Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 25 of 175
Found at i:6709149 original size:42 final size:42
Alignment explanation
Indices: 6709103--6709359 Score: 200
Period size: 42 Copynumber: 6.1 Consensus size: 42
6709093 TCATGTTCTA
* *
6709103 TAGCGGCGTTTGTGGAAAATCACCGCTAAAGAGCATGACCTT
1 TAGCGGCGTTTGTGGAAAAGCACCGCTAAAGAACATGACCTT
* * *
6709145 TAGCGGCGTTTGTGGAAAAAAACACCGTTAAAGAACATGACTTT
1 TAGCGGCGTTTGTGG--AAAAGCACCGCTAAAGAACATGACCTT
* * * *
6709189 TAGCGGCGTTTGTGAAGAAAGC-GCGACTAAAGAACATTAGCTT
1 TAGCGGCGTTTGTGGA-AAAGCACCG-CTAAAGAACATGACCTT
* * * *
6709232 TAGCCGCGTTT-TCGAGGAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGA-AAAGCACCGCTAAAGAACATGACCTT
* * ** *
6709274 TAGCGGCGTGTTTTTTG--AAGTGCCGCTAAAGAACATGATCTT
1 TAGCGGC--GTTTGTGGAAAAGCACCGCTAAAGAACATGACCTT
**** * *
6709316 TAGCGGCGTTT-TTTTTAAGCGCCGCTAAAGAACATGACATT
1 TAGCGGCGTTTGTGGAAAAGCACCGCTAAAGAACATGACCTT
6709357 TAG
1 TAG
6709360 TGGTGTTTAT
Statistics
Matches: 179, Mismatches: 26, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.01
40 4 0.02
41 25 0.14
42 76 0.42
43 29 0.16
44 41 0.23
45 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (42 bp):
TAGCGGCGTTTGTGGAAAAGCACCGCTAAAGAACATGACCTT
Found at i:6709278 original size:85 final size:82
Alignment explanation
Indices: 6709173--6709359 Score: 207
Period size: 83 Copynumber: 2.2 Consensus size: 82
6709163 AAAACACCGT
* *
6709173 TAAAGAACATGACTTTTAGCGGC-G-TTTGTGAAGAAAGCGCGACTAAAGAACATTAGCTTTAGC
1 TAAAGAACATGACATTTAGCGGCGGTTTTGTGAAG--AGC-CG-CTAAAGAACATGAGCTTTAGC
6709236 CGCGTTTTCGAGGAAGCGCCGC
62 CGCGTTTT-GAGGAAGCGCCGC
* * * * *
6709258 TAAAGAACATGACCTTTAGCGGCGTGTTTTTTGAAGTGCCGCTAAAGAACATGATCTTTAGCGGC
1 TAAAGAACATGACATTTAGCGGCG-GTTTTGTGAAGAGCCGCTAAAGAACATGAGCTTTAGCCGC
****
6709323 GTTTTTTTTAAGCGCCGC
65 GTTTTGAGGAAGCGCCGC
6709341 TAAAGAACATGACATTTAG
1 TAAAGAACATGACATTTAG
6709360 TGGTGTTTAT
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
83 27 0.31
84 26 0.30
85 24 0.27
86 2 0.02
87 1 0.01
88 8 0.09
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (82 bp):
TAAAGAACATGACATTTAGCGGCGGTTTTGTGAAGAGCCGCTAAAGAACATGAGCTTTAGCCGCG
TTTTGAGGAAGCGCCGC
Found at i:6711098 original size:15 final size:15
Alignment explanation
Indices: 6711061--6711098 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
6711051 CAAAACTAAG
*
6711061 ATTTTTAAAACATTT
1 ATTTTTACAACATTT
*
6711076 ATTTTTACAATATTT
1 ATTTTTACAACATTT
6711091 ATTTTTAC
1 ATTTTTAC
6711099 TTAAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTTTACAACATTT
Found at i:6714515 original size:19 final size:18
Alignment explanation
Indices: 6714475--6714515 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
6714465 AATATTACAC
*
6714475 ATTTCAATTTCACATTAA
1 ATTTCAATTTCACACTAA
*
6714493 ATTTCAATTTTCACACTAT
1 ATTTCAA-TTTCACACTAA
6714512 ATTT
1 ATTT
6714516 TGCTTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTCAATTTCACACTAA
Found at i:6714965 original size:10 final size:10
Alignment explanation
Indices: 6714952--6714982 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
6714942 TTTTCTTTTT
6714952 TTTTTCATTC
1 TTTTTCATTC
6714962 TTTTTCATTC
1 TTTTTCATTC
6714972 -TTTTCATTC
1 TTTTTCATTC
6714981 TT
1 TT
6714983 AATTTTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTCATTC
Found at i:6721747 original size:15 final size:15
Alignment explanation
Indices: 6721720--6721752 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
6721710 AAATCTCACC
6721720 AAAATAATATTTTAT
1 AAAATAATATTTTAT
6721735 AAAA-AATATTTT-T
1 AAAATAATATTTTAT
6721748 AAAAT
1 AAAAT
6721753 TAAAAATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.29
14 8 0.47
15 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAATAATATTTTAT
Found at i:6733799 original size:13 final size:13
Alignment explanation
Indices: 6733781--6733811 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
6733771 ACTTAAACTA
6733781 TAATTCTTATTTT
1 TAATTCTTATTTT
6733794 TAATTCTTATTTT
1 TAATTCTTATTTT
6733807 TAATT
1 TAATT
6733812 AGCTTAATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (13 bp):
TAATTCTTATTTT
Found at i:6734953 original size:12 final size:12
Alignment explanation
Indices: 6734920--6734960 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
6734910 AGCCAAATAT
6734920 ATAAA-TTTTAA
1 ATAAATTTTTAA
*
6734931 A-AAAGTTTTAA
1 ATAAATTTTTAA
6734942 ATAAATTTTTAA
1 ATAAATTTTTAA
*
6734954 AAAAATT
1 ATAAATT
6734961 CAAATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 3 0.12
11 8 0.31
12 15 0.58
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (12 bp):
ATAAATTTTTAA
Found at i:6734965 original size:22 final size:23
Alignment explanation
Indices: 6734920--6734978 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
6734910 AGCCAAATAT
* *
6734920 ATAAA-TTTTAAAAAAGTTTTAA
1 ATAAATTTTTAAAAAAGATTCAA
6734942 ATAAATTTTTAAAAAA-ATTCAA
1 ATAAATTTTTAAAAAAGATTCAA
* *
6734964 ATATATATTTAAAAA
1 ATAAATTTTTAAAAA
6734979 TTTTATGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 22 0.69
23 10 0.31
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
ATAAATTTTTAAAAAAGATTCAA
Found at i:6739784 original size:44 final size:44
Alignment explanation
Indices: 6739721--6739861 Score: 153
Period size: 42 Copynumber: 3.3 Consensus size: 44
6739711 ATGTGTTATT
** *
6739721 GTGTAAGACCACATCTGGGACATTGGCATCGATTTGTGATTAAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAAC
* * ** **
6739765 GTGTAAGACCATGTCTGGGACATCGACATCG-TATACGATT-TT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAAC
* *
6739807 GTGTAAGACCTTGTCTGGGACAGTGGCATCGATATGTGA-TAAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAAC
*
6739850 ATGTAAGACCAT
1 GTGTAAGACCAT
6739862 ATCTAGGATA
Statistics
Matches: 76, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
42 28 0.37
43 21 0.28
44 27 0.36
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (44 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAAC
Found at i:6742851 original size:17 final size:17
Alignment explanation
Indices: 6742831--6742870 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
6742821 AAGTATATTA
* *
6742831 AAAATATATGTATTTAT
1 AAAATATACGTATATAT
6742848 AAAATATACGTATATAT
1 AAAATATACGTATATAT
*
6742865 ATAATA
1 AAAATA
6742871 AAAATAAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (17 bp):
AAAATATACGTATATAT
Found at i:6746359 original size:44 final size:40
Alignment explanation
Indices: 6746216--6746374 Score: 129
Period size: 42 Copynumber: 3.8 Consensus size: 40
6746206 AACTCGTACA
* * * * *
6746216 ATGCCAACATCCCATACGTGGTCTTACATGTAATCAATATCG
1 ATGCC-ACGTCCCAGACATGGTCTTACACGAAATCAA-ATCG
* *
6746258 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAAATATG
1 ATGCCAC-GTCCCAGACATGGTCTTACACGAAATCAAAT-CG
* * *
6746300 ATGCCGATGTCCCAGACATGGTCTTATACATAAATCTCAAATCG
1 ATGCC-ACGTCCCAGACATGGTCTTACAC-GAAA--TCAAATCG
* *
6746344 ATGCCAACGTCCCAGACGTGGTCCTACACGA
1 ATGCC-ACGTCCCAGACATGGTCTTACACGA
6746375 TAACACATAT
Statistics
Matches: 93, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
41 4 0.04
42 53 0.57
43 5 0.05
44 25 0.27
45 6 0.06
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (40 bp):
ATGCCACGTCCCAGACATGGTCTTACACGAAATCAAATCG
Found at i:6750002 original size:34 final size:35
Alignment explanation
Indices: 6749958--6750024 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
6749948 CAGTAAAATA
*
6749958 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
6749992 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
6750025 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:6759082 original size:16 final size:16
Alignment explanation
Indices: 6759046--6759076 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6759036 TGATGAATCT
6759046 ATATATATACATGTAC
1 ATATATATACATGTAC
*
6759062 ATATATATATATGTA
1 ATATATATACATGTA
6759077 ATTATAAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (16 bp):
ATATATATACATGTAC
Found at i:6760743 original size:32 final size:31
Alignment explanation
Indices: 6760672--6760768 Score: 140
Period size: 31 Copynumber: 3.1 Consensus size: 31
6760662 CAATCTGATT
* *
6760672 ACTAAACTATTCGAAAGTTTTCATTTAAGTC
1 ACTAAACTATTCAAAAGTTTTTATTTAAGTC
6760703 ACTAAACTATTCAAAAGTTTTTATTTTAAGTC
1 ACTAAACTATTCAAAAGTTTTTA-TTTAAGTC
* * *
6760735 ATTGAACTATTCAAAAGTTTTTACTTAAGTC
1 ACTAAACTATTCAAAAGTTTTTATTTAAGTC
6760766 ACT
1 ACT
6760769 GGGCTGTTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
31 30 0.51
32 29 0.49
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.41
Consensus pattern (31 bp):
ACTAAACTATTCAAAAGTTTTTATTTAAGTC
Found at i:6761600 original size:24 final size:24
Alignment explanation
Indices: 6761573--6761618 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
6761563 CTAATTAAAT
* *
6761573 TTTATAAATAATTAATATTTATTG
1 TTTAAAAATAATTAAAATTTATTG
*
6761597 TTTAAAAATATTTAAAATTTAT
1 TTTAAAAATAATTAAAATTTAT
6761619 ATTTCATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAAAAATAATTAAAATTTATTG
Found at i:6764833 original size:18 final size:18
Alignment explanation
Indices: 6764812--6765247 Score: 124
Period size: 18 Copynumber: 24.6 Consensus size: 18
6764802 CGAAAGTTTT
* *
6764812 TTTTTTAAAATACGAGAA
1 TTTTTGAAAACACGAGAA
6764830 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAGAA
*
6764848 --TTTGTAAACACGA-ATA
1 TTTTTGAAAACACGAGA-A
* *
6764864 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAGAA
*
6764881 TTTTTGGAAAAAAACGA-AA
1 TTTTT-G-AAAACACGAGAA
* * *
6764900 TTTTTTTAAAACACGACATTTT
1 -TTTTTGAAAACACGAGA---A
*
6764922 TTTTTG-AAACACGGGAA
1 TTTTTGAAAACACGAGAA
* * *
6764939 TTTTT-AAAACAAGACATT
1 TTTTTGAAAACACGAGA-A
6764957 TTTTTG-AAACA--A-AA
1 TTTTTGAAAACACGAGAA
*
6764971 TTTTTTCTTAAAA-A--A-AA
1 --TTTT-TGAAAACACGAGAA
*
6764988 -TTTT--AAATACGAGAA
1 TTTTTGAAAACACGAGAA
*
6765003 TTTTT-AAAACACGAAAA
1 TTTTTGAAAACACGAGAA
*
6765020 TTTTT-AAAACACGGAAATA
1 TTTTTGAAAACAC-GAGA-A
*
6765039 TTTTTTTTAAAACACGA-AA
1 --TTTTTGAAAACACGAGAA
* *
6765058 TTTTTTTTTGAAAACAAGAAAA
1 ----TTTTTGAAAACACGAGAA
*
6765080 TTTTTG-AAACACTAGAA
1 TTTTTGAAAACACGAGAA
6765097 -TTTTGAAAACACGA-AGA
1 TTTTTGAAAACACGAGA-A
*
6765114 TTTTTG-AAACATGAGAA
1 TTTTTGAAAACACGAGAA
*
6765131 TTTTT-AAAAGCACGAGGA
1 TTTTTGAAAA-CACGAGAA
* *
6765149 TTATTGAAAGCACGA-AGA
1 TTTTTGAAAACACGAGA-A
* *
6765167 TTTAT-AAAA-ACGACAA
1 TTTTTGAAAACACGAGAA
*
6765183 TTTTTG-AAATACGAGAAA
1 TTTTTGAAAACACGAG-AA
* * *
6765201 TTTTT-TAAACGCGAAAA
1 TTTTTGAAAACACGAGAA
** *
6765218 TTTTTTTCAAACACGAAAA
1 -TTTTTGAAAACACGAGAA
*
6765237 CTTTTGAAAAC
1 TTTTTGAAAAC
6765248 GCGAAAATTC
Statistics
Matches: 324, Mismatches: 46, Indels: 96
0.70 0.10 0.21
Matches are distributed among these distances:
11 3 0.01
12 1 0.00
13 1 0.00
14 4 0.01
15 4 0.01
16 40 0.12
17 93 0.29
18 103 0.32
19 18 0.06
20 21 0.06
21 27 0.08
22 9 0.03
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (18 bp):
TTTTTGAAAACACGAGAA
Found at i:6764851 original size:16 final size:16
Alignment explanation
Indices: 6764818--6764883 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
6764808 TTTTTTTTTT
*
6764818 AAAATACGAGAATTTTTG
1 AAAACACGAGAA--TTTG
6764836 AAAACACGAGAATTTG
1 AAAACACGAGAATTTG
* *
6764852 TAAACACGA-ATATTTT
1 AAAACACGAGA-ATTTG
*
6764868 AGAAACACGAAAATTT
1 A-AAACACGAGAATTT
6764884 TTGGAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 1 0.02
16 16 0.39
17 12 0.29
18 12 0.29
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (16 bp):
AAAACACGAGAATTTG
Found at i:6764921 original size:17 final size:17
Alignment explanation
Indices: 6764812--6765235 Score: 123
Period size: 17 Copynumber: 24.0 Consensus size: 17
6764802 CGAAAGTTTT
*
6764812 TTTTTTAAAATACGAGAA
1 TTTTTTAAAACACGA-AA
*
6764830 TTTTTGAAAACACGAGAA
1 TTTTTTAAAACACGA-AA
*
6764848 -TTTGT-AAACACG-AA
1 TTTTTTAAAACACGAAA
*
6764862 TATTTTAGAAACACGAAAA
1 TTTTTTA-AAACACG-AAA
* *
6764881 TTTTTGGAAAAAAACGAAA
1 TTTTT--TAAAACACGAAA
*
6764900 TTTTTTTAAAACACGACATTT
1 -TTTTTTAAAACACGA-A--A
* *
6764921 TTTTTTGAAACACGGGAA
1 TTTTTTAAAACAC-GAAA
* *
6764939 -TTTTTAAAACAAGACAT
1 TTTTTTAAAACACGA-AA
*
6764956 TTTTTTGAAACA--AAA
1 TTTTTTAAAACACGAAA
6764971 TTTTTTCTTAAAA-A--AAA
1 --TTTT-TTAAAACACGAAA
*
6764988 --TTTT-AAATACGAGAA
1 TTTTTTAAAACACGA-AA
6765003 -TTTTTAAAACACGAAA
1 TTTTTTAAAACACGAAA
*
6765019 ATTTTTAAAACACGGAAATA
1 TTTTTTAAAACAC-G-AA-A
6765039 TTTTTTTTAAAACACGAAA
1 --TTTTTTAAAACACGAAA
*
6765058 TTTTTTTTTGAAAACAAGAAA
1 ---TTTTTT-AAAACACGAAA
* * *
6765079 ATTTTTGAAACACTAGAA
1 TTTTTTAAAACACGA-AA
*
6765097 -TTTTGAAAACACGAAGA
1 TTTTTTAAAACACGAA-A
* *
6765114 -TTTTTGAAACATGAGAA
1 TTTTTTAAAACACGA-AA
*
6765131 -TTTTTAAAAGCACGAGGA
1 TTTTTTAAAA-CACGA-AA
* * *
6765149 TTATTGAAAGCACGAAGA
1 TTTTTTAAAACACGAA-A
*
6765167 -TTTATAAAA-ACGACAA
1 TTTTTTAAAACACGA-AA
*
6765183 TTTTTGAAATACGA-GAAA
1 TTTTTTAAA-AC-ACGAAA
*
6765201 TTTTTT-AAACGCGAAAA
1 TTTTTTAAAACACG-AAA
*
6765218 TTTTTTTCAAACACGAAA
1 -TTTTTTAAAACACGAAA
6765236 ACTTTTGAAA
Statistics
Matches: 309, Mismatches: 51, Indels: 92
0.68 0.11 0.20
Matches are distributed among these distances:
11 3 0.01
12 3 0.01
13 2 0.01
14 3 0.01
15 6 0.02
16 24 0.08
17 103 0.33
18 77 0.25
19 27 0.09
20 36 0.12
21 13 0.04
22 12 0.04
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.34
Consensus pattern (17 bp):
TTTTTTAAAACACGAAA
Found at i:6764943 original size:20 final size:20
Alignment explanation
Indices: 6764864--6764934 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 20
6764854 AACACGAATA
*
6764864 TTTTAGAAACACGAAAATTTT
1 TTTTA-AAACACGACAATTTT
*** *
6764885 TGGAAAAAAACGA-AA-TTT
1 TTTTAAAACACGACAATTTT
*
6764903 TTTTAAAACACGACATTTTT
1 TTTTAAAACACGACAATTTT
*
6764923 TTTTGAAACACG
1 TTTTAAAACACG
6764935 GGAATTTTTA
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
18 12 0.32
19 3 0.08
20 21 0.55
21 2 0.05
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.35
Consensus pattern (20 bp):
TTTTAAAACACGACAATTTT
Found at i:6765047 original size:22 final size:20
Alignment explanation
Indices: 6765003--6765084 Score: 89
Period size: 22 Copynumber: 4.0 Consensus size: 20
6764993 AATACGAGAA
*
6765003 TTTTTAAAACACGAAA---A
1 TTTTTAAAACACGAAATTTT
6765020 TTTTTAAAACACGGAAATATTT
1 TTTTTAAAACAC-GAAAT-TTT
6765042 TTTTTAAAACACGAAATTTT
1 TTTTTAAAACACGAAATTTT
*
6765062 TTTTTGAAAACAAGAAAATTTT
1 TTTTT-AAAACACG-AAATTTT
6765084 T
1 T
6765085 GAAACACTAG
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
17 12 0.21
18 4 0.07
20 8 0.14
21 12 0.21
22 20 0.36
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTTTAAAACACGAAATTTT
Found at i:6765057 original size:21 final size:20
Alignment explanation
Indices: 6765003--6765084 Score: 98
Period size: 21 Copynumber: 4.1 Consensus size: 20
6764993 AATACGAGAA
6765003 TTTTTAAAACACGAAAA---
1 TTTTTAAAACACGAAAATTT
6765020 TTTTTAAAACACGGAAATATTT
1 TTTTTAAAACAC-GAAA-ATTT
*
6765042 TTTTTAAAACACGAAATTTT
1 TTTTTAAAACACGAAAATTT
*
6765062 TTTTTGAAAACAAGAAAATTT
1 TTTTT-AAAACACGAAAATTT
6765083 TT
1 TT
6765085 GAAACACTAG
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
17 12 0.21
18 4 0.07
19 1 0.02
20 8 0.14
21 19 0.34
22 12 0.21
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTTTAAAACACGAAAATTT
Found at i:6765223 original size:19 final size:19
Alignment explanation
Indices: 6765201--6765256 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 19
6765191 ATACGAGAAA
6765201 TTTTTT-AAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
* *
6765219 TTTTTTCAAACACGAAAA-
1 TTTTTTAAAACGCGAAAAT
* *
6765237 CTTTTGAAAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
6765256 T
1 T
6765257 CGAAAATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (19 bp):
TTTTTTAAAACGCGAAAAT
Found at i:6765300 original size:18 final size:17
Alignment explanation
Indices: 6765251--6765301 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
6765241 TGAAAACGCG
6765251 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
6765268 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
6765286 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
6765302 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:6765815 original size:7 final size:7
Alignment explanation
Indices: 6765798--6765848 Score: 75
Period size: 7 Copynumber: 6.9 Consensus size: 7
6765788 TGAACCCCCT
6765798 TTTTCTTC
1 TTTT-TTC
6765806 TTTTTTC
1 TTTTTTC
6765813 TTTTTTCC
1 TTTTTT-C
6765821 TTTTTTC
1 TTTTTTC
6765828 TTTTTTC
1 TTTTTTC
6765835 TTTTTTC
1 TTTTTTC
6765842 TTCTTTT
1 TT-TTTT
6765849 TCTTCCCTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
7 26 0.63
8 15 0.37
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:6765823 original size:15 final size:14
Alignment explanation
Indices: 6765798--6765848 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 14
6765788 TGAACCCCCT
6765798 TTTTCTTCTTTTTTC
1 TTTT-TTCTTTTTTC
6765813 TTTTTTCCTTTTTTC
1 TTTTTT-CTTTTTTC
6765828 TTTTTTCTTTTTTC
1 TTTTTTCTTTTTTC
6765842 TTCTTTT
1 TT-TTTT
6765849 TCTTCCCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 12 0.35
15 22 0.65
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTTCTTTTTTC
Found at i:6765831 original size:22 final size:22
Alignment explanation
Indices: 6765798--6765852 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 22
6765788 TGAACCCCCT
6765798 TTTTCTTCTTTTTTCTTTTTTCC
1 TTTT-TTCTTTTTTCTTTTTTCC
*
6765821 TTTTTTCTTTTTTCTTTTTTCT
1 TTTTTTCTTTTTTCTTTTTTCC
6765843 TCTTTTTCTT
1 T-TTTTTCTT
6765853 CCCTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTTCTTTTTTCTTTTTTCC
Found at i:6766011 original size:12 final size:12
Alignment explanation
Indices: 6765994--6766018 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6765984 CTTTCCCTTC
6765994 TTTTTTTTGCTT
1 TTTTTTTTGCTT
6766006 TTTTTTTTGCTT
1 TTTTTTTTGCTT
6766018 T
1 T
6766019 GATTTTTTTT
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:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (12 bp):
TTTTTTTTGCTT
Found at i:6766156 original size:3 final size:3
Alignment explanation
Indices: 6766150--6766195 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
6766140 TTTTCTTTCT
*
6766150 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
6766196 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:6766163 original size:13 final size:13
Alignment explanation
Indices: 6766147--6766195 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
6766137 TTTTTTTCTT
6766147 TCTTTCTTCTTCC
1 TCTTTCTTCTTCC
6766160 TCTTTTCTTCTT-C
1 TC-TTTCTTCTTCC
6766173 -C-TTCTTCTTCC
1 TCTTTCTTCTTCC
6766184 T-TCTTCTTCTTC
1 TCT-TTCTTCTTC
6766196 AAAGTCTAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
10 8 0.26
11 1 0.03
12 1 0.03
13 12 0.39
14 9 0.29
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TCTTTCTTCTTCC
Found at i:6766179 original size:10 final size:10
Alignment explanation
Indices: 6766164--6766192 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
6766154 TCTTCCTCTT
6766164 TTCTTCTTCC
1 TTCTTCTTCC
6766174 TTCTTCTTCC
1 TTCTTCTTCC
6766184 TTCTTCTTC
1 TTCTTCTTC
6766193 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:6766286 original size:10 final size:10
Alignment explanation
Indices: 6766251--6766300 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
6766241 ACGCCGGTAC
6766251 TCTT-TCTTT
1 TCTTCTCTTT
* *
6766260 TCTTCTCCTC
1 TCTTCTCTTT
6766270 T-TTCTCTTT
1 TCTTCTCTTT
6766279 TCTTCTCTTT
1 TCTTCTCTTT
*
6766289 TCTTCTTTTT
1 TCTTCTCTTT
6766299 TC
1 TC
6766301 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:6766298 original size:19 final size:19
Alignment explanation
Indices: 6766255--6766297 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
6766245 CGGTACTCTT
6766255 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
6766274 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
6766291 TTCTTTT
1 -TCTTTT
6766298 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:6766578 original size:29 final size:29
Alignment explanation
Indices: 6766545--6766661 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
6766535 TGTAATTTTT
*
6766545 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
6766574 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
6766604 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
6766633 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
6766662 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:6766600 original size:30 final size:30
Alignment explanation
Indices: 6766560--6766661 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
6766550 ATTTAGGATT
*
6766560 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
6766590 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
6766620 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
6766650 AAAATGCAATTT
1 AAAATGAAATTT
6766662 TTATTTTTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:6767152 original size:53 final size:54
Alignment explanation
Indices: 6766933--6767182 Score: 368
Period size: 53 Copynumber: 4.7 Consensus size: 54
6766923 CACGTGAGCC
* * *
6766933 AAGGCTCAACTCACTTCTCGCAATATGAGTCGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
6766988 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
6767038 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
6767092 AAGGCTCAACTCACCTCTCGCAATATGA-TTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
6767145 AATGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
6767183 TTTTTTTTGA
Statistics
Matches: 180, Mismatches: 9, Indels: 13
0.89 0.04 0.06
Matches are distributed among these distances:
50 48 0.27
52 1 0.01
53 49 0.27
54 39 0.22
55 37 0.21
56 6 0.03
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:6767224 original size:13 final size:14
Alignment explanation
Indices: 6767196--6767228 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
6767186 TTTTTGAAAC
6767196 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
6767210 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
6767223 ACAGAA
1 ACAGAA
6767229 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:6767236 original size:14 final size:14
Alignment explanation
Indices: 6767189--6767236 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
6767179 TTTTTTTTTT
*
6767189 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
6767203 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
6767217 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
6767230 TTGAAAA
1 TTGAAAA
6767237 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:6767533 original size:72 final size:72
Alignment explanation
Indices: 6767312--6768620 Score: 2210
Period size: 72 Copynumber: 18.1 Consensus size: 72
6767302 ATTAGTAAAG
* * * *
6767312 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
6767376 TTTGAAAA
65 TTTGAAAA
* * *
6767384 GCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
6767449 TTTGAAAA
65 TTTGAAAA
6767457 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGC-CAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
6767521 TTGAGAAG
66 TTGA-AAA
*
6767529 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6767594 TTGAAAA
66 TTGAAAA
6767601 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
6767666 TTGAGAAG
66 TTGA-AAA
*
6767674 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6767739 TTGAAAA
66 TTGAAAA
6767746 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
6767811 TTGAGAAG
66 TTGA-AAA
*
6767819 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6767884 TTGAAAA
66 TTGAAAA
6767891 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
6767956 TTGAGAAG
66 TTGA-AAA
*
6767964 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6768029 TTGAAAA
66 TTGAAAA
6768036 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6768101 TTGAAAA
66 TTGAAAA
6768108 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
6768173 TTGAAAG
66 TTGAAAA
*
6768180 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6768245 TTGAAAA
66 TTGAAAA
6768252 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6768317 TTGAAAA
66 TTGAAAA
*
6768324 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6768389 TTGAAAA
66 TTGAAAA
* * * *
6768396 GCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
6768461 TTTGAAAA
65 TTTGAAAA
* * * *
6768469 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
6768534 TTTAACAA
66 TTGAA-AA
* * * ** * *
6768542 CAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAATTG-ATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6768606 TTGAAAA
66 TTGAAAA
*
6768613 CATAAATT
1 CAGAAATT
6768621 AAAAGGCTTA
Statistics
Matches: 1181, Mismatches: 47, Indels: 18
0.95 0.04 0.01
Matches are distributed among these distances:
71 42 0.04
72 704 0.60
73 433 0.37
74 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (72 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAA
Found at i:6767684 original size:217 final size:216
Alignment explanation
Indices: 6767308--6769248 Score: 2353
Period size: 217 Copynumber: 8.7 Consensus size: 216
6767298 TAGAATTAGT
* * *
6767308 AAAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* * *
6767372 AAGTTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCACAA
66 AA-TTTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
6767437 TATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGC-CAACTCATTT
129 TATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
6767501 CTCGCAATATGAGTTGAATTTTG
194 CTCGCAATATGAGTTGAATTTTG
6767524 AGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 A-AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
6767589 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
65 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
* *
6767654 ATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTT
130 ATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
6767719 CTCGCAATATGAGTTGAATTTTG
194 CTCGCAATATGAGTTGAATTTTG
* *
6767742 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* *
6767807 AATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
66 AATTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
6767872 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
130 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
6767937 TCGCAATATGAGTTGAATTTTG
195 TCGCAATATGAGTTGAATTTTG
6767959 AGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 A-AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
6768024 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
65 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
6768089 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
130 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
6768154 TCGCAATATGAGTTGAATTTTG
195 TCGCAATATGAGTTGAATTTTG
6768176 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
6768241 AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
66 AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
6768306 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
131 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
*
6768371 CACAATATGAGTTGAATTTTG
196 CGCAATATGAGTTGAATTTTG
* * *
6768392 AAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTT
1 -AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
* * *
6768457 GAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTTGCAAT
65 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
* * * * * **
6768522 ATGAGTTGATTTTTTAACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
130 ATGAGTTGAATTTTGAA-AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
* *
6768587 CTAGCAATATGAATTG-ATTTTG
194 CTCGCAATATGAGTTGAATTTTG
* * * * * * * ** **
6768609 AAAACATAAATT-AAAAGGCTTAACTC-ACCTCTCGCAATATGAGTCAATTTAAAACATAAACT-
1 AAAGCAGAAATTGAAAA----TACCTCAACGTGT--C--T-TGAGGC---TCAACTCAT-TTCTC
** * *** * ** **** * * ** *
6768671 AAAATACATCGGCGTGTCCCG-AGGCTCAACTCATTTCTCGCAATATGAGTTGAA--T-T-TTGA
53 GCAAT--AT--GAGT-T---GAATTTTGAAAACAGAAATTG-AA-ATTACCTCAACGTGTCTTG-
** ** * * * * * **
6768731 AAACAGAAATTGAAATTAC-CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
107 AGGC-TCAACT--CATTTCTCGCAA----T-ATGA-G-TTGA---ATTT-T-G-AA-A--A----
*
6768795 AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
149 CA-----------GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
6768860 TGAGTTGAATTTTG
203 TGAGTTGAATTTTG
*
6768874 AAAACAGAAATT-AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
6768938 AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
66 AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
* * *
6769003 TGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTC
131 TGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
*
6769068 TCGCAATATAAGTTGAATTTTG
195 TCGCAATATGAGTTGAATTTTG
* * * * *
6769090 AAAACGGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* * * * * ** *
6769155 ATTTTTTTTAACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCA
66 A--ATTTTGAA-AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
*
6769220 ATATGAGTTG-ATTTTGAAAAACATAAATT
128 ATATGAGTTGAATTTTG-AAAACAGAAATT
6769249 AAAAGGCTTA
Statistics
Matches: 1497, Mismatches: 149, Indels: 155
0.83 0.08 0.09
Matches are distributed among these distances:
215 4 0.00
216 364 0.24
217 580 0.39
218 234 0.16
219 24 0.02
220 62 0.04
223 5 0.00
226 9 0.01
227 4 0.00
228 2 0.00
230 3 0.00
231 3 0.00
232 4 0.00
233 14 0.01
234 7 0.00
235 10 0.01
236 4 0.00
238 1 0.00
239 5 0.00
240 2 0.00
241 5 0.00
242 1 0.00
244 3 0.00
245 11 0.01
246 7 0.00
247 15 0.01
248 3 0.00
249 5 0.00
250 3 0.00
252 2 0.00
253 3 0.00
254 9 0.01
257 5 0.00
258 1 0.00
260 1 0.00
261 5 0.00
262 4 0.00
264 52 0.03
265 21 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (216 bp):
AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
CGCAATATGAGTTGAATTTTG
Found at i:6767718 original size:145 final size:145
Alignment explanation
Indices: 6767312--6768620 Score: 2263
Period size: 145 Copynumber: 9.1 Consensus size: 145
6767302 ATTAGTAAAG
* * * *
6767312 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
* * *
6767376 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCACAATATG
65 TTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
6767441 AGTTGAATTTTGAAAA
130 AGTTGAATTTTGAAAA
6767457 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGC-CAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6767521 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
6767586 GTTGAATTTTGAAAA
131 GTTGAATTTTGAAAA
6767601 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6767666 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
6767731 GTTGAATTTTGAAAA
131 GTTGAATTTTGAAAA
6767746 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6767811 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
6767876 GTTGAATTTTGAAAA
131 GTTGAATTTTGAAAA
6767891 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6767956 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
6768021 GTTGAATTTTGAAAA
131 GTTGAATTTTGAAAA
6768036 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* *
6768101 TTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
*
6768165 GTTGAATTTTGAAAG
131 GTTGAATTTTGAAAA
*
6768180 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* *
6768245 TTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
6768309 GTTGAATTTTGAAAA
131 GTTGAATTTTGAAAA
*
6768324 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* * * *
6768389 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAA
66 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
6768454 GTTGAATTTTGAAAA
131 GTTGAATTTTGAAAA
* * * *
6768469 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* * * * ** *
6768534 TTTA-ACAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATAT
66 TTGAGA-AGCAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
*
6768597 GAATTG-ATTTTGAAAA
129 GAGTTGAATTTTGAAAA
*
6768613 CATAAATT
1 CAGAAATT
6768621 AAAAGGCTTA
Statistics
Matches: 1127, Mismatches: 32, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
144 440 0.39
145 687 0.61
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (145 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
GTTGAATTTTGAAAA
Found at i:6768771 original size:72 final size:72
Alignment explanation
Indices: 6768691--6769248 Score: 904
Period size: 72 Copynumber: 7.7 Consensus size: 72
6768681 GGCGTGTCCC
6768691 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
6768756 GTGTCTT
66 GTGTCTT
6768763 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
6768828 GTGTCTT
66 GTGTCTT
*
6768835 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT-AAAATACCTCAAC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
6768899 GTGTCTT
66 GTGTCTT
6768906 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
6768971 GTGTCTT
66 GTGTCTT
* *
6768978 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAG
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAA
*
6769043 CGTGTCCT
65 CGTGTCTT
* * *
6769051 GAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACGGAAATTGAAATTACCTCAGC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
*
6769116 GTGTCCT
66 GTGTCTT
* * *
6769123 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTAAAATTACCTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAA-AACAGAAATTGAAATTACCTC
* *
6769188 AGCGTGTCCT
63 AACGTGTCTT
** * *
6769198 GAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACATAAATT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
6769249 AAAAGGCTTA
Statistics
Matches: 461, Mismatches: 19, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
71 70 0.15
72 257 0.56
73 70 0.15
74 6 0.01
75 58 0.13
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
GTGTCTT
Found at i:6768940 original size:143 final size:144
Alignment explanation
Indices: 6768691--6769248 Score: 906
Period size: 143 Copynumber: 3.9 Consensus size: 144
6768681 GGCGTGTCCC
*
6768691 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAAC
*
6768756 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
66 GTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
6768821 CCTCAACGTGTCTT
131 CCTCAACGTGTCTT
6768835 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT-AAAATACCTCAAC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAAC
*
6768899 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
66 GTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
6768964 CCTCAACGTGTCTT
131 CCTCAACGTGTCTT
*
6768978 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAG
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAA
* *
6769043 CGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACGGAAATTGAAATT
65 CGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATT
* *
6769108 ACCTCAGCGTGTCCT
130 ACCTCAACGTGTCTT
* *
6769123 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATT-AAAATTACCT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAA-AACAGAAATTGAAAA-TACCT
* ** * *
6769187 CAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACATAAATT
62 CAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
6769249 AAAAGGCTTA
Statistics
Matches: 392, Mismatches: 15, Indels: 11
0.94 0.04 0.03
Matches are distributed among these distances:
143 134 0.34
144 59 0.15
145 119 0.30
146 10 0.03
147 68 0.17
148 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (144 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAAC
GTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
CCTCAACGTGTCTT
Found at i:6781181 original size:21 final size:19
Alignment explanation
Indices: 6781143--6781189 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 19
6781133 GAAGCGCAGT
6781143 ATTTCTTTTTTAAAACGA-A
1 ATTT-TTTTTTAAAACGAGA
6781162 AGTTTTTTTTTAAAATACGAGA
1 A-TTTTTTTTT-AAA-ACGAGA
6781184 ATTTTT
1 ATTTTT
6781190 GAAAACACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 7 0.29
20 6 0.25
21 9 0.38
22 2 0.08
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (19 bp):
ATTTTTTTTTAAAACGAGA
Found at i:6781188 original size:16 final size:17
Alignment explanation
Indices: 6781168--6781578 Score: 144
Period size: 17 Copynumber: 23.3 Consensus size: 17
6781158 CGAAAGTTTT
*
6781168 TTTTTAAAATACGAGAA
1 TTTTTAAAACACGAGAA
6781185 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAGAA
*
6781203 TTTGT-AAACAC--GAA
1 TTTTTAAAACACGAGAA
*
6781217 TATTTTAGAAACACGAAAA
1 T-TTTTA-AAACACGAGAA
*
6781236 TTTTTGGAAAAAAACGA-AA
1 TTTTT---AAAACACGAGAA
* *
6781255 TTTTCTTAAAACACGACATTT
1 -TTT-TTAAAACACGAGA--A
* *
6781276 TTTTTGAAACACGGGAA
1 TTTTTAAAACACGAGAA
* * *
6781293 TTTTTAAAACAAGACATT
1 TTTTTAAAACACGAGA-A
* ** ***
6781311 TTTTTGAAACAAAATTT
1 TTTTTAAAACACGAGAA
6781328 TTTCTTAAAA-A--A-AA
1 TTT-TTAAAACACGAGAA
* *
6781342 ATTTT-AAATACGAGAA
1 TTTTTAAAACACGAGAA
*
6781358 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
6781375 TTTTTAAAACACGGAAATA
1 TTTTTAAAACAC-GAGA-A
6781394 TTTTTTTTAAAACACGA-AA
1 ---TTTTTAAAACACGAGAA
* *
6781413 TTTTTTTTTGAAAACAAGAAAA
1 ----TTTTT-AAAACACGAGAA
* *
6781435 TTTTTGAAACACTAGAA
1 TTTTTAAAACACGAGAA
*
6781452 TTTTGAAAACACGA-AGA
1 TTTTTAAAACACGAGA-A
* *
6781469 TTTTTGAAACATGAGAA
1 TTTTTAAAACACGAGAA
*
6781486 TTTTTAAAAGCACGAGGA
1 TTTTTAAAA-CACGAGAA
* *
6781504 TTATTGAAAGCACGA-AGA
1 TT-TTTAAAACACGAGA-A
* * *
6781522 TTTATAAAAAACGACAA
1 TTTTTAAAACACGAGAA
* *
6781539 TTTTTGAAATACGAGAAA
1 TTTTTAAAACACGAG-AA
* * *
6781557 TTTTTTAAACGCGAAAA
1 TTTTTAAAACACGAGAA
6781574 TTTTT
1 TTTTT
6781579 TTCAAACACG
Statistics
Matches: 302, Mismatches: 56, Indels: 72
0.70 0.13 0.17
Matches are distributed among these distances:
12 3 0.01
13 3 0.01
14 6 0.02
15 5 0.02
16 13 0.04
17 116 0.38
18 84 0.28
19 23 0.08
20 22 0.07
21 13 0.04
22 14 0.05
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.34
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:6781336 original size:36 final size:37
Alignment explanation
Indices: 6781254--6781337 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 37
6781244 AAAAAACGAA
* ***
6781254 ATTTTCTTAAAACACGACATTTTTTTTGAAACACGGG
1 ATTTTCTTAAAACAAGACATTTTTTTTGAAACAAAAG
* *
6781291 AATTT-TTAAAACAAGACA-TTTTTTTGAAACAAAAT
1 ATTTTCTTAAAACAAGACATTTTTTTTGAAACAAAAG
*
6781326 TTTTTCTTAAAA
1 ATTTTCTTAAAA
6781338 AAAAATTTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
35 16 0.42
36 18 0.47
37 4 0.11
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (37 bp):
ATTTTCTTAAAACAAGACATTTTTTTTGAAACAAAAG
Found at i:6781376 original size:17 final size:17
Alignment explanation
Indices: 6781338--6781612 Score: 156
Period size: 17 Copynumber: 15.4 Consensus size: 17
6781328 TTTCTTAAAA
* *
6781338 AAAAATTTT-AAATACG
1 AAAATTTTTAAAACACG
*
6781354 AGAATTTTTAAAACACG
1 AAAATTTTTAAAACACG
6781371 AAAATTTTTAAAACACGG
1 AAAATTTTTAAAACAC-G
6781389 AAATATTTTTTTTAAAACACG
1 AAA-A---TTTTTAAAACACG
* *
6781410 AAATTTTTTTTTGAAAACAAG
1 AAA---ATTTTT-AAAACACG
* *
6781431 AAAATTTTTGAAACACT
1 AAAATTTTTAAAACACG
* *
6781448 AGAATTTTGAAAACACG
1 AAAATTTTTAAAACACG
* * *
6781465 AAGATTTTTGAAACATG
1 AAAATTTTTAAAACACG
*
6781482 AGAATTTTTAAAAGCACG
1 AAAATTTTTAAAA-CACG
** * *
6781500 AGGATTATTGAAAGCACG
1 AAAATT-TTTAAAACACG
* * *
6781518 AAGATTTATAAAAAACG
1 AAAATTTTTAAAACACG
* * *
6781535 ACAATTTTTGAAATACG
1 AAAATTTTTAAAACACG
* *
6781552 AGAAATTTTTTAAACGCG
1 A-AAATTTTTAAAACACG
*
6781570 AAAATTTTTTTCAAACACG
1 AAAA--TTTTTAAAACACG
* *
6781589 AAAACTTTTGAAAACGCG
1 AAAA-TTTTTAAAACACG
6781607 AAAATT
1 AAAATT
6781613 CGAAAATTTC
Statistics
Matches: 199, Mismatches: 46, Indels: 27
0.73 0.17 0.10
Matches are distributed among these distances:
16 7 0.04
17 86 0.43
18 53 0.27
19 21 0.11
20 5 0.03
21 14 0.07
22 12 0.06
23 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (17 bp):
AAAATTTTTAAAACACG
Found at i:6781402 original size:22 final size:20
Alignment explanation
Indices: 6781358--6781439 Score: 89
Period size: 22 Copynumber: 4.0 Consensus size: 20
6781348 AATACGAGAA
*
6781358 TTTTTAAAACACGAAA---A
1 TTTTTAAAACACGAAATTTT
6781375 TTTTTAAAACACGGAAATATTT
1 TTTTTAAAACAC-GAAAT-TTT
6781397 TTTTTAAAACACGAAATTTT
1 TTTTTAAAACACGAAATTTT
*
6781417 TTTTTGAAAACAAGAAAATTTT
1 TTTTT-AAAACACG-AAATTTT
6781439 T
1 T
6781440 GAAACACTAG
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
17 12 0.21
18 4 0.07
20 8 0.14
21 12 0.21
22 20 0.36
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTTTAAAACACGAAATTTT
Found at i:6781412 original size:21 final size:20
Alignment explanation
Indices: 6781358--6781439 Score: 98
Period size: 21 Copynumber: 4.1 Consensus size: 20
6781348 AATACGAGAA
6781358 TTTTTAAAACACGAAAA---
1 TTTTTAAAACACGAAAATTT
6781375 TTTTTAAAACACGGAAATATTT
1 TTTTTAAAACAC-GAAA-ATTT
*
6781397 TTTTTAAAACACGAAATTTT
1 TTTTTAAAACACGAAAATTT
*
6781417 TTTTTGAAAACAAGAAAATTT
1 TTTTT-AAAACACGAAAATTT
6781438 TT
1 TT
6781440 GAAACACTAG
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
17 12 0.21
18 4 0.07
19 1 0.02
20 8 0.14
21 19 0.34
22 12 0.21
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTTTAAAACACGAAAATTT
Found at i:6781579 original size:19 final size:19
Alignment explanation
Indices: 6781557--6781612 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 19
6781547 ATACGAGAAA
6781557 TTTTTT-AAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
* *
6781575 TTTTTTCAAACACGAAAA-
1 TTTTTTAAAACGCGAAAAT
* *
6781593 CTTTTGAAAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
6781612 T
1 T
6781613 CGAAAATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (19 bp):
TTTTTTAAAACGCGAAAAT
Found at i:6781656 original size:18 final size:17
Alignment explanation
Indices: 6781607--6781657 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
6781597 TGAAAACGCG
6781607 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
6781624 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
6781642 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
6781658 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:6782170 original size:7 final size:7
Alignment explanation
Indices: 6782153--6782210 Score: 89
Period size: 7 Copynumber: 7.9 Consensus size: 7
6782143 TGAACCCCCT
6782153 TTTTCTTC
1 TTTT-TTC
6782161 TTTTTTC
1 TTTTTTC
6782168 TTTTTTC
1 TTTTTTC
6782175 TTTTTTCC
1 TTTTTT-C
6782183 TTTTTTC
1 TTTTTTC
6782190 TTTTTTC
1 TTTTTTC
6782197 TTTTTTC
1 TTTTTTC
6782204 TTCTTTT
1 TT-TTTT
6782211 TCTTCCTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
7 33 0.69
8 15 0.31
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:6782185 original size:22 final size:22
Alignment explanation
Indices: 6782151--6782214 Score: 92
Period size: 22 Copynumber: 2.8 Consensus size: 22
6782141 ATTGAACCCC
*
6782151 CTTTTTCTTCTTTTTTCTTTTTT
1 CTTTTT-TCCTTTTTTCTTTTTT
6782174 CTTTTTTCCTTTTTTCTTTTTT
1 CTTTTTTCCTTTTTTCTTTTTT
*
6782196 CTTTTTTCTTCTTTTTCTT
1 CTTTTTTCCT-TTTTTCTT
6782215 CCTTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 24 0.63
23 14 0.37
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (22 bp):
CTTTTTTCCTTTTTTCTTTTTT
Found at i:6782227 original size:14 final size:14
Alignment explanation
Indices: 6782153--6782210 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 14
6782143 TGAACCCCCT
6782153 TTTTCTTCTTTTTTC
1 TTTT-TTCTTTTTTC
6782168 TTTTTTCTTTTTTCC
1 TTTTTTCTTTTTT-C
6782183 TTTTTTCTTTTTTC
1 TTTTTTCTTTTTTC
6782197 TTTTTTCTTCTTTT
1 TTTTTTCTT-TTTT
6782211 TCTTCCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
14 19 0.46
15 22 0.54
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTCTTTTTTC
Found at i:6782374 original size:12 final size:12
Alignment explanation
Indices: 6782357--6782381 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6782347 CTTTCCCTTC
6782357 TTTTTTTTGCTT
1 TTTTTTTTGCTT
6782369 TTTTTTTTGCTT
1 TTTTTTTTGCTT
6782381 T
1 T
6782382 GATTTTTTTT
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:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (12 bp):
TTTTTTTTGCTT
Found at i:6782421 original size:18 final size:19
Alignment explanation
Indices: 6782359--6782423 Score: 62
Period size: 18 Copynumber: 3.5 Consensus size: 19
6782349 TTCCCTTCTT
6782359 TTTTTTGCTTTTTTTTTTGC
1 TTTTTT-CTTTTTTTTTTGC
** **
6782379 TTTGAT-TTTTTTTTGGGC
1 TTTTTTCTTTTTTTTTTGC
*
6782397 TTGTTTCTTTTTTTTTTG-
1 TTTTTTCTTTTTTTTTTGC
6782415 TTTTTTCTT
1 TTTTTTCTT
6782424 GGGCTGCTGG
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
18 21 0.62
19 9 0.26
20 4 0.12
ACGTcount: A:0.02, C:0.08, G:0.12, T:0.78
Consensus pattern (19 bp):
TTTTTTCTTTTTTTTTTGC
Found at i:6782521 original size:3 final size:3
Alignment explanation
Indices: 6782515--6782560 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
6782505 TTTTCTTTCT
*
6782515 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
6782561 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:6782544 original size:10 final size:10
Alignment explanation
Indices: 6782529--6782557 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
6782519 TCTTCCTCTT
6782529 TTCTTCTTCC
1 TTCTTCTTCC
6782539 TTCTTCTTCC
1 TTCTTCTTCC
6782549 TTCTTCTTC
1 TTCTTCTTC
6782558 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:6782545 original size:13 final size:13
Alignment explanation
Indices: 6782515--6782560 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
6782505 TTTTCTTTCT
6782515 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
6782527 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
6782539 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
6782552 TTCTTCTTC
1 TTCTTCTTC
6782561 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:6782651 original size:10 final size:10
Alignment explanation
Indices: 6782616--6782665 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
6782606 ACGCCGGTAC
6782616 TCTT-TCTTT
1 TCTTCTCTTT
* *
6782625 TCTTCTCCTC
1 TCTTCTCTTT
6782635 T-TTCTCTTT
1 TCTTCTCTTT
6782644 TCTTCTCTTT
1 TCTTCTCTTT
*
6782654 TCTTCTTTTT
1 TCTTCTCTTT
6782664 TC
1 TC
6782666 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:6782663 original size:19 final size:19
Alignment explanation
Indices: 6782620--6782662 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
6782610 CGGTACTCTT
6782620 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
6782639 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
6782656 TTCTTTT
1 -TCTTTT
6782663 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:6782942 original size:29 final size:29
Alignment explanation
Indices: 6782909--6783025 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
6782899 TGTAATTTTT
*
6782909 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
6782938 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
6782968 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
6782997 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
6783026 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:6782964 original size:30 final size:30
Alignment explanation
Indices: 6782924--6783025 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
6782914 ATTTAGGATT
*
6782924 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
6782954 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
6782984 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
6783014 AAAATGCAATTT
1 AAAATGAAATTT
6783026 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:6784403 original size:16 final size:17
Alignment explanation
Indices: 6784365--6784405 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
6784355 CCTACTCCCT
6784365 CCCAATTTAAAACCCAA
1 CCCAATTTAAAACCCAA
* *
6784382 CCCAATTT-AAATCCAG
1 CCCAATTTAAAACCCAA
6784398 CCCAATTT
1 CCCAATTT
6784406 TCTCTTAGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.39, C:0.34, G:0.02, T:0.24
Consensus pattern (17 bp):
CCCAATTTAAAACCCAA
Found at i:6785327 original size:16 final size:16
Alignment explanation
Indices: 6785306--6785339 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6785296 AATTATTGAA
*
6785306 TATATTGTAATTAATG
1 TATATTATAATTAATG
6785322 TATATTATAATTAATG
1 TATATTATAATTAATG
6785338 TA
1 TA
6785340 AGAAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (16 bp):
TATATTATAATTAATG
Found at i:6788455 original size:24 final size:24
Alignment explanation
Indices: 6788398--6788455 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
6788388 GGTTTAATGC
* *
6788398 AAATGGAGATATTTTGGAGAGATG
1 AAATGGATATATTTTGGAAAGATG
*
6788422 AAATGAATATATTTTGGAAAGATG
1 AAATGGATATATTTTGGAAAGATG
6788446 AAATGGATAT
1 AAATGGATAT
6788456 TAATGGAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.31
Consensus pattern (24 bp):
AAATGGATATATTTTGGAAAGATG
Found at i:6788549 original size:29 final size:29
Alignment explanation
Indices: 6788494--6788555 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 29
6788484 CAATTATGTT
*
6788494 TTAATTCAAGACTTGTGTAATATTTTTAA
1 TTAATTCAAGACTTATGTAATATTTTTAA
6788523 TTAATTCAAAGACTTATGTAATATTTTTAA
1 TTAATTC-AAGACTTATGTAATATTTTTAA
6788553 TTA
1 TTA
6788556 TGTAGTGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.48
Consensus pattern (29 bp):
TTAATTCAAGACTTATGTAATATTTTTAA
Found at i:6788556 original size:17 final size:17
Alignment explanation
Indices: 6788536--6788596 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
6788526 ATTCAAAGAC
6788536 TTATGTAATATTTTTAA
1 TTATGTAATATTTTTAA
* ***
6788553 TTATGTAGTGATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
*
6788572 TTTATGTAATGTTTTTAA
1 -TTATGTAATATTTTTAA
6788590 TTATGTA
1 TTATGTA
6788597 GTGATTTAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 15 0.47
18 5 0.16
19 4 0.12
20 8 0.25
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:6788577 original size:37 final size:37
Alignment explanation
Indices: 6788526--6788602 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
6788516 TTTTTAATTA
6788526 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
* *
6788563 ATTCAAAGATTTATGTAATGTTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
6788600 ATT
1 ATT
6788603 TAATTTTCGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.48
Consensus pattern (37 bp):
ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
Found at i:6788622 original size:9 final size:9
Alignment explanation
Indices: 6788608--6788710 Score: 161
Period size: 9 Copynumber: 11.2 Consensus size: 9
6788598 TGATTTAATT
6788608 TTCGGGTAA
1 TTCGGGTAA
6788617 TTCGGGTAA
1 TTCGGGTAA
*
6788626 TTTGGGTAA
1 TTCGGGTAA
6788635 TTTTCGGGTAA
1 --TTCGGGTAA
6788646 TTCGGGTAA
1 TTCGGGTAA
6788655 TTCGGGTAA
1 TTCGGGTAA
*
6788664 GTCGGGTAA
1 TTCGGGTAA
6788673 TTCGGGTAA
1 TTCGGGTAA
*
6788682 GTCGGGTAA
1 TTCGGGTAA
6788691 TTCGGGTAA
1 TTCGGGTAA
6788700 TTCGGGTAA
1 TTCGGGTAA
6788709 TT
1 TT
6788711 TTTAACCAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
9 78 0.91
11 8 0.09
ACGTcount: A:0.21, C:0.10, G:0.34, T:0.35
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:6788848 original size:28 final size:27
Alignment explanation
Indices: 6788816--6788881 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
6788806 AAAATTCGGT
6788816 TCGGTTAACGGTTA-AAAAATTTGAGAGG
1 TCGGTTAACGGTTACAAAAATTT-AG-GG
* *
6788844 TCGGTTAATTCGGTTACAAGAATTTCGGG
1 TCGGTTAA--CGGTTACAAAAATTTAGGG
6788873 TCGGTTAAC
1 TCGGTTAAC
6788882 CGGTCGGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
27 1 0.03
28 8 0.24
29 10 0.30
30 7 0.21
31 7 0.21
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (27 bp):
TCGGTTAACGGTTACAAAAATTTAGGG
Found at i:6788888 original size:12 final size:12
Alignment explanation
Indices: 6788871--6788895 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6788861 AAGAATTTCG
6788871 GGTCGGTTAACC
1 GGTCGGTTAACC
6788883 GGTCGGTTAACC
1 GGTCGGTTAACC
6788895 G
1 G
6788896 ACTGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:6789969 original size:23 final size:23
Alignment explanation
Indices: 6789939--6789998 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 23
6789929 CTCCCAATTT
*
6789939 CTCTTCCTGTTTCATCCATCGGC
1 CTCTTCCTGTTTCATCCATCAGC
**
6789962 CTCTTCCTGTTTCA-CTTTCAGC
1 CTCTTCCTGTTTCATCCATCAGC
6789984 CTCTTCCTGTTTCAT
1 CTCTTCCTGTTTCAT
6789999 TTCTTGCACC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 19 0.58
23 14 0.42
ACGTcount: A:0.08, C:0.37, G:0.10, T:0.45
Consensus pattern (23 bp):
CTCTTCCTGTTTCATCCATCAGC
Found at i:6793040 original size:16 final size:16
Alignment explanation
Indices: 6793019--6793063 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
6793009 TTTAAATAAC
6793019 TAATATATTTTAATTA
1 TAATATATTTTAATTA
*
6793035 TAATATA-TTTAATAA
1 TAATATATTTTAATTA
*
6793050 TAAT-TATGTTAATT
1 TAATATATTTTAATT
6793064 TATATTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 2 0.08
15 16 0.64
16 7 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TAATATATTTTAATTA
Found at i:6793122 original size:120 final size:120
Alignment explanation
Indices: 6792977--6793659 Score: 1190
Period size: 120 Copynumber: 5.7 Consensus size: 120
6792967 TTAAATTGTA
* * * * * *
6792977 TAAATTCATATAAGAAAATT-TATTATCAAGAATTTAAATAACTAATATATTTTAATTATAATAT
1 TAAATTCATATAAGAATATTAT-TTATTAAGAATTTTATTAAATTATATATTTTAATTATAATAT
*
6793041 ATTTAATAATAATTATGTTAATTTATATTTTATAGTAACATATATTATGATTTGAG
65 ATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
* *
6793097 TAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
*
6793162 TTTAATAATAATTTTGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
66 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
*
6793217 TAAATTAATATAAGAA-ATTTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATAT
1 TAAATTCATATAAGAATA-TTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATAT
6793281 ATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
65 ATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
* *
6793337 TAAATTCATATAAGAATTTTATTTATTAAGAATATTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
*
6793402 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTTAG
66 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
*
6793457 TAAATTCATATAAGAATTTTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
*
6793522 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTCAG
66 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
6793577 TAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
6793642 TTTAATAATAATTATGTT
66 TTTAATAATAATTATGTT
6793660 TAAATATGAT
Statistics
Matches: 541, Mismatches: 19, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
119 1 0.00
120 540 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
TAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
Found at i:6793167 original size:15 final size:15
Alignment explanation
Indices: 6793132--6793173 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6793122 TTAAGAATTT
*
6793132 TATTAAATTAT-ATA
1 TATTTAATTATAATA
6793146 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
6793160 TATTTAATAATAAT
1 TATTTAATTATAAT
6793174 TTTGTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:6793282 original size:16 final size:16
Alignment explanation
Indices: 6793261--6793303 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
6793251 TTATTAAATT
6793261 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
6793277 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
6793292 AT-TATGTTAATT
1 ATATATTTTAATT
6793304 TATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:6793402 original size:16 final size:16
Alignment explanation
Indices: 6793381--6793423 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
6793371 TTATTAAATT
6793381 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
6793397 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
6793412 AT-TATGTTAATT
1 ATATATTTTAATT
6793424 TATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:6793522 original size:16 final size:16
Alignment explanation
Indices: 6793501--6793543 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
6793491 TTATTAAATT
6793501 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
6793517 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
6793532 AT-TATGTTAATT
1 ATATATTTTAATT
6793544 TATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:6793642 original size:16 final size:16
Alignment explanation
Indices: 6793621--6793662 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6793611 TTATTAAATT
*
6793621 ATATATTTTAATTATA
1 ATATATTTTAATAATA
6793637 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
6793652 AT-TATGTTTAA
1 ATATAT-TTTAA
6793663 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:6793647 original size:15 final size:15
Alignment explanation
Indices: 6793612--6793653 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6793602 TTAAGAATTT
*
6793612 TATTAAATTAT-ATA
1 TATTTAATTATAATA
6793626 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
6793640 TATTTAATAATAAT
1 TATTTAATTATAAT
6793654 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:6793890 original size:16 final size:16
Alignment explanation
Indices: 6793871--6793929 Score: 109
Period size: 16 Copynumber: 3.7 Consensus size: 16
6793861 TTACATTACA
*
6793871 CCTCTAATCCATTATG
1 CCTCTATTCCATTATG
6793887 CCTCTATTCCATTATG
1 CCTCTATTCCATTATG
6793903 CCTCTATTCCATTATG
1 CCTCTATTCCATTATG
6793919 CCTCTATTCCA
1 CCTCTATTCCA
6793930 ATACAGCGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.20, C:0.34, G:0.05, T:0.41
Consensus pattern (16 bp):
CCTCTATTCCATTATG
Found at i:6801260 original size:3 final size:3
Alignment explanation
Indices: 6801247--6801320 Score: 57
Period size: 3 Copynumber: 25.7 Consensus size: 3
6801237 CGCATGTATG
* * *
6801247 AAT AA- AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT CAT AGT -AT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
6801292 CAT AAT TAT AAT AAA AAT GAAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AA
6801321 AATGTTAAAT
Statistics
Matches: 54, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
2 6 0.11
3 45 0.83
4 3 0.06
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:6802953 original size:44 final size:45
Alignment explanation
Indices: 6802865--6802962 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 45
6802855 AAGACTTGTA
* **
6802865 TCTTCGATCTACTTCACTACCAGTATGGGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTGCTT
* *
6802910 TCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTGCTT
6802954 TCTTCGATC
1 TCTTCGATC
6802963 GATTCCACTG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 31 0.65
45 17 0.35
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (45 bp):
TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTGCTT
Found at i:6803116 original size:44 final size:44
Alignment explanation
Indices: 6803065--6803240 Score: 133
Period size: 44 Copynumber: 4.0 Consensus size: 44
6803055 CACTACAGCT
* *
6803065 TAGGGAGATAAGATCTGTAATATTCAATCTATTCCACTGTTGCC
1 TAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCC
* * * **
6803109 TAGGGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTGTAACC
1 TAGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGTTGCC
* * * ** * * ** *
6803152 TCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCT
1 T-AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCC
* *
6803197 TAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCC
1 TAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCC
6803241 CCAGGGAAGT
Statistics
Matches: 93, Mismatches: 33, Indels: 12
0.67 0.24 0.09
Matches are distributed among these distances:
41 3 0.03
42 1 0.01
43 22 0.24
44 48 0.52
45 18 0.19
47 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
TAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCC
Found at i:6803184 original size:132 final size:132
Alignment explanation
Indices: 6802939--6804231 Score: 1750
Period size: 132 Copynumber: 9.8 Consensus size: 132
6802929 CAATACATGA
*** * * * * * *
6802939 AGACAAGATCTGCTTTCTTCGATCGATTCCACTGCCGACC-GGGGAGATAGAATTAGTGGCTT-A
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCA
* * * * * * * *
6803002 ATATACTCCACTGCAACCTCAAGGAGGTAAAGTCTGCCATTTTTTATCTGCTCCACTACAGCTTA
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTA
6803067 GGG
130 GGG
* * * * *
6803070 AGATAAGATCTGTAATATTCAATCTATTCCACTGTTGCCTAGGG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCA
* * *
6803134 ATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTA
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTA
6803199 GGG
130 GGG
* *
6803202 AGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCCAGGGAAGTAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG-CCCAGGGAAGTAGAATTACTGGCTTCA
* * * * *
6803267 ATGCACTCCACTGTAACCACAAGGAGGTAAAATCTACCACCTTTGATCTACTCCACTACTGCTTA
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTA
6803332 GGG
130 GGG
* * * *
6803335 AGACAAGATCTGAAATCTTCAATCTATTCCGCTGCCGCCCAGGGAAATAGAATTGCTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * * * * * *
6803400 TGTACTCCATTGTAACCATAGGGAGGTAAAATCCGTCATCTTTGATCTGTTCCACTACTTCTTGG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
6803465 GG
131 GG
* *
6803467 AGACAAGATCTGAAATCTTCAATCTATTCCACTACTGCACAGGGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
** * * *
6803532 TGTACTCCACTGTAACCACAGAAAGGTAAAATCTACCATCTTTAATCTGCTCCACTACTGTTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
6803597 GG
131 GG
* *
6803599 AGACAAGATCTGAAATCTTCAATCTATTTCACTGCTGCCTAGGG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCA
* * * * *
6803663 ATGTACTCCACTGTAACCACAGAGAGGTAAAATCCGTCATCTTTGATCTGTTCTACTACTGCTTA
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTA
6803728 GGG
130 GGG
* * * *
6803731 AGACAAGATCTGAAATATTCAATATATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCCTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* *
6803796 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTCATCTTTAATCTGCTCCACTACTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
6803861 GG
131 GG
* ** *
6803863 AGACAAGATCTGAAATATTCAATCTATTCTGCTGCTGCCCAGGAAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * * *
6803928 TGTACTCCACTGTAACCACAGGGAGATAAAATCTGCCATTTTTTATCTGCTCTACTACTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
6803993 GG
131 GG
*
6803995 AGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
** * *
6804060 TGTACTCCACTGTAACCTTAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
6804125 GG
131 GG
* * * * *
6804127 AGATAAGATCTGTAATATTCAATCTATTCCACTGCTGTCCAGAG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCA
* * *
6804191 ATATACTCCACTGTAACCTCAGGGAGGTAAAATCTACCATC
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATC
6804232 AACCTGCTCC
Statistics
Matches: 1034, Mismatches: 121, Indels: 13
0.89 0.10 0.01
Matches are distributed among these distances:
131 50 0.05
132 864 0.84
133 118 0.11
134 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
GG
Found at i:6808436 original size:19 final size:18
Alignment explanation
Indices: 6808412--6808459 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
6808402 AACGGTGTCT
*
6808412 AATGCATATAATGTAATG
1 AATGCATATAATGAAATG
* *
6808430 AAATGCAAATGTATGAAATG
1 -AATGCATAT-AATGAAATG
6808450 AATGCATATA
1 AATGCATATA
6808460 GAGACGTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (18 bp):
AATGCATATAATGAAATG
Found at i:6810614 original size:25 final size:27
Alignment explanation
Indices: 6810562--6810619 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
6810552 TAAGAATGAT
*
6810562 AATAATAATAATAAAAATCATAGTATAA
1 AATAATAATAATAAAAA-CATAGAATAA
* *
6810590 CATAATTATAATAAAAA-AT-GAATAA
1 AATAATAATAATAAAAACATAGAATAA
6810615 AATAA
1 AATAA
6810620 AATGTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 9 0.35
26 2 0.08
28 15 0.58
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (27 bp):
AATAATAATAATAAAAACATAGAATAA
Found at i:6813569 original size:14 final size:14
Alignment explanation
Indices: 6813550--6813580 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
6813540 TTTTAATGCC
6813550 TTGGTGTCGAAAAT
1 TTGGTGTCGAAAAT
6813564 TTGGTGTCGAAAAT
1 TTGGTGTCGAAAAT
6813578 TTG
1 TTG
6813581 AAAAGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.29, T:0.39
Consensus pattern (14 bp):
TTGGTGTCGAAAAT
Found at i:6815925 original size:60 final size:61
Alignment explanation
Indices: 6815836--6815954 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 61
6815826 TATTTAAGTT
6815836 AAAAAATCTAAAAACAATCATTTTAATAGCCTAAAAAAACTCATTTCCTTTCTT-TTTTAA
1 AAAAAATCTAAAAACAATCATTTTAATAGCCTAAAAAAACTCATTTCCTTTCTTATTTTAA
6815896 AAAAAATCTAAAAACAATCATTTTAATAGCCTAAAAAAACTCATTTCCTTTCTTATTTT
1 AAAAAATCTAAAAACAATCATTTTAATAGCCTAAAAAAACTCATTTCCTTTCTTATTTT
6815955 TCTCGAGCCC
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
60 54 0.93
61 4 0.07
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.37
Consensus pattern (61 bp):
AAAAAATCTAAAAACAATCATTTTAATAGCCTAAAAAAACTCATTTCCTTTCTTATTTTAA
Found at i:6816569 original size:21 final size:22
Alignment explanation
Indices: 6816543--6816586 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
6816533 GCATATTATT
**
6816543 TTTCTCTTTTTCC-TTTTTCTG
1 TTTCTCTGCTTCCTTTTTTCTG
6816564 TTTCTCTGCTTCCTTTTTTCTG
1 TTTCTCTGCTTCCTTTTTTCTG
6816586 T
1 T
6816587 CTTTTGTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.00, C:0.25, G:0.07, T:0.68
Consensus pattern (22 bp):
TTTCTCTGCTTCCTTTTTTCTG
Found at i:6818298 original size:26 final size:26
Alignment explanation
Indices: 6818263--6818312 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
6818253 AAATAAAAAG
*
6818263 GGGGTTGCTATGTGCTGATTCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCAA
6818289 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
6818313 GATTAAGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.14, C:0.24, G:0.32, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCAA
Found at i:6818332 original size:102 final size:104
Alignment explanation
Indices: 6818081--6818345 Score: 401
Period size: 104 Copynumber: 2.6 Consensus size: 104
6818071 GTTGTACATA
** *
6818081 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
6818146 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
6818185 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGAGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
6818249 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATT-CCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
6818287 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
6818346 AATAACGGTT
Statistics
Matches: 146, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
102 56 0.38
103 26 0.18
104 64 0.44
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:6831676 original size:18 final size:19
Alignment explanation
Indices: 6831653--6831689 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
6831643 AGTTGAACTA
*
6831653 GAATTTTTAA-AATTTTTT
1 GAATTTTAAATAATTTTTT
6831671 GAATTTTAAATAATTTTTT
1 GAATTTTAAATAATTTTTT
6831690 AATCGGATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
GAATTTTAAATAATTTTTT
Found at i:6834498 original size:44 final size:44
Alignment explanation
Indices: 6834442--6834547 Score: 149
Period size: 44 Copynumber: 2.4 Consensus size: 44
6834432 CAGATCGCAT
* * * *
6834442 CCAATCTCATCTCCCTGAGGTTGCAGTGGAGCAGATTGAATAAG
1 CCAATCTTATCTCCCTGAGGTTGCAGTGGAACAGATTGAAGAAA
* *
6834486 TCAATCTTATCTCCCTGAGGTTGTAGTGGAACAGATTGAAGAAA
1 CCAATCTTATCTCCCTGAGGTTGCAGTGGAACAGATTGAAGAAA
*
6834530 CCAATCCTATCTCCCTGA
1 CCAATCTTATCTCCCTGA
6834548 AATTGTAGTG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (44 bp):
CCAATCTTATCTCCCTGAGGTTGCAGTGGAACAGATTGAAGAAA
Found at i:6834554 original size:44 final size:44
Alignment explanation
Indices: 6834442--6834559 Score: 148
Period size: 44 Copynumber: 2.7 Consensus size: 44
6834432 CAGATCGCAT
* * * *
6834442 CCAAT-CTCATCTCCCTGAGGTTGCAGTGGAGCAGATTGAATAAG
1 CCAATCCT-ATCTCCCTGAGGTTGTAGTGGAACAGATTGAAGAAA
* *
6834486 TCAATCTTATCTCCCTGAGGTTGTAGTGGAACAGATTGAAGAAA
1 CCAATCCTATCTCCCTGAGGTTGTAGTGGAACAGATTGAAGAAA
**
6834530 CCAATCCTATCTCCCTGAAATTGTAGTGGA
1 CCAATCCTATCTCCCTGAGGTTGTAGTGGA
6834560 GTGGATCAGA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 62 0.98
45 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
CCAATCCTATCTCCCTGAGGTTGTAGTGGAACAGATTGAAGAAA
Found at i:6834972 original size:22 final size:23
Alignment explanation
Indices: 6834944--6834988 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6834934 CTGCAATCTT
6834944 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
6834966 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
6834989 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:6836610 original size:65 final size:65
Alignment explanation
Indices: 6836525--6836651 Score: 220
Period size: 65 Copynumber: 2.0 Consensus size: 65
6836515 AAAAGATTGG
*
6836525 TGGCGACTCCATTTTCGTTTTAAAAGTCGAGCCCGTTTTTCAAAATAAAAATGGTTTCGACAGCT
1 TGGCGACTCCATTTTCGTTTTAAAAGTCGACCCCGTTTTTCAAAATAAAAATGGTTTCGACAGCT
*
6836590 TGGCGACTCCACTTTT-GTTTTAAAAGTCGTCCCCGTTTTTCAAAATAAAAATGGTTTCGACA
1 TGGCGACTCCA-TTTTCGTTTTAAAAGTCGACCCCGTTTTTCAAAATAAAAATGGTTTCGACA
6836652 CAAATTAATA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
65 55 0.93
66 4 0.07
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (65 bp):
TGGCGACTCCATTTTCGTTTTAAAAGTCGACCCCGTTTTTCAAAATAAAAATGGTTTCGACAGCT
Found at i:6837003 original size:16 final size:16
Alignment explanation
Indices: 6836981--6837049 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
6836971 TTTGGTTCGC
6836981 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
6836997 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
6837013 TGTATTGTGATTAGAGG
1 TGTATTG-GATTAGAGG
6837030 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
6837046 TGTA
1 TGTA
6837050 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:6837027 original size:33 final size:32
Alignment explanation
Indices: 6836981--6837049 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
6836971 TTTGGTTCGC
6836981 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
6837013 TGTATTGTGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTG-GATTAGAGGCGTATTGGATTAGAGG
6837046 TGTA
1 TGTA
6837050 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 7 0.20
33 28 0.80
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:6837114 original size:44 final size:45
Alignment explanation
Indices: 6837030--6837120 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
6837020 TGATTAGAGG
* * *
6837030 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
6837075 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
6837119 TG
1 TG
6837121 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:6837306 original size:18 final size:17
Alignment explanation
Indices: 6837285--6837319 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6837275 TTATTATTAA
*
6837285 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6837303 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6837320 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6837545 original size:18 final size:17
Alignment explanation
Indices: 6837524--6837558 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6837514 TTATTATTAA
*
6837524 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6837542 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6837559 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6837647 original size:120 final size:120
Alignment explanation
Indices: 6837268--6837769 Score: 961
Period size: 120 Copynumber: 4.2 Consensus size: 120
6837258 ATCATATTTA
6837268 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
6837333 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
6837388 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATT-TTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
6837452 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
6837507 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
6837572 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
6837627 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
6837692 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
6837747 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
6837770 AACTTGAAAA
Statistics
Matches: 375, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
119 117 0.31
120 258 0.69
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:6838120 original size:18 final size:18
Alignment explanation
Indices: 6838097--6838156 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
6838087 TTAAAACAAG
6838097 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
6838115 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
6838132 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
6838150 TTACATT
1 TTACATT
6838157 AGAATTACAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:6839840 original size:33 final size:33
Alignment explanation
Indices: 6839801--6839876 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
6839791 ATTATAAAGC
*
6839801 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
6839834 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
6839867 ATGTATAATT
1 ATGTATAATT
6839877 CAAGTTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTAT
Found at i:6839974 original size:37 final size:37
Alignment explanation
Indices: 6839919--6840000 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
6839909 GTATAAATAT
* * *
6839919 ATTGATTAGTTCATTAAAGCATGTTCAAAGTTTTAGC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
*
6839956 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
6839993 ATTGATTA
1 ATTGATTA
6840001 ATAAATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (37 bp):
ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
Found at i:6858406 original size:3 final size:3
Alignment explanation
Indices: 6858400--6858444 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
6858390 TTTGACATTG
* *
6858400 TAT TAT TAT TATT TAC TAT TAT TAT TAT TAT T-T TAT TAT TTT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6858445 ATCCATATGC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:6858424 original size:19 final size:17
Alignment explanation
Indices: 6858400--6858444 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
6858390 TTTGACATTG
6858400 TATTATTATTATTTACTAT
1 TATTATTATTATTT--TAT
6858419 TATTATTATTATTTTAT
1 TATTATTATTATTTTAT
*
6858436 TATTTTTAT
1 TATTATTAT
6858445 ATCCATATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 11 0.44
19 14 0.56
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTATTATTATTTTAT
Found at i:6860374 original size:111 final size:110
Alignment explanation
Indices: 6860096--6860500 Score: 656
Period size: 111 Copynumber: 3.7 Consensus size: 110
6860086 ATATTTGGAA
* * *
6860096 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
* * * *
6860158 CAAAACATTGCCTTACTTTGAAATTTTTG-AAAGGATATTTAGCT
66 CAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGCC
*
6860202 ATTTGGTTGTACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
6860267 CAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGCC
66 CAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGCC
* *
6860312 ATTTGGTCGAACGAGAAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAC
1 ATTTGGTTGAACGAG-AAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAAC
*
6860377 GCAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATGTTAAGCC
65 GCAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGCC
6860423 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
* *
6860488 CTAAATATTGCCT
66 CAAAACATTGCCT
6860501 CAATTAGAAA
Statistics
Matches: 278, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
106 13 0.05
108 26 0.09
109 46 0.17
110 86 0.31
111 107 0.38
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (110 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
CAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGCC
Found at i:6861069 original size:3 final size:3
Alignment explanation
Indices: 6861022--6861057 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
6861012 GTAAAGACGG
6861022 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6861058 ACAAAATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6867144 original size:111 final size:109
Alignment explanation
Indices: 6866861--6867265 Score: 620
Period size: 111 Copynumber: 3.7 Consensus size: 109
6866851 TCAAGAGGAT
* * *
6866861 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
* * *
6866923 CAAAACATTGCCTTACTTTGAAATTTTTG-AAAGGATATTTAGC
66 CAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGC
*
6866966 TATTTGGTTGTACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAAC
1 -ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAAC
6867031 GCAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGTC
65 GCAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAG-C
* * * *
6867077 ATTTGGTCGAACGAGAAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTTCAAAC
1 ATTTGGTTGAACGAG-AAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAAC
*
6867142 GCAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATGTTAAGCC
65 GCAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAG-C
6867188 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
* *
6867253 CTAAATATTGCCT
66 CAAAACATTGCCT
6867266 CAATTAGAAA
Statistics
Matches: 273, Mismatches: 20, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
106 13 0.05
108 26 0.10
109 46 0.17
110 83 0.30
111 105 0.38
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (109 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
CAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGC
Found at i:6867833 original size:3 final size:3
Alignment explanation
Indices: 6867786--6867821 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
6867776 GTAAAGACGG
6867786 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6867822 ACAAAATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6872714 original size:56 final size:55
Alignment explanation
Indices: 6872629--6872735 Score: 178
Period size: 56 Copynumber: 1.9 Consensus size: 55
6872619 TTATAGATTG
* *
6872629 CAAATTAATTCTTCATGAGCACTATTCAAATTAAAAGTGATGATTTATCATATTA
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATATTA
*
6872684 CAAATTTAATTATTCATAAGCATTATTCAAATTAAAAGTGATGATTTATCAT
1 CAAA-TTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCAT
6872736 CCAATGGATA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 4 0.08
56 44 0.92
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.39
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATATTA
Found at i:6875837 original size:20 final size:20
Alignment explanation
Indices: 6875812--6875850 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6875802 AGGTACGTTC
*
6875812 GTACGGGGGT-TGACGTGGCG
1 GTACGGAGGTGTG-CGTGGCG
6875832 GTACGGAGGTGTGCGTGGC
1 GTACGGAGGTGTGCGTGGC
6875851 TAGGGAGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.10, C:0.15, G:0.54, T:0.21
Consensus pattern (20 bp):
GTACGGAGGTGTGCGTGGCG
Found at i:6877324 original size:21 final size:21
Alignment explanation
Indices: 6877271--6877325 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
6877261 CTATTTTTTT
* *
6877271 AATCTCATCGCTATAATATCC
1 AATCTCACCACTATAATATCC
*
6877292 AATCTCATCACTATAATAAT-C
1 AATCTCACCACTATAAT-ATCC
*
6877313 AATTTCACCACTA
1 AATCTCACCACTA
6877326 CTACTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.33
Consensus pattern (21 bp):
AATCTCACCACTATAATATCC
Found at i:6890128 original size:33 final size:33
Alignment explanation
Indices: 6890086--6890153 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
6890076 CTATGCACAT
6890086 TCTCATCATACCCATAAACAACATTATTTGCAA
1 TCTCATCATACCCATAAACAACATTATTTGCAA
6890119 TCTCATCATACCCATAAACAACATTATTTGCAA
1 TCTCATCATACCCATAAACAACATTATTTGCAA
6890152 TC
1 TC
6890154 ACATGTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.31
Consensus pattern (33 bp):
TCTCATCATACCCATAAACAACATTATTTGCAA
Found at i:6891653 original size:28 final size:28
Alignment explanation
Indices: 6891622--6891682 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
6891612 AATATTTACC
* *
6891622 ATTTTAATATTTTTTTACT-ATTTTTATA
1 ATTTTAATA-TTTTCTAATAATTTTTATA
**
6891650 ATTTTTTTATTTTCTAATAATTTTTATA
1 ATTTTAATATTTTCTAATAATTTTTATA
6891678 ATTTT
1 ATTTT
6891683 TATAACTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (28 bp):
ATTTTAATATTTTCTAATAATTTTTATA
Found at i:6891669 original size:19 final size:20
Alignment explanation
Indices: 6891616--6891674 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
6891606 TTTTATAATA
*
6891616 TTTACCATTTTAAT-ATTTT
1 TTTACTATTTTAATAATTTT
*
6891635 TTTACTATTTTTATAATTTT
1 TTTACTATTTTAATAATTTT
6891655 TTTA-T-TTTCTAATAATTTT
1 TTTACTATTT-TAATAATTTT
6891674 T
1 T
6891675 ATAATTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.09
19 23 0.66
20 9 0.26
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTACTATTTTAATAATTTT
Found at i:6892534 original size:15 final size:15
Alignment explanation
Indices: 6892482--6892535 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
6892472 TTTTATAAAT
*
6892482 TAAAAAAAAATAATTA
1 TAAAAATAAATAA-TA
* *
6892498 TAAAAGT-AATTATA
1 TAAAAATAAATAATA
6892512 TTAAAAATAAATAATA
1 -TAAAAATAAATAATA
6892528 TAAAAATA
1 TAAAAATA
6892536 TTCAATATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 2 0.06
15 18 0.58
16 11 0.35
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (15 bp):
TAAAAATAAATAATA
Done.