Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 36 of 109
Found at i:11641148 original size:24 final size:26
Alignment explanation
Indices: 11641121--11641170 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
11641111 ATATAATTTC
11641121 CAAATCA-TGT-ATATATATCATGTA
1 CAAATCATTGTCATATATATCATGTA
* *
11641145 CAAATCATTTTCATATATCTCATGTA
1 CAAATCATTGTCATATATATCATGTA
11641171 AATACCTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 2 0.09
26 13 0.59
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (26 bp):
CAAATCATTGTCATATATATCATGTA
Found at i:11643852 original size:19 final size:20
Alignment explanation
Indices: 11643811--11643852 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
11643801 ATTTCTATGC
* *
11643811 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
11643831 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
11643850 CAT
1 CAT
11643853 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:11647184 original size:791 final size:792
Alignment explanation
Indices: 11645650--11647232 Score: 3035
Period size: 791 Copynumber: 2.0 Consensus size: 792
11645640 ATAGGTATAA
11645650 CAGGGATGAGTGAGAAGTGGGTTGCTGCACGGATTAAGCAAAAGGGGGATAGTAAATGCGTTTCT
1 CAGGGATGAGTGAGAAGTGGGTTGCTGCACGGATTAAGCAAAAGGGGGATAGTAAATGCGTTTCT
11645715 TGGAGAAGTTTGAAAGATGCAATTCTAACACATCCAGATGTGAGAAAGAGGTTAGATGTCTTTGC
66 TGGAGAAGTTTGAAAGATGCAATTCTAACACATCCAGATGTGAGAAAGAGGTTAGATGTCTTTGC
11645780 TTTAAGTATATATGGCTTGGTTGTCATCCCCAAGGTCTTGGGGCATGTGGATGAAGCAGTCACCG
131 TTTAAGTATATATGGCTTGGTTGTCATCCCCAAGGTCTTGGGGCATGTGGATGAAGCAGTCACCG
11645845 ATTTATTTGACCGACTTGATAAGAAGGTTACACCGATTCTGGCAATTTTGGCAGAAACCTTCAGG
196 ATTTATTTGACCGACTTGATAAGAAGGTTACACCGATTCTGGCAATTTTGGCAGAAACCTTCAGG
11645910 TCATTGAGTGCATGCCGAAAACAGGTGAAGGCAGATTTATTGGATGTGCACAGATTCTACTTGTA
261 TCATTGAGTGCATGCCGAAAACAGGTGAAGGCAGATTTATTGGATGTGCACAGATTCTACTTGTA
11645975 TGGTTTCACAGTCACTTTTGGAGGGTGGATAAGGTTTTGTATCGGGTTTTCTCTGAAAATTATTC
326 TGGTTTCACAGTCACTTTTGGAGGGTGGATAAGGTTTTGTATCGGGTTTTCTCTGAAAATTATTC
11646040 ACCACTAAAGGAGATAGTAGCTACGCCGAGGAGGGACGACATTTCAGAGGAGTAGTGGATGGCGA
391 ACCACTAAAGGAGATAGTAGCTACGCCGAGGAGGGACGACATTTCAGAGGAGTAGTGGATGGCGA
11646105 TTCTTCAAAGTCTTTAGGAGGAAGATGTTGAGTGTAAAGCTCCTTGGTTACTTCCAGATGAGATC
456 TTCTTCAAAGTCTTTAGGAGGAAGATGTTGAGTGTAAAGCTCCTTGGTTACTTCCAGATGAGATC
11646170 CTGTATAGGTGTGGTAATTTCGATTGGGTTCCACTACTTGGGATTTGGGGAGCTAGTGGATATGC
521 CTGTATAGGTGTGGTAATTTCGATTGGGTTCCACTACTTGGGATTTGGGGAGCTAGTGGATATGC
* *
11646235 CCCGTTGTTGGTACTGAGACAGTATAGGTCAAGACAATTTCTACCTGCGACCCTAGGGATAGCTG
586 CCCGTTGTTGGTACTGAGACAGTATAGGTCAAGACAATTTATACCTGCGACCCAAGGGATAGCTG
*
11646300 ATTGTGAATTTTCGTACAAGGATGATGGTTATAGAAAAAAGATTCAAGAGATGTCTAGCGCATGG
651 ATTGTGAATTTTCGTACAAAGATGATGGTTATAGAAAAAAGATTCAAGAGATGTCTAGCGCATGG
* *
11646365 AAACAGACTCACCGAATGAAGAGGTTAGC-AGTGGGTCCGATGGCAACTCCTGAGTATAATGAAT
716 AAACAGACTCACCGAATGAAGAGGTTAGCTA-TGGGTCCAATGACAACTCCTGAGTATAATGAAT
*
11646429 GGTGGGTTAGGAG
780 GGTGGGGTAGGAG
11646442 CAGGGATGAG-GAGAAGTGGGTTGCTGCACGGATTAAGCAAAAGGGGGATAGTAAATGCGTTTCT
1 CAGGGATGAGTGAGAAGTGGGTTGCTGCACGGATTAAGCAAAAGGGGGATAGTAAATGCGTTTCT
11646506 TGGAGAAGTTTGAAAGATGCAATTCTAACACATCCAGATGTGAGAAAGAGGTTAGATGTCTTTGC
66 TGGAGAAGTTTGAAAGATGCAATTCTAACACATCCAGATGTGAGAAAGAGGTTAGATGTCTTTGC
11646571 TTTAAGTATATATGGCTTGGTTGTCATCCCCAAGGTCTTGGGGCATGTGGATGAAGCAGTCACCG
131 TTTAAGTATATATGGCTTGGTTGTCATCCCCAAGGTCTTGGGGCATGTGGATGAAGCAGTCACCG
11646636 ATTTATTTGACCGACTTGATAAGAAGGTTACACCGATTCTGGCAATTTTGGCAGAAACCTTCAGG
196 ATTTATTTGACCGACTTGATAAGAAGGTTACACCGATTCTGGCAATTTTGGCAGAAACCTTCAGG
11646701 TCATTGAGTGCATGCCGAAAACAGGTGAAGGCAGATTTATTGGATGTGCACAGATTCTACTTGTA
261 TCATTGAGTGCATGCCGAAAACAGGTGAAGGCAGATTTATTGGATGTGCACAGATTCTACTTGTA
11646766 TGGTTTCACAGTCACTTTTGGAGGGTGGATAAGGTTTTGTATCGGGTTTTCTCTGAAAATTATTC
326 TGGTTTCACAGTCACTTTTGGAGGGTGGATAAGGTTTTGTATCGGGTTTTCTCTGAAAATTATTC
11646831 ACCACTAAAGGAGATAGTAGCTACGCCGAGGAGGGACGACATTTCAGAGGAGTAGTGGATGGCGA
391 ACCACTAAAGGAGATAGTAGCTACGCCGAGGAGGGACGACATTTCAGAGGAGTAGTGGATGGCGA
11646896 TTCTTCAAAGTCTTTAGGAGGAAGATGTTGAGTGTAAAGCTCCTTGGTTACTTCCAGATGAGATC
456 TTCTTCAAAGTCTTTAGGAGGAAGATGTTGAGTGTAAAGCTCCTTGGTTACTTCCAGATGAGATC
11646961 CTGTATAGGTGTGGTAATTTCGATTGGGTTCCACTACTTGGGATTTGGGGAGCTAGTGGATATGC
521 CTGTATAGGTGTGGTAATTTCGATTGGGTTCCACTACTTGGGATTTGGGGAGCTAGTGGATATGC
* *
11647026 CCCGTTGTTGGTGCTGAGACAGTATAGGTCAAGACAATTTATATCTGCGACCCAAGGGATAGCTG
586 CCCGTTGTTGGTACTGAGACAGTATAGGTCAAGACAATTTATACCTGCGACCCAAGGGATAGCTG
* *
11647091 ATTGTGAATTTTCGTACAAAGATGATGGTTATAGAAAGAAGATTCAAGAGATGTCTAGCGCGTGG
651 ATTGTGAATTTTCGTACAAAGATGATGGTTATAGAAAAAAGATTCAAGAGATGTCTAGCGCATGG
* *
11647156 AAATAGACTCACCGAATGAAGGGGTTAGCTATGGGTCCAATGACAACTCCTGAGTATAATGAATG
716 AAACAGACTCACCGAATGAAGAGGTTAGCTATGGGTCCAATGACAACTCCTGAGTATAATGAATG
11647221 GTGGGGTAGGAG
781 GTGGGGTAGGAG
11647233 AATCAACGAC
Statistics
Matches: 778, Mismatches: 12, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
791 767 0.99
792 11 0.01
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (792 bp):
CAGGGATGAGTGAGAAGTGGGTTGCTGCACGGATTAAGCAAAAGGGGGATAGTAAATGCGTTTCT
TGGAGAAGTTTGAAAGATGCAATTCTAACACATCCAGATGTGAGAAAGAGGTTAGATGTCTTTGC
TTTAAGTATATATGGCTTGGTTGTCATCCCCAAGGTCTTGGGGCATGTGGATGAAGCAGTCACCG
ATTTATTTGACCGACTTGATAAGAAGGTTACACCGATTCTGGCAATTTTGGCAGAAACCTTCAGG
TCATTGAGTGCATGCCGAAAACAGGTGAAGGCAGATTTATTGGATGTGCACAGATTCTACTTGTA
TGGTTTCACAGTCACTTTTGGAGGGTGGATAAGGTTTTGTATCGGGTTTTCTCTGAAAATTATTC
ACCACTAAAGGAGATAGTAGCTACGCCGAGGAGGGACGACATTTCAGAGGAGTAGTGGATGGCGA
TTCTTCAAAGTCTTTAGGAGGAAGATGTTGAGTGTAAAGCTCCTTGGTTACTTCCAGATGAGATC
CTGTATAGGTGTGGTAATTTCGATTGGGTTCCACTACTTGGGATTTGGGGAGCTAGTGGATATGC
CCCGTTGTTGGTACTGAGACAGTATAGGTCAAGACAATTTATACCTGCGACCCAAGGGATAGCTG
ATTGTGAATTTTCGTACAAAGATGATGGTTATAGAAAAAAGATTCAAGAGATGTCTAGCGCATGG
AAACAGACTCACCGAATGAAGAGGTTAGCTATGGGTCCAATGACAACTCCTGAGTATAATGAATG
GTGGGGTAGGAG
Found at i:11657924 original size:22 final size:23
Alignment explanation
Indices: 11657885--11657929 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
11657875 ATCCTCCTTG
11657885 CTATTTTGTCTCTCTTCTTGAAT
1 CTATTTTGTCTCTCTTCTTGAAT
*
11657908 CTATTTT-TCTCTTTTCTTGAAT
1 CTATTTTGTCTCTCTTCTTGAAT
11657930 TTCTCTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.13, C:0.20, G:0.07, T:0.60
Consensus pattern (23 bp):
CTATTTTGTCTCTCTTCTTGAAT
Found at i:11658890 original size:92 final size:91
Alignment explanation
Indices: 11658764--11658931 Score: 212
Period size: 92 Copynumber: 1.8 Consensus size: 91
11658754 CCTCAAACTT
** ** * * *
11658764 AAAAAAAAAGCAATTAAGTTACTGTTTTTTTTTTTGCAC-TCATCTGGGTACTTGAAATTTCAAA
1 AAAAAAAAAGCAATTAAGCCACTACTTTCTTTTTTGCACTTAAT-TAGGTACTT-AAATTTCAAA
*
11658828 ATGCATTAAAAAGGCCTTCAAACCTTAA
64 ATGCATCAAAAAGGCCTTCAAACCTTAA
* * *
11658856 AAAAAAAAAGCAATTAAGCCCCTACTTTCTTTTTTTCACTTAATTAGGTACTTAACTTTCAAAAT
1 AAAAAAAAAGCAATTAAGCCACTACTTTCTTTTTTGCACTTAATTAGGTACTTAAATTTCAAAAT
11658921 GCATCAAAAAG
66 GCATCAAAAAG
11658932 ACCGTCAATT
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
91 21 0.33
92 40 0.62
93 3 0.05
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (91 bp):
AAAAAAAAAGCAATTAAGCCACTACTTTCTTTTTTGCACTTAATTAGGTACTTAAATTTCAAAAT
GCATCAAAAAGGCCTTCAAACCTTAA
Found at i:11659119 original size:35 final size:34
Alignment explanation
Indices: 11659048--11659120 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 34
11659038 GGATTTTTAA
* ** *
11659048 TTTATTTTATGATTTTTATAAAATTTTACAATTT
1 TTTATTTTACGATTTTTATAAAAAATTACAAATT
11659082 TTTATTTGTACGATTTTTATAAAAAAATT-CAAATT
1 TTTATTT-TACGATTTTTAT-AAAAAATTACAAATT
11659117 TTTA
1 TTTA
11659121 ATAATTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 7 0.21
35 20 0.61
36 6 0.18
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (34 bp):
TTTATTTTACGATTTTTATAAAAAATTACAAATT
Found at i:11659149 original size:18 final size:17
Alignment explanation
Indices: 11659128--11659181 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
11659118 TTAATAATTT
11659128 TTTATTAAAATTTAATAA
1 TTTATTAAAATTT-ATAA
* *
11659146 TTTAATAAAATTTATTA
1 TTTATTAAAATTTATAA
**
11659163 TTTATTATTATTTATAA
1 TTTATTAAAATTTATAA
11659180 TT
1 TT
11659182 ATTTATAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTATTAAAATTTATAA
Found at i:11659188 original size:10 final size:10
Alignment explanation
Indices: 11659159--11659191 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
11659149 AATAAAATTT
*
11659159 ATTATTTATT
1 ATTATTTATA
11659169 ATTATTTATA
1 ATTATTTATA
11659179 ATTATTTATA
1 ATTATTTATA
11659189 ATT
1 ATT
11659192 TTAATAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTATTTATA
Found at i:11662839 original size:98 final size:92
Alignment explanation
Indices: 11662657--11662839 Score: 233
Period size: 98 Copynumber: 1.9 Consensus size: 92
11662647 GATTTTATTA
* *
11662657 TTGTAACATTTATTATTCATGTATTCCATTCCGCCACCCCATCCCTCAAGAAAAGAAGAGAACTC
1 TTGTAACATTTATTATTCATGTATTCCATTCCCCCACCCCATCCCTCAAGAAAAGAAGAGAACAC
* * *
11662722 TTCCTCTAAAGAGATCAGGGGTCGGGT
66 TTACTATAAAGAGAGCAGGGGTCGGGT
* *
11662749 TTGTAACATTTATTATTCATGCTATACTCCATTCCCCCACTCC-TCCCCTTCAGGAAAGAAGAAG
1 TTGTAACATTTATTATTCATG-TAT--TCCATTCCCCCACCCCAT-CCC-TCAAG-AA-AAGAAG
11662813 AGAACACTTACTATAAAGAGAGCAGGG
59 AGAACACTTACTATAAAGAGAGCAGGG
11662840 ATTGGGTTCT
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
92 21 0.27
93 3 0.04
94 1 0.01
95 17 0.22
96 4 0.05
97 2 0.03
98 29 0.38
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (92 bp):
TTGTAACATTTATTATTCATGTATTCCATTCCCCCACCCCATCCCTCAAGAAAAGAAGAGAACAC
TTACTATAAAGAGAGCAGGGGTCGGGT
Found at i:11667420 original size:37 final size:37
Alignment explanation
Indices: 11667365--11667448 Score: 141
Period size: 37 Copynumber: 2.3 Consensus size: 37
11667355 ATACAAACTG
* *
11667365 ATTCCCTTTTCTTTCGCAAACGATGCCGTTTTTCCCA
1 ATTCCCTTTTCTTCCGCAAACGATGCCATTTTTCCCA
*
11667402 ATTCCCTTTTCTTCCGCAAACGGTGCCATTTTTCCCA
1 ATTCCCTTTTCTTCCGCAAACGATGCCATTTTTCCCA
11667439 ATTCCCTTTT
1 ATTCCCTTTT
11667449 ATTTGATACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.15, C:0.33, G:0.10, T:0.42
Consensus pattern (37 bp):
ATTCCCTTTTCTTCCGCAAACGATGCCATTTTTCCCA
Found at i:11669212 original size:23 final size:23
Alignment explanation
Indices: 11669182--11669226 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
11669172 TTGCAAACTG
11669182 TTAAAGCCTTCATTGTCCTATAT
1 TTAAAGCCTTCATTGTCCTATAT
11669205 TTAAAGCCTTCATTGTCCTATA
1 TTAAAGCCTTCATTGTCCTATA
11669227 CTTGCAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (23 bp):
TTAAAGCCTTCATTGTCCTATAT
Found at i:11669796 original size:98 final size:99
Alignment explanation
Indices: 11669626--11669813 Score: 270
Period size: 98 Copynumber: 1.9 Consensus size: 99
11669616 ATTAATTATC
* * * * *
11669626 AAGTAAAATCGTTTATTTAATTATGAATTTTTAAAAAGGTTAATTTAGTTCTATTTATTGAGTTT
1 AAGTAAAACCGCTTATTCAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATTT
* *
11669691 TGATATTAAGTGGCACCATTTATTCTGTTATACA
66 TGATATTAAGTAGAACCATTTATTCTGTTATACA
* **
11669725 AAGTAAAACCGCTTGTTCAATTATGCGTTTTTAAAAA-GTTAATTTAGTTCAATTTATTGAATTT
1 AAGTAAAACCGCTTATTCAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATTT
*
11669789 TGATATTAAGTAGAACCGTTTATTC
66 TGATATTAAGTAGAACCATTTATTC
11669814 AATTATGTGT
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
98 47 0.60
99 31 0.40
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.45
Consensus pattern (99 bp):
AAGTAAAACCGCTTATTCAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATTT
TGATATTAAGTAGAACCATTTATTCTGTTATACA
Found at i:11669878 original size:72 final size:71
Alignment explanation
Indices: 11669725--11669899 Score: 233
Period size: 72 Copynumber: 2.4 Consensus size: 71
11669715 CTGTTATACA
* * * * * * *
11669725 AAGTAAAACCGCTTGTTCAATTATGCGTTTTTAAAAAGTTAATTTAGTTCAATTTATTGAATTTT
1 AAGTAAAACCGTTTATTCAATTATGTGTTTTTAAAAAGCTAATTTAGTTCAACTCATTGAATTTC
11669790 GATATT
66 GATATT
* * *
11669796 AAGTAGAACCGTTTATTCAATTATGTGTTTTTAAAAAGGCTATTTTAGTTCAACTCATTGAGTTT
1 AAGTAAAACCGTTTATTCAATTATGTGTTTTTAAAAA-GCTAATTTAGTTCAACTCATTGAATTT
11669861 CGATATT
65 CGATATT
*
11669868 AAGTAAAACCGTTTATTCAAGTTATATGTTTT
1 AAGTAAAACCGTTTATTCAA-TTATGTGTTTT
11669900 GAGAAGATTA
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
71 33 0.37
72 47 0.52
73 10 0.11
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.44
Consensus pattern (71 bp):
AAGTAAAACCGTTTATTCAATTATGTGTTTTTAAAAAGCTAATTTAGTTCAACTCATTGAATTTC
GATATT
Found at i:11669928 original size:72 final size:72
Alignment explanation
Indices: 11669772--11669976 Score: 198
Period size: 72 Copynumber: 2.9 Consensus size: 72
11669762 GTTAATTTAG
* * * * *
11669772 TTCAATTTATTGAATTTTGATATTAAGTAGAACCGTTTATTCAA-TTATGTGTTTTTAAAAAGGC
1 TTCAATTTATTGAGTTTTGATATTAAGTAAAACCGTTTATTCAAGTTATATG-TTTTAAGAAGAC
** *
11669836 TATTTTAG
65 TAAATTAA
* * * * *
11669844 TTCAACTCATTGAGTTTCGATATTAAGTAAAACCGTTTATTCAAGTTATATGTTTTGAGAAGATT
1 TTCAATTTATTGAGTTTTGATATTAAGTAAAACCGTTTATTCAAGTTATATGTTTTAAGAAGACT
11669909 AAATTAA
66 AAATTAA
** * * * * * *
11669916 TTTGATTTATTGAGTTTTGATTTTAAGTAAAATCTTTTATTC-GGTAATATGTTTTTAGAAG
1 TTCAATTTATTGAGTTTTGATATTAAGTAAAACCGTTTATTCAAGTTATATGTTTTAAGAAG
11669977 GTTAGTTTAG
Statistics
Matches: 108, Mismatches: 24, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
71 16 0.15
72 86 0.80
73 6 0.06
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (72 bp):
TTCAATTTATTGAGTTTTGATATTAAGTAAAACCGTTTATTCAAGTTATATGTTTTAAGAAGACT
AAATTAA
Found at i:11670611 original size:19 final size:18
Alignment explanation
Indices: 11670589--11670632 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
11670579 TTTATTATTT
11670589 ATTTTAGTTTTGATTTTAA
1 ATTTTA-TTTTGATTTTAA
*
11670608 ATTTTTATTTTTATTTTAA
1 A-TTTTATTTTGATTTTAA
*
11670627 AATTTA
1 ATTTTA
11670633 AAATAACTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 13 0.59
20 5 0.23
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (18 bp):
ATTTTATTTTGATTTTAA
Found at i:11670631 original size:20 final size:20
Alignment explanation
Indices: 11670590--11670627 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
11670580 TTATTATTTA
11670590 TTTTAGTTTTGATTTTAAAT
1 TTTTAGTTTTGATTTTAAAT
*
11670610 TTTTA-TTTTTATTTTAAA
1 TTTTAGTTTTGATTTTAAA
11670628 ATTTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTAGTTTTGATTTTAAAT
Found at i:11671102 original size:16 final size:16
Alignment explanation
Indices: 11671077--11671116 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
11671067 TTCGTTCGCT
*
11671077 GTAATAGAATAGATGC
1 GTAATAGAATAGAGGC
*
11671093 GTAATGGAATAGAGGC
1 GTAATAGAATAGAGGC
11671109 GTAATAGA
1 GTAATAGA
11671117 TAATTCTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.30, T:0.23
Consensus pattern (16 bp):
GTAATAGAATAGAGGC
Found at i:11671189 original size:44 final size:47
Alignment explanation
Indices: 11671093--11671190 Score: 132
Period size: 44 Copynumber: 2.2 Consensus size: 47
11671083 GAATAGATGC
* * *
11671093 GTAATGGAATAGAGGCGTAATAGATAATTCTTTTGTTTGGTTGAATA
1 GTAATAGAATAGAGGCGTAATAGATAACTCTTATGTTTGGTTGAATA
*
11671140 G-AATAGAATAGAGGTGTAATAG-T-ACTCTTATGTTTGGTTGAAT-
1 GTAATAGAATAGAGGCGTAATAGATAACTCTTATGTTTGGTTGAATA
11671183 GTAATAGA
1 GTAATAGA
11671191 GCTGTAATAG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
43 1 0.02
44 24 0.52
45 1 0.02
46 19 0.41
47 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.37
Consensus pattern (47 bp):
GTAATAGAATAGAGGCGTAATAGATAACTCTTATGTTTGGTTGAATA
Found at i:11671435 original size:20 final size:21
Alignment explanation
Indices: 11671396--11671435 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
11671386 AATTTACTAA
*
11671396 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
11671417 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
11671436 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:11671469 original size:59 final size:60
Alignment explanation
Indices: 11671393--11671580 Score: 169
Period size: 64 Copynumber: 3.1 Consensus size: 60
11671383 ATGAATTTAC
11671393 TAATAAAATCATAATATATAATACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
1 TAATAAAA-CA-AATATATAATACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * * * *
11671455 TAAT--AA-AAATATATAAT-TTAATAAT-T--CTTAATATTAAATATTCTT--ATATGAATT
1 TAATAAAACAAATATATAATACTAA-AATATAATTTAA-AATAATTATTATTAAATAT-AATT
* *
11671509 TACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTATTAAATATAATT
1 TAATAAAA-CA-AATATATAATAC--TAAAATATAATTTAAAATAATTATTATTAAATATAATT
11671573 TAATAAAA
1 TAATAAAA
11671581 TTCTTAGTAT
Statistics
Matches: 97, Mismatches: 13, Indels: 30
0.69 0.09 0.21
Matches are distributed among these distances:
53 4 0.04
54 11 0.11
55 10 0.10
56 6 0.06
57 13 0.13
58 2 0.02
59 10 0.10
60 2 0.02
61 3 0.03
62 8 0.08
63 9 0.09
64 15 0.15
65 4 0.04
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.41
Consensus pattern (60 bp):
TAATAAAACAAATATATAATACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
Found at i:11671559 original size:13 final size:12
Alignment explanation
Indices: 11671535--11671575 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
11671525 TATAATACTA
11671535 TAAAATATAATT
1 TAAAATATAATT
11671547 TAAAATAATAATT
1 TAAAAT-ATAATT
*
11671560 ATTAAATATAATT
1 -TAAAATATAATT
11671573 TAA
1 TAA
11671576 TAAAATTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:11671600 original size:118 final size:116
Alignment explanation
Indices: 11671370--11671612 Score: 357
Period size: 118 Copynumber: 2.1 Consensus size: 116
11671360 AAATTGTTAA
11671370 TAAATATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAATTTAAAAT
1 TAAATATTCTTATATGAATTTAC--ATAAAATCATAATATATAATACTAAAATATAATTTAAAAT
* *
11671435 AATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAATTCTTAATAT
64 AATAATTATTAAATATAATTTAATAAAAATATATAATTAAATAATTCTT-ATAT
11671489 TAAATATTCTTATATGAATTTAC-TAAAATCATAATATATAATACTATAAAATATAATTTAAAAT
1 TAAATATTCTTATATGAATTTACATAAAATCATAATATATAATAC--TAAAATATAATTTAAAAT
* *
11671553 AATAATTATTAAATATAATTTAATAAAATTCT-TAGTATTAAAT-ATTCTTATAT
64 AATAATTATTAAATATAATTTAATAAAAATATATA--ATTAAATAATTCTTATAT
11671606 TCAAATA
1 T-AAATA
11671613 CACAAACAAA
Statistics
Matches: 115, Mismatches: 4, Indels: 11
0.88 0.03 0.08
Matches are distributed among these distances:
116 21 0.18
117 7 0.06
118 58 0.50
119 29 0.25
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (116 bp):
TAAATATTCTTATATGAATTTACATAAAATCATAATATATAATACTAAAATATAATTTAAAATAA
TAATTATTAAATATAATTTAATAAAAATATATAATTAAATAATTCTTATAT
Found at i:11680472 original size:43 final size:43
Alignment explanation
Indices: 11680380--11680502 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 43
11680370 GTTTTCCTAC
* ** * *
11680380 AAGCGCCGCTAAAGG-CATGTTCTTTAGCAACGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCATGTTCTATAGCGGCATTTTTGGGAA
* * * *
11680422 AAACGCCGCTAAAGGTCATGTTCTATAGTGGCATTTTTGTGAG
1 AAGCGCCGCTAAAGGTCATGTTCTATAGCGGCATTTTTGGGAA
* *
11680465 AAGCGCCGCTAAATGTCATGTTCTATAGCGGTATTTTT
1 AAGCGCCGCTAAAGGTCATGTTCTATAGCGGCATTTTT
11680503 CTACATAAAC
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 14 0.21
43 53 0.79
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGTTCTATAGCGGCATTTTTGGGAA
Found at i:11715307 original size:18 final size:18
Alignment explanation
Indices: 11715269--11715311 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
11715259 AGGATTTTCT
*
11715269 CTTATTCTTAATAGGATA
1 CTTATTCTTAATAGCATA
11715287 CTTATTCTTAATAGTCA-A
1 CTTATTCTTAATAG-CATA
11715305 CTTATTC
1 CTTATTC
11715312 AACTGTCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.47
Consensus pattern (18 bp):
CTTATTCTTAATAGCATA
Found at i:11718002 original size:27 final size:28
Alignment explanation
Indices: 11717960--11718013 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
11717950 TAAAAAGTAA
*
11717960 AAAATATATATTTAATGTAATTTTTTTT
1 AAAATATATATCTAATGTAATTTTTTTT
11717988 AAAAT-TATATCTAATGTAATTTTTTT
1 AAAATATATATCTAATGTAATTTTTTT
11718014 ATTATATTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (28 bp):
AAAATATATATCTAATGTAATTTTTTTT
Found at i:11719255 original size:14 final size:14
Alignment explanation
Indices: 11719238--11719290 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 14
11719228 AACAAATTTA
*
11719238 AAAATTAAAAGAGT
1 AAAATTTAAAGAGT
*
11719252 AAAA-TTAAAGGGTT
1 AAAATTTAAAGAG-T
*
11719266 AAAATTTAAAG-TT
1 AAAATTTAAAGAGT
11719279 AAAATTTAAAGA
1 AAAATTTAAAGA
11719291 TGATAATCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 18 0.55
14 9 0.27
15 6 0.18
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.28
Consensus pattern (14 bp):
AAAATTTAAAGAGT
Found at i:11719355 original size:9 final size:9
Alignment explanation
Indices: 11719341--11719461 Score: 104
Period size: 9 Copynumber: 13.6 Consensus size: 9
11719331 AACTTTGGAT
11719341 CATAACTTA
1 CATAACTTA
11719350 CATAACTTA
1 CATAACTTA
*
11719359 TATAACTTA
1 CATAACTTA
11719368 CATAA-TTA
1 CATAACTTA
*
11719376 CATAA-ATA
1 CATAACTTA
* * *
11719384 TATATCATA
1 CATAACTTA
*
11719393 TCATAAATTA
1 -CATAACTTA
*
11719403 TATAACTTA
1 CATAACTTA
11719412 CATAACTTA
1 CATAACTTA
11719421 CATAACTTA
1 CATAACTTA
*
11719430 CATAA-ATA
1 CATAACTTA
* * *
11719438 TATATCATA
1 CATAACTTA
11719447 TCATAACTTA
1 -CATAACTTA
11719457 CATAA
1 CATAA
11719462 AAATTTGGAT
Statistics
Matches: 90, Mismatches: 18, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
8 18 0.20
9 61 0.68
10 11 0.12
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:11719462 original size:27 final size:27
Alignment explanation
Indices: 11719339--11719462 Score: 128
Period size: 27 Copynumber: 4.6 Consensus size: 27
11719329 AAAACTTTGG
* *
11719339 ATCATAACTTACATAACTTATATAACTT
1 ATCATAACTTACATAA-ATATATAACAT
*
11719367 A-CATAA-TTACATAAATATATATCAT
1 ATCATAACTTACATAAATATATAACAT
* * * * *
11719392 ATCATAAATTATATAACTTACATAACTT
1 ATCATAACTTACATAA-ATATATAACAT
*
11719420 A-CATAACTTACATAAATATATATCAT
1 ATCATAACTTACATAAATATATAACAT
11719446 ATCATAACTTACATAAA
1 ATCATAACTTACATAAA
11719463 AATTTGGATC
Statistics
Matches: 78, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
25 9 0.12
26 21 0.27
27 39 0.50
28 9 0.12
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (27 bp):
ATCATAACTTACATAAATATATAACAT
Found at i:11725405 original size:43 final size:42
Alignment explanation
Indices: 11725336--11725428 Score: 132
Period size: 43 Copynumber: 2.2 Consensus size: 42
11725326 TTTTTTAAAG
* * *
11725336 TTAGTGGCGTTTTTCCACAAACACCGCTAAAGAACATGACTT
1 TTAGCGGCGTTTTTCCAAAAACACCGCTAAAGAACATGACCT
* *
11725378 TTAGCGGCGTTTTTACTAAAAACACCGCTGAAGAACATGACCT
1 TTAGCGGCGTTTTT-CCAAAAACACCGCTAAAGAACATGACCT
11725421 TTAGCGGC
1 TTAGCGGC
11725429 ATTGTAACAC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 13 0.29
43 32 0.71
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (42 bp):
TTAGCGGCGTTTTTCCAAAAACACCGCTAAAGAACATGACCT
Found at i:11726042 original size:28 final size:27
Alignment explanation
Indices: 11726003--11726060 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 27
11725993 CTATTCAGTA
*
11726003 ACAGTACAGTGTGGGCCTTTGACCAAT
1 ACAGTACAGTGTGGACCTTTGACCAAT
*
11726030 ACAGTAACAGTGTGGACCTTTGCCCAAT
1 ACAGT-ACAGTGTGGACCTTTGACCAAT
11726058 ACA
1 ACA
11726061 ATATCAGTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (27 bp):
ACAGTACAGTGTGGACCTTTGACCAAT
Found at i:11726068 original size:28 final size:28
Alignment explanation
Indices: 11726008--11726068 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
11725998 CAGTAACAGT
* *
11726008 ACAGTGTGGGCCTTTGACCAATACAGTA
1 ACAGTGTGGACCTTTGACCAATACAATA
*
11726036 ACAGTGTGGACCTTTGCCCAATACAATA
1 ACAGTGTGGACCTTTGACCAATACAATA
*
11726064 TCAGT
1 ACAGT
11726069 ACAGTGCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (28 bp):
ACAGTGTGGACCTTTGACCAATACAATA
Found at i:11726206 original size:26 final size:26
Alignment explanation
Indices: 11726171--11726235 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
11726161 AACACACCAA
* * *
11726171 TATCGTAGCAAAGCTGTCAATAATAG
1 TATCGCAGCAAAGCTGCCAATAACAG
* *
11726197 TATCGCAGCAAAACTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAATAACAG
*
11726223 TATCGCAACAAAG
1 TATCGCAGCAAAG
11726236 TTTCCAGTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAATAACAG
Found at i:11728240 original size:40 final size:40
Alignment explanation
Indices: 11728196--11728309 Score: 111
Period size: 43 Copynumber: 2.8 Consensus size: 40
11728186 GTTTTTTGAA
* *
11728196 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGTTTGTGGGG
1 AAAGCGCCGTTAAAGGTCATGTTCTTTAGCGTTTGTAGGG
* * * *
11728236 AAAGCGCTGTTGAAGGTTATGTTCTATAGTGGCGTTTGTAGGG
1 AAAGCGCCGTTAAAGGTCATGTTCT-T--TAGCGTTTGTAGGG
* * * *
11728279 AAAGCGCCATTAAATGTCATATTCTATAGCG
1 AAAGCGCCGTTAAAGGTCATGTTCTTTAGCG
11728310 GCGTTTTTTC
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
40 25 0.44
41 1 0.02
43 31 0.54
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.32
Consensus pattern (40 bp):
AAAGCGCCGTTAAAGGTCATGTTCTTTAGCGTTTGTAGGG
Found at i:11728304 original size:43 final size:43
Alignment explanation
Indices: 11728224--11728315 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
11728214 ATGTTCTTTA
* ** * * * *
11728224 GCGTTTGTGGGGAAAGCGCTGTTGAAGGTTATGTTCTATAGTG
1 GCGTTTGTAGGGAAAGCGCCATTAAAGGTCATATTCTATAGCG
*
11728267 GCGTTTGTAGGGAAAGCGCCATTAAATGTCATATTCTATAGCG
1 GCGTTTGTAGGGAAAGCGCCATTAAAGGTCATATTCTATAGCG
11728310 GCGTTT
1 GCGTTT
11728316 TTTCACATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.22, C:0.13, G:0.32, T:0.34
Consensus pattern (43 bp):
GCGTTTGTAGGGAAAGCGCCATTAAAGGTCATATTCTATAGCG
Found at i:11729293 original size:54 final size:54
Alignment explanation
Indices: 11729219--11729329 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
11729209 GGGATAGAGC
* * *
11729219 TAGAGTTGTCTTTGATTTAAAGCTTGGGGTAAGTAAGTAGTGAGCTAGCTAGCT
1 TAGAGCTGTCTTTGATTTAAAGCTTGGGGTAAGTAAATACTGAGCTAGCTAGCT
11729273 TAGAGCTGTCTTTGATTTAAAGCTTGGGGTAAGTAAATACTGAGCTAGCTAGCT
1 TAGAGCTGTCTTTGATTTAAAGCTTGGGGTAAGTAAATACTGAGCTAGCTAGCT
11729327 TAG
1 TAG
11729330 GGTCAGACTG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.34
Consensus pattern (54 bp):
TAGAGCTGTCTTTGATTTAAAGCTTGGGGTAAGTAAATACTGAGCTAGCTAGCT
Found at i:11752048 original size:126 final size:126
Alignment explanation
Indices: 11751895--11752148 Score: 474
Period size: 126 Copynumber: 2.0 Consensus size: 126
11751885 TATATAGTAG
11751895 TAGATTAGGGTAAAACTTAGCTAAAATTTAGCTACAAGAGGTTACTTGGGTGATAAGCATAAAAG
1 TAGATTAGGGT-AAACTTAGCTAAAATTTAGCTACAAGAGGTTACTTGGGTGATAAGCATAAAAG
*
11751960 ATGGTGGCAAAATTCTAGGGTTTTGGGAGATATATGAACGACAATTGATGGGTAATTTCCTCT
65 ATGGTGGCAAAATTCTAGGGTTTTGGGAGA-ATATGAACGAAAATTGATGGGTAATTTCCTCT
11752023 TAGATTAGGGT-AACTTAGCTAAAATTTAGCTACAAGAGGTTACTTGGGTGATAAGCATAAAAGA
1 TAGATTAGGGTAAACTTAGCTAAAATTTAGCTACAAGAGGTTACTTGGGTGATAAGCATAAAAGA
11752087 TGGTGGCAAAATTCTAGGGTTTTGGGAGAATATGAACGAAAATTGATGGGTAATTTCCTCT
66 TGGTGGCAAAATTCTAGGGTTTTGGGAGAATATGAACGAAAATTGATGGGTAATTTCCTCT
11752148 T
1 T
11752149 CTTTACTGCT
Statistics
Matches: 125, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
125 32 0.26
126 82 0.66
128 11 0.09
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (126 bp):
TAGATTAGGGTAAACTTAGCTAAAATTTAGCTACAAGAGGTTACTTGGGTGATAAGCATAAAAGA
TGGTGGCAAAATTCTAGGGTTTTGGGAGAATATGAACGAAAATTGATGGGTAATTTCCTCT
Found at i:11771145 original size:26 final size:28
Alignment explanation
Indices: 11771087--11771145 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
11771077 AGCGGCCAGT
11771087 ACAG-AATATGTGGCAAAGCCACCAGAA
1 ACAGTAATATGTGGCAAAGCCACCAGAA
* *
11771114 ATAGTAAT-TGTGGCAGAGCCA-CAGAA
1 ACAGTAATATGTGGCAAAGCCACCAGAA
11771140 ACAGTA
1 ACAGTA
11771146 TTTCCTCCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 10 0.36
27 15 0.54
28 3 0.11
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (28 bp):
ACAGTAATATGTGGCAAAGCCACCAGAA
Found at i:11771329 original size:26 final size:26
Alignment explanation
Indices: 11771300--11771417 Score: 150
Period size: 26 Copynumber: 4.5 Consensus size: 26
11771290 CTACCCTTCT
* *
11771300 GGGTATTTCTATAATTTACCTATCGG
1 GGGTATTTCTATAATTTACCCATCGA
11771326 GGGTATTT-TGATAATTTACCCATCGA
1 GGGTATTTCT-ATAATTTACCCATCGA
*
11771352 GGGTATTT-TGGTAATTTACCCATCGA
1 GGGTATTTCT-ATAATTTACCCATCGA
* *
11771378 GGGTATTTCTGTAATTTACCCATTGA
1 GGGTATTTCTATAATTTACCCATCGA
*
11771404 GGGTATTTCAATAA
1 GGGTATTTCTATAA
11771418 CCACGCGAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
25 1 0.01
26 82 0.98
27 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.40
Consensus pattern (26 bp):
GGGTATTTCTATAATTTACCCATCGA
Found at i:11777877 original size:24 final size:24
Alignment explanation
Indices: 11777850--11777897 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
11777840 AAATAAGTAA
11777850 ATAAAACCCAATTAAAAGAAAATT
1 ATAAAACCCAATTAAAAGAAAATT
11777874 ATAAAACCCAATTAAAAGAAAATT
1 ATAAAACCCAATTAAAAGAAAATT
11777898 GAAATACCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.62, C:0.12, G:0.04, T:0.21
Consensus pattern (24 bp):
ATAAAACCCAATTAAAAGAAAATT
Found at i:11778596 original size:26 final size:26
Alignment explanation
Indices: 11778529--11778882 Score: 402
Period size: 26 Copynumber: 13.5 Consensus size: 26
11778519 ATCTAGTAGA
* * * *
11778529 GGTATATCGGTTAATCTACCCTTCTAGG
1 GGTATTTCGG-TAATTTACCCATCGA-G
*
11778557 GGTATTTCAGTAATTTACCCATCGAG
1 GGTATTTCGGTAATTTACCCATCGAG
* *
11778583 GGAATTTCGGTAATTTACCCATCCAG
1 GGTATTTCGGTAATTTACCCATCGAG
* * **
11778609 GGTATTTTGGTAATTTATCCATTAAG
1 GGTATTTCGGTAATTTACCCATCGAG
* * *
11778635 GGTATTTTTGGTAATTTACACGTCGAG
1 GGTA-TTTCGGTAATTTACCCATCGAG
* *
11778662 TGTATTTCGGTAATTTACCCATCAAG
1 GGTATTTCGGTAATTTACCCATCGAG
*
11778688 GGTATTTTGGTAATTTACCCATCGAG
1 GGTATTTCGGTAATTTACCCATCGAG
* * *
11778714 GGTATTTCGATGATTTTCCCATCGAG
1 GGTATTTCGGTAATTTACCCATCGAG
* * *
11778740 GGTATTTCGGTAGTTTACCCATTGAA
1 GGTATTTCGGTAATTTACCCATCGAG
* *
11778766 GGTATTTCAGTAATTTATCCATCGAG
1 GGTATTTCGGTAATTTACCCATCGAG
**
11778792 GGTATTTTAGTAATTTACCCATCGAG
1 GGTATTTCGGTAATTTACCCATCGAG
*
11778818 GGTATTTCGATAATTTACCCATCGAG
1 GGTATTTCGGTAATTTACCCATCGAG
* *
11778844 GGTATTTTGGTAATTTACCCATCGAT
1 GGTATTTCGGTAATTTACCCATCGAG
*
11778870 GGTATTTCAGTAA
1 GGTATTTCGGTAA
11778883 CCATACCAGC
Statistics
Matches: 274, Mismatches: 51, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
26 234 0.85
27 32 0.12
28 8 0.03
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (26 bp):
GGTATTTCGGTAATTTACCCATCGAG
Found at i:11786921 original size:17 final size:17
Alignment explanation
Indices: 11786899--11786935 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
11786889 TAAAAACATG
11786899 CATATATAT-AATTGAAA
1 CATATATATGAATT-AAA
11786916 CATATATATGAATTAAA
1 CATATATATGAATTAAA
11786933 CAT
1 CAT
11786936 CCATCTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.35
Consensus pattern (17 bp):
CATATATATGAATTAAA
Found at i:11789417 original size:27 final size:26
Alignment explanation
Indices: 11789354--11789455 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
11789344 CCAGCTCCTG
* **
11789354 CATAGGGTAAAATGACAAAAATACCC
1 CATAGGATAAAATGACCGAAATACCC
* *
11789380 CGTAGGGTAAAATGACCGAAATACCCC
1 CATAGGATAAAATGACCGAAATA-CCC
* *
11789407 CATAGGATAAAATGACTGAAATAACCA
1 CATAGGATAAAATGACCGAAAT-ACCC
11789434 CATAGGATAAAATGACCGAAAT
1 CATAGGATAAAATGACCGAAAT
11789456 GGGCCGTGTG
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
26 20 0.30
27 45 0.68
28 1 0.02
ACGTcount: A:0.47, C:0.19, G:0.18, T:0.17
Consensus pattern (26 bp):
CATAGGATAAAATGACCGAAATACCC
Found at i:11789744 original size:27 final size:27
Alignment explanation
Indices: 11789712--11789990 Score: 308
Period size: 27 Copynumber: 10.3 Consensus size: 27
11789702 CCCCAAAATA
* *
11789712 GGTAAAATGACCAAAATATCCCCATAA
1 GGTAAAATGACCAAAATACCCCCATAG
* * * * *
11789739 AGTAAAATGACCGAAATAACCCTATGG
1 GGTAAAATGACCAAAATACCCCCATAG
* *
11789766 GGTAAAATGACCGAAATACCCACATAG
1 GGTAAAATGACCAAAATACCCCCATAG
*
11789793 GGTAAAATGA-TAGAAATACCCCCATAG
1 GGTAAAATGACCA-AAATACCCCCATAG
* *
11789820 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
** *
11789847 GGTAAGGTGACCAAAATACCTCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* *
11789874 GGTAAAGTGACCGAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* **
11789901 GGTAAAGTGACCAAAAATACTACCATAG
1 GGTAAAATGACC-AAAATACCCCCATAG
* * **
11789929 GGTAAAATGATCGAAATACTTCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
*
11789956 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
11789983 GGTAAAAT
1 GGTAAAAT
11789991 AACTATTGTA
Statistics
Matches: 215, Mismatches: 34, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
27 193 0.90
28 22 0.10
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCAAAATACCCCCATAG
Found at i:11789960 original size:109 final size:108
Alignment explanation
Indices: 11789712--11789990 Score: 351
Period size: 108 Copynumber: 2.6 Consensus size: 108
11789702 CCCCAAAATA
* * * ** * * * *
11789712 GGTAAAATGACCAAAATATCCCCATAAAGTAAAATGACCGAAATAACCCTATGGGGTAAAATGAC
1 GGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAC
* * *
11789777 CGAAATACCCACATAGGGTAAAATGATAGAAATACCCCCATAG
66 CGAAATACCCACATAGGGTAAAATGACAAAAATACCACCATAG
** * *
11789820 GGTAAAATGATCGAAATACCCCCATAGGGTAAGGTGACCAAAATACCTCCATAGGGTAAAGTGAC
1 GGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAC
* * *
11789885 CGAAATACCCCCATAGGGTAAAGTGACCAAAAATACTACCATAG
66 CGAAATACCCACATAGGGTAAAATGA-CAAAAATACCACCATAG
** *
11789929 GGTAAAATGATCGAAATACTTCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAAT
1 GGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAAT
11789991 AACTATTGTA
Statistics
Matches: 144, Mismatches: 26, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
108 76 0.53
109 68 0.47
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (108 bp):
GGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAC
CGAAATACCCACATAGGGTAAAATGACAAAAATACCACCATAG
Found at i:11790489 original size:54 final size:54
Alignment explanation
Indices: 11790423--11790767 Score: 390
Period size: 54 Copynumber: 6.4 Consensus size: 54
11790413 AAATGATAAG
* * * * *
11790423 AATACCCACATAGAGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGG
1 AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGA
* * *
11790477 AACACCCCCATAGGGTAAAATGA-CTGAAATAACTCCATAGGGTAAAATGACCGA
1 AATACCCCCATAGGGTAAAATGATC-GAAATACCCCCATAGGGTAAAATGACCGA
* *** * **
11790531 AATACTCCCATAGGGTAAAATGATCGAAATACCTTTATA-GAT-AAATGATTGA
1 AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGA
* * * * *
11790583 AATACCCTCATAGGGTAAAGTGATCGAAATATCGCCATAGGGTAAAGTGACCGA
1 AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGA
* ***
11790637 AATACCCCCATAGGGTAAAATGATCGAAATACTCCCATAGGGTAAAATGAATAA
1 AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGA
* * * *
11790691 AATACCCCCATAGGGTAGAATGATCGAAATACCCTCATAGTGTAAAATGACTGA
1 AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGA
* *
11790745 CATAACCCCATAGGGTAAAATGA
1 AATACCCCCATAGGGTAAAATGA
11790768 CTATTATATC
Statistics
Matches: 243, Mismatches: 44, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
52 40 0.16
53 5 0.02
54 197 0.81
55 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (54 bp):
AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGA
Found at i:11790544 original size:81 final size:80
Alignment explanation
Indices: 11790409--11790768 Score: 395
Period size: 81 Copynumber: 4.5 Consensus size: 80
11790399 CCCTAAAATA
* *
11790409 GGTAAAATGA-TAAGAATACCCACATAGAGTAAAATGACCAAAATACCCCCATAGGGTAAAATGA
1 GGTAAAATGACTGA-AATACCC-CATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGA
* *
11790473 CCGGAACACCCCCATAG
64 CCGAAATACCCCCATAG
* * * *
11790490 GGTAAAATGACTGAAATAACTCCATAGGGTAAAATGACCGAAATACTCCCATAGGGTAAAATGAT
1 GGTAAAATGACTGAAAT-ACCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAC
***
11790555 CGAAATACCTTTATA-
65 CGAAATACCCCCATAG
* * * * * * * *
11790570 GAT-AAATGATTGAAATACCCTCATAGGGTAAAGTGATCGAAATATCGCCATAGGGTAAAGTGAC
1 GGTAAAATGACTGAAATACCC-CATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAC
11790634 CGAAATACCCCCATAG
65 CGAAATACCCCCATAG
** *
11790650 GGTAAAATGA-TCGAAATACTCCCATAGGGTAAAATGAATAAAATACCCCCATAGGGTAGAATGA
1 GGTAAAATGACT-GAAATAC-CCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGA
* *
11790714 TCGAAATACCCTCATAG
64 CCGAAATACCCCCATAG
* *
11790731 TGTAAAATGACTGACATAACCCCATAGGGTAAAATGAC
1 GGTAAAATGACTGAAAT-ACCCCATAGGGTAAAATGAC
11790769 TATTATATCC
Statistics
Matches: 232, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
78 3 0.01
79 60 0.26
80 5 0.02
81 154 0.66
82 10 0.04
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (80 bp):
GGTAAAATGACTGAAATACCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACC
GAAATACCCCCATAG
Found at i:11790769 original size:27 final size:27
Alignment explanation
Indices: 11790409--11790769 Score: 289
Period size: 27 Copynumber: 13.4 Consensus size: 27
11790399 CCCTAAAATA
*
11790409 GGTAAAATGA-TAAGAAT-ACCCACATAG
1 GGTAAAATGACTGA-AATAACCC-CATAG
* ** *
11790436 AGTAAAATGACCAAAATACCCCCATAG
1 GGTAAAATGACTGAAATAACCCCATAG
* * * *
11790463 GGTAAAATGACCGGAACACCCCCATAG
1 GGTAAAATGACTGAAATAACCCCATAG
*
11790490 GGTAAAATGACTGAAATAACTCCATAG
1 GGTAAAATGACTGAAATAACCCCATAG
*
11790517 GGTAAAATGACCGAAAT-ACTCCCATAG
1 GGTAAAATGACTGAAATAAC-CCCATAG
**
11790544 GGTAAAATGA-TCGAAAT-ACCTTTATA-
1 GGTAAAATGACT-GAAATAACC-CCATAG
* *
11790570 GAT-AAATGATTGAAAT-ACCCTCATAG
1 GGTAAAATGACTGAAATAACCC-CATAG
* * *
11790596 GGTAAAGTGA-TCGAAATATCGCCATAG
1 GGTAAAATGACT-GAAATAACCCCATAG
* * *
11790623 GGTAAAGTGACCGAAATACCCCCATAG
1 GGTAAAATGACTGAAATAACCCCATAG
11790650 GGTAAAATGA-TCGAAAT-ACTCCCATAG
1 GGTAAAATGACT-GAAATAAC-CCCATAG
* * *
11790677 GGTAAAATGAATAAAATACCCCCATAG
1 GGTAAAATGACTGAAATAACCCCATAG
*
11790704 GGTAGAATGA-TCGAAAT-ACCCTCATAG
1 GGTAAAATGACT-GAAATAACCC-CATAG
* *
11790731 TGTAAAATGACTGACATAACCCCATAG
1 GGTAAAATGACTGAAATAACCCCATAG
11790758 GGTAAAATGACT
1 GGTAAAATGACT
11790770 ATTATATCCC
Statistics
Matches: 275, Mismatches: 39, Indels: 40
0.78 0.11 0.11
Matches are distributed among these distances:
25 17 0.06
26 14 0.05
27 230 0.84
28 14 0.05
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACTGAAATAACCCCATAG
Found at i:11793827 original size:27 final size:27
Alignment explanation
Indices: 11793742--11794100 Score: 308
Period size: 27 Copynumber: 13.3 Consensus size: 27
11793732 CCCCAAAATA
* *
11793742 GGTAAAATAACCTG-AATA-CCCCATGG
1 GGTAAAATGACC-GAAATACCCCCATAG
* * *
11793768 GGTAAAATGATCAAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
** **
11793795 TATAAAATGACCGAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* ** * ** *
11793822 GGTAAAATAACTAAAACACCCTAACAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
11793849 GGTAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
** * ** *
11793876 GGTAACGTGATCGAAATACCTGCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
11793903 GGTAAAGTGACCGAAATACCCGCATAT
1 GGTAAAATGACCGAAATACCCCCATAG
* *
11793930 GGTAAAGTGACTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
** * **
11793957 CATAAAATGACCAAAATACCCTAATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* ** * *
11793984 GGTTAAATGATTGAAATACCCTCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* *
11794011 GGTAAAATGATCGAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
*
11794038 GGTAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
11794065 GGTAAAATGATCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
11794092 GGTAAAATG
1 GGTAAAATG
11794101 GTTGTTAAAC
Statistics
Matches: 269, Mismatches: 62, Indels: 3
0.81 0.19 0.01
Matches are distributed among these distances:
26 14 0.05
27 255 0.95
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:11796405 original size:38 final size:38
Alignment explanation
Indices: 11796354--11796427 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
11796344 GCCTACCATC
11796354 TTAAAGATAAGGCTCTAGTCACTTCAAGTGATTTTCCT
1 TTAAAGATAAGGCTCTAGTCACTTCAAGTGATTTTCCT
*
11796392 TTAAAGATAAGGCTCTAGTTACTTCAAGTGATTTTC
1 TTAAAGATAAGGCTCTAGTCACTTCAAGTGATTTTC
11796428 ACACTTTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (38 bp):
TTAAAGATAAGGCTCTAGTCACTTCAAGTGATTTTCCT
Found at i:11799795 original size:29 final size:29
Alignment explanation
Indices: 11799753--11799819 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
11799743 GGACATACCT
** ** *
11799753 TCCTTGGTGGACTTCCATAGTCGGACCAG
1 TCCTTGGCAGACTTCCATAGTCAAAACAG
* *
11799782 TCCTTGGCAGACTTCTATGGTCAAAACAG
1 TCCTTGGCAGACTTCCATAGTCAAAACAG
11799811 TCCTTGGCA
1 TCCTTGGCA
11799820 AATTCCCTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (29 bp):
TCCTTGGCAGACTTCCATAGTCAAAACAG
Found at i:11805688 original size:22 final size:22
Alignment explanation
Indices: 11805663--11805705 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11805653 ACCCAATTAC
* *
11805663 ATGGAGGCCCAAAATTGTCCAG
1 ATGGAAGCCCAAAATCGTCCAG
11805685 ATGGAAGCCCAAAATCGTCCA
1 ATGGAAGCCCAAAATCGTCCA
11805706 CCTATCATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.26, G:0.23, T:0.16
Consensus pattern (22 bp):
ATGGAAGCCCAAAATCGTCCAG
Found at i:11817625 original size:20 final size:20
Alignment explanation
Indices: 11817565--11817664 Score: 73
Period size: 20 Copynumber: 5.1 Consensus size: 20
11817555 AGTACAACAA
*
11817565 GGGCACGTAAGTGCAATCAG
1 GGGCACGTAAGTGCGATCAG
* * **
11817585 AGGTACCG-AAGTAAG-TCAG
1 GGGCA-CGTAAGTGCGATCAG
11817604 GGGCACGTAAGTGCGATCAG
1 GGGCACGTAAGTGCGATCAG
** *
11817624 GGATACCG-AAGTACGAT-AG
1 GGGCA-CGTAAGTGCGATCAG
*
11817643 TGGCACGTAAGTGCGATCAG
1 GGGCACGTAAGTGCGATCAG
11817663 GG
1 GG
11817665 ATATAATTAT
Statistics
Matches: 57, Mismatches: 17, Indels: 12
0.66 0.20 0.14
Matches are distributed among these distances:
18 4 0.07
19 24 0.42
20 25 0.44
21 4 0.07
ACGTcount: A:0.30, C:0.18, G:0.36, T:0.16
Consensus pattern (20 bp):
GGGCACGTAAGTGCGATCAG
Found at i:11817659 original size:19 final size:19
Alignment explanation
Indices: 11817564--11817664 Score: 66
Period size: 19 Copynumber: 5.2 Consensus size: 19
11817554 AAGTACAACA
*
11817564 AGGGCACGTAAGTGCAATC
1 AGGGCACGTAAGTGCGATC
* **
11817583 AGAGGTACCG-AAGTAAG-TC
1 AG-GGCA-CGTAAGTGCGATC
11817602 AGGGGCACGTAAGTGCGATC
1 A-GGGCACGTAAGTGCGATC
* *
11817622 AGGGATACCG-AAGTACGAT-
1 AGGG-CA-CGTAAGTGCGATC
11817641 AGTGGCACGTAAGTGCGATC
1 AG-GGCACGTAAGTGCGATC
11817661 AGGG
1 AGGG
11817665 ATATAATTAT
Statistics
Matches: 61, Mismatches: 11, Indels: 20
0.66 0.12 0.22
Matches are distributed among these distances:
18 4 0.07
19 29 0.48
20 24 0.39
21 4 0.07
ACGTcount: A:0.31, C:0.18, G:0.36, T:0.16
Consensus pattern (19 bp):
AGGGCACGTAAGTGCGATC
Found at i:11817663 original size:39 final size:38
Alignment explanation
Indices: 11817527--11817667 Score: 144
Period size: 39 Copynumber: 3.6 Consensus size: 38
11817517 ACATAACCAC
* * * * *
11817527 GGCACGAAAGTGCTATCA-AGAGTACCGAAGTACAACAAG
1 GGCACGTAAGTGCGATCAGGGA-TACCGAAGTACGA-TAG
* *
11817566 GGCACGTAAGTGCAATCAGAGG-TACCGAAGTAAG-TCAGG
1 GGCACGTAAGTGCGATCAG-GGATACCGAAGTACGAT-A-G
11817605 GGCACGTAAGTGCGATCAGGGATACCGAAGTACGATAG
1 GGCACGTAAGTGCGATCAGGGATACCGAAGTACGATAG
11817643 TGGCACGTAAGTGCGATCAGGGATA
1 -GGCACGTAAGTGCGATCAGGGATA
11817668 TAATTATATA
Statistics
Matches: 87, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
38 4 0.05
39 81 0.93
40 1 0.01
41 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.32, T:0.16
Consensus pattern (38 bp):
GGCACGTAAGTGCGATCAGGGATACCGAAGTACGATAG
Found at i:11817807 original size:19 final size:19
Alignment explanation
Indices: 11817780--11817841 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
11817770 AAGAGTACCA
11817780 AAGTACAACAGGGGCACGT
1 AAGTACAACAGGGGCACGT
* * *
11817799 AAGTGCAACCAGAGGTACCG-
1 AAGTACAA-CAGGGGCA-CGT
*
11817819 AAGTACGACAGGGGCACGT
1 AAGTACAACAGGGGCACGT
11817838 AAGT
1 AAGT
11817842 GCGATCAGTG
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 2 0.06
19 17 0.52
20 12 0.36
21 2 0.06
ACGTcount: A:0.35, C:0.21, G:0.32, T:0.11
Consensus pattern (19 bp):
AAGTACAACAGGGGCACGT
Found at i:11817817 original size:39 final size:38
Alignment explanation
Indices: 11817774--11817928 Score: 186
Period size: 39 Copynumber: 4.0 Consensus size: 38
11817764 GCTATCAAGA
*
11817774 GTACCAAAGTACAACAGGGGCACGTAAGTGCAACCAGAG
1 GTACCAAAGTACAACAGGGGCACGTAAGTGCGACCAG-G
* * * *
11817813 GTACCGAAGTACGACAGGGGCACGTAAGTGCGATCAGT
1 GTACCAAAGTACAACAGGGGCACGTAAGTGCGACCAGG
*
11817851 GTACCAAAGTACGAA-AGGGGCACGTAAGTGCGAGCAGGG
1 GTACCAAAGTAC-AACAGGGGCACGTAAGTGCGACCA-GG
* * * *
11817890 GTACCAAAGTACGATAGTGGCACGTAAGTGCGATCAGG
1 GTACCAAAGTACAACAGGGGCACGTAAGTGCGACCAGG
11817928 G
1 G
11817929 ATATAATTAT
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
38 35 0.35
39 66 0.65
ACGTcount: A:0.33, C:0.20, G:0.34, T:0.14
Consensus pattern (38 bp):
GTACCAAAGTACAACAGGGGCACGTAAGTGCGACCAGG
Found at i:11817901 original size:77 final size:77
Alignment explanation
Indices: 11817774--11817926 Score: 236
Period size: 77 Copynumber: 2.0 Consensus size: 77
11817764 GCTATCAAGA
*
11817774 GTACCAAAGTACAACAGGGGCACGTAAGTGCAACCAGAGGTACCGAAGTACGACAGGGGCACGTA
1 GTACCAAAGTACAACAGGGGCACGTAAGTGCAACCAGAGGTACCAAAGTACGACAGGGGCACGTA
11817839 AGTGCGATCAGT
66 AGTGCGATCAGT
* * * * *
11817851 GTACCAAAGTACGAA-AGGGGCACGTAAGTGCGAGCAGGGGTACCAAAGTACGATAGTGGCACGT
1 GTACCAAAGTAC-AACAGGGGCACGTAAGTGCAACCAGAGGTACCAAAGTACGACAGGGGCACGT
11817915 AAGTGCGATCAG
65 AAGTGCGATCAG
11817927 GGATATAATT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
77 67 0.97
78 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.33, T:0.14
Consensus pattern (77 bp):
GTACCAAAGTACAACAGGGGCACGTAAGTGCAACCAGAGGTACCAAAGTACGACAGGGGCACGTA
AGTGCGATCAGT
Found at i:11817923 original size:19 final size:19
Alignment explanation
Indices: 11817828--11817928 Score: 60
Period size: 19 Copynumber: 5.2 Consensus size: 19
11817818 GAAGTACGAC
11817828 AGGGGCACGTAAGTGCGAT
1 AGGGGCACGTAAGTGCGAT
* * ** * *
11817847 CA-GTGTACCAAAGTACGAA
1 -AGGGGCACGTAAGTGCGAT
*
11817866 AGGGGCACGTAAGTGCGAGC
1 AGGGGCACGTAAGTGCGA-T
* ** *
11817886 AGGGGTACCAAAGTACGAT
1 AGGGGCACGTAAGTGCGAT
*
11817905 AGTGGCACGTAAGTGCGAT
1 AGGGGCACGTAAGTGCGAT
11817924 CAGGG
1 -AGGG
11817929 ATATAATTAT
Statistics
Matches: 55, Mismatches: 23, Indels: 6
0.65 0.27 0.07
Matches are distributed among these distances:
18 1 0.02
19 36 0.65
20 18 0.33
ACGTcount: A:0.31, C:0.18, G:0.37, T:0.15
Consensus pattern (19 bp):
AGGGGCACGTAAGTGCGAT
Found at i:11819392 original size:27 final size:27
Alignment explanation
Indices: 11819115--11819381 Score: 349
Period size: 27 Copynumber: 10.0 Consensus size: 27
11819105 GCAAAGTGAT
**
11819115 CGAAATACCCCCATAGGGTAAAATGGT
1 CGAAATACCCCCATAGGGTAAAATGAC
**
11819142 CGAAATACCCCCATAGGGTAAGGTGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
* *
11819169 CAAAATACCCCCATAGGGTAAAGTGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
*
11819196 CGAAATACCCCCATAGGGTAAAGTGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
* * *
11819223 CAAAATAACCCCATA-AGTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
* * * *
11819249 CGAAATACTCTCATAGGATAAAATGCC
1 CGAAATACCCCCATAGGGTAAAATGAC
* *
11819276 CGAAATA-ACCCATAGGGTAAAATGAT
1 CGAAATACCCCCATAGGGTAAAATGAC
*
11819302 TGAAATACCCCCATAGGGTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
* *
11819329 CGAAATACCCCGAGAGGGTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
11819356 CGAAATACCCCCATAGGGTAAAATGA
1 CGAAATACCCCCATAGGGTAAAATGA
11819382 TTATTATACC
Statistics
Matches: 207, Mismatches: 31, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
26 40 0.19
27 167 0.81
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.16
Consensus pattern (27 bp):
CGAAATACCCCCATAGGGTAAAATGAC
Found at i:11819830 original size:27 final size:26
Alignment explanation
Indices: 11819796--11820062 Score: 205
Period size: 27 Copynumber: 10.0 Consensus size: 26
11819786 AGACCCTAAA
11819796 ATAGGTAAAATGA-CAAGAATACCCCC
1 ATAGGTAAAATGACCAA-AATACCCCC
11819822 ATAGAGTAAAATGACCAAAATACCCCC
1 ATAG-GTAAAATGACCAAAATACCCCC
* *
11819849 AAAAGGGTAAAATGACCGAAATACCCCC
1 -ATA-GGTAAAATGACCAAAATACCCCC
* *
11819877 ATAGGGTAAAATGACCAAAATACTCCA
1 ATA-GGTAAAATGACCAAAATACCCCC
* * **
11819904 ATAGGATAAAATGATCGAAATACCCTT
1 ATAGG-TAAAATGACCAAAATACCCCC
** *
11819931 ATAGGTAAAATGACTGAAATACCCTC
1 ATAGGTAAAATGACCAAAATACCCCC
* * *
11819957 ATAGGATAAAGTGACCGAAATACCCTC
1 ATAGG-TAAAATGACCAAAATACCCCC
* * * **
11819984 ATAGGGTAAAGTGACCGAAATAGCGTC
1 ATA-GGTAAAATGACCAAAATACCCCC
* ** *
11820011 ATAGGGTAAAGTGGTCGAAATACCCCC
1 ATA-GGTAAAATGACCAAAATACCCCC
* *
11820038 ATAGGGT-AAATAACCGAAATACCCC
1 ATA-GGTAAAATGACCAAAATACCCC
11820063 TGTAATACCC
Statistics
Matches: 207, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
26 43 0.21
27 135 0.65
28 28 0.14
29 1 0.00
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (26 bp):
ATAGGTAAAATGACCAAAATACCCCC
Found at i:11819935 original size:54 final size:55
Alignment explanation
Indices: 11819795--11820060 Score: 253
Period size: 54 Copynumber: 4.9 Consensus size: 55
11819785 GAGACCCTAA
* * *
11819795 AATAGG-TAAAATGA-CAAGAATACCCCCATAGAGTAAAATGACCAAAATACCCCC
1 AATAGGATAAAATGACCGA-AATACCCCCATAGGGTAAAATGACCAAAATACCTCC
* *
11819849 AAAAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATA-CTCC
1 AATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCTCC
* ** **
11819903 AATAGGATAAAATGATCGAAATACCCTTATA-GGTAAAATGACTGAAATACC-CTC
1 AATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCTC-C
* * * * *
11819957 -ATAGGATAAAGTGACCGAAATACCCTCATAGGGTAAAGTGACCGAAATAGCGT-C
1 AATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATA-CCTCC
* * ** * *
11820011 -ATAGGGTAAAGTGGTCGAAATACCCCCATAGGGT-AAATAACCGAAATACC
1 AATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACC
11820061 CCTGTAATAC
Statistics
Matches: 181, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
52 1 0.01
53 56 0.31
54 83 0.46
55 39 0.22
56 2 0.01
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (55 bp):
AATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCTCC
Found at i:11819992 original size:107 final size:108
Alignment explanation
Indices: 11819795--11820062 Score: 305
Period size: 107 Copynumber: 2.5 Consensus size: 108
11819785 GAGACCCTAA
* * *
11819795 AATAGGTAAAATGA-CAAGAATACCCCCATAGAGTAAAATGACCAAAATACCCCCAAAAGGGTAA
1 AATAGGTAAAATGATCGA-AATACCCCCATAG-GTAAAATGACCGAAATACCCCCAAAAGGATAA
11819859 AATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATA-C-TCC
64 AATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATAGCGT-C
** * * *
11819903 AATAGGATAAAATGATCGAAATACCCTTATAGGTAAAATGACTGAAATACCCTC-ATAGGATAAA
1 AATAGG-TAAAATGATCGAAATACCCCCATAGGTAAAATGACCGAAATACCCCCAAAAGGATAAA
* * * *
11819967 GTGACCGAAATACCCTCATAGGGTAAAGTGACCGAAATAGCGTC
65 ATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATAGCGTC
* * *
11820011 -ATAGGGTAAAGTGGTCGAAATACCCCCATAGGGT-AAATAACCGAAATACCCC
1 AATA-GGTAAAATGATCGAAATACCCCCATA-GGTAAAATGACCGAAATACCCC
11820063 TGTAATACCC
Statistics
Matches: 135, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
107 81 0.60
108 32 0.24
109 20 0.15
110 2 0.01
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (108 bp):
AATAGGTAAAATGATCGAAATACCCCCATAGGTAAAATGACCGAAATACCCCCAAAAGGATAAAA
TGACCGAAATACCCCCATAGGGTAAAATGACCAAAATAGCGTC
Found at i:11820254 original size:19 final size:19
Alignment explanation
Indices: 11820230--11820432 Score: 289
Period size: 19 Copynumber: 10.3 Consensus size: 19
11820220 AATCTTCAAG
*
11820230 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
11820249 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
11820268 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
11820289 GATATGCAATCTTAGATTT
1 GATATGCAATCTTAGATAT
11820308 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
11820329 GATATGCAATCTTAGATTT
1 GATATGCAATCTTAGATAT
11820348 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
11820369 GATATGCAATCTTAGATTT
1 GATATGCAATCTTAGATAT
11820388 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
11820409 GATATGCAATCTTAGATTT
1 GATATGCAATCTTAGATAT
11820428 GATAT
1 GATAT
11820433 ATGTTTCATT
Statistics
Matches: 168, Mismatches: 8, Indels: 16
0.88 0.04 0.08
Matches are distributed among these distances:
19 95 0.57
21 73 0.43
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.40
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:11820281 original size:40 final size:40
Alignment explanation
Indices: 11820231--11820435 Score: 392
Period size: 40 Copynumber: 5.1 Consensus size: 40
11820221 ATCTTCAAGG
* *
11820231 ATATGTAATCTTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
11820271 ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
11820311 ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
11820351 ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
11820391 ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
11820431 ATATG
1 ATATG
11820436 TTTCATTGTA
Statistics
Matches: 163, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 163 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
Found at i:11820567 original size:23 final size:23
Alignment explanation
Indices: 11820523--11820567 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11820513 TCTTATTTTG
* *
11820523 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
*
11820546 TTGATTTGTATATTATTGATTT
1 TTGATTTGTATATAATTGATTT
11820568 CAAATATCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:11820815 original size:5 final size:6
Alignment explanation
Indices: 11820800--11820824 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11820790 TCATTATTAC
11820800 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
11820825 ATTCATGCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:11824855 original size:27 final size:27
Alignment explanation
Indices: 11824824--11825133 Score: 334
Period size: 27 Copynumber: 11.5 Consensus size: 27
11824814 GACCCCAAAA
* **
11824824 AAGGTAAAATGACTGAAATACCCTTAT
1 AAGGTAAAATGACCGAAATACCCCCAT
* * * *
11824851 AAGGTAAAATAACTGAAATACCGCCAC
1 AAGGTAAAATGACCGAAATACCCCCAT
* *
11824878 AGGGTAAAATGACCAAAATACCCCCAT
1 AAGGTAAAATGACCGAAATACCCCCAT
* ** *
11824905 AGGGTAACGTGACCGAAATACCCGCAT
1 AAGGTAAAATGACCGAAATACCCCCAT
* *
11824932 AAGGTAAAGTGACCGAAATACCCGCAT
1 AAGGTAAAATGACCGAAATACCCCCAT
* * *
11824959 ATGGTAAACTGACCGAAATAGCCCCAT
1 AAGGTAAAATGACCGAAATACCCCCAT
* **
11824986 -AGCATAAAATGACCGAAATACCCTAAT
1 AAG-GTAAAATGACCGAAATACCCCCAT
* **
11825013 AAGGTTAAATGACTAAAATACCCCCAT
1 AAGGTAAAATGACCGAAATACCCCCAT
*
11825040 AAGGTAAAATGACCAAAATACCCCCAT
1 AAGGTAAAATGACCGAAATACCCCCAT
* *
11825067 AGGGTAAAATGACTGAAATACCCCCAT
1 AAGGTAAAATGACCGAAATACCCCCAT
* *
11825094 AAGGTAAAATGATCGAAATACCCCTAT
1 AAGGTAAAATGACCGAAATACCCCCAT
*
11825121 AGGGTAAAATGAC
1 AAGGTAAAATGAC
11825134 TGTTATACCA
Statistics
Matches: 237, Mismatches: 44, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
26 1 0.00
27 234 0.99
28 2 0.01
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (27 bp):
AAGGTAAAATGACCGAAATACCCCCAT
Found at i:11825142 original size:81 final size:80
Alignment explanation
Indices: 11824826--11825133 Score: 375
Period size: 81 Copynumber: 3.8 Consensus size: 80
11824816 CCCCAAAAAA
* * * *
11824826 GGTAAAATGACTGAAATACCCTTATAAGGTAAAATAACTGAAATACCGCCACAGGGTAAAATGAC
1 GGTAAAATGACCGAAATACCCTCATAAGGTAAAATGACTGAAATACC-CCATAGGGTAAAATGAC
11824891 CAAAATACCCCCATAG
65 CAAAATACCCCCATAG
** * * * * *
11824907 GGTAACGTGACCGAAATACCCGCATAAGGTAAAGTGACCGAAATACCCGCATATGGTAAACTGAC
1 GGTAAAATGACCGAAATACCCTCATAAGGTAAAATGACTGAAATACCC-CATAGGGTAAAATGAC
* *
11824972 CGAAATAGCCCCATAG
65 CAAAATACCCCCATAG
** * * * *
11824988 CATAAAATGACCGAAATACCCTAATAAGGTTAAATGACTAAAATACCCCCATAAGGTAAAATGAC
1 GGTAAAATGACCGAAATACCCTCATAAGGTAAAATGACTGAAATA-CCCCATAGGGTAAAATGAC
11825053 CAAAATACCCCCATAG
65 CAAAATACCCCCATAG
* *
11825069 GGTAAAATGACTGAAATACCCCCATAAGGTAAAATGA-TCGAAATACCCCTATAGGGTAAAATGA
1 GGTAAAATGACCGAAATACCCTCATAAGGTAAAATGACT-GAAATACCCC-ATAGGGTAAAATGA
11825133 C
64 C
11825134 TGTTATACCA
Statistics
Matches: 188, Mismatches: 35, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
80 6 0.03
81 179 0.95
82 3 0.02
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (80 bp):
GGTAAAATGACCGAAATACCCTCATAAGGTAAAATGACTGAAATACCCCATAGGGTAAAATGACC
AAAATACCCCCATAG
Found at i:11827404 original size:38 final size:38
Alignment explanation
Indices: 11827349--11827422 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
11827339 GCCTACCGTC
*
11827349 TTAAAGATAAGGATCTAGTCAGTTCAAGTGATTTTCCT
1 TTAAAGATAAGGATCTAGTCACTTCAAGTGATTTTCCT
* *
11827387 TTAAAGATAAGGCTCTAGTTACTTCAAGTGATTTTC
1 TTAAAGATAAGGATCTAGTCACTTCAAGTGATTTTC
11827423 ACAATTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.38
Consensus pattern (38 bp):
TTAAAGATAAGGATCTAGTCACTTCAAGTGATTTTCCT
Found at i:11836971 original size:22 final size:22
Alignment explanation
Indices: 11836940--11836982 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11836930 ACCCAATTAC
* * *
11836940 ATGGAGGCCCAGAATTGTCCAG
1 ATGGAAGCCCAAAATCGTCCAG
11836962 ATGGAAGCCCAAAATCGTCCA
1 ATGGAAGCCCAAAATCGTCCA
11836983 CCTATCATCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.16
Consensus pattern (22 bp):
ATGGAAGCCCAAAATCGTCCAG
Found at i:11850515 original size:39 final size:38
Alignment explanation
Indices: 11850451--11850623 Score: 186
Period size: 39 Copynumber: 4.5 Consensus size: 38
11850441 ACATAACCAC
* * * * *
11850451 GGCACGAAAGTGCTATCAAGAGTACCGAAGTACAATAAG
1 GGCACGTAAGTGCGATC-AGGGTACCGAAGTACGACAAG
* * *
11850490 GGCACGTAAGTGCAATTAGAGGTACCGAAGTACGACAGG
1 GGCACGTAAGTGCGATCAG-GGTACCGAAGTACGACAAG
* *
11850529 GGCACGTAAGTGCGATCAGGGTACCAAAGTACGACAGG
1 GGCACGTAAGTGCGATCAGGGTACCGAAGTACGACAAG
* *
11850567 GGCACGTAAGTACGATCAGGGGTACCGAAGTACGA-TAG
1 GGCACGTAAGTGCGATCA-GGGTACCGAAGTACGACAAG
*
11850605 TGGCACATAAGTGCGATCA
1 -GGCACGTAAGTGCGATCA
11850624 TGGATATAAT
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
38 38 0.33
39 77 0.67
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (38 bp):
GGCACGTAAGTGCGATCAGGGTACCGAAGTACGACAAG
Found at i:11850577 original size:19 final size:19
Alignment explanation
Indices: 11850517--11850616 Score: 87
Period size: 19 Copynumber: 5.2 Consensus size: 19
11850507 AGAGGTACCG
11850517 AAGTACGACAGGGGCACGT
1 AAGTACGACAGGGGCACGT
* * **
11850536 AAGTGCGATCA-GGGTACCA
1 AAGTACGA-CAGGGGCACGT
11850555 AAGTACGACAGGGGCACGT
1 AAGTACGACAGGGGCACGT
*
11850574 AAGTACGATCAGGGGTACCG-
1 AAGTACGA-CAGGGGCA-CGT
* * *
11850594 AAGTACGATAGTGGCACAT
1 AAGTACGACAGGGGCACGT
11850613 AAGT
1 AAGT
11850617 GCGATCATGG
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
18 3 0.05
19 41 0.65
20 17 0.27
21 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.33, T:0.15
Consensus pattern (19 bp):
AAGTACGACAGGGGCACGT
Found at i:11850591 original size:77 final size:77
Alignment explanation
Indices: 11850451--11850623 Score: 211
Period size: 77 Copynumber: 2.2 Consensus size: 77
11850441 ACATAACCAC
* * * * * *
11850451 GGCACGAAAGTGCTATCAAGAGTACCGAAGTACAATAAGGGCACGTAAGTGCAATTAGAGGTACC
1 GGCACGTAAGTGCGATC-AGAGTACCAAAGTACAACAAGGGCACGTAAGTACAATCAGAGGTACC
11850516 GAAGTACGACAGG
65 GAAGTACGACAGG
* * * * *
11850529 GGCACGTAAGTGCGATCAGGGTACCAAAGTACGACAGGGGCACGTAAGTACGATCAGGGGTACCG
1 GGCACGTAAGTGCGATCAGAGTACCAAAGTACAACAAGGGCACGTAAGTACAATCAGAGGTACCG
* *
11850594 AAGTACGATAGT
66 AAGTACGACAGG
*
11850606 GGCACATAAGTGCGATCA
1 GGCACGTAAGTGCGATCA
11850624 TGGATATAAT
Statistics
Matches: 81, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
77 66 0.81
78 15 0.19
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (77 bp):
GGCACGTAAGTGCGATCAGAGTACCAAAGTACAACAAGGGCACGTAAGTACAATCAGAGGTACCG
AAGTACGACAGG
Found at i:11850844 original size:19 final size:20
Alignment explanation
Indices: 11850796--11850893 Score: 76
Period size: 19 Copynumber: 5.0 Consensus size: 20
11850786 GTATGACAGA
*
11850796 GGCACGTAAGTGCGATCA-G
1 GGCACGTAAGTACGATCAGG
* **
11850815 GGTACCAAAGTACGAT-AGG
1 GGCACGTAAGTACGATCAGG
* *
11850834 GGCACGTAAGTGCAATCAGG
1 GGCACGTAAGTACGATCAGG
** ** *
11850854 GGTTCCAAAGTACGAT-AGT
1 GGCACGTAAGTACGATCAGG
11850873 GGCACGTAAGTACGATCAGG
1 GGCACGTAAGTACGATCAGG
11850893 G
1 G
11850894 ATATAATTAT
Statistics
Matches: 55, Mismatches: 21, Indels: 5
0.68 0.26 0.06
Matches are distributed among these distances:
18 1 0.02
19 38 0.69
20 16 0.29
ACGTcount: A:0.31, C:0.18, G:0.34, T:0.17
Consensus pattern (20 bp):
GGCACGTAAGTACGATCAGG
Found at i:11850844 original size:77 final size:77
Alignment explanation
Indices: 11850718--11850893 Score: 212
Period size: 77 Copynumber: 2.3 Consensus size: 77
11850708 ACATTACCAC
* * *
11850718 GGCACGAAAGTGCTATCAAGAGTACCAAAGTACAGCAAGGGCACATAAGTGCAATCAGAGGTACC
1 GGCACGTAAGTGCGATC-AGGGTACCAAAGTACAGCAAGGGCACATAAGTGCAATCAGAGGTACC
* *
11850783 GAAGTATGACAGA
65 AAAGTACGACAGA
* * *
11850796 GGCACGTAAGTGCGATCAGGGTACCAAAGTAC-G-ATAGGGGCACGTAAGTGCAATCAGGGGTTC
1 GGCACGTAAGTGCGATCAGGGTACCAAAGTACAGCA-A-GGGCACATAAGTGCAATCAGAGGTAC
* *
11850859 CAAAGTACGATAGT
64 CAAAGTACGACAGA
*
11850873 GGCACGTAAGTACGATCAGGG
1 GGCACGTAAGTGCGATCAGGG
11850894 ATATAATTAT
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
75 1 0.01
76 2 0.02
77 67 0.79
78 15 0.18
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.16
Consensus pattern (77 bp):
GGCACGTAAGTGCGATCAGGGTACCAAAGTACAGCAAGGGCACATAAGTGCAATCAGAGGTACCA
AAGTACGACAGA
Found at i:11850891 original size:39 final size:39
Alignment explanation
Indices: 11850718--11850893 Score: 178
Period size: 39 Copynumber: 4.5 Consensus size: 39
11850708 ACATTACCAC
* * * *
11850718 GGCACGAAAGTGCTATCAAGAGTACCAAAGTACAGCA-A-G
1 GGCACGTAAGTGCGATCAGGGGTACCAAAGTAC-G-ATAGG
* * * * * * *
11850757 GGCACATAAGTGCAATCAGAGGTACCGAAGTATGACAGA
1 GGCACGTAAGTGCGATCAGGGGTACCAAAGTACGATAGG
11850796 GGCACGTAAGTGCGATCA-GGGTACCAAAGTACGATAGG
1 GGCACGTAAGTGCGATCAGGGGTACCAAAGTACGATAGG
* * *
11850834 GGCACGTAAGTGCAATCAGGGGTTCCAAAGTACGATAGT
1 GGCACGTAAGTGCGATCAGGGGTACCAAAGTACGATAGG
*
11850873 GGCACGTAAGTACGATCAGGG
1 GGCACGTAAGTGCGATCAGGG
11850894 ATATAATTAT
Statistics
Matches: 113, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.01
38 34 0.30
39 78 0.69
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.16
Consensus pattern (39 bp):
GGCACGTAAGTGCGATCAGGGGTACCAAAGTACGATAGG
Found at i:11850898 original size:267 final size:267
Alignment explanation
Indices: 11850423--11850954 Score: 902
Period size: 267 Copynumber: 2.0 Consensus size: 267
11850413 ATTATTTTTC
* * *
11850423 TTAATAAATGTTACTGAAACATAACCACGGCACGAAAGTGCTATCAAGAGTACCGAAGTACAATA
1 TTAATAAATGTTACCGAAACATAACCACGGCACGAAAGTGCTATCAAGAGTACCAAAGTACAACA
* * *
11850488 AGGGCACGTAAGTGCAATTAGAGGTACCGAAGTACGACAGGGGCACGTAAGTGCGATCAGGGTAC
66 AGGGCACATAAGTGCAATCAGAGGTACCGAAGTACGACAGAGGCACGTAAGTGCGATCAGGGTAC
* * *
11850553 CAAAGTACGACAGGGGCACGTAAGTACGATCAGGGGTACCGAAGTACGATAGTGGCACATAAGTG
131 CAAAGTACGACAGGGGCACGTAAGTACAATCAGGGGTACCAAAGTACGATAGTGGCACATAAGTA
*
11850618 CGATCATGGATATAATTATATAATAATTAACTACTTGATTATAAAATACAAATACATAAGGAAAT
196 CGATCAGGGATATAATTATATAATAATTAACTACTTGATTATAAAATACAAATACATAAGGAAAT
11850683 AAAATAA
261 AAAATAA
* *
11850690 TTAATAAATGTTACCGAAACATTACCACGGCACGAAAGTGCTATCAAGAGTACCAAAGTACAGCA
1 TTAATAAATGTTACCGAAACATAACCACGGCACGAAAGTGCTATCAAGAGTACCAAAGTACAACA
*
11850755 AGGGCACATAAGTGCAATCAGAGGTACCGAAGTATGACAGAGGCACGTAAGTGCGATCAGGGTAC
66 AGGGCACATAAGTGCAATCAGAGGTACCGAAGTACGACAGAGGCACGTAAGTGCGATCAGGGTAC
* * * *
11850820 CAAAGTACGATAGGGGCACGTAAGTGCAATCAGGGGTTCCAAAGTACGATAGTGGCACGTAAGTA
131 CAAAGTACGACAGGGGCACGTAAGTACAATCAGGGGTACCAAAGTACGATAGTGGCACATAAGTA
11850885 CGATCAGGGATATAATTATATAATAATTAACTACTTGATTATAAAATACAAATACATAAGGAAAT
196 CGATCAGGGATATAATTATATAATAATTAACTACTTGATTATAAAATACAAATACATAAGGAAAT
*
11850950 CAAAT
261 AAAAT
11850955 GATATAATTT
Statistics
Matches: 247, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
267 247 1.00
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (267 bp):
TTAATAAATGTTACCGAAACATAACCACGGCACGAAAGTGCTATCAAGAGTACCAAAGTACAACA
AGGGCACATAAGTGCAATCAGAGGTACCGAAGTACGACAGAGGCACGTAAGTGCGATCAGGGTAC
CAAAGTACGACAGGGGCACGTAAGTACAATCAGGGGTACCAAAGTACGATAGTGGCACATAAGTA
CGATCAGGGATATAATTATATAATAATTAACTACTTGATTATAAAATACAAATACATAAGGAAAT
AAAATAA
Found at i:11854738 original size:71 final size:71
Alignment explanation
Indices: 11854663--11854822 Score: 196
Period size: 71 Copynumber: 2.3 Consensus size: 71
11854653 TCGATGACTA
** * * * * * *
11854663 AATGCTCCTTTTATAGGTTCAAATTTTGTTGTTGTGACATTGAGTGGTTGTTGTTGCGACATTGA
1 AATGCTCCCCTTATAGGTTCAAAATTTGTTGTCGCGACATTGAGTGGTTGTTATCGCAACATTGA
11854728 AGGCTG
66 AGGCTG
*
11854734 AATGCTCCCCTTCTAGGTTCAAAATTTGTTGTCGCGACATTGAGTGGTTGTTATCGCAACATTGA
1 AATGCTCCCCTTATAGGTTCAAAATTTGTTGTCGCGACATTGAGTGGTTGTTATCGCAACATTGA
* *
11854799 TGGTTG
66 AGGCTG
*
11854805 AATGTTCTCCCTT-TAGGT
1 AATGCTC-CCCTTATAGGT
11854823 CTGAAGTTCA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
71 71 0.93
72 5 0.07
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (71 bp):
AATGCTCCCCTTATAGGTTCAAAATTTGTTGTCGCGACATTGAGTGGTTGTTATCGCAACATTGA
AGGCTG
Found at i:11854804 original size:21 final size:22
Alignment explanation
Indices: 11854759--11854804 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
11854749 GGTTCAAAAT
* *
11854759 TTGTTGTCGCGACATTGAGTGG
1 TTGTTATCGCAACATTGAGTGG
11854781 TTGTTATCGCAACATTGA-TGG
1 TTGTTATCGCAACATTGAGTGG
11854802 TTG
1 TTG
11854805 AATGTTCTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.17, C:0.13, G:0.30, T:0.39
Consensus pattern (22 bp):
TTGTTATCGCAACATTGAGTGG
Found at i:11856730 original size:22 final size:22
Alignment explanation
Indices: 11856705--11856796 Score: 112
Period size: 22 Copynumber: 4.2 Consensus size: 22
11856695 AAATTCAATA
* *
11856705 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
11856727 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
11856749 TCAATTCCCTTCAAAATTTCTA
1 TCAATTCCCTTCAAAAATTCTC
* *
11856771 TCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
11856793 TCAA
1 TCAA
11856797 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 62 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:11856812 original size:52 final size:51
Alignment explanation
Indices: 11856746--11856848 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
11856736 TTCAAAATTT
* * *
11856746 CTCTCAATTCCCTT-CAAAATTTCTATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA-TCCTATCAATTTCCTTCAAAAAATCTC-CAAA
*
11856798 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
11856849 TCCATATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:11856837 original size:21 final size:22
Alignment explanation
Indices: 11856798--11856839 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11856788 TTCTCTCAAA
11856798 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
11856820 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
11856840 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:11856936 original size:29 final size:29
Alignment explanation
Indices: 11856881--11856936 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
11856871 ATTAAATTTC
11856881 ATTTTTTTAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTT
*
11856910 ATTTTTTTAA-ATAATTTTAAAATTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTT
11856937 AATATTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTTT
Found at i:11856944 original size:29 final size:29
Alignment explanation
Indices: 11856881--11856944 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
11856871 ATTAAATTTC
*
11856881 ATTTTTTTAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTA
*
11856910 ATTTTTTTAA-ATAATTTTAAAATTTTTA
1 ATTTTTTTAAGAAAATTTTAAAATTTTTA
*
11856938 ATATTTT
1 ATTTTTT
11856945 CAACAATGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 22 0.69
29 10 0.31
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTTA
Found at i:11859403 original size:39 final size:39
Alignment explanation
Indices: 11859349--11859428 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
11859339 ATTAAATTTG
11859349 ATGCATTGTTAGTACATAAGTCTCATGCACCATTGCTGA
1 ATGCATTGTTAGTACATAAGTCTCATGCACCATTGCTGA
11859388 ATGCATTGTTAGTACATAAGTCTCATGCACCATTGCTGA
1 ATGCATTGTTAGTACATAAGTCTCATGCACCATTGCTGA
11859427 AT
1 AT
11859429 AATAACATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (39 bp):
ATGCATTGTTAGTACATAAGTCTCATGCACCATTGCTGA
Found at i:11860963 original size:14 final size:16
Alignment explanation
Indices: 11860944--11860977 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
11860934 TTTGCTTCTC
11860944 TATTTCTTT-TTTT-T
1 TATTTCTTTGTTTTAT
11860958 TATTTCTTTGTTTTAT
1 TATTTCTTTGTTTTAT
11860974 TATT
1 TATT
11860978 ATATAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 4 0.22
16 5 0.28
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (16 bp):
TATTTCTTTGTTTTAT
Found at i:11862055 original size:30 final size:30
Alignment explanation
Indices: 11862006--11862066 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
11861996 TCTTCTCAAA
* *
11862006 CCTAAGATCTTGAATGAGATATC-GAGTCTT
1 CCTAAGATCTTAAACGAGATATCAG-GTCTT
*
11862036 CCTAAGCTCTTAAACGAGATATCAGGTCTT
1 CCTAAGATCTTAAACGAGATATCAGGTCTT
11862066 C
1 C
11862067 TCAAGTTCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (30 bp):
CCTAAGATCTTAAACGAGATATCAGGTCTT
Found at i:11864589 original size:19 final size:19
Alignment explanation
Indices: 11864565--11864613 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
11864555 AATTGATTTG
11864565 TTTGAGAAGAAAAAAAATA
1 TTTGAGAAGAAAAAAAATA
11864584 TTTGAGAAGAAAAAAAATA
1 TTTGAGAAGAAAAAAAATA
11864603 TTTGAGAAGAA
1 TTTGAGAAGAA
11864614 TTGACAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.22
Consensus pattern (19 bp):
TTTGAGAAGAAAAAAAATA
Found at i:11866724 original size:5 final size:5
Alignment explanation
Indices: 11866714--11866739 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11866704 TGCATCTGGG
11866714 GTTTT GTTTT GTTTT GTTTT GTTTT G
1 GTTTT GTTTT GTTTT GTTTT GTTTT G
11866740 GAGATGCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (5 bp):
GTTTT
Found at i:11868134 original size:5 final size:5
Alignment explanation
Indices: 11868124--11868154 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
11868114 AGGGGTTGTG
11868124 GAAAT GAAAT GAAAT GAAAT GAAAT GGAAAT
1 GAAAT GAAAT GAAAT GAAAT GAAAT -GAAAT
11868155 TTAAATTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.58, C:0.00, G:0.23, T:0.19
Consensus pattern (5 bp):
GAAAT
Found at i:11871578 original size:20 final size:20
Alignment explanation
Indices: 11871540--11871578 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11871530 TTTTAAAAAA
* *
11871540 AAATTAAAAATATAGATAAT
1 AAATTAAAAAAATACATAAT
11871560 AAATTAAAAAAATACATAA
1 AAATTAAAAAAATACATAA
11871579 ATTATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (20 bp):
AAATTAAAAAAATACATAAT
Found at i:11871580 original size:17 final size:17
Alignment explanation
Indices: 11871558--11871612 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
11871548 AATATAGATA
11871558 ATAAATTAAAAAAATAC
1 ATAAATTAAAAAAATAC
11871575 ATAAATTATAAAAAAT--
1 ATAAATTA-AAAAAATAC
* *
11871591 ATAAAATATAAAAATAC
1 ATAAATTAAAAAAATAC
11871608 ATAAA
1 ATAAA
11871613 AATTAGTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 6 0.18
16 7 0.21
17 13 0.39
18 7 0.21
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (17 bp):
ATAAATTAAAAAAATAC
Found at i:11873484 original size:50 final size:50
Alignment explanation
Indices: 11873425--11873578 Score: 209
Period size: 50 Copynumber: 3.1 Consensus size: 50
11873415 TCACACAGTT
* *
11873425 TTTCCAGATAATACTCCACAAAGGCTTTTTACAAGATTAGACACAAAGGC
1 TTTCCAGATAATACGCCACAAAGGCTTTTCACAAGATTAGACACAAAGGC
** * * *
11873475 TTTTTAGATAATAGGCCACAAAGGCTTTTCACAAGATTAGTCACAAAAGC
1 TTTCCAGATAATACGCCACAAAGGCTTTTCACAAGATTAGACACAAAGGC
* * * *
11873525 TTTCCAGATAATACGCTATAAAGGCTTTTCACAAGATTAGCCACAAAGAC
1 TTTCCAGATAATACGCCACAAAGGCTTTTCACAAGATTAGACACAAAGGC
11873575 TTTC
1 TTTC
11873579 TAAAGAATTC
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 89 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (50 bp):
TTTCCAGATAATACGCCACAAAGGCTTTTCACAAGATTAGACACAAAGGC
Found at i:11873572 original size:25 final size:25
Alignment explanation
Indices: 11873440--11873577 Score: 115
Period size: 25 Copynumber: 5.5 Consensus size: 25
11873430 AGATAATACT
*
11873440 CCACAAAGGCTTTTTACAAGATTAG
1 CCACAAAGGCTTTTCACAAGATTAG
* * *
11873465 ACACAAAGGCTTTTTAGATA-A-TAGG
1 CCACAAAGGCTTTTCACA-AGATTA-G
11873490 CCACAAAGGCTTTTCACAAGATTAG
1 CCACAAAGGCTTTTCACAAGATTAG
* *
11873515 TCACAAAAGC-TTTC-C-AGATAATACG
1 CCACAAAGGCTTTTCACAAGAT--TA-G
* *
11873540 CTATAAAGGCTTTTCACAAGATTAG
1 CCACAAAGGCTTTTCACAAGATTAG
*
11873565 CCACAAAGACTTT
1 CCACAAAGGCTTT
11873578 CTAAAGAATT
Statistics
Matches: 89, Mismatches: 14, Indels: 20
0.72 0.11 0.16
Matches are distributed among these distances:
22 4 0.04
23 1 0.01
24 9 0.10
25 61 0.69
26 9 0.10
27 1 0.01
28 4 0.04
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (25 bp):
CCACAAAGGCTTTTCACAAGATTAG
Found at i:11874706 original size:11 final size:10
Alignment explanation
Indices: 11874674--11874720 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
11874664 GAACATGTTC
*
11874674 AATTTTAATT
1 AATTTTGATT
*
11874684 AATTTTATATT
1 AATTTT-GATT
11874695 AAATTTTGATT
1 -AATTTTGATT
11874706 AATTTTGATT
1 AATTTTGATT
11874716 -ATTTT
1 AATTTT
11874721 CGACAGATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 5 0.15
10 16 0.48
11 6 0.18
12 6 0.18
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (10 bp):
AATTTTGATT
Found at i:11883119 original size:25 final size:23
Alignment explanation
Indices: 11883091--11883149 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
11883081 ATTTTTCTAC
* *
11883091 TAAATTTTAGTTTTATTTAATTATT
1 TAAATTTTA-ATTTATTGAATTA-T
11883116 TAAATTTTCAATTTATTGAATTAT
1 TAAATTTT-AATTTATTGAATTAT
11883140 TAATATTTTA
1 TAA-ATTTTA
11883150 TACTAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 5 0.17
25 24 0.80
26 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
TAAATTTTAATTTATTGAATTAT
Found at i:11884052 original size:3 final size:3
Alignment explanation
Indices: 11884044--11884114 Score: 124
Period size: 3 Copynumber: 23.7 Consensus size: 3
11884034 CAAGGATCCC
* *
11884044 GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA AAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
11884092 GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GA
11884115 TCCCATAGAG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:11884344 original size:3 final size:3
Alignment explanation
Indices: 11884336--11884406 Score: 124
Period size: 3 Copynumber: 23.7 Consensus size: 3
11884326 CAAGGATCCC
* *
11884336 GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA AAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
11884384 GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GA
11884407 TCCCATAGAG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:11884531 original size:292 final size:293
Alignment explanation
Indices: 11883995--11884582 Score: 1169
Period size: 292 Copynumber: 2.0 Consensus size: 293
11883985 TCTACTGAAT
11883995 AGCTGGAGACTCTGTTCTACAGCAACGAGTTGAAGAGAGCAAGGATCCCGAAGAAGAAGAAGAAG
1 AGCTGGAGACTCTGTTCTACAGCAACGAGTTGAAGAGAGCAAGGATCCCGAAGAAGAAGAAGAAG
11884060 AAGAAGAAGAAAAAAAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGATCCCATAGAG
66 AAGAAGAAGAAAAAAAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGATCCCATAGAG
11884125 ATTGAACCAATGTAGCCAGCTGAAATCCTTGATAAGGTAGAACTAATAAAACCAATAACAAAACC
131 ATTGAACCAATGTAGCCAGCTGAAATCCTTGATAAGGTAGAACTAATAAAACCAATAACAAAACC
11884190 TGACGTCACAACTTCAATGTTCAACACTCAATCGTCTCGCCTAGATCTTCGAGATGAGCTACCAA
196 TGACGTCACAACTTCAATGTTCAACACTCAATCGTCTCGCCTAGATCTTCGAGATGAGCTACCAA
11884255 AGTTGATGGACATCATGCAACATATGTAGTGGC
261 AGTTGATGGACATCATGCAACATATGTAGTGGC
11884288 AGCTGGAGACT-TGTTCTACAGCAACGAGTTGAAGAGAGCAAGGATCCCGAAGAAGAAGAAGAAG
1 AGCTGGAGACTCTGTTCTACAGCAACGAGTTGAAGAGAGCAAGGATCCCGAAGAAGAAGAAGAAG
11884352 AAGAAGAAGAAAAAAAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGATCCCATAGAG
66 AAGAAGAAGAAAAAAAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGATCCCATAGAG
11884417 ATTGAACCAATGTAGCCAGCTGAAATCCTTGATAAGGTAGAACTAATAAAACCAATAACAAAACC
131 ATTGAACCAATGTAGCCAGCTGAAATCCTTGATAAGGTAGAACTAATAAAACCAATAACAAAACC
11884482 TGACGTCACAACTTCAATGTTCAACACTCAATCGTCTCGCCTAGATCTTCGAGATGAGCTACCAA
196 TGACGTCACAACTTCAATGTTCAACACTCAATCGTCTCGCCTAGATCTTCGAGATGAGCTACCAA
11884547 AGTTGATGGACATCATGCAACATATGTAGTGGC
261 AGTTGATGGACATCATGCAACATATGTAGTGGC
11884580 AGC
1 AGC
11884583 AACAAGCTTA
Statistics
Matches: 295, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
292 284 0.96
293 11 0.04
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (293 bp):
AGCTGGAGACTCTGTTCTACAGCAACGAGTTGAAGAGAGCAAGGATCCCGAAGAAGAAGAAGAAG
AAGAAGAAGAAAAAAAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGATCCCATAGAG
ATTGAACCAATGTAGCCAGCTGAAATCCTTGATAAGGTAGAACTAATAAAACCAATAACAAAACC
TGACGTCACAACTTCAATGTTCAACACTCAATCGTCTCGCCTAGATCTTCGAGATGAGCTACCAA
AGTTGATGGACATCATGCAACATATGTAGTGGC
Found at i:11904300 original size:18 final size:18
Alignment explanation
Indices: 11904254--11904302 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
11904244 ATTCTTGTCG
*
11904254 AAAAAATAATAAATTTTT
1 AAAAAATAATTAATTTTT
*
11904272 ACAAAATAATTAATTTTT
1 AAAAAATAATTAATTTTT
11904290 AAAAAATAATTAA
1 AAAAAATAATTAA
11904303 AGTGCACTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAAATAATTAATTTTT
Found at i:11907349 original size:27 final size:27
Alignment explanation
Indices: 11907250--11907438 Score: 173
Period size: 27 Copynumber: 7.0 Consensus size: 27
11907240 ATAATTTTAT
* *
11907250 AGGGTAAAATGATCGAAATACCCCC-A
1 AGGGTAAAATTACCGAAATACCCCCGA
* * * *
11907276 TAAGGTAGAATGACTGAAATACCCCCGA
1 -AGGGTAAAATTACCGAAATACCCCCGA
* * * *
11907304 AGAGTAAAATGACTGAAATACTCCCGA
1 AGGGTAAAATTACCGAAATACCCCCGA
* * **
11907331 AGGGTAAAATTATCAAAATACCCTTGA
1 AGGGTAAAATTACCGAAATACCCCCGA
*
11907358 AGGGTAAAATTACCGAAATACCCTCGA
1 AGGGTAAAATTACCGAAATACCCCCGA
* * * *
11907385 AGGTTAAAACTACCCAAATGCCCCCGA
1 AGGGTAAAATTACCGAAATACCCCCGA
**
11907412 AGGGTAAAATTATTGAAATACCCCCGA
1 AGGGTAAAATTACCGAAATACCCCCGA
11907439 TGGTAAAGTG
Statistics
Matches: 131, Mismatches: 30, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
27 130 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (27 bp):
AGGGTAAAATTACCGAAATACCCCCGA
Found at i:11915550 original size:19 final size:19
Alignment explanation
Indices: 11915526--11915564 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
11915516 ACTTTAAACA
11915526 TAAATCCTAAAAGGAAAAG
1 TAAATCCTAAAAGGAAAAG
11915545 TAAATCCTAAAAGGAAAAG
1 TAAATCCTAAAAGGAAAAG
11915564 T
1 T
11915565 CCATGGCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.18
Consensus pattern (19 bp):
TAAATCCTAAAAGGAAAAG
Found at i:11915778 original size:27 final size:27
Alignment explanation
Indices: 11915734--11915800 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
11915724 TATGAAAAGG
* *
11915734 AAGCCTTTATGGCTAACTCTGGAAGAA
1 AAGCCTTTGTGGCAAACTCTGGAAGAA
*
11915761 ATGCCTTTGTGGCAAACTCTGGAAGAA
1 AAGCCTTTGTGGCAAACTCTGGAAGAA
11915788 AAGCCCTTTGTGG
1 AAG-CCTTTGTGG
11915801 TGGATTATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
27 26 0.74
28 9 0.26
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (27 bp):
AAGCCTTTGTGGCAAACTCTGGAAGAA
Found at i:11919764 original size:56 final size:56
Alignment explanation
Indices: 11919698--11919808 Score: 152
Period size: 56 Copynumber: 2.0 Consensus size: 56
11919688 GTGAGCAGCC
* * *
11919698 CAAATATCACAACTTGTGTGAG-AAAGTTCAAATATCACAGCTCATGTGAGAAAATT
1 CAAATATCACAACTAGTGTAAGCAAA-TTCAAAAATCACAGCTCATGTGAGAAAATT
* **
11919754 CAAATATCACAACTAGTGTAAGCAAATTCAAAAATTACAGCTTGTGTGAGAAAAT
1 CAAATATCACAACTAGTGTAAGCAAATTCAAAAATCACAGCTCATGTGAGAAAAT
11919809 CAGTCTCGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
56 45 0.94
57 3 0.06
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (56 bp):
CAAATATCACAACTAGTGTAAGCAAATTCAAAAATCACAGCTCATGTGAGAAAATT
Found at i:11919808 original size:28 final size:28
Alignment explanation
Indices: 11919698--11919808 Score: 132
Period size: 28 Copynumber: 4.0 Consensus size: 28
11919688 GTGAGCAGCC
* *
11919698 CAAATATCACAACTTGTGTGAGAAAGTT
1 CAAATATCACAGCTTGTGTGAGAAAATT
**
11919726 CAAATATCACAGCTCATGTGAGAAAATT
1 CAAATATCACAGCTTGTGTGAGAAAATT
* * * *
11919754 CAAATATCACAACTAGTGTAAGCAAATT
1 CAAATATCACAGCTTGTGTGAGAAAATT
* *
11919782 CAAAAATTACAGCTTGTGTGAGAAAAT
1 CAAATATCACAGCTTGTGTGAGAAAAT
11919809 CAGTCTCGTG
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (28 bp):
CAAATATCACAGCTTGTGTGAGAAAATT
Found at i:11925357 original size:51 final size:51
Alignment explanation
Indices: 11925302--11925418 Score: 234
Period size: 51 Copynumber: 2.3 Consensus size: 51
11925292 TGAAAAAAAA
11925302 TTCGAATTTCGAGTTAAATGAATCGAGTTATTCGAATCAACTCGAATTTTT
1 TTCGAATTTCGAGTTAAATGAATCGAGTTATTCGAATCAACTCGAATTTTT
11925353 TTCGAATTTCGAGTTAAATGAATCGAGTTATTCGAATCAACTCGAATTTTT
1 TTCGAATTTCGAGTTAAATGAATCGAGTTATTCGAATCAACTCGAATTTTT
11925404 TTCGAATTTCGAGTT
1 TTCGAATTTCGAGTT
11925419 CGAATTGAGT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (51 bp):
TTCGAATTTCGAGTTAAATGAATCGAGTTATTCGAATCAACTCGAATTTTT
Found at i:11925456 original size:9 final size:9
Alignment explanation
Indices: 11925439--11925475 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11925429 TGAGTTTTCA
11925439 AATTCGAAT
1 AATTCGAAT
*
11925448 AACTCGAAT
1 AATTCGAAT
11925457 AATTCGAAT
1 AATTCGAAT
11925466 AATTCGAAT
1 AATTCGAAT
11925475 A
1 A
11925476 TCAAACCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:11941764 original size:18 final size:19
Alignment explanation
Indices: 11941741--11941780 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
11941731 ACATTTGAGT
11941741 AATGAAAAAGGAAAAA-AA
1 AATGAAAAAGGAAAAAGAA
*
11941759 AATGAAAAATGAAAAAGAA
1 AATGAAAAAGGAAAAAGAA
11941778 AAT
1 AAT
11941781 CCCTTCAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (19 bp):
AATGAAAAAGGAAAAAGAA
Found at i:11942367 original size:16 final size:17
Alignment explanation
Indices: 11942345--11942384 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
11942335 AAAAAATTGA
11942345 AAAAATTAAATAAA-AT
1 AAAAATTAAATAAACAT
*
11942361 TAAAATTAAATAAACAT
1 AAAAATTAAATAAACAT
11942378 AAAAATT
1 AAAAATT
11942385 CAAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAATTAAATAAACAT
Found at i:11942374 original size:10 final size:9
Alignment explanation
Indices: 11942332--11942365 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
11942322 TTAAAATTTT
11942332 TTAAAAAAA
1 TTAAAAAAA
*
11942341 TTGAAAAAA
1 TTAAAAAAA
11942350 TTAAATAAAA
1 TTAAA-AAAA
11942360 TTAAAA
1 TTAAAA
11942366 TTAAATAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:11943075 original size:16 final size:16
Alignment explanation
Indices: 11943054--11943091 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
11943044 TTTGGTTCGC
*
11943054 TGTAATGGAATAGAGG
1 TGTAATGGAATAGACG
11943070 TGTAATGGAATAGACG
1 TGTAATGGAATAGACG
11943086 TGTAAT
1 TGTAAT
11943092 AGCAAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.03, G:0.32, T:0.29
Consensus pattern (16 bp):
TGTAATGGAATAGACG
Found at i:11943136 original size:45 final size:44
Alignment explanation
Indices: 11943070--11943160 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
11943060 GGAATAGAGG
*
11943070 TGTAATGGAATAGACGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGACGCGTAATAG-AAATCAACTGTTTGGTTGAA
* * ***
11943115 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGACGCGTAATAGAAATCAACTGTTTGGTTGAA
11943159 TG
1 TG
11943161 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.32, C:0.07, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGACGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:11951333 original size:190 final size:189
Alignment explanation
Indices: 11950999--11951380 Score: 683
Period size: 190 Copynumber: 2.0 Consensus size: 189
11950989 AATCTAATCG
*
11950999 AATTGTCAATCTTTAAAAACACAGTAGCTTCTCACAACTGATCAAACAAGTCATCAATACGAGGT
1 AATTGTCAATCTTTAAAAACACAGTAGCTTATCACAACTGATCAAACAAGTCATCAATACGAGGT
* *
11951064 ATCAAATTTTATTCTTCATGGTGACTATTATCAACTTTCTGTAGTCAATACACAATCTTAAAGTT
66 ATCAAATATTATTCTTCATGGTGACTATTATCAACTTTCTGTAGTCAATACACAATCTCAAAGTT
* *
11951129 CTTTATTTCTTTTCACTAAAAACACTAAAGCATTTCAAAGTGATGCACTCGGTCAGACA
131 CTTTATTTCTTTTCACTAAAAACACTAAAGCATTTCAAAGTGATACACTCAGTCAGACA
11951188 AATTGTCAATCTTTTAAAAACACAGTAGCTTATCACAACTGATCAAACAAGTCATCAATACGAGG
1 AATTGTCAATC-TTTAAAAACACAGTAGCTTATCACAACTGATCAAACAAGTCATCAATACGAGG
11951253 TATCAAATATTATTCTTCATGGTGACTATTATCAACTTTCTGTAGTCAATACACAATCTCAAAGT
65 TATCAAATATTATTCTTCATGGTGACTATTATCAACTTTCTGTAGTCAATACACAATCTCAAAGT
* * *
11951318 TCTTTCTTTCTTTTCACTAACAACACTAGAGCATTTCAAAGTGATACACTCAGTCAGACA
130 TCTTTATTTCTTTTCACTAAAAACACTAAAGCATTTCAAAGTGATACACTCAGTCAGACA
11951378 AAT
1 AAT
11951381 CTTTAGTCTA
Statistics
Matches: 184, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
189 11 0.06
190 173 0.94
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (189 bp):
AATTGTCAATCTTTAAAAACACAGTAGCTTATCACAACTGATCAAACAAGTCATCAATACGAGGT
ATCAAATATTATTCTTCATGGTGACTATTATCAACTTTCTGTAGTCAATACACAATCTCAAAGTT
CTTTATTTCTTTTCACTAAAAACACTAAAGCATTTCAAAGTGATACACTCAGTCAGACA
Found at i:11955072 original size:63 final size:64
Alignment explanation
Indices: 11954958--11955083 Score: 191
Period size: 63 Copynumber: 2.0 Consensus size: 64
11954948 GACACACGCC
* *
11954958 CGTGTGGTTTCTAAATCACAAATAGTGAGTTACATGACCTAGACACACGCCTGTGTCTCTGGCT
1 CGTGTGGTTTCTAAATCACAAATAGTGAGTCACACGACCTAGACACACGCCTGTGTCTCTGGCT
* * * *
11955022 CGTGTGGTTTCTAAATTACAAA-AGTGAGTCATACGGCCTAGACTCACGCCTGTGTCTCTGGC
1 CGTGTGGTTTCTAAATCACAAATAGTGAGTCACACGACCTAGACACACGCCTGTGTCTCTGGC
11955084 CTATGTGATC
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
63 35 0.62
64 21 0.38
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (64 bp):
CGTGTGGTTTCTAAATCACAAATAGTGAGTCACACGACCTAGACACACGCCTGTGTCTCTGGCT
Found at i:11955745 original size:19 final size:18
Alignment explanation
Indices: 11955709--11955755 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
11955699 AACACAATCA
11955709 AAAAG-AAAAATTAAAAG
1 AAAAGAAAAAATTAAAAG
11955726 -AAAGAAAAAACTTAAAAAG
1 AAAAGAAAAAA-TT-AAAAG
11955745 AAAAGAAAAAA
1 AAAAGAAAAAA
11955756 AGGAAAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 4 0.15
17 5 0.19
18 2 0.08
19 5 0.19
20 10 0.38
ACGTcount: A:0.79, C:0.02, G:0.11, T:0.09
Consensus pattern (18 bp):
AAAAGAAAAAATTAAAAG
Found at i:11957613 original size:17 final size:17
Alignment explanation
Indices: 11957587--11957629 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
11957577 CACGCCGGTT
*
11957587 ACTTCCATTCAACTATA
1 ACTTCTATTCAACTATA
*
11957604 ACTTCTATTCAATTATA
1 ACTTCTATTCAACTATA
*
11957621 GCTTCTATT
1 ACTTCTATT
11957630 TTCTTGAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.02, T:0.44
Consensus pattern (17 bp):
ACTTCTATTCAACTATA
Found at i:11964491 original size:64 final size:64
Alignment explanation
Indices: 11964385--11964540 Score: 179
Period size: 64 Copynumber: 2.5 Consensus size: 64
11964375 CCCTCGCACA
* * * * *
11964385 GCCT-GACACACACCTGTGTCTCTGGCCCGTGTGGTTTTTAAATCACAAACAGCAAGTTACACG
1 GCCTGGACACACGCCCGTGTCTCTGGCCCGTATGGTTTCTAAATCACAAACAGCAAGTCACACG
** * * * ** *
11964448 GCCTGGACACACGCCCGTGTCTCTGGCCTTTATGGTTTCTAAATTACAGATAGTGAGTCACATG
1 GCCTGGACACACGCCCGTGTCTCTGGCCCGTATGGTTTCTAAATCACAAACAGCAAGTCACACG
*
11964512 GCCTGGACACACGCTCGTGTCTCTGGCCC
1 GCCTGGACACACGCCCGTGTCTCTGGCCC
11964541 ATGTGATCCT
Statistics
Matches: 77, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
63 4 0.05
64 73 0.95
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.26
Consensus pattern (64 bp):
GCCTGGACACACGCCCGTGTCTCTGGCCCGTATGGTTTCTAAATCACAAACAGCAAGTCACACG
Found at i:11975406 original size:35 final size:35
Alignment explanation
Indices: 11975342--11975408 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
11975332 TTGATAATTT
* *
11975342 TCATCACGATGTTGCTCCACAGAGTCAATAGACAA
1 TCATCACGATGTCGCTCCACAGAGCCAATAGACAA
*
11975377 TCATCACGATGTCGCTCTAGCA-AGCCAATAGA
1 TCATCACGATGTCGCTCCA-CAGAGCCAATAGA
11975409 TAACCATCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 26 0.93
36 2 0.07
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (35 bp):
TCATCACGATGTCGCTCCACAGAGCCAATAGACAA
Found at i:11978361 original size:115 final size:117
Alignment explanation
Indices: 11978155--11978385 Score: 295
Period size: 115 Copynumber: 2.0 Consensus size: 117
11978145 AGATATCTTT
* * * * *
11978155 TTCTTAGATAGTTGTTGTAAACACTTTTTAAGTGATTGGAAGAACAAGGTGTTAGAACCAATAAT
1 TTCTTAGATAGTTATTGTAAACACTTTCTAAGTGATT-G-ACAACAAGGAGTTAAAACCAATAAT
* * * * *
11978220 AGATTGTACAAAGGTGAGATTGCAACTTGAGAGATAGGAGTTGAGTTTAAACCA
64 AGATCGTACAAAGGTGAGACTACAACTTAAGAGATAGGAGTTGAGCTTAAACCA
* * * *
11978274 TTCTTAGATGGTTATTGTAGACACTTTCTAAGTGATT-ACAA-GAGGAGTTAAAACCAATACTAG
1 TTCTTAGATAGTTATTGTAAACACTTTCTAAGTGATTGACAACAAGGAGTTAAAACCAATAATAG
*
11978337 ATCGTACAAAGGTGAGGCTACAACTTAAGAGATAGGAGTTGAGCTTAAA
66 ATCGTACAAAGGTGAGACTACAACTTAAGAGATAGGAGTTGAGCTTAAA
11978386 TAAATTTTCT
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
115 61 0.63
116 3 0.03
119 33 0.34
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (117 bp):
TTCTTAGATAGTTATTGTAAACACTTTCTAAGTGATTGACAACAAGGAGTTAAAACCAATAATAG
ATCGTACAAAGGTGAGACTACAACTTAAGAGATAGGAGTTGAGCTTAAACCA
Found at i:11984200 original size:40 final size:40
Alignment explanation
Indices: 11984145--11984287 Score: 187
Period size: 40 Copynumber: 3.6 Consensus size: 40
11984135 AGTTACTGAG
* *
11984145 GTACAAACAGGGGCACATATATGCATTTAGGGGTACCAAA
1 GTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCAAA
* * *
11984185 GTACAAACAGGGGCACGTATGTGCATTCAAGGGTACCGAA
1 GTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCAAA
* * *
11984225 GTACAATCAGGGACACGTATGTGCAATTAGGGGTACCAAA
1 GTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCAAA
* * *
11984265 GTACAATCAAGGGCACGTGTGTG
1 GTACAAACAGGGGCACGTATGTG
11984288 TATTCAAACA
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.20
Consensus pattern (40 bp):
GTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCAAA
Done.