Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 125 of 216
Found at i:39533411 original size:24 final size:26
Alignment explanation
Indices: 39533345--39533404 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
39533335 AGCCTTATCA
*
39533345 GGAAGCTTACAAAGAGCCAATTAATG
1 GGAAGCTCACAAAGAGCCAATTAATG
39533371 GGAAGCTCACAAAGAGCC-A-TAATCG
1 GGAAGCTCACAAAGAGCCAATTAAT-G
39533396 GGAAGCTCA
1 GGAAGCTCA
39533405 TAAGAGCTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 4 0.12
25 11 0.34
26 17 0.53
ACGTcount: A:0.40, C:0.20, G:0.25, T:0.15
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCAATTAATG
Found at i:39533874 original size:21 final size:21
Alignment explanation
Indices: 39533850--39533892 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
39533840 TAAATTTAAC
39533850 TCAATTTAATACAATTCATAT
1 TCAATTTAATACAATTCATAT
* *
39533871 TCAATTTAATCCAATTCGTAT
1 TCAATTTAATACAATTCATAT
39533892 T
1 T
39533893 TTTGACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (21 bp):
TCAATTTAATACAATTCATAT
Found at i:39535127 original size:18 final size:19
Alignment explanation
Indices: 39535104--39535200 Score: 84
Period size: 18 Copynumber: 5.5 Consensus size: 19
39535094 CATTAATAAC
*
39535104 AAAT-AAAACCCAAAATCG
1 AAATCAAAACCCAAAATCA
39535122 AAAT---AACCCAAAATCA
1 AAATCAAAACCCAAAATCA
*
39535138 AAATCAAAA-TCAAAATCA
1 AAATCAAAACCCAAAATCA
* *
39535156 AAATCAAAA--TAGAAATAA
1 AAATCAAAACCCA-AAATCA
*
39535174 AAATCAAAA-TCAAAATCA
1 AAATCAAAACCCAAAATCA
39535192 AAATCAAAA
1 AAATCAAAA
39535201 TGGAAATGGA
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
16 15 0.22
17 1 0.01
18 49 0.72
19 3 0.04
ACGTcount: A:0.67, C:0.16, G:0.02, T:0.14
Consensus pattern (19 bp):
AAATCAAAACCCAAAATCA
Found at i:39535131 original size:16 final size:16
Alignment explanation
Indices: 39535110--39535141 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39535100 TAACAAATAA
*
39535110 AACCCAAAATCGAAAT
1 AACCCAAAATCAAAAT
39535126 AACCCAAAATCAAAAT
1 AACCCAAAATCAAAAT
39535142 CAAAATCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.25, G:0.03, T:0.12
Consensus pattern (16 bp):
AACCCAAAATCAAAAT
Found at i:39535139 original size:6 final size:6
Alignment explanation
Indices: 39535130--39535255 Score: 146
Period size: 6 Copynumber: 21.0 Consensus size: 6
39535120 CGAAATAACC
*
39535130 CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT -AGAAAT AAAAAT
1 CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CA-AAAT CAAAAT
** ** *
39535178 CAAAAT CAAAAT CAAAAT CAAAAT GGAAAT GGAAAT CGAAAT CAAAAT
1 CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT
* * **
39535226 CAAAAT CGAAAT TAAAAT TGAAAT CAAAAT
1 CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT
39535256 AACCCAAAAT
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
5 1 0.01
6 105 0.98
7 1 0.01
ACGTcount: A:0.63, C:0.12, G:0.06, T:0.18
Consensus pattern (6 bp):
CAAAAT
Found at i:39535279 original size:16 final size:16
Alignment explanation
Indices: 39535260--39535297 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
39535250 CAAAATAACC
39535260 CAAAATAACCCTAAAT
1 CAAAATAACCCTAAAT
39535276 CAAAATAACCCTAAAT
1 CAAAATAACCCTAAAT
39535292 CTAAAA
1 C-AAAA
39535298 AAATAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (16 bp):
CAAAATAACCCTAAAT
Found at i:39535880 original size:50 final size:50
Alignment explanation
Indices: 39535799--39535912 Score: 210
Period size: 50 Copynumber: 2.3 Consensus size: 50
39535789 TTATAACATT
39535799 AGTGACTGTTTTGTCACTTTTCCAAAGTTGAGTGATTGAAATGAAACCTA
1 AGTGACTGTTTTGTCACTTTTCCAAAGTTGAGTGATTGAAATGAAACCTA
* *
39535849 GGTGATTGTTTTGTCACTTTTCCAAAGTTGAGTGATTGAAATGAAACCTA
1 AGTGACTGTTTTGTCACTTTTCCAAAGTTGAGTGATTGAAATGAAACCTA
39535899 AGTGACTGTTTTGT
1 AGTGACTGTTTTGT
39535913 TAGCTAACCC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (50 bp):
AGTGACTGTTTTGTCACTTTTCCAAAGTTGAGTGATTGAAATGAAACCTA
Found at i:39536136 original size:66 final size:66
Alignment explanation
Indices: 39536069--39536200 Score: 167
Period size: 66 Copynumber: 2.0 Consensus size: 66
39536059 TATATAATTT
* * * *
39536069 AATAAAATTTT-TAATATAATTATTTTTATATTAAATTATATTAGAATGTTTAAAATATTGTATT
1 AATAAAATTTTGAAAT-TAAATA-TTTTATATTAAATTATATTAAAATATTTAAAATATTGTATT
39536133 TTA
64 TTA
* * * *
39536136 AATTATATTTTGAAATTAAATATTTTATATTAAATTATATTAAAATATTTCAAATATTTTATTTT
1 AATAAAATTTTGAAATTAAATATTTTATATTAAATTATATTAAAATATTTAAAATATTGTATTTT
39536201 TATATTTTCT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
66 39 0.70
67 14 0.25
68 3 0.05
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (66 bp):
AATAAAATTTTGAAATTAAATATTTTATATTAAATTATATTAAAATATTTAAAATATTGTATTTT
A
Found at i:39536142 original size:34 final size:32
Alignment explanation
Indices: 39536092--39536200 Score: 112
Period size: 34 Copynumber: 3.3 Consensus size: 32
39536082 ATATAATTAT
*
39536092 TTTTATATTAAATTATATTAGAATGTTTAAAATA
1 TTTTATTTTAAATTATATTAGAAT-TTT-AAATA
* * *
39536126 TTGTATTTTAAATTATATTTTGAA-ATTAAATA
1 TTTTATTTTAAATTATA-TTAGAATTTTAAATA
* *
39536158 TTTTATATTAAATTATATTAAAATATTTCAAATA
1 TTTTATTTTAAATTATATTAGAAT-TTT-AAATA
39536192 TTTTATTTT
1 TTTTATTTT
39536201 TATATTTTCT
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
31 4 0.07
32 20 0.33
33 4 0.07
34 28 0.46
35 5 0.08
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (32 bp):
TTTTATTTTAAATTATATTAGAATTTTAAATA
Found at i:39536169 original size:32 final size:34
Alignment explanation
Indices: 39536092--39536176 Score: 104
Period size: 32 Copynumber: 2.6 Consensus size: 34
39536082 ATATAATTAT
*
39536092 TTTTATATTAAATTATA-TTAGAATGTTTAAAATA
1 TTTTATATTAAATTATATTTAGAA-GATTAAAATA
* * *
39536126 TTGTATTTTAAATTATATTTTGAA-ATT-AAATA
1 TTTTATATTAAATTATATTTAGAAGATTAAAATA
39536158 TTTTATATTAAATTATATT
1 TTTTATATTAAATTATATT
39536177 AAAATATTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
32 22 0.50
33 2 0.05
34 15 0.34
35 5 0.11
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (34 bp):
TTTTATATTAAATTATATTTAGAAGATTAAAATA
Found at i:39540144 original size:84 final size:85
Alignment explanation
Indices: 39540016--39540185 Score: 272
Period size: 84 Copynumber: 2.0 Consensus size: 85
39540006 ATTTCTGCTA
*
39540016 TTTGAGCTTAGGTTCAACACAAGCTCAACGAATGCAAACCAGCTGACATCAGTATCTAGTGATGT
1 TTTGAGCTTAGGTT-AACACAAGCTCAACGAATGCAAACCAGCTGACATCAATATCTAGTGATGT
39540081 ATACTCATCATGATTTTTCGG
65 ATACTCATCATGATTTTTCGG
* *
39540102 TTTGAGCTTAGG-T-ACACAAGCTCCACGATGTGCAAACCAGCTGACATCAATATCTAGTGATGT
1 TTTGAGCTTAGGTTAACACAAGCTCAACGA-ATGCAAACCAGCTGACATCAATATCTAGTGATGT
*
39540165 ATACTCATCATGGTTTTTCGG
65 ATACTCATCATGATTTTTCGG
39540186 CAATGGGCCA
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
83 14 0.18
84 52 0.66
85 1 0.01
86 12 0.15
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (85 bp):
TTTGAGCTTAGGTTAACACAAGCTCAACGAATGCAAACCAGCTGACATCAATATCTAGTGATGTA
TACTCATCATGATTTTTCGG
Found at i:39543269 original size:16 final size:16
Alignment explanation
Indices: 39543248--39543278 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
39543238 AATTAATTTA
39543248 AATTAAAAAATTTTCC
1 AATTAAAAAATTTTCC
39543264 AATTAAAAAATTTTC
1 AATTAAAAAATTTTC
39543279 TCAACCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAAAAAATTTTCC
Found at i:39546674 original size:15 final size:15
Alignment explanation
Indices: 39546636--39546666 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
39546626 ATGAGGCCCA
39546636 CATGGCCCAACTCGG
1 CATGGCCCAACTCGG
39546651 CATGGCCCAACTCGG
1 CATGGCCCAACTCGG
39546666 C
1 C
39546667 TCGGCCCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.42, G:0.26, T:0.13
Consensus pattern (15 bp):
CATGGCCCAACTCGG
Found at i:39560425 original size:27 final size:27
Alignment explanation
Indices: 39560368--39560428 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
39560358 GATGGGATGT
**
39560368 TAAACACAAGATAGTCTGTCGAGACTT
1 TAAACACAAGATAGTCTGTCGAGACGA
* * * *
39560395 TAAACACATGATAGTTTGTTGGGACGA
1 TAAACACAAGATAGTCTGTCGAGACGA
39560422 TAAACAC
1 TAAACAC
39560429 GGGGTATATC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (27 bp):
TAAACACAAGATAGTCTGTCGAGACGA
Found at i:39569397 original size:25 final size:25
Alignment explanation
Indices: 39569369--39569435 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
39569359 ACCAATTCTT
* * *
39569369 AGCTCGTATGAGCTTACTGATTTAC
1 AGCTCGTATGAGCATACCGATTCAC
* *
39569394 AGCTTGTGA-GAGCATACCGATTCAT
1 AGCTCGT-ATGAGCATACCGATTCAC
39569419 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
39569436 ATGTACAGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 1 0.03
25 32 0.94
26 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCGATTCAC
Found at i:39570614 original size:11 final size:11
Alignment explanation
Indices: 39570598--39570622 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39570588 CGGGCAGAAA
39570598 CACCTTATATC
1 CACCTTATATC
39570609 CACCTTATATC
1 CACCTTATATC
39570620 CAC
1 CAC
39570623 TTCTCTCGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.40, G:0.00, T:0.32
Consensus pattern (11 bp):
CACCTTATATC
Found at i:39573750 original size:31 final size:32
Alignment explanation
Indices: 39573695--39573765 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 32
39573685 ATTTTGATGA
*
39573695 TATTTTA-TAATTATTTAATTAGATA-AATAT
1 TATTTTATTAATTATTTAATGAGATATAATAT
**
39573725 TATTTTATTAA-TATTTTAATGAGATATTTTAT
1 TATTTTATTAATTA-TTTAATGAGATATAATAT
39573757 TATTTTATT
1 TATTTTATT
39573766 TAGTATATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.26
31 14 0.40
32 12 0.34
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (32 bp):
TATTTTATTAATTATTTAATGAGATATAATAT
Found at i:39578933 original size:101 final size:102
Alignment explanation
Indices: 39578818--39579002 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
39578808 AAAGTGATGG
**
39578818 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTTGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
39578881 ACTATGTGCAGGCTACTATGCGTACTGGATAGCTTTGA
65 ACTATGTGCAGGCTACTATGCGTACTGGATAGCTTTGA
* *
39578919 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
39578984 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
39579003 TGAACCGGTA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
101 40 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACTGGATAGCTTTGA
Found at i:39578948 original size:51 final size:49
Alignment explanation
Indices: 39578817--39579000 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 49
39578807 GAAAGTGATG
* *
39578817 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTT
1 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CTG---GATAGTTT
* *
39578870 G-CA--TGTGTAGTACTATGTGCAGGCTACTATGCGTACTGGATAGCTTT
1 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAG-TTT
*
39578917 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-TCGGATAGTGATG
1 G-TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACT-GGATAGT--TT
*
39578969 GTCACATGTGTAGTACTATGTGCAGGCTACTA
1 GTCACGTGTGTAGTACTATGTGCAGGCTACTA
39579001 TGTGAACCGG
Statistics
Matches: 115, Mismatches: 8, Indels: 18
0.82 0.06 0.13
Matches are distributed among these distances:
46 5 0.04
47 3 0.03
49 4 0.03
50 32 0.28
51 66 0.57
52 4 0.03
53 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (49 bp):
GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAGTTT
Found at i:39579004 original size:26 final size:26
Alignment explanation
Indices: 39578924--39579004 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
39578914 TTTGATCACG
39578924 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
39578950 CGTGTA-T-CGGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
39578975 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
39579001 TGTG
1 TGTG
39579005 AACCGGTATC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:39581152 original size:15 final size:15
Alignment explanation
Indices: 39581132--39581162 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
39581122 TCTCACTCAC
*
39581132 TTTATTTCTTTTATT
1 TTTATTTATTTTATT
39581147 TTTATTTATTTTATT
1 TTTATTTATTTTATT
39581162 T
1 T
39581163 CTATAGCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTATTTATTTTATT
Found at i:39589840 original size:96 final size:96
Alignment explanation
Indices: 39589676--39589868 Score: 368
Period size: 96 Copynumber: 2.0 Consensus size: 96
39589666 GTATGTATGT
*
39589676 GGTGATGAAAGTGTTGAATGAAAAGAAAAGAGGTGAGATGTATTGAGTTGTTGATCTTGGCACTA
1 GGTGATGAAAGTGTTGAATGAAAAGAAAAGAGGTGAGATGTATTGAGTTGTTGATCTCGGCACTA
39589741 AGTGTGCGGGTATAAACATTTATGATCATGA
66 AGTGTGCGGGTATAAACATTTATGATCATGA
39589772 GGTGATGAAAGTGTTGAATGAAAAGAAAAGAGGTGAGATGTATTGAGTTGTTGATCTCGGCACTA
1 GGTGATGAAAGTGTTGAATGAAAAGAAAAGAGGTGAGATGTATTGAGTTGTTGATCTCGGCACTA
*
39589837 AGTGTGTGGGTATAAACATTTATGATCATGA
66 AGTGTGCGGGTATAAACATTTATGATCATGA
39589868 G
1 G
39589869 ATTGGCGCTA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.33, C:0.06, G:0.31, T:0.30
Consensus pattern (96 bp):
GGTGATGAAAGTGTTGAATGAAAAGAAAAGAGGTGAGATGTATTGAGTTGTTGATCTCGGCACTA
AGTGTGCGGGTATAAACATTTATGATCATGA
Found at i:39589967 original size:56 final size:56
Alignment explanation
Indices: 39589876--39589998 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
39589866 GAGATTGGCG
* * *
39589876 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
39589933 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
39589988 CTGAGTGTGCG
1 CTAAGTGTGCG
39589999 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:39589985 original size:27 final size:28
Alignment explanation
Indices: 39589876--39589998 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
39589866 GAGATTGGCG
* * * *
39589876 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
39589905 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
39589933 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
39589961 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
39589988 CTGAGTGTGCG
1 CTAAGTGTGCG
39589999 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:39590009 original size:27 final size:27
Alignment explanation
Indices: 39589901--39590011 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
39589891 TAAATTGTAC
* * *
39589901 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
39589929 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
39589957 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
39589984 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
39590011 A
1 A
39590012 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:39593384 original size:15 final size:15
Alignment explanation
Indices: 39593364--39593392 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
39593354 ATGCCACACA
39593364 CACCATGTTATCAAT
1 CACCATGTTATCAAT
39593379 CACCATGTTATCAA
1 CACCATGTTATCAA
39593393 GCAACAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (15 bp):
CACCATGTTATCAAT
Found at i:39598121 original size:27 final size:27
Alignment explanation
Indices: 39598049--39598393 Score: 288
Period size: 27 Copynumber: 12.8 Consensus size: 27
39598039 TGTCTGCACT
* * *
39598049 GAAATA-CCCCATAGGGTAGAACGA-C
1 GAAATACCCCCATAAGGTAAAATGATC
* * *
39598074 CAAAAACCCCCAT-AGGTTAAAATGACC
1 GAAATACCCCCATAAGG-TAAAATGATC
* *
39598101 AAAATACCCTCATAAGGTAAAATGATC
1 GAAATACCCCCATAAGGTAAAATGATC
* * * *
39598128 GAAATACCTCTATAGGGTAGAATGATC
1 GAAATACCCCCATAAGGTAAAATGATC
39598155 GAAATACCCCCCAT-AGGTTAAAATGATC
1 GAAATA-CCCCCATAAGG-TAAAATGATC
*
39598183 GAAATACCCCCATAAGGCAAAATGATC
1 GAAATACCCCCATAAGGTAAAATGATC
* *
39598210 GAAATACCCCCAAAAGGTAAAATGACC
1 GAAATACCCCCATAAGGTAAAATGATC
** * * * *
39598237 GAAATATTCTCATATGGTAGAATGACC
1 GAAATACCCCCATAAGGTAAAATGATC
* *
39598264 GAAATATCCCCA-ACAGGTGAAATGATC
1 GAAATACCCCCATA-AGGTAAAATGATC
*
39598291 GAAATACCCCCATAGGGTAAAATGAAT-
1 GAAATACCCCCATAAGGTAAAATG-ATC
* * *
39598318 GAATTACCCCCATAGGGTAAAATGATT
1 GAAATACCCCCATAAGGTAAAATGATC
* * * * *
39598345 GAATTAGCCCTATAGGGTAAAATGACC
1 GAAATACCCCCATAAGGTAAAATGATC
* * *
39598372 AAAATACCCCTATAGGGTAAAA
1 GAAATACCCCCATAAGGTAAAA
39598394 CGACTATTAT
Statistics
Matches: 263, Mismatches: 46, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
25 6 0.02
26 15 0.06
27 213 0.81
28 29 0.11
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (27 bp):
GAAATACCCCCATAAGGTAAAATGATC
Found at i:39598578 original size:26 final size:26
Alignment explanation
Indices: 39598548--39598653 Score: 133
Period size: 26 Copynumber: 4.1 Consensus size: 26
39598538 GGAAGTATAC
*
39598548 TGTTACTAGCAGCTTTGCTGCGATAT
1 TGTTACTGGCAGCTTTGCTGCGATAT
* *
39598574 TGTTACTGGTAGCTTTGCTGCGTTAT
1 TGTTACTGGCAGCTTTGCTGCGATAT
* *
39598600 TGTTATTGGCAGCTTTGCTGCG-TCAC
1 TGTTACTGGCAGCTTTGCTGCGAT-AT
* *
39598626 TATTACTGGCAGCTTTGTTGCGATAT
1 TGTTACTGGCAGCTTTGCTGCGATAT
39598652 TG
1 TG
39598654 GTGTGTTGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
25 1 0.01
26 65 0.97
27 1 0.01
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.42
Consensus pattern (26 bp):
TGTTACTGGCAGCTTTGCTGCGATAT
Found at i:39600107 original size:12 final size:12
Alignment explanation
Indices: 39600090--39600133 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
39600080 ACTAGTCGTA
39600090 GAGAGAATTGAG
1 GAGAGAATTGAG
*
39600102 GAGAGATATT-TG
1 GAGAGA-ATTGAG
*
39600114 GAGAGATTTGAG
1 GAGAGAATTGAG
39600126 GAGAGAAT
1 GAGAGAAT
39600134 ATTGGGATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 21 0.81
13 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.23
Consensus pattern (12 bp):
GAGAGAATTGAG
Found at i:39600117 original size:24 final size:25
Alignment explanation
Indices: 39600090--39600136 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
39600080 ACTAGTCGTA
39600090 GAGAGAATTGAGGAGAG-ATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
*
39600114 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAGAGAATATT
39600137 GGGATTTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (25 bp):
GAGAGAATTGAGGAGAGAATATTTG
Found at i:39600872 original size:27 final size:27
Alignment explanation
Indices: 39600831--39601133 Score: 261
Period size: 27 Copynumber: 11.2 Consensus size: 27
39600821 TATACAGTAG
*
39600831 AATGACC-AAATTACCCTCATAAGGTAA
1 AATGACCGAAA-TACCCCCATAAGGTAA
*
39600858 AATGACCGAAATACCCCCA-CAGAGTAA
1 AATGACCGAAATACCCCCATAAG-GTAA
** * * *
39600885 AATGATAGAAATACCTCCATAGGGTAG
1 AATGACCGAAATACCCCCATAAGGTAA
* *
39600912 AATGATCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAAGGTAA
* *
39600939 AATGACTGAAATACCCCCAGAAGGTAA
1 AATGACCGAAATACCCCCATAAGGTAA
* **
39600966 AATCACTAAAATACCCCCATAAGGTAA
1 AATGACCGAAATACCCCCATAAGGTAA
*** * *
39600993 AATGACCGAAATACCTTTATATGGTAG
1 AATGACCGAAATACCCCCATAAGGTAA
* **
39601020 AATGACTGAAATACCCCCA-AAGGGTGG
1 AATGACCGAAATACCCCCATAA-GGTAA
* *
39601047 AATGATCGAAATACCCCCATATGGTAA
1 AATGACCGAAATACCCCCATAAGGTAA
** * ** * *
39601074 AATGAATGAATTACCCTTATTAGATAA
1 AATGACCGAAATACCCCCATAAGGTAA
* *
39601101 AATGAACGAAATACCCCTATAAGGTAA
1 AATGACCGAAATACCCCCATAAGGTAA
39601128 AATGAC
1 AATGAC
39601134 TATTATACCC
Statistics
Matches: 220, Mismatches: 51, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
26 3 0.01
27 212 0.96
28 5 0.02
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.20
Consensus pattern (27 bp):
AATGACCGAAATACCCCCATAAGGTAA
Found at i:39600950 original size:81 final size:80
Alignment explanation
Indices: 39600831--39601132 Score: 288
Period size: 81 Copynumber: 3.7 Consensus size: 80
39600821 TATACAGTAG
* * *
39600831 AATGACCAAATTACCCTCATAAGGTAAAATGACCGAAATACCCCCACAGAGTAAAATGATAGAAA
1 AATGACGAAA-TACCCTCATAAGGTAAAATGACTGAAATACCCCCAAAGAGTAAAATGATAGAAA
* * *
39600896 TACCTCCATAGGGTAG
65 TACCCCCATAAGGTAA
* * *
39600912 AATGATCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCCCAGAAG-GTAAAATCACTA-A
1 AATGA-CGAAATACCCTCATAAGGTAAAATGACTGAAATACCCCCA-AAGAGTAAAATGA-TAGA
39600975 AATACCCCCATAAGGTAA
63 AATACCCCCATAAGGTAA
* * * * * ** *
39600993 AATGACCGAAATACCTTTATATGGTAGAATGACTGAAATACCCCCAAAGGGTGGAATGATCGAAA
1 AATGA-CGAAATACCCTCATAAGGTAAAATGACTGAAATACCCCCAAAGAGTAAAATGATAGAAA
*
39601058 TACCCCCATATGGTAA
65 TACCCCCATAAGGTAA
* * * * * *
39601074 AATGAATGAATTACCCTTATTAGATAAAATGAAC-GAAATACCCCTATAAG-GTAAAATGA
1 AATG-ACGAAATACCCTCATAAGGTAAAATG-ACTGAAATACCCCCA-AAGAGTAAAATGA
39601133 CTATTATACC
Statistics
Matches: 183, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
80 4 0.02
81 165 0.90
82 14 0.08
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (80 bp):
AATGACGAAATACCCTCATAAGGTAAAATGACTGAAATACCCCCAAAGAGTAAAATGATAGAAAT
ACCCCCATAAGGTAA
Found at i:39601309 original size:26 final size:26
Alignment explanation
Indices: 39601280--39601386 Score: 151
Period size: 26 Copynumber: 4.1 Consensus size: 26
39601270 TGGAGGAAGT
* *
39601280 ATACTGTTACTGGTAGCTTTTCTGTG
1 ATACTGTTACTGGTAGCTTTGCTGCG
39601306 ATACTGTTACTGGTAGCTTTGCTGCG
1 ATACTGTTACTGGTAGCTTTGCTGCG
* *
39601332 TTACTGTTACTGGAAGCTTTGCTGCG
1 ATACTGTTACTGGTAGCTTTGCTGCG
* * *
39601358 TTACTATTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGTAGCTTTGCTGCG
39601384 ATA
1 ATA
39601387 TTGGTGTGTT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (26 bp):
ATACTGTTACTGGTAGCTTTGCTGCG
Found at i:39613148 original size:63 final size:63
Alignment explanation
Indices: 39613074--39613203 Score: 251
Period size: 63 Copynumber: 2.1 Consensus size: 63
39613064 GAGGAGAGAA
39613074 TATTGGGATTTGGGGAAGGTTGTTGTTGTGGAGAGTTATATATATCACATCTCATTTGTTCCT
1 TATTGGGATTTGGGGAAGGTTGTTGTTGTGGAGAGTTATATATATCACATCTCATTTGTTCCT
*
39613137 TATTGGTATTTGGGGAAGGTTGTTGTTGTGGAGAGTTATATATATCACATCTCATTTGTTCCT
1 TATTGGGATTTGGGGAAGGTTGTTGTTGTGGAGAGTTATATATATCACATCTCATTTGTTCCT
39613200 TATT
1 TATT
39613204 CTGAATGGGG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.21, C:0.09, G:0.25, T:0.45
Consensus pattern (63 bp):
TATTGGGATTTGGGGAAGGTTGTTGTTGTGGAGAGTTATATATATCACATCTCATTTGTTCCT
Found at i:39613885 original size:81 final size:81
Alignment explanation
Indices: 39613667--39614023 Score: 405
Period size: 81 Copynumber: 4.4 Consensus size: 81
39613657 ATACCCTCGA
* ** * * * * *
39613667 TAGGTTAAAATGACCAAAATGCCCTCGTAAGGTAGAAT-ACCGAAATACCCCTATAGGGTAAAAT
1 TAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAAT
* *
39613731 GACCGTAATGCCCCTG
66 GATCGTAATACCCCTG
* * * * *
39613747 TAGGGT-AAATTATCGTAATACCCCTGTAGGGTAAAATGATCGTAATACCCCTGTAGGGTAAAAT
1 TAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAAT
*
39613811 GATCGTAATACCCCTA
66 GATCGTAATACCCCTG
* * *
39613827 TAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACTGTAATGCCCTTGTAGGGTAAAAT
1 TAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAAT
* *
39613892 GAACGTATTACCCCTG
66 GATCGTAATACCCCTG
* * * * * * *
39613908 TAGGGTAAAATAATCGTAATGCCCCTATAGGGTAAAATAACCATAATTCCCCTGTAGGGTAAAAT
1 TAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAAT
* *
39613973 GCTCGTAATACCCTTG
66 GATCGTAATACCCCTG
* *
39613989 TAGGGTAAAATGACCTTAATGCCCTGGT-GGGTAAA
1 TAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAA
39614024 TGATTATTTT
Statistics
Matches: 229, Mismatches: 46, Indels: 4
0.82 0.16 0.01
Matches are distributed among these distances:
79 22 0.10
80 54 0.24
81 153 0.67
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (81 bp):
TAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAAT
GATCGTAATACCCCTG
Found at i:39614013 original size:27 final size:27
Alignment explanation
Indices: 39613688--39614008 Score: 369
Period size: 27 Copynumber: 11.9 Consensus size: 27
39613678 GACCAAAATG
* * *
39613688 CCCTCGTAAGGTAGAAT-ACCGAAATAC
1 CCCT-GTAGGGTAAAATGACCGTAATAC
* *
39613715 CCCTATAGGGTAAAATGACCGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATAC
* *
39613742 CCCTGTAGGGT-AAATTATCGTAATAC
1 CCCTGTAGGGTAAAATGACCGTAATAC
*
39613768 CCCTGTAGGGTAAAATGATCGTAATAC
1 CCCTGTAGGGTAAAATGACCGTAATAC
*
39613795 CCCTGTAGGGTAAAATGATCGTAATAC
1 CCCTGTAGGGTAAAATGACCGTAATAC
* *
39613822 CCCTATAGGGTAAAATGACCGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATAC
* * *
39613849 CCTTGTAGGGTAAAATGACTGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATAC
* * *
39613876 CCTTGTAGGGTAAAATGAACGTATTAC
1 CCCTGTAGGGTAAAATGACCGTAATAC
* * *
39613903 CCCTGTAGGGTAAAATAATCGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATAC
* * * *
39613930 CCCTATAGGGTAAAATAACCATAATTC
1 CCCTGTAGGGTAAAATGACCGTAATAC
39613957 CCCTGTAGGGTAAAATG-CTCGTAATAC
1 CCCTGTAGGGTAAAATGAC-CGTAATAC
* *
39613984 CCTTGTAGGGTAAAATGACCTTAAT
1 CCCTGTAGGGTAAAATGACCGTAAT
39614009 GCCCTGGTGG
Statistics
Matches: 255, Mismatches: 35, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
26 33 0.13
27 221 0.87
28 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (27 bp):
CCCTGTAGGGTAAAATGACCGTAATAC
Found at i:39614107 original size:24 final size:25
Alignment explanation
Indices: 39614073--39614119 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
39614063 CTATGGTTAA
*
39614073 ATGACTGATTTGTCTGTG-TTTGGT
1 ATGACTAATTTGTCTGTGATTTGGT
39614097 ATGACTAATTTGTCTGTGATTTG
1 ATGACTAATTTGTCTGTGATTTG
39614120 AATGACTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.17, C:0.09, G:0.26, T:0.49
Consensus pattern (25 bp):
ATGACTAATTTGTCTGTGATTTGGT
Found at i:39614124 original size:24 final size:24
Alignment explanation
Indices: 39614072--39614126 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
39614062 TCTATGGTTA
*
39614072 AATGACTGATTTGTCTGTGTTTGG
1 AATGACTAATTTGTCTGTGTTTGG
*
39614096 TATGACTAATTTGTCTGTGATTT-G
1 AATGACTAATTTGTCTGTG-TTTGG
39614120 AATGACT
1 AATGACT
39614127 GATTCTAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.45
Consensus pattern (24 bp):
AATGACTAATTTGTCTGTGTTTGG
Found at i:39614255 original size:27 final size:27
Alignment explanation
Indices: 39614203--39614255 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
39614193 GTACTGTGCT
*
39614203 GGTGGCTCTGCCACAATCACTGTTACC
1 GGTGGCTCTGCCACAATCACTATTACC
39614230 GGTGGCT-TGGCCACATAT-ACTATTAC
1 GGTGGCTCT-GCCACA-ATCACTATTAC
39614256 TGGCAGCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 1 0.04
27 20 0.87
28 2 0.09
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATCACTATTACC
Found at i:39614284 original size:26 final size:26
Alignment explanation
Indices: 39614246--39614297 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
39614236 TTGGCCACAT
*
39614246 ATACTATTACTGGCAGCTTTGTTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
* * *
39614272 ATACTGTTGCTGGTAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
39614298 GTGCTACTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.15, C:0.19, G:0.27, T:0.38
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:39614343 original size:32 final size:32
Alignment explanation
Indices: 39614302--39614600 Score: 202
Period size: 32 Copynumber: 9.4 Consensus size: 32
39614292 GCTGCGGTGC
* *
39614302 TACTGATGGCTTTGTGCCAATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
* *
39614334 TACTGATGGCTTTGTGCCAATCAT-GTTACCGT
1 TACTGATGGCTTTGTGCCGATCATAG-TACTGT
* **
39614366 TA-TCGATGG-TTGTGTGTCGATCATTTTACTGT
1 TACT-GATGGCTT-TGTGCCGATCATAGTACTGT
* * * *
39614398 TACTGATGGATGTGTACCGATCATA-TCACTGC
1 TACTGATGGCTTTGTGCCGATCATAGT-ACTGT
* * **
39614430 TGCTGATGGCTTTGTGCCAATCAT-GTTACCAT
1 TACTGATGGCTTTGTGCCGATCATAG-TACTGT
* * * *
39614462 TACTGATGGCTGTGGGCTGATCATA-TCACTGC
1 TACTGATGGCTTTGTGCCGATCATAGT-ACTGT
* * **
39614494 TGCTGATGGATTTGTGCCGATCAT-GTTACCAT
1 TACTGATGGCTTTGTGCCGATCATAG-TACTGT
* * *
39614526 TACTGATGGCTGTGGGCCGATCATA-TCACTGC
1 TACTGATGGCTTTGTGCCGATCATAGT-ACTGT
* *
39614558 TACTGATGGCTTTGTGCCAATCATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
*
39614589 TACTTATGGCTT
1 TACTGATGGCTT
39614601 GTAGCCATTC
Statistics
Matches: 207, Mismatches: 44, Indels: 33
0.73 0.15 0.12
Matches are distributed among these distances:
31 18 0.09
32 184 0.89
33 5 0.02
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACTGT
Found at i:39614438 original size:64 final size:64
Alignment explanation
Indices: 39614299--39614586 Score: 321
Period size: 64 Copynumber: 4.5 Consensus size: 64
39614289 TTTGCTGCGG
* * * * * * *
39614299 TGCTACTGATGGCTTTGTGCCAATCATAG-TACCGTTACTGATGGCTTTGTGCCAATCATGTTAC
1 TGCTGCTGATGGCTTTGTGCCAATCAT-GTTACCATTACTGATGGCTGTGGGCCGATCATATCAC
* ** * * * ** * **
39614363 CG-TTATCGATGG-TTGTGTGTCGATCATTTTACTGTTACTGATGGATGTGTACCGATCATATCA
1 TGCTGCT-GATGGCTT-TGTGCCAATCATGTTACCATTACTGATGGCTGTGGGCCGATCATATCA
39614426 C
64 C
*
39614427 TGCTGCTGATGGCTTTGTGCCAATCATGTTACCATTACTGATGGCTGTGGGCTGATCATATCAC
1 TGCTGCTGATGGCTTTGTGCCAATCATGTTACCATTACTGATGGCTGTGGGCCGATCATATCAC
* *
39614491 TGCTGCTGATGGATTTGTGCCGATCATGTTACCATTACTGATGGCTGTGGGCCGATCATATCAC
1 TGCTGCTGATGGCTTTGTGCCAATCATGTTACCATTACTGATGGCTGTGGGCCGATCATATCAC
* *
39614555 TGCTACTGATGGCTTTGTGCCAATCATATTAC
1 TGCTGCTGATGGCTTTGTGCCAATCATGTTAC
39614587 TGTACTTATG
Statistics
Matches: 187, Mismatches: 32, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
63 4 0.02
64 179 0.96
65 4 0.02
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (64 bp):
TGCTGCTGATGGCTTTGTGCCAATCATGTTACCATTACTGATGGCTGTGGGCCGATCATATCAC
Found at i:39614466 original size:128 final size:128
Alignment explanation
Indices: 39614299--39614586 Score: 357
Period size: 128 Copynumber: 2.2 Consensus size: 128
39614289 TTTGCTGCGG
* * * * *
39614299 TGCTACTGATGGCTTTGTGCCAATCATAG-TACCGTTACTGATGGCTTTGTGCCAATCATGTTAC
1 TGCTACTGATGGCTTTGTGCCAATCAT-GTTACCATTACTGATGGCTGTGGGCCAATCATATCAC
** * * ** *
39614363 CG-TTATCGATGG-TTGTGTGTCGATCATTTTACTGTTACTGATGGATGTGTACCGATCATATCA
65 CGCTGCT-GATGGATT-TGTGCCGATCATGTTACCATTACTGATGGATGTGGACCGATCATATCA
39614426 C
128 C
* ** *
39614427 TGCTGCTGATGGCTTTGTGCCAATCATGTTACCATTACTGATGGCTGTGGGCTGATCATATCACT
1 TGCTACTGATGGCTTTGTGCCAATCATGTTACCATTACTGATGGCTGTGGGCCAATCATATCACC
* *
39614492 GCTGCTGATGGATTTGTGCCGATCATGTTACCATTACTGATGGCTGTGGGCCGATCATATCAC
66 GCTGCTGATGGATTTGTGCCGATCATGTTACCATTACTGATGGATGTGGACCGATCATATCAC
*
39614555 TGCTACTGATGGCTTTGTGCCAATCATATTAC
1 TGCTACTGATGGCTTTGTGCCAATCATGTTAC
39614587 TGTACTTATG
Statistics
Matches: 137, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
127 1 0.01
128 132 0.96
129 4 0.03
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (128 bp):
TGCTACTGATGGCTTTGTGCCAATCATGTTACCATTACTGATGGCTGTGGGCCAATCATATCACC
GCTGCTGATGGATTTGTGCCGATCATGTTACCATTACTGATGGATGTGGACCGATCATATCAC
Found at i:39614549 original size:96 final size:96
Alignment explanation
Indices: 39614299--39614536 Score: 275
Period size: 96 Copynumber: 2.5 Consensus size: 96
39614289 TTTGCTGCGG
* *
39614299 TGCTACTGATGGCTTTGTGCCAATCATAG-TACCGTTACTGATGGCTTTGTGCCAATCATGTTAC
1 TGCTACTGATGGATTTGTGCCGATCAT-GTTACCGTTACTGATGGCTTTGTGCCAATCATGTTAC
* * * * *
39614363 CGTTATCGATGGTTGTGTGTCGATCATTTTAC
65 CATTATCGATGGCTGTGGGTCGATCATATCAC
* * * * * * * *
39614395 TGTTACTGATGGATGTGTACCGATCATATCACTGCTGCTGATGGCTTTGTGCCAATCATGTTACC
1 TGCTACTGATGGATTTGTGCCGATCATGTTACCGTTACTGATGGCTTTGTGCCAATCATGTTACC
39614460 ATTA-CTGATGGCTGTGGG-CTGATCATATCAC
66 ATTATC-GATGGCTGTGGGTC-GATCATATCAC
* *
39614491 TGCTGCTGATGGATTTGTGCCGATCATGTTACCATTACTGATGGCT
1 TGCTACTGATGGATTTGTGCCGATCATGTTACCGTTACTGATGGCT
39614537 GTGGGCCGAT
Statistics
Matches: 114, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
95 2 0.02
96 112 0.98
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (96 bp):
TGCTACTGATGGATTTGTGCCGATCATGTTACCGTTACTGATGGCTTTGTGCCAATCATGTTACC
ATTATCGATGGCTGTGGGTCGATCATATCAC
Found at i:39622259 original size:58 final size:58
Alignment explanation
Indices: 39622169--39622407 Score: 322
Period size: 58 Copynumber: 4.1 Consensus size: 58
39622159 GCACCGACAC
* *
39622169 CCATCAAATATGAAAAGGGATGGTGACAACCATCGAATATGAAAAA-GACTGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAAGGA-TGGTTTCGA
39622227 CCATCGAATATGAAAAGGGATGGTGACGACCATCGAATAT-AAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAA-GGATGGTTTCGA
* * * *
39622285 CCATCGAATATGAAAACGGATGGTGAAGACCATCGAATATGAAAAAGGATGGTGAT-AA
1 CCATCGAATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAAGGATGGT-TTCGA
* ** ** *
39622343 CCATCGAATATAAAAAAAGATGGTGGTGACCATCTAATATGAAAAAGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAAGGATGGTTTCGA
39622401 CCATCGA
1 CCATCGA
39622408 TTAAAGAAAA
Statistics
Matches: 162, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
57 6 0.04
58 148 0.91
59 8 0.05
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (58 bp):
CCATCGAATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAAGGATGGTTTCGA
Found at i:39622402 original size:29 final size:29
Alignment explanation
Indices: 39622169--39622436 Score: 283
Period size: 29 Copynumber: 9.2 Consensus size: 29
39622159 GCACCGACAC
* * * *
39622169 CCATCAAATATGAAAAGGGATGGTGACAA
1 CCATCGAATATGAAAAAGGATGGTGTCGA
*
39622198 CCATCGAATATGAAAAA-GACTGGTTTCGA
1 CCATCGAATATGAAAAAGGA-TGGTGTCGA
* *
39622227 CCATCGAATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAAGGATGGTGTCGA
*
39622256 CCATCGAATAT-AAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAA-GGATGGTGTCGA
* **
39622285 CCATCGAATATGAAAACGGATGGTGAAGA
1 CCATCGAATATGAAAAAGGATGGTGTCGA
*
39622314 CCATCGAATATGAAAAAGGATGGTGAT-AA
1 CCATCGAATATGAAAAAGGATGGTG-TCGA
* *
39622343 CCATCGAATATAAAAAAAGATGGTGGT-GA
1 CCATCGAATATGAAAAAGGATGGT-GTCGA
* *
39622372 CCATCTAATATGAAAAAGGATGGTTTCGA
1 CCATCGAATATGAAAAAGGATGGTGTCGA
* * * *
39622401 CCATCGATTAAAGAAAAATGATGGTTTCGA
1 CCATCGAAT-ATGAAAAAGGATGGTGTCGA
39622431 CCATCG
1 CCATCG
39622437 TTTAGCACAC
Statistics
Matches: 202, Mismatches: 29, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
28 7 0.03
29 164 0.81
30 31 0.15
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (29 bp):
CCATCGAATATGAAAAAGGATGGTGTCGA
Found at i:39635713 original size:146 final size:146
Alignment explanation
Indices: 39635502--39635790 Score: 420
Period size: 146 Copynumber: 2.0 Consensus size: 146
39635492 TCAAGTTTTA
* *
39635502 GATAGATTGAAGGTTTTAAAAACAATTTAAAATCATTTAAAATTGGTTCAAAGTTGACCAAAACT
1 GATAGATTGAAGGCTTTAAAAACAATTTAAAATCATTTAAAATTAGTTCAAAGTTGACCAAAACT
* ** * *
39635567 TAGAATGAGCCCCAAAAGGACGAAAA-GCTCCAAATAGTGCAGTATGTTAAACCCTACATTGTGG
66 TAAAATGAGCCCCAAAAGGAAAAAAAGGCTCAAAATAGTGCAGTAGGTTAAACCCTACATTGTGG
*
39635631 TATCAGTACAAGTAAG
131 TATCAATACAAGTAAG
* * *
39635647 GATATGATTGAAGGCTTT-AAAACAAATTTAAAATCATTTAAAATTAGTTCAAAGTTTATCAGAA
1 GATA-GATTGAAGGCTTTAAAAAC-AATTTAAAATCATTTAAAATTAGTTCAAAGTTGACCAAAA
* * *
39635711 CTTAAAATGGGCCTCACAAGGAAAAAAAGGCTCAAAATAGTGCAGTAGGTTAAACCCTACATTGT
64 CTTAAAATGAGCCCCAAAAGGAAAAAAAGGCTCAAAATAGTGCAGTAGGTTAAACCCTACATTGT
39635776 GGTATCAATACAAGT
129 GGTATCAATACAAGT
39635791 GAAGAGATGT
Statistics
Matches: 127, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
145 9 0.07
146 70 0.55
147 48 0.38
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (146 bp):
GATAGATTGAAGGCTTTAAAAACAATTTAAAATCATTTAAAATTAGTTCAAAGTTGACCAAAACT
TAAAATGAGCCCCAAAAGGAAAAAAAGGCTCAAAATAGTGCAGTAGGTTAAACCCTACATTGTGG
TATCAATACAAGTAAG
Found at i:39641026 original size:37 final size:37
Alignment explanation
Indices: 39640976--39641054 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39640966 TTATTACGAA
* * *
39640976 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
39641013 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
39641050 GTCTT
1 GTCTT
39641055 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:39641251 original size:47 final size:47
Alignment explanation
Indices: 39641173--39641529 Score: 588
Period size: 47 Copynumber: 7.6 Consensus size: 47
39641163 CCCTTTGGGA
* * * * * *
39641173 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39641220 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39641267 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39641314 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39641361 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39641408 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39641455 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39641504 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
39641530 CACAATTATC
Statistics
Matches: 292, Mismatches: 16, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 246 0.84
49 46 0.16
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39655821 original size:17 final size:17
Alignment explanation
Indices: 39655765--39655823 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
39655755 TTATGTCTGA
39655765 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
* * *
39655782 TAAATTTCACATT-TTGTAC
1 T--ATTT-ATATTATTGAAT
39655801 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
39655818 TATTTA
1 TATTTA
39655824 ATAATACTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 4 0.12
17 15 0.47
19 9 0.28
20 4 0.12
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (17 bp):
TATTTATATTATTGAAT
Found at i:39660619 original size:67 final size:67
Alignment explanation
Indices: 39660539--39660769 Score: 250
Period size: 67 Copynumber: 3.5 Consensus size: 67
39660529 GGGGTTAATA
* *
39660539 TGTAAGACTATAGCTCGACTATGGAAACATAGAGAGTTTTCCAGGACATTAAACATGGGGTATAT
1 TGTAAGACCATAGCTCGACTATGGAAACATAGAGAGTTTTCCAGGACATTAAACATGAGGTATAT
39660604 TG
66 TG
* *** * * * * * *
39660606 TGTAAGACCATAGCTTGACTATATCAATATAAAGAG-TCTACATGACATTAAACATGTGGTATAT
1 TGTAAGACCATAGCTCGACTATGGAAACATAGAGAGTTTTCCAGGACATTAAACATGAGGTATAT
*
39660670 TA
66 TG
* * *
39660672 TGTAAGACCATAGGTCGACTATGGCAACATAGAGAGTTTGCCAGGACATTAAACATGAGGTATGA
1 TGTAAGACCATAGCTCGACTATGGAAACATAGAGAGTTTTCCAGGACATTAAACATGAGGTAT-A
39660737 -TG
65 TTG
* * * * *
39660739 TGCAAAACCATATCTCAACTATGGAAGCATA
1 TGTAAGACCATAGCTCGACTATGGAAACATA
39660770 TGGAGTCAAC
Statistics
Matches: 131, Mismatches: 31, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
66 55 0.42
67 75 0.57
68 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (67 bp):
TGTAAGACCATAGCTCGACTATGGAAACATAGAGAGTTTTCCAGGACATTAAACATGAGGTATAT
TG
Found at i:39660676 original size:66 final size:67
Alignment explanation
Indices: 39660537--39660734 Score: 218
Period size: 66 Copynumber: 3.0 Consensus size: 67
39660527 ACGGGGTTAA
* * * * * ** *
39660537 TATGTAAGACTATAGCTCGACTATGGAAACATAGAGAGTTTTCCAGGACATTAAACATGGGGTAT
1 TATGTAAGACCATAGCTCGACTATAGCAACATAAAGAGTCTGACAGGACATTAAACATGAGGTAT
39660602 AT
66 AT
* * * * * *
39660604 TGTGTAAGACCATAGCTTGACTATATCAATATAAAGAGTCT-ACATGACATTAAACATGTGGTAT
1 TATGTAAGACCATAGCTCGACTATAGCAACATAAAGAGTCTGACAGGACATTAAACATGAGGTAT
39660668 AT
66 AT
* * * * *
39660670 TATGTAAGACCATAGGTCGACTATGGCAACATAGAGAGTTTGCCAGGACATTAAACATGAGGTAT
1 TATGTAAGACCATAGCTCGACTATAGCAACATAAAGAGTCTGACAGGACATTAAACATGAGGTAT
39660735 GATGTGCAAA
Statistics
Matches: 107, Mismatches: 23, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
66 55 0.51
67 52 0.49
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (67 bp):
TATGTAAGACCATAGCTCGACTATAGCAACATAAAGAGTCTGACAGGACATTAAACATGAGGTAT
AT
Found at i:39660984 original size:19 final size:20
Alignment explanation
Indices: 39660936--39660986 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
39660926 AGGAATTCGC
*
39660936 CGAAAAAGGAAAAAGTAATA
1 CGAAAATGGAAAAAGTAATA
*
39660956 -G-AAATGGGAAAAAGT-CTA
1 CGAAAAT-GGAAAAAGTAATA
39660974 CGAAAATGGAAAA
1 CGAAAATGGAAAA
39660987 CAGGGAAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
18 5 0.19
19 17 0.65
20 4 0.15
ACGTcount: A:0.59, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
CGAAAATGGAAAAAGTAATA
Found at i:39661880 original size:20 final size:20
Alignment explanation
Indices: 39661839--39661880 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
39661829 TCTGGAAAGA
*
39661839 AGTTGCGAATCGTATCCGCC
1 AGTTGCGAATCGTATCCACC
*
39661859 AGTTGCGAATCGTATCTACC
1 AGTTGCGAATCGTATCCACC
39661879 AG
1 AG
39661881 GTAACACTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (20 bp):
AGTTGCGAATCGTATCCACC
Found at i:39667658 original size:20 final size:21
Alignment explanation
Indices: 39667633--39667676 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
39667623 AAAATGTTTA
39667633 AATTGATTG-TCTTCTATTTG
1 AATTGATTGTTCTTCTATTTG
*
39667653 AATTGATTGTTTTTCTATTTG
1 AATTGATTGTTCTTCTATTTG
39667674 AAT
1 AAT
39667677 CAATTCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.23, C:0.07, G:0.14, T:0.57
Consensus pattern (21 bp):
AATTGATTGTTCTTCTATTTG
Found at i:39667803 original size:21 final size:21
Alignment explanation
Indices: 39667774--39667817 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
39667764 GTTTATGTTA
* *
39667774 AATCGATTGACTTTCTGTTTG
1 AATCAATTGACTTTCTATTTG
**
39667795 AATCAATTGTTTTTCTATTTG
1 AATCAATTGACTTTCTATTTG
39667816 AA
1 AA
39667818 CCGATTCATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (21 bp):
AATCAATTGACTTTCTATTTG
Found at i:39674910 original size:16 final size:16
Alignment explanation
Indices: 39674859--39674903 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 16
39674849 GGGTGAAAAG
39674859 TAAAAGTTTATGGGGAAAA
1 TAAAAGTTT-TGGGG--AA
39674878 TAAAAAGTTTTGGGGAA
1 T-AAAAGTTTTGGGGAA
39674895 TAAAAGTTT
1 TAAAAGTTT
39674904 GAGGGAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.32
17 3 0.12
19 6 0.24
20 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.31
Consensus pattern (16 bp):
TAAAAGTTTTGGGGAA
Found at i:39675035 original size:30 final size:31
Alignment explanation
Indices: 39674996--39675055 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
39674986 AGAGGTGGGA
*
39674996 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
39675027 TGGG-AGGGAGTAAAAATTTTTGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
39675056 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:39696450 original size:44 final size:45
Alignment explanation
Indices: 39696349--39696472 Score: 123
Period size: 44 Copynumber: 2.8 Consensus size: 45
39696339 CACTCTACTG
* * * * *
39696349 CAACCTTAGGGAGATAAGATTTAG--GTCTTCAGTCTGCTCCACTG
1 CAACCTTAGGGAGATAAGACTT-GCCATCTTCAATCTGCCCCACTA
39696393 CAACCTTAGGGAGATAAGA-TTCGCCATCTTCAATCTGCCCCACTA
1 CAACCTTAGGGAGATAAGACTT-GCCATCTTCAATCTGCCCCACTA
* *
39696438 CAA-CTTCA-GGAGATAAGACTTGCTATCTTCGATCT
1 CAACCTT-AGGGAGATAAGACTTGCCATCTTCAATCT
39696473 ACCTTACTGC
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.04
44 44 0.64
45 22 0.32
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (45 bp):
CAACCTTAGGGAGATAAGACTTGCCATCTTCAATCTGCCCCACTA
Found at i:39696590 original size:88 final size:88
Alignment explanation
Indices: 39696463--39697168 Score: 1085
Period size: 88 Copynumber: 8.0 Consensus size: 88
39696453 AGACTTGCTA
* * * *
39696463 TCTTCGATCTACCTT-ACTGCCAATATAGGAAGATAAGATCTGCTATTTTCAACCTACTCCACTA
1 TCTTCGATCTA-CTTCGCTGCCAACACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
* *
39696527 CTGCCCAAGGAGACAAGGTTG-GTG
65 CTGCCCAGGGAGACAAGGCTGAG-G
* * * * **
39696551 TATTCGATCTAGTTCGATGCCAACATAGGTTGACAAGATCTGCTATTTTCAACCTACTCCACTAC
1 TCTTCGATCTACTTCGCTGCCAACACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
*
39696616 TGCCCAGGGAGACAATGCTGAGG
66 TGCCCAGGGAGACAAGGCTGAGG
* *
39696639 TCTTTGATCTACTTCACTGCCAACACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
1 TCTTCGATCTACTTCGCTGCCAACACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
39696704 TGCCCAGGGAGACAAGGCTGAGG
66 TGCCCAGGGAGACAAGGCTGAGG
**
39696727 TCTTCGATCTACTTCGCTGCCAACACAGGAAGACAAGATCTATTATTTTCAACCTACTCCACTAC
1 TCTTCGATCTACTTCGCTGCCAACACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
*
39696792 TGCCCAAGGAGACAAGGCTGAGG
66 TGCCCAGGGAGACAAGGCTGAGG
* * *
39696815 TCTTCAATCTACTTCGTTGCCAACACAGGAAGACAAGATCTGCTATTTTCAACTTACTCCACTAC
1 TCTTCGATCTACTTCGCTGCCAACACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
39696880 TGCCCAGGGAGACAAGGCTGAGG
66 TGCCCAGGGAGACAAGGCTGAGG
* * * *
39696903 TCTTCGATCTACTTCGCTACCAACACAGGAAGACAAGATCTGCTATTTTCAACTTGCTCCATTAC
1 TCTTCGATCTACTTCGCTGCCAACACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
39696968 TGCCCAGGGAGACAAGGCTGAGG
66 TGCCCAGGGAGACAAGGCTGAGG
* * *
39696991 TCTTCGATCTACTTCGCTGCCCACACAAGAAGACAAGATCTTCTATTTTCAACCTACTCCACTAC
1 TCTTCGATCTACTTCGCTGCCAACACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
39697056 TGCCCAGGGAGACAAGGCTGAGG
66 TGCCCAGGGAGACAAGGCTGAGG
* * * *
39697079 TCTTCGATCTACTTTGCTGCCCACACTGGAAGACAAGATCTGCTATTTTCAACCTACT-CACTAT
1 TCTTCGATCTACTTCGCTGCCAACACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
39697143 TGCCCAGGGAGACAAGGCTGAGG
66 TGCCCAGGGAGACAAGGCTGAGG
39697166 TCT
1 TCT
39697169 GCGGCTTGTT
Statistics
Matches: 568, Mismatches: 48, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
87 33 0.06
88 534 0.94
89 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (88 bp):
TCTTCGATCTACTTCGCTGCCAACACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
TGCCCAGGGAGACAAGGCTGAGG
Found at i:39696849 original size:44 final size:44
Alignment explanation
Indices: 39696620--39696939 Score: 143
Period size: 44 Copynumber: 7.3 Consensus size: 44
39696610 CACTACTGCC
* * ** *
39696620 CAGGGAGACAATGCTGAGGTCTTTGATCTACTTCACTGCCAACA
1 CAGGAAGACAAGGCTGAGGTCTTCAATCTACTTCGCTGCCAACA
* *** * * * * * ** *
39696664 CAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACT-ACTGCC
1 CAGGAAGACAAG-GCTGAGGTCTTCAATCTACTTCGCTGCCAACA
* *
39696708 CAGGGAGACAAGGCTGAGGTCTTCGATCTACTTCGCTGCCAACA
1 CAGGAAGACAAGGCTGAGGTCTTCAATCTACTTCGCTGCCAACA
* ** * * * *
39696752 CAGGAAGACAAGATCT-ATTATTTTCAACCTACTCCACTACTGCC--CA
1 CAGGAAGACAAG-GCTGA-GGTCTTCAATCTACT--TC-GCTGCCAACA
*
39696798 -AGG-AGACAAGGCTGAGGTCTTCAATCTACTTCGTTGCCAACA
1 CAGGAAGACAAGGCTGAGGTCTTCAATCTACTTCGCTGCCAACA
* *** * * * * ** *
39696840 CAGGAAGACAAGATCTGCTATTTTCAA-CTTACTCCACT-ACTGCC
1 CAGGAAGACAAG-GCTGAGGTCTTCAATC-TACTTCGCTGCCAACA
* * *
39696884 CAGGGAGACAAGGCTGAGGTCTTCGATCTACTTCGCTACCAACA
1 CAGGAAGACAAGGCTGAGGTCTTCAATCTACTTCGCTGCCAACA
39696928 CAGGAAGACAAG
1 CAGGAAGACAAG
39696940 ATCTGCTATT
Statistics
Matches: 188, Mismatches: 72, Indels: 32
0.64 0.25 0.11
Matches are distributed among these distances:
40 4 0.02
41 1 0.01
42 2 0.01
43 47 0.25
44 80 0.43
45 46 0.24
46 2 0.01
47 1 0.01
48 5 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
CAGGAAGACAAGGCTGAGGTCTTCAATCTACTTCGCTGCCAACA
Found at i:39696981 original size:44 final size:44
Alignment explanation
Indices: 39696582--39697071 Score: 142
Period size: 44 Copynumber: 11.1 Consensus size: 44
39696572 AACATAGGTT
* *
39696582 GACAAGATCTGCTATTTTCAACCTACTCCACTACTGCCCAGGGA
1 GACAAGATCTGCTATTTTCAACTTACTCCACTACTGCCCAGGAA
*** * * * * ** *
39696626 GAC-A-ATGCTGAGGTCTTTGATC-TACTTCACTGCCAACACAGGAA
1 GACAAGAT-CTGCTAT-TTTCAACTTACTCCACT-ACTGCCCAGGAA
* *
39696670 GACAAGATCTGCTATTTTCAACCTACTCCACTACTGCCCAGGGA
1 GACAAGATCTGCTATTTTCAACTTACTCCACTACTGCCCAGGAA
* *** * * * * * ** *
39696714 GACAAG-GCTGAGGTCTTCGA-TCTACTTCGCTGCCAACACAGGAA
1 GACAAGATCTGCTATTTTCAACT-TACTCCACT-ACTGCCCAGGAA
** *
39696758 GACAAGATCTATTATTTTCAACCTACTCCACTACTGCCCAAGG-A
1 GACAAGATCTGCTATTTTCAACTTACTCCACTACTGCCC-AGGAA
* *** * * ** * ** *
39696802 GACAAG-GCTGAGGTCTTCAA-TCTACTTCGTTGCCAACACAGGAA
1 GACAAGATCTGCTATTTTCAACT-TACTCCACT-ACTGCCCAGGAA
*
39696846 GACAAGATCTGCTATTTTCAACTTACTCCACTACTGCCCAGGGA
1 GACAAGATCTGCTATTTTCAACTTACTCCACTACTGCCCAGGAA
* *** * * * * ** *
39696890 GACAAG-GCTGAGGTCTTCGA-TCTACTTCGCTACCAACACAGGAA
1 GACAAGATCTGCTATTTTCAACT-TACTCCACTA-CTGCCCAGGAA
* * *
39696934 GACAAGATCTGCTATTTTCAACTTGCTCCATTACTGCCCAGGGA
1 GACAAGATCTGCTATTTTCAACTTACTCCACTACTGCCCAGGAA
* *** * * * * * * *
39696978 GACAAG-GCTGAGGTCTTCGA-TCTACTTCGCTGC-CCACACAAGAA
1 GACAAGATCTGCTATTTTCAACT-TACTCCACTACTGC-C-CAGGAA
* * *
39697022 GACAAGATCTTCTATTTTCAACCTACTCCACTACTGCCCAGGGA
1 GACAAGATCTGCTATTTTCAACTTACTCCACTACTGCCCAGGAA
39697066 GACAAG
1 GACAAG
39697072 GCTGAGGTCT
Statistics
Matches: 289, Mismatches: 131, Indels: 52
0.61 0.28 0.11
Matches are distributed among these distances:
42 5 0.02
43 76 0.26
44 128 0.44
45 75 0.26
46 5 0.02
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (44 bp):
GACAAGATCTGCTATTTTCAACTTACTCCACTACTGCCCAGGAA
Found at i:39709587 original size:27 final size:28
Alignment explanation
Indices: 39709557--39709616 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
39709547 TATTTTTAAT
**
39709557 TTTTTGTAATTTTCT-AAAATTTTGTCA
1 TTTTTGTAATTTTCTGAAAATTTAATCA
*
39709584 TTTTTGTAATTTTTTGAAAATTTAATCA
1 TTTTTGTAATTTTCTGAAAATTTAATCA
39709612 TTTTT
1 TTTTT
39709617 ATTTTCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.62
Consensus pattern (28 bp):
TTTTTGTAATTTTCTGAAAATTTAATCA
Found at i:39710372 original size:18 final size:18
Alignment explanation
Indices: 39710336--39710370 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
39710326 TATTTTGAAA
39710336 ATATTTATAACAATTTTT
1 ATATTTATAACAATTTTT
*
39710354 ATATTTTTAA-AATTTTT
1 ATATTTATAACAATTTTT
39710371 TAAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTATAACAATTTTT
Found at i:39713614 original size:21 final size:21
Alignment explanation
Indices: 39713564--39713614 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
39713554 TAAAGACAAT
*
39713564 GAAAAAT-AAAGAAGAAAAAA
1 GAAAAATAAAAGAACAAAAAA
* * *
39713584 GAACATTAAAAGAACATAAAA
1 GAAAAATAAAAGAACAAAAAA
39713605 GAAAAATAAA
1 GAAAAATAAA
39713615 TTAAATTGCT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.75, C:0.04, G:0.12, T:0.10
Consensus pattern (21 bp):
GAAAAATAAAAGAACAAAAAA
Found at i:39715840 original size:32 final size:34
Alignment explanation
Indices: 39715770--39715846 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 34
39715760 AAATGAAAAT
*
39715770 ATAAAAAATATGTATATGTATATATATTTACAAC
1 ATAAAAAATATGTATATGTATATATATATACAAC
*
39715804 ATAAAAGAA-ATGTATATGTATATATCTATA-AA-
1 ATAAAA-AATATGTATATGTATATATATATACAAC
39715836 ATAAAAAATAT
1 ATAAAAAATAT
39715847 ATAAAAGTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
31 2 0.05
32 8 0.21
33 2 0.05
34 25 0.64
35 2 0.05
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (34 bp):
ATAAAAAATATGTATATGTATATATATATACAAC
Found at i:39715870 original size:28 final size:27
Alignment explanation
Indices: 39715839--39715892 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
39715829 CTATAAAATA
*
39715839 AAAAATATATAAAAGT-TAAAAAGATAAG
1 AAAAATATA-AAAAATATAAAAA-ATAAG
39715867 AAAAATATAAAAAATATAAAAAATAA
1 AAAAATATAAAAAATATAAAAAATAA
39715893 AACGTATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (27 bp):
AAAAATATAAAAAATATAAAAAATAAG
Found at i:39715881 original size:9 final size:9
Alignment explanation
Indices: 39715836--39715891 Score: 62
Period size: 9 Copynumber: 6.1 Consensus size: 9
39715826 TATCTATAAA
39715836 ATAAAAAAT
1 ATAAAAAAT
*
39715845 ATATAAAAGT
1 ATA-AAAAAT
39715855 -TAAAAAGAT
1 ATAAAAA-AT
39715864 A-AGAAAAAT
1 ATA-AAAAAT
39715873 ATAAAAAAT
1 ATAAAAAAT
39715882 ATAAAAAAT
1 ATAAAAAAT
39715891 A
1 A
39715892 AAACGTATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 4 0.10
9 26 0.65
10 10 0.25
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.21
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:39716699 original size:21 final size:20
Alignment explanation
Indices: 39716660--39716703 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
39716650 TTCACAAAAC
*
39716660 AAATGAAAAGAAAAAAGAAT
1 AAATAAAAAGAAAAAAGAAT
*
39716680 AAATAAAAATGAAAATAGAAT
1 AAATAAAAA-GAAAAAAGAAT
39716701 AAA
1 AAA
39716704 CGCGAATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (20 bp):
AAATAAAAAGAAAAAAGAAT
Found at i:39717756 original size:89 final size:89
Alignment explanation
Indices: 39717649--39718906 Score: 1925
Period size: 89 Copynumber: 14.1 Consensus size: 89
39717639 ACCAATACAT
* * * * *
39717649 GAAGACAAGATCTTTTATCTTTGATCTACCTCATGCCAATACATGAAGACAAGATATGCTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
39717714 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* *
39717738 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCT-ATTTTTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
*
39717802 CCGATCTACTTCGCCACCGGTATGG
66 -CGATCTACTTCGCCACCAGTATGG
* *
39717827 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
*
39717892 CGATCTACTTCGCCACCAATATGG
66 CGATCTACTTCGCCACCAGTATGG
* * *
39717916 GAAGACAAGATCTGTTATCTTCGATCTACTTCACGTCAGTACATGAAGACAAGATCTGCTTTTTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
*
39717981 CGATCTACTTCGCCACCAGTATAG
66 CGATCTACTTCGCCACCAGTATGG
* * *
39718005 GAAGACAAGATCTGGTATCTTTGATCTACCTT-ATGCCAATACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGTTATCTTTGATCTA-CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
39718069 TCGATCTACTTCGCCACCAGTATGG
65 TCGATCTACTTCGCCACCAGTATGG
* *
39718094 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCT-ATTTTTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* *
39718158 CCAATCTACTTCGCCACTAGTATGG
66 -CGATCTACTTCGCCACCAGTATGG
* *
39718183 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
*
39718248 CGATCTACTTCGCCACCAATATGG
66 CGATCTACTTCGCCACCAGTATGG
* * *
39718272 GAAGACAAGATCTGTTATCTTCGATCTACTTCACGTCAGTACATGAAGACAAGATCTGCTTTTTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
*
39718337 CGATCTACTTCGCCACCAGTATAG
66 CGATCTACTTCGCCACCAGTATGG
* * * *
39718361 GAAGACAAGATCTGGTATCTTTGATCTACCTCATGCCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
39718426 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* *
39718450 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCT-ATTTTTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* *
39718514 CCGATCTACTTGGCCACCGGTATGG
66 -CGATCTACTTCGCCACCAGTATGG
*
39718539 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGCTTT-TT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
*
39718603 CCGATCTACTTCGCCATCAGTATGG
66 -CGATCTACTTCGCCACCAGTATGG
* * * *
39718628 GAAGACAAGATCTGGTATTTTTGATCTACTTCATGCCAGTACATGAAGACAAGATCTACTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* *
39718693 CGATCTTACTTCGCCACTAGTATGA
66 CGATC-TACTTCGCCACCAGTATGG
* * ***
39718718 GAAGCCAAGATATGTTATCTTTGATCTACTTCACATTAGTACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* *
39718783 CGATCTATTTCGCCACCAGTATAG
66 CGATCTACTTCGCCACCAGTATGG
* *
39718807 GAATACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTT-TT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
39718871 CTGATCTACTTCGCCACCAGTATGG
66 C-GATCTACTTCGCCACCAGTATGG
39718896 GAAGACAAGAT
1 GAAGACAAGAT
39718907 ATTCTGCTAC
Statistics
Matches: 1059, Mismatches: 99, Indels: 22
0.90 0.08 0.02
Matches are distributed among these distances:
88 21 0.02
89 943 0.89
90 95 0.09
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (89 bp):
GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCGCCACCAGTATGG
Found at i:39720233 original size:8 final size:7
Alignment explanation
Indices: 39720189--39720230 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
39720179 TTAGCCTCTC
39720189 CATTTTT
1 CATTTTT
39720196 -ACTTTTT
1 CA-TTTTT
39720203 CATTTTT
1 CATTTTT
39720210 CA-TTTT
1 CATTTTT
39720216 CATCTTTT
1 CAT-TTTT
39720224 CATTTTT
1 CATTTTT
39720231 TCACATCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.23
7 16 0.52
8 8 0.26
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:39723141 original size:32 final size:31
Alignment explanation
Indices: 39723096--39723191 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
39723086 CTTAGATAAT
39723096 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
39723127 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
39723159 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
39723190 TT
1 TT
39723192 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:39723776 original size:30 final size:31
Alignment explanation
Indices: 39723740--39723847 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 31
39723730 AAATAAAAGC
* *
39723740 AAAAAAAAGAGTAAAAAG-TAAAAAGCGTAA
1 AAAAAAAAGAGTAAAAAGCAAAAAAGCGCAA
**
39723770 AAAAAAAA-ACAAAAAAGCAAAAAAGCGCAA
1 AAAAAAAAGAGTAAAAAGCAAAAAAGCGCAA
*
39723800 AAAAAGAGAGAGAGTAAAAAGCGCAAAAAAAAGAGCAA
1 AAAAA-A-A-AGAGTAAAAA--GC--AAAAAAGCGCAA
39723838 AAAAAAAAGA
1 AAAAAAAAGA
39723848 AGTTTCCTAC
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
29 7 0.11
30 23 0.37
31 1 0.02
32 1 0.02
33 1 0.02
34 6 0.10
35 3 0.05
36 3 0.05
37 1 0.02
38 16 0.26
ACGTcount: A:0.72, C:0.07, G:0.17, T:0.04
Consensus pattern (31 bp):
AAAAAAAAGAGTAAAAAGCAAAAAAGCGCAA
Found at i:39723778 original size:16 final size:16
Alignment explanation
Indices: 39723740--39723778 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
39723730 AAATAAAAGC
39723740 AAAAAAAAGAGTAAAA
1 AAAAAAAAGAGTAAAA
** *
39723756 AGTAAAAAGCGTAAAA
1 AAAAAAAAGAGTAAAA
39723772 AAAAAAA
1 AAAAAAA
39723779 CAAAAAAGCA
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.77, C:0.03, G:0.13, T:0.08
Consensus pattern (16 bp):
AAAAAAAAGAGTAAAA
Found at i:39726926 original size:32 final size:31
Alignment explanation
Indices: 39726881--39726976 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
39726871 CTTAGATAAT
39726881 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
*
39726912 TTTAAAGAGTTTTTATTAGGATTCAATTATTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
39726944 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
39726975 TT
1 TT
39726977 GTAATTTGCC
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 32 0.52
32 29 0.48
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:39727700 original size:19 final size:19
Alignment explanation
Indices: 39727660--39727701 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
39727650 GAGGTGTTTG
* *
39727660 ATGCATATGATGTAATGTA
1 ATGCAAATGATGAAATGTA
39727679 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGTA
39727698 ATGC
1 ATGC
39727702 GAAAAGAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (19 bp):
ATGCAAATGATGAAATGTA
Found at i:39729692 original size:32 final size:34
Alignment explanation
Indices: 39729622--39729698 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 34
39729612 AAATGAAAAT
*
39729622 ATAAAAAATATGTATATGTATATATATTTACAAC
1 ATAAAAAATATGTATATGTATATATATATACAAC
*
39729656 ATAAAAGAA-ATGTATATGTATATATCTATA-AA-
1 ATAAAA-AATATGTATATGTATATATATATACAAC
39729688 ATAAAAAATAT
1 ATAAAAAATAT
39729699 ATAAAAGTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
31 2 0.05
32 8 0.21
33 2 0.05
34 25 0.64
35 2 0.05
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (34 bp):
ATAAAAAATATGTATATGTATATATATATACAAC
Found at i:39729722 original size:28 final size:27
Alignment explanation
Indices: 39729691--39729744 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
39729681 CTATAAAATA
*
39729691 AAAAATATATAAAAGT-TAAAAAGATAAG
1 AAAAATATA-AAAAATATAAAAA-ATAAG
39729719 AAAAATATAAAAAATATAAAAAATAA
1 AAAAATATAAAAAATATAAAAAATAA
39729745 AACGTATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (27 bp):
AAAAATATAAAAAATATAAAAAATAAG
Found at i:39729733 original size:9 final size:9
Alignment explanation
Indices: 39729688--39729743 Score: 62
Period size: 9 Copynumber: 6.1 Consensus size: 9
39729678 TATCTATAAA
39729688 ATAAAAAAT
1 ATAAAAAAT
*
39729697 ATATAAAAGT
1 ATA-AAAAAT
39729707 -TAAAAAGAT
1 ATAAAAA-AT
39729716 A-AGAAAAAT
1 ATA-AAAAAT
39729725 ATAAAAAAT
1 ATAAAAAAT
39729734 ATAAAAAAT
1 ATAAAAAAT
39729743 A
1 A
39729744 AAACGTATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 4 0.10
9 26 0.65
10 10 0.25
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.21
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:39730550 original size:21 final size:20
Alignment explanation
Indices: 39730511--39730554 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
39730501 TTCACAAAAC
*
39730511 AAATGAAAAGAAAAAAGAAT
1 AAATAAAAAGAAAAAAGAAT
*
39730531 AAATAAAAATGAAAATAGAAT
1 AAATAAAAA-GAAAAAAGAAT
39730552 AAA
1 AAA
39730555 CGCGGTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (20 bp):
AAATAAAAAGAAAAAAGAAT
Found at i:39736388 original size:36 final size:36
Alignment explanation
Indices: 39736315--39736389 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 36
39736305 AATAGCATAA
* * * *
39736315 GAAGAAGAAATTCATACAAGTAATATATTATTAAAT
1 GAAGAAGAAATTCATACAAGGAAGACATTACTAAAT
* * *
39736351 GAAGGAGAAATTCATACAAGGAAGGCATTACTGAAT
1 GAAGAAGAAATTCATACAAGGAAGACATTACTAAAT
39736387 GAA
1 GAA
39736390 CAAAGTGTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.24
Consensus pattern (36 bp):
GAAGAAGAAATTCATACAAGGAAGACATTACTAAAT
Found at i:39751742 original size:107 final size:107
Alignment explanation
Indices: 39751582--39751776 Score: 286
Period size: 108 Copynumber: 1.8 Consensus size: 107
39751572 AATTCAAGAG
*
39751582 GATATTTAGCAATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGAGCATG-TTCCTCAAAT
1 GATATTTACCAATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGAGCATGTTTCCTCAAAT
39751646 TTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGGAAT
66 TTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGGAAT
* * * * * * *
39751688 GATATTTACCTATTTGTTTTAACGAGAAAAATCGACA-CCAGCACCTTAGGGCATGTTTTCTCGA
1 GATATTTACCAATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGAGCATGTTTCCTCAA
39751752 ATTTCCAAACGCAAAACATTGCCTT
64 ATTTCCAAACGCAAAACATTGCCTT
39751777 TATTATTTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
106 22 0.28
107 17 0.22
108 39 0.50
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (107 bp):
GATATTTACCAATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGAGCATGTTTCCTCAAAT
TTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGGAAT
Found at i:39752051 original size:4 final size:4
Alignment explanation
Indices: 39752042--39752067 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
39752032 AATATAATGG
39752042 ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT
39752068 GTATCAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:39753708 original size:33 final size:33
Alignment explanation
Indices: 39753666--39753734 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
39753656 TATTATACAA
39753666 AATATTAGAAGTCATAATAATAATAGTTTAGAG
1 AATATTAGAAGTCATAATAATAATAGTTTAGAG
*
39753699 AATATTAGAAGTCATAATTATAATAGTTTAGAG
1 AATATTAGAAGTCATAATAATAATAGTTTAGAG
39753732 AAT
1 AAT
39753735 TTGCAATTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.03, G:0.14, T:0.35
Consensus pattern (33 bp):
AATATTAGAAGTCATAATAATAATAGTTTAGAG
Found at i:39754414 original size:6 final size:6
Alignment explanation
Indices: 39754391--39754436 Score: 67
Period size: 6 Copynumber: 7.7 Consensus size: 6
39754381 GCATTTGATT
*
39754391 TTATAA TTAT-A TAAATAA TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA T-TATAA TTATAA TTATAA TTATAA TTATAA TTAT
39754437 TCGATTACGC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
5 2 0.06
6 32 0.89
7 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTATAA
Found at i:39765869 original size:24 final size:24
Alignment explanation
Indices: 39765854--39765905 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
39765844 AATCAAATTC
39765854 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
39765878 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
39765902 AAAT
1 AAAT
39765906 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:39769126 original size:24 final size:24
Alignment explanation
Indices: 39769110--39769161 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
39769100 AATCAAAGTC
39769110 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
39769134 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
39769158 AAAT
1 AAAT
39769162 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:39780079 original size:22 final size:22
Alignment explanation
Indices: 39780054--39780117 Score: 128
Period size: 22 Copynumber: 2.9 Consensus size: 22
39780044 AAAGATGATG
39780054 GGGAAAGGTTATGAAGCTTATA
1 GGGAAAGGTTATGAAGCTTATA
39780076 GGGAAAGGTTATGAAGCTTATA
1 GGGAAAGGTTATGAAGCTTATA
39780098 GGGAAAGGTTATGAAGCTTA
1 GGGAAAGGTTATGAAGCTTA
39780118 CTTAGCCTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.33, T:0.27
Consensus pattern (22 bp):
GGGAAAGGTTATGAAGCTTATA
Found at i:39795596 original size:20 final size:20
Alignment explanation
Indices: 39795571--39795610 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
39795561 GACTAAATTG
* * *
39795571 GAAAATGATAGAATTTTTCA
1 GAAAATAATAAAAATTTTCA
39795591 GAAAATAATAAAAATTTTCA
1 GAAAATAATAAAAATTTTCA
39795611 AAACTGTAGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.33
Consensus pattern (20 bp):
GAAAATAATAAAAATTTTCA
Found at i:39797085 original size:25 final size:25
Alignment explanation
Indices: 39797051--39797136 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 25
39797041 ACATATATGT
39797051 TCACACGAGCTATGAATCAGAATGC
1 TCACACGAGCTATGAATCAGAATGC
** ** **
39797076 TCACACGAGCTGTAAAAATGGGCCTGC
1 TCACACGAGC--TATGAATCAGAATGC
* *
39797103 TCACACGAGCTTTGAATCAAAATGC
1 TCACACGAGCTATGAATCAGAATGC
39797128 TCACACGAG
1 TCACACGAG
39797137 TTGTGGGTCG
Statistics
Matches: 45, Mismatches: 14, Indels: 4
0.71 0.22 0.06
Matches are distributed among these distances:
25 26 0.58
27 19 0.42
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.20
Consensus pattern (25 bp):
TCACACGAGCTATGAATCAGAATGC
Found at i:39808778 original size:30 final size:30
Alignment explanation
Indices: 39808717--39808778 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
39808707 TTATTTATAA
* *
39808717 TTAATTATATGTAAATAAAGTTATTAGTAT
1 TTAATTATATGTAAATAAAGTCATTACTAT
* *
39808747 TTAATTATAAT-TAAATTAAGTCGTTACTAT
1 TTAATTAT-ATGTAAATAAAGTCATTACTAT
39808777 TT
1 TT
39808779 TTTTATTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.48
Consensus pattern (30 bp):
TTAATTATATGTAAATAAAGTCATTACTAT
Found at i:39818275 original size:45 final size:44
Alignment explanation
Indices: 39818207--39818369 Score: 193
Period size: 45 Copynumber: 3.7 Consensus size: 44
39818197 CGTGTACTGA
39818207 GTATCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCACCG
1 GTATCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCACCG
* * *
39818251 GTTACCATTGATTATAAAGGTGGTTGCTATGTGCTGACTCCACCG
1 G-TATCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCACCG
* * ** *
39818296 GAAGTCATTAAAAATAAAGGTGGTTGCTATGTGTTGATTCCATCG
1 GTA-TCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCACCG
* * *
39818341 AATATAATTGATTATAAGGGTGG-TGCTAT
1 -GTATCATTGATTATAAAGGTGGTTGCTAT
39818370 ATGCTGATCC
Statistics
Matches: 98, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
44 8 0.08
45 89 0.91
46 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.36
Consensus pattern (44 bp):
GTATCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCACCG
Found at i:39818363 original size:90 final size:88
Alignment explanation
Indices: 39818219--39818381 Score: 245
Period size: 90 Copynumber: 1.8 Consensus size: 88
39818209 ATCATTGATT
** * *
39818219 ATAAAGGTGGTTGCTATGTGTTGATTCCACCGGTTACCATTGATTATAAAGGTGGTTGCTATGTG
1 ATAAAGGTGGTTGCTATGTGTTGATTCCACCGAATACAATTGATTATAAAGGTGG-TGCTATATG
39818284 CTGACTCCACCGGAAGTCATTAAAA
65 CTGA-TCCACCGGAAGTCATTAAAA
* * *
39818309 ATAAAGGTGGTTGCTATGTGTTGATTCCATCGAATATAATTGATTATAAGGGTGGTGCTATATGC
1 ATAAAGGTGGTTGCTATGTGTTGATTCCACCGAATACAATTGATTATAAAGGTGGTGCTATATGC
39818374 TGATCCAC
66 TGATCCAC
39818382 TGTGTAACGG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
88 5 0.08
89 12 0.18
90 49 0.74
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.34
Consensus pattern (88 bp):
ATAAAGGTGGTTGCTATGTGTTGATTCCACCGAATACAATTGATTATAAAGGTGGTGCTATATGC
TGATCCACCGGAAGTCATTAAAA
Found at i:39818736 original size:29 final size:29
Alignment explanation
Indices: 39818694--39818752 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
39818684 AAAAACAGAG
39818694 TAAGCAAAAGGGTTATATATTTTGAGATA
1 TAAGCAAAAGGGTTATATATTTTGAGATA
*
39818723 TAAGCACAAGGGTTATATATTTTGAGATA
1 TAAGCAAAAGGGTTATATATTTTGAGATA
39818752 T
1 T
39818753 TTGAATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (29 bp):
TAAGCAAAAGGGTTATATATTTTGAGATA
Found at i:39824641 original size:21 final size:20
Alignment explanation
Indices: 39824597--39824638 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
39824587 AAATCAAAGG
*
39824597 ATAAATAAGTAAATTAATAA
1 ATAAATAAGTAAATAAATAA
39824617 ATAAACTAAGTGAAATAAATAA
1 ATAAA-TAAGT-AAATAAATAA
39824639 TAACAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 5 0.26
22 9 0.47
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.26
Consensus pattern (20 bp):
ATAAATAAGTAAATAAATAA
Found at i:39827629 original size:50 final size:50
Alignment explanation
Indices: 39827524--39827630 Score: 151
Period size: 50 Copynumber: 2.1 Consensus size: 50
39827514 TTATTGAGGT
* * * *
39827524 TATGAAAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGTACCGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAA
* * *
39827574 GATGAGAGGTCCCCCGTAAGACTATGTCTGGGACATGGCATGGGCACCAA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAA
39827624 TATGAGA
1 TATGAGA
39827631 ATTCTCATAC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (50 bp):
TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAA
Found at i:39833811 original size:20 final size:20
Alignment explanation
Indices: 39833786--39833824 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
39833776 TGAGTTATTT
39833786 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
39833806 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
39833825 GAAAAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:39835283 original size:48 final size:48
Alignment explanation
Indices: 39835220--39835316 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
39835210 CACCATGTTG
*
39835220 AACTAGCTTTATTATGCATGTTTTAGGTATATTTTGAAGCTTGAAATT
1 AACTAGCTTTATTATGAATGTTTTAGGTATATTTTGAAGCTTGAAATT
39835268 AACTAGCTTTATTATGAATGTTTTAGGTATATTTTGAAGCTTGAAATT
1 AACTAGCTTTATTATGAATGTTTTAGGTATATTTTGAAGCTTGAAATT
39835316 A
1 A
39835317 TGTGCAAATG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.45
Consensus pattern (48 bp):
AACTAGCTTTATTATGAATGTTTTAGGTATATTTTGAAGCTTGAAATT
Found at i:39838183 original size:27 final size:27
Alignment explanation
Indices: 39838139--39838190 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
39838129 TTGTTTTTGG
**
39838139 TTTTTTTATTTTTTA-TTTTAAAGTAA
1 TTTTTTTATTTTCAATTTTTAAAGTAA
39838165 TTTTTTTATCTTTCAATTTTTAAAGT
1 TTTTTTTAT-TTTCAATTTTTAAAGT
39838191 GCTTCTAGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 4 0.18
28 9 0.41
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (27 bp):
TTTTTTTATTTTCAATTTTTAAAGTAA
Found at i:39838542 original size:30 final size:30
Alignment explanation
Indices: 39838474--39838563 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 30
39838464 GATTAAATCA
*
39838474 AAATTAAAGTTTCAAGTATATATTTGA-ACC
1 AAATTAAAGTTTCAAGTATATAATT-ACACC
* *
39838504 ACAATTAAAGTTTCACGTGTATAATTACACC
1 A-AATTAAAGTTTCAAGTATATAATTACACC
*
39838535 AAATTAAAATTTCATA-TATATAATTACAC
1 AAATTAAAGTTTCA-AGTATATAATTACAC
39838564 ATTAAACCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
30 26 0.51
31 25 0.49
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATATAATTACACC
Found at i:39841236 original size:29 final size:28
Alignment explanation
Indices: 39841171--39841239 Score: 131
Period size: 28 Copynumber: 2.5 Consensus size: 28
39841161 TTAATTCCGA
39841171 AGACG-AAAAATTTATGCAAATTGCTAT
1 AGACGAAAAAATTTATGCAAATTGCTAT
39841198 AGACGAAAAAATTTATGCAAATTGCTAT
1 AGACGAAAAAATTTATGCAAATTGCTAT
39841226 AGACGAAAAAATTT
1 AGACGAAAAAATTT
39841240 TATAATTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 5 0.12
28 36 0.88
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (28 bp):
AGACGAAAAAATTTATGCAAATTGCTAT
Found at i:39844369 original size:25 final size:24
Alignment explanation
Indices: 39844341--39844398 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
39844331 TATTATCAAG
* *
39844341 AATTTTATGAAATTATATATTATTA
1 AATTATATGAAATAATA-ATTATTA
*
39844366 AATTATATGTAATAATAATTATTTTA
1 AATTATATGAAATAATAATTA--TTA
39844392 AATTATA
1 AATTATA
39844399 CAAATTCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.14
25 14 0.50
26 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (24 bp):
AATTATATGAAATAATAATTATTA
Found at i:39844390 original size:88 final size:91
Alignment explanation
Indices: 39844219--39844423 Score: 317
Period size: 88 Copynumber: 2.3 Consensus size: 91
39844209 TTGATTTTAG
* *
39844219 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
39844284 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
39844311 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAA-T-TATAT-ATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
39844373 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
39844399 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
39844424 GTTATAATTA
Statistics
Matches: 106, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
88 60 0.57
89 5 0.05
90 1 0.01
91 24 0.23
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:39844465 original size:47 final size:49
Alignment explanation
Indices: 39844341--39844466 Score: 123
Period size: 47 Copynumber: 2.6 Consensus size: 49
39844331 TATTATCAAG
* *
39844341 AATTTTATGAAATTATATATTATTAAATTATATGTAATAATAATTATTTTA
1 AATTTTATCAAATCATATATT-TT-AATTATATGTAATAATAATTATTTTA
* *** * *
39844392 AATTATA-CAAATTCATATAAGATAATT-TAT-TAGTTATAATTATTTTA
1 AATTTTATCAAA-TCATATATTTTAATTATATGTAATAATAATTATTTTA
*
39844439 AATTTTATTAAATCATATATTTTAATTA
1 AATTTTATCAAATCATATATTTTAATTA
39844467 AAATATATTT
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
47 33 0.56
48 6 0.10
49 4 0.07
50 4 0.07
51 12 0.20
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (49 bp):
AATTTTATCAAATCATATATTTTAATTATATGTAATAATAATTATTTTA
Found at i:39844563 original size:120 final size:120
Alignment explanation
Indices: 39844439--39844971 Score: 987
Period size: 120 Copynumber: 4.4 Consensus size: 120
39844429 AATTATTTTA
* * * * *
39844439 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
39844503 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
39844559 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
39844624 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
39844679 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
39844744 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
39844799 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
39844864 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
39844919 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
39844972 TAAATATGAT
Statistics
Matches: 406, Mismatches: 6, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
120 404 1.00
121 2 0.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:39844599 original size:15 final size:15
Alignment explanation
Indices: 39844564--39844615 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
39844554 TTAAGAATTT
*
39844564 TATTAAATTAT-ATA
1 TATTTAATTATAATA
39844578 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
39844592 TATTTAATAATAAT-
1 TATTTAATTATAATA
39844606 TATGTTAATT
1 TAT-TTAATT
39844616 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:39844719 original size:15 final size:15
Alignment explanation
Indices: 39844684--39844735 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
39844674 TTAAGAATTT
*
39844684 TATTAAATTAT-ATA
1 TATTTAATTATAATA
39844698 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
39844712 TATTTAATAATAAT-
1 TATTTAATTATAATA
39844726 TATGTTAATT
1 TAT-TTAATT
39844736 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:39844839 original size:15 final size:15
Alignment explanation
Indices: 39844804--39844855 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
39844794 TTAAGAATTT
*
39844804 TATTAAATTAT-ATA
1 TATTTAATTATAATA
39844818 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
39844832 TATTTAATAATAAT-
1 TATTTAATTATAATA
39844846 TATGTTAATT
1 TAT-TTAATT
39844856 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:39844954 original size:16 final size:16
Alignment explanation
Indices: 39844933--39844974 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
39844923 TTATTAAATT
*
39844933 ATATATTTTAATTATA
1 ATATATTTTAATAATA
39844949 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
39844964 AT-TATGTTTAA
1 ATATAT-TTTAA
39844975 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:39844959 original size:15 final size:15
Alignment explanation
Indices: 39844924--39844965 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
39844914 TTAAGAATTT
*
39844924 TATTAAATTAT-ATA
1 TATTTAATTATAATA
39844938 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
39844952 TATTTAATAATAAT
1 TATTTAATTATAAT
39844966 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:39850033 original size:23 final size:23
Alignment explanation
Indices: 39850005--39850051 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
39849995 TAATATTGTT
39850005 AGATTTAATTATATAACTTTTTA
1 AGATTTAATTATATAACTTTTTA
39850028 AGATTTAATTATATAACTTTTTA
1 AGATTTAATTATATAACTTTTTA
39850051 A
1 A
39850052 AATTAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (23 bp):
AGATTTAATTATATAACTTTTTA
Found at i:39852251 original size:11 final size:11
Alignment explanation
Indices: 39852235--39852259 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39852225 GTGTATAAAT
39852235 TGTGAAATTGA
1 TGTGAAATTGA
39852246 TGTGAAATTGA
1 TGTGAAATTGA
39852257 TGT
1 TGT
39852260 AATAATAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (11 bp):
TGTGAAATTGA
Found at i:39855917 original size:34 final size:34
Alignment explanation
Indices: 39855874--39855942 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
39855864 TATAGGCAAA
39855874 ATACAAGAGTAATTGAACCCTAATAAAACTCTTT
1 ATACAAGAGTAATTGAACCCTAATAAAACTCTTT
39855908 ATACAAGAGTAATTGAACCCTAATAAAACTCTTT
1 ATACAAGAGTAATTGAACCCTAATAAAACTCTTT
39855942 A
1 A
39855943 AAATTATCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (34 bp):
ATACAAGAGTAATTGAACCCTAATAAAACTCTTT
Found at i:39857512 original size:43 final size:43
Alignment explanation
Indices: 39857464--39857667 Score: 184
Period size: 42 Copynumber: 4.8 Consensus size: 43
39857454 GCGTCACTAA
* * *
39857464 CTTTAGCGGCGCTTTTCTAAAAAACGCCGCTAAAGACCATGAT
1 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGAACATGAT
* * * * *
39857507 CTTTAGCGACGC-TTTCCCTACAAACACC-CTAAAGAGTCGT-A-
1 CTTTAGCGGCGCTTTTCTC-ACAAACGCCGCTAAAGA-ACATGAT
* * *
39857548 CTTTTAGCGGCGCTTTGCCCACAAACGCCGCTAAAGAACATGAC
1 C-TTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGAACATGAT
** *
39857592 CTTTAGCGGCGCTTCACCCACAAACGCCGCTAAA-AACATGAT
1 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGAACATGAT
* * * *
39857634 CTTTAGCGACACTTTTTTCATAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAA
39857668 AGTACGACTC
Statistics
Matches: 132, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 66 0.50
43 64 0.48
44 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGAACATGAT
Found at i:39857615 original size:85 final size:86
Alignment explanation
Indices: 39857465--39857625 Score: 218
Period size: 85 Copynumber: 1.9 Consensus size: 86
39857455 CGTCACTAAC
* * * * *
39857465 TTTAGCGGCGCTTTTCTAAAAAACGCCGCTAAAGACCATGATCTTTAGCGACGCTTTCCCTACAA
1 TTTAGCGGCGCTTTGCCAAAAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTCCCCACAA
39857530 ACACC-CTAAAGAGTCGTACT
66 ACACCGCTAAAGAGTCGTACT
* * *
39857550 TTTAGCGGCGCTTTGCCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGC-TTCACCCACA
1 TTTAGCGGCGCTTTGCCAAAAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTC-CCCACA
*
39857614 AACGCCGCTAAA
65 AACACCGCTAAA
39857626 AACATGATCT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
84 3 0.05
85 57 0.88
86 5 0.08
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (86 bp):
TTTAGCGGCGCTTTGCCAAAAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTCCCCACAA
ACACCGCTAAAGAGTCGTACT
Found at i:39861959 original size:14 final size:14
Alignment explanation
Indices: 39861926--39861952 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39861916 TTGTTGAAAT
39861926 ATCTTTCCCCCCTC
1 ATCTTTCCCCCCTC
39861940 ATCTTTCCCCCCT
1 ATCTTTCCCCCCT
39861953 TTTCTTTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.56, G:0.00, T:0.37
Consensus pattern (14 bp):
ATCTTTCCCCCCTC
Found at i:39862738 original size:22 final size:22
Alignment explanation
Indices: 39862690--39862740 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
39862680 ATCATAAAAT
*
39862690 ATAAACCCCTAACCCCTAAACT
1 ATAAACCCCTAACCCCTAAACC
*
39862712 TTAAACCCCTAACCCCTAAACC
1 ATAAACCCCTAACCCCTAAACC
39862734 ATAAACC
1 ATAAACC
39862741 TTAATTCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (22 bp):
ATAAACCCCTAACCCCTAAACC
Found at i:39863331 original size:41 final size:41
Alignment explanation
Indices: 39863256--39863507 Score: 301
Period size: 41 Copynumber: 6.1 Consensus size: 41
39863246 TAGATTATTT
* * ** *
39863256 TAAATCCCTGAGCATTAGCGGCGCTTAACAAAAAACGCCGC
1 TAAAGCCCTAAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
* *
39863297 TAAAGCCCTAAGCATTAGCGGCGC-TTCCATAAAAACGCCAC
1 TAAAGCCCTAAGCATTAGCGGCGCTTTCC-CAAAAACGCCGC
*
39863338 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
1 TAAAGCCCTAAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
* * *
39863379 TAAATCCC-AGTGCATTAGCGGCGCTTTCCCACAAACGCCGC
1 TAAAGCCCTA-AGCATTAGCGGCGCTTTCCCAAAAACGCCGC
* * *
39863420 TAAAGGCCTGAGCATTAGTGGCGCTTTCCCAAAAACGCCGC
1 TAAAGCCCTAAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
* **
39863461 TAAAGCCCTAATCATTAGCGGCGCGTTTGCAAAAAAACGCCGC
1 TAAAGCCCTAAGCATTAGCGGCGC-TTT-CCCAAAAACGCCGC
39863504 TAAA
1 TAAA
39863508 ACCCCGAAAT
Statistics
Matches: 180, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
40 2 0.01
41 155 0.86
42 7 0.04
43 16 0.09
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (41 bp):
TAAAGCCCTAAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
Found at i:39863398 original size:82 final size:83
Alignment explanation
Indices: 39863256--39863507 Score: 332
Period size: 82 Copynumber: 3.0 Consensus size: 83
39863246 TAGATTATTT
* ** * *
39863256 TAAATCCCTGAGCATTAGCGGCGCTTAACAAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTATGCATTAGCGGCGC
* *
39863321 -TTCCATAAAAACGCCAC
66 TTTCCAAAAAAACGCCGC
*
39863338 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAATCCC-AGTGCATTAGCGGCG
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTA-TGCATTAGCGGCG
* *
39863402 CTTTCC-CACAAACGCCGC
65 CTTTCCAAAAAAACGCCGC
* *
39863420 TAAAGGCCTGAGCATTAGTGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTAAT-CATTAGCGGCG
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCT-ATGCATTAGCGGCG
*
39863484 CGTTTGCAAAAAAACGCCGC
65 C-TTTCCAAAAAAACGCCGC
39863504 TAAA
1 TAAA
39863508 ACCCCGAAAT
Statistics
Matches: 149, Mismatches: 15, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
81 1 0.01
82 124 0.83
83 9 0.06
84 15 0.10
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (83 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTATGCATTAGCGGCGC
TTTCCAAAAAAACGCCGC
Found at i:39863477 original size:123 final size:125
Alignment explanation
Indices: 39863256--39863507 Score: 339
Period size: 123 Copynumber: 2.0 Consensus size: 125
39863246 TAGATTATTT
*
39863256 TAAATCCCTGAGCATTAGCGGCGCTTAACAAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGC
1 TAAATCCCAGAGCATTAGCGGCGCTTAACAAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGC
* * **
39863321 TTCCATAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGC-TTT-CCCAAAAACGCCGC
66 TTCCACAAAAACGCCACTAAAGCCCTAAGCATTAGCGGCGCGTTTGCAAAAAAACGCCGC
* ** * * * * *
39863379 TAAATCCCAGTGCATTAGCGGCGCTTTCCCACAAACGCCGCTAAAGGCCTGAGCATTAGTGGCGC
1 TAAATCCCAGAGCATTAGCGGCGCTTAACAAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGC
* *
39863444 TTTCC-CAAAAACGCCGCTAAAGCCCTAATCATTAGCGGCGCGTTTGCAAAAAAACGCCGC
66 -TTCCACAAAAACGCCACTAAAGCCCTAAGCATTAGCGGCGCGTTTGCAAAAAAACGCCGC
39863504 TAAA
1 TAAA
39863508 ACCCCGAAAT
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
123 88 0.79
124 7 0.06
125 16 0.14
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (125 bp):
TAAATCCCAGAGCATTAGCGGCGCTTAACAAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGC
TTCCACAAAAACGCCACTAAAGCCCTAAGCATTAGCGGCGCGTTTGCAAAAAAACGCCGC
Done.