Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 43 of 213
Found at i:11479895 original size:18 final size:18
Alignment explanation
Indices: 11479869--11479905 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
11479859 TGAGTTTTCG
*
11479869 AATTTGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
11479887 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
11479905 A
1 A
11479906 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (18 bp):
AATTCGAATAACTCGAAT
Found at i:11481396 original size:2 final size:2
Alignment explanation
Indices: 11481391--11481447 Score: 55
Period size: 2 Copynumber: 29.5 Consensus size: 2
11481381 TATTTCTTAA
* * * *
11481391 AT AT AT AC AT AT AT AT AT AT AT AT A- AT AT TT CT -T AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
11481431 AT AC AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
11481448 AAAGGTACCA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:11481415 original size:36 final size:36
Alignment explanation
Indices: 11481374--11481447 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
11481364 CATTTGTACT
11481374 TATATAATATTTCTTAAATATATACATATATATATA
1 TATATAATATTTCTTAAATATATACATATATATATA
11481410 TATATAATATTTCTTAAATATATACATATATATATA
1 TATATAATATTTCTTAAATATATACATATATATATA
11481446 TA
1 TA
11481448 AAAGGTACCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (36 bp):
TATATAATATTTCTTAAATATATACATATATATATA
Found at i:11482954 original size:43 final size:44
Alignment explanation
Indices: 11482905--11482998 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 44
11482895 TCCTAGATAG
11482905 GGTCTTACT-TGAAAATACAAGTCGATGCCATCGTCCCAAACGT
1 GGTCTTACTATGAAAATACAAGTCGATGCCATCGTCCCAAACGT
* * *
11482948 GGTCTTA-TATGAAAATACAAGTTGATGTCATCGTCCCAGACGT
1 GGTCTTACTATGAAAATACAAGTCGATGCCATCGTCCCAAACGT
11482991 GGTCTTAC
1 GGTCTTAC
11482999 ACAAAAACAC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 1 0.02
43 45 0.98
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
GGTCTTACTATGAAAATACAAGTCGATGCCATCGTCCCAAACGT
Found at i:11486887 original size:16 final size:16
Alignment explanation
Indices: 11486866--11486899 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
11486856 TACTTAAAAG
11486866 TTAAAACTAATTGTTA
1 TTAAAACTAATTGTTA
*
11486882 TTAAAATTAATTGTTA
1 TTAAAACTAATTGTTA
11486898 TT
1 TT
11486900 GAATTTATAT
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:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
TTAAAACTAATTGTTA
Found at i:11487000 original size:25 final size:25
Alignment explanation
Indices: 11486970--11487017 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
11486960 AAGATTACTT
*
11486970 ATTTGAATTTAATTACTAACAATTA
1 ATTTGAATTTAATTACAAACAATTA
11486995 ATTTGAATTTAATTACAAACAAT
1 ATTTGAATTTAATTACAAACAAT
11487018 CAAATCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (25 bp):
ATTTGAATTTAATTACAAACAATTA
Found at i:11487096 original size:8 final size:8
Alignment explanation
Indices: 11487083--11487107 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11487073 ATTTAATTAC
11487083 TTTTAACT
1 TTTTAACT
11487091 TTTTAACT
1 TTTTAACT
11487099 TTTTAACT
1 TTTTAACT
11487107 T
1 T
11487108 AAATATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTAACT
Found at i:11488056 original size:22 final size:22
Alignment explanation
Indices: 11488028--11488077 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
11488018 TGAAGCACCA
*
11488028 TGGAGTCGTGGAGTCA-TGGACG
1 TGGAGTCGT-GAATCAGTGGACG
*
11488050 TGGAGTCGTGAATCAGTGGAGG
1 TGGAGTCGTGAATCAGTGGACG
11488072 TGGAGT
1 TGGAGT
11488078 TGGATCTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.20, C:0.10, G:0.46, T:0.24
Consensus pattern (22 bp):
TGGAGTCGTGAATCAGTGGACG
Found at i:11493986 original size:13 final size:13
Alignment explanation
Indices: 11493968--11493993 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11493958 TAAGAATGGT
11493968 GTTTTTGGATTAA
1 GTTTTTGGATTAA
11493981 GTTTTTGGATTAA
1 GTTTTTGGATTAA
11493994 TGGACTAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (13 bp):
GTTTTTGGATTAA
Found at i:11501474 original size:27 final size:26
Alignment explanation
Indices: 11501443--11501537 Score: 118
Period size: 27 Copynumber: 3.6 Consensus size: 26
11501433 CAACTTACGA
*
11501443 CCGAAGGGTAAAATAACCGAAATACC
1 CCGAAGGGTAAAATGACCGAAATACC
* *
11501469 CTCGAAGGATAAAATGACCGATATACC
1 C-CGAAGGGTAAAATGACCGAAATACC
* *
11501496 CCAAAGGGTAAAATGACTGAAATACC
1 CCGAAGGGTAAAATGACCGAAATACC
*
11501522 CCTATAGGGTAAAATG
1 CCGA-AGGGTAAAATG
11501538 TCTATTATAC
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
26 25 0.42
27 34 0.58
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (26 bp):
CCGAAGGGTAAAATGACCGAAATACC
Found at i:11501908 original size:28 final size:28
Alignment explanation
Indices: 11501876--11501965 Score: 126
Period size: 28 Copynumber: 3.2 Consensus size: 28
11501866 GTTACATTAT
* *
11501876 CACACTGTTACTGTATCGGGCTAAGGTC
1 CACACTATTACTGTATCGGGCTAAGGCC
* **
11501904 CACACTATTACTGTATTGGGCTAATACC
1 CACACTATTACTGTATCGGGCTAAGGCC
*
11501932 CACACTATTACTGTATCGGGCTATGGCC
1 CACACTATTACTGTATCGGGCTAAGGCC
11501960 CACACT
1 CACACT
11501966 GTACTATTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (28 bp):
CACACTATTACTGTATCGGGCTAAGGCC
Found at i:11503975 original size:20 final size:20
Alignment explanation
Indices: 11503952--11503995 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
11503942 ATAGGGTATG
11503952 AGATCTGAGTATGGATGCCA
1 AGATCTGAGTATGGATGCCA
11503972 AGATCTGAGTATGGATGCCA
1 AGATCTGAGTATGGATGCCA
11503992 AGAT
1 AGAT
11503996 GGATTCTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.25
Consensus pattern (20 bp):
AGATCTGAGTATGGATGCCA
Found at i:11505690 original size:17 final size:18
Alignment explanation
Indices: 11505647--11505690 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
11505637 AATAAAATTT
11505647 AATATTATAT-TTAATCA
1 AATATTATATCTTAATCA
*
11505664 AGTATT-TATCTTAAT-A
1 AATATTATATCTTAATCA
11505680 AATATTATATC
1 AATATTATATC
11505691 AATTTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (18 bp):
AATATTATATCTTAATCA
Found at i:11506089 original size:26 final size:26
Alignment explanation
Indices: 11506053--11506107 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
11506043 TGTTTAGTAC
11506053 TTTAGATATCACAACCAAGATCTTGT
1 TTTAGATATCACAACCAAGATCTTGT
11506079 TTTAGATATCACAACCAAGATCTTGT
1 TTTAGATATCACAACCAAGATCTTGT
11506105 TTT
1 TTT
11506108 GAAAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (26 bp):
TTTAGATATCACAACCAAGATCTTGT
Found at i:11506801 original size:22 final size:23
Alignment explanation
Indices: 11506748--11506803 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
11506738 CTCAATTTTA
* * *
11506748 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
11506771 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
11506793 ATTAAAATTAA
1 ATTAAAATTAA
11506804 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:11506816 original size:16 final size:16
Alignment explanation
Indices: 11506779--11506818 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
11506769 TTAATAAAAT
* *
11506779 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
11506795 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
11506811 TAAAATTA
1 TAAAATTA
11506819 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:11506903 original size:9 final size:9
Alignment explanation
Indices: 11506891--11506934 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
11506881 ATTATCAAAT
11506891 TATTAATTG
1 TATTAATTG
11506900 TATTAATTG
1 TATTAATTG
11506909 --TTAATTG
1 TATTAATTG
* *
11506916 AAATAATTG
1 TATTAATTG
11506925 TATTAATTG
1 TATTAATTG
11506934 T
1 T
11506935 TGTAACAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 7 0.23
9 23 0.77
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (9 bp):
TATTAATTG
Found at i:11507031 original size:68 final size:69
Alignment explanation
Indices: 11506921--11507066 Score: 267
Period size: 68 Copynumber: 2.1 Consensus size: 69
11506911 AATTGAAATA
*
11506921 ATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAATAAACTTGATGTTTTATTAT
1 ATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATGTTTTATTAT
11506986 TATT
66 TATT
11506990 -TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATGTTTTATTAT
1 ATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATGTTTTATTAT
11507054 TATT
66 TATT
*
11507058 ATTTTATTA
1 ATTGTATTA
11507067 TTATTATTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
68 67 0.91
69 7 0.09
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (69 bp):
ATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATGTTTTATTAT
TATT
Found at i:11507064 original size:14 final size:14
Alignment explanation
Indices: 11507045--11507076 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
11507035 AAACTTGATG
11507045 TTTTATTATTATTA
1 TTTTATTATTATTA
11507059 TTTTATTATTATTA
1 TTTTATTATTATTA
11507073 TTTT
1 TTTT
11507077 GTAACAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTATTATTATTA
Found at i:11507334 original size:54 final size:54
Alignment explanation
Indices: 11507271--11507420 Score: 151
Period size: 65 Copynumber: 2.6 Consensus size: 54
11507261 CAAATAAAAA
11507271 AAACTTAAAATAAAAAACAATTATAATTTAAAAATAAGGAAATGAAAGTAAATG
1 AAACTTAAAATAAAAAACAATTATAATTTAAAAATAAGGAAATGAAAGTAAATG
***
11507325 AAACTTAAAATAAAAAACTATTAGTTGGATAAATTAGTTGGCCAATAAGGAAATGAAAGTAAATG
1 AAACTTAAAATAAAAAAC-A--A-TT--AT-AA-T--TT-AAAAATAAGGAAATGAAAGTAAATG
*
11507390 AAACTT-AAATAAAAAACTATTAT-ATTTAAAA
1 AAACTTAAAATAAAAAACAATTATAATTTAAAA
11507421 TATATATTTA
Statistics
Matches: 78, Mismatches: 7, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
52 1 0.01
53 2 0.03
54 18 0.23
55 2 0.03
56 1 0.01
57 1 0.01
58 4 0.05
60 4 0.05
61 3 0.04
62 1 0.01
64 13 0.17
65 28 0.36
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.27
Consensus pattern (54 bp):
AAACTTAAAATAAAAAACAATTATAATTTAAAAATAAGGAAATGAAAGTAAATG
Found at i:11514780 original size:29 final size:30
Alignment explanation
Indices: 11514716--11514786 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 30
11514706 AAAATTTTTA
* *
11514716 AATAATTTATTT-AATTAATAATAAAAATT
1 AATATTTTATTTAAATTAATAATAAAAAGT
* *
11514745 AAT-TTTTATTTAAATT-ATAGTAAATAGT
1 AATATTTTATTTAAATTAATAATAAAAAGT
*
11514773 AATATTTTCTTTAA
1 AATATTTTATTTAA
11514787 TTTTTGTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 19 0.54
29 16 0.46
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (30 bp):
AATATTTTATTTAAATTAATAATAAAAAGT
Found at i:11520446 original size:41 final size:41
Alignment explanation
Indices: 11520376--11520550 Score: 172
Period size: 41 Copynumber: 4.3 Consensus size: 41
11520366 TTTCTATCTT
* * * *
11520376 TCAGGGCTTTAGCGGCGTTTTTAAAAAAGCGTCGCTAATAC
1 TCAGGGCTTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGC
* *
11520417 TCAGTGCTTTAGCAGCGCTTTTT-AGAAAGCGCCGCGAATGC
1 TCAGGGCTTTAGCAGCG-TTTTTAAGAAAGCGCCGCTAATGC
* * * **
11520458 TCAGGGCTTTATCAGCATTTTTGAGAAAGTACCGCTAATGC
1 TCAGGGCTTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGC
* * * * * *
11520499 TCAGGGCTTTAGCGGCATTTTTTATAAAGCGCCTCGAATGC
1 TCAGGGCTTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGC
*
11520540 TCAGGGATTTA
1 TCAGGGCTTTA
11520551 AAATAATTTA
Statistics
Matches: 111, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
40 5 0.05
41 101 0.91
42 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (41 bp):
TCAGGGCTTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGC
Found at i:11520465 original size:82 final size:82
Alignment explanation
Indices: 11520376--11520550 Score: 206
Period size: 82 Copynumber: 2.1 Consensus size: 82
11520366 TTTCTATCTT
* * ** * *
11520376 TCAGGGCTTTAGCGGCGTTTTTAAAAAAGCGTCGCTAATACTCAGTGCTTTAGCAGCGCTTTTTA
1 TCAGGGCTTTAGCAGCATTTTTAAAAAAGCACCGCTAATACTCAGGGCTTTAGCAGCACTTTTTA
11520441 GAAAGCGCCGCGAATGC
66 GAAAGCGCCGCGAATGC
* * * * * * *
11520458 TCAGGGCTTTATCAGCATTTTTGAGAAAGTACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTTA
1 TCAGGGCTTTAGCAGCATTTTTAAAAAAGCACCGCTAATACTCAGGGCTTTAGCAGCACTTTTTA
* *
11520523 TAAAGCGCCTCGAATGC
66 GAAAGCGCCGCGAATGC
*
11520540 TCAGGGATTTA
1 TCAGGGCTTTA
11520551 AAATAATTTA
Statistics
Matches: 77, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
82 77 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (82 bp):
TCAGGGCTTTAGCAGCATTTTTAAAAAAGCACCGCTAATACTCAGGGCTTTAGCAGCACTTTTTA
GAAAGCGCCGCGAATGC
Found at i:11520736 original size:7 final size:7
Alignment explanation
Indices: 11520724--11520769 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
11520714 TATCACTATA
11520724 GTTTAGG
1 GTTTAGG
11520731 GTTTAGG
1 GTTTAGG
11520738 GTTTAGG
1 GTTTAGG
* *
11520745 GTATATG
1 GTTTAGG
*
11520752 GTTTAGA
1 GTTTAGG
11520759 GTTTAAGG
1 GTTT-AGG
11520767 GTT
1 GTT
11520770 AGGTGTTACC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
7 27 0.84
8 5 0.16
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:11520807 original size:15 final size:15
Alignment explanation
Indices: 11520787--11520816 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11520777 ACCATTTTAA
*
11520787 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
11520802 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
11520817 TTTATGGCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:11520893 original size:15 final size:14
Alignment explanation
Indices: 11520833--11520913 Score: 67
Period size: 15 Copynumber: 5.6 Consensus size: 14
11520823 GCTTAAAGAC
11520833 TAGGGTTTAAGGTT
1 TAGGGTTTAAGGTT
*
11520847 TAGAGG-TTATGTGTT
1 TAG-GGTTTAAG-GTT
* *
11520862 AAGGGTTTATAGTTT
1 TAGGGTTTA-AGGTT
11520877 TAGGGTTTTAAGGTT
1 TAGGG-TTTAAGGTT
* *
11520892 TA-GATTTATGGTT
1 TAGGGTTTAAGGTT
11520905 TAGGGTTTA
1 TAGGGTTTA
11520914 GATTAACTAG
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
13 10 0.19
14 15 0.29
15 22 0.42
16 5 0.10
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (14 bp):
TAGGGTTTAAGGTT
Found at i:11521140 original size:15 final size:14
Alignment explanation
Indices: 11521116--11521158 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
11521106 AATAATTATA
11521116 TATGGATTTAGGGAT
1 TATGGATTTAGGG-T
*
11521131 TATGGTTTTAGGGT
1 TATGGATTTAGGGT
*
11521145 TAT-GATTTAAGGT
1 TATGGATTTAGGGT
11521158 T
1 T
11521159 TAGGGGTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 9 0.36
14 4 0.16
15 12 0.48
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (14 bp):
TATGGATTTAGGGT
Found at i:11521165 original size:21 final size:21
Alignment explanation
Indices: 11521137--11521206 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
11521127 GGATTATGGT
* *
11521137 TTTA-GGGTTATGATTTAAGG
1 TTTAGGGGTTAAGAGTTAAGG
* *
11521157 TTTAGGGGTTAGGAGTTAGGG
1 TTTAGGGGTTAAGAGTTAAGG
*
11521178 GTTAGGGGTTAAGAGTTAAGG
1 TTTAGGGGTTAAGAGTTAAGG
11521199 ATTTAGGG
1 -TTTAGGG
11521207 ATTTAAGGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 4 0.10
21 31 0.76
22 6 0.15
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (21 bp):
TTTAGGGGTTAAGAGTTAAGG
Found at i:11521168 original size:7 final size:7
Alignment explanation
Indices: 11521158--11521188 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
11521148 GATTTAAGGT
11521158 TTAGGGG
1 TTAGGGG
*
11521165 TTAGGAG
1 TTAGGGG
11521172 TTAGGGG
1 TTAGGGG
11521179 TTAGGGG
1 TTAGGGG
11521186 TTA
1 TTA
11521189 AGAGTTAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:11522048 original size:6 final size:6
Alignment explanation
Indices: 11522037--11522071 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
11522027 GTTCTCCCCA
11522037 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
11522072 CCAACATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCCTCT
Found at i:11525745 original size:120 final size:120
Alignment explanation
Indices: 11525607--11526019 Score: 740
Period size: 120 Copynumber: 3.4 Consensus size: 120
11525597 AATTATTTTA
* * * * *
11525607 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--ACTTTATATT
*
11525670 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
11525727 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
11525792 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
11525847 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
11525912 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
11525967 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
11526020 TAAATATGAT
Statistics
Matches: 285, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
119 4 0.01
120 279 0.98
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:11525767 original size:15 final size:15
Alignment explanation
Indices: 11525732--11525773 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11525722 TTAAGAATTT
*
11525732 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11525746 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11525760 TATTTAATAATAAT
1 TATTTAATTATAAT
11525774 TATGTTACTT
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:11525887 original size:15 final size:15
Alignment explanation
Indices: 11525852--11525893 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11525842 TTAAGAATTT
*
11525852 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11525866 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11525880 TATTTAATAATAAT
1 TATTTAATTATAAT
11525894 TATGTTACTT
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:11526002 original size:16 final size:16
Alignment explanation
Indices: 11525981--11526022 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11525971 TTATTAAATT
*
11525981 ATATATTTTAATTATA
1 ATATATTTTAATAATA
11525997 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
11526012 AT-TATGTTTAA
1 ATATAT-TTTAA
11526023 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:11526007 original size:15 final size:15
Alignment explanation
Indices: 11525972--11526013 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11525962 TTAAGAATTT
*
11525972 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11525986 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11526000 TATTTAATAATAAT
1 TATTTAATTATAAT
11526014 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:11526160 original size:157 final size:157
Alignment explanation
Indices: 11525956--11526272 Score: 546
Period size: 157 Copynumber: 2.0 Consensus size: 157
11525946 ATAAGAATAT
*
11525956 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
11526021 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
11526086 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
*
11526113 TAATTA-TAAGAATTTTATTAAATTATATGTTATTAATTAAAATATATTTAATAATAATTATGTT
1 TAATTATTAAGAATTTTATTAAATTATATATT-TTAATTAAAATATATTTAATAATAATTATGTT
11526177 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
65 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
* *
11526242 ATAATCATTTACCAAAACAATTTTATGC
130 ATAATAATTTACCAAAACAAATTTATGC
11526270 TAA
1 TAA
11526273 GGGTATTCTA
Statistics
Matches: 151, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
156 24 0.16
157 127 0.84
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:11526389 original size:44 final size:45
Alignment explanation
Indices: 11526324--11526414 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
11526314 ACCTCTATTC
* * *
11526324 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
11526368 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
11526413 CA
1 CA
11526415 CCTCTAATCT
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:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:11526416 original size:16 final size:16
Alignment explanation
Indices: 11526395--11526463 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
11526385 GATTAGCTAT
11526395 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11526411 TACACCTCTAATCTCAA
1 TACACCTCTAATC-CAA
11526428 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11526444 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11526460 TACA
1 TACA
11526464 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11526437 original size:33 final size:32
Alignment explanation
Indices: 11526395--11526463 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
11526385 GATTAGCTAT
11526395 TACACCTCTAATCCAATACACCTCTAATCTCAA
1 TACACCTCTAATCCAATACACCTCTAATC-CAA
11526428 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
11526460 TACA
1 TACA
11526464 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 7 0.19
33 29 0.81
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:11537634 original size:21 final size:21
Alignment explanation
Indices: 11537610--11537662 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
11537600 CATTGTTTCT
*
11537610 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
11537631 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
11537652 AATCTCACCGC
1 AATCTCACCGC
11537663 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:11543589 original size:42 final size:42
Alignment explanation
Indices: 11543449--11543633 Score: 191
Period size: 41 Copynumber: 4.5 Consensus size: 42
11543439 TTTAAACAGA
* * * *
11543449 TTCACTGGCACTT-AGCCTGCTAGACTTAAAGCCTG--ATTCAG
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGAAATT-AT
* * * *
11543490 TACACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAA-TGT
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGAAATTAT
11543531 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTAT
* *
11543573 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTAT
* * *
11543615 TTCACTGGCAATAAACCTG
1 TTCACCGGCATTAAGCCTG
11543634 ATAGGCACTG
Statistics
Matches: 124, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 2 0.02
41 62 0.50
42 59 0.48
43 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (42 bp):
TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTAT
Found at i:11547619 original size:43 final size:43
Alignment explanation
Indices: 11547558--11547653 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 43
11547548 TTTTTAATAA
* * *
11547558 TTGGTAAAGCGCCGCTAAAGGTCATGTTTTTTAGCGACGTTTG
1 TTGGTAAAGCACCGCTAAAGCTCATGTTCTTTAGCGACGTTTG
* *
11547601 TTGGTAAAGTACCGCTAAAGCTCATGTTCTTTAGCGGCGTTTG
1 TTGGTAAAGCACCGCTAAAGCTCATGTTCTTTAGCGACGTTTG
*
11547644 -TGGAAAAGCA
1 TTGGTAAAGCA
11547654 TGTTCTTTAG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 8 0.17
43 38 0.83
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TTGGTAAAGCACCGCTAAAGCTCATGTTCTTTAGCGACGTTTG
Found at i:11550142 original size:30 final size:30
Alignment explanation
Indices: 11550108--11550176 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
11550098 AATCTATATC
* * *
11550108 TTTATTATTTTTATAAAATTAAATTAAATT
1 TTTATTATTTTTAAAAAATTAAAATAAAAT
*
11550138 TTTA-TCTTTTTAAAAAATTAAAATAAAAT
1 TTTATTATTTTTAAAAAATTAAAATAAAAT
*
11550167 TTTATGATTT
1 TTTATTATTT
11550177 CTAATTTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 25 0.78
30 7 0.22
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (30 bp):
TTTATTATTTTTAAAAAATTAAAATAAAAT
Found at i:11550148 original size:29 final size:29
Alignment explanation
Indices: 11550115--11550171 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
11550105 ATCTTTATTA
* * *
11550115 TTTTTATAAAATTAAATTAAATTTTTATC
1 TTTTTAAAAAATTAAAATAAAATTTTATC
11550144 TTTTTAAAAAATTAAAATAAAATTTTAT
1 TTTTTAAAAAATTAAAATAAAATTTTAT
11550172 GATTTCTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTTTAAAAAATTAAAATAAAATTTTATC
Found at i:11554469 original size:28 final size:28
Alignment explanation
Indices: 11554429--11554486 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
11554419 GTAATCATCT
11554429 CATCCAGAGTTACTAAATATATTTGAGA
1 CATCCAGAGTTACTAAATATATTTGAGA
11554457 CATCCAGAGTTACTAAATATATTTGAGA
1 CATCCAGAGTTACTAAATATATTTGAGA
11554485 CA
1 CA
11554487 GGGGTGAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (28 bp):
CATCCAGAGTTACTAAATATATTTGAGA
Found at i:11554666 original size:32 final size:31
Alignment explanation
Indices: 11554630--11554698 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
11554620 ACTAATTTAA
*
11554630 AATTTTAAAATTTTTTAAAAGGCCTAAATAGT-
1 AATTTT-AAATTCTTTAAAAGGCCTAAATA-TC
** *
11554662 AATTTTCCATTCTTTAAAGGGCCTAAATATC
1 AATTTTAAATTCTTTAAAAGGCCTAAATATC
11554693 AATTTT
1 AATTTT
11554699 CTATTTTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 1 0.03
31 25 0.78
32 6 0.19
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.42
Consensus pattern (31 bp):
AATTTTAAATTCTTTAAAAGGCCTAAATATC
Found at i:11556601 original size:31 final size:30
Alignment explanation
Indices: 11556561--11556619 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
11556551 GTTAATTTGA
*
11556561 TCAAATTTAATCTCTATATTCTTTGAATTGG
1 TCAAATTTAATCCCTATATT-TTTGAATTGG
* *
11556592 TCAAGTTTAATCCCTATATTTTTTAATT
1 TCAAATTTAATCCCTATATTTTTGAATT
11556620 TTTAAAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.51
Consensus pattern (30 bp):
TCAAATTTAATCCCTATATTTTTGAATTGG
Found at i:11556919 original size:9 final size:9
Alignment explanation
Indices: 11556905--11556932 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
11556895 AAAATAACAT
11556905 AACTTAATA
1 AACTTAATA
11556914 AACTTAATA
1 AACTTAATA
11556923 AACTTAATA
1 AACTTAATA
11556932 A
1 A
11556933 CTAACATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
AACTTAATA
Found at i:11575082 original size:38 final size:38
Alignment explanation
Indices: 11575031--11575104 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
11575021 ACTCTCCCTC
11575031 ATGAAATGAAAGTATTACATGCTTTCTCATATTCTAAG
1 ATGAAATGAAAGTATTACATGCTTTCTCATATTCTAAG
11575069 ATGAAATGAAAGTATTACATGCTTTCTCATATTCTA
1 ATGAAATGAAAGTATTACATGCTTTCTCATATTCTA
11575105 CGTATTCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (38 bp):
ATGAAATGAAAGTATTACATGCTTTCTCATATTCTAAG
Found at i:11576921 original size:21 final size:22
Alignment explanation
Indices: 11576885--11576926 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
11576875 CTCCAAAACA
*
11576885 AGGGAAAATGGGTTA-CATTTT
1 AGGGAAAATGGCTTACCATTTT
*
11576906 AGGGAAAATGTCTTACCATTT
1 AGGGAAAATGGCTTACCATTT
11576927 CAATTTCCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (22 bp):
AGGGAAAATGGCTTACCATTTT
Found at i:11577328 original size:14 final size:14
Alignment explanation
Indices: 11577305--11577344 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
11577295 ACAAAAAAGT
*
11577305 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
11577319 AAATCATTTTACGG
1 AAAACATTTTACAG
11577333 AAAACATTTTAC
1 AAAACATTTTAC
11577345 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:11579928 original size:20 final size:21
Alignment explanation
Indices: 11579903--11579945 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
11579893 CACATTAGTG
11579903 AACAAATATGAATAT-AAATA
1 AACAAATATGAATATGAAATA
**
11579923 AACAAATATTTATATGAAATA
1 AACAAATATGAATATGAAATA
11579944 AA
1 AA
11579946 ATAAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (21 bp):
AACAAATATGAATATGAAATA
Found at i:11579954 original size:22 final size:20
Alignment explanation
Indices: 11579903--11579959 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 20
11579893 CACATTAGTG
**
11579903 AACAAATATGAATATAAATA
1 AACAAATATTTATATAAATA
11579923 AACAAATATTTATATGAAATAA
1 AACAAATATTTATAT-AAAT-A
*
11579945 AATAAATATTTATAT
1 AACAAATATTTATAT
11579960 TTAAAATATC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 13 0.41
21 4 0.12
22 15 0.47
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (20 bp):
AACAAATATTTATATAAATA
Found at i:11580407 original size:20 final size:20
Alignment explanation
Indices: 11580384--11580424 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11580374 TTAAATCAAT
*
11580384 TTGATTAAAATCAAATAAAA
1 TTGATTAAAATAAAATAAAA
**
11580404 TTGATTGGAATAAAATAAAA
1 TTGATTAAAATAAAATAAAA
11580424 T
1 T
11580425 CAAATAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
TTGATTAAAATAAAATAAAA
Found at i:11580425 original size:30 final size:30
Alignment explanation
Indices: 11580389--11580456 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
11580379 TCAATTTGAT
*
11580389 TAAAATCAAATAAAATTGATTGGAATAAAA
1 TAAAATCAAATAAAATAGATTGGAATAAAA
*
11580419 TAAAATCAAATAAAATAGATTGGAATCAAA
1 TAAAATCAAATAAAATAGATTGGAATAAAA
11580449 TAAAATCA
1 TAAAATCA
11580457 GGATACATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.60, C:0.06, G:0.09, T:0.25
Consensus pattern (30 bp):
TAAAATCAAATAAAATAGATTGGAATAAAA
Found at i:11580435 original size:20 final size:20
Alignment explanation
Indices: 11580412--11580454 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
11580402 AATTGATTGG
11580412 AATAAAATAAAATCAAATAA
1 AATAAAATAAAATCAAATAA
* * **
11580432 AATAGATTGGAATCAAATAA
1 AATAAAATAAAATCAAATAA
11580452 AAT
1 AAT
11580455 CAGGATACAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (20 bp):
AATAAAATAAAATCAAATAA
Found at i:11587357 original size:32 final size:32
Alignment explanation
Indices: 11587320--11587385 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
11587310 TTAAAATAGA
11587320 GGGACTAAGCTTTCAATTTTTGTAAAGTAAAT
1 GGGACTAAGCTTTCAATTTTTGTAAAGTAAAT
11587352 GGGACTAAGCTTTCAATTTTTGTAAAGTAAAT
1 GGGACTAAGCTTTCAATTTTTGTAAAGTAAAT
11587384 GG
1 GG
11587386 ATAAAATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.36
Consensus pattern (32 bp):
GGGACTAAGCTTTCAATTTTTGTAAAGTAAAT
Found at i:11603160 original size:11 final size:11
Alignment explanation
Indices: 11603144--11603168 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11603134 TCAATCTCTA
11603144 TTTATGGTCAC
1 TTTATGGTCAC
11603155 TTTATGGTCAC
1 TTTATGGTCAC
11603166 TTT
1 TTT
11603169 GCATAATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTATGGTCAC
Found at i:11615246 original size:13 final size:14
Alignment explanation
Indices: 11615218--11615254 Score: 58
Period size: 13 Copynumber: 2.6 Consensus size: 14
11615208 TAATATTTAC
11615218 TTATTTTTTATTAAT
1 TTATTTTTTA-TAAT
11615233 TTATTTTTTA-AAT
1 TTATTTTTTATAAT
11615246 TTATTTTTT
1 TTATTTTTT
11615255 TATTTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 12 0.55
15 10 0.45
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATTTTTTATAAT
Found at i:11615255 original size:15 final size:14
Alignment explanation
Indices: 11615218--11615255 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
11615208 TAATATTTAC
11615218 TTATTTTTTATTAAT
1 TTATTTTTT-TTAAT
*
11615233 TTA-TTTTTTAAAT
1 TTATTTTTTTTAAT
11615246 TTATTTTTTT
1 TTATTTTTTT
11615256 ATTTTGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 7 0.33
14 11 0.52
15 3 0.14
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATTTTTTTTAAT
Found at i:11616415 original size:23 final size:23
Alignment explanation
Indices: 11616366--11616415 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
11616356 ATAATAGTGT
* * *
11616366 ATAAAATAATTAATGTATTTAAT
1 ATAAAATAATTAATGCATTCAAA
*
11616389 ATAAAATACTTAATGCATTCAAA
1 ATAAAATAATTAATGCATTCAAA
11616412 ATAA
1 ATAA
11616416 TACTTATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (23 bp):
ATAAAATAATTAATGCATTCAAA
Found at i:11623951 original size:21 final size:21
Alignment explanation
Indices: 11623898--11623952 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
11623888 ACCGCTGTTT
* * *
11623898 CTAATCTCACTGCTACAGTAC
1 CTAATTTCACCGCTACAGTAA
*
11623919 CCAATCTT-ACCGCTACAGTAA
1 CTAAT-TTCACCGCTACAGTAA
11623940 CTAATTTCACCGC
1 CTAATTTCACCGC
11623953 CACCGCTGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.29, C:0.35, G:0.09, T:0.27
Consensus pattern (21 bp):
CTAATTTCACCGCTACAGTAA
Found at i:11625043 original size:3 final size:3
Alignment explanation
Indices: 11625035--11625067 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
11625025 AACAAAGGTA
11625035 GCG GCG GCG GCG GCG GCG GCG GCG GCG GCG GCG
1 GCG GCG GCG GCG GCG GCG GCG GCG GCG GCG GCG
11625068 TAGGTGAGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.67, T:0.00
Consensus pattern (3 bp):
GCG
Found at i:11625858 original size:13 final size:13
Alignment explanation
Indices: 11625840--11625864 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11625830 ATTTCATGAG
11625840 GTGAAAAGAAAAC
1 GTGAAAAGAAAAC
11625853 GTGAAAAGAAAA
1 GTGAAAAGAAAA
11625865 AGGAGGCAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.24, T:0.08
Consensus pattern (13 bp):
GTGAAAAGAAAAC
Found at i:11632609 original size:2 final size:2
Alignment explanation
Indices: 11632602--11632630 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11632592 AAAGACATAG
11632602 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
11632631 TTGACATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:11633200 original size:25 final size:25
Alignment explanation
Indices: 11633166--11633216 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
11633156 GACAAGACAA
11633166 CATAGGATGTTTGTTTTACTACGTT
1 CATAGGATGTTTGTTTTACTACGTT
*
11633191 CATAGGATGTTTGTTTTAGTACGTT
1 CATAGGATGTTTGTTTTACTACGTT
11633216 C
1 C
11633217 TTTCTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.22, T:0.47
Consensus pattern (25 bp):
CATAGGATGTTTGTTTTACTACGTT
Found at i:11635567 original size:2 final size:2
Alignment explanation
Indices: 11635560--11635584 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11635550 AGGGCATGCT
11635560 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
11635585 GTAAGATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11635719 original size:21 final size:18
Alignment explanation
Indices: 11635693--11635731 Score: 51
Period size: 21 Copynumber: 2.0 Consensus size: 18
11635683 TTTGCCTGGG
11635693 CCCAAAACTAAATAAATAAAA
1 CCCAAAA-TAAA-AAA-AAAA
11635714 CCCAAAATAAAAAAAAAA
1 CCCAAAATAAAAAAAAAA
11635732 TAAACATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 4 0.22
21 7 0.39
ACGTcount: A:0.72, C:0.18, G:0.00, T:0.10
Consensus pattern (18 bp):
CCCAAAATAAAAAAAAAA
Found at i:11637038 original size:16 final size:16
Alignment explanation
Indices: 11637019--11637052 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11637009 TTTTTAACAG
* *
11637019 TTTTATATTTTATTTA
1 TTTTAAATTTTATATA
11637035 TTTTAAATTTTATATA
1 TTTTAAATTTTATATA
11637051 TT
1 TT
11637053 ATTTATATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTAAATTTTATATA
Found at i:11637128 original size:26 final size:26
Alignment explanation
Indices: 11636997--11637365 Score: 194
Period size: 26 Copynumber: 14.6 Consensus size: 26
11636987 AATTTCTTTA
* *
11636997 TATATATTA-TTATTTTTAACAGTTT
1 TATATATTATTTATTTTAAACTGTTT
*
11637022 TATATTTTATTTATTTTAAA---TTT
1 TATATATTATTTATTTTAAACTGTTT
* * *
11637045 TATATATTATTTATATTATACT-ATT
1 TATATATTATTTATTTTAAACTGTTT
** * *
11637070 T-GGTATTATTTATTTCAAATTGTTT
1 TATATATTATTTATTTTAAACTGTTT
* ** * *
11637095 CACGTATTATTTATTTTGAACTGCTT
1 TATATATTATTTATTTTAAACTGTTT
* *
11637121 TATATATTATTTTTATCTTAAACTGTTA
1 TATATATTA--TTTATTTTAAACTGTTT
* * *
11637149 TATAT-TTATTTATTTTAGATTTTTT
1 TATATATTATTTATTTTAAACTGTTT
* * *
11637174 TACATATTATTTCTTTTAAACTATTT
1 TATATATTATTTATTTTAAACTGTTT
* * * * *
11637200 TATGTAATGTTTATTTTAAATTGCTT
1 TATATATTATTTATTTTAAACTGTTT
* *
11637226 TA-A-ATTATTTATTTCAAACTATTT
1 TATATATTATTTATTTTAAACTGTTT
* * * *
11637250 TATATTTTATTTATGTT-AATTTTTT
1 TATATATTATTTATTTTAAACTGTTT
* * * *
11637275 TACAT-TTTTTTATTTTGAACCTTTTT
1 TATATATTATTTATTTT-AAACTGTTT
*
11637301 TTTATATTATTTATTTTAAA---TTT
1 TATATATTATTTATTTTAAACTGTTT
* * *
11637324 T-T-TATTATTTACTTTAAATTTTTTT
1 TATATATTATTTATTTTAAA-CTGTTT
*
11637349 TGTATATTATTTTATTT
1 TATATATTA-TTTATTT
11637366 CATTTGTCTT
Statistics
Matches: 257, Mismatches: 67, Indels: 37
0.71 0.19 0.10
Matches are distributed among these distances:
21 15 0.06
22 1 0.00
23 24 0.09
24 40 0.16
25 44 0.17
26 91 0.35
27 18 0.07
28 24 0.09
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (26 bp):
TATATATTATTTATTTTAAACTGTTT
Found at i:11637263 original size:50 final size:52
Alignment explanation
Indices: 11637073--11637322 Score: 179
Period size: 50 Copynumber: 4.8 Consensus size: 52
11637063 TACTATTTGG
* * * ** * * *
11637073 TATTATTTATTTCAAATTGTTTCACGTATTATTTATTTTGAACTGCTTTATA
1 TATTATTTATTTCAAACTATTTTATATATTATTTATTTTAAATTGCTTTACA
* * * **
11637125 TATTATTT-TTATCTTAAACTGTTATATAT-TTATTTATTTTAGATTTTTTTACA
1 TATTATTTATT-TC--AAACTATTTTATATATTATTTATTTTAAATTGCTTTACA
* * * * *
11637178 TATTATTTCTTTTAAACTATTTTATGTAATGTTTATTTTAAATTGCTTTA-A
1 TATTATTTATTTCAAACTATTTTATATATTATTTATTTTAAATTGCTTTACA
* * **
11637229 -ATTATTTATTTCAAACTATTTTATATTTTATTTATGTT-AATTTTTTTACA
1 TATTATTTATTTCAAACTATTTTATATATTATTTATTTTAAATTGCTTTACA
* * * * *
11637279 T-TTTTTTATTTTGAACCTTTTTTTTATATTATTTATTTTAAATT
1 TATTATTTA-TTTCAAACTATTTTATATATTATTTATTTTAAATT
11637323 TTTTATTATT
Statistics
Matches: 153, Mismatches: 36, Indels: 18
0.74 0.17 0.09
Matches are distributed among these distances:
49 8 0.05
50 38 0.25
51 38 0.25
52 31 0.20
53 27 0.18
54 11 0.07
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (52 bp):
TATTATTTATTTCAAACTATTTTATATATTATTTATTTTAAATTGCTTTACA
Found at i:11637314 original size:101 final size:104
Alignment explanation
Indices: 11637099--11637322 Score: 253
Period size: 101 Copynumber: 2.2 Consensus size: 104
11637089 TTGTTTCACG
* * * *
11637099 TATTATTTATTTTGAACTGCTTTATATATTATTTTTATCTTAAACTGTTATATATTTATTTATTT
1 TATTATTTATTTTAAATTGCTTTATATATTATTTTTATC-TAAACTATTATATATTTATTTATGT
* *
11637164 TAGATTTTTTTACATATTATTTCTTTTAAACTATTTTATG
65 TAGATTTTTTTACATATTATTTATTTTAAACTATTTTATA
* * *
11637204 TAATGTTTATTTTAAATTGCTTTA-A-ATTATTTATT-TC-AAACTATTTTATATTTTATTTATG
1 TATTATTTATTTTAAATTGCTTTATATATTATTT-TTATCTAAACTATTATATA-TTTATTTATG
* * * *
11637265 TTA-ATTTTTTTACAT-TTTTTTATTTTGAACCTTTTTTTTA
64 TTAGATTTTTTTACATATTATTTATTTT-AAACTATTTTATA
11637305 TATTATTTATTTTAAATT
1 TATTATTTATTTTAAATT
11637323 TTTTATTATT
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
100 9 0.09
101 48 0.48
102 12 0.12
103 9 0.09
104 3 0.03
105 20 0.20
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (104 bp):
TATTATTTATTTTAAATTGCTTTATATATTATTTTTATCTAAACTATTATATATTTATTTATGTT
AGATTTTTTTACATATTATTTATTTTAAACTATTTTATA
Found at i:11637329 original size:21 final size:21
Alignment explanation
Indices: 11637299--11637362 Score: 83
Period size: 21 Copynumber: 2.9 Consensus size: 21
11637289 TTGAACCTTT
11637299 TTTTTATATTATTTATTTTAAA
1 TTTTT-TATTATTTATTTTAAA
*
11637321 TTTTTTATTATTTACTTTAAA
1 TTTTTTATTATTTATTTTAAA
*
11637342 TTTTTTTTGTATATTATTTTA
1 TTTTTTAT-TAT-TTATTTTA
11637363 TTTCATTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 22 0.59
22 8 0.22
23 7 0.19
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTTTATTATTTATTTTAAA
Found at i:11639668 original size:21 final size:21
Alignment explanation
Indices: 11639638--11639688 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 21
11639628 AAAAAGAAAA
11639638 TAAAAAATGG-AAAATTAAAT
1 TAAAAAATGGCAAAATTAAAT
* *
11639658 TAAAAAGATGGTCACAATTATAT
1 TAAAAA-ATGG-CAAAATTAAAT
11639681 TAAAAAAT
1 TAAAAAAT
11639689 AAAAATGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 6 0.23
21 4 0.15
22 2 0.08
23 14 0.54
ACGTcount: A:0.59, C:0.04, G:0.10, T:0.27
Consensus pattern (21 bp):
TAAAAAATGGCAAAATTAAAT
Found at i:11640100 original size:16 final size:16
Alignment explanation
Indices: 11640079--11640114 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11640069 TGAATTATTA
11640079 ATTACAATTCTATTCC
1 ATTACAATTCTATTCC
* *
11640095 ATTACAGTTCTATTTC
1 ATTACAATTCTATTCC
11640111 ATTA
1 ATTA
11640115 ACATCAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.19, G:0.03, T:0.47
Consensus pattern (16 bp):
ATTACAATTCTATTCC
Found at i:11642369 original size:19 final size:19
Alignment explanation
Indices: 11642345--11642396 Score: 77
Period size: 21 Copynumber: 2.6 Consensus size: 19
11642335 AATCATATCT
11642345 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
11642364 TCTAAGATTTCATATATCATA
1 TCTAAGATTGC--ATATCATA
11642385 TCTAAGATTGCA
1 TCTAAGATTGCA
11642397 CATCCTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 11 0.38
21 18 0.62
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11646605 original size:44 final size:45
Alignment explanation
Indices: 11646543--11646638 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 45
11646533 TCGTATATTC
* * *
11646543 TTTGA-TTCAGTATTTAAACATGTAATAACTGGTG-AAGCCAATG
1 TTTGAGTTCAGTATTTAAACAAGTAAGAACTGGTGAAAGCCAATA
* *
11646586 TTTGAGTTCTGTATTTAAACAAGTAAGAACTGGTGAAAGGCAATA
1 TTTGAGTTCAGTATTTAAACAAGTAAGAACTGGTGAAAGCCAATA
11646631 TTTGAGTT
1 TTTGAGTT
11646639 GAGAGAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 5 0.11
44 26 0.57
45 15 0.33
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.35
Consensus pattern (45 bp):
TTTGAGTTCAGTATTTAAACAAGTAAGAACTGGTGAAAGCCAATA
Found at i:11649607 original size:15 final size:15
Alignment explanation
Indices: 11649587--11649616 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11649577 ATAGCTTATA
11649587 GTACAAGTTAAATTT
1 GTACAAGTTAAATTT
*
11649602 GTACAATTTAAATTT
1 GTACAAGTTAAATTT
11649617 ATTTAATACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (15 bp):
GTACAAGTTAAATTT
Found at i:11656240 original size:511 final size:511
Alignment explanation
Indices: 11655279--11656302 Score: 1913
Period size: 511 Copynumber: 2.0 Consensus size: 511
11655269 AATTTGGGTA
*
11655279 ATGAAGTATGATTCTGGGATTTCATAATGAGAGCTTTCTAACAAAGCTGTGACCCCACTGCATAA
1 ATGAAGTATGATTCCGGGATTTCATAATGAGAGCTTTCTAACAAAGCTGTGACCCCACTGCATAA
* *
11655344 CTGTGTGGTTGGACTTCCAGCTTCTTATTCTGTTCTAGCATGAATGAGAACAACTTTTAACCTCC
66 CTATGTGGTTGGACTTCCAGCTTCTTATTCTGTTCTAGCATGAATGAGAAAAACTTTTAACCTCC
*
11655409 AAGCACCTTCATCGATGTCGATAAACTCGGTATATAACTCAAGTATAGGTGGTTCAGTAGCATTA
131 AAGCACCTTCATCGACGTCGATAAACTCGGTATATAACTCAAGTATAGGTGGTTCAGTAGCATTA
*
11655474 TGCGTCTAGACCATTACACCGATCACTATTGGGCTTATAACATTAAATATTTCATCTTTTACGGG
196 TGCGTCTAGACCATTACACCGATCACTATTGGGCCTATAACATTAAATATTTCATCTTTTACGGG
11655539 GTTCTCTGACGCTAAATATCTATACTTCAACGACTATATTCTGTGGCTTGAATTGCGCATTTTCC
261 GTTCTCTGACGCTAAATATCTATACTTCAACGACTATATTCTGTGGCTTGAATTGCGCATTTTCC
* *
11655604 ACCTAATTCTTGATCGGAGCTCCGACAATTGAATGTTCGGGTTGAAAGCCAATTACGTTGTGTAG
326 ACCTAATTCTTGATCGGAGCTCCGACAATTGAATGTCCGGGTTGAAAGCCAATTACGTTATGTAG
* * *
11655669 GTTGATGAAAAAATGAACTTGATGTTGGTGTCATGAATTTCATCGTCGTAATAAACAATAGCATT
391 GCTGATGAAAAAATGAACTCGATATTGGTGTCATGAATTTCATCGTCGTAATAAACAATAGCATT
11655734 AACTCATCCACTCATTTTCATCCAAATATCCTGTTTCACATGTTTAAAACCAAAAC
456 AACTCATCCACTCATTTTCATCCAAATATCCTGTTTCACATGTTTAAAACCAAAAC
11655790 ATGAAGTATGATTCCGGGATTTCATAATGAGAGCTTTCTAACAAAGCTGTGACCCCACTGCATAA
1 ATGAAGTATGATTCCGGGATTTCATAATGAGAGCTTTCTAACAAAGCTGTGACCCCACTGCATAA
*
11655855 CTATGTGGTTGGACTTCCAGCTTCTTATTCTGTTCTAGCATGAATGAGAAAAATTTTTAACCTCC
66 CTATGTGGTTGGACTTCCAGCTTCTTATTCTGTTCTAGCATGAATGAGAAAAACTTTTAACCTCC
*
11655920 AAGCACCTTCATCGACGTTGATAAACTCGGTATATAACTCAAGTATAGGTGGTTCAGTAGCATTA
131 AAGCACCTTCATCGACGTCGATAAACTCGGTATATAACTCAAGTATAGGTGGTTCAGTAGCATTA
* *
11655985 TGCGTCTAGACCATTACACCGATCGCTATTGGGCCTATGACATTAAATATTTCATCTTTTACGGG
196 TGCGTCTAGACCATTACACCGATCACTATTGGGCCTATAACATTAAATATTTCATCTTTTACGGG
*
11656050 GTTCTCTGACGCTAAATATCTATACTTCAACGACTATATTCTGTGGCTTGAATTGCTCATTTTCC
261 GTTCTCTGACGCTAAATATCTATACTTCAACGACTATATTCTGTGGCTTGAATTGCGCATTTTCC
11656115 ACCTAATTCTTGATCGGAGCTCCGACAATTGAATGTCCGGGTTGAAAGCCAATTACGTTATGTAG
326 ACCTAATTCTTGATCGGAGCTCCGACAATTGAATGTCCGGGTTGAAAGCCAATTACGTTATGTAG
11656180 GCTGATGAAAAAATGAACTCGATATTGGTGTCATGAATTTCATCGTCGTAATAAACAATAGCATT
391 GCTGATGAAAAAATGAACTCGATATTGGTGTCATGAATTTCATCGTCGTAATAAACAATAGCATT
11656245 AACTCATCCACTCATTTTCATCCAAATATCCTGTTTCACATGTTTAAAACCAAAAC
456 AACTCATCCACTCATTTTCATCCAAATATCCTGTTTCACATGTTTAAAACCAAAAC
11656301 AT
1 AT
11656303 TATGTAGAAA
Statistics
Matches: 498, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
511 498 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (511 bp):
ATGAAGTATGATTCCGGGATTTCATAATGAGAGCTTTCTAACAAAGCTGTGACCCCACTGCATAA
CTATGTGGTTGGACTTCCAGCTTCTTATTCTGTTCTAGCATGAATGAGAAAAACTTTTAACCTCC
AAGCACCTTCATCGACGTCGATAAACTCGGTATATAACTCAAGTATAGGTGGTTCAGTAGCATTA
TGCGTCTAGACCATTACACCGATCACTATTGGGCCTATAACATTAAATATTTCATCTTTTACGGG
GTTCTCTGACGCTAAATATCTATACTTCAACGACTATATTCTGTGGCTTGAATTGCGCATTTTCC
ACCTAATTCTTGATCGGAGCTCCGACAATTGAATGTCCGGGTTGAAAGCCAATTACGTTATGTAG
GCTGATGAAAAAATGAACTCGATATTGGTGTCATGAATTTCATCGTCGTAATAAACAATAGCATT
AACTCATCCACTCATTTTCATCCAAATATCCTGTTTCACATGTTTAAAACCAAAAC
Found at i:11676282 original size:6 final size:6
Alignment explanation
Indices: 11676273--11676314 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
11676263 TTATTTTTTA
* *
11676273 AAATAT AAATAT AAAT-T TAATTT AAAATAT AAATAT AAATAT
1 AAATAT AAATAT AAATAT AAATAT -AAATAT AAATAT AAATAT
11676315 TTATGTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
5 4 0.13
6 23 0.74
7 4 0.13
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
AAATAT
Found at i:11687161 original size:35 final size:35
Alignment explanation
Indices: 11687115--11687181 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
11687105 TAATTGACAG
11687115 ATTAACATAAAGACTGAAAGAAAGAAATAAAATCA
1 ATTAACATAAAGACTGAAAGAAAGAAATAAAATCA
11687150 ATTAACATAAAGACTGAAAGAAAGAAATAAAA
1 ATTAACATAAAGACTGAAAGAAAGAAATAAAA
11687182 GAATGAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.64, C:0.07, G:0.12, T:0.16
Consensus pattern (35 bp):
ATTAACATAAAGACTGAAAGAAAGAAATAAAATCA
Found at i:11691086 original size:6 final size:6
Alignment explanation
Indices: 11691075--11691099 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11691065 TCCCATGTTC
11691075 CATGTG CATGTG CATGTG CATGTG C
1 CATGTG CATGTG CATGTG CATGTG C
11691100 TGTCTGACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.20, G:0.32, T:0.32
Consensus pattern (6 bp):
CATGTG
Found at i:11691557 original size:23 final size:23
Alignment explanation
Indices: 11691527--11691581 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
11691517 TGATCAAGTT
11691527 ATTGGTTCATCTCGTCCAATTCA
1 ATTGGTTCATCTCGTCCAATTCA
11691550 ATTGGTTCATCTCGTCCAATTCA
1 ATTGGTTCATCTCGTCCAATTCA
*
11691573 ATTAGTTCA
1 ATTGGTTCA
11691582 ATCGATTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.40
Consensus pattern (23 bp):
ATTGGTTCATCTCGTCCAATTCA
Found at i:11703043 original size:21 final size:21
Alignment explanation
Indices: 11703005--11703051 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
11702995 TTCTTTTCAT
*
11703005 AATTT-AAGCTTAATTTCTATC
1 AATTTCAAGCCTAATTTCT-TC
*
11703026 AATTTCAAGCCTAA-TTCTTT
1 AATTTCAAGCCTAATTTCTTC
11703046 AATTTC
1 AATTTC
11703052 TCAACAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 7 0.30
21 9 0.39
22 7 0.30
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.47
Consensus pattern (21 bp):
AATTTCAAGCCTAATTTCTTC
Found at i:11716886 original size:12 final size:13
Alignment explanation
Indices: 11716859--11716888 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11716849 TATTTCATAG
*
11716859 AAAATAACTTTAA
1 AAAAGAACTTTAA
11716872 AAAAGAACTTTAA
1 AAAAGAACTTTAA
11716885 AAAA
1 AAAA
11716889 TTGAGCTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.23
Consensus pattern (13 bp):
AAAAGAACTTTAA
Found at i:11717306 original size:13 final size:13
Alignment explanation
Indices: 11717277--11717315 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
11717267 TTACAATTTA
11717277 TTTATTAAA-AAT
1 TTTATTAAATAAT
*
11717289 ATTATTAAATAAT
1 TTTATTAAATAAT
11717302 TTTATTAAAATAAT
1 TTTATT-AAATAAT
11717316 AAATTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 8 0.35
13 8 0.35
14 7 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TTTATTAAATAAT
Found at i:11719434 original size:17 final size:18
Alignment explanation
Indices: 11719400--11719436 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
11719390 TTAACTATTA
11719400 ATTATTATATTTAATTTT
1 ATTATTATATTTAATTTT
*
11719418 ATTATTA-ATTTATTTTT
1 ATTATTATATTTAATTTT
11719435 AT
1 AT
11719437 AAATTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTATTATATTTAATTTT
Found at i:11719442 original size:21 final size:22
Alignment explanation
Indices: 11719418--11719468 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
11719408 ATTTAATTTT
11719418 ATTATTAATTT-ATTTTTATAA
1 ATTATTAATTTAATTTTTATAA
*
11719439 ATTATT-TTTTAATTTTTATAA
1 ATTATTAATTTAATTTTTATAA
11719460 ATTA-TAATT
1 ATTATTAATT
11719469 AAGGTTCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTATTAATTTAATTTTTATAA
Found at i:11723087 original size:3 final size:3
Alignment explanation
Indices: 11723074--11723118 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
11723064 TATACCATAG
* *
11723074 AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11723119 GATGATGGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11728005 original size:18 final size:17
Alignment explanation
Indices: 11727982--11728021 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
11727972 TTTCCAAAAA
*
11727982 AAAATCAAAATAATTTTT
1 AAAATCAAAAT-ATTTAT
*
11728000 AAAATCCAAATATTTAT
1 AAAATCAAAATATTTAT
11728017 AAAAT
1 AAAAT
11728022 TTCCAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATCAAAATATTTAT
Found at i:11729186 original size:6 final size:6
Alignment explanation
Indices: 11729171--11729201 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
11729161 AATAAATAAT
11729171 ATTT-A ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT
11729202 AAATTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:11732955 original size:27 final size:27
Alignment explanation
Indices: 11732925--11732988 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
11732915 TTTTTTATTA
11732925 GCGGCACCAAAGGTGCC-TAACTGATTG
1 GCGGCACCAAAGGTGCCAT-ACTGATTG
* * *
11732952 GCGGCACCGATGGTGCCATACTGGTTG
1 GCGGCACCAAAGGTGCCATACTGATTG
11732979 GCGGCACCAA
1 GCGGCACCAA
11732989 CCTTATAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.28, G:0.33, T:0.17
Consensus pattern (27 bp):
GCGGCACCAAAGGTGCCATACTGATTG
Found at i:11733078 original size:20 final size:20
Alignment explanation
Indices: 11733051--11733156 Score: 90
Period size: 20 Copynumber: 5.2 Consensus size: 20
11733041 GAAATACAGA
* *
11733051 AAGAAAGAAAAGGAAATGAG
1 AAGAAAGAAAAAGAAAGGAG
* *
11733071 AGGAAAGAAAATGAAAGGAG
1 AAGAAAGAAAAAGAAAGGAG
*
11733091 AAG-AAGAAAAAGAAA-GAA
1 AAGAAAGAAAAAGAAAGGAG
*
11733109 AAGAAGGAAGAAAGGAAAGGAG
1 AAGAAAGAA-AAA-GAAAGGAG
* * *
11733131 AAGAGAGAAAAAAAGAAGAAG
1 AAGAAAGAAAAAGA-AAGGAG
11733152 AAGAA
1 AAGAA
11733157 GAAGAGGGAA
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
18 5 0.07
19 15 0.22
20 23 0.34
21 16 0.24
22 9 0.13
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (20 bp):
AAGAAAGAAAAAGAAAGGAG
Found at i:11733082 original size:15 final size:15
Alignment explanation
Indices: 11733053--11733134 Score: 52
Period size: 15 Copynumber: 5.7 Consensus size: 15
11733043 AATACAGAAA
* *
11733053 GAAAGAAAAGGAAAT
1 GAAAGGAAAGAAAAT
*
11733068 GAGAGGAAAGAAAAT
1 GAAAGGAAAGAAAAT
11733083 GAAAGGAGAAGAAGAA-
1 GAAAGGA-AAGAA-AAT
11733099 -AAA-GAAAGAAAA-
1 GAAAGGAAAGAAAAT
*
11733111 G-AAGG-AAG-AAAG
1 GAAAGGAAAGAAAAT
11733123 GAAAGGAGAAGA
1 GAAAGGA-AAGA
11733135 GAGAAAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
11 3 0.06
12 8 0.15
13 10 0.19
14 2 0.04
15 24 0.44
16 5 0.09
17 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (15 bp):
GAAAGGAAAGAAAAT
Found at i:11733097 original size:3 final size:3
Alignment explanation
Indices: 11733089--11733161 Score: 53
Period size: 3 Copynumber: 24.0 Consensus size: 3
11733079 AAATGAAAGG
* * *
11733089 AGA AGA AGA AAA AGAA AGA A-A AGA AGGA AGA A-A GGAA AGG AGA AGA
1 AGA AGA AGA AGA AG-A AGA AGA AGA A-GA AGA AGA AG-A AGA AGA AGA
*
11733135 GAGA A-A AAA AGA AGA AGA AGA AGA AGA
1 -AGA AGA AGA AGA AGA AGA AGA AGA AGA
11733162 GGGAAGGAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
2 5 0.09
3 40 0.71
4 11 0.20
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11733112 original size:34 final size:33
Alignment explanation
Indices: 11733074--11733153 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 33
11733064 AAATGAGAGG
11733074 AAAGAA-AATGAAAGGAGAAGAAGAA-AAAGAAAGA
1 AAAGAAGAA-GAAAGGA-AAGAAGAAGAAAGAAA-A
* *
11733108 AAAGAAGGAAGAAAGGAAAGGAGAAGAGAGAAAA
1 AAAGAA-GAAGAAAGGAAAGAAGAAGAAAGAAAA
11733142 AAAGAAGAAGAA
1 AAAGAAGAAGAA
11733154 GAAGAAGAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
33 6 0.15
34 20 0.49
35 13 0.32
36 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (33 bp):
AAAGAAGAAGAAAGGAAAGAAGAAGAAAGAAAA
Found at i:11733127 original size:40 final size:40
Alignment explanation
Indices: 11733083--11733189 Score: 125
Period size: 40 Copynumber: 2.7 Consensus size: 40
11733073 GAAAGAAAAT
11733083 GAAAGGAGAAGAAGAAAAAGAAAGAAAAGAAGGAAGAA-AG
1 GAAAGGAGAAGAAGAAAAAGAAAGAAAAGAA-GAAGAAGAG
11733123 GAAAGGAGAAG-AGAGAAAA-AAAGAAGAAGAAGAAGAAGAG
1 GAAAGGAGAAGAAGA-AAAAGAAAGAA-AAGAAGAAGAAGAG
* * *
11733163 GGAAGGA-AGGAA-AAAAAGAAATAAAAG
1 GAAAGGAGAAGAAGAAAAAGAAAGAAAAG
11733190 GTAATTTTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
38 7 0.12
39 23 0.39
40 29 0.49
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (40 bp):
GAAAGGAGAAGAAGAAAAAGAAAGAAAAGAAGAAGAAGAG
Found at i:11734033 original size:320 final size:320
Alignment explanation
Indices: 11733519--11734614 Score: 1901
Period size: 320 Copynumber: 3.4 Consensus size: 320
11733509 AATTGTATAT
* * *
11733519 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATGATAAAATTAAAAATTACGATATT
1 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATGATAAAATTAGAAATTAAGATATT
* *
11733584 TTTTAAAGTAATATAATGCGGA-TAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTA
66 TTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTA
* * *
11733648 ACTTTTTTAAAAATTCAGAAATGATTAATACAAATATTTCAAATAAAATACACTGAAATAATATA
131 ACTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATA
* ***
11733713 AAATAATAAAATACGAAAATAAAATATTGGCATTGAAAGTAATAAAAATCGGGAAAATAATACGA
196 AAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGA
*
11733778 GCAAAGGGCAGGGATAAGGGTTTTTTTCTTACACTAAATTAATTTAAAAAACACACTAAA
261 GCAAAGGGCAGGGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
*
11733838 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATGATAAAATTAGAAATTACGATATT
1 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATGATAAAATTAGAAATTAAGATATT
* * * * *
11733903 TTTTAAAATAATATAATGCGGATAAAAAAATAGGAACAAATAGCCGAAGTAAGAGTGTATTACTA
66 TTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTA
11733968 ACTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATA
131 ACTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATA
11734033 AAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGA
196 AAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGA
* *
11734098 GCAAAGGGCAGGGATAAGGGTTTTTTTCTTACACCAAATTAATTTTAAAAACAAACTAAA
261 GCAAAGGGCAGGGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
*
11734158 TTAATAAATTTCAAACATTATGCACTGAAATAATGTTAAA-GTATAAAATTAGAAATTAAGATAT
1 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATG-ATAAAATTAGAAATTAAGATAT
11734222 TTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACT
65 TTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACT
*
11734287 AACTTTTTTAAAAATTTAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATAT
130 AACTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATAT
* *
11734352 AAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAAATTGGGAAAATAATACG
195 AAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACG
*
11734417 AGCAAAGGGCAGAGATAAGGGTTTTTTT-TTACACCAAATTAATTTAAAAAACACACTAAA
260 AGCAAAGGGCAGGGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
*
11734477 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTAAGATATT
1 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATGATAAAATTAGAAATTAAGATATT
* *
11734542 TTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTTTTTTACTA
66 TTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTA
11734607 ACTTTTTT
131 ACTTTTTT
11734615 TTCAACTTGC
Statistics
Matches: 741, Mismatches: 33, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
319 248 0.33
320 493 0.67
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.30
Consensus pattern (320 bp):
TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATGATAAAATTAGAAATTAAGATATT
TTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTA
ACTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATA
AAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGA
GCAAAGGGCAGGGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
Found at i:11737300 original size:3 final size:3
Alignment explanation
Indices: 11737282--11737331 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
11737272 AATAACATCT
* *
11737282 TAA TAC TAA CAA 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 TAA TAA TAA TAA
11737330 TA
1 TA
11737332 CTATCAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:11737604 original size:27 final size:27
Alignment explanation
Indices: 11737566--11737656 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
11737556 ACGAGTAGTC
11737566 CCGCCAATCAGTATGGCACCATTGGTG
1 CCGCCAATCAGTATGGCACCATTGGTG
* *
11737593 CCGCCAACCAGTATGGCACCATCGGTG
1 CCGCCAATCAGTATGGCACCATTGGTG
*
11737620 CCGCCAATCAGT-TAGGCACCTTTGGTG
1 CCGCCAATCAGTAT-GGCACCATTGGTG
*
11737647 CTGCCAATCA
1 CCGCCAATCA
11737657 AAAACCCTCC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.02
27 56 0.98
ACGTcount: A:0.22, C:0.33, G:0.24, T:0.21
Consensus pattern (27 bp):
CCGCCAATCAGTATGGCACCATTGGTG
Found at i:11737931 original size:16 final size:17
Alignment explanation
Indices: 11737910--11737947 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 17
11737900 TTAAAAAATA
11737910 TTTTTTTCTT-TC-AAC
1 TTTTTTTCTTGTCAAAC
11737925 TTTTTTTCTTGTCAAAC
1 TTTTTTTCTTGTCAAAC
11737942 TTTTTT
1 TTTTTT
11737948 CTAAAGTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 10 0.48
16 2 0.10
17 9 0.43
ACGTcount: A:0.13, C:0.16, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTTTTCTTGTCAAAC
Found at i:11748122 original size:30 final size:27
Alignment explanation
Indices: 11748070--11748133 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 27
11748060 AAAAATAACT
*
11748070 AAAATATTATAATTTTTTTTATTTATC
1 AAAATATTATAATTTTTTTTATTTACC
11748097 AAAATATTATAATTTTTTTTATTATTTACC
1 AAAATATTATAA--TTTTTT-TTATTTACC
11748127 AAAATAT
1 AAAATAT
11748134 ATCAAAAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 12 0.36
29 6 0.18
30 15 0.45
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (27 bp):
AAAATATTATAATTTTTTTTATTTACC
Found at i:11748286 original size:4 final size:4
Alignment explanation
Indices: 11748279--11748403 Score: 77
Period size: 4 Copynumber: 31.0 Consensus size: 4
11748269 GAAGGAGAGG
* *
11748279 GAAA GAAA GAAA GAAA GAAA GAAA GGAAG GAGAG GAAA GAAA G-AA -AAA
1 GAAA GAAA GAAA GAAA GAAA GAAA -GAAA GA-AA GAAA GAAA GAAA GAAA
* *
11748327 GAAG GAAA GAAAA GGAAA G-AA GAAGA GAAA -AAA -AAG GAAA G-AA G-AA
1 GAAA GAAA G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAAA
11748373 GAAGA GGAAA GGACAA GAAA -AAA GAAA GAAA
1 GAA-A -GAAA -GA-AA GAAA GAAA GAAA GAAA
11748404 AAGAGGAAAA
Statistics
Matches: 101, Mismatches: 6, Indels: 28
0.75 0.04 0.21
Matches are distributed among these distances:
3 21 0.21
4 50 0.50
5 24 0.24
6 6 0.06
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:11748312 original size:35 final size:33
Alignment explanation
Indices: 11748268--11748403 Score: 129
Period size: 35 Copynumber: 4.0 Consensus size: 33
11748258 TGGTGGGGGG
11748268 GGAAGGAGAGGGAAAGAAAGAAAGAAAGAAAGAAA
1 GGAAGGAGA-GGAAAGAAAGAAA-AAAGAAAGAAA
11748303 GGAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAA
1 GGAAGGAGAGGAAAGAAAG-AAAA-AA-GAAAG-AAA
* *
11748340 GGAA--AGAAGAAGAGAAA-AAAAAGGAAAG-AA
1 GGAAGGAGAGGAA-AGAAAGAAAAAAGAAAGAAA
*
11748370 -GAAGAAGAGGAAAGGACAAGAAAAAAGAAAGAAA
1 GGAAGGAGAGGAAA-GA-AAGAAAAAAGAAAGAAA
11748404 AAGAGGAAAA
Statistics
Matches: 86, Mismatches: 4, Indels: 23
0.76 0.04 0.20
Matches are distributed among these distances:
29 3 0.03
30 3 0.03
31 8 0.09
32 7 0.08
33 11 0.13
34 17 0.20
35 20 0.23
36 10 0.12
37 7 0.08
ACGTcount: A:0.66, C:0.01, G:0.33, T:0.00
Consensus pattern (33 bp):
GGAAGGAGAGGAAAGAAAGAAAAAAGAAAGAAA
Found at i:11748329 original size:10 final size:10
Alignment explanation
Indices: 11748318--11748407 Score: 58
Period size: 10 Copynumber: 8.5 Consensus size: 10
11748308 GAGAGGAAAG
11748318 AAAGAAA-AA
1 AAAGAAAGAA
*
11748327 GAAGGAAAGAA
1 -AAAGAAAGAA
*
11748338 AAGGAAAGAA
1 AAAGAAAGAA
11748348 GAAGAGAAA-AA
1 -AA-AGAAAGAA
11748359 AAAGGAAAGAA
1 AAA-GAAAGAA
* *
11748370 GAAGAAGAGGA
1 AAAGAA-AGAA
*
11748381 AAGGACAAGAAA
1 AAAGA-AAG-AA
11748393 AAAGAAAGAA
1 AAAGAAAGAA
11748403 AAAGA
1 AAAGA
11748408 GGAAAAAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
9 1 0.02
10 32 0.50
11 21 0.33
12 10 0.16
ACGTcount: A:0.71, C:0.01, G:0.28, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:11748391 original size:22 final size:22
Alignment explanation
Indices: 11748278--11748374 Score: 89
Period size: 22 Copynumber: 4.6 Consensus size: 22
11748268 GGAAGGAGAG
*
11748278 GGAAAGAAAGAA-AG-AAAGAAA
1 GGAAAG-AAGAAGAGAAAAAAAA
* * *
11748299 -GAAAGGAAGGAGAGGAAAGAAA
1 GGAAA-GAAGAAGAGAAAAAAAA
*
11748321 -GAAA-AAGAAG-GAAAGAAAA
1 GGAAAGAAGAAGAGAAAAAAAA
11748340 GGAAAGAAGAAGAGAAAAAAAA
1 GGAAAGAAGAAGAGAAAAAAAA
11748362 GGAAAGAAGAAGA
1 GGAAAGAAGAAGA
11748375 AGAGGAAAGG
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.09
20 17 0.27
21 9 0.14
22 32 0.50
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (22 bp):
GGAAAGAAGAAGAGAAAAAAAA
Found at i:11748480 original size:75 final size:75
Alignment explanation
Indices: 11748280--11748486 Score: 208
Period size: 78 Copynumber: 2.7 Consensus size: 75
11748270 AAGGAGAGGG
* * *
11748280 AAAGAAAGAAAGAAAGAAAGAAAGGAAGGAGAGG-AAAGAAAGAAAAAGAAGGAAAGAAAAGGAA
1 AAAGAAAG-AAG-AAG-AAG-AAGGAAGGACAGGAAAAAAAAGAAAAAG-AGGAAAAAAAAGGAA
11748344 AGAAGAAGAGAAAAA
61 AGAAGAAGAGAAAAA
*
11748359 AAAGGAAAGAAGAAGAAG-AGGAAAGGACAAGAAAAAAGAAAGAAAAAGAGGAAAAAAAAGGAAA
1 AAA-GAAAGAAGAAGAAGAAGG-AAGGAC-AGGAAAAA-AAAGAAAAAGAGGAAAAAAAAGGAAA
*
11748423 GGAGAAGAG-AAAA
62 GAAGAAGAGAAAAA
* *
11748436 AAA-AAAGAAGAAGAGGGAAGGAAGGA-AGGAAAAATAAAGGAAAAAAAGGAA
1 AAAGAAAGAAGAAGA-AGAAGGAAGGACAGGAAAAA-AAA-GAAAAAGAGGAA
11748487 TTTTTTTTAT
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
74 10 0.09
75 25 0.23
76 11 0.10
77 15 0.14
78 29 0.26
79 16 0.14
80 5 0.05
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.00
Consensus pattern (75 bp):
AAAGAAAGAAGAAGAAGAAGGAAGGACAGGAAAAAAAAGAAAAAGAGGAAAAAAAAGGAAAGAAG
AAGAGAAAAA
Found at i:11749232 original size:27 final size:27
Alignment explanation
Indices: 11749202--11749257 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
11749192 AAAGAGGGTG
*
11749202 ATGGAGGGGAATAAAAAAGCGACACCA
1 ATGGAGAGGAATAAAAAAGCGACACCA
*
11749229 ATGGAGAGGAATAAAAAGGCGACACCA
1 ATGGAGAGGAATAAAAAAGCGACACCA
11749256 AT
1 AT
11749258 ATGTGGCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.14, G:0.29, T:0.09
Consensus pattern (27 bp):
ATGGAGAGGAATAAAAAAGCGACACCA
Found at i:11754208 original size:18 final size:18
Alignment explanation
Indices: 11754185--11754229 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
11754175 ATCCCAATGA
11754185 TCGCCACCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
11754203 TCGCCAGCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
11754221 TCACCACCA
1 TCGCCACCA
11754230 ACCATATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.49, G:0.07, T:0.29
Consensus pattern (18 bp):
TCGCCACCACCTTCTTCT
Found at i:11755041 original size:17 final size:18
Alignment explanation
Indices: 11755005--11755043 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
11754995 CTACTGAATT
11755005 ACATCTTAATACATTAATA
1 ACATCTTAATACA-TAATA
11755024 ACATCTTAATAC-TAATA
1 ACATCTTAATACATAATA
11755041 ACA
1 ACA
11755044 ACAACAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
19 12 0.60
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (18 bp):
ACATCTTAATACATAATA
Found at i:11755057 original size:3 final size:3
Alignment explanation
Indices: 11755051--11755099 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
11755041 ACAACAACAG
11755051 TAA TAA TAA TAA 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 TAA TAA TAA TAA
11755099 T
1 T
11755100 TGTTGACACC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:11756039 original size:11 final size:11
Alignment explanation
Indices: 11756023--11756048 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11756013 AAATTACAAA
11756023 ATATATAAAGT
1 ATATATAAAGT
11756034 ATATATAAAGT
1 ATATATAAAGT
11756045 ATAT
1 ATAT
11756049 TTTAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
ATATATAAAGT
Found at i:11756178 original size:24 final size:24
Alignment explanation
Indices: 11756151--11756198 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
11756141 TATACATTGT
11756151 AAAATA-AAAGAAAATATGTATTTA
1 AAAATATAAA-AAAATATGTATTTA
* *
11756175 AAAATATATATAAATATGTATTTA
1 AAAATATAAAAAAATATGTATTTA
11756199 TATTCATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (24 bp):
AAAATATAAAAAAATATGTATTTA
Found at i:11756255 original size:39 final size:40
Alignment explanation
Indices: 11756212--11756295 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
11756202 TCATGTAAAT
** *
11756212 TAAAAAATGTATATAGATATTTATAGATATGTATAT-AAG
1 TAAAAAAAATATATAGATATGTATAGATATGTATATGAAG
* * * *
11756251 TAAAAAAAATATGTATATATGTATATATATGTATATGAAT
1 TAAAAAAAATATATAGATATGTATAGATATGTATATGAAG
11756291 TAAAA
1 TAAAA
11756296 TATATAAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 30 0.81
40 7 0.19
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (40 bp):
TAAAAAAAATATATAGATATGTATAGATATGTATATGAAG
Found at i:11756402 original size:23 final size:22
Alignment explanation
Indices: 11756372--11756428 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 22
11756362 ATTTATAATA
11756372 ATAAAAATA-TGTAAGTATATATT
1 ATAAAAATATTGT-A-TATATATT
11756395 ATAAAAATGTATTTGTATATATATT
1 ATAAAAA--TA-TTGTATATATATT
11756420 ATAAAAATA
1 ATAAAAATA
11756429 CAATAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
23 9 0.30
25 17 0.57
26 1 0.03
27 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (22 bp):
ATAAAAATATTGTATATATATT
Found at i:11757086 original size:6 final size:6
Alignment explanation
Indices: 11757075--11757101 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11757065 CTGTTTTCAA
11757075 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
11757102 CAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:11757708 original size:3 final size:3
Alignment explanation
Indices: 11757700--11757724 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11757690 GGGCTTCTAC
11757700 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
11757725 CTAACTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11758000 original size:27 final size:27
Alignment explanation
Indices: 11757962--11758027 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
11757952 AACACGAGTA
11757962 GTGCCGCCAATGGTTTTGGCACCATTG
1 GTGCCGCCAATGGTTTTGGCACCATTG
* *
11757989 GTGCCACCAATGGTTTTGGCACCTTTG
1 GTGCCGCCAATGGTTTTGGCACCATTG
*
11758016 GTGTCGCCAATG
1 GTGCCGCCAATG
11758028 CCATTGGCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.15, C:0.26, G:0.29, T:0.30
Consensus pattern (27 bp):
GTGCCGCCAATGGTTTTGGCACCATTG
Found at i:11758034 original size:27 final size:27
Alignment explanation
Indices: 11757977--11758035 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
11757967 GCCAATGGTT
***
11757977 TTGGCACCATTGGTGCCACCAATGGTT
1 TTGGCACCATTGGTGCCACCAATGCCA
* * *
11758004 TTGGCACCTTTGGTGTCGCCAATGCCA
1 TTGGCACCATTGGTGCCACCAATGCCA
11758031 TTGGC
1 TTGGC
11758036 CTGATCAGGC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.15, C:0.27, G:0.27, T:0.31
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCACCAATGCCA
Found at i:11758155 original size:28 final size:28
Alignment explanation
Indices: 11758091--11758163 Score: 103
Period size: 30 Copynumber: 2.6 Consensus size: 28
11758081 TTTGTTTTTT
*
11758091 TTTAT-ATATTTTGGTAAATAATAAAAA
1 TTTATAATATTTTGGTAAATAAAAAAAA
*
11758118 TAATATTAATATTTTGGTAAATAAAAAAAA
1 T-TTA-TAATATTTTGGTAAATAAAAAAAA
11758148 TTTATAATATTTTGGT
1 TTTATAATATTTTGGT
11758164 TATTTTTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
27 1 0.03
28 14 0.35
29 3 0.08
30 22 0.55
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (28 bp):
TTTATAATATTTTGGTAAATAAAAAAAA
Done.