGCC
Found at i:75039 original size:14 final size:14
Alignment explanation
Indices: 75020--75055 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
75010 ATTGTTTAAT
75020 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
75034 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
75048 TGATTTGT
1 TGATTTGT
75056 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:75205 original size:19 final size:19
Alignment explanation
Indices: 75181--75239 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
75171 GAAATTAGCG
75181 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
75200 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
75214 TTGCGATTTTCATTTTGCA
1 TTGCGATTTTCATTTCGCA
75233 TTGCGAT
1 TTGCGAT
75240 AGTAATTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 6 0.19
16 7 0.22
17 6 0.19
19 13 0.41
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:75205 original size:33 final size:34
Alignment explanation
Indices: 75162--75238 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 34
75152 AAAAGTACTA
*
75162 TCGCAATGCGAAAT-TAGCGTTGCGATTTTCATT
1 TCGCATTGCGAAATCTAGCGTTGCGATTTTCATT
* **
75195 TCGCATTGCG-ATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATCTAGCGTTGCGATTTTCATT
*
75228 TTGCATTGCGA
1 TCGCATTGCGA
75239 TAGTAATTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 2 0.05
33 35 0.95
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (34 bp):
TCGCATTGCGAAATCTAGCGTTGCGATTTTCATT
Found at i:77547 original size:12 final size:12
Alignment explanation
Indices: 77530--77554 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77520 TCTTCGGGGA
77530 CTTTTTCTTCTT
1 CTTTTTCTTCTT
77542 CTTTTTCTTCTT
1 CTTTTTCTTCTT
77554 C
1 C
77555 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:80403 original size:14 final size:14
Alignment explanation
Indices: 80384--80441 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
80374 ATGCGAAATG
80384 AAAATCGCAACGAT
1 AAAATCGCAACGAT
80398 AAAATCGCAACGCGAAAT
1 AAAATCGCAA--CG--AT
* *
80416 GAAATCGCAACGAC
1 AAAATCGCAACGAT
80430 AAAATCGCAACG
1 AAAATCGCAACG
80442 CGAAACACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 22 0.59
16 4 0.11
18 11 0.30
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAT
Found at i:80426 original size:32 final size:33
Alignment explanation
Indices: 80368--80446 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
80358 GGAAATGGCT
* *
80368 ATCGCAATGCGAAATGAAAATCGCAACGATAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
80401 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
80433 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
80447 CACAAATCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 29 0.66
33 15 0.34
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:80494 original size:14 final size:14
Alignment explanation
Indices: 80475--80532 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
80465 TTTCATTTCG
*
80475 CGTTGCAATTTTGT
1 CGTTGCGATTTTGT
*
80489 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
80505 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
80521 CGTTGCGATTTT
1 CGTTGCGATTTT
80533 TATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:80543 original size:33 final size:33
Alignment explanation
Indices: 80458--80548 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
80448 ACAAATCGCA
* *
80458 TTGCGATTTTCATTTCGCGTTGCAATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
80491 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
80523 TTGCGATTTTTATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
80549 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:80556 original size:19 final size:20
Alignment explanation
Indices: 80534--80576 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
80524 TGCGATTTTT
80534 ATTT-CGCATTGCGATAGCC
1 ATTTCCGCATTGCGATAGCC
* *
80553 ATTTCCGCGTTGCGATAGTC
1 ATTTCCGCATTGCGATAGCC
80573 ATTT
1 ATTT
80577 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (20 bp):
ATTTCCGCATTGCGATAGCC
Found at i:80567 original size:20 final size:20
Alignment explanation
Indices: 80542--80587 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
80532 TTATTTCGCA
80542 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
80562 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
80582 TTGCGA
1 TTGCGA
80588 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:81089 original size:18 final size:18
Alignment explanation
Indices: 81063--81107 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
81053 GTCGATCAGA
*
81063 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
81081 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
81099 TGATGGCTC
1 TGATGGCTC
81108 CTGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:82103 original size:14 final size:14
Alignment explanation
Indices: 82084--82139 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
82074 CGTTCGTGAA
82084 CGTTCGATTATGTT
1 CGTTCGATTATGTT
*
82098 CGTTCGGTTATG-T
1 CGTTCGATTATGTT
*
82111 --TT-GTTTATGTT
1 CGTTCGATTATGTT
82122 CGTTCGATTATGTT
1 CGTTCGATTATGTT
82136 CGTT
1 CGTT
82140 TATGTTCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 6 0.17
11 3 0.09
13 3 0.09
14 23 0.66
ACGTcount: A:0.11, C:0.12, G:0.23, T:0.54
Consensus pattern (14 bp):
CGTTCGATTATGTT
Found at i:82118 original size:24 final size:24
Alignment explanation
Indices: 82091--82160 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
82081 GAACGTTCGA
*
82091 TTATGTTCGTTCGGTTATGTTTGT
1 TTATGTTCGTTCGATTATGTTTGT
*
82115 TTATGTTCGTTCGATTATGTTCGT
1 TTATGTTCGTTCGATTATGTTTGT
*
82139 TTATGTTCATTC-ATTTATGTTT
1 TTATGTTCGTTCGA-TTATGTTT
82161 AACTCAATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.02
24 40 0.98
ACGTcount: A:0.13, C:0.10, G:0.19, T:0.59
Consensus pattern (24 bp):
TTATGTTCGTTCGATTATGTTTGT
Found at i:82899 original size:10 final size:10
Alignment explanation
Indices: 82884--82958 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
82874 GGGTCTCCAA
82884 CGTTTATGTT
1 CGTTTATGTT
82894 CGTTTATGTT
1 CGTTTATGTT
82904 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
82915 ATGTTCGTGTT
1 -CGTTTATGTT
82926 CGTTTATGTT
1 CGTTTATGTT
82936 CG----TGTT
1 CGTTTATGTT
82942 CGTTTATGTT
1 CGTTTATGTT
82952 CGTTTAT
1 CGTTTAT
82959 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:82915 original size:16 final size:16
Alignment explanation
Indices: 82890--82954 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
82880 CCAACGTTTA
82890 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
82906 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
82922 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
82938 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
82954 T
1 T
82955 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:83046 original size:16 final size:16
Alignment explanation
Indices: 83025--83057 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
83015 AAAAAAATTT
83025 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
83041 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
83057 T
1 T
83058 CTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:83674 original size:20 final size:20
Alignment explanation
Indices: 83649--83686 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
83639 AATAGTTTCT
83649 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
83669 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
83687 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:83975 original size:22 final size:22
Alignment explanation
Indices: 83948--83991 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
83938 GATGGAGATA
83948 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
83970 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
83992 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:84204 original size:20 final size:20
Alignment explanation
Indices: 84179--84272 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
84169 GATTATGTAT
84179 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
84199 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
84219 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
84240 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
84260 TATCGCATTGCGA
1 TATCGCGTTGCGA
84273 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:84273 original size:20 final size:20
Alignment explanation
Indices: 84159--84273 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
84149 CGCTTTGAAA
*
84159 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
84180 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
84200 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
84220 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
84241 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
84261 ATCGCATTGCGAT
1 ATCGCATTGCGAT
84274 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:84291 original size:21 final size:21
Alignment explanation
Indices: 84262--84354 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
84252 ATAGTCAGTA
84262 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
84283 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
84303 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
84324 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
84344 TCGCATTGCGA
1 TCGCATTGCGA
84355 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:84292 original size:41 final size:41
Alignment explanation
Indices: 84201--84335 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
84191 AAAGTCAGTA
* * * ** *
84201 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
84241 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
84283 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
84324 TCGCGTTGCGAT
1 TCGCGTTGCGAT
84336 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:84336 original size:41 final size:41
Alignment explanation
Indices: 84262--84354 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
84252 ATAGTCAGTA
84262 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
84303 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
84344 TCGCATTGCGA
1 TCGCATTGCGA
84355 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:93175 original size:23 final size:23
Alignment explanation
Indices: 93129--93175 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
93119 AAATATATAT
* *
93129 ATATAAATATAATAGTGACTAAA
1 ATATAAATATAATAATGACGAAA
93152 ATATAAATATATATAAT-ACGAAA
1 ATATAAATATA-ATAATGACGAAA
93175 A
1 A
93176 CCAAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (23 bp):
ATATAAATATAATAATGACGAAA
Found at i:94919 original size:20 final size:20
Alignment explanation
Indices: 94894--95019 Score: 162
Period size: 20 Copynumber: 6.3 Consensus size: 20
94884 CGAAAGACTG
* *
94894 ACAAATGACCCAAAGGATTT
1 ACAAATGACCCGAAGGTTTT
* *
94914 ACAAATGGCCTGAAGGTTTT
1 ACAAATGACCCGAAGGTTTT
*
94934 ACAAATTACCCGAAGGTTTT
1 ACAAATGACCCGAAGGTTTT
*
94954 ACAAATGACTCGAAGGTTTT
1 ACAAATGACCCGAAGGTTTT
*
94974 ACAAATTACCCGAAGGTTTT
1 ACAAATGACCCGAAGGTTTT
* * *
94994 ACAAATGACTCGGAGGCTTT
1 ACAAATGACCCGAAGGTTTT
95014 ACAAAT
1 ACAAAT
95020 TTGTGGGAAA
Statistics
Matches: 91, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 91 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (20 bp):
ACAAATGACCCGAAGGTTTT
Found at i:94955 original size:40 final size:41
Alignment explanation
Indices: 94894--95020 Score: 179
Period size: 40 Copynumber: 3.2 Consensus size: 41
94884 CGAAAGACTG
* * * *
94894 ACAAATGACCCAAAGGATTTACAAATGGCCT-GAAGGTTTT
1 ACAAATTACCCGAAGGTTTTACAAATGGACTCGAAGGTTTT
94934 ACAAATTACCCGAAGGTTTTACAAAT-GACTCGAAGGTTTT
1 ACAAATTACCCGAAGGTTTTACAAATGGACTCGAAGGTTTT
* *
94974 ACAAATTACCCGAAGGTTTTACAAAT-GACTCGGAGGCTTT
1 ACAAATTACCCGAAGGTTTTACAAATGGACTCGAAGGTTTT
95014 ACAAATT
1 ACAAATT
95021 TGTGGGAAAT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 3 0.04
40 77 0.96
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (41 bp):
ACAAATTACCCGAAGGTTTTACAAATGGACTCGAAGGTTTT
Found at i:99516 original size:47 final size:46
Alignment explanation
Indices: 99416--99516 Score: 134
Period size: 46 Copynumber: 2.2 Consensus size: 46
99406 AAACCAATTA
* * * *
99416 AAAAAT-ATCCTAACCTCATGCTTTCTAGTTCCATGCTTTGTTTAG
1 AAAAATAAACCTAACCACATGATTTCTAGTTCCATGCTTTATTTAG
99461 AAAAATAAACCTAACCACATGATTTCTAGTTCACATGCATTTATTTAG
1 AAAAATAAACCTAACCACATGATTTCTAGTTC-CATGC-TTTATTTAG
99509 -AAAATAAA
1 AAAAATAAA
99517 ATAATATTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
45 6 0.12
46 22 0.45
47 13 0.27
48 8 0.16
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.35
Consensus pattern (46 bp):
AAAAATAAACCTAACCACATGATTTCTAGTTCCATGCTTTATTTAG
Found at i:100552 original size:14 final size:14
Alignment explanation
Indices: 100521--100560 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
100511 TTAAGATATA
100521 AATATAAATATT-T
1 AATATAAATATTAT
100534 AATATAAATATTAT
1 AATATAAATATTAT
*
100548 AATATTAATATTA
1 AATATAAATATTA
100561 AAATCATATC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AATATAAATATTAT
Done.