Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 60 of 141
Found at i:17944153 original size:28 final size:27
Alignment explanation
Indices: 17944121--17944219 Score: 112
Period size: 28 Copynumber: 3.6 Consensus size: 27
17944111 TTAATAAGTA
*
17944121 CGCACACTTAGTGCTTAATAATCAAACT
1 CGCACACTTAGTGCTT-ATAATTAAACT
* *
17944149 CGCACACTTAGTGCTT-TACCCTTATACT
1 CGCACACTTAGTGCTTATA--ATTAAACT
17944177 CGCACACTTAGTGCATT-TCAATTAAACT
1 CGCACACTTAGTGC-TTAT-AATTAAACT
17944205 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17944220 AATCTCATTA
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
26 2 0.03
27 1 0.02
28 55 0.89
29 3 0.05
30 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (27 bp):
CGCACACTTAGTGCTTATAATTAAACT
Found at i:17951011 original size:21 final size:21
Alignment explanation
Indices: 17950987--17951035 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
17950977 GCCTAGTTCC
*
17950987 AAAGGAGACTTGGGTGAAGTT
1 AAAGGAGACTTAGGTGAAGTT
* * *
17951008 AAAGTATACTTAGGTTAAGTT
1 AAAGGAGACTTAGGTGAAGTT
17951029 AAAGGAG
1 AAAGGAG
17951036 GGTTGTCTTC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.04, G:0.31, T:0.27
Consensus pattern (21 bp):
AAAGGAGACTTAGGTGAAGTT
Found at i:17953098 original size:31 final size:31
Alignment explanation
Indices: 17953060--17953225 Score: 123
Period size: 30 Copynumber: 5.5 Consensus size: 31
17953050 TCGGCAATCG
*
17953060 ATTATGAAAAGGGATGGTGACGACTGTCAAA
1 ATTATGAAAAGGGATGGTGACGACTATCAAA
* *
17953091 ATTATGAAAATGGATGGCTTTA-G-CTATC-AA
1 ATTATGAAAAGGGATGG--TGACGACTATCAAA
* * * *
17953121 ATCATGCAAAGGGATAGCT-TC-AGCTATC-AA
1 ATTATGAAAAGGGAT-GGTGACGA-CTATCAAA
* * * *
17953151 ATTATGTAGAGGGATGGTGACGACCATCAAC
1 ATTATGAAAAGGGATGGTGACGACTATCAAA
*
17953182 A--ATGAAAAGGGATGGTGACGACCATCAAA
1 ATTATGAAAAGGGATGGTGACGACTATCAAA
*
17953211 TTTATGAAAAGGGAT
1 ATTATGAAAAGGGAT
17953226 AGCTTCAACT
Statistics
Matches: 105, Mismatches: 19, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
29 28 0.27
30 38 0.36
31 36 0.34
32 1 0.01
33 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (31 bp):
ATTATGAAAAGGGATGGTGACGACTATCAAA
Found at i:17953224 original size:90 final size:88
Alignment explanation
Indices: 17953034--17953238 Score: 216
Period size: 90 Copynumber: 2.3 Consensus size: 88
17953024 TCATCAACGA
* * * **
17953034 ATGAAAAGGGATAGCTTCGGCAATCGATTATGAAAAGGGATGGTGACGACTGTCAAAATTATGAA
1 ATGAAAAGGGATAGCTTCAGCTATCAATTATGAAAAGGGATGGTGACGACCATCAAAA-TATGAA
* * *
17953099 AATGGATGGCTTTAGCTATCAAATC
65 AAGGGATGGC-TGAGCCATCAAATC
* * * *
17953124 ATGCAAAGGGATAGCTTCAGCTATCAAATTATGTAGAGGGATGGTGACGACCATCAACA-ATGAA
1 ATGAAAAGGGATAGCTTCAGCTATC-AATTATGAAAAGGGATGGTGACGACCATCAAAATATGAA
*
17953188 AAGGGATGG-TGACGACCATCAAATTT
65 AAGGGATGGCTGA-G-CCATCAAA-TC
*
17953214 ATGAAAAGGGATAGCTTCAACTATC
1 ATGAAAAGGGATAGCTTCAGCTATC
17953239 GAATCACGAA
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
87 2 0.02
88 1 0.01
89 20 0.21
90 46 0.48
91 27 0.28
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (88 bp):
ATGAAAAGGGATAGCTTCAGCTATCAATTATGAAAAGGGATGGTGACGACCATCAAAATATGAAA
AGGGATGGCTGAGCCATCAAATC
Found at i:17953268 original size:30 final size:30
Alignment explanation
Indices: 17953216--17953274 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
17953206 TCAAATTTAT
* *
17953216 GAAAAGGGATAGCTTCAACTATCGAATCAC
1 GAAAAAGGATAGCTTCAACTATCAAATCAC
***
17953246 GAAAAAGGATAGCTTTGGCTATCAAATCA
1 GAAAAAGGATAGCTTCAACTATCAAATCA
17953275 TGGAAAAGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (30 bp):
GAAAAAGGATAGCTTCAACTATCAAATCAC
Found at i:17953282 original size:30 final size:30
Alignment explanation
Indices: 17953216--17953282 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
17953206 TCAAATTTAT
*
17953216 GAAAAGGGATAGCTTCAACTATCGAATCACG
1 GAAAA-GGATAGCTTCAACTATCAAATCACG
* *** *
17953247 AAAAAGGATAGCTTTGGCTATCAAATCATG
1 GAAAAGGATAGCTTCAACTATCAAATCACG
17953277 GAAAAG
1 GAAAAG
17953283 AATGTGTCAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (30 bp):
GAAAAGGATAGCTTCAACTATCAAATCACG
Found at i:17954384 original size:12 final size:12
Alignment explanation
Indices: 17954367--17954396 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17954357 TCAGGCAGTT
17954367 ACACGGCCTAGC
1 ACACGGCCTAGC
*
17954379 ACACGGCCTCGC
1 ACACGGCCTAGC
17954391 ACACGG
1 ACACGG
17954397 GCATGTATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.43, G:0.27, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:17954618 original size:74 final size:74
Alignment explanation
Indices: 17954497--17954790 Score: 554
Period size: 74 Copynumber: 4.0 Consensus size: 74
17954487 GACACGGTCA
* *
17954497 TGTGTCCCTACTTCGAATACCCACA-AGGCCTGTGACACGGACGTGTATCTTGGTCGAGTGAGTC
1 TGTGTCCCTACTTCGAATGCCCATACA-GCCTGTGACACGGACGTGTATCTTGGTCGAGTGAGTC
17954561 ACATGGCTCG
65 ACATGGCTCG
17954571 TGTGTCCCTACTTCGAATGCCCATACAGCCTGTGACACGGACGTGTATCTTGGTCGAGTGAGTCA
1 TGTGTCCCTACTTCGAATGCCCATACAGCCTGTGACACGGACGTGTATCTTGGTCGAGTGAGTCA
17954636 CATGGCTCG
66 CATGGCTCG
17954645 TGTGTCCCTACTTCGAATGCCCATACAGCCTGTGACACGGACGTGTATCTTGGTCGAGTGAGTCA
1 TGTGTCCCTACTTCGAATGCCCATACAGCCTGTGACACGGACGTGTATCTTGGTCGAGTGAGTCA
17954710 CATGGCTCG
66 CATGGCTCG
17954719 TGTGTCCCTACTTCGAATGCCCATACAGCCTGTGACACGGACGTGTATCTTGGTCGAGTGAGTCA
1 TGTGTCCCTACTTCGAATGCCCATACAGCCTGTGACACGGACGTGTATCTTGGTCGAGTGAGTCA
17954784 CATGGCT
66 CATGGCT
17954791 TGGCCACACG
Statistics
Matches: 217, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
74 216 1.00
75 1 0.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (74 bp):
TGTGTCCCTACTTCGAATGCCCATACAGCCTGTGACACGGACGTGTATCTTGGTCGAGTGAGTCA
CATGGCTCG
Found at i:17960658 original size:29 final size:29
Alignment explanation
Indices: 17960619--17960682 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
17960609 ATCAACGAAT
*
17960619 GAAAAGGGATAGCTTCGGCTATCGAATAC
1 GAAAAGAGATAGCTTCGGCTATCGAATAC
* *
17960648 GAAAAGAGATAGCTTCGGCTATCGATTAT
1 GAAAAGAGATAGCTTCGGCTATCGAATAC
17960677 GAAAAG
1 GAAAAG
17960683 GGATGGTGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.22
Consensus pattern (29 bp):
GAAAAGAGATAGCTTCGGCTATCGAATAC
Found at i:17960739 original size:31 final size:31
Alignment explanation
Indices: 17960672--17960867 Score: 183
Period size: 30 Copynumber: 6.5 Consensus size: 31
17960662 TCGGCTATCG
**
17960672 ATTATGAAAAGGGATGGTGACGACCA-CTGA
1 ATTATGAAAAGGGATGGTGACGACCATCAAA
*
17960702 ATTATGAAAAGGGATGGTGACAACCATCAAA
1 ATTATGAAAAGGGATGGTGACGACCATCAAA
* *
17960733 ATTATGAAAAGGGATGGCT-TC-AGCTATC-AA
1 ATTATGAAAAGGGATGG-TGACGA-CCATCAAA
* * * *** *
17960763 ATCATGCAAAGGGATAGTTTTGACTATC-AA
1 ATTATGAAAAGGGATGGTGACGACCATCAAA
* *
17960793 ATTATGTAAAA-GGATGGCGACGACCATCAAG
1 ATTATG-AAAAGGGATGGTGACGACCATCAAA
17960824 A--ATGAAAAGGGATGGTGACGACCATCAAA
1 ATTATGAAAAGGGATGGTGACGACCATCAAA
17960853 ATTATGAAAAGGGAT
1 ATTATGAAAAGGGAT
17960868 AGCTTCAGTT
Statistics
Matches: 136, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
28 4 0.03
29 23 0.17
30 66 0.49
31 42 0.31
32 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (31 bp):
ATTATGAAAAGGGATGGTGACGACCATCAAA
Found at i:17960837 original size:120 final size:119
Alignment explanation
Indices: 17960617--17960897 Score: 370
Period size: 120 Copynumber: 2.4 Consensus size: 119
17960607 TCATCAACGA
* * * *
17960617 ATGAAAAGGGATAGCTTCGGCTATCGAAT-ACGAAAAGAGATAGCTTCGGCTATCGATTATGAAA
1 ATGAAAAGGGATAGCTTCAGCTATCGAATCACG-AAAGGGATAGCTTCGACTATCAATTATGAAA
* * **
17960681 AGGGATGGTGACGACCACTGAATTATGAAAAGGGATGGTGACAACCATCAAAATT
65 AGGGATGGCGACGACCACTCAAGAATGAAAAGGGATGGTGACAACCATCAAAATT
* * * * *
17960736 ATGAAAAGGGATGGCTTCAGCTATCAAATCATGCAAAGGGATAGTTTTGACTATCAAATTATGTA
1 ATGAAAAGGGATAGCTTCAGCTATCGAATCACG-AAAGGGATAGCTTCGACTATC-AATTATG-A
*
17960801 AAA-GGATGGCGACGACCA-TCAAGAATGAAAAGGGATGGTGACGACCATCAAAATT
63 AAAGGGATGGCGACGACCACTCAAGAATGAAAAGGGATGGTGACAACCATCAAAATT
*
17960856 ATGAAAAGGGATAGCTTCAGTTATCGAATCACGAAAGGGATA
1 ATGAAAAGGGATAGCTTCAGCTATCGAATCACGAAAGGGATA
17960898 ACTTTGGCTA
Statistics
Matches: 140, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
119 35 0.25
120 81 0.58
121 20 0.14
122 4 0.03
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (119 bp):
ATGAAAAGGGATAGCTTCAGCTATCGAATCACGAAAGGGATAGCTTCGACTATCAATTATGAAAA
GGGATGGCGACGACCACTCAAGAATGAAAAGGGATGGTGACAACCATCAAAATT
Found at i:17960895 original size:60 final size:59
Alignment explanation
Indices: 17960709--17960896 Score: 168
Period size: 60 Copynumber: 3.1 Consensus size: 59
17960699 TGAATTATGA
* *
17960709 AAAGGGATGGTGACAACCATCAAAATTATGAAAAGGGATGGCTTCAGCTATCAAATCATG
1 AAAGGGATGGTGACGACCATCAAAATTATGAAAAGGGATGGCTTCAGCTATCGAATCA-G
* *** * ** * *
17960769 CAAAGGGATAGTTTTGACTATC-AAATTATGTAAAA-GGATGGCGAC-GACCATCAAGAATGA-
1 -AAAGGGATGGTGACGACCATCAAAATTATG-AAAAGGGATGGCTTCAG-CTATC--GAATCAG
* *
17960829 AAAGGGATGGTGACGACCATCAAAATTATGAAAAGGGATAGCTTCAGTTATCGAATCACG
1 AAAGGGATGGTGACGACCATCAAAATTATGAAAAGGGATGGCTTCAGCTATCGAATCA-G
17960889 AAAGGGAT
1 AAAGGGAT
17960897 AACTTTGGCT
Statistics
Matches: 96, Mismatches: 22, Indels: 19
0.70 0.16 0.14
Matches are distributed among these distances:
58 5 0.05
59 21 0.22
60 46 0.48
61 20 0.21
62 4 0.04
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (59 bp):
AAAGGGATGGTGACGACCATCAAAATTATGAAAAGGGATGGCTTCAGCTATCGAATCAG
Found at i:17977638 original size:44 final size:44
Alignment explanation
Indices: 17977524--17978084 Score: 469
Period size: 44 Copynumber: 12.7 Consensus size: 44
17977514 ATAGGTCCTA
* * * *
17977524 TCTTCCTATATTGGTAGGAAGTGGATCAAAG-ATGCAGATCTTG
1 TCTTCCTATATTGGTCGGAAGTAGATCGAAGAAAGCAGATCTTG
* * * * *
17977567 TCTTCCCATATAGGTGGCGAAGTAGATCGCAGAAAGCAGGTCTTG
1 TCTTCCTATATTGGTCG-GAAGTAGATCGAAGAAAGCAGATCTTG
* * ** * *
17977612 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGTCG-GAAGTAGATCGAAGAAAGCAGATCTTG
* * *
17977656 TCTTCCTATATTGGTAGGAAGTGGAT-GAAG-ATGCAGATCTTG
1 TCTTCCTATATTGGTCGGAAGTAGATCGAAGAAAGCAGATCTTG
* * *
17977698 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCG-GAAGTAGATCGAAGAAAGCAGATCTTG
* * ** * *
17977743 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGTCG-GAAGTAGATCGAAGAAAGCAGATCTTG
* * *
17977787 TCTTCCTATATTGGTAGGAAGTGGATCGAAG-ATGCAGATCTTG
1 TCTTCCTATATTGGTCGGAAGTAGATCGAAGAAAGCAGATCTTG
*
17977830 TCTTCCTATATTGGT-GGCAAAGTAGATCGCAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCGG--AAGTAGATCGAAGAAAGCAGATCTTG
* * * * *
17977875 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCCTG
1 TCTTCCTATATTGGTCG-GAAGTAGATCGAAGAAAGCAGATCTTG
* * * *
17977919 TCTTCCTATATTGGTAGGAAGTGGATCGACG-ATGCAGATCTTG
1 TCTTCCTATATTGGTCGGAAGTAGATCGAAGAAAGCAGATCTTG
* * * *
17977962 TCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTA
1 TCTTCCTATATTGGTCG-GAAGTAGATCGAAGAAAGCAGATCTTG
* * ** *
17978007 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGATTGTAGATCTTG
1 TCTTCCTATATTGGTCG-GAAGTAGATCGAAGAAAGCAGATCTTG
* * *
17978051 CCTTCCTGTAGTTGG-CAGCGAAGCAGATCGAAGA
1 TCTTCCTATA-TTGGTC-G-GAAGTAGATCGAAGA
17978085 TGGCAGATTT
Statistics
Matches: 411, Mismatches: 90, Indels: 31
0.77 0.17 0.06
Matches are distributed among these distances:
42 25 0.06
43 71 0.17
44 205 0.50
45 94 0.23
46 16 0.04
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (44 bp):
TCTTCCTATATTGGTCGGAAGTAGATCGAAGAAAGCAGATCTTG
Found at i:17977890 original size:132 final size:132
Alignment explanation
Indices: 17977519--17978037 Score: 923
Period size: 132 Copynumber: 3.9 Consensus size: 132
17977509 CGTAAATAGG
* *
17977519 TCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATATAGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
17977584 CGAAGTAGATCGCAGAAAGCAGGTCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
17977649 GA
131 GA
17977651 TCCTATCTTCCTATATTGGTAGGAAGTGGAT-GAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
17977715 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
17977780 GA
131 GA
*
17977782 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCTATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* *
17977847 CAAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
*
17977912 GG
131 GA
* * *
17977914 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* *
17977979 CGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAG
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
17978038 ATTGTAGATC
Statistics
Matches: 372, Mismatches: 14, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
131 128 0.34
132 244 0.66
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (132 bp):
TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
GA
Found at i:17978159 original size:45 final size:45
Alignment explanation
Indices: 17978108--17978257 Score: 133
Period size: 45 Copynumber: 3.2 Consensus size: 45
17978098 CTCCCTGACT
*
17978108 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTG
1 ACAGTGGAGTACATTGAAGCAGATAACTCTATCTCCCTGTATTTG
* * * * * *
17978153 ACAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGTGA-CT-
1 ACAGTGGAGTACATTGAAG--C--AGAT---A-ACTCTATCTCCCTGT-ATTTG
*
17978205 ACAGTGGAGTACATTGAAGCTGATAACTCTATCTCCCTGTATTTG
1 ACAGTGGAGTACATTGAAGCAGATAACTCTATCTCCCTGTATTTG
17978250 ACAGTGGA
1 ACAGTGGA
17978258 ATAGATCGGA
Statistics
Matches: 80, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
43 1 0.01
44 13 0.16
45 26 0.32
47 1 0.01
48 3 0.04
49 3 0.04
50 1 0.01
52 18 0.22
53 13 0.16
54 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (45 bp):
ACAGTGGAGTACATTGAAGCAGATAACTCTATCTCCCTGTATTTG
Found at i:17978239 original size:97 final size:95
Alignment explanation
Indices: 17978075--17978263 Score: 342
Period size: 97 Copynumber: 2.0 Consensus size: 95
17978065 GCAGCGAAGC
*
17978075 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
17978140 CTCCCTGTATTTGACAGTGGAATAGATTGA
66 CTCCCTGTATTTGACAGTGGAATAGATTGA
*
17978170 AGATCAAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCTGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCC--TGACTACAGTGGAGTACATTGAAGCCGATAACTCT
17978235 ATCTCCCTGTATTTGACAGTGGAATAGAT
64 ATCTCCCTGTATTTGACAGTGGAATAGAT
17978264 CGGAGATTAC
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
95 27 0.30
97 63 0.70
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGACAGTGGAATAGATTGA
Found at i:17981726 original size:19 final size:19
Alignment explanation
Indices: 17981702--17981773 Score: 117
Period size: 19 Copynumber: 3.8 Consensus size: 19
17981692 AATCATATAT
17981702 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
17981721 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
*
17981740 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17981759 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
17981774 TCTCAAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:17987356 original size:46 final size:46
Alignment explanation
Indices: 17987289--17987519 Score: 347
Period size: 46 Copynumber: 5.0 Consensus size: 46
17987279 CATGGCAAAG
*
17987289 TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
17987335 TGTGAAAAATAGGTATGGTATTTC-GATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAG-TGAAGAAAACCATACTGAGT
* *
17987381 TGTAAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* * * *
17987427 TGTGAAAAGTAGGTATGGTGTTTTAGTAAAAAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
17987473 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGCAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
17987519 T
1 T
17987520 ATAGCAATGT
Statistics
Matches: 166, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 164 0.99
47 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:17990208 original size:27 final size:27
Alignment explanation
Indices: 17990170--17990227 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
17990160 TTTCGGACTT
17990170 GAAATCAAATGATTTAAAGTGTATTTA
1 GAAATCAAATGATTTAAAGTGTATTTA
*
17990197 GAAATCAAATGATTTAAAGTGTATTTC
1 GAAATCAAATGATTTAAAGTGTATTTA
17990224 GAAA
1 GAAA
17990228 CTAAAAGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (27 bp):
GAAATCAAATGATTTAAAGTGTATTTA
Found at i:18000902 original size:24 final size:24
Alignment explanation
Indices: 18000878--18000958 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 24
18000868 TTTTTATATT
*
18000878 ATTATTTATATAAATATATAAATTA
1 ATTATATATATAAATAT-TAAATTA
* *
18000903 ATTATAAAGTAT-ATTATTAAATTA
1 ATTATATA-TATAAATATTAAATTA
*
18000927 ATTATAT-TATAAATATTATATT-
1 ATTATATATATAAATATTAAATTA
18000949 ATTATATATA
1 ATTATATATA
18000959 AAAGAAACAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 10 0.21
23 11 0.23
24 13 0.28
25 10 0.21
26 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
ATTATATATATAAATATTAAATTA
Found at i:18000910 original size:11 final size:11
Alignment explanation
Indices: 18000894--18000932 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
18000884 TATATAAATA
18000894 TATAAATTAAT
1 TATAAATTAAT
*
18000905 TATAAAGTATAT
1 TATAAATTA-AT
18000917 TATTAAATTAAT
1 TA-TAAATTAAT
18000929 TATA
1 TATA
18000933 TTATAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 10 0.42
12 8 0.33
13 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
TATAAATTAAT
Found at i:18000934 original size:17 final size:15
Alignment explanation
Indices: 18000877--18000957 Score: 60
Period size: 15 Copynumber: 5.2 Consensus size: 15
18000867 ATTTTTATAT
18000877 TATTAT-TTATATAAA
1 TATTATATTAT-TAAA
*
18000892 TATATAAATTAATTATAA
1 TAT-TATATT-ATTA-AA
*
18000910 -AGTATATTATTAAA
1 TATTATATTATTAAA
18000924 TTAATTATATTA-TAAA
1 -T-ATTATATTATTAAA
*
18000940 TATTATATTATTATA
1 TATTATATTATTAAA
18000955 TAT
1 TAT
18000958 AAAAGAAACA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
14 11 0.21
15 14 0.26
16 11 0.21
17 13 0.25
18 4 0.08
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (15 bp):
TATTATATTATTAAA
Found at i:18000944 original size:14 final size:16
Alignment explanation
Indices: 18000912--18000950 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
18000902 AATTATAAAG
18000912 TATATTATTAAATTAAT
1 TATATTA-TAAATTAAT
18000929 TATATTATAAA-T-AT
1 TATATTATAAATTAAT
18000943 TATATTAT
1 TATATTAT
18000951 TATATATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.45
15 1 0.05
16 4 0.18
17 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATATTATAAATTAAT
Found at i:18002158 original size:37 final size:39
Alignment explanation
Indices: 18002099--18002194 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
18002089 CGGATAGATT
* * * *
18002099 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
18002136 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
18002175 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
18002195 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:18008721 original size:11 final size:11
Alignment explanation
Indices: 18008705--18008730 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18008695 TAGAAGAGAC
18008705 GAAACAGGGGA
1 GAAACAGGGGA
18008716 GAAACAGGGGA
1 GAAACAGGGGA
18008727 GAAA
1 GAAA
18008731 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:18009410 original size:3 final size:3
Alignment explanation
Indices: 18009389--18009432 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
18009379 GTAAGTATAA
* * *
18009389 TAT TAG TAT TAA T-T TAT TAT TAG TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18009433 GAGTGGGAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 1 0.03
3 33 0.97
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:18009846 original size:37 final size:39
Alignment explanation
Indices: 18009787--18009882 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
18009777 CGGATAGATT
* * * *
18009787 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
18009824 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
18009863 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
18009883 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:18011805 original size:41 final size:41
Alignment explanation
Indices: 18011749--18011859 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 41
18011739 TTTAACATAT
* ** *
18011749 TCACCGGCACTTAGCCTGCTAGGCTTATTGCCTGATTCATA
1 TCACCAGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
18011790 TCACCAGCA-TGTAGCCTGCTAGGTTTATAACCTGATTCCGA
1 TCACCAGCACT-TAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
18011831 TCACCGGCACTTAGCCTGCTAGACTTATA
1 TCACCAGCACTTAGCCTGCTAGGCTTATA
18011860 GTCTGAAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 1 0.02
41 57 0.97
42 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (41 bp):
TCACCAGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:18012336 original size:72 final size:69
Alignment explanation
Indices: 18012254--18012416 Score: 177
Period size: 72 Copynumber: 2.3 Consensus size: 69
18012244 ATACCTATAT
*
18012254 ATATACATATATATATATTT-GAACCTTATATATATAAATATATC-GTCCATACCTTTAATTAAA
1 ATATACATATATATATATTTCGAACCTTATATATAT--ATA-A-CAGT-CATACCTTTAACTAAA
18012317 TTCAAAATC
61 TTCAAAATC
* * *
18012326 TTATACATATATATATACATTTTCGAATCTTATATATATATAACAGTCTTACCTTTAACTAAATT
1 ATATACATATATATAT--A-TTTCGAACCTTATATATATATAACAGTCATACCTTTAACTAAATT
* *
18012391 TAAGATC
63 CAAAATC
18012398 ATATACATATATATCATAT
1 ATATACATATATAT-ATAT
18012417 ACATATATAT
Statistics
Matches: 78, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
70 1 0.01
71 1 0.01
72 50 0.64
73 5 0.06
74 4 0.05
75 3 0.04
76 14 0.18
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (69 bp):
ATATACATATATATATATTTCGAACCTTATATATATATAACAGTCATACCTTTAACTAAATTCAA
AATC
Found at i:18012415 original size:15 final size:15
Alignment explanation
Indices: 18012395--18012426 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
18012385 TAAATTTAAG
18012395 ATCATATACATATAT
1 ATCATATACATATAT
18012410 ATCATATACATATAT
1 ATCATATACATATAT
18012425 AT
1 AT
18012427 ACATGTTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (15 bp):
ATCATATACATATAT
Found at i:18013809 original size:13 final size:13
Alignment explanation
Indices: 18013791--18013815 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18013781 CAATCAAATG
18013791 CACACAAAATAAA
1 CACACAAAATAAA
18013804 CACACAAAATAA
1 CACACAAAATAA
18013816 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:18015546 original size:22 final size:22
Alignment explanation
Indices: 18015520--18015561 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
18015510 GAATAAGATA
18015520 TAAATTGGATTGAAA-TGAGTAT
1 TAAATTGGATT-AAATTGAGTAT
*
18015542 TAAATTGTATTAAATTGAGT
1 TAAATTGGATTAAATTGAGT
18015562 TAATTTACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.40
Consensus pattern (22 bp):
TAAATTGGATTAAATTGAGTAT
Found at i:18025971 original size:9 final size:9
Alignment explanation
Indices: 18025877--18025970 Score: 134
Period size: 9 Copynumber: 10.4 Consensus size: 9
18025867 GTAGTGATTC
*
18025877 AATTTGGTT
1 AATTCGGTT
18025886 AATTCGGTT
1 AATTCGGTT
*
18025895 AATTCGGGT
1 AATTCGGTT
18025904 AATTCGGTT
1 AATTCGGTT
18025913 AATTCGGTT
1 AATTCGGTT
* *
18025922 AACTCGGGT
1 AATTCGGTT
*
18025931 AATTCGGGT
1 AATTCGGTT
18025940 AATTCGGTT
1 AATTCGGTT
18025949 AATTCGGTT
1 AATTCGGTT
*
18025958 AATTTGGTT
1 AATTCGGTT
18025967 AATT
1 AATT
18025971 TTTAACCAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 77 1.00
ACGTcount: A:0.23, C:0.10, G:0.24, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:18026867 original size:42 final size:42
Alignment explanation
Indices: 18026805--18026910 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
18026795 CTACGGGTCA
* * * *
18026805 CACCACAACACCACCTACCAATCTTCATACTCTTATGGACCC
1 CACCACAACACCACCCACCAATCTTCACACTCCTATAGACCC
* * *
18026847 CATCACAACACCACCCACCAATCTTCCCACTCCTATAGATCC
1 CACCACAACACCACCCACCAATCTTCACACTCCTATAGACCC
* *
18026889 CACCACAACACTATCCACCAAT
1 CACCACAACACCACCCACCAAT
18026911 TTAACGTCTC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.33, C:0.45, G:0.03, T:0.19
Consensus pattern (42 bp):
CACCACAACACCACCCACCAATCTTCACACTCCTATAGACCC
Found at i:18033796 original size:17 final size:17
Alignment explanation
Indices: 18033756--18033800 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
18033746 TCTTAATCAC
18033756 ATTAATATTAAATTAAT
1 ATTAATATTAAATTAAT
* *
18033773 ATAAATATTAGATTAA-
1 ATTAATATTAAATTAAT
18033789 ATTTAATATTAA
1 A-TTAATATTAA
18033801 CTCTTATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 1 0.04
17 22 0.96
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
ATTAATATTAAATTAAT
Found at i:18033901 original size:25 final size:25
Alignment explanation
Indices: 18033847--18033901 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
18033837 AAACACTAAA
*
18033847 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
18033872 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
18033896 TATTAA
1 T-TTAA
18033902 GATAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:18036041 original size:7 final size:7
Alignment explanation
Indices: 18036031--18036074 Score: 79
Period size: 7 Copynumber: 6.3 Consensus size: 7
18036021 TTATTATTTA
18036031 TTAAATT
1 TTAAATT
18036038 TTAAATT
1 TTAAATT
18036045 TTAAATT
1 TTAAATT
*
18036052 TTAAAAT
1 TTAAATT
18036059 TTAAATT
1 TTAAATT
18036066 TTAAATT
1 TTAAATT
18036073 TT
1 TT
18036075 CAAGTATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TTAAATT
Found at i:18036084 original size:21 final size:21
Alignment explanation
Indices: 18036039--18036084 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
18036029 TATTAAATTT
*
18036039 TAAATTTTAAATTTTAAAATT
1 TAAATTTTAAATTTTAAAATA
* *
18036060 TAAATTTTAAATTTTCAAGTA
1 TAAATTTTAAATTTTAAAATA
18036081 TAAA
1 TAAA
18036085 GTTAAGAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TAAATTTTAAATTTTAAAATA
Found at i:18036810 original size:16 final size:16
Alignment explanation
Indices: 18036789--18036825 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
18036779 GCAACAACTC
* *
18036789 TTGTTTAGAATAATTT
1 TTGTTTAGAACAATTG
18036805 TTGTTTAGAACAATTG
1 TTGTTTAGAACAATTG
18036821 TTGTT
1 TTGTT
18036826 CAAGAATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.03, G:0.16, T:0.54
Consensus pattern (16 bp):
TTGTTTAGAACAATTG
Found at i:18038296 original size:15 final size:15
Alignment explanation
Indices: 18038255--18038301 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
18038245 TAACAAAGAG
18038255 TGACCAAAATATAAA
1 TGACCAAAATATAAA
* *
18038270 CGATCTAAAATATAAA
1 TGA-CCAAAATATAAA
*
18038286 TGACCAAAATAAAAA
1 TGACCAAAATATAAA
18038301 T
1 T
18038302 AATCTAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.60, C:0.13, G:0.06, T:0.21
Consensus pattern (15 bp):
TGACCAAAATATAAA
Found at i:18061157 original size:16 final size:16
Alignment explanation
Indices: 18061120--18061157 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
18061110 GATAAAGTTT
*
18061120 TCAATTATTTTTTAAA
1 TCAATAATTTTTTAAA
*
18061136 AC-ATAATTTTTTAAA
1 TCAATAATTTTTTAAA
18061151 TCAATAA
1 TCAATAA
18061158 ATAAAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 2
0.78 0.13 0.09
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (16 bp):
TCAATAATTTTTTAAA
Found at i:18065247 original size:104 final size:104
Alignment explanation
Indices: 18065135--18065343 Score: 409
Period size: 104 Copynumber: 2.0 Consensus size: 104
18065125 TACAGGTTCG
18065135 ACTCATTTCATATTTGGGTCATTTTGAATATGTATCCTTTCAAGTTGTTTTTTAAGTCATTTTAA
1 ACTCATTTCATATTTGGGTCATTTTGAATATGTATCCTTTCAAGTTGTTTTTTAAGTCATTTTAA
18065200 ATTTAGATTAGATCAATGAGTTAATTCAATTTGGTAAAA
66 ATTTAGATTAGATCAATGAGTTAATTCAATTTGGTAAAA
*
18065239 ACTCATTTCATATTTGGGTCATTTTGAATTTGTATCCTTTCAAGTTGTTTTTTAAGTCATTTTAA
1 ACTCATTTCATATTTGGGTCATTTTGAATATGTATCCTTTCAAGTTGTTTTTTAAGTCATTTTAA
18065304 ATTTAGATTAGATCAATGAGTTAATTCAATTTGGTAAAA
66 ATTTAGATTAGATCAATGAGTTAATTCAATTTGGTAAAA
18065343 A
1 A
18065344 AAAGACCAGT
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (104 bp):
ACTCATTTCATATTTGGGTCATTTTGAATATGTATCCTTTCAAGTTGTTTTTTAAGTCATTTTAA
ATTTAGATTAGATCAATGAGTTAATTCAATTTGGTAAAA
Found at i:18078681 original size:14 final size:13
Alignment explanation
Indices: 18078642--18078684 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 13
18078632 TTCATATTTG
18078642 ATTTTTTTTAAATTA
1 ATTTTTTTTAAA--A
18078657 ATTTTTATTTAAAA
1 ATTTTT-TTTAAAA
18078671 ATATTTTTTTAAAA
1 AT-TTTTTTTAAAA
18078685 TATAACACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 10 0.38
15 10 0.38
16 6 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTTTTTTAAAA
Found at i:18078799 original size:42 final size:38
Alignment explanation
Indices: 18078748--18078829 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
18078738 TAAAAAGTAT
* *
18078748 TTATATTAAAAAAACATTACCATAAGTATAATAAATGTTTTA
1 TTATATTAAAAAAACA--A--ATAAATATAATAAATATTTTA
*
18078790 TTATATTAAAAACACAAATAAATATAATAAATATTTTA
1 TTATATTAAAAAAACAAATAAATATAATAAATATTTTA
18078828 TT
1 TT
18078830 GTGTTAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 21 0.57
40 1 0.03
42 15 0.41
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.39
Consensus pattern (38 bp):
TTATATTAAAAAAACAAATAAATATAATAAATATTTTA
Found at i:18078948 original size:6 final size:6
Alignment explanation
Indices: 18078937--18078964 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
18078927 TTAGTGATTT
18078937 AATATA AATATA AATATA AATATA AATA
1 AATATA AATATA AATATA AATATA AATA
18078965 ATTTAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:18082393 original size:23 final size:23
Alignment explanation
Indices: 18082367--18082424 Score: 98
Period size: 24 Copynumber: 2.5 Consensus size: 23
18082357 TTTAATTTGT
18082367 ATAAAATATATATTTGATTAAAA
1 ATAAAATATATATTTGATTAAAA
18082390 ATAAAAATATATATTTGATTAAAA
1 AT-AAAATATATATTTGATTAAAA
*
18082414 ATAATATATAT
1 ATAAAATATAT
18082425 TTAATATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 10 0.30
24 23 0.70
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (23 bp):
ATAAAATATATATTTGATTAAAA
Found at i:18082720 original size:28 final size:28
Alignment explanation
Indices: 18082682--18082740 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
18082672 ATTAACAAAG
18082682 TAAAAAAAAAATTCAATTATATATTTAT
1 TAAAAAAAAAATTCAATTATATATTTAT
18082710 TAAAAAAAAAATTCAATTATATATTTAT
1 TAAAAAAAAAATTCAATTATATATTTAT
18082738 TAA
1 TAA
18082741 CAATTAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (28 bp):
TAAAAAAAAAATTCAATTATATATTTAT
Found at i:18085442 original size:17 final size:17
Alignment explanation
Indices: 18085416--18085452 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
18085406 TGATAAACTG
*
18085416 AAAAATTAAGTGTCGAA
1 AAAAAATAAGTGTCGAA
*
18085433 AAAAAATAAGTGTTGAA
1 AAAAAATAAGTGTCGAA
18085450 AAA
1 AAA
18085453 TTAAATATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.16, T:0.22
Consensus pattern (17 bp):
AAAAAATAAGTGTCGAA
Found at i:18085466 original size:14 final size:15
Alignment explanation
Indices: 18085445--18085479 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18085435 AAAATAAGTG
*
18085445 TTGAAAAATTAAATA
1 TTGAAAATTTAAATA
*
18085460 TTGAAAATTTAAGTA
1 TTGAAAATTTAAATA
18085475 TTGAA
1 TTGAA
18085480 TTTAAGTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.37
Consensus pattern (15 bp):
TTGAAAATTTAAATA
Found at i:18085595 original size:22 final size:21
Alignment explanation
Indices: 18085570--18085613 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
18085560 AAATTATAAA
**
18085570 AATTATTCTATATTTTATCCTT
1 AATTATTAAATATTTT-TCCTT
*
18085592 AATTTTTAAATATTTTTCCTT
1 AATTATTAAATATTTTTCCTT
18085613 A
1 A
18085614 TTCTAAAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (21 bp):
AATTATTAAATATTTTTCCTT
Found at i:18093717 original size:27 final size:27
Alignment explanation
Indices: 18093686--18093755 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
18093676 CGATTACAGA
*
18093686 CTCTTCGTGAGCTTCCTGTTAAATTGG
1 CTCTTTGTGAGCTTCCTGTTAAATTGG
*
18093713 CTCTTTGTGAGCTTCATGTTAAATTGG
1 CTCTTTGTGAGCTTCCTGTTAAATTGG
18093740 CTCTTTGTGAGCTTCC
1 CTCTTTGTGAGCTTCC
18093756 CGATAGTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (27 bp):
CTCTTTGTGAGCTTCCTGTTAAATTGG
Found at i:18093884 original size:25 final size:24
Alignment explanation
Indices: 18093808--18093881 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 24
18093798 GCTCCCGTTA
* *
18093808 TATGGCTCTTCGTGAGCTTCTCGA-
1 TATGGCTCTT-ATGAGCTTCTCTAT
* *
18093832 TATGGTTCTTTATGAACTTACT-TAT
1 TATGGCTC-TTATGAGCTT-CTCTAT
18093857 TATGGCTCTTATGAGCTTCTCTAT
1 TATGGCTCTTATGAGCTTCTCTAT
18093881 T
1 T
18093882 TATATATCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
23 2 0.05
24 27 0.68
25 11 0.28
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.46
Consensus pattern (24 bp):
TATGGCTCTTATGAGCTTCTCTAT
Found at i:18116693 original size:46 final size:46
Alignment explanation
Indices: 18116640--18116733 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
18116630 ACAATGCTAT
* *
18116640 AACTCAGTATGGTTTCCTTCATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
*
18116686 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
18116732 AA
1 AA
18116734 TTTTCCATGG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:18117501 original size:17 final size:17
Alignment explanation
Indices: 18117479--18117515 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
18117469 AAATTCTTTT
18117479 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
*
18117496 TAAATCACAGAATTCAC
1 TAAATCACAAAATTCAC
18117513 TAA
1 TAA
18117516 TTTAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.22, G:0.03, T:0.24
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:18117787 original size:42 final size:42
Alignment explanation
Indices: 18117662--18117811 Score: 130
Period size: 42 Copynumber: 3.6 Consensus size: 42
18117652 TCGAAAGCTG
* ** * *
18117662 AACAGAAGCTCATGAGAGCTAAACAAAAAC-CTATAAGGGTTG
1 AACAGAAGCTCGTGAGAGCTAAACGGAAACTC-ATAAGAGTTA
* * * *
18117704 AAC-GTAAGCTCGTAAGAGTTGAAA--AAAACTCATAAGGGTTA
1 AACAG-AAGCTCGTGAGAGCT-AAACGGAAACTCATAAGAGTTA
* *
18117745 AACAGAAGCTCGAT-AGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTCG-TGAGAGCTAAACGGAAACTCATAAGAGTTA
18117787 AACAGAAGCTCGTGAGAGCTAAACG
1 AACAGAAGCTCGTGAGAGCTAAACG
18117812 AAAAGTAAAA
Statistics
Matches: 90, Mismatches: 10, Indels: 16
0.78 0.09 0.14
Matches are distributed among these distances:
40 2 0.02
41 31 0.34
42 54 0.60
43 3 0.03
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (42 bp):
AACAGAAGCTCGTGAGAGCTAAACGGAAACTCATAAGAGTTA
Found at i:18117809 original size:21 final size:20
Alignment explanation
Indices: 18117743--18117810 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
18117733 TCATAAGGGT
18117743 TAAACAGAAGCTCGATAGAGC
1 TAAACAGAAGCTCG-TAGAGC
* * * * *
18117764 TGAACGGAAACTCATATGAGT
1 TAAACAGAAGCTCGTA-GAGC
18117785 TAAACAGAAGCTCGTGAGAGC
1 TAAACAGAAGCTCGT-AGAGC
18117806 TAAAC
1 TAAAC
18117811 GAAAAGTAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
20 2 0.06
21 32 0.91
22 1 0.03
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TAAACAGAAGCTCGTAGAGC
Found at i:18127479 original size:30 final size:31
Alignment explanation
Indices: 18127443--18127577 Score: 102
Period size: 30 Copynumber: 4.5 Consensus size: 31
18127433 TTAAAAAAAT
18127443 AAAAATTACATTTTAGCCCCTAA-ACTTTTC
1 AAAAATTACATTTTAGCCCCTAATACTTTTC
**
18127473 AAAAATTACATTTT-GACCCCTAATTTTTTTTC
1 AAAAATTACATTTTAG-CCCCTAA-TACTTTTC
* * * *
18127505 TAAATTTACATCTTAACCCCTAATA-TTTT-
1 AAAAATTACATTTTAGCCCCTAATACTTTTC
** **
18127534 GTAAATTACATTTGGGCCCCTAA-AC-TTTC
1 AAAAATTACATTTTAGCCCCTAATACTTTTC
*
18127563 TAGAAATTACATTTT
1 -AAAAATTACATTTT
18127578 GACCCCATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 14
0.72 0.15 0.12
Matches are distributed among these distances:
28 4 0.05
29 17 0.21
30 36 0.44
31 1 0.01
32 23 0.28
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.41
Consensus pattern (31 bp):
AAAAATTACATTTTAGCCCCTAATACTTTTC
Found at i:18127514 original size:32 final size:32
Alignment explanation
Indices: 18127443--18127533 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 32
18127433 TTAAAAAAAT
* * *
18127443 AAAAATTACATTTTAGCCCCTAA-A-CTTTTC
1 AAAAATTACATCTTAACCCCTAATATTTTTTC
* * *
18127473 AAAAATTACATTTTGACCCCTAATTTTTTTTC
1 AAAAATTACATCTTAACCCCTAATATTTTTTC
* *
18127505 TAAATTTACATCTTAACCCCTAATATTTT
1 AAAAATTACATCTTAACCCCTAATATTTT
18127534 GTAAATTACA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
30 21 0.42
32 29 0.58
ACGTcount: A:0.34, C:0.21, G:0.02, T:0.43
Consensus pattern (32 bp):
AAAAATTACATCTTAACCCCTAATATTTTTTC
Found at i:18128103 original size:4 final size:4
Alignment explanation
Indices: 18128087--18128142 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
18128077 CTGAACGGGG
* * * *
18128087 AAGA AAGA CAGA AAGAA AAAA AAGA AAGA AAGA AGGGA AA-A AAGA AAAA
1 AAGA AAGA AAGA AAG-A AAGA AAGA AAGA AAGA A-AGA AAGA AAGA AAGA
18128136 AAGA AAG
1 AAGA AAG
18128143 GGGGAAGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
3 3 0.07
4 32 0.78
5 6 0.15
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:18128113 original size:21 final size:21
Alignment explanation
Indices: 18128087--18128142 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
18128077 CTGAACGGGG
*
18128087 AAGAAAGACAGAAAGAAAAAA
1 AAGAAAGAAAGAAAGAAAAAA
**
18128108 AAGAAAGAAAG-AAGGGAAAA
1 AAGAAAGAAAGAAAGAAAAAA
*
18128128 AAGAAAAAAAGAAAG
1 AAGAAAGAAAGAAAG
18128143 GGGGAAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (21 bp):
AAGAAAGAAAGAAAGAAAAAA
Found at i:18128138 original size:24 final size:23
Alignment explanation
Indices: 18128087--18128164 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 23
18128077 CTGAACGGGG
** *
18128087 AAGAAAGACAGAAAGAAAAAAAAGA
1 AAGAAAGAGGGAAA-AAAGAAAA-A
18128112 AAGAAAGAAGGGAAAAAAGAAAAA
1 AAGAAAG-AGGGAAAAAAGAAAAA
* *
18128136 AAGAAAGGGGGAAGAAAGGGAAAAA
1 AAGAAAGAGGGAA-AAA-AGAAAAA
18128161 AAGA
1 AAGA
18128165 GAAAAAAAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 5 0.11
24 11 0.24
25 24 0.53
26 5 0.11
ACGTcount: A:0.71, C:0.01, G:0.28, T:0.00
Consensus pattern (23 bp):
AAGAAAGAGGGAAAAAAGAAAAA
Found at i:18128257 original size:18 final size:18
Alignment explanation
Indices: 18128216--18128257 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
18128206 CTAGCAACCC
* *
18128216 GACCCGCAACACCCAGCA
1 GACCCACAACACCCAACA
18128234 GACCCACAACACCCAACA
1 GACCCACAACACCCAACA
*
18128252 GGCCCA
1 GACCCA
18128258 GTAGATTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.50, G:0.14, T:0.00
Consensus pattern (18 bp):
GACCCACAACACCCAACA
Found at i:18128468 original size:15 final size:15
Alignment explanation
Indices: 18128448--18128482 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
18128438 CCAATCTGAA
18128448 AAAAAAAGAAAAAAC
1 AAAAAAAGAAAAAAC
*
18128463 AAAAAAAGAGAAAAC
1 AAAAAAAGAAAAAAC
18128478 AAAAA
1 AAAAA
18128483 CAAAAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.86, C:0.06, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAC
Found at i:18128968 original size:18 final size:18
Alignment explanation
Indices: 18128931--18129283 Score: 226
Period size: 18 Copynumber: 19.9 Consensus size: 18
18128921 GAAAAAATCA
*
18128931 AAAAATTCTCGTG-TTT-
1 AAAAATTTTCGTGTTTTC
18128947 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
18128965 AAAAAATGTTCGTG-TTT-
1 -AAAAATTTTCGTGTTTTC
*
18128982 AAAAATTTTTGTG-TTTC
1 AAAAATTTTCGTGTTTTC
****
18128999 AAAAATCCAAGTGTTTTCC
1 AAAAATTTTCGTGTTTT-C
* * **
18129018 AAAAAAATTTCCGTGATTAA
1 --AAAAATTTTCGTGTTTTC
*
18129038 AAATAATTCTCGTGTTTTC
1 AAA-AATTTTCGTGTTTTC
* *
18129057 CAAAA-TTTC-TGTGTTTA
1 AAAAATTTTCGTGT-TTTC
*
18129074 AAAAATTTTCATGTTTTC
1 AAAAATTTTCGTGTTTTC
*
18129092 AAAAATTGTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
18129110 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* * *
18129128 AACAATTCTCGCG-TTTC
1 AAAAATTTTCGTGTTTTC
* *
18129145 ACAAATTTTCGTATTTT-
1 AAAAATTTTCGTGTTTTC
*** * * *
18129162 AATTTTTTTTGTTTTTTAA
1 AAAAATTTTCGTGTTTT-C
*
18129181 AAAAATTCTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* * *
18129198 AAAAATTGTCATGTTTTA
1 AAAAATTTTCGTGTTTTC
*
18129216 AAAAAATTTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
*
18129233 TAAAATTTTCGTGTTTT-
1 AAAAATTTTCGTGTTTTC
* * *
18129250 AACAATTCTAGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
18129268 AAAAATTCTCGTGTTT
1 AAAAATTTTCGTGTTT
18129284 AAAAAACTTT
Statistics
Matches: 255, Mismatches: 64, Indels: 34
0.72 0.18 0.10
Matches are distributed among these distances:
16 29 0.11
17 83 0.33
18 97 0.38
19 35 0.14
21 11 0.04
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:18128978 original size:35 final size:35
Alignment explanation
Indices: 18128928--18129283 Score: 205
Period size: 35 Copynumber: 10.0 Consensus size: 35
18128918 TAAGAAAAAA
18128928 TCAAAAAATTCTCGTGTTT-AAAAATTTTCGTGTTT
1 TCAAAAAATT-TCGTGTTTCAAAAATTTTCGTGTTT
*
18128963 TCAAAAAATGTTCGTGTTT-AAAAATTTTTGTG-TT
1 TCAAAAAAT-TTCGTGTTTCAAAAATTTTCGTGTTT
* * *
18128997 TC-AAAAA-TCCAAGTGTTTTCCAAAAAAATTTCCGTG-AT
1 TCAAAAAATTTC--GTG-TTT-C--AAAAATTTTCGTGTTT
* *
18129035 TAAAAATAATTCTCGTGTTTTCCAAAA-TTTC-TGTGTT
1 TCAAAA-AATT-TCGTG-TTTCAAAAATTTTCGTGT-TT
* *
18129072 T-AAAAAATTTTCATGTTTTCAAAAATTGTCGTGTTT
1 TCAAAAAA-TTTCGTG-TTTCAAAAATTTTCGTGTTT
* * * *
18129108 TCAAAAATTTTCGTGTTTTCAACAATTCTCGCG-TT
1 TCAAAAAATTTCGTG-TTTCAAAAATTTTCGTGTTT
* * * * *** * *
18129143 TCACAAATTTTCGTATTTTAATTTTTTTTGTTTTT
1 TCAAAAAATTTCGTGTTTCAAAAATTTTCGTGTTT
* * *
18129178 TAAAAAAATTCTCGTGTTTCAAAAATTGTCATGTTT
1 TCAAAAAATT-TCGTGTTTCAAAAATTTTCGTGTTT
* *
18129214 TAAAAAAATTTCGTGTTTCTAAAATTTTCGTGTTT
1 TCAAAAAATTTCGTGTTTCAAAAATTTTCGTGTTT
* * *
18129249 T--AACAATTCTAGTGTTTTCAAAAATTCTCGTGTTT
1 TCAAAAAATT-TCGTG-TTTCAAAAATTTTCGTGTTT
18129284 AAAAAACTTT
Statistics
Matches: 252, Mismatches: 47, Indels: 44
0.73 0.14 0.13
Matches are distributed among these distances:
31 2 0.01
33 14 0.06
34 20 0.08
35 111 0.44
36 63 0.25
37 14 0.06
38 13 0.05
39 4 0.02
40 9 0.04
41 1 0.00
42 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (35 bp):
TCAAAAAATTTCGTGTTTCAAAAATTTTCGTGTTT
Found at i:18129265 original size:52 final size:52
Alignment explanation
Indices: 18129182--18129283 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 52
18129172 GTTTTTTAAA
*
18129182 AAAATTCTCGTGTTTCAAAAATTGTCATGTTTTAAAAAAATT-TCGTGTTTCT
1 AAAATTCTCGTGTTTCAAAAATTCTCATGTTTT-AAAAAATTCTCGTGTTTCT
* * * *
18129234 AAAATTTTCGTGTTTTAACAATTCT-AGTGTTTTCAAAAATTCTCGTGTTT
1 AAAATTCTCGTGTTTCAAAAATTCTCA-TGTTTTAAAAAATTCTCGTGTTT
18129284 AAAAAACTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
51 8 0.19
52 35 0.81
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (52 bp):
AAAATTCTCGTGTTTCAAAAATTCTCATGTTTTAAAAAATTCTCGTGTTTCT
Found at i:18129289 original size:18 final size:17
Alignment explanation
Indices: 18128930--18129341 Score: 140
Period size: 18 Copynumber: 23.4 Consensus size: 17
18128920 AGAAAAAATC
18128930 AAAAAATTCTCGTGTTT
1 AAAAAATTCTCGTGTTT
*
18128947 -AAAAATTTTCGTGTTTT
1 AAAAAATTCTCGTG-TTT
18128964 CAAAAAATGT-TCGTGTTT
1 -AAAAAAT-TCTCGTGTTT
* *
18128982 -AAAAATTTTTGTGTTT
1 AAAAAATTCTCGTGTTT
* * **
18128998 CAAAAATCCAAGTGTTTT
1 AAAAAATTCTCGTG-TTT
*
18129016 CCAAAAAAATT-TCCGTGATTA
1 ---AAAAAATTCT-CGTG-TTT
18129037 AAAATAATTCTCGTGTTTT
1 AAAA-AATTCTCGTG-TTT
**
18129056 CCAAAATT-TCTGTGTTT
1 AAAAAATTCTC-GTGTTT
* *
18129073 AAAAAATTTTCATGTTTT
1 AAAAAATTCTCGTG-TTT
* *
18129091 CAAAAATTGTCGTGTTTT
1 AAAAAATTCTCGTG-TTT
* *
18129109 CAAAAATTTTCGTGTTTT
1 AAAAAATTCTCGTG-TTT
* * *
18129127 CAACAATTCTCGCGTTT
1 AAAAAATTCTCGTGTTT
* * * *
18129144 CACAAATTTTCGTATTT
1 AAAAAATTCTCGTGTTT
* *** * * *
18129161 TAATTTTTTTTGTTTTTT
1 AAAAAATTCTCG-TGTTT
18129179 AAAAAAATTCTCGTGTTT
1 -AAAAAATTCTCGTGTTT
* * *
18129197 CAAAAATTGTCATGTTTT
1 AAAAAATTCTCGTG-TTT
18129215 AAAAAAATT-TCGTGTTT
1 -AAAAAATTCTCGTGTTT
** *
18129232 CTAAAATTTTCGTGTTT
1 AAAAAATTCTCGTGTTT
* * *
18129249 TAACAATTCTAGTGTTTT
1 AAAAAATTCTCGTG-TTT
*
18129267 CAAAAATTCTCGTGTTT
1 AAAAAATTCTCGTGTTT
* *
18129284 AAAAAACTT-TCATTTTTTT
1 AAAAAA-TTCTC--GTGTTT
* *
18129303 TAAAAATTC-CGTGCTT
1 AAAAAATTCTCGTGTTT
*
18129319 -CAAAATTCTCGTGTTTT
1 AAAAAATTCTCGTG-TTT
18129336 AAAAAA
1 AAAAAA
18129342 AATCCTCGTG
Statistics
Matches: 296, Mismatches: 70, Indels: 57
0.70 0.17 0.13
Matches are distributed among these distances:
15 8 0.03
16 38 0.13
17 89 0.30
18 103 0.35
19 45 0.15
20 2 0.01
21 11 0.04
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.45
Consensus pattern (17 bp):
AAAAAATTCTCGTGTTT
Found at i:18131677 original size:989 final size:989
Alignment explanation
Indices: 18129761--18131740 Score: 3960
Period size: 989 Copynumber: 2.0 Consensus size: 989
18129751 CTGATGTTAA
18129761 ACGCATGTTGTCAAAATTTTCAAAATTTCTTGTTCAAATTAATTTTTAATCGTGATAATTTAATT
1 ACGCATGTTGTCAAAATTTTCAAAATTTCTTGTTCAAATTAATTTTTAATCGTGATAATTTAATT
18129826 TTATTTTTTTAAAAAAATCATGCATTTGCATTCAGTTTTTAAATTAATAATTTTCTAATGTGTTT
66 TTATTTTTTTAAAAAAATCATGCATTTGCATTCAGTTTTTAAATTAATAATTTTCTAATGTGTTT
18129891 TATTTTTCTTTTTTTTTCAGCTCTAAGTTTTACGTTTTTTAGTTTGTTTTTTTAGTAAAAAATAA
131 TATTTTTCTTTTTTTTTCAGCTCTAAGTTTTACGTTTTTTAGTTTGTTTTTTTAGTAAAAAATAA
18129956 AAAAGAAAAAGGTTTGTGAGTTTCTCCCCACACACTGTGCACTTGCATTCTTGCATAACATGAGC
196 AAAAGAAAAAGGTTTGTGAGTTTCTCCCCACACACTGTGCACTTGCATTCTTGCATAACATGAGC
18130021 TCTCTACCCAGGCTCCGTCTGTTTAAGTGGAAGTAAACACTACGCCTTCGTGAGTTAACTCGTCC
261 TCTCTACCCAGGCTCCGTCTGTTTAAGTGGAAGTAAACACTACGCCTTCGTGAGTTAACTCGTCC
18130086 CTCCGCACATGCTAGTAAATTACTTTCGAGTTACATATGACTTATGCTTTCGTGAGTTAACTTGT
326 CTCCGCACATGCTAGTAAATTACTTTCGAGTTACATATGACTTATGCTTTCGTGAGTTAACTTGT
18130151 CCCTTTGCATAAGCATAAGTAAATGTAATCTCTCAAATTGAGCTCGTGAGCCTGTGATGGGTGAT
391 CCCTTTGCATAAGCATAAGTAAATGTAATCTCTCAAATTGAGCTCGTGAGCCTGTGATGGGTGAT
18130216 GACCGAGGCTCCATACTAACCTTAGTAGGTGACAGTATGGACAATTCGAGTACCTTTCTAAAACC
456 GACCGAGGCTCCATACTAACCTTAGTAGGTGACAGTATGGACAATTCGAGTACCTTTCTAAAACC
18130281 AAAACCACATATAGTGAACCGTACGAGCCACCCAATTAGAGCCATGCCGAACCTCTGTCCGTTTG
521 AAAACCACATATAGTGAACCGTACGAGCCACCCAATTAGAGCCATGCCGAACCTCTGTCCGTTTG
18130346 ATAGTTACCAAAATAAGAACACGGGAGAAACGTCTCTTACCTTTTATTTCTTTTACATTTACACT
586 ATAGTTACCAAAATAAGAACACGGGAGAAACGTCTCTTACCTTTTATTTCTTTTACATTTACACT
18130411 CATTTGCAAATGAATTGAGTCTGTTTAATAAATTGGGCCGGATAGATTGTCTGATGGTATGTGGG
651 CATTTGCAAATGAATTGAGTCTGTTTAATAAATTGGGCCGGATAGATTGTCTGATGGTATGTGGG
18130476 GTAGGTTTCTTGTAAAACATGTTGGGGCAAAAAAAAAGAATGTGTGGTCTGTTCCTTCAAATTGC
716 GTAGGTTTCTTGTAAAACATGTTGGGGCAAAAAAAAAGAATGTGTGGTCTGTTCCTTCAAATTGC
18130541 ATGATTGAATAGTTTAATTTGTTAAATTTTCCATAGTCTTTATTGTTCTTTTTATATCTGTTGTG
781 ATGATTGAATAGTTTAATTTGTTAAATTTTCCATAGTCTTTATTGTTCTTTTTATATCTGTTGTG
18130606 ATCTCTAACCAAGGTTATTTGTTCTTCATTTTATTTTTTCATCATGCATCGTAGACATATCATTA
846 ATCTCTAACCAAGGTTATTTGTTCTTCATTTTATTTTTTCATCATGCATCGTAGACATATCATTA
18130671 GGAAGGTGTTGGTTAAAGATTGGTTGCCAAAAACGGGTTTCTGATGGAGGAGTCAATTACACGAG
911 GGAAGGTGTTGGTTAAAGATTGGTTGCCAAAAACGGGTTTCTGATGGAGGAGTCAATTACACGAG
18130736 TAACCGAAAAAAAT
976 TAACCGAAAAAAAT
18130750 ACGCATGTTGTCAAAATTTTCAAAATTTCTTGTTCAAATTAATTTTTAATCGTGATAATTTAATT
1 ACGCATGTTGTCAAAATTTTCAAAATTTCTTGTTCAAATTAATTTTTAATCGTGATAATTTAATT
18130815 TTATTTTTTTAAAAAAATCATGCATTTGCATTCAGTTTTTAAATTAATAATTTTCTAATGTGTTT
66 TTATTTTTTTAAAAAAATCATGCATTTGCATTCAGTTTTTAAATTAATAATTTTCTAATGTGTTT
18130880 TATTTTTCTTTTTTTTTCAGCTCTAAGTTTTACGTTTTTTAGTTTGTTTTTTTAGTAAAAAATAA
131 TATTTTTCTTTTTTTTTCAGCTCTAAGTTTTACGTTTTTTAGTTTGTTTTTTTAGTAAAAAATAA
18130945 AAAAGAAAAAGGTTTGTGAGTTTCTCCCCACACACTGTGCACTTGCATTCTTGCATAACATGAGC
196 AAAAGAAAAAGGTTTGTGAGTTTCTCCCCACACACTGTGCACTTGCATTCTTGCATAACATGAGC
18131010 TCTCTACCCAGGCTCCGTCTGTTTAAGTGGAAGTAAACACTACGCCTTCGTGAGTTAACTCGTCC
261 TCTCTACCCAGGCTCCGTCTGTTTAAGTGGAAGTAAACACTACGCCTTCGTGAGTTAACTCGTCC
18131075 CTCCGCACATGCTAGTAAATTACTTTCGAGTTACATATGACTTATGCTTTCGTGAGTTAACTTGT
326 CTCCGCACATGCTAGTAAATTACTTTCGAGTTACATATGACTTATGCTTTCGTGAGTTAACTTGT
18131140 CCCTTTGCATAAGCATAAGTAAATGTAATCTCTCAAATTGAGCTCGTGAGCCTGTGATGGGTGAT
391 CCCTTTGCATAAGCATAAGTAAATGTAATCTCTCAAATTGAGCTCGTGAGCCTGTGATGGGTGAT
18131205 GACCGAGGCTCCATACTAACCTTAGTAGGTGACAGTATGGACAATTCGAGTACCTTTCTAAAACC
456 GACCGAGGCTCCATACTAACCTTAGTAGGTGACAGTATGGACAATTCGAGTACCTTTCTAAAACC
18131270 AAAACCACATATAGTGAACCGTACGAGCCACCCAATTAGAGCCATGCCGAACCTCTGTCCGTTTG
521 AAAACCACATATAGTGAACCGTACGAGCCACCCAATTAGAGCCATGCCGAACCTCTGTCCGTTTG
18131335 ATAGTTACCAAAATAAGAACACGGGAGAAACGTCTCTTACCTTTTATTTCTTTTACATTTACACT
586 ATAGTTACCAAAATAAGAACACGGGAGAAACGTCTCTTACCTTTTATTTCTTTTACATTTACACT
18131400 CATTTGCAAATGAATTGAGTCTGTTTAATAAATTGGGCCGGATAGATTGTCTGATGGTATGTGGG
651 CATTTGCAAATGAATTGAGTCTGTTTAATAAATTGGGCCGGATAGATTGTCTGATGGTATGTGGG
18131465 GTAGGTTTCTTGTAAAACATGTTGGGGCAAAAAAAAAGAATGTGTGGTCTGTTCCTTCAAATTGC
716 GTAGGTTTCTTGTAAAACATGTTGGGGCAAAAAAAAAGAATGTGTGGTCTGTTCCTTCAAATTGC
18131530 ATGATTGAATAGTTTAATTTGTTAAATTTTCCATAGTCTTTATTGTTCTTTTTATATCTGTTGTG
781 ATGATTGAATAGTTTAATTTGTTAAATTTTCCATAGTCTTTATTGTTCTTTTTATATCTGTTGTG
18131595 ATCTCTAACCAAGGTTATTTGTTCTTCATTTTATTTTTTCATCATGCATCGTAGACATATCATTA
846 ATCTCTAACCAAGGTTATTTGTTCTTCATTTTATTTTTTCATCATGCATCGTAGACATATCATTA
18131660 GGAAGGTGTTGGTTAAAGATTGGTTGCCAAAAACGGGTTTCTGATGGAGGAGTCAATTACACGAG
911 GGAAGGTGTTGGTTAAAGATTGGTTGCCAAAAACGGGTTTCTGATGGAGGAGTCAATTACACGAG
18131725 TAACCGAAAAAAAT
976 TAACCGAAAAAAAT
18131739 AC
1 AC
18131741 TGTAGTCTGA
Statistics
Matches: 991, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
989 991 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (989 bp):
ACGCATGTTGTCAAAATTTTCAAAATTTCTTGTTCAAATTAATTTTTAATCGTGATAATTTAATT
TTATTTTTTTAAAAAAATCATGCATTTGCATTCAGTTTTTAAATTAATAATTTTCTAATGTGTTT
TATTTTTCTTTTTTTTTCAGCTCTAAGTTTTACGTTTTTTAGTTTGTTTTTTTAGTAAAAAATAA
AAAAGAAAAAGGTTTGTGAGTTTCTCCCCACACACTGTGCACTTGCATTCTTGCATAACATGAGC
TCTCTACCCAGGCTCCGTCTGTTTAAGTGGAAGTAAACACTACGCCTTCGTGAGTTAACTCGTCC
CTCCGCACATGCTAGTAAATTACTTTCGAGTTACATATGACTTATGCTTTCGTGAGTTAACTTGT
CCCTTTGCATAAGCATAAGTAAATGTAATCTCTCAAATTGAGCTCGTGAGCCTGTGATGGGTGAT
GACCGAGGCTCCATACTAACCTTAGTAGGTGACAGTATGGACAATTCGAGTACCTTTCTAAAACC
AAAACCACATATAGTGAACCGTACGAGCCACCCAATTAGAGCCATGCCGAACCTCTGTCCGTTTG
ATAGTTACCAAAATAAGAACACGGGAGAAACGTCTCTTACCTTTTATTTCTTTTACATTTACACT
CATTTGCAAATGAATTGAGTCTGTTTAATAAATTGGGCCGGATAGATTGTCTGATGGTATGTGGG
GTAGGTTTCTTGTAAAACATGTTGGGGCAAAAAAAAAGAATGTGTGGTCTGTTCCTTCAAATTGC
ATGATTGAATAGTTTAATTTGTTAAATTTTCCATAGTCTTTATTGTTCTTTTTATATCTGTTGTG
ATCTCTAACCAAGGTTATTTGTTCTTCATTTTATTTTTTCATCATGCATCGTAGACATATCATTA
GGAAGGTGTTGGTTAAAGATTGGTTGCCAAAAACGGGTTTCTGATGGAGGAGTCAATTACACGAG
TAACCGAAAAAAAT
Found at i:18134118 original size:911 final size:911
Alignment explanation
Indices: 18132358--18134181 Score: 3639
Period size: 911 Copynumber: 2.0 Consensus size: 911
18132348 GTACCTTTCT
18132358 AAAACCAAAACCACATATAGTGAACCGTACGAGCCACCCAATTAGAGCCATGCCGAACCTCTGTC
1 AAAACCAAAACCACATATAGTGAACCGTACGAGCCACCCAATTAGAGCCATGCCGAACCTCTGTC
18132423 CGTTTGATAGTTACCAAAATAAGAACACGGGAGAAACGTCTCTTACCTTTTATTTCTTTTACATT
66 CGTTTGATAGTTACCAAAATAAGAACACGGGAGAAACGTCTCTTACCTTTTATTTCTTTTACATT
18132488 TACACTCATTTGCAAATGAATTGAGTCTGTTTAATAAATTGGGCCGGATAGATTGTCTGATGGTA
131 TACACTCATTTGCAAATGAATTGAGTCTGTTTAATAAATTGGGCCGGATAGATTGTCTGATGGTA
18132553 TGTGGGGTAGGTTTCTTGTAAAACATGTTGGGGCAAAAAAAAAGAATGTGTGGTCTGTTCCTTCA
196 TGTGGGGTAGGTTTCTTGTAAAACATGTTGGGGCAAAAAAAAAGAATGTGTGGTCTGTTCCTTCA
18132618 AATTGCATGATTGAATAGTTTAATTTGTTAAATTTTCCATAGTCTTTATTGTTCTTTTTATATCT
261 AATTGCATGATTGAATAGTTTAATTTGTTAAATTTTCCATAGTCTTTATTGTTCTTTTTATATCT
18132683 GTTGTGATCTCTAACCAAGGTTATTTGTTCTTCATTTTATTTTTTCATCATGCATCGTAGACATA
326 GTTGTGATCTCTAACCAAGGTTATTTGTTCTTCATTTTATTTTTTCATCATGCATCGTAGACATA
18132748 TCATTAGGAAGGTGTTGGTTAAAGATTGGTTGCCAAAAACGGGTTTCTGATGGAGGAGTCAATTA
391 TCATTAGGAAGGTGTTGGTTAAAGATTGGTTGCCAAAAACGGGTTTCTGATGGAGGAGTCAATTA
*
18132813 CACGAGTAACCGAGAAAAATACTGTAGTCTGAGATTGGTCTTTGAGGACTCAAAAAGCGAAAGGG
456 CACGAGTAACCGAAAAAAATACTGTAGTCTGAGATTGGTCTTTGAGGACTCAAAAAGCGAAAGGG
18132878 GACAGTTTAAAGGAAGGATACACCTCTGATCTTCCCAAGCGTGTGACTTCGAATGCTCGTCAGAA
521 GACAGTTTAAAGGAAGGATACACCTCTGATCTTCCCAAGCGTGTGACTTCGAATGCTCGTCAGAA
18132943 CAATCTCAAAGACTTGACTGGGATTTGGAAGAAGTGGGACTCAGATACTAGAGGCATCTTCACTG
586 CAATCTCAAAGACTTGACTGGGATTTGGAAGAAGTGGGACTCAGATACTAGAGGCATCTTCACTG
18133008 AAAAGTACAGGGATATAGCTCACTTAATAGCAATCAATGTGAACGAGCAGTTGATTCAAGTCATG
651 AAAAGTACAGGGATATAGCTCACTTAATAGCAATCAATGTGAACGAGCAGTTGATTCAAGTCATG
18133073 GTTCGATTCTGGGACCCAACCTATCAGTGTTTTACTTTCAATCAGGAAGAAATTATTTCGACCAT
716 GTTCGATTCTGGGACCCAACCTATCAGTGTTTTACTTTCAATCAGGAAGAAATTATTTCGACCAT
18133138 AGAAGAGTATGCCACTTTGCTTCGCATTGACAATGTACAATTCAACAAGATATATGTGAAGGAGC
781 AGAAGAGTATGCCACTTTGCTTCGCATTGACAATGTACAATTCAACAAGATATATGTGAAGGAGC
18133203 CTAAACCAATGACCTTCAAGAAAAAGCTAATGAAGTTGACGGGTATGACTAATACATGGGCTGAA
846 CTAAACCAATGACCTTCAAGAAAAAGCTAATGAAGTTGACGGGTATGACTAATACATGGGCTGAA
18133268 A
911 A
18133269 AAAACCAAAACCACATATAGTGAACCGTACGAGCCACCCAATTAGAGCCATGCCGAACCTCTGTC
1 AAAACCAAAACCACATATAGTGAACCGTACGAGCCACCCAATTAGAGCCATGCCGAACCTCTGTC
18133334 CGTTTGATAGTTACCAAAATAAGAACACGGGAGAAACGTCTCTTACCTTTTATTTCTTTTACATT
66 CGTTTGATAGTTACCAAAATAAGAACACGGGAGAAACGTCTCTTACCTTTTATTTCTTTTACATT
18133399 TACACTCATTTGCAAATGAATTGAGTCTGTTTAATAAATTGGGCCGGATAGATTGTCTGATGGTA
131 TACACTCATTTGCAAATGAATTGAGTCTGTTTAATAAATTGGGCCGGATAGATTGTCTGATGGTA
18133464 TGTGGGGTAGGTTTCTTGTAAAACATGTTGGGGCAAAAAAAAAGAATGTGTGGTCTGTTCCTTCA
196 TGTGGGGTAGGTTTCTTGTAAAACATGTTGGGGCAAAAAAAAAGAATGTGTGGTCTGTTCCTTCA
18133529 AATTGCATGATTGAATAGTTTAATTTGTTAAATTTTCCATAGTCTTTATTGTTCTTTTTATATCT
261 AATTGCATGATTGAATAGTTTAATTTGTTAAATTTTCCATAGTCTTTATTGTTCTTTTTATATCT
18133594 GTTGTGATCTCTAACCAAGGTTATTTGTTCTTCATTTTATTTTTTCATCATGCATCGTAGACATA
326 GTTGTGATCTCTAACCAAGGTTATTTGTTCTTCATTTTATTTTTTCATCATGCATCGTAGACATA
18133659 TCATTAGGAAGGTGTTGGTTAAAGATTGGTTGCCAAAAACGGGTTTCTGATGGAGGAGTCAATTA
391 TCATTAGGAAGGTGTTGGTTAAAGATTGGTTGCCAAAAACGGGTTTCTGATGGAGGAGTCAATTA
18133724 CACGAGTAACCGAAAAAAATACTGTAGTCTGAGATTGGTCTTTGAGGACTCAAAAAGCGAAAGGG
456 CACGAGTAACCGAAAAAAATACTGTAGTCTGAGATTGGTCTTTGAGGACTCAAAAAGCGAAAGGG
18133789 GACAGTTTAAAGGAAGGATACACCTCTGATCTTCCCAAGCGTGTGACTTCGAATGCTCGTCAGAA
521 GACAGTTTAAAGGAAGGATACACCTCTGATCTTCCCAAGCGTGTGACTTCGAATGCTCGTCAGAA
18133854 CAATCTCAAAGACTTGACTGGGATTTGGAAGAAGTGGGACTCAGATACTAGAGGCATCTTCACTG
586 CAATCTCAAAGACTTGACTGGGATTTGGAAGAAGTGGGACTCAGATACTAGAGGCATCTTCACTG
18133919 AAAAGTACAGGGATATAGCTCACTTAATAGCAATCAATGTGAACGAGCAGTTGATTCAAGTCATG
651 AAAAGTACAGGGATATAGCTCACTTAATAGCAATCAATGTGAACGAGCAGTTGATTCAAGTCATG
18133984 GTTCGATTCTGGGACCCAACCTATCAGTGTTTTACTTTCAATCAGGAAGAAATTATTTCGACCAT
716 GTTCGATTCTGGGACCCAACCTATCAGTGTTTTACTTTCAATCAGGAAGAAATTATTTCGACCAT
18134049 AGAAGAGTATGCCACTTTGCTTCGCATTGACAATGTACAATTCAACAAGATATATGTGAAGGAGC
781 AGAAGAGTATGCCACTTTGCTTCGCATTGACAATGTACAATTCAACAAGATATATGTGAAGGAGC
18134114 CTAAACCAATGACCTTCAAGAAAAAGCTAATGAAGTTGACGGGTATGACTAATACATGGGCTGAA
846 CTAAACCAATGACCTTCAAGAAAAAGCTAATGAAGTTGACGGGTATGACTAATACATGGGCTGAA
18134179 A
911 A
18134180 AA
1 AA
18134182 CCAGATGTTT
Statistics
Matches: 912, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
911 912 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (911 bp):
AAAACCAAAACCACATATAGTGAACCGTACGAGCCACCCAATTAGAGCCATGCCGAACCTCTGTC
CGTTTGATAGTTACCAAAATAAGAACACGGGAGAAACGTCTCTTACCTTTTATTTCTTTTACATT
TACACTCATTTGCAAATGAATTGAGTCTGTTTAATAAATTGGGCCGGATAGATTGTCTGATGGTA
TGTGGGGTAGGTTTCTTGTAAAACATGTTGGGGCAAAAAAAAAGAATGTGTGGTCTGTTCCTTCA
AATTGCATGATTGAATAGTTTAATTTGTTAAATTTTCCATAGTCTTTATTGTTCTTTTTATATCT
GTTGTGATCTCTAACCAAGGTTATTTGTTCTTCATTTTATTTTTTCATCATGCATCGTAGACATA
TCATTAGGAAGGTGTTGGTTAAAGATTGGTTGCCAAAAACGGGTTTCTGATGGAGGAGTCAATTA
CACGAGTAACCGAAAAAAATACTGTAGTCTGAGATTGGTCTTTGAGGACTCAAAAAGCGAAAGGG
GACAGTTTAAAGGAAGGATACACCTCTGATCTTCCCAAGCGTGTGACTTCGAATGCTCGTCAGAA
CAATCTCAAAGACTTGACTGGGATTTGGAAGAAGTGGGACTCAGATACTAGAGGCATCTTCACTG
AAAAGTACAGGGATATAGCTCACTTAATAGCAATCAATGTGAACGAGCAGTTGATTCAAGTCATG
GTTCGATTCTGGGACCCAACCTATCAGTGTTTTACTTTCAATCAGGAAGAAATTATTTCGACCAT
AGAAGAGTATGCCACTTTGCTTCGCATTGACAATGTACAATTCAACAAGATATATGTGAAGGAGC
CTAAACCAATGACCTTCAAGAAAAAGCTAATGAAGTTGACGGGTATGACTAATACATGGGCTGAA
A
Found at i:18134998 original size:732 final size:732
Alignment explanation
Indices: 18133595--18135059 Score: 2930
Period size: 732 Copynumber: 2.0 Consensus size: 732
18133585 TTTATATCTG
18133595 TTGTGATCTCTAACCAAGGTTATTTGTTCTTCATTTTATTTTTTCATCATGCATCGTAGACATAT
1 TTGTGATCTCTAACCAAGGTTATTTGTTCTTCATTTTATTTTTTCATCATGCATCGTAGACATAT
18133660 CATTAGGAAGGTGTTGGTTAAAGATTGGTTGCCAAAAACGGGTTTCTGATGGAGGAGTCAATTAC
66 CATTAGGAAGGTGTTGGTTAAAGATTGGTTGCCAAAAACGGGTTTCTGATGGAGGAGTCAATTAC
18133725 ACGAGTAACCGAAAAAAATACTGTAGTCTGAGATTGGTCTTTGAGGACTCAAAAAGCGAAAGGGG
131 ACGAGTAACCGAAAAAAATACTGTAGTCTGAGATTGGTCTTTGAGGACTCAAAAAGCGAAAGGGG
18133790 ACAGTTTAAAGGAAGGATACACCTCTGATCTTCCCAAGCGTGTGACTTCGAATGCTCGTCAGAAC
196 ACAGTTTAAAGGAAGGATACACCTCTGATCTTCCCAAGCGTGTGACTTCGAATGCTCGTCAGAAC
18133855 AATCTCAAAGACTTGACTGGGATTTGGAAGAAGTGGGACTCAGATACTAGAGGCATCTTCACTGA
261 AATCTCAAAGACTTGACTGGGATTTGGAAGAAGTGGGACTCAGATACTAGAGGCATCTTCACTGA
18133920 AAAGTACAGGGATATAGCTCACTTAATAGCAATCAATGTGAACGAGCAGTTGATTCAAGTCATGG
326 AAAGTACAGGGATATAGCTCACTTAATAGCAATCAATGTGAACGAGCAGTTGATTCAAGTCATGG
18133985 TTCGATTCTGGGACCCAACCTATCAGTGTTTTACTTTCAATCAGGAAGAAATTATTTCGACCATA
391 TTCGATTCTGGGACCCAACCTATCAGTGTTTTACTTTCAATCAGGAAGAAATTATTTCGACCATA
18134050 GAAGAGTATGCCACTTTGCTTCGCATTGACAATGTACAATTCAACAAGATATATGTGAAGGAGCC
456 GAAGAGTATGCCACTTTGCTTCGCATTGACAATGTACAATTCAACAAGATATATGTGAAGGAGCC
18134115 TAAACCAATGACCTTCAAGAAAAAGCTAATGAAGTTGACGGGTATGACTAATACATGGGCTGAAA
521 TAAACCAATGACCTTCAAGAAAAAGCTAATGAAGTTGACGGGTATGACTAATACATGGGCTGAAA
18134180 AACCAGATGTTTTGAAAAGAGTAGATTTGTTTGCCTTGGCCGTTTACGGACTGGTCGTCTTCCCG
586 AACCAGATGTTTTGAAAAGAGTAGATTTGTTTGCCTTGGCCGTTTACGGACTGGTCGTCTTCCCG
18134245 AAGTTTCTTGGGCATATTGAAGTTGCGGTTGTGGATTTCTTCGAAAAGTTGAGGCAAAGAATCAA
651 AAGTTTCTTGGGCATATTGAAGTTGCGGTTGTGGATTTCTTCGAAAAGTTGAGGCAAAGAATCAA
18134310 CTCGGTCCCAACCATCC
716 CTCGGTCCCAACCATCC
18134327 TTGTGATCTCTAACCAAGGTTATTTGTTCTTCATTTTATTTTTTCATCATGCATCGTAGACATAT
1 TTGTGATCTCTAACCAAGGTTATTTGTTCTTCATTTTATTTTTTCATCATGCATCGTAGACATAT
18134392 CATTAGGAAGGTGTTGGTTAAAGATTGGTTGCCAAAAACGGGTTTCTGATGGAGGAGTCAATTAC
66 CATTAGGAAGGTGTTGGTTAAAGATTGGTTGCCAAAAACGGGTTTCTGATGGAGGAGTCAATTAC
18134457 ACGAGTAACCGAAAAAAATACTGTAGTCTGAGATTGGTCTTTGAGGACTCAAAAAGCGAAAGGGG
131 ACGAGTAACCGAAAAAAATACTGTAGTCTGAGATTGGTCTTTGAGGACTCAAAAAGCGAAAGGGG
18134522 ACAGTTTAAAGGAAGGATACACCTCTGATCTTCCCAAGCGTGTGACTTCGAATGCTCGTCAGAAC
196 ACAGTTTAAAGGAAGGATACACCTCTGATCTTCCCAAGCGTGTGACTTCGAATGCTCGTCAGAAC
18134587 AATCTCAAAGACTTGACTGGGATTTGGAAGAAGTGGGACTCAGATACTAGAGGCATCTTCACTGA
261 AATCTCAAAGACTTGACTGGGATTTGGAAGAAGTGGGACTCAGATACTAGAGGCATCTTCACTGA
18134652 AAAGTACAGGGATATAGCTCACTTAATAGCAATCAATGTGAACGAGCAGTTGATTCAAGTCATGG
326 AAAGTACAGGGATATAGCTCACTTAATAGCAATCAATGTGAACGAGCAGTTGATTCAAGTCATGG
18134717 TTCGATTCTGGGACCCAACCTATCAGTGTTTTACTTTCAATCAGGAAGAAATTATTTCGACCATA
391 TTCGATTCTGGGACCCAACCTATCAGTGTTTTACTTTCAATCAGGAAGAAATTATTTCGACCATA
18134782 GAAGAGTATGCCACTTTGCTTCGCATTGACAATGTACAATTCAACAAGATATATGTGAAGGAGCC
456 GAAGAGTATGCCACTTTGCTTCGCATTGACAATGTACAATTCAACAAGATATATGTGAAGGAGCC
18134847 TAAACCAATGACCTTCAAGAAAAAGCTAATGAAGTTGACGGGTATGACTAATACATGGGCTGAAA
521 TAAACCAATGACCTTCAAGAAAAAGCTAATGAAGTTGACGGGTATGACTAATACATGGGCTGAAA
18134912 AACCAGATGTTTTGAAAAGAGTAGATTTGTTTGCCTTGGCCGTTTACGGACTGGTCGTCTTCCCG
586 AACCAGATGTTTTGAAAAGAGTAGATTTGTTTGCCTTGGCCGTTTACGGACTGGTCGTCTTCCCG
18134977 AAGTTTCTTGGGCATATTGAAGTTGCGGTTGTGGATTTCTTCGAAAAGTTGAGGCAAAGAATCAA
651 AAGTTTCTTGGGCATATTGAAGTTGCGGTTGTGGATTTCTTCGAAAAGTTGAGGCAAAGAATCAA
18135042 CTCGGTCCCAACCATCC
716 CTCGGTCCCAACCATCC
18135059 T
1 T
18135060 GGCTGAGACT
Statistics
Matches: 733, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
732 733 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (732 bp):
TTGTGATCTCTAACCAAGGTTATTTGTTCTTCATTTTATTTTTTCATCATGCATCGTAGACATAT
CATTAGGAAGGTGTTGGTTAAAGATTGGTTGCCAAAAACGGGTTTCTGATGGAGGAGTCAATTAC
ACGAGTAACCGAAAAAAATACTGTAGTCTGAGATTGGTCTTTGAGGACTCAAAAAGCGAAAGGGG
ACAGTTTAAAGGAAGGATACACCTCTGATCTTCCCAAGCGTGTGACTTCGAATGCTCGTCAGAAC
AATCTCAAAGACTTGACTGGGATTTGGAAGAAGTGGGACTCAGATACTAGAGGCATCTTCACTGA
AAAGTACAGGGATATAGCTCACTTAATAGCAATCAATGTGAACGAGCAGTTGATTCAAGTCATGG
TTCGATTCTGGGACCCAACCTATCAGTGTTTTACTTTCAATCAGGAAGAAATTATTTCGACCATA
GAAGAGTATGCCACTTTGCTTCGCATTGACAATGTACAATTCAACAAGATATATGTGAAGGAGCC
TAAACCAATGACCTTCAAGAAAAAGCTAATGAAGTTGACGGGTATGACTAATACATGGGCTGAAA
AACCAGATGTTTTGAAAAGAGTAGATTTGTTTGCCTTGGCCGTTTACGGACTGGTCGTCTTCCCG
AAGTTTCTTGGGCATATTGAAGTTGCGGTTGTGGATTTCTTCGAAAAGTTGAGGCAAAGAATCAA
CTCGGTCCCAACCATCC
Found at i:18141413 original size:18 final size:18
Alignment explanation
Indices: 18141390--18141425 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18141380 CTCGGGAAGA
18141390 AAGAGAGCATGTTGGGAG
1 AAGAGAGCATGTTGGGAG
18141408 AAGAGAGCATGTTGGGAG
1 AAGAGAGCATGTTGGGAG
18141426 TCTGAGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.44, T:0.17
Consensus pattern (18 bp):
AAGAGAGCATGTTGGGAG
Found at i:18144014 original size:15 final size:15
Alignment explanation
Indices: 18143994--18144061 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
18143984 TATTATGCCT
18143994 AAAAAAACAAAACAA
1 AAAAAAACAAAACAA
*
18144009 AAAAAAACAAGA-AA
1 AAAAAAACAAAACAA
* **
18144023 CAAAAATGAAAACAA
1 AAAAAAACAAAACAA
* *
18144038 AAAAGAAAGAAAAGAA
1 AAAA-AAACAAAACAA
18144054 AAAGAAAA
1 AAA-AAAA
18144062 ATCAAGATGA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
14 10 0.24
15 16 0.38
16 15 0.36
17 1 0.02
ACGTcount: A:0.82, C:0.07, G:0.09, T:0.01
Consensus pattern (15 bp):
AAAAAAACAAAACAA
Found at i:18144026 original size:22 final size:21
Alignment explanation
Indices: 18143994--18144062 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 21
18143984 TATTATGCCT
18143994 AAAA-AAACAAAACAAAAA-AA
1 AAAAGAAACAAAA-AAAAACAA
18144014 AACAAGAAACAAAAATGAAAACAA
1 AA-AAGAAACAAAAA--AAAACAA
* *
18144038 AAAAGAAAGAAAAGAAAAAGAA
1 AAAAGAAACAAAA-AAAAACAA
18144060 AAA
1 AAA
18144063 TCAAGATGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
20 2 0.05
21 3 0.07
22 17 0.41
23 14 0.34
24 5 0.12
ACGTcount: A:0.83, C:0.07, G:0.09, T:0.01
Consensus pattern (21 bp):
AAAAGAAACAAAAAAAAACAA
Found at i:18144035 original size:12 final size:12
Alignment explanation
Indices: 18143997--18144045 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
18143987 TATGCCTAAA
18143997 AAAACAAAACAA-
1 AAAACAAAA-AAG
*
18144009 AAAA-AAACAAG
1 AAAACAAAAAAG
*
18144020 -AAACAAAAATG
1 AAAACAAAAAAG
18144031 AAAACAAAAAAG
1 AAAACAAAAAAG
18144043 AAA
1 AAA
18144046 GAAAAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
10 5 0.17
11 8 0.27
12 17 0.57
ACGTcount: A:0.82, C:0.10, G:0.06, T:0.02
Consensus pattern (12 bp):
AAAACAAAAAAG
Found at i:18144055 original size:27 final size:29
Alignment explanation
Indices: 18143995--18144061 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 29
18143985 ATTATGCCTA
*
18143995 AAAAAACAAAACAAAAAAAAACAAGAAAC
1 AAAAAAGAAAACAAAAAAAAACAAGAAAC
* *
18144024 AAAAATGAAAAC-AAAAAAGA-AAGAAA-
1 AAAAAAGAAAACAAAAAAAAACAAGAAAC
18144050 AGAAAAAGAAAA
1 A-AAAAAGAAAA
18144062 ATCAAGATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 1 0.03
27 15 0.45
28 7 0.21
29 10 0.30
ACGTcount: A:0.82, C:0.07, G:0.09, T:0.01
Consensus pattern (29 bp):
AAAAAAGAAAACAAAAAAAAACAAGAAAC
Found at i:18145037 original size:75 final size:73
Alignment explanation
Indices: 18144912--18145573 Score: 560
Period size: 75 Copynumber: 8.7 Consensus size: 73
18144902 CAAGAAATAT
** * * *
18144912 TTTTCAATTTCTGTTTTAAAAAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTTGGGCAA
1 TTTTCAATTTCTGTTTT--TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGC-C
* **
18144977 ATGCCAAGGTA
63 ACGCTGAGGTA
* * * *
18144988 TTTCTCAATTTCTGTTTTTCAAAAATTAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGCCAC
1 TTT-TCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGCCAC
18145053 GCTGAGGTA
65 GCTGAGGTA
* * *
18145062 TTTTCAATTTCTGCTTTTCAAAAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTGTTTTTC-AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGCCA
18145127 CGCTGAGGTA
64 CGCTGAGGTA
** * * *
18145137 -TTTCAATTTCAATTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCT
1 TTTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGGC-
*
18145201 CATGCTGAGGTA
62 CACGCTGAGGTA
* * * * *
18145213 TATTTTAATTTCTATTTTCCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGA-CTCTTGGATC
1 T-TTTCAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC-CTTGG-GC
* *
18145277 ACACACTGAGGTTTTTTT
62 -CACGCTGAGG-----TA
* *
18145295 TTCTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCTG
1 TT-TTCAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGC--
* *
18145360 CACACCGAGGTA
62 CACGCTGAGGTA
*** * *
18145372 TCTTT-AATTTCT-TTTTTTTTAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGCTAT
1 T-TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGC--C
*
18145435 ACACTGAGGTA
63 ACGCTGAGGTA
* * * * *
18145446 TTTTTAATTTATGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGTCTTGGGTCATA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGG-C-CA
*
18145511 TGCTGAGGTA
64 CGCTGAGGTA
* * ** * *
18145521 TTTTTCAATTTATATTTTTCAAAGCTCAACTCATAATT-TGAGAAGTGAGTTGA
1 -TTTTCAATTTCTGTTTTTCAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGA
18145574 ACTTTGGATT
Statistics
Matches: 494, Mismatches: 68, Indels: 48
0.81 0.11 0.08
Matches are distributed among these distances:
73 18 0.04
74 118 0.24
75 148 0.30
76 65 0.13
77 65 0.13
78 16 0.03
81 2 0.00
82 61 0.12
83 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGCCACG
CTGAGGTA
Found at i:18152658 original size:27 final size:25
Alignment explanation
Indices: 18152587--18152679 Score: 80
Period size: 25 Copynumber: 3.6 Consensus size: 25
18152577 GCACACCATA
* * *
18152587 GCTCTTATGAGCGTCCCGA-TATATG
1 GCTCTTTTGAGCTTCCCGATTA-AAG
* **
18152612 GCTCTTTGGAGCTTTTCGATTAAAG
1 GCTCTTTTGAGCTTCCCGATTAAAG
* *
18152637 GCTTTTTCATGAGCTTCCCGATTAATG
1 GCTCTTT--TGAGCTTCCCGATTAAAG
18152664 GCTCTTTTGAGCTTCC
1 GCTCTTTTGAGCTTCC
18152680 TAATATTTGG
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
25 31 0.58
26 2 0.04
27 20 0.38
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (25 bp):
GCTCTTTTGAGCTTCCCGATTAAAG
Found at i:18160486 original size:3 final size:3
Alignment explanation
Indices: 18160472--18160537 Score: 87
Period size: 3 Copynumber: 22.0 Consensus size: 3
18160462 TACAAAGCGG
* * * *
18160472 TAA TAG TAA TAA TAA TAA CAA TAG TAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
18160520 TAA TAC TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
18160538 AATTTAAATA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:18160501 original size:15 final size:15
Alignment explanation
Indices: 18160481--18160564 Score: 100
Period size: 15 Copynumber: 5.7 Consensus size: 15
18160471 GTAATAGTAA
*
18160481 TAATAATAACAATAG
1 TAATAATAATAATAG
18160496 TAATAATAATAATAG
1 TAATAATAATAATAG
*
18160511 TAATAATAATAATAC
1 TAATAATAATAATAG
* *
18160526 TAATAATAATAAAAT
1 TAATAATAATAATAG
* *
18160541 TTA-AAT-ATAATGG
1 TAATAATAATAATAG
18160554 TAATAATAATA
1 TAATAATAATA
18160565 GTAACAAAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
13 6 0.10
14 6 0.10
15 46 0.79
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (15 bp):
TAATAATAATAATAG
Found at i:18162547 original size:131 final size:131
Alignment explanation
Indices: 18162377--18162829 Score: 719
Period size: 131 Copynumber: 3.5 Consensus size: 131
18162367 AACTTCAGGG
** * * * * *
18162377 AGATAAGATTTTCCCTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAATATCTGCAATTTCCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAATTTCCA
*
18162442 ACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTAGGG
66 ACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGG
18162507 A
131 A
*
18162508 AGATAAGATTCGTCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAATTTCCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAATTTCCA
* *
18162573 ACCTATTCCACTACTGGTCAGGAACATAGGACTTGTGGCTTAAATCTGTTTCCCT-CTTCCTGGG
66 ACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTAC-TCCTGGG
18162637 GA
130 GA
*
18162639 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTCAGGGAGATAAGATCTGCAATTTCCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAATTTCCA
*
18162704 ACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCTTGGGG
66 ACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGG
18162769 A
131 A
* * * * * *
18162770 AGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCCTAAGGAGATAAGATCTACAAT
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAAT
18162830 ATTCACTGAT
Statistics
Matches: 297, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
130 1 0.00
131 295 0.99
132 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (131 bp):
AGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAATTTCCA
ACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGG
A
Found at i:18164074 original size:6 final size:7
Alignment explanation
Indices: 18164058--18164091 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
18164048 CCGTCATTAC
18164058 TTTTCAT
1 TTTTCAT
18164065 TTTTCA-
1 TTTTCAT
18164071 TTTTCAT
1 TTTTCAT
18164078 TTTTCAT
1 TTTTCAT
18164085 TTTTCAT
1 TTTTCAT
18164092 CCCTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:18164076 original size:13 final size:13
Alignment explanation
Indices: 18164058--18164087 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
18164048 CCGTCATTAC
18164058 TTTTCATTTTTCA
1 TTTTCATTTTTCA
18164071 TTTTCATTTTTCA
1 TTTTCATTTTTCA
18164084 TTTT
1 TTTT
18164088 TCATCCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:18170341 original size:3 final size:3
Alignment explanation
Indices: 18170327--18170407 Score: 94
Period size: 3 Copynumber: 27.7 Consensus size: 3
18170317 TACAAAACGG
* *
18170327 TAA TAG TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
18170375 TAA TGA -AA T-T TAA TTA TAA TGA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
18170408 GTAACAAAAC
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.03
3 62 0.97
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:18172312 original size:13 final size:13
Alignment explanation
Indices: 18172292--18172323 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
18172282 GATAATATTA
18172292 ATTTTTTTATTTTT
1 ATTTTTTTA-TTTT
18172306 ATTTTTTTATTTT
1 ATTTTTTTATTTT
18172319 ATTTT
1 ATTTT
18172324 GAATAATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
ATTTTTTTATTTT
Found at i:18172591 original size:18 final size:18
Alignment explanation
Indices: 18172568--18172612 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
18172558 ATAAAGTCAT
18172568 TAAAAATTATAAAAT-TA
1 TAAAAATTATAAAATATA
* *
18172585 TAGAAAATCATAAGATATA
1 TA-AAAATTATAAAATATA
18172604 TAAAAATTA
1 TAAAAATTA
18172613 GGCTTAAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 2 0.09
18 17 0.74
19 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
TAAAAATTATAAAATATA
Found at i:18172905 original size:20 final size:20
Alignment explanation
Indices: 18172876--18172919 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
18172866 AATTTTTTAA
* *
18172876 AAAATGTTTTTCAA-AAAAT
1 AAAATCTTTTTTAACAAAAT
*
18172895 AAAATCTTTTTTAACTAAAT
1 AAAATCTTTTTTAACAAAAT
18172915 AAAAT
1 AAAAT
18172920 GTGCATGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAATCTTTTTTAACAAAAT
Found at i:18173013 original size:27 final size:27
Alignment explanation
Indices: 18172983--18173038 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
18172973 CTAAAAAAAT
18172983 ATTAAAATTTATTTAAAAAATTCTACA
1 ATTAAAATTTATTTAAAAAATTCTACA
18173010 ATTAAAATTTATTTAAAAAATTCTACA
1 ATTAAAATTTATTTAAAAAATTCTACA
18173037 AT
1 AT
18173039 ATATATAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (27 bp):
ATTAAAATTTATTTAAAAAATTCTACA
Found at i:18173080 original size:16 final size:17
Alignment explanation
Indices: 18173049--18173083 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
18173039 ATATATAGAT
18173049 TTCAAATGTAAAAAAAC
1 TTCAAATGTAAAAAAAC
18173066 TTCAAATGTAAAAAAAC
1 TTCAAATGTAAAAAAAC
18173083 T
1 T
18173084 CTAATCTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (17 bp):
TTCAAATGTAAAAAAAC
Found at i:18175562 original size:39 final size:37
Alignment explanation
Indices: 18175495--18175587 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
18175485 ACCAGAATGG
* *
18175495 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
18175534 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
18175571 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
18175588 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:18176750 original size:14 final size:14
Alignment explanation
Indices: 18176713--18176765 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
18176703 CTTCTATTCT
* *
18176713 TTTATTTTAACTTAC
1 TTTATTTT-ATTTCC
*
18176728 TTTACTTTATTTCC
1 TTTATTTTATTTCC
*
18176742 TTTATTTTATTTCT
1 TTTATTTTATTTCC
18176756 TTTATGTTTA
1 TTTAT-TTTA
18176766 ATTAATTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.19, C:0.11, G:0.02, T:0.68
Consensus pattern (14 bp):
TTTATTTTATTTCC
Found at i:18177078 original size:14 final size:13
Alignment explanation
Indices: 18177043--18177079 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
18177033 TCTTTTAATT
18177043 TAATAATAACTAA
1 TAATAATAACTAA
18177056 TAACTAATAACTAA
1 TAA-TAATAACTAA
18177070 TAATGAATAA
1 TAAT-AATAA
18177080 TAAATATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (13 bp):
TAATAATAACTAA
Found at i:18177085 original size:7 final size:7
Alignment explanation
Indices: 18177046--18177072 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
18177036 TTTAATTTAA
18177046 TAATAAC
1 TAATAAC
18177053 TAATAAC
1 TAATAAC
18177060 TAATAAC
1 TAATAAC
18177067 TAATAA
1 TAATAA
18177073 TGAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (7 bp):
TAATAAC
Found at i:18178442 original size:18 final size:17
Alignment explanation
Indices: 18178419--18178453 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18178409 AAACAAATAT
*
18178419 TTTAAAATATATAATAAA
1 TTTAAAAAATAT-ATAAA
18178437 TTTAAAAAATATATAAA
1 TTTAAAAAATATATAAA
18178454 AAAATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TTTAAAAAATATATAAA
Found at i:18178455 original size:44 final size:45
Alignment explanation
Indices: 18178396--18178489 Score: 122
Period size: 47 Copynumber: 2.1 Consensus size: 45
18178386 CCTAATTCTA
18178396 AAAAAATATAAAAAAACAAATATTTT-AAAA-TAT-ATAATAAATTT
1 AAAAAATAT-AAAAAA-AAATATTTTAAAAATTATAATAATAAATTT
*
18178440 AAAAAATATATAAAAAAATATTTTGAAAAAATTATAATAATAAATTT
1 AAAAAATATAAAAAAAAATATTTT--AAAAATTATAATAATAAATTT
18178487 AAA
1 AAA
18178490 TTTTATATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
42 9 0.20
43 5 0.11
44 9 0.20
45 4 0.09
46 3 0.07
47 14 0.32
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (45 bp):
AAAAAATATAAAAAAAAATATTTTAAAAATTATAATAATAAATTT
Found at i:18178486 original size:24 final size:23
Alignment explanation
Indices: 18178422--18178486 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
18178412 CAAATATTTT
18178422 AAAA-TAT-ATAATAAA-TTTAA
1 AAAATTATAATAATAAATTTTAA
*
18178442 AAAATATATAA-AAAAATATTTTGAA
1 AAAAT-TATAATAATAA-ATTTT-AA
18178467 AAAATTATAATAATAAATTT
1 AAAATTATAATAATAAATTT
18178487 AAATTTTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
20 4 0.11
22 7 0.19
23 2 0.06
24 12 0.33
25 11 0.31
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
AAAATTATAATAATAAATTTTAA
Found at i:18178503 original size:6 final size:6
Alignment explanation
Indices: 18178494--18178521 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
18178484 TTTAAATTTT
18178494 ATATTA ATATTA ATATTA ATATTA ATAT
1 ATATTA ATATTA ATATTA ATATTA ATAT
18178522 AAAATAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATTA
Found at i:18183309 original size:156 final size:156
Alignment explanation
Indices: 18183091--18183858 Score: 1204
Period size: 156 Copynumber: 4.9 Consensus size: 156
18183081 TACATTGTTT
18183091 AGTGAAGAACAACACGAGGCAATAATGTTACACTGA-ATGCAACTATGTATTGCAAAGTGTTTCA
1 AGTGAAGAACAACACGAGGCAATAATGTTACACT-ACATGCAACTATGTATTGCAAAGTGTTTCA
18183155 CTTTTGCCAAGTGATAAGAGAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCA
65 CTTTTGCCAAGTGATAAGAGAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCA
18183220 ATTTTATAGAAAATATCGTCGTCTTTC
130 ATTTTATAGAAAATATCGTCGTCTTTC
*
18183247 AGTGAAGAACAACACGAGGCAATAATGTTACACTACATGCAACTATGTATTACAAAGTGTTTCAC
1 AGTGAAGAACAACACGAGGCAATAATGTTACACTACATGCAACTATGTATTGCAAAGTGTTTCAC
* * * * **
18183312 TTTTTCCAAGTGATTAGAGATATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGAATCGCTGA
66 TTTTGCCAAGTGATAAGAGAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAA
18183377 TTTTATAGAAAATA---TCGTCTTTC
131 TTTTATAGAAAATATCGTCGTCTTTC
*
18183400 AGTGAAGAACAACACGAGGCAATAATGTTACACAACATGCAACTATGTATTGCAAAGTGTTTCAC
1 AGTGAAGAACAACACGAGGCAATAATGTTACACTACATGCAACTATGTATTGCAAAGTGTTTCAC
* * **
18183465 TTTTTCCAAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCATCAA
66 TTTTGCCAAGTGATAAGAGAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAA
*
18183530 TTTTATAGAAAATATTGTCGTCTTTC
131 TTTTATAGAAAATATCGTCGTCTTTC
* * * *
18183556 AATGAAGAACAACGCGAGGCAATAATGTTACATTACATGCAACTATTTATTGCAAAGTGTTTCAC
1 AGTGAAGAACAACACGAGGCAATAATGTTACACTACATGCAACTATGTATTGCAAAGTGTTTCAC
* * *
18183621 TTTTGCCAAGTGATAAAAAAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAA
66 TTTTGCCAAGTGATAAGAGAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAA
*
18183686 TTTTATAGAAAATATCGTTGTCTTTC
131 TTTTATAGAAAATATCGTCGTCTTTC
* * * * *
18183712 AATGAAGAACAACGCGAGGTAATAATGTTACACTACATACAACTATGTATTGCAAGGTGTTTCAC
1 AGTGAAGAACAACACGAGGCAATAATGTTACACTACATGCAACTATGTATTGCAAAGTGTTTCAC
* *
18183777 TTTTGCCAAGTGATAAAAG-AATTTCCAAAAGAAAAATCTAATGTCTTTTAAAAGTAGATTCGCT
66 TTTTGCCAAGTGATAAGAGAAATTT-CAAAAGAAAAATCTAATGTC-TTTAAAAGTAGATTCGCC
* *
18183841 GATTTTACAGAAAATATC
129 AATTTTATAGAAAATATC
18183859 ATCTTTCTGC
Statistics
Matches: 565, Mismatches: 41, Indels: 11
0.92 0.07 0.02
Matches are distributed among these distances:
153 143 0.25
155 6 0.01
156 384 0.68
157 32 0.06
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (156 bp):
AGTGAAGAACAACACGAGGCAATAATGTTACACTACATGCAACTATGTATTGCAAAGTGTTTCAC
TTTTGCCAAGTGATAAGAGAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAA
TTTTATAGAAAATATCGTCGTCTTTC
Found at i:18184120 original size:157 final size:157
Alignment explanation
Indices: 18183871--18184306 Score: 669
Period size: 157 Copynumber: 2.8 Consensus size: 157
18183861 CTTTCTGCAC
* * * *
18183871 ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAAT-AAGAGAAAT
1 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAGAGAAAT
* *
18183935 TCCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCT
66 TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATCGCGGTCT
* * *
18184000 TTCAATGCAGAGCAACACAAGTCAATA
131 TTCAATGAAGAACAACACAAGACAATA
*
18184027 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAAGTGATAAAGAGAAAT
1 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAGAGAAAT
* * **
18184092 TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAAAAAATATCGTTGTCT
66 TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATCGCGGTCT
* *
18184157 TTCAGTGAAGAACAACACGAGACAATA
131 TTCAATGAAGAACAACACAAGACAATA
* *
18184184 ATGTTACACTGCATGCAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAA-AGAATT
1 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAGAGAAAT
* *
18184248 TCCAAAAGAAAAATCTAATGTCTTTTAAAAGTAGATTCGCTGATTTTACAGAAAATATC
66 TCCAAAAGAAAAATCTAATGTC-TTTAAAAGTAGATTCGCCGATTTTACAAAAAATATC
18184307 ATCTTTCTGC
Statistics
Matches: 256, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
156 77 0.30
157 179 0.70
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (157 bp):
ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAGAGAAAT
TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATCGCGGTCT
TTCAATGAAGAACAACACAAGACAATA
Found at i:18184120 original size:291 final size:297
Alignment explanation
Indices: 18183579--18185178 Score: 1082
Period size: 291 Copynumber: 5.3 Consensus size: 297
18183569 GCGAGGCAAT
* * * *
18183579 AATGTTACATTACATGCAACTATTTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAAAAAAT
1 AATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAAT
* * * * **
18183644 TTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAATTTTATAGAAAATATCGTTGTCT
66 TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCT
* * * * * *
18183709 TTCAATGAAGAACAACGCGAGGT-AATAATGTTACACTACATACAACTATGTATTGCAAGGTGTT
131 TTCAATGAAGAGCAACAC-AAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTT
*
18183773 TCACTTTTGCCAAGTGATAAA-AGAATTTCCAAAAGAAAAATCTAATGTCTTTTAAAAGTAGATT
195 TCACTTTTGCCAAGTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTC-TTTAAAAGTAGATT
* *
18183837 CGCTGATTTTACAGAAAATATC-ATCTTTC-T-G-C-AC
259 CGCGGATTTTACAAAAAATATCGATCTTTCATAGACAAC
* * *
18183871 -ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAAT
1 AATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAAT
*
18183935 TCCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCT
66 TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCT
*
18184000 TTCAATGCAGAGCAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTT
131 TTCAATGAAGAGCAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTT
*
18184065 CGCTTTTGCCAAGTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCG
196 CACTTTTGCCAAGTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCG
* *
18184130 CGGGTTTTACAAAAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGAC
261 CGGATTTTACAAAAAATATCG--ATCTTTCA-T--AG------AC-A-AC
* * *
18184180 AATAATGTTACACTGCATGCAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGA
1 ---AATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGA
* * * *
18184245 ATTTCCAAAAGAAAAATCTAATGTCTTTTAAAAGTAGATTCGCTGATTTTACAGAAAATAT--C-
63 AATTCCAAAAGAAAAATCTAATGTC-TTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCG
* * * ** * * * * * *
18184307 ATCTTTC--TGCACATGTTACATTGCATG-CAACTATGTGTTGCAAAGTG-TTTC-AC--T-T-T
127 GTCTTTCAATGAAGA-GCAACA---CAAGTCAA-TA-ATGTT--ACACTGCATGCAACTATGTAT
* *** *** ** * *** ** * * * **
18184363 TGCCAAA-TAATAAGAGAAATT-CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGAT
184 TG-CAAAGT-GTTTCA-CTTTTGCCAAGTGATAAAGAGAA-AT-TCCAAAAGAAAAAT--CTAAT
* * * * * * * *
18184426 -T-TTATAAAA-AATA-TCGCGGTCTTTCAATGCAGAGCAACACA-AGTCAATAATGT--TACAC
242 GTCTT-TAAAAGTAGATTCGCGG-ATTT---TACA-A--AA-A-ATA-TCGAT-CTTTCATAGAC
**
18184484 TGC
295 AAC
** * *** *
18184487 -ATGCAAC-TATGTATTGCAA--AGTGT-TT-C---GCT-TTTGC-CAAGTG---A-T-AAAGAG
1 AATGTTACAT-TGCA-TGCAACTA-TGTATTGCAAAG-TGTTT-CACTTTTGCCAAGTGATA-AG
* * * * * * * * * * * *
18184536 A-AATTCCAAAAGA-AAAATCT-AATGTCT-TTAAAAG-TAGATTCGCGGGTTTTACAAAAAATA
60 AGAAATTCCAAA-AGAAAA-ATCTA-ATGTCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATA
** * * * *
18184596 TCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATGTATTGC
122 TCGCGGTCTTTCAATGAAGAGCAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGC
* *
18184661 AAGGTGTTTCACTTTTGCCAAGTGATAAA-AGAATTTCCAAAAGAAAAATCTAATGTCTTTAAAA
187 AAAGTGTTTCACTTTTGCCAAGTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTT-AAA
* *
18184725 AGTAGATTCGCTGATTTTACAGAAAATATC-ATCTTTC-T-G-C-AC
251 AGTAGATTCGCGGATTTTACAAAAAATATCGATCTTTCATAGACAAC
* * *
18184767 -ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAAT
1 AATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAAT
* *
18184831 TTCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCT
66 TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCT
*
18184896 TTCAATGCAGAGCAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTT
131 TTCAATGAAGAGCAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTT
*
18184961 CGCTTTTGCCAAGTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCG
196 CACTTTTGCCAAGTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCG
* *
18185026 CGGGTTTTACAAAAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGAC
261 CGGATTTTACAAAAAATATCG--ATCTTTCA-T--AG------AC-A-AC
* * *
18185076 AATAATGTTACACTGCATGCAACTATGTATTGCAAGGTGTTTCACTTTTTCCAAGTGATAAGAGA
1 ---AATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGA
* * *
18185141 AATTTCAAAAAAAAAATCTAATGTCTTTAAAAATAGAT
63 AATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGAT
18185179 GTAATGGCCC
Statistics
Matches: 995, Mismatches: 188, Indels: 229
0.70 0.13 0.16
Matches are distributed among these distances:
279 5 0.01
280 12 0.01
281 5 0.01
282 3 0.00
283 3 0.00
284 5 0.01
285 9 0.01
286 2 0.00
288 1 0.00
289 18 0.02
290 25 0.03
291 404 0.41
292 72 0.07
293 28 0.03
294 40 0.04
295 8 0.01
296 6 0.01
298 7 0.01
299 4 0.00
301 1 0.00
302 3 0.00
303 11 0.01
304 5 0.01
306 2 0.00
307 1 0.00
309 11 0.01
310 8 0.01
311 23 0.02
312 15 0.02
313 189 0.19
314 44 0.04
315 6 0.01
316 7 0.01
317 2 0.00
319 3 0.00
320 4 0.00
321 3 0.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (297 bp):
AATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAAT
TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCT
TTCAATGAAGAGCAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTT
CACTTTTGCCAAGTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCG
CGGATTTTACAAAAAATATCGATCTTTCATAGACAAC
Found at i:18184292 original size:448 final size:448
Alignment explanation
Indices: 18183435--18185178 Score: 3091
Period size: 448 Copynumber: 3.9 Consensus size: 448
18183425 TGTTACACAA
* * * *
18183435 CATGCAACTATGTATTGCAAAGTGTTTCACTTTTTCCAAGTGATAAGAGAAATTCCAAAAGAAAA
1 CATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATTCCAAAAGAAAA
* ** * * * *
18183500 ATCTAATGTCTTTAAAAGTAGATTCATCAATTTTATAGAAAATATTGTC-GTCTTTCAATGAAGA
66 ATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCG-CGGTCTTTCAATGCAGA
* * * * * * * *
18183564 ACAACGCGAGGCAATAATGTTACATTACATGCAACTATTTATTGCAAAGTGTTTCACTTTTGCCA
130 GCAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCA
* * * *** *
18183629 AGTGATAAA-AAAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAATTTTATA
195 AGTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACA
* * * ** * *
18183693 GAAAATATCGTTGTCTTTCAATGAAGAACAACGCGAGGTAATAATGTTACACTACATACAACTAT
260 AAAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTAT
18183758 GTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAATCTAATGTCT
325 GTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAATCTAATGTCT
18183823 TTTAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCACATGTTACATTG
390 TTTAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCACATGTTACATTG
18183882 CATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATTCCAAAAGAAAA
1 CATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATTCCAAAAGAAAA
18183947 ATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCTTTCAATGCAGAG
66 ATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCTTTCAATGCAGAG
18184012 CAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAA
131 CAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAA
18184077 GTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAA
196 GTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAA
18184142 AAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATG
261 AAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATG
18184207 TATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAATCTAATGTCTT
326 TATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAATCTAATGTCTT
18184272 TTAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCACATGTTACATTG
391 TTAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCACATGTTACATTG
18184330 CATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATTCCAAAAGAAAA
1 CATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATTCCAAAAGAAAA
18184395 ATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCTTTCAATGCAGAG
66 ATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCTTTCAATGCAGAG
18184460 CAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAA
131 CAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAA
18184525 GTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAA
196 GTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAA
18184590 AAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATG
261 AAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATG
18184655 TATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAATCTAATGTCTT
326 TATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAATCTAATGTCTT
*
18184720 TAAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCACATGTTACATTG
391 TTAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCACATGTTACATTG
*
18184778 CATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATTTCAAAAGAAAA
1 CATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATTCCAAAAGAAAA
18184843 ATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCTTTCAATGCAGAG
66 ATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCTTTCAATGCAGAG
18184908 CAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAA
131 CAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAA
18184973 GTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAA
196 GTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAA
18185038 AAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATG
261 AAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATG
* * *
18185103 TATTGCAAGGTGTTTCACTTTTTCCAAGTGATAAGAGAAATTT-CAAAAAAAAAATCTAATGTC-
326 TATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAG-AATTTCCAAAAGAAAAATCTAATGTCT
*
18185166 TTTAAAAATAGAT
390 TTTAAAAGTAGAT
18185179 GTAATGGCCC
Statistics
Matches: 1254, Mismatches: 40, Indels: 6
0.96 0.03 0.00
Matches are distributed among these distances:
446 1 0.00
447 193 0.15
448 1055 0.84
449 5 0.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (448 bp):
CATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATTCCAAAAGAAAA
ATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCTTTCAATGCAGAG
CAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAA
GTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAA
AAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATG
TATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAATCTAATGTCTT
TTAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCACATGTTACATTG
Found at i:18184568 original size:157 final size:157
Alignment explanation
Indices: 18184319--18184754 Score: 669
Period size: 157 Copynumber: 2.8 Consensus size: 157
18184309 CTTTCTGCAC
* * * *
18184319 ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAAT-AAGAGAAAT
1 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAGAGAAAT
* *
18184383 TCCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCT
66 TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATCGCGGTCT
* * *
18184448 TTCAATGCAGAGCAACACAAGTCAATA
131 TTCAATGAAGAACAACACAAGACAATA
*
18184475 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAAGTGATAAAGAGAAAT
1 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAGAGAAAT
* * **
18184540 TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAAAAAATATCGTTGTCT
66 TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATCGCGGTCT
* *
18184605 TTCAGTGAAGAACAACACGAGACAATA
131 TTCAATGAAGAACAACACAAGACAATA
* *
18184632 ATGTTACACTGCATGCAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAA-AGAATT
1 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAGAGAAAT
* *
18184696 TCCAAAAGAAAAATCTAATGTCTTTAAAAAGTAGATTCGCTGATTTTACAGAAAATATC
66 TCCAAAAGAAAAATCTAATGTCTTT-AAAAGTAGATTCGCCGATTTTACAAAAAATATC
18184755 ATCTTTCTGC
Statistics
Matches: 256, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
156 80 0.31
157 176 0.69
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (157 bp):
ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAGAGAAAT
TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATCGCGGTCT
TTCAATGAAGAACAACACAAGACAATA
Found at i:18184918 original size:896 final size:899
Alignment explanation
Indices: 18183100--18185178 Score: 3382
Period size: 896 Copynumber: 2.3 Consensus size: 899
18183090 TAGTGAAGAA
* * * *
18183100 CAACACGAGGCAATAATGTTACACTGAATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAA
1 CAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAA
* *** * *
18183165 GTGAT-AAGAGAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAATTTTATAG
66 GTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAA
* * *
18183229 AAAATATCGTCGTCTTTCAGTGAAGAACAACACGAGGCAATAATGTTACACTACATGCAACTATG
131 AAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATG
* * *
18183294 TATTACAAAGTGTTTCACTTTTTCCAAGTGATTAGAGATATTTCAAAAGAAAAATCTAATGTCTT
196 TATTGCAAGGTGTTTCACTTTTTCCAAGTGATAAGAGA-ATTTCAAAAGAAAAATCTAATGTCTT
* * *
18183359 TAAAAGTAGAATCGCTGATTTTATAGAAAATATCGTCTTTCAGTGAAGAACAACACGAGGCAATA
260 TAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCA-T--AG------ACGA-GC---A
* * *
18183424 ATGTTACACAACATGCAACTATGTATTGCAAAGTGTTTCACTTTTTCCAAGTGATAAGAGAAATT
312 ATGTTACACAACATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATT
* * * *
18183489 CCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCATCAATTTTATAGAAAATATTGTCGTCTT
377 CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCACCAATTTTATAAAAAATATCGTCGTCTT
* * * *
18183554 TCAATGAAGAACAACGCGAGGCAATAATGTTACATTACATGCAACTATTTATTGCAAAGTGTTTC
442 TCAATGAAGAACAACACAAGGCAATAATGTTACACTACATGCAACTATGTATTGCAAAGTGTTTC
* *
18183619 ACTTTTGCCAAGTGATAAAAAAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCC
507 ACTTTTGCCAAGTGATAAAAAAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCC
* * * **
18183684 AATTTTATAGAAAATATCGTTGTCTTTCAATGAAGAACAACGCGAGGTAATAATGTTACACTACA
572 AATTTTACAAAAAATATCGTTGTCTTTCAATGAAGAACAACACGAGACAATAATGTTACACTACA
18183749 TACAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAAT
637 TACAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAAT
*
18183814 CTAATGTCTTTTAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCACATGTTACA
702 CTAATGTCTTTAAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCACATGTTACA
18183879 TTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATTCCAAAAGA
767 TTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATTCCAAAAGA
18183944 AAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCTTTCAATGCA
832 AAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCTTTCAATGCA
18184009 GAG
897 GAG
18184012 CAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAA
1 CAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAA
18184077 GTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAA
66 GTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAA
18184142 AAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATG
131 AAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATG
* *
18184207 TATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAATCTAATGTCTT
196 TATTGCAAGGTGTTTCACTTTTTCCAAGTGATAAGAGAATTT-CAAAAGAAAAATCTAATGTC-T
***
18184272 TTAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTC-T-G-C-A-C-ATGTTACATTGC
259 TTAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCATAGACGAGCAATGTTACACAAC
*
18184331 ATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATTCCAAAAGAAAAA
324 ATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATTCCAAAAGAAAAA
* * * *
18184396 TCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCG-CGGTCTTTCAATGCAGAG
389 TCTAATATCTTTAAAAGTAGATTCACCAATTTTATAAAAAATATCGTC-GTCTTTCAATGAAGAA
* * *
18184460 CAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAA
453 CAACACAAGGCAATAATGTTACACTACATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAA
* ***
18184525 GTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAA
518 GTGATAAA-AAAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAATTTTACAA
* * *
18184590 AAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATG
582 AAAATATCGTTGTCTTTCAATGAAGAACAACACGAGACAATAATGTTACACTACATACAACTATG
18184655 TATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAATCTAATGTCTT
647 TATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAATCTAATGTCTT
18184720 TAAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCACATGTTACATTGCATGCAA
712 TAAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCACATGTTACATTGCATGCAA
*
18184785 CTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATTTCAAAAGAAAAATCTAAT
777 CTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATTCCAAAAGAAAAATCTAAT
18184850 ATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCTTTCAATGCAGAG
842 ATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCTTTCAATGCAGAG
18184908 CAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAA
1 CAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAA
18184973 GTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAA
66 GTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAA
18185038 AAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATG
131 AAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATG
*
18185103 TATTGCAAGGTGTTTCACTTTTTCCAAGTGATAAGAGAAATTTCAAAAAAAAAATCTAATGTCTT
196 TATTGCAAGGTGTTTCACTTTTTCCAAGTGATAAGAG-AATTTCAAAAGAAAAATCTAATGTCTT
*
18185168 TAAAAATAGAT
260 TAAAAGTAGAT
18185179 GTAATGGCCC
Statistics
Matches: 1098, Mismatches: 63, Indels: 29
0.92 0.05 0.02
Matches are distributed among these distances:
894 1 0.00
895 202 0.18
896 607 0.55
897 5 0.00
899 1 0.00
901 1 0.00
902 1 0.00
909 1 0.00
912 71 0.06
913 168 0.15
914 40 0.04
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (899 bp):
CAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAA
GTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAA
AAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATG
TATTGCAAGGTGTTTCACTTTTTCCAAGTGATAAGAGAATTTCAAAAGAAAAATCTAATGTCTTT
AAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCATAGACGAGCAATGTTACACAACAT
GCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATTCCAAAAGAAAAATC
TAATATCTTTAAAAGTAGATTCACCAATTTTATAAAAAATATCGTCGTCTTTCAATGAAGAACAA
CACAAGGCAATAATGTTACACTACATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTG
ATAAAAAAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAATTTTACAAAAAA
TATCGTTGTCTTTCAATGAAGAACAACACGAGACAATAATGTTACACTACATACAACTATGTATT
GCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAATCTAATGTCTTTAAA
AAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCACATGTTACATTGCATGCAACTAT
GTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATTCCAAAAGAAAAATCTAATATCT
TTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCTTTCAATGCAGAG
Found at i:18185053 original size:157 final size:156
Alignment explanation
Indices: 18184767--18185178 Score: 626
Period size: 157 Copynumber: 2.6 Consensus size: 156
18184757 CTTTCTGCAC
* * * *
18184767 ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATT
1 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATT
* *
18184832 TCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCTT
66 TCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATCGCGGTCTT
* * *
18184897 TCAATGCAGAGCAACACAAGTCAATA
131 TCAATGAAGAACAACACAAGACAATA
*
18184923 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAAGTGATAAAGAGAAAT
1 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGAT-AAGAGAAAT
* * * **
18184988 TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAAAAAATATCGTTGTCT
65 TTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATCGCGGTCT
* *
18185053 TTCAGTGAAGAACAACACGAGACAATA
130 TTCAATGAAGAACAACACAAGACAATA
* *
18185080 ATGTTACACTGCATGCAACTATGTATTGCAAGGTGTTTCACTTTTTCCAAGTGATAAGAGAAATT
1 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATT
* *
18185145 TCAAAAAAAAAATCTAATGTCTTTAAAAATAGAT
66 TCAAAAGAAAAATCTAATGTCTTTAAAAGTAGAT
18185179 GTAATGGCCC
Statistics
Matches: 232, Mismatches: 23, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
156 91 0.39
157 141 0.61
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (156 bp):
ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATT
TCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATCGCGGTCTT
TCAATGAAGAACAACACAAGACAATA
Found at i:18187906 original size:156 final size:156
Alignment explanation
Indices: 18187605--18188389 Score: 1101
Period size: 156 Copynumber: 5.0 Consensus size: 156
18187595 GTGTCAACAA
* * * *
18187605 TAGATTCGCCAAATTTATAGAAAATATCG-CTGTCTTTCAGTGCAGAACAACACGAGGCAATAAT
1 TAGATTCGCCAATTTTATAGAAAATATCGTC-GTTTTTCAGTGAAGAACAACACGAGACAATAAT
* *
18187669 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTTCCAAGTGATAAGAGATATTCC
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
* * * *
18187734 AAAAGAAAATTTTAATGTCATTAAAAT
130 AAAAGAAAAATCTAATGTCTTTAAAAG
* * *** * * * *
18187761 TAAAATCGTTGATTTTATAGAGAATATCGCCGTCTTTCAGTGAAGAACAACACGAGTCAATAATG
1 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGACAATAATG
* *
18187826 TTACACCGCATGCAACTATGTATTGCAAAGAGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
66 TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
*
18187891 AACGAAAAATCTAATGTCTTTAAAAG
131 AAAGAAAAATCTAATGTCTTTAAAAG
* *
18187917 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGT-ACATAACAACACGAGGCAATAAT
1 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGA-AGAACAACACGAGACAATAAT
** * * *
18187981 GTTACACAACATGCAACTATGTATTGTAAAGTGTTTCACTTTTTCCAAGTGATAAGAGAAATTCT
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
*
18188046 AAAAGAAAAATATAATGTCTTTAAAAG
130 AAAAGAAAAATCTAATGTCTTTAAAAG
* *
18188073 TAGATTCGCCAATTTTATAGAAAATATCG-CAGTTTTTCAGCGAAGAACAACAC-AAAGCAATAA
1 TAGATTCGCCAATTTTATAGAAAATATCGTC-GTTTTTCAGTGAAGAACAACACGAGA-CAATAA
* * *
18188136 TGTTACACTGCATGCAACTATGTATTGCAAATTGTTTCACTTTTGTCAAGTGATAAGAGGAATTC
64 TGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTC
18188201 CAAAAGAAAAATCTAATGTCTTTAAAAG
129 CAAAAGAAAAATCTAATGTCTTTAAAAG
* * * * *
18188229 TAGATTCCCCAGTTTTATAGAAAATATCATTGTTTTTCAGTGAAGAAGAACACGAGACAATAATG
1 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGACAATAATG
* * *
18188294 TTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTGGCCAACTGATAAGAGAAATTCCA
66 TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
* *
18188359 AAAGAAAAACCTAATATCTTTAAAAG
131 AAAGAAAAATCTAATGTCTTTAAAAG
18188385 TAGAT
1 TAGAT
18188390 CCAATGTCTT
Statistics
Matches: 558, Mismatches: 64, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
155 3 0.01
156 551 0.99
157 4 0.01
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (156 bp):
TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGACAATAATG
TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
AAAGAAAAATCTAATGTCTTTAAAAG
Found at i:18188175 original size:312 final size:313
Alignment explanation
Indices: 18187605--18189681 Score: 2832
Period size: 312 Copynumber: 6.6 Consensus size: 313
18187595 GTGTCAACAA
* * *
18187605 TAGATTCGCCAAATTTATAGAAAATATCG-CTGTCTTTCAGTGCAGAACAACACGAGGCAATAAT
1 TAGATTCGCCAATTTTATAGAAAATATCGTC-GTTTTTCAGTGAAGAACAACACGAGGCAATAAT
* *
18187669 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTTCCAAGTGATAAGAGATATTCC
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
* * * * * * *** * *
18187734 AAAAGAAAATTTTAATGTCATTAAAATTAAAATCGTTGATTTTATAGAGAATATCG-CCGTCTTT
130 AAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAATTTTATAGAAAATATCGTCAGTCTTT
* *
18187798 CAGTGAAGAACAACACG-AGTCAATAATGTTACACCGCATGCAACTATGTATTGCAAAGAGTTTC
195 CAGTGAAGAACAACACGAAG-CAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTC
*
18187862 ACTTTTGCCAAGTGATAAGAGAAATTCCAAACGAAAAATCTAATGTCTTTAAAAG
259 ACTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
*
18187917 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGT-ACATAACAACACGAGGCAATAAT
1 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGA-AGAACAACACGAGGCAATAAT
** * * *
18187981 GTTACACAACATGCAACTATGTATTGTAAAGTGTTTCACTTTTTCCAAGTGATAAGAGAAATTCT
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
* *
18188046 AAAAGAAAAATATAATGTCTTTAAAAGTAGATTCGCCAATTTTATAGAAAATATCG-CAGTTTTT
130 AAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAATTTTATAGAAAATATCGTCAGTCTTT
* * *
18188110 CAGCGAAGAACAACACAAAGCAATAATGTTACACTGCATGCAACTATGTATTGCAAATTGTTTCA
195 CAGTGAAGAACAACACGAAGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCA
* *
18188175 CTTTTGTCAAGTGATAAGAGGAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
260 CTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
* * * * * *
18188229 TAGATTCCCCAGTTTTATAGAAAATATCATTGTTTTTCAGTGAAGAAGAACACGAGACAATAATG
1 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGGCAATAATG
* * *
18188294 TTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTGGCCAACTGATAAGAGAAATTCCA
66 TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
* *
18188359 AAAGAAAAACCTAATATCTTTAAAAGTAGATCCAATGTCTTTAAAAGTAGATTCACCGATTTTAT
131 AAAG---AA---AA-ATC------------T--AATGTCTTTAAAAGTAGATTCGCCAATTTTAT
* * * *
18188424 AGAAAATATCGTC-GTCTTTCAATGAAGAACAACACGAGGCAATAATGCTACACTGAATGCAACT
175 AGAAAATATCGTCAGTCTTTCAGTGAAGAACAACACGAAGCAATAATGTTACACTGCATGCAACT
* * *
18188488 ATGTATTCCAAAGTGTTTCACTTTTGCCAAGTGGTAAAAGAAATTCCAAAAGAAAAATCTAATGT
240 ATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGT
18188553 CTTTAAAAG
305 CTTTAAAAG
** *
18188562 TAGATTCATCGATTTTATAGAAAATATCGTC-TTCTTTCAGTGAAGAACAACACGAGGCAATAAT
1 TAGATTCGCCAATTTTATAGAAAATATCGTCGTT-TTTCAGTGAAGAACAACACGAGGCAATAAT
* * *
18188626 GTTACATTGAATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAAGTGATAAGAGAAATTCC
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
* * *
18188691 AAAAGAATAATCTAATGTCTTTAAAAGTAGATTCACCAATTTTGTAGAAAATATCGTC-GTCTTT
130 AAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAATTTTATAGAAAATATCGTCAGTCTTT
*
18188755 CAGTGAAGAACAACACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCA
195 CAGTGAAGAACAACACGAAGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCA
* * *
18188820 CTTTTGCCAAGTGATAATAGAAATTTCAAAAGAAAATTCTAATGTCTTTAAAAG
260 CTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
** **
18188874 TAGATTTACCGGTTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGG-ACATAAT
1 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGGCA-ATAAT
* * *
18188938 GTTACACTGCATGCAACTATGCATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGATAAATTTC
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
* * * *
18189003 AAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAATTTTATAGAAAATATCTTGA-TTTTT
130 AAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAATTTTATAGAAAATATCGTCAGTCTTT
* * * *
18189067 TAGTGAACAACAACACG-AGACAATAATGTAACACTGCATGCAACCATGTATTGCAAAGTGTTTC
195 CAGTGAAGAACAACACGAAG-CAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTC
*
18189131 ACTTTTGCCAAGTGATAAGAGAAATTCTAAAAGAAAAATCTAATGTCTTTAAAAG
259 ACTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
* * * *
18189186 TAGATTTGCCAGTTTTATAGAAAATATCGTCATTTTTCAGTGAAGAACAACACGAGACAATAATG
1 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGGCAATAATG
* *
18189251 TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGTCAAGTGATAAGGGAAATTCCA
66 TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
* * *** *
18189316 AAAGAAAGATCTAATATCTTTAAAAGTAGATTCGTTGATTTTATAGAAAATATCGCCA-TCTTTC
131 AAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAATTTTATAGAAAATATCGTCAGTCTTTC
* * *
18189380 AGTGAAGAACAACACGATGCAATAATGTTACACTGCATGTAACTATGTATTGTAAAGTGTTTCAC
196 AGTGAAGAACAACACGAAGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCAC
18189445 TTTTGCCAAAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
261 TTTTGCC-AAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
* * * *
18189499 TAGATTTGTCAATTTTATAGAAAA-ATCGT-GATTTTTCAGTGAAGAACAACACGAGACACTAAT
1 TAGATTCGCCAATTTTATAGAAAATATCGTCG-TTTTTCAGTGAAGAACAACACGAGGCAATAAT
** * * *
18189562 GTTACACTGCATGCAACTATGTATTATAAAGTGATTCACTTTTGCCAAGTGATGAGAGAAATTCT
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
* * * *
18189627 AAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGTCAGTTTTATAGAAAGTATC
130 AAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAATTTTATAGAAAATATC
18189682 ACCGTCTTTA
Statistics
Matches: 1577, Mismatches: 153, Indels: 70
0.88 0.09 0.04
Matches are distributed among these distances:
311 2 0.00
312 1211 0.77
313 75 0.05
314 1 0.00
315 2 0.00
318 2 0.00
319 2 0.00
326 3 0.00
327 1 0.00
330 2 0.00
331 1 0.00
332 2 0.00
333 272 0.17
334 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (313 bp):
TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGGCAATAATG
TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
AAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAATTTTATAGAAAATATCGTCAGTCTTTC
AGTGAAGAACAACACGAAGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCAC
TTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
Found at i:18188511 original size:177 final size:177
Alignment explanation
Indices: 18188215--18188566 Score: 535
Period size: 177 Copynumber: 2.0 Consensus size: 177
18188205 AGAAAAATCT
* * * *
18188215 AATGTCTTTAAAAGTAGATTCCCCAGTTTTATAGAAAATATCATTGTTTTTCAGTGAAGAAGAAC
1 AATGTCTTTAAAAGTAGATTCCCCAGTTTTATAGAAAATATCATCGTCTTTCAATGAAGAACAAC
* * * *
18188280 ACGAGACAATAATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTGGCCAACTGA
66 ACGAGACAATAATGCTACACTGAATGCAACTATGTATTCCAAAGTGTTTCACTTTGGCCAACTGA
*
18188345 TAAGAGAAATTCCAAAAGAAAAACCTAATATCTTTAAAAGTAGATCC
131 TAAAAGAAATTCCAAAAGAAAAACCTAATATCTTTAAAAGTAGATCC
* *
18188392 AATGTCTTTAAAAGTAGATTCACC-GATTTTATAGAAAATATCGTCGTCTTTCAATGAAGAACAA
1 AATGTCTTTAAAAGTAGATTCCCCAG-TTTTATAGAAAATATCATCGTCTTTCAATGAAGAACAA
* * *
18188456 CACGAGGCAATAATGCTACACTGAATGCAACTATGTATTCCAAAGTGTTTCACTTTTGCCAAGTG
65 CACGAGACAATAATGCTACACTGAATGCAACTATGTATTCCAAAGTGTTTCACTTTGGCCAACTG
* * *
18188521 GTAAAAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGAT
130 ATAAAAGAAATTCCAAAAGAAAAACCTAATATCTTTAAAAGTAGAT
18188567 TCATCGATTT
Statistics
Matches: 157, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
176 1 0.01
177 156 0.99
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (177 bp):
AATGTCTTTAAAAGTAGATTCCCCAGTTTTATAGAAAATATCATCGTCTTTCAATGAAGAACAAC
ACGAGACAATAATGCTACACTGAATGCAACTATGTATTCCAAAGTGTTTCACTTTGGCCAACTGA
TAAAAGAAATTCCAAAAGAAAAACCTAATATCTTTAAAAGTAGATCC
Found at i:18188676 original size:156 final size:155
Alignment explanation
Indices: 18188392--18189681 Score: 1852
Period size: 156 Copynumber: 8.3 Consensus size: 155
18188382 AAGTAGATCC
* * *
18188392 AATGTCTTTAAAAGTAGATTCACCGATTTTATAGAAAATATCGTCGTCTTTCAATGAAGAACAAC
1 AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGTC-TTTTTCAGTGAAGAACAAC
* * * *
18188457 ACGAGGCAATAATGCTACACTGAATGCAACTATGTATTCCAAAGTGTTTCACTTTTGCCAAGTGG
65 ACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGA
*
18188522 TAAAAGAAATTCCAAAAGAAAAATCT
130 TAAGAGAAATTCCAAAAGAAAAATCT
18188548 AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGTCTTCTTTCAGTGAAGAACAAC
1 AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGTCTT-TTTCAGTGAAGAACAAC
* * *
18188613 ACGAGGCAATAATGTTACATTGAATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAAGTGA
65 ACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGA
*
18188678 TAAGAGAAATTCCAAAAGAATAATCT
130 TAAGAGAAATTCCAAAAGAAAAATCT
* * * *
18188704 AATGTCTTTAAAAGTAGATTCACCAATTTTGTAGAAAATATCGTCGTCTTTCAGTGAAGAACAAC
1 AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGTC-TTTTTCAGTGAAGAACAAC
18188769 ACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGA
65 ACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGA
* * *
18188834 TAATAGAAATTTCAAAAGAAAATTCT
130 TAAGAGAAATTCCAAAAGAAAAATCT
* * *
18188860 AATGTCTTTAAAAGTAGATTTACCGGTTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAAC
1 AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGTC-TTTTTCAGTGAAGAACAAC
*
18188925 ACGAGG-ACATAATGTTACACTGCATGCAACTATGCATTGCAAAGTGTTTCACTTTTGCCAAGTG
65 ACGAGGCA-ATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTG
* *
18188989 ATAAGATAAATTTCAAAAGAAAAATCT
129 ATAAGAGAAATTCCAAAAGAAAAATCT
*** * * * * *
18189016 AATGTCTTTAAAAGTAGATTTGCCAATTTTATAGAAAATATCTTGATTTTTTAGTGAACAACAAC
1 AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGT-CTTTTTCAGTGAAGAACAAC
* * *
18189081 ACGAGACAATAATGTAACACTGCATGCAACCATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGA
65 ACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGA
*
18189146 TAAGAGAAATTCTAAAAGAAAAATCT
130 TAAGAGAAATTCCAAAAGAAAAATCT
*
18189172 AATGTCTTTAAAAGTAGATT--TGCCAGTTTTATAGAAAATATCGTCATTTTTCAGTGAAGAACA
1 AATGTCTTTAAAAGTAGATTCAT-CGA-TTTTATAGAAAATATCGTC-TTTTTCAGTGAAGAACA
* *
18189235 ACACGAGACAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGTCAAGT
63 ACACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGT
* *
18189300 GATAAGGGAAATTCCAAAAGAAAGATCT
128 GATAAGAGAAATTCCAAAAGAAAAATCT
* * * * *
18189328 AATATCTTTAAAAGTAGATTCGTTGATTTTATAGAAAATATCGCCATCTTTCAGTGAAGAACAAC
1 AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGTC-TTTTTCAGTGAAGAACAAC
* * *
18189393 ACGATGCAATAATGTTACACTGCATGTAACTATGTATTGTAAAGTGTTTCACTTTTGCCAAAGTG
65 ACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCC-AAGTG
18189458 ATAAGAGAAATTCCAAAAGAAAAATCT
129 ATAAGAGAAATTCCAAAAGAAAAATCT
** * *
18189485 AATGTCTTTAAAAGTAGATTTGTCAATTTTATAGAAAA-ATCGTGATTTTTCAGTGAAGAACAAC
1 AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGT-CTTTTTCAGTGAAGAACAAC
* * ** *
18189549 ACGAGACACTAATGTTACACTGCATGCAACTATGTATTATAAAGTGATTCACTTTTGCCAAGTGA
65 ACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGA
* *
18189614 TGAGAGAAATTCTAAAAGAAAAATCT
130 TAAGAGAAATTCCAAAAGAAAAATCT
** *
18189640 AATGTCTTTAAAAGTAGATTTGTC-AGTTTTATAGAAAGTATC
1 AATGTCTTTAAAAGTAGATTCATCGA-TTTTATAGAAAATATC
18189682 ACCGTCTTTA
Statistics
Matches: 1036, Mismatches: 84, Indels: 28
0.90 0.07 0.02
Matches are distributed among these distances:
154 1 0.00
155 69 0.07
156 898 0.87
157 67 0.06
158 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (155 bp):
AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGTCTTTTTCAGTGAAGAACAACA
CGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGAT
AAGAGAAATTCCAAAAGAAAAATCT
Found at i:18189268 original size:468 final size:468
Alignment explanation
Indices: 18187605--18189690 Score: 2880
Period size: 468 Copynumber: 4.4 Consensus size: 468
18187595 GTGTCAACAA
* * * *
18187605 TAGATTCGCCAAATTTATAGAAAATATCGCTG-TCTTTCAGTGCAGAACAACACGAGGCAATAAT
1 TAGATTCGCCAATTTTATAGAAAATATCG-TGATTTTTCAGTGAAGAACAACACGAGACAATAAT
* *
18187669 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTTCCAAGTGATAAGAGATATTCC
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
* * * * * * *
18187734 AAAAGAAAATTTTAATGTCATTAAAATTAAAATCGTTG--A-TTTTATAGAGAATATCGCCGTCT
130 AAAAGAAAAATCTAATGTCTTTAAAAGT-AGAT--TTGCCAGTTTTATAGAAAATATCGTCGTCT
* * *
18187796 TTCAGTGAAGAACAACACGAGTCAATAATGTTACACCGCATGCAACTATGTATTGCAAAGAGTTT
192 TTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTT
* * *
18187861 CACTTTTGCCAAGTGATAAGAGAAATTCCAAACGAAAAATCTAATGTCTTTAAAAGTAGATTCGC
257 CACTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAATTCTAATGTCTTTAAAAGTAGATTCAC
* * * **
18187926 CAATTTTATAGAAAATATCGTCGTTTTTCAGT-ACATAACAACACGAGGCAATAATGTTACACAA
322 CGATTTTATAGAAAATATCGTCGTCTTTCAGTGA-AGAACAACACGAGGCAATAATGTTACACTG
* * *
18187990 CATGCAACTATGTATTGTAAAGTGTTTCACTTTTTCCAAGTGATAAGAGAAATTCTAAAAGAAAA
386 CATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAA
*
18188055 ATATAATGTCTTTAAAAG
451 ATCTAATGTCTTTAAAAG
* * *
18188073 TAGATTCGCCAATTTTATAGAAAATATCG-CAGTTTTTCAGCGAAGAACAACAC-AAAGCAATAA
1 TAGATTCGCCAATTTTATAGAAAATATCGTGA-TTTTTCAGTGAAGAACAACACGAGA-CAATAA
* * *
18188136 TGTTACACTGCATGCAACTATGTATTGCAAATTGTTTCACTTTTGTCAAGTGATAAGAGGAATTC
64 TGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTC
** * * *
18188201 CAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCCCCAGTTTTATAGAAAATATCATTGTTTTT
129 CAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAGTTTTATAGAAAATATCGTCGTCTTT
* *
18188266 CAGTGAAGAAGAACACGAGACAATAATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCA
194 CAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCA
* *
18188331 CTTTGGCCAACTGATAAGAGAAATTCCAAAAGAAAAACCTAATATCTTTAAAAGTAGATCCAATG
259 CTTTTGCCAAGTGATAAGAGAAATTCCAAAAG---AA---AAT-TC------------T--AATG
*
18188396 TCTTTAAAAGTAGATTCACCGATTTTATAGAAAATATCGTCGTCTTTCAATGAAGAACAACACGA
303 TCTTTAAAAGTAGATTCACCGATTTTATAGAAAATATCGTCGTCTTTCAGTGAAGAACAACACGA
* * * * *
18188461 GGCAATAATGCTACACTGAATGCAACTATGTATTCCAAAGTGTTTCACTTTTGCCAAGTGGTAAA
368 GGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAG
18188526 AGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
433 AGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
** * * *
18188562 TAGATTCATCGATTTTATAGAAAATATCGT-CTTCTTTCAGTGAAGAACAACACGAGGCAATAAT
1 TAGATTCGCCAATTTTATAGAAAATATCGTGATT-TTTCAGTGAAGAACAACACGAGACAATAAT
* * *
18188626 GTTACATTGAATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAAGTGATAAGAGAAATTCC
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
* ** * *
18188691 AAAAGAATAATCTAATGTCTTTAAAAGTAGATTCACCAATTTTGTAGAAAATATCGTCGTCTTTC
130 AAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAGTTTTATAGAAAATATCGTCGTCTTTC
*
18188756 AGTGAAGAACAACACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCAC
195 AGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCAC
* * * *
18188821 TTTTGCCAAGTGATAATAGAAATTTCAAAAGAAAATTCTAATGTCTTTAAAAGTAGATTTACCGG
260 TTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAATTCTAATGTCTTTAAAAGTAGATTCACCGA
*
18188886 TTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGG-ACATAATGTTACACTGCAT
325 TTTTATAGAAAATATCGTCGTCTTTCAGTGAAGAACAACACGAGGCA-ATAATGTTACACTGCAT
* * *
18188950 GCAACTATGCATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGATAAATTTCAAAAGAAAAATC
389 GCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAAATC
18189015 TAATGTCTTTAAAAG
454 TAATGTCTTTAAAAG
* * * *
18189030 TAGATTTGCCAATTTTATAGAAAATATCTTGATTTTTTAGTGAACAACAACACGAGACAATAATG
1 TAGATTCGCCAATTTTATAGAAAATATCGTGATTTTTCAGTGAAGAACAACACGAGACAATAATG
* * *
18189095 TAACACTGCATGCAACCATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCTA
66 TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
* *
18189160 AAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAGTTTTATAGAAAATATCGTCATTTTTCA
131 AAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAGTTTTATAGAAAATATCGTCGTCTTTCA
18189225 GTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACT
196 GTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACT
* * * ***
18189290 TTTGTCAAGTGATAAGGGAAATTCCAAAAGAAAGA-TCTAATATCTTTAAAAGTAGATTCGTTGA
261 TTTGCCAAGTGATAAGAGAAATTCCAAAAGAAA-ATTCTAATGTCTTTAAAAGTAGATTCACCGA
* * *
18189354 TTTTATAGAAAATATCGCCATCTTTCAGTGAAGAACAACACGATGCAATAATGTTACACTGCATG
325 TTTTATAGAAAATATCGTCGTCTTTCAGTGAAGAACAACACGAGGCAATAATGTTACACTGCATG
* *
18189419 TAACTATGTATTGTAAAGTGTTTCACTTTTGCCAAAGTGATAAGAGAAATTCCAAAAGAAAAATC
390 CAACTATGTATTGCAAAGTGTTTCACTTTTGCC-AAGTGATAAGAGAAATTCCAAAAGAAAAATC
18189484 TAATGTCTTTAAAAG
454 TAATGTCTTTAAAAG
* * *
18189499 TAGATTTGTCAATTTTATAGAAAA-ATCGTGATTTTTCAGTGAAGAACAACACGAGACACTAATG
1 TAGATTCGCCAATTTTATAGAAAATATCGTGATTTTTCAGTGAAGAACAACACGAGACAATAATG
** * * *
18189563 TTACACTGCATGCAACTATGTATTATAAAGTGATTCACTTTTGCCAAGTGATGAGAGAAATTCTA
66 TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
* * **
18189628 AAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGTCAGTTTTATAGAAAGTATCACCGTCTTT
131 AAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAGTTTTATAGAAAATATCGTCGTCTTT
18189691 AAGAAAAAAA
Statistics
Matches: 1435, Mismatches: 147, Indels: 72
0.87 0.09 0.04
Matches are distributed among these distances:
465 1 0.00
467 6 0.00
468 929 0.65
469 71 0.05
470 1 0.00
471 2 0.00
474 2 0.00
475 2 0.00
482 2 0.00
483 3 0.00
486 2 0.00
487 1 0.00
488 2 0.00
489 409 0.29
490 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (468 bp):
TAGATTCGCCAATTTTATAGAAAATATCGTGATTTTTCAGTGAAGAACAACACGAGACAATAATG
TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
AAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAGTTTTATAGAAAATATCGTCGTCTTTCA
GTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACT
TTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAATTCTAATGTCTTTAAAAGTAGATTCACCGAT
TTTATAGAAAATATCGTCGTCTTTCAGTGAAGAACAACACGAGGCAATAATGTTACACTGCATGC
AACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAAATCTA
ATGTCTTTAAAAG
Found at i:18195413 original size:34 final size:33
Alignment explanation
Indices: 18195370--18195475 Score: 113
Period size: 34 Copynumber: 3.0 Consensus size: 33
18195360 ATCACTTAAT
*
18195370 ACATAGTATGCGAACCATCATGTTATATGGTATG
1 ACATAGTATGCGAACC-CCATGTTATATGGTATG
*
18195404 ACATAGTATGCAAACCCCTATGTTATATAGTACGTATG
1 ACATAGTATGCGAACCCC-ATGTTATAT-G---GTATG
* *
18195442 ACATAGTATGCGAACCCCCAAGTTATATAGTATG
1 ACATAGTATGCGAA-CCCCATGTTATATGGTATG
18195476 TGATTTAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
33 1 0.02
34 29 0.48
35 1 0.02
38 26 0.43
39 4 0.07
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (33 bp):
ACATAGTATGCGAACCCCATGTTATATGGTATG
Found at i:18195448 original size:38 final size:38
Alignment explanation
Indices: 18195399--18195473 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
18195389 ATGTTATATG
* *
18195399 GTATGACATAGTATGCAAACCCCTATGTTATATAGTAC
1 GTATGACATAGTATGCAAACCCCCAAGTTATATAGTAC
*
18195437 GTATGACATAGTATGCGAACCCCCAAGTTATATAGTA
1 GTATGACATAGTATGCAAACCCCCAAGTTATATAGTA
18195474 TGTGATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (38 bp):
GTATGACATAGTATGCAAACCCCCAAGTTATATAGTAC
Found at i:18199342 original size:6 final size:6
Alignment explanation
Indices: 18199331--18199366 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
18199321 GTTGAAATTA
18199331 ATGCAG ATGCAG ATGCAG ATGCAG ATGCAG ATGCAG
1 ATGCAG ATGCAG ATGCAG ATGCAG ATGCAG ATGCAG
18199367 TCCTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (6 bp):
ATGCAG
Found at i:18200030 original size:18 final size:17
Alignment explanation
Indices: 18200002--18200036 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18199992 ATTATTAAGA
*
18200002 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18200019 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18200037 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18200285 original size:45 final size:44
Alignment explanation
Indices: 18200196--18200290 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
18200186 TTACACCTCT
*
18200196 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
*** *
18200240 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
18200285 ATTACA
1 ATTACA
18200291 CCTCTANNNN
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.44
45 25 0.56
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:18203724 original size:29 final size:29
Alignment explanation
Indices: 18203669--18203734 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
18203659 ATAATTTCCA
* *
18203669 TTATTATTTATGATTTATATTATATTATT
1 TTATTTTTTATGATTTATATTATATTAAT
18203698 TTATTTTTTA-GACTTTATATT-TCATTAAT
1 TTATTTTTTATGA-TTTATATTAT-ATTAAT
*
18203727 ATATTTTT
1 TTATTTTT
18203735 ACCTAATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (29 bp):
TTATTTTTTATGATTTATATTATATTAAT
Found at i:18205353 original size:30 final size:31
Alignment explanation
Indices: 18205280--18205353 Score: 75
Period size: 30 Copynumber: 2.4 Consensus size: 31
18205270 CTATGATCTC
18205280 AGTCCCTAC-ACTTTTTGGATTTCTAAAATTT
1 AGTCCCT-CTACTTTTTGGATTTCTAAAATTT
* *
18205311 AGTCTCTTTACTTTTT-GATTT-TAAAAATTT
1 AGTCCCTCTACTTTTTGGATTTCT-AAAATTT
18205341 -GATCCCTCTACTT
1 AG-TCCCTCTACTT
18205354 GTCAGTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
29 2 0.06
30 21 0.58
31 13 0.36
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.49
Consensus pattern (31 bp):
AGTCCCTCTACTTTTTGGATTTCTAAAATTT
Found at i:18207987 original size:25 final size:24
Alignment explanation
Indices: 18207959--18208016 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
18207949 TATTATCAAT
* *
18207959 AATTTTATGAAATTATATATTATTA
1 AATTATATGAAATAATA-ATTATTA
*
18207984 AATTATATGTAATAATAATTATTTTA
1 AATTATATGAAATAATAATTA--TTA
18208010 AATTATA
1 AATTATA
18208017 CAAATTCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.14
25 14 0.50
26 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (24 bp):
AATTATATGAAATAATAATTATTA
Found at i:18208083 original size:47 final size:49
Alignment explanation
Indices: 18207959--18208084 Score: 123
Period size: 47 Copynumber: 2.6 Consensus size: 49
18207949 TATTATCAAT
* *
18207959 AATTTTATGAAATTATATATTATTAAATTATATGTAATAATAATTATTTTA
1 AATTTTATCAAATCATATATT-TT-AATTATATGTAATAATAATTATTTTA
* *** * *
18208010 AATTATA-CAAATTCATATAAGATAATT-TAT-TAGTTATAATTATTTTA
1 AATTTTATCAAA-TCATATATTTTAATTATATGTAATAATAATTATTTTA
*
18208057 AATTTTATTAAATCATATATTTTAATTA
1 AATTTTATCAAATCATATATTTTAATTA
18208085 AAATATATTT
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
47 33 0.56
48 6 0.10
49 4 0.07
50 4 0.07
51 12 0.20
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (49 bp):
AATTTTATCAAATCATATATTTTAATTATATGTAATAATAATTATTTTA
Found at i:18208223 original size:25 final size:26
Alignment explanation
Indices: 18208191--18208245 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
18208181 TTATTAAATT
*
18208191 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
18208216 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
18208241 A-ATAT
1 ATATAT
18208246 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:18208412 original size:39 final size:40
Alignment explanation
Indices: 18208369--18208473 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
18208359 TTCCATTATG
18208369 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
18208408 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
18208453 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
18208474 ACACCTCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:18208467 original size:45 final size:44
Alignment explanation
Indices: 18208367--18208476 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
18208357 TTTTCCATTA
18208367 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
18208406 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
18208451 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
18208477 CCTCTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Done.