Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold141
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: 2772588
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 118404 characters in sequence are not A, C, G, or T
File 12 of 18
Found at i:1901176 original size:107 final size:106
Alignment explanation
Indices: 1900927--1901188 Score: 250
Period size: 107 Copynumber: 2.5 Consensus size: 106
1900917 CCGTTATGTC
* * * *
1900927 ATCGGGGATACTCCAATCTCGTTATTTCTGAGGGGATACTCCAACCCCTTTATTTCCGAGGGGAT
1 ATCGGGGATACTCCAATCCCGTTATTTC-GAGGGGATACTCCAACCCCGTTATTTCCGAGAGAAT
* * * * ** *
1900992 ACTCCAACCCTGGCTTTATATTTAAAATATTGATTTTTCATA
65 ACTCCAACCCTCGATTTATATTCAAAACACAGATTTTTCACA
* * * **
1901034 ATCAGGGG-TACTCCAA-CCCTGTTGTGTC-ATCGGGGATACTCCAATCCCGTTATTTTTGAGAG
1 ATC-GGGGATACTCCAATCCC-GTTATTTCGA--GGGGATACTCCAACCCCGTTATTTCCGAGAG
1901096 AATACTCCAA-CCTCGATTT-TATTCCCAAAACACCAG-TTTTTCACA
62 AATACTCCAACCCTCGATTTATATT--CAAAACA-CAGATTTTTCACA
1901141 ATCGGGGATACTCCAATCCCGTTATTTTCGAGGGGATAC-CCAACCCCG
1 ATCGGGGATACTCCAATCCCGTTA-TTTCGAGGGGATACTCCAACCCCG
1901189 ATTTTATTTC
Statistics
Matches: 125, Mismatches: 19, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
105 5 0.04
106 21 0.17
107 87 0.70
108 11 0.09
109 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (106 bp):
ATCGGGGATACTCCAATCCCGTTATTTCGAGGGGATACTCCAACCCCGTTATTTCCGAGAGAATA
CTCCAACCCTCGATTTATATTCAAAACACAGATTTTTCACA
Found at i:1901221 original size:78 final size:79
Alignment explanation
Indices: 1901062--1901239 Score: 250
Period size: 78 Copynumber: 2.3 Consensus size: 79
1901052 CTGTTGTGTC
* *
1901062 ATCGGGGATACTCCAATCCCGTTATTTTTGAGAGAATACTCCAACCTCGATTTTATTCCCAAAAC
1 ATCGGGGATACTCCAATCCCGTTATTTTCGAGAGAATACTCCAACCCCGATTTTATTCCCAAAAC
*
1901127 ACCAGTTTTTCACA
66 ACCAATTTTTCACA
* * * * *
1901141 ATCGGGGATACTCCAATCCCGTTATTTTCGAGGGGATAC-CCAACCCCGATTTTATTTCTAAAAT
1 ATCGGGGATACTCCAATCCCGTTATTTTCGAGAGAATACTCCAACCCCGATTTTATTCCCAAAAC
1901205 ACCAATTTTTCACA
66 ACCAATTTTTCACA
* * *
1901219 ATCGGAGATATTCCAACCCCG
1 ATCGGGGATACTCCAATCCCG
1901240 GTTTTATTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 52 0.59
79 36 0.41
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAATCCCGTTATTTTCGAGAGAATACTCCAACCCCGATTTTATTCCCAAAAC
ACCAATTTTTCACA
Found at i:1901245 original size:51 final size:51
Alignment explanation
Indices: 1901175--1901287 Score: 158
Period size: 51 Copynumber: 2.2 Consensus size: 51
1901165 TTTTCGAGGG
* *
1901175 GATAC-CCAACCCCGATTTTA-TTTCTAAAATACCAATTTTTCACAATCGGA
1 GATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTCTCACAATCGGA
* * *
1901225 GATATTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTCACAATCGGG
1 GATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCTCACAATCGGA
1901276 GATACTCCAACC
1 GATACTCCAACC
1901288 TCGTTATTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
50 4 0.07
51 47 0.85
52 4 0.07
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.30
Consensus pattern (51 bp):
GATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCTCACAATCGGA
Found at i:1901305 original size:28 final size:28
Alignment explanation
Indices: 1901273--1901344 Score: 126
Period size: 28 Copynumber: 2.6 Consensus size: 28
1901263 TCTCACAATC
* *
1901273 GGGGATACTCCAACCTCGTTATTTCTGA
1 GGGGATACTCCAACCCCATTATTTCTGA
1901301 GGGGATACTCCAACCCCATTATTTCTGA
1 GGGGATACTCCAACCCCATTATTTCTGA
1901329 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
1901345 TGACTTTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (28 bp):
GGGGATACTCCAACCCCATTATTTCTGA
Found at i:1901474 original size:27 final size:27
Alignment explanation
Indices: 1901423--1901474 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
1901413 TTCTATAATT
*
1901423 AGGGATACTCCAACCCTGTTATTTTCG
1 AGGGATACTCCAACCCTGATATTTTCG
1901450 AGGGAATACTCCAACCCTGAT-TTTT
1 AGGG-ATACTCCAACCCTGATATTTT
1901475 ATTTCTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (27 bp):
AGGGATACTCCAACCCTGATATTTTCG
Found at i:1903597 original size:4 final size:4
Alignment explanation
Indices: 1903588--1903624 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
1903578 TATTTTGAGG
*
1903588 TATT TATT TATT TATT TATT TATT TATT GATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT T
1903625 GTTTTGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:1907504 original size:172 final size:172
Alignment explanation
Indices: 1907218--1907553 Score: 618
Period size: 172 Copynumber: 2.0 Consensus size: 172
1907208 TCCCGAATGT
* *
1907218 GTCATAGCCATGTTTTAACTTCTACCCACCAATGCCACAGCCCGTGCATTCTACCGAGGTCATTC
1 GTCATAGCCAGGTTTTAACTTCTACCCACCAATGCCACAGCCCGTGCATTCTACCAAGGTCATTC
* *
1907283 CAATAATGAATTTCACCCCAAATCCAGCTCCGGGCATGGCCTAAAACGTGCAGCCTCGCCATGCA
66 CAACAATGAATTTCACCCCAAATCCAGCTCCGGGCATGGCCCAAAACGTGCAGCCTCGCCATGCA
1907348 GTTAACGTAAGAAACATTAACAACCAACAAACACTTTGACTC
131 GTTAACGTAAGAAACATTAACAACCAACAAACACTTTGACTC
* *
1907390 GTCATAGCCAGGTTTTAACTTCTACCCACCAATGCCACAGCCTGTGCATTCTACCAAGGTCGTTC
1 GTCATAGCCAGGTTTTAACTTCTACCCACCAATGCCACAGCCCGTGCATTCTACCAAGGTCATTC
1907455 CAACAATGAATTTCACCCCAAATCCAGCTCCGGGCATGGCCCAAAACGTGCAGCCTCGCCATGCA
66 CAACAATGAATTTCACCCCAAATCCAGCTCCGGGCATGGCCCAAAACGTGCAGCCTCGCCATGCA
1907520 GTTAACGTAAGAAACATTAACAACCAACAAACAC
131 GTTAACGTAAGAAACATTAACAACCAACAAACAC
1907554 CCCGAGAAAG
Statistics
Matches: 158, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
172 158 1.00
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.21
Consensus pattern (172 bp):
GTCATAGCCAGGTTTTAACTTCTACCCACCAATGCCACAGCCCGTGCATTCTACCAAGGTCATTC
CAACAATGAATTTCACCCCAAATCCAGCTCCGGGCATGGCCCAAAACGTGCAGCCTCGCCATGCA
GTTAACGTAAGAAACATTAACAACCAACAAACACTTTGACTC
Found at i:1915272 original size:100 final size:99
Alignment explanation
Indices: 1915115--1915390 Score: 411
Period size: 100 Copynumber: 2.8 Consensus size: 99
1915105 TTCACTTTTC
1915115 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
1 AGTCCTCAAAGAGCAGGA-GCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
*
1915180 CTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTT
65 CTCAAAGAGCAGGACGCTCTCTCCTTTCACCCATT
* * *
1915215 AGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCTAGTT
1 AGTCCTCAAAGAGCAGGA-GCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
1915280 CTCAAAGAGCAGGACGCTCTCTCCTTTCACCCATT
65 CTCAAAGAGCAGGACGCTCTCTCCTTTCACCCATT
* * *
1915315 AGTCCTTAAAGAGCAGGA----TGT-CTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTC
1 AGTCCTCAAAGAGCAGGAGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTC
*
1915374 CTCAAAAAGCAGGACGC
65 CTCAAAGAGCAGGACGC
1915391 CTTTCAAAGC
Statistics
Matches: 163, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
93 1 0.01
94 49 0.30
95 2 0.01
100 111 0.68
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (99 bp):
AGTCCTCAAAGAGCAGGAGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCC
TCAAAGAGCAGGACGCTCTCTCCTTTCACCCATT
Found at i:1915385 original size:55 final size:54
Alignment explanation
Indices: 1915315--1915619 Score: 349
Period size: 55 Copynumber: 5.4 Consensus size: 54
1915305 TTCACCCATT
* * * *
1915315 AGTCCTTAAAGAGCAGGATGTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
*
1915370 AGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
1915425 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 -AGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-C
* * * *
1915487 AGTCCTCAAAGAGTAGGACACCTTTCAAAGCCTACACAAGTTGGTGGCATTTTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA---TTTTC
* * * **
1915544 ATTCTTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
*
1915599 AGTCCTCAAAGAGTAGGACGC
1 AGTCCTCAAAGAGCAGGACGC
1915620 TCTCTCCTTT
Statistics
Matches: 216, Mismatches: 23, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
55 98 0.45
56 19 0.09
57 43 0.20
58 4 0.02
61 22 0.10
62 30 0.14
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (54 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
Found at i:1915514 original size:117 final size:114
Alignment explanation
Indices: 1915314--1915617 Score: 413
Period size: 117 Copynumber: 2.7 Consensus size: 114
1915304 TTTCACCCAT
* *
1915314 TAGTCCTTAAAGAGCAGGATG--TCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCT
1 TAGTCCTCAAAGAGCAGGACGCCTCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCT
* * *
1915376 CAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTTC
65 CAAAGAGTAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATCTTTTC
*
1915425 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 TAGTCCTCAAAGAGCAGGACGCC---T-CTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* * *
1915490 CCTCAAAGAGTAGGACACCTTTCAAAGCCTACACAAGTTGGTGGCATTTTTTT
62 CCTCAAAGAGTAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATCTTTTC
* * *
1915543 TATTCTTCAAAGAGCAGGACGCCT-TTT-AAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTC
1 TAGTCCTCAAAGAGCAGGACGCCTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTC
1915606 AAAGAGTAGGAC
66 AAAGAGTAGGAC
1915618 GCTCTCTCCT
Statistics
Matches: 172, Mismatches: 13, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
111 19 0.11
112 46 0.27
113 3 0.02
115 1 0.01
116 4 0.02
117 74 0.43
118 25 0.15
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (114 bp):
TAGTCCTCAAAGAGCAGGACGCCTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTC
AAAGAGTAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATCTTTTC
Found at i:1915802 original size:61 final size:61
Alignment explanation
Indices: 1915659--1915894 Score: 282
Period size: 61 Copynumber: 3.9 Consensus size: 61
1915649 AGCAGGACGC
* * * *
1915659 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAAGTCTTCAAAGAGTAGGACGCCTTT-T
1 CTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCT--GTCCTCAAAGAGCAGGATGCCTTTCT
*
1915721 CCTTTCAAAGCCCACCCAAGTTGGTGGCA-TTTTCCTGTCCTCAAAGAGCAGGATG-CTTTCT
1 -CTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CTGTCCTCAAAGAGCAGGATGCCTTTCT
* * * *
1915782 CTTTGCAAAGCCCACACAAGTTAGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTCT
1 CTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCTGTCCTCAAAGAGCAGGATGCCTTTCT
* * * *
1915844 TTTTCAAAGCCCACACGAGTTGGTTGCACTTTT-TATCCTCAAAGAGCAGGA
1 CTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTGTCCTCAAAGAGCAGGA
1915895 CGCACTTTAT
Statistics
Matches: 150, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
60 24 0.16
61 83 0.55
62 15 0.10
63 28 0.19
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (61 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTGTCCTCAAAGAGCAGGATGCCTTTCT
Found at i:1915908 original size:60 final size:59
Alignment explanation
Indices: 1915635--1915908 Score: 276
Period size: 61 Copynumber: 4.6 Consensus size: 59
1915625 CCTTTCGCCC
1915635 TTTAGTCCTCAAAGAGCAGGACGCC---TTTT-AAAGCCCACACAAGTTGGTGGCACTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * *
1915690 TTCTAAGTCTTCAAAGAGTAGGACGCCTTTTCCTTTCAAAGCCCACCCAAGTTGGTGGCA-TT
1 TT-T-AGTCCTCAAAGAGCAGGACGCCTTTT--TTTCAAAGCCCACACAAGTTGGTGGCACTT
* * *
1915752 TTCCT-GTCCTCAAAGAGCAGGATG-CTTTCTCTTTGCAAAGCCCACACAAGTTAGTGGCACCT
1 TT--TAGTCCTCAAAGAGCAGGACGCCTTT-T-TTT-CAAAGCCCACACAAGTTGGTGGCACTT
** * * *
1915814 TCCAGTCCTCAAAGAGCAGGATGCCTTTCTTTTTCAAAGCCCACACGAGTTGGTTGCACTT
1 TTTAGTCCTCAAAGAGCAGGACGCC-TT-TTTTTCAAAGCCCACACAAGTTGGTGGCACTT
1915875 TTTA-TCCTCAAAGAGCAGGACGCACTTTATTTTC
1 TTTAGTCCTCAAAGAGCAGGACGC-CTTT-TTTTC
1915909 CTCTTTCTTT
Statistics
Matches: 183, Mismatches: 18, Indels: 31
0.79 0.08 0.13
Matches are distributed among these distances:
55 2 0.01
56 1 0.01
57 20 0.11
59 1 0.01
60 34 0.19
61 84 0.46
62 13 0.07
63 27 0.15
64 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (59 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTTTTTCAAAGCCCACACAAGTTGGTGGCACTT
Found at i:1915932 original size:42 final size:42
Alignment explanation
Indices: 1915874--1916070 Score: 207
Period size: 42 Copynumber: 4.5 Consensus size: 42
1915864 TGGTTGCACT
*
1915874 TTTTATCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTC
* * ** *
1915916 TTTTGTCCTCAAAGAGCAGGACACACTTCATTCCCTTATTTTTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCACTTTATT---TT-CCTCTTTC
*
1915962 TTTTGTCCTCAAAGAGTAGGACGCACTTTATTTTCCTCTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTC
* * *
1916004 TTTTGTACTCAAAGAGCAGGACGCA-TTTCGTTTTCCTTTTTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCACTTT-ATTTTCC--TCTTTC
* * *
1916048 CTTTATCCTCAAAAAGCAGGACG
1 TTTTGTCCTCAAAGAGCAGGACG
1916071 TACTCTTTTT
Statistics
Matches: 128, Mismatches: 20, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
41 3 0.02
42 63 0.49
43 2 0.02
44 24 0.19
45 2 0.02
46 34 0.27
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (42 bp):
TTTTGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTC
Found at i:1916046 original size:88 final size:88
Alignment explanation
Indices: 1915874--1916070 Score: 283
Period size: 88 Copynumber: 2.3 Consensus size: 88
1915864 TGGTTGCACT
*
1915874 TTTTATCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTTGTCCTCAAAGAGCAGGACA
1 TTTTATCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTTGTACTCAAAGAGCAGGACA
1915939 CACTTCATTCCCTTATTTTTTTC
66 CACTTCATTCCCTTATTTTTTTC
* * *
1915962 TTTTGTCCTCAAAGAGTAGGACGCACTTTATTTTCCTCTTTCTTTTGTACTCAAAGAGCAGGACG
1 TTTTATCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTTGTACTCAAAGAGCAGGACA
* * *
1916027 CATTTCGTT---TTCCTTTTTTTC
66 CACTTCATTCCCTT-ATTTTTTTC
* *
1916048 CTTTATCCTCAAAAAGCAGGACG
1 TTTTATCCTCAAAGAGCAGGACG
1916071 TACTCTTTTT
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
85 2 0.02
86 27 0.28
88 68 0.70
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (88 bp):
TTTTATCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTTGTACTCAAAGAGCAGGACA
CACTTCATTCCCTTATTTTTTTC
Found at i:1916779 original size:20 final size:20
Alignment explanation
Indices: 1916756--1916919 Score: 138
Period size: 20 Copynumber: 7.8 Consensus size: 20
1916746 TTTTTGTAAT
1916756 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
1916776 TTGTATCGATACATTTTGGGTTTACCCA
1 TTGTATCGATACA--TT--G-TT---CA
* *
1916804 GATGTATCAATACATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
*
1916825 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
*
1916845 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
1916865 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
1916885 ATGTATCGATACATT-TT-A
1 TTGTATCGATACATTGTTCA
1916903 TAATGTATCGATACATT
1 T--TGTATCGATACATT
1916920 CAGGCATTTT
Statistics
Matches: 122, Mismatches: 9, Indels: 26
0.78 0.06 0.17
Matches are distributed among these distances:
18 1 0.01
19 1 0.01
20 95 0.78
21 3 0.02
22 2 0.02
23 2 0.02
24 1 0.01
25 2 0.02
27 2 0.02
28 2 0.02
29 11 0.09
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:1916910 original size:60 final size:59
Alignment explanation
Indices: 1916806--1916919 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 59
1916796 TTTACCCAGA
* *
1916806 TGTATCAATACATTTTGCATTGTATCGATACATTGCTCATTGTATCGATACATTGCTCAT
1 TGTATCAATACATTTTACAATGTATCGATACATT-CTCATTGTATCGATACATTGCTCAT
* *
1916866 TGTATCGATACATTTTACAATGTATCGATACATT-TTATAATGTATCGATACATT
1 TGTATCAATACATTTTACAATGTATCGATACATTCTCAT--TGTATCGATACATT
1916920 CAGGCATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
58 3 0.06
60 45 0.94
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (59 bp):
TGTATCAATACATTTTACAATGTATCGATACATTCTCATTGTATCGATACATTGCTCAT
Found at i:1919396 original size:107 final size:107
Alignment explanation
Indices: 1919266--1919496 Score: 408
Period size: 107 Copynumber: 2.2 Consensus size: 107
1919256 TTTCTTAATC
*
1919266 GGGGATACTCTAACCCCAACTTTATGTCTAAAATATTGATTTTTCATAATCGGGGGTACTCCAAC
1 GGGGATACTCTAACCCCAACTTTATATCTAAAATATTGATTTTTCATAATCGGGGGTACTCCAAC
*
1919331 CCCGTTATGTCATCGGGGATACTCCAATCCCATTATTTTTGA
66 CCCGTTATGTCATCGGGGATACTCCAATCCCATTATTTCTGA
**
1919373 GGGGATACTCTAACCCCGGCTTTATATCTAAAATATTGATTTTTCATAATCGGGGGTACTCCAAC
1 GGGGATACTCTAACCCCAACTTTATATCTAAAATATTGATTTTTCATAATCGGGGGTACTCCAAC
*
1919438 CCCGTTATGTCATCGGGGATACTCCAATCCCGTTATTTCTGA
66 CCCGTTATGTCATCGGGGATACTCCAATCCCATTATTTCTGA
*
1919480 GGGGATACTCCAACCCC
1 GGGGATACTCTAACCCC
1919497 TTTATTTCCG
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 118 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (107 bp):
GGGGATACTCTAACCCCAACTTTATATCTAAAATATTGATTTTTCATAATCGGGGGTACTCCAAC
CCCGTTATGTCATCGGGGATACTCCAATCCCATTATTTCTGA
Found at i:1919502 original size:28 final size:28
Alignment explanation
Indices: 1919424--1919523 Score: 121
Period size: 28 Copynumber: 3.6 Consensus size: 28
1919414 TTTCATAATC
* * *
1919424 GGGGGTACTCCAACCCCGTTATGTCAT-C
1 GGGGATACTCCAACCCCGTTATTTC-TGA
*
1919452 GGGGATACTCCAATCCCGTTATTTCTGA
1 GGGGATACTCCAACCCCGTTATTTCTGA
* *
1919480 GGGGATACTCCAACCCCTTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCTGA
*
1919508 GGGGATACTCTAACCC
1 GGGGATACTCCAACCC
1919524 TGGCTTTATA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 1 0.02
28 62 0.98
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCTGA
Found at i:1919556 original size:135 final size:135
Alignment explanation
Indices: 1919314--1919629 Score: 465
Period size: 135 Copynumber: 2.3 Consensus size: 135
1919304 ATTTTTCATA
* * * * * **
1919314 ATCGGGGGTACTCCAACCCCGTTATGTCAT-CGGGGATACTCCAATCCCATTATTTTTGAGGGGA
1 ATCGGGGATACTCCAATCCCGTTATTTC-TGAGGGGATACTCCAACCCCATTATTTCCGAGGGGA
*
1919378 TACTCTAACCCCGGCTTTATATCTAAAATATTGATTTTTCATAATCGGGGGTACTCCAACCCCGT
65 TACTCTAACCCCGGCTTTATATCTAAAATATTGATTTTTCATAATCAGGGGTACTCCAACCCCGT
1919443 TATGTC
130 TATGTC
*
1919449 ATCGGGGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCCTTTATTTCCGAGGGGAT
1 ATCGGGGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCCATTATTTCCGAGGGGAT
* * *
1919514 ACTCTAACCCTGGCTTTATATTTAAAATATTGATTTTTCATAATCAGGGGTACTCCAACCCTGTT
66 ACTCTAACCCCGGCTTTATATCTAAAATATTGATTTTTCATAATCAGGGGTACTCCAACCCCGTT
*
1919579 GTGTC
131 ATGTC
* *
1919584 ATCGGGGATACTCCAATCCCGTTATTT-TCGAGAGAATACTCCAACC
1 ATCGGGGATACTCCAATCCCGTTATTTCT-GAGGGGATACTCCAACC
1919630 TCGATTTTAT
Statistics
Matches: 164, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
134 2 0.01
135 162 0.99
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (135 bp):
ATCGGGGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCCATTATTTCCGAGGGGAT
ACTCTAACCCCGGCTTTATATCTAAAATATTGATTTTTCATAATCAGGGGTACTCCAACCCCGTT
ATGTC
Found at i:1919568 original size:107 final size:106
Alignment explanation
Indices: 1919449--1919710 Score: 266
Period size: 107 Copynumber: 2.5 Consensus size: 106
1919439 CCGTTATGTC
* * *
1919449 ATCGGGGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCCTTTATTTCCGAGGGGAT
1 ATCGGGGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCCGTTATTTCCGAGAGAAT
* * * * * ** *
1919514 ACTCTAACCCTGGCTTTATATT-TAAAATA-TTGATTTTTCATA
66 ACTCCAA-CCTCGATTT-TATTCCAAAACACCAG-TTTTTCACA
* * * * *
1919556 ATCAGGGG-TACTCCAA-CCCTGTTGTGTCAT-CGGGGATACTCCAATCCCGTTATTTTCGAGAG
1 ATC-GGGGATACTCCAATCCC-GTTATTTC-TGAGGGGATACTCCAACCCCGTTATTTCCGAGAG
1919618 AATACTCCAACCTCGATTTTATTCCCAAAACACCAGTTTTTCACA
63 AATACTCCAACCTCGATTTTATT-CCAAAACACCAGTTTTTCACA
*
1919663 ATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATAC-CCAACCCCG
1 ATCGGGGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCCG
1919711 AATTTATTTC
Statistics
Matches: 125, Mismatches: 21, Indels: 19
0.76 0.13 0.12
Matches are distributed among these distances:
105 4 0.03
106 22 0.18
107 90 0.72
108 9 0.07
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (106 bp):
ATCGGGGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCCGTTATTTCCGAGAGAAT
ACTCCAACCTCGATTTTATTCCAAAACACCAGTTTTTCACA
Found at i:1919700 original size:242 final size:241
Alignment explanation
Indices: 1919266--1919710 Score: 597
Period size: 242 Copynumber: 1.8 Consensus size: 241
1919256 TTTCTTAATC
* *
1919266 GGGGATACTCTAACCCCAACTTTATGTCTAAAATATTGATTTTTCATAATCGGGGGTACTCCAAC
1 GGGGATACTCTAACCCCAACTTTATATCTAAAATATTGATTTTTCATAATCAGGGGTACTCCAAC
* * * * *
1919331 CCCGTTATGTCATCGGGGATACTCCAATCCCATTATTTTTGAGGGGATACTCTAACCCCGGCTTT
66 CCCGTTATGTCATCGGGGATACTCCAATCCCATTATTTTCGAGAGAATACTCCAACCCCGACTTT
* * ** * * **
1919396 ATATCTAAAATATTGATTTTTCATAATCGGGGGTACTCCAACCCCGTTATGTCATCGGGGATACT
131 ATATCCAAAACACAGATTTTTCACAATCGGGGATACTCCAACCCCGTTATGTCAGAGGGGATAC-
*
1919461 CCAATCCCGTTATTTCTGAGGGGATACTCCAACCCCTTTATTTCCGA
195 CCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCTTTATTTCCGA
*** *
1919508 GGGGATACTCTAACCCTGGCTTTATATTTAAAATATTGATTTTTCATAATCAGGGGTACTCCAAC
1 GGGGATACTCTAACCCCAACTTTATATCTAAAATATTGATTTTTCATAATCAGGGGTACTCCAAC
* * * * *
1919573 CCTGTTGTGTCATCGGGGATACTCCAATCCCGTTATTTTCGAGAGAATACTCCAACCTCGATTTT
66 CCCGTTATGTCATCGGGGATACTCCAATCCCATTATTTTCGAGAGAATACTCCAACCCCGACTTT
* * *
1919638 AT-TCCCAAAACACCAG-TTTTTCACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATA
131 ATAT-CCAAAACA-CAGATTTTTCACAATCGGGGATACTCCAACCCCGTTATGTCAGAGGGGATA
1919701 CCCAACCCCG
194 CCCAACCCCG
1919711 AATTTATTTC
Statistics
Matches: 173, Mismatches: 28, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
241 9 0.05
242 163 0.94
243 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (241 bp):
GGGGATACTCTAACCCCAACTTTATATCTAAAATATTGATTTTTCATAATCAGGGGTACTCCAAC
CCCGTTATGTCATCGGGGATACTCCAATCCCATTATTTTCGAGAGAATACTCCAACCCCGACTTT
ATATCCAAAACACAGATTTTTCACAATCGGGGATACTCCAACCCCGTTATGTCAGAGGGGATACC
CAACCCCGTTATTTCTGAGGGGATACTCCAACCCCTTTATTTCCGA
Found at i:1919756 original size:78 final size:79
Alignment explanation
Indices: 1919584--1919761 Score: 241
Period size: 78 Copynumber: 2.3 Consensus size: 79
1919574 CTGTTGTGTC
* * *
1919584 ATCGGGGATACTCCAATCCCGTTATTTTCGAGAGAATACTCCAACCTCGATTTTATTCCCAAAAC
1 ATCGGGGATACTCCAATCCCGTTATTTCCGAGAGAATACTCCAACCCCGAATTTATTCCCAAAAC
*
1919649 ACCAGTTTTTCACA
66 ACCAATTTTTCACA
* * * * *
1919663 ATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATAC-CCAACCCCGAATTTATTTCTAAAAT
1 ATCGGGGATACTCCAATCCCGTTATTTCCGAGAGAATACTCCAACCCCGAATTTATTCCCAAAAC
1919727 ACCAATTTTTCACA
66 ACCAATTTTTCACA
* * *
1919741 ATCGGAGATATTCCAACCCCG
1 ATCGGGGATACTCCAATCCCG
1919762 GTTTTATTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
78 51 0.59
79 36 0.41
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (79 bp):
ATCGGGGATACTCCAATCCCGTTATTTCCGAGAGAATACTCCAACCCCGAATTTATTCCCAAAAC
ACCAATTTTTCACA
Found at i:1919768 original size:51 final size:51
Alignment explanation
Indices: 1919697--1919809 Score: 149
Period size: 51 Copynumber: 2.2 Consensus size: 51
1919687 TTTCCGAGGG
* *
1919697 GATAC-CCAACCCCGAATTTA-TTTCTAAAATACCAATTTTTCACAATCGGA
1 GATACTCCAACCCCGAATTTATTTTC-AAAACACCAATTTCTCACAATCGGA
* ** *
1919747 GATATTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTCACAATCGGG
1 GATACTCCAACCCCGAATTTATTTTCAAAACACCAATTTCTCACAATCGGA
1919798 GATACTCCAACC
1 GATACTCCAACC
1919810 TCGTTATTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 4 0.07
51 46 0.85
52 4 0.07
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.29
Consensus pattern (51 bp):
GATACTCCAACCCCGAATTTATTTTCAAAACACCAATTTCTCACAATCGGA
Found at i:1919898 original size:122 final size:120
Alignment explanation
Indices: 1919634--1920082 Score: 526
Period size: 122 Copynumber: 3.6 Consensus size: 120
1919624 CCAACCTCGA
* * * * *
1919634 TTTTATTCCCAAAACACCAGTTTTTCACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGA
1 TTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAA-CCCGTTATTTCTGAGGGAA
* *
1919699 TAC-CCAACCCCGAATTTATTTCTAAAATACCAATTTTTCACAATCGGAGATATTCCAACCCCGG
65 TACTCCAACCCCGACTTTA----T----TACCAATTTTTCACAATCGGAGATATTCCAACTCC-G
* *
1919763 TTTTATTTTCAAAACACCAATTTCTCACAATCGGGGATACTCCAACCTCGTTATTTCTGAGAGAA
1 TTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAACC-CGTTATTTCTGAGGGAA
*
1919828 TACTCCAACCCCGACTTTATTACCAATTTTTCACAATCGGAGATATTTCAACTCCAG
65 TACTCCAACCCCGACTTTATTACCAATTTTTCACAATCGGAGATATTCCAACTCC-G
* *
1919885 TTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGGGGA
1 TTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAA-CCCGTTATTTCTGAGGGAA
** *
1919950 TACTCCAACCCTAACTTTATTACCAATTTTTCACAATCGGGGATATTCCAACTCCG
65 TACTCCAACCCCGACTTTATTACCAATTTTTCACAATCGGAGATATTCCAACTCCG
* * * * * **
1920006 ATTTTATTTTCAAAATATCGATTT-TCTATAATTAGGGATACTCCAACCCTGTTATTT-TCGAGG
1 -TTTTATTTCCAAAACACCAATTTCTC-ACAATCGGGGATACTCCAACCC-GTTATTTCT-GAGG
1920069 GAATACTCCAACCC
62 GAATACTCCAACCC
1920083 TGATTTTTAT
Statistics
Matches: 285, Mismatches: 28, Indels: 21
0.85 0.08 0.06
Matches are distributed among these distances:
121 7 0.02
122 201 0.71
123 2 0.01
126 1 0.00
128 2 0.01
129 58 0.20
130 14 0.05
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (120 bp):
TTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAACCCGTTATTTCTGAGGGAAT
ACTCCAACCCCGACTTTATTACCAATTTTTCACAATCGGAGATATTCCAACTCCG
Found at i:1920075 original size:244 final size:245
Alignment explanation
Indices: 1919634--1920082 Score: 604
Period size: 244 Copynumber: 1.8 Consensus size: 245
1919624 CCAACCTCGA
* * * *
1919634 TTTTATTCCCAAAACACCAGTTTTTCACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGA
1 TTTTATTCCCAAAACACCAATTTCTCACAATCGGGGATACTCCAACCCCATTATTTCCGAGGGGA
*
1919699 TACCCAACCCCGAATTTATTTCTAAAATACCAATTTTTCACAATCGGAGATATTCCAACCCCGGT
66 TACCCAACCCCGAATTTA--T-T---ATACCAATTTTTCACAATCGGAGATATTCCAACCCCGAT
*
1919764 TTTATTTTCAAAACACCAATTTCTCACAATCGGGGATACTCCAACCTCGTTATTTCTGAGAGAAT
125 TTTATTTTCAAAACACCAATTTCTCACAATCAGGGATACTCCAACCTCGTTATTTCTGAGAGAAT
1919829 ACTCCAACCCCGACTTTATTACCAATTTTTCACAATCGGAGATATTTCAACTCCAG
190 ACTCCAACCCCGACTTTATTACCAATTTTTCACAATCGGAGATATTTCAACTCCAG
* *
1919885 TTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGGGGA
1 TTTTATTCCCAAAACACCAATTTCTCACAATCGGGGATACTCCAACCCCATTATTTCCGAGGGGA
* * *
1919950 TACTCCAA-CCCTAACTTTA-T-TACCAATTTTTCACAATCGGGGATATTCCAACTCCGATTTTA
66 TAC-CCAACCCCGAA-TTTATTATACCAATTTTTCACAATCGGAGATATTCCAACCCCGATTTTA
* * * * * *
1920012 TTTTCAAAATATCGATTT-TCTATAATTAGGGATACTCCAACC-CTGTTATTT-TCGAGGGAATA
129 TTTTCAAAACACCAATTTCTC-ACAATCAGGGATACTCCAACCTC-GTTATTTCT-GAGAGAATA
1920074 CTCCAACCC
191 CTCCAACCC
1920083 TGATTTTTAT
Statistics
Matches: 176, Mismatches: 17, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
243 4 0.02
244 96 0.55
248 1 0.01
251 67 0.38
252 8 0.05
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (245 bp):
TTTTATTCCCAAAACACCAATTTCTCACAATCGGGGATACTCCAACCCCATTATTTCCGAGGGGA
TACCCAACCCCGAATTTATTATACCAATTTTTCACAATCGGAGATATTCCAACCCCGATTTTATT
TTCAAAACACCAATTTCTCACAATCAGGGATACTCCAACCTCGTTATTTCTGAGAGAATACTCCA
ACCCCGACTTTATTACCAATTTTTCACAATCGGAGATATTTCAACTCCAG
Found at i:1920090 original size:27 final size:27
Alignment explanation
Indices: 1920039--1920090 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
1920029 TTCTATAATT
*
1920039 AGGGATACTCCAACCCTGTTATTTTCG
1 AGGGATACTCCAACCCTGATATTTTCG
1920066 AGGGAATACTCCAACCCTGAT-TTTT
1 AGGG-ATACTCCAACCCTGATATTTT
1920091 ATTTCTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (27 bp):
AGGGATACTCCAACCCTGATATTTTCG
Found at i:1922214 original size:4 final size:4
Alignment explanation
Indices: 1922205--1922237 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
1922195 TATTTTGAGG
*
1922205 TATT TATT TATT TATT TATT TATT GATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT T
1922238 GTTTTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:1925706 original size:52 final size:52
Alignment explanation
Indices: 1925573--1925713 Score: 230
Period size: 52 Copynumber: 2.7 Consensus size: 52
1925563 TGAAAAGTTA
1925573 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1925625 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
**
1925677 CTGCATGTATCGATACA-AAAATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTTAAT-AGTGTATCGATACA
1925714 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1925720 original size:13 final size:13
Alignment explanation
Indices: 1925702--1925726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1925692 CAAAAATCAG
1925702 TGTATCGATACAA
1 TGTATCGATACAA
1925715 TGTATCGATACA
1 TGTATCGATACA
1925727 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1925810 original size:13 final size:13
Alignment explanation
Indices: 1925792--1925816 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1925782 CAAAAAAATA
1925792 TGTATCGATACAT
1 TGTATCGATACAT
1925805 TGTATCGATACA
1 TGTATCGATACA
1925817 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1925812 original size:33 final size:33
Alignment explanation
Indices: 1925770--1925836 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1925760 AGTAGCTTAA
1925770 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1925803 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1925836 A
1 A
1925837 AGTCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1925915 original size:21 final size:21
Alignment explanation
Indices: 1925874--1925915 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1925864 GTTGGGACCT
*
1925874 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
1925895 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
1925916 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:1926886 original size:49 final size:50
Alignment explanation
Indices: 1926706--1926904 Score: 220
Period size: 49 Copynumber: 3.9 Consensus size: 50
1926696 AAAAGTGATA
* * * ** *
1926706 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGAACTTAAAGATG-G
* ** * * *
1926757 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAGGATGG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGAACTTAAAGATGG
* *
1926811 AAAATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGAACTTAAAGATGG
1926860 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGAACTTAAA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGAACTTAAA
1926905 AATGATGATG
Statistics
Matches: 122, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
49 44 0.36
50 38 0.31
51 2 0.02
54 3 0.02
55 35 0.29
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (50 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGAACTTAAAGATGG
Found at i:1926927 original size:221 final size:212
Alignment explanation
Indices: 1926635--1927121 Score: 700
Period size: 221 Copynumber: 2.3 Consensus size: 212
1926625 TTTTAGAGAT
* * *
1926635 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGAACTTAAAAATGAAGATGAGAAAA
*
1926700 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTAGGCCTAAAGATGAGAAAAAGGA
1926765 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAGGATGGAAAA-TGCCAATATGCTGA
131 TGTCAACGTGCTGATTCAAGGCCAG---C-TT--A---AA-GATGGAAAAGTGCCAATATGCTGA
1926829 TTCAAGGCCAGCGATATTGGACTTAAA
186 TTCAAGGCCAGCGATATTGGACTTAAA
* *
1926856 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGAACTTAAAAATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGAACTTAAAAATGAAGATGAGAAAA
*
1926921 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTAGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTAGGCCTAAAGATGAGAAAAAGGA
1926986 TGTCAACGTGCTGATTCAAGGCCAGCTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCC
131 TGTCAACGTGCTGATTCAAGGCCAGCTTAAAGATGGAAAA-GTGCCAATATGCTGATTCAAGGCC
*
1927051 AGCTATATTGGACTT-AA
195 AGCGATATTGGACTTAAA
* * * * * *
1927068 -A-G--G-TGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATG
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGAACTTAAAAATGAAGATG
1927122 CCAATATGCT
Statistics
Matches: 249, Mismatches: 15, Indels: 18
0.88 0.05 0.06
Matches are distributed among these distances:
207 44 0.18
208 1 0.00
210 1 0.00
211 10 0.04
212 4 0.02
213 37 0.15
215 1 0.00
217 2 0.01
218 1 0.00
221 148 0.59
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (212 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGAACTTAAAAATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTAGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTTAAAGATGGAAAAGTGCCAATATGCTGATTCAAGGCCA
GCGATATTGGACTTAAA
Found at i:1927017 original size:45 final size:42
Alignment explanation
Indices: 1926965--1927097 Score: 117
Period size: 43 Copynumber: 3.1 Consensus size: 42
1926955 ACGATATTAG
* *
1926965 GCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCA
1 GCTTAAAGATG-G-AAAAGG-TGCCAACATGCTGATTCAAGGCCA
* *
1927010 GCTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCA
1 GCTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCA
* * ** *
1927052 GC-TATA-TTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCA
1 GCTTAAAGATGGA---AAAGGTGCCAACATGCTGATTCAAGGCCA
1927095 GCT
1 GCT
1927098 ACATTGGACT
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
40 4 0.05
41 3 0.04
42 23 0.31
43 33 0.44
44 1 0.01
45 11 0.15
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (42 bp):
GCTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCA
Found at i:1927046 original size:42 final size:42
Alignment explanation
Indices: 1926994--1927097 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 42
1926984 GATGTCAACG
*
1926994 TGCTGATTCAAGGCCAGCTTAAAGATGGA-AAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTTAAA-ATGGATAAAGGTGCCAATA
* * *
1927036 TGCTGATTCAAGGCCAGC-TATATTGGACTTAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTTAAAATGGA--TAAAGGTGCCAATA
*
1927079 TGCTAATTCAAGGCCAGCT
1 TGCTGATTCAAGGCCAGCT
1927098 ACATTGGACT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
40 4 0.08
41 3 0.06
42 18 0.34
43 28 0.53
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (42 bp):
TGCTGATTCAAGGCCAGCTTAAAATGGATAAAGGTGCCAATA
Found at i:1927126 original size:49 final size:49
Alignment explanation
Indices: 1927027--1927997 Score: 1336
Period size: 49 Copynumber: 19.9 Consensus size: 49
1927017 GATGGAAAAT
*
1927027 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
1927070 GTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
1927119 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
1927168 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAG
*
1927220 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * *
1927269 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
1927318 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
1927367 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * *
1927416 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
1927465 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAG
*
1927517 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * *
1927566 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
1927615 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * *
1927664 GTGCCAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
1927713 ATGCCAATATGCTGATTCAATGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
1927756 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * *
1927805 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * *
1927854 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * *
1927903 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
1927952 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1927998 GAAAAGGCCA
Statistics
Matches: 809, Mismatches: 101, Indels: 30
0.86 0.11 0.03
Matches are distributed among these distances:
43 73 0.09
45 1 0.00
47 2 0.00
49 640 0.79
50 1 0.00
51 1 0.00
52 91 0.11
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (49 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
Found at i:1927211 original size:98 final size:98
Alignment explanation
Indices: 1927028--1927997 Score: 1649
Period size: 98 Copynumber: 10.0 Consensus size: 98
1927018 ATGGAAAATG
* * *
1927028 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTAATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1927087 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
*
1927120 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
*
1927185 CAAGGCCAGCTACATTGGACTTAAAGATGAAAAAGG
66 CAAGGCCAGCTACATTGGACTTAAAGATG---AAGA
*
1927221 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
*
1927286 CAAGGCCAGCTACATTGGACTTAAAGATGATGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
*
1927319 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1927384 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1927417 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
*
1927482 CAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGG
66 CAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGA
*
1927518 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
*
1927583 CAAGGCCAGCTACATTGGACTTAAAGATGATGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
1927616 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGTTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1927681 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
1927714 TGCCAATATGCTGATTCAATGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
*
1927773 CAAGGCCAGCTACATTGGACTTAAAGATGGAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1927806 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
*
1927871 CAAGGCCAGCTACATTGGACTTAAAGATGGAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1927904 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1927969 CAAGGCCAGCTACATTGGACTTAAAGATG
66 CAAGGCCAGCTACATTGGACTTAAAGATG
1927998 GAAAAGGCCA
Statistics
Matches: 832, Mismatches: 28, Indels: 30
0.93 0.03 0.03
Matches are distributed among these distances:
92 124 0.15
96 1 0.00
98 515 0.62
99 1 0.00
100 1 0.00
101 190 0.23
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (98 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
Found at i:1927434 original size:297 final size:295
Alignment explanation
Indices: 1927028--1927997 Score: 1707
Period size: 297 Copynumber: 3.3 Consensus size: 295
1927018 ATGGAAAATG
* * *
1927028 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A----AAGGTGCCAATGTGCTAATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGT
1927087 CAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATT
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATT
1927152 GGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAA
131 GGACTTAAA-GTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AA
1927217 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
194 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1927282 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGA
259 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGA
1927319 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGT
1927384 CAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATT
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATT
1927449 GGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAA
131 GGACTTAAAG-TGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAA
1927514 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
194 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1927579 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGA
259 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGA
*
1927616 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGTTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGT
*
1927681 CAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAATGCCAGCGATATT
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATT
* *
1927746 GGACTT--A---AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG--GA
131 GGACTTAAAGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAAA
* *
1927804 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGA
196 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGA
1927869 GTCAAGGCCAGCTACATTGGACTTAAAGATGGA-GA
261 GTCAAGGCCAGCTACATTGGACTTAAAGAT-GATGA
*
1927904 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGT
1927969 CAAGGCCAGCTACATTGGACTTAAAGATG
66 CAAGGCCAGCTACATTGGACTTAAAGATG
1927998 GAAAAGGCCA
Statistics
Matches: 659, Mismatches: 11, Indels: 21
0.95 0.02 0.03
Matches are distributed among these distances:
288 188 0.29
289 2 0.00
290 1 0.00
291 84 0.13
293 1 0.00
295 1 0.00
296 1 0.00
297 380 0.58
298 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (295 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGT
CAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATT
GGACTTAAAGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAAA
GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGA
GTCAAGGCCAGCTACATTGGACTTAAAGATGATGA
Found at i:1928123 original size:32 final size:33
Alignment explanation
Indices: 1928027--1928119 Score: 163
Period size: 33 Copynumber: 2.8 Consensus size: 33
1928017 GGCTTAGAGG
1928027 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1928060 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG-A
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
1928093 -GTTGCCACCGACTTGTGTGGGCTTTGG
1 GGTTGCCACCGACTTGTGTGGGCTTTGG
1928120 GAAGGAAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 25 0.42
33 27 0.46
34 5 0.08
ACGTcount: A:0.15, C:0.19, G:0.37, T:0.29
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
Found at i:1928197 original size:34 final size:34
Alignment explanation
Indices: 1928126--1928587 Score: 348
Period size: 33 Copynumber: 14.0 Consensus size: 34
1928116 TTGGGAAGGA
1928126 AAAAAGA-TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGACTTTAAAA--G
*
1928160 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAG
*
1928194 AAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGACTTT-AAAA--G
*
1928230 AAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAG
1 -AAAAAGAGTGCCACGGAGTTGTGGACTTTAAA-AG
*
1928266 AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGACTTT-AAAAG
* * *
1928300 AAGAAAGAGTGTCACGAAGTTGTGGGCTTTAAAAG
1 AA-AAAGAGTGCCACGGAGTTGTGGACTTTAAAAG
* *
1928335 AAGAAG-GTGCCACGGAGTTGTGGACTTT--GAG
1 AAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAG
* * *
1928366 ACAAA-A-TGCCACTGAGTCGTGGACTTT-AAAG
1 AAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAG
* * * * * *
1928397 AGAAGGA-TGCCACTGCGTCGTGGACTTT--GAG
1 AAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAG
* * * * *
1928428 -CAGAGATTGCCACTGAGTCGTGGAC-TTAAAGATG
1 AAAAAGAGTGCCACGGAGTTGTGGACTTTAAA-A-G
* * *
1928462 AAAAA-AGTGCCACGGAATTGTGGGCTTCAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAG
1928495 -----G-GTGCCACGGAGTTGTGGAC-TTAAAAGG
1 AAAAAGAGTGCCACGGAGTTGTGGACTTTAAAA-G
* *
1928523 AACAAG-GTGCCACGGAGTTGTGGGCTTT-AAAG
1 AAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAG
* *
1928555 AAAAA-A-TGCCACTGAGTCGTGGACTTTGAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGACTTT-AAAAG
1928588 GTATTTGAAG
Statistics
Matches: 358, Mismatches: 38, Indels: 65
0.78 0.08 0.14
Matches are distributed among these distances:
27 5 0.01
28 18 0.05
30 24 0.07
31 47 0.13
32 26 0.07
33 70 0.20
34 65 0.18
35 43 0.12
36 28 0.08
37 8 0.02
38 24 0.07
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (34 bp):
AAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAG
Found at i:1928241 original size:71 final size:71
Alignment explanation
Indices: 1928124--1928364 Score: 357
Period size: 69 Copynumber: 3.4 Consensus size: 71
1928114 CTTTGGGAAG
1928124 GAAAAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGG-AAAAAGAGTGCCACGGAGTTGTGGGC
1 GAAAAAAG-TGCCACGGAGTTGTGGACTTTGAAAAGGGAAAAAAGAGTGCCACGGAGTTGTGGGC
1928186 TTTAAAA
65 TTTAAAA
*
1928193 GAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAAGAGTGCCACGGAGTTGTGGGCT
1 GAAAAAAGTGCCACGGAGTTGTGGACTTTGAAAAGGGAAAAAAGAGTGCCACGGAGTTGTGGGCT
1928258 TTAAACA
66 TTAAA-A
* * * * *
1928265 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAGAAAGAGTGTCACGAAGTTGTGGGCT
1 GAAAAAAGTGCCACGGAGTTGTGGACTTTGAAAAGGGAAAAAAGAGTGCCACGGAGTTGTGGGCT
1928328 TTAAAA
66 TTAAAA
* *
1928334 GAAGAAGGTGCCACGGAGTTGTGGACTTTGA
1 GAAAAAAGTGCCACGGAGTTGTGGACTTTGA
1928365 GACAAAATGC
Statistics
Matches: 161, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
68 17 0.11
69 40 0.25
70 38 0.24
71 32 0.20
72 34 0.21
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (71 bp):
GAAAAAAGTGCCACGGAGTTGTGGACTTTGAAAAGGGAAAAAAGAGTGCCACGGAGTTGTGGGCT
TTAAAA
Found at i:1928442 original size:31 final size:30
Alignment explanation
Indices: 1928342--1928454 Score: 122
Period size: 31 Copynumber: 3.7 Consensus size: 30
1928332 AAGAAGAAGG
* * *
1928342 TGCCACGGAGTTGTGGACTTTGAGACA-AAA
1 TGCCACTGAGTCGTGGACTTTGAG-CAGAGA
*
1928372 TGCCACTGAGTCGTGGACTTTAAAG-AGAAGGA
1 TGCCACTGAGTCGTGGACTTT-GAGCAG-A-GA
*
1928404 TGCCACTGCGTCGTGGACTTTGAGCAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGCAGAGA
1928434 TTGCCACTGAGTCGTGGACTT
1 -TGCCACTGAGTCGTGGACTT
1928455 AAAGATGAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
29 1 0.01
30 21 0.30
31 25 0.36
32 23 0.33
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGCAGAGA
Found at i:1928448 original size:63 final size:61
Alignment explanation
Indices: 1928321--1928581 Score: 190
Period size: 62 Copynumber: 4.1 Consensus size: 61
1928311 TCACGAAGTT
* *
1928321 GTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGACTTTGAGACAAAATGCCACTGAGTC
1 GTGGACTTT-AAAG-AGAAGGTGCCACGGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTC
* * *
1928384 GTGGACTTTAAAGAGAAGGATGCCACTGCGTCGTGGACTTTGAG-CAGAGATTGCCACTGAGTC
1 GTGGACTTTAAAGAGAAGG-TGCCACGGAGTCGTGGACTTTGAGACA-A-AATGCCACTGAGTC
* * * * * ** *
1928447 GTGGAC-TTAAAGATGAAAAAAGTGCCACGGAATTGTGGGC-TTCA-A-AAGGGTGCCACGGAGT
1 GTGGACTTTAAAGA-G---AAGGTGCCACGGAGTCGTGGACTTTGAGACAA-AATGCCACTGAGT
*
1928508 T
61 C
* * * * * *
1928509 GTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAAATGCCACTGAGTC
1 GTGGACTTTAAA-G-AGAAGGTGCCACGGAGTCGTGGACTTT-GAGACAAAATGCCACTGAGTC
1928573 GTGGACTTT
1 GTGGACTTT
1928582 GAAAAGGTAT
Statistics
Matches: 157, Mismatches: 26, Indels: 29
0.74 0.12 0.14
Matches are distributed among these distances:
61 28 0.18
62 53 0.34
63 34 0.22
64 23 0.15
65 16 0.10
66 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (61 bp):
GTGGACTTTAAAGAGAAGGTGCCACGGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTC
Found at i:1928502 original size:28 final size:27
Alignment explanation
Indices: 1928468--1928522 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
1928458 GATGAAAAAA
*
1928468 GTGCCACGGAATTGTGGGCTTCAAAAGG
1 GTGCCACGGAATTGTGGACTT-AAAAGG
*
1928496 GTGCCACGGAGTTGTGGACTTAAAAGG
1 GTGCCACGGAATTGTGGACTTAAAAGG
1928523 AACAAGGTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.25, C:0.16, G:0.36, T:0.22
Consensus pattern (27 bp):
GTGCCACGGAATTGTGGACTTAAAAGG
Found at i:1929874 original size:1 final size:1
Alignment explanation
Indices: 1929864--1929902 Score: 60
Period size: 1 Copynumber: 39.0 Consensus size: 1
1929854 GCCTTTGCAC
* *
1929864 TTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1929903 GTGTTTACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.03, G:0.03, T:0.95
Consensus pattern (1 bp):
T
Found at i:1935324 original size:52 final size:52
Alignment explanation
Indices: 1935191--1935331 Score: 230
Period size: 52 Copynumber: 2.7 Consensus size: 52
1935181 TGAAAAGTTA
1935191 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1935243 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
**
1935295 CTGCATGTATCGATACA-AAAATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTTAAT-AGTGTATCGATACA
1935332 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1935338 original size:13 final size:13
Alignment explanation
Indices: 1935320--1935344 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1935310 CAAAAATCAG
1935320 TGTATCGATACAA
1 TGTATCGATACAA
1935333 TGTATCGATACA
1 TGTATCGATACA
1935345 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1935429 original size:13 final size:13
Alignment explanation
Indices: 1935411--1935435 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1935401 CAAAAAAATA
1935411 TGTATCGATACAT
1 TGTATCGATACAT
1935424 TGTATCGATACA
1 TGTATCGATACA
1935436 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1935431 original size:33 final size:33
Alignment explanation
Indices: 1935389--1935455 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1935379 AGTAGCTTAA
1935389 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1935422 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1935455 A
1 A
1935456 AGTCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1935534 original size:21 final size:21
Alignment explanation
Indices: 1935493--1935534 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1935483 GTTGGGACCT
*
1935493 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
1935514 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
1935535 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:1939382 original size:172 final size:172
Alignment explanation
Indices: 1939096--1939431 Score: 645
Period size: 172 Copynumber: 2.0 Consensus size: 172
1939086 TCCCGAATGT
*
1939096 GTCATAGCCATGTTTTAACTTCTACCCACCAATGCCACAGCCCGTGCATTCTACCGAGGTCATTC
1 GTCATAGCCAGGTTTTAACTTCTACCCACCAATGCCACAGCCCGTGCATTCTACCGAGGTCATTC
*
1939161 CAATAATGAATTTCACCCCAAATCCAGCTCCGGGCATGGCCCAAAACGTGCAGCCTCGCCATGCA
66 CAACAATGAATTTCACCCCAAATCCAGCTCCGGGCATGGCCCAAAACGTGCAGCCTCGCCATGCA
1939226 GTTAACGTAAGAAACATTAACAACCAACAAACACTTTGACTC
131 GTTAACGTAAGAAACATTAACAACCAACAAACACTTTGACTC
*
1939268 GTCATAGCCAGGTTTTAACTTCTACCCACCAATGCCACAGCCCGTGCATTCTACCGAGGTCGTTC
1 GTCATAGCCAGGTTTTAACTTCTACCCACCAATGCCACAGCCCGTGCATTCTACCGAGGTCATTC
1939333 CAACAATGAATTTCACCCCAAATCCAGCTCCGGGCATGGCCCAAAACGTGCAGCCTCGCCATGCA
66 CAACAATGAATTTCACCCCAAATCCAGCTCCGGGCATGGCCCAAAACGTGCAGCCTCGCCATGCA
1939398 GTTAACGTAAGAAACATTAACAACCAACAAACAC
131 GTTAACGTAAGAAACATTAACAACCAACAAACAC
1939432 CCCGAGAAAG
Statistics
Matches: 161, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
172 161 1.00
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.21
Consensus pattern (172 bp):
GTCATAGCCAGGTTTTAACTTCTACCCACCAATGCCACAGCCCGTGCATTCTACCGAGGTCATTC
CAACAATGAATTTCACCCCAAATCCAGCTCCGGGCATGGCCCAAAACGTGCAGCCTCGCCATGCA
GTTAACGTAAGAAACATTAACAACCAACAAACACTTTGACTC
Found at i:1942965 original size:52 final size:51
Alignment explanation
Indices: 1942853--1942972 Score: 143
Period size: 52 Copynumber: 2.3 Consensus size: 51
1942843 TATATTGAAG
* * * * *
1942853 AATGTATCGATGCATTTGGGTCAAAACCGAGAATGTATAAATATAATGAAT
1 AATGTATCGATACATTTGGGTCAAAACCGAAAATGTATAAATACAATAAAA
* **
1942904 AGTGTATCGATACATTTGGGTCAAAAAACC-AAAATGTATTGATACAATAAAA
1 AATGTATCGATACATTTGGGTC--AAAACCGAAAATGTATAAATACAATAAAA
1942956 AATGTATCGATACATTT
1 AATGTATCGATACATTT
1942973 TCTTTCCAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
51 20 0.34
52 32 0.55
53 6 0.10
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (51 bp):
AATGTATCGATACATTTGGGTCAAAACCGAAAATGTATAAATACAATAAAA
Found at i:1948970 original size:20 final size:20
Alignment explanation
Indices: 1948945--1949016 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
1948935 TACCCGGATA
*
1948945 TATCGATACATTTTTCACTG
1 TATCGATACATTTTTCAATG
* * *
1948965 TATCGATACATGTATGAATG
1 TATCGATACATTTTTCAATG
*
1948985 TATCGATACATTCTTCAATG
1 TATCGATACATTTTTCAATG
*
1949005 TATTGATACATT
1 TATCGATACATT
1949017 CTGTCTTTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTTTCAATG
Found at i:1950899 original size:21 final size:21
Alignment explanation
Indices: 1950874--1950927 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
1950864 TACAAGCCAA
** *
1950874 TGTATCGATACAATTTTTTTG
1 TGTATCGATACAATACTTTGG
1950895 TGTATCGATAC-ATACTTTGG
1 TGTATCGATACAATACTTTGG
1950915 TGTATCGATACAA
1 TGTATCGATACAA
1950928 GTTTAGCTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.43
Consensus pattern (21 bp):
TGTATCGATACAATACTTTGG
Found at i:1951607 original size:12 final size:12
Alignment explanation
Indices: 1951590--1951614 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1951580 TAAGGTAATT
1951590 TTAGCAAATTTA
1 TTAGCAAATTTA
1951602 TTAGCAAATTTA
1 TTAGCAAATTTA
1951614 T
1 T
1951615 GCATCCTCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTAGCAAATTTA
Found at i:1953013 original size:21 final size:20
Alignment explanation
Indices: 1952984--1953026 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1952974 GGCTAGTATG
*
1952984 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
1953005 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
1953025 GG
1 GG
1953027 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:1953485 original size:13 final size:13
Alignment explanation
Indices: 1953467--1953505 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1953457 ATAATCCCCC
1953467 TGTATCGATACAG
1 TGTATCGATACAG
*
1953480 TGTATCGATACAA
1 TGTATCGATACAG
1953493 TGTATCGATACAG
1 TGTATCGATACAG
1953506 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1959587 original size:13 final size:13
Alignment explanation
Indices: 1959569--1959594 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1959559 AATTTTTTTG
1959569 TGTATCGATACAT
1 TGTATCGATACAT
1959582 TGTATCGATACAT
1 TGTATCGATACAT
1959595 AATTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1959610 original size:33 final size:34
Alignment explanation
Indices: 1959548--1959613 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
1959538 TACAAGCCAA
** *
1959548 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATAATTTGGTGTATCGATACAT
1959582 TGTATCGATAC-ATAATTTGGTGTATCGATACA
1 TGTATCGATACAATAATTTGGTGTATCGATACA
1959614 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (34 bp):
TGTATCGATACAATAATTTGGTGTATCGATACAT
Found at i:1968494 original size:10 final size:10
Alignment explanation
Indices: 1968479--1968514 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
1968469 TTCTCACTTC
1968479 TTTTTCTTTT
1 TTTTTCTTTT
1968489 TTTTTCTTTT
1 TTTTTCTTTT
1968499 TTTTCTCTCTTT
1 TTTT-TCT-TTT
1968511 TTTT
1 TTTT
1968515 GCTTGCTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 3 0.12
12 7 0.29
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:1969303 original size:167 final size:167
Alignment explanation
Indices: 1969115--1969578 Score: 582
Period size: 167 Copynumber: 2.8 Consensus size: 167
1969105 AATATCCCCG
* *
1969115 AAAATATTTATGGAATAGAAAACTCGATTTTTTTAAAAAAAAATG-ATTTCAAAGAAAAAAATCC
1 AAAAT-TTTACGGAATAGAAAACTCGATTTTTTTAAAAAAAGA-GAATTTCAAAGAAAAAAATCC
* * *
1969179 AAAACTCATGAAAATGAATGAATATTTGAAAAATAATTTAATATGAAATAAATAATAATATTTGA
64 AAAACTCATGAAAATGAATGAAT-TTTTAAAAATGATTTATTATGAAATAAATAATAATATTTGA
**
1969244 TTG-ATTTTAAAAATTAAAAACCAAGAAAAATCTTCCT-AA
128 TTGAATTTTAAAAATTAAAAACCAAGAAAAAT-AACCTCAA
* * * * * * *
1969283 AAAATTTTACGGAGTAGAAAACTCTATTTTTTTGAAATAGGAGAATTTCAAGGAAAAAAATCAAA
1 AAAATTTTACGGAATAGAAAACTCGATTTTTTTAAAAAAAGAGAATTTCAAAGAAAAAAATCCAA
* *
1969348 AACTCATGAAAATGAATGAATTTTTTAAAACTGATTTATTATGAAATAAAAAATAATATTTGA-T
66 AACTCATGAAAATGAATGAA-TTTTTAAAAATGATTTATTATGAAATAAATAATAATATTTGATT
1969412 GAATTTTAAAAATTAAAAACCAAGAAAAATAACCTCAA
130 GAATTTTAAAAATTAAAAACCAAGAAAAATAACCTCAA
* * * * * *
1969450 AAAAATTTACGAAATAAAAAACTCTG-TTTTTTGAAAACAAGAGAATTTC-AAGAAAAAAATTCA
1 AAAATTTTACGGAATAGAAAACTC-GATTTTTTTAAAAAAAGAGAATTTCAAAGAAAAAAATCCA
* *
1969513 GAAACCCATGAAAATGAATAAATTTTTAAAAACTGATTTATTAT-AAATTAAATAATAATATTTG
65 -AAACTCATGAAAATGAATGAATTTTTAAAAA-TGATTTATTATGAAA-TAAATAATAATATTTG
1969577 AT
127 AT
1969579 GAAATTTGAT
Statistics
Matches: 255, Mismatches: 32, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
166 29 0.11
167 220 0.86
168 6 0.02
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.31
Consensus pattern (167 bp):
AAAATTTTACGGAATAGAAAACTCGATTTTTTTAAAAAAAGAGAATTTCAAAGAAAAAAATCCAA
AACTCATGAAAATGAATGAATTTTTAAAAATGATTTATTATGAAATAAATAATAATATTTGATTG
AATTTTAAAAATTAAAAACCAAGAAAAATAACCTCAA
Found at i:1972492 original size:7 final size:7
Alignment explanation
Indices: 1972444--1972501 Score: 55
Period size: 7 Copynumber: 7.7 Consensus size: 7
1972434 TTTCCAGCTG
1972444 AAAAAGA
1 AAAAAGA
1972451 AAGAAAGA
1 AA-AAAGA
1972459 AGGAAAGAGA
1 A--AAA-AGA
1972469 AAAAA-A
1 AAAAAGA
*
1972475 AAAACAAA
1 AAAA-AGA
1972483 AAAAAGA
1 AAAAAGA
1972490 AAAAAGA
1 AAAAAGA
1972497 AAAAA
1 AAAAA
1972502 AATTTATGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
6 5 0.11
7 18 0.41
8 14 0.32
9 2 0.05
10 5 0.11
ACGTcount: A:0.83, C:0.02, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:1972492 original size:16 final size:15
Alignment explanation
Indices: 1972468--1972503 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
1972458 AAGGAAAGAG
1972468 AAAAAAAAAAACAAA
1 AAAAAAAAAAACAAA
*
1972483 AAAAAGAAAAAAGAAA
1 AAAAA-AAAAAACAAA
1972499 AAAAA
1 AAAAA
1972504 TTTATGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.92, C:0.03, G:0.06, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAACAAA
Found at i:1972548 original size:21 final size:23
Alignment explanation
Indices: 1972522--1972586 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 23
1972512 TTTATATTTT
1972522 TATTATTTTTTATAT-TTAA-AA
1 TATTATTTTTTATATATTAATAA
1972543 TATTATATTTTTATATATTAATAA
1 TATTAT-TTTTTATATATTAATAA
*
1972567 TATATTTTATTTTATATATT
1 TAT-TATT-TTTTATATATT
1972587 TTATATATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
21 6 0.16
22 9 0.24
23 4 0.11
24 6 0.16
25 13 0.34
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTATTTTTTATATATTAATAA
Found at i:1972551 original size:26 final size:26
Alignment explanation
Indices: 1972522--1972596 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 26
1972512 TTTATATTTT
*
1972522 TATTATTTTTTATATTTAA-AATAT-
1 TATTATTTTATATATTTAATAATATA
1972546 TA-TATTTT-TATATATTAATAATATA
1 TATTATTTTATATAT-TTAATAATATA
* *
1972571 TTTTATTTTATATATTTTAT-ATATA
1 TATTATTTTATATATTTAATAATATA
1972596 T
1 T
1972597 GTGTATTCGT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
22 5 0.11
23 10 0.23
24 7 0.16
25 7 0.16
26 10 0.23
27 5 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TATTATTTTATATATTTAATAATATA
Found at i:1972592 original size:23 final size:23
Alignment explanation
Indices: 1972524--1972594 Score: 79
Period size: 25 Copynumber: 3.0 Consensus size: 23
1972514 TATATTTTTA
* *
1972524 TTATTTTTTATATTTAAAATATT
1 TTATTTTATATATTTAATATATT
*
1972547 ATATTTTTATATATTAATAATATATT
1 TTA-TTTTATATATT--TAATATATT
*
1972573 TTATTTTATATATTTTATATAT
1 TTATTTTATATATTTAATATAT
1972595 ATGTGTATTC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
23 9 0.22
24 10 0.25
25 11 0.28
26 10 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TTATTTTATATATTTAATATATT
Found at i:1972971 original size:20 final size:20
Alignment explanation
Indices: 1972948--1972985 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1972938 AGGCAAAGCT
1972948 GAAAAAAAAGAAAGAAAGGA
1 GAAAAAAAAGAAAGAAAGGA
*
1972968 GAAAAAAATGAAAGAAAG
1 GAAAAAAAAGAAAGAAAG
1972986 AAAAAGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.03
Consensus pattern (20 bp):
GAAAAAAAAGAAAGAAAGGA
Found at i:1972983 original size:24 final size:25
Alignment explanation
Indices: 1972954--1973001 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
1972944 AGCTGAAAAA
*
1972954 AAAGAAAG-AAAGGAGAAAAAAATG
1 AAAGAAAGAAAAAGAGAAAAAAATG
1972978 AAAGAAAGAAAAAGAGAAAAAAAT
1 AAAGAAAGAAAAAGAGAAAAAAAT
1973002 TTATGTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (25 bp):
AAAGAAAGAAAAAGAGAAAAAAATG
Found at i:1973060 original size:25 final size:23
Alignment explanation
Indices: 1973032--1973092 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
1973022 TTTATTTAAA
*
1973032 ATATTATATTTTTATATTTTTTTAC
1 ATATTATATTTTTAT-TTTATTT-C
*
1973057 ATATTA-ATAATTTATTTTATTTC
1 ATATTATAT-TTTTATTTTATTTC
1973080 AT-TTATATTTTTA
1 ATATTATATTTTTA
1973093 ATGTATGTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
22 7 0.23
23 5 0.16
24 8 0.26
25 11 0.35
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (23 bp):
ATATTATATTTTTATTTTATTTC
Found at i:1975940 original size:19 final size:20
Alignment explanation
Indices: 1975921--1975958 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1975911 GAGATGCTGG
*
1975921 ACATATTAAAAATGCATGGA
1 ACATAGTAAAAATGCATGGA
*
1975941 ACATAGTGAAAATGCATG
1 ACATAGTAAAAATGCATG
1975959 ATCAAAGGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (20 bp):
ACATAGTAAAAATGCATGGA
Found at i:1976727 original size:28 final size:28
Alignment explanation
Indices: 1976616--1977684 Score: 827
Period size: 28 Copynumber: 37.5 Consensus size: 28
1976606 CACCAACTTG
* *
1976616 TGTGGGCTTTAGAGAAGGTTGCCACCGACT
1 TGTGGGCTTT-GA-AAGGATGCCACTGACT
* *
1976646 TGTGTAGGCTTTGGAAAGGTTGCCATTGACT
1 TGTG--GGCTTT-GAAAGGATGCCACTGACT
* * *
1976677 TGTGGGCTTTAAAAGGATACCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
1976705 TATGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1976733 TGTGAGCTTTGAAAGGGTGCCATTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
1976761 TGTGGGCTTCGAGAAAGGTTGCCACCGACTT
1 TGTGGGCTT--TGAAAGGATGCCACTGAC-T
* * *
1976792 GTGTGGGCTTT-AAGGGGTTGCCACCGACT
1 -TGTGGGCTTTGAA-AGGATGCCACTGACT
* *
1976821 T-TGGGCTTTGAGAGAGGTTGCCACCGACT
1 TGTGGGCTTTGA-A-AGGATGCCACTGACT
* *
1976850 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
1976878 TGTGAGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * ** *
1976906 TGTGAGCTTCGAGAGAGGTTGCCACCAAGTT
1 TGTGGGCTTTGA-A-AGGATGCCACTGA-CT
* *
1976937 GTGTGGGCTTT-AAGAGGTTGCCACCGACT
1 -TGTGGGCTTTGAA-AGGATGCCACTGACT
* *
1976966 TATGGGATTTTGAAAGGATGCCACTGACT
1 TGTGGG-CTTTGAAAGGATGCCACTGACT
* * **
1976995 CGTGGGCTTTTGAAAGGGTGCCACAAACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* * **
1977024 TGTGGGCTTCGAGAGAGGTTGCCACCAACT
1 TGTGGGCTTTGA-A-AGGATGCCACTGACT
* *
1977054 TATGGGCTTTGAAA-AAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
1977082 GGTGGGCTTTGAAAGTATGCCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1977110 TATGGGCTTTGAAAGGATGTCACTAACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1977138 CGTGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1977166 CGTAGGCTTTGGAAA-GATGCCACTGACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* *
1977194 TGTGGGCTTTGGAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1977222 TGTGGGCTTAGAAAGGGTACCACTAAC-
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1977249 TGTTGGG-TTTCGAGAGAGGTTGCCACCGACT
1 TG-TGGGCTTT-GA-A-AGGATGCCACTGACT
*
1977280 TGTGGGCTTTGAAA-AAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
1977308 GGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
1977336 TATGGGCTTTGAAAGGATGTCACTGACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
1977364 CGTGGGCTTTGGAAGGATGCTACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1977392 CGTGGGCTTTGGAAA-TATGCCACTGACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* *
1977420 TGTGGG-TTTTAGAAGGATGCCATTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
* * *
1977448 TGTGGGCTTAGAAAGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1977476 GGTGGG-TTTAGAAAGGGTGCCACT-ACCT
1 TGTGGGCTTT-GAAAGGATGCCACTGA-CT
* * * *
1977504 AGTGGGCTTTGAAA-AAGTGCCATTAACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * * * *
1977532 GGTGAGCTTTGAAA-AAGTGTCACTGACC
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
1977560 AGTGGGCTTTGAAAGGATACCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1977588 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
1977616 CGTGGGCTTTGGAAGGATACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1977644 TGTGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
1977672 TGTGGGC-TTGAAA
1 TGTGGGCTTTGAAA
1977685 AAAGATCGTA
Statistics
Matches: 850, Mismatches: 148, Indels: 85
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.00
27 28 0.03
28 571 0.67
29 93 0.11
30 106 0.12
31 26 0.03
32 25 0.03
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:1976893 original size:173 final size:176
Alignment explanation
Indices: 1976595--1977249 Score: 500
Period size: 173 Copynumber: 3.8 Consensus size: 176
1976585 CATTGGGTCT
*
1976595 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTAGGCTTTGG
1 AGAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGTTGCCACCGACTTGTG-AGGCTTTGG
** * * *
1976660 AAAGGTTGCCATTGACTTGTGGGCTTTAAAAGGATACCACTGATTTATGGGCTTTGAAAGGGTGC
65 AAAGGTTGCCACCGACTTGTGGGCTTTAAAAGGATACCACTAACTTATGAGCTTTGAAAGGGTGC
1976725 CACTAACTTGTGAGCTTTGAAAGGGTGCCATTAACTTGTGGGCTTCG
130 CACTAACTTGTGAGCTTTGAAAGGGTGCCATTAACTTGTGGGCTTCG
* *
1976772 AGAAAGGTTGCCACCGACTTGTGTGGGCTTTA-AG-GGGTTGCCACCGACTT-TG-GGCTTTGAG
1 AGAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGTTGCCACCGACTTGTGAGGCTTTG-G
* * * * *
1976833 AGAGGTTGCCACCGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGAGCTTTGAAAGGGTGC
65 AAAGGTTGCCACCGACTTGTGGGCTTTAAAAGGATACCACTAACTTATGAGCTTTGAAAGGGTGC
* * ** * *
1976898 CACTAACTTGTGAGCTTCGAGAGAGGTTGCCACCAAGTTGTGTGGGCTT-T
130 CACTAACTTGTGAGCTTTGA-A-AGGGTGCCATTAA-CT-TGTGGGCTTCG
* * * * * * * * *
1976948 A-AGAGGTTGCCACCGAC-T-TATGGGATTTTGA-AAGGATGCCACTGACTCGTG-GGCTTTTGA
1 AGAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGTTGCCACCGACTTGTGAGGCTTTGGA
* ** * * * * * * **
1977008 AAGGGTGCCACAAACTTGTGGGCTTCGAGAGAGGTTGCCACCAACTTATGGGCTTTGAAAAAGTG
66 AAGGTTGCCACCGACTTGTGGGCTT-TA-AAAGGATACCACTAACTTATGAGCTTTGAAAGGGTG
* * * ** * * * *
1977073 CCACTGACTGGTGGGCTTTGAAAGTATGCCACTGATTTATGGGCTT--
129 CCACTAACTTGTGAGCTTTGAAAGGGTGCCATTAACTTGTGGGCTTCG
* * * * ** * * *
1977119 TGAAAGGATGTCACTAAC--CCGTGGGCTTT-G-GAAGGATGCCACTGACTCGT-AGGCTTTGGA
1 AGAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGTTGCCACCGACTTGTGAGGCTTTGGA
* * ** * * * * * * *
1977179 AA-GATGCCACTGACTTGTGGGCTTTGGAAGGATGCCATTGACTTGTGGGCTTAGAAAGGGTACC
66 AAGGTTGCCACCGACTTGTGGGCTTTAAAAGGATACCACTAACTTATGAGCTTTGAAAGGGTGCC
1977243 ACTAACT
131 ACTAACT
1977250 GTTGGGTTTC
Statistics
Matches: 387, Mismatches: 77, Indels: 37
0.77 0.15 0.07
Matches are distributed among these distances:
168 33 0.09
170 19 0.05
171 30 0.08
172 33 0.09
173 85 0.22
174 49 0.13
175 49 0.13
176 50 0.13
177 39 0.10
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (176 bp):
AGAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGTTGCCACCGACTTGTGAGGCTTTGGA
AAGGTTGCCACCGACTTGTGGGCTTTAAAAGGATACCACTAACTTATGAGCTTTGAAAGGGTGCC
ACTAACTTGTGAGCTTTGAAAGGGTGCCATTAACTTGTGGGCTTCG
Found at i:1985290 original size:28 final size:28
Alignment explanation
Indices: 1985258--1985329 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
1985248 AATAAAATCG
1985258 GGGTTGGAGTATCCTCTC-A-GAAACAACA
1 GGGTTGGAGTATCC-C-CGATGAAACAACA
* * *
1985286 GGGTTAGAATATCCCCGATGAAATAACA
1 GGGTTGGAGTATCCCCGATGAAACAACA
*
1985314 AGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
1985330 AATTGTTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 1 0.03
27 2 0.06
28 33 0.92
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGATGAAACAACA
Found at i:1985426 original size:51 final size:51
Alignment explanation
Indices: 1985315--1985431 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
1985305 GAAATAACAA
* *
1985315 GGTTGGAGTATCCCCAATTGTTAAAAATTGATGTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCAATTGTGAAAAATTGATGTTTTAGAAATAAAATCGG
* * * *
1985366 AGTTAGAGTATTCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAA-CTGG
1 GGTTGGAGTATCCCCAATTGTGAAAAATTGATGTTTTAGAAATAAAATC-GG
1985417 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1985432 TTAGAAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 1 0.02
51 55 0.98
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.32
Consensus pattern (51 bp):
GGTTGGAGTATCCCCAATTGTGAAAAATTGATGTTTTAGAAATAAAATCGG
Found at i:1985505 original size:51 final size:51
Alignment explanation
Indices: 1985444--1985556 Score: 163
Period size: 51 Copynumber: 2.2 Consensus size: 51
1985434 AGAAATAATA
** * *
1985444 GGGTTAGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAATCG
1 GGGTTAGAGTATCCCCGATTGCAAAAAATCAATGTTTTAGAAATAAAACCG
* *
1985495 GGGTTGGAGTATCCCCGATTGCAAAAAATTAATGTTTTAGAAATAAAACCG
1 GGGTTAGAGTATCCCCGATTGCAAAAAATCAATGTTTTAGAAATAAAACCG
*
1985546 AGGTTAGAGTA
1 GGGTTAGAGTA
1985557 CCTTTCAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (51 bp):
GGGTTAGAGTATCCCCGATTGCAAAAAATCAATGTTTTAGAAATAAAACCG
Found at i:1985610 original size:130 final size:129
Alignment explanation
Indices: 1985305--1985621 Score: 404
Period size: 130 Copynumber: 2.4 Consensus size: 129
1985295 TATCCCCGAT
* * *
1985305 GAAATAACAAGGTTGGAGTATCCCCAATTGTTAAAAATTGATGTTTTGGAAATAAAATCGGAGTT
1 GAAATAACAGGGTTGGAGTATCCCCGATTGTAAAAAATTGATGTTTTGGAAATAAAATCGGAGTT
* ** * * * *
1985370 AGAGTATTCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTTA
66 AGAGTATCCCCGATTGCAAAAAATTAATGTTTTAGAAATAAAACCGAGGTTAGAGTA-CCCCTTA
* * * * * *
1985435 GAAATAATAGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAATCGGGGTT
1 GAAATAACAGGGTTGGAGTATCCCCGATTGTAAAAAATTGATGTTTTGGAAATAAAATCGGAGTT
* *
1985500 GGAGTATCCCCGATTGCAAAAAATTAATGTTTTAGAAATAAAACCGAGGTTAGAGTA-CCTTTCA
66 AGAGTATCCCCGATTGCAAAAAATTAATGTTTTAGAAATAAAACCGAGGTTAGAGTACCCCTT-A
* *
1985564 GATATAACAGGGTTGGAGTATCCCCGATTGTAAAAAAATT-AGTGTTTTGGAAGTAAAA
1 GAAATAACAGGGTTGGAGTATCCCCGATTGT-AAAAAATTGA-TGTTTTGGAAATAAAA
1985622 ATATGAATGA
Statistics
Matches: 160, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
128 4 0.03
129 30 0.19
130 126 0.79
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (129 bp):
GAAATAACAGGGTTGGAGTATCCCCGATTGTAAAAAATTGATGTTTTGGAAATAAAATCGGAGTT
AGAGTATCCCCGATTGCAAAAAATTAATGTTTTAGAAATAAAACCGAGGTTAGAGTACCCCTTA
Found at i:1988039 original size:13 final size:13
Alignment explanation
Indices: 1988021--1988050 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1988011 GTAAACCCAG
1988021 AATGTATCGATAC
1 AATGTATCGATAC
1988034 AATGTATCGATAC
1 AATGTATCGATAC
1988047 AATG
1 AATG
1988051 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1988749 original size:19 final size:19
Alignment explanation
Indices: 1988717--1988761 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
1988707 TTGCTTCTTG
1988717 AGGACAAAGAAAAAAAGAAA
1 AGGA-AAAGAAAAAAAGAAA
*
1988737 AGGAAAAGGAAAAAAGAAA
1 AGGAAAAGAAAAAAAGAAA
1988756 AGGAAA
1 AGGAAA
1988762 TTTTCCTGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.00
Consensus pattern (19 bp):
AGGAAAAGAAAAAAAGAAA
Found at i:1989057 original size:61 final size:60
Alignment explanation
Indices: 1988955--1989482 Score: 526
Period size: 55 Copynumber: 9.1 Consensus size: 60
1988945 ACAAAGGAGA
** * * **
1988955 AAAAGAAAAGATGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTCATGTGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
** *
1989015 GAAAAGAAAAGGCGTTTTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT
1 -AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
1989076 GCAAAGAGAAA-GCATACTGCTCTTTGAGGACTGGAAAGTGCCACCAACTCGAGTGGTCTTT
1 -AAAAGA-AAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* *
1989137 AAAAGGAGAAA-GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAA-GA-AAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
*
1989198 ----G-AAAGGCGTCCTGCTCTTTGAGGACTCGG-AAGTGCTACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
1989253 AAAAGAGAAGGTGTCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * *
1989313 --AAG---AGGCATCCTGCTATTTGAGGACTGAAAAATGCCACCAACTTGTATGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* ** *
1989368 ----G-AAAGGCGTCCTACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* ** *
1989423 ----G-AAAGACGTATTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
1989478 AAAAG
1 AAAAG
1989483 GTGTCATGCT
Statistics
Matches: 402, Mismatches: 49, Indels: 34
0.83 0.10 0.07
Matches are distributed among these distances:
53 1 0.00
54 3 0.01
55 184 0.46
56 3 0.01
58 3 0.01
59 4 0.01
60 50 0.12
61 151 0.38
62 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (60 bp):
AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:1989366 original size:170 final size:167
Alignment explanation
Indices: 1988968--1989823 Score: 738
Period size: 165 Copynumber: 5.1 Consensus size: 167
1988958 AGAAAAGATG
** **
1988968 TCCTGCTCTTTGAGGACT-AGAAAATGCCACCAACTCATGTGGGCTTTGAAAAGAAAAGGCGTTT
1 TCCTGCTCTTTGAGGACTGA-AAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCC
*
1989032 TGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATACTGCT
59 TGCTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTT--AAAGAGAAAGTAT-CTGCT
* * *
1989097 CTTTGAGGACTGGAAAGTGCCACCAACTCGAGTGGTCTTTAAAAGGAGAAAGCA
120 CTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT--AA-GAG---GCA
*
1989151 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * *
1989216 TGAGGACTCGGAAGTGCTACCAACTTGTGTGGGCTTTAAAAGAGAAGGTGTCCTGCTCTTTGAGG
66 TGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTT-AAAGAGAAAGTAT-CTGCTCTTTGAGG
* *
1989281 ATTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCA
128 ACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCA
* * *
1989321 TCCTGCTATTTGAGGACTGAAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCTACTCTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
** * * *
1989386 TGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAA-AG-ACGTAT-TGCTCTTTGAGGAC
66 TGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAAGTATCTGCTCTTTGAGGAC
* * **
1989448 TGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
130 TGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCA
* * ** * * * *
1989486 TCATGCTTTTTGAGGACT--AAAGGGCGA--AA--------GG---AGAGA-GTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * * * * * *
1989535 TGAGGACTGGGAAGTGCCACCAACTTGGGTTGGCTTTAAAAAGAGAAGGCAACCTGCTTTTTAAG
66 TGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTT--AAAGAGAAAG-TATCTGCTCTTTGAG
*
1989600 GACT-GAGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCG
127 GACTGGA-AAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCA
* * * *
1989641 TCCTACTCTTTGAGGACCGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGGTCTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
** * * * ** *
1989706 TGAGGACTAAAAAATGCCACCAACTTGTGTAGGCTTT-GAGAG-GCGT-CCTGCTCTTTGAGGAC
66 TGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAAGTATCTGCTCTTTGAGGAC
* * * *
1989768 T-GAATGGTGCCACCAACTTGTGTGGGTTTTGAA-AAGCG
130 TGGAA-AGTGCCACCAACTTGTGTGGGCTTT-AAGAGGCA
*
1989806 TCCTACTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
1989824 AAAGGGTGAA
Statistics
Matches: 562, Mismatches: 84, Indels: 72
0.78 0.12 0.10
Matches are distributed among these distances:
149 42 0.07
150 3 0.01
151 2 0.00
152 2 0.00
153 4 0.01
154 3 0.01
155 58 0.10
157 6 0.01
159 2 0.00
161 2 0.00
163 6 0.01
164 1 0.00
165 123 0.22
166 2 0.00
167 7 0.01
168 6 0.01
169 2 0.00
170 99 0.18
171 43 0.08
173 3 0.01
174 2 0.00
176 50 0.09
177 46 0.08
178 5 0.01
183 43 0.08
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (167 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
TGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAAGTATCTGCTCTTTGAGGACT
GGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCA
Found at i:1989671 original size:55 final size:55
Alignment explanation
Indices: 1989598--1989823 Score: 301
Period size: 55 Copynumber: 4.1 Consensus size: 55
1989588 CTGCTTTTTA
* *
1989598 AGGACTGAGAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGCGTCCTACTCTTTG
1 AGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTACTCTTTG
* * **
1989653 AGGACCGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGGTCTTTG
1 AGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTG
* * * *
1989708 AGGACTAAAAAATGCCACCAACTTGTGTAGGCTTTGAGAGGCGTCCTGCTCTTTG
1 AGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTG
*** * *
1989763 AGGACTGAATGGTGCCACCAACTTGTGTGGGTTTTGAAAAGCGTCCTACTCTTTG
1 AGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTG
1989818 AGGACT
1 AGGACT
1989824 AAAGGGTGAA
Statistics
Matches: 149, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
55 147 0.99
56 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (55 bp):
AGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTG
Found at i:1989786 original size:320 final size:319
Alignment explanation
Indices: 1989203--1989921 Score: 1039
Period size: 320 Copynumber: 2.2 Consensus size: 319
1989193 GCTTTGAAAG
* *
1989203 GCGTCCTGCTCTTTGAGGACTCGGAAGTGCTACCAACTTGTGTGGGCTTT-AAAAGAGAAGGTGT
1 GCGTCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGT
* * * *
1989267 CCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCATCCTGCTATTT
65 CCTGCTTTTTGAGGACTGAGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCATCCTACTATTT
*
1989332 GAGGACTGAAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTAAA
130 GAGGACCGAAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTAAA
* *
1989397 AAATGCCACCAACTTGTGTGGGCTTTGAAAGACGTATTGCTCTTTGAGGACTGGAAAATGCCACC
195 AAATGCCACCAACTTGTGTAGGCTTTGAAAGACGTACTGCTCTTTGAGGACTGGAAAATGCCACC
* * *
1989462 AACTTGTGTGGGCTTT-AAAAGGTGTCATGCTTTTTGAGGACTAAAGGGCGAAAGGAGAGA
260 AACTTGTGTGGGCTTTGAAAA-GCGTCATACTCTTTGAGGACTAAAGGGCGAAAGGAGAGA
* * * **
1989522 GTGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGGGTTGGCTTTAAAAAGAGAAGGCAA
1 GCGTCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGT
* * *
1989587 CCTGCTTTTTAAGGACTGAGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTACTCTTT
65 CCTGCTTTTTGAGGACTGAGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCATCCTACTATTT
* * **
1989652 GAGGACCGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGGTCTTTGAGGACTAAA
130 GAGGACCGAAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTAAA
* * * **
1989717 AAATGCCACCAACTTGTGTAGGCTTTGAGAGGCGTCCTGCTCTTTGAGGACT-GAATGGTGCCAC
195 AAATGCCACCAACTTGTGTAGGCTTTGAAAGACGTACTGCTCTTTGAGGACTGGAA-AATGCCAC
* * *
1989781 CAACTTGTGTGGGTTTTGAAAAGCGTCCTACTCTTTGAGGACTAAAGGGTGAAAGGAGAGA
259 CAACTTGTGTGGGCTTTGAAAAGCGTCATACTCTTTGAGGACTAAAGGGCGAAAGGAGAGA
* * * * *
1989842 GCGTCTTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGT
1989907 CCTGCTTTTTGAGGA
65 CCTGCTTTTTGAGGA
1989922 TTAAAAAGTG
Statistics
Matches: 352, Mismatches: 44, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
319 51 0.14
320 297 0.84
321 4 0.01
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (319 bp):
GCGTCCTGCTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTC
CTGCTTTTTGAGGACTGAGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCATCCTACTATTTG
AGGACCGAAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTAAAA
AATGCCACCAACTTGTGTAGGCTTTGAAAGACGTACTGCTCTTTGAGGACTGGAAAATGCCACCA
ACTTGTGTGGGCTTTGAAAAGCGTCATACTCTTTGAGGACTAAAGGGCGAAAGGAGAGA
Found at i:1991012 original size:7 final size:7
Alignment explanation
Indices: 1990989--1991039 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
1990979 TTTCTTTGTC
*
1990989 TTGTTTC
1 TTGTTTT
*
1990996 TT-TTTG
1 TTGTTTT
1991002 TTGTTTT
1 TTGTTTT
1991009 TTGTTTT
1 TTGTTTT
*
1991016 TTATTTT
1 TTGTTTT
*
1991023 ATGTTTT
1 TTGTTTT
1991030 TCTGTTTT
1 T-TGTTTT
1991038 TT
1 TT
1991040 TAAAAAAAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 5 0.14
7 24 0.67
8 7 0.19
ACGTcount: A:0.04, C:0.04, G:0.12, T:0.80
Consensus pattern (7 bp):
TTGTTTT
Found at i:2003244 original size:79 final size:79
Alignment explanation
Indices: 2003147--2003339 Score: 214
Period size: 79 Copynumber: 2.4 Consensus size: 79
2003137 ATAAAAATTT
** * ** *
2003147 AGTATCCCTTCAGAAATAACTGGGTTAGAGTATCCCTGATTAT-AGAAAATCGGTGTTTT-GAAA
1 AGTATCCCCCCAGAAATAACTGGGTTGGAGTATCCCTGATTATGAG-AAATCAATATTTTAG-AA
2003210 ATAAAATCGGGATTGG
64 ATAAAATCGGGATTGG
* *
2003226 AGTATCCCCGCCA-AAATAA-TGGGGTTGGAGTATCCCTGCTTGTGAGAAATCAATATTTTAGAA
1 AGTATCCCC-CCAGAAATAACT-GGGTTGGAGTATCCCTGATTATGAGAAATCAATATTTTAGAA
* *
2003289 ATAAAGTCGGGGTTGG
64 ATAAAATCGGGATTGG
* *
2003305 AGTATCCCCTCAGAAATAACAGGGTTGGAGTATCC
1 AGTATCCCCCCAGAAATAACTGGGTTGGAGTATCC
2003340 TCGATGAAAT
Statistics
Matches: 96, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
78 3 0.03
79 88 0.92
80 5 0.05
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (79 bp):
AGTATCCCCCCAGAAATAACTGGGTTGGAGTATCCCTGATTATGAGAAATCAATATTTTAGAAAT
AAAATCGGGATTGG
Found at i:2003368 original size:28 final size:28
Alignment explanation
Indices: 2003296--2003372 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
2003286 GAAATAAAGT
2003296 CGGGGTTGGAGTATCCCCTC-A-GAAATAA
1 CGGGGTTGGAGTAT--CCTCGATGAAATAA
*
2003324 CAGGGTTGGAGTATCCTCGATGAAATAA
1 CGGGGTTGGAGTATCCTCGATGAAATAA
2003352 CGGGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCTCGAT
2003373 TGTAAAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCTCGATGAAATAA
Found at i:2003592 original size:51 final size:50
Alignment explanation
Indices: 2003475--2003592 Score: 150
Period size: 51 Copynumber: 2.3 Consensus size: 50
2003465 GGAAATAACG
* *
2003475 GGGTTAGAGTATCCCCGATGGTAGAAAATCGATGTTTTGGAAATAAAACCA
1 GGGTTAGAGTATCCCTGAT-GTAGAAAATCGATGTTTTAGAAATAAAACCA
* *
2003526 GGGTTGGAGTATCCCTGAT-TATGAAAAATTGATGTTTTAGAAATAAAACC-
1 GGGTTAGAGTATCCCTGATGTA-G-AAAATCGATGTTTTAGAAATAAAACCA
2003576 GAGGTTAGAGTATCCCT
1 G-GGTTAGAGTATCCCT
2003593 TGGAAATAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
49 2 0.03
50 2 0.03
51 55 0.93
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (50 bp):
GGGTTAGAGTATCCCTGATGTAGAAAATCGATGTTTTAGAAATAAAACCA
Found at i:2006087 original size:20 final size:20
Alignment explanation
Indices: 2006062--2006118 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
2006052 ATGTATCGAT
2006062 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
2006082 ACAATGTTTCGATACAATGA
1 ACAATGTATCGATACAATGA
*
2006102 ACAATGTATTGATACAA
1 ACAATGTATCGATACAA
2006119 ATTGTAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:2006100 original size:13 final size:13
Alignment explanation
Indices: 2006051--2006080 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2006041 GTAAACCCAG
2006051 AATGTATCGATAC
1 AATGTATCGATAC
2006064 AATGTATCGATAC
1 AATGTATCGATAC
2006077 AATG
1 AATG
2006081 AACAATGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2014968 original size:24 final size:25
Alignment explanation
Indices: 2014915--2014974 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
2014905 TAAAATGTGA
2014915 CATAAAATATGACATGATACTAAAG
1 CATAAAATATGACATGATACTAAAG
*
2014940 AATAAAAT-TGACATGATA-TAAATG
1 CATAAAATATGACATGATACTAAA-G
2014964 CATAAATATAT
1 CATAAA-ATAT
2014975 TAAAATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 4 0.13
24 16 0.53
25 9 0.30
26 1 0.03
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.28
Consensus pattern (25 bp):
CATAAAATATGACATGATACTAAAG
Found at i:2017170 original size:27 final size:29
Alignment explanation
Indices: 2017122--2017182 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 29
2017112 TCATATAATT
*
2017122 TTTAATTAAATAAAATTATAATTAATAAA
1 TTTAATTAAATAAAATTATAATAAATAAA
* *
2017151 TTTATTTAAA-AATATT-TAATAAATAAA
1 TTTAATTAAATAAAATTATAATAAATAAA
2017178 TTTAA
1 TTTAA
2017183 AATTAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 14 0.50
28 5 0.18
29 9 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TTTAATTAAATAAAATTATAATAAATAAA
Found at i:2017173 original size:13 final size:13
Alignment explanation
Indices: 2017122--2017195 Score: 53
Period size: 13 Copynumber: 5.4 Consensus size: 13
2017112 TCATATAATT
2017122 TTTAATTAAATAAAA
1 TTTAA-TAAAT-AAA
*
2017137 TTATAATTAATAAA
1 TT-TAATAAATAAA
*
2017151 TTTATTTAAA-AATA
1 TTTA-ATAAATAA-A
2017165 TTTAATAAATAAA
1 TTTAATAAATAAA
*
2017178 TTTAA-AATTAAAA
1 TTTAATAAAT-AAA
2017191 TTTAA
1 TTTAA
2017196 GTATATAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
12 3 0.06
13 22 0.45
14 15 0.31
15 6 0.12
16 3 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTAATAAATAAA
Found at i:2022436 original size:6 final size:7
Alignment explanation
Indices: 2022422--2022452 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
2022412 AATAAATTTG
2022422 AATTAAA
1 AATTAAA
2022429 AATTAAA
1 AATTAAA
2022436 AATT-AA
1 AATTAAA
2022442 AATTAAA
1 AATTAAA
2022449 AATT
1 AATT
2022453 TTTTATTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AATTAAA
Found at i:2022443 original size:13 final size:14
Alignment explanation
Indices: 2022422--2022452 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
2022412 AATAAATTTG
2022422 AATTAAAAATTAAA
1 AATTAAAAATTAAA
2022436 AATT-AAAATTAAA
1 AATTAAAAATTAAA
2022449 AATT
1 AATT
2022453 TTTTATTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AATTAAAAATTAAA
Found at i:2023936 original size:17 final size:17
Alignment explanation
Indices: 2023899--2023950 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
2023889 AAATATTTCG
*
2023899 AATTAAAT-ATTAATA-
1 AATTAAATAAATAATAT
2023914 AA-TAAATAAATAATAT
1 AATTAAATAAATAATAT
2023930 AATTAAAATAAA-AATAT
1 AATT-AAATAAATAATAT
2023947 AATT
1 AATT
2023951 GCATCTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 5 0.16
15 8 0.25
16 2 0.06
17 10 0.31
18 7 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTAAATAAATAATAT
Found at i:2029087 original size:17 final size:17
Alignment explanation
Indices: 2029050--2029101 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
2029040 AAATATTTCA
*
2029050 AATTAAAT-ATTAATA-
1 AATTAAATAAATAATAT
2029065 AA-TAAATAAATAATAT
1 AATTAAATAAATAATAT
2029081 AATTAAAATAAA-AATAT
1 AATT-AAATAAATAATAT
2029098 AATT
1 AATT
2029102 GCATCTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 5 0.16
15 8 0.25
16 2 0.06
17 10 0.31
18 7 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTAAATAAATAATAT
Found at i:2030927 original size:58 final size:57
Alignment explanation
Indices: 2030729--2030966 Score: 178
Period size: 58 Copynumber: 4.2 Consensus size: 57
2030719 TGATGAAAGC
* * * * *
2030729 CCCTAGATCATGAAAAATGA-C-AAATAACATCAAAATTCATAAAATTACATCTAAGT
1 CCCTAGATCATGAAAAATAACCTAAATGACATAAAAATTCATAAAATTAAATC-AAAT
* * * *** * * *
2030785 CTCTA-AGTAATGAAAAATGATAAAAATGGCATAAAAAATTCATAAAATTACATCAAGT
1 CCCTAGA-TCATGAAAAATAACCTAAATGACAT-AAAAATTCATAAAATTAAATCAAAT
* * * * * *
2030843 CTCTAGATCATGTAAAATAACCTAAATTACCTTAACATTCATAAAATTAAATCACAAT
1 CCCTAGATCATGAAAAATAACCTAAATGACATAAAAATTCATAAAATTAAATCA-AAT
* ** **
2030901 CCCTAGATCATGAAAAATGATTTAAATGACATAAAAATTCATAAAATTGCATCAAAT
1 CCCTAGATCATGAAAAATAACCTAAATGACATAAAAATTCATAAAATTAAATCAAAT
*
2030958 -TCTAGATCA
1 CCCTAGATCA
2030967 AAGAAAATGA
Statistics
Matches: 145, Mismatches: 31, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
55 1 0.01
56 24 0.17
57 22 0.15
58 77 0.53
59 21 0.14
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.28
Consensus pattern (57 bp):
CCCTAGATCATGAAAAATAACCTAAATGACATAAAAATTCATAAAATTAAATCAAAT
Found at i:2031081 original size:48 final size:47
Alignment explanation
Indices: 2031007--2031129 Score: 117
Period size: 48 Copynumber: 2.6 Consensus size: 47
2030997 CATGTAATAT
* *
2031007 CATGAAAATCCCTAAGTTAT-AGAAAATGACTAAGATAACATAAAAATG-
1 CATGAAAAT-CCTAAGTCATGA-AAAATGACTAAAATAACAT-AAAATGC
** * *
2031055 CATGAAAATCTCTAAGTCATGAAAAATGTTTAAAATGACATGAAATGC
1 CATGAAAATC-CTAAGTCATGAAAAATGACTAAAATAACATAAAATGC
*
2031103 CATAGAAAA-CCTAAGTCATGGAAAATG
1 CAT-GAAAATCCTAAGTCATGAAAAATG
2031130 GCATAGAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
47 22 0.34
48 36 0.56
49 6 0.09
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.24
Consensus pattern (47 bp):
CATGAAAATCCTAAGTCATGAAAAATGACTAAAATAACATAAAATGC
Found at i:2031802 original size:22 final size:20
Alignment explanation
Indices: 2031759--2031794 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
2031749 GCTATCACTA
2031759 TTTTTTTCTCTTTTTTTTCC
1 TTTTTTTCTCTTTTTTTTCC
2031779 TTTTTTT-T-TTTTTTTT
1 TTTTTTTCTCTTTTTTTT
2031795 TGCTCCTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.50
19 1 0.06
20 7 0.44
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (20 bp):
TTTTTTTCTCTTTTTTTTCC
Found at i:2033173 original size:64 final size:63
Alignment explanation
Indices: 2033082--2033503 Score: 224
Period size: 64 Copynumber: 6.7 Consensus size: 63
2033072 GGTTAAACTC
** * * * * * *
2033082 TTTTGACTTGTTAAAAAATACATAAGTTTAACTTTTAACCTATTTAGAAAGACATATGTTCAAA
1 TTTTGACTTGTTTGAAAAGAGACAAGTTTGACTTCTAACCTATTTA-AAAGACATAGGTTCAAA
* * * * * * * *
2033146 TTTTGACTTGTTTGGAAAGAGACAAGTTTGACTCCTAACTTATTCATAAAGATACAGGAT-AGAC
1 TTTTGACTTGTTTGAAAAGAGACAAGTTTGACTTCTAACCTATTTA-AAAGACATAGGTTCA-AA
* ** * *
2033210 TTTTAACTTGTTT-AGAAAGAGACAAGTTTGAC-TCTTAATTTATTAAAAAATACATAGGTTCAA
1 TTTTGACTTGTTTGA-AAAGAGACAAGTTTGACTTC-TAACCTATT-TAAAAGACATAGGTTCAA
2033273 A
63 A
* * * * * *
2033274 TTTTTATTTGTTT-AAAATGAGATAAATTTGACTTCTAACCTATTTAAAA-AGAT--GTTTAAA
1 TTTTGACTTGTTTGAAAA-GAGACAAGTTTGACTTCTAACCTATTTAAAAGACATAGGTTCAAA
* * *
2033334 TGTTGACTTATTTTG-AAAGAGACAAGTTTGA-TTCCTAA-CTATTTAAGAAGATATTA-GTTC-
1 TTTTGACTT-GTTTGAAAAGAGACAAGTTTGACTT-CTAACCTATTTAA-AAGACA-TAGGTTCA
*
2033394 GA
62 AA
* * ** * * **
2033396 TTTATGACTT-TTTCAAAAGAGACAAGTTTGACTTTTGTCCTATTTGGGAAA-ACAAAGGTTTGA
1 TTT-TGACTTGTTTGAAAAGAGACAAGTTTGACTTCTAACCTATTT--AAAAGACATAGGTTCAA
2033459 A
63 A
* * * * *
2033460 TTTTGGCTAGTTCGAAAAGAGACAAGTTTAACTCCTAACCTATT
1 TTTTGACTTGTTTGAAAAGAGACAAGTTTGACTTCTAACCTATT
2033504 CTGAAATATA
Statistics
Matches: 271, Mismatches: 64, Indels: 46
0.71 0.17 0.12
Matches are distributed among these distances:
59 10 0.04
60 29 0.11
61 11 0.04
62 25 0.09
63 35 0.13
64 156 0.58
65 5 0.02
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (63 bp):
TTTTGACTTGTTTGAAAAGAGACAAGTTTGACTTCTAACCTATTTAAAAGACATAGGTTCAAA
Found at i:2033197 original size:32 final size:32
Alignment explanation
Indices: 2033160--2033253 Score: 98
Period size: 32 Copynumber: 2.9 Consensus size: 32
2033150 GACTTGTTTG
*
2033160 GAAAGAGACAAGTTTGACTCCTAACTTATTCA
1 GAAAGAGACAAGTTTGACTCTTAACTTATTCA
* * * * * * * *
2033192 TAAAGATACAGGATAGACTTTTAACTTGTTTA
1 GAAAGAGACAAGTTTGACTCTTAACTTATTCA
*
2033224 GAAAGAGACAAGTTTGACTCTTAATTTATT
1 GAAAGAGACAAGTTTGACTCTTAACTTATT
2033254 AAAAAATACA
Statistics
Matches: 45, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (32 bp):
GAAAGAGACAAGTTTGACTCTTAACTTATTCA
Found at i:2034436 original size:21 final size:21
Alignment explanation
Indices: 2034412--2034454 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2034402 AATTAAGAAC
*
2034412 GATGAAAAATTATCTTTAAAA
1 GATGAAAAATCATCTTTAAAA
*
2034433 GATGAAAAATCGTCTTTAAAA
1 GATGAAAAATCATCTTTAAAA
2034454 G
1 G
2034455 TTTTAAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.30
Consensus pattern (21 bp):
GATGAAAAATCATCTTTAAAA
Found at i:2035481 original size:469 final size:472
Alignment explanation
Indices: 2034564--2035511 Score: 1523
Period size: 469 Copynumber: 2.0 Consensus size: 472
2034554 GATGTTCGTT
2034564 CCTAATACAGCTAAAATCAAGATAGAGATGATGTTTCTTTTAATCGGTCCCTTACCTTATCCCTA
1 CCTAATACAGCTAAAATCAAGATAGAGATGATGTTTCTTTTAATCGGTCCCTTACCTTATCCCTA
* *
2034629 AAAACCATTTATTTTATAGTGAAAATACATTTCACAAAAACAATATTTTTTCTTTTTATTTTTTT
66 AAAACCATTTATTTTATAGTGAAAATACATTTCACAAAAACAAAATTTTTTC-TTTTATGTTTTT
* *
2034694 TCTAATGATGATTGCTATTGATTTATTTTCTGCGTGAGTTTGTTTATATATAGATTTGATACTTG
130 TCTAATGACGATTGCTATTGATTTATTTTCTGCGTGAGTTTGTTCATATATAGATTTGATACTTG
* * *
2034759 AAGGGCAAGGATTGGATCTAGCTTAGCATATCCATTCTTGTCTTTTACGATTTTTCTTTATTTTT
195 AAGGGCAAGGATTGGATCTAGCTTAGCATATCCATTCTTGTCTTTTACGAATTTGCTTAATTTTT
* *
2034824 TATTTTTGTTTCAAGAAAACAAAAAAATATGATAAATTTAAAAATAAAATAAGTATTGATGAAAT
260 TATTTTCGTTTCAAG-----AAAAAAATATGATAAATTTAAAAATAAAATAAGTATTAATGAAAT
*
2034889 TAACCCATTTTACATAGACCAGTCCCAACCTAAAAAGCAATTACTTGGGCATATTATTTATAATA
320 TAACCCATTTTACATAGACCAGTCCCAACCTAAAAAGCAATTACTTGGGCATATTAATTATAATA
*
2034954 CTTTATGAAAAAGGAAAATTAAACTTTGAGTTAATTTCAACTACATAGGTTGGCAATGTCTTAAT
385 CTTTATGAAAAAGGAAAATTAAACTTTGAGTTAATTTCAACTACATAGGTTAGCAATGTCTTAAT
2035019 TAATTGAAAAACAAATATCTTGC
450 TAATTGAAAAACAAATATCTTGC
* * *
2035042 CCTAATACAGTTAAAATCAAGATAGAGATGATGTTTCTTTTAATC-GTCCCTTTATC-TGTCCCT
1 CCTAATACAGCTAAAATCAAGATAGAGATGATGTTTCTTTTAATCGGTCCC-TTACCTTATCCCT
*
2035105 AAAAA-CATTTTATTTTATAGTGAAAATACATTTCACAAAAACAAAATTTTTTC-TTTCTGTTTT
65 AAAAACCA-TTTATTTTATAGTGAAAATACATTTCACAAAAACAAAATTTTTTCTTTTATGTTTT
*
2035168 TTCTAATGACGATTGCTGTTGATTTATTTTCTGCGTGAGTTTGTTCATATATAGATTTGATACTT
129 TTCTAATGACGATTGCTATTGATTTATTTTCTGCGTGAGTTTGTTCATATATAGATTTGATACTT
* *
2035233 GAAGGGTAAGGATTGGATCTAGCTTAGCCTATCCATTCTTGTCTTTTAC-AATTTGCTTAATTTT
194 GAAGGGCAAGGATTGGATCTAGCTTAGCATATCCATTCTTGTCTTTTACGAATTTGCTTAATTTT
* *
2035297 TTATTTTCGTTTTAAG-AAAAAATATGGTAAATTTAAAAATAAAATAAGATATTAATGAAATTAA
259 TTATTTTCGTTTCAAGAAAAAAATATGATAAATTTAAAAATAAAATAAG-TATTAATGAAATTAA
* * *
2035361 CCCGTTTTACATAGACCGGTCCTAGA-CTAAAAAGCAATTACTTGGGCATATTAATTATAATACT
323 CCCATTTTACATAGACCAGTCCCA-ACCTAAAAAGCAATTACTTGGGCATATTAATTATAATACT
* *
2035425 TTATGAAAAAGGTAAATTAAACTTTGAGTTAATTTCAAGTACATAGGTTAGCAATGTCTTAATTA
387 TTATGAAAAAGGAAAATTAAACTTTGAGTTAATTTCAACTACATAGGTTAGCAATGTCTTAATTA
*
2035490 ATTGGAAAACAAATATCTTGC
452 ATTGAAAAACAAATATCTTGC
2035511 C
1 C
2035512 TCATAAATGG
Statistics
Matches: 440, Mismatches: 26, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
468 31 0.07
469 155 0.35
470 1 0.00
474 26 0.06
475 117 0.27
476 2 0.00
477 60 0.14
478 48 0.11
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (472 bp):
CCTAATACAGCTAAAATCAAGATAGAGATGATGTTTCTTTTAATCGGTCCCTTACCTTATCCCTA
AAAACCATTTATTTTATAGTGAAAATACATTTCACAAAAACAAAATTTTTTCTTTTATGTTTTTT
CTAATGACGATTGCTATTGATTTATTTTCTGCGTGAGTTTGTTCATATATAGATTTGATACTTGA
AGGGCAAGGATTGGATCTAGCTTAGCATATCCATTCTTGTCTTTTACGAATTTGCTTAATTTTTT
ATTTTCGTTTCAAGAAAAAAATATGATAAATTTAAAAATAAAATAAGTATTAATGAAATTAACCC
ATTTTACATAGACCAGTCCCAACCTAAAAAGCAATTACTTGGGCATATTAATTATAATACTTTAT
GAAAAAGGAAAATTAAACTTTGAGTTAATTTCAACTACATAGGTTAGCAATGTCTTAATTAATTG
AAAAACAAATATCTTGC
Found at i:2038739 original size:19 final size:18
Alignment explanation
Indices: 2038708--2038743 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2038698 ATTATCTTTG
*
2038708 ATAAAAAATAAAAAAATA
1 ATAAAAAACAAAAAAATA
2038726 ATAATAAAACAAAAAAAT
1 ATAA-AAAACAAAAAAAT
2038744 CAAAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (18 bp):
ATAAAAAACAAAAAAATA
Found at i:2038751 original size:20 final size:19
Alignment explanation
Indices: 2038712--2038752 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2038702 TCTTTGATAA
* *
2038712 AAAATAAAAAAATAATAAT
1 AAAACAAAAAAATAAAAAT
2038731 AAAACAAAAAAATCAAAAAT
1 AAAACAAAAAAAT-AAAAAT
2038751 AA
1 AA
2038753 TTTAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAACAAAAAAATAAAAAT
Found at i:2038763 original size:22 final size:22
Alignment explanation
Indices: 2038730--2038781 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 22
2038720 AAAATAATAA
*
2038730 TAAAACAAAAAAATCAAAAATAAT
1 TAAAATAAAAAAA-CAAAAA-AAT
*
2038754 TTAAATAAAAAAACAAAAAAAT
1 TAAAATAAAAAAACAAAAAAAT
2038776 TAAAAT
1 TAAAAT
2038782 TTTGAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.32
23 6 0.24
24 11 0.44
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (22 bp):
TAAAATAAAAAAACAAAAAAAT
Found at i:2038765 original size:26 final size:27
Alignment explanation
Indices: 2038710--2038775 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 27
2038700 TATCTTTGAT
*
2038710 AAAAAATAAAAAAATAATAATAAAACA
1 AAAAAATAAAAAAATAATAATAAAAAA
* * *
2038737 AAAAAAT-CAAAAATAAT--TTAAATA
1 AAAAAATAAAAAAATAATAATAAAAAA
*
2038761 AAAAAACAAAAAAAT
1 AAAAAATAAAAAAAT
2038776 TAAAATTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
24 11 0.33
25 6 0.18
26 9 0.27
27 7 0.21
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (27 bp):
AAAAAATAAAAAAATAATAATAAAAAA
Found at i:2038927 original size:18 final size:18
Alignment explanation
Indices: 2038900--2038954 Score: 76
Period size: 18 Copynumber: 3.0 Consensus size: 18
2038890 GCCTTCCATA
2038900 CTTCCATTTCATGCATTG
1 CTTCCATTTCATGCATTG
2038918 CATT-CATTTCATTGCATTG
1 C-TTCCATTTCA-TGCATTG
*
2038937 CTTCCGTTTCATGCATTG
1 CTTCCATTTCATGCATTG
2038955 ATGTGCAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 17 0.52
19 16 0.48
ACGTcount: A:0.16, C:0.25, G:0.13, T:0.45
Consensus pattern (18 bp):
CTTCCATTTCATGCATTG
Found at i:2039608 original size:13 final size:13
Alignment explanation
Indices: 2039590--2039647 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
2039580 ACATAAGTGT
2039590 TGTATCGATACAA
1 TGTATCGATACAA
2039603 TGTATCGATACATAA
1 TGTATCGATAC--AA
2039618 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
2039635 TGTATCGATACAA
1 TGTATCGATACAA
2039648 AGTTGCCCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
15 2 0.05
17 2 0.05
19 11 0.28
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2039616 original size:32 final size:32
Alignment explanation
Indices: 2039569--2039650 Score: 139
Period size: 32 Copynumber: 2.6 Consensus size: 32
2039559 ACAAACAGTA
* *
2039569 AATGTATTGACACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
2039601 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
2039633 AATGTATCGATACA-AAGT
1 AATGTATCGATACATAAGT
2039651 TGCCCTATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
31 4 0.08
32 44 0.92
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:2039627 original size:19 final size:19
Alignment explanation
Indices: 2039580--2039633 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
2039570 ATGTATTGAC
2039580 ACATAAGTGTTGTATCGAT
1 ACATAAGTGTTGTATCGAT
2039599 AC--AA----TGTATCGAT
1 ACATAAGTGTTGTATCGAT
2039612 ACATAAGTGTTGTATCGAT
1 ACATAAGTGTTGTATCGAT
2039631 ACA
1 ACA
2039634 ATGTATCGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
13 11 0.38
15 2 0.07
17 2 0.07
19 14 0.48
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (19 bp):
ACATAAGTGTTGTATCGAT
Found at i:2044288 original size:79 final size:78
Alignment explanation
Indices: 2044105--2044517 Score: 383
Period size: 79 Copynumber: 5.3 Consensus size: 78
2044095 AAATTTCTAT
** * *
2044105 AATCGGGGATACTCCAACCCCGTTA-TTTCTGAGGAAATACTCCAACCCCAGTTTTTTTTC-AAA
1 AATCGGGGATACTCCAA-CCCGTTATTTTC-GAGGGGATACTCCAATCCCAGCTTTTTTTCTAAA
2044168 ACA-CAGACTTTT-CAC
64 ACATCA-A-TTTTCCAC
* * * * *
2044183 AATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAATCCCGGCCTTATTTCTAAAA
1 AATCGGGGATACTCCAA-CCCGTTATTTTCGAGGGGATACTCCAATCCCAGCTTTTTTTCTAAAA
* *
2044248 CATCAATTTTCTAT
65 CATCAATTTTCCAC
* * * ** ** *
2044262 GATCGGGGATACTCCAATTCCGTTA-TTTCTGAGAGGATACTCCAATCGTAATTTTTTTTTTAAA
1 AATCGGGGATACTCCAA-CCCGTTATTTTC-GAGGGGATACTCCAATCCCAGCTTTTTTTCTAAA
* * *
2044326 ACATCATTTTTCAAT
64 ACATCAATTTTCCAC
* * * *
2044341 AATTGGAGATACTCCAACCCTGTTATTTTCGAGGGGATACTCTAATCCCAGCCTTTTTTCTAAAA
1 AATCGGGGATACTCCAACCC-GTTATTTTCGAGGGGATACTCCAATCCCAGCTTTTTTTCTAAAA
2044406 CAT-AGATTTTCCAC
65 CATCA-ATTTTCCAC
* * * * *
2044420 AATTGGAGATGCTCCAACCTCATTATTTTCGAGGGGATACTCCAA-CTCCAGCTTTATTTCTAAA
1 AATCGGGGATACTCCAACC-CGTTATTTTCGAGGGGATACTCCAATC-CCAGCTTTTTTTCTAAA
*
2044484 ACATCGATTTTCCAC
64 ACATCAATTTTCCAC
2044499 AATC-GGGATACTCCAACCC
1 AATCGGGGATACTCCAACCC
2044518 CTATTTGTTT
Statistics
Matches: 273, Mismatches: 51, Indels: 23
0.79 0.15 0.07
Matches are distributed among these distances:
77 1 0.00
78 70 0.26
79 195 0.71
80 7 0.03
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (78 bp):
AATCGGGGATACTCCAACCCGTTATTTTCGAGGGGATACTCCAATCCCAGCTTTTTTTCTAAAAC
ATCAATTTTCCAC
Found at i:2044401 original size:158 final size:156
Alignment explanation
Indices: 2044098--2044518 Score: 435
Period size: 158 Copynumber: 2.7 Consensus size: 156
2044088 AATACCAAAA
*
2044098 TTTCTATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGAAATACTCCAACCCCAGTTTTTTT
1 TTTCTATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGAAATACTCCAACCCAAGTTTTTTT
2044163 TCAAAACACAGACTTTTCACAATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAA
66 TCAAAACACA-ACTTTTCACAATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAA
*
2044228 TCCCGGCCTTATTTCTAAAACATCA-AT
130 TCCCAGCCTTATTTCTAAAACAT-AGAT
* ** * ** *
2044255 TTTCTATGATCGGGGATACTCCAATTCCGTTATTTCTGA-GAGGATACTCCAATCGTAATTTTTT
1 TTTCTATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGA-AATACTCCAA-CCCAAGTTTTT
* * * * *
2044319 TTTTAAAACATC-ATTTTTCAATAAT-TGGAGATACTCCAACCCTGTTATTTTCGAGGGGATACT
64 TTTCAAAACA-CAACTTTTC-ACAATCGGGA-ATACTCCAACCCCGTTATTTTCGAGGGGATACT
*
2044382 CTAATCCCAGCCTTTTTTCTAAAACATAGAT
126 CTAATCCCAGCCTTATTTCTAAAACATAGAT
* * * * * * * ** * *
2044413 TTTCCACAATTGGAGATGCTCCAACCTCATTATTT-TCGAGGGGATACTCCAACTCC-AGCTTTA
1 TTTCTATAATCGGGGATACTCCAACCCCGTTATTTCT-GAGGAAATACTCCAAC-CCAAGTTTTT
*
2044476 TTTCTAAAACATCGA-TTTTCCACAATCGGG-ATACTCCAACCCC
64 TTTC-AAAACA-CAACTTTT-CACAATCGGGAATACTCCAACCCC
2044519 TATTTGTTTC
Statistics
Matches: 216, Mismatches: 35, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
156 2 0.01
157 76 0.35
158 132 0.61
159 6 0.03
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (156 bp):
TTTCTATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGAAATACTCCAACCCAAGTTTTTTT
TCAAAACACAACTTTTCACAATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAAT
CCCAGCCTTATTTCTAAAACATAGAT
Found at i:2044543 original size:49 final size:50
Alignment explanation
Indices: 2044453--2044568 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 50
2044443 TATTTTCGAG
* * *
2044453 GGGATACTCCAACTCCAGCTTTATTTCTAAAACATCGATTTTCCA-CAATC
1 GGGATACTCCAACCCCA-CTTTATTTCCAAAACATCAATTTTCCACCAATC
* * * *
2044503 GGGATACTCCAACCCCTA-TTTGTTTCCAAAACATCAATTTTTCACCATTG
1 GGGATACTCCAACCCC-ACTTTATTTCCAAAACATCAATTTTCCACCAATC
*
2044553 GGGATACTTCAACCCC
1 GGGATACTCCAACCCC
2044569 GTTTTTATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 22 0.39
50 33 0.59
51 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.31
Consensus pattern (50 bp):
GGGATACTCCAACCCCACTTTATTTCCAAAACATCAATTTTCCACCAATC
Found at i:2044842 original size:23 final size:22
Alignment explanation
Indices: 2044811--2044854 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
2044801 CTTCTTCTTA
*
2044811 TGTATATTTGTGTGTTTATTTTG
1 TGTAAATTTGTGTG-TTATTTTG
*
2044834 TGTAAATTTGTTTGTTATTTT
1 TGTAAATTTGTGTGTTATTTT
2044855 CTTTGTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.16, C:0.00, G:0.18, T:0.66
Consensus pattern (22 bp):
TGTAAATTTGTGTGTTATTTTG
Found at i:2045780 original size:24 final size:26
Alignment explanation
Indices: 2045751--2045813 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 26
2045741 TCCAAATTGT
*
2045751 TATTTAGTAATAAAAA-AATATTTAA
1 TATTTAATAATAAAAATAATATTTAA
* *
2045776 -ATTTAATTATAAAAATAATTTTTAA
1 TATTTAATAATAAAAATAATATTTAA
2045801 TATTTTAA-AATAA
1 TA-TTTAATAATAA
2045814 TTATTTGAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
24 13 0.42
25 8 0.26
26 5 0.16
27 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
TATTTAATAATAAAAATAATATTTAA
Found at i:2045801 original size:19 final size:20
Alignment explanation
Indices: 2045777--2045815 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2045767 AATATTTAAA
2045777 TTTAAT-TATAAAAATAATT
1 TTTAATATATAAAAATAATT
* *
2045796 TTTAATATTTTAAAATAATT
1 TTTAATATATAAAAATAATT
2045816 ATTTGAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAATATATAAAAATAATT
Found at i:2045826 original size:21 final size:20
Alignment explanation
Indices: 2045787--2045826 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2045777 TTTAATTATA
*
2045787 AAAATAATTTTTAATATTTT
1 AAAATAATTTTTAAGATTTT
*
2045807 AAAATAATTATTTGAGATTT
1 AAAATAATT-TTTAAGATTT
2045827 CAGATCGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
AAAATAATTTTTAAGATTTT
Found at i:2046357 original size:31 final size:31
Alignment explanation
Indices: 2046309--2046370 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
2046299 AAAAATATTT
2046309 TTATTTAAATTTAATTATAAA-ATATAAAATA
1 TTATTTAAATTTAATTATAAATA-ATAAAATA
* *
2046340 TTATTTTAATATT-ATTATGAATAATAAAATA
1 TTATTTAAAT-TTAATTATAAATAATAAAATA
2046371 AATTTTTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (31 bp):
TTATTTAAATTTAATTATAAATAATAAAATA
Found at i:2047450 original size:29 final size:30
Alignment explanation
Indices: 2047415--2047514 Score: 94
Period size: 33 Copynumber: 3.1 Consensus size: 30
2047405 CAAAATATAA
*
2047415 ATAAAATTATATTTATATCGAATAATAATT
1 ATAAAATTATATTTATATAGAATAATAATT
*
2047445 A-AAAATTATTAAATTATATATAGTAAAAATATATT
1 ATAAAATTA-T--ATT-TATATAG-AATAATA-ATT
*
2047480 ATTAAAATTATATTTATATTGAATAATAAATT
1 A-TAAAATTATATTTATATAGAATAAT-AATT
2047512 ATA
1 ATA
2047515 TATTATAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
29 7 0.12
30 2 0.04
31 2 0.04
32 12 0.21
33 13 0.23
34 9 0.16
35 4 0.07
36 1 0.02
37 7 0.12
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (30 bp):
ATAAAATTATATTTATATAGAATAATAATT
Done.