Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 84 of 373
Found at i:26416594 original size:40 final size:40
Alignment explanation
Indices: 26416547--26416691 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
26416537 CTCGCACAAG
* * * *
26416547 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAACCCGGATATAGTCGCTAGCACAAAT
*
26416587 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAACCCGGATATAGTCGCTAGCACAAAT
* * *
26416627 GCCTTC-GGATCTTAATCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAACCCGGATATAGTCGC-TAGCACAAAT
*
26416668 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAACCCGGATAT
26416692 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 26 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGATATAGTCGCTAGCACAAAT
Found at i:26437458 original size:58 final size:58
Alignment explanation
Indices: 26437390--26437509 Score: 222
Period size: 58 Copynumber: 2.1 Consensus size: 58
26437380 TATCACATAC
*
26437390 AAGGCCAGACATAGTTTTTGCAGTGAGCTTAGTGAGTCAATTTATGCACTCCCCAATG
1 AAGGCCAGACATAGTTTTCGCAGTGAGCTTAGTGAGTCAATTTATGCACTCCCCAATG
*
26437448 AAGGCTAGACATAGTTTTCGCAGTGAGCTTAGTGAGTCAATTTATGCACTCCCCAATG
1 AAGGCCAGACATAGTTTTCGCAGTGAGCTTAGTGAGTCAATTTATGCACTCCCCAATG
26437506 AAGG
1 AAGG
26437510 AACATGAAGA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (58 bp):
AAGGCCAGACATAGTTTTCGCAGTGAGCTTAGTGAGTCAATTTATGCACTCCCCAATG
Found at i:26438798 original size:16 final size:16
Alignment explanation
Indices: 26438779--26438809 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26438769 CTTCTTCACT
26438779 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
26438795 TACTTACTTACTTAA
1 TACTCACTTACTTAA
26438810 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:26438815 original size:20 final size:20
Alignment explanation
Indices: 26438776--26438815 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
26438766 AAACTTCTTC
* *
26438776 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
26438796 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
26438816 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:26439182 original size:55 final size:54
Alignment explanation
Indices: 26439000--26439254 Score: 238
Period size: 55 Copynumber: 4.8 Consensus size: 54
26438990 ACACTGGTAC
* * * * * *
26439000 CTTACCATTGCCATGACTTGTCATGGTCGTACGTGGTATCCTT---TT-GA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * ** **
26439049 CTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTGTTTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * * *
26439102 CTCATCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AA
* * *
26439157 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
*
26439210 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
26439255 AAACCCTAAT
Statistics
Matches: 170, Mismatches: 25, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
49 37 0.22
52 4 0.02
53 41 0.24
54 8 0.05
55 78 0.46
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
Found at i:26439191 original size:108 final size:110
Alignment explanation
Indices: 26439047--26439247 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
26439037 ATCCTTTTGA
* ** *
26439047 AACTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTGTTTTATG-AA-CTCATCAA
1 AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTCACCAA
26439110 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
26439155 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
26439220 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
26439248 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.57
109 6 0.07
110 28 0.34
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:26441051 original size:19 final size:19
Alignment explanation
Indices: 26441005--26441052 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
26440995 GTATATATTT
26441005 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
26441023 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
26441042 TAAGTTTTATT
1 TAAATTTTATT
26441053 AATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:26441153 original size:41 final size:42
Alignment explanation
Indices: 26441075--26441157 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 42
26441065 ATATTTTATT
* *
26441075 TTATCTTTTAGTAATTTATTAGAACAAGGAAACTATTTTCCC
1 TTATCTTTTAGTAAGTTATTAAAACAAGGAAACTATTTTCCC
* * * *
26441117 TTATGTTTTAGT-AGTTATTAAAATAAGGGAATTATTTTCCC
1 TTATCTTTTAGTAAGTTATTAAAACAAGGAAACTATTTTCCC
26441158 AATTAGGATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
41 24 0.69
42 11 0.31
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.45
Consensus pattern (42 bp):
TTATCTTTTAGTAAGTTATTAAAACAAGGAAACTATTTTCCC
Found at i:26443679 original size:21 final size:21
Alignment explanation
Indices: 26443653--26443692 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
26443643 TTAAAATTTT
26443653 GTTGACAAGCTAATTCTATCC
1 GTTGACAAGCTAATTCTATCC
*
26443674 GTTGACATGCTAATTCTAT
1 GTTGACAAGCTAATTCTAT
26443693 ACAAATCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (21 bp):
GTTGACAAGCTAATTCTATCC
Found at i:26457096 original size:47 final size:47
Alignment explanation
Indices: 26456757--26457125 Score: 237
Period size: 49 Copynumber: 7.8 Consensus size: 47
26456747 TAGAGTATGA
* * * *
26456757 TGCCAATGCCATGTCCTAGACATAGTCTTACACTGGCTCATCTATCAA-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TC-AT-AATG
* * * *
26456806 T--CGATGCCATGTCCCAGACATGGTATTACACTATCTATCAAAATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT---G
** * * *
26456854 -GCCGACACCATGTCCCAGACATGGTCTTATACTAACTATCGA-AATTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-ATAA-TG
* * ** * *
26456901 AGGCTGACACCATGTCCCAGACATGGTCTTACACTAGCCCTCACATATCCG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-AT--G
* * * *
26456952 TGCAGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-CTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-G
*
26456997 TAGCCGATG-CATGTCCCAGACAT-GTCTTGCACTAGCTCTCATCTCAA--
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA--T-AATG
*
26457044 TGCCGATGCCAT-TCCCAGACATGGTCTTACACTGGCTCTCATAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATG
*
26457090 TGGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
26457126 CCACAAATAA
Statistics
Matches: 258, Mismatches: 35, Indels: 57
0.74 0.10 0.16
Matches are distributed among these distances:
44 13 0.05
45 20 0.08
46 45 0.17
47 66 0.26
48 6 0.02
49 74 0.29
50 33 0.13
51 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATG
Found at i:26457114 original size:93 final size:92
Alignment explanation
Indices: 26456911--26457130 Score: 264
Period size: 93 Copynumber: 2.3 Consensus size: 92
26456901 AGGCTGACAC
**
26456911 CATGTCCCAGACATGGTCTTACACTAGCCCTCACATATCCGTGCAGATGCCATGTCCCAGACATG
1 CATGTCCCAGACAT-GTCTTACACTAG--CTCACATATCAATGCAGATGCCATGTCCCAGACATG
26456976 GTCTTACACTGACACATCTCGTAGCCGATG
63 GTCTTACACTGACACATCTCGTAGCCGATG
* * * *
26457006 CATGTCCCAGACATGTCTTGCACTAGCTCTCATCTCAATGCCGATGCCAT-TCCCAGACATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCTCACATATCAATGCAGATGCCATGTCCCAGACATGGTC
* * * *
26457070 TTACACTGGCTC-TCATAATGTGGCCGATG
66 TTACACTGACACATC-T--CGTAGCCGATG
* *
26457099 CATGTCCCAAACATGTCTTACACTAGCCCACA
1 CATGTCCCAGACATGTCTTACACTAGCTCACA
26457131 AATAACCCGA
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
90 2 0.02
91 25 0.23
92 19 0.18
93 37 0.34
94 11 0.10
95 14 0.13
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTAGCTCACATATCAATGCAGATGCCATGTCCCAGACATGGTC
TTACACTGACACATCTCGTAGCCGATG
Found at i:26466065 original size:17 final size:18
Alignment explanation
Indices: 26466043--26466083 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
26466033 CATTTCTTTT
26466043 TCTTTTGAATCACTC-TC
1 TCTTTTGAATCACTCATC
**
26466060 TCTTTTTTATCACTCATC
1 TCTTTTGAATCACTCATC
26466078 T-TTTTG
1 TCTTTTG
26466084 TTTTTCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.15, C:0.24, G:0.05, T:0.56
Consensus pattern (18 bp):
TCTTTTGAATCACTCATC
Found at i:26468313 original size:13 final size:12
Alignment explanation
Indices: 26468292--26468337 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
26468282 AGACCGTATG
26468292 CAATTTTTTTTT
1 CAATTTTTTTTT
26468304 CAATTTTTTTTT
1 CAATTTTTTTTT
*
26468316 CGATTTTTTTTT
1 CAATTTTTTTTT
*
26468328 -GATTTTTTTT
1 CAATTTTTTTT
26468338 GAATCTACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 10 0.30
12 23 0.70
ACGTcount: A:0.13, C:0.07, G:0.04, T:0.76
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:26468322 original size:10 final size:11
Alignment explanation
Indices: 26468296--26468337 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
26468286 CGTATGCAAT
*
26468296 TTTTTTTTCAA
1 TTTTTTTTCGA
26468307 TTTTTTTTTCGA
1 -TTTTTTTTCGA
*
26468319 TTTTTTTTTGA
1 TTTTTTTTCGA
26468330 TTTTTTTT
1 TTTTTTTT
26468338 GAATCTACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.81
Consensus pattern (11 bp):
TTTTTTTTCGA
Found at i:26474993 original size:22 final size:21
Alignment explanation
Indices: 26474959--26475001 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
26474949 GGCTGTTAAA
*
26474959 AAAAGGAGCTTAAAGATCATT
1 AAAAGGAGCTTAAAGAGCATT
*
26474980 AAAAGGAGTTTTAAAGAGCATT
1 AAAAGGAG-CTTAAAGAGCATT
26475002 TTATGCCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.47, C:0.07, G:0.21, T:0.26
Consensus pattern (21 bp):
AAAAGGAGCTTAAAGAGCATT
Found at i:26475862 original size:12 final size:12
Alignment explanation
Indices: 26475845--26475890 Score: 92
Period size: 12 Copynumber: 3.8 Consensus size: 12
26475835 TAGTTTCTTC
26475845 AAAAAAAATTCA
1 AAAAAAAATTCA
26475857 AAAAAAAATTCA
1 AAAAAAAATTCA
26475869 AAAAAAAATTCA
1 AAAAAAAATTCA
26475881 AAAAAAAATT
1 AAAAAAAATT
26475891 GGTTTCCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:26475948 original size:16 final size:16
Alignment explanation
Indices: 26475927--26475982 Score: 96
Period size: 15 Copynumber: 3.5 Consensus size: 16
26475917 GATATCAAGT
26475927 TGAAAAAAAAAATTCG
1 TGAAAAAAAAAATTCG
26475943 TG-AAAAAAAAATTCG
1 TGAAAAAAAAAATTCG
26475958 TGAAAAAAAAAATTTCG
1 TGAAAAAAAAAA-TTCG
26475975 TGAAAAAA
1 TGAAAAAA
26475983 GAAGAAGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
15 15 0.39
16 11 0.29
17 12 0.32
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.20
Consensus pattern (16 bp):
TGAAAAAAAAAATTCG
Found at i:26475951 original size:17 final size:17
Alignment explanation
Indices: 26475929--26475982 Score: 85
Period size: 17 Copynumber: 3.3 Consensus size: 17
26475919 TATCAAGTTG
26475929 AAAAAAAAAATTCGTG-
1 AAAAAAAAAATTCGTGA
26475945 -AAAAAAAAATTCGTGA
1 AAAAAAAAAATTCGTGA
*
26475961 AAAAAAAAATTTCGTGA
1 AAAAAAAAAATTCGTGA
26475978 AAAAA
1 AAAAA
26475983 GAAGAAGCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
15 15 0.43
17 20 0.57
ACGTcount: A:0.65, C:0.06, G:0.11, T:0.19
Consensus pattern (17 bp):
AAAAAAAAAATTCGTGA
Found at i:26482193 original size:46 final size:46
Alignment explanation
Indices: 26482141--26482234 Score: 163
Period size: 46 Copynumber: 2.0 Consensus size: 46
26482131 ATAGTGTGGC
*
26482141 GTTCATCATATACCAAGGTTCTTATCA-TCATTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATTC-TTGATAGTGGGTCGAG
26482187 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
26482233 GT
1 GT
26482235 CTTTTCTTTG
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 44 0.96
47 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
Found at i:26482568 original size:11 final size:12
Alignment explanation
Indices: 26482547--26482581 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
26482537 ATAGTAGTTT
26482547 CTCGAAAAAAAA
1 CTCGAAAAAAAA
26482559 CTCGAAAAAAAA
1 CTCGAAAAAAAA
*
26482571 TTC-AAAAAAAA
1 CTCGAAAAAAAA
26482582 AACTAGTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.69, C:0.14, G:0.06, T:0.11
Consensus pattern (12 bp):
CTCGAAAAAAAA
Found at i:26482639 original size:13 final size:13
Alignment explanation
Indices: 26482621--26482660 Score: 71
Period size: 13 Copynumber: 3.0 Consensus size: 13
26482611 GGATATCAAG
26482621 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
26482634 TTGTGAAAAAAAAA
1 TTGTG-AAAAAAAA
26482648 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
26482661 AGAGAGCTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (13 bp):
TTGTGAAAAAAAA
Found at i:26482645 original size:14 final size:14
Alignment explanation
Indices: 26482621--26482661 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
26482611 GGATATCAAG
26482621 TTGTG-AAAAAAAA
1 TTGTGAAAAAAAAA
26482634 TTGTGAAAAAAAAA
1 TTGTGAAAAAAAAA
26482648 TTGTGAAAAAAAAA
1 TTGTGAAAAAAAAA
26482662 GAGAGCTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 5 0.19
14 22 0.81
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.22
Consensus pattern (14 bp):
TTGTGAAAAAAAAA
Found at i:26486814 original size:46 final size:46
Alignment explanation
Indices: 26486762--26486855 Score: 163
Period size: 46 Copynumber: 2.0 Consensus size: 46
26486752 ATAGTGTGGC
*
26486762 GTTCATCATATACCAAGGTTCTTATCA-TCATTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATTC-TTGATAGTGGGTCGAG
26486808 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
26486854 GT
1 GT
26486856 CTTTTCTTTG
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 44 0.96
47 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
Found at i:26488132 original size:13 final size:14
Alignment explanation
Indices: 26488114--26488151 Score: 62
Period size: 12 Copynumber: 2.9 Consensus size: 14
26488104 TGGTAGTTTC
26488114 TTCAAAAAAAAAT-
1 TTCAAAAAAAAATA
26488127 TTC-AAAAAAAATA
1 TTCAAAAAAAAATA
26488140 TTCAAAAAAAAA
1 TTCAAAAAAAAA
26488152 ATTGGTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.39
13 6 0.26
14 8 0.35
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (14 bp):
TTCAAAAAAAAATA
Found at i:26488136 original size:14 final size:14
Alignment explanation
Indices: 26488117--26488154 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
26488107 TAGTTTCTTC
26488117 AAAAAAAAATTTCA
1 AAAAAAAAATTTCA
*
26488131 AAAAAAATA-TTCA
1 AAAAAAAAATTTCA
26488144 AAAAAAAAATT
1 AAAAAAAAATT
26488155 GGTTTCCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAAAAAATTTCA
Found at i:26488211 original size:15 final size:15
Alignment explanation
Indices: 26488191--26488248 Score: 89
Period size: 16 Copynumber: 3.7 Consensus size: 15
26488181 GATATCAAGT
26488191 TGAAAAAAAAATTCG
1 TGAAAAAAAAATTCG
*
26488206 TGAAAAAAAAATTCT
1 TGAAAAAAAAATTCG
26488221 TGAAAAAAAAAATTTCG
1 TG-AAAAAAAAA-TTCG
26488238 TGAAAAAAAAA
1 TGAAAAAAAAA
26488249 GAAGAAGCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
15 16 0.41
16 18 0.46
17 5 0.13
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (15 bp):
TGAAAAAAAAATTCG
Found at i:26502309 original size:11 final size:11
Alignment explanation
Indices: 26502290--26502334 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 11
26502280 GTATTACGAG
*
26502290 ATTGTAAAAAA
1 ATTGAAAAAAA
26502301 ATTGAAAAAAAA
1 ATTG-AAAAAAA
26502313 ATTG-AAAAAA
1 ATTGAAAAAAA
26502323 A-T-AAAAAAA
1 ATTGAAAAAAA
26502332 ATT
1 ATT
26502335 AATTATTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 8 0.27
10 8 0.27
11 4 0.13
12 10 0.33
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (11 bp):
ATTGAAAAAAA
Found at i:26502312 original size:12 final size:12
Alignment explanation
Indices: 26502295--26502323 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
26502285 ACGAGATTGT
26502295 AAAAAAATTGAA
1 AAAAAAATTGAA
26502307 AAAAAAATTGAA
1 AAAAAAATTGAA
26502319 AAAAA
1 AAAAA
26502324 TAAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (12 bp):
AAAAAAATTGAA
Found at i:26502338 original size:23 final size:23
Alignment explanation
Indices: 26502290--26502332 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
26502280 GTATTACGAG
*
26502290 ATTGTAAAAAAATTGAAAAAAAA
1 ATTGTAAAAAAATTAAAAAAAAA
26502313 ATTG-AAAAAAA-TAAAAAAAA
1 ATTGTAAAAAAATTAAAAAAAA
26502333 TTAATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (23 bp):
ATTGTAAAAAAATTAAAAAAAAA
Found at i:26503349 original size:15 final size:16
Alignment explanation
Indices: 26503329--26503360 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
26503319 AGAAAATGAA
26503329 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
26503344 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
26503360 A
1 A
26503361 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:26510230 original size:21 final size:23
Alignment explanation
Indices: 26510185--26510231 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
26510175 TCACCTGCAA
* *
26510185 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
26510208 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
26510229 TAA
1 TAA
26510232 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:26513701 original size:11 final size:11
Alignment explanation
Indices: 26513685--26513723 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
26513675 AGGAAACCAA
26513685 TTTTTTTGAAT
1 TTTTTTTGAAT
26513696 TTTTTTTGAAT
1 TTTTTTTGAAT
*
26513707 TTTTTTTGTAT
1 TTTTTTTGAAT
26513718 TTTTTT
1 TTTTTT
26513724 AAAGAAACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (11 bp):
TTTTTTTGAAT
Found at i:26514761 original size:21 final size:23
Alignment explanation
Indices: 26514716--26514762 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
26514706 TCACCTGCAA
* *
26514716 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
26514739 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
26514760 TAA
1 TAA
26514763 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:26517078 original size:23 final size:22
Alignment explanation
Indices: 26517052--26517104 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
26517042 TTGAGAGTGA
*
26517052 AAAAGAAATT-GAAGAAAGAAGAG
1 AAAAGAAATTAGAA-AAAGAA-AC
*
26517075 AAAACAAATTAGAAAAAGAAAC
1 AAAAGAAATTAGAAAAAGAAAC
26517097 AAAAGAAA
1 AAAAGAAA
26517105 AAGATGTGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 8 0.31
23 15 0.58
24 3 0.12
ACGTcount: A:0.72, C:0.04, G:0.17, T:0.08
Consensus pattern (22 bp):
AAAAGAAATTAGAAAAAGAAAC
Found at i:26524966 original size:33 final size:33
Alignment explanation
Indices: 26524929--26524992 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
26524919 TGATTACTCA
26524929 TTTCACTCG-TTTCTTTTACAAACTCTCTTTCTT
1 TTTCACTCGATTTCTTTT-CAAACTCTCTTTCTT
* *
26524962 TTTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTTCACTCGATTTCTTTTCAAACTCTCTTTC
26524993 AATTTCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 20 0.71
34 8 0.29
ACGTcount: A:0.14, C:0.27, G:0.05, T:0.55
Consensus pattern (33 bp):
TTTCACTCGATTTCTTTTCAAACTCTCTTTCTT
Found at i:26525055 original size:27 final size:27
Alignment explanation
Indices: 26525010--26525076 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 27
26525000 TTTGTCGCTT
* *
26525010 TTTCTTTTTTAATTTTTTTTTCATTCTCAA
1 TTTCTTTTTCAATTTTCTTTTC--T-TCAA
*
26525040 TTTCTTTTTCAATTTTCTTTTCTTCAT
1 TTTCTTTTTCAATTTTCTTTTCTTCAA
26525067 TTTCTTTTTC
1 TTTCTTTTTC
26525077 TCTCACTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 13 0.38
28 1 0.03
30 20 0.59
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTCTTTTTCAATTTTCTTTTCTTCAA
Found at i:26525060 original size:12 final size:12
Alignment explanation
Indices: 26525036--26525166 Score: 54
Period size: 12 Copynumber: 10.9 Consensus size: 12
26525026 TTTTTCATTC
26525036 TCAATTTCTTTT
1 TCAATTTCTTTT
26525048 TCAATTTTCTTTTCT
1 TCAA-TTTC-TTT-T
*
26525063 TCATTTTCTTTT
1 TCAATTTCTTTT
** **
26525075 TCTCTCACTTTT
1 TCAATTTCTTTT
*
26525087 TCGATTTCTTTT
1 TCAATTTCTTTT
* **
26525099 TC-TTTTGCAATT
1 TCAATTT-CTTTT
**
26525111 TCTTTTTCTTTT
1 TCAATTTCTTTT
**
26525123 TCGTTTTCTTTT
1 TCAATTTCTTTT
* *
26525135 T--GTTT-TCTT
1 TCAATTTCTTTT
26525144 TCAATTTCTTTT
1 TCAATTTCTTTT
*
26525156 TCAATCTCTTT
1 TCAATTTCTTT
26525167 CTCCTTTTCT
Statistics
Matches: 91, Mismatches: 20, Indels: 16
0.72 0.16 0.13
Matches are distributed among these distances:
9 4 0.04
10 3 0.03
11 6 0.07
12 56 0.62
13 11 0.12
14 7 0.08
15 4 0.04
ACGTcount: A:0.10, C:0.19, G:0.03, T:0.68
Consensus pattern (12 bp):
TCAATTTCTTTT
Found at i:26525075 original size:45 final size:45
Alignment explanation
Indices: 26524991--26525076 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
26524981 AAGCTCTCTT
**
26524991 TCAATTTCTTTTGTCGCTTTTTCTTTTTTAATTTTTTTTTCATTC
1 TCAATTTCTTTTGTCGAATTTTCTTTTTTAATTTTTTTTTCATTC
*
26525036 TCAATTTCTTTT-TC-AATTTTCTTTTCTTCATTTTCTTTTTC
1 TCAATTTCTTTTGTCGAATTTTCTTTT-TTAATTTT-TTTTTC
26525077 TCTCACTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 9 0.25
44 9 0.25
45 18 0.50
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.69
Consensus pattern (45 bp):
TCAATTTCTTTTGTCGAATTTTCTTTTTTAATTTTTTTTTCATTC
Found at i:26525135 original size:18 final size:18
Alignment explanation
Indices: 26525022--26525140 Score: 80
Period size: 18 Copynumber: 6.5 Consensus size: 18
26525012 TCTTTTTTAA
* *
26525022 TTTT-TTTTTCATTCTCA
1 TTTTCTTTTTCATTTTCT
*
26525039 ATTTCTTTTTCAATTTTCTT
1 TTTTCTTTTTC-ATTTTC-T
* *
26525059 TTCTTCATTTTCTTTTTCT
1 TT-TTCTTTTTCATTTTCT
* **
26525078 CTCACTTTTTCGA-TTTCT
1 TTTTCTTTTTC-ATTTTCT
* *
26525096 TTTTCTTTTGCAATTTCT
1 TTTTCTTTTTCATTTTCT
*
26525114 TTTTCTTTTTCGTTTTCT
1 TTTTCTTTTTCATTTTCT
*
26525132 TTTTGTTTT
1 TTTTCTTTT
26525141 CTTTCAATTT
Statistics
Matches: 77, Mismatches: 19, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
17 4 0.05
18 52 0.68
19 7 0.09
20 6 0.08
21 8 0.10
ACGTcount: A:0.08, C:0.18, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTCTTTTTCATTTTCT
Found at i:26525157 original size:6 final size:6
Alignment explanation
Indices: 26525040--26525144 Score: 68
Period size: 6 Copynumber: 17.2 Consensus size: 6
26525030 TCATTCTCAA
* * * ** **
26525040 TTTCTT TTTCAAT TTTCTTT TCTTCAT TTTCTT TTTCTC TCACTT TTTCGA
1 TTTCTT TTTC-TT TTTC-TT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* ** * *
26525091 TTTCTT TTTCTT TTGCAA TTTCTT TTTCTT TTTCGT TTTCTT TTT-GT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
26525138 TTTCTT T
1 TTTCTT T
26525145 CAATTTCTTT
Statistics
Matches: 71, Mismatches: 25, Indels: 6
0.70 0.25 0.06
Matches are distributed among these distances:
5 4 0.06
6 55 0.77
7 9 0.13
8 3 0.04
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.71
Consensus pattern (6 bp):
TTTCTT
Found at i:26526221 original size:23 final size:22
Alignment explanation
Indices: 26526194--26526236 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
26526184 TTTAACTCAA
*
26526194 TTTTTTGTCACTTCTTTTTTTCC
1 TTTTTTGTCAATT-TTTTTTTCC
*
26526217 TTTTTTTTCAATTTTTTTTT
1 TTTTTTGTCAATTTTTTTTT
26526237 GAATTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTTTGTCAATTTTTTTTTCC
Found at i:26527893 original size:20 final size:19
Alignment explanation
Indices: 26527870--26527934 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
26527860 AAGCTCAAAC
26527870 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
26527890 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
26527910 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
26527930 GAGCT
1 GAGCT
26527935 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:26533735 original size:15 final size:15
Alignment explanation
Indices: 26533712--26533753 Score: 68
Period size: 14 Copynumber: 2.9 Consensus size: 15
26533702 GGATATCAAG
26533712 TTGTGAAAAAAAAAA
1 TTGTGAAAAAAAAAA
*
26533727 TTTTG-AAAAAAAAA
1 TTGTGAAAAAAAAAA
26533741 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
26533754 TTGAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (15 bp):
TTGTGAAAAAAAAAA
Found at i:26533737 original size:14 final size:14
Alignment explanation
Indices: 26533718--26533765 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
26533708 CAAGTTGTGA
26533718 AAAAAAAAATTTTG
1 AAAAAAAAATTTTG
*
26533732 AAAAAAAAATTGTG
1 AAAAAAAAATTTTG
26533746 -AAAAAAAA--TTG
1 AAAAAAAAATTTTG
26533757 AAAAAAAAA
1 AAAAAAAAA
26533766 AGAGAGCTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 2 0.06
12 8 0.26
13 8 0.26
14 13 0.42
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (14 bp):
AAAAAAAAATTTTG
Found at i:26533766 original size:14 final size:13
Alignment explanation
Indices: 26533715--26533766 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
26533705 TATCAAGTTG
26533715 TGAAAAAAAAAATTT
1 TGAAAAAAAAAA--T
26533730 TG-AAAAAAAAAT
1 TGAAAAAAAAAAT
**
26533742 TGTGAAAAAAAAT
1 TGAAAAAAAAAAT
26533755 TGAAAAAAAAAA
1 TGAAAAAAAAAA
26533767 GAGAGCTAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 3 0.09
13 19 0.58
14 9 0.27
15 2 0.06
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (13 bp):
TGAAAAAAAAAAT
Found at i:26569937 original size:19 final size:18
Alignment explanation
Indices: 26569901--26569940 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
26569891 TTTCCACTCG
*
26569901 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
26569919 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
26569938 TTT
1 TTT
26569941 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:26571018 original size:15 final size:16
Alignment explanation
Indices: 26570998--26571039 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
26570988 ACTAGCTCTC
**
26570998 TTTTTTTTTCA-TTAA
1 TTTTTTTTTCACGAAA
26571013 TTTTTTTTTCACGAAA
1 TTTTTTTTTCACGAAA
26571029 TTTTTTTTTCA
1 TTTTTTTTTCA
26571040 ACTTGATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTTTTTTTCACGAAA
Found at i:26571108 original size:13 final size:12
Alignment explanation
Indices: 26571092--26571133 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
26571082 TTAAAAAAAA
26571092 TTTTGAATTTTCT
1 TTTTGAATTTT-T
26571105 TTTTGAATTTTT
1 TTTTGAATTTTT
*
26571117 TTTTCGAGTTTTT
1 TTTT-GAATTTTT
26571130 TTTT
1 TTTT
26571134 CGAGAAACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 5 0.19
13 22 0.81
ACGTcount: A:0.12, C:0.05, G:0.10, T:0.74
Consensus pattern (12 bp):
TTTTGAATTTTT
Found at i:26571134 original size:13 final size:13
Alignment explanation
Indices: 26571099--26571137 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
26571089 AAATTTTGAA
*
26571099 TTTTCTTTTT-GAA
1 TTTT-TTTTTCGAG
26571112 TTTTTTTTTCGAG
1 TTTTTTTTTCGAG
26571125 TTTTTTTTTCGAG
1 TTTTTTTTTCGAG
26571138 AAACTACTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.10, C:0.08, G:0.13, T:0.69
Consensus pattern (13 bp):
TTTTTTTTTCGAG
Found at i:26573913 original size:10 final size:10
Alignment explanation
Indices: 26573898--26573959 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
26573888 TTTGAACCAT
*
26573898 TACCAATTCG
1 TACCAATTCA
*
26573908 TACCAAATACCA
1 TACC-AAT-TCA
*
26573920 TACCATTTCA
1 TACCAATTCA
26573930 TACCAATTCCA
1 TACCAATT-CA
* *
26573941 TACCATTTCG
1 TACCAATTCA
26573951 TACCAATTC
1 TACCAATTC
26573960 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:26573943 original size:21 final size:21
Alignment explanation
Indices: 26573898--26573960 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
26573888 TTTGAACCAT
* *
26573898 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
26573920 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
26573941 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
26573961 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:26579277 original size:14 final size:13
Alignment explanation
Indices: 26579258--26579291 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
26579248 ATTTTTTTTC
26579258 TTTTTTTTCAAATT
1 TTTTTTTTC-AATT
*
26579272 TTTTTTTTCGATT
1 TTTTTTTTCAATT
26579285 TTTTTTT
1 TTTTTTT
26579292 CGAACTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTTTTTCAATT
Found at i:26579288 original size:27 final size:27
Alignment explanation
Indices: 26579258--26579316 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
26579248 ATTTTTTTTC
26579258 TTTTTTTTC-AAAT-TTTTTTTTTCGAT
1 TTTTTTTTCGAAATCTTTTTTTTT-GAT
*
26579284 TTTTTTTTCGAACTCTTTTTTTTTGAT
1 TTTTTTTTCGAAATCTTTTTTTTTGAT
26579311 TTTTTT
1 TTTTTT
26579317 GTTACTCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 9 0.30
27 12 0.40
28 9 0.30
ACGTcount: A:0.12, C:0.08, G:0.05, T:0.75
Consensus pattern (27 bp):
TTTTTTTTCGAAATCTTTTTTTTTGAT
Found at i:26579302 original size:14 final size:13
Alignment explanation
Indices: 26579258--26579316 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 13
26579248 ATTTTTTTTC
*
26579258 TTTTTTTTCAAATT
1 TTTTTTTTCGAA-T
26579272 TTTTTTTTCG-AT
1 TTTTTTTTCGAAT
26579284 TTTTTTTTCGAACT
1 TTTTTTTTCGAA-T
*
26579298 CTTTTTTTTTG-AT
1 -TTTTTTTTCGAAT
26579311 TTTTTT
1 TTTTTT
26579317 GTTACTCCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 17 0.43
13 3 0.08
14 11 0.28
15 9 0.22
ACGTcount: A:0.12, C:0.08, G:0.05, T:0.75
Consensus pattern (13 bp):
TTTTTTTTCGAAT
Found at i:26592490 original size:13 final size:13
Alignment explanation
Indices: 26592455--26592506 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
26592445 AGACCGTATG
26592455 CAATTTTTTTTTT
1 CAATTTTTTTTTT
*
26592468 CAAAAATTTTTTTTT
1 C--AATTTTTTTTTT
*
26592483 CAATTTTTTTTCT
1 CAATTTTTTTTTT
*
26592496 CGATTTTTTTT
1 CAATTTTTTTT
26592507 GATTTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 21 0.64
15 12 0.36
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (13 bp):
CAATTTTTTTTTT
Found at i:26592492 original size:15 final size:15
Alignment explanation
Indices: 26592456--26592493 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
26592446 GACCGTATGC
26592456 AATTTTTTTTTTCAA
1 AATTTTTTTTTTCAA
*
26592471 AAATTTTTTTTTC--
1 AATTTTTTTTTTCAA
26592484 AATTTTTTTT
1 AATTTTTTTT
26592494 CTCGATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 9 0.43
15 12 0.57
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (15 bp):
AATTTTTTTTTTCAA
Found at i:26592519 original size:11 final size:12
Alignment explanation
Indices: 26592473--26592517 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
26592463 TTTTTCAAAA
*
26592473 ATTTTTTTTTCA
1 ATTTTTTTTTCG
26592485 ATTTTTTTTCTCG
1 ATTTTTTTT-TCG
26592498 A-TTTTTTTT-G
1 ATTTTTTTTTCG
26592508 ATTTTTTTTT
1 ATTTTTTTTT
26592518 GAATCTACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 2 0.07
11 9 0.30
12 16 0.53
13 3 0.10
ACGTcount: A:0.11, C:0.07, G:0.04, T:0.78
Consensus pattern (12 bp):
ATTTTTTTTTCG
Found at i:26596831 original size:47 final size:47
Alignment explanation
Indices: 26596762--26597174 Score: 289
Period size: 47 Copynumber: 8.7 Consensus size: 47
26596752 AGGGTATGAT
* *
26596762 GTCGATGCCATGTCTCAGACATGATCTTACACTGGCTCATCCATCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
*
26596809 GTCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
* * **
26596856 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAATTGA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--CATCAA
* ** * *
26596904 GGCTGACACCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAT-ATCC
1 GTC-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCA--A
** * * * *
26596953 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTAT-AG
1 GT--CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
* *
26597001 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACAT-C-TCATA
1 GT--CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCA-A
* * * *
26597049 G-CTGATG-CATGGCCCAGACAT-GTCTTATATTGGCTTACAT-C-TCGAG
1 GTC-GATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCCATC-AA
* * * * *
26597095 GCCAATG-CATGTCCCAGGCAT-GTCTTACACTAGCTC-TCGTC-TCAGT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--CATCA-A
*
26597141 GTCGATGCCATGTCCCAAACATGGTCTTACACTG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTG
26597175 ACTCTTATAA
Statistics
Matches: 299, Mismatches: 45, Indels: 43
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.00
44 11 0.04
45 16 0.05
46 48 0.16
47 94 0.31
48 59 0.20
49 33 0.11
50 34 0.11
51 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
Found at i:26598949 original size:27 final size:27
Alignment explanation
Indices: 26598918--26599095 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
26598908 TAAATTGTAC
26598918 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
26598945 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
26598971 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
26598999 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
26599027 AGCACTAAGTGTGTGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
26599054 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
26599081 AGCACTGACTGTGCG
1 AGCACTAAGTGTGCG
26599096 GACTCAATAT
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:26599032 original size:82 final size:81
Alignment explanation
Indices: 26598919--26599074 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
26598909 AAATTGTACA
* *
26598919 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
26598983 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
26599000 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGTGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
26599065 TGCGAGTTGA
65 TGCGAATTGA
26599075 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:26614683 original size:40 final size:40
Alignment explanation
Indices: 26614605--26614785 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
26614595 ACCCAAGTAT
*
26614605 CTTCGGGATTTAG-CCGGATATAG-CAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTTGCACAAATGC
* * **
26614644 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTTGCACAAATGC
26614684 CTTCGGGACTTAGCCCGGATATAGTCACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTTGCACAAATGC
*
26614724 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTTGCACAAATGC
*
26614764 CTTCGGGACTTAGCCCTGATAT
1 CTTCGGGACTTAGCCCGGATAT
26614786 TATCCGATTA
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 11 0.09
40 117 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTTGCACAAATGC
Found at i:26621762 original size:44 final size:44
Alignment explanation
Indices: 26621699--26621789 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
26621689 TTATAACTCA
26621699 TAAGCCTCATAAACAAAAGCAAAAAACAACAAAATGTTCAAAAC
1 TAAGCCTCATAAACAAAAGCAAAAAACAACAAAATGTTCAAAAC
*
26621743 TAAGCCTCATAAACAAAAGCAAAAAACAACAAAATGTTCAGAAC
1 TAAGCCTCATAAACAAAAGCAAAAAACAACAAAATGTTCAAAAC
26621787 TAA
1 TAA
26621790 CATGGTTGTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.58, C:0.20, G:0.08, T:0.14
Consensus pattern (44 bp):
TAAGCCTCATAAACAAAAGCAAAAAACAACAAAATGTTCAAAAC
Found at i:26624581 original size:27 final size:27
Alignment explanation
Indices: 26624528--26624582 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
26624518 TTAATGAATA
*
26624528 ATTATGTTAGTTATATCTTAAGTGATT
1 ATTATGTTAGTTATATCTTAAGAGATT
26624555 ATTATG-T-GTTATATGCTTAAAGAGATT
1 ATTATGTTAGTTATAT-CTT-AAGAGATT
26624582 A
1 A
26624583 AATAGTTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 7 0.28
26 4 0.16
27 14 0.56
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (27 bp):
ATTATGTTAGTTATATCTTAAGAGATT
Found at i:26626485 original size:43 final size:43
Alignment explanation
Indices: 26626421--26626676 Score: 232
Period size: 45 Copynumber: 5.8 Consensus size: 43
26626411 CGAATTCATC
*
26626421 CACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCCTATATCAT-T
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCTATAT-ATCT
*
26626462 GCACCGGCATTATAGCCTGCTAGGCTCGAATG-CCTGAATAGTATCT
1 -CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCT--ATA-TATCT
* * *
26626508 CACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCT
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCC-TAT-ATATCT
* * *
26626553 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCC-TATA-TATCT
** * * * *
26626598 CATTGGCATCATAGCCTGCTGGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCC-TATA-TATCT
* * *
26626643 CACCGGCATCATAACCTGCTAGGCTCAAAGGCCC
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCC
26626677 GAATAGTACC
Statistics
Matches: 190, Mismatches: 14, Indels: 17
0.86 0.06 0.08
Matches are distributed among these distances:
42 10 0.05
43 20 0.11
44 2 0.01
45 153 0.81
46 5 0.03
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (43 bp):
CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCTATATATCT
Found at i:26626527 original size:45 final size:45
Alignment explanation
Indices: 26626463--26626684 Score: 345
Period size: 45 Copynumber: 4.9 Consensus size: 45
26626453 TATATCATTG
* * * *
26626463 CACCGGCATTATAGCCTGCTAGGCTCGAATGCCTGAATAGTATCT
1 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
* * *
26626508 CACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCT
1 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
26626553 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
** *
26626598 CATTGGCATCATAGCCTGCTGGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
*
26626643 CACCGGCATCATAACCTGCTAGGCTCAAAGGCCCGAATAGTA
1 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
26626685 CCGTACGATA
Statistics
Matches: 162, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 162 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (45 bp):
CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
Found at i:26630177 original size:46 final size:45
Alignment explanation
Indices: 26630124--26630343 Score: 168
Period size: 46 Copynumber: 4.8 Consensus size: 45
26630114 TCATTGGTGT
*
26630124 GAGCCAGTGTAATACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCACATTATGA
*
26630170 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG--ACATTGA-GA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCACATT-ATGA
* * **
26630215 CGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACAT-A
1 -GA--GCCAGTGTAAGACATGTCTGGGACATGCATC-GCCAC-A-TTATGA
*
26630265 -AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTAC--TA-GAA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCACATTATG-A
* * *
26630308 GTGTCAGTGTGAGACCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
26630344 GCACCGATAT
Statistics
Matches: 143, Mismatches: 14, Indels: 35
0.74 0.07 0.18
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 10 0.07
45 22 0.15
46 60 0.42
47 28 0.20
48 17 0.12
49 1 0.01
50 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGCCACATTATGA
Found at i:26645965 original size:39 final size:40
Alignment explanation
Indices: 26645870--26646131 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
26645860 TTGAATGATG
*
26645870 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
26645908 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
26645949 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
26645988 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
26646027 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
26646066 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
26646105 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
26646132 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 15, Indels: 17
0.86 0.06 0.07
Matches are distributed among these distances:
39 128 0.64
40 59 0.30
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:26652139 original size:12 final size:12
Alignment explanation
Indices: 26652122--26652146 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26652112 TTATTAAATG
26652122 AATTAAAAGCCA
1 AATTAAAAGCCA
26652134 AATTAAAAGCCA
1 AATTAAAAGCCA
26652146 A
1 A
26652147 TTTTTGTCCA
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AATTAAAAGCCA
Found at i:26653078 original size:43 final size:42
Alignment explanation
Indices: 26652956--26653107 Score: 205
Period size: 42 Copynumber: 3.6 Consensus size: 42
26652946 TAAGACTATG
* * *
26652956 TGTAAGACCATATCTGGGATATGGCATCTATATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
* *
26652998 TGTAGGACCATATCTGGGATATGGCATCGATATGAGATTTCT
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
* * * *
26653040 TGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATTACA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTTCA
*
26653083 TGTAAGCCCATATCTGGGATATGGC
1 TGTAAGACCATATCTGGGATATGGC
26653108 GTTGGTATGG
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 60 0.62
43 36 0.38
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
Found at i:26653954 original size:28 final size:29
Alignment explanation
Indices: 26653918--26653982 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
26653908 AAAGTGATTT
* *
26653918 TTGACAAAAATGTCAATT-AGGGATTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
*
26653946 TTGAGAAAAATGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
*
26653975 TTGTGAAA
1 TTGAGAAA
26653983 TAAATGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.50
29 16 0.50
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (29 bp):
TTGAGAAAAATGTAAATTGAGGGATTAAA
Found at i:26654519 original size:43 final size:42
Alignment explanation
Indices: 26654467--26654629 Score: 141
Period size: 43 Copynumber: 3.8 Consensus size: 42
26654457 ATCGAGATGT
* * *
26654467 GATTCCATGTAATACCATGTCTGGGACATCGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACAT-GGCATCGTATTGA
* * * *
26654510 GATTACATGTAAGAACATGTCTGGCACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACA-TGGCATCG-TATTGA
* * * *
26654553 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACA-TGGCATCGTAT-TGA
* * *
26654596 GATAACATGTAAGACCATATCTGGGATATGGCAT
1 GATTACATGTAAGACCATGTCTGGGACATGGCAT
26654630 TGTACTAACT
Statistics
Matches: 95, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 83 0.87
44 4 0.04
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATGGCATCGTATTGA
Found at i:26656840 original size:55 final size:54
Alignment explanation
Indices: 26656779--26656958 Score: 279
Period size: 55 Copynumber: 3.3 Consensus size: 54
26656769 ATATTAAGTC
* * * *
26656779 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCA-ACT
*
26656834 CGCACACTTAGTGCTACATAGTCAACTCACACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AACT
*
26656889 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAACT
26656944 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
26656959 GCACAATTTA
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
55 89 0.77
56 27 0.23
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
Found at i:26656843 original size:28 final size:27
Alignment explanation
Indices: 26656779--26656958 Score: 279
Period size: 28 Copynumber: 6.6 Consensus size: 27
26656769 ATATTAAGTC
* * *
26656779 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
26656806 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
26656834 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
26656861 CACACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
26656889 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
26656917 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
26656944 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
26656959 GCACAATTTA
Statistics
Matches: 145, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
27 65 0.45
28 80 0.55
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:26656897 original size:83 final size:82
Alignment explanation
Indices: 26656781--26656958 Score: 284
Period size: 83 Copynumber: 2.2 Consensus size: 82
26656771 ATTAAGTCCG
* * *
26656781 CACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACTCGCACACTTAGT
1 CACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGT
26656846 GCTACATAGTCAACTCA
66 GCTACATAGTCAACTCA
* *
26656863 CACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAG
1 CACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAG
* *
26656928 TGCTACATAGTCAATTCG
65 TGCTACATAGTCAACTCA
26656946 CACACTTAGTGCT
1 CACACTTAGTGCT
26656959 GCACAATTTA
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
82 18 0.20
83 70 0.80
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (82 bp):
CACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGT
GCTACATAGTCAACTCA
Found at i:26665635 original size:5 final size:5
Alignment explanation
Indices: 26665627--26665653 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
26665617 AACCGAAAAC
26665627 ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT AT
26665654 AATAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:26665760 original size:15 final size:15
Alignment explanation
Indices: 26665735--26665781 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
26665725 ACTTCTTTAA
26665735 ATTTA-AATTTTTTT
1 ATTTATAATTTTTTT
*
26665749 ATTTATAATTTTTTA
1 ATTTATAATTTTTTT
* * *
26665764 ATTTTTTATATTTTT
1 ATTTATAATTTTTTT
26665779 ATT
1 ATT
26665782 AATATTTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 5 0.19
15 22 0.81
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTTATAATTTTTTT
Found at i:26665789 original size:19 final size:18
Alignment explanation
Indices: 26665750--26665796 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
26665740 AATTTTTTTA
* *
26665750 TTTATAATTTTTTAATTT
1 TTTATATTTTTTTAATAT
26665768 TTTATATTTTTATTAATAT
1 TTTATATTTTT-TTAATAT
26665787 TTTATATTTT
1 TTTATATTTT
26665797 AAAATATTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATATTTTTTTAATAT
Found at i:26665804 original size:17 final size:19
Alignment explanation
Indices: 26665750--26665804 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 19
26665740 AATTTTTTTA
*
26665750 TTTATAATTTTT-T-AATTT
1 TTTAT-ATTTTTATAAATAT
*
26665768 TTTATATTTTTATTAATAT
1 TTTATATTTTTATAAATAT
26665787 TTTATA-TTTTA-AAATAT
1 TTTATATTTTTATAAATAT
26665804 T
1 T
26665805 ACTAAATGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 12 0.36
18 11 0.33
19 10 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATATTTTTATAAATAT
Found at i:26668046 original size:20 final size:20
Alignment explanation
Indices: 26668023--26668067 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
26668013 TTTAAAGCTG
26668023 ATTTTATATTT-TTATAATAT
1 ATTTTAT-TTTATTATAATAT
* *
26668043 ATTTTATTTTATTTTTATAT
1 ATTTTATTTTATTATAATAT
26668063 ATTTT
1 ATTTT
26668068 GTAGTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTATTTTATTATAATAT
Found at i:26669197 original size:14 final size:16
Alignment explanation
Indices: 26669170--26669201 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
26669160 TCTAAAGACT
26669170 AAAAATGATCAAATTA
1 AAAAATGATCAAATTA
26669186 AAAAAT-AT-AAATTA
1 AAAAATGATCAAATTA
26669200 AA
1 AA
26669202 TTTACAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (16 bp):
AAAAATGATCAAATTA
Found at i:26681901 original size:67 final size:65
Alignment explanation
Indices: 26681734--26681909 Score: 178
Period size: 67 Copynumber: 2.7 Consensus size: 65
26681724 ACACTTAGTG
* * * * * *
26681734 CCACCCATGTGACCTAGC--CAGTTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 CCACCCATGCGACCTAGCTACA-TATATCCCGTAGCTCTCTTGTCTACATGGTG--CTACACATA
26681797 GAA
63 GAA
* *
26681800 CCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTG-TACACATAGTA
1 CCACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAA
* * *
26681864 TCACCCATGCGACCTAGCTACATCATAATGTCTGTAGCTCTCTTGT
1 CCACCCATGCGACCTAGCTACAT-AT-AT-CCCGTAGCTCTCTTGT
26681910 ACACTTGATG
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
64 28 0.30
65 2 0.02
66 18 0.19
67 43 0.46
68 2 0.02
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.31
Consensus pattern (65 bp):
CCACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAA
Found at i:26682450 original size:30 final size:30
Alignment explanation
Indices: 26682416--26682476 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
26682406 TCCTTAACTC
*
26682416 AAACTTTGGCAAAATTACAATTTTGCTCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
26682446 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
26682476 A
1 A
26682477 GGCTGGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:26687132 original size:30 final size:30
Alignment explanation
Indices: 26687097--26687157 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
26687087 TCCTTAACTC
*
26687097 AAACTTTGGCAAAATTACAATTTTGCTCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
26687127 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
26687157 A
1 A
26687158 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:26691822 original size:214 final size:214
Alignment explanation
Indices: 26691453--26691882 Score: 842
Period size: 214 Copynumber: 2.0 Consensus size: 214
26691443 TATTGGTAAA
26691453 GAAGGAAGCGTGGTGTAGTGGCCAGCAGCACGTGCGAAGGCACAAGGACGGATGGAGGTCTGGGG
1 GAAGGAAGCGTGGTGTAGTGGCCAGCAGCACGTGCGAAGGCACAAGGACGGATGGAGGTCTGGGG
* *
26691518 TTCGAGCCTCACCTCGTGCACGGAAGGCTTTGGTTTTTGCTGCACGGATGGGGAAGGAGTTGGGG
66 TTCGAGCCTCACCTCGTGCACAGAAGGCTTGGGTTTTTGCTGCACGGATGGGGAAGGAGTTGGGG
26691583 TCTGATCAGGACTCCTGGCAGCATGCCTGATGCGGTGCAAGGGGTGGATAAGGATGCTGCCTAAT
131 TCTGATCAGGACTCCTGGCAGCATGCCTGATGCGGTGCAAGGGGTGGATAAGGATGCTGCCTAAT
26691648 CGGTGGAAGAGTTTGAGCT
196 CGGTGGAAGAGTTTGAGCT
26691667 GAAGGAAGCGTGGTGTAGTGGCCAGCAGCACGTGCGAAGGCACAAGGACGGATGGAGGTCTGGGG
1 GAAGGAAGCGTGGTGTAGTGGCCAGCAGCACGTGCGAAGGCACAAGGACGGATGGAGGTCTGGGG
26691732 TTCGAGCCTCACCTCGTGCACAGAAGGCTTGGGTTTTTGCTGCACGGATGGGGAAGGAGTTGGGG
66 TTCGAGCCTCACCTCGTGCACAGAAGGCTTGGGTTTTTGCTGCACGGATGGGGAAGGAGTTGGGG
26691797 TCTGATCAGGACTCCTGGCAGCATGCCTGATGCGGTGCAAGGGGTGGATAAGGATGCTGCCTAAT
131 TCTGATCAGGACTCCTGGCAGCATGCCTGATGCGGTGCAAGGGGTGGATAAGGATGCTGCCTAAT
26691862 CGGTGGAAGAGTTTGAGCT
196 CGGTGGAAGAGTTTGAGCT
26691881 GA
1 GA
26691883 TCAGGGAATT
Statistics
Matches: 214, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
214 214 1.00
ACGTcount: A:0.21, C:0.19, G:0.40, T:0.21
Consensus pattern (214 bp):
GAAGGAAGCGTGGTGTAGTGGCCAGCAGCACGTGCGAAGGCACAAGGACGGATGGAGGTCTGGGG
TTCGAGCCTCACCTCGTGCACAGAAGGCTTGGGTTTTTGCTGCACGGATGGGGAAGGAGTTGGGG
TCTGATCAGGACTCCTGGCAGCATGCCTGATGCGGTGCAAGGGGTGGATAAGGATGCTGCCTAAT
CGGTGGAAGAGTTTGAGCT
Found at i:26692767 original size:8 final size:8
Alignment explanation
Indices: 26692754--26692797 Score: 63
Period size: 8 Copynumber: 5.5 Consensus size: 8
26692744 ATCGGCAAAT
26692754 GCCGAAAA
1 GCCGAAAA
26692762 GCCGAAATA
1 GCCGAAA-A
26692771 -CCGAAAA
1 GCCGAAAA
*
26692778 GCCGAAAT
1 GCCGAAAA
26692786 GCCGAAAA
1 GCCGAAAA
26692794 GCCG
1 GCCG
26692798 GCATCTTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 1 0.03
8 30 0.94
9 1 0.03
ACGTcount: A:0.43, C:0.27, G:0.25, T:0.05
Consensus pattern (8 bp):
GCCGAAAA
Found at i:26692774 original size:16 final size:16
Alignment explanation
Indices: 26692750--26692797 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
26692740 CTAGATCGGC
26692750 AAATGCCGAAAAGCCG
1 AAATGCCGAAAAGCCG
*
26692766 AAATACCGAAAAGCCG
1 AAATGCCGAAAAGCCG
26692782 AAATGCCGAAAAGCCG
1 AAATGCCGAAAAGCCG
26692798 GCATCTTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.46, C:0.25, G:0.23, T:0.06
Consensus pattern (16 bp):
AAATGCCGAAAAGCCG
Found at i:26693075 original size:27 final size:27
Alignment explanation
Indices: 26693045--26693108 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
26693035 ATTTACTAAA
26693045 GTACCCCTAAGTATG-AAAATTACCACT
1 GTACCCCTAAG-ATGCAAAATTACCACT
* *
26693072 GTACCCCT-AGGTGCAAAATTACCATT
1 GTACCCCTAAGATGCAAAATTACCACT
*
26693098 ATACCCCTAAG
1 GTACCCCTAAG
26693109 GTTAGTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.06
26 20 0.62
27 10 0.31
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.25
Consensus pattern (27 bp):
GTACCCCTAAGATGCAAAATTACCACT
Found at i:26693248 original size:27 final size:27
Alignment explanation
Indices: 26693210--26693324 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 27
26693200 TAGAGGAAGC
* *
26693210 GTTCTAGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
26693237 GTTCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* * *
26693264 GTTATGGTGTCTCTACCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* * *
26693291 GTATCTGGTGACTTTGTCAC-AATATCT
1 GT-TCTGGTGGCTCTGCCACAAATATCT
26693318 GTTCTGG
1 GTTCTGG
26693325 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 5 0.06
27 60 0.78
28 12 0.16
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAAATATCT
Found at i:26715431 original size:46 final size:46
Alignment explanation
Indices: 26715268--26715441 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
26715258 TGTAACCCGC
* * * * ** *
26715268 CCATAAGCGAACTCAGACTCAACTCAACAAGTTTGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTAGCAT
* *
26715314 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GA--AC-A-TTAGCAT
* * *
26715364 -C-TCA-TGAACTTGGACTTAACTCAACGAGTTCGAACATTAGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTAGCAT
26715407 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
26715442 GATGCTCAAC
Statistics
Matches: 104, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 2 0.02
45 2 0.02
46 57 0.55
47 26 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTAGCAT
Found at i:26723537 original size:24 final size:24
Alignment explanation
Indices: 26723507--26723556 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
26723497 TTGATTGTGA
26723507 AATAGTGATTTGAGTTGGCATATG
1 AATAGTGATTTGAGTTGGCATATG
26723531 AATAGTGATTTGAGTTGGCATATG
1 AATAGTGATTTGAGTTGGCATATG
26723555 AA
1 AA
26723557 AAATGTGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.36
Consensus pattern (24 bp):
AATAGTGATTTGAGTTGGCATATG
Found at i:26725002 original size:6 final size:6
Alignment explanation
Indices: 26724991--26725152 Score: 129
Period size: 6 Copynumber: 26.8 Consensus size: 6
26724981 AACCAAAATG
* *
26724991 AGAATC AGAATC AGAATC AGTAA-C AGAATT AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
26725039 AGTAA-C AGAATC AGAATT AGAATC AAAATC AGTAA-C AGAATC AAAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* * * * *
26725087 AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC AGGATT ACGTGA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC
26725136 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
26725153 GTGAATGCAA
Statistics
Matches: 125, Mismatches: 18, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
5 10 0.08
6 104 0.83
7 8 0.06
8 3 0.02
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:26725043 original size:30 final size:30
Alignment explanation
Indices: 26724991--26725152 Score: 209
Period size: 30 Copynumber: 5.4 Consensus size: 30
26724981 AACCAAAATG
* *
26724991 AGAATCAGAATCAGA-ATCAGTAACAGAATT
1 AGAATCAGAATCA-ATATTAGTAACAGAATC
26725021 AGAATCAGAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAATATTAGTAACAGAATC
* * *
26725051 AGAATTAGAATCAAAATCAGTAACAGAATC
1 AGAATCAGAATCAATATTAGTAACAGAATC
* *
26725081 AAAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAATATTAGTAACAGAATC
** *
26725111 AGAATCAGAATCAGGATTACGTGACAGAATC
1 AGAATCAGAATCAATATTA-GTAACAGAATC
26725142 AGAATCAGAAT
1 AGAATCAGAAT
26725153 GTGAATGCAA
Statistics
Matches: 117, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
29 1 0.01
30 95 0.81
31 21 0.18
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAATATTAGTAACAGAATC
Found at i:26725063 original size:60 final size:60
Alignment explanation
Indices: 26724991--26725152 Score: 243
Period size: 60 Copynumber: 2.7 Consensus size: 60
26724981 AACCAAAATG
*
26724991 AGAATCAGAATCAGAATCAGTAACAGAATTAGAATCAGAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATC
* * * *
26725051 AGAATTAGAATCAAAATCAGTAACAGAATCAAAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATC
* * *
26725111 AGAATCAGAATCAGGATTACGTGACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAATCA-GTAACAGAATCAGAATCAGAAT
26725153 GTGAATGCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
60 70 0.78
61 20 0.22
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (60 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATC
Found at i:26725319 original size:27 final size:26
Alignment explanation
Indices: 26725271--26725344 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
26725261 AGCATGGCTG
* *
26725271 CCAGAACAGAT-TTCGTGACAGAGTCA
1 CCAGAACAGATATT-GTGGCAGAGCCA
26725297 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
26725324 CTAGAATCAGATAATGTGGCA
1 CCAGAA-CAGATATTGTGGCA
26725345 AACCCACCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 6 0.15
27 33 0.80
28 2 0.05
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:26725557 original size:22 final size:22
Alignment explanation
Indices: 26725509--26725567 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
26725499 GTAAATACGT
*
26725509 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
26725531 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
26725553 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
26725568 TAATAATGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:26725719 original size:27 final size:26
Alignment explanation
Indices: 26725642--26725722 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 26
26725632 CGGCACTTAG
* * *
26725642 CAGATATTGTGACAGAGTCACCAAATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
26725669 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
26725695 CAGATATTTGTGGCATAGCCACCAGAA
1 CAGATA-TTGTGGCAGAGCCACCAGAA
26725722 C
1 C
26725723 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.14
27 42 0.86
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:26725991 original size:27 final size:27
Alignment explanation
Indices: 26725920--26726086 Score: 221
Period size: 27 Copynumber: 6.3 Consensus size: 27
26725910 GGGGCAAAAT
* * * *
26725920 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
26725946 GGTAATT-TACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
26725972 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
26725999 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
26726026 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
26726053 AGTAATTCTACCCTAGAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
26726080 GGTAATT
1 GGTAATT
26726087 TCACAAATTA
Statistics
Matches: 124, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
25 8 0.06
26 20 0.16
27 96 0.77
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:26726100 original size:54 final size:54
Alignment explanation
Indices: 26725938--26726113 Score: 171
Period size: 54 Copynumber: 3.3 Consensus size: 54
26725928 TACCCCACAA
* * * * * **
26725938 GGTATCTCGGTAATT-TACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGG
1 GGTATTTCGATAATTCTACCCTACAAGGGTATTCCGGTAATTCTACAATATAGG
* ** *
26725991 GGTATTTCGATAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAAGGGTATTCCGGTAATTCTACAATATAGG
* *
26726045 GGTATTTC-AGTAATTCTACCCTAGAAGGGTATTTCGGTAATT-TCACAA-ATTAGG
1 GGTATTTCGA-TAATTCTACCCTACAAGGGTATTCCGGTAATTCT-ACAATA-TAGG
*
26726099 GGTATTTTGATAATT
1 GGTATTTCGATAATT
26726114 TTACAAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
53 16 0.15
54 89 0.84
55 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (54 bp):
GGTATTTCGATAATTCTACCCTACAAGGGTATTCCGGTAATTCTACAATATAGG
Found at i:26726101 original size:27 final size:27
Alignment explanation
Indices: 26726071--26726274 Score: 155
Period size: 27 Copynumber: 7.6 Consensus size: 27
26726061 TACCCTAGAA
*
26726071 GGGTATTTCGGTAATTTCACAAATTAG
1 GGGTATTTCGGTAATTTTACAAATTAG
* * **
26726098 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTCGGTAATTTTACAAATTAG
* ** *
26726125 GGGTATTTTGGTAATTTTACTGA-TCG
1 GGGTATTTCGGTAATTTTACAAATTAG
* *
26726151 AGGGTATTTCAGTAATTTTGCAAATT-G
1 -GGGTATTTCGGTAATTTTACAAATTAG
* * *
26726178 ACGGTATTTCGGTAATTTTACAAATCAA
1 -GGGTATTTCGGTAATTTTACAAATTAG
* * * * *
26726206 GGATATTTGGGTAATTTTATAAACTGG
1 GGGTATTTCGGTAATTTTACAAATTAG
* *
26726233 GGGTACTTT-GGTAATTTTACAACTGA-
1 GGGTA-TTTCGGTAATTTTACAAATTAG
*
26726259 GGGTATTTCAGTAATT
1 GGGTATTTCGGTAATT
26726275 CGGTAAACTA
Statistics
Matches: 137, Mismatches: 35, Indels: 11
0.75 0.19 0.06
Matches are distributed among these distances:
25 3 0.02
26 12 0.09
27 118 0.86
28 4 0.03
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATTAG
Found at i:26726126 original size:81 final size:81
Alignment explanation
Indices: 26725959--26726132 Score: 192
Period size: 81 Copynumber: 2.1 Consensus size: 81
26725949 AATTTACCCT
* * **
26725959 ACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTACAGGGGTATT
1 ACAGGGGTATTTCAGTAATTCTACCCTAGAAGGGTATTTCGATAATTCTACAATACAGGGGTATT
* **
26726024 CCGGTAATTCTACCCT
66 CCGATAATTCTACCAA
* *
26726040 ACAGGGGTATTTCAGTAATTCTACCCTAGAAGGGTATTTCGGTAATT-TCACAA-ATTAGGGGTA
1 ACAGGGGTATTTCAGTAATTCTACCCTAGAAGGGTATTTCGATAATTCT-ACAATA-CAGGGGTA
** *
26726103 TTTTGATAATTTTA-CAA
64 TTCCGATAATTCTACCAA
26726120 ACCAGGGGTATTT
1 A-CAGGGGTATTT
26726133 TGGTAATTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
80 4 0.05
81 74 0.95
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (81 bp):
ACAGGGGTATTTCAGTAATTCTACCCTAGAAGGGTATTTCGATAATTCTACAATACAGGGGTATT
CCGATAATTCTACCAA
Found at i:26726139 original size:81 final size:81
Alignment explanation
Indices: 26726041--26726221 Score: 186
Period size: 81 Copynumber: 2.2 Consensus size: 81
26726031 TTCTACCCTA
* * * *
26726041 CAGGGGTATTTCAGTAATTCTAC-CCTAGAAGGGTATTTCGGTAATTTCACAAATT-AGGGGTAT
1 CAGGGGTATTTCGGTAATTCTACTCATAG-AGGGTATTTCAGTAATTTCACAAATTGA-CGGTAT
*
26726104 TTTGATAATTTTACAAAC
64 TTCGATAATTTTACAAAC
* * * * **
26726122 CAGGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTCAGTAATTTTGCAAATTGACGGTATTT
1 CAGGGGTATTTCGGTAATTCTACTCATAGAGGGTATTTCAGTAATTTCACAAATTGACGGTATTT
* *
26726187 CGGTAATTTTACAAAT
66 CGATAATTTTACAAAC
* * *
26726203 CAAGGATATTTGGGTAATT
1 CAGGGGTATTTCGGTAATT
26726222 TTATAAACTG
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
81 79 0.96
82 3 0.04
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (81 bp):
CAGGGGTATTTCGGTAATTCTACTCATAGAGGGTATTTCAGTAATTTCACAAATTGACGGTATTT
CGATAATTTTACAAAC
Found at i:26726237 original size:81 final size:81
Alignment explanation
Indices: 26726070--26726274 Score: 220
Period size: 81 Copynumber: 2.5 Consensus size: 81
26726060 CTACCCTAGA
* * * * * *
26726070 AGGGTATTTCGGTAATTTCACAAATT-AGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTT
1 AGGGTATTTCGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTTACAAACCAAGGATATTTG
* *
26726134 GGTAATTTTACTGATCG
65 GGTAATTTTACTAAACG
* * * *
26726151 AGGGTATTTCAGTAATTTTGCAAATTGACGGTATTTCGGTAATTTTACAAATCAAGGATATTTGG
1 AGGGTATTTCGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGATATTTGG
26726216 GTAATTTTA-TAAACTG
66 GTAATTTTACTAAAC-G
* * *
26726232 GGGGTACTTT-GGTAATTTTAC-AACTGAGGGTATTTCAGTAATT
1 AGGGTA-TTTCGGTAATTTTACAAATTGAGGGTATTTCGGTAATT
26726275 CGGTAAACTA
Statistics
Matches: 103, Mismatches: 18, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
80 22 0.21
81 77 0.75
82 4 0.04
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (81 bp):
AGGGTATTTCGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGATATTTGG
GTAATTTTACTAAACG
Found at i:26731729 original size:15 final size:15
Alignment explanation
Indices: 26731697--26731725 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
26731687 ATTTTCTATG
26731697 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
26731712 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
26731726 ATTTTCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:26731978 original size:27 final size:27
Alignment explanation
Indices: 26731921--26731978 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
26731911 TGTTTTATAT
*
26731921 TATATAATAAAGGTTAAATAGGTAAAT
1 TATATAATAAAGGTTAAATAGGTAAAA
*
26731948 TATATAAT-AA-GTTAATATATGTTAAAA
1 TATATAATAAAGGTTAA-ATA-GGTAAAA
26731975 TATA
1 TATA
26731979 ACATAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 5 0.19
26 5 0.19
27 17 0.63
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (27 bp):
TATATAATAAAGGTTAAATAGGTAAAA
Found at i:26732262 original size:15 final size:15
Alignment explanation
Indices: 26732244--26732274 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26732234 AAATATGAAA
26732244 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
26732259 GATATGTTTTGTATT
1 GATATGTTTTGGATT
26732274 G
1 G
26732275 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:26733004 original size:85 final size:86
Alignment explanation
Indices: 26732837--26733041 Score: 265
Period size: 85 Copynumber: 2.4 Consensus size: 86
26732827 TGTGTTTGCT
* *
26732837 TGTAAGACCACATCTGGGATGTTGGCATAGATATATGTGGTTACGTGTAAGACCATGTCTGGGAC
1 TGTAAGACCACATCTGGGACGTTGGCATAGATATATGTGGTTACGTGTAAGACCATGTCTGGGAA
26732902 ATCAAAATCATATTTGATTCG
66 ATCAAAATCATATTTGATTCG
* * *
26732923 TGTAAGACCACGTCTGGGACGTTGTCATCA-ATATATGTGGTTA-GTGTAAGACCATGTTTGGGA
1 TGTAAGACCACATCTGGGACGTTGGCAT-AGATATATGTGGTTACGTGTAAGACCATGTCTGGGA
****
26732986 AATTGGCATCATATTTGATTCG
65 AATCAAAATCATATTTGATTCG
*
26733008 TGTAAGACC-CTATCTGGGACAG-TGGCATCGATAT
1 TGTAAGACCAC-ATCTGGGAC-GTTGGCATAGATAT
26733042 GAGGTAGTAT
Statistics
Matches: 103, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
84 1 0.01
85 62 0.60
86 39 0.38
87 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (86 bp):
TGTAAGACCACATCTGGGACGTTGGCATAGATATATGTGGTTACGTGTAAGACCATGTCTGGGAA
ATCAAAATCATATTTGATTCG
Found at i:26733026 original size:41 final size:42
Alignment explanation
Indices: 26732880--26733041 Score: 141
Period size: 41 Copynumber: 3.9 Consensus size: 42
26732870 TATGTGGTTA
* ****
26732880 CGTGTAAGACCATGTCTGGGACATCAAAATC-ATATTTGATT
1 CGTGTAAGACCCTGTCTGGGACATTGGCATCAATATTTGATT
* * *
26732921 CGTGTAAGACCAC-GTCTGGGACGTTGTCATCAATATATGTGGTT
1 CGTGTAAGACC-CTGTCTGGGACATTGGCATCAATAT-T-TGATT
* * * *
26732965 AGTGTAAGACCATGTTTGGGAAATTGGCATC-ATATTTGATT
1 CGTGTAAGACCCTGTCTGGGACATTGGCATCAATATTTGATT
* * *
26733006 CGTGTAAGACCCTATCTGGGACAGTGGCATCGATAT
1 CGTGTAAGACCCTGTCTGGGACATTGGCATCAATAT
26733042 GAGGTAGTAT
Statistics
Matches: 95, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
41 53 0.56
42 9 0.09
43 5 0.05
44 28 0.29
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCCTGTCTGGGACATTGGCATCAATATTTGATT
Found at i:26736934 original size:27 final size:26
Alignment explanation
Indices: 26736912--26737100 Score: 186
Period size: 27 Copynumber: 7.0 Consensus size: 26
26736902 TCATTTTGCC
26736912 CTACAGGGGTATTTCAATAATTTTACA
1 CTACAGGGGTATTTC-ATAATTTTACA
*
26736939 CTACAAGGGTATTTCGATAATTTTACA
1 CTACAGGGGTATTTC-ATAATTTTACA
*
26736966 TTACAGGGGTATTTCGATAATTTTACA
1 CTACAGGGGTATTTC-ATAATTTTACA
* *
26736993 CTATAGGGGTATTTTCGTAATTTTACA
1 CTACAGGGGTA-TTTCATAATTTTACA
*
26737020 CTACAGGGTTATTTTCATAATTTTACA
1 CTACAGGGGTA-TTTCATAATTTTACA
* * *
26737047 -AACTGGGGGTATTTTGATAATTTTACA
1 CTAC-AGGGGTA-TTTCATAATTTTACA
*
26737074 --AGCTGGGGGTATTTCAGTAATTTTACA
1 CTA-C-AGGGGTATTTCA-TAATTTTACA
26737101 AATTGAGGGT
Statistics
Matches: 143, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.05
27 132 0.92
28 4 0.03
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (26 bp):
CTACAGGGGTATTTCATAATTTTACA
Found at i:26737033 original size:81 final size:81
Alignment explanation
Indices: 26736916--26737180 Score: 254
Period size: 81 Copynumber: 3.3 Consensus size: 81
26736906 TTTGCCCTAC
* *
26736916 AGGGGTATTTCAATAATTTTACACTACAAGGGTA-TTTCGATAATTTTACATTAC-AGGGGTATT
1 AGGGGTATTTCAGTAATTTTACACTACAAGGGTATTTTC-ATAATTTTACA-AACTAGGGGTATT
**
26736979 TCGATAATTTTACACTAT
64 TCGATAATTTTACAAGAT
*
26736997 AGGGGTATTTTC-GTAATTTTACACTAC-AGGGTTATTTTCATAATTTTACAAACTGGGGGTATT
1 AGGGGTA-TTTCAGTAATTTTACACTACAAGGG-TATTTTCATAATTTTACAAACTAGGGGTATT
* *
26737060 TTGATAATTTTACAAGCT
64 TCGATAATTTTACAAGAT
* * ** ** * *
26737078 GGGGGTATTTCAGTAATTTTACA-AATTGAGGGTATTTTGGTAATTTTTCAAACTGGGGGTATTT
1 AGGGGTATTTCAGTAATTTTACACTA-CAAGGGTATTTTCATAATTTTACAAACTAGGGGTATTT
* * *
26737142 TGATAATATTA-AAAAT
65 CGATAATTTTACAAGAT
* * *
26737158 TGGAGTATTTCGGTAATTTTACA
1 AGGGGTATTTCAGTAATTTTACA
26737181 ATCCGAGGTC
Statistics
Matches: 158, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
80 34 0.22
81 112 0.71
82 12 0.08
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTCAGTAATTTTACACTACAAGGGTATTTTCATAATTTTACAAACTAGGGGTATTTC
GATAATTTTACAAGAT
Found at i:26737056 original size:54 final size:52
Alignment explanation
Indices: 26736913--26737180 Score: 197
Period size: 54 Copynumber: 5.0 Consensus size: 52
26736903 CATTTTGCCC
* ***
26736913 TACAGGGGTATTTCAATAATTTTACACTACAAGGGTA-TTTCGATAATTTTACA
1 TACAGGGGTATTTC-ATAATTTTACA-AATGGGGGTATTTTCGATAATTTTACA
* *
26736966 TTACAGGGGTATTTCGATAATTTTACACTATAGGGGTATTTTCG-TAATTTTACA
1 -TACAGGGGTATTTC-ATAATTTTACA-AATGGGGGTATTTTCGATAATTTTACA
*
26737020 CTACAGGGTTATTTTCATAATTTTACAAACTGGGGGTATTTT-GATAATTTTACA
1 -TACAGGGGTA-TTTCATAATTTTACAAA-TGGGGGTATTTTCGATAATTTTACA
* * * *
26737074 -AGCTGGGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTT-GGTAATTTTTCA
1 TA-C-AGGGGTATTTCA-TAATTTTACAAA-TGGGGGTATTTTCGATAATTTTACA
* * * * * * * *
26737128 AACTGGGGGTATTTTGATAATATTAAAAATTGGAGTA-TTTCGGTAATTTTACA
1 TAC-AGGGGTA-TTTCATAATTTTACAAATGGGGGTATTTTCGATAATTTTACA
26737181 ATCCGAGGTC
Statistics
Matches: 184, Mismatches: 20, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
52 4 0.02
53 24 0.13
54 142 0.77
55 14 0.08
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (52 bp):
TACAGGGGTATTTCATAATTTTACAAATGGGGGTATTTTCGATAATTTTACA
Found at i:26737101 original size:27 final size:27
Alignment explanation
Indices: 26736917--26737181 Score: 147
Period size: 27 Copynumber: 9.9 Consensus size: 27
26736907 TTGCCCTACA
* * *
26736917 GGGGTATTTCAATAATTTTACACTAC-A
1 GGGGTATTTCAGTAATTTTACA-AACTG
* * *
26736944 AGGGTATTTC-GATAATTTTACATTAC-A
1 GGGGTATTTCAG-TAATTTTACA-AACTG
* *
26736971 GGGGTATTTC-GATAATTTTACACTA-TA
1 GGGGTATTTCAG-TAATTTTACA-AACTG
* *
26736998 GGGGTATTTTC-GTAATTTTACACTAC-A
1 GGGGTA-TTTCAGTAATTTTACA-AACTG
*
26737025 GGGTTATTTTCA-TAATTTTACAAACTG
1 GGGGTA-TTTCAGTAATTTTACAAACTG
* *
26737052 GGGGTATTT-TGATAATTTTACAAGCTG
1 GGGGTATTTCAG-TAATTTTACAAACTG
*
26737079 GGGGTATTTCAGTAATTTTACAAATTG
1 GGGGTATTTCAGTAATTTTACAAACTG
* ** *
26737106 AGGGTATTTTGGTAATTTTTCAAACTG
1 GGGGTATTTCAGTAATTTTACAAACTG
* * * *
26737133 GGGGTATTT-TGATAATATTA-AAAATT
1 GGGGTATTTCAG-TAATTTTACAAACTG
* *
26737159 GGAGTATTTCGGTAATTTTACAA
1 GGGGTATTTCAGTAATTTTACAA
26737182 TCCGAGGTCT
Statistics
Matches: 198, Mismatches: 28, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
26 25 0.13
27 167 0.84
28 6 0.03
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
GGGGTATTTCAGTAATTTTACAAACTG
Found at i:26743402 original size:15 final size:15
Alignment explanation
Indices: 26743370--26743398 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
26743360 ATTTTCTATG
26743370 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
26743385 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
26743399 ATTTTTGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:26743936 original size:15 final size:15
Alignment explanation
Indices: 26743916--26743946 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26743906 AAATATGAAA
26743916 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
26743931 GATATGTTTTGTATT
1 GATATGTTTTGGATT
26743946 G
1 G
26743947 GAATTTTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:26746142 original size:28 final size:28
Alignment explanation
Indices: 26746103--26746177 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
26746093 TGGCCCCTTT
*
26746103 AGGCCCAATCACATTCATATGGCCTATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * *
26746131 GGGCCCAATCACATTCGTATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
*
26746159 AGGACCAATCACATTCATA
1 AGGCCCAATCACATTCATA
26746178 GTCATGTAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:26751178 original size:25 final size:25
Alignment explanation
Indices: 26751150--26751200 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
26751140 CCCTTATAAT
* * *
26751150 GTGAAAATAACCTTTTTGCCCCTAG
1 GTGAAAATAACCATTATACCCCTAG
*
26751175 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATAACCATTATACCCCTAG
26751200 G
1 G
26751201 GTTATGTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (25 bp):
GTGAAAATAACCATTATACCCCTAG
Found at i:26751256 original size:10 final size:10
Alignment explanation
Indices: 26751241--26751279 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
26751231 TGCTTTTTTA
26751241 CATGATATGC
1 CATGATATGC
26751251 CATGATATGC
1 CATGATATGC
*
26751261 ACATAATATGC
1 -CATGATATGC
*
26751272 CATCATAT
1 CATGATAT
26751280 ATTCACATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:26751269 original size:21 final size:21
Alignment explanation
Indices: 26751240--26751279 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26751230 CTGCTTTTTT
* *
26751240 ACATGATATGCCATGATATGC
1 ACATAATATGCCATCATATGC
26751261 ACATAATATGCCATCATAT
1 ACATAATATGCCATCATAT
26751280 ATTCACATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (21 bp):
ACATAATATGCCATCATATGC
Found at i:26751361 original size:25 final size:25
Alignment explanation
Indices: 26751326--26751394 Score: 97
Period size: 24 Copynumber: 2.8 Consensus size: 25
26751316 AGGGAGTGCT
*
26751326 AAAAGGTCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
26751351 AAAAGGGCTTTGCCCTAG-TTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
26751375 AAAAGGGCTTTG-CCCAGTTT
1 AAAAGGGCTTTGCCCCAGTTT
26751395 TAAAAGAGGC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
23 4 0.10
24 19 0.49
25 16 0.41
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:26759173 original size:10 final size:10
Alignment explanation
Indices: 26759158--26759196 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
26759148 TGCTTTTGTA
26759158 CATGATATGC
1 CATGATATGC
26759168 CATGATATGC
1 CATGATATGC
*
26759178 ACATGATATCC
1 -CATGATATGC
26759189 CATGATAT
1 CATGATAT
26759197 ATTCACATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:26759182 original size:21 final size:21
Alignment explanation
Indices: 26759157--26759196 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
26759147 CTGCTTTTGT
*
26759157 ACATGATATGCCATGATATGC
1 ACATGATATCCCATGATATGC
26759178 ACATGATATCCCATGATAT
1 ACATGATATCCCATGATAT
26759197 ATTCACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (21 bp):
ACATGATATCCCATGATATGC
Done.