Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold86
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1697160
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.30
Warning! 169504 characters in sequence are not A, C, G, or T
File 5 of 6
Found at i:956627 original size:39 final size:39
Alignment explanation
Indices: 956561--956635 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
956551 AGTAACTCGA
956561 TGTTCTACTGTCTAAAACTTAAAATCAATCATTAGTAAC
1 TGTTCTACTGTCTAAAACTTAAAATCAATCATTAGTAAC
*
956600 TGTTCTACTGTCTAAACCTTAAAATCAATCATTAGT
1 TGTTCTACTGTCTAAAACTTAAAATCAATCATTAGT
956636 GACAGTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (39 bp):
TGTTCTACTGTCTAAAACTTAAAATCAATCATTAGTAAC
Found at i:959132 original size:20 final size:22
Alignment explanation
Indices: 959092--959132 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
959082 CTGACATTAG
*
959092 ATTACCCAGTATTCTCTCTGAT
1 ATTACCCAGTAATCTCTCTGAT
959114 ATTACCCAG-AATC-CTCTGA
1 ATTACCCAGTAATCTCTCTGA
959133 ACCGAGCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (22 bp):
ATTACCCAGTAATCTCTCTGAT
Found at i:960713 original size:13 final size:13
Alignment explanation
Indices: 960695--960719 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
960685 CTAAAACCCC
960695 GGGTTTACTTTTG
1 GGGTTTACTTTTG
960708 GGGTTTACTTTT
1 GGGTTTACTTTT
960720 TGAAAATTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.28, T:0.56
Consensus pattern (13 bp):
GGGTTTACTTTTG
Found at i:960756 original size:11 final size:11
Alignment explanation
Indices: 960740--960780 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
960730 TGTCCAGTTG
960740 GGGTTTACTTT
1 GGGTTTACTTT
960751 GGGTTTACTCTT
1 GGGTTTACT-TT
960763 -GGTTTACTTT
1 GGGTTTACTTT
960773 GGGTTTAC
1 GGGTTTAC
960781 ACATGGTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.07
11 24 0.86
12 2 0.07
ACGTcount: A:0.10, C:0.12, G:0.27, T:0.51
Consensus pattern (11 bp):
GGGTTTACTTT
Found at i:960767 original size:22 final size:22
Alignment explanation
Indices: 960741--960794 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
960731 GTCCAGTTGG
* *
960741 GGTTTACTTTGGGTTTACTCTT
1 GGTTTACTTTGGGTTTACACAT
960763 GGTTTACTTTGGGTTTACACAT
1 GGTTTACTTTGGGTTTACACAT
*
960785 GGTTTGCTTT
1 GGTTTACTTT
960795 AGGGGTCCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.11, C:0.13, G:0.24, T:0.52
Consensus pattern (22 bp):
GGTTTACTTTGGGTTTACACAT
Found at i:964416 original size:20 final size:22
Alignment explanation
Indices: 964377--964418 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
964367 TTTATATACG
*
964377 TACAGTACAATGTTTTTGGTTA
1 TACAGTACAATGTGTTTGGTTA
964399 TACAGTAC-AT-TGTTTGGTTA
1 TACAGTACAATGTGTTTGGTTA
964419 GATCTATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (22 bp):
TACAGTACAATGTGTTTGGTTA
Found at i:965799 original size:15 final size:15
Alignment explanation
Indices: 965779--965811 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
965769 TTACACAGTG
965779 ACTACACAGCAGCCT
1 ACTACACAGCAGCCT
965794 ACTACACAGCAGCCT
1 ACTACACAGCAGCCT
965809 ACT
1 ACT
965812 TGATGTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.39, G:0.12, T:0.15
Consensus pattern (15 bp):
ACTACACAGCAGCCT
Found at i:965846 original size:28 final size:28
Alignment explanation
Indices: 965793--966296 Score: 777
Period size: 28 Copynumber: 18.1 Consensus size: 28
965783 CACAGCAGCC
965793 TACTACACAGCAGCCTA----CTTGATG
1 TACTACACAGCAGCCTACCTCCTTGATG
*
965817 TACTACTCAGCAGCCTTA-CTCCTTGATG
1 TACTACACAGCAGCC-TACCTCCTTGATG
* *
965845 TACTACACTGCAGCATACCTCCTTGATG
1 TACTACACAGCAGCCTACCTCCTTGATG
965873 TACTACACAGCAGCCTACCTCCTTGATG
1 TACTACACAGCAGCCTACCTCCTTGATG
*
965901 TACTACAAAGCAGCCTTA-CTCCTTGATG
1 TACTACACAGCAGCC-TACCTCCTTGATG
*
965929 TACTACACAGCAGCCTACTTCCTTGATG
1 TACTACACAGCAGCCTACCTCCTTGATG
965957 TACTACACAGCAGCCTACCTCCTTGATG
1 TACTACACAGCAGCCTACCTCCTTGATG
*
965985 TACTACACAGCAGCCTACCTTCTTGATG
1 TACTACACAGCAGCCTACCTCCTTGATG
966013 TACTACACAGCAGCCTACCTCCTTGATG
1 TACTACACAGCAGCCTACCTCCTTGATG
* * *
966041 TACTACACAGCAGCCTAACTCCATCATG
1 TACTACACAGCAGCCTACCTCCTTGATG
* *
966069 TACTACACAGCAGCCTAACTCCTTCATG
1 TACTACACAGCAGCCTACCTCCTTGATG
*
966097 TACTACACTGCAGCCTACCTCCTTGATG
1 TACTACACAGCAGCCTACCTCCTTGATG
* *
966125 TACTACACAGCAGCCTAACTCCTTCATG
1 TACTACACAGCAGCCTACCTCCTTGATG
*
966153 TACTACACTGCAGCCTACCTCCTTGATG
1 TACTACACAGCAGCCTACCTCCTTGATG
*
966181 TACTACACAGCAGCCTACCCCCTTGATG
1 TACTACACAGCAGCCTACCTCCTTGATG
* * *
966209 TACTACATAGCATCCTATCTCCTTGATG
1 TACTACACAGCAGCCTACCTCCTTGATG
966237 TACTACACAGCAGCCTACCTCCTTGATG
1 TACTACACAGCAGCCTACCTCCTTGATG
966265 TACTACACAGCAGCCTACCTCCTTGATG
1 TACTACACAGCAGCCTACCTCCTTGATG
966293 TACT
1 TACT
966297 CCTCCTGTTC
Statistics
Matches: 439, Mismatches: 34, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
24 14 0.03
25 2 0.00
27 4 0.01
28 417 0.95
29 2 0.00
ACGTcount: A:0.26, C:0.34, G:0.13, T:0.27
Consensus pattern (28 bp):
TACTACACAGCAGCCTACCTCCTTGATG
Found at i:966998 original size:22 final size:22
Alignment explanation
Indices: 966913--967016 Score: 120
Period size: 22 Copynumber: 4.8 Consensus size: 22
966903 CTGAAGTATC
*
966913 AGATGTTAACCTGAGGTGCATG
1 AGATGTTAACCTGAGGTGCTTG
* *
966935 AGATGTTAACCTGAGATGCGTG
1 AGATGTTAACCTGAGGTGCTTG
* * *
966957 AGATGTTAAACTGAGATGTTTG
1 AGATGTTAACCTGAGGTGCTTG
*
966979 AGATGTTAACCTGAGGTG-TTT
1 AGATGTTAACCTGAGGTGCTTG
* *
967000 ACAAGTTAACCTGAGGT
1 AGATGTTAACCTGAGGT
967017 TTTTTAAAAC
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
21 17 0.24
22 55 0.76
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.31
Consensus pattern (22 bp):
AGATGTTAACCTGAGGTGCTTG
Found at i:972700 original size:12 final size:12
Alignment explanation
Indices: 972683--972709 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
972673 TGTGTGTGAG
972683 AGAGAGAGAGAC
1 AGAGAGAGAGAC
972695 AGAGAGAGAGAC
1 AGAGAGAGAGAC
972707 AGA
1 AGA
972710 CATACAGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.41, T:0.00
Consensus pattern (12 bp):
AGAGAGAGAGAC
Found at i:975588 original size:2 final size:2
Alignment explanation
Indices: 975581--975619 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
975571 ACCACCACCA
975581 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
975620 GGCATTGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:977965 original size:17 final size:16
Alignment explanation
Indices: 977943--977976 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
977933 CTGGAGTGCG
977943 ACCATTTCTCGCCGAGT
1 ACCATTTCTCGCC-AGT
977960 ACCATTTCTCGCCAGT
1 ACCATTTCTCGCCAGT
977976 A
1 A
977977 TATTGTGACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.29
Consensus pattern (16 bp):
ACCATTTCTCGCCAGT
Found at i:979040 original size:11 final size:10
Alignment explanation
Indices: 979004--979074 Score: 115
Period size: 10 Copynumber: 6.8 Consensus size: 10
978994 CACGTCTTTT
979004 AACCCCAAGG
1 AACCCCAAGG
979014 AACCCCAAGG
1 AACCCCAAGG
979024 AACCCCAAGG
1 AACCCCAAGG
979034 AAACCCCAAGG
1 -AACCCCAAGG
979045 AACCCCAAGG
1 AACCCCAAGG
979055 AAACCCCAAGG
1 -AACCCCAAGG
979066 ATACCCCAA
1 A-ACCCCAA
979075 TGACAGAAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
10 31 0.53
11 27 0.47
ACGTcount: A:0.42, C:0.39, G:0.17, T:0.01
Consensus pattern (10 bp):
AACCCCAAGG
Found at i:979040 original size:21 final size:21
Alignment explanation
Indices: 979004--979074 Score: 126
Period size: 21 Copynumber: 3.4 Consensus size: 21
978994 CACGTCTTTT
979004 AACCCCAAGG-AACCCCAAGG
1 AACCCCAAGGAAACCCCAAGG
979024 AACCCCAAGGAAACCCCAAGG
1 AACCCCAAGGAAACCCCAAGG
979045 AACCCCAAGGAAACCCCAAGG
1 AACCCCAAGGAAACCCCAAGG
979066 ATACCCCAA
1 A-ACCCCAA
979075 TGACAGAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 10 0.20
21 32 0.65
22 7 0.14
ACGTcount: A:0.42, C:0.39, G:0.17, T:0.01
Consensus pattern (21 bp):
AACCCCAAGGAAACCCCAAGG
Found at i:979676 original size:173 final size:166
Alignment explanation
Indices: 979229--979749 Score: 769
Period size: 166 Copynumber: 3.1 Consensus size: 166
979219 GAATCCCAAG
* * * * *
979229 GAACCTCAAGGATACCCTAATGATACAAATTTTAAACTCGTGG-TACCCCTGGGGACTCACTGGT
1 GAACCCCAAGGATACCCTAATAATACAAATTTAAAACTC-TGGATAACCCTGGGGACTCATTGGT
* * *
979293 ATTCCAGAAACACCTCTAAGAA-CCACAGGGAACCCCTGGGATATCCCAAGGAACTTCAAGAATA
65 ATTCCAGATACACCTCTAAGAATCC-CAGGGAACCCCAGGGATATCCCAAGGAACTCCAAGAATA
979357 CCCTAATAATACAGAATCATAACTCTTGATACTCCATA
129 CCCTAATAATACAGAATCATAACTCTTGATACTCCATA
* *
979395 GAACCCCAAGGATACCCTAATAATACAAATTTAAAACTCT-TATTAACCCTGAGGACTCATTGGT
1 GAACCCCAAGGATACCCTAATAATACAAATTTAAAACTCTGGA-TAACCCTGGGGACTCATTGGT
* *
979459 ATTCCAGATACACCTCTAGGAATCCCAGGGAACCCCATGGATATCCCAAGGAACTCCAAGAATAC
65 ATTCCAGATACACCTCTAAGAATCCCAGGGAACCCCAGGGATATCCCAAGGAACTCCAAGAATAC
*
979524 CCTAATAATACAGAATCATAAATCTTGATACTCCATA
130 CCTAATAATACAGAATCATAACTCTTGATACTCCATA
* *
979561 GAACCCCAAGGATACCGTAATACGCTGCAATACAAATCTAAAACTCTGGATAACCCTGGGGACTC
1 GAACCCCAAGGATACCCT-A-A---T--AATACAAATTTAAAACTCTGGATAACCCTGGGGACTC
979626 ATTGGTATTCCAGATACACCTCTAAGAATCCCAGGGAACCCCAGGGATATCCCAAGGAACTCCAA
59 ATTGGTATTCCAGATACACCTCTAAGAATCCCAGGGAACCCCAGGGATATCCCAAGGAACTCCAA
* * *
979691 GAATACCCTAATAATACAGATTCATAACTCTTGATACACCACA
124 GAATACCCTAATAATACAGAATCATAACTCTTGATACTCCATA
979734 GAACCCCAAGGATACC
1 GAACCCCAAGGATACC
979750 TCAAGGAACT
Statistics
Matches: 321, Mismatches: 23, Indels: 15
0.89 0.06 0.04
Matches are distributed among these distances:
165 1 0.00
166 164 0.51
167 3 0.01
168 1 0.00
171 1 0.00
173 150 0.47
174 1 0.00
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (166 bp):
GAACCCCAAGGATACCCTAATAATACAAATTTAAAACTCTGGATAACCCTGGGGACTCATTGGTA
TTCCAGATACACCTCTAAGAATCCCAGGGAACCCCAGGGATATCCCAAGGAACTCCAAGAATACC
CTAATAATACAGAATCATAACTCTTGATACTCCATA
Found at i:979780 original size:73 final size:72
Alignment explanation
Indices: 979661--979799 Score: 172
Period size: 73 Copynumber: 1.9 Consensus size: 72
979651 GAATCCCAGG
* * * *
979661 GAACCCCAGGGATATCCCAAGGAACTCCAAGAATACCCTAATAATACAGATTCATAACTCTTGAT
1 GAACCCCAAGGATATCCCAAGGAACTCAAAGAATAACCTAATAATACAAATTCA-AACTCTTGAT
979726 ACACCACA
65 ACACCACA
* * * * *
979734 GAACCCCAAGGATA-CCTCAAGGAACTTAAAGGATAACTTAATAATACAAATTTAAATTCTTGAT
1 GAACCCCAAGGATATCC-CAAGGAACTCAAAGAATAACCTAATAATACAAATTCAAACTCTTGAT
979798 AC
65 AC
979800 CCGTAGGGAC
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
72 13 0.23
73 43 0.77
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.22
Consensus pattern (72 bp):
GAACCCCAAGGATATCCCAAGGAACTCAAAGAATAACCTAATAATACAAATTCAAACTCTTGATA
CACCACA
Found at i:979920 original size:2 final size:2
Alignment explanation
Indices: 979913--979982 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
979903 NNNNNNNNNN
979913 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
979955 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
979983 TTAGCTGATT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:980136 original size:47 final size:47
Alignment explanation
Indices: 979986--980456 Score: 457
Period size: 47 Copynumber: 10.0 Consensus size: 47
979976 TCTCTCTTTA
* *
979986 GCTGATTATTTGACTGTGGCCTATGACTGGCTTTCCCCCTTACCCTG
1 GCTGAGTATTTGACTGTGGCCTATGACTGGCTTTCCCCCTAACCCTG
* * * ** * * * *
980033 GCTGAGTATTTGATTGCGG-TTACAATTGACTTTCCCCTTTACCCTG
1 GCTGAGTATTTGACTGTGGCCTATGACTGGCTTTCCCCCTAACCCTG
* *
980079 GCTGAGTATTTGACTGTGGCCTAAGACTGGGTTTCCCCCTAACCCTG
1 GCTGAGTATTTGACTGTGGCCTATGACTGGCTTTCCCCCTAACCCTG
* * * * * *
980126 TC-GTATTATTTGACTGTCGTCTATGACTGACTTTCCCCCTTACCCTG
1 GCTG-AGTATTTGACTGTGGCCTATGACTGGCTTTCCCCCTAACCCTG
*
980173 GCTGAGTATTTGACTGTGGCCTATGACTGGCTTT-CCCCTAACTCTG
1 GCTGAGTATTTGACTGTGGCCTATGACTGGCTTTCCCCCTAACCCTG
* *
980219 GCTGAGTATTTAACTGTGGCCTACATGTATGACTGGCTTTCCCCCTTACCCTG
1 GCTGAGTATTTGACTGTGG-C--C---TATGACTGGCTTTCCCCCTAACCCTG
* * * * * *
980272 GCTGAGTATTTGATTGTCGTCTATCACTGAC-TTCCCCCTTACCCTG
1 GCTGAGTATTTGACTGTGGCCTATGACTGGCTTTCCCCCTAACCCTG
* * ** * *
980318 GCTGAGTATTTCACTGTGGTCC-ATGACTGGTTTTCCATCTCACTCTG
1 GCTGAGTATTTGACTGTGG-CCTATGACTGGCTTTCCCCCTAACCCTG
* * * * * * *
980365 GCTGAGTAGTTGACTATAGCCAATGACTTGCTTTCCCCCTTACTCTG
1 GCTGAGTATTTGACTGTGGCCTATGACTGGCTTTCCCCCTAACCCTG
*
980412 GCTGAGTATTTGACTGTGGCCTATGACTGGCTTTCCCCCTTACCC
1 GCTGAGTATTTGACTGTGGCCTATGACTGGCTTTCCCCCTAACCC
980457 ATGATAATTC
Statistics
Matches: 342, Mismatches: 69, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
46 106 0.31
47 194 0.57
48 1 0.00
49 1 0.00
50 1 0.00
52 13 0.04
53 26 0.08
ACGTcount: A:0.16, C:0.28, G:0.21, T:0.36
Consensus pattern (47 bp):
GCTGAGTATTTGACTGTGGCCTATGACTGGCTTTCCCCCTAACCCTG
Found at i:980319 original size:99 final size:99
Alignment explanation
Indices: 979986--980336 Score: 316
Period size: 99 Copynumber: 3.7 Consensus size: 99
979976 TCTCTCTTTA
* * * * * * * *
979986 GCTGATTATTTGACTGTGGCCTATGACTGGCTTTCCCCCTTACCCTGGCTGAGTATTTGATTGCG
1 GCTGAGTATTTGACTGTCGCCTATCACTGAC-TTCCCCCTAACCCTGGCTGAGTATTTAACTGTG
* *
980051 G-TTACA---AT---TGACTTTCCCCTTTACCCTG
65 GCCTACATGTATGACTGACTTTCCCCCTTACCCTG
* ** ** * * *
980079 GCTGAGTATTTGACTGTGGCCTAAGACTGGGTTTCCCCCTAACCCTGTC-GTATTATTTGACTGT
1 GCTGAGTATTTGACTGTCGCCTATCACT-GACTTCCCCCTAACCCTGGCTG-AGTATTTAACTGT
*
980143 --CGT-C---TATGACTGACTTTCCCCCTTACCCTG
64 GGCCTACATGTATGACTGACTTTCCCCCTTACCCTG
* * * * *
980173 GCTGAGTATTTGACTGTGGCCTATGACTGGCTTTCCCCTAACTCTGGCTGAGTATTTAACTGTGG
1 GCTGAGTATTTGACTGTCGCCTATCACTGACTTCCCCCTAACCCTGGCTGAGTATTTAACTGTGG
*
980238 CCTACATGTATGACTGGCTTTCCCCCTTACCCTG
66 CCTACATGTATGACTGACTTTCCCCCTTACCCTG
* * * *
980272 GCTGAGTATTTGATTGTCGTCTATCACTGACTTCCCCCTTACCCTGGCTGAGTATTTCACTGTGG
1 GCTGAGTATTTGACTGTCGCCTATCACTGACTTCCCCCTAACCCTGGCTGAGTATTTAACTGTGG
980337 TCCATGACTG
Statistics
Matches: 216, Mismatches: 28, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
91 3 0.01
92 2 0.01
93 78 0.36
94 49 0.23
95 2 0.01
96 1 0.00
99 81 0.38
ACGTcount: A:0.16, C:0.27, G:0.21, T:0.36
Consensus pattern (99 bp):
GCTGAGTATTTGACTGTCGCCTATCACTGACTTCCCCCTAACCCTGGCTGAGTATTTAACTGTGG
CCTACATGTATGACTGACTTTCCCCCTTACCCTG
Found at i:980426 original size:239 final size:239
Alignment explanation
Indices: 980007--980449 Score: 637
Period size: 239 Copynumber: 1.9 Consensus size: 239
979997 GACTGTGGCC
* *
980007 TATGACTGGCTTTCCCCCTTACCCTGGCTGAGTATTTGATTGCGGTTACAATTGACTTTCCCCTT
1 TATGACTGGCTTTCCCCCTTACCCTGGCTGAGTATTTGATTGCGGTTACAACTGACTTTCCCCCT
* * * * *
980072 TACCCTGGCTGAGTATTTGACTGTGGCCTAAGACTGGGTTTCCCCCTAACCCTGTCGTATTATTT
66 TACCCTGGCTGAGTATTTCACTGTGGCCTAAGACTGGGTTTCCACCTAACCCTGGCGTAGTAGTT
* * * *
980137 GACTGTCGTCTATGACTGACTTTCCCCCTTACCCTGGCTGAGTATTTGACTGTGGCCTATGACTG
131 GACTATAGCCAATGACTGACTTTCCCCCTTACCCTGGCTGAGTATTTGACTGTGGCCTATGACTG
980202 GCTTTCCCCTAACTCTGGCTGAGTATTTAACTGTGGCCTACATG
196 GCTTTCCCCTAACTCTGGCTGAGTATTTAACTGTGGCCTACATG
980246 TATGACTGGCTTTCCCCCTTACCCTGGCTGAGTATTTGATTGTC-GTCTATC-ACTGAC-TTCCC
1 TATGACTGGCTTTCCCCCTTACCCTGGCTGAGTATTTGATTG-CGGT-TA-CAACTGACTTTCCC
* * * * *
980308 CCTTACCCTGGCTGAGTATTTCACTGTGGTCC-ATGACTGGTTTTCCATCTCACTCTGGC-TGAG
63 CCTTACCCTGGCTGAGTATTTCACTGTGG-CCTAAGACTGGGTTTCCACCTAACCCTGGCGT-AG
*
980371 TAGTTGACTATAGCCAATGACTTG-CTTTCCCCCTTACTCTGGCTGAGTATTTGACTGTGGCCTA
126 TAGTTGACTATAGCCAATGAC-TGACTTTCCCCCTTACCCTGGCTGAGTATTTGACTGTGGCCTA
980435 TGACTGGCTTTCCCC
190 TGACTGGCTTTCCCC
980450 CTTACCCATG
Statistics
Matches: 181, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
238 1 0.01
239 167 0.92
240 12 0.07
241 1 0.01
ACGTcount: A:0.16, C:0.28, G:0.21, T:0.36
Consensus pattern (239 bp):
TATGACTGGCTTTCCCCCTTACCCTGGCTGAGTATTTGATTGCGGTTACAACTGACTTTCCCCCT
TACCCTGGCTGAGTATTTCACTGTGGCCTAAGACTGGGTTTCCACCTAACCCTGGCGTAGTAGTT
GACTATAGCCAATGACTGACTTTCCCCCTTACCCTGGCTGAGTATTTGACTGTGGCCTATGACTG
GCTTTCCCCTAACTCTGGCTGAGTATTTAACTGTGGCCTACATG
Found at i:987197 original size:20 final size:20
Alignment explanation
Indices: 987151--987198 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
987141 TTCAACATAC
*
987151 AAAAAATATTTTTTTATTTT
1 AAAAAATATTTTTTTATTTA
* *
987171 CATAAATATTTTTTTATTTA
1 AAAAAATATTTTTTTATTTA
987191 AAAAAATA
1 AAAAAATA
987199 AAACAATATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
AAAAAATATTTTTTTATTTA
Found at i:987585 original size:21 final size:21
Alignment explanation
Indices: 987559--987650 Score: 121
Period size: 21 Copynumber: 4.4 Consensus size: 21
987549 TTCTGCCACC
**
987559 ACTTGTCAGATATCCATGTCG
1 ACTTGTCAGATATTTATGTCG
* *
987580 ACTTGTCAGATCTTGATGTCG
1 ACTTGTCAGATATTTATGTCG
* *
987601 ACTTGTCAGATAATTATGTTG
1 ACTTGTCAGATATTTATGTCG
*
987622 ACTTGTCAGATCTTTATGTCG
1 ACTTGTCAGATATTTATGTCG
987643 ACTTGTCA
1 ACTTGTCA
987651 CTTATTCACG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (21 bp):
ACTTGTCAGATATTTATGTCG
Found at i:987605 original size:42 final size:42
Alignment explanation
Indices: 987559--987650 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
987549 TTCTGCCACC
987559 ACTTGTCAGAT-ATCCATGTCGACTTGTCAGATCTTGATGTCG
1 ACTTGTCAGATAAT-CATGTCGACTTGTCAGATCTTGATGTCG
* * *
987601 ACTTGTCAGATAATTATGTTGACTTGTCAGATCTTTATGTCG
1 ACTTGTCAGATAATCATGTCGACTTGTCAGATCTTGATGTCG
987643 ACTTGTCA
1 ACTTGTCA
987651 CTTATTCACG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 44 0.96
43 2 0.04
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (42 bp):
ACTTGTCAGATAATCATGTCGACTTGTCAGATCTTGATGTCG
Found at i:987753 original size:21 final size:21
Alignment explanation
Indices: 987716--987889 Score: 215
Period size: 21 Copynumber: 8.3 Consensus size: 21
987706 CCATCCAGTT
*
987716 GACATACATTTTCTGACAAGTC
1 GACATA-ATTATCTGACAAGTC
**
987738 GACATAAGGATCTGACAAGTC
1 GACATAATTATCTGACAAGTC
*
987759 GACATAATCATCTGACAAGTC
1 GACATAATTATCTGACAAGTC
* * *
987780 GACATCATTCTTTGACAAGTC
1 GACATAATTATCTGACAAGTC
*
987801 GACATAATTATATGACAAGTC
1 GACATAATTATCTGACAAGTC
* * *
987822 GAAATTATTATTTGACAAGTC
1 GACATAATTATCTGACAAGTC
987843 GACATAA-TATCTGACAAGTC
1 GACATAATTATCTGACAAGTC
*
987863 AACATAATTATCTGACAAGTC
1 GACATAATTATCTGACAAGTC
*
987884 AACATA
1 GACATA
987890 TAATATATAT
Statistics
Matches: 132, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
20 18 0.14
21 108 0.82
22 6 0.05
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (21 bp):
GACATAATTATCTGACAAGTC
Found at i:987950 original size:21 final size:21
Alignment explanation
Indices: 987926--988024 Score: 99
Period size: 21 Copynumber: 4.7 Consensus size: 21
987916 TTATTTTTTC
*
987926 TGTCAAATAATTATGTTAACT
1 TGTCAGATAATTATGTTAACT
* **
987947 TGTCAGATCATTATGTCGACT
1 TGTCAGATAATTATGTTAACT
987968 TGTCAGATAATTATGTTAACT
1 TGTCAGATAATTATGTTAACT
* ** * * *
987989 TATCAGATCTTTTTATTGACT
1 TGTCAGATAATTATGTTAACT
*
988010 TGTTAGATAATTATG
1 TGTCAGATAATTATG
988025 ATGACAAGTT
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.44
Consensus pattern (21 bp):
TGTCAGATAATTATGTTAACT
Found at i:987978 original size:42 final size:42
Alignment explanation
Indices: 987926--988024 Score: 135
Period size: 42 Copynumber: 2.4 Consensus size: 42
987916 TTATTTTTTC
* * *
987926 TGTCAAATAATTATGTTAACTTGTCAGATCATTATGTCGACT
1 TGTCAGATAATTATGTTAACTTATCAGATCATTATATCGACT
* * *
987968 TGTCAGATAATTATGTTAACTTATCAGATCTTTTTATTGACT
1 TGTCAGATAATTATGTTAACTTATCAGATCATTATATCGACT
*
988010 TGTTAGATAATTATG
1 TGTCAGATAATTATG
988025 ATGACAAGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.44
Consensus pattern (42 bp):
TGTCAGATAATTATGTTAACTTATCAGATCATTATATCGACT
Found at i:988129 original size:21 final size:21
Alignment explanation
Indices: 988103--988196 Score: 107
Period size: 21 Copynumber: 4.5 Consensus size: 21
988093 ACGATAATTT
*
988103 TCTGACAAGTCAACAAAAAGA
1 TCTGACAAGTCAACATAAAGA
** *
988124 TCTGACAAGTTGACATAAATA
1 TCTGACAAGTCAACATAAAGA
* *
988145 TCTGACAAGTCGACATAATGA
1 TCTGACAAGTCAACATAAAGA
* **
988166 TCTGACAAGTCAATATAATTA
1 TCTGACAAGTCAACATAAAGA
988187 TCTGACAAGT
1 TCTGACAAGT
988197 GGTGGCAGAT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.26
Consensus pattern (21 bp):
TCTGACAAGTCAACATAAAGA
Found at i:988149 original size:42 final size:42
Alignment explanation
Indices: 988103--988196 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
988093 ACGATAATTT
**
988103 TCTGACAAGTCAACAAAAAGATCTGACAAGTTGACATAAATA
1 TCTGACAAGTCAACAAAAAGATCTGACAAGTCAACATAAATA
* * * * *
988145 TCTGACAAGTCGACATAATGATCTGACAAGTCAATATAATTA
1 TCTGACAAGTCAACAAAAAGATCTGACAAGTCAACATAAATA
988187 TCTGACAAGT
1 TCTGACAAGT
988197 GGTGGCAGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.26
Consensus pattern (42 bp):
TCTGACAAGTCAACAAAAAGATCTGACAAGTCAACATAAATA
Found at i:991663 original size:42 final size:42
Alignment explanation
Indices: 991617--991751 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 42
991607 TTCGACACTG
** *
991617 TATTACATGGGGCGAATGTATCCTTACATTATGTCAACATTT
1 TATTACATGTAGCGAATATATCCTTACATTATGTCAACATTT
* * ***
991659 TATTACATGATATC-AATATATCCTTACATTATATCAACACCG
1 TATTACATG-TAGCGAATATATCCTTACATTATGTCAACATTT
* * * * * * *
991701 CAGTACGTATCGCGATTCTATCCTTACATTATGTCAACATTT
1 TATTACATGTAGCGAATATATCCTTACATTATGTCAACATTT
991743 TATTACATG
1 TATTACATG
991752 ATATCAATGC
Statistics
Matches: 67, Mismatches: 24, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
41 2 0.03
42 64 0.96
43 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (42 bp):
TATTACATGTAGCGAATATATCCTTACATTATGTCAACATTT
Found at i:991674 original size:21 final size:21
Alignment explanation
Indices: 991635--991697 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
991625 GGGGCGAATG
* *
991635 TATCCTTACATTATGTCAACA
1 TATCATTACATTATATCAACA
* * * *
991656 TTTTATTACATGATATCAATA
1 TATCATTACATTATATCAACA
*
991677 TATCCTTACATTATATCAACA
1 TATCATTACATTATATCAACA
991698 CCGCAGTACG
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.41
Consensus pattern (21 bp):
TATCATTACATTATATCAACA
Found at i:992584 original size:21 final size:22
Alignment explanation
Indices: 992560--992605 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
992550 ATTTAGTCTC
992560 AAAGTATTTAGTAGTTAAAA-T
1 AAAGTATTTAGTAGTTAAAAGT
992581 AAAGTATTTAGTAGTTAAAAGT
1 AAAGTATTTAGTAGTTAAAAGT
992603 AAA
1 AAA
992606 CGTTGCTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (22 bp):
AAAGTATTTAGTAGTTAAAAGT
Found at i:993902 original size:21 final size:20
Alignment explanation
Indices: 993876--993944 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 20
993866 TATTTACACC
*
993876 ATGTAATAAAGTGTTGATAAA
1 ATGTAATAAA-TGTTGATATA
*
993897 ATGTAA-AAATGCATTGATATC
1 ATGTAATAAATG--TTGATATA
*
993918 ATGTAATAAAATGTTGACATA
1 ATGTAAT-AAATGTTGATATA
993939 ATGTAA
1 ATGTAA
993945 GGATAGAATC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 2 0.05
20 3 0.08
21 30 0.75
23 5 0.12
ACGTcount: A:0.46, C:0.04, G:0.16, T:0.33
Consensus pattern (20 bp):
ATGTAATAAATGTTGATATA
Found at i:993997 original size:21 final size:21
Alignment explanation
Indices: 993973--994033 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
993963 TACTGCGGTG
993973 TTGATATAATGTAAGGATATA
1 TTGATATAATGTAAGGATATA
* ** * *
993994 TTGATATCATGTAATAAAATG
1 TTGATATAATGTAAGGATATA
*
994015 TTGACATAATGTAAGGATA
1 TTGATATAATGTAAGGATA
994034 CATTCGCCCC
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.43, C:0.03, G:0.18, T:0.36
Consensus pattern (21 bp):
TTGATATAATGTAAGGATATA
Found at i:994017 original size:42 final size:42
Alignment explanation
Indices: 993875--994033 Score: 140
Period size: 42 Copynumber: 3.8 Consensus size: 42
993865 ATATTTACAC
* * * ** **
993875 CATGTAATAAAGTGTTGATAAAATGTAAAAATGCATTGATAT
1 CATGTAATAAAATGTTGACATAATGTAAGGATAAATTGATAT
* **
993917 CATGTAATAAAATGTTGACATAATGTAAGGATAGAATCGCGAT
1 CATGTAATAAAATGTTGACATAATGTAAGGATA-AATTGATAT
* * **** * *
993960 -ACGTACTGCGGTGTTGATATAATGTAAGGATATATTGATAT
1 CATGTAATAAAATGTTGACATAATGTAAGGATAAATTGATAT
994001 CATGTAATAAAATGTTGACATAATGTAAGGATA
1 CATGTAATAAAATGTTGACATAATGTAAGGATA
994034 CATTCGCCCC
Statistics
Matches: 87, Mismatches: 28, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
41 5 0.06
42 77 0.89
43 5 0.06
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (42 bp):
CATGTAATAAAATGTTGACATAATGTAAGGATAAATTGATAT
Found at i:994047 original size:42 final size:42
Alignment explanation
Indices: 993917--994051 Score: 112
Period size: 42 Copynumber: 3.2 Consensus size: 42
993907 GCATTGATAT
* * *
993917 CATGTAATAAAATGTTGACATAATGTAAGGATAGAATCGCGA
1 CATGTAATAAAATGTTGACATAATGTAAGGATACATTCGCAA
* * * **** * *
993959 TACGTACTGCGGTGTTGATATAATGTAAGGATATATT-G-ATA
1 CATGTAATAAAATGTTGACATAATGTAAGGATACATTCGCA-A
**
994000 TCATGTAATAAAATGTTGACATAATGTAAGGATACATTCGCCC
1 -CATGTAATAAAATGTTGACATAATGTAAGGATACATTCGCAA
994043 CATGTAATA
1 CATGTAATA
994052 CAGTGTCGAA
Statistics
Matches: 67, Mismatches: 22, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
41 2 0.03
42 64 0.96
43 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (42 bp):
CATGTAATAAAATGTTGACATAATGTAAGGATACATTCGCAA
Found at i:994081 original size:84 final size:84
Alignment explanation
Indices: 993909--994068 Score: 221
Period size: 84 Copynumber: 1.9 Consensus size: 84
993899 GTAAAAATGC
* * * * * *
993909 ATTGATATCATGTAATAAAATGTTGACATAATGTAAGGATAGAATCGCGATACGTACTGCGGTGT
1 ATTGATATCATGTAATAAAATGTTGACATAATGTAAGGATACAATCGCCACACGTAATACAGTGT
* *
993974 TGATATAATGTAAGGATAT
66 CGAAATAATGTAAGGATAT
* * *
993993 ATTGATATCATGTAATAAAATGTTGACATAATGTAAGGATACATTCGCCCCATGTAATACAGTGT
1 ATTGATATCATGTAATAAAATGTTGACATAATGTAAGGATACAATCGCCACACGTAATACAGTGT
994058 CGAAATAATGT
66 CGAAATAATGT
994069 CATGATGTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 65 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (84 bp):
ATTGATATCATGTAATAAAATGTTGACATAATGTAAGGATACAATCGCCACACGTAATACAGTGT
CGAAATAATGTAAGGATAT
Found at i:994260 original size:20 final size:21
Alignment explanation
Indices: 994235--994278 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
994225 TTCACACCAC
*
994235 GTAATGG-ACTTTGACATAAT
1 GTAATGGTAATTTGACATAAT
994255 GTAATGGTAATTTGACATAAT
1 GTAATGGTAATTTGACATAAT
994276 GTA
1 GTA
994279 CCTATAGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.36
Consensus pattern (21 bp):
GTAATGGTAATTTGACATAAT
Found at i:1005335 original size:2 final size:2
Alignment explanation
Indices: 1005328--1005373 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
1005318 ACTCATTGTC
*
1005328 AG AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG -G
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1005369 AG AG A
1 AG AG A
1005374 TTTATCTTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1006435 original size:19 final size:19
Alignment explanation
Indices: 1006411--1006450 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1006401 GCACCCGCAA
* *
1006411 CAAAAACTTTAACCTGCTC
1 CAAAAACCTTAACCTCCTC
1006430 CAAAAACCTTAACCTCCTC
1 CAAAAACCTTAACCTCCTC
1006449 CA
1 CA
1006451 GCATCCGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.38, G:0.03, T:0.23
Consensus pattern (19 bp):
CAAAAACCTTAACCTCCTC
Found at i:1006525 original size:177 final size:177
Alignment explanation
Indices: 1006216--1006632 Score: 620
Period size: 177 Copynumber: 2.4 Consensus size: 177
1006206 TACTGTAATC
* * * *
1006216 ATCAGAGGGCACCTGCAACAAAAACTTTAACCAGCTCTAAAAACCTTAACCTCTTCCAGCATCCG
1 ATCAAAGGGCACCTGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAACCTCCTCCAGCATCCG
* * * ** *
1006281 AAACCTATTGATCAGATTCAGCATTCAAGCTTGTCAGGTGCATCAGTATCATAAGATGCATCATC
66 AAACCTATAGATCAGATTCAGCACTCAAGCCTGTCAGGTGCATCAGTATCATAAGACACACCATC
1006346 CATACAAGTTTGGTGAAGTTA-GGACCAGAAGTAACTTAGATATTGCT
131 CATACAAGTTTGGTGAAG-TACGGACCAGAAGTAACTTAGATATTGCT
* *
1006393 ATCAATGGGCACCCGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAACCTCCTCCAGCATCCG
1 ATCAAAGGGCACCTGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAACCTCCTCCAGCATCCG
* * * *
1006458 AAACCTATAGCTTAGATTCAGCACTCAAGCCTGTCCGGTGCATCAGTATCATAAGGCACACCATC
66 AAACCTATAGATCAGATTCAGCACTCAAGCCTGTCAGGTGCATCAGTATCATAAGACACACCATC
* *
1006523 CATGCAAGTTTGGTGAAGTACGGACCAGCAGTAACTTAGATATTGCT
131 CATACAAGTTTGGTGAAGTACGGACCAGAAGTAACTTAGATATTGCT
* * * *
1006570 ATTAAAGGGCACCTGCAACAAAAACTTTAACCTGGTCCAACAACCTTAAACTCCTCCAGCATC
1 ATCAAAGGGCACCTGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAACCTCCTCCAGCATC
1006633 TAAAATTTAG
Statistics
Matches: 215, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
176 2 0.01
177 213 0.99
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (177 bp):
ATCAAAGGGCACCTGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAACCTCCTCCAGCATCCG
AAACCTATAGATCAGATTCAGCACTCAAGCCTGTCAGGTGCATCAGTATCATAAGACACACCATC
CATACAAGTTTGGTGAAGTACGGACCAGAAGTAACTTAGATATTGCT
Found at i:1006702 original size:177 final size:174
Alignment explanation
Indices: 1006216--1006724 Score: 529
Period size: 177 Copynumber: 2.9 Consensus size: 174
1006206 TACTGTAATC
* * * * * * *
1006216 ATCAGAGGGCACCTGCAACAAAAACTTTAACCAGCTCTAAAAACCTTAACCTCTTCCAGCATCCG
1 ATCAAAGGGCACCCGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAAACTCCTCCAGCATCCA
** * * * * * *
1006281 AAACCTATTGATCAGATTCAGCATTCAAGCTTGTCAGGTGCATCAGTATCATAAGATGCATCATC
66 AAACCTAGAGCTCAGATTCAGCACTCAAGCCTGTCAAGTCCATAAGTATC---AGATGCATCATC
*
1006346 CATACAAGTTTGGTGAAGTTAGGACCAGAAGTAACTTAGATATTGCT
128 CATGCAAGTTTGGTGAAGTTAGGACCAGAAGTAACTTAGATATTGCT
* * *
1006393 ATCAATGGGCACCCGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAACCTCCTCCAGCATCCG
1 ATCAAAGGGCACCCGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAAACTCCTCCAGCATCCA
* * ** * * * * *
1006458 AAACCTATAGCTTAGATTCAGCACTCAAGCCTGTCCGGTGCATCAGTATCATAAGGCACACCATC
66 AAACCTAGAGCTCAGATTCAGCACTCAAGCCTGTCAAGTCCATAAGTATCA-GATG--CATCATC
*
1006523 CATGCAAGTTTGGTGAAG-TACGGACCAGCAGTAACTTAGATATTGCT
128 CATGCAAGTTTGGTGAAGTTA-GGACCAGAAGTAACTTAGATATTGCT
* * * * *
1006570 ATTAAAGGGCACCTGCAACAAAAACTTTAACCTGGTCCAACAACCTTAAACTCCTCCAGCATCTA
1 ATCAAAGGGCACCCGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAAACTCCTCCAGCATCCA
** * * *
1006635 AAATTTAGGAGC-CAGATTCAGCA-TCCAAGTCTTTCAATTCCATAAGTAGGTCCAGATGCATCA
66 AAACCTA-GAGCTCAGATTCAGCACT-CAAGCCTGTCAAGTCCATAAGTA--T-CAGATGCATCA
*
1006698 TCCATGCAAGTTTGGTGAAGATAGGAC
126 TCCATGCAAGTTTGGTGAAGTTAGGAC
1006725 AAGTAATAGC
Statistics
Matches: 283, Mismatches: 39, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
174 1 0.00
175 2 0.01
176 3 0.01
177 267 0.94
178 5 0.02
179 3 0.01
180 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (174 bp):
ATCAAAGGGCACCCGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAAACTCCTCCAGCATCCA
AAACCTAGAGCTCAGATTCAGCACTCAAGCCTGTCAAGTCCATAAGTATCAGATGCATCATCCAT
GCAAGTTTGGTGAAGTTAGGACCAGAAGTAACTTAGATATTGCT
Found at i:1008398 original size:14 final size:15
Alignment explanation
Indices: 1008363--1008401 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
1008353 AGGCATCATG
*
1008363 CACCCTTATGAGACA
1 CACCTTTATGAGACA
1008378 TCACCTTTATGAGAC-
1 -CACCTTTATGAGACA
1008393 CACCTTTAT
1 CACCTTTAT
1008402 CATATTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
16 13 0.59
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (15 bp):
CACCTTTATGAGACA
Found at i:1011171 original size:176 final size:175
Alignment explanation
Indices: 1010857--1011382 Score: 813
Period size: 176 Copynumber: 3.0 Consensus size: 175
1010847 CTACACCTCA
* * *
1010857 TCCAGCATCCGTAACCTATGGCTCAGATTCAGCATTCAAGCCTGTCAGGTGCATCAGTATCATAA
1 TCCAGCATCCG-AAACTATAGCTCAGATTCAGCATTCAAGCCTGTCTGGTGCATCAGTATCATAA
* * * * * * * *
1010922 GACGCATCACCCATGCAAGTTTGGTGAAGTTAGGACCAGTAGTAACTAAGAAATTATCT-TCAGA
65 GACACACCATCCATGCAAGTTTGGTGAAGTTAGGACCAGCAGTAACTTAGATATT-GCTATCAAA
* **
1010986 GGGCACCTGCAACAAAAACTTTAACCAGCTCTTAAAACCTTAACCAC
129 GGGCACCTGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAACCAC
1011033 TTCCAGCATCCGAAACTATAGCTCAGATTCAGCATTCAAGCCTGTCTGGTGCATCAGTATCATAA
1 -TCCAGCATCCGAAACTATAGCTCAGATTCAGCATTCAAGCCTGTCTGGTGCATCAGTATCATAA
*
1011098 GACACACCATCCATGCAAGTTTGGTGAAG-TACTGACCAGCAGTAACTTAGATATTGCTATCAAA
65 GACACACCATCCATGCAAGTTTGGTGAAGTTA-GGACCAGCAGTAACTTAGATATTGCTATCAAA
**
1011162 GGGCACCTGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAACTTC
129 GGGCACCTGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAACCAC
*
1011209 TCCAGCATCCGAAACCTATAGCTCAGATTCAGCACTCAAGCCTGTCTGGTGCATCAGTATCATAA
1 TCCAGCATCCGAAA-CTATAGCTCAGATTCAGCATTCAAGCCTGTCTGGTGCATCAGTATCATAA
* *
1011274 GACACACCATCCATGCAAGTTTGGTGAAGTTAGGACCAGGAGTAACTTATATATTGCTATCAAAG
65 GACACACCATCCATGCAAGTTTGGTGAAGTTAGGACCAGCAGTAACTTAGATATTGCTATCAAAG
1011339 GGCACCTGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAACC
130 GGCACCTGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAACC
1011383 TCCTTCAGCA
Statistics
Matches: 323, Mismatches: 22, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
175 18 0.06
176 292 0.90
177 13 0.04
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (175 bp):
TCCAGCATCCGAAACTATAGCTCAGATTCAGCATTCAAGCCTGTCTGGTGCATCAGTATCATAAG
ACACACCATCCATGCAAGTTTGGTGAAGTTAGGACCAGCAGTAACTTAGATATTGCTATCAAAGG
GCACCTGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAACCAC
Found at i:1011190 original size:19 final size:19
Alignment explanation
Indices: 1011166--1011205 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1011156 ATCAAAGGGC
*
1011166 ACCTGCAACAAAAACTTTA
1 ACCTGCAACAAAAACCTTA
**
1011185 ACCTGCTCCAAAAACCTTA
1 ACCTGCAACAAAAACCTTA
1011204 AC
1 AC
1011206 TTCTCCAGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.33, G:0.05, T:0.20
Consensus pattern (19 bp):
ACCTGCAACAAAAACCTTA
Found at i:1011366 original size:19 final size:19
Alignment explanation
Indices: 1011342--1011383 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1011332 ATCAAAGGGC
*
1011342 ACCTGCAACAAAAACTTTA
1 ACCTGCAACAAAAACCTTA
**
1011361 ACCTGCTCCAAAAACCTTA
1 ACCTGCAACAAAAACCTTA
1011380 ACCT
1 ACCT
1011384 CCTTCAGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.33, G:0.05, T:0.21
Consensus pattern (19 bp):
ACCTGCAACAAAAACCTTA
Found at i:1015177 original size:2 final size:2
Alignment explanation
Indices: 1015170--1015220 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1015160 TTTATTCACC
1015170 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1015212 AG AG AG AG A
1 AG AG AG AG A
1015221 CTTTCGATTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1022559 original size:2 final size:2
Alignment explanation
Indices: 1022552--1022589 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1022542 ATACCAACAG
1022552 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1022590 TTTATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1022996 original size:21 final size:21
Alignment explanation
Indices: 1022966--1023017 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 21
1022956 GAATTAAAAC
1022966 TTTTATAAATTCCGACTGGTTG
1 TTTT-TAAATTCCGACTGGTTG
1022988 TTTTTAAATTCCGACTGGTTG
1 TTTTTAAATTCCGACTGGTTG
1023009 TTTTTAAAT
1 TTTTTAAAT
1023018 ACAATAACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 26 0.87
22 4 0.13
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (21 bp):
TTTTTAAATTCCGACTGGTTG
Found at i:1023616 original size:16 final size:16
Alignment explanation
Indices: 1023597--1023627 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1023587 AGACCATTAT
*
1023597 TTTTATTTTTTTTTAC
1 TTTTATGTTTTTTTAC
1023613 TTTTATGTTTTTTTA
1 TTTTATGTTTTTTTA
1023628 TCCATTACTT
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:0.13, C:0.03, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTATGTTTTTTTAC
Found at i:1027775 original size:2 final size:2
Alignment explanation
Indices: 1027705--1027757 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
1027695 TCAAAAGCAG
1027705 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1027747 GA GA GA GA GA G
1 GA GA GA GA GA G
1027758 GGGGAGGGGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1032782 original size:100 final size:100
Alignment explanation
Indices: 1032565--1032752 Score: 367
Period size: 100 Copynumber: 1.9 Consensus size: 100
1032555 TGCAGCAACA
*
1032565 TTCTGGCAACACATTGCGGCAATGTTGCTGCAGTAGCGTTTTTCGTATGCAAATGAGATTGCGGC
1 TTCTGGCAATACATTGCGGCAATGTTGCTGCAGTAGCGTTTTTCGTATGCAAATGAGATTGCGGC
1032630 AATATTGCCAGAAAGATGTTGCCACAACAACACCT
66 AATATTGCCAGAAAGATGTTGCCACAACAACACCT
1032665 TTCTGGCAATACATTGCGGCAATGTTGCTGCAGTAGCGTTTTTCGTATGCAAATGAGATTGCGGC
1 TTCTGGCAATACATTGCGGCAATGTTGCTGCAGTAGCGTTTTTCGTATGCAAATGAGATTGCGGC
1032730 AATATTGCCAGAAAGATGTTGCC
66 AATATTGCCAGAAAGATGTTGCC
1032753 GCAAAAGTTT
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (100 bp):
TTCTGGCAATACATTGCGGCAATGTTGCTGCAGTAGCGTTTTTCGTATGCAAATGAGATTGCGGC
AATATTGCCAGAAAGATGTTGCCACAACAACACCT
Found at i:1039831 original size:75 final size:72
Alignment explanation
Indices: 1039693--1039840 Score: 197
Period size: 75 Copynumber: 2.0 Consensus size: 72
1039683 TTGTTCTTTA
* * *
1039693 CCATTCAAATGCATTACTGTGAAAAAAAGTACTTTACTCACCATATCCCCCCCCCCCCCTGTGGT
1 CCATTCAAATGCATTACTGTGAAAAAAACTACTTTACTCACCATATCCCCACCCCCCCATGTGGT
1039758 TACAACG
66 TACAACG
* ** * *
1039765 CCATTCAAATGCATTACTGTGAAAAAAAAAACTTCTTTACTCACCATATCTGCATCCCTCCATGT
1 CCATTCAAATGCATTACTGTG---AAAAAAACTACTTTACTCACCATATCCCCACCCCCCCATGT
1039830 GGTTACAACG
63 GGTTACAACG
1039840 C
1 C
1039841 TTTTCTTCGC
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
72 21 0.32
75 44 0.68
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.27
Consensus pattern (72 bp):
CCATTCAAATGCATTACTGTGAAAAAAACTACTTTACTCACCATATCCCCACCCCCCCATGTGGT
TACAACG
Found at i:1039894 original size:382 final size:375
Alignment explanation
Indices: 1039009--1040006 Score: 1854
Period size: 382 Copynumber: 2.6 Consensus size: 375
1038999 TTGTTCTTTA
*
1039009 CCATTCAAATGCATTACTGTG-AAAAAAAAACTACTTTACTCACCATATCTGCATCCCTCCATGT
1 CCATTCAAATGCATTACTGTGAAAAAAAAAACTTCTTTACTCACCATATCTGCATCCCTCCATGT
1039073 GGTTACAACGCTTTTCTTCGCAACTGCAGTTTTGTTGACACTGAAAACCAAAACTTGGATATCGA
66 GGTTACAACGCTTTTCTTCGCAACTGCAGTTTTGTTGACACTGAAAACCAAAACTTGGATATCGA
*
1039138 CACTCTATTTCACAATTTGTGCCAATAAAACCAACTGGACAACCTGTAAAAAATTAGTATAATAA
131 CACTCTACTTCACAATTTGTGCCAATAAAACCAACTGGACAACCTGTAAAAAATTAGTATAATAA
1039203 CTTTATAGGCATTAATCAAAAATAAGATGTTGTTGAAAACAAAATTAGCAGGAATATACAATGTA
196 CTTTATAGGCATTAATCAAAAATAAGATGTTGTTGAAAACAAAATTAGCAGGAATATACAATGTA
1039268 CGAATAATTGTAAATTTCAATCTAAACCATACAATGCACTTGTTCTTTACCATTCAAATGCAATA
261 CGAATAATTGTAAATTTCAATCTAAACCATACAATGCACTTGTTCTTTACCATTCAAATGCAATA
1039333 CTGTGAAAAAAAGTACTTTACTCACCATATCCCCCCATGTGGTTACAACG
326 CTGTGAAAAAAAGTACTTTACTCACCATATCCCCCCATGTGGTTACAACG
1039383 CCATTCAAATGCATTACTGTGAAAAAAAAAACTTCTTTACTCACCATATCTGCATCCCTCCATGT
1 CCATTCAAATGCATTACTGTGAAAAAAAAAACTTCTTTACTCACCATATCTGCATCCCTCCATGT
1039448 GGTTACAACGCTTTTCTTCGCAACTGCAGTTTTGTTGACACTGAAAACCAAAACTTGGATATCGA
66 GGTTACAACGCTTTTCTTCGCAACTGCAGTTTTGTTGACACTGAAAACCAAAACTTGGATATCGA
1039513 CACTCTACTTCACAATTTGTGCCAATAAAACCAACTGGACAACCTGTAAAAAATTAGTATAATAA
131 CACTCTACTTCACAATTTGTGCCAATAAAACCAACTGGACAACCTGTAAAAAATTAGTATAATAA
*
1039578 CTTTATAGGCATTAATCAAAAATAAGATGTTGTTGAAAACAAAATTAGCAGGAATATAACATTGT
196 CTTTATAGGCATTAATCAAAAATAAGATGTTGTTGAAAACAAAATTAGCAGGAATAT-ACAATGT
*
1039643 ACGAATAATTGTAAATTTCAATCTAAACCATACAATGCACTTGTTCTTTACCATTCAAATGCATT
260 ACGAATAATTGTAAATTTCAATCTAAACCATACAATGCACTTGTTCTTTACCATTCAAATGCAAT
*
1039708 ACTGTGAAAAAAAGTACTTTACTCACCATATCCCCCCCCCCCCCTGTGGTTACAACG
325 ACTGTGAAAAAAAGTACTTTACTCACCATAT------CCCCCCATGTGGTTACAACG
1039765 CCATTCAAATGCATTACTGTGAAAAAAAAAACTTCTTTACTCACCATATCTGCATCCCTCCATGT
1 CCATTCAAATGCATTACTGTGAAAAAAAAAACTTCTTTACTCACCATATCTGCATCCCTCCATGT
1039830 GGTTACAACGCTTTTCTTCGCAACTGCAGTTTTGTTGACACTGAAAACCAAAACTTGGATATCGA
66 GGTTACAACGCTTTTCTTCGCAACTGCAGTTTTGTTGACACTGAAAACCAAAACTTGGATATCGA
1039895 CACTCTACTTCACAATTTGTGCCAATAAAACCAACTGGACAACCTGTAAAAAATTAGTATAATAA
131 CACTCTACTTCACAATTTGTGCCAATAAAACCAACTGGACAACCTGTAAAAAATTAGTATAATAA
* * *
1039960 CTTTATAGGCATTAATCAAAACTTAGATGTAGTTGAAAACAAAATTA
196 CTTTATAGGCATTAATCAAAAATAAGATGTTGTTGAAAACAAAATTA
1040007 AATCAAATTT
Statistics
Matches: 608, Mismatches: 8, Indels: 8
0.97 0.01 0.01
Matches are distributed among these distances:
374 21 0.03
375 228 0.38
376 101 0.17
382 258 0.42
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.30
Consensus pattern (375 bp):
CCATTCAAATGCATTACTGTGAAAAAAAAAACTTCTTTACTCACCATATCTGCATCCCTCCATGT
GGTTACAACGCTTTTCTTCGCAACTGCAGTTTTGTTGACACTGAAAACCAAAACTTGGATATCGA
CACTCTACTTCACAATTTGTGCCAATAAAACCAACTGGACAACCTGTAAAAAATTAGTATAATAA
CTTTATAGGCATTAATCAAAAATAAGATGTTGTTGAAAACAAAATTAGCAGGAATATACAATGTA
CGAATAATTGTAAATTTCAATCTAAACCATACAATGCACTTGTTCTTTACCATTCAAATGCAATA
CTGTGAAAAAAAGTACTTTACTCACCATATCCCCCCATGTGGTTACAACG
Found at i:1040168 original size:18 final size:17
Alignment explanation
Indices: 1040144--1040196 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 17
1040134 ATGCAATTAC
1040144 AAAAAAAACAAAACAAA
1 AAAAAAAACAAAACAAA
1040161 ACAAAAAAA-AAAGACAAA
1 A-AAAAAAACAAA-ACAAA
1040179 AAAAAAAACAACAACAAA
1 AAAAAAAACAA-AACAAA
1040197 TAAACTAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 11 0.34
18 20 0.62
19 1 0.03
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAAACAAAACAAA
Found at i:1044563 original size:14 final size:14
Alignment explanation
Indices: 1044544--1044571 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1044534 TCCTTAATGT
1044544 TGTGTAAAGCACAA
1 TGTGTAAAGCACAA
1044558 TGTGTAAAGCACAA
1 TGTGTAAAGCACAA
1044572 CAAAATGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.21
Consensus pattern (14 bp):
TGTGTAAAGCACAA
Found at i:1047668 original size:21 final size:20
Alignment explanation
Indices: 1047644--1047692 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
1047634 TTGGTAAATT
*
1047644 TAATTTTTGGCAAATAAACAA
1 TAATTTTTGACAAA-AAACAA
* *
1047665 TAATTTATGACAAAAATCAA
1 TAATTTTTGACAAAAAACAA
1047685 TACATTTT
1 TA-ATTTT
1047693 GAAATTGAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (20 bp):
TAATTTTTGACAAAAAACAA
Found at i:1048611 original size:21 final size:21
Alignment explanation
Indices: 1048581--1048640 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
1048571 CGTAGGATAT
* *
1048581 CATTGAAATCTAATAGCATAG
1 CATTGGAATCTAATACCATAG
*
1048602 CATTGGAATCTCATACCATAG
1 CATTGGAATCTAATACCATAG
*
1048623 CATTGGAATCTCATACCA
1 CATTGGAATCTAATACCA
1048641 AAACATACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (21 bp):
CATTGGAATCTAATACCATAG
Found at i:1053608 original size:17 final size:17
Alignment explanation
Indices: 1053586--1053619 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1053576 TCCCCGAACT
1053586 ATTCGGAACCGGTCAAA
1 ATTCGGAACCGGTCAAA
*
1053603 ATTCGGAACTGGTCAAA
1 ATTCGGAACCGGTCAAA
1053620 CGACTGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (17 bp):
ATTCGGAACCGGTCAAA
Found at i:1060995 original size:2 final size:2
Alignment explanation
Indices: 1060990--1061045 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
1060980 CCCTAAACAG
* * *
1060990 AC AC AC AG AC AC AC AC AC AC AC AG AC AC AC AG AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1061032 AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC
1061046 GTCATTGTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.45, G:0.05, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1063060 original size:11 final size:11
Alignment explanation
Indices: 1063041--1063071 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1063031 ATTGAATGCT
1063041 TCATGTTATTA
1 TCATGTTATTA
*
1063052 TCTTGTTATTA
1 TCATGTTATTA
1063063 TCATGTTAT
1 TCATGTTAT
1063072 ACGCTATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.58
Consensus pattern (11 bp):
TCATGTTATTA
Found at i:1064281 original size:2 final size:2
Alignment explanation
Indices: 1064268--1064298 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1064258 GTATATTTTT
*
1064268 AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1064299 TGTTTTCGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1066015 original size:331 final size:330
Alignment explanation
Indices: 1065172--1066122 Score: 1230
Period size: 331 Copynumber: 2.9 Consensus size: 330
1065162 TTGAATATGC
* * * *
1065172 AAAATAAGCAAAGTCGA-CATTTAACA-GAAAGCTGGCATCCGATTGGTACAGAAATATATCCCA
1 AAAATAAGCAAAGTC-ATCATTTAACAGGAAA-TTGACGTCCGATTGGTACAAAAATATATCCCA
* * * *
1065235 CAATATGGCATGCCTAAACAAATAGTGTGTTAAAATTTTAAGCATCTGCTATAAATAGCTGCTGA
64 CAATATGGCATGCCTAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAACAGTTGCTGA
1065300 GAAATCTTTGA-GGAGAATTTGTTTGAAAATTTTGGCT-AAAATAAACAAAGTACTCATTTAACA
129 GAAATCTTTGACGGA-AATTTGTTTGAAAATTTTGGCTAAAAATAAACAAAGTACTCATTTAACA
* *
1065363 GGAAGTTGACGTCCGATTTGTACAAAAATATATCCCATGATATGGCATGCCTTAACAAACACTGT
193 GGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTTAACAAACACTGT
* * *
1065428 GTAAAAATT-----TCTGCGATAAACAGCTGCTGAGAATTCTTTGACAAACATTTGTTGGAAAAT
258 GTAAAATTTCAACATCTGCGATAAATAGCTGCTGAGAAATCTTTGACAAACATTTGTTGGAAAAT
* *
1065488 TTTTGTTA
323 TTTGGCTA
* * * * *
1065496 AAAATGAA-CAAAGT-ACTCATTAAACAGGAAGTTGACGTCCGATTGGTACAAAAAAAAAACCCA
1 AAAAT-AAGCAAAGTCA-TCATTTAACAGGAAATTGACGTCCGATTGGTACAAAAATATATCCCA
* * * * * **
1065559 CGATATAGCATGCCTATACCAATACTGTGAAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGA
64 CAATATGGCATGCCTAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAACAGTTGCTGA
* * * * *
1065624 GAATTCTTTGACGAAAATTTGTTTGACAATTTTTGTTAAAAATAAACAAAGT-CGTCATTTAACA
129 GAAATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTAAAAATAAACAAAGTAC-TCATTTAACA
* *
1065688 GGAAGTTGACGTCCGATTGGTACAAAAATATATCCAACGACATGGCATGCCTTAACAAACACTGT
193 GGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTTAACAAACACTGT
*
1065753 GTAAAATTTTCAAGCATCTGCCATAAATAGCTGCTGAGAAATCTTTGACGAAA-ATTTGTTGGAA
258 GTAAAA-TTTCAA-CATCTGCGATAAATAGCTGCTGAGAAATCTTTGAC-AAACATTTGTTGGAA
1065817 AATTTTGGCTA
320 AATTTTGGCTA
* * *
1065828 AAAATAAGCAAAGTCATTATTTAACAGGAAATTGACGTCCGATTGATAGAAAAATATATCCCACA
1 AAAATAAGCAAAGTCATCATTTAACAGGAAATTGACGTCCGATTGGTACAAAAATATATCCCACA
* * * * *
1065893 ATATGGCATGCC-AAAAAAATAGTGCGTTAAAATTTCAAACATGTGCGATAAAGAGTTGCTGAGA
66 ATATGGCATGCCTAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGA
1065957 AATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTAAAAATAAACAAAGTACTCATTTAACAGGA
131 AATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTAAAAATAAACAAAGTACTCATTTAACAGGA
* * * * * *
1066022 AATTGACGTCTGATTGGTACAGAAATACATCCCACGATATGGCATGCC-TATACAAATATTGTGT
196 AGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTTA-ACAAACACTGTGT
* *
1066086 AAAAATTTCAAACATTTGCGATAAATAGTTGCTGAGA
260 -AAAATTTC-AACATCTGCGATAAATAGCTGCTGAGA
1066123 TAAATGCGAC
Statistics
Matches: 535, Mismatches: 71, Indels: 35
0.83 0.11 0.05
Matches are distributed among these distances:
322 1 0.00
324 128 0.24
325 98 0.18
326 2 0.00
330 2 0.00
331 181 0.34
332 119 0.22
333 4 0.01
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (330 bp):
AAAATAAGCAAAGTCATCATTTAACAGGAAATTGACGTCCGATTGGTACAAAAATATATCCCACA
ATATGGCATGCCTAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGA
AATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTAAAAATAAACAAAGTACTCATTTAACAGGA
AGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTTAACAAACACTGTGTA
AAATTTCAACATCTGCGATAAATAGCTGCTGAGAAATCTTTGACAAACATTTGTTGGAAAATTTT
GGCTA
Found at i:1066017 original size:165 final size:166
Alignment explanation
Indices: 1065189--1066122 Score: 1154
Period size: 166 Copynumber: 5.7 Consensus size: 166
1065179 GCAAAGTCGA
* * * * * *
1065189 CATTTAACAGAAAGCTGGCATCCGATTGGTACAGAAATATATCCCACAATATGGCATGCCTAAAC
1 CATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTAAAC
* * * * * *
1065254 AAATAGTGTGTTAAAATTTTAAGCATCTGCTATAAATAGCTGCTGAGAAATCTTTGAGGAGAATT
66 AAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATT
1065319 TGTTTGAAAATTTTGGCT-AAAATAAACAAAGTACT
131 TGTTTGAAAATTTTGGCTAAAAATAAACAAAGTACT
* * *
1065354 CATTTAACAGGAAGTTGACGTCCGATTTGTACAAAAATATATCCCATGATATGGCATGCCTTAAC
1 CATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTAAAC
* * *
1065419 AAACACTGTGTAAAAA-TT------TCTGCGATAAACAGCTGCTGAGAATTCTTTGAC-AAACAT
66 AAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAA-AT
* * * *
1065476 TTGTTGGAAAATTTTTGTTAAAAATGAACAAAGTACT
130 TTGTTTGAAAATTTTGGCTAAAAATAAACAAAGTACT
* * * * * *
1065513 CATTAAACAGGAAGTTGACGTCCGATTGGTACAAAAAAAAAACCCACGATATAGCATGCCTATAC
1 CATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTAAAC
* * * * *
1065578 CAATACTGTGAAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGAATTCTTTGACGAAAATT
66 AAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATT
* * *
1065643 TGTTTGACAATTTTTGTTAAAAATAAACAAAGT-CGT
131 TGTTTGAAAATTTTGGCTAAAAATAAACAAAGTAC-T
* * *
1065679 CATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCAACGACATGGCATGCCTTAAC
1 CATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTAAAC
* * *
1065744 AAACACTGTGTAAAATTTTCAAGCATCTGCCATAAATAGCTGCTGAGAAATCTTTGACGAAAATT
66 AAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATT
* *
1065809 TGTTGGAAAATTTTGGCTAAAAATAAGCAAAGT-CAT
131 TGTTTGAAAATTTTGGCTAAAAATAAACAAAGTAC-T
* * * * * *
1065845 TATTTAACAGGAAATTGACGTCCGATTGATAGAAAAATATATCCCACAATATGGCATGCC-AAAA
1 CATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTAAAC
* * * * * * * *
1065909 AAATAGTGCGTTAAAATTTCAAACATGTGCGATAAAGAGTTGCTGAGAAATCTTTGACGGAAATT
66 AAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATT
1065974 TGTTTGAAAATTTTGGCTAAAAATAAACAAAGTACT
131 TGTTTGAAAATTTTGGCTAAAAATAAACAAAGTACT
* * * * *
1066010 CATTTAACAGGAAATTGACGTCTGATTGGTACAGAAATACATCCCACGATATGGCATGCCTATAC
1 CATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTAAAC
* * * *
1066075 AAATATTGTGTAAAAATTTCAAACATTTGCGATAAATAGTTGCTGAGA
66 AAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGA
1066123 TAAATGCGAC
Statistics
Matches: 660, Mismatches: 96, Indels: 25
0.85 0.12 0.03
Matches are distributed among these distances:
157 2 0.00
158 47 0.07
159 85 0.13
160 2 0.00
164 2 0.00
165 211 0.32
166 308 0.47
167 3 0.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (166 bp):
CATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTAAAC
AAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATT
TGTTTGAAAATTTTGGCTAAAAATAAACAAAGTACT
Found at i:1076587 original size:70 final size:70
Alignment explanation
Indices: 1076501--1076634 Score: 252
Period size: 70 Copynumber: 1.9 Consensus size: 70
1076491 AAAAGAACAC
1076501 TGTCATATATTGTATTTGTAAATGCTTTAAAGTTTGTTTATTATATATCTCGGATAGTAAGAGAA
1 TGTCATATATTGTATTTGTAAATGCTTTAAAGTTTGTTTATTATATATCTCGGATAGTAAGAGAA
1076566 AAAAT
66 AAAAT
1076571 TGTCATATAATT-TATTTGTAAATGCTTTAAAGTTTGTTTATTATATATCTCGGATAGTAAGAGA
1 TGTCATAT-ATTGTATTTGTAAATGCTTTAAAGTTTGTTTATTATATATCTCGGATAGTAAGAGA
1076635 GTCATCAAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
70 60 0.95
71 3 0.05
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (70 bp):
TGTCATATATTGTATTTGTAAATGCTTTAAAGTTTGTTTATTATATATCTCGGATAGTAAGAGAA
AAAAT
Found at i:1079078 original size:223 final size:222
Alignment explanation
Indices: 1078690--1079130 Score: 873
Period size: 223 Copynumber: 2.0 Consensus size: 222
1078680 GCCCAAGGTG
1078690 ATTCTTTAAAATTGTAAACGCTGTCCCCTATGAAATGACTACTAAATTTTCTATTTGTTTAATGG
1 ATTCTTTAAAATTGTAAACGCTGTCCCCTATGAAATGACTACTAAATTTTCTATTTGTTTAATGG
1078755 TTTGTCGACAACCATTAGTAATGCTACTGATTATTTTCCCAAGTATTGTATTCGTTGATGCCGTC
66 TTTGTCGACAACCATTAGTAATGCTACTGATTATTTTCCCAAGTATTGTATTCGTTGATGCCGTC
1078820 GAGGTGCTTCAGGCCGTTGCTAGTTATTTTTTTAGGTCAGATTTCAATATATAAATGCATTAACA
131 GAGGTGCTTCAGGCCGTTGCTAGTTATTTTTTTAGGTCAGATTTCAATATATAAATGCATTAACA
1078885 CCATATTGCCCCCCCCCCCCCCCCCCC
196 CCATATTGCCCCCCCCCCCCCCCCCCC
1078912 NATTCTTTAAAATTGTAAACGCTGTCCCCTATGAAATGACTACTAAATTTTCTATTTGTTTAATG
1 -ATTCTTTAAAATTGTAAACGCTGTCCCCTATGAAATGACTACTAAATTTTCTATTTGTTTAATG
1078977 GTTTGTCGACAACCATTAGTAATGCTACTGATTATTTTCCCAAGTATTGTATTCGTTGATGCCGT
65 GTTTGTCGACAACCATTAGTAATGCTACTGATTATTTTCCCAAGTATTGTATTCGTTGATGCCGT
1079042 CGAGGTGCTTCAGGCCGTTGCTAGTTATTTTTTTAGGTCAGATTTCAATATATAAATGCATTAAC
130 CGAGGTGCTTCAGGCCGTTGCTAGTTATTTTTTTAGGTCAGATTTCAATATATAAATGCATTAAC
1079107 ACCATATTGCCCCCCCCCCCCCCC
195 ACCATATTGCCCCCCCCCCCCCCC
1079131 ATTCCATTAC
Statistics
Matches: 218, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
223 218 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (222 bp):
ATTCTTTAAAATTGTAAACGCTGTCCCCTATGAAATGACTACTAAATTTTCTATTTGTTTAATGG
TTTGTCGACAACCATTAGTAATGCTACTGATTATTTTCCCAAGTATTGTATTCGTTGATGCCGTC
GAGGTGCTTCAGGCCGTTGCTAGTTATTTTTTTAGGTCAGATTTCAATATATAAATGCATTAACA
CCATATTGCCCCCCCCCCCCCCCCCCC
Found at i:1092437 original size:17 final size:17
Alignment explanation
Indices: 1092412--1092468 Score: 96
Period size: 17 Copynumber: 3.4 Consensus size: 17
1092402 TCTAAATATT
*
1092412 TTCACGTTATAATGTCA
1 TTCATGTTATAATGTCA
*
1092429 TTCATGTTATTATGTCA
1 TTCATGTTATAATGTCA
1092446 TTCATGTTATAATGTCA
1 TTCATGTTATAATGTCA
1092463 TTCATG
1 TTCATG
1092469 CCGGGATCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.47
Consensus pattern (17 bp):
TTCATGTTATAATGTCA
Found at i:1092452 original size:9 final size:9
Alignment explanation
Indices: 1092423--1092468 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
1092413 TCACGTTATA
1092423 ATGTCATTC
1 ATGTCATTC
*
1092432 ATGTTATT-
1 ATGTCATTC
1092440 ATGTCATTC
1 ATGTCATTC
* *
1092449 ATGTTA-TA
1 ATGTCATTC
1092457 ATGTCATTC
1 ATGTCATTC
1092466 ATG
1 ATG
1092469 CCGGGATCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
8 13 0.45
9 16 0.55
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (9 bp):
ATGTCATTC
Found at i:1109440 original size:16 final size:14
Alignment explanation
Indices: 1109403--1109438 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1109393 AAAACCCGAT
1109403 AACACACAAAAAAAC
1 AACA-ACAAAAAAAC
1109418 AACAACAAAAAAAC
1 AACAACAAAAAAAC
1109432 AA-AACAA
1 AACAACAA
1109439 CACAATTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.24
14 12 0.57
15 4 0.19
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (14 bp):
AACAACAAAAAAAC
Found at i:1113397 original size:53 final size:53
Alignment explanation
Indices: 1113333--1113444 Score: 215
Period size: 53 Copynumber: 2.1 Consensus size: 53
1113323 AAAAAAATAA
1113333 TAATAAGAAACAGTACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCT
1 TAATAAGAAACAGTACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCT
*
1113386 TAATAAGAAACAGTACGAAAACTATAAGGTCTTCCGTTGGAAACGGAAGACCT
1 TAATAAGAAACAGTACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCT
1113439 TAATAA
1 TAATAA
1113445 AGTAAACAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 58 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.21
Consensus pattern (53 bp):
TAATAAGAAACAGTACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCT
Found at i:1118155 original size:2 final size:2
Alignment explanation
Indices: 1118148--1118202 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
1118138 GGAAACAACC
1118148 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1118190 AG AG AG AG AG AG A
1 AG AG AG AG AG AG A
1118203 TTTACTTAGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1121583 original size:2 final size:2
Alignment explanation
Indices: 1121576--1121604 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1121566 TGACTGTGTA
1121576 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1121605 ATACACGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1127688 original size:21 final size:21
Alignment explanation
Indices: 1127664--1127708 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
1127654 ATACATTTAA
1127664 TTGTAATTGTTGAGCTGCATG
1 TTGTAATTGTTGAGCTGCATG
1127685 TTGTAATTGTTGAGCTGCATG
1 TTGTAATTGTTGAGCTGCATG
1127706 TTG
1 TTG
1127709 AAAAATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.09, G:0.29, T:0.44
Consensus pattern (21 bp):
TTGTAATTGTTGAGCTGCATG
Found at i:1135095 original size:113 final size:112
Alignment explanation
Indices: 1134897--1135121 Score: 441
Period size: 113 Copynumber: 2.0 Consensus size: 112
1134887 AGAGTAAATC
1134897 TTTAAAAATCTTCTTCTCAGAAACTTAACAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTA
1 TTTAAAAATCTTCTTCTCAGAAACTTAACAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTA
1134962 AGGTTGTGTAGATTTAAAGTTGTGAAAATCATGATCCCCGGGAGTAG
66 AGGTTGTGTAGATTTAAAGTTGTGAAAATCATGATCCCCGGGAGTAG
1135009 NTTTAAAAATCTTCTTCTCAGAAACTTAACAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCT
1 -TTTAAAAATCTTCTTCTCAGAAACTTAACAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCT
1135074 AAGGTTGTGTAGATTTAAAGTTGTGAAAATCATGATCCCCGGGAGTAG
65 AAGGTTGTGTAGATTTAAAGTTGTGAAAATCATGATCCCCGGGAGTAG
1135122 GGTGAGGCCA
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 112 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (112 bp):
TTTAAAAATCTTCTTCTCAGAAACTTAACAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTA
AGGTTGTGTAGATTTAAAGTTGTGAAAATCATGATCCCCGGGAGTAG
Found at i:1135405 original size:173 final size:168
Alignment explanation
Indices: 1135010--1135717 Score: 1052
Period size: 173 Copynumber: 4.2 Consensus size: 168
1135000 CGGGAGTAGN
1135010 TTTAAAAATCTTCTTCTCAGAAACTTAA-CAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCT
1 TTTAAAAATCTTCTTCTCAGAAAC-TAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCT
* * * * *
1135074 AAGGTTGTGTAGATTTAAAGTTGTGAAAATCATGATCCCCGGGAGTAGGGTGAGGCCACAA-TGG
65 CAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGAGTAGGGTGAGGCCACAAGGGG
* * *
1135138 GGG-GTCAAAATTTTACATAGGAATAAATAGAGGAAATC
130 GGGTGTTAAAATTTTACATAGGAATATATAGAGTAAATC
1135176 TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTC
1 TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTC
1135241 AGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGAGTAGGGTGAGGCCACATTGGGA
66 AGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGAGTAGGGTGAGGCCACA-----A
* *
1135306 GGGGGGGTGTTAAAATTTTACATAGAAATATATAGAGTTAATC
126 GGGGGGGTGTTAAAATTTTACATAGGAATATATAGAGTAAATC
*
1135349 TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCAGAAACTTGTGTGGAAGCATCCTC
1 TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTC
* * * *
1135414 AGGCAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGTG-GGGCACAATGGGG
66 AGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGAGTAGGGTGAGGCCACAAGGGGG
* *
1135478 GGTCG---AAGTTTTACATAGGGATATATAGAGTAAATC
131 GGT-GTTAAAATTTTACATAGGAATATATAGAGTAAATC
* * *
1135514 TTTAAAAATCTTTTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTTTGTGGAAGTATCCTC
1 TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTC
*
1135579 AGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGAGTAGGGTGAGGCCACATTGGGG
66 AGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGAGTAGGGTGAGGCCACA----AG
* *
1135644 GGGGGGTGTTAAAGTTTTACATAGGAATATATAGCGTAAATC
127 GGGGGGTGTTAAAATTTTACATAGGAATATATAGAGTAAATC
*
1135686 TTTGAAAATCTTCTTCTCAGAAACTAATCAGC
1 TTTAAAAATCTTCTTCTCAGAAACTAATCAGC
1135718 AAGATGATTC
Statistics
Matches: 493, Mismatches: 32, Indels: 28
0.89 0.06 0.05
Matches are distributed among these distances:
165 140 0.28
166 122 0.25
167 8 0.02
168 1 0.00
169 1 0.00
170 7 0.01
171 1 0.00
172 70 0.14
173 143 0.29
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (168 bp):
TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTC
AGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGAGTAGGGTGAGGCCACAAGGGGG
GGTGTTAAAATTTTACATAGGAATATATAGAGTAAATC
Found at i:1135562 original size:165 final size:166
Alignment explanation
Indices: 1135010--1135717 Score: 1053
Period size: 165 Copynumber: 4.2 Consensus size: 166
1135000 CGGGAGTAGN
1135010 TTTAAAAATCTTCTTCTCAGAAACTTAA-CAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCT
1 TTTAAAAATCTTCTTCTCAGAAAC-TAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCT
* * * *
1135074 AAGGTTGTGTAGATTTAAAGTTGTGAAAATCATGATCCCCGGGAGTAGGGTGAGGCCACAATGGG
65 CAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGAGTAGGGTGAGGCCACAATGGG
** * *
1135139 GGGTCAAAATTTTACATAGGAATAAATAGAGGAAATC
130 GGGTGTAAATTTTACATAGGAATATATAGAGTAAATC
1135176 TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTC
1 TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTC
1135241 AGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGAGTAGGGTGAGGCCACATTGGGA
66 AGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGAGTAGGGTGAGGCCACA-----A
* * *
1135306 GGGGGGGTGTTAAAATTTTACATAGAAATATATAGAGTTAATC
126 TGGGGGGTG-T-AAATTTTACATAGGAATATATAGAGTAAATC
*
1135349 TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCAGAAACTTGTGTGGAAGCATCCTC
1 TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTC
* * *
1135414 AGGCAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGTG-GGGCACAATGGGG
66 AGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGAGTAGGGTGAGGCCACAATGGGG
* *
1135478 GGTCG-AAGTTTTACATAGGGATATATAGAGTAAATC
131 GGT-GTAAATTTTACATAGGAATATATAGAGTAAATC
* * *
1135514 TTTAAAAATCTTTTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTTTGTGGAAGTATCCTC
1 TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTC
*
1135579 AGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGAGTAGGGTGAGGCCACATTGGGG
66 AGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGAGTAGGGTGAGGCCACAAT----
*
1135644 GGGGGGTGTTAAAGTTTTACATAGGAATATATAGCGTAAATC
127 GGGGGGTG-TAAA-TTTTACATAGGAATATATAGAGTAAATC
*
1135686 TTTGAAAATCTTCTTCTCAGAAACTAATCAGC
1 TTTAAAAATCTTCTTCTCAGAAACTAATCAGC
1135718 AAGATGATTC
Statistics
Matches: 492, Mismatches: 33, Indels: 28
0.89 0.06 0.05
Matches are distributed among these distances:
165 140 0.28
166 123 0.25
167 8 0.02
168 1 0.00
169 1 0.00
170 7 0.01
171 10 0.02
172 62 0.13
173 140 0.28
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (166 bp):
TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTC
AGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGAGTAGGGTGAGGCCACAATGGGG
GGTGTAAATTTTACATAGGAATATATAGAGTAAATC
Found at i:1135627 original size:338 final size:338
Alignment explanation
Indices: 1135010--1135717 Score: 1195
Period size: 338 Copynumber: 2.1 Consensus size: 338
1135000 CGGGAGTAGN
*
1135010 TTTAAAAATCTTCTTCTCAGAAACTTAA-CAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCT
1 TTTAAAAATCTTCTTCTCAGAAAC-TAATCAGCCAGGAAAGCAGAAACTTGTGTGGAAGCATCCT
** *
1135074 AAGGTTGTGTAGATTTAAAGTTGTGAAAATCATGATCCCCGGGAGTAGGGTGAGGCCACAATGGG
65 AAGGCAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCCGGGAGTAGGGTGAGGCCACAATGGG
1135139 GGGTCAAAATTTTACATAGGAATAAATAGAGGAAATCTTTAAAAATCTTCTTCTCAGAAACTAAT
130 GGGTCAAAATTTTACATAGGAATAAATAGAGGAAATCTTTAAAAATCTTCTTCTCAGAAACTAAT
1135204 CAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAA
195 CAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAA
1135269 TCATGATCCCTGGGAGTAGGGTGAGGCCACATTGGGAGGGGGGGTGTTAAAATTTTACATAGAAA
260 TCATGATCCCTGGGAGTAGGGTGAGGCCACATTGGG-GGGGGGGTGTTAAAATTTTACATAGAAA
*
1135334 TATATAGAGTTAATC
324 TATATAGAGTAAATC
*
1135349 TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCAGAAACTTGTGTGGAAGCATCCTC
1 TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCAGAAACTTGTGTGGAAGCATCCTA
* * *
1135414 AGGCAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGTG-GGGCACAATGGGG
66 AGGCAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCCGGGAGTAGGGTGAGGCCACAATGGGG
* * * * * *
1135478 GGTCGAAGTTTTACATAGGGATATATAGAGTAAATCTTTAAAAATCTTTTTCTCAGAAACTAATC
131 GGTCAAAATTTTACATAGGAATAAATAGAGGAAATCTTTAAAAATCTTCTTCTCAGAAACTAATC
* *
1135543 AGCCAGGAAAGCTGAAACTTTTGTGGAAGTATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAAT
196 AGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAAT
* *
1135608 CATGATCCCTGGGAGTAGGGTGAGGCCACATTGGGGGGGGGGTGTTAAAGTTTTACATAGGAATA
261 CATGATCCCTGGGAGTAGGGTGAGGCCACATTGGGGGGGGGGTGTTAAAATTTTACATAGAAATA
*
1135673 TATAGCGTAAATC
326 TATAGAGTAAATC
*
1135686 TTTGAAAATCTTCTTCTCAGAAACTAATCAGC
1 TTTAAAAATCTTCTTCTCAGAAACTAATCAGC
1135718 AAGATGATTC
Statistics
Matches: 347, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
337 70 0.20
338 172 0.50
339 105 0.30
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (338 bp):
TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCAGAAACTTGTGTGGAAGCATCCTA
AGGCAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCCGGGAGTAGGGTGAGGCCACAATGGGG
GGTCAAAATTTTACATAGGAATAAATAGAGGAAATCTTTAAAAATCTTCTTCTCAGAAACTAATC
AGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAAT
CATGATCCCTGGGAGTAGGGTGAGGCCACATTGGGGGGGGGGTGTTAAAATTTTACATAGAAATA
TATAGAGTAAATC
Found at i:1143904 original size:4 final size:4
Alignment explanation
Indices: 1143889--1143923 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
1143879 TTTACTTGCC
* *
1143889 TACT TTCT TACT TACT TACT TACT TACC TACT TAC
1 TACT TACT TACT TACT TACT TACT TACT TACT TAC
1143924 GCGGGGGTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.49
Consensus pattern (4 bp):
TACT
Found at i:1144887 original size:4 final size:4
Alignment explanation
Indices: 1144870--1144933 Score: 74
Period size: 4 Copynumber: 16.0 Consensus size: 4
1144860 CACCCCCGCG
* * * * *
1144870 TACT TACC TACT TACT TACC TACT TACT TACT CACG TACT TACC TACT
1 TACT TACT TACT TACT TACT TACT TACT TACT TACT TACT TACT TACT
*
1144918 CACT TACT TACT TACT
1 TACT TACT TACT TACT
1144934 AAATATTGAT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.25, C:0.33, G:0.02, T:0.41
Consensus pattern (4 bp):
TACT
Found at i:1144887 original size:12 final size:12
Alignment explanation
Indices: 1144870--1144933 Score: 85
Period size: 12 Copynumber: 5.3 Consensus size: 12
1144860 CACCCCCGCG
1144870 TACTTACCTACT
1 TACTTACCTACT
1144882 TACTTACCTACT
1 TACTTACCTACT
*
1144894 TACTTA-CTCACG
1 TACTTACCT-ACT
1144906 TACTTACCTACT
1 TACTTACCTACT
* *
1144918 CACTTACTTACT
1 TACTTACCTACT
1144930 TACT
1 TACT
1144934 AAATATTGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
11 2 0.04
12 41 0.91
13 2 0.04
ACGTcount: A:0.25, C:0.33, G:0.02, T:0.41
Consensus pattern (12 bp):
TACTTACCTACT
Found at i:1147729 original size:37 final size:38
Alignment explanation
Indices: 1147653--1147729 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 38
1147643 GGAACAGTCA
* *
1147653 TCAGCTAAAGAACAATCAGGCACTGGTGAGTTATCTAG
1 TCAGCTAAAGAACAATCAGGCACTGATGAGTTAACTAG
* * *
1147691 TCAGTTAAAGATCAGTCAGGCA-TGATGAGTTAACTAG
1 TCAGCTAAAGAACAATCAGGCACTGATGAGTTAACTAG
1147728 TC
1 TC
1147730 CATGTAGACT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
37 15 0.44
38 19 0.56
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (38 bp):
TCAGCTAAAGAACAATCAGGCACTGATGAGTTAACTAG
Found at i:1148005 original size:37 final size:35
Alignment explanation
Indices: 1147925--1148042 Score: 110
Period size: 38 Copynumber: 3.2 Consensus size: 35
1147915 TCCAATATAA
* * *
1147925 AGTAGTCAGACTGATGAGTTAAATAGTTAACTAAAG
1 AGTAGTCAGACTGATGAGTTAACTAG-TCAGTAAAG
* * *
1147961 AGCAGTCAGTGCTGATGAGTTAACTAGTCAGTGAAAT
1 AGTAGTCAG-ACTGATGAGTTAACTAGTCAGT-AAAG
*
1147998 AGTAGTCAAGAACTGGTGAGTTAACTAGTCAGTTAAAG
1 AGTAGTC-AG-ACTGATGAGTTAACTAGTCAG-TAAAG
*
1148036 ATTAGTC
1 AGTAGTC
1148043 TCTAACTGGT
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
36 11 0.17
37 24 0.36
38 30 0.45
39 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (35 bp):
AGTAGTCAGACTGATGAGTTAACTAGTCAGTAAAG
Found at i:1148020 original size:38 final size:38
Alignment explanation
Indices: 1147976--1148118 Score: 110
Period size: 38 Copynumber: 3.8 Consensus size: 38
1147966 TCAGTGCTGA
*
1147976 TGAGTTAACTAGTCAGTGAAATAGTAGTCAAGAACTGG
1 TGAGTTAACTAGTCAGTGAAAGAGTAGTCAAGAACTGG
* * ***
1148014 TGAGTTAACTAGTCAGTTAAAGATTAGTCTCTAACTGG
1 TGAGTTAACTAGTCAGTGAAAGAGTAGTCAAGAACTGG
* * * * ** *
1148052 TTAATTAACTAGTCAATTAAAGAACAGTC-AG-ACATAG
1 TGAGTTAACTAGTCAGTGAAAGAGTAGTCAAGAAC-TGG
* * * *
1148089 TAAGCTAACTAGTTAGTTAAAGAGTAGTCA
1 TGAGTTAACTAGTCAGTGAAAGAGTAGTCA
1148119 GGCAGTAGTC
Statistics
Matches: 82, Mismatches: 21, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
36 2 0.02
37 24 0.29
38 56 0.68
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (38 bp):
TGAGTTAACTAGTCAGTGAAAGAGTAGTCAAGAACTGG
Found at i:1153661 original size:53 final size:53
Alignment explanation
Indices: 1153578--1153709 Score: 176
Period size: 53 Copynumber: 2.5 Consensus size: 53
1153568 GGAATCTACA
*
1153578 GTATAACTACAGGGTAGTTCTCCGTCCATGCCCAAGTTATATATCTGGTTCTT
1 GTATAACTACAGGGTAGTTCTCAGTCCATGCCCAAGTTATATATCTGGTTCTT
* ** * * *
1153631 GTATAACTACAGGGTAGTTCTCAGTTCATGCCCTTGTTGTATATTTGTTTCTT
1 GTATAACTACAGGGTAGTTCTCAGTCCATGCCCAAGTTATATATCTGGTTCTT
*
1153684 GTA-ATACTACAGGGTAGCTCTCAGTC
1 GTATA-ACTACAGGGTAGTTCTCAGTC
1153710 TATGTCGTGG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 1 0.01
53 68 0.99
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (53 bp):
GTATAACTACAGGGTAGTTCTCAGTCCATGCCCAAGTTATATATCTGGTTCTT
Found at i:1167452 original size:2 final size:2
Alignment explanation
Indices: 1167445--1167497 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
1167435 GTGATGCATA
1167445 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1167487 CT CT CT CT CT C
1 CT CT CT CT CT C
1167498 CAGAAGACTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1169042 original size:33 final size:33
Alignment explanation
Indices: 1169000--1169068 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
1168990 GCAATGTTCA
1169000 GTAACTCTAAATTATCAGGAATTTTTTTTATTC
1 GTAACTCTAAATTATCAGGAATTTTTTTTATTC
1169033 GTAACTCTAAATTATCAGGAATTTTTTTTATTC
1 GTAACTCTAAATTATCAGGAATTTTTTTTATTC
1169066 GTA
1 GTA
1169069 TCTTAAGTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (33 bp):
GTAACTCTAAATTATCAGGAATTTTTTTTATTC
Found at i:1169538 original size:21 final size:21
Alignment explanation
Indices: 1169512--1169556 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1169502 TTTTGGCTTC
*
1169512 GCACGAGTTATCGCATACGTT
1 GCACGAGCTATCGCATACGTT
* *
1169533 GCACGAGCTCTCGCATTCGTT
1 GCACGAGCTATCGCATACGTT
1169554 GCA
1 GCA
1169557 TGCGTTTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (21 bp):
GCACGAGCTATCGCATACGTT
Found at i:1172634 original size:17 final size:17
Alignment explanation
Indices: 1172612--1172677 Score: 123
Period size: 17 Copynumber: 3.9 Consensus size: 17
1172602 ACTGGGAATA
*
1172612 TAAGGTTTCAGACATTG
1 TAAGGTATCAGACATTG
1172629 TAAGGTATCAGACATTG
1 TAAGGTATCAGACATTG
1172646 TAAGGTATCAGACATTG
1 TAAGGTATCAGACATTG
1172663 TAAGGTATCAGACAT
1 TAAGGTATCAGACAT
1172678 CGTTTGTCGG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 48 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (17 bp):
TAAGGTATCAGACATTG
Found at i:1173576 original size:40 final size:40
Alignment explanation
Indices: 1173519--1173704 Score: 173
Period size: 40 Copynumber: 4.6 Consensus size: 40
1173509 CTGAAACCAT
1173519 TTTCTTATGCTGCATTCTGATTTCATTTTCTTCTGATTTCA
1 TTTC-TATGCTGCATTCTGATTTCATTTTCTTCTGATTTCA
* * * *
1173560 TTTCTCT-CTTGTATTCTGATTTCATACTT-TTCTG-TATCTA
1 TTTCTATGC-TGCATTCTGATTTCAT-TTTCTTCTGATTTC-A
** * *
1173600 CTGTAGTATGCTGCACTCTGATTTCATTTTCTCCTGATTTCA
1 -T-TTCTATGCTGCATTCTGATTTCATTTTCTTCTGATTTCA
* *
1173642 TTTCTATGCTGCATTCTGAGTTCATTTTCTTCTGATTTCC
1 TTTCTATGCTGCATTCTGATTTCATTTTCTTCTGATTTCA
* *
1173682 TTTCTCT-CTTGTATTCTGATTTC
1 TTTCTATGC-TGCATTCTGATTTC
1173705 TTATCTTTTC
Statistics
Matches: 115, Mismatches: 21, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
39 5 0.04
40 74 0.64
41 10 0.09
42 22 0.19
43 4 0.03
ACGTcount: A:0.14, C:0.22, G:0.11, T:0.54
Consensus pattern (40 bp):
TTTCTATGCTGCATTCTGATTTCATTTTCTTCTGATTTCA
Found at i:1174470 original size:36 final size:36
Alignment explanation
Indices: 1174416--1174488 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
1174406 AGCAGTGGCG
*
1174416 GATCTATTGGGTGAGTACTTTTAAACAAATTGTTTT
1 GATCTATTGAGTGAGTACTTTTAAACAAATTGTTTT
* * *
1174452 GATCTATTTAGTGGGTACTTTTAAATAAATTGTTTT
1 GATCTATTGAGTGAGTACTTTTAAACAAATTGTTTT
1174488 G
1 G
1174489 GAAATTACTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.07, G:0.19, T:0.47
Consensus pattern (36 bp):
GATCTATTGAGTGAGTACTTTTAAACAAATTGTTTT
Found at i:1181313 original size:15 final size:15
Alignment explanation
Indices: 1181293--1181339 Score: 85
Period size: 15 Copynumber: 3.1 Consensus size: 15
1181283 AATGGCCATG
1181293 AATTGAATAATCTTC
1 AATTGAATAATCTTC
*
1181308 AATTGAATATTCTTC
1 AATTGAATAATCTTC
1181323 AATTGAATAATCTTC
1 AATTGAATAATCTTC
1181338 AA
1 AA
1181340 AAATGTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (15 bp):
AATTGAATAATCTTC
Found at i:1189162 original size:18 final size:18
Alignment explanation
Indices: 1189135--1189176 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
1189125 GTAAATCGAG
1189135 TATC-TTTATTACCGTTA
1 TATCATTTATTACCGTTA
1189152 TATCATTTATTACCGTTA
1 TATCATTTATTACCGTTA
1189170 TATCATT
1 TATCATT
1189177 AATATTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.26, C:0.17, G:0.05, T:0.52
Consensus pattern (18 bp):
TATCATTTATTACCGTTA
Found at i:1191690 original size:35 final size:35
Alignment explanation
Indices: 1191645--1191716 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
1191635 TCTGAAGGTT
* *
1191645 AATGCTGCAGTAATTCATATCCACATGAATTCTAC
1 AATGCAGCAGTAATTCATATCCACATGAATACTAC
*
1191680 AATGCAGCAGTAATTCATATCCACGTGAATACTAC
1 AATGCAGCAGTAATTCATATCCACATGAATACTAC
1191715 AA
1 AA
1191717 ATTAAAATGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (35 bp):
AATGCAGCAGTAATTCATATCCACATGAATACTAC
Found at i:1193836 original size:28 final size:28
Alignment explanation
Indices: 1193802--1193858 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
1193792 GGGTCAATAC
1193802 TGAGTAGTCAGGGTGAACAGTGAATAGT
1 TGAGTAGTCAGGGTGAACAGTGAATAGT
1193830 TGAGTAGTCAGGGTGAACAGTGAATAGT
1 TGAGTAGTCAGGGTGAACAGTGAATAGT
1193858 T
1 T
1193859 AGGGTCAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.35, T:0.26
Consensus pattern (28 bp):
TGAGTAGTCAGGGTGAACAGTGAATAGT
Found at i:1193885 original size:40 final size:40
Alignment explanation
Indices: 1193830--1194192 Score: 591
Period size: 40 Copynumber: 9.1 Consensus size: 40
1193820 AGTGAATAGT
1193830 TGAGTAGTCAGGGTGAACAGTGAATAGTTAGGGTCAATGG
1 TGAGTAGTCAGGGTGAACAGTGAATAGTTAGGGTCAATGG
**
1193870 TGAGTAGTCAGGGTGAACAGTGAATAGTTAGGGTCAATAC
1 TGAGTAGTCAGGGTGAACAGTGAATAGTTAGGGTCAATGG
*
1193910 TGAGTAGTCAGGGTAAACAGTGAATAGTTAGGGTCAATGG
1 TGAGTAGTCAGGGTGAACAGTGAATAGTTAGGGTCAATGG
* **
1193950 TGAGTAGTCAGGGTGAACAGTGAATAGTTAGGGTAAATAC
1 TGAGTAGTCAGGGTGAACAGTGAATAGTTAGGGTCAATGG
* *
1193990 TGAGTAGTCAGGGTAAACAGTGAATAGTTAAGGTCAATGG
1 TGAGTAGTCAGGGTGAACAGTGAATAGTTAGGGTCAATGG
* **
1194030 TGAGAAGTCAGGGTGAACAGTGAATAGTTAGGGTCAATAC
1 TGAGTAGTCAGGGTGAACAGTGAATAGTTAGGGTCAATGG
*
1194070 TGAGTAGTCAGGGTAAACAGTGAATAGTTAGGGTCAATGG
1 TGAGTAGTCAGGGTGAACAGTGAATAGTTAGGGTCAATGG
*
1194110 TGAGTAGTCAGGGTGAATAGTGAATAGTTAGGGTCAATGG
1 TGAGTAGTCAGGGTGAACAGTGAATAGTTAGGGTCAATGG
* *
1194150 TTAGTAGTCAGGGTGAATAGTGAATAGTTAGGGTCAATGG
1 TGAGTAGTCAGGGTGAACAGTGAATAGTTAGGGTCAATGG
1194190 TGA
1 TGA
1194193 AAAGGTACAT
Statistics
Matches: 296, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 296 1.00
ACGTcount: A:0.33, C:0.07, G:0.34, T:0.26
Consensus pattern (40 bp):
TGAGTAGTCAGGGTGAACAGTGAATAGTTAGGGTCAATGG
Found at i:1194350 original size:20 final size:20
Alignment explanation
Indices: 1194322--1194772 Score: 172
Period size: 20 Copynumber: 22.1 Consensus size: 20
1194312 AATAGTGTAA
*
1194322 AGTTTGGGTCAATGGTATGT
1 AGTTAGGGTCAATGGTATGT
* *
1194342 AGTTAGGGTCACTGGTGTGT
1 AGTTAGGGTCAATGGTATGT
* ** **
1194362 ACTTTTGGTCAATGGTAAAT
1 AGTTAGGGTCAATGGTATGT
* * * *
1194382 AGTAAGGGTCAGTGGTGTAT
1 AGTTAGGGTCAATGGTATGT
*
1194402 AGTTAGGGTCAGTGATGTGTACCGGT
1 AGTTAGGGTCA---ATG-GTA--TGT
1194428 AGTTA-GGTCAATGG-AGTGT
1 AGTTAGGGTCAATGGTA-TGT
* **
1194447 AGTTAGGGTCAATGGTTTAC
1 AGTTAGGGTCAATGGTATGT
* * *
1194467 AGTT-GGGTCAGTGATGTGT
1 AGTTAGGGTCAATGGTATGT
1194486 AGTTA-GGTCAATGG-AGTGT
1 AGTTAGGGTCAATGGTA-TGT
*
1194505 AGTTAGGGTCAACGGTGAATG-
1 AGTTAGGGTCAATGGT--ATGT
* *
1194526 -GTAAGGGTCAATGTTTAGTAGTT
1 AGTTAGGGTCAATG-GTA-T-G-T
*
1194549 TGTGTCAATGGGTCAATGGTATGT
1 AGT-T--A-GGGTCAATGGTATGT
* * *
1194573 AGTTTA-GATCAATGTTGTGT
1 AG-TTAGGGTCAATGGTATGT
* *
1194593 AGTTAAGGTCAATGCTGAATG-
1 AGTTAGGGTCAATG--GTATGT
* **
1194614 -GTAAGGGTCAATGACATGT
1 AGTTAGGGTCAATGGTATGT
* *
1194633 AGTTAGGGTCAATGGTGTGC
1 AGTTAGGGTCAATGGTATGT
* * *
1194653 AGTTAAGGTCAATGTTGTGT
1 AGTTAGGGTCAATGGTATGT
* *
1194673 AGTTAAGGTCGATGGTGA-GT
1 AGTTAGGGTCAATGGT-ATGT
* * * *
1194693 GGTAAGGATCAATGGTGTGT
1 AGTTAGGGTCAATGGTATGT
* *
1194713 AGTTTGGGTCAATGGTGTGT
1 AGTTAGGGTCAATGGTATGT
* *
1194733 AG-TAAGGTCAAT-GTGGTGT
1 AGTTAGGGTCAATGGT-ATGT
* *
1194752 AGTTAGAGTCAATGGTGTGT
1 AGTTAGGGTCAATGGTATGT
1194772 A
1 A
1194773 TTAATGATCA
Statistics
Matches: 318, Mismatches: 78, Indels: 70
0.68 0.17 0.15
Matches are distributed among these distances:
18 5 0.02
19 54 0.17
20 210 0.66
21 5 0.02
22 8 0.03
23 3 0.01
24 7 0.02
25 7 0.02
26 7 0.02
27 3 0.01
28 9 0.03
ACGTcount: A:0.24, C:0.07, G:0.35, T:0.34
Consensus pattern (20 bp):
AGTTAGGGTCAATGGTATGT
Found at i:1194537 original size:40 final size:40
Alignment explanation
Indices: 1194491--1194768 Score: 190
Period size: 40 Copynumber: 6.8 Consensus size: 40
1194481 TGTGTAGTTA
* *
1194491 GGTCAATGGAGTGTAGTTAGGGTCAACGGTGAATGGTAAG
1 GGTCAATGGTGTGTAGTTAGGGTCAATGGTGAATGGTAAG
* * * *
1194531 GGTCAAT-GTTTAGTAGTTTGTGTCAATGGGTCAATGGTATGTAG
1 GGTCAATGGTGT-GTAGTTAGGGTCAAT-GGTGAATGGTA---AG
* * * *
1194575 TTTAGATCAATGTTGTGTAGTTAAGGTCAATGCTGAATGGTAAG
1 ----GGTCAATGGTGTGTAGTTAGGGTCAATGGTGAATGGTAAG
***
1194619 GGTCAATGACATGTAGTTAGGGTCAATGGTG--TGCAGTTAA-
1 GGTCAATGGTGTGTAGTTAGGGTCAATGGTGAATG--G-TAAG
* * * *
1194659 GGTCAATGTTGTGTAGTTAAGGTCGATGGTGAGTGGTAAG
1 GGTCAATGGTGTGTAGTTAGGGTCAATGGTGAATGGTAAG
* * ** *
1194699 GATCAATGGTGTGTAGTTTGGGTCAATGGTGTGTAGTAA-
1 GGTCAATGGTGTGTAGTTAGGGTCAATGGTGAATGGTAAG
*
1194738 GGTCAAT-GTGGTGTAGTTAGAGTCAATGGTG
1 GGTCAATGGT-GTGTAGTTAGGGTCAATGGTG
1194769 TGTATTAATG
Statistics
Matches: 186, Mismatches: 35, Indels: 35
0.73 0.14 0.14
Matches are distributed among these distances:
38 4 0.02
39 30 0.16
40 104 0.56
41 13 0.07
42 2 0.01
44 4 0.02
47 9 0.05
48 18 0.10
49 2 0.01
ACGTcount: A:0.25, C:0.07, G:0.35, T:0.33
Consensus pattern (40 bp):
GGTCAATGGTGTGTAGTTAGGGTCAATGGTGAATGGTAAG
Found at i:1194782 original size:79 final size:80
Alignment explanation
Indices: 1194558--1194782 Score: 247
Period size: 80 Copynumber: 2.8 Consensus size: 80
1194548 TTGTGTCAAT
* * * * * * * * *
1194558 GGGTCAATGGTATGTAGTTTAGATCAATGTTGTGTAGTTAAGGTCAATGCTGAATGGTAAGGGTC
1 GGGTCAATGGTGTGCAGTTAAGGTCAATGTGGTGTAGTTAAGGTCAATGGTGAGTAGTAAGGATC
***
1194623 AATGACATGTAGTTA
66 AATGGTGTGTAGTTA
* * *
1194638 GGGTCAATGGTGTGCAGTTAAGGTCAATGTTGTGTAGTTAAGGTCGATGGTGAGTGGTAAGGATC
1 GGGTCAATGGTGTGCAGTTAAGGTCAATGTGGTGTAGTTAAGGTCAATGGTGAGTAGTAAGGATC
*
1194703 AATGGTGTGTAGTTT
66 AATGGTGTGTAGTTA
* * * *
1194718 GGGTCAATGGTGTGTAG-TAAGGTCAATGTGGTGTAGTT-AGAGTCAATGGTGTGTATTAATGAT
1 GGGTCAATGGTGTGCAGTTAAGGTCAATGTGGTGTAGTTAAG-GTCAATGGTGAGTAGTAAGGAT
1194781 CA
65 CA
1194783 GTTTTATACA
Statistics
Matches: 125, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
78 2 0.02
79 39 0.31
80 84 0.67
ACGTcount: A:0.26, C:0.07, G:0.34, T:0.34
Consensus pattern (80 bp):
GGGTCAATGGTGTGCAGTTAAGGTCAATGTGGTGTAGTTAAGGTCAATGGTGAGTAGTAAGGATC
AATGGTGTGTAGTTA
Found at i:1196261 original size:92 final size:91
Alignment explanation
Indices: 1196104--1196286 Score: 357
Period size: 92 Copynumber: 2.0 Consensus size: 91
1196094 AATGAACAAT
1196104 GGCCAGCTTACACTCAGAGAGGTCAAATCTGTCAGCAAACTCCTCATACAGCTGTAAACAGAAAA
1 GGCCAGCTTACACTCAGAGAGGTCAAATCTGTCAGCAAACTCCTCATACAGCTGTAAACAGAAAA
1196169 GAAAATAAGAATTTAAAAAAAAGAAC
66 GAAAATAAGAATTTAAAAAAAAGAAC
1196195 NGGCCAGCTTACACTCAGAGAGGTCAAATCTGTCAGCAAACTCCTCATACAGCTGTAAACAGAAA
1 -GGCCAGCTTACACTCAGAGAGGTCAAATCTGTCAGCAAACTCCTCATACAGCTGTAAACAGAAA
1196260 AGAAAATAAGAATTTAAAAAAAAGAAC
65 AGAAAATAAGAATTTAAAAAAAAGAAC
1196287 TTCAAAACAC
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.46, C:0.20, G:0.16, T:0.17
Consensus pattern (91 bp):
GGCCAGCTTACACTCAGAGAGGTCAAATCTGTCAGCAAACTCCTCATACAGCTGTAAACAGAAAA
GAAAATAAGAATTTAAAAAAAAGAAC
Found at i:1196333 original size:1 final size:1
Alignment explanation
Indices: 1196327--1196351 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
1196317 CATATATGAA
1196327 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
1196352 AATATTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:1197628 original size:4 final size:4
Alignment explanation
Indices: 1197619--1197666 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
1197609 AGTTGCGTCT
* * * * *
1197619 ACAG ACAG ACGG ACAG ACGG ACAG ACGG ACGG ACAG ACAG ACGG ACAG
1 ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG
1197667 GGTGAAACCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.40, C:0.25, G:0.35, T:0.00
Consensus pattern (4 bp):
ACAG
Found at i:1197635 original size:8 final size:8
Alignment explanation
Indices: 1197622--1197666 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
1197612 TGCGTCTACA
1197622 GACAGACG
1 GACAGACG
1197630 GACAGACG
1 GACAGACG
1197638 GACAGACG
1 GACAGACG
* *
1197646 GACGGACA
1 GACAGACG
1197654 GACAGACG
1 GACAGACG
1197662 GACAG
1 GACAG
1197667 GGTGAAACCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.38, C:0.24, G:0.38, T:0.00
Consensus pattern (8 bp):
GACAGACG
Found at i:1197636 original size:12 final size:12
Alignment explanation
Indices: 1197619--1197666 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
1197609 AGTTGCGTCT
* *
1197619 ACAGACAGACGG
1 ACAGACGGACAG
1197631 ACAGACGGACAG
1 ACAGACGGACAG
*
1197643 ACGGACGGACAG
1 ACAGACGGACAG
1197655 ACAGACGGACAG
1 ACAGACGGACAG
1197667 GGTGAAACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.40, C:0.25, G:0.35, T:0.00
Consensus pattern (12 bp):
ACAGACGGACAG
Found at i:1199634 original size:165 final size:166
Alignment explanation
Indices: 1199352--1199811 Score: 660
Period size: 165 Copynumber: 2.8 Consensus size: 166
1199342 GTGAATATGC
* * * * * *
1199352 AAAATAAGCAAAGTCGA-CATTTAACAGAAAGCTGGCATCCGATTGGTACAGAAATATATCCCAC
1 AAAATAAACAAAGTC-ATCATTTAACAGGAAGATGACGTCCGATTGGTACAAAAATATATCCCAC
1199416 AATATGGCATGCCTAAACAAATAGTGTGTTAAAATTTCAAA-CATCTGCGATAAATAGCTGCTGA
65 AATATGGCATGCCTAAACAAATAGTGTGTTAAAATTT-AAAGCATCTGCGATAAATAGCTGCTGA
* *
1199480 AAAATCTTTGAGGAAAATTTGTTTGAAAATTTTGGC-T
129 AAAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCAA
1199517 AAAATAAACAAAGT-ACTCATTTAACAGGAAGATGACGTCCGATTGGTACAAAAATATATCCCAC
1 AAAATAAACAAAGTCA-TCATTTAACAGGAAGATGACGTCCGATTGGTACAAAAATATATCCCAC
* * * *
1199581 GATATGGCATGCCTTAAA-AAATACTGTGTTAAAATTTAAAGCACCTCCGATAAATAGCTGCTGA
65 AATATGGCATGCC-TAAACAAATAGTGTGTTAAAATTTAAAGCATCTGCGATAAATAGCTGCTGA
*
1199645 GAAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCAAA
129 AAAATCTTTGACGAAAATTTGTTTGAAAATTTTGGC-AA
* * ** *
1199684 AAAATAAACAAAGTCATTATTTAACAGGAAGTTGACGTTTGATTGATACAAAAATATATCCCACA
1 AAAATAAACAAAGTCATCATTTAACAGGAAGATGACGTCCGATTGGTACAAAAATATATCCCACA
* *
1199749 ATATGGCATGCCTAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGA
66 ATATGGCATGCCTAAACAAATAGTGTGTTAAAATTTAAAGCATCTGCGATAAATAGCTGCTGA
1199812 GATAAATGCG
Statistics
Matches: 263, Mismatches: 24, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
163 1 0.00
164 3 0.01
165 140 0.53
166 8 0.03
167 110 0.42
168 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (166 bp):
AAAATAAACAAAGTCATCATTTAACAGGAAGATGACGTCCGATTGGTACAAAAATATATCCCACA
ATATGGCATGCCTAAACAAATAGTGTGTTAAAATTTAAAGCATCTGCGATAAATAGCTGCTGAAA
AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCAA
Found at i:1199858 original size:16 final size:16
Alignment explanation
Indices: 1199837--1199870 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1199827 AATTTTTGTT
1199837 ACGGACGGACAGACAG
1 ACGGACGGACAGACAG
*
1199853 ACGGACGGACGGACAG
1 ACGGACGGACAGACAG
1199869 AC
1 AC
1199871 AGACACACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.26, G:0.38, T:0.00
Consensus pattern (16 bp):
ACGGACGGACAGACAG
Found at i:1199862 original size:20 final size:20
Alignment explanation
Indices: 1199837--1199874 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1199827 AATTTTTGTT
1199837 ACGGACGGACAGACAGACGG
1 ACGGACGGACAGACAGACGG
1199857 ACGGACGGACAGACAGAC
1 ACGGACGGACAGACAGAC
1199875 ACACAAGGGT
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:0.37, C:0.26, G:0.37, T:0.00
Consensus pattern (20 bp):
ACGGACGGACAGACAGACGG
Found at i:1227484 original size:2 final size:2
Alignment explanation
Indices: 1227477--1227519 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
1227467 TATTCAACAG
*
1227477 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC CC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1227519 T
1 T
1227520 GATATACGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:1232598 original size:16 final size:16
Alignment explanation
Indices: 1232577--1232613 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1232567 TCAAGTGAAG
*
1232577 TCATACCCAAACTGAC
1 TCATACCCAAACAGAC
*
1232593 TCATACCCCAACAGAC
1 TCATACCCAAACAGAC
1232609 TCATA
1 TCATA
1232614 ATCCATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.38, C:0.38, G:0.05, T:0.19
Consensus pattern (16 bp):
TCATACCCAAACAGAC
Found at i:1233462 original size:16 final size:16
Alignment explanation
Indices: 1233443--1233481 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1233433 ACAATTTGAT
*
1233443 TACAAGTCTGTTTGGG
1 TACAAGTCAGTTTGGG
*
1233459 TACAAGTCAGTTTGGT
1 TACAAGTCAGTTTGGG
1233475 TACAAGT
1 TACAAGT
1233482 TGACTGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (16 bp):
TACAAGTCAGTTTGGG
Found at i:1235259 original size:13 final size:13
Alignment explanation
Indices: 1235241--1235266 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1235231 TAAAGCTTGA
1235241 ATACTCTCTATAT
1 ATACTCTCTATAT
1235254 ATACTCTCTATAT
1 ATACTCTCTATAT
1235267 TTATCAATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (13 bp):
ATACTCTCTATAT
Found at i:1236978 original size:21 final size:21
Alignment explanation
Indices: 1236953--1237443 Score: 563
Period size: 21 Copynumber: 23.1 Consensus size: 21
1236943 AAAAAAAATA
*
1236953 ATAAAATGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGAG
1236974 AT-AAAAGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGAG
1236994 ATAAAAAGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGAG
*
1237015 TTAAAAAGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGAG
* *
1237036 ATAAAAAGTCGTTATTACGACT
1 ATAAAAAGTCGTTATAACGA-G
* **
1237058 TTTTAAAGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGAG
1237079 ATAAAAAGTCG-TATTAACGAG
1 ATAAAAAGTCGTTA-TAACGAG
* *
1237100 ATAAAAAGTCGTTATTACGACT
1 ATAAAAAGTCGTTATAACGA-G
* *** *
1237122 TTTTTAAGTCGTTTTAACGAG
1 ATAAAAAGTCGTTATAACGAG
1237143 ATTAAAAAGTCGTTATAACGAG
1 A-TAAAAAGTCGTTATAACGAG
*
1237165 ATAAAAGGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGAG
* *
1237186 ATAAAAAGTCGTTATTACGACT
1 ATAAAAAGTCGTTATAACGA-G
* *** *
1237208 TTTTTAAGTCGTTATTACGAG
1 ATAAAAAGTCGTTATAACGAG
1237229 ATAAAAAGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGAG
*
1237250 ATAAAATGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGAG
* *
1237271 ATAAAAAGTCGTTATTACGACT
1 ATAAAAAGTCGTTATAACGA-G
* *
1237293 TTTAAAAGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGAG
* *
1237314 TTTAAAAGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGAG
* *
1237335 ATAAAAAGTCGTTATTACGACT
1 ATAAAAAGTCGTTATAACGA-G
* ***
1237357 TTTTTAAGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGAG
1237378 ATAAAAAGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGAG
*
1237399 ATAAAATGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGAG
* *
1237420 ATAAAAAGTCATTATTACGAG
1 ATAAAAAGTCGTTATAACGAG
1237441 ATA
1 ATA
1237444 TANAACAGAT
Statistics
Matches: 394, Mismatches: 67, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
20 21 0.05
21 276 0.70
22 97 0.25
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (21 bp):
ATAAAAAGTCGTTATAACGAG
Found at i:1237084 original size:64 final size:63
Alignment explanation
Indices: 1236953--1237442 Score: 554
Period size: 64 Copynumber: 7.7 Consensus size: 63
1236943 AAAAAAAATA
* *
1236953 ATAAAATGTCGTTATAACGAGAT-AAAAGTCGTTATAACGAGATAAAAAGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGAGATAAAAAGTCGTTATAACGAGATTAAAAGTCGTTATAACGAG
* * ** *
1237015 TTAAAAAGTCGTTATAACGAGATAAAAAGTCGTTATTACGACTTTTTAAAGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGAGATAAAAAGTCGTTATAACGA-GATTAAAAGTCGTTATAACGAG
* ** ** *
1237079 ATAAAAAGTCG-TATTAACGAGATAAAAAGTCGTTATTACGACTTTTTTAAGTCGTTTTAACGAG
1 ATAAAAAGTCGTTA-TAACGAGATAAAAAGTCGTTATAACGA-GATTAAAAGTCGTTATAACGAG
* * * *
1237143 ATTAAAAAGTCGTTATAACGAGATAAAAGGTCGTTATAACGAGATAAAAAGTCGTTATTACGACT
1 A-TAAAAAGTCGTTATAACGAGATAAAAAGTCGTTATAACGAGATTAAAAGTCGTTATAACGA-G
* *** *
1237208 TTTTTAAGTCGTTATTACGAGATAAAAAGTCGTTATAACGAGA-TAAAATGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGAGATAAAAAGTCGTTATAACGAGATTAAAA-GTCGTTATAACGAG
* ** * *
1237271 ATAAAAAGTCGTTATTACGACTTTTAAAAGTCGTTATAACGAGTTTAAAAGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGA-GATAAAAAGTCGTTATAACGAGATTAAAAGTCGTTATAACGAG
* ** *** *
1237335 ATAAAAAGTCGTTATTACGACTTTTTTAAGTCGTTATAACGAGATAAAAAGTCGTTATAACGAG
1 ATAAAAAGTCGTTATAACGA-GATAAAAAGTCGTTATAACGAGATTAAAAGTCGTTATAACGAG
* * *
1237399 ATAAAATGTCGTTATAACGAGATAAAAAGTCATTATTACGAGAT
1 ATAAAAAGTCGTTATAACGAGATAAAAAGTCGTTATAACGAGAT
1237443 ATANAACAGA
Statistics
Matches: 369, Mismatches: 50, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
62 21 0.06
63 55 0.15
64 251 0.68
65 40 0.11
66 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (63 bp):
ATAAAAAGTCGTTATAACGAGATAAAAAGTCGTTATAACGAGATTAAAAGTCGTTATAACGAG
Found at i:1237097 original size:85 final size:85
Alignment explanation
Indices: 1236954--1237443 Score: 578
Period size: 85 Copynumber: 5.8 Consensus size: 85
1236944 AAAAAAATAA
* * *
1236954 TAAAATGTCGTTATAACGAG-ATAAAAGTCGTTATAACGAGATAAAAAGTCGTTATAACGAGTTA
1 TAAAA-GTCGTTATTACGAGTTTAAAAGTCGTTATAACGAGATAAAAAGTCGTTATAACGAGATA
* **
1237018 AAAAGTCGTTATAACGA-GAT
65 AAAAGTCGTTATTACGACTTT
* * *
1237038 AAAAAGTCGTTATTACGACTTTTTAAAGTCGTTATAACGAGATAAAAAGTCG-TATTAACGAGAT
1 TAAAAGTCGTTATTACGA-GTTTAAAAGTCGTTATAACGAGATAAAAAGTCGTTA-TAACGAGAT
1237102 AAAAAGTCGTTATTACGACTTT
64 AAAAAGTCGTTATTACGACTTT
** * *
1237124 TTTAAGTCGTT-TTAACGAGATTAAAAAGTCGTTATAACGAGATAAAAGGTCGTTATAACGAGAT
1 TAAAAGTCGTTATT-ACGAG-TTTAAAAGTCGTTATAACGAGATAAAAAGTCGTTATAACGAGAT
1237188 AAAAAGTCGTTATTACGACTTT
64 AAAAAGTCGTTATTACGACTTT
** * * *
1237210 TTTAAGTCGTTATTACGAGATAAAAAGTCGTTATAACGAGATAAAATGTCGTTATAACGAGATAA
1 TAAAAGTCGTTATTACGAGTTTAAAAGTCGTTATAACGAGATAAAAAGTCGTTATAACGAGATAA
1237275 AAAGTCGTTATTACGACTTT
66 AAAGTCGTTATTACGACTTT
* * ** *
1237295 TAAAAGTCGTTATAACGAGTTTAAAAGTCGTTATAACGAGATAAAAAGTCGTTATTACGACTTTT
1 TAAAAGTCGTTATTACGAGTTTAAAAGTCGTTATAACGAGATAAAAAGTCGTTATAACGA-GATA
** * **
1237360 TTAAGTCGTTATAACGA-GAT
65 AAAAGTCGTTATTACGACTTT
* * * * *
1237380 AAAAAGTCGTTATAACGAG-ATAAAATGTCGTTATAACGAGATAAAAAGTCATTATTACGAGATA
1 TAAAAGTCGTTATTACGAGTTTAAAA-GTCGTTATAACGAGATAAAAAGTCGTTATAACGAGATA
1237444 TANAACAGAT
Statistics
Matches: 357, Mismatches: 39, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
83 12 0.03
84 12 0.03
85 225 0.63
86 104 0.29
87 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (85 bp):
TAAAAGTCGTTATTACGAGTTTAAAAGTCGTTATAACGAGATAAAAAGTCGTTATAACGAGATAA
AAAGTCGTTATTACGACTTT
Found at i:1241384 original size:2 final size:2
Alignment explanation
Indices: 1241377--1241408 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1241367 AAATTATTAT
1241377 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1241409 AGAGCATTAA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1251144 original size:2 final size:2
Alignment explanation
Indices: 1251139--1251178 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1251129 AGGACCCCTC
1251139 AG AG AG AG AG AG AG AG AG -G AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1251179 TGCTCTCGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1258337 original size:362 final size:361
Alignment explanation
Indices: 1257672--1258395 Score: 1439
Period size: 362 Copynumber: 2.0 Consensus size: 361
1257662 TAAAATGTTT
1257672 TAATTTTTCAAATTACAGTCCAGGGCTTATGACAGAACTGGCAGAGAGGTTTCGTCAGAGTTCAA
1 TAATTTTTCAAATTACAGTCCAGGGCTTATGACAGAACTGGCAGAGAGGTTTCGTCAGAGTTCAA
1257737 ACCAGACCCAGACCCAAACCCAAAAGAGTCGAGTTTATTATCAACAGGAAGCGAAATCCCTGTCA
66 ACCAGACCCAGACCCAAACCCAAAAGAGTCGAGTTTATTATCAACAGGAAGCGAAATCCCTGTCA
1257802 CACATCATCCACAGTGACTTGATATTATACATTGTCATGGTTACGATATTGTTATTTTCTTGACA
131 CACATCATCCACAGTGACTTGATATTATACATTGTCATGGTTACGATATTGTTATTTTCTTGACA
1257867 GTGAAGATTTCTCTCTTTACTGCTAACATTATAAGTTATTATTTTTTTACTTGTCTTTCAACTGG
196 GTGAAGATTTCTCTCTTTACTGCTAACATTATAAGTTATTATTTTTTTACTTGTCTTTCAACTGG
1257932 GGTACATTTAATGTTGTGTTCATCCTTGTTTTAACTAAATATTATACATAGTATGGTTGGTTTCC
261 GGTACATTTAATGTTGTGTTCATCCTTGTTTTAACTAAATATTATACATAGTATGGTTGGTTTCC
1257997 AAGAATGTGTAACAGGAACCATAACTCTTGTTAAAG
326 AAGAATGTGTAACAGGAACCATAACTCTTGTTAAAG
1258033 NTAATTTTTCAAATTACAGTCCAGGGCTTATGACAGAACTGGCAGAGAGGTTTCGTCAGAGTTCA
1 -TAATTTTTCAAATTACAGTCCAGGGCTTATGACAGAACTGGCAGAGAGGTTTCGTCAGAGTTCA
1258098 AACCAGACCCAGACCCAAACCCAAAAGAGTCGAGTTTATTATCAACAGGAAGCGAAATCCCTGTC
65 AACCAGACCCAGACCCAAACCCAAAAGAGTCGAGTTTATTATCAACAGGAAGCGAAATCCCTGTC
1258163 ACACATCATCCACAGTGACTTGATATTATACATTGTCATGGTTACGATATTGTTATTTTCTTGAC
130 ACACATCATCCACAGTGACTTGATATTATACATTGTCATGGTTACGATATTGTTATTTTCTTGAC
1258228 AGTGAAGATTTCTCTCTTTACTGCTAACATTATAAGTTATTATTTTTTTACTTGTCTTTCAACTG
195 AGTGAAGATTTCTCTCTTTACTGCTAACATTATAAGTTATTATTTTTTTACTTGTCTTTCAACTG
1258293 GGGTACATTTAATGTTGTGTTCATCCTTGTTTTAACTAAATATTATACATAGTATGGTTGGTTTC
260 GGGTACATTTAATGTTGTGTTCATCCTTGTTTTAACTAAATATTATACATAGTATGGTTGGTTTC
1258358 CAAGAATGTGTAACAGGAACCATAACTCTTGTTAAAG
325 CAAGAATGTGTAACAGGAACCATAACTCTTGTTAAAG
1258395 T
1 T
1258396 TGATGCACTG
Statistics
Matches: 362, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
361 1 0.00
362 361 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (361 bp):
TAATTTTTCAAATTACAGTCCAGGGCTTATGACAGAACTGGCAGAGAGGTTTCGTCAGAGTTCAA
ACCAGACCCAGACCCAAACCCAAAAGAGTCGAGTTTATTATCAACAGGAAGCGAAATCCCTGTCA
CACATCATCCACAGTGACTTGATATTATACATTGTCATGGTTACGATATTGTTATTTTCTTGACA
GTGAAGATTTCTCTCTTTACTGCTAACATTATAAGTTATTATTTTTTTACTTGTCTTTCAACTGG
GGTACATTTAATGTTGTGTTCATCCTTGTTTTAACTAAATATTATACATAGTATGGTTGGTTTCC
AAGAATGTGTAACAGGAACCATAACTCTTGTTAAAG
Found at i:1259562 original size:35 final size:35
Alignment explanation
Indices: 1259518--1259586 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
1259508 TGTCAGGGAG
1259518 TCTTATGTCTGCATTTTAAACTTCATTTCAAAGTC
1 TCTTATGTCTGCATTTTAAACTTCATTTCAAAGTC
*
1259553 TCTTGTGTCTGCATTTTAAACTTCATTTCAAAGT
1 TCTTATGTCTGCATTTTAAACTTCATTTCAAAGT
1259587 ATAGTCTCAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.46
Consensus pattern (35 bp):
TCTTATGTCTGCATTTTAAACTTCATTTCAAAGTC
Found at i:1260737 original size:16 final size:16
Alignment explanation
Indices: 1260700--1260738 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1260690 AGAGAGAGGG
* *
1260700 ACAGACAGACAGATAA
1 ACAGACAGACAAACAA
*
1260716 ATAGACAGACAAACAA
1 ACAGACAGACAAACAA
1260732 ACAGACA
1 ACAGACA
1260739 ACACTGACAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.59, C:0.21, G:0.15, T:0.05
Consensus pattern (16 bp):
ACAGACAGACAAACAA
Found at i:1266962 original size:180 final size:180
Alignment explanation
Indices: 1266660--1267565 Score: 1532
Period size: 180 Copynumber: 5.0 Consensus size: 180
1266650 GTGAAATGGA
* *
1266660 GTACCCTATATGCAACA-TTTTGCCAAAATATGACTAAGTTCAAAAACTAGTATTTTTTTC-ATA
1 GTACCCTATATGCAACATTTTTCCCAAAA-ATGACTAAGTTCAAAAGCTAGTA-TTTTTTCGATA
*
1266723 AATTACCAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAA
64 AATTATCAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAA
* * *
1266788 AGAACAATTTCTTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATTAGG
129 AGAACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGG
1266840 GTACCCTATATGCAACATTTTTCCCAAAAATGACTAAGTTCAAAAGCTAGTATTTTTTCGATAAA
1 GTACCCTATATGCAACATTTTTCCCAAAAATGACTAAGTTCAAAAGCTAGTATTTTTTCGATAAA
1266905 TTATCAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAAG
66 TTATCAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAAG
*
1266970 AACAATTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGG
131 AACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGG
*
1267020 GTACCCTATATGCAACATTTTGCCCAAAAATGACTAAGTTCAAAAGCTAGTATTTTTTCGATAAA
1 GTACCCTATATGCAACATTTTTCCCAAAAATGACTAAGTTCAAAAGCTAGTATTTTTTCGATAAA
1267085 TTATCAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAAG
66 TTATCAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAAG
1267150 AACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGG
131 AACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGG
* * * ** *
1267200 GTACCCTATATGCAACATTTTGCCAAAAAATGACGAAGTTCAAAAATTTGTATTTTTTTC-ATAA
1 GTACCCTATATGCAACATTTTTCCCAAAAATGACTAAGTTCAAAAGCTAGTA-TTTTTTCGATAA
*
1267264 ATTACCAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAA
65 ATTATCAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAA
*
1267329 GAACAACTTCTTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGG
130 GAACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGG
* * * * *
1267380 ATACCCTATATGCAATA-TTTTGCCAAAAATGACTAAGTTCAAAAGGTGGTATTTTTTCGATAAA
1 GTACCCTATATGCAACATTTTTCCCAAAAATGACTAAGTTCAAAAGCTAGTATTTTTTCGATAAA
* *
1267444 TTATCAGAAATCGAAATCCTTGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAAG
66 TTATCAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAAG
* *
1267509 AACAACTTCCTAACTTGAAAACTGTAGGAGGAATTATCCGTACAATGAGG
131 AACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGG
1267559 GTACCCT
1 GTACCCT
1267566 TTTGGCAGCC
Statistics
Matches: 692, Mismatches: 30, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
178 7 0.01
179 154 0.22
180 514 0.74
181 17 0.02
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (180 bp):
GTACCCTATATGCAACATTTTTCCCAAAAATGACTAAGTTCAAAAGCTAGTATTTTTTCGATAAA
TTATCAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAAG
AACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGG
Found at i:1272129 original size:12 final size:12
Alignment explanation
Indices: 1272112--1272136 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1272102 AATTTCAAAA
1272112 AAGAAAAATTAT
1 AAGAAAAATTAT
1272124 AAGAAAAATTAT
1 AAGAAAAATTAT
1272136 A
1 A
1272137 CTCAATTTTT
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
AAGAAAAATTAT
Found at i:1278913 original size:13 final size:13
Alignment explanation
Indices: 1278875--1278916 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
1278865 TTTAATAAGA
1278875 TTTTCCTCTACTT
1 TTTTCCTCTACTT
** *
1278888 TTTTTGTC-CCTT
1 TTTTCCTCTACTT
1278900 TTTTCCTCTACTT
1 TTTTCCTCTACTT
1278913 TTTT
1 TTTT
1278917 TCTTTGTTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.05, C:0.26, G:0.02, T:0.67
Consensus pattern (13 bp):
TTTTCCTCTACTT
Done.