Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 8 of 325
Found at i:1757915 original size:28 final size:27
Alignment explanation
Indices: 1757870--1757946 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 27
1757860 ATAATATAAC
1757870 TTTTCATATAT-TATTTTATGTATTATACA
1 TTTT-ATATATATA-TTTAT-TATTATACA
* *
1757899 TTTTATATATATATTTATTATTTTATA
1 TTTTATATATATATTTATTATTATACA
*
1757926 TTATTATACATATA-TTATTAT
1 TT-TTATATATATATTTATTAT
1757947 CCTTAACTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
27 16 0.37
28 21 0.49
29 6 0.14
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (27 bp):
TTTTATATATATATTTATTATTATACA
Found at i:1760652 original size:16 final size:16
Alignment explanation
Indices: 1760633--1760666 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1760623 TAAAAAGTAG
1760633 AAATGTATAAAATGGC
1 AAATGTATAAAATGGC
1760649 AAATGTATAAAATGGC
1 AAATGTATAAAATGGC
1760665 AA
1 AA
1760667 TCAATTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.24
Consensus pattern (16 bp):
AAATGTATAAAATGGC
Found at i:1761894 original size:19 final size:19
Alignment explanation
Indices: 1761870--1761906 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1761860 AAAAAAAATT
*
1761870 CTATTTTCTTGTTGTTTTA
1 CTATTTTCTTGTTATTTTA
*
1761889 CTATTTTTTTGTTATTTT
1 CTATTTTCTTGTTATTTT
1761907 CTCACTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.08, G:0.08, T:0.73
Consensus pattern (19 bp):
CTATTTTCTTGTTATTTTA
Found at i:1762701 original size:12 final size:12
Alignment explanation
Indices: 1762684--1762708 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1762674 TGTTTACAAA
1762684 ATTTATCATTTT
1 ATTTATCATTTT
1762696 ATTTATCATTTT
1 ATTTATCATTTT
1762708 A
1 A
1762709 GTTCTAATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTTATCATTTT
Found at i:1764187 original size:14 final size:14
Alignment explanation
Indices: 1764168--1764194 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1764158 AATAGAAAGT
1764168 TGAAATGCAATTCC
1 TGAAATGCAATTCC
1764182 TGAAATGCAATTC
1 TGAAATGCAATTC
1764195 TAAGAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (14 bp):
TGAAATGCAATTCC
Found at i:1770648 original size:27 final size:25
Alignment explanation
Indices: 1770597--1770648 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
1770587 AAAATGAAGT
**
1770597 AAATATATAAATTATATAAGTAACA
1 AAATATATAAATTATATAAAAAACA
*
1770622 AAATATATATATATATATGAAAAAACA
1 AAATATATAAAT-TATAT-AAAAAACA
1770649 TAAGGATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 11 0.50
26 5 0.23
27 6 0.27
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (25 bp):
AAATATATAAATTATATAAAAAACA
Found at i:1773914 original size:12 final size:12
Alignment explanation
Indices: 1773899--1774010 Score: 51
Period size: 12 Copynumber: 9.3 Consensus size: 12
1773889 CAATAGTGAA
*
1773899 AATAATAAGTAT
1 AATAATAAATAT
1773911 AATAATAAATAT
1 AATAATAAATAT
*
1773923 AATGAT--ATAT
1 AATAATAAATAT
*
1773933 AAAAATAATACTAT
1 AATAATAA-A-TAT
1773947 ATATAA-AAAGTAT
1 A-ATAATAAA-TAT
* *
1773960 -ATATATACATGT
1 AATA-ATAAATAT
1773972 -ATAATAAGATAT
1 AATAATAA-ATAT
1773984 ACACTAAT--AT-T
1 A-A-TAATAAATAT
1773995 AATAATAAATAT
1 AATAATAAATAT
1774007 AATA
1 AATA
1774011 GGGGTAAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 28
0.67 0.09 0.25
Matches are distributed among these distances:
9 4 0.05
10 9 0.12
11 10 0.13
12 32 0.42
13 7 0.09
14 7 0.09
15 7 0.09
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:1773938 original size:18 final size:17
Alignment explanation
Indices: 1773897--1773966 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 17
1773887 AACAATAGTG
1773897 AAAATAATAAGTATA-ATA
1 AAAAT-ATAA-TATATATA
1773915 ATAAATATAATGATATATA
1 A-AAATATAAT-ATATATA
*
1773934 AAAATAATACTATATATA
1 AAAAT-ATAATATATATA
1773952 AAAAGTAT-ATATATA
1 AAAA-TATAATATATA
1773967 CATGTATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
17 7 0.16
18 25 0.56
19 13 0.29
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (17 bp):
AAAATATAATATATATA
Found at i:1774066 original size:2 final size:2
Alignment explanation
Indices: 1774059--1774084 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1774049 CGGTATTAAA
1774059 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1774085 TGTAGCGACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1777473 original size:26 final size:26
Alignment explanation
Indices: 1777442--1777548 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
1777432 TGAAATGCCC
*
1777442 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
1777468 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
1777494 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
1777520 AT-ATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
1777545 ATCA
1 ATCA
1777549 ATTGTACCAT
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:1777547 original size:51 final size:52
Alignment explanation
Indices: 1777442--1777548 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
1777432 TGAAATGCCC
1777442 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
1777494 ATCATGGAATATTTACCTAATCCATTAT-ATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1777545 ATCA
1 ATCA
1777549 ATTGTACCAT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 27 0.51
52 26 0.49
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:1777877 original size:2 final size:2
Alignment explanation
Indices: 1777870--1777900 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1777860 GGGCGTTACA
1777870 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1777901 ACATATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1777967 original size:9 final size:9
Alignment explanation
Indices: 1777953--1777978 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1777943 CATATACTAA
1777953 TAATAATAG
1 TAATAATAG
1777962 TAATAATAG
1 TAATAATAG
1777971 TAATAATA
1 TAATAATA
1777979 AAAGATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (9 bp):
TAATAATAG
Found at i:1778459 original size:2 final size:2
Alignment explanation
Indices: 1778452--1778487 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1778442 TAAGTACATA
*
1778452 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AA AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1778488 CATAAGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:1778829 original size:19 final size:19
Alignment explanation
Indices: 1778807--1778849 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1778797 TATTAAAAAA
1778807 ATAATATATACA-TATACAT
1 ATAATATATACACTAT-CAT
*
1778826 ATAAAATATACACTATCAT
1 ATAATATATACACTATCAT
1778845 -TAATA
1 ATAATA
1778850 CTAATAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 4 0.19
19 14 0.67
20 3 0.14
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAATATATACACTATCAT
Found at i:1778989 original size:3 final size:3
Alignment explanation
Indices: 1778981--1779238 Score: 98
Period size: 3 Copynumber: 88.3 Consensus size: 3
1778971 AATAGTGCAT
*
1778981 ATA ATA ATA ATA CTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * *
1779029 GCA ATA ATA ATA AGA TATA A-A A-A AGA A-A CA-A AT- ATA AT- ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * * * *
1779070 ATA ATA ATG TTA AAA ATA GAGTA ATA ATA TTA ATA GAGA A-A GTA ACA
1 ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA -ATA ATA ATA ATA
* * * * * *
1779117 A-A GATA ATA GTA AT- ATG ATA GTA A-A AAA AT- GTA ATA TTA A-A
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
1779158 AAA ATA ATA CTA A-A TATA CATA ATA ATA AT- ATA AT- ATA ATA ATG
1 ATA ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * **
1779202 ATA ATA GTA ATA AT- ATA AAA ATA GCA ATA TATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA A
1779239 AAACTTAATC
Statistics
Matches: 189, Mismatches: 44, Indels: 44
0.68 0.16 0.16
Matches are distributed among these distances:
2 26 0.14
3 147 0.78
4 14 0.07
5 2 0.01
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:1779230 original size:17 final size:19
Alignment explanation
Indices: 1779177--1779241 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
1779167 CTAAATATAC
* *
1779177 ATAATAATAATA-TAATAT
1 ATAATAAAAATAGCAATAT
* * *
1779195 AATAATGATAATAGTAATA-
1 -ATAATAAAAATAGCAATAT
1779214 AT-ATAAAAATAGCAATAT
1 ATAATAAAAATAGCAATAT
1779232 ATAATAAAAA
1 ATAATAAAAA
1779242 CTTAATCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 12 0.31
18 4 0.10
19 18 0.46
20 5 0.13
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (19 bp):
ATAATAAAAATAGCAATAT
Found at i:1779742 original size:19 final size:18
Alignment explanation
Indices: 1779709--1779745 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
1779699 AGAAAAAAAA
1779709 AAGAGAAGAAGGGAGAGG
1 AAGAGAAGAAGGGAGAGG
*
1779727 AAGAGAGAGGAGGGAGAGG
1 AAGAGA-AGAAGGGAGAGG
1779746 GGAAGGATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (18 bp):
AAGAGAAGAAGGGAGAGG
Found at i:1781070 original size:24 final size:25
Alignment explanation
Indices: 1781034--1781081 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
1781024 TCAAACATGC
1781034 ATTTAGGTCAATTTAACCCTAGGGT
1 ATTTAGGTCAATTTAACCCTAGGGT
* * *
1781059 ATTTCGGT-AATTTATCTCTAGGG
1 ATTTAGGTCAATTTAACCCTAGGG
1781082 GTAAAACTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (25 bp):
ATTTAGGTCAATTTAACCCTAGGGT
Found at i:1782658 original size:25 final size:26
Alignment explanation
Indices: 1782563--1782719 Score: 252
Period size: 26 Copynumber: 6.2 Consensus size: 26
1782553 CATGAAATTC
1782563 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
1782589 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
1782615 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
1782641 TTATCATG-AACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
1782666 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
1782691 TTATC---AAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
1782714 TTATCA
1 TTATCA
1782720 ATTTGTATCA
Statistics
Matches: 126, Mismatches: 3, Indels: 6
0.93 0.02 0.04
Matches are distributed among these distances:
23 22 0.17
25 45 0.36
26 59 0.47
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:1783843 original size:112 final size:112
Alignment explanation
Indices: 1783642--1783849 Score: 262
Period size: 112 Copynumber: 1.9 Consensus size: 112
1783632 GACCTATAAC
* * *
1783642 ATATATATAATAAAGTATTTAAAAAATGTATACATAGTATATATACTAGGAATAATAATAATAGT
1 ATATACATAATAAAGTATTTAAAAAATGTATACATAGTATATAAACTAGAAATAATAATAATAGT
*
1783707 AAAAACAACCATTAACAATGTTACATAAATAGATATATAGTAATAGT
66 AAAAACAACCATTAACAATATTACATAAATAGATATATAGTAATAGT
* * *
1783754 ATATACATAATATAGTA-TTAAAATAT-T-TACATAGTATATACAAATTAGAAATAATAATAAT-
1 ATATACATAATAAAGTATTTAAAAAATGTATACATAGTATAT--AAACTAGAAATAATAATAATA
* * *
1783815 GTTAAAAAATAACTATTAATAATATTACATAAATA
64 G-T-AAAAACAACCATTAACAATATTACATAAATA
1783850 TATACATATA
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
109 12 0.15
110 2 0.02
111 26 0.32
112 42 0.51
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.34
Consensus pattern (112 bp):
ATATACATAATAAAGTATTTAAAAAATGTATACATAGTATATAAACTAGAAATAATAATAATAGT
AAAAACAACCATTAACAATATTACATAAATAGATATATAGTAATAGT
Found at i:1783968 original size:22 final size:23
Alignment explanation
Indices: 1783845--1783961 Score: 67
Period size: 24 Copynumber: 5.4 Consensus size: 23
1783835 AATATTACAT
*
1783845 AAATATATACATATATA-TATTAA
1 AAATATATACATAAATAGTA-TAA
1783868 AAATATATACAT--ATA--ATAA
1 AAATATATACATAAATAGTATAA
* *
1783887 AACACAT-TAC-T-AATATTAATAA
1 AA-ATATATACATAAATAGT-ATAA
* * *
1783909 TAATA-ATA-AT-GATAATATAA
1 AAATATATACATAAATAGTATAA
1783929 AAATATATACATGAAATAGTATAA
1 AAATATATACAT-AAATAGTATAA
1783953 AAATATATA
1 AAATATATA
1783962 ACTAATAATA
Statistics
Matches: 75, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
18 1 0.01
19 11 0.15
20 12 0.16
21 15 0.20
22 7 0.09
23 12 0.16
24 17 0.23
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (23 bp):
AAATATATACATAAATAGTATAA
Found at i:1785621 original size:15 final size:15
Alignment explanation
Indices: 1785601--1785656 Score: 89
Period size: 14 Copynumber: 3.9 Consensus size: 15
1785591 CGATGAATTT
1785601 ATTGAATTTATATTG
1 ATTGAATTTATATTG
*
1785616 ATTGAAATTAT-TTG
1 ATTGAATTTATATTG
1785630 ATTGAATTTATATTG
1 ATTGAATTTATATTG
1785645 ATTGAA-TTATAT
1 ATTGAATTTATAT
1785657 AATATACATG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 19 0.50
15 19 0.50
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:1785633 original size:29 final size:27
Alignment explanation
Indices: 1785597--1785654 Score: 98
Period size: 29 Copynumber: 2.1 Consensus size: 27
1785587 TATGCGATGA
1785597 ATTTATTGAATTTATATTGATTGAAATT
1 ATTTATTGAATTTATATTGATTG-AATT
1785625 ATTTGATTGAATTTATATTGATTGAATT
1 ATTT-ATTGAATTTATATTGATTGAATT
1785653 AT
1 AT
1785655 ATAATATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (27 bp):
ATTTATTGAATTTATATTGATTGAATT
Found at i:1786130 original size:42 final size:43
Alignment explanation
Indices: 1786027--1786131 Score: 140
Period size: 42 Copynumber: 2.4 Consensus size: 43
1786017 GGCTTTATCG
1786027 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTA-TTCAGGCACCTCGTGTGTCGT
* ** *
1786071 ATCAGGCACCTCGTGTGTCGTA-TCAGGCACTTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTATTCAGGCACCTCGTGTGTCGT
* *
1786113 TTTAGGCACTTTATGTGTC
1 ATCAGGCACTTTATGTGTC
1786132 ATATACTGAT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 33 0.63
44 19 0.37
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (43 bp):
ATCAGGCACTTTATGTGTCGTATTCAGGCACCTCGTGTGTCGT
Found at i:1786131 original size:21 final size:21
Alignment explanation
Indices: 1786027--1786123 Score: 122
Period size: 21 Copynumber: 4.5 Consensus size: 21
1786017 GGCTTTATCG
**
1786027 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACTTCGTGTGTCGT
*
1786048 ATTTCAGGCACCTCGTGTGTCGT
1 A--TCAGGCACTTCGTGTGTCGT
*
1786071 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTCGTGTGTCGT
1786092 ATCAGGCACTTCGTGTGTCGT
1 ATCAGGCACTTCGTGTGTCGT
* *
1786113 TTTAGGCACTT
1 ATCAGGCACTT
1786124 TATGTGTCAT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
21 50 0.74
23 18 0.26
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (21 bp):
ATCAGGCACTTCGTGTGTCGT
Found at i:1786299 original size:23 final size:21
Alignment explanation
Indices: 1786247--1786355 Score: 128
Period size: 21 Copynumber: 5.1 Consensus size: 21
1786237 CTTGATCAGT
** *
1786247 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAAGTGCCTG
*
1786268 AAACGACACACGAAGTGCCTG
1 ATACGACACACGAAGTGCCTG
*
1786289 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAAGTGCCTG
*
1786310 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAAGTGCCTG
**
1786331 AAATACGACACATAAAGTGCCTG
1 --ATACGACACACGAAGTGCCTG
1786354 AT
1 AT
1786356 CGATAAAGCC
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
21 59 0.77
23 18 0.23
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.16
Consensus pattern (21 bp):
ATACGACACACGAAGTGCCTG
Found at i:1786750 original size:15 final size:15
Alignment explanation
Indices: 1786725--1786781 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
1786715 TCATGTATAT
1786725 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
1786741 TATAAATTCAATCAA
1 TATAAATTCAATCAA
*
1786756 -ATAATTTCAATCAA
1 TATAAATTCAATCAA
1786770 TATAAATTCAAT
1 TATAAATTCAAT
1786782 AAATTCATCG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 13 0.34
15 21 0.55
16 4 0.11
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:1786766 original size:29 final size:27
Alignment explanation
Indices: 1786728--1786785 Score: 98
Period size: 29 Copynumber: 2.1 Consensus size: 27
1786718 TGTATATTAT
1786728 ATAATTCAATCAATATAAATTCAATCAA
1 ATAATTCAATCAATATAAATTCAAT-AA
1786756 ATAATTTCAATCAATATAAATTCAATAA
1 ATAA-TTCAATCAATATAAATTCAATAA
1786784 AT
1 AT
1786786 TCATCGCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (27 bp):
ATAATTCAATCAATATAAATTCAATAA
Found at i:1788624 original size:2 final size:2
Alignment explanation
Indices: 1788608--1788679 Score: 61
Period size: 2 Copynumber: 40.0 Consensus size: 2
1788598 ACATGTAAAA
* *
1788608 AT AT AT AC AT A- AT AT AT A- AA AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1788647 A- AT AT AC AT A- AT AT A- AT AT -T A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1788680 GCGTAATATG
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
1 8 0.14
2 49 0.86
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:1788630 original size:20 final size:20
Alignment explanation
Indices: 1788605--1788661 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
1788595 AATACATGTA
1788605 AAAATATATACATAATATAT
1 AAAATATATACATAATATAT
*
1788625 AAAATATATATAT-ATATAT
1 AAAATATATACATAATATAT
*
1788644 AATA-ATATACATAATATA
1 AAAATATATACATAATATA
1788662 ATATTAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.21
19 14 0.42
20 12 0.36
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATATATACATAATATAT
Found at i:1788659 original size:9 final size:9
Alignment explanation
Indices: 1788610--1788661 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
1788600 ATGTAAAAAT
1788610 ATATACATA
1 ATATACATA
* *
1788619 ATATATAAA
1 ATATACATA
*
1788628 ATATATATA
1 ATATACATA
*
1788637 TATATATAATA
1 -ATATA-CATA
1788648 ATATACATA
1 ATATACATA
1788657 ATATA
1 ATATA
1788662 ATATTAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 23 0.64
10 10 0.28
11 3 0.08
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (9 bp):
ATATACATA
Found at i:1788847 original size:16 final size:17
Alignment explanation
Indices: 1788828--1788865 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
1788818 AATAATGCTA
1788828 ATAATAAAT-ATAAAAT
1 ATAATAAATAATAAAAT
*
1788844 ATAAT-AGTAATAAAAT
1 ATAATAAATAATAAAAT
1788860 ATAATA
1 ATAATA
1788866 GTATACATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
ATAATAAATAATAAAAT
Found at i:1788866 original size:16 final size:16
Alignment explanation
Indices: 1788837--1788868 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1788827 AATAATAAAT
1788837 ATAAAATATAATAGTA
1 ATAAAATATAATAGTA
1788853 ATAAAATATAATAGTA
1 ATAAAATATAATAGTA
1788869 TACATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
ATAAAATATAATAGTA
Found at i:1795285 original size:6 final size:6
Alignment explanation
Indices: 1795269--1795318 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
1795259 TAGTTTTCTC
* * *
1795269 AAAATA AAAATG GAAATG GAAATG AAAATG AAAATG AAAATG AGAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG
1795318 A
1 A
1795319 TTCATTTGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
6 34 0.85
7 6 0.15
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:1803167 original size:13 final size:13
Alignment explanation
Indices: 1803149--1803174 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1803139 TGAACCAAAA
1803149 TTTTTATTTTTAT
1 TTTTTATTTTTAT
1803162 TTTTTATTTTTAT
1 TTTTTATTTTTAT
1803175 GAATTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:1811941 original size:26 final size:24
Alignment explanation
Indices: 1811911--1811960 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
1811901 AAATAAAAAA
*
1811911 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
1811937 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
1811961 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:1811980 original size:21 final size:21
Alignment explanation
Indices: 1811931--1811989 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 21
1811921 ATAATAAATC
*
1811931 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
1811951 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
**
1811973 AAATAATACAAAAACAA
1 AAATAATATTAAAACAA
1811990 TTCTTAAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.10
21 17 0.55
22 11 0.35
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.20
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:1812470 original size:2 final size:2
Alignment explanation
Indices: 1812463--1812490 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1812453 ACATACACAA
1812463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1812491 GAAAATTAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1813886 original size:2 final size:2
Alignment explanation
Indices: 1813879--1813913 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1813869 CTCAAAAATA
1813879 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1813914 AGTTGTTGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1825232 original size:2 final size:2
Alignment explanation
Indices: 1825225--1825251 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1825215 CTACTGCTTT
1825225 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1825252 TTTTTTCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:1825428 original size:1 final size:1
Alignment explanation
Indices: 1825422--1825460 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
1825412 CTAGATATAC
* * *
1825422 AAAAAAAAAAAAAAAAAAAAGAAAGAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1825461 GAAACTCGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:1825452 original size:19 final size:19
Alignment explanation
Indices: 1825428--1825464 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1825418 ATACAAAAAA
1825428 AAAAAAAAAAAAAAGAAAG
1 AAAAAAAAAAAAAAGAAAG
*
1825447 AAAAAAGAAAAAAAGAAA
1 AAAAAAAAAAAAAAGAAA
1825465 CTCGTCTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAAAAGAAAG
Found at i:1826465 original size:63 final size:63
Alignment explanation
Indices: 1826366--1826491 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
1826356 TGTGGTTTAA
1826366 GTCTGATAAGTTGCGAGGCCAATGGTGCTTGGTTGATGTGGGCACTATAGAAATGGTACTTTG
1 GTCTGATAAGTTGCGAGGCCAATGGTGCTTGGTTGATGTGGGCACTATAGAAATGGTACTTTG
*
1826429 GTCTGATAAGTTGCGAGGCCAATGGTGCTTGGTTGATGTGGGCACTATAGAAATGGTTCTTTG
1 GTCTGATAAGTTGCGAGGCCAATGGTGCTTGGTTGATGTGGGCACTATAGAAATGGTACTTTG
1826492 TGTAGCAGGC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.33
Consensus pattern (63 bp):
GTCTGATAAGTTGCGAGGCCAATGGTGCTTGGTTGATGTGGGCACTATAGAAATGGTACTTTG
Found at i:1826484 original size:31 final size:31
Alignment explanation
Indices: 1826386--1826485 Score: 82
Period size: 31 Copynumber: 3.2 Consensus size: 31
1826376 TTGCGAGGCC
1826386 AATGGTGCTTGGTTGATGTGGGCACTATAGA
1 AATGGTGCTTGGTTGATGTGGGCACTATAGA
* * * * *
1826417 AATGGTACTTTGGTCTGATAAGT-TG--CGA-GGCC
1 AATGGTGC-TTGGT-TGAT--GTGGGCACTATAG-A
1826449 AATGGTGCTTGGTTGATGTGGGCACTATAGA
1 AATGGTGCTTGGTTGATGTGGGCACTATAGA
1826480 AATGGT
1 AATGGT
1826486 TCTTTGTGTA
Statistics
Matches: 50, Mismatches: 10, Indels: 18
0.64 0.13 0.23
Matches are distributed among these distances:
28 2 0.04
29 1 0.02
30 4 0.08
31 21 0.42
32 15 0.30
33 4 0.08
34 1 0.02
35 2 0.04
ACGTcount: A:0.23, C:0.11, G:0.34, T:0.32
Consensus pattern (31 bp):
AATGGTGCTTGGTTGATGTGGGCACTATAGA
Found at i:1827059 original size:3 final size:3
Alignment explanation
Indices: 1827051--1827081 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
1827041 GTTCTCGATT
1827051 TTA TTA TTA TTA TTA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
1827082 GCTTTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1830746 original size:14 final size:15
Alignment explanation
Indices: 1830713--1830751 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
1830703 TTTCCTTCAT
1830713 TAAGTTTTTATTACA
1 TAAGTTTTTATTACA
* *
1830728 CAAGTTTTTCTTA-A
1 TAAGTTTTTATTACA
1830742 TAAGTTTTTA
1 TAAGTTTTTA
1830752 ATTTCGTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (15 bp):
TAAGTTTTTATTACA
Found at i:1832934 original size:28 final size:27
Alignment explanation
Indices: 1832891--1832947 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
1832881 AATCATGTTA
* *
1832891 TATATAGTATTGTTATCACTATTATTTT
1 TATATAGTATTATTATCA-TATTATATT
* *
1832919 TATATATTATTATTATTATATTATATT
1 TATATAGTATTATTATCATATTATATT
1832946 TA
1 TA
1832948 GCTATATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (27 bp):
TATATAGTATTATTATCATATTATATT
Found at i:1833116 original size:11 final size:11
Alignment explanation
Indices: 1833110--1833139 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1833100 ATATATATTG
1833110 TATATATTATA
1 TATATATTATA
*
1833121 TATATATTATG
1 TATATATTATA
1833132 TATATATT
1 TATATATT
1833140 TTTAATGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (11 bp):
TATATATTATA
Found at i:1833203 original size:23 final size:23
Alignment explanation
Indices: 1833108--1833210 Score: 90
Period size: 23 Copynumber: 4.4 Consensus size: 23
1833098 TAATATATAT
*
1833108 TGTATATATTATATA-TATATTA
1 TGTATATATTTTATATTATATTA
1833130 TGTATATATTTT-TAATGT-TATTA
1 TGTATATATTTTAT-AT-TATATTA
1833153 GTTGTATAT-TTCTTATATTAT-TTCA
1 --TGTATATATT-TTATATTATATT-A
*
1833178 TGTATATATTTTATATTATCTTA
1 TGTATATATTTTATATTATATTA
*
1833201 TGTACATATT
1 TGTATATATT
1833211 CTGAAATACT
Statistics
Matches: 68, Mismatches: 2, Indels: 21
0.75 0.02 0.23
Matches are distributed among these distances:
21 1 0.01
22 12 0.18
23 31 0.46
24 10 0.15
25 13 0.19
26 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.58
Consensus pattern (23 bp):
TGTATATATTTTATATTATATTA
Found at i:1833354 original size:17 final size:19
Alignment explanation
Indices: 1833332--1833367 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
1833322 TTTACTATAC
1833332 GTGTATATA-TA-TATTTT
1 GTGTATATAGTATTATTTT
1833349 GTGTATATAGTATTATTTT
1 GTGTATATAGTATTATTTT
1833368 CGTATATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (19 bp):
GTGTATATAGTATTATTTT
Found at i:1833374 original size:18 final size:17
Alignment explanation
Indices: 1833334--1833384 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
1833324 TACTATACGT
*
1833334 GTATATATATATTTTGT
1 GTATATATATATTTTGC
1833351 GTATATAGTATTATTTT-C
1 GTATATA-TA-TATTTTGC
1833369 GTATATCATTATATTT
1 GTATAT-A-TATATTT
1833385 ATCATTATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 7 0.24
18 13 0.45
19 9 0.31
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.57
Consensus pattern (17 bp):
GTATATATATATTTTGC
Found at i:1847489 original size:87 final size:87
Alignment explanation
Indices: 1847247--1847497 Score: 285
Period size: 90 Copynumber: 2.8 Consensus size: 87
1847237 AAAAACGGAC
* * * *
1847247 ATAGAACTTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGG
1 ATAGAAATTGAAAATACCTCAG-ACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-G
* **
1847312 TTCTTTTG-AAACTTAATCTTGAAA
64 AT-TTTTGAAAACAGAATCTTGAAA
* ** *
1847336 AGCAGATTTTGAAAATGCCTC-GACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-TAGAAATTGAAAATACCTCAGAC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1847400 GATTTTTGAAAAGCAGAAT-TTGGAAA
63 GATTTTTGAAAA-CAGAATCTT-GAAA
* *
1847426 ATAGAAATTGAAAATACCTCAG-CGTGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGAT
1 ATAGAAATTGAAAATACCTCAGACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1847490 TTTTGAAA
66 TTTTGAAA
1847498 CATAAATTGA
Statistics
Matches: 139, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
87 47 0.34
88 7 0.05
89 25 0.18
90 60 0.43
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (87 bp):
ATAGAAATTGAAAATACCTCAGACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAAACAGAATCTTGAAA
Found at i:1847551 original size:71 final size:71
Alignment explanation
Indices: 1847428--1847655 Score: 321
Period size: 71 Copynumber: 3.2 Consensus size: 71
1847418 TTTGGAAAAT
* * * * *
1847428 AGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
1 AGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1847493 TGAAAC
66 TGAAAC
* * *
1847499 ATAAATTGAAATTACCTTAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
1847564 GGAAAC
66 TGAAAC
*
1847570 AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCT
1 AGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T-T
*
1847635 TTTGAAAAGT
64 TTTG-AAA-C
1847645 AGAAATTGAAA
1 AGAAATTGAAA
1847656 AGCAGAAATT
Statistics
Matches: 138, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
71 119 0.86
72 1 0.01
73 4 0.03
74 3 0.02
75 11 0.08
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (71 bp):
AGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TGAAAC
Found at i:1847655 original size:14 final size:14
Alignment explanation
Indices: 1847636--1847670 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
1847626 GTTGATTCTT
*
1847636 TTGAAAAGTAGAAA
1 TTGAAAAGCAGAAA
1847650 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
1847664 TTGAAAA
1 TTGAAAA
1847671 TACCTCAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:1847803 original size:88 final size:86
Alignment explanation
Indices: 1847566--1847899 Score: 336
Period size: 88 Copynumber: 3.8 Consensus size: 86
1847556 TTGATTTTGG
* * *
1847566 AAACAGAAATTGAAATTACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAACAGAAATTGAAAATACCTCA-CATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
1847629 GATTCTTTTGAAAAGTAGAAATTGA
65 GA-T-TTTAGGAAAGTA-AAATTTA
* * **
1847654 AAAGCAGAAATTGAAAATACCTCA-GTGTGCCCCGAGGCTTGACTCACCTCTCGCAATATGAGTT
1 AAA-CAGAAATTGAAAATACCTCACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
1847718 GGTTTTAGGAAAGTAAAAATTTA
65 GATTTTAGGAAAGT-AAAATTTA
* * * *
1847741 AAACAGAATTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCATCTATTGCAATATGAGTT
1 AAACAGAAATTGAAAATACCTC-ACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
1847806 GATTTTGACGAACG--AAATTTGA
65 GATTTT-AGGAAAGTAAAATTT-A
* * * * *
1847828 AGAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCATCTCTCGCAATATGAGT
1 A-AACAGAAATTGAAAATACCTCA-CATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1847893 TGATTTT
64 TGATTTT
1847900 TGAAAAATAG
Statistics
Matches: 209, Mismatches: 27, Indels: 20
0.82 0.11 0.08
Matches are distributed among these distances:
86 24 0.11
87 22 0.11
88 104 0.50
89 59 0.28
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (86 bp):
AAACAGAAATTGAAAATACCTCACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTAGGAAAGTAAAATTTA
Found at i:1856036 original size:3 final size:3
Alignment explanation
Indices: 1856028--1856067 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
1856018 TGCATTTCAA
1856028 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1856068 GAAATACATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1856177 original size:3 final size:3
Alignment explanation
Indices: 1856169--1856210 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
1856159 TGTGTTTCAA
1856169 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1856211 ATATCCTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1856483 original size:33 final size:30
Alignment explanation
Indices: 1856425--1856494 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 30
1856415 TAATATTATG
*
1856425 TATATATTTTAATATTATCAGTTATATATA
1 TATATATTTTAATACTATCAGTTATATATA
* *
1856455 CTATATGATTTCTAATACTATTATTTATATATA
1 -TATAT-ATTT-TAATACTATCAGTTATATATA
1856488 TATATAT
1 TATATAT
1856495 ATATATTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.21
32 9 0.26
33 18 0.53
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTATATATA
Found at i:1871671 original size:60 final size:64
Alignment explanation
Indices: 1871590--1871711 Score: 173
Period size: 60 Copynumber: 2.0 Consensus size: 64
1871580 CATAACCATT
*
1871590 CATTTAGTTAGGAACATTTGATT-ATTTC-AT-A-A-CATCCTAATTATTTGACATAAAGCATCA
1 CATTTAGTAAGGAACATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACAT-AAGCATCA
* *
1871650 CATTTAGTAAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CATTTAGTAAGGAACATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
1871712 GGATACATGC
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
60 21 0.39
61 5 0.09
62 2 0.04
63 1 0.02
64 7 0.13
65 18 0.33
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (64 bp):
CATTTAGTAAGGAACATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCATCA
Found at i:1871973 original size:88 final size:87
Alignment explanation
Indices: 1871824--1872047 Score: 315
Period size: 88 Copynumber: 2.5 Consensus size: 87
1871814 TGAAGATATT
* * * *
1871824 CAAGATGATTTGGCATTTCTGTATCAGGCGGGGGCAAATCGAAGACATAGCTGATTTGGCTTTCA
1 CAAGATGATTTGGCATCTCTGTATCAAGCGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCA
1871889 CGTGTTTACGTTGAAGCAGATC
66 CGTGTTTACGTTGAAGCAGATC
1871911 CAAGATGATTTGGCATCTCTGTATCAAGCGAGGAGCAGATCGAAGACATAGCTGATTTGGCTTTC
1 CAAGATGATTTGGCATCTCTGTATCAAGCG-GGAGCAGATCGAAGACATAGCTGATTTGGCTTTC
1871976 ACGTGTTTACGTTGAAGCAGATC
65 ACGTGTTTACGTTGAAGCAGATC
* ** *
1871999 GAAGATAACAGATTTGGTGTCTCTGTAGC-AGCGGAGAGCAGATCGAAGA
1 CAAGAT----GATTTGGCATCTCTGTATCAAGCGG-GAGCAGATCGAAGA
1872048 TAACAGATTT
Statistics
Matches: 123, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
87 28 0.23
88 60 0.49
90 1 0.01
91 18 0.15
92 16 0.13
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (87 bp):
CAAGATGATTTGGCATCTCTGTATCAAGCGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCA
CGTGTTTACGTTGAAGCAGATC
Found at i:1871995 original size:47 final size:47
Alignment explanation
Indices: 1871861--1872003 Score: 142
Period size: 47 Copynumber: 3.2 Consensus size: 47
1871851 GCGGGGGCAA
1871861 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAG
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAG
* * * * * *
1871908 ATC-----CA-AGATGATTTGGC-ATCTC-TGTATCAAGCG-AGGAGCAG
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGT-T-TA-CGTTGAAGCAG
1871949 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAG
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAG
1871996 ATCGAAGA
1 ATCGAAGA
1872004 TAACAGATTT
Statistics
Matches: 72, Mismatches: 12, Indels: 24
0.67 0.11 0.22
Matches are distributed among these distances:
39 3 0.04
40 4 0.06
41 21 0.29
42 4 0.06
46 4 0.06
47 29 0.40
48 4 0.06
49 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (47 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAG
Found at i:1872047 original size:44 final size:44
Alignment explanation
Indices: 1871991--1872589 Score: 926
Period size: 44 Copynumber: 13.8 Consensus size: 44
1871981 TTTACGTTGA
* *
1871991 AGCAGATCGAAGATAACAGATTTGGTGTCTCTGTAGCAGCGGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
*
1872035 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGTGGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
*
1872079 AGCAGATCGAAGATAACAGATTTGGAGTCTCTGTAGCGGCGGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
* * * *
1872123 AGCAGATCGAAGATAACAAATTTGACATCTCTGTAGCGGCAGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
* *
1872167 AACAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
*
1872211 AGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
*
1872255 AGCAGATCGAAGATAACAGATTT-GCGTCTCTGTAGCGGCAGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
1872298 AGCAG-TCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
* * * *
1872341 AGCAGATCAAAGATAATAGATTTGGCGTCTCTGTAGCGGTGAAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
* **
1872385 AGCAGATCGAAGAT----GATTTGGCATCTCTGTAGCGGTAGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
1872425 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG-GGCGGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
*
1872468 AGCAGATCG-AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
* *
1872511 AGTAGATTGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
* *
1872555 AGTAGATCGAAGATAACGGATTTGGCGTCTCTGTA
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
1872590 TTAGACGGGG
Statistics
Matches: 511, Mismatches: 36, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
40 37 0.07
42 43 0.08
43 76 0.15
44 355 0.69
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (44 bp):
AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
Found at i:1872362 original size:130 final size:132
Alignment explanation
Indices: 1871991--1872589 Score: 935
Period size: 130 Copynumber: 4.6 Consensus size: 132
1871981 TTTACGTTGA
* * *
1871991 AGCAGATCGAAGATAACAGATTTGGTGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATAACAGAT
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGAT
* *
1872056 TTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACAGATTTGGAGTCTCTGTAGCGGCGG
66 TTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGG
1872121 AG
131 AG
* * * *
1872123 AGCAGATCGAAGATAACAAATTTGACATCTCTGTAGCGGCAGAGAACAGATCGAAGATAACAGAT
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGAT
* *
1872188 TTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGG
66 TTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGG
1872253 AG
131 AG
1872255 AGCAGATCGAAGATAACAGATTT-GCGTCTCTGTAGCGGCAGAGAGCAG-TCGAAGATAACAGAT
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGAT
* * * *
1872318 TTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAATAGATTTGGCGTCTCTGTAGCGGTGA
66 TTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGG
1872383 AG
131 AG
* *
1872385 AGCAGATCGAAGAT----GATTTGGCATCTCTGTAGCGGTAGAGAGCAGATCGAAGATAACAGAT
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGAT
*
1872446 TTGGCGTCTCTGTAG-GGCGGAGAGCAGATCG-AGATAACAGATTTGGCGTCTCTGTAGTGGCGG
66 TTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGG
1872509 AG
131 AG
* * * * *
1872511 AGTAGATTGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGTAGATCGAAGATAACGGAT
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGAT
1872576 TTGGCGTCTCTGTA
66 TTGGCGTCTCTGTA
1872590 TTAGACGGGG
Statistics
Matches: 426, Mismatches: 35, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
126 47 0.11
127 38 0.09
128 30 0.07
130 146 0.34
131 22 0.05
132 143 0.34
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (132 bp):
AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGAT
TTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGG
AG
Found at i:1872904 original size:9 final size:8
Alignment explanation
Indices: 1872880--1872922 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
1872870 AATACAACCC
1872880 AAAAT-AA
1 AAAATAAA
1872887 AAAATAAA
1 AAAATAAA
1872895 AAAATAAA
1 AAAATAAA
1872903 AAAATGAAGA
1 AAAAT-AA-A
1872913 AAAA-AAA
1 AAAATAAA
1872920 AAA
1 AAA
1872923 CCTAACCTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 9 0.27
8 17 0.52
9 2 0.06
10 5 0.15
ACGTcount: A:0.86, C:0.00, G:0.05, T:0.09
Consensus pattern (8 bp):
AAAATAAA
Found at i:1872918 original size:15 final size:15
Alignment explanation
Indices: 1872880--1872922 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
1872870 AATACAACCC
*
1872880 AAAATAAAAAATAAA
1 AAAAAAAAAAATAAA
1872895 AAAATAAAAAAATGAAGA
1 AAAA-AAAAAAAT-AA-A
1872913 AAAAAAAAAA
1 AAAAAAAAAA
1872923 CCTAACCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.17
16 7 0.29
17 8 0.33
18 5 0.21
ACGTcount: A:0.86, C:0.00, G:0.05, T:0.09
Consensus pattern (15 bp):
AAAAAAAAAAATAAA
Found at i:1873203 original size:2 final size:2
Alignment explanation
Indices: 1873196--1873221 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1873186 TTTTCTTTAT
1873196 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1873222 CATAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1874131 original size:19 final size:19
Alignment explanation
Indices: 1874107--1874144 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1874097 TTGAGATTGC
*
1874107 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
1874126 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
1874145 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:1877596 original size:21 final size:23
Alignment explanation
Indices: 1877555--1877599 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
1877545 AAACAACATC
1877555 TAAAAACATCATGCAAAAAATAT
1 TAAAAACATCATGCAAAAAATAT
*
1877578 TAAAAA-ATCATTC-AAAAATAT
1 TAAAAACATCATGCAAAAAATAT
1877599 T
1 T
1877600 TATTCATTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 6 0.29
23 6 0.29
ACGTcount: A:0.60, C:0.11, G:0.02, T:0.27
Consensus pattern (23 bp):
TAAAAACATCATGCAAAAAATAT
Found at i:1880078 original size:12 final size:12
Alignment explanation
Indices: 1880061--1880091 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1880051 AGTACTACCT
1880061 CGGCCTCAACCA
1 CGGCCTCAACCA
*
1880073 CGGCCTCGACCA
1 CGGCCTCAACCA
1880085 CGGCCTC
1 CGGCCTC
1880092 TTCCCTGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.52, G:0.23, T:0.10
Consensus pattern (12 bp):
CGGCCTCAACCA
Found at i:1883258 original size:32 final size:32
Alignment explanation
Indices: 1883221--1883281 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
1883211 GCTTATCATG
1883221 CCATCATCCATTAACTATTAAAATGCTAATGC
1 CCATCATCCATTAACTATTAAAATGCTAATGC
*
1883253 CCATCATTCATTAACTATTAAAATGCTAA
1 CCATCATCCATTAACTATTAAAATGCTAA
1883282 AATGCATACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (32 bp):
CCATCATCCATTAACTATTAAAATGCTAATGC
Found at i:1883301 original size:32 final size:31
Alignment explanation
Indices: 1883218--1883302 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 31
1883208 AATGCTTATC
* *
1883218 ATGCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCATCATTCATCAACTATTAAAATGCTA
*
1883249 ATGCCCATCATTCATTAACTATTAAAATGCTAAA
1 ATG-CCATCATTCATCAACTATTAAAATGCT--A
1883283 ATG-CATACATT-ATCAACTAT
1 ATGCCAT-CATTCATCAACTAT
1883303 CCATCACCTT
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
31 3 0.06
32 37 0.77
33 4 0.08
34 4 0.08
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (31 bp):
ATGCCATCATTCATCAACTATTAAAATGCTA
Found at i:1890964 original size:19 final size:19
Alignment explanation
Indices: 1890928--1890966 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1890918 TTTTCATCAT
*
1890928 AGTAAAATAAAATAATAAA
1 AGTAAAATAAAACAATAAA
*
1890947 AGTAAAATAAAACCATAAA
1 AGTAAAATAAAACAATAAA
1890966 A
1 A
1890967 ATAATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18
Consensus pattern (19 bp):
AGTAAAATAAAACAATAAA
Found at i:1891470 original size:55 final size:56
Alignment explanation
Indices: 1891405--1891519 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
1891395 AGCATGGCTG
* *
1891405 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
1891461 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
1891516 CCAG
1 CCAG
1891520 GACGATTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:1891482 original size:27 final size:27
Alignment explanation
Indices: 1891430--1891519 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
1891420 GTGACAGAGT
1891430 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
1891459 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
1891486 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
1891514 CACCAG
1 CACCAG
1891520 GACGATTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:1891666 original size:28 final size:28
Alignment explanation
Indices: 1891623--1891687 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
1891613 AAATTAACCC
1891623 TAGGGGTATAACGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
*
1891651 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
1891679 TAGGGGTAT
1 TAGGGGTAT
1891688 TCTAGTACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAACGGTAATTTTGCATACA
Found at i:1898571 original size:19 final size:19
Alignment explanation
Indices: 1898535--1898573 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1898525 TTTTCATCAT
* *
1898535 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
1898554 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
1898573 A
1 A
1898574 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:1898802 original size:22 final size:22
Alignment explanation
Indices: 1898777--1898828 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
1898767 AATTCAACTC
* *
1898777 AACCATAGCCTAAATCAGTTCA
1 AACCACAGCCTAAATCAGTACA
1898799 AACCACAGCCTAAATCAGTACA
1 AACCACAGCCTAAATCAGTACA
1898821 AACCACAG
1 AACCACAG
1898829 AGACAGAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.44, C:0.31, G:0.10, T:0.15
Consensus pattern (22 bp):
AACCACAGCCTAAATCAGTACA
Found at i:1899114 original size:27 final size:28
Alignment explanation
Indices: 1899057--1899126 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
1899047 GTGACAGAGT
* * *
1899057 CACCAGATACATATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTATGTGGCAGGGC
*
1899086 CACCAGAACAGATA-TATGTGGTAGGGC
1 CACCAGAACAGATATTATGTGGCAGGGC
*
1899113 CACCAGAATAGATA
1 CACCAGAACAGATA
1899127 ATTTATGGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 23 0.64
28 6 0.17
29 7 0.19
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (28 bp):
CACCAGAACAGATATTATGTGGCAGGGC
Found at i:1899295 original size:28 final size:28
Alignment explanation
Indices: 1899252--1899316 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
1899242 AAATTAACCC
*
1899252 TAGGGGAATAACGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
*
1899280 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
1899308 TAGGGGTAT
1 TAGGGGTAT
1899317 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAACGGTAATTTTGCATACA
Found at i:1904462 original size:29 final size:29
Alignment explanation
Indices: 1904409--1904464 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
1904399 TAACATCATT
* * *
1904409 TTATATTTATATATTCTATACATAAATAA
1 TTATATTTATATATTATAAAAATAAATAA
*
1904438 TTATATTTATCTATTATAAAAATAAAT
1 TTATATTTATATATTATAAAAATAAAT
1904465 TGATGTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.48
Consensus pattern (29 bp):
TTATATTTATATATTATAAAAATAAATAA
Found at i:1904722 original size:18 final size:17
Alignment explanation
Indices: 1904681--1904714 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1904671 AAATTGTGGC
* *
1904681 CAATGAAAAATTCTTTT
1 CAATAAAAAATTATTTT
1904698 CAATAAAAAATTATTTT
1 CAATAAAAAATTATTTT
1904715 ACCATAAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (17 bp):
CAATAAAAAATTATTTT
Found at i:1905489 original size:31 final size:31
Alignment explanation
Indices: 1905454--1905514 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
1905444 AACTAGAATC
**
1905454 AGAATCAGAATCAGGTGGCAGAATCAAAATA
1 AGAATCAGAATCAGGTAACAGAATCAAAATA
*
1905485 AGAATCAGTATCAGGTAACAGAATCAAAAT
1 AGAATCAGAATCAGGTAACAGAATCAAAAT
1905515 CAAAATGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.49, C:0.13, G:0.20, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGGTAACAGAATCAAAATA
Found at i:1905693 original size:27 final size:27
Alignment explanation
Indices: 1905663--1905727 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
1905653 AGTAAGTTGA
* *
1905663 GGCAAAGCCTCCAGAA-CAGATATTTGT
1 GGCAAAGCCACCAGAATCAGATA-ATGT
*
1905690 GGCATAGCCACCAGAATCAGATAATGT
1 GGCAAAGCCACCAGAATCAGATAATGT
1905717 GGCAAAGCCAC
1 GGCAAAGCCAC
1905728 TCAACAGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 27 0.82
28 6 0.18
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (27 bp):
GGCAAAGCCACCAGAATCAGATAATGT
Found at i:1906339 original size:27 final size:27
Alignment explanation
Indices: 1906309--1906620 Score: 365
Period size: 27 Copynumber: 11.6 Consensus size: 27
1906299 TACCCCACGA
* *
1906309 GGGTATCTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTATAG
* * * *
1906336 GGGTATTTCAGTATTTCTACCTTATAA
1 GGGTATTTCGGTAATTCTACCCTATAG
* *
1906363 GGGTATTTCGATAATTCTACCTTATA-
1 GGGTATTTCGGTAATTCTACCCTATAG
* *
1906389 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTATAG
*
1906416 GGGTATTTCGGTAATTCTACCTTATAG
1 GGGTATTTCGGTAATTCTACCCTATAG
* * *
1906443 GAGTATTTCAGTAATTCTACCCTAGAG
1 GGGTATTTCGGTAATTCTACCCTATAG
* *
1906470 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTATAG
** * *
1906497 GGGTATTTTAGTAATTCTACCATACAG
1 GGGTATTTCGGTAATTCTACCCTATAG
* *
1906524 GGGTATTTTGGTAATTCTACCCTATAC
1 GGGTATTTCGGTAATTCTACCCTATAG
* * *
1906551 GAGTATTTTGGTAATTCTGCCCTATAG
1 GGGTATTTCGGTAATTCTACCCTATAG
1906578 GGGTATTTCGGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTATAG
* * *
1906605 GGTTGTTTTGGTAATT
1 GGGTATTTCGGTAATT
1906621 TTATAAATCG
Statistics
Matches: 243, Mismatches: 41, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 22 0.09
27 221 0.91
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTATAG
Found at i:1906671 original size:27 final size:27
Alignment explanation
Indices: 1906611--1906890 Score: 140
Period size: 27 Copynumber: 10.4 Consensus size: 27
1906601 ATAGGGTTGT
1906611 TTTGGTAATTTTATAAATCGAGGGTAA
1 TTTGGTAATTTTATAAATCGAGGGTAA
*** * * *
1906638 AACGGTAATTTTGTAAATCGGGGGTAC
1 TTTGGTAATTTTATAAATCGAGGGTAA
* * * *
1906665 TTTGGTAATTTTACAAGTCGAAGGTAT
1 TTTGGTAATTTTATAAATCGAGGGTAA
* * * *
1906692 TTTAGTAATCTTACAAATCG-GGGTAT
1 TTTGGTAATTTTATAAATCGAGGGTAA
* * * *
1906718 TTTGGTGATTTTATAAACCAATGGT-A
1 TTTGGTAATTTTATAAATCGAGGGTAA
** * * *
1906744 TTCTACTAATTTTACAAA-CCAGGGGTAT
1 TT-TGGTAATTTTATAAATCGA-GGGTAA
* * * *
1906772 TTTGGTAATTTTGTAAACCAAGGGTAT
1 TTTGGTAATTTTATAAATCGAGGGTAA
* * *
1906799 TTTGGTAATTTTACAAA-CCAGGGGTAT
1 TTTGGTAATTTTATAAATCGA-GGGTAA
* * * *
1906826 TTTGGTGATTTTATAAACCAAAGGT-A
1 TTTGGTAATTTTATAAATCGAGGGTAA
* * *
1906852 TTCTAGTAATTTTGCT-AATCGAGGGTAT
1 TT-TGGTAATTTT-ATAAATCGAGGGTAA
1906880 TTTGGTAATTT
1 TTTGGTAATTT
1906891 GGTAAACTAA
Statistics
Matches: 188, Mismatches: 55, Indels: 20
0.71 0.21 0.08
Matches are distributed among these distances:
26 27 0.14
27 152 0.81
28 9 0.05
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
TTTGGTAATTTTATAAATCGAGGGTAA
Found at i:1906700 original size:54 final size:54
Alignment explanation
Indices: 1906610--1906890 Score: 273
Period size: 54 Copynumber: 5.2 Consensus size: 54
1906600 TATAGGGTTG
* * ** * ** *
1906610 TTTTGGTAATTTTATAAATCGAGGGTAAAAC-GGTAATTTTGTAAATCGGGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGT-ATTCTAGTAATTTTACAAATCAGGGGTA
* * * * * *
1906664 CTTTGGTAATTTTACAAGTCGAA-GGTATTTTAGTAATCTTACAAATC-GGGGTA
1 TTTTGGTAATTTTATAA-ACCAAGGGTATTCTAGTAATTTTACAAATCAGGGGTA
* * * *
1906717 TTTTGGTGATTTTATAAACCAATGGTATTCTACTAATTTTACAAACCAGGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAATCAGGGGTA
* * * *
1906771 TTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAATCAGGGGTA
* * * *
1906825 TTTTGGTGATTTTATAAACCAAAGGTATTCTAGTAATTTTGCTAATC-GAGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAATCAG-GGGTA
1906879 TTTTGGTAATTT
1 TTTTGGTAATTT
1906891 GGTAAACTAA
Statistics
Matches: 185, Mismatches: 37, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
52 3 0.02
53 42 0.23
54 139 0.75
55 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
TTTTGGTAATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAATCAGGGGTA
Found at i:1906818 original size:81 final size:81
Alignment explanation
Indices: 1906712--1906890 Score: 207
Period size: 81 Copynumber: 2.2 Consensus size: 81
1906702 TTACAAATCG
* * * ** * *
1906712 GGGTATTTTGGTGATTTTATAAACCAATGGTATTCTACTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTCTACTAATTTTACAAACCAAAGGTATTCTAG
1906777 TAATTTTG-TAAACCAA
66 TAATTTTGCT-AACCAA
* * ** * *
1906793 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAAGGTATTCTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTCTACTAATTTTACAAACCAAAGGTATTCTAG
* *
1906858 TAATTTTGCTAATCGA
66 TAATTTTGCTAACCAA
1906874 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
1906891 GGTAAACTAA
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 81 0.99
82 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTCTACTAATTTTACAAACCAAAGGTATTCTAG
TAATTTTGCTAACCAA
Found at i:1909065 original size:2 final size:2
Alignment explanation
Indices: 1909058--1909089 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1909048 AATCAAGGAG
1909058 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1909090 TATCTTTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1911083 original size:29 final size:28
Alignment explanation
Indices: 1911039--1911123 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 28
1911029 CACAATTTGA
1911039 AATAA-AAC-ATATATAATAATATGAAAAT
1 AATAATAACAATA-ATAATAA-ATGAAAAT
*
1911067 AATAATAACAATAATAATAAATAAATAAT
1 AATAATAACAATAATAATAAATGAA-AAT
* *
1911096 AATAATAAAAATAATAGTAAA-GAAAAT
1 AATAATAACAATAATAATAAATGAAAAT
1911123 A
1 A
1911124 CAGATAAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.08
28 11 0.22
29 32 0.64
30 3 0.06
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (28 bp):
AATAATAACAATAATAATAAATGAAAAT
Found at i:1911187 original size:25 final size:25
Alignment explanation
Indices: 1911154--1911229 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 25
1911144 ACTAACGAAT
1911154 ATAAGTAATAGTAGTAACAATAATAA
1 ATAA-TAATAGTAGTAACAATAATAA
1911180 ATAAT-A-A-TAGTAACAATAATGATA
1 ATAATAATAGTAGTAACAATAAT-A-A
* * *
1911204 ATAAATATTAGCAGTAAAAATAATAA
1 AT-AATAATAGTAGTAACAATAATAA
1911230 TAGGAATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
22 13 0.32
23 2 0.05
24 4 0.10
25 4 0.10
26 5 0.12
27 2 0.05
28 11 0.27
ACGTcount: A:0.59, C:0.04, G:0.09, T:0.28
Consensus pattern (25 bp):
ATAATAATAGTAGTAACAATAATAA
Found at i:1911219 original size:28 final size:28
Alignment explanation
Indices: 1911173--1911227 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
1911163 AGTAGTAACA
* *
1911173 ATAATAAATAATAATAGTAACAATAATG
1 ATAATAAATAATAACAGTAAAAATAATG
* *
1911201 ATAATAAATATTAGCAGTAAAAATAAT
1 ATAATAAATAATAACAGTAAAAATAAT
1911228 AATAGGAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (28 bp):
ATAATAAATAATAACAGTAAAAATAATG
Found at i:1911368 original size:3 final size:3
Alignment explanation
Indices: 1911051--1911359 Score: 98
Period size: 3 Copynumber: 101.3 Consensus size: 3
1911041 TAAAACATAT
*
1911051 ATA ATA AT- ATGA A-A ATA ATA ATA ACA ATA ATA ATAA ATAA ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT-A AT-A ATA ATA
* * * * *
1911097 ATA ATA AAA ATA ATA GTA A-A GAAA ATA CA-G ATA A-A ATTA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA -ATA ATA ATA A-TA ATA ATA
* * * * *
1911142 ATA CTA ACGA AT- ATA AGTA ATA GTA GTA ACA ATA ATAA ATA ATA ATA
1 ATA ATA A-TA ATA ATA A-TA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * * ** * * **
1911189 GTA ACA ATA ATG ATA ATAA ATA TTA GCA GTA AAA ATA ATA ATA GGA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
1911235 ATA ATA ATG ATA ATAA ATA A-A ATA ATA ATA ATG ATA GTC GTA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
1911280 ATG ATA ATG ACA ATAA ATA ATA ATA GTA GGA-A ATA ATA ATA ATT A-A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA
* * * *
1911326 AGA AGA ATG ATA ATA ATA CAAA AT- ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA A
1911360 CAAATAATAG
Statistics
Matches: 223, Mismatches: 59, Indels: 48
0.68 0.18 0.15
Matches are distributed among these distances:
2 16 0.07
3 175 0.78
4 32 0.14
ACGTcount: A:0.61, C:0.03, G:0.09, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:1921239 original size:2 final size:2
Alignment explanation
Indices: 1921232--1921264 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1921222 TGAAATTCGA
*
1921232 AT AT AT AT AT AT AT AT AT GT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1921265 TTTGAAAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1922665 original size:38 final size:38
Alignment explanation
Indices: 1922614--1922926 Score: 437
Period size: 38 Copynumber: 8.1 Consensus size: 38
1922604 ATATTCGATG
* *
1922614 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTAGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1922652 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
1922690 TATATCCGGGCTTAAAGGCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
*
1922730 AATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
1922768 TATATCCGGGTTAAATCCTGTAGGCTTCTTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
1922806 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* * * *
1922846 AATATCCAGGTTAAATCCTGCAGGCTTCGTGCTGATAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
1922884 TATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1922922 TATAT
1 TATAT
1922927 TCAGGCCTTC
Statistics
Matches: 242, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
38 166 0.69
39 20 0.08
40 56 0.23
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:1922717 original size:78 final size:76
Alignment explanation
Indices: 1922614--1922926 Score: 437
Period size: 78 Copynumber: 4.1 Consensus size: 76
1922604 ATATTCGATG
* *
1922614 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTAGTATTATATCCGGGTTAAATCCCGCAGGCTT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTT
1922679 CGTGCTGGTAT
66 CGTGCTGGTAT
* **
1922690 TATATCCGGGCTTAAAGGCCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATCCCGCAGGC
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGC
1922755 TTCGTGCTGGTAT
64 TTCGTGCTGGTAT
* * * *
1922768 TATATCCGGGTTAAATCCTGTAGGCTTCTTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGC
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGG-TTAAA-TCCCGCAGGC
*
1922833 TTCGTGCTGGTAA
64 TTCGTGCTGGTAT
* * * * * *
1922846 AATATCCAGGTTAAATCCTGCAGGCTTCGTGCTGATATTATATCCGGGATAAATCCCGCAGGCCT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTT
*
1922911 AGTGCTGGTAT
66 CGTGCTGGTAT
1922922 TATAT
1 TATAT
1922927 TCAGGCCTTC
Statistics
Matches: 209, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
76 60 0.29
77 19 0.09
78 130 0.62
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (76 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTT
CGTGCTGGTAT
Found at i:1922819 original size:116 final size:116
Alignment explanation
Indices: 1922615--1922926 Score: 516
Period size: 116 Copynumber: 2.7 Consensus size: 116
1922605 TATTCGATGT
* *
1922615 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTAGTATTATATCCGGGTTAAATCCCGCAGGCTTC
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
*
1922680 GTGCTGGTATTATATCCGGGCTTAAAGGCCCGCAGGCTTCGTGCTGGTAAA
66 GTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAA
* *
1922731 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCTGTAGGCTTC
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
*
1922796 TTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAA
66 GTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAA
* * * * * *
1922847 ATATCCAGGTTAAATCCTGCAGGCTTCGTGCTGATATTATATCCGGGATAAATCCCGCAGGCCTA
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
1922912 GTGCTGGTATTATAT
66 GTGCTGGTATTATAT
1922927 TCAGGCCTTC
Statistics
Matches: 181, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
116 181 1.00
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (116 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
GTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAA
Found at i:1922948 original size:41 final size:43
Alignment explanation
Indices: 1922903--1923005 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
1922893 GATAAATCCC
*
1922903 GCAGGCCTAGTGCTGGT-AT-TATATTCAGGCCTTCGTGCCTA
1 GCAGGCCTAGTGCCGGTGATATATATTCAGGCCTTCGTGCCTA
* * * *
1922944 GCAGGCTTCGTGCCGGTGATATGTATTCGGGCCTTCGTGCCTA
1 GCAGGCCTAGTGCCGGTGATATATATTCAGGCCTTCGTGCCTA
* *
1922987 GCAGGCGTAATGCCGGTGA
1 GCAGGCCTAGTGCCGGTGA
1923006 AATGATATGT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 14 0.27
42 2 0.04
43 36 0.69
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (43 bp):
GCAGGCCTAGTGCCGGTGATATATATTCAGGCCTTCGTGCCTA
Found at i:1923389 original size:45 final size:42
Alignment explanation
Indices: 1923322--1923429 Score: 128
Period size: 45 Copynumber: 2.5 Consensus size: 42
1923312 TTGACTTGAT
* *
1923322 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
**
1923367 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
1923409 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
1923430 ACAGGCGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 34 0.60
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:1925876 original size:9 final size:8
Alignment explanation
Indices: 1925843--1925875 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
1925833 CCATTCCTCG
*
1925843 ATTTAAAA
1 ATTTTAAA
1925851 ATTTTAAA
1 ATTTTAAA
1925859 ATTTTAAA
1 ATTTTAAA
1925867 ATTTTAAA
1 ATTTTAAA
1925875 A
1 A
1925876 AAGGGATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
ATTTTAAA
Found at i:1927210 original size:18 final size:18
Alignment explanation
Indices: 1927189--1927281 Score: 57
Period size: 18 Copynumber: 5.2 Consensus size: 18
1927179 CAAAAATGGC
*
1927189 AATGACAATGAAAATGAT
1 AATGACAATGAAAATAAT
* *
1927207 AATGATAATGATAATAAT
1 AATGACAATGAAAATAAT
* *
1927225 AATAATAAT-AATAATAAT
1 AATGACAATGAA-AATAAT
* *
1927243 AATAATAAT-AATAATAAT
1 AATGACAATGAA-AATAAT
* *
1927261 AATAATAAT-AATAATAAT
1 AATGACAATGAA-AATAAT
1927279 AAT
1 AAT
1927282 ATAATGTAGA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
17 1 0.01
18 68 0.99
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.31
Consensus pattern (18 bp):
AATGACAATGAAAATAAT
Found at i:1927225 original size:3 final size:3
Alignment explanation
Indices: 1927205--1927308 Score: 140
Period size: 3 Copynumber: 35.0 Consensus size: 3
1927195 AATGAAAATG
* *
1927205 ATA ATG ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
1927253 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA AT- GTA GAAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
*
1927297 ATG ATA ATA ATA
1 ATA ATA ATA ATA
1927309 TATGAATAAG
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
2 3 0.03
3 84 0.95
4 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1927498 original size:14 final size:13
Alignment explanation
Indices: 1927481--1927560 Score: 58
Period size: 13 Copynumber: 5.9 Consensus size: 13
1927471 AATGTGATAT
1927481 TAAAAATATATACA
1 TAAAAATATATA-A
1927495 T-AAAA-ATATAA
1 TAAAAATATATAA
*
1927506 TAAATATATAT-A
1 TAAAAATATATAA
1927518 TATAAAATATAATATA
1 TA-AAAATAT-ATA-A
* *
1927534 TACATAATATAGTAT
1 TA-AAAATATA-TAA
1927549 TAAAAATATATA
1 TAAAAATATATA
1927561 TAATACATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
11 2 0.04
12 11 0.21
13 16 0.30
14 10 0.19
15 3 0.06
16 11 0.21
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (13 bp):
TAAAAATATATAA
Found at i:1927509 original size:25 final size:24
Alignment explanation
Indices: 1927481--1927531 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
1927471 AATGTGATAT
1927481 TAAAAATATATACATAAAAATATAA
1 TAAAAATATATACAT-AAAATATAA
* *
1927506 TAAATATATATATATAAAATATAA
1 TAAAAATATATACATAAAATATAA
1927530 TA
1 TA
1927532 TATACATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAAAATATATACATAAAATATAA
Found at i:1927531 original size:29 final size:29
Alignment explanation
Indices: 1927499--1927565 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
1927489 TATACATAAA
1927499 AATATAATAAAT-ATATA-TATATAAAATAT
1 AATATAATAAATAATATAGTAT-TAAAA-AT
*
1927528 AATAT-ATACATAATATAGTATTAAAAAT
1 AATATAATAAATAATATAGTATTAAAAAT
1927556 ATATATAATA
1 A-ATATAATA
1927566 CATACACATT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
28 8 0.24
29 19 0.58
30 6 0.18
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (29 bp):
AATATAATAAATAATATAGTATTAAAAAT
Found at i:1927828 original size:24 final size:24
Alignment explanation
Indices: 1927761--1927817 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
1927751 TAGTAATTAT
* * * *
1927761 AATACTAATACTAATAATAAATAC
1 AATAATAATAGTAAAAATAAACAC
*
1927785 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATAGTAAAAATAAACAC
1927809 AATAATAAT
1 AATAATAAT
1927818 CATGAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (24 bp):
AATAATAATAGTAAAAATAAACAC
Found at i:1929405 original size:44 final size:44
Alignment explanation
Indices: 1929342--1929956 Score: 822
Period size: 44 Copynumber: 14.2 Consensus size: 44
1929332 AGGAACACCG
* * * *
1929342 ATCTGTTATTTTCGATCTGCTCTCTGTCGCTATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
1929386 ATCTGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
1929430 ATCTATTATCTTCGATCTGCTCTCTGCTGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
1929474 ATCTGTTATCTTCGATCTGTTCTCCGCCGCTGCAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
1929518 ATC----ATCTTCAATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
1929558 ATTTGTTATCTTCGATCTGCTCTCCGCCGCTACGGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
1929602 ATCTATTATCTTTGATCTGCTCTCCACCGCTACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
1929646 ATCTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
1929690 ATCTGCTATCTTCGATCTACTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
1929734 ATCTGTTATCTTCAATCTGCTCTCCGCTGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
** *
1929778 ATC----ATCTTCGATCTGCTCTTTGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
1929818 ATCTGTTATCTTCGATCTGTTTTCTGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
1929862 ATCTGTTATCTTCGATCTGCTCTTCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
1929906 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1929946 ATCTGTTATCT
1 ATCTGTTATCT
1929957 GTTTCAAGAA
Statistics
Matches: 506, Mismatches: 53, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
40 109 0.22
44 397 0.78
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:1929735 original size:216 final size:215
Alignment explanation
Indices: 1929345--1929949 Score: 855
Period size: 216 Copynumber: 2.8 Consensus size: 215
1929335 AACACCGATC
* * *
1929345 TGTTATTTTCGATCTGCTCTCTGTCGCTATAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTC
1 TGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTC
* * *
1929410 CACCGCTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCTGCTGCTACAGAGATGCCAAA
66 CACCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAA
* * * *
1929475 TCTGTTATCTTCGATCTGTTCTCCGCCGCTGCAGAGATGCCAAATC-ATCTTCAATCTGCTCTCC
131 TCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATCTTCAATCTGCTCTCC
1929539 GCCGCTACAGAGATGCCAAA
196 GCCGCTACAGAGATGCCAAA
* * * *
1929559 TTTGTTATCTTCGATCTGCTCTCCGCCGCTACGGAGACGCCAAATCTATTATCTTTGATCTGCTC
1 --TGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTC
* * *
1929624 TCCACCGCTACAAAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGACGCCA
64 TCCACCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCA
*
1929689 AATCTGCTATCTTCGATCTACTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCAATCTGC
129 AATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC---TATCTTCAATCTGC
*
1929754 TCTCCGCTGCTACAGAGATGCCAAA
191 TCTCCGCCGCTACAGAGATGCCAAA
* * * * *
1929779 --TCATCTTCGATCTGCTCTTTGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGTTTTC
1 TGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTC
** * *
1929842 TGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTTCGCCGCTACAGAGATGCCAAA
66 CACCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAA
*
1929907 --T-C-ATCTTCGATCTGCTCTCCGCCGCTACAAAGACGCCAAATCT
131 TCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCT
1929950 GTTATCTGTT
Statistics
Matches: 348, Mismatches: 37, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
209 1 0.00
212 38 0.11
213 1 0.00
214 1 0.00
216 270 0.78
220 37 0.11
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (215 bp):
TGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTC
CACCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAA
TCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATCTTCAATCTGCTCTCC
GCCGCTACAGAGATGCCAAA
Found at i:1929816 original size:260 final size:260
Alignment explanation
Indices: 1929342--1929956 Score: 907
Period size: 260 Copynumber: 2.4 Consensus size: 260
1929332 AGGAACACCG
* * *
1929342 ATCTGTTAT-TTTCGATCTGCTCTCTGTCGCTATAGAGACGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGTTATCTTT-GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGC
* * * * * *
1929406 TCTCCACCGCTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCTGCTGCTACAGAGATGC
65 TCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGACGC
* * *
1929471 CAAATCTGTTATCTTCGATCTGTTCTCCGCCGCTGCAGAGATGCCAAATCATCTTCAATCTGCTC
130 CAAATCTGTTATCTTCAATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCAATCTGCTC
* *
1929536 TCCGCCGCTACAGAGATGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCGCTACGGAGACGCCA
195 TCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
1929601 A
260 A
* * * *
1929602 ATCTATTATCTTTGATCTGCTCTCCACCGCTACAAAGACGCCAAATCTGTTATCTTCGATCTACT
1 ATCTGTTATCTTTGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
*
1929667 CTCCGCCGCTACAGAGACGCCAAATCTGCTATCTTCGATCTACTCTCCGCCGCTACAGAGACGCC
66 CTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGACGCC
* *
1929732 AAATCTGTTATCTTCAATCTGCTCTCCGCTGCTACAGAGATGCCAAATCATCTTCGATCTGCTCT
131 AAATCTGTTATCTTCAATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCAATCTGCTCT
** * * * *
1929797 TTGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGTTTTCTGCCGCTACAGAGATGCCAA
196 CCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
1929862 ATCTGTTATCTTCGATCTGCTCTTCGCCGCTACAGAGATGCCAAATC----ATCTTCGATCTGCT
1 ATCTGTTATCTTTGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
*
1929923 CTCCGCCGCTACAAAGACGCCAAATCTGTTATCT
66 CTCCGCCGCTACAGAGACGCCAAATCTGTTATCT
1929957 GTTTCAAGAA
Statistics
Matches: 318, Mismatches: 36, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
256 45 0.14
260 270 0.85
261 3 0.01
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (260 bp):
ATCTGTTATCTTTGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
CTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGACGCC
AAATCTGTTATCTTCAATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCAATCTGCTCT
CCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:1942747 original size:26 final size:26
Alignment explanation
Indices: 1942711--1942848 Score: 231
Period size: 26 Copynumber: 5.2 Consensus size: 26
1942701 TGATACAAAT
1942711 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
1942737 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
1942763 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
1942789 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
1942815 TGATAATGTGGGTTAGGTAAATGTTTCA
1 TGATAA--TAGGTTAGGTAAATGTTTCA
1942843 TGATAA
1 TGATAA
1942849 GAATTTCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
26 81 0.76
28 26 0.24
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:1944362 original size:26 final size:26
Alignment explanation
Indices: 1944333--1944386 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
1944323 AATTACTGTT
1944333 ATACCCCTAGGTGTAAAATT-ACCGAA
1 ATACCCCTAGG-GTAAAATTGACCGAA
* *
1944359 ATACCCCTAGGGTTAAATTGACCTAA
1 ATACCCCTAGGGTAAAATTGACCGAA
1944385 AT
1 AT
1944387 GCATGTTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (26 bp):
ATACCCCTAGGGTAAAATTGACCGAA
Found at i:1944882 original size:137 final size:137
Alignment explanation
Indices: 1944633--1945055 Score: 812
Period size: 137 Copynumber: 3.1 Consensus size: 137
1944623 GAGTAGTCTC
1944633 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
1944698 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
1944763 ACTGTTA
131 ACTGTTA
1944770 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1944835 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
1944900 ACTGTTA
131 ACTGTTA
1944907 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1944972 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCA-TACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
1945036 ACTGTTA
131 ACTGTTA
**
1945043 CCTGAATGGGCTT
1 CCCAAATGGGCTT
1945056 AGGCCCAATA
Statistics
Matches: 283, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
136 22 0.08
137 261 0.92
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:1948887 original size:26 final size:26
Alignment explanation
Indices: 1948830--1948964 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
1948820 TGATACAAAT
1948830 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
1948855 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
1948881 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
1948907 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
1948933 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
1948959 TGATAA
1 TGATAA
1948965 GAATTTCATG
Statistics
Matches: 106, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
25 21 0.20
26 85 0.80
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:1950992 original size:137 final size:137
Alignment explanation
Indices: 1950743--1951166 Score: 812
Period size: 137 Copynumber: 3.1 Consensus size: 137
1950733 GAGTAGTCTC
1950743 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
1950808 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
1950873 ACTGTTA
131 ACTGTTA
1950880 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1950945 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
1951010 ACTGTTA
131 ACTGTTA
1951017 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
1951082 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
1951147 ACTGTTA
131 ACTGTTA
**
1951154 CCTGAATGGGCTT
1 CCCAAATGGGCTT
1951167 AGGCCCAATA
Statistics
Matches: 283, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 283 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:1952085 original size:3 final size:3
Alignment explanation
Indices: 1952077--1952132 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
1952067 AATGACAATG
* *
1952077 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA AT- GTA GAAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
*
1952121 ATG ATA ATA ATA
1 ATA ATA ATA ATA
1952133 TATGAATAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 3 0.07
3 40 0.91
4 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1952120 original size:29 final size:29
Alignment explanation
Indices: 1952092--1952158 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
1952082 AATAATAATA
**
1952092 ATAATAATAATAATAT-AATGTAGAAAATA
1 ATAATAATAAT-ATATGAATAAAGAAAATA
* *
1952121 ATGATAATAATATATGAATAAAGAAAAAA
1 ATAATAATAATATATGAATAAAGAAAATA
*
1952150 ATAAAAATA
1 ATAATAATA
1952159 TACATACGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (29 bp):
ATAATAATAATATATGAATAAAGAAAATA
Found at i:1952151 original size:32 final size:32
Alignment explanation
Indices: 1952085--1952158 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
1952075 TGATAATAAT
* *
1952085 AATAATAATAATAATAATAATATAATGTAGAA
1 AATAATAATAATAATAATAATATAATGAAAAA
*
1952117 AATAATGATAATAATATATGAATA-AA-GAAAAA
1 AATAATAATAATAATA-AT-AATATAATGAAAAA
*
1952149 AATAAAAATA
1 AATAATAATA
1952159 TACATACGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
32 27 0.77
33 4 0.11
34 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (32 bp):
AATAATAATAATAATAATAATATAATGAAAAA
Found at i:1952354 original size:25 final size:23
Alignment explanation
Indices: 1952311--1952356 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
1952301 GTGATATTAA
1952311 AAATATATACATAAAAATATAAT
1 AAATATATACATAAAAATATAAT
*
1952334 AAATATATATATAATATAATATA
1 AAATATATACATAA-A-AATATA
1952357 TACATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 1 0.05
25 6 0.30
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATATATACATAAAAATATAAT
Found at i:1952355 original size:39 final size:39
Alignment explanation
Indices: 1952312--1952388 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
1952302 TGATATTAAA
*
1952312 AATATATACATAAAAATA-TAATAAATATATATATAATAT
1 AATATATACAT-AAAATAGTAATAAAAATATATATAATAT
* *
1952351 AATATATACATAATATAGTATTAAAAATATATATAATA
1 AATATATACATAAAATAGTAATAAAAATATATATAATA
1952389 CATACACATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 5 0.15
39 29 0.85
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (39 bp):
AATATATACATAAAATAGTAATAAAAATATATATAATAT
Found at i:1952356 original size:16 final size:16
Alignment explanation
Indices: 1952327--1952367 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
1952317 ATACATAAAA
1952327 ATATAATA-AATATAT
1 ATATAATATAATATAT
1952342 ATATAATATAATATAT
1 ATATAATATAATATAT
*
1952358 ACATAATATA
1 ATATAATATA
1952368 GTATTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAATATAATATAT
Done.