Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 287 of 410
Found at i:88380317 original size:20 final size:20
Alignment explanation
Indices: 88380294--88380344 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
88380284 TTGCACATAT
88380294 GTGCCTCTATTGGCACTTTG
1 GTGCCTCTATTGGCACTTTG
* *
88380314 GTGCCTCTGTTTGCACTTTG
1 GTGCCTCTATTGGCACTTTG
* *
88380334 ATGTCTCTATT
1 GTGCCTCTATT
88380345 AGCATTGCCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.45
Consensus pattern (20 bp):
GTGCCTCTATTGGCACTTTG
Found at i:88381681 original size:8 final size:8
Alignment explanation
Indices: 88381670--88381879 Score: 57
Period size: 8 Copynumber: 26.9 Consensus size: 8
88381660 TTAATAATAT
88381670 TTATATTA
1 TTATATTA
88381678 TTATA-T-
1 TTATATTA
88381684 TTATATTA
1 TTATATTA
*
88381692 ATATATTTCGA
1 TTATA-TT--A
*
88381703 TT-TATAAA
1 TTATAT-TA
88381711 TCTATATT-
1 T-TATATTA
88381719 TCTATATTA
1 T-TATATTA
88381728 TT-TA-T-
1 TTATATTA
88381733 TT-TATTA
1 TTATATTA
*
88381740 TTCTATCTA
1 TTATAT-TA
*
88381749 TTTTTATTA
1 -TTATATTA
*
88381758 TTCTATCTA
1 TTATAT-TA
88381767 TTAT-TATA
1 TTATAT-TA
88381775 TTATCTATTA
1 TTA--TATTA
88381785 TTATATTA
1 TTATATTA
88381793 TCTAT-TTA
1 T-TATATTA
88381801 -TATATTA
1 TTATATTA
88381808 TT-T-TTA
1 TTATATTA
88381814 -TATATTA
1 TTATATTA
88381821 TTATATATA
1 TTATAT-TA
*
88381830 TTTTATT-
1 TTATATTA
88381837 TCTAT-TTA
1 T-TATATTA
*
88381845 GT-TATTA
1 TTATATTA
88381852 TT-TAGTTA
1 TTATA-TTA
88381860 TTAT-TTA
1 TTATATTA
88381867 -TAT-TTA
1 TTATATTA
*
88381873 GTATATT
1 TTATATT
88381880 TAGAATTTAT
Statistics
Matches: 158, Mismatches: 12, Indels: 64
0.68 0.05 0.27
Matches are distributed among these distances:
5 5 0.03
6 21 0.13
7 29 0.18
8 59 0.37
9 25 0.16
10 16 0.10
11 3 0.02
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (8 bp):
TTATATTA
Found at i:88381741 original size:15 final size:15
Alignment explanation
Indices: 88381723--88381852 Score: 76
Period size: 15 Copynumber: 8.4 Consensus size: 15
88381713 TATATTTCTA
*
88381723 TATTATTTATTTTAT
1 TATTATCTATTTTAT
88381738 TATTCTATCTATTTTTAT
1 TA-T-TATCTA-TTTTAT
88381756 TATTCTATCTATTATTA-
1 TA-T-TATCTATT-TTAT
88381773 TATTATCTATTATTA-
1 TATTATCTATT-TTAT
88381788 TATTATCTA-TTTAT
1 TATTATCTATTTTAT
*
88381802 ATATTAT-TTTTATATAT
1 -TATTATCTATT-T-TAT
* *
88381819 TATTATATATATT-T
1 TATTATCTATTTTAT
88381833 TATT-TCTA-TTTAGT
1 TATTATCTATTTTA-T
88381847 TATTAT
1 TATTAT
88381853 TTAGTTATTA
Statistics
Matches: 96, Mismatches: 6, Indels: 26
0.75 0.05 0.20
Matches are distributed among these distances:
12 2 0.02
13 6 0.06
14 12 0.12
15 32 0.33
16 10 0.10
17 14 0.15
18 20 0.21
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (15 bp):
TATTATCTATTTTAT
Found at i:88381755 original size:18 final size:18
Alignment explanation
Indices: 88381732--88381786 Score: 78
Period size: 18 Copynumber: 3.1 Consensus size: 18
88381722 ATATTATTTA
88381732 TTTTATTATTCTATCTAT
1 TTTTATTATTCTATCTAT
88381750 TTTTATTATTCTATCTAT
1 TTTTATTATTCTATCTAT
88381768 TATTATATTA-TCTAT-TAT
1 T-TT-TATTATTCTATCTAT
88381786 T
1 T
88381787 ATATTATCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
18 23 0.66
19 7 0.20
20 5 0.14
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTATTATTCTATCTAT
Found at i:88381757 original size:30 final size:32
Alignment explanation
Indices: 88381721--88381870 Score: 104
Period size: 30 Copynumber: 4.7 Consensus size: 32
88381711 TCTATATTTC
88381721 TATATTATTTATTTTATTAT-TCTATCTATT-T
1 TATATTATTTATTTTATTATAT-TATCTATTAT
88381752 T-TATTATTCTATCTATTATTATATTATCTATTAT
1 TATATTATT-TAT-T-TTATTATATTATCTATTAT
* *
88381786 TATATTATCTA-TTTA-TATATTAT-TTTTA-
1 TATATTATTTATTTTATTATATTATCTATTAT
* * *
88381814 TATATTA-TTATATATATTTTATT-TCTATTTAG
1 TATATTATTTAT-TTTATTATATTATCTA-TTAT
88381846 T-TATTATTTAGTTATTATTTATATT
1 TATATTATTTA-TT-TTA-TTATATT
88381871 TAGTATATTT
Statistics
Matches: 95, Mismatches: 8, Indels: 29
0.72 0.06 0.22
Matches are distributed among these distances:
27 2 0.02
28 7 0.07
29 8 0.08
30 21 0.22
31 15 0.16
32 7 0.07
33 18 0.19
34 11 0.12
35 6 0.06
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (32 bp):
TATATTATTTATTTTATTATATTATCTATTAT
Found at i:88381780 original size:33 final size:31
Alignment explanation
Indices: 88381723--88381870 Score: 100
Period size: 33 Copynumber: 4.7 Consensus size: 31
88381713 TATATTTCTA
88381723 TATTATTTATT-TTATTAT-TCTATCTATTTT
1 TATTATTTATTATTATTATAT-TATCTATTTT
*
88381753 TATTATTCTATCTATTATTATATTATCTATTAT
1 TATTATT-TAT-TATTATTATATTATCTATTTT
88381786 TA-TA-TTATCTA-T-TTATA-TAT-TATTTT
1 TATTATTTAT-TATTATTATATTATCTATTTT
*
88381812 TA-TATATTATTA-TATATATTTTATTTCTATTTAGT
1 TATTAT-TTATTATTAT-TATATTA--TCTATTT--T
88381847 TATTATTTAGTTATTATTTATATT
1 TATTATTTA-TTATTA-TTATATT
88381871 TAGTATATTT
Statistics
Matches: 96, Mismatches: 4, Indels: 29
0.74 0.03 0.22
Matches are distributed among these distances:
26 9 0.09
27 6 0.06
28 10 0.10
29 4 0.04
30 15 0.16
31 4 0.04
32 4 0.04
33 23 0.24
34 1 0.01
35 6 0.06
36 6 0.06
37 7 0.07
38 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (31 bp):
TATTATTTATTATTATTATATTATCTATTTT
Found at i:88381820 original size:48 final size:46
Alignment explanation
Indices: 88381669--88381895 Score: 142
Period size: 43 Copynumber: 5.0 Consensus size: 46
88381659 ATTAATAATA
* * * *
88381669 TTTATATTATTATATT-TATATTAATATATTTCGATTTATAAATCTATA
1 TTTATA-TATTATATTATATATTATTATATTTCTATTTAT-TAT-TATT
*
88381717 TTTCTATATTAT-TTAT-T-TTATTAT-TCTATCTATTT-TTATTATT
1 TTTATATATTATATTATATATTATTATAT-T-TCTATTTATTATTATT
*
88381760 CTATCTAT-TATTATATTATCTATTATTATATTATCTATTTATATATTATT
1 -T-T-TATATATTATATTATATATTATTATATT-TCTATTTAT-TATTATT
*
88381810 TTTATATA-T-TATTATATA-TATTTTATTTCTATTTAGTTATTA--
1 TTTATATATTATATTATATATTATTATATTTCTATTTA-TTATTATT
* **
88381852 TTTAGT-TATTAT-TTATAT-TTAGTATATTTAGAATTTATTATTAT
1 TTTA-TATATTATATTATATATTATTATATTT-CTATTTATTATTAT
88381896 GTAATTTAAG
Statistics
Matches: 147, Mismatches: 12, Indels: 44
0.72 0.06 0.22
Matches are distributed among these distances:
42 6 0.04
43 25 0.17
44 23 0.16
45 24 0.16
46 23 0.16
47 12 0.08
48 24 0.16
49 3 0.02
50 7 0.05
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (46 bp):
TTTATATATTATATTATATATTATTATATTTCTATTTATTATTATT
Found at i:88381842 original size:23 final size:24
Alignment explanation
Indices: 88381715--88381842 Score: 76
Period size: 23 Copynumber: 5.4 Consensus size: 24
88381705 TATAAATCTA
*
88381715 TATTTCTA-TATTATTTATT-TTAT
1 TATTTCTATTATTATATATTATT-T
* *
88381738 TA-TTCTATCTATT-TTTATTATTC
1 TATTTCTAT-TATTATATATTATTT
88381761 TA--TCTATTATTATATTATCTATTAT
1 TATTTCTATTATTATA-TAT-TATT-T
*
88381786 TATAT-TATCTATTTATATATTATTT
1 TATTTCTAT-TA-TTATATATTATTT
* *
88381811 T-TATATATTATTATATA-TATTT
1 TATTTCTATTATTATATATTATTT
88381833 TATTTCTATT
1 TATTTCTATT
88381843 TAGTTATTAT
Statistics
Matches: 87, Mismatches: 5, Indels: 26
0.74 0.04 0.22
Matches are distributed among these distances:
21 4 0.05
22 17 0.20
23 26 0.30
24 15 0.17
25 7 0.08
26 7 0.08
27 6 0.07
28 5 0.06
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (24 bp):
TATTTCTATTATTATATATTATTT
Found at i:88381853 original size:11 final size:11
Alignment explanation
Indices: 88381839--88381866 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
88381829 ATTTTATTTC
88381839 TATTTAGTTAT
1 TATTTAGTTAT
88381850 TATTTAGTTAT
1 TATTTAGTTAT
88381861 TATTTA
1 TATTTA
88381867 TATTTAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (11 bp):
TATTTAGTTAT
Found at i:88381855 original size:21 final size:21
Alignment explanation
Indices: 88381775--88381869 Score: 63
Period size: 22 Copynumber: 4.3 Consensus size: 21
88381765 TATTATTATA
*
88381775 TTATCTATTATTATATTATCTAT
1 TTATATATTATT-TATT-TCTAT
*
88381798 TTATATATTA-TT-TTTATAT
1 TTATATATTATTTATTTCTAT
88381817 ATTATTATATATATTTTATTTCTAT
1 -TTA-TATAT-TA-TTTATTTCTAT
88381842 TTAGT-TATTATTTAGTTAT-TAT
1 TTA-TATATTATTTA-TT-TCTAT
88381864 TTATAT
1 TTATAT
88381870 TTAGTATATT
Statistics
Matches: 59, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
19 4 0.07
20 5 0.08
21 11 0.19
22 14 0.24
23 13 0.22
24 6 0.10
25 6 0.10
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (21 bp):
TTATATATTATTTATTTCTAT
Found at i:88381870 original size:28 final size:26
Alignment explanation
Indices: 88381723--88381881 Score: 100
Period size: 27 Copynumber: 6.0 Consensus size: 26
88381713 TATATTTCTA
*
88381723 TATTATTTAT-TTTATTA-T-TCTAT
1 TATTATTTATATTTATTATTATTTAT
88381746 CTATT-TTTATTATTCTATCTATTATTATAT
1 -TATTATTTA-TATT-TAT-TATTATT-TAT
*
88381776 TATCTA-TTAT-TATATTATCTATTTAT
1 TAT-TATTTATATTTATTAT-TATTTAT
* *
88381802 ATATTATTTTTATATATTATTATATATAT
1 -TATTATTTATATTTATTATTAT-T-TAT
*
88381831 T-TTATTTCTATTTAGTTATTATTTAGT
1 TATTATTTATATTTA-TTATTATTTA-T
*
88381858 TATTATTTATATTTAGTA-TATTTA
1 TATTATTTATATTTATTATTATTTA
88381882 GAATTTATTA
Statistics
Matches: 110, Mismatches: 7, Indels: 34
0.73 0.05 0.23
Matches are distributed among these distances:
23 4 0.04
24 5 0.05
25 2 0.02
26 19 0.17
27 34 0.31
28 31 0.28
29 8 0.07
30 7 0.06
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (26 bp):
TATTATTTATATTTATTATTATTTAT
Found at i:88381942 original size:16 final size:16
Alignment explanation
Indices: 88381921--88381955 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
88381911 TAGAAAATTA
88381921 ATAATTTAAT-TTAAGT
1 ATAATTTAATATTAA-T
88381937 ATAATTTAATATTAAT
1 ATAATTTAATATTAAT
88381953 ATA
1 ATA
88381956 TAAATTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
ATAATTTAATATTAAT
Found at i:88383176 original size:46 final size:45
Alignment explanation
Indices: 88383031--88383250 Score: 157
Period size: 46 Copynumber: 4.8 Consensus size: 45
88383021 GCATATCTGT
* *
88383031 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GACAC-ATCTCATA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CACGCTCTCAAA
* * * * * *
88383077 GCCGATGCATATCCTAGACATGTCTTATACTGGCTTACG-TCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC--ACGCTCTCAAA
*
88383123 GCCGATGCATGTCCCAAACATGTCTTACACTAGCACGCATCTCAAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACGC-TCTCAAA
* *
88383169 GCTGATGCCATGTCCCAGACATGGTATTACAC-A--A-GCTCTCATAA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACGCTCTCA-AA
* *
88383213 TGTGCCCGTTGCATGTCCCAAACATGTCTTACACTAGC
1 ---G-CCGATGCATGTCCCAGACATGTCTTACACTAGC
88383251 TCACAATAAC
Statistics
Matches: 138, Mismatches: 20, Indels: 29
0.74 0.11 0.16
Matches are distributed among these distances:
43 5 0.04
44 17 0.12
45 14 0.10
46 61 0.44
47 29 0.21
48 12 0.09
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACGCTCTCAAA
Found at i:88386097 original size:29 final size:29
Alignment explanation
Indices: 88386055--88386115 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
88386045 TCCCGGGTGA
88386055 TAGTCAATTATCAGCTCATAATCCTTTAT
1 TAGTCAATTATCAGCTCATAATCCTTTAT
*
88386084 TAGTTAATTATCAGCTCATAATCCTTTAT
1 TAGTCAATTATCAGCTCATAATCCTTTAT
88386113 TAG
1 TAG
88386116 CTCTAGCCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.43
Consensus pattern (29 bp):
TAGTCAATTATCAGCTCATAATCCTTTAT
Found at i:88390034 original size:28 final size:27
Alignment explanation
Indices: 88389973--88390040 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
88389963 AGTGAGTCCA
88389973 CACACTTAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTATATAATCAACTCG
*
88390000 CACACTTAGTGCTATATGATCAAACTCG
1 CACACTTAGTGCTATATAATC-AACTCG
88390028 CACACTTAGTGCT
1 CACACTTAGTGCT
88390041 GTACAAATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 20 0.51
28 19 0.49
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.29
Consensus pattern (27 bp):
CACACTTAGTGCTATATAATCAACTCG
Found at i:88393774 original size:46 final size:46
Alignment explanation
Indices: 88393667--88393887 Score: 166
Period size: 46 Copynumber: 4.8 Consensus size: 46
88393657 GCATATCTGT
*
88393667 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GAC--ACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTACATATCG-AG
* * * * *
88393713 GCTGATGCATATCCCAGACATGTCTTACACTGGCTTACGTTTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAG
* * * * * *
88393759 GCCGATGCATGTCCCAAACATGTATTACACTAGCACT-CGTATCAAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TTACATATCGAG
* * ** *
88393805 GCCAATGCTATGTCCCAGACATGGTCTTACACAAGCTCCCATAAT-GTG
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCTTACAT-ATCGAG
*
88393853 GCCGTTGCATGTCCCAGACATGTCTTACACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
88393888 CACAGTAACC
Statistics
Matches: 140, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 67 0.48
47 26 0.19
48 19 0.14
49 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAG
Found at i:88396083 original size:14 final size:14
Alignment explanation
Indices: 88396064--88396092 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
88396054 GTTTGGGACT
88396064 TAAGGAGTTGTAGG
1 TAAGGAGTTGTAGG
88396078 TAAGGAGTTGTAGG
1 TAAGGAGTTGTAGG
88396092 T
1 T
88396093 GAAATGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.41, T:0.31
Consensus pattern (14 bp):
TAAGGAGTTGTAGG
Found at i:88397085 original size:15 final size:15
Alignment explanation
Indices: 88397065--88397102 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
88397055 TTTTAGAATT
88397065 AGTTTTCTCTGTGCA
1 AGTTTTCTCTGTGCA
*
88397080 AGTTTTCTTTGTGCA
1 AGTTTTCTCTGTGCA
*
88397095 AGATTTCT
1 AGTTTTCT
88397103 TTCTTGAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.50
Consensus pattern (15 bp):
AGTTTTCTCTGTGCA
Found at i:88398709 original size:49 final size:49
Alignment explanation
Indices: 88398656--88398887 Score: 302
Period size: 49 Copynumber: 4.7 Consensus size: 49
88398646 TTGGTACGCA
* *
88398656 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* ** * *
88398705 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * *
88398755 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* *
88398806 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
88398855 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
88398888 TCACAATAGA
Statistics
Matches: 157, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
49 72 0.46
50 47 0.30
51 38 0.24
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:88398884 original size:100 final size:99
Alignment explanation
Indices: 88398656--88398887 Score: 322
Period size: 100 Copynumber: 2.3 Consensus size: 99
88398646 TTGGTACGCA
* * **
88398656 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* * *
88398721 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACAATCCGATACACG
* * *
88398755 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* * *
88398820 TAGTACTACACATGCGACC-AATAATCCGGTACACG
64 TAGTACTACACACGCGACCTAACAATCCGATACACG
88398855 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
88398888 TCACAATAGA
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
99 30 0.26
100 46 0.39
101 41 0.35
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACAATCCGATACACG
Found at i:88403271 original size:48 final size:46
Alignment explanation
Indices: 88403209--88403377 Score: 169
Period size: 48 Copynumber: 3.6 Consensus size: 46
88403199 TGATATGTGT
*
88403209 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTTGAGATATTTAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGACCTTGAGATA--TAA
* * * * *
88403257 GCCAGTGTAAGACATGTTTAGGACATGCATCGGCATTGAGATGA-GA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGACCTTGAGAT-ATAA
* * * * * *
88403303 GTTAGTGTAAGACATATCTGGGTCATGCATCGACCTCGCGATATACAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGACCTTGAGATAT--AA
*
88403351 GCTAGTGTAAGACCTGTCTAGGACATG
1 GCTAGTGTAAGACATGTCTAGGACATG
88403378 GCGTCAGCTT
Statistics
Matches: 95, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
45 1 0.01
46 33 0.35
48 60 0.63
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGACCTTGAGATATAA
Found at i:88403457 original size:49 final size:49
Alignment explanation
Indices: 88403400--88403521 Score: 158
Period size: 49 Copynumber: 2.5 Consensus size: 49
88403390 AGTGTGTCAG
*
88403400 TGTAAGACCTGGT-TGGGACATGGCATCGACAC-CGATAGATGAGAGCCAA
1 TGTAAGACCT-GTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCCAA
* * * *
88403449 TGTAAGACCTGTCTGGGACATGGCATCGGCCTCGCTATATGAAAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCCAA
88403498 TGTAAGACCATGTCTGGGACATGG
1 TGTAAGACC-TGTCTGGGACATGG
88403522 TGTTGGCATT
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
48 3 0.05
49 48 0.74
50 14 0.22
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.21
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCCAA
Found at i:88404704 original size:21 final size:20
Alignment explanation
Indices: 88404670--88404709 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
88404660 GTGATAATGA
*
88404670 CCACACGAGTGTGTTGCCCTT
1 CCACACGAGCGTG-TGCCCTT
*
88404691 CCACACGGGCGTGTGCCCT
1 CCACACGAGCGTGTGCCCT
88404710 GTTTTAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (20 bp):
CCACACGAGCGTGTGCCCTT
Found at i:88412116 original size:19 final size:20
Alignment explanation
Indices: 88412081--88412118 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
88412071 ATTTTTTCCT
*
88412081 ATAAAGATCAAATCATCAAC
1 ATAAAGATCAAACCATCAAC
88412101 ATAAAGA-CAAACCATCAA
1 ATAAAGATCAAACCATCAA
88412119 AAGATCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.58, C:0.21, G:0.05, T:0.16
Consensus pattern (20 bp):
ATAAAGATCAAACCATCAAC
Found at i:88415751 original size:16 final size:16
Alignment explanation
Indices: 88415727--88415774 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
88415717 TTTTGTTAAG
*
88415727 TAATTTTTAGTGATTT
1 TAATGTTTAGTGATTT
88415743 TAATGTTTAGAT-ATTT
1 TAATGTTTAG-TGATTT
* *
88415759 TAATGGTTAGGGATTT
1 TAATGTTTAGTGATTT
88415775 ATTTGTGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 26 0.96
17 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (16 bp):
TAATGTTTAGTGATTT
Found at i:88419156 original size:71 final size:71
Alignment explanation
Indices: 88419072--88419235 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
88419062 CGATTTGTCT
88419072 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
88419137 CTTTCA
66 CTTTCA
88419143 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
88419208 CTTTCA
66 CTTTCA
88419214 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
88419236 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:88419273 original size:71 final size:70
Alignment explanation
Indices: 88419072--88419269 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
88419062 CGATTTGTCT
* * * *
88419072 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
88419137 CTTTCA
65 CTTTCA
* * * *
88419143 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
88419208 CTTTCA
65 CTTTCA
* *
88419214 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
88419270 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:88426735 original size:71 final size:71
Alignment explanation
Indices: 88426651--88426814 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
88426641 CGATTTGTCT
88426651 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
88426716 CTTTCA
66 CTTTCA
88426722 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
88426787 CTTTCA
66 CTTTCA
88426793 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
88426815 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:88426852 original size:71 final size:70
Alignment explanation
Indices: 88426651--88426848 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
88426641 CGATTTGTCT
* * * *
88426651 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
88426716 CTTTCA
65 CTTTCA
* * * *
88426722 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
88426787 CTTTCA
65 CTTTCA
* *
88426793 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
88426849 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:88432788 original size:43 final size:43
Alignment explanation
Indices: 88432727--88432811 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
88432717 TAAGACAAGG
* *
88432727 ATACCATGTAATATCATGTTTGGAACATGGCATTTGGTAAGAC
1 ATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAC
88432770 ATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGA
1 ATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGA
88432812 TAAGGATATC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (43 bp):
ATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAC
Found at i:88432829 original size:18 final size:18
Alignment explanation
Indices: 88432806--88432866 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
88432796 ATGGCATTTG
88432806 GTAAGATAAGGATATCAT
1 GTAAGATAAGGATATCAT
* * * * *
88432824 GTAAGACCATGCAAAT-TT
1 GTAAGA-TAAGGATATCAT
88432842 GGTAAGATAAGGATATCAT
1 -GTAAGATAAGGATATCAT
88432861 GTAAGA
1 GTAAGA
88432867 CCATGCAAAA
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
18 18 0.60
19 12 0.40
ACGTcount: A:0.43, C:0.08, G:0.23, T:0.26
Consensus pattern (18 bp):
GTAAGATAAGGATATCAT
Found at i:88432842 original size:37 final size:37
Alignment explanation
Indices: 88432801--88432875 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
88432791 GGAACATGGC
88432801 ATTTGGTAAGATAAGGATATCATGTAAGACCATGCAA
1 ATTTGGTAAGATAAGGATATCATGTAAGACCATGCAA
88432838 ATTTGGTAAGATAAGGATATCATGTAAGACCATGCAA
1 ATTTGGTAAGATAAGGATATCATGTAAGACCATGCAA
88432875 A
1 A
88432876 AGCATGGCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (37 bp):
ATTTGGTAAGATAAGGATATCATGTAAGACCATGCAA
Found at i:88432914 original size:54 final size:56
Alignment explanation
Indices: 88432850--88432996 Score: 185
Period size: 54 Copynumber: 2.7 Consensus size: 56
88432840 TTGGTAAGAT
88432850 AAGGATATCATGTAAGACCATGCAAAAGCATGGCATTGATAACTT-CTATAAGGC-
1 AAGGATATCATGTAAGACCATGCAAAAGCATGGCATTGATAACTTACTATAAGGCA
* * * *
88432904 AAGGAAATCATGTAAGACCATGTCAAGA-CATGGCATTGATGAGTTACTATAAGGCA
1 AAGGATATCATGTAAGACCATG-CAAAAGCATGGCATTGATAACTTACTATAAGGCA
** * *
88432960 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTG
1 AAGGATATCATGTAAGACCATGCAAAAGCATGGCATTG
88432997 GTGAGTTCAT
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
54 38 0.48
55 37 0.47
56 4 0.05
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (56 bp):
AAGGATATCATGTAAGACCATGCAAAAGCATGGCATTGATAACTTACTATAAGGCA
Found at i:88432979 original size:55 final size:54
Alignment explanation
Indices: 88432850--88433046 Score: 220
Period size: 55 Copynumber: 3.6 Consensus size: 54
88432840 TTGGTAAGAT
* * * *
88432850 AAGGATATCATGTAAGACCATG-CAAAAGCATGGCATTGATAACTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGA-CATGGCATTGATGAGTTCTATAAGGC
* *
88432904 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * * *
88432959 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAAGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
88433012 AAGGATACCACGTAAGATCATGTCAAGATATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
88433047 ATTGTAAGTT
Statistics
Matches: 122, Mismatches: 17, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
52 4 0.03
53 30 0.25
54 37 0.30
55 47 0.39
56 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:88435172 original size:28 final size:28
Alignment explanation
Indices: 88435136--88435240 Score: 106
Period size: 28 Copynumber: 3.7 Consensus size: 28
88435126 ACATACTTGT
* * *
88435136 ATATAGCCCACTAGGCCCAATTTATTTC
1 ATATGGCCCATTAGGCCCAATTCATTTC
* *
88435164 ATATGGCCCATGAGGCCCAAATCACATTT-
1 ATATGGCCCATTAGGCCC-AAT-TCATTTC
* *
88435193 ATATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAATTCA-TTTC
88435222 ATATGG-CCATTAGGCCCAA
1 ATATGGCCCATTAGGCCCAA
88435241 ATCACATTTA
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
27 2 0.03
28 32 0.50
29 26 0.41
30 4 0.06
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATTCATTTC
Found at i:88435196 original size:57 final size:57
Alignment explanation
Indices: 88435135--88435250 Score: 162
Period size: 57 Copynumber: 2.0 Consensus size: 57
88435125 CACATACTTG
* * *
88435135 TATATAGCCCACTAGGCCCAATTTA-TTTCATATGGCCCATGAGGCCCAAATCACATT
1 TATATAGCCCACTAGGCCCAAATCACATTCATATGG-CCATGAGGCCCAAATCACATT
* * *
88435192 TATATGGCCCATTAGGCCCAAATCACATTCATATGGCCATTAGGCCCAAATCACATT
1 TATATAGCCCACTAGGCCCAAATCACATTCATATGGCCATGAGGCCCAAATCACATT
88435249 TA
1 TA
88435251 CAGTCATGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 43 0.83
58 9 0.17
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (57 bp):
TATATAGCCCACTAGGCCCAAATCACATTCATATGGCCATGAGGCCCAAATCACATT
Found at i:88435241 original size:28 final size:29
Alignment explanation
Indices: 88435161--88435248 Score: 151
Period size: 29 Copynumber: 3.1 Consensus size: 29
88435151 CCCAATTTAT
*
88435161 TTCATATGGCCCATGAGGCCCAAATCACA
1 TTCATATGGCCCATTAGGCCCAAATCACA
*
88435190 TTTATATGGCCCATTAGGCCCAAATCACA
1 TTCATATGGCCCATTAGGCCCAAATCACA
88435219 TTCATATGG-CCATTAGGCCCAAATCACA
1 TTCATATGGCCCATTAGGCCCAAATCACA
88435247 TT
1 TT
88435249 TACAGTCATG
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 21 0.38
29 35 0.62
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (29 bp):
TTCATATGGCCCATTAGGCCCAAATCACA
Found at i:88438273 original size:53 final size:52
Alignment explanation
Indices: 88438090--88438343 Score: 250
Period size: 55 Copynumber: 4.8 Consensus size: 52
88438080 ATTAGGGTTT
*
88438090 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCTAAGGC
* * *
88438145 AAGTGA-ATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAG-GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C--TAAGGC
* * *
88438200 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTC-TAAGGC
* * * *
88438253 AAGGATACCATGTTAGACCATGTCAAGATATGGCAATGGTAAGTT-TAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTAAGGC
* * * *
88438301 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
88438344 GTACCCGCGT
Statistics
Matches: 170, Mismatches: 22, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
48 38 0.22
51 3 0.02
52 6 0.04
53 42 0.25
54 8 0.05
55 68 0.40
56 5 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTAAGGC
Found at i:88438296 original size:108 final size:110
Alignment explanation
Indices: 88438097--88438297 Score: 302
Period size: 108 Copynumber: 1.8 Consensus size: 110
88438087 TTTAAGGATA
*
88438097 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGTGAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGTGAACCATGTAAGA
*
88438162 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
88438207 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAG-GATACCATGTTA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGTGA-ACCATGTAA
* *
88438268 GACCATGTCAAGATATGGCAATGGTAAGTT
64 GACCATGTCAAGACATGGCAATGATAAGTT
88438298 TAAAAGGATA
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
107 5 0.06
108 44 0.53
109 7 0.08
110 27 0.33
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGTGAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:88442021 original size:42 final size:42
Alignment explanation
Indices: 88441912--88442073 Score: 202
Period size: 42 Copynumber: 3.8 Consensus size: 42
88441902 CCGTACCATT
* *
88441912 GCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCGAC
1 GCCATATCCCAGATATGGTCTTACACGTAATCTCATATCGAC
* * *
88441954 GCCAATAGT-CCAGCTATGGTCTTACACG-AAGTCTCATATAGAT
1 GCC-ATA-TCCCAGATATGGTCTTACACGTAA-TCTCATATCGAC
* *
88441997 GCCATATCCCAGATATGGTCTTACACGAAATCTCATACCGAC
1 GCCATATCCCAGATATGGTCTTACACGTAATCTCATATCGAC
* *
88442039 ACCATATGCCAGATATGGTCTTACACGTAATCTCA
1 GCCATATCCCAGATATGGTCTTACACGTAATCTCA
88442074 ACTAACCCTA
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
41 1 0.01
42 67 0.65
43 34 0.33
44 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACACGTAATCTCATATCGAC
Found at i:88445576 original size:28 final size:27
Alignment explanation
Indices: 88445532--88445635 Score: 86
Period size: 28 Copynumber: 3.7 Consensus size: 27
88445522 CTGCACAATC
*
88445532 GATGTCTT-GCACGCTAAGTGCTATACCG
1 GATGT-TTCGCACACTAAGTGCTAT-CCG
* *
88445560 GATGTTTCGCACACTAAGTGCCATCCTC
1 GATGTTTCGCACACTAAGTGCTATCC-G
** *
88445588 GATACTTCGCACACTAAGTG-TCATTTCG
1 GATGTTTCGCACACTAAGTGCT-A-TCCG
*
88445616 GATGTTTCGCACATTAAGTG
1 GATGTTTCGCACACTAAGTG
88445636 TCATCATCAA
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
27 4 0.07
28 55 0.90
29 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (27 bp):
GATGTTTCGCACACTAAGTGCTATCCG
Found at i:88445636 original size:28 final size:29
Alignment explanation
Indices: 88445558--88445719 Score: 115
Period size: 28 Copynumber: 5.8 Consensus size: 29
88445548 AGTGCTATAC
*
88445558 CGGATGTTTCGCACACTAAGTGCCATCCT
1 CGGATGTTTCGCACACTAAGTGTCATCCT
** *
88445587 C-GATACTTCGCACACTAAGTGTCAT-TT
1 CGGATGTTTCGCACACTAAGTGTCATCCT
* *
88445614 CGGATGTTTCGCACATTAAGTGTCATCAT
1 CGGATGTTTCGCACACTAAGTGTCATCCT
* ** ** *
88445643 C-AATACTTCATACACT--GTGTCAT-TT
1 CGGATGTTTCGCACACTAAGTGTCATCCT
*
88445668 CGGATGTCTT-GCACACTAAGTGCCATCCT
1 CGGATGT-TTCGCACACTAAGTGTCATCCT
* **
88445697 C-AATACTTCGCACACTAAGTGTC
1 CGGATGTTTCGCACACTAAGTGTC
88445720 GTTCGTTTGG
Statistics
Matches: 99, Mismatches: 26, Indels: 17
0.70 0.18 0.12
Matches are distributed among these distances:
25 2 0.02
26 14 0.14
27 6 0.06
28 72 0.73
29 5 0.05
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (29 bp):
CGGATGTTTCGCACACTAAGTGTCATCCT
Found at i:88445688 original size:54 final size:55
Alignment explanation
Indices: 88445558--88445719 Score: 220
Period size: 54 Copynumber: 2.9 Consensus size: 55
88445548 AGTGCTATAC
* *
88445558 CGGATGTTTCGCACACTAAGTGCCATCCTCGATACTTCGCACACTAAGTGTCATTT
1 CGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTCACACACT-AGTGTCATTT
* * * *
88445614 CGGATGTTTCGCACATTAAGTGTCATCATCAATACTTCATACACT-GTGTCATTT
1 CGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTCACACACTAGTGTCATTT
*
88445668 CGGATGTCTT-GCACACTAAGTGCCATCCTCAATACTTCGCACACTAAGTGTC
1 CGGATGT-TTCGCACACTAAGTGCCATCCTCAATACTTCACACACT-AGTGTC
88445720 GTTCGTTTGG
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
54 46 0.50
55 2 0.02
56 44 0.48
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (55 bp):
CGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTCACACACTAGTGTCATTT
Found at i:88448772 original size:51 final size:51
Alignment explanation
Indices: 88448690--88448789 Score: 121
Period size: 52 Copynumber: 2.0 Consensus size: 51
88448680 ATGAACAAAT
* *
88448690 GAGTTACTTAATACATGACATAACTTAATGATGTAAACTTTAACTAACATAG
1 GAGTTACATAATACATGACATAACTTAATGATGCAAAC-TTAACTAACATAG
* * * * *
88448742 GAGTTACATAATGCATGTCATCA-TTTATGATGCAAACTTAAGTAACAT
1 GAGTTACATAATACATGACATAACTTAATGATGCAAACTTAACTAACAT
88448790 GATGTCTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 10 0.24
51 12 0.29
52 19 0.46
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (51 bp):
GAGTTACATAATACATGACATAACTTAATGATGCAAACTTAACTAACATAG
Found at i:88451800 original size:40 final size:39
Alignment explanation
Indices: 88451755--88451903 Score: 144
Period size: 39 Copynumber: 3.8 Consensus size: 39
88451745 GAATAAGTCC
88451755 CGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGA-T
1 CGAAGGCATTTGTGC-AAGTGACTA-ATCCGGACTAAGATT
* *
88451794 CTGAAGGCATTTGTGCGAGTTACTAATCCGGACTAAGATT
1 C-GAAGGCATTTGTGCAAGTGACTAATCCGGACTAAGATT
* * **
88451834 CGAAGGCATTTGTGCGAGTTACTAATCCCAGG-CTAAG-CC
1 CGAAGGCATTTGTGCAAGTGACTAAT-CC-GGACTAAGATT
* *
88451873 CGAAGGCATTTGTGCGAGTTACTAAATCCGG
1 CGAAGGCATTTGTGCAAGTGACT-AATCCGG
88451904 GTTAAGTCCC
Statistics
Matches: 100, Mismatches: 4, Indels: 13
0.85 0.03 0.11
Matches are distributed among these distances:
38 2 0.02
39 64 0.64
40 25 0.25
41 9 0.09
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (39 bp):
CGAAGGCATTTGTGCAAGTGACTAATCCGGACTAAGATT
Found at i:88451915 original size:40 final size:40
Alignment explanation
Indices: 88451748--88451964 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
88451738 ATGTCCGGAA
* * * *
88451748 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGC
* *
88451788 TAAGAT-CTGAAGGCATTTGTGCGAGTTACT-AATCCGGAC
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
* *
88451827 TAAGAT-TCGAAGGCATTTGTGCGAGTTACT-AATCCCAGGC
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT-CCGGGC
*
88451867 TAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
*
88451906 TAAGTCCCGAAGGCATTTATGCGAGTTACTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGC
* *
88451946 TATGTCCCGAAGGTATTTG
1 TAAGTCCCGAAGGCATTTG
88451965 AATGAGTAGC
Statistics
Matches: 154, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
39 70 0.45
40 74 0.48
41 10 0.06
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
Found at i:88451947 original size:79 final size:79
Alignment explanation
Indices: 88451741--88451964 Score: 240
Period size: 79 Copynumber: 2.8 Consensus size: 79
88451731 TCGAATGATG
* * * * * * *
88451741 TCCGGAATAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCTGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAGACCCGAAGGCATT
88451805 TGTGCGAGTTACTAA
65 TGTGCGAGTTACTAA
* * *
88451820 TCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGTTACTA-ATCCCAGGCTAAG-CCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTAAGACCCGAAGGCAT
88451882 TTGTGCGAGTTACTAAA
64 TTGTGCGAGTTACT-AA
** * * * *
88451899 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATAACCGGGCTATGTCCCGAAGGTATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGACCCGAAGGCATTT
88451964 G
66 G
88451965 AATGAGTAGC
Statistics
Matches: 121, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 25 0.21
79 74 0.61
80 22 0.18
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (79 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGACCCGAAGGCATTT
GTGCGAGTTACTAA
Found at i:88451996 original size:79 final size:79
Alignment explanation
Indices: 88451796--88451997 Score: 189
Period size: 79 Copynumber: 2.6 Consensus size: 79
88451786 ACTAAGATCT
** ** *
88451796 GAAGGCATTTGTGCGAGTTACT-AATCCGGACTAAGA-TTCGAAGGCATTTGTGCGAGTTACTAA
1 GAAGGCATTTGAACGAGTTACTAAATCCGGGTTAA-ATTTCGAAGGCATTTATGCGAGTTACTAA
*
88451859 TCCCAGGCTAAGCCC
65 TACCAGGCTAAGCCC
** * **
88451874 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACT-AT
1 GAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATTTCGAAGGCATTTATGCGAGTTACTAAT
* *
88451938 AACCGGGCTATGTCCC
66 -ACCAGGCTAAG-CCC
* * *
88451954 GAAGGTATTTGAATGAG-TAGCTATATCC-GGTTAAATTTCGAAGG
1 GAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATTTCGAAGG
88451998 TACGTGATTT
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
78 24 0.24
79 55 0.54
80 23 0.23
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (79 bp):
GAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATTTCGAAGGCATTTATGCGAGTTACTAAT
ACCAGGCTAAGCCC
Found at i:88459908 original size:38 final size:38
Alignment explanation
Indices: 88459782--88459991 Score: 194
Period size: 39 Copynumber: 5.7 Consensus size: 38
88459772 TCGAATGATG
* *
88459782 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTT-TGC-GAGTTACTA-A
*
88459822 TCCGGACTAAGAT-CCGAAGGCA-TTT--GA-TTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTTGCGAGTTACTAA
*
88459856 ---GGACTAAGAT--CGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTT-TGCGAGTTACTAA
88459891 TCCGGGCTAAG-CCCGAAGGCA-TTTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTTGCGAGTTACT-AA
*
88459928 TCCGGGTTAAGTCCCGAAGGCATTTTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTTGCGAGTTACTA-A
* *
88459967 ACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTT
88459992 GAACGAGTAG
Statistics
Matches: 146, Mismatches: 8, Indels: 33
0.78 0.04 0.18
Matches are distributed among these distances:
30 8 0.05
31 12 0.08
32 1 0.01
34 3 0.02
35 12 0.08
36 12 0.08
37 14 0.10
38 26 0.18
39 37 0.25
40 20 0.14
41 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (38 bp):
TCCGGGCTAAGTCCCGAAGGCATTTTGCGAGTTACTAA
Found at i:88469057 original size:40 final size:40
Alignment explanation
Indices: 88469011--88469181 Score: 220
Period size: 40 Copynumber: 4.3 Consensus size: 40
88469001 TATGCTGGAA
* * * *
88469011 ATTATATCCGGGTTAAGACCCGAAGGCAAAT-GTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTT
**
88469051 GCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
*
88469091 ATTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
* * *
88469131 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTT
88469171 ATTATATCCGG
1 ATTATATCCGG
88469182 TTATATTCCG
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.97
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
Found at i:88469179 original size:80 final size:79
Alignment explanation
Indices: 88468975--88469181 Score: 220
Period size: 80 Copynumber: 2.6 Consensus size: 79
88468965 AAATTGAATG
* * * * * *
88468975 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AGTAATTATATCCGGGCTAAGACCCGAAGGCA
* *
88469039 AATGTGCTAGTGGCT
65 AATGTGCGAGTGACT
* * *
88469054 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTATTCTATCCGGGCTAAGACCCGAAGGC-
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AGTAATTATATCCGGGCTAAGACCCGAAGGCA
* * *
88469118 ATTCGTGCGAGTTATT
65 AAT-GTGCGAGTGACT
* *
88469134 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATTATATCCGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-GTAATTATATCCGG
88469182 TTATATTCCG
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 17 0.16
80 89 0.84
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAGTAATTATATCCGGGCTAAGACCCGAAGGCAA
ATGTGCGAGTGACT
Found at i:88475823 original size:21 final size:20
Alignment explanation
Indices: 88475789--88475827 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
88475779 GAGTATTTTG
88475789 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
* *
88475810 ATGTTTGATTATAGTTAT
1 ATGTTTAATGATAGTTAT
88475828 ACAAGTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:88497775 original size:40 final size:41
Alignment explanation
Indices: 88497727--88497908 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 41
88497717 AGTGCGCATG
* *
88497727 TTTGTACTTCGGTACTCTTGAATGCACATACA-TGCCCCTA
1 TTTGTACTTCGGTACCCCTGAATGCACATACAGTGCCCCTA
* * * *
88497767 TTTCTACTTCGGTACCCCTGAATGCACATA-AGTTCCCATG
1 TTTGTACTTCGGTACCCCTGAATGCACATACAGTGCCCCTA
* * *
88497807 TTTGTACTTCGGTACCCTTGAATACACA-AAAGTGCCCCTA
1 TTTGTACTTCGGTACCCCTGAATGCACATACAGTGCCCCTA
**
88497847 TTTGTACTTCGGTACCCCTGAATGCATTTAC-GTG-CCCTA
1 TTTGTACTTCGGTACCCCTGAATGCACATACAGTGCCCCTA
* * * *
88497886 TTTATACTCCGGTAACTCTGAAT
1 TTTGTACTTCGGTACCCCTGAAT
88497909 TATATATTAT
Statistics
Matches: 118, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
39 26 0.22
40 91 0.77
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.34
Consensus pattern (41 bp):
TTTGTACTTCGGTACCCCTGAATGCACATACAGTGCCCCTA
Found at i:88497845 original size:80 final size:80
Alignment explanation
Indices: 88497707--88497872 Score: 253
Period size: 80 Copynumber: 2.1 Consensus size: 80
88497697 CTTTTGAATA
* * * * *
88497707 AATGTACATAAGTGCGCATGTTTGTACTTCGGTACTCTTGAATGCACATACATGCCCCTATTTCT
1 AATGCACATAAGTGCCCATGTTTGTACTTCGGTACCCTTGAATACACATAAATGCCCCTATTTCT
88497772 ACTTCGGTACCCCTG
66 ACTTCGGTACCCCTG
* *
88497787 AATGCACATAAGTTCCCATGTTTGTACTTCGGTACCCTTGAATACACA-AAAGTGCCCCTATTTG
1 AATGCACATAAGTGCCCATGTTTGTACTTCGGTACCCTTGAATACACATAAA-TGCCCCTATTTC
88497851 TACTTCGGTACCCCTG
65 TACTTCGGTACCCCTG
88497867 AATGCA
1 AATGCA
88497873 TTTACGTGCC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
79 2 0.03
80 76 0.97
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.32
Consensus pattern (80 bp):
AATGCACATAAGTGCCCATGTTTGTACTTCGGTACCCTTGAATACACATAAATGCCCCTATTTCT
ACTTCGGTACCCCTG
Found at i:88498307 original size:22 final size:24
Alignment explanation
Indices: 88498260--88498307 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 24
88498250 TTTTGGTCAC
*
88498260 TTTTGGTAATTGATGTGTATGTCT
1 TTTTGGTAATTGATGTGTATGGCT
88498284 TTTTGGT-A-TGATGATGT-TGGCT
1 TTTTGGTAATTGATG-TGTATGGCT
88498306 TT
1 TT
88498308 GAAATGGCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 11 0.50
23 4 0.18
24 7 0.32
ACGTcount: A:0.15, C:0.04, G:0.27, T:0.54
Consensus pattern (24 bp):
TTTTGGTAATTGATGTGTATGGCT
Found at i:88506551 original size:40 final size:40
Alignment explanation
Indices: 88506514--88506696 Score: 200
Period size: 40 Copynumber: 4.6 Consensus size: 40
88506504 GCTACTCGTT
*
88506514 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
88506554 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
88506594 C-AATGCCTTCGGG-CTTAGCCCAG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * *
88506632 CAAATGCCTTC-GGATCTTAGTCCGAATT-TAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCG-GTTATAGTAAC-TCGCA
88506673 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
88506697 ACATCATTCG
Statistics
Matches: 120, Mismatches: 13, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
38 23 0.19
39 21 0.17
40 63 0.52
41 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:88506638 original size:78 final size:80
Alignment explanation
Indices: 88506516--88506695 Score: 233
Period size: 78 Copynumber: 2.3 Consensus size: 80
88506506 TACTCGTTCA
* ** *
88506516 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGAA
*
88506580 TTTAGTAAC-TCGCAC
65 TTTAGTAACTTAGCAC
**
88506595 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGAA
1 AATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGAA
*
88506658 TTTAGTCACTTAGCAC
65 TTTAGTAACTTAGCAC
*
88506674 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
88506696 GACATCATTC
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
77 3 0.03
78 46 0.52
79 31 0.35
80 8 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGAAT
TTAGTAACTTAGCAC
Found at i:88512594 original size:22 final size:23
Alignment explanation
Indices: 88512556--88512600 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
88512546 GTTAGATCAA
*
88512556 AAAATAAATTAGTCATTTTTATT
1 AAAATAAATTAGTCATTCTTATT
88512579 AAAAT-AATTA-TCCATTCTTATT
1 AAAATAAATTAGT-CATTCTTATT
88512601 GTCAAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 14 0.70
23 5 0.25
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (23 bp):
AAAATAAATTAGTCATTCTTATT
Found at i:88512927 original size:18 final size:17
Alignment explanation
Indices: 88512904--88512949 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
88512894 TATTGCTTTT
*
88512904 AAAAAATATTTTTGGGA
1 AAAAAATATTTTTGAGA
*
88512921 CAAAAAACATTTTTGAGA
1 -AAAAAATATTTTTGAGA
*
88512939 TAAAAATATTT
1 AAAAAATATTT
88512950 CTAAACAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.35
Consensus pattern (17 bp):
AAAAAATATTTTTGAGA
Found at i:88514493 original size:13 final size:13
Alignment explanation
Indices: 88514477--88514507 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
88514467 TCTATAACAA
88514477 AAAATAATAATTT
1 AAAATAATAATTT
*
88514490 AAAATAATGATTT
1 AAAATAATAATTT
88514503 AAAAT
1 AAAAT
88514508 TACAAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (13 bp):
AAAATAATAATTT
Found at i:88516116 original size:21 final size:22
Alignment explanation
Indices: 88516081--88516121 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
88516071 ATTAGAGAAA
* *
88516081 GCAAAGAGAGGGA-GGAGGAGG
1 GCAAAGAAAGCGAGGGAGGAGG
88516102 GCAAAGAAAGCGAGGGAGGA
1 GCAAAGAAAGCGAGGGAGGA
88516122 AGCAAAAACA
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:0.41, C:0.07, G:0.51, T:0.00
Consensus pattern (22 bp):
GCAAAGAAAGCGAGGGAGGAGG
Found at i:88516126 original size:21 final size:20
Alignment explanation
Indices: 88516079--88516127 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
88516069 CCATTAGAGA
* *
88516079 AAGCAAAGAGAGGGAGGAGG
1 AAGCAAAGAAAGCGAGGAGG
*
88516099 AGGGCAAAGAAAGCGAGGGAGG
1 A-AGCAAAGAAAGCGA-GGAGG
88516121 AAGCAAA
1 AAGCAAA
88516128 AACATCTGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.70
22 6 0.26
ACGTcount: A:0.47, C:0.08, G:0.45, T:0.00
Consensus pattern (20 bp):
AAGCAAAGAAAGCGAGGAGG
Found at i:88522271 original size:20 final size:20
Alignment explanation
Indices: 88522243--88522294 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
88522233 GTTCGCTTCT
88522243 CCCACGCCCGTGTATGTAAA
1 CCCACGCCCGTGTATGTAAA
* *
88522263 CCCATGCCCGTGTATGTAGA
1 CCCACGCCCGTGTATGTAAA
* *
88522283 CCTACGCTCGTG
1 CCCACGCCCGTG
88522295 CCAATCTAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.19, C:0.35, G:0.23, T:0.23
Consensus pattern (20 bp):
CCCACGCCCGTGTATGTAAA
Found at i:88529422 original size:11 final size:11
Alignment explanation
Indices: 88529408--88529448 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
88529398 AATCAAAAGA
88529408 AAAATAAGAAT
1 AAAATAAGAAT
88529419 AAAAT-A-AAT
1 AAAATAAGAAT
*
88529428 AAAATAAAAAT
1 AAAATAAGAAT
88529439 AAAATAAGAA
1 AAAATAAGAA
88529449 GATTCAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 8 0.30
10 2 0.07
11 17 0.63
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (11 bp):
AAAATAAGAAT
Found at i:88529424 original size:5 final size:5
Alignment explanation
Indices: 88529370--88529445 Score: 57
Period size: 6 Copynumber: 14.4 Consensus size: 5
88529360 TATGTCTTTC
* * *
88529370 AAAAT AAGA- AAATT AAAAT GAAAAT AAAAAT CAAAAGA AAAAT AAGAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT -AAAA-T AAAAT AA-AAT
88529419 AAAAT -AAAT AAAAT AAAAAT AAAAT AA
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AA
88529446 GAAGATTCAA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
4 6 0.11
5 23 0.40
6 28 0.49
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:88529433 original size:20 final size:20
Alignment explanation
Indices: 88529385--88529445 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
88529375 AAGAAAATTA
*
88529385 AAATGAAAATAAAAATCAAA-
1 AAAT-AAAATAAAAATAAAAT
* *
88529405 AGA-AAAATAAGAATAAAAT
1 AAATAAAATAAAAATAAAAT
88529424 AAATAAAATAAAAATAAAAT
1 AAATAAAATAAAAATAAAAT
88529444 AA
1 AA
88529446 GAAGATTCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 13 0.38
19 2 0.06
20 19 0.56
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (20 bp):
AAATAAAATAAAAATAAAAT
Found at i:88533612 original size:93 final size:93
Alignment explanation
Indices: 88533500--88533672 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
88533490 CGCCCATAAG
* *
88533500 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
88533565 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
88533593 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
88533658 ATGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
88533673 CAAATATCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:88533668 original size:46 final size:46
Alignment explanation
Indices: 88533493--88533668 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
88533483 TGTAACCCGC
* *
88533493 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
88533539 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
88533589 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
88533632 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
88533669 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.61
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:88533687 original size:46 final size:45
Alignment explanation
Indices: 88533544--88533687 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 45
88533534 CGCATCCATA
* * *
88533544 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
88533592 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
* *
88533637 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
88533683 AGTGA
1 AGTGA
88533688 CATGTCACTT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 36 0.47
47 30 0.39
48 5 0.07
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:88537609 original size:13 final size:13
Alignment explanation
Indices: 88537591--88537615 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88537581 GGTTTGTTTA
88537591 TTAAACTAATTAT
1 TTAAACTAATTAT
88537604 TTAAACTAATTA
1 TTAAACTAATTA
88537616 ACTAATTTAA
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:88551376 original size:49 final size:49
Alignment explanation
Indices: 88551265--88551436 Score: 172
Period size: 49 Copynumber: 3.5 Consensus size: 49
88551255 TGTTGTGTGT
** ** *
88551265 CAGTGTAAGACCTACCTAAGACATGGCATCGACAC-CGAT-TGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAT-ATGAAAGC
*
88551314 CAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCGATATATGAAAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAAAGC
* * ** * **
88551363 CAGTGTAAGACCTGTCTGGGACACGGCATTGA-CTTTA-ATGTGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAAAGC
88551410 CAGTGTAAGACCATGTCTGGGACATGG
1 CAGTGTAAGACC-TGTCTGGGACATGG
88551437 TGTCGGCATT
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
47 19 0.18
48 17 0.16
49 68 0.65
50 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAAAGC
Found at i:88551591 original size:136 final size:136
Alignment explanation
Indices: 88551346--88551606 Score: 387
Period size: 136 Copynumber: 1.9 Consensus size: 136
88551336 ATGGCATCGA
* * * ** *
88551346 CCTCGATATATGAAAGCCAGTGTAAGACCTGTCTGGGACACGGCATTGACTTTAATGTGCTAGCC
1 CCTCGAAATATGAAAGCCACTGTAAGACCAGTCTGGGACACGGCATCAACTTTAATGTGCTAGAC
* * * **
88551411 AGTGTAAGACCATGTCTGGGACATGGTGTCGGCATTTTATCCCATGCTCGGGGCTATTGAGTATG
66 AGTGTAAGACCATGTCTGGGACATAGTGTCAGCATTTTAACCCATGCTCAAGGCTATTGAGTATG
88551476 CATTGG
131 CATTGG
** *
88551482 CCTCGAAATATGAAAGTTACTGTATGACCAGTCTGGGACACGGCATCAACTTTAATGTGCTAGAC
1 CCTCGAAATATGAAAGCCACTGTAAGACCAGTCTGGGACACGGCATCAACTTTAATGTGCTAGAC
*
88551547 AGTGTAAGACCATGTCTGGGACATAGTGTCAGCATTTTAACCCATGTTCAAGGCTATTGA
66 AGTGTAAGACCATGTCTGGGACATAGTGTCAGCATTTTAACCCATGCTCAAGGCTATTGA
88551607 ATATCCGGTA
Statistics
Matches: 110, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
136 110 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (136 bp):
CCTCGAAATATGAAAGCCACTGTAAGACCAGTCTGGGACACGGCATCAACTTTAATGTGCTAGAC
AGTGTAAGACCATGTCTGGGACATAGTGTCAGCATTTTAACCCATGCTCAAGGCTATTGAGTATG
CATTGG
Found at i:88554322 original size:27 final size:27
Alignment explanation
Indices: 88554263--88554322 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
88554253 TCACTTGCCT
*
88554263 ACAAGGGCAAAATAGTCATTTAACACC
1 ACAAGGGCAAAATAGTAATTTAACACC
* * * *
88554290 -CTAGGGCAAAATGGTAATTTTACCCC
1 ACAAGGGCAAAATAGTAATTTAACACC
88554316 ACAAGGG
1 ACAAGGG
88554323 TATCTCGGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (27 bp):
ACAAGGGCAAAATAGTAATTTAACACC
Found at i:88554332 original size:27 final size:27
Alignment explanation
Indices: 88554302--88554416 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 27
88554292 AGGGCAAAAT
* * *
88554302 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
88554329 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
88554356 AGTAATTCTAATCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
**
88554383 TATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
88554410 GGTAATT
1 GGTAATT
88554417 TCACAAATCA
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:88554431 original size:27 final size:27
Alignment explanation
Indices: 88554401--88554631 Score: 177
Period size: 27 Copynumber: 8.6 Consensus size: 27
88554391 TACCCTACAA
*
88554401 GGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTCGGTAATTTTACAAATCAG
* ** * *
88554428 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTACAAATCAG
* *
88554455 TGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTCGGTAATTTTACAAATC-AG
* * ** * *
88554482 GGATATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTACAAATCAG
*
88554509 GGGTATTTCGGTAATTTTATAAATC-G
1 GGGTATTTCGGTAATTTTACAAATCAG
*
88554535 AGGGTATTTCAGTAATTTTAC-AATC-G
1 -GGGTATTTCGGTAATTTTACAAATCAG
* * * * *
88554561 ACGGTATTTCAGTAACTTTATAAATCGG
1 -GGGTATTTCGGTAATTTTACAAATCAG
*
88554589 GGGTACTTT-GGTAATTTTACAACT-AG
1 GGGTA-TTTCGGTAATTTTACAAATCAG
*
88554615 GGGTATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
88554632 GGTAAACTAA
Statistics
Matches: 165, Mismatches: 32, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
25 3 0.02
26 37 0.22
27 120 0.73
28 5 0.03
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCAG
Found at i:88554443 original size:54 final size:54
Alignment explanation
Indices: 88554316--88554443 Score: 127
Period size: 54 Copynumber: 2.4 Consensus size: 54
88554306 ATTTTACCCC
* * * * **
88554316 ACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTAATCT
1 ACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAAAAT
* *
88554370 ACAAGGGTATTTCT-ATAATTCTACCCTACAAGGGTATTTCGGTAATT-TCACAAAT
1 ACAAGGGTATTT-TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCT-A-AAAT
*
88554425 -CAGGGGTATTTTGGTAATT
1 ACAAGGGTATTTTGGTAATT
88554444 TTGTAAACCA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
53 2 0.03
54 56 0.93
55 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (54 bp):
ACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAAAAT
Found at i:88554460 original size:54 final size:54
Alignment explanation
Indices: 88554402--88554606 Score: 220
Period size: 54 Copynumber: 3.8 Consensus size: 54
88554392 ACCCTACAAG
* *
88554402 GGTATTTCGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTGTAAACCAAT
1 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTGTAAACCAAC
* * *
88554456 GGTATTTTGGTAATTTTACAAA-CTAGGGATATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTCGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTGTAAACCAAC
* ** * *
88554510 GGTATTTCGGTAATTTTATAAATC-GAGGGTATTTCAGTAA-TTT-TACAATCGAC
1 GGTATTTCGGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTGTA-AACCAAC
* * * * *
88554563 GGTATTTCAGTAACTTTATAAATCGGGGGTACTTTGGTAATTTT
1 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTT
88554607 ACAACTAGGG
Statistics
Matches: 128, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
52 2 0.02
53 42 0.33
54 83 0.65
55 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTGTAAACCAAC
Found at i:88554489 original size:81 final size:79
Alignment explanation
Indices: 88554400--88554631 Score: 232
Period size: 81 Copynumber: 2.9 Consensus size: 79
88554390 CTACCCTACA
* * * **
88554400 AGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTG
1 AGGGTATTTCGGTAATTT-ATAAATCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTCA
*
88554465 GTAATTTTACAAACT
65 GTAATTTTACAAACG
* * * * * * *
88554480 AGGGATATTTTGGTAATTTTGTAAACCAAGGGTATTTCGGTAATTTTATAAATCGAGGGTATTTC
1 AGGG-TATTTCGGTAA-TTTATAAATCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTC
*
88554545 AGTAATTTTACAATCG
64 AGTAATTTTACAAACG
* * * * * * *
88554561 ACGGTATTTCAGTAACTTTATAAATCGGGGGTACTTTGGTAATTTTA-CAACTAGGGGTATTTCA
1 AGGGTATTTCGGTAA-TTTATAAATCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTCA
88554625 GTAATTT
65 GTAATTT
88554632 GGTAAACTAA
Statistics
Matches: 121, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
79 19 0.16
80 38 0.31
81 61 0.50
82 3 0.02
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (79 bp):
AGGGTATTTCGGTAATTTATAAATCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTCAG
TAATTTTACAAACG
Found at i:88554566 original size:26 final size:26
Alignment explanation
Indices: 88554508--88554631 Score: 128
Period size: 26 Copynumber: 4.7 Consensus size: 26
88554498 TTGTAAACCA
* *
88554508 AGGGTATTTCGGTAATTTTATAAATCG
1 AGGGTATTTCAGTAATTTTA-CAATCG
88554535 AGGGTATTTCAGTAATTTTACAATCG
1 AGGGTATTTCAGTAATTTTACAATCG
*
88554561 ACGGTATTTCAGTAACTTTATA-AATCG
1 AGGGTATTTCAGTAA-TTT-TACAATCG
* * *
88554588 GGGGTACTTT-GGTAATTTTACAA-CT
1 AGGGTA-TTTCAGTAATTTTACAATCG
88554613 AGGGGTATTTCAGTAATTT
1 A-GGGTATTTCAGTAATTT
88554632 GGTAAACTAA
Statistics
Matches: 82, Mismatches: 9, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
25 6 0.07
26 36 0.44
27 35 0.43
28 5 0.06
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (26 bp):
AGGGTATTTCAGTAATTTTACAATCG
Found at i:88554581 original size:53 final size:53
Alignment explanation
Indices: 88554510--88554628 Score: 152
Period size: 53 Copynumber: 2.2 Consensus size: 53
88554500 GTAAACCAAG
* *
88554510 GGTATTTCGGTAATTTTATAAATCGAGGGTA-TTTCAGTAATTTTACAATCGA-C
1 GGTATTTCAGTAACTTTATAAATCGAGGGTACTTT-AGTAATTTTACAA-CGAGC
* * * *
88554563 GGTATTTCAGTAACTTTATAAATCGGGGGTACTTTGGTAATTTTACAACTAGG
1 GGTATTTCAGTAACTTTATAAATCGAGGGTACTTTAGTAATTTTACAACGAGC
88554616 GGTATTTCAGTAA
1 GGTATTTCAGTAA
88554629 TTTGGTAAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
52 2 0.03
53 53 0.91
54 3 0.05
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (53 bp):
GGTATTTCAGTAACTTTATAAATCGAGGGTACTTTAGTAATTTTACAACGAGC
Found at i:88560624 original size:40 final size:39
Alignment explanation
Indices: 88560594--88560771 Score: 225
Period size: 39 Copynumber: 4.5 Consensus size: 39
88560584 GGACTAAGAT
* * *
88560594 CCGAAGGCGTTCGTGTGAGTTAATAAATCCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGC
*
88560633 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGC
* *
88560672 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAG-C
*
88560712 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AATCC-GGGTTAAG-C
* *
88560752 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
88560772 CGTTATATCC
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 72 0.57
40 48 0.38
41 7 0.06
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGC
Found at i:88560653 original size:39 final size:40
Alignment explanation
Indices: 88560541--88560771 Score: 240
Period size: 40 Copynumber: 5.8 Consensus size: 40
88560531 TTGAATGATG
* ** * * *
88560541 TCCGGGCTAAGTCCCGAAGGC-TTTGTGTTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTG-CGAGTTACTAAA
** * * * *
88560581 TCCGGACTAAGAT-CCGAAGGCGTTCGTGTGAGTTAATAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
88560621 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
88560660 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
88560699 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
88560740 -CCGGGGTT-TGTCCCGAAGGCATTTGAGCGAGT
1 TCC-GGGTTAAGTCCCGAAGGCATTTGTGCGAGT
88560772 CGTTATATCC
Statistics
Matches: 167, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 72 0.43
40 82 0.49
41 13 0.08
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:88560787 original size:79 final size:79
Alignment explanation
Indices: 88560617--88560772 Score: 219
Period size: 79 Copynumber: 2.0 Consensus size: 79
88560607 TGTGAGTTAA
*
88560617 TAAATCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGCCCGAAGGCA
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGCCCGAAGGCA
* *
88560681 TTTGTGCGAGTTAC
66 TTTGAGCGAGTCAC
* *
88560695 TAAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCCGAAG
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-AATCC-GGGTTAAG-CCCGAAG
88560758 GCATTTGAGCGAGTC
63 GCATTTGAGCGAGTC
88560773 GTTATATCCG
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
78 14 0.20
79 28 0.41
80 27 0.39
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (79 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGCCCGAAGGCA
TTTGAGCGAGTCAC
Found at i:88563677 original size:49 final size:49
Alignment explanation
Indices: 88563605--88563769 Score: 176
Period size: 49 Copynumber: 3.4 Consensus size: 49
88563595 TTGTGTGTTT
88563605 GTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAA-CCA
1 GTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGA-AAGCCA
* * *
88563654 GTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAAAGTCG
1 GTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCCA
* * * * ** **
88563703 GTGTAAGCCCTGTCTGGGACATGGGATTGACTTTAAT-G-TGCTAGCCA
1 GTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCCA
88563750 GTGTAAGACCATGTCTGGGA
1 GTGTAAGACC-TGTCTGGGA
88563770 AATGACGTCG
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
47 14 0.14
48 12 0.12
49 72 0.73
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (49 bp):
GTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCCA
Found at i:88567390 original size:35 final size:35
Alignment explanation
Indices: 88567344--88567412 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
88567334 TACCAAAGAG
*
88567344 TTCTGAACTTATTCAAAAAATTCTACATGAAGCAA
1 TTCTGAACTTATTCAAAAAATTCTACACGAAGCAA
*
88567379 TTCTGAACTTATTCAGAAAATTCTACACGAAGCA
1 TTCTGAACTTATTCAAAAAATTCTACACGAAGCA
88567413 CACAATGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (35 bp):
TTCTGAACTTATTCAAAAAATTCTACACGAAGCAA
Found at i:88569658 original size:46 final size:45
Alignment explanation
Indices: 88569591--88569945 Score: 186
Period size: 46 Copynumber: 7.5 Consensus size: 45
88569581 TATGTGTGCT
* *
88569591 AGTGTAATACATGTCTGGGACATACATCAGCCACAGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-ATGAGAGCC
* * *
88569637 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAT-ATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGA---GAGCC
* * *
88569685 AATGTAAGACATGTCTGGGACATGCATCAG-CATTGAGATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA--CAGATGAGAGCC
* * * * * *
88569731 AGTGTAAGACATGTCTAGGACATGCATCGGCCTTGC-GATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCC--ACAGAT-GA-GAGCC
* * *
88569779 AGTGTAAGACCTGTCTGGGACATGGCATCA---ACTTG-TG-GTATGTC
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGCCAC-AGATGAG-A-GCC
* * * * **
88569823 AGTGTAAGACCTGTCTAGGACATGGCATCAACACCGATAGATGAGAGTT
1 AGTGTAAGACATGTCTGGGACAT-GCATC-A-GCC-ACAGATGAGAGCC
* * * *
88569872 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGCTATATGAAAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCAG-C-CAC-AGATGAGAGCC
*
88569921 AGTGTAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
88569946 GTGTCGGCAT
Statistics
Matches: 240, Mismatches: 40, Indels: 55
0.72 0.12 0.16
Matches are distributed among these distances:
43 1 0.00
44 30 0.12
45 3 0.01
46 66 0.28
47 5 0.02
48 63 0.26
49 55 0.23
50 16 0.07
51 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGAGAGCC
Found at i:88569696 original size:48 final size:46
Alignment explanation
Indices: 88569633--88569807 Score: 199
Period size: 48 Copynumber: 3.7 Consensus size: 46
88569623 ACAGCATGAG
*
88569633 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTTA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATA--TA
* * * *
88569681 AGCCAATGTAAGACATGTCTGGGACATGCATCAGCATTGAGATGA-G
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGAT-ATA
* * *
88569727 AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTTGCGATATACA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATAT--A
* *
88569775 AGCTAGTGTAAGACCTGTCTGGGACATGGCATC
1 AGCCAGTGTAAGACATGTCTGGGACAT-GCATC
88569808 AACTTGTGGT
Statistics
Matches: 108, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
45 1 0.01
46 37 0.34
48 64 0.59
49 6 0.06
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATA
Found at i:88569740 original size:94 final size:94
Alignment explanation
Indices: 88569593--88569808 Score: 283
Period size: 94 Copynumber: 2.3 Consensus size: 94
88569583 TGTGTGCTAG
* * *
88569593 TGTAATACATGTCTGGGACATACATCAGCCACAGCATGAGAGCCAGTGTAAGACATGTCTGGGAC
1 TGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGAGCCAGTGTAAGACATGTCTAGGAC
**
88569658 ATGCATCGGCCTCGAGATATTTAAGCCAA
66 ATGCATCGGCCTCGAGATATACAAGCCAA
* *
88569687 TGTAAGACATGTCTGGGACATGCATCAG-CATTGAG-ATGAGAGCTAGTGTAAGACATGTCTAGG
1 TGTAAGACATGTCTGGGACATGCATCAGCCA--CAGCATGAGAGCCAGTGTAAGACATGTCTAGG
* * * *
88569750 ACATGCATCGGCCTTGCGATATACAAGCTAG
64 ACATGCATCGGCCTCGAGATATACAAGCCAA
*
88569781 TGTAAGACCTGTCTGGGACATGGCATCA
1 TGTAAGACATGTCTGGGACAT-GCATCA
88569809 ACTTGTGGTA
Statistics
Matches: 107, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
93 2 0.02
94 97 0.91
95 8 0.07
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (94 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGAGCCAGTGTAAGACATGTCTAGGAC
ATGCATCGGCCTCGAGATATACAAGCCAA
Found at i:88569886 original size:49 final size:46
Alignment explanation
Indices: 88569779--88569946 Score: 169
Period size: 49 Copynumber: 3.5 Consensus size: 46
88569769 TATACAAGCT
* ** * *
88569779 AGTGTAAGACCTGTCTGGGACATGGCATCAACTTGT-GGT-ATGTC
1 AGTGTAAGACCTGTCTAGGACATGGCATCAACCCGTAGATGAAGTC
*
88569823 AGTGTAAGACCTGTCTAGGACATGGCATCAACACCGATAGATGAGAGTT
1 AGTGTAAGACCTGTCTAGGACATGGCATCAAC-CCG-TAGATGA-AGTC
* * * *
88569872 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGCTATATGAAAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCAACC-CG-TAGATG-AAGTC
88569921 AGTGTAAGACCATGTCTAGGACATGG
1 AGTGTAAGACC-TGTCTAGGACATGG
88569947 TGTCGGCATC
Statistics
Matches: 103, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
44 31 0.30
45 1 0.01
46 1 0.01
47 2 0.02
48 2 0.02
49 52 0.50
50 14 0.14
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCAACCCGTAGATGAAGTC
Found at i:88580820 original size:40 final size:40
Alignment explanation
Indices: 88580693--88580822 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
88580683 ATGCTGGAAA
* * *
88580693 TTATATCCGGGTTAAGACCTGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
88580733 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
88580773 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
88580813 TTATATCCGG
1 TTATATCCGG
88580823 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:88582703 original size:13 final size:13
Alignment explanation
Indices: 88582685--88582709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88582675 TCTTTATTTC
88582685 AAAAAATAAAAAT
1 AAAAAATAAAAAT
88582698 AAAAAATAAAAA
1 AAAAAATAAAAA
88582710 AAATAAAATT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:88583321 original size:40 final size:40
Alignment explanation
Indices: 88583268--88583622 Score: 550
Period size: 40 Copynumber: 8.9 Consensus size: 40
88583258 TTGAGAGTTA
*
88583268 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* *
88583308 TATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* *
88583348 TATATCCGAGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
88583388 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* *
88583428 TATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
88583468 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* *
88583508 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * *
88583548 TATAT-CAGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * *
88583587 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
88583623 ATGATGTGTA
Statistics
Matches: 290, Mismatches: 24, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
39 34 0.12
40 256 0.88
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
Found at i:88583839 original size:25 final size:25
Alignment explanation
Indices: 88583789--88583839 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
88583779 TGTGTAACAA
* *
88583789 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
88583814 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
88583839 C
1 C
88583840 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:88595988 original size:27 final size:28
Alignment explanation
Indices: 88595931--88596000 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
88595921 AAACTTGTAC
*
88595931 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
88595959 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
88595986 AGCACTAGGTGTGCG
1 AGCACTAAGTGTGCG
88596001 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:88603590 original size:46 final size:48
Alignment explanation
Indices: 88603468--88603636 Score: 216
Period size: 48 Copynumber: 3.6 Consensus size: 48
88603458 TGATATGTGT
* **
88603468 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
* * * * * * *
88603516 GCCAATATAAGACATGTCTGGGACATGCATCGGCATTGAGACA-AGAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
*
88603563 -CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
*
88603610 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
88603637 GCGTCAACTT
Statistics
Matches: 101, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
46 35 0.35
47 5 0.05
48 61 0.60
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
Found at i:88603733 original size:49 final size:49
Alignment explanation
Indices: 88603471--88603781 Score: 189
Period size: 48 Copynumber: 6.5 Consensus size: 49
88603461 TATGTGTGCT
* * * **
88603471 AGTGTAAGACATGTCTGGGACAT-GCATC-AGCCTCGAGATATTTAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCGATAGATGAAAGCC
* * * * * * * * * *
88603519 AATATAAGACATGTCTGGGACAT-GCATCGGCATTGAGACAAG-AA-CT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * ** * *
88603565 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGCGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA-AAGCC
* * * * * *
88603613 AGTGTAAGACCTGTCTGGGACATGGCGTC-AACTTG-T-GGTG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* *
88603657 AGTGTAAGACCTGTCTGGGACATGGCATCTACACT-GATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * * *
88603706 AGTCTAAGACCTGTATGGGACATGGCATCGGCCTCGTTATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
88603755 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
88603782 GTCAGCATCT
Statistics
Matches: 208, Mismatches: 41, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
44 29 0.14
45 2 0.01
46 39 0.19
47 7 0.03
48 62 0.30
49 55 0.26
50 14 0.07
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:88604125 original size:11 final size:11
Alignment explanation
Indices: 88604109--88604138 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
88604099 GTAGAATTAA
88604109 TTCAATTTATT
1 TTCAATTTATT
88604120 TTCAATTTATT
1 TTCAATTTATT
*
88604131 TTCCATTT
1 TTCAATTT
88604139 CAAACTACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.63
Consensus pattern (11 bp):
TTCAATTTATT
Found at i:88619603 original size:46 final size:45
Alignment explanation
Indices: 88619536--88619709 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
88619526 ACATTTTGTA
*
88619536 GCCGATGAATGTCCCAGACATGTCTTACACTAGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTC-AG
* * * * *
88619582 GCTGATGCATGTCCCAAACATGTCTTCCACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC-AG
* *
88619628 GCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-ATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCA-G
88619676 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
88619710 ACACAAATGA
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
46 55 0.51
47 29 0.27
48 23 0.21
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAG
Found at i:88619655 original size:94 final size:92
Alignment explanation
Indices: 88619536--88619709 Score: 228
Period size: 94 Copynumber: 1.9 Consensus size: 92
88619526 ACATTTTGTA
* *
88619536 GCCGATGAATGTCCCAGACATGTCTTACACTAGCT-TACAT-CTCGA-GGCTGATGCATGTCCCA
1 GCCGATGAATGTCCCAGACATGTCTTACACTAGCTCT-CATAAT--ATGGCCGATGCATGTCCCA
*
88619598 AACATGTCTTCCACTAGCTCTCGTCTCAAT
63 AACATGTCTTACACTAGCTCTCGTCTCAAT
* * *
88619628 GCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCCCAG
1 GCCGATG-AATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATATGGCCGATGCATGTCCCAA
88619693 ACATGTCTTACACTAGC
64 ACATGTCTTACACTAGC
88619710 ACACAAATGA
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
92 7 0.10
93 14 0.20
94 48 0.68
95 2 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (92 bp):
GCCGATGAATGTCCCAGACATGTCTTACACTAGCTCTCATAATATGGCCGATGCATGTCCCAAAC
ATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:88624076 original size:46 final size:46
Alignment explanation
Indices: 88623976--88624142 Score: 187
Period size: 46 Copynumber: 3.6 Consensus size: 46
88623966 AAGCTGACAC
* * * * * *
88623976 CATGTCCCAGACAGGTCTTACACTAGCATGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCT-CATCTCAATGACGATG
88624024 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGACGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGACGATG
* * *
88624070 CATGTCCTAGACATGTCTTACACTGGCTCTCA--T-AATGTGGATGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAA--T-GACGATG
88624116 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
88624143 ACACATATCA
Statistics
Matches: 105, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
43 2 0.02
44 1 0.01
45 1 0.01
46 73 0.70
47 2 0.02
48 26 0.25
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGACGATG
Found at i:88625876 original size:24 final size:24
Alignment explanation
Indices: 88625844--88625892 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
88625834 TTACCTACGC
88625844 GAACAAGTGTCT-AAGTAAGTTCGT
1 GAACAAGTGT-TGAAGTAAGTTCGT
88625868 GAACAAGTGTTGAAGTAAGTTCGT
1 GAACAAGTGTTGAAGTAAGTTCGT
88625892 G
1 G
88625893 TATCTTAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (24 bp):
GAACAAGTGTTGAAGTAAGTTCGT
Found at i:88639588 original size:25 final size:25
Alignment explanation
Indices: 88639563--88639614 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
88639553 TTAAATCATA
88639563 AATATA-TTTTTTAATTTATTAAAT
1 AATATATTTTTTTAATTTATTAAAT
* * *
88639587 AATGTATTTTTTTATTTTATTAATT
1 AATATATTTTTTTAATTTATTAAAT
88639612 AAT
1 AAT
88639615 GTAAAATAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
AATATATTTTTTTAATTTATTAAAT
Found at i:88639615 original size:25 final size:25
Alignment explanation
Indices: 88639569--88639617 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
88639559 CATAAATATA
88639569 TTTTTTAATTTATTAAATAATGTAT
1 TTTTTTAATTTATTAAATAATGTAT
* *
88639594 TTTTTTATTTTATTAATTAATGTA
1 TTTTTTAATTTATTAAATAATGTA
88639618 AAATAAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTTTTAATTTATTAAATAATGTAT
Found at i:88642626 original size:55 final size:55
Alignment explanation
Indices: 88642549--88642658 Score: 139
Period size: 55 Copynumber: 2.0 Consensus size: 55
88642539 AAAATTCAAC
** * * * * * * *
88642549 AAATTTGGCGTTCAATATTTACAAAATTTTTCATTTTAGTTTTAATTCTAAAAAT
1 AAATTTGGCCCTCAATAATTACAAAATCTATCAATTTAATCTTAACTCTAAAAAT
88642604 AAATTTGGCCCTCAATAATTACAAAATCTATCAATTTAATCTTAACTCTAAAAAT
1 AAATTTGGCCCTCAATAATTACAAAATCTATCAATTTAATCTTAACTCTAAAAAT
88642659 TTAAAAATAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (55 bp):
AAATTTGGCCCTCAATAATTACAAAATCTATCAATTTAATCTTAACTCTAAAAAT
Found at i:88644360 original size:71 final size:71
Alignment explanation
Indices: 88644274--88644437 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
88644264 CGATTTGTCT
88644274 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
88644339 CTTTCA
66 CTTTCA
88644345 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
88644410 CTTTCA
66 CTTTCA
88644416 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
88644438 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:88644475 original size:71 final size:70
Alignment explanation
Indices: 88644274--88644471 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
88644264 CGATTTGTCT
* * * *
88644274 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
88644339 CTTTCA
65 CTTTCA
* * * *
88644345 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
88644410 CTTTCA
65 CTTTCA
* *
88644416 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
88644472 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:88651929 original size:71 final size:71
Alignment explanation
Indices: 88651845--88652008 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
88651835 CGATTTGTCT
88651845 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
88651910 CTTTCA
66 CTTTCA
88651916 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
88651981 CTTTCA
66 CTTTCA
88651987 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
88652009 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:88652046 original size:71 final size:70
Alignment explanation
Indices: 88651845--88652042 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
88651835 CGATTTGTCT
* * * *
88651845 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
88651910 CTTTCA
65 CTTTCA
* * * *
88651916 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
88651981 CTTTCA
65 CTTTCA
* *
88651987 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
88652043 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:88657670 original size:7 final size:6
Alignment explanation
Indices: 88657631--88657681 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
88657621 AAGTATTAAG
* * * *
88657631 AAAATA CAAATA AACAGA AAAAT- AAAATA AAAACTA AAAATG AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA-TA AAAATA AAAATA
88657679 AAA
1 AAA
88657682 GGAATTAACT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
5 5 0.14
6 24 0.69
7 6 0.17
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:88668090 original size:23 final size:24
Alignment explanation
Indices: 88668059--88668111 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
88668049 ATTAAGCATG
*
88668059 AGGATGGTAGTTGACCTAGGGTTA
1 AGGATGGTAGCTGACCTAGGGTTA
*
88668083 AGGA-GGTAGCTGACTTAGGGTTA
1 AGGATGGTAGCTGACCTAGGGTTA
88668106 AGGATG
1 AGGATG
88668112 ACAATCACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.26, C:0.08, G:0.40, T:0.26
Consensus pattern (24 bp):
AGGATGGTAGCTGACCTAGGGTTA
Found at i:88672349 original size:62 final size:62
Alignment explanation
Indices: 88672283--88672405 Score: 228
Period size: 62 Copynumber: 2.0 Consensus size: 62
88672273 GAGACTCATT
88672283 GGATATTGTTTCAAAGAATTGAGAAAGATTGGTTTGTACTAATTTTCATCTAACTGGTTTGG
1 GGATATTGTTTCAAAGAATTGAGAAAGATTGGTTTGTACTAATTTTCATCTAACTGGTTTGG
* *
88672345 GGATATTGTTTCGAAGAATTGAGAAAGATTGGTTTGTACTAATTTTCATCTAATTGGTTTG
1 GGATATTGTTTCAAAGAATTGAGAAAGATTGGTTTGTACTAATTTTCATCTAACTGGTTTG
88672406 TACTAATTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.41
Consensus pattern (62 bp):
GGATATTGTTTCAAAGAATTGAGAAAGATTGGTTTGTACTAATTTTCATCTAACTGGTTTGG
Found at i:88672403 original size:25 final size:25
Alignment explanation
Indices: 88672372--88672422 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
88672362 ATTGAGAAAG
88672372 ATTGGTTTGTACTAATTTTCATCTA
1 ATTGGTTTGTACTAATTTTCATCTA
*
88672397 ATTGGTTTGTACTAATTTTCTTCTA
1 ATTGGTTTGTACTAATTTTCATCTA
88672422 A
1 A
88672423 CGCCACCCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (25 bp):
ATTGGTTTGTACTAATTTTCATCTA
Found at i:88674350 original size:29 final size:30
Alignment explanation
Indices: 88674308--88674364 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
88674298 AATGGGCTGG
* *
88674308 CACATGGGTATGTGGCCAG-CCGTGTGGTT
1 CACACGGGTATGTGACCAGCCCGTGTGGTT
* *
88674337 CACACGGGTGTGTGATCAGCCCGTGTGG
1 CACACGGGTATGTGACCAGCCCGTGTGG
88674365 AATTGGCTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 15 0.65
30 8 0.35
ACGTcount: A:0.14, C:0.23, G:0.39, T:0.25
Consensus pattern (30 bp):
CACACGGGTATGTGACCAGCCCGTGTGGTT
Found at i:88675585 original size:29 final size:30
Alignment explanation
Indices: 88675543--88675613 Score: 135
Period size: 29 Copynumber: 2.4 Consensus size: 30
88675533 GTTTAGGGGT
88675543 AAAATGGTCATTATGTGAAAGTCTAGG-AC
1 AAAATGGTCATTATGTGAAAGTCTAGGTAC
88675572 AAAATGGTCATTATGTGAAAGTCTAGGTAC
1 AAAATGGTCATTATGTGAAAGTCTAGGTAC
88675602 AAAATGGTCATT
1 AAAATGGTCATT
88675614 TTGCCCAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 27 0.66
30 14 0.34
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAATGGTCATTATGTGAAAGTCTAGGTAC
Found at i:88676047 original size:48 final size:45
Alignment explanation
Indices: 88675995--88676170 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
88675985 CCATATTATG
88675995 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGAGACA
1 AGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAATGAGA-A
* **
88676043 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-AA
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAATGAGAA
* * * * * *
88676087 TGTAAGCCAGTGTAAGACATGTTTGGGGCATGCATCGGCTACGAGAT
1 AG--AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAATGAGAA
* *
88676134 A-TGTCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
88676171 TACGTATAGA
Statistics
Matches: 107, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
44 13 0.12
45 13 0.12
46 52 0.49
47 15 0.14
48 14 0.13
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (45 bp):
AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAATGAGAA
Found at i:88676192 original size:48 final size:46
Alignment explanation
Indices: 88676000--88676261 Score: 171
Period size: 46 Copynumber: 5.6 Consensus size: 46
88675990 TTATGAGAGC
* * * * *
88676000 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-ATGAGACAAGAG
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCGGCACGT-ATAGAGGTG
* *
88676047 CTAGTGTAAGA-CATGTCTGGGACATGCATCGGC-C-T-TGAAATGTAAG
1 C-AGTGTAAGACCATGTCTGGGACATGCATCGGCACGTAT-AGAGGT--G
* * * * *
88676093 CCAGTGTAAGA-CATGTTTGGGGCATGCATCGGCTACG-AGATATGT-
1 -CAGTGTAAGACCATGTCTGGGACATGCATCGGC-ACGTATAGAGGTG
*
88676138 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGTATAGAGGTG
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCGGCACGTATAGAGGTG
* * * *
88676185 TCAGTGTAAGACCATGTTTGGGACAATGCATCGGCACGGATATGTGAGAG
1 -CAGTGTAAGACCATGTCTGGGAC-ATGCATCGGCACGTATA-GAG-GTG
* *
88676235 CTAGTGCAAGACCATGTCTGAGACATG
1 C-AGTGTAAGACCATGTCTGGGACATG
88676262 GCGTCAGCCT
Statistics
Matches: 174, Mismatches: 22, Indels: 36
0.75 0.09 0.16
Matches are distributed among these distances:
44 13 0.07
45 16 0.09
46 50 0.29
47 16 0.09
48 50 0.29
49 8 0.05
50 21 0.12
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGCATCGGCACGTATAGAGGTG
Found at i:88677433 original size:20 final size:21
Alignment explanation
Indices: 88677394--88677433 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
88677384 GTTATAATGA
88677394 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
88677415 CCACATGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
88677434 ATTTCAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:88679144 original size:17 final size:17
Alignment explanation
Indices: 88679117--88679161 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
88679107 AAGTCTTAGG
88679117 AAAATACAAATAAACA-AA
1 AAAATA-AAATAAA-ATAA
88679135 AAAATAAAATAAAATAA
1 AAAATAAAATAAAATAA
*
88679152 AAACTAAAAT
1 AAAATAAAAT
88679162 TTTAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 1 0.04
17 18 0.72
18 6 0.24
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAAAATAAAATAA
Found at i:88680696 original size:16 final size:17
Alignment explanation
Indices: 88680675--88680707 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
88680665 TTAGCCAAGC
88680675 AATAATAAACAA-AAGT
1 AATAATAAACAATAAGT
88680691 AATAATAAACAATAAGT
1 AATAATAAACAATAAGT
88680708 TAGCAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (17 bp):
AATAATAAACAATAAGT
Found at i:88680789 original size:13 final size:13
Alignment explanation
Indices: 88680773--88680814 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
88680763 TATAAATGAA
88680773 AATAATAATAAAT
1 AATAATAATAAAT
*
88680786 AATACA-AATAAAG
1 AATA-ATAATAAAT
88680799 AATAATAATGAAAT
1 AATAATAAT-AAAT
88680813 AA
1 AA
88680815 CTTTATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 1 0.04
13 17 0.71
14 6 0.25
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (13 bp):
AATAATAATAAAT
Done.