Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 66 of 172
Found at i:18294914 original size:41 final size:41
Alignment explanation
Indices: 18294854--18294947 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
18294844 TTCGTTCCTT
18294854 TGATTCAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCC
1 TGATTCAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCC
*
18294895 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
1 TGATTCAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCC
18294936 TGATTCAGATCA
1 TGATTCAGATCA
18294948 AAAATTTCAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
TGATTCAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCC
Found at i:18306561 original size:31 final size:31
Alignment explanation
Indices: 18306526--18306591 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
18306516 AACCATTGGA
18306526 AACACAAATCACAATCAAGAACCAAAGCACT
1 AACACAAATCACAATCAAGAACCAAAGCACT
18306557 AACACAAATCACAATCAAGAACCAAAGCACT
1 AACACAAATCACAATCAAGAACCAAAGCACT
18306588 AACA
1 AACA
18306592 TTCAACATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.56, C:0.29, G:0.06, T:0.09
Consensus pattern (31 bp):
AACACAAATCACAATCAAGAACCAAAGCACT
Found at i:18313933 original size:15 final size:16
Alignment explanation
Indices: 18313909--18313952 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 16
18313899 TAGGCTCGGG
18313909 TTTAATTTTAAATTAT
1 TTTAATTTTAAATTAT
18313925 TTT-ATTTT-AATTAT
1 TTTAATTTTAAATTAT
18313939 TTTAATTTTAAATT
1 TTTAATTTTAAATT
18313953 GCTTTCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.35
15 10 0.38
16 7 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTAATTTTAAATTAT
Found at i:18315733 original size:28 final size:28
Alignment explanation
Indices: 18315693--18315749 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
18315683 CGAGAGATGG
*
18315693 TTTATCTATTGTATGGAAAGACAAGTGC
1 TTTATCTATTGTATGGAAAAACAAGTGC
18315721 TTTATCTATTGTATGGAAAAACAAGTGC
1 TTTATCTATTGTATGGAAAAACAAGTGC
18315749 T
1 T
18315750 CTATTAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (28 bp):
TTTATCTATTGTATGGAAAAACAAGTGC
Found at i:18319468 original size:138 final size:138
Alignment explanation
Indices: 18319220--18319780 Score: 908
Period size: 138 Copynumber: 4.1 Consensus size: 138
18319210 GAGAACATAG
* * * * *
18319220 ATATAATTAATATATGAATTTAATTCATACAAAATATTCATTGTATATGTTTCACAGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
*
18319285 AATATAAACAATTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
18319350 TGGAAAGA
131 TGGAAAGA
*
18319358 ATATAATTAATATATGAATTTGATTCATACGAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * *
18319423 AATATAAACAATTATATTAATTAATTTCGGTCAAAATGTAAAAGACATGGAAATTAGTATTCTTT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
18319488 TGGAAAGA
131 TGGAAAGA
* *
18319496 ATATAATTAATATATGAATTTGATTCATACGAAATATTAATTGCATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
*
18319561 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
* *
18319626 CGAAAAGA
131 TGGAAAGA
* * *
18319634 ATATAATTAATATATGAATTTGATTTATACAAAAATATTAATTGTATAGATTTTACTGAATTTAT
1 ATATAATTAATATATGAATTTGATTCATAC-AAAATATTAATTGTATATATTTTACCGAATTTAT
** *
18319699 TAATATAAA-AAGTTATATTAATTAATTTCAATCAAAATATAAAAGACATGGAAATTAATATTCT
65 TAATATAAACAA-TTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCT
18319763 TTTGGAAAGA
129 TTTGGAAAGA
18319773 ATATAATT
1 ATATAATT
18319781 CATTTTTCTA
Statistics
Matches: 393, Mismatches: 28, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
138 289 0.74
139 104 0.26
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
TGGAAAGA
Found at i:18319844 original size:75 final size:75
Alignment explanation
Indices: 18319756--18319903 Score: 262
Period size: 75 Copynumber: 2.0 Consensus size: 75
18319746 ATGGAAATTA
*
18319756 ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACGTTT-CATTTGCCTTCTCTATTAGTAAG
1 ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAAC-TTTCCATTTGCCTTCTCTATTAATAAG
18319820 GGAATAATCTT
65 GGAATAATCTT
*
18319831 ATATTCTTTTGGAAATAATATAATTCATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
1 ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
18319896 GAATAATC
66 GAATAATC
18319904 CTAGTTTTCT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
74 3 0.04
75 67 0.96
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.45
Consensus pattern (75 bp):
ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
GAATAATCTT
Found at i:18321035 original size:31 final size:31
Alignment explanation
Indices: 18320993--18321085 Score: 127
Period size: 31 Copynumber: 3.0 Consensus size: 31
18320983 CGACGGACTG
*
18320993 TATC-TGTGTTTACTGTCCCAACAGACTATC
1 TATCATGTGTTTACTGTCCCAGCAGACTATC
* *
18321023 TATCATGTGTTTACTGTCCCTGCGGGA-TATC
1 TATCATGTGTTTACTGTCCCAGC-AGACTATC
*
18321054 TATCATGTGTTTATTGTCCCAGCAGACTATC
1 TATCATGTGTTTACTGTCCCAGCAGACTATC
18321085 T
1 T
18321086 GTTCTATGGA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
30 6 0.11
31 46 0.85
32 2 0.04
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (31 bp):
TATCATGTGTTTACTGTCCCAGCAGACTATC
Found at i:18323324 original size:20 final size:20
Alignment explanation
Indices: 18323278--18323324 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
18323268 AGCTCGTTTC
*
18323278 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
18323298 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
18323318 CAGCTCA
1 CAGCTCA
18323325 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:18325980 original size:48 final size:47
Alignment explanation
Indices: 18325901--18326006 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
18325891 GAGTGTCATG
*
18325901 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
18325949 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
18325997 GAAAAAGAAA
1 GAAAAAGAAA
18326007 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:18327721 original size:20 final size:20
Alignment explanation
Indices: 18327675--18327721 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
18327665 AGCTCGTTTC
*
18327675 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
18327695 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
18327715 CAGCTCA
1 CAGCTCA
18327722 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:18330736 original size:16 final size:18
Alignment explanation
Indices: 18330710--18330742 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18330700 TTAAATTAAC
18330710 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
18330727 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
18330743 CCTAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:18334795 original size:32 final size:32
Alignment explanation
Indices: 18334754--18334818 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
18334744 TTTATGTAAA
*
18334754 AATAGACTCATTTAAATTTCATTTCATATCTT
1 AATAGACTCATTAAAATTTCATTTCATATCTT
18334786 AATAGACTCATTAAAATTTCATTTCATATCTT
1 AATAGACTCATTAAAATTTCATTTCATATCTT
18334818 A
1 A
18334819 TTCTCTCTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.15, G:0.03, T:0.45
Consensus pattern (32 bp):
AATAGACTCATTAAAATTTCATTTCATATCTT
Found at i:18336763 original size:19 final size:19
Alignment explanation
Indices: 18336741--18336783 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
18336731 TATATATATA
*
18336741 TATATTATATTTTATACC-T
1 TATATTAT-TTATATACCTT
18336760 TATATTATTTATATACCTT
1 TATATTATTTATATACCTT
18336779 TATAT
1 TATAT
18336784 ACATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATTTATATACCTT
Found at i:18338603 original size:52 final size:51
Alignment explanation
Indices: 18338546--18338643 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
18338536 AAAATAGGTT
18338546 TTTAGCGACG-TTTGGATAAAAAACGCCGCTATAGATCGAGCATTAGCGGTGC
1 TTTAGCGACGCTTT--ATAAAAAACGCCGCTATAGATCGAGCATTAGCGGTGC
** * *
18338598 TTTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGC
1 TTTAGCGACGCTTTATAAAAAACGCCGCTATAGATCGAGCATTAGC
18338644 TGCGCCTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
51 30 0.73
52 8 0.20
53 3 0.07
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (51 bp):
TTTAGCGACGCTTTATAAAAAACGCCGCTATAGATCGAGCATTAGCGGTGC
Found at i:18338721 original size:40 final size:39
Alignment explanation
Indices: 18338599--18338739 Score: 147
Period size: 40 Copynumber: 3.5 Consensus size: 39
18338589 TAGCGGTGCT
* *
18338599 TTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATCGAGCA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTATAGAT-TAGCA
* * * * *
18338639 TTAGCTGCGCCTCTTAAAAAACACCGCTATAGATTGAGCA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATT-AGCA
* * *
18338679 TTAGCGGCGCTTTTTGAAAAATGCCGCTATAGGTATACCA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTATAGAT-TAGCA
* *
18338719 TTAGCGGCGTTTTTTTAAAAA
1 TTAGCGGCGCTTTTTGAAAAA
18338740 TTAAGCACCA
Statistics
Matches: 82, Mismatches: 17, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
40 81 0.99
41 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (39 bp):
TTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATTAGCA
Found at i:18338833 original size:40 final size:40
Alignment explanation
Indices: 18338778--18338885 Score: 171
Period size: 40 Copynumber: 2.7 Consensus size: 40
18338768 AGCTTTAGTG
*
18338778 GCATTAGCGGCACTTCTTGAAAAACGCTGCTATAGATCGA
1 GCATTAGCGGCACTTCTTGAAAAACGCCGCTATAGATCGA
* * *
18338818 GCATTAGTGGCACTTCTTGAAAAATGCCGCTATAGATTGA
1 GCATTAGCGGCACTTCTTGAAAAACGCCGCTATAGATCGA
*
18338858 GCATTAGCGGCACTTTTTGAAAAACGCC
1 GCATTAGCGGCACTTCTTGAAAAACGCC
18338886 ACAAAAAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (40 bp):
GCATTAGCGGCACTTCTTGAAAAACGCCGCTATAGATCGA
Found at i:18339200 original size:7 final size:7
Alignment explanation
Indices: 18339179--18339229 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
18339169 TTAATTATCA
*
18339179 TTATAGT
1 TTATGGT
*
18339186 TTAGGGT
1 TTATGGT
18339193 TTATGGT
1 TTATGGT
18339200 TTA-GGT
1 TTATGGT
*
18339206 ATATGGT
1 TTATGGT
*
18339213 TTAGGGT
1 TTATGGT
*
18339220 TTAAGGT
1 TTATGGT
18339227 TTA
1 TTA
18339230 GGAGTTACTA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
6 5 0.14
7 31 0.86
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (7 bp):
TTATGGT
Found at i:18339201 original size:14 final size:14
Alignment explanation
Indices: 18339179--18339231 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
18339169 TTAATTATCA
*
18339179 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
18339193 TTATGGTTTA-GGT
1 TTATGGTTTAGGGT
*
18339206 ATATGGTTTAGGGT
1 TTATGGTTTAGGGT
*
18339220 TTAAGGTTTAGG
1 TTATGGTTTAGG
18339232 AGTTACTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
13 12 0.35
14 22 0.65
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:18339308 original size:21 final size:20
Alignment explanation
Indices: 18339283--18339335 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
18339273 AAGGTTTATT
18339283 GTTTAAGGGTT-GGGGTTTAA
1 GTTTAAGGGTTAGGGG-TTAA
* *
18339303 GATTTAGGGGTTAGTGGTTAA
1 G-TTTAAGGGTTAGGGGTTAA
18339324 GTGTTAAGGGTT
1 GT-TTAAGGGTT
18339336 TAGAGTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.07
21 22 0.81
22 3 0.11
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.40
Consensus pattern (20 bp):
GTTTAAGGGTTAGGGGTTAA
Found at i:18339780 original size:20 final size:19
Alignment explanation
Indices: 18339740--18339788 Score: 89
Period size: 19 Copynumber: 2.5 Consensus size: 19
18339730 AAATTATAAC
18339740 AAATAAAAATGAAATACAA
1 AAATAAAAATGAAATACAA
18339759 AAATAAAAATGAAATACAA
1 AAATAAAAATGAAATACAA
18339778 AAACTAAAAAT
1 AAA-TAAAAAT
18339789 TATAATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 22 0.76
20 7 0.24
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (19 bp):
AAATAAAAATGAAATACAA
Found at i:18342161 original size:14 final size:14
Alignment explanation
Indices: 18342142--18342168 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18342132 TCCTTGTTTA
18342142 TGATTTATACATAT
1 TGATTTATACATAT
18342156 TGATTTATACATA
1 TGATTTATACATA
18342169 GTGTGTACAT
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:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (14 bp):
TGATTTATACATAT
Found at i:18343787 original size:11 final size:11
Alignment explanation
Indices: 18343771--18343805 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
18343761 ACATTATTTT
18343771 ATATACTTATG
1 ATATACTTATG
18343782 ATATACTTATG
1 ATATACTTATG
18343793 ATATACTTATG
1 ATATACTTATG
18343804 AT
1 AT
18343806 CTTAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (11 bp):
ATATACTTATG
Found at i:18344186 original size:42 final size:43
Alignment explanation
Indices: 18344043--18344267 Score: 226
Period size: 43 Copynumber: 5.3 Consensus size: 43
18344033 GAATGGTACT
* * * *
18344043 TTTAGCAGCGTTTGTGAAAAAAAG-ACCGTTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTG-ATAAAAGCGCCGCTAAAGATCATGTTC
* * *** *
18344086 TTTAGCGGCGTTTGTAATAAAAGTGTTACTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
* *
18344129 TTTAGCGGCGTTTGTGATAAAAGCGCTGTTAAAGATCATG-TC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
* *
18344171 TTTAGCGGCGTTTGTGGGT-AAAGCACCGCTAAA-ACTCATGTTC
1 TTTAGCGGCGTTTGT-GATAAAAGCGCCGCTAAAGA-TCATGTTC
* *
18344214 TTTAGCGGCGTTT-TTATAAAAGTGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
* *
18344256 TATAGCGACGTT
1 TTTAGCGGCGTT
18344268 GTCTATAGCG
Statistics
Matches: 151, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
41 2 0.01
42 70 0.46
43 79 0.52
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
Found at i:18344210 original size:85 final size:85
Alignment explanation
Indices: 18344043--18344267 Score: 233
Period size: 85 Copynumber: 2.6 Consensus size: 85
18344033 GAATGGTACT
* *
18344043 TTTAGCAGCGTTTGTGAAAAAAAGAC-CGTTAAAGATCATGTTCTTTAGCGGCGTTTGTAATAAA
1 TTTAGCGGCGTTTGTG-ATAAAAG-CGCGTTAAAGATCATGTTCTTTAGCGGCGTTTGTAATAAA
**** **
18344107 AGTGTTACTAAAGGTCATGTTC
64 AGCACCACTAAAACTCATGTTC
**
18344129 TTTAGCGGCGTTTGTGATAAAAGCGCTGTTAAAGATCATG-TCTTTAGCGGCGTTTGTGGGT-AA
1 TTTAGCGGCGTTTGTGATAAAAGCGC-GTTAAAGATCATGTTCTTTAGCGGCGTTTGT-AATAAA
*
18344192 AGCACCGCTAAAACTCATGTTC
64 AGCACCACTAAAACTCATGTTC
* * * * *
18344214 TTTAGCGGCGTTT-TTATAAAAGTGCCGCTAAAGATCATGTTCTATAGCGACGTT
1 TTTAGCGGCGTTTGTGATAAAAGCG-CGTTAAAGATCATGTTCTTTAGCGGCGTT
18344268 GTCTATAGCG
Statistics
Matches: 118, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
84 22 0.19
85 67 0.57
86 29 0.25
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCGTTAAAGATCATGTTCTTTAGCGGCGTTTGTAATAAAAG
CACCACTAAAACTCATGTTC
Found at i:18357618 original size:40 final size:40
Alignment explanation
Indices: 18357520--18357782 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
18357510 TCCTCGTTCA
* * * * *
18357520 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
18357559 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
18357599 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
18357639 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
18357679 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
18357719 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
18357759 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
18357783 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:18370008 original size:41 final size:41
Alignment explanation
Indices: 18369960--18370152 Score: 216
Period size: 41 Copynumber: 4.7 Consensus size: 41
18369950 ACCGGACTGT
* *
18369960 AAACAAGGGCACATATGTGCAATTCTAGGGTACCAAAGTAC
1 AAACAAGGGCACGTATGTGCAATTCTAGGGTACCGAAGTAC
* **
18370001 AAGCAAGGGCACGTATGTGCAATTC-ATGGGTATTGAAGTAC
1 AAACAAGGGCACGTATGTGCAATTCTA-GGGTACCGAAGTAC
*
18370042 AAACAAGGGCACGTATGTGTAATT-TAGGAGTACCGAAGTAC
1 AAACAAGGGCACGTATGTGCAATTCTAGG-GTACCGAAGTAC
* *
18370083 AAAC-AGGGCCACGTATGTACAATTC-AGAGGTACTGAAGTAC
1 AAACAAGGG-CACGTATGTGCAATTCTAG-GGTACCGAAGTAC
* * *
18370124 AAACAGGGGCAAGTATGTGTAATT-TAGGG
1 AAACAAGGGCACGTATGTGCAATTCTAGGG
18370153 GTAGGGGTAT
Statistics
Matches: 128, Mismatches: 16, Indels: 17
0.80 0.10 0.11
Matches are distributed among these distances:
40 9 0.07
41 115 0.90
42 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.22
Consensus pattern (41 bp):
AAACAAGGGCACGTATGTGCAATTCTAGGGTACCGAAGTAC
Found at i:18370097 original size:82 final size:81
Alignment explanation
Indices: 18369960--18370152 Score: 264
Period size: 82 Copynumber: 2.4 Consensus size: 81
18369950 ACCGGACTGT
* * * *
18369960 AAACAAGGGCACATATGTGCAATTCTAGGGTACCAAAGTACAAGCAAGGGCACGTATGTGCAATT
1 AAACAAGGGCACGTATGTGTAATT-TAGGGTACCAAAGTACAAACAAGGGCACGTATGTACAATT
*
18370025 CATG-GGTATTGAAGTAC
65 CA-GAGGTACTGAAGTAC
*
18370042 AAACAAGGGCACGTATGTGTAATTTAGGAGTACCGAAGTACAAAC-AGGGCCACGTATGTACAAT
1 AAACAAGGGCACGTATGTGTAATTTAGG-GTACCAAAGTACAAACAAGGG-CACGTATGTACAAT
18370106 TCAGAGGTACTGAAGTAC
64 TCAGAGGTACTGAAGTAC
* *
18370124 AAACAGGGGCAAGTATGTGTAATTTAGGG
1 AAACAAGGGCACGTATGTGTAATTTAGGG
18370153 GTAGGGGTAT
Statistics
Matches: 100, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
81 10 0.10
82 90 0.90
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.22
Consensus pattern (81 bp):
AAACAAGGGCACGTATGTGTAATTTAGGGTACCAAAGTACAAACAAGGGCACGTATGTACAATTC
AGAGGTACTGAAGTAC
Found at i:18375149 original size:41 final size:41
Alignment explanation
Indices: 18375104--18375261 Score: 165
Period size: 41 Copynumber: 3.9 Consensus size: 41
18375094 AGCTGTAAAC
* * * *
18375104 AGGGGCACATATGTGTAATTCAGGGGTACTAAAGTATAGAT
1 AGGGGCACGTATGTGCAATTCAGGGGTACTAAAGTAAAAAT
*
18375145 AGGGGTACGTATGTGCAATTCAGGGGTAC-AGAAGTAAAAAT
1 AGGGGCACGTATGTGCAATTCAGGGGTACTA-AAGTAAAAAT
* * * * * * *
18375186 AGGGGCACGTATCTGTAATTCAAGGGTATTGAAGTACAAAC
1 AGGGGCACGTATGTGCAATTCAGGGGTACTAAAGTAAAAAT
* * *
18375227 GGGGGCACGCATGTGCAATTCAGGGGTACCAAAGT
1 AGGGGCACGTATGTGCAATTCAGGGGTACTAAAGT
18375262 GCAAACAAGG
Statistics
Matches: 94, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
40 1 0.01
41 93 0.99
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (41 bp):
AGGGGCACGTATGTGCAATTCAGGGGTACTAAAGTAAAAAT
Found at i:18375241 original size:82 final size:82
Alignment explanation
Indices: 18375104--18375255 Score: 205
Period size: 82 Copynumber: 1.9 Consensus size: 82
18375094 AGCTGTAAAC
* * * * * * *
18375104 AGGGGCACATATGTGTAATTCAGGGGTACTAAAGTATAGATAGGGGTACGTATGTGCAATTCAGG
1 AGGGGCACATATCTGTAATTCAAGGGTACTAAAGTACAAACAGGGGCACGCATGTGCAATTCAGG
18375169 GGTACAGAAGTAAAAAT
66 GGTACAGAAGTAAAAAT
* * * *
18375186 AGGGGCACGTATCTGTAATTCAAGGGTATTGAAGTACAAACGGGGGCACGCATGTGCAATTCAGG
1 AGGGGCACATATCTGTAATTCAAGGGTACTAAAGTACAAACAGGGGCACGCATGTGCAATTCAGG
18375251 GGTAC
66 GGTAC
18375256 CAAAGTGCAA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
82 59 1.00
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.23
Consensus pattern (82 bp):
AGGGGCACATATCTGTAATTCAAGGGTACTAAAGTACAAACAGGGGCACGCATGTGCAATTCAGG
GGTACAGAAGTAAAAAT
Found at i:18382570 original size:26 final size:26
Alignment explanation
Indices: 18382540--18382595 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
18382530 GAAAAGAGTG
*
18382540 TTAATTTAATCTTAAAGGTCCCATGT
1 TTAATTTAATCCTAAAGGTCCCATGT
18382566 TTAATTTAATCCTAAAGGTCCCATGT
1 TTAATTTAATCCTAAAGGTCCCATGT
18382592 TTAA
1 TTAA
18382596 AACCCCCACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (26 bp):
TTAATTTAATCCTAAAGGTCCCATGT
Found at i:18383426 original size:21 final size:22
Alignment explanation
Indices: 18383402--18383442 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
18383392 ACTTGTTCTT
*
18383402 AATAATAAATAAT-ATTTATTA
1 AATAATAAAAAATAATTTATTA
*
18383423 AATAGTAAAAAATAATTTAT
1 AATAATAAAAAATAATTTAT
18383443 ATTATAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
AATAATAAAAAATAATTTATTA
Found at i:18392248 original size:18 final size:19
Alignment explanation
Indices: 18392225--18392260 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
18392215 TCACATGTGA
18392225 AAGTGAAAAA-TGATTTTT
1 AAGTGAAAAAGTGATTTTT
18392243 AAGTGAAAAAGTGATTTT
1 AAGTGAAAAAGTGATTTT
18392261 GGTTATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.36
Consensus pattern (19 bp):
AAGTGAAAAAGTGATTTTT
Found at i:18398262 original size:16 final size:17
Alignment explanation
Indices: 18398223--18398264 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
18398213 GTGAAATTGA
*
18398223 GTGAAATATATGGATAT
1 GTGAAATATATGGAAAT
18398240 GTGAAATATAT-GAAAT
1 GTGAAATATATGGAAAT
*
18398256 TTGAAATAT
1 GTGAAATAT
18398265 GTTTATGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (17 bp):
GTGAAATATATGGAAAT
Found at i:18411045 original size:23 final size:23
Alignment explanation
Indices: 18411015--18411058 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
18411005 GCTTGGCACA
18411015 TGCCTAATCATCAAACAACAATG
1 TGCCTAATCATCAAACAACAATG
18411038 TGCCTAATCATCAAACAACAA
1 TGCCTAATCATCAAACAACAA
18411059 CACATGTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.27, G:0.07, T:0.20
Consensus pattern (23 bp):
TGCCTAATCATCAAACAACAATG
Found at i:18413841 original size:25 final size:26
Alignment explanation
Indices: 18413819--18413883 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
18413809 TATGTGGCAT
*
18413819 GTTATTTGGGAAGCCTTAATGGCGAA
1 GTTATTTGGAAAGCCTTAATGGCGAA
* **
18413845 GTTCTTTGGAAAGCCTTTGTGGC-AA
1 GTTATTTGGAAAGCCTTAATGGCGAA
* *
18413870 ATCATTTGGAAAGC
1 GTTATTTGGAAAGC
18413884 TTGTATTACG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 13 0.41
26 19 0.59
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (26 bp):
GTTATTTGGAAAGCCTTAATGGCGAA
Found at i:18414902 original size:33 final size:33
Alignment explanation
Indices: 18414855--18414921 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
18414845 TTGGTAAACT
*
18414855 AGATCAGGTATAGGGTGTTATAGAAAATGTGAA
1 AGATCAGGTATAGGGTGTTACAGAAAATGTGAA
*
18414888 AGATTAGGTATAGGGTGTTACAGAAAATGTGAA
1 AGATCAGGTATAGGGTGTTACAGAAAATGTGAA
18414921 A
1 A
18414922 TTTTAAACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.03, G:0.30, T:0.27
Consensus pattern (33 bp):
AGATCAGGTATAGGGTGTTACAGAAAATGTGAA
Found at i:18428768 original size:21 final size:21
Alignment explanation
Indices: 18428742--18428799 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
18428732 ATAACATATT
18428742 ATAAACTAAGAGAATTATAGA
1 ATAAACTAAGAGAATTATAGA
**
18428763 ATAAAC-AAGAGAGAAAATAGA
1 ATAAACTAAGAGA-ATTATAGA
*
18428784 A-AAA-TAAAAGAATTAT
1 ATAAACTAAGAGAATTAT
18428800 TCAACTTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 3 0.10
20 14 0.47
21 13 0.43
ACGTcount: A:0.64, C:0.03, G:0.14, T:0.19
Consensus pattern (21 bp):
ATAAACTAAGAGAATTATAGA
Found at i:18436061 original size:25 final size:26
Alignment explanation
Indices: 18436024--18436075 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 26
18436014 GGTGGTTTTT
* *
18436024 TTTTTTTTGTCTTTTTTGCATGT-TTC
1 TTTTTCTTGTC-TTTATGCATGTGTTC
18436050 TTTTTCTT-TCTTTATGCATGTGTTC
1 TTTTTCTTGTCTTTATGCATGTGTTC
18436075 T
1 T
18436076 ACGCCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 10 0.43
25 6 0.26
26 7 0.30
ACGTcount: A:0.06, C:0.13, G:0.12, T:0.69
Consensus pattern (26 bp):
TTTTTCTTGTCTTTATGCATGTGTTC
Found at i:18444329 original size:102 final size:102
Alignment explanation
Indices: 18444153--18444500 Score: 373
Period size: 102 Copynumber: 3.4 Consensus size: 102
18444143 TGAAATAGAT
* * * *
18444153 GGCTACTACGTGTATTGATAAATAATGGTCAAATGTGTAGTACTAAGTGAAAGCTACAATGTGTA
1 GGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTA
* * * *
18444218 CCGAGAAGCTTTGGTCACGTTTGTAGTACTGTGTGAA
66 CCCAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAA
* * * *
18444255 GGCTACTACGTGAATCGATAAATGATGGTGACATGTGTAGTACTAAGTGAAGGCTATTATGTGTA
1 GGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTA
*
18444320 CCCAAAAGCTTTGGTCACATGTGTAGTACTATGTGAA
66 CCCAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAA
* * * * * * * *
18444357 GGCTACTACGTGGACCG-TAAA-ACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGA
1 GGCTACTACGTGTATCGATAAATA-ATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGT
* * *
18444420 ACCGTAAAA-C-TTGATCACGTGTGTAGTACTATGTAAA
65 ACC-CAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAA
* ** * *
18444457 AGCTACTACGTGTATCGA-ATAATAAAAGTAACATGGGTAGTACT
1 GGCTACTACGTGTATCGATA-AATAATGGTCACATGTGTAGTACT
18444501 GTGTGAAAAA
Statistics
Matches: 203, Mismatches: 38, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
100 39 0.19
101 55 0.27
102 109 0.54
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (102 bp):
GGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTA
CCCAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAA
Found at i:18444401 original size:50 final size:50
Alignment explanation
Indices: 18444186--18444468 Score: 282
Period size: 51 Copynumber: 5.6 Consensus size: 50
18444176 AATGGTCAAA
* * * * * *
18444186 TGTGTAGTACTAAGTGAAAGCTACAATGTGTACCG-AGAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGGTCACG
* * * *** * *
18444237 TTTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTGACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGTCACG
* * * * * *
18444288 TGTGTAGTACTAAGTGAAGGCTATTATGTGTACC-CAAAAGCTTTGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGGTCACG
* *
18444339 TGTGTAGTACTATGTGAAGGCTACTACGTGGACCGTAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGTCACG
*
18444389 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGTCACG
* *
18444439 TGTGTAGTACTATGTAAAAGCTACTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
18444469 TATCGAATAA
Statistics
Matches: 192, Mismatches: 35, Indels: 11
0.81 0.15 0.05
Matches are distributed among these distances:
49 3 0.02
50 84 0.44
51 98 0.51
52 6 0.03
53 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGTCACG
Found at i:18448621 original size:19 final size:19
Alignment explanation
Indices: 18448599--18448638 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
18448589 ATTTGAAGTC
*
18448599 AAAAAATTTATTTTATTAT
1 AAAAAAATTATTTTATTAT
18448618 AAAAAAATTATTTTATTAT
1 AAAAAAATTATTTTATTAT
18448637 AA
1 AA
18448639 TTTTATTGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAAAAATTATTTTATTAT
Found at i:18449886 original size:25 final size:25
Alignment explanation
Indices: 18449858--18449940 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
18449848 CTGCTTGTGT
* *
18449858 GAGCATATTGATTTATAGCTCGTGA
1 GAGCATACTGATTTACAGCTCGTGA
* ** *
18449883 GAGCATACTGATCTACAGCTCAAGT
1 GAGCATACTGATTTACAGCTCGTGA
*
18449908 GAGCATACTGATTCACAGCTCGT-A
1 GAGCATACTGATTTACAGCTCGTGA
18449932 TGAGCATAC
1 -GAGCATAC
18449941 ATGTACAAGA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (25 bp):
GAGCATACTGATTTACAGCTCGTGA
Found at i:18456660 original size:50 final size:50
Alignment explanation
Indices: 18456602--18456943 Score: 321
Period size: 50 Copynumber: 6.9 Consensus size: 50
18456592 CATTTAGGTA
* * *
18456602 AAGAGGTCCCTTGTAAGACCATGTCTGGGACATGACGGTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * *
18456652 AAGAGGTCCCATATAAGATCATGTTTGGGACATGGCATTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
18456702 AAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * *
18456752 GAGAGGTCCCCCGTAACACCATGTCTGAGACATGGCGCTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * ** * * * *
18456802 GAGAGGTCCCCCGTAACACCATGTCTGGGACATAACATGGGCACCAATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * * * * *
18456852 GAGAACTCCCATGCAAGACCATATCTGGGATATGGCATTGGTAGTACGGGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA--CCGAGAT
* *
18456903 AACA--TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
18456944 TGTTATTATC
Statistics
Matches: 242, Mismatches: 48, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
49 32 0.13
50 206 0.85
51 2 0.01
52 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:18460820 original size:12 final size:12
Alignment explanation
Indices: 18460805--18460830 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18460795 TGCAGTGAAA
18460805 TAGACCATTGGT
1 TAGACCATTGGT
18460817 TAGACCATTGGT
1 TAGACCATTGGT
18460829 TA
1 TA
18460831 ATTAGACCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (12 bp):
TAGACCATTGGT
Found at i:18460837 original size:16 final size:16
Alignment explanation
Indices: 18460816--18460846 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18460806 AGACCATTGG
18460816 TTAGACCATTGGTTAA
1 TTAGACCATTGGTTAA
18460832 TTAGACCATTGGTTA
1 TTAGACCATTGGTTA
18460847 TGTTGGTAGA
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:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (16 bp):
TTAGACCATTGGTTAA
Found at i:18461856 original size:50 final size:49
Alignment explanation
Indices: 18461781--18462022 Score: 254
Period size: 50 Copynumber: 4.9 Consensus size: 49
18461771 CATTTAGGTA
*
18461781 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGATAT
*
18461831 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGATAT
* ** * * *
18461881 GAGAGGTCCCCCGTAACACCATGTCTGGGACATGGCATGGGCACAAATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC-GATAT
* ** * * * * *
18461931 GAGAACTCCCATGTAAGACCATATCTAGGATATGACATTGGCA-G-TAC
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGATAT
** *
18461978 AAGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AAG--AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
18462023 TGTTATTATC
Statistics
Matches: 159, Mismatches: 30, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
47 4 0.03
49 34 0.21
50 121 0.76
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.21
Consensus pattern (49 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGATAT
Found at i:18466465 original size:27 final size:27
Alignment explanation
Indices: 18466424--18466478 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
18466414 TCCCAAACAC
*
18466424 TAGACTCAATCTATTCAGAATATTCTT
1 TAGACTCAATATATTCAGAATATTCTT
18466451 TAGACTCAATATATTCAGAATATTCTT
1 TAGACTCAATATATTCAGAATATTCTT
18466478 T
1 T
18466479 GAAAATAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (27 bp):
TAGACTCAATATATTCAGAATATTCTT
Found at i:18467929 original size:46 final size:43
Alignment explanation
Indices: 18467856--18467954 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 43
18467846 TACTATGTGA
*
18467856 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
* *
18467899 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
18467945 ACCGTGTATC
1 ACCG-GTATC
18467955 TGTTATTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.10
44 11 0.23
45 2 0.04
46 27 0.56
47 3 0.06
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:18470753 original size:71 final size:71
Alignment explanation
Indices: 18470635--18470848 Score: 279
Period size: 71 Copynumber: 3.0 Consensus size: 71
18470625 CCAAGTTGGA
* * * *
18470635 GAGAGATAAGGCTCTCAGCTGTGATCTTAGGGCTCGTAGGTTCAATACCGCAGCCCCCAAAAATA
1 GAGAGCTAAGGCTCCCAGCTATGATCTTAAGGCTCGTAGGTTCAATACCGCAGCCCCCAAAAATA
18470700 GTTAGT
66 GTTAGT
* * * *
18470706 GAGAGCTAAGGCTCCCAGCTATGATCTTAAGGCTTC-TAGGTTTAATACCACAACCCCTAAAAAT
1 GAGAGCTAAGGCTCCCAGCTATGATCTTAAGGC-TCGTAGGTTCAATACCGCAGCCCCCAAAAAT
*
18470770 AGTTAGC
65 AGTTAGT
* * * *
18470777 GAGAGCTAAGGCTCCCAACTATGATCTTAAGGCTCGCAAGTTCAATACCGCAG-CCTCAAAAATA
1 GAGAGCTAAGGCTCCCAGCTATGATCTTAAGGCTCGTAGGTTCAATACCGCAGCCCCCAAAAATA
*
18470841 GTTTGT
66 GTTAGT
18470847 GA
1 GA
18470849 TACCCCAAAC
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
70 17 0.14
71 103 0.84
72 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (71 bp):
GAGAGCTAAGGCTCCCAGCTATGATCTTAAGGCTCGTAGGTTCAATACCGCAGCCCCCAAAAATA
GTTAGT
Found at i:18481627 original size:51 final size:51
Alignment explanation
Indices: 18481560--18481757 Score: 195
Period size: 51 Copynumber: 3.9 Consensus size: 51
18481550 CAATGGTACT
* * * *
18481560 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATTTTCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCCATTAT-ATC
* * * ***
18481611 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCCATTATATC
** * * * * *
18481662 CGGTAGGCATAGTAGCTTGCACATAGTATTACACATGCGACCCATTAT-TC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCCATTATATC
* *
18481712 CGGTACACGTAGTAGCCTGCACATAGTACCACACACATGA-CCATTA
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCCATTA
18481758 CTTTCACTTT
Statistics
Matches: 116, Mismatches: 30, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
49 6 0.05
50 33 0.28
51 74 0.64
52 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (51 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCCATTATATC
Found at i:18481775 original size:101 final size:99
Alignment explanation
Indices: 18481566--18481751 Score: 257
Period size: 101 Copynumber: 1.8 Consensus size: 99
18481556 TACTCGGTTC
* *
18481566 ACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCATTAT-ATCCGATACACGTAGTAGCCTGC
* * *
18481631 ACATAGTACTACACACGTGATCGAAGCTATCCGGT
65 ACATAGTACCACACACATGATCCAAGCTATCCGGT
* * *
18481666 AGGCATAGTAGCTTGCACATAGTATTACACATGCGACCCATTAT-TCCGGTACACGTAGTAGCCT
1 A--CATAGTAGCCTGCACATAGTACTACACATGCGA-CCATTATATCCGATACACGTAGTAGCCT
18481730 GCACATAGTACCACACACATGA
63 GCACATAGTACCACACACATGA
18481752 CCATTACTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
100 1 0.01
101 39 0.51
102 30 0.39
103 6 0.08
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (99 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCGACCATTATATCCGATACACGTAGTAGCCTGCA
CATAGTACCACACACATGATCCAAGCTATCCGGT
Found at i:18489622 original size:22 final size:21
Alignment explanation
Indices: 18489580--18489622 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
18489570 TATTATTTTA
*
18489580 ATTTAATTATATTTTTAGGTT
1 ATTTAATTATATTATTAGGTT
* *
18489601 ATTTTATTATTATTATTCGGTT
1 ATTTAATTA-TATTATTAGGTT
18489623 TTGGGTTGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (21 bp):
ATTTAATTATATTATTAGGTT
Found at i:18498843 original size:50 final size:50
Alignment explanation
Indices: 18498774--18498917 Score: 198
Period size: 50 Copynumber: 2.9 Consensus size: 50
18498764 TAATAACATA
* **
18498774 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * ** *
18498824 CCCATGCCATGTCCAAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* *
18498874 CCAATGCCATGTCCCAGGCATGGTCTTACATGGGACCTTTCATA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
18498918 ACCTCAATAA
Statistics
Matches: 79, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:18503402 original size:50 final size:50
Alignment explanation
Indices: 18503304--18503492 Score: 191
Period size: 50 Copynumber: 3.7 Consensus size: 50
18503294 ATGAGATCCT
* **
18503304 ATGTAAGACCATGTCTGGGACAGGGCATTGGCATTATTGAGCTTATGAGAGGTTCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGAG---ATGAGAGGTTCC
* *
18503360 ATGTAAGACCATGCCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTTCC
** * * * **
18503410 CCGTAAGACCATGTCTTGGACATGGCATGGGCACCGATATGAGA-ACTCTC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTTC-C
*
18503460 ATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA
18503493 TGTTATTATT
Statistics
Matches: 113, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
49 1 0.01
50 78 0.69
53 4 0.04
56 30 0.27
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (50 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTTCC
Found at i:18509656 original size:22 final size:22
Alignment explanation
Indices: 18509631--18509676 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
18509621 TTTAACACAT
* *
18509631 AAACATTCAATTATATTTGCAC
1 AAACAATCAATTATATTGGCAC
18509653 AAACAATCAATTATATTGGCAC
1 AAACAATCAATTATATTGGCAC
18509675 AA
1 AA
18509677 TATATCCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (22 bp):
AAACAATCAATTATATTGGCAC
Found at i:18521026 original size:29 final size:29
Alignment explanation
Indices: 18521001--18521121 Score: 147
Period size: 29 Copynumber: 4.2 Consensus size: 29
18520991 ACCATCCCAA
18521001 TTCATATTCGATAGTCAAAGCTATCCCTT
1 TTCATATTCGATAGTCAAAGCTATCCCTT
* ** *
18521030 TTCATAGTT-GATGGTCGTCA-CCATCCCTT
1 TTCATA-TTCGATAGTC-AAAGCTATCCCTT
* *
18521059 TTCATAATCGATAGCCAAAGCTATCCCTT
1 TTCATATTCGATAGTCAAAGCTATCCCTT
*
18521088 TTCATATTCAATAGTCAAAGCTATCCCTT
1 TTCATATTCGATAGTCAAAGCTATCCCTT
18521117 TTCAT
1 TTCAT
18521122 TATCTGAGGA
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
28 2 0.03
29 70 0.93
30 3 0.04
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (29 bp):
TTCATATTCGATAGTCAAAGCTATCCCTT
Found at i:18524581 original size:51 final size:48
Alignment explanation
Indices: 18524505--18524604 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 48
18524495 ACCTTGATAT
* *
18524505 ACATTATGTTTAGAACTAATGACCAATTTTGGTTGTTGTTTATGTAATTTA
1 ACATTATGCTTAGAACTAATGACCAATTTT-G--GTTATTTATGTAATTTA
*
18524556 ACATTATGCTTGGAACTAATGACCAATTTTGGTTATTTATGTAATTTA
1 ACATTATGCTTAGAACTAATGACCAATTTTGGTTATTTATGTAATTTA
18524604 A
1 A
18524605 TTTAACTTCG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
48 17 0.37
50 1 0.02
51 28 0.61
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (48 bp):
ACATTATGCTTAGAACTAATGACCAATTTTGGTTATTTATGTAATTTA
Found at i:18525734 original size:17 final size:17
Alignment explanation
Indices: 18525697--18525787 Score: 50
Period size: 17 Copynumber: 5.5 Consensus size: 17
18525687 AAACTATTAA
** *
18525697 AATAATATTATTTTTAG
1 AATAATATTATTAATAT
18525714 AATAATATTATTAATAT
1 AATAATATTATTAATAT
* * *
18525731 AATATTAATATAATAATCT
1 AATAAT-AT-TATTAATAT
18525750 AAT-ATATTA-TAA-AT
1 AATAATATTATTAATAT
*
18525764 AA-AATA-TATAAAT-T
1 AATAATATTATTAATAT
18525778 AATTAATATT
1 AA-TAATATT
18525788 CTAACATCTA
Statistics
Matches: 57, Mismatches: 9, Indels: 16
0.70 0.11 0.20
Matches are distributed among these distances:
13 2 0.04
14 11 0.19
15 3 0.05
16 6 0.11
17 22 0.39
18 3 0.05
19 10 0.18
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (17 bp):
AATAATATTATTAATAT
Found at i:18525738 original size:11 final size:11
Alignment explanation
Indices: 18525722--18525787 Score: 54
Period size: 9 Copynumber: 6.4 Consensus size: 11
18525712 AGAATAATAT
18525722 TATTAATATAA
1 TATTAATATAA
18525733 TATTAATATAA
1 TATTAATATAA
*
18525744 TAATCTAATATAT
1 T-AT-TAATATAA
18525757 TA-TAA-ATAA
1 TATTAATATAA
*
18525766 -AAT-ATATAA
1 TATTAATATAA
18525775 -ATTAAT-TAA
1 TATTAATATAA
18525784 TATT
1 TATT
18525788 CTAACATCTA
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
8 2 0.04
9 13 0.28
10 8 0.17
11 12 0.26
12 3 0.07
13 8 0.17
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (11 bp):
TATTAATATAA
Found at i:18526800 original size:23 final size:23
Alignment explanation
Indices: 18526774--18526819 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
18526764 ATTTTGTGAG
18526774 GCATTTGTTTCCAAAATTAATTT
1 GCATTTGTTTCCAAAATTAATTT
18526797 GCATTTGTTTCCAAAATTAATTT
1 GCATTTGTTTCCAAAATTAATTT
18526820 ATCTGCTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (23 bp):
GCATTTGTTTCCAAAATTAATTT
Found at i:18527761 original size:41 final size:41
Alignment explanation
Indices: 18527716--18527799 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 41
18527706 TTTATTGAAA
* *
18527716 ATTTTTCAATTTAATATTACAATATCTAAAG-CTATTTTGCC
1 ATTTTTCAATTTAATACTACAATAT-TAAAGACTATTTTACC
*
18527757 ATTTTTCAATTTAATACTACAATATTTAAGACTATTTTACC
1 ATTTTTCAATTTAATACTACAATATTAAAGACTATTTTACC
18527798 AT
1 AT
18527800 AATTTTAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
40 4 0.10
41 35 0.90
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (41 bp):
ATTTTTCAATTTAATACTACAATATTAAAGACTATTTTACC
Found at i:18528560 original size:100 final size:101
Alignment explanation
Indices: 18528438--18528635 Score: 346
Period size: 100 Copynumber: 2.0 Consensus size: 101
18528428 CAAAAATTAC
*
18528438 AGTTTAGCGCCTCTGAATAAGGAAATCTGAGTTCTACTCAAAACCC-ATTATTGCCATAATAACC
1 AGTTTAGCACCTCTGAATAAGGAAATCTGAGTTCTACTCAAAACCCGA-TATTGCCATAATAACC
18528502 ACTATAACCGATACACAATGAAC-AACATATCTGGAT
65 ACTATAACCGATACACAATGAACAAACATATCTGGAT
*
18528538 AGTTTAGCACCTCTGAATAAGGAAATCTGAGTTCTACTCAAAACCCGATATTGCCATAGTAACCA
1 AGTTTAGCACCTCTGAATAAGGAAATCTGAGTTCTACTCAAAACCCGATATTGCCATAATAACCA
*
18528603 CTATAACTGATACACAATGAACAAACATATCTG
66 CTATAACCGATACACAATGAACAAACATATCTG
18528636 AATACTTTCA
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
100 82 0.88
101 11 0.12
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (101 bp):
AGTTTAGCACCTCTGAATAAGGAAATCTGAGTTCTACTCAAAACCCGATATTGCCATAATAACCA
CTATAACCGATACACAATGAACAAACATATCTGGAT
Found at i:18533901 original size:35 final size:35
Alignment explanation
Indices: 18533855--18533953 Score: 162
Period size: 35 Copynumber: 2.8 Consensus size: 35
18533845 GTTTGGCGTG
18533855 TTTCGGTTGGACTAGCTCTTATGAGCATTGACCTA
1 TTTCGGTTGGACTAGCTCTTATGAGCATTGACCTA
* * *
18533890 TTTCGGTTGGACTAGCTCTTATGAGCATTGGCGTG
1 TTTCGGTTGGACTAGCTCTTATGAGCATTGACCTA
*
18533925 TTTCGGTTGGACTAGCTCTTGTGAGCATT
1 TTTCGGTTGGACTAGCTCTTATGAGCATT
18533954 TGATGTGTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 60 1.00
ACGTcount: A:0.16, C:0.18, G:0.27, T:0.38
Consensus pattern (35 bp):
TTTCGGTTGGACTAGCTCTTATGAGCATTGACCTA
Found at i:18537627 original size:33 final size:34
Alignment explanation
Indices: 18537572--18537637 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
18537562 GTAGTCATGC
* *
18537572 AGTATCAGTCTGGGCCTGAGCCCTATACAGTAAT
1 AGTATCAGTCTGGGCCTGAGCCCAAAACAGTAAT
* *
18537606 AGTA-CAGTGTGGGCCTTAGCCCAAAACAGTAA
1 AGTATCAGTCTGGGCCTGAGCCCAAAACAGTAA
18537638 CAATGTGGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (34 bp):
AGTATCAGTCTGGGCCTGAGCCCAAAACAGTAAT
Found at i:18537645 original size:28 final size:28
Alignment explanation
Indices: 18537611--18537734 Score: 178
Period size: 28 Copynumber: 4.5 Consensus size: 28
18537601 GTAATAGTAC
* *
18537611 AGTGTGGGCCTTAGCCCAAAACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
* * *
18537639 AATGT-GGCCTTAACCCAATACAATAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
* *
18537666 AGTGTGGGACTTAGCCCAATGCAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
18537694 AGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
18537722 AGTGTGGGCCTTA
1 AGTGTGGGCCTTA
18537735 TATACCAATG
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 22 0.27
28 61 0.73
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAT
Found at i:18538608 original size:40 final size:40
Alignment explanation
Indices: 18538558--18538758 Score: 267
Period size: 40 Copynumber: 5.0 Consensus size: 40
18538548 AATTATTGAA
* *** *
18538558 TGTTTGCACATTTGTGCCCCTGTTCGTACTTTAATACACC
1 TGTTTGCACATTCGTGCCCCTGTTCGTACTTCGGTACCCC
* *
18538598 TGTTTACACATTCGTGCCCCTGTTCGTACTCCGGTACCCC
1 TGTTTGCACATTCGTGCCCCTGTTCGTACTTCGGTACCCC
* * * *
18538638 TGTTTGCACATTTGTGCCCCTGTTTGTACTTTGGTACCCT
1 TGTTTGCACATTCGTGCCCCTGTTCGTACTTCGGTACCCC
* *
18538678 TATTTGCACATACGTGCCCCTGTTCGTACTTCGGTACCCC
1 TGTTTGCACATTCGTGCCCCTGTTCGTACTTCGGTACCCC
* *
18538718 TGTTTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGTTTGCACATTCGTGCCCCTGTTCGTACTTCGGTACCCC
18538758 T
1 T
18538759 AAAATCTAAT
Statistics
Matches: 140, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.13, C:0.31, G:0.18, T:0.37
Consensus pattern (40 bp):
TGTTTGCACATTCGTGCCCCTGTTCGTACTTCGGTACCCC
Found at i:18538619 original size:20 final size:20
Alignment explanation
Indices: 18538558--18538743 Score: 115
Period size: 20 Copynumber: 9.3 Consensus size: 20
18538548 AATTATTGAA
*
18538558 TGTTTGCACATTTGTGCCCC
1 TGTTTGCACATTCGTGCCCC
* * * ** * *
18538578 TGTTCGTACTTTAATACACC
1 TGTTTGCACATTCGTGCCCC
*
18538598 TGTTTACACATTCGTGCCCC
1 TGTTTGCACATTCGTGCCCC
* * * *
18538618 TGTTCGTAC-TCCGGTACCCC
1 TGTTTGCACATTC-GTGCCCC
*
18538638 TGTTTGCACATTTGTGCCCC
1 TGTTTGCACATTCGTGCCCC
* * * * *
18538658 TGTTTGTACTTTGGTACCCT
1 TGTTTGCACATTCGTGCCCC
* *
18538678 TATTTGCACATACGTGCCCC
1 TGTTTGCACATTCGTGCCCC
* * *
18538698 TGTTCGTAC-TTCGGTACCCC
1 TGTTTGCACATTC-GTGCCCC
*
18538718 TGTTTGCACATACGTGCCCC
1 TGTTTGCACATTCGTGCCCC
18538738 TGTTTG
1 TGTTTG
18538744 TACTTCGGTA
Statistics
Matches: 116, Mismatches: 46, Indels: 8
0.68 0.27 0.05
Matches are distributed among these distances:
19 4 0.03
20 109 0.94
21 3 0.03
ACGTcount: A:0.13, C:0.31, G:0.18, T:0.38
Consensus pattern (20 bp):
TGTTTGCACATTCGTGCCCC
Found at i:18538757 original size:20 final size:20
Alignment explanation
Indices: 18538614--18538758 Score: 107
Period size: 20 Copynumber: 7.2 Consensus size: 20
18538604 CACATTCGTG
* *
18538614 CCCCTGTTCGTACTCCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * *
18538634 CCCCTGTTTGCACATT-TGTG
1 CCCCTGTTTGTAC-TTCGGTA
*
18538654 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTCGGTA
* * * * *
18538674 CCCTTATTTGCACATAC-GTG
1 CCCCTGTTTGTAC-TTCGGTA
*
18538694 CCCCTGTTCGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * *
18538714 CCCCTGTTTGCACATAC-GTG
1 CCCCTGTTTGTAC-TTCGGTA
18538734 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
18538754 CCCCT
1 CCCCT
18538759 AAAATCTAAT
Statistics
Matches: 92, Mismatches: 27, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
19 6 0.07
20 82 0.89
21 4 0.04
ACGTcount: A:0.12, C:0.34, G:0.19, T:0.36
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:18546631 original size:11 final size:11
Alignment explanation
Indices: 18546594--18546631 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
18546584 TCCTTCATTC
18546594 ATCATCCCTCA
1 ATCATCCCTCA
*
18546605 AGCATCCCTCA
1 ATCATCCCTCA
18546616 ATCATCCCTCA
1 ATCATCCCTCA
*
18546627 TTCAT
1 ATCAT
18546632 TCTCATCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.42, G:0.03, T:0.29
Consensus pattern (11 bp):
ATCATCCCTCA
Found at i:18558853 original size:27 final size:27
Alignment explanation
Indices: 18558813--18558868 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
18558803 CAGATCAGTA
* *
18558813 ACAGAACAATGTGGGATTTAGCCCAAT
1 ACAGAACAAGGTGGGACTTAGCCCAAT
* *
18558840 ACAGAACAAGGTGGGCCTTAGCCGAAT
1 ACAGAACAAGGTGGGACTTAGCCCAAT
18558867 AC
1 AC
18558869 CATATCAGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
ACAGAACAAGGTGGGACTTAGCCCAAT
Found at i:18563718 original size:56 final size:56
Alignment explanation
Indices: 18563632--18563751 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
18563622 ACAAGGGATG
18563632 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
18563688 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
18563744 ACGGGCAA
1 ATGGGCAA
18563752 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:18564968 original size:40 final size:40
Alignment explanation
Indices: 18564878--18565142 Score: 333
Period size: 40 Copynumber: 6.7 Consensus size: 40
18564868 TCGAATGATG
* * * * *
18564878 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAATGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
18564918 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18564958 TCTGGGCTAAG-CCCGAAGGCA-TTGATGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAAA
*
18564997 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18565037 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18565077 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
18565118 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18565143 AACGAGTAGC
Statistics
Matches: 201, Mismatches: 17, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
38 3 0.01
39 30 0.15
40 155 0.77
41 13 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18565149 original size:80 final size:79
Alignment explanation
Indices: 18564931--18565175 Score: 327
Period size: 80 Copynumber: 3.1 Consensus size: 79
18564921 GGACTAAGAT
* *
18564931 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAG-CCCGAAGGCA-TTGATGCGAGTTACT
1 CCGAAGGCATTTGTGCGAGTTACTAA-ACTGGGCTAAGTCCCGAAGGCATTTGA-GCGAGTTACT
18564994 AAATCCGGGTTAAGTC
64 AAATCCGGGTTAAGTC
* * *
18565010 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAA-CTGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTA
18565075 AATCCGGGTTAAGTC
65 AATCCGGGTTAAGTC
* *
18565090 CCGAAGGCATTTGTGCGAGTTACTATAACTGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AACTGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CT
* * *
18565154 ATATCC-GGTTAAATT
64 AAATCCGGGTTAAGTC
18565169 CCGAAGG
1 CCGAAGG
18565176 TACGTGATTT
Statistics
Matches: 148, Mismatches: 13, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
79 49 0.33
80 94 0.64
81 5 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAACTGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:18565149 original size:120 final size:118
Alignment explanation
Indices: 18564931--18565175 Score: 316
Period size: 120 Copynumber: 2.1 Consensus size: 118
18564921 GGACTAAGAT
* *
18564931 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTGATGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGATGCGAGTTACTAA
* ** *
18564996 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATC
* *
18565050 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG-TGCGAGTTACT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCA-TTGATGCGAGTTACT
* * * *
18565114 ATAA-CTGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
64 A-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
18565169 CCGAAGG
1 CCGAAGG
18565176 TACGTGATTT
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
119 50 0.45
120 55 0.50
121 5 0.05
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGATGCGAGTTACTAA
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:18571829 original size:21 final size:21
Alignment explanation
Indices: 18571804--18571857 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
18571794 CTTGTTGAGA
*
18571804 AGGAAGTTGCTACTGCAGAAG
1 AGGAAGTTGCTACTGAAGAAG
* *
18571825 AGGAAGTTGTTGCTGAAGAAG
1 AGGAAGTTGCTACTGAAGAAG
*
18571846 AAGAAGTTGCTA
1 AGGAAGTTGCTA
18571858 AAAATGAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.33, T:0.22
Consensus pattern (21 bp):
AGGAAGTTGCTACTGAAGAAG
Found at i:18572184 original size:17 final size:15
Alignment explanation
Indices: 18572162--18572195 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
18572152 ATAAAAAATG
18572162 AAAGAAGGAAGAGAAGA
1 AAAGAAGG-AG-GAAGA
18572179 AAAGAAGGAGGAAGA
1 AAAGAAGGAGGAAGA
18572194 AA
1 AA
18572196 CATCGTGCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 2 0.12
17 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
AAAGAAGGAGGAAGA
Found at i:18575753 original size:10 final size:10
Alignment explanation
Indices: 18575738--18575775 Score: 58
Period size: 10 Copynumber: 3.6 Consensus size: 10
18575728 GAACATGATG
18575738 AATTTTAATT
1 AATTTTAATT
18575748 AATTTTATAGTT
1 AATTTTA-A-TT
18575760 AATTTTAATT
1 AATTTTAATT
18575770 AATTTT
1 AATTTT
18575776 GACTATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 2 0.08
12 9 0.35
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (10 bp):
AATTTTAATT
Found at i:18587195 original size:13 final size:13
Alignment explanation
Indices: 18587177--18587242 Score: 87
Period size: 13 Copynumber: 5.1 Consensus size: 13
18587167 AGTTTAACAA
*
18587177 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
18587190 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
18587203 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
18587216 TGCTTTGGAGAAG
1 TGCTTTTGAAAAG
18587229 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
18587242 T
1 T
18587243 TTGGTTTAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.27, C:0.08, G:0.30, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:18588317 original size:13 final size:13
Alignment explanation
Indices: 18588299--18588337 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
18588289 TAGAATGTGT
* *
18588299 AAAGAAACAATAA
1 AAAGAAAAAAAAA
18588312 AAAGAAAAAAAAA
1 AAAGAAAAAAAAA
18588325 AAAGAAAAGAAAA
1 AAAGAAAA-AAAA
18588338 GGAAAGCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.85, C:0.03, G:0.10, T:0.03
Consensus pattern (13 bp):
AAAGAAAAAAAAA
Found at i:18591382 original size:29 final size:29
Alignment explanation
Indices: 18591308--18591546 Score: 307
Period size: 29 Copynumber: 8.2 Consensus size: 29
18591298 GTGTGCTAAA
* * * *
18591308 CGATGGTCAAAACCATACCTTTTCTTTAAT
1 CGATGGTCGAAACCATCCCTTTTC-ATATT
*
18591338 CAATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
18591367 CGATGGTCGAAGCCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* **
18591396 CAATGGTCGTCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* *
18591425 CGATGGTTGAAACCATCCCTTTTAATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
18591454 CGATGGTCAAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* *
18591483 CGATGGTCAAAACCATTCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* * **
18591512 TGATGGTTGTCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
18591541 CGATGG
1 CGATGG
18591547 ACGTTGATAC
Statistics
Matches: 182, Mismatches: 27, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
29 161 0.88
30 21 0.12
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.37
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:18606240 original size:17 final size:17
Alignment explanation
Indices: 18606205--18606239 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
18606195 ATTCAATTTA
18606205 TTACAAAATTCATACTT
1 TTACAAAATTCATACTT
18606222 TTACAAAATT-ATACTT
1 TTACAAAATTCATACTT
18606238 TT
1 TT
18606240 TCCCCTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (17 bp):
TTACAAAATTCATACTT
Found at i:18616432 original size:16 final size:17
Alignment explanation
Indices: 18616403--18616435 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
18616393 CTGAATTGAT
18616403 TCGTATCATTTCATATTC
1 TCGTATCA-TTCATATTC
18616421 TCGTATCA-TCATATT
1 TCGTATCATTCATATT
18616436 TTTCATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.48
Consensus pattern (17 bp):
TCGTATCATTCATATTC
Found at i:18617354 original size:3 final size:3
Alignment explanation
Indices: 18617346--18617371 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18617336 ATTTTCTTTT
18617346 TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TC
18617372 TCCATTCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
TCC
Found at i:18619327 original size:16 final size:17
Alignment explanation
Indices: 18619305--18619347 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
18619295 TCACAACACT
*
18619305 TTTTTTTTAATTGACGA
1 TTTTTTTTAATTCACGA
*
18619322 TTTTTTTTAATTCAC-T
1 TTTTTTTTAATTCACGA
18619338 TTTTTTTTAA
1 TTTTTTTTAA
18619348 AATTTCGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (17 bp):
TTTTTTTTAATTCACGA
Found at i:18619715 original size:23 final size:23
Alignment explanation
Indices: 18619689--18619787 Score: 121
Period size: 23 Copynumber: 4.3 Consensus size: 23
18619679 ATAAGTGCCA
*
18619689 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
18619712 CACTGAAATTTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
18619735 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
18619758 CA-TCGA-ATTGTAGCCGAAGCTAC
1 CACT-GATA-TGTAGCCGAAGCTAC
18619781 CACTGAT
1 CACTGAT
18619788 CAATAACACT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.03
23 62 0.95
24 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:18619742 original size:46 final size:46
Alignment explanation
Indices: 18619689--18619787 Score: 139
Period size: 46 Copynumber: 2.2 Consensus size: 46
18619679 ATAAGTGCCA
* *
18619689 CACTGATATGTAGCTGAAGCTACCA-CTGAAATT-TAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTACCATC-G-AATTGTAGCCGAAGCTAC
*
18619735 CACTGATATGTAGCCGTAGCTACCATCGAATTGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTACCATCGAATTGTAGCCGAAGCTAC
18619781 CACTGAT
1 CACTGAT
18619788 CAATAACACT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
45 4 0.08
46 43 0.90
47 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (46 bp):
CACTGATATGTAGCCGAAGCTACCATCGAATTGTAGCCGAAGCTAC
Found at i:18620694 original size:23 final size:23
Alignment explanation
Indices: 18620627--18620679 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
18620617 GTTTAATTAG
** *
18620627 GAAATGGTTTTGGTTTTTGGTAA
1 GAAATGGAATTGGATTTTGGTAA
*
18620650 GAAATGGAATTGGATGTTGGTAA
1 GAAATGGAATTGGATTTTGGTAA
18620673 GAAATGG
1 GAAATGG
18620680 TATGATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.34, T:0.36
Consensus pattern (23 bp):
GAAATGGAATTGGATTTTGGTAA
Found at i:18624981 original size:19 final size:20
Alignment explanation
Indices: 18624957--18625000 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
18624947 CTTTTCACTC
18624957 TCTTTTT-TCAAATTTTC-TT
1 TCTTTTTCTC-AATTTTCTTT
*
18624976 TCTTTTTCTCATTTTTCTTT
1 TCTTTTTCTCAATTTTCTTT
18624996 TCTTT
1 TCTTT
18625001 GTTTTCACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (20 bp):
TCTTTTTCTCAATTTTCTTT
Found at i:18625014 original size:23 final size:20
Alignment explanation
Indices: 18624969--18625019 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 20
18624959 TTTTTTCAAA
18624969 TTTTC-TTTCTTTTTCTCAT
1 TTTTCTTTTCTTTTTCTCAT
*
18624988 TTTTCTTTTCTTTGTTTTCACT
1 TTTTCTTTTCTTT-TTCTCA-T
18625010 CTTTTCTTTT
1 -TTTTCTTTT
18625020 TCTCTCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 5 0.19
20 7 0.26
21 5 0.19
22 1 0.04
23 9 0.33
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTCTTTTCTTTTTCTCAT
Found at i:18625014 original size:24 final size:23
Alignment explanation
Indices: 18624969--18625019 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
18624959 TTTTTTCAAA
*
18624969 TTTTCTTTCTTTTTCTCATTTTTC
1 TTTTCTTTCTTTTACTCA-TTTTC
*
18624993 TTTTCTTTGTTTTCACTC-TTTTC
1 TTTTCTTTCTTTT-ACTCATTTTC
18625016 TTTT
1 TTTT
18625020 TCTCTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.38
24 12 0.50
25 3 0.12
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTCTTTCTTTTACTCATTTTC
Found at i:18626759 original size:14 final size:14
Alignment explanation
Indices: 18626740--18626769 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18626730 TGAGACATGA
18626740 AACAAAAACCTCAC
1 AACAAAAACCTCAC
18626754 AACAAAAACCTCAC
1 AACAAAAACCTCAC
18626768 AA
1 AA
18626770 ATCTCTCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.33, G:0.00, T:0.07
Consensus pattern (14 bp):
AACAAAAACCTCAC
Found at i:18627139 original size:14 final size:15
Alignment explanation
Indices: 18627106--18627144 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
18627096 CACAACACCT
18627106 TTTTTTTAATTCATGA
1 TTTTTTTAATTCA-GA
*
18627122 TTTTTTTAATTCA-C
1 TTTTTTTAATTCAGA
18627136 TTTTTTTAA
1 TTTTTTTAA
18627145 AATTTCGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
16 13 0.59
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTTTAATTCAGA
Found at i:18627514 original size:23 final size:23
Alignment explanation
Indices: 18627488--18627562 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
18627478 ATAAGTGCCA
*
18627488 CACTGATATGTAGCTGAAACTAC
1 CACTGATATGTAGCTGAAGCTAC
*
18627511 CACTGATATGTAGC-CATAGCTAC
1 CACTGATATGTAGCTGA-AGCTAC
*
18627534 CACTGAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGCTGAAGCTAC
18627557 CACTGA
1 CACTGA
18627563 AGCACAGAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.02
23 44 0.96
24 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCTGAAGCTAC
Found at i:18627692 original size:23 final size:23
Alignment explanation
Indices: 18627666--18627721 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
18627656 GTTTAATTAG
* * *
18627666 GAAATGGTTTTGCTTTTTGGTAA
1 GAAATGGTATTGCATGTTGGTAA
* *
18627689 GAAATGGAATTGGATGTTGGTAA
1 GAAATGGTATTGCATGTTGGTAA
18627712 GAAATGGTAT
1 GAAATGGTAT
18627722 GAGATTTTGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.38
Consensus pattern (23 bp):
GAAATGGTATTGCATGTTGGTAA
Found at i:18627731 original size:23 final size:23
Alignment explanation
Indices: 18627680--18627733 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
18627670 TGGTTTTGCT
18627680 TTTTGGTAAGAAATGGAATTGGA
1 TTTTGGTAAGAAATGGAATTGGA
* *
18627703 TGTTGGTAAGAAATGGTA-TGAGA
1 TTTTGGTAAGAAATGGAATTG-GA
18627726 TTTTGGTA
1 TTTTGGTA
18627734 CGACATAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 2 0.07
23 25 0.93
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.37
Consensus pattern (23 bp):
TTTTGGTAAGAAATGGAATTGGA
Found at i:18638137 original size:50 final size:50
Alignment explanation
Indices: 18638082--18638213 Score: 140
Period size: 50 Copynumber: 2.6 Consensus size: 50
18638072 AATGTCATAT
* * * *
18638082 CCCAAATACGGTCTTACATGAGAGTTCTCATATCGGTGCCAATGCCATGA
1 CCCAAACACGGTCTTACATGAGACTTCTCATATCGGTACCAACGCCATGA
* * * * * *
18638132 CCCAAACATC-GTCTTATAGGGGACTTCTCATCTTGGTACCAACGCCATGT
1 CCCAAACA-CGGTCTTACATGAGACTTCTCATATCGGTACCAACGCCATGA
* *
18638182 CCCAAACATGGTCTTACATGAGACCTCTCATA
1 CCCAAACACGGTCTTACATGAGACTTCTCATA
18638214 ACCTCAATAG
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
50 63 0.98
51 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (50 bp):
CCCAAACACGGTCTTACATGAGACTTCTCATATCGGTACCAACGCCATGA
Found at i:18651465 original size:50 final size:50
Alignment explanation
Indices: 18651375--18651564 Score: 141
Period size: 50 Copynumber: 3.7 Consensus size: 50
18651365 CCTATACTGT
* * * * * * **
18651375 CAATGTCATATCCTAGATATGGTCTTACACGAGAGTTCTCATATCAGT-G
1 CAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCAGTAG
* * *
18651424 CCCAA-GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTAG
1 --CAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCAGTAG
* * * *
18651475 CAATGCCATGTCCCAGACATGGTCTTGCATGGGACCTCTCATAACCTTAATAATG
1 CAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT-A--TCAGT-A-G
* *
18651530 CCAATTCCATGTCCCAGACATGGTCTTACATGGGA
1 -CAATGCCATGTCCCAGACATGGTCTTACAGGGGA
18651565 TCTCATTCCC
Statistics
Matches: 111, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
49 3 0.03
50 68 0.61
51 4 0.04
53 2 0.02
54 1 0.01
55 1 0.01
56 32 0.29
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (50 bp):
CAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCAGTAG
Found at i:18666505 original size:21 final size:21
Alignment explanation
Indices: 18666476--18666515 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18666466 AGTTAGTTCC
*
18666476 AATCTAACTAAACAGAATTGA
1 AATCCAACTAAACAGAATTGA
*
18666497 AATCCAACTAATCAGAATT
1 AATCCAACTAAACAGAATT
18666516 CAACCACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.25
Consensus pattern (21 bp):
AATCCAACTAAACAGAATTGA
Found at i:18678788 original size:13 final size:13
Alignment explanation
Indices: 18678770--18678794 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18678760 TGATTGCATA
18678770 TTTTTCTTCTTTC
1 TTTTTCTTCTTTC
18678783 TTTTTCTTCTTT
1 TTTTTCTTCTTT
18678795 GGATTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTCTTTC
Found at i:18679247 original size:17 final size:18
Alignment explanation
Indices: 18679207--18679246 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
18679197 ATACTTTTTT
*
18679207 ATTTTATTTTCTTTTTAA
1 ATTTTATTTCCTTTTTAA
18679225 ATTTTATTTCCTTTTTAA
1 ATTTTATTTCCTTTTTAA
18679243 ATTT
1 ATTT
18679247 AATCTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTTATTTCCTTTTTAA
Found at i:18679703 original size:24 final size:24
Alignment explanation
Indices: 18679667--18679735 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
18679657 CATATTTTTC
18679667 AAGTTATTCTGTATTATTATTCTAA
1 AAGTTATTCTGTATTATTATT-TAA
* * *
18679692 AA-TTATTATGTACTATTACTTAA
1 AAGTTATTCTGTATTATTATTTAA
*
18679715 AAGTTATGCTGTATTATTATT
1 AAGTTATTCTGTATTATTATT
18679736 ATTTTTTATT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 5 0.14
24 29 0.81
25 2 0.06
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (24 bp):
AAGTTATTCTGTATTATTATTTAA
Found at i:18683387 original size:44 final size:44
Alignment explanation
Indices: 18683319--18683710 Score: 505
Period size: 44 Copynumber: 8.9 Consensus size: 44
18683309 CAGCGAAACC
*
18683319 ACAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
* * *
18683363 ACAATTCCTATTTCCCTGAACAGTAGTGGAATAGGTTGAAGATT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
*
18683407 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTAAAGATT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
* * *
18683451 ACAAGTCCTATCTCCCTGAATAACAATGGAATAGGTTGAAGATT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
* *
18683495 ACAATTCCTATCTCCCTGAACAGCAGCGGAATAGGTTGAAGATT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
** * * *
18683539 GTAAGTCCTATCTCCCTGAACAGAAGTGGAATAGGTGGAAGGTT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
** * * *
18683583 GTAAGTCCTATCTCCCTAAACAACAGTGGAATAGGTGGAAGATT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
** * * * ** *
18683627 GTAAGTCATATCTACCTCAACAATAGTGGAATAGGTGGAAGATT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
* * *
18683671 ATAAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAA
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAA
18683711 TATTGTAGAT
Statistics
Matches: 309, Mismatches: 39, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 309 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (44 bp):
ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
Found at i:18683771 original size:132 final size:132
Alignment explanation
Indices: 18683381--18683760 Score: 341
Period size: 132 Copynumber: 2.9 Consensus size: 132
18683371 TATTTCCCTG
* * * * **
18683381 AACAGTAGTGGAATAGGTTGAAGATTACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTAA
1 AACAATAGTGGAATAGGTGGAAGATTATAAGTCCTATCTCCCTGAACAGAAGTGGAATAGGTGGA
** * * * * * * ** * * * * *
18683446 AGATTACAAGTCCTATCTCCCTGAATAACAATGGAATAGGTTGAAGATTA-CAATTCCTATCTCC
66 AGATTGTAAGTCATATCTCCCTAAACAACAGTGGAACAGATCAAAGA-CAGTAAGTCATATCTAC
*
18683510 CTG
130 CTC
** * * *
18683513 AACAGCAGCGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGAACAGAAGTGGAATAGGTGGA
1 AACAATAGTGGAATAGGTGGAAGATTATAAGTCCTATCTCCCTGAACAGAAGTGGAATAGGTGGA
* * * * ** **
18683578 AGGTTGTAAGTCCTATCTCCCTAAACAACAGTGGAATAGGTGGAAGATTGTAAGTCATATCTACC
66 AGATTGTAAGTCATATCTCCCTAAACAACAGTGGAACAGATCAAAGACAGTAAGTCATATCTACC
18683643 TC
131 TC
* * * *
18683645 AACAATAGTGGAATAGGTGGAAGATTATAAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGA
1 AACAATAGTGGAATAGGTGGAAGATTATAAGTCCTATCTCCCTGAACAGAAGTGGAATAGGTGGA
* * **
18683710 ATATTGT-AGATCATGTCTCCCTAAACAGTAGTGGAACAGATCAAAGACAGT
66 AGATTGTAAG-TCATATCTCCCTAAACAACAGTGGAACAGATCAAAGACAGT
18683761 GAATCTTATC
Statistics
Matches: 205, Mismatches: 41, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
131 3 0.01
132 202 0.99
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (132 bp):
AACAATAGTGGAATAGGTGGAAGATTATAAGTCCTATCTCCCTGAACAGAAGTGGAATAGGTGGA
AGATTGTAAGTCATATCTCCCTAAACAACAGTGGAACAGATCAAAGACAGTAAGTCATATCTACC
TC
Found at i:18683946 original size:44 final size:44
Alignment explanation
Indices: 18683896--18684743 Score: 232
Period size: 44 Copynumber: 19.3 Consensus size: 44
18683886 AGACCCCAGC
*
18683896 CTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
* *** * * * * * *** *
18683940 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCCCAG-C
1 CTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
*
18683984 CTTGTCTCCCTGAGCAACAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
* *** *** * * * *** *
18684028 CTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGACCCCAG-C
1 CTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
** ** * * *
18684072 CTTGTCTCCCTGAATAGCAGTAAAATAGGTTAAAAATAGTAGAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
* * *** * * * * * * *
18684116 CTTATCTTCCTGTATTGGCAGCGAAGTA-GATCAAAA-ACCAAAGC
1 CTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGCAGA-T
18684160 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
* * ** * * * * * *** *
18684204 CTTGTCTTCCTATATTAGCAGCGAAGTAGATCGAAGACCCCAG-C
1 CTTGTCTCCCT-GAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
* *
18684248 CTTGTCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAAAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
* * *** * * * * ** *
18684292 CTTATCTTCCTGTATTGGTAG-GGAAGTAGATCGAAGATCCCAGCT
1 CTTGTCTCCCTG-AGCAGCAGTGG-AGTAGGTTGAAAATAGCAGAT
* ** * **
18684337 -TTGTCTCCCTAAGCAATAGCGGAGTAGGTTCCAAATAGCAGAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
* * *** *** * * ** *
18684380 ATTGTCTTCCTGTATTGGCAGCAAAGTA-GATCAAAGA-CCCTAG-C
1 CTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAA-ATAGC-AGAT
* *
18684424 CTTGTCTCCTTGAGTAGCAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
** ** * * * * ***
18684468 CTTGTCTTTCTGTATTAGCAGCGAAGTAGATTGAAGACCCCAG--
1 CTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
* * *
18684511 CATTGACTCCCTGAGCAGTAGTGGAGTGGGTTGAAAATAGCAGAT
1 C-TTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
* * ** * * * * * ** *
18684556 CTTGTCTTCCTATATTAGCAGCGAAGTAGATCGAAGA-CCCTAG-C
1 CTTGTCTCCCT-GAGCAGCAGTGGAGTAGGTTGAAAATAGC-AGAT
18684600 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
* * *** * * * * * * *
18684644 CTTGTTTTCCTGTATTGGCAGTGAAATAGATCGAAGATACCAG-C
1 CTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
*
18684688 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
*
18684732 CTTGTCTTCCTG
1 CTTGTCTCCCTG
18684744 TATTGGAAGC
Statistics
Matches: 531, Mismatches: 243, Indels: 60
0.64 0.29 0.07
Matches are distributed among these distances:
43 158 0.30
44 214 0.40
45 159 0.30
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
Found at i:18684785 original size:88 final size:88
Alignment explanation
Indices: 18683813--18684768 Score: 1383
Period size: 88 Copynumber: 10.9 Consensus size: 88
18683803 ACCAGTCCTA
* * ** *
18683813 TCTCCCTGAGCAGTAGTGGAGTAGGTTAAAAATAATAGATCTTGT-TTCTTGTATTGGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
18683877 GTAGATCGAAGACCCCAGCCTTG
66 GTAGATCGAAGACCCCAGCCTTG
*
18683900 TCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
18683965 GTAGATCGAAGACCCCAGCCTTG
66 GTAGATCGAAGACCCCAGCCTTG
* *
18683988 TCTCCCTGAGCAACAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
18684053 GTAGATCGAAGACCCCAGCCTTG
66 GTAGATCGAAGACCCCAGCCTTG
** ** * * * *
18684076 TCTCCCTGAATAGCAGTAAAATAGGTTAAAAATAGTAGATCTTATCTTCCTGTATTGGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
* * **
18684141 GTAGATCAAAAACCAAAGCCTTG
66 GTAGATCGAAGACCCCAGCCTTG
* *
18684164 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTATATTAGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
18684229 GTAGATCGAAGACCCCAGCCTTG
66 GTAGATCGAAGACCCCAGCCTTG
* * * * *
18684252 TCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAAATCTTATCTTCCTGTATTGGTAGGGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
* *
18684317 GTAGATCGAAGATCCCAGCTTTG
66 GTAGATCGAAGACCCCAGCCTTG
* ** * ** * *
18684340 TCTCCCTAAGCAATAGCGGAGTAGGTTCCAAATAGCAGATATTGTCTTCCTGTATTGGCAGCAAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
* *
18684405 GTAGATCAAAGACCCTAGCCTTG
66 GTAGATCGAAGACCCCAGCCTTG
* * * *
18684428 TCTCCTTGAGTAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTTCTGTATTAGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
* *
18684493 GTAGATTGAAGACCCCAGCATTG
66 GTAGATCGAAGACCCCAGCCTTG
* * * * *
18684516 ACTCCCTGAGCAGTAGTGGAGTGGGTTGAAAATAGCAGATCTTGTCTTCCTATATTAGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
*
18684581 GTAGATCGAAGACCCTAGCCTTG
66 GTAGATCGAAGACCCCAGCCTTG
* *
18684604 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTTTTCCTGTATTGGCAGTGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
* **
18684669 ATAGATCGAAGATACCAGCCTTG
66 GTAGATCGAAGACCCCAGCCTTG
* *
18684692 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGGAAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
18684757 GTAGATCGAAGA
66 GTAGATCGAAGA
18684769 AACCAATCCT
Statistics
Matches: 765, Mismatches: 103, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
87 42 0.05
88 723 0.95
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (88 bp):
TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
GTAGATCGAAGACCCCAGCCTTG
Found at i:18684836 original size:44 final size:45
Alignment explanation
Indices: 18684773--18684975 Score: 120
Period size: 44 Copynumber: 4.7 Consensus size: 45
18684763 CGAAGAAACC
* * *
18684773 AATCCTATCTCCC-AGAAGTTGTAGTGGAGCGA-ATTAAAACCACA
1 AATCTTATCTCCCTA-AAGTTGCAGTAGAGCGACATTAAAACCACA
* * ** *
18684817 AATCTTATCTCTCTAAAGTTGCAGTAGAGCG-GATT-GCATC-C-
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCGACATTAAAACCACA
* * * * * *
18684858 AGTCTTATGTCCCTAAAGTTGTAGTCGAGCAGACA--AAAGA-AACC
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGC-GACATTAAA-ACCACA
* * *
18684902 AATCCTATCTCCCTAAAGTTGCAGTGGAGC-AGATTAAAACCACA
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCGACATTAAAACCACA
* * * *
18684946 GATATTATCTCTCTGAAGTTGCAGTAGAGC
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGC
18684976 AGATTGCATC
Statistics
Matches: 118, Mismatches: 30, Indels: 22
0.69 0.18 0.13
Matches are distributed among these distances:
41 25 0.21
42 4 0.03
43 6 0.05
44 82 0.69
45 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (45 bp):
AATCTTATCTCCCTAAAGTTGCAGTAGAGCGACATTAAAACCACA
Found at i:18685000 original size:129 final size:129
Alignment explanation
Indices: 18684765--18685114 Score: 463
Period size: 129 Copynumber: 2.7 Consensus size: 129
18684755 AAGTAGATCG
* *
18684765 AAGAAACCAATCCTATCTCCC-AGAAGTTGTAGTGGAGCGAATTAAAACCACAAATCTTATCTCT
1 AAGAAACCAATCCTATCTCCCTA-AAGTTGCAGTGGAGCG-ATTAAAACCACAGATCTTATCTCT
* * * *
18684829 CTAAAGTTGCAGTAGAGCGGATTGCATCCAGTCTTATGTCCCTAAAGTTGTAGTCGAGCAGACA-
64 CTGAAGTTGCAGTAGAGCAGATTGCATCCAGTATTATCTCCCTAAAGTTGTAGTCGAGCAGACAG
18684893 A
129 A
*
18684894 AAGAAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCACAGATATTATCTCTC
1 AAGAAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGC-GATTAAAACCACAGATCTTATCTCTC
*
18684959 TGAAGTTGCAGTAGAGCAGATTGCATCCAGTATTATCTCCCTAAAGTTGTAGTGGAGCAGACAGA
65 TGAAGTTGCAGTAGAGCAGATTGCATCCAGTATTATCTCCCTAAAGTTGTAGTCGAGCAGACAGA
* * * ** ** * * *
18685024 AA-AGACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAATGATGGAGCTCATCCCTC
1 AAGAAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGC-GATTAAAACCACAGATCTTATCTCTC
* *
18685088 TGAAGTTACAGTAGAGCAGATCGCATC
65 TGAAGTTGCAGTAGAGCAGATTGCATC
18685115 AGACTTATCT
Statistics
Matches: 196, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
129 191 0.97
130 5 0.03
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (129 bp):
AAGAAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGATTAAAACCACAGATCTTATCTCTCT
GAAGTTGCAGTAGAGCAGATTGCATCCAGTATTATCTCCCTAAAGTTGTAGTCGAGCAGACAGA
Found at i:18685050 original size:44 final size:43
Alignment explanation
Indices: 18684867--18685060 Score: 151
Period size: 44 Copynumber: 4.5 Consensus size: 43
18684857 CAGTCTTATG
* * * *
18684867 TCCCTAAAGTTGTAGTCGAGCAGACAAAAGAAACCAATCCTATC
1 TCCCTAAAGTTGCAGTGGAGCAGACAGAA-AAACCAATACTATC
** * *
18684911 TCCCTAAAGTTGCAGTGGAGCAGA-TTAAAACCACAGATATTATC
1 TCCCTAAAGTTGCAGTGGAGCAGACAGAAAAAC-CA-ATACTATC
* * * ** * * * *
18684955 TCTCTGAAGTTGCAGTAGAGCAGATTG--CATCCAGTATTATC
1 TCCCTAAAGTTGCAGTGGAGCAGACAGAAAAACCAATACTATC
* *
18684996 TCCCTAAAGTTGTAGTGGAGCAGACAGAAAAGACCAATCCTATC
1 TCCCTAAAGTTGCAGTGGAGCAGACAGAAAA-ACCAATACTATC
*
18685040 TCCCTGAAGTTGCAGTGGAGC
1 TCCCTAAAGTTGCAGTGGAGC
18685061 GGATCAAAAT
Statistics
Matches: 117, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
41 28 0.24
42 5 0.04
43 7 0.06
44 76 0.65
45 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (43 bp):
TCCCTAAAGTTGCAGTGGAGCAGACAGAAAAACCAATACTATC
Found at i:18685939 original size:13 final size:13
Alignment explanation
Indices: 18685921--18685945 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18685911 TGATTGCACA
18685921 TTTTTCTTCTTTC
1 TTTTTCTTCTTTC
18685934 TTTTTCTTCTTT
1 TTTTTCTTCTTT
18685946 GGATTCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTCTTTC
Found at i:18686836 original size:24 final size:24
Alignment explanation
Indices: 18686800--18686868 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
18686790 CATATTTTTG
*
18686800 AAGTTATTGTGTATTATTATTCTAA
1 AAGTTATTATGTATTATTATT-TAA
*
18686825 AA-TTATTATGTATTATTACTTAA
1 AAGTTATTATGTATTATTATTTAA
**
18686848 AAGTTATGCTGTATTATTATT
1 AAGTTATTATGTATTATTATT
18686869 ATTTTATTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
23 5 0.13
24 31 0.82
25 2 0.05
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.52
Consensus pattern (24 bp):
AAGTTATTATGTATTATTATTTAA
Found at i:18694411 original size:373 final size:374
Alignment explanation
Indices: 18693322--18694437 Score: 1709
Period size: 374 Copynumber: 3.0 Consensus size: 374
18693312 TCCACTACTG
* * *
18693322 CTCAACCACTATAATTGATATTTATTAACATTAAAAGATAATCTAAAATAAATAAATAAATAATA
1 CTCAACCACTATACTTGATATCTATTAACATCAAAAGATAATCTAAAATAAATAAATAAATAATA
* * * * *
18693387 AATAAAATTTGGACAACCACTCTCTTGGTTCATTAACCTAATTTCTACTAACCCAATTTTTGGGA
66 AATAAAATTTGGGCGACCACTCTCTCGGTTCATTAACCCAATTTCTACTAATCCAATTTTTGGGA
* *
18693452 TGTAACAACTCTCCCCTCATGGAAAAGAGTTTCGTCCTCAAAATTCCTATTGTCAAGCCAATTCA
131 TGTGACAACTCTCCCCTCATTGAAAAGAGTTTCGTCCTCAAAATTCCTATTGTCAAGCCAATTCA
* * *
18693517 CTTATCCATAAAATTCATAACTCTTCTTTCTAAACCATCCACCACGCTTTCGCTGCGCAACTCTG
196 CTTATCCATAACATTCATAACTCTTATTTCTAAACCATCCACCACGCTTTCGCTGCGCAACTCTA
* * *
18693582 ATTTCAACGTAGTTTCAATACTTCACCTTAAATCTCCAATGGATTTCTTATCTACTTACACGTAT
261 ATTCCAATGTAGTTCCAATACTTCACCTTAAATCTCCAATGGATTTCTTATCTACTTACACGTAT
* *
18693647 TGTCTCAAGGGACTATCAATAGAAATATCACTAACGATTTTCTCCACTA
326 TGTCTCAAGGGACTATCTATAGAAATATCACTAACGATTTCCTCCACTA
*
18693696 CTCAACCACTATACTTGATATCTATTAACATCAAAAGATAATCTAAAATAATTAAATAAATAATA
1 CTCAACCACTATACTTGATATCTATTAACATCAAAAGATAATCTAAAATAAATAAATAAATAATA
* **
18693761 AATAAAATTTGGGCGACCACTCTCTCGGTTTATTAACCCAATTTCTACTAATCTGATTTTTGGGA
66 AATAAAATTTGGGCGACCACTCTCTCGGTTCATTAACCCAATTTCTACTAATCCAATTTTTGGGA
18693826 TGTGACAACTCTCCCCTCATTGAAAAGAGTTTCGTCCTCAAAATTCCTATTGTCAAGCCAATTCA
131 TGTGACAACTCTCCCCTCATTGAAAAGAGTTTCGTCCTCAAAATTCCTATTGTCAAGCCAATTCA
* *
18693891 CTTATCCAT-ACATTTCATAACTCTTATTTCTAAACCATCCACCATGCTTTCGCTGCACAACTCT
196 CTTATCCATAACA-TTCATAACTCTTATTTCTAAACCATCCACCACGCTTTCGCTGCGCAACTCT
* * *
18693955 TATTCCAATGTAGTTCCAATACTTCACCTTAAATCTCCAATGGATTTCTTATCTATTTGCACGTA
260 AATTCCAATGTAGTTCCAATACTTCACCTTAAATCTCCAATGGATTTCTTATCTACTTACACGTA
* *
18694020 TTATCTCAAGGGACTATCTATTGAAATATCACTAACGATTTCCTCCACTA
325 TTGTCTCAAGGGACTATCTATAGAAATATCACTAACGATTTCCTCCACTA
* * * *
18694070 CTCAACCACTACACTTGATATCGATTAACATGAAAAGATAATGTAAAATAAATAAATAAATAA-A
1 CTCAACCACTATACTTGATATCTATTAACATCAAAAGATAATCTAAAATAAATAAATAAATAATA
18694134 TAATAAAATTTGGGCGACCACTCTCTCGGTTCATTAACCCAATTTCTACTAATCCAATTTTT-GG
66 -AATAAAATTTGGGCGACCACTCTCTCGGTTCATTAACCCAATTTCTACTAATCCAATTTTTGGG
* * **
18694198 ATGTGACAACTCTCCCCTCCTTGAAAAGAATTTTTTCCTTC-AAATTCCTATTGTCAAGCCAATT
130 ATGTGACAACTCTCCCCTCATTGAAAAGAGTTTCGTCC-TCAAAATTCCTATTGTCAAGCCAATT
* * * * * **
18694262 CACTTACCCATAACGTTCATAGCTCTTTTTTCTAAACCATCCACCACACTTTCGCTATGCAACTC
194 CACTTATCCATAACATTCATAACTCTTATTTCTAAACCATCCACCACGCTTTCGCTGCGCAACTC
* * * * *
18694327 TAATTCCAATGTAATTCCAATACTTCACCTTAAATCTCTAATTGATTTCTTATCTCCTTACACAT
259 TAATTCCAATGTAGTTCCAATACTTCACCTTAAATCTCCAATGGATTTCTTATCTACTTACACGT
* **
18694392 ATCGTCTCAAGGGACTATCTATAGAAATATCACTAATAATTTCCTC
324 ATTGTCTCAAGGGACTATCTATAGAAATATCACTAACGATTTCCTC
18694438 ATTCACAAAT
Statistics
Matches: 676, Mismatches: 62, Indels: 9
0.90 0.08 0.01
Matches are distributed among these distances:
373 213 0.32
374 463 0.68
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.34
Consensus pattern (374 bp):
CTCAACCACTATACTTGATATCTATTAACATCAAAAGATAATCTAAAATAAATAAATAAATAATA
AATAAAATTTGGGCGACCACTCTCTCGGTTCATTAACCCAATTTCTACTAATCCAATTTTTGGGA
TGTGACAACTCTCCCCTCATTGAAAAGAGTTTCGTCCTCAAAATTCCTATTGTCAAGCCAATTCA
CTTATCCATAACATTCATAACTCTTATTTCTAAACCATCCACCACGCTTTCGCTGCGCAACTCTA
ATTCCAATGTAGTTCCAATACTTCACCTTAAATCTCCAATGGATTTCTTATCTACTTACACGTAT
TGTCTCAAGGGACTATCTATAGAAATATCACTAACGATTTCCTCCACTA
Found at i:18696828 original size:15 final size:16
Alignment explanation
Indices: 18696797--18696831 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
18696787 TTTGTCAAAA
18696797 AAAAGGAGAGAAAATG
1 AAAAGGAGAGAAAATG
*
18696813 AAAATGAGAG-AAATG
1 AAAAGGAGAGAAAATG
18696828 AAAA
1 AAAA
18696832 AAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (16 bp):
AAAAGGAGAGAAAATG
Found at i:18696832 original size:16 final size:17
Alignment explanation
Indices: 18696796--18696846 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
18696786 GTTTGTCAAA
18696796 AAAAAGGAGAGAAAATG
1 AAAAAGGAGAGAAAATG
*
18696813 -AAAATGAGAG-AAATG
1 AAAAAGGAGAGAAAATG
**
18696828 AAAAAAAAAGAGAAAATG
1 -AAAAAGGAGAGAAAATG
18696846 A
1 A
18696847 GAGTAAATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 5 0.18
16 9 0.32
17 9 0.32
18 5 0.18
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.08
Consensus pattern (17 bp):
AAAAAGGAGAGAAAATG
Found at i:18697329 original size:17 final size:16
Alignment explanation
Indices: 18697285--18697330 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
18697275 TATTTGAGTG
*
18697285 ATTAAATGGCTTAATGA
1 ATTAAATGG-TAAATGA
18697302 A-TAAA-GGTAAATGAA
1 ATTAAATGGTAAATG-A
18697317 ATTAAATGGTAAAT
1 ATTAAATGGTAAAT
18697331 AAACCATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 5 0.20
15 4 0.16
16 8 0.32
17 8 0.32
ACGTcount: A:0.50, C:0.02, G:0.17, T:0.30
Consensus pattern (16 bp):
ATTAAATGGTAAATGA
Found at i:18698441 original size:6 final size:6
Alignment explanation
Indices: 18698430--18698454 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18698420 GCAACGATGT
18698430 AAAGGA AAAGGA AAAGGA AAAGGA A
1 AAAGGA AAAGGA AAAGGA AAAGGA A
18698455 TGGTTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:18699224 original size:20 final size:20
Alignment explanation
Indices: 18699171--18699232 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
18699161 TATTCAAGTT
* *
18699171 TAAGCTAAGTAAACGGAATGG
1 TAAG-TAAGTAAATGAAATGG
*
18699192 AAAGTAAGTAAATGAAATGG
1 TAAGTAAGTAAATGAAATGG
*
18699212 TAAGTAAGTAAATGAAGTGG
1 TAAGTAAGTAAATGAAATGG
18699232 T
1 T
18699233 TCATAGTCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 33 0.92
21 3 0.08
ACGTcount: A:0.47, C:0.03, G:0.27, T:0.23
Consensus pattern (20 bp):
TAAGTAAGTAAATGAAATGG
Found at i:18705729 original size:94 final size:94
Alignment explanation
Indices: 18705555--18705730 Score: 255
Period size: 94 Copynumber: 1.9 Consensus size: 94
18705545 TCTTCTCTTA
* *
18705555 TTGGATATTTAATTGGACATTGGAAACCTTATGATCTTTTAAACTACACCAATAACATTACACAA
1 TTGGATATTTAATTGGACATTGAAAACATTATGATCTTTTAAAC-ACACCAATAACATTACACAA
* *
18705620 AAGGTGATACCTCAATCTTATTTTGTCTGT
65 AAGGTGAAACATCAATCTTATTTTGTCTGT
* *
18705650 TTGGATATTTAATTGGACATTGAAAACATTCATGATCTTTTGAA-ACACCAATAACATTTCACAA
1 TTGGATATTTAATTGGACATTGAAAACATT-ATGATCTTTTAAACACACCAATAACATTACACAA
* *
18705714 TAGGTGAAAGATCAATC
65 AAGGTGAAACATCAATC
18705731 GTACTCCTGT
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
94 32 0.44
95 28 0.39
96 12 0.17
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (94 bp):
TTGGATATTTAATTGGACATTGAAAACATTATGATCTTTTAAACACACCAATAACATTACACAAA
AGGTGAAACATCAATCTTATTTTGTCTGT
Found at i:18709956 original size:16 final size:16
Alignment explanation
Indices: 18709937--18710005 Score: 52
Period size: 16 Copynumber: 4.1 Consensus size: 16
18709927 GAAAATCAAG
18709937 ATTTCAAATCATAGAAA
1 ATTTCAAATCATAG-AA
18709954 TTTATTTTCAAATCATAGAA
1 ---AT-TTCAAATCATAGAA
**
18709974 ATTT-ATTTTCATAGAA
1 ATTTCA-AATCATAGAA
18709990 ATTTCAAATCA-AGAA
1 ATTTCAAATCATAGAA
18710005 A
1 A
18710006 ATCGAAGAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
15 6 0.14
16 17 0.40
17 3 0.07
20 4 0.10
21 12 0.29
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (16 bp):
ATTTCAAATCATAGAA
Found at i:18709964 original size:21 final size:21
Alignment explanation
Indices: 18709938--18709984 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
18709928 AAAATCAAGA
18709938 TTTCAAATCATAGAAATTTAT
1 TTTCAAATCATAGAAATTTAT
18709959 TTTCAAATCATAGAAATTTAT
1 TTTCAAATCATAGAAATTTAT
18709980 TTTCA
1 TTTCA
18709985 TAGAAATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (21 bp):
TTTCAAATCATAGAAATTTAT
Found at i:18717339 original size:44 final size:44
Alignment explanation
Indices: 18717279--18717568 Score: 150
Period size: 44 Copynumber: 6.7 Consensus size: 44
18717269 ACCTGGTGTG
* *
18717279 ATCTACTCTACTACAACTTCAGAGAGATAAGATCTATTATTTCA
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATCTATTATTTCA
* * * *
18717323 ATCTACTCCACTACAACTTCAG-GAAGATAGGAT-TACTGACTTCA
1 ATCTACTCCACTGCAACTTCAGAG-AGATAAGATCTA-TTATTTCA
* * * * * * * * ** *
18717367 ATGTACTCCACTGTATCCTCAGGGAGGTAAAATCCACCATCTTCG
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATCTATTAT-TTCA
* * *
18717412 ATCTGCTCCACT--AA-TTCTTAGGGAGATAAGATCTGTT-TCTTCA
1 ATCTACTCCACTGCAACTTC--AGAGAGATAAGATCTATTAT-TTCA
* * * * * * *
18717455 GTCTGCTCCACTGCAACCTCA-AGGAGATAAGA-C-CTGA-TGCG
1 ATCTACTCCACTGCAACTTCAGA-GAGATAAGATCTATTATTTCA
* * * *
18717496 ATCTACTCTACTGTAACTTCAGAGAGATAAGACCTTTTATTTCA
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATCTATTATTTCA
* *
18717540 ATCCACTCCACTGCAACTTCAGGGAGATA
1 ATCTACTCCACTGCAACTTCAGAGAGATA
18717569 GGATTACTGG
Statistics
Matches: 182, Mismatches: 48, Indels: 32
0.69 0.18 0.12
Matches are distributed among these distances:
41 27 0.15
42 5 0.03
43 23 0.13
44 108 0.59
45 17 0.09
46 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (44 bp):
ATCTACTCCACTGCAACTTCAGAGAGATAAGATCTATTATTTCA
Done.