Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 55
Found at i:4460910 original size:22 final size:22
Alignment explanation
Indices: 4460882--4460937 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
4460872 TACATCTACA
*
4460882 CTCTTCAAAGATGATAGATTTT
1 CTCTTCAAAGATGATAGATTCT
4460904 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
4460926 CTTTTCAAAGAT
1 CTCTTCAAAGAT
4460938 TAAAGCTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCT
Found at i:4461525 original size:113 final size:112
Alignment explanation
Indices: 4461322--4461735 Score: 599
Period size: 113 Copynumber: 3.7 Consensus size: 112
4461312 TGGATCAACA
* *
4461322 TGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGCAGAAGAAGTTCATAATGAGAA
1 TGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAA
*
4461387 GAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATAGATCAGTAT
66 GAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCA-TAT
* *
4461435 TGCCGGGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAA
1 TGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAA
*
4461500 GAATTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATCAT
66 GAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCAT-AT
*
4461548 TGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAA
1 TGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAA
* *
4461613 GAATTTGTTCCAACC--TT--TTGAATTCATCACTCGATGGATCA-ACTT
66 GAACTTGTT-CAACCTTTTGCTTGAATTCATCACTTGATGGATCATA--T
* * * * *
4461658 TTCCAGAGGA-AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAAAAGAAGTTCGTAATGAGA
1 TGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
4461721 AGAACTTGTTCAACC
65 AGAACTTGTTCAACC
4461736 CTTGCATAAC
Statistics
Matches: 279, Mismatches: 17, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
108 6 0.02
109 29 0.10
110 58 0.21
111 2 0.01
112 3 0.01
113 176 0.63
114 5 0.02
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (112 bp):
TGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAA
GAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATAT
Found at i:4463668 original size:22 final size:19
Alignment explanation
Indices: 4463643--4463699 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 19
4463633 GTTTTAATTT
4463643 TATTTTAATTATTGTTTAAATA
1 TATTTTAATTATTGTTT--A-A
4463665 TATTTTAATTTTATATGTTTAA
1 TATTTTAA--TTAT-TGTTTAA
4463687 TATTTTAATTATT
1 TATTTTAATTATT
4463700 ATTATTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
19 1 0.03
20 4 0.12
22 17 0.53
23 1 0.03
24 4 0.12
25 5 0.16
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (19 bp):
TATTTTAATTATTGTTTAA
Found at i:4470429 original size:18 final size:18
Alignment explanation
Indices: 4470406--4470441 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4470396 AGTGTATTGG
* *
4470406 TGTTTTTATCAATATATT
1 TGTTTTCATAAATATATT
4470424 TGTTTTCATAAATATATT
1 TGTTTTCATAAATATATT
4470442 ATTTTATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.58
Consensus pattern (18 bp):
TGTTTTCATAAATATATT
Found at i:4474518 original size:31 final size:32
Alignment explanation
Indices: 4474482--4474542 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
4474472 GGTAAAAATA
*
4474482 AGAATATATTTATAAATATAAATTT-TTAAAG
1 AGAATATATATATAAATATAAATTTGTTAAAG
* *
4474513 AGAATATATATATATATATACATTTGTTAA
1 AGAATATATATATAAATATAAATTTGTTAA
4474543 TAATATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.43
Consensus pattern (32 bp):
AGAATATATATATAAATATAAATTTGTTAAAG
Found at i:4484823 original size:19 final size:19
Alignment explanation
Indices: 4484799--4484835 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4484789 ATGACCAACA
*
4484799 AAATCGCAGCGCGATCTCT
1 AAATCGCAACGCGATCTCT
4484818 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
4484836 CATTATCGCA
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:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:4484932 original size:21 final size:20
Alignment explanation
Indices: 4484861--4484954 Score: 82
Period size: 20 Copynumber: 4.6 Consensus size: 20
4484851 GTTTCCAGAT
**
4484861 TCGCAATGCGATTTTGACCA
1 TCGCAATGCGATTTTGATAA
*
4484881 TCGCATTGCGATTTTCGA-AA
1 TCGCAATGCGATTTT-GATAA
**
4484901 TCCGCGTTGCGATTTTAGATAA
1 T-CGCAATGCGATTTT-GATAA
* * *
4484923 TCGCAATGCGAATATGTTAA
1 TCGCAATGCGATTTTGATAA
4484943 TCGCAATGCGAT
1 TCGCAATGCGAT
4484955 AACACGTGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
20 31 0.51
21 27 0.44
22 3 0.05
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (20 bp):
TCGCAATGCGATTTTGATAA
Found at i:4484992 original size:20 final size:20
Alignment explanation
Indices: 4484967--4485076 Score: 150
Period size: 20 Copynumber: 5.5 Consensus size: 20
4484957 CACGTGATCA
4484967 CAACGCGATTCTGACTATCG
1 CAACGCGATTCTGACTATCG
*
4484987 CAACGCGATTCGGACTATCG
1 CAACGCGATTCTGACTATCG
* **
4485007 CAACGCAATAAT-ACGTGATCG
1 CAACGCGATTCTGAC-T-ATCG
4485028 CAACGCGATTCTGACTATCG
1 CAACGCGATTCTGACTATCG
*
4485048 CAACGAGATTCTGACTATCG
1 CAACGCGATTCTGACTATCG
4485068 CAACGCGAT
1 CAACGCGAT
4485077 AATATAAAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.03
20 59 0.77
21 14 0.18
22 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (20 bp):
CAACGCGATTCTGACTATCG
Found at i:4485079 original size:61 final size:61
Alignment explanation
Indices: 4484942--4485080 Score: 224
Period size: 61 Copynumber: 2.3 Consensus size: 61
4484932 GAATATGTTA
* * *
4484942 ATCGCAATGCGATAACACGTGATCACAACGCGATTCTGACTATCGCAACGCGATTCGGACT
1 ATCGCAACGCGATAATACGTGATCACAACGCGATTCTGACTATCGCAACGAGATTCGGACT
* * *
4485003 ATCGCAACGCAATAATACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATAATACGTGATCACAACGCGATTCTGACTATCGCAACGAGATTCGGACT
4485064 ATCGCAACGCGATAATA
1 ATCGCAACGCGATAATA
4485081 TAAAATCACA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 71 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (61 bp):
ATCGCAACGCGATAATACGTGATCACAACGCGATTCTGACTATCGCAACGAGATTCGGACT
Found at i:4485097 original size:61 final size:61
Alignment explanation
Indices: 4484963--4485098 Score: 191
Period size: 61 Copynumber: 2.2 Consensus size: 61
4484953 ATAACACGTG
* ***
4484963 ATCACAACGCGATTCTGACTATCGCAACGCGATTCGGACTATCGCAACGCAATAATACGTG
1 ATCACAACGCGATTCTGACTATCGCAACGAGATTCGGACTATCGCAACGCAATAATACAAA
* * * *
4485024 ATCGCAACGCGATTCTGACTATCGCAACGAGATTCTGACTATCGCAACGCGATAATATAAA
1 ATCACAACGCGATTCTGACTATCGCAACGAGATTCGGACTATCGCAACGCAATAATACAAA
*
4485085 ATCACAATGCGATT
1 ATCACAACGCGATT
4485099 TTCAAAGCGC
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (61 bp):
ATCACAACGCGATTCTGACTATCGCAACGAGATTCGGACTATCGCAACGCAATAATACAAA
Found at i:4485263 original size:22 final size:22
Alignment explanation
Indices: 4485238--4485296 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
4485228 CTACGGCGAC
4485238 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* * **
4485260 ATCCATCCCCATTTCCGGTGAA
1 ATCCGTCCCCATCTCCGACGAA
* *
4485282 TTCTGTCCCCATCTC
1 ATCCGTCCCCATCTC
4485297 TGGCAAAATC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.42, G:0.12, T:0.27
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:4485746 original size:20 final size:20
Alignment explanation
Indices: 4485652--4485743 Score: 96
Period size: 20 Copynumber: 4.7 Consensus size: 20
4485642 AACGACAAAA
* **
4485652 TTCGCGTTGCGATAGCCA-T
1 TTCGTGTTGCGATATTCATT
* **
4485671 TTCGTGTTGCGATAGTCAAA
1 TTCGTGTTGCGATATTCATT
* *
4485691 TTCGCGTTGCGATAATCATT
1 TTCGTGTTGCGATATTCATT
*
4485711 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATATTCATT
4485731 TTCGTGTTGCGAT
1 TTCGTGTTGCGAT
4485744 TTTAAGTTTC
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
19 16 0.26
20 46 0.74
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.41
Consensus pattern (20 bp):
TTCGTGTTGCGATATTCATT
Found at i:4485753 original size:20 final size:20
Alignment explanation
Indices: 4485710--4485753 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
4485700 CGATAATCAT
* *
4485710 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
4485730 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
4485750 TTTC
1 TTTC
4485754 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:4487128 original size:18 final size:18
Alignment explanation
Indices: 4487079--4487129 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
4487069 CTCCACTTCG
* *
4487079 AGAGCCATCACCTCACCC
1 AGAGCCAGCACCTGACCC
4487097 AGAGCCAGCACCTGACCC
1 AGAGCCAGCACCTGACCC
4487115 AGAGCCAGCACCTGA
1 AGAGCCAGCACCTGA
4487130 TCGACCACAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.29, C:0.43, G:0.20, T:0.08
Consensus pattern (18 bp):
AGAGCCAGCACCTGACCC
Found at i:4487794 original size:40 final size:38
Alignment explanation
Indices: 4487732--4487912 Score: 128
Period size: 34 Copynumber: 4.9 Consensus size: 38
4487722 AGAAGAATAG
* * *
4487732 TCGCAACACGAAAATGATTATCGCAACGCGAATTTGGCTA
1 TCGCAACGCGAAAATGACTATCGCAACGCGAA--TGACTA
** *
4487772 TCGCAACGCGAATTTGACTATCGCAA--CG-A-GACAA
1 TCGCAACGCGAAAATGACTATCGCAACGCGAATGACTA
* * *
4487806 TCGCAATGCGAAAACGATTATCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTATCGCAACGCG--AATGACTA
* **
4487846 TCGCAACGAGAATTTGACTATCGCAACAG-GAA--A--A
1 TCGCAACGCGAAAATGACTATCGCAAC-GCGAATGACTA
* *
4487880 TCGCAATGAGAAAATGACTATCGCAACGCGAAT
1 TCGCAACGCGAAAATGACTATCGCAACGCGAAT
4487913 TTAGTTTCGC
Statistics
Matches: 111, Mismatches: 21, Indels: 23
0.72 0.14 0.15
Matches are distributed among these distances:
33 1 0.01
34 52 0.47
36 3 0.03
37 1 0.01
38 4 0.04
39 1 0.01
40 48 0.43
41 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (38 bp):
TCGCAACGCGAAAATGACTATCGCAACGCGAATGACTA
Found at i:4487853 original size:74 final size:74
Alignment explanation
Indices: 4487740--4487911 Score: 256
Period size: 74 Copynumber: 2.3 Consensus size: 74
4487730 AGTCGCAACA
** * * *
4487740 CGAAAATGATTATCGCAACGCGAATTTGGCTATCGCAACGCGAATTTGACTATCGCAAC-GAGAC
1 CGAAAATGATTATCGCAACGCGAAAATGACTATCGCAACGAGAATTTGACTATCGCAACAG-GAA
4487804 AATCGCAATG
65 AATCGCAATG
*
4487814 CGAAAACGATTATCGCAACGCGAAAATGACTATCGCAACGAGAATTTGACTATCGCAACAGGAAA
1 CGAAAATGATTATCGCAACGCGAAAATGACTATCGCAACGAGAATTTGACTATCGCAACAGGAAA
4487879 ATCGCAATG
66 ATCGCAATG
* *
4487888 AGAAAATGACTATCGCAACGCGAA
1 CGAAAATGATTATCGCAACGCGAA
4487912 TTTAGTTTCG
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
74 87 0.99
75 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (74 bp):
CGAAAATGATTATCGCAACGCGAAAATGACTATCGCAACGAGAATTTGACTATCGCAACAGGAAA
ATCGCAATG
Found at i:4487904 original size:20 final size:20
Alignment explanation
Indices: 4487732--4487907 Score: 90
Period size: 20 Copynumber: 9.4 Consensus size: 20
4487722 AGAAGAATAG
*
4487732 TCGCAAC-ACGAAAATGATTA
1 TCGCAACGA-GAAAATGACTA
* ** *
4487752 TCGCAACGCGAATTTGGCTA
1 TCGCAACGAGAAAATGACTA
* **
4487772 TCGCAACGCGAATTTGACTA
1 TCGCAACGAGAAAATGACTA
*
4487792 TCGCAAC--G---A-GACAA
1 TCGCAACGAGAAAATGACTA
* * * *
4487806 TCGCAATGCGAAAACGATTA
1 TCGCAACGAGAAAATGACTA
*
4487826 TCGCAACGCGAAAATGACTA
1 TCGCAACGAGAAAATGACTA
**
4487846 TCGCAACGAGAATTTGACTA
1 TCGCAACGAGAAAATGACTA
*
4487866 TCGCAAC-AG-GAA--A--A
1 TCGCAACGAGAAAATGACTA
*
4487880 TCGCAATGAGAAAATGACTA
1 TCGCAACGAGAAAATGACTA
4487900 TCGCAACG
1 TCGCAACG
4487908 CGAATTTAGT
Statistics
Matches: 120, Mismatches: 23, Indels: 26
0.71 0.14 0.15
Matches are distributed among these distances:
14 17 0.14
15 2 0.02
16 4 0.03
18 2 0.02
19 3 0.03
20 92 0.77
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (20 bp):
TCGCAACGAGAAAATGACTA
Found at i:4487929 original size:19 final size:19
Alignment explanation
Indices: 4487907--4487948 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
4487897 CTATCGCAAC
4487907 GCGAATTTAGTTTCGCGTT
1 GCGAATTTAGTTTCGCGTT
* *
4487926 GCGATTTTGGTTTCGCGTT
1 GCGAATTTAGTTTCGCGTT
4487945 GCGA
1 GCGA
4487949 TTTTCTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.12, C:0.17, G:0.31, T:0.40
Consensus pattern (19 bp):
GCGAATTTAGTTTCGCGTT
Found at i:4487949 original size:19 final size:19
Alignment explanation
Indices: 4487916--4487952 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4487906 CGCGAATTTA
4487916 GTTTCGCGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
4487935 GTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
4487953 CTTATTGCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.05, C:0.16, G:0.30, T:0.49
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTG
Found at i:4487998 original size:20 final size:20
Alignment explanation
Indices: 4487957--4488022 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
4487947 GATTTTCTTA
*
4487957 TTGCGATAGTC-ATTTCGCG
1 TTGCGATAGTCAATTTCGTG
*
4487976 TTGCGATAGTCAAATTCGTG
1 TTGCGATAGTCAATTTCGTG
* * *
4487996 TTGCGATAATCATTTTCATG
1 TTGCGATAGTCAATTTCGTG
4488016 TTGCGAT
1 TTGCGAT
4488023 TTTAAGTTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 11 0.28
20 29 0.73
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCAATTTCGTG
Found at i:4488032 original size:20 final size:20
Alignment explanation
Indices: 4488009--4488053 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
4487999 CGATAATCAT
*
4488009 TTTCATGTTGCGATTTTAAG
1 TTTCATGTTACGATTTTAAG
*
4488029 TTTCGTGTTACGATTTTAAG
1 TTTCATGTTACGATTTTAAG
4488049 TTTCA
1 TTTCA
4488054 GAAACTATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.11, G:0.18, T:0.51
Consensus pattern (20 bp):
TTTCATGTTACGATTTTAAG
Found at i:4488624 original size:21 final size:20
Alignment explanation
Indices: 4488539--4488629 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 20
4488529 CCTATCATTA
*
4488539 TTCAAGAGGCCTCTCCTATCG
1 TTCAAGAGGCCCCTCC-ATCG
* * *
4488560 TTCAAGAGGCCCCTATCTTCC
1 TTCAAGAGGCCCCT-CCATCG
* * *
4488581 CTCAAGAGTCCCCTCCCACCG
1 TTCAAGAGGCCCCT-CCATCG
*
4488602 TTCAAGAGGCCCCTGTCATCG
1 TTCAAGAGGCCCCT-CCATCG
*
4488623 TTGAAGA
1 TTCAAGA
4488630 TGTCCCTCCC
Statistics
Matches: 52, Mismatches: 17, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
21 51 0.98
22 1 0.02
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (20 bp):
TTCAAGAGGCCCCTCCATCG
Found at i:4488640 original size:42 final size:42
Alignment explanation
Indices: 4488540--4488621 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
4488530 CTATCATTAT
* * * * *
4488540 TCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCCTATCTTCCC
1 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
*
4488582 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTGTCATC
1 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATC
4488622 GTTGAAGATG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.20, C:0.40, G:0.17, T:0.23
Consensus pattern (42 bp):
TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
Found at i:4490094 original size:36 final size:30
Alignment explanation
Indices: 4490014--4490079 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
4490004 ATAAGAGTTG
*
4490014 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTATT
4490044 ATTTGTTTAATTGATGTGTAAATAATTATT
1 ATTTGTTTAATTGATGTGTAAATAATTATT
4490074 ATTTGT
1 ATTTGT
4490080 GCTTGTTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.55
Consensus pattern (30 bp):
ATTTGTTTAATTGATGTGTAAATAATTATT
Found at i:4490254 original size:20 final size:20
Alignment explanation
Indices: 4490229--4490492 Score: 266
Period size: 20 Copynumber: 13.8 Consensus size: 20
4490219 GCGATTTTCT
*
4490229 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
* *
4490249 CGTTGCGATAATCAAATTTG
1 CGTTGCGATAGTCAAATTCG
*
4490269 CGTTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAAATTCG
*
4490288 CGTTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
4490302 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
4490322 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
**
4490342 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
4490362 CATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* **
4490382 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
4490402 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
* *
4490416 CGTTGCGATATTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
4490436 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
4490456 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
4490476 CGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
4490493 GAATGTGTAA
Statistics
Matches: 208, Mismatches: 24, Indels: 24
0.81 0.09 0.09
Matches are distributed among these distances:
14 21 0.10
16 2 0.01
17 1 0.00
18 1 0.00
19 15 0.07
20 168 0.81
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:4490255 original size:34 final size:34
Alignment explanation
Indices: 4490195--4490484 Score: 143
Period size: 40 Copynumber: 7.9 Consensus size: 34
4490185 ATCATATTCG
* * * *
4490195 CGTTGCGATAGTCTAATACACTTTGCGATTTTCT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
*
4490229 CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATT-T
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT--T----TTCT
* *
4490268 GCGTTGCGATAGTC-ATTTCGCGTTGCGATTATCT
1 -CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
*
4490302 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCGCGTTGC----G--ATTTTCT
** * *
4490342 CGTTGCGATAGTCATTTTCGCATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT--T----TTCT
* ** * * *
4490382 CATTGCGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
* * *
4490416 CGTTGCGATATTCAAATTCACGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCGCGTTGCG--A-T--T-TTCT
*
4490456 CGTTGCGATAGTCATATTCGCGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT
4490485 AGTCAAATGA
Statistics
Matches: 202, Mismatches: 27, Indels: 51
0.72 0.10 0.18
Matches are distributed among these distances:
33 14 0.07
34 62 0.31
36 4 0.02
37 3 0.01
38 3 0.01
39 15 0.07
40 101 0.50
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
Found at i:4490314 original size:73 final size:73
Alignment explanation
Indices: 4490185--4490370 Score: 239
Period size: 73 Copynumber: 2.5 Consensus size: 73
4490175 TTCAATCTGC
* * * * * * *
4490185 ATCATATTCGCGTTGCGATAGTCTAATACACTTTGCGATTTTCTCGTTGCGATAGTCAAATTCCC
1 ATCAAATTTGCGTTGCGATAGTC-ATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCCC
4490250 GTTGCGATA
65 GTTGCGATA
* *
4490259 ATCAAATTTGCGTTGCGATAGTCATTTCGCGTTGCGATTATCTCGTTGCGATAGTCAAATTCGCG
1 ATCAAATTTGCGTTGCGATAGTCATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCCCG
4490324 TTGCGATA
66 TTGCGATA
* *
4490332 GTC-ATTTTCGCGTTGCGATAGTCATTTTCGCATTGCGAT
1 ATCAAATTT-GCGTTGCGATAGTCA-TTTCGCATTGCGAT
4490371 AGTCAAATTC
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
72 4 0.04
73 61 0.62
74 34 0.34
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (73 bp):
ATCAAATTTGCGTTGCGATAGTCATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCCCG
TTGCGATA
Found at i:4490450 original size:114 final size:113
Alignment explanation
Indices: 4490222--4490492 Score: 416
Period size: 114 Copynumber: 2.4 Consensus size: 113
4490212 ACACTTTGCG
* * * * * *
4490222 ATTTTCTCGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTTGCGTTGCGATAGTCATTTC
1 ATTTTCGCGTTGCGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTC
* * *
4490287 GCGTTGCGATTATCTCGTTGCGATAGTCAAATTCGCGTTGCGATAGTC
66 GCATTGCGATTATCCCGTTGCGATAGTCAAATTCACGTTGCGATAGTC
* *
4490335 ATTTTCGCGTTGCGATAGTCATTTTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCATTTT
1 ATTTTCGCGTTGCGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCATTGCGATAGTCA-TTT
*
4490400 CGCATTGCGATTATCCCGTTGCGATATTCAAATTCACGTTGCGATAGTC
65 CGCATTGCGATTATCCCGTTGCGATAGTCAAATTCACGTTGCGATAGTC
*
4490449 ATATTCGCGTTGCGATAGTCATATTCGCGTTGCGATAGTCAAAT
1 ATTTTCGCGTTGCGATAGTCATATTCGCGTTGCGATAGTCAAAT
4490493 GAATGTGTAA
Statistics
Matches: 142, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
113 53 0.37
114 89 0.63
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (113 bp):
ATTTTCGCGTTGCGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTC
GCATTGCGATTATCCCGTTGCGATAGTCAAATTCACGTTGCGATAGTC
Found at i:4493840 original size:20 final size:20
Alignment explanation
Indices: 4493812--4493898 Score: 104
Period size: 20 Copynumber: 4.3 Consensus size: 20
4493802 AATTCAGTGA
* *
4493812 TGCGTTAGTCAGAATCTCGT
1 TGCGATAGTCAGAATCGCGT
4493832 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
**
4493852 TGCGATCACGT-ATTATCGCGT
1 TGCGAT-A-GTCAGAATCGCGT
*
4493873 TGCGATAGTCCGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
4493893 TGCGAT
1 TGCGAT
4493899 TACGTGTTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
19 2 0.04
20 38 0.67
21 15 0.26
22 2 0.04
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.30
Consensus pattern (20 bp):
TGCGATAGTCAGAATCGCGT
Found at i:4493874 original size:41 final size:41
Alignment explanation
Indices: 4493829--4493909 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
4493819 GTCAGAATCT
4493829 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
* * *
4493870 CGTTGCGATAGTCCGAATCGCGTTGCGATTACGTGTTATC
1 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATC
4493910 TAAAATCGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (41 bp):
CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
Found at i:4494003 original size:20 final size:19
Alignment explanation
Indices: 4493980--4494026 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
4493970 TGGAAACTGA
*
4493980 ATTGCGATAATGGAGATCGC
1 ATTGCGAT-ATAGAGATCGC
* *
4494000 ATTGCGATTTAGAGATTGC
1 ATTGCGATATAGAGATCGC
4494019 ATTGCGAT
1 ATTGCGAT
4494027 TTTGTTGGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (19 bp):
ATTGCGATATAGAGATCGC
Found at i:4494020 original size:19 final size:19
Alignment explanation
Indices: 4493992--4494028 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4493982 TGCGATAATG
4493992 GAGATCGCATTGCGATTTA
1 GAGATCGCATTGCGATTTA
*
4494011 GAGATTGCATTGCGATTT
1 GAGATCGCATTGCGATTT
4494029 TGTTGGTCAT
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:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:4496540 original size:2 final size:2
Alignment explanation
Indices: 4496533--4496580 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
4496523 TTTAAAGAGA
4496533 AT AT AT AT AT 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 AT AT AT AT AT
4496575 AT AT AT
1 AT AT AT
4496581 TTGTTAATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4497392 original size:15 final size:15
Alignment explanation
Indices: 4497372--4497401 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4497362 TAAAGAATTG
4497372 TTCGGACACGACATT
1 TTCGGACACGACATT
4497387 TTCGGACACGACATT
1 TTCGGACACGACATT
4497402 GTTCAGGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (15 bp):
TTCGGACACGACATT
Found at i:4499737 original size:18 final size:18
Alignment explanation
Indices: 4499714--4499750 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4499704 AGTGTATTGG
* *
4499714 TGTTTTTATCAATATATT
1 TGTTTTCATAAATATATT
4499732 TGTTTTCATAAATATATT
1 TGTTTTCATAAATATATT
4499750 T
1 T
4499751 TTATTATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (18 bp):
TGTTTTCATAAATATATT
Found at i:4499776 original size:13 final size:13
Alignment explanation
Indices: 4499743--4499781 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
4499733 GTTTTCATAA
*
4499743 ATATATTTTTATT
1 ATATATATTTATT
4499756 AT-TATATTTATT
1 ATATATATTTATT
4499768 ATATATATTTATT
1 ATATATATTTATT
4499781 A
1 A
4499782 AAAAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATATATATTTATT
Found at i:4501442 original size:29 final size:29
Alignment explanation
Indices: 4501404--4501459 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
4501394 ATCGCGGTTA
4501404 ATTAAGTTTAATTTAATATATTAAAAATT
1 ATTAAGTTTAATTTAATATATTAAAAATT
*
4501433 ATTAATTTTAATTTAATATATTAAAAA
1 ATTAAGTTTAATTTAATATATTAAAAA
4501460 ATAAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
ATTAAGTTTAATTTAATATATTAAAAATT
Found at i:4508758 original size:25 final size:25
Alignment explanation
Indices: 4508707--4508758 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
4508697 AACTCATTTG
* * *
4508707 ATTTTATTTTAAATATAATATATAT
1 ATTTTAATTTAAATACAATATAAAT
4508732 ATTTTAATTTAAATACACAT-TAAAT
1 ATTTTAATTTAAATACA-ATATAAAT
4508757 AT
1 AT
4508759 CTAAAACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (25 bp):
ATTTTAATTTAAATACAATATAAAT
Found at i:4510338 original size:15 final size:15
Alignment explanation
Indices: 4510318--4510347 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4510308 TAAAGAATTG
4510318 TTCGGACACGACATT
1 TTCGGACACGACATT
4510333 TTCGGACACGACATT
1 TTCGGACACGACATT
4510348 GTTCAGGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (15 bp):
TTCGGACACGACATT
Found at i:4512436 original size:19 final size:19
Alignment explanation
Indices: 4512414--4512458 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
4512404 AACTAATTGC
*
4512414 CTAACAAACTAGCTAACCA
1 CTAACAAAATAGCTAACCA
*
4512433 CTAACAAAATGGCTAACCA
1 CTAACAAAATAGCTAACCA
4512452 CTCAACA
1 CT-AACA
4512459 CACGTGTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.47, C:0.31, G:0.07, T:0.16
Consensus pattern (19 bp):
CTAACAAAATAGCTAACCA
Found at i:4516180 original size:2 final size:2
Alignment explanation
Indices: 4516173--4516216 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
4516163 TTTAAAGAGA
4516173 AT AT AT AT AT 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 AT AT AT AT AT
4516215 AT
1 AT
4516217 TTGTTAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4526605 original size:21 final size:20
Alignment explanation
Indices: 4526568--4526640 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
4526558 GTTTCCAGAT
* *
4526568 TCGCAATGCGA-TTTTGACCA
1 TCGCATTGCGATTTTTGA-AA
4526588 TCGCATTGCGATTTTTGAAA
1 TCGCATTGCGATTTTTGAAA
* *
4526608 TCCGCGTTGCGATTTTAGATAA
1 T-CGCATTGCGATTTTTGA-AA
*
4526630 TCGCAATGCGA
1 TCGCATTGCGA
4526641 ATATGTTAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 12 0.27
21 29 0.66
22 3 0.07
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.33
Consensus pattern (20 bp):
TCGCATTGCGATTTTTGAAA
Found at i:4526699 original size:20 final size:20
Alignment explanation
Indices: 4526674--4526783 Score: 141
Period size: 20 Copynumber: 5.5 Consensus size: 20
4526664 CACGTGATCA
4526674 CAACGCGATTCTGACTATCG
1 CAACGCGATTCTGACTATCG
*
4526694 CAACGCGATTCGGACTATCG
1 CAACGCGATTCTGACTATCG
* **
4526714 CAACGCAATAAT-ACGTGATCG
1 CAACGCGATTCTGAC-T-ATCG
*
4526735 CAACGCGATTCTGACTATCA
1 CAACGCGATTCTGACTATCG
*
4526755 CAACGAGATTCTGACTATCG
1 CAACGCGATTCTGACTATCG
4526775 CAACGCGAT
1 CAACGCGAT
4526784 AATATAAAAT
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.03
20 57 0.76
21 14 0.19
22 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (20 bp):
CAACGCGATTCTGACTATCG
Found at i:4526786 original size:61 final size:61
Alignment explanation
Indices: 4526649--4526787 Score: 215
Period size: 61 Copynumber: 2.3 Consensus size: 61
4526639 GAATATGTTA
* * * *
4526649 ATCGCAATGCGATAACACGTGATCACAACGCGATTCTGACTATCGCAACGCGATTCGGACT
1 ATCGCAACGCGATAATACGTGATCACAACGCGATTCTGACTATCACAACGAGATTCGGACT
* * *
4526710 ATCGCAACGCAATAATACGTGATCGCAACGCGATTCTGACTATCACAACGAGATTCTGACT
1 ATCGCAACGCGATAATACGTGATCACAACGCGATTCTGACTATCACAACGAGATTCGGACT
4526771 ATCGCAACGCGATAATA
1 ATCGCAACGCGATAATA
4526788 TAAAATCACA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 70 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (61 bp):
ATCGCAACGCGATAATACGTGATCACAACGCGATTCTGACTATCACAACGAGATTCGGACT
Found at i:4526804 original size:61 final size:61
Alignment explanation
Indices: 4526670--4526805 Score: 182
Period size: 61 Copynumber: 2.2 Consensus size: 61
4526660 ATAACACGTG
* * ***
4526670 ATCACAACGCGATTCTGACTATCGCAACGCGATTCGGACTATCGCAACGCAATAATACGTG
1 ATCACAACGCGATTCTGACTATCACAACGAGATTCGGACTATCGCAACGCAATAATACAAA
* * * *
4526731 ATCGCAACGCGATTCTGACTATCACAACGAGATTCTGACTATCGCAACGCGATAATATAAA
1 ATCACAACGCGATTCTGACTATCACAACGAGATTCGGACTATCGCAACGCAATAATACAAA
*
4526792 ATCACAATGCGATT
1 ATCACAACGCGATT
4526806 TTCAAAGCGC
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (61 bp):
ATCACAACGCGATTCTGACTATCACAACGAGATTCGGACTATCGCAACGCAATAATACAAA
Found at i:4527015 original size:22 final size:22
Alignment explanation
Indices: 4526938--4527017 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
4526928 TCACTCTCTA
* *
4526938 CGGCGACATCCGTCCCCATCTC
1 CGGCGAAATCTGTCCCCATCTC
* ** *
4526960 CGACGAAATCCATCCCCATTTC
1 CGGCGAAATCTGTCCCCATCTC
*
4526982 CGGCGAATTCTGTCCCCATCTC
1 CGGCGAAATCTGTCCCCATCTC
* *
4527004 TGGCAAAATCTGTC
1 CGGCGAAATCTGTC
4527018 TATCTCCTTC
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.20, C:0.40, G:0.16, T:0.24
Consensus pattern (22 bp):
CGGCGAAATCTGTCCCCATCTC
Found at i:4527406 original size:20 final size:19
Alignment explanation
Indices: 4527356--4527410 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
4527346 CACAACGACA
4527356 AAATTCGCGTTGCGATAGC
1 AAATTCGCGTTGCGATAGC
* * *
4527375 CATTTCGTGTTGCGATAGTC
1 AAATTCGCGTTGCGATAG-C
4527395 AAATTCGCGTTGCGAT
1 AAATTCGCGTTGCGAT
4527411 TTTCATTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (19 bp):
AAATTCGCGTTGCGATAGC
Found at i:4527440 original size:20 final size:20
Alignment explanation
Indices: 4527398--4527440 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4527388 GATAGTCAAA
* *
4527398 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTAAGT
*
4527418 TTCGTGTTGCGATTTTAAGT
1 TTCGCGTTGCGATTTTAAGT
4527438 TTC
1 TTC
4527441 AGAAACTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.51
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTAAGT
Found at i:4528815 original size:18 final size:18
Alignment explanation
Indices: 4528768--4528816 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
4528758 CCACTTCGAG
* * *
4528768 AGCCATCACCTCACCCAG
1 AGCCAGCACCTGACCCAA
4528786 AGCCAGCACCTGACCCAA
1 AGCCAGCACCTGACCCAA
4528804 AGCCAGCACCTGA
1 AGCCAGCACCTGA
4528817 TCGACCACAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.31, C:0.45, G:0.16, T:0.08
Consensus pattern (18 bp):
AGCCAGCACCTGACCCAA
Found at i:4529502 original size:20 final size:20
Alignment explanation
Indices: 4529479--4529601 Score: 105
Period size: 20 Copynumber: 6.5 Consensus size: 20
4529469 CGAAAATGAT
*
4529479 TATCGCAACGCGAATTTGGC
1 TATCGCAACGCGAATTTGAC
4529499 TATCGCAACGCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
*
4529519 TATCGCAA--TG-A---GAC
1 TATCGCAACGCGAATTTGAC
* * *** *
4529533 AATCGCAATGCGAAAACGAT
1 TATCGCAACGCGAATTTGAC
**
4529553 TATCGCAACGCGAAAATGAC
1 TATCGCAACGCGAATTTGAC
*
4529573 TATCGCAACGAGAATTTGAC
1 TATCGCAACGCGAATTTGAC
4529593 TATCGCAAC
1 TATCGCAAC
4529602 AGGAAAATCG
Statistics
Matches: 85, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
14 10 0.12
16 1 0.01
17 2 0.02
18 1 0.01
20 71 0.84
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (20 bp):
TATCGCAACGCGAATTTGAC
Found at i:4529523 original size:40 final size:38
Alignment explanation
Indices: 4529461--4529641 Score: 119
Period size: 34 Copynumber: 4.9 Consensus size: 38
4529451 AGAAGAATAG
* * *
4529461 TCGCAACACGAAAATGATTATCGCAACGCGAATTTGGCTA
1 TCGCAACGCGAAAATGACTATCGCAACGCGAA--TGACTA
** * *
4529501 TCGCAACGCGAATTTGACTATCGCAA--TG-A-GACAA
1 TCGCAACGCGAAAATGACTATCGCAACGCGAATGACTA
* * *
4529535 TCGCAATGCGAAAACGATTATCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTATCGCAACGCG--AATGACTA
* **
4529575 TCGCAACGAGAATTTGACTATCGCAACAG-GAA--A--A
1 TCGCAACGCGAAAATGACTATCGCAAC-GCGAATGACTA
* *
4529609 TCGCAATGAGAAAATGACTATCGCAACGCGAAT
1 TCGCAACGCGAAAATGACTATCGCAACGCGAAT
4529642 TTAGTTTCGC
Statistics
Matches: 109, Mismatches: 23, Indels: 23
0.70 0.15 0.15
Matches are distributed among these distances:
33 1 0.01
34 52 0.48
36 2 0.02
37 1 0.01
38 3 0.03
39 1 0.01
40 48 0.44
41 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.19
Consensus pattern (38 bp):
TCGCAACGCGAAAATGACTATCGCAACGCGAATGACTA
Found at i:4529539 original size:54 final size:54
Alignment explanation
Indices: 4529480--4529585 Score: 131
Period size: 54 Copynumber: 2.0 Consensus size: 54
4529470 GAAAATGATT
*** * ** *
4529480 ATCGCAACGCGAATTTGGCTATCGCAACGCGAATTTGACTATCGCAATGAGACA
1 ATCGCAACGCGAAAACGACTATCGCAACGCGAAAATGACTATCGCAACGAGACA
* *
4529534 ATCGCAATGCGAAAACGATTATCGCAACGCGAAAATGACTATCGCAACGAGA
1 ATCGCAACGCGAAAACGACTATCGCAACGCGAAAATGACTATCGCAACGAGA
4529586 ATTTGACTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.19
Consensus pattern (54 bp):
ATCGCAACGCGAAAACGACTATCGCAACGCGAAAATGACTATCGCAACGAGACA
Found at i:4529582 original size:74 final size:74
Alignment explanation
Indices: 4529469--4529640 Score: 247
Period size: 74 Copynumber: 2.3 Consensus size: 74
4529459 AGTCGCAACA
** * * * *
4529469 CGAAAATGATTATCGCAACGCGAATTTGGCTATCGCAACGCGAATTTGACTATCGCAA-TGAGAC
1 CGAAAATGATTATCGCAACGCGAAAATGACTATCGCAACGAGAATTTGACTATCGCAACAG-GAA
4529533 AATCGCAATG
65 AATCGCAATG
*
4529543 CGAAAACGATTATCGCAACGCGAAAATGACTATCGCAACGAGAATTTGACTATCGCAACAGGAAA
1 CGAAAATGATTATCGCAACGCGAAAATGACTATCGCAACGAGAATTTGACTATCGCAACAGGAAA
4529608 ATCGCAATG
66 ATCGCAATG
* *
4529617 AGAAAATGACTATCGCAACGCGAA
1 CGAAAATGATTATCGCAACGCGAA
4529641 TTTAGTTTCG
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
74 86 0.99
75 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (74 bp):
CGAAAATGATTATCGCAACGCGAAAATGACTATCGCAACGAGAATTTGACTATCGCAACAGGAAA
ATCGCAATG
Found at i:4529633 original size:20 final size:20
Alignment explanation
Indices: 4529534--4529636 Score: 83
Period size: 20 Copynumber: 5.5 Consensus size: 20
4529524 CAATGAGACA
* * * *
4529534 ATCGCAATGCGAAAACGATT
1 ATCGCAACGAGAAAATGACT
*
4529554 ATCGCAACGCGAAAATGACT
1 ATCGCAACGAGAAAATGACT
**
4529574 ATCGCAACGAGAATTTGACT
1 ATCGCAACGAGAAAATGACT
*
4529594 ATCGCAAC-AG-GAA--A--
1 ATCGCAACGAGAAAATGACT
*
4529608 ATCGCAATGAGAAAATGACT
1 ATCGCAACGAGAAAATGACT
4529628 ATCGCAACG
1 ATCGCAACG
4529637 CGAATTTAGT
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
14 7 0.11
15 2 0.03
16 3 0.05
18 1 0.02
19 2 0.03
20 50 0.77
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.17
Consensus pattern (20 bp):
ATCGCAACGAGAAAATGACT
Found at i:4529658 original size:19 final size:19
Alignment explanation
Indices: 4529636--4529677 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
4529626 CTATCGCAAC
4529636 GCGAATTTAGTTTCGCGTT
1 GCGAATTTAGTTTCGCGTT
* *
4529655 GCGATTTTGGTTTCGCGTT
1 GCGAATTTAGTTTCGCGTT
4529674 GCGA
1 GCGA
4529678 TTTTCTTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.12, C:0.17, G:0.31, T:0.40
Consensus pattern (19 bp):
GCGAATTTAGTTTCGCGTT
Found at i:4529678 original size:19 final size:19
Alignment explanation
Indices: 4529645--4529681 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4529635 CGCGAATTTA
4529645 GTTTCGCGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
4529664 GTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
4529682 CTTGTTGCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.05, C:0.16, G:0.30, T:0.49
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTG
Found at i:4529727 original size:20 final size:20
Alignment explanation
Indices: 4529679--4529751 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
4529669 GCGTTGCGAT
*
4529679 TTTCTTGTTGCGATAGTC-A
1 TTTCGTGTTGCGATAGTCAA
*
4529698 TTTCGCGTTGCGATAGTCAA
1 TTTCGTGTTGCGATAGTCAA
* * *
4529718 ATTCGTGTTGCGATAATCAT
1 TTTCGTGTTGCGATAGTCAA
*
4529738 TTTCATGTTGCGAT
1 TTTCGTGTTGCGAT
4529752 TTTAAGTTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 16 0.36
20 29 0.64
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.42
Consensus pattern (20 bp):
TTTCGTGTTGCGATAGTCAA
Found at i:4529761 original size:20 final size:20
Alignment explanation
Indices: 4529738--4529782 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
4529728 CGATAATCAT
*
4529738 TTTCATGTTGCGATTTTAAG
1 TTTCATGTTACGATTTTAAG
*
4529758 TTTCGTGTTACGATTTTAAG
1 TTTCATGTTACGATTTTAAG
4529778 TTTCA
1 TTTCA
4529783 GAAACTATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.11, G:0.18, T:0.51
Consensus pattern (20 bp):
TTTCATGTTACGATTTTAAG
Found at i:4530353 original size:21 final size:20
Alignment explanation
Indices: 4530268--4530358 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 20
4530258 CCTATCATTA
*
4530268 TTCAAGAGGCCTCTCCTATCG
1 TTCAAGAGGCCCCTCC-ATCG
* * *
4530289 TTCAAGAGGCCCCTATCTTCC
1 TTCAAGAGGCCCCT-CCATCG
* * *
4530310 CTCAAGAGTCCCCTCCCACCG
1 TTCAAGAGGCCCCT-CCATCG
*
4530331 TTCAAGAGGCCCCTGTCATCG
1 TTCAAGAGGCCCCT-CCATCG
*
4530352 TTGAAGA
1 TTCAAGA
4530359 TGTCCCTCCC
Statistics
Matches: 52, Mismatches: 17, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
21 51 0.98
22 1 0.02
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (20 bp):
TTCAAGAGGCCCCTCCATCG
Found at i:4530369 original size:42 final size:42
Alignment explanation
Indices: 4530269--4530350 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
4530259 CTATCATTAT
* * * * *
4530269 TCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCCTATCTTCCC
1 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
*
4530311 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTGTCATC
1 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATC
4530351 GTTGAAGATG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.20, C:0.40, G:0.17, T:0.23
Consensus pattern (42 bp):
TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
Found at i:4531822 original size:36 final size:30
Alignment explanation
Indices: 4531742--4531807 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
4531732 ATAAGAGTTG
*
4531742 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTATT
4531772 ATTTGTTTAATTGATGTGTAAATAATTATT
1 ATTTGTTTAATTGATGTGTAAATAATTATT
4531802 ATTTGT
1 ATTTGT
4531808 GCTTGTTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.55
Consensus pattern (30 bp):
ATTTGTTTAATTGATGTGTAAATAATTATT
Found at i:4531982 original size:20 final size:20
Alignment explanation
Indices: 4531957--4532240 Score: 297
Period size: 20 Copynumber: 14.8 Consensus size: 20
4531947 GCGATTTTCT
*
4531957 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
* *
4531977 CGTTGCGATAATCAAATTTG
1 CGTTGCGATAGTCAAATTCG
*
4531997 CGTTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAAATTCG
*
4532016 CGTTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
4532030 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
4532050 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
**
4532070 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
4532090 CATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* **
4532110 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
4532130 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
* *
4532144 CGTTGCGATATTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
4532164 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
4532184 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
4532204 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
4532224 CGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
4532241 GAATGTGTAA
Statistics
Matches: 228, Mismatches: 24, Indels: 24
0.83 0.09 0.09
Matches are distributed among these distances:
14 21 0.09
16 2 0.01
17 1 0.00
18 1 0.00
19 15 0.07
20 188 0.82
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:4531983 original size:34 final size:34
Alignment explanation
Indices: 4531923--4532212 Score: 143
Period size: 40 Copynumber: 7.9 Consensus size: 34
4531913 ATCATATTCG
* * * *
4531923 CGTTGCGATAGTCTAATACACTTTGCGATTTTCT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
*
4531957 CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATT-T
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT--T----TTCT
* *
4531996 GCGTTGCGATAGTC-ATTTCGCGTTGCGATTATCT
1 -CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
*
4532030 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCGCGTTGC----G--ATTTTCT
** * *
4532070 CGTTGCGATAGTCATTTTCGCATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT--T----TTCT
* ** * * *
4532110 CATTGCGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
* * *
4532144 CGTTGCGATATTCAAATTCACGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCGCGTTGCG--A-T--T-TTCT
*
4532184 CGTTGCGATAGTCATATTCGCGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT
4532213 AGTCATATTC
Statistics
Matches: 202, Mismatches: 27, Indels: 51
0.72 0.10 0.18
Matches are distributed among these distances:
33 14 0.07
34 62 0.31
36 4 0.02
37 3 0.01
38 3 0.01
39 15 0.07
40 101 0.50
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
Found at i:4532042 original size:73 final size:73
Alignment explanation
Indices: 4531913--4532098 Score: 239
Period size: 73 Copynumber: 2.5 Consensus size: 73
4531903 TTCAATCTGC
* * * * * * *
4531913 ATCATATTCGCGTTGCGATAGTCTAATACACTTTGCGATTTTCTCGTTGCGATAGTCAAATTCCC
1 ATCAAATTTGCGTTGCGATAGTC-ATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCCC
4531978 GTTGCGATA
65 GTTGCGATA
* *
4531987 ATCAAATTTGCGTTGCGATAGTCATTTCGCGTTGCGATTATCTCGTTGCGATAGTCAAATTCGCG
1 ATCAAATTTGCGTTGCGATAGTCATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCCCG
4532052 TTGCGATA
66 TTGCGATA
* *
4532060 GTC-ATTTTCGCGTTGCGATAGTCATTTTCGCATTGCGAT
1 ATCAAATTT-GCGTTGCGATAGTCA-TTTCGCATTGCGAT
4532099 AGTCAAATTC
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
72 4 0.04
73 61 0.62
74 34 0.34
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (73 bp):
ATCAAATTTGCGTTGCGATAGTCATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCCCG
TTGCGATA
Found at i:4532168 original size:94 final size:94
Alignment explanation
Indices: 4531918--4532232 Score: 291
Period size: 94 Copynumber: 3.4 Consensus size: 94
4531908 TCTGCATCAT
* * * * * * *
4531918 ATTCGCGTTGCGATAGTC-TAATACACTTTGCGATTTTCTCGTTGCGATAGTCAAATTCCCGTTG
1 ATTCGCATTGCGATAGTCAT-ATTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCACGTTG
* * * *
4531982 CGATAATCAAATTTGCGTTGCGATAGTC-A
65 CGATAGTCATATTCGCATTGCGATAGTCAA
* * * * * * * ** *
4532011 TTTCGCGTTGCGATTA-TC-TCGTT-GCGATAGTCAAAT-TCGCGTTGCGATAGTCATTTTCGCG
1 ATTCGCATTGCGA-TAGTCAT-ATTCGC-ATTG-CGATTATCCCGTTGCGATAGTCAAATTCACG
*
4532072 TTGCGATAGTCATTTTCGCATTGCGATAGTCAA
62 TTGCGATAGTCATATTCGCATTGCGATAGTCAA
* *
4532105 ATTCGCATTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATATTCAAATTCACGTTGC
1 ATTCGCATTGCGATAGTCATATTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCACGTTGC
* *
4532170 GATAGTCATATTCGCGTTGCGATAGTCAT
66 GATAGTCATATTCGCATTGCGATAGTCAA
* *
4532199 ATTCGCGTTGCGATAGTCATATTCGCGTTGCGAT
1 ATTCGCATTGCGATAGTCATATTCGCATTGCGAT
4532233 AGTCAAATGA
Statistics
Matches: 179, Mismatches: 35, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
92 1 0.01
93 70 0.39
94 105 0.59
95 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (94 bp):
ATTCGCATTGCGATAGTCATATTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCACGTTGC
GATAGTCATATTCGCATTGCGATAGTCAA
Found at i:4532178 original size:114 final size:113
Alignment explanation
Indices: 4531950--4532237 Score: 441
Period size: 114 Copynumber: 2.5 Consensus size: 113
4531940 ACACTTTGCG
* * * * *
4531950 ATTTTCTCGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTTGCGTTGCGATAGTCATTTC
1 ATTTTCGCGTTGCGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTC
* * *
4532015 GCGTTGCGATTATCTCGTTGCGATAGTCAAATTCGCGTTGCGATAGTC
66 GCATTGCGATTATCCCGTTGCGATAGTCAAATTCACGTTGCGATAGTC
* * *
4532063 ATTTTCGCGTTGCGATAGTCATTTTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCATTTT
1 ATTTTCGCGTTGCGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCA-TTT
*
4532128 CGCATTGCGATTATCCCGTTGCGATATTCAAATTCACGTTGCGATAGTC
65 CGCATTGCGATTATCCCGTTGCGATAGTCAAATTCACGTTGCGATAGTC
* *
4532177 ATATTCGCGTTGCGATAGTCATATTCGCGTTGCGATAGTCATATTCGCGTTGCGATAGTCA
1 ATTTTCGCGTTGCGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCA
4532238 AATGAATGTG
Statistics
Matches: 157, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
113 53 0.34
114 104 0.66
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (113 bp):
ATTTTCGCGTTGCGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTC
GCATTGCGATTATCCCGTTGCGATAGTCAAATTCACGTTGCGATAGTC
Found at i:4534713 original size:24 final size:24
Alignment explanation
Indices: 4534686--4534739 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4534676 CTGAAACATC
* *
4534686 ATCAAAATCTGAGTATTGATCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
4534710 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
4534734 ATCAAA
1 ATCAAA
4534740 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:4535588 original size:20 final size:20
Alignment explanation
Indices: 4535560--4535646 Score: 104
Period size: 20 Copynumber: 4.3 Consensus size: 20
4535550 AATTCAGTGA
* *
4535560 TGCGTTAGTCAGAATCTCGT
1 TGCGATAGTCAGAATCGCGT
4535580 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
**
4535600 TGCGATCACGT-ATTATCGCGT
1 TGCGAT-A-GTCAGAATCGCGT
*
4535621 TGCGATAGTCCGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
4535641 TGCGAT
1 TGCGAT
4535647 CACGTGTTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
19 2 0.04
20 38 0.67
21 15 0.26
22 2 0.04
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.30
Consensus pattern (20 bp):
TGCGATAGTCAGAATCGCGT
Found at i:4535619 original size:21 final size:21
Alignment explanation
Indices: 4535593--4535657 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
4535583 GATAGTCAGA
4535593 ATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
***
4535614 ATCGCGTTGCGAT-A-GTCCGA
1 ATCGCGTTGCGATCACGT-ATT
*
4535634 ATCGCGTTGCGATCACGTGTT
1 ATCGCGTTGCGATCACGTATT
4535655 ATC
1 ATC
4535658 TAAAATCGCA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 2 0.06
20 14 0.40
21 17 0.49
22 2 0.06
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (21 bp):
ATCGCGTTGCGATCACGTATT
Found at i:4535622 original size:41 final size:41
Alignment explanation
Indices: 4535577--4535657 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
4535567 GTCAGAATCT
4535577 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
* *
4535618 CGTTGCGATAGTCCGAATCGCGTTGCGATCACGTGTTATC
1 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATC
4535658 TAAAATCGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (41 bp):
CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
Found at i:4538289 original size:2 final size:2
Alignment explanation
Indices: 4538282--4538325 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
4538272 TTTAAAGAGA
4538282 AT AT AT AT AT 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 AT AT AT AT AT
4538324 AT
1 AT
4538326 TGTTAATAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4539136 original size:15 final size:15
Alignment explanation
Indices: 4539116--4539145 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4539106 TAAAGAATTG
4539116 TTCGGACACGACATT
1 TTCGGACACGACATT
4539131 TTCGGACACGACATT
1 TTCGGACACGACATT
4539146 GTTCAGGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (15 bp):
TTCGGACACGACATT
Found at i:4541480 original size:18 final size:18
Alignment explanation
Indices: 4541457--4541492 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4541447 AGTGTATTGG
* *
4541457 TGTTTTTATCAATATATT
1 TGTTTTCATAAATATATT
4541475 TGTTTTCATAAATATATT
1 TGTTTTCATAAATATATT
4541493 ATTTTATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.58
Consensus pattern (18 bp):
TGTTTTCATAAATATATT
Found at i:4543187 original size:29 final size:29
Alignment explanation
Indices: 4543149--4543204 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
4543139 ATCGCGGTTA
4543149 ATTAAGTTTAATTTAATATATTAAAAATT
1 ATTAAGTTTAATTTAATATATTAAAAATT
*
4543178 ATTAATTTTAATTTAATATATTAAAAA
1 ATTAAGTTTAATTTAATATATTAAAAA
4543205 ATAAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
ATTAAGTTTAATTTAATATATTAAAAATT
Found at i:4544642 original size:31 final size:32
Alignment explanation
Indices: 4544606--4544666 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
4544596 GATAAAAATA
*
4544606 AGAATATATTTATAAATATAAATTT-TTAAAG
1 AGAATATATATATAAATATAAATTTGTTAAAG
* *
4544637 AGAATATATATATATATATACATTTGTTAA
1 AGAATATATATATAAATATAAATTTGTTAA
4544667 TAATATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.43
Consensus pattern (32 bp):
AGAATATATATATAAATATAAATTTGTTAAAG
Found at i:4556969 original size:15 final size:14
Alignment explanation
Indices: 4556944--4556977 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
4556934 AAAAAGAAAA
4556944 AAAAATGAAAAATG
1 AAAAATGAAAAATG
4556958 AAAAATGAAAAAATG
1 AAAAATG-AAAAATG
4556973 AAAAA
1 AAAAA
4556978 AAATGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:4556987 original size:7 final size:7
Alignment explanation
Indices: 4556944--4556977 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
4556934 AAAAAGAAAA
4556944 AAAAATG
1 AAAAATG
4556951 AAAAATG
1 AAAAATG
4556958 AAAAATG
1 AAAAATG
4556965 AAAAAATG
1 -AAAAATG
4556973 AAAAA
1 AAAAA
4556978 AAATGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:4556998 original size:10 final size:10
Alignment explanation
Indices: 4556965--4556991 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4556955 ATGAAAAATG
4556965 AAAAAATGAA
1 AAAAAATGAA
4556975 AAAAAATGAA
1 AAAAAATGAA
4556985 AAAAAAT
1 AAAAAAT
4556992 AACAAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.11
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:4556998 original size:18 final size:17
Alignment explanation
Indices: 4556951--4557013 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
4556941 AAAAAAAATG
*
4556951 AAAAATGAAAAATGAAA
1 AAAAATAAAAAATGAAA
4556968 AAATGAA-AAAAAATGAAA
1 AAA--AATAAAAAATGAAA
*
4556986 AAAAATAACAAAA-CAAA
1 AAAAATAA-AAAATGAAA
4557003 AACAAATAAAA
1 AA-AAATAAAA
4557014 GGGGGGTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 2 0.05
17 12 0.31
18 23 0.59
19 2 0.05
ACGTcount: A:0.79, C:0.05, G:0.06, T:0.10
Consensus pattern (17 bp):
AAAAATAAAAAATGAAA
Found at i:4558433 original size:53 final size:53
Alignment explanation
Indices: 4558285--4559490 Score: 1940
Period size: 53 Copynumber: 22.7 Consensus size: 53
4558275 GCAACAGAAG
*
4558285 ATTGTTCGAGTTCTACTCCCTGAAGAAATAG-G-GTGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
*
4558336 ATTGTTCGAGTTCTTACTCCCTGAAGAAATAGAGAGC-GAGCCCGTAGGAAGAAT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGA-CCCGTAGGAAGATT
* *
4558390 ATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGTGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
*
4558443 ATTGTTCGAGTTCTTACTCCCTGAAGAAATAGAGAGC-GATCCCGTAGGAAGAAT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGA-CCCGTAGGAAGATT
* *
4558497 ATTGTTCGAGTTCAACTCCCTGAAGAAATAGAGAGC-GAGCCCGTAGGAAGAAT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGA-CCCGTAGGAAGATT
*
4558550 ATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
* *
4558603 ATTGTTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCATAGGAAGATT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
* *
4558657 ATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCATAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
*
4558710 ATTGTTCGAATTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
* * *
4558763 ATTGTTCGATTTCTACTCCCTGAAGAAATAG-G-GTGGACCCGGAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
* *
4558814 ATTGTTCGAGTTCTTACTCCCTTAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
*
4558868 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGTGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
* *
4558921 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCAGACCCATAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
* *
4558974 ATTGTTTGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
*
4559028 ATTGTTTGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
* * *
4559081 ATTGTTCGAGTTCTACTCCCTGAAGAAAGAGAGAGCGGACCTGTAGGAAGATG
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
* * * *
4559134 ATTGTTCGAGTTCTACTCCTTGAAGGAAGAGAGAGCAGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
*
4559187 ATTGTTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
4559241 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
*
4559294 ATTGTTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
4559348 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
*
4559401 ATTGTTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
* *
4559455 ATTGTTGGAGTTCTACTCCCTGAAGAAATAGGGAGC
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGC
4559491 AGACACGATT
Statistics
Matches: 1083, Mismatches: 56, Indels: 30
0.93 0.05 0.03
Matches are distributed among these distances:
51 42 0.04
52 35 0.03
53 644 0.59
54 362 0.33
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (53 bp):
ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
Found at i:4558469 original size:107 final size:107
Alignment explanation
Indices: 4558285--4559490 Score: 1977
Period size: 107 Copynumber: 11.3 Consensus size: 107
4558275 GCAACAGAAG
*
4558285 ATTGTTCGAGTTCTACTCCCTGAAGAAATAG-G-GTGGACCCGTAGGAAGATTATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
* *
4558348 CTTACTCCCTGAAGAAATAGAGAGC-GAGCCCGTAGGAAGAAT
66 CTTACTCCCTGAAGAAAAAGAGAGCGGA-CCCGTAGGAAGATT
* *
4558390 ATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGTGGACCCGTAGGAAGATTATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
* *
4558455 CTTACTCCCTGAAGAAATAGAGAGC-GATCCCGTAGGAAGAAT
66 CTTACTCCCTGAAGAAAAAGAGAGCGGA-CCCGTAGGAAGATT
* *
4558497 ATTGTTCGAGTTCAACTCCCTGAAGAAATAGAGAGC-GAGCCCGTAGGAAGAATATTGTTCGAGT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGA-CCCGTAGGAAGATTATTGTTCGAGT
4558561 TC-TACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
65 TCTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
* *
4558603 ATTGTTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCATAGGAAGATTATTGTTCGAGT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGT
*
4558668 TC-TACTCCCTGAAGAAAAAGAGAGCGGACCCATAGGAAGATT
65 TCTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
* *
4558710 ATTGTTCGAATTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGATTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
* * *
4558775 C-TACTCCCTGAAGAAATAG-G-GTGGACCCGGAGGAAGATT
66 CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
* *
4558814 ATTGTTCGAGTTCTTACTCCCTTAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGT
* *
4558879 TC-TACTCCCTGAAGAAATAGAGAGTGGACCCGTAGGAAGATT
65 TCTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
* * *
4558921 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCAGACCCATAGGAAGATTATTGTTTGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
4558986 CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
66 CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
*
4559028 ATTGTTTGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
* * *
4559093 C-TACTCCCTGAAGAAAGAGAGAGCGGACCTGTAGGAAGATG
66 CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
* * * *
4559134 ATTGTTCGAGTTCTACTCCTTGAAGGAAGAGAGAGCAGACCCGTAGGAAGATTATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
4559199 CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
66 CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
4559241 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
4559306 CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
66 CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
4559348 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
4559413 CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
66 CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
* *
4559455 ATTGTTGGAGTTCTACTCCCTGAAGAAATAGGGAGC
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGC
4559491 AGACACGATT
Statistics
Matches: 1036, Mismatches: 54, Indels: 20
0.93 0.05 0.02
Matches are distributed among these distances:
104 28 0.03
105 99 0.10
106 265 0.26
107 642 0.62
108 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (107 bp):
ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
Found at i:4558547 original size:160 final size:160
Alignment explanation
Indices: 4558285--4559482 Score: 1959
Period size: 160 Copynumber: 7.5 Consensus size: 160
4558275 GCAACAGAAG
*
4558285 ATTGTTCGAGTTCTACTCCCTGAAGAAATAG-G-GTGGACCCGTAGGAAGATTATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
* *
4558348 CTTACTCCCTGAAGAAATAGAGAGC-GAGCCCGTAGGAAGAATATTGTTCGAGTTCTACTCCCTG
66 CTTACTCCCTGAAGAAAAAGAGAGCGGA-CCCGTAGGAAGATTATTGTTCGAGTTCTACTCCCTG
* *
4558412 AAGAAAAAGAGAGTGGACCCGTAGGAAGATT
130 AAGAAATAGAGAGCGGACCCGTAGGAAGATT
*
4558443 ATTGTTCGAGTTCTTACTCCCTGAAGAAATAGAGAGC-GATCCCGTAGGAAGAATATTGTTCGAG
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGA-CCCGTAGGAAGATTATTGTTCGAG
* * *
4558507 TTC-AACTCCCTGAAGAAATAGAGAGC-GAGCCCGTAGGAAGAATATTGTTCGAGTTCTACTCCC
64 TTCTTACTCCCTGAAGAAAAAGAGAGCGGA-CCCGTAGGAAGATTATTGTTCGAGTTCTACTCCC
*
4558570 TGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
128 TGAAGAAATAGAGAGCGGACCCGTAGGAAGATT
* *
4558603 ATTGTTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCATAGGAAGATTATTGTTCGAGT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGT
* *
4558668 TC-TACTCCCTGAAGAAAAAGAGAGCGGACCCATAGGAAGATTATTGTTCGAATTCTACTCCCTG
65 TCTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTTCTACTCCCTG
4558732 AAGAAATAGAGAGCGGACCCGTAGGAAGATT
130 AAGAAATAGAGAGCGGACCCGTAGGAAGATT
* * *
4558763 ATTGTTCGATTTCTACTCCCTGAAGAAATAG-G-GTGGACCCGGAGGAAGATTATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
*
4558826 CTTACTCCCTTAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTTCTACTCCCTGA
66 CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTTCTACTCCCTGA
*
4558891 AGAAATAGAGAGTGGACCCGTAGGAAGATT
131 AGAAATAGAGAGCGGACCCGTAGGAAGATT
* * *
4558921 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCAGACCCATAGGAAGATTATTGTTTGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
*
4558986 CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTTGAGTTCTACTCCCTGA
66 CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTTCTACTCCCTGA
4559051 AGAAATAGAGAGCGGACCCGTAGGAAGATT
131 AGAAATAGAGAGCGGACCCGTAGGAAGATT
* * *
4559081 ATTGTTCGAGTTCTACTCCCTGAAGAAAGAGAGAGCGGACCTGTAGGAAGATGATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
* * * *
4559146 C-TACTCCTTGAAGGAAGAGAGAGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTTACTCCCTG
66 CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTTC-TACTCCCTG
*
4559210 AAGAAAAAGAGAGCGGACCCGTAGGAAGATT
130 AAGAAATAGAGAGCGGACCCGTAGGAAGATT
4559241 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
4559306 CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTTCTACTCCCTGA
66 CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTTCTACTCCCTGA
4559371 AGAAATAGAGAGCGGACCCGTAGGAAGATT
131 AGAAATAGAGAGCGGACCCGTAGGAAGATT
* *
4559401 ATTGTTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTGGAGT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGT
4559466 TC-TACTCCCTGAAGAAA
65 TCTTACTCCCTGAAGAAA
4559483 TAGGGAGCAG
Statistics
Matches: 975, Mismatches: 53, Indels: 22
0.93 0.05 0.02
Matches are distributed among these distances:
157 29 0.03
158 133 0.14
159 84 0.09
160 598 0.61
161 131 0.13
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (160 bp):
ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTTCTACTCCCTGA
AGAAATAGAGAGCGGACCCGTAGGAAGATT
Found at i:4563323 original size:44 final size:44
Alignment explanation
Indices: 4563213--4563514 Score: 352
Period size: 44 Copynumber: 7.0 Consensus size: 44
4563203 TCATTTAATC
* * * *
4563213 CATAAGCTTGTAAGCTTATTTTACCAATATACTTATCATTAAATC
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATT-ATTT
*
4563258 CCTAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTT
* *
4563302 CATAAGCTCGTAAGCTTATTTTACCAATATACTTATCATTATTC
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTT
* * *
4563346 CATAAGCTCGTAAGCTTATTTTACCAATATTCTTACTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTT
*
4563390 CATAATCTCGTAAGCTTATTTTACCAATATACTTA-C------T
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTT
* * * * *
4563427 -ATAA-TTCTTAAGCTTATTTTACCAATAAGTATTTACTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAAT-A-TACTTACCATTATTT
* *
4563471 TATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATTATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTT
4563515 GCATCACTGA
Statistics
Matches: 222, Mismatches: 24, Indels: 23
0.83 0.09 0.09
Matches are distributed among these distances:
35 20 0.09
36 5 0.02
37 6 0.03
44 129 0.58
45 42 0.19
46 20 0.09
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.43
Consensus pattern (44 bp):
CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTT
Found at i:4563439 original size:35 final size:37
Alignment explanation
Indices: 4563391--4563478 Score: 117
Period size: 35 Copynumber: 2.4 Consensus size: 37
4563381 CTATAATTTC
*
4563391 ATAATCTCGTAAGCTTATTTTACCAAT-A-TACTTACT
1 ATAAT-TCTTAAGCTTATTTTACCAATAAGTACTTACT
*
4563427 ATAATTCTTAAGCTTATTTTACCAATAAGTATTTACT
1 ATAATTCTTAAGCTTATTTTACCAATAAGTACTTACT
*
4563464 ATAATTTTATAAGCT
1 ATAATTCT-TAAGCT
4563479 CGTAAGCTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
35 20 0.43
36 6 0.13
37 14 0.30
38 6 0.13
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (37 bp):
ATAATTCTTAAGCTTATTTTACCAATAAGTACTTACT
Found at i:4563489 original size:81 final size:79
Alignment explanation
Indices: 4563356--4563509 Score: 256
Period size: 81 Copynumber: 1.9 Consensus size: 79
4563346 CATAAGCTCG
*
4563356 TAAGCTTATTTTACCAATATTCTTACTATAATTTCATAATCTCGTAAGCTTATTTTACCAATATA
1 TAAGCTTATTTTACCAATATTCTTACTATAATTTCATAAGCTCGTAAGCTTATTTTACCAATATA
4563421 CTTACTATAATTCT
66 CTTACTATAATTCT
*
4563435 TAAGCTTATTTTACCAATAAGTAT-TTACTATAATTTTATAAGCTCGTAAGCTTATTTTACCAAT
1 TAAGCTTATTTTACCAAT-A-T-TCTTACTATAATTTCATAAGCTCGTAAGCTTATTTTACCAAT
4563499 ATACTTACTAT
63 ATACTTACTAT
4563510 TATTTGCATC
Statistics
Matches: 70, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
79 18 0.26
80 1 0.01
81 50 0.71
82 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (79 bp):
TAAGCTTATTTTACCAATATTCTTACTATAATTTCATAAGCTCGTAAGCTTATTTTACCAATATA
CTTACTATAATTCT
Found at i:4563743 original size:61 final size:60
Alignment explanation
Indices: 4563666--4563832 Score: 246
Period size: 61 Copynumber: 2.8 Consensus size: 60
4563656 TTCCTTCTCA
* **
4563666 TTTTAGCACACGAAGTGCCCTATTCAAGAATCCATACCATTAGTATGATTCCTTTACCATT
1 TTTTAGCACATGAAGTGCCCTATTCAAGAATCCATACCATTAGTATGACCCCTTTACCA-T
*
4563727 TTTTAGCACATGAAGTGCCCTATTCGAGAATCCATACCATTAGTATGACCCCTTTACCAT
1 TTTTAGCACATGAAGTGCCCTATTCAAGAATCCATACCATTAGTATGACCCCTTTACCAT
* * *
4563787 TTTTAGCACATGAAGTGCCCCATATGAA-AATCCATACTATTAGTAT
1 TTTTAGCACATGAAGTGCCCTAT-TCAAGAATCCATACCATTAGTAT
4563833 AATTTTCTTA
Statistics
Matches: 97, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
60 40 0.41
61 57 0.59
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.33
Consensus pattern (60 bp):
TTTTAGCACATGAAGTGCCCTATTCAAGAATCCATACCATTAGTATGACCCCTTTACCAT
Found at i:4564011 original size:177 final size:177
Alignment explanation
Indices: 4563787--4564218 Score: 516
Period size: 177 Copynumber: 2.4 Consensus size: 177
4563777 CCTTTACCAT
* * * * * *
4563787 TTTTAGCACA-TGAAGTGCCCCATATGAAAATCCATACTATTAGTATAATTTTCTTATCCTTGTA
1 TTTTAGCACACT-AAGTGCTCCATATGGAAATCCATAC-ATCAGTATAATTTCCTTATCATTTTA
* * ** * *
4563851 GCACCCT-TAGTGCTTTTTCTGGAAATCCATACACTCAGTATGATTCCCTTACCATTTTAGCACA
64 GCACCATATAATGCCCTATCTGGAAATCCATACACTCAATATGATTCCCTTACCATTTTAGCACA
* * * *
4563915 -TATAATGC-CCTATCTGGAAATCCATATATTCAATATGATTTCCTTATCA
129 CT-CAATGCTCC-ATATGGAAATCCATACACTCAATATGATTTCCTTATCA
*
4563964 TTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATAATTTCCTTATCATTTTAG
1 TTTTAGCACACTAAGTGCTCCATATGGAAATCCATACA-TCAGTATAATTTCCTTATCATTTTAG
* * * * *
4564029 CA-CATATAATGCCCTATCTGGAAATTCATATATTCAATATGATTTCCTTATCATTTTAGCACAC
65 CACCATATAATGCCCTATCTGGAAATCCATACACTCAATATGATTCCCTTACCATTTTAGCACAC
* *
4564093 TCAGTGCTCCATATGGAAATCCATACACTCAATATGATTTTCTTATCA
130 TCAATGCTCCATATGGAAATCCATACACTCAATATGATTTCCTTATCA
* * *
4564141 TTTTAGCACACTTAGTGCTCCATATGGAAATTCATACATTCAGTATGATTTCCTTATCATTTTAG
1 TTTTAGCACACTAAGTGCTCCATATGGAAATCCATACA-TCAGTATAATTTCCTTATCATTTTAG
*
4564206 CA-CATATAGTGCC
65 CACCATATAATGCC
4564219 ATTTGGTAAT
Statistics
Matches: 221, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
176 3 0.01
177 214 0.97
178 4 0.02
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (177 bp):
TTTTAGCACACTAAGTGCTCCATATGGAAATCCATACATCAGTATAATTTCCTTATCATTTTAGC
ACCATATAATGCCCTATCTGGAAATCCATACACTCAATATGATTCCCTTACCATTTTAGCACACT
CAATGCTCCATATGGAAATCCATACACTCAATATGATTTCCTTATCA
Found at i:4564217 original size:118 final size:118
Alignment explanation
Indices: 4563787--4564209 Score: 539
Period size: 118 Copynumber: 3.6 Consensus size: 118
4563777 CCTTTACCAT
* * * * * * * *
4563787 TTTTAGCACATGA-AGTGCCCCATATGAAAATCCATACTATT-AGTATAATTTTCTTATCCTTGT
1 TTTTAGCACAT-ATAATGCCCTATATGGAAATCCATAC-ATTCAATATGATTTCCTTATCATTTT
* * *** * * *
4563850 AGCACCCTTAGTGCTTTTTCTGGAAATCCATACACTCAGTATGATTCCCTTACCA
64 AGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTATCA
* *
4563905 TTTTAGCACATATAATGCCCTATCTGGAAATCCATATATTCAATATGATTTCCTTATCATTTTAG
1 TTTTAGCACATATAATGCCCTATATGGAAATCCATACATTCAATATGATTTCCTTATCATTTTAG
*
4563970 CACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATAATTTCCTTATCA
66 CACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTATCA
* * *
4564023 TTTTAGCACATATAATGCCCTATCTGGAAATTCATATATTCAATATGATTTCCTTATCATTTTAG
1 TTTTAGCACATATAATGCCCTATATGGAAATCCATACATTCAATATGATTTCCTTATCATTTTAG
* *
4564088 CACACTCAGTGCTCCATATGGAAATCCATACACTCAATATGATTTTCTTATCA
66 CACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTATCA
* * *
4564141 TTTTAGCACACT-TAGTGCTCC-ATATGGAAATTCATACATTCAGTATGATTTCCTTATCATTTT
1 TTTTAGCACA-TATAATGC-CCTATATGGAAATCCATACATTCAATATGATTTCCTTATCATTTT
4564204 AGCACA
64 AGCACA
4564210 TATAGTGCCA
Statistics
Matches: 274, Mismatches: 27, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
117 4 0.01
118 267 0.97
119 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.37
Consensus pattern (118 bp):
TTTTAGCACATATAATGCCCTATATGGAAATCCATACATTCAATATGATTTCCTTATCATTTTAG
CACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTATCA
Found at i:4564237 original size:118 final size:117
Alignment explanation
Indices: 4563870--4564209 Score: 540
Period size: 118 Copynumber: 2.9 Consensus size: 117
4563860 GTGCTTTTTC
* *
4563870 TGGAAATCCATACACTCAGTATGATTCCCTTACCATTTTAGCACATATAATGCCCTATCTGGAAA
1 TGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACATATAATGCCCTATCTGGAAA
*
4563935 TCCATATATTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATA
66 TTCATATATTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGC-CCATA
*
4563988 TGGAAATCCATACACTCAGTATAATTTCCTTATCATTTTAGCACATATAATGCCCTATCTGGAAA
1 TGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACATATAATGCCCTATCTGGAAA
4564053 TTCATATATTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATA
66 TTCATATATTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGC-CCATA
* * * *
4564106 TGGAAATCCATACACTCAATATGATTTTCTTATCATTTTAGCACACT-TAGTGCTCC-ATATGGA
1 TGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACA-TATAATGC-CCTATCTGGA
* *
4564169 AATTCATACATTCAGTATGATTTCCTTATCATTTTAGCACA
64 AATTCATATATTCAATATGATTTCCTTATCATTTTAGCACA
4564210 TATAGTGCCA
Statistics
Matches: 209, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
118 206 0.99
119 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (117 bp):
TGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACATATAATGCCCTATCTGGAAA
TTCATATATTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGCCCATA
Found at i:4564238 original size:59 final size:58
Alignment explanation
Indices: 4563648--4564218 Score: 437
Period size: 59 Copynumber: 9.6 Consensus size: 58
4563638 TCATATACTT
* ** **
4563648 AATATGATTTCCTTCTCATTTTAGCACACGAAGTGCCC-TATTCAAGAATCCATACCATT-
1 AATATGATTTCCTTATCATTTTAGCACACTTAGTGCCCATA-TGGA-AATCCATA-CATTC
* * * *
4563707 AGTATGA-TTCCTTTACCATTTTTTAGCACA-TGAAGTGCCC-TATTCGAGAATCCATACCATT-
1 AATATGATTTCC-TTATCA--TTTTAGCACACT-TAGTGCCCATA-TGGA-AATCCATA-CATTC
* ** * * *
4563768 AGTATGA-CCCCTTTACCATTTTTAGCACA-TGAAGTGCCCCATATGAAAATCCATACTATT-
1 AATATGATTTCC-TTATCA-TTTTAGCACACT-TAGTG-CCCATATGGAAATCCATAC-ATTC
* * * * * * *** * *
4563828 AGTATAATTTTCTTATCCTTGTAGCACCCTTAGTGCTTTTTCTGGAAATCCATACACTC
1 AATATGATTTCCTTATCATTTTAGCACACTTAGTGC-CCATATGGAAATCCATACATTC
* * * * * *
4563887 AGTATGATTCCCTTACCATTTTAGCACA-TATAATGCCCTATCTGGAAATCCATATATTC
1 AATATGATTTCCTTATCATTTTAGCACACT-TAGTGCCC-ATATGGAAATCCATACATTC
* *
4563946 AATATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTC
1 AATATGATTTCCTTATCATTTTAGCACACTTAGTGC-CCATATGGAAATCCATACATTC
* * * * * *
4564005 AGTATAATTTCCTTATCATTTTAGCACA-TATAATGCCCTATCTGGAAATTCATATATTC
1 AATATGATTTCCTTATCATTTTAGCACACT-TAGTGCCC-ATATGGAAATCCATACATTC
* *
4564064 AATATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTC
1 AATATGATTTCCTTATCATTTTAGCACACTTAGTGC-CCATATGGAAATCCATACATTC
* *
4564123 AATATGATTTTCTTATCATTTTAGCACACTTAGTGCTCCATATGGAAATTCATACATTC
1 AATATGATTTCCTTATCATTTTAGCACACTTAGTGC-CCATATGGAAATCCATACATTC
*
4564182 AGTATGATTTCCTTATCATTTTAGCACA-TATAGTGCC
1 AATATGATTTCCTTATCATTTTAGCACACT-TAGTGCC
4564219 ATTTGGTAAT
Statistics
Matches: 425, Mismatches: 67, Indels: 41
0.80 0.13 0.08
Matches are distributed among these distances:
58 13 0.03
59 304 0.72
60 46 0.11
61 60 0.14
62 2 0.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.37
Consensus pattern (58 bp):
AATATGATTTCCTTATCATTTTAGCACACTTAGTGCCCATATGGAAATCCATACATTC
Found at i:4565212 original size:3 final size:3
Alignment explanation
Indices: 4565204--4565270 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
4565194 GTTATTTTGT
4565204 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4565252 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
4565271 AGAGTATTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4567083 original size:17 final size:18
Alignment explanation
Indices: 4567040--4567090 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
4567030 GGAATATTTC
*
4567040 TGAAGGAATTGGAATCTG
1 TGAAGGAATTGGAATCTA
4567058 TGAAGGAATTGGAATCTA
1 TGAAGGAATTGGAATCTA
*
4567076 T-CAGGAATTGGAATC
1 TGAAGGAATTGGAATC
4567091 CAATTCCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 13 0.42
18 18 0.58
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.27
Consensus pattern (18 bp):
TGAAGGAATTGGAATCTA
Found at i:4568253 original size:12 final size:12
Alignment explanation
Indices: 4568238--4568288 Score: 66
Period size: 12 Copynumber: 3.9 Consensus size: 12
4568228 TAAATTTAAT
4568238 ATTTTTATATTA
1 ATTTTTATATTA
4568250 ATTTTTATTATTTAA
1 ATTTTTA-TA-TT-A
4568265 TATTTTTATATTA
1 -ATTTTTATATTA
4568278 ATTTTTATATT
1 ATTTTTATATT
4568289 TAAAATCATA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
12 18 0.51
13 3 0.09
14 4 0.11
15 3 0.09
16 7 0.20
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTTTATATTA
Found at i:4568263 original size:28 final size:28
Alignment explanation
Indices: 4568231--4568345 Score: 117
Period size: 28 Copynumber: 4.0 Consensus size: 28
4568221 AAAATATTAA
*
4568231 ATTTAATATTTTTATATTAATTTTTATT
1 ATTTAATATTTTTAAATTAATTTTTATT
*
4568259 ATTTAATATTTTTATATTAATTTTTA-T
1 ATTTAATATTTTTAAATTAATTTTTATT
**
4568286 ATTTAAAATCATATTTTAAAATTAA-TTTTAAA
1 ATTT--AAT-AT-TTTT-AAATTAATTTTTATT
* *
4568318 ATATAATATTTTTAAATTTATTTTTATT
1 ATTTAATATTTTTAAATTAATTTTTATT
4568346 GTAAATATTT
Statistics
Matches: 74, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
27 11 0.15
28 35 0.47
29 5 0.07
30 5 0.07
31 9 0.12
32 9 0.12
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (28 bp):
ATTTAATATTTTTAAATTAATTTTTATT
Found at i:4568264 original size:14 final size:13
Alignment explanation
Indices: 4568231--4568291 Score: 70
Period size: 14 Copynumber: 4.5 Consensus size: 13
4568221 AAAATATTAA
4568231 ATTTAATATTTTT
1 ATTTAATATTTTT
*
4568244 ATATTAATTTTTATT
1 AT-TTAATATTT-TT
4568259 ATTTAATATTTTT
1 ATTTAATATTTTT
4568272 ATATTAAT-TTTTAT
1 AT-TTAATATTTT-T
4568286 ATTTAA
1 ATTTAA
4568292 AATCATATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
13 14 0.33
14 24 0.57
15 4 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTTAATATTTTT
Found at i:4568267 original size:20 final size:21
Alignment explanation
Indices: 4568223--4568268 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
4568213 TATTATTGAA
4568223 AATATTAAATTTAATATTTTT
1 AATATTAAATTTAATATTTTT
*
4568244 -ATATT-AATTT-TTATTATTT
1 AATATTAAATTTAATATT-TTT
4568263 AATATT
1 AATATT
4568269 TTTATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 4 0.18
19 8 0.36
20 10 0.45
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
AATATTAAATTTAATATTTTT
Found at i:4568299 original size:12 final size:13
Alignment explanation
Indices: 4568287--4568319 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
4568277 AATTTTTATA
4568287 TTTAAAATCATAT
1 TTTAAAATCATAT
*
4568300 TTTAAAATTA-AT
1 TTTAAAATCATAT
4568312 TTTAAAAT
1 TTTAAAAT
4568320 ATAATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTAAAATCATAT
Found at i:4568324 original size:13 final size:13
Alignment explanation
Indices: 4568287--4568324 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
4568277 AATTTTTATA
4568287 TTTAAAATCAT-AT
1 TTTAAAAT-ATAAT
4568300 TTTAAAAT-TAAT
1 TTTAAAATATAAT
4568312 TTTAAAATATAAT
1 TTTAAAATATAAT
4568325 ATTTTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.04
12 10 0.43
13 12 0.52
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTAAAATATAAT
Found at i:4568619 original size:85 final size:85
Alignment explanation
Indices: 4568476--4568644 Score: 338
Period size: 85 Copynumber: 2.0 Consensus size: 85
4568466 AATAACAAGC
4568476 TTTTAAAAGACAAATATAATTTGTTGTAAGTTCCAACAACATGAGACCTCTGACTTATTGGTTTG
1 TTTTAAAAGACAAATATAATTTGTTGTAAGTTCCAACAACATGAGACCTCTGACTTATTGGTTTG
4568541 GGCGTCAAGCTATTCAATTT
66 GGCGTCAAGCTATTCAATTT
4568561 TTTTAAAAGACAAATATAATTTGTTGTAAGTTCCAACAACATGAGACCTCTGACTTATTGGTTTG
1 TTTTAAAAGACAAATATAATTTGTTGTAAGTTCCAACAACATGAGACCTCTGACTTATTGGTTTG
4568626 GGCGTCAAGCTATTCAATT
66 GGCGTCAAGCTATTCAATT
4568645 ATAACGTTGG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (85 bp):
TTTTAAAAGACAAATATAATTTGTTGTAAGTTCCAACAACATGAGACCTCTGACTTATTGGTTTG
GGCGTCAAGCTATTCAATTT
Found at i:4572088 original size:31 final size:32
Alignment explanation
Indices: 4572052--4572117 Score: 96
Period size: 35 Copynumber: 2.0 Consensus size: 32
4572042 CGTCACGTCC
*
4572052 AGTAAGGCCCTGAGCACACAGCCGATGAACCAGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACC---A
4572087 AGTAAGGCCCTGAGCACACAGCCGAGGAACC
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACC
4572118 TCCAGGTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.33, C:0.30, G:0.27, T:0.09
Consensus pattern (32 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCA
Found at i:4572217 original size:24 final size:24
Alignment explanation
Indices: 4572190--4572322 Score: 160
Period size: 24 Copynumber: 5.5 Consensus size: 24
4572180 ATATCAAAAA
* * *
4572190 ATCAAATCATAATTCACGTCAAGT
1 ATCAGATCATAATCCATGTCAAGT
* * *
4572214 ATCATATCAAAATCCAGGTCAAGT
1 ATCAGATCATAATCCATGTCAAGT
* *
4572238 AACAGATCATAATCCAAGTCAAGT
1 ATCAGATCATAATCCATGTCAAGT
*
4572262 ATCAGATCAGAATCCATGTC-AGAT
1 ATCAGATCATAATCCATGTCAAG-T
*
4572286 ATCAGATCAGAATCCATGTCAAGT
1 ATCAGATCATAATCCATGTCAAGT
4572310 ATCAGATCATAAT
1 ATCAGATCATAAT
4572323 TCAAATCGAA
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
23 2 0.02
24 91 0.96
25 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (24 bp):
ATCAGATCATAATCCATGTCAAGT
Found at i:4572338 original size:48 final size:48
Alignment explanation
Indices: 4572188--4572340 Score: 130
Period size: 48 Copynumber: 3.2 Consensus size: 48
4572178 ATATATCAAA
* * * * * * **
4572188 AAATCAAATCATAATTCACGTCAAGTATCATATCAAAATCCAGGTCAAG
1 AAATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATC-AG
* * **
4572237 TAA-CAGATCATAATCCAAGTCAAGTATCAGATCAGAATCCATGTCAG
1 AAATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAG
* * * *
4572284 ATATCAGATCAGAATCCATGTCAAGTATCAGATCATAATTCAAATC-G
1 AAATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAG
4572331 AAAATCAGAT
1 -AAATCAGAT
4572341 AAAATTTTCA
Statistics
Matches: 86, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
47 4 0.05
48 80 0.93
49 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (48 bp):
AAATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAG
Found at i:4572338 original size:72 final size:71
Alignment explanation
Indices: 4572187--4572340 Score: 175
Period size: 72 Copynumber: 2.1 Consensus size: 71
4572177 GATATATCAA
* * * *
4572187 AAAATCAAATCATAATTCACGTCAAGTATCATATCAAAATCCAGGTCAAGTAACAGATCATAATC
1 AAAATCAGATCAGAATCCACGTCAAGTATCAGATCAAAATCCAGGTCAAGTAACAGATCATAATC
*
4572252 CAAGTC
66 CAAATC
* * * * *
4572258 AAGTATCAGATCAGAATCCATGTC-AGATATCAGATCAGAATCCATGTCAAGTATCAGATCATAA
1 AA-AATCAGATCAGAATCCACGTCAAG-TATCAGATCAAAATCCAGGTCAAGTAACAGATCATAA
*
4572322 TTCAAATC
64 TCCAAATC
4572330 GAAAATCAGAT
1 -AAAATCAGAT
4572341 AAAATTTTCA
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
71 4 0.06
72 62 0.91
73 2 0.03
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (71 bp):
AAAATCAGATCAGAATCCACGTCAAGTATCAGATCAAAATCCAGGTCAAGTAACAGATCATAATC
CAAATC
Found at i:4577518 original size:19 final size:19
Alignment explanation
Indices: 4577494--4577545 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
4577484 GAATGTAATT
*
4577494 AGTGCATTGATGCATAAGG
1 AGTGCATCGATGCATAAGG
4577513 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
4577532 AGTGCATCGATGCA
1 AGTGCATCGATGCA
4577546 CCCCCTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (19 bp):
AGTGCATCGATGCATAAGG
Found at i:4578562 original size:2 final size:2
Alignment explanation
Indices: 4578555--4578582 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4578545 AATGTATGTG
4578555 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
4578583 GTTTTGTGAT
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:4578629 original size:19 final size:20
Alignment explanation
Indices: 4578605--4578660 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
4578595 GAATTATATG
4578605 ATATGATATATGTATGTGTT
1 ATATGATATATGTATGTGTT
*
4578625 A-ATGAT-TATTGTATATGTT
1 ATATGATATA-TGTATGTGTT
*
4578644 ATAAGATATATGATATG
1 ATATGATATATG-TATG
4578661 AACATAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 2 0.07
19 15 0.52
20 7 0.24
21 5 0.17
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (20 bp):
ATATGATATATGTATGTGTT
Found at i:4578641 original size:32 final size:34
Alignment explanation
Indices: 4578566--4578646 Score: 82
Period size: 32 Copynumber: 2.5 Consensus size: 34
4578556 TATATATATA
* *
4578566 TATATATATAT-ATATATGTTTTGTGATATGAAT
1 TATATGTATATGATATATGTTGTGTGATATGAAT
*
4578599 TATATG-ATATGATATATGTATGTGTTA-ATG-AT
1 TATATGTATATGATATATGT-TGTGTGATATGAAT
*
4578631 TAT-TGTATATGTTATA
1 TATATGTATATGATATA
4578647 AGATATATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
31 2 0.05
32 18 0.44
33 16 0.39
34 5 0.12
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.51
Consensus pattern (34 bp):
TATATGTATATGATATATGTTGTGTGATATGAAT
Found at i:4586514 original size:17 final size:16
Alignment explanation
Indices: 4586472--4586514 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
4586462 TTCAATAGCA
*
4586472 TGTTTAATTTTGCATT
1 TGTTTAATTTAGCATT
*
4586488 TATTTCAATTTAGTCATT
1 TGTTT-AATTTAG-CATT
4586506 TGTTTAATT
1 TGTTTAATT
4586515 CACATAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.18
17 10 0.45
18 8 0.36
ACGTcount: A:0.23, C:0.07, G:0.09, T:0.60
Consensus pattern (16 bp):
TGTTTAATTTAGCATT
Found at i:4591973 original size:22 final size:22
Alignment explanation
Indices: 4591894--4591973 Score: 76
Period size: 23 Copynumber: 3.7 Consensus size: 22
4591884 CAGACCCCGT
* *
4591894 GGGGGTATCGATT-CCC-TCCA
1 GGGGGAATCGATTCCCCTTCAA
4591914 GGGGGAATC-AGTTCCCCTTCAAA
1 GGGGGAATCGA-TTCCCCTTC-AA
* *
4591937 GAGGGAATCGGTTCCCCTTCAA
1 GGGGGAATCGATTCCCCTTCAA
*
4591959 GGGGGTATCGATTCC
1 GGGGGAATCGATTCC
4591974 TCCTGTACCA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
19 1 0.02
20 10 0.21
21 3 0.06
22 16 0.33
23 18 0.38
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.24
Consensus pattern (22 bp):
GGGGGAATCGATTCCCCTTCAA
Found at i:4600210 original size:28 final size:28
Alignment explanation
Indices: 4600170--4600264 Score: 181
Period size: 28 Copynumber: 3.4 Consensus size: 28
4600160 CAAATGGCGT
4600170 CATGTGTCACTGGTGCCAAGTGTAATGA
1 CATGTGTCACTGGTGCCAAGTGTAATGA
4600198 CATGTGTCACTGGTGCCAAGTGTAATGA
1 CATGTGTCACTGGTGCCAAGTGTAATGA
4600226 CATGTGTCACTGGTGCCAAGTGTAATGA
1 CATGTGTCACTGGTGCCAAGTGTAATGA
*
4600254 CATGTTTCACT
1 CATGTGTCACT
4600265 ATCCGATTGG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (28 bp):
CATGTGTCACTGGTGCCAAGTGTAATGA
Found at i:4600766 original size:30 final size:27
Alignment explanation
Indices: 4600637--4601002 Score: 173
Period size: 29 Copynumber: 12.6 Consensus size: 27
4600627 TAATTTTACA
4600637 TCTTAACATTAAAAATATATTTTAT-TT
1 TCTTAAC-TTAAAAATATATTTTATCTT
* *
4600664 TCATATACTTATTAAATATATTTTACTCTTT
1 TCTTA-ACTTA-AAAATATATTTTA-TC-TT
*
4600695 TCTTAACATAAAAATATATTTTATTCTT
1 TCTTAACTTAAAAATATATTTTA-TCTT
* *
4600723 ATTTTAACATAAAAATATATTTTAGTCCTT
1 -TCTTAACTTAAAAATATATTTTA-T-CTT
*
4600753 CTCTTAACTTAAAAAATATATTTTATTTT
1 -TCTTAACTT-AAAAATATATTTTATCTT
* * * *
4600782 ATCTTAACTTATTACATAAATTATATTCTT
1 -TCTTAACTTA-AAAATATATTTTA-TCTT
* * * *
4600812 AACTTAAATTATTAAATATATTCTATTCTT
1 -TCTTAACTTA-AAAATATATTTTA-TCTT
* * * * *
4600842 AACTTAAATTATGAAATATAATTAATTCTT
1 -TCTTAACTTA-AAAATATATTTTA-TCTT
* *
4600872 ATTTTAACTTAAAAATATATCTTATTCTT
1 -TCTTAACTTAAAAATATATTTTA-TCTT
4600901 ATCTTAACTTAAAAATATATTTTTAT-TT
1 -TCTTAACTTAAAAATATA-TTTTATCTT
* * *
4600929 TAATT-AC-AAAAAATATATTTTATTTT
1 T-CTTAACTTAAAAATATATTTTATCTT
* * * *
4600955 GATCATAACTAAAAAAGTATATTATATTTTT
1 --TCTTAACTTAAAAA-TATATTTTA-TCTT
* *
4600986 TCTTAAATTTAAAATAT
1 TCTTAACTTAAAAATAT
4601003 TATCAGAATA
Statistics
Matches: 275, Mismatches: 45, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
25 6 0.02
26 11 0.04
27 11 0.04
28 27 0.10
29 107 0.39
30 89 0.32
31 24 0.09
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.49
Consensus pattern (27 bp):
TCTTAACTTAAAAATATATTTTATCTT
Found at i:4601082 original size:31 final size:31
Alignment explanation
Indices: 4601007--4601086 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
4600997 AAATATTATC
** *
4601007 AGAATAAAATATAAATATTTAAGTTAAGATA
1 AGAATAAAATATATTTTTTTAAGTTAAGATA
* * *
4601038 AGAATAAATTATATTTTTTTAATTTGAGATA
1 AGAATAAAATATATTTTTTTAAGTTAAGATA
4601069 A-AATTAAAATATATTTTT
1 AGAA-TAAAATATATTTTT
4601087 AAATAAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 2 0.05
31 39 0.95
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (31 bp):
AGAATAAAATATATTTTTTTAAGTTAAGATA
Found at i:4601708 original size:17 final size:17
Alignment explanation
Indices: 4601686--4601719 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4601676 AGTATATATG
4601686 CATAATGGTATAAACAA
1 CATAATGGTATAAACAA
4601703 CATAATGGTATAAACAA
1 CATAATGGTATAAACAA
4601720 ATGAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
CATAATGGTATAAACAA
Found at i:4601882 original size:35 final size:35
Alignment explanation
Indices: 4601811--4601883 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
4601801 TGTTGTGGTG
*
4601811 AAAGTTTAATGAAATTGTAAAAATATACCGAGGCA
1 AAAGTTTAATGAAATTGTAAAAATATACCGAAGCA
* * *
4601846 AAAGTTTAA-GTAAATTGTAAAAGTATGCTGAAGCA
1 AAAGTTTAATG-AAATTGTAAAAATATACCGAAGCA
4601881 AAA
1 AAA
4601884 TTAAATTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 1 0.03
35 32 0.97
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (35 bp):
AAAGTTTAATGAAATTGTAAAAATATACCGAAGCA
Found at i:4612665 original size:3 final size:3
Alignment explanation
Indices: 4612659--4612691 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4612649 GATATTGATA
4612659 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4612692 ATGAAGTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4613735 original size:16 final size:17
Alignment explanation
Indices: 4613703--4613735 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4613693 TATACCCAAC
4613703 GTATATACGATAATTTAG
1 GTATATACGAT-ATTTAG
4613721 GTATATACGAT-TTTA
1 GTATATACGATATTTA
4613736 ATAATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
18 11 0.73
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (17 bp):
GTATATACGATATTTAG
Found at i:4623555 original size:12 final size:11
Alignment explanation
Indices: 4623535--4623588 Score: 58
Period size: 11 Copynumber: 4.7 Consensus size: 11
4623525 TATTCTTATT
4623535 AAAAAAAACTA
1 AAAAAAAACTA
4623546 AAAAAGAAAC-A
1 AAAAA-AAACTA
4623557 TAAAAAAAACTA
1 -AAAAAAAACTA
4623569 AAAAAGAAAC-A
1 AAAAA-AAACTA
4623580 AAGAAAAAA
1 AA-AAAAAA
4623589 AGACAATCGA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
11 21 0.55
12 17 0.45
ACGTcount: A:0.81, C:0.07, G:0.06, T:0.06
Consensus pattern (11 bp):
AAAAAAAACTA
Found at i:4623564 original size:23 final size:23
Alignment explanation
Indices: 4623534--4623589 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
4623524 TTATTCTTAT
4623534 TAAAAAAAACTAAAAAAGAAACA
1 TAAAAAAAACTAAAAAAGAAACA
4623557 TAAAAAAAACTAAAAAAGAAACA
1 TAAAAAAAACTAAAAAAGAAACA
*
4623580 AAGAAAAAAA
1 TA-AAAAAAA
4623590 GACAATCGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 24 0.77
24 7 0.23
ACGTcount: A:0.80, C:0.07, G:0.05, T:0.07
Consensus pattern (23 bp):
TAAAAAAAACTAAAAAAGAAACA
Found at i:4624119 original size:44 final size:44
Alignment explanation
Indices: 4624069--4624163 Score: 190
Period size: 44 Copynumber: 2.2 Consensus size: 44
4624059 ATGTATTTAA
4624069 GGAGCATGATTTCTGGCAGTTTGAAGCTGGAACCAATGTTAGCT
1 GGAGCATGATTTCTGGCAGTTTGAAGCTGGAACCAATGTTAGCT
4624113 GGAGCATGATTTCTGGCAGTTTGAAGCTGGAACCAATGTTAGCT
1 GGAGCATGATTTCTGGCAGTTTGAAGCTGGAACCAATGTTAGCT
4624157 GGAGCAT
1 GGAGCAT
4624164 CAGAAGAATC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (44 bp):
GGAGCATGATTTCTGGCAGTTTGAAGCTGGAACCAATGTTAGCT
Found at i:4625861 original size:28 final size:28
Alignment explanation
Indices: 4625807--4625861 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
4625797 TTTAAATGAA
*
4625807 TTTTGATTTTTTTTATATTTTTAAATTC
1 TTTTGATTTTATTTATATTTTTAAATTC
4625835 TTTTGA-TTTATTTA-ATTGTTTAGAATT
1 TTTTGATTTTATTTATATT-TTTA-AATT
4625862 ATTATCTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 3 0.12
27 11 0.46
28 10 0.42
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (28 bp):
TTTTGATTTTATTTATATTTTTAAATTC
Done.