Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 73 of 199
Found at i:21981299 original size:25 final size:25
Alignment explanation
Indices: 21981277--21981326 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
21981267 ATATAAAAGA
21981277 ATGTAGAACGTGATTTTGGAAAAAT
1 ATGTAGAACGTGATTTTGGAAAAAT
*
21981302 ATGTAGAATGTGATTTTGGAAAAAT
1 ATGTAGAACGTGATTTTGGAAAAAT
21981327 TTTTGTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.34
Consensus pattern (25 bp):
ATGTAGAACGTGATTTTGGAAAAAT
Found at i:21981300 original size:26 final size:25
Alignment explanation
Indices: 21981271--21981325 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
21981261 AGAGGGATAT
*
21981271 AAAAGAATGTAGAACGTGATTTTGG
1 AAAAAAATGTAGAACGTGATTTTGG
* *
21981296 AAAAATATGTAGAATGTGATTTTGG
1 AAAAAAATGTAGAACGTGATTTTGG
21981321 AAAAA
1 AAAAA
21981326 TTTTTGTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.45, C:0.02, G:0.24, T:0.29
Consensus pattern (25 bp):
AAAAAAATGTAGAACGTGATTTTGG
Found at i:21981419 original size:11 final size:11
Alignment explanation
Indices: 21981403--21981436 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
21981393 AGACCGTATA
21981403 CAATTTTTTTT
1 CAATTTTTTTT
21981414 CAA-TTTTTTT
1 CAATTTTTTTT
21981424 CGAATTTTTTTT
1 C-AATTTTTTTT
21981436 C
1 C
21981437 GAAACTACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.38
11 5 0.24
12 8 0.38
ACGTcount: A:0.18, C:0.12, G:0.03, T:0.68
Consensus pattern (11 bp):
CAATTTTTTTT
Found at i:21981436 original size:12 final size:12
Alignment explanation
Indices: 21981404--21981439 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
21981394 GACCGTATAC
21981404 AATTTTTTTTC-
1 AATTTTTTTTCG
21981415 AA-TTTTTTTCG
1 AATTTTTTTTCG
21981426 AATTTTTTTTCG
1 AATTTTTTTTCG
21981438 AA
1 AA
21981440 ACTACAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.35
11 4 0.17
12 11 0.48
ACGTcount: A:0.22, C:0.08, G:0.06, T:0.64
Consensus pattern (12 bp):
AATTTTTTTTCG
Found at i:21989695 original size:28 final size:30
Alignment explanation
Indices: 21989644--21989699 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
21989634 GTGATTAAAT
21989644 AAAATTGACACAAGCAGAATTTAAAAGAAA
1 AAAATTGACACAAGCAGAATTTAAAAGAAA
21989674 AAAATTGACAGCAAG-A-AA-TTAAAAGA
1 AAAATTGACA-CAAGCAGAATTTAAAAGA
21989700 TAAGTCCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 8 0.32
29 2 0.08
30 11 0.44
31 4 0.16
ACGTcount: A:0.61, C:0.09, G:0.14, T:0.16
Consensus pattern (30 bp):
AAAATTGACACAAGCAGAATTTAAAAGAAA
Found at i:21991007 original size:24 final size:23
Alignment explanation
Indices: 21990949--21991007 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
21990939 AAATAATGTT
*
21990949 GATTTTGGTACGATATGGTAATG
1 GATTTTGGTACGAAATGGTAATG
**
21990972 GGGTTTGGTACGAAATGGT-ATG
1 GATTTTGGTACGAAATGGTAATG
21990994 GAAATTTTGGTACG
1 G--ATTTTGGTACG
21991008 TAATAGACCA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 4 0.14
23 16 0.55
24 9 0.31
ACGTcount: A:0.25, C:0.05, G:0.34, T:0.36
Consensus pattern (23 bp):
GATTTTGGTACGAAATGGTAATG
Found at i:21995903 original size:13 final size:13
Alignment explanation
Indices: 21995882--21995916 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
21995872 ATAAGTCACT
* *
21995882 GTTAGTTAAATTA
1 GTTAATTAAATAA
21995895 GTTAATTAAATAA
1 GTTAATTAAATAA
21995908 GTTAATTAA
1 GTTAATTAA
21995917 TTTGTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (13 bp):
GTTAATTAAATAA
Found at i:21997725 original size:12 final size:12
Alignment explanation
Indices: 21997710--21997761 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
21997700 GAGGAAATTC
21997710 AAAAAAAAATCG
1 AAAAAAAAATCG
* *
21997722 AAAAAAATTGATTG
1 AAAAAAA--AATCG
21997736 AAAAAAAAATTC-
1 AAAAAAAAA-TCG
21997748 AAAAAAAAATCG
1 AAAAAAAAATCG
21997760 AA
1 AA
21997762 GTATAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 19 0.59
13 1 0.03
14 10 0.31
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.15
Consensus pattern (12 bp):
AAAAAAAAATCG
Found at i:21997831 original size:16 final size:16
Alignment explanation
Indices: 21997810--21997840 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
21997800 TTCATACATT
21997810 GAAGTATAAAAAAATC
1 GAAGTATAAAAAAATC
21997826 GAAGTATAAAAAAAT
1 GAAGTATAAAAAAAT
21997841 TGATTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.03, G:0.13, T:0.19
Consensus pattern (16 bp):
GAAGTATAAAAAAATC
Found at i:21998701 original size:46 final size:46
Alignment explanation
Indices: 21998644--21998765 Score: 172
Period size: 46 Copynumber: 2.7 Consensus size: 46
21998634 AGTGTTATTA
* *
21998644 ATCAGTAGTAGCTTCTGCTACATTTTAGTGGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTTAGTGGTAGCTACAGCTACAT
* * *
21998690 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTTAGTGGTAGCTACAGCTACAT
** *
21998736 ATCAGTGGTAGCACCGGCTACATATTAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTTAGTG
21998766 TGGCACTTAT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTTAGTGGTAGCTACAGCTACAT
Found at i:21998753 original size:23 final size:23
Alignment explanation
Indices: 21998644--21998765 Score: 138
Period size: 23 Copynumber: 5.3 Consensus size: 23
21998634 AGTGTTATTA
* * *
21998644 ATCAGTAGTAGCTTCTGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
21998667 TTTAGTGGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
21998690 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
21998713 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
21998736 ATCAGTGGTAGC-ACCGGCTACAT
1 ATCAGTGGTAGCTA-CGGCTACAT
*
21998759 ATTAGTG
1 ATCAGTG
21998766 TGGCACTTAT
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
22 1 0.01
23 82 0.99
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:22000026 original size:11 final size:11
Alignment explanation
Indices: 22000010--22000041 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
22000000 TTACGTGTAA
22000010 GACCATAGTTG
1 GACCATAGTTG
22000021 GACCATAGTTG
1 GACCATAGTTG
22000032 GACCATAGTT
1 GACCATAGTT
22000042 ACATGGACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (11 bp):
GACCATAGTTG
Found at i:22005523 original size:33 final size:33
Alignment explanation
Indices: 22005483--22005634 Score: 198
Period size: 33 Copynumber: 4.5 Consensus size: 33
22005473 TACTCTCTAT
*
22005483 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* *
22005516 TTAGTGTGATGGTTGGTTTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
*
22005549 TTGGTGTGATGGTTGGATTAGCTCTTATGAGTA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* * *
22005582 TTGGTGTGATGGATGGATTGGCTC-AAGTGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTA-TGAGCA
*
22005615 TCTGGTGTGTTTGGTTGGAT
1 T-TGGTGTG-ATGGTTGGAT
22005635 GGATGATGTA
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
32 1 0.01
33 88 0.85
34 7 0.07
35 8 0.08
ACGTcount: A:0.16, C:0.08, G:0.35, T:0.41
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
Found at i:22015869 original size:18 final size:19
Alignment explanation
Indices: 22015846--22015886 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
22015836 TTCTTGTCGA
22015846 AAAATAATTAAA-TATTAT
1 AAAATAATTAAATTATTAT
*
22015864 AAAATAATTAAATTATTTT
1 AAAATAATTAAATTATTAT
22015883 AAAA
1 AAAA
22015887 ATATGAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATAATTAAATTATTAT
Found at i:22017867 original size:20 final size:20
Alignment explanation
Indices: 22017842--22017880 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22017832 CTTGTAGTTC
*
22017842 AAAATTTTCAACTTTTTCCT
1 AAAATTTCCAACTTTTTCCT
*
22017862 AAAATTTCCAATTTTTTCC
1 AAAATTTCCAACTTTTTCC
22017881 AATTTAGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAATTTCCAACTTTTTCCT
Found at i:22023952 original size:19 final size:20
Alignment explanation
Indices: 22023914--22023957 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
22023904 TTTTTTTTTT
* *
22023914 TACAAAAGCTAGATATTGAA
1 TACAAAAGCGAGAAATTGAA
22023934 TACAAAAG-GAGAAATTGAA
1 TACAAAAGCGAGAAATTGAA
22023953 TACAA
1 TACAA
22023958 TTTTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.55, C:0.09, G:0.16, T:0.20
Consensus pattern (20 bp):
TACAAAAGCGAGAAATTGAA
Found at i:22035736 original size:28 final size:28
Alignment explanation
Indices: 22035682--22035740 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
22035672 AGCACGCCCC
* ***
22035682 CTGTTCTGTTCAGCACTACGGTGTTGTT
1 CTGTTCTGTTAAGCACTACGACATTGTT
*
22035710 CTGTTCTGTTAAGCACTCCGACATTGTT
1 CTGTTCTGTTAAGCACTACGACATTGTT
22035738 CTG
1 CTG
22035741 ATATATATGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.41
Consensus pattern (28 bp):
CTGTTCTGTTAAGCACTACGACATTGTT
Found at i:22035817 original size:28 final size:28
Alignment explanation
Indices: 22035779--22035868 Score: 117
Period size: 28 Copynumber: 3.2 Consensus size: 28
22035769 TAGTGTGCCA
*
22035779 TTTGTTCTGTTAAGCACTACGGTGTTGT
1 TTTGTTATGTTAAGCACTACGGTGTTGT
* * *
22035807 TCTGTTATGTTAAGCACTCCGGTTTTGT
1 TTTGTTATGTTAAGCACTACGGTGTTGT
* * *
22035835 TTTGATATGATAAGCACTACGGTGATGT
1 TTTGTTATGTTAAGCACTACGGTGTTGT
22035863 TTTGTT
1 TTTGTT
22035869 CTGATAATGC
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.18, C:0.13, G:0.23, T:0.46
Consensus pattern (28 bp):
TTTGTTATGTTAAGCACTACGGTGTTGT
Found at i:22035842 original size:98 final size:98
Alignment explanation
Indices: 22035642--22035827 Score: 273
Period size: 98 Copynumber: 1.9 Consensus size: 98
22035632 GAACTATTAG
** * *
22035642 GATATATATGGCATGTTGTTAAGGAGAATTAGCACGCCCCCTGTTCTGTTCAGCACTACGGTGTT
1 GATATATATGGCATGTCATTAAGGAGAATTAGCACGCCACCTGTTCTGTTAAGCACTACGGTGTT
*
22035707 GTTCTGTTCTGTTAAGCACTCCGACATTGTTCT
66 GTTCTGTTATGTTAAGCACTCCGACATTGTTCT
* *** **
22035740 GATATATATGGCATGTCATTAAGGAGGATTAGTGTGCCATTTGTTCTGTTAAGCACTACGGTGTT
1 GATATATATGGCATGTCATTAAGGAGAATTAGCACGCCACCTGTTCTGTTAAGCACTACGGTGTT
22035805 GTTCTGTTATGTTAAGCACTCCG
66 GTTCTGTTATGTTAAGCACTCCG
22035828 GTTTTGTTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
98 77 1.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.37
Consensus pattern (98 bp):
GATATATATGGCATGTCATTAAGGAGAATTAGCACGCCACCTGTTCTGTTAAGCACTACGGTGTT
GTTCTGTTATGTTAAGCACTCCGACATTGTTCT
Found at i:22039868 original size:31 final size:31
Alignment explanation
Indices: 22039833--22039892 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
22039823 TTTAATTTTA
*
22039833 TCAATTTTA-TGCCATGTATTTTTCGAATTGG
1 TCAATTTTAGT-CCATGTACTTTTCGAATTGG
*
22039864 TCAATTTTAGTCTATGTACTTTTCGAATT
1 TCAATTTTAGTCCATGTACTTTTCGAATT
22039893 TTAAAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.50
Consensus pattern (31 bp):
TCAATTTTAGTCCATGTACTTTTCGAATTGG
Found at i:22042107 original size:42 final size:42
Alignment explanation
Indices: 22042051--22042145 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 42
22042041 GCTAGGCACA
*
22042051 AGCCTGATAAAAATTCACC-GACACTACGCCTACTAGGCTTTT
1 AGCCTGATATAAATTCACCAG-CACTACGCCTACTAGGCTTTT
*
22042093 AGCCTGATATAAATTCACCAGCACTACGCCTGCTAGGCTTTT
1 AGCCTGATATAAATTCACCAGCACTACGCCTACTAGGCTTTT
*
22042135 AACCTGATATA
1 AGCCTGATATA
22042146 TCACACCAGC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
42 48 0.98
43 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (42 bp):
AGCCTGATATAAATTCACCAGCACTACGCCTACTAGGCTTTT
Found at i:22042168 original size:41 final size:41
Alignment explanation
Indices: 22042076--22042171 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 41
22042066 CACCGACACT
* * * *
22042076 ACGCCTACTAGGCTTTTAGCCTGATATAAATTCACCAGCACT
1 ACGCCTGCTAGGCTTTTAACCTGATAT-AATACACCAGCACG
22042118 ACGCCTGCTAGGCTTTTAACCTGATAT-ATCACACCAGCACG
1 ACGCCTGCTAGGCTTTTAACCTGATATAAT-ACACCAGCACG
* *
22042159 AGGCTTGCTAGGC
1 ACGCCTGCTAGGC
22042172 ACGGAACCCG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 2 0.04
41 20 0.43
42 25 0.53
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (41 bp):
ACGCCTGCTAGGCTTTTAACCTGATATAATACACCAGCACG
Found at i:22045099 original size:26 final size:26
Alignment explanation
Indices: 22045070--22045121 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
22045060 GTGTTTTGAC
22045070 TTTTA-CAAGTAAAATTATCAAAATAT
1 TTTTATCAA-TAAAATTATCAAAATAT
**
22045096 TTTTATTTATAAAATTATCAAAATAT
1 TTTTATCAATAAAATTATCAAAATAT
22045122 CCTTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (26 bp):
TTTTATCAATAAAATTATCAAAATAT
Found at i:22045127 original size:26 final size:26
Alignment explanation
Indices: 22045079--22045132 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
22045069 CTTTTACAAG
**
22045079 TAAAATTATCAAAATATTTTTATTTA
1 TAAAATTATCAAAATATCCTTATTTA
22045105 TAAAATTATCAAAATATCCTTATTTA
1 TAAAATTATCAAAATATCCTTATTTA
22045131 TA
1 TA
22045133 TTAATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (26 bp):
TAAAATTATCAAAATATCCTTATTTA
Found at i:22046470 original size:33 final size:33
Alignment explanation
Indices: 22046428--22046491 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
22046418 TTTACGGCAC
22046428 TTAATGAGTTTGTTTTCTAGTGTTTTTATATAT
1 TTAATGAGTTTGTTTTCTAGTGTTTTTATATAT
22046461 TTAATGAGTTTGTTTTCTAGTGTTTTTATAT
1 TTAATGAGTTTGTTTTCTAGTGTTTTTATAT
22046492 GTTTTTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.20, C:0.03, G:0.16, T:0.61
Consensus pattern (33 bp):
TTAATGAGTTTGTTTTCTAGTGTTTTTATATAT
Found at i:22052952 original size:20 final size:21
Alignment explanation
Indices: 22052916--22052954 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
22052906 TATGAATAAC
22052916 TTTGAGAAAAGATGTTACAAA
1 TTTGAGAAAAGATGTTACAAA
22052937 TTTGA-AAAAGGA-GTTACA
1 TTTGAGAAAA-GATGTTACA
22052955 TCCATGCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.28
Consensus pattern (21 bp):
TTTGAGAAAAGATGTTACAAA
Found at i:22056625 original size:27 final size:27
Alignment explanation
Indices: 22056587--22056652 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
22056577 TAGGAATCCG
*
22056587 AATCACATACACTTAGTCGCTTATCAA
1 AATCACATACACTTAGTCACTTATCAA
* * *
22056614 AATCATATACACTTAGTTACTTATGAA
1 AATCACATACACTTAGTCACTTATCAA
*
22056641 AATCACTTACAC
1 AATCACATACAC
22056653 CTATACAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (27 bp):
AATCACATACACTTAGTCACTTATCAA
Found at i:22059399 original size:44 final size:44
Alignment explanation
Indices: 22059351--22059572 Score: 185
Period size: 43 Copynumber: 5.2 Consensus size: 44
22059341 TATGTCATCA
* * * * *
22059351 ATATATGAGACTTTGTGTAAGACCATATCTAGGATA-TGGTATTG
1 ATATATGTGA-TTCGTGTAAGACCATATCTGGGACATTGGCATTG
* *
22059395 ATATATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCA-TC
1 ATATATGTGATT-CGTGTAAGACCATATCTGGGACATTGGCATTG
*
22059439 AT-TATGTGATTTCGTGTAAGACCATATCTGGGACATTGGCATCG
1 ATATATGTGA-TTCGTGTAAGACCATATCTGGGACATTGGCATTG
* * *
22059483 ATATA--TGATTCGTGTAAGACCATAGCTGGG-CTATTGACATCG
1 ATATATGTGATTCGTGTAAGACCATATCTGGGAC-ATTGGCATTG
* * * * *
22059525 --ATATGTGATAACATGTAAGTCCATATCTGGGATA-TGGCACT-
1 ATATATGTGAT-TCGTGTAAGACCATATCTGGGACATTGGCATTG
22059566 ATATATG
1 ATATATG
22059573 ATATACGAGA
Statistics
Matches: 146, Mismatches: 20, Indels: 25
0.76 0.10 0.13
Matches are distributed among these distances:
40 3 0.02
41 1 0.01
42 38 0.26
43 63 0.43
44 35 0.24
45 6 0.04
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.33
Consensus pattern (44 bp):
ATATATGTGATTCGTGTAAGACCATATCTGGGACATTGGCATTG
Found at i:22059455 original size:43 final size:43
Alignment explanation
Indices: 22059365--22059556 Score: 212
Period size: 43 Copynumber: 4.5 Consensus size: 43
22059355 ATGAGACTTT
* * * *
22059365 GTGTAAGACCATATCTAGGATA-TGGTATTGATATATGTGATTAC
1 GTGTAAGACCATATCTGGGACATTGGCATCG--ATATGTGATTAC
* *
22059409 GTGTAAGACCATGTCTGGGACATTGGCATC-ATTATGTGATTTC
1 GTGTAAGACCATATCTGGGACATTGGCATCGA-TATGTGATTAC
*
22059452 GTGTAAGACCATATCTGGGACATTGGCATCGATATATGATT-C
1 GTGTAAGACCATATCTGGGACATTGGCATCGATATGTGATTAC
* * *
22059494 GTGTAAGACCATAGCTGGG-CTATTGACATCGATATGTGATAAC
1 GTGTAAGACCATATCTGGGAC-ATTGGCATCGATATGTGATTAC
* *
22059537 ATGTAAGTCCATATCTGGGA
1 GTGTAAGACCATATCTGGGA
22059557 TATGGCACTA
Statistics
Matches: 127, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
41 1 0.01
42 37 0.29
43 64 0.50
44 20 0.16
45 5 0.04
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATATCTGGGACATTGGCATCGATATGTGATTAC
Found at i:22059512 original size:85 final size:84
Alignment explanation
Indices: 22059313--22059574 Score: 248
Period size: 85 Copynumber: 3.1 Consensus size: 84
22059303 ATGGCATTAC
* * * *
22059313 ATGATTTCGTATAAGACCATAGTTGGGC-TATGTCATCAATATATGAGACTTT-GTGTAAGACCA
1 ATGA-TTCGTGTAAGACCATAGCTGGGCAT-TGACATCAAT-TATGTGA-TTTCGTGTAAGACCA
* * *
22059376 TATCTAGGATATGGTATTGATAT
62 TATCTGGGATATGGCATCGATAT
*
22059399 ATGTGATTACGTGTAAGACCAT-GTCTGGGACATTGGCATC-ATTATGTGATTTCGTGTAAGACC
1 A--TGATT-CGTGTAAGACCATAG-CTGGG-CATTGACATCAATTATGTGATTTCGTGTAAGACC
*
22059462 ATATCTGGGACATTGGCATCGATAT
61 ATATCTGGGATA-TGGCATCGATAT
* ** * *
22059487 ATGATTCGTGTAAGACCATAGCTGGGCTATTGACATCGA-TATGTGATAACATGTAAGTCCATAT
1 ATGATTCGTGTAAGACCATAGCTGGGC-ATTGACATCAATTATGTGATTTCGTGTAAGACCATAT
*
22059551 CTGGGATATGGCA-CTATAT
65 CTGGGATATGGCATCGATAT
22059570 ATGAT
1 ATGAT
22059575 ATACGAGACT
Statistics
Matches: 150, Mismatches: 15, Indels: 25
0.79 0.08 0.13
Matches are distributed among these distances:
83 10 0.07
84 6 0.04
85 54 0.36
86 11 0.07
87 29 0.19
88 32 0.21
89 7 0.05
90 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (84 bp):
ATGATTCGTGTAAGACCATAGCTGGGCATTGACATCAATTATGTGATTTCGTGTAAGACCATATC
TGGGATATGGCATCGATAT
Found at i:22068066 original size:23 final size:22
Alignment explanation
Indices: 22068036--22068083 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
22068026 AAATTAAAAT
*
22068036 CCTTTATTTTCTACTTTGCTTA
1 CCTTTATTTTCTACCTTGCTTA
*
22068058 CCTTATATTTTCTACCTTGTTTA
1 CCTT-TATTTTCTACCTTGCTTA
22068081 CCT
1 CCT
22068084 GACTGTTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.15, C:0.25, G:0.04, T:0.56
Consensus pattern (22 bp):
CCTTTATTTTCTACCTTGCTTA
Found at i:22072375 original size:18 final size:18
Alignment explanation
Indices: 22072346--22072393 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
22072336 TAAAAAATGT
*
22072346 TTTGAAATTGAATAACGA
1 TTTGAAAATGAATAACGA
* * *
22072364 TTTGTAAATGAATAATGT
1 TTTGAAAATGAATAACGA
22072382 TTTGAAAATGAA
1 TTTGAAAATGAA
22072394 CGACACGATC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGAAAATGAATAACGA
Found at i:22078742 original size:25 final size:24
Alignment explanation
Indices: 22078652--22078742 Score: 62
Period size: 25 Copynumber: 3.6 Consensus size: 24
22078642 AATAGGCAAG
22078652 AAGTAAATAAATAAAATAATTAAAAT
1 AAGTAAAT-AATAAAA-AATTAAAAT
* *
22078678 -AG-AAACAATATATAAAATTTAAGAT
1 AAGTAAATAATA-A-AAAA-TTAAAAT
* *
22078703 AAATAATGATAA-AAAAACTTAAAAT
1 AAGTAA--ATAATAAAAAATTAAAAT
22078728 AAGTAAATAATAAAA
1 AAGTAAATAATAAAA
22078743 GACATAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 18
0.67 0.09 0.24
Matches are distributed among these distances:
23 8 0.16
24 10 0.20
25 21 0.42
26 4 0.08
27 3 0.06
28 1 0.02
29 3 0.06
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.25
Consensus pattern (24 bp):
AAGTAAATAATAAAAAATTAAAAT
Found at i:22078886 original size:15 final size:15
Alignment explanation
Indices: 22078868--22078904 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
22078858 ATAAAAGAGA
22078868 AATAATACTAATAAT
1 AATAATACTAATAAT
22078883 AATAATACTAATAAT
1 AATAATACTAATAAT
22078898 AATAATA
1 AATAATA
22078905 ATAAACCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (15 bp):
AATAATACTAATAAT
Found at i:22078928 original size:3 final size:3
Alignment explanation
Indices: 22078868--22078908 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
22078858 ATAAAAGAGA
* *
22078868 AAT AAT ACT AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22078909 ACCAATTAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22084452 original size:114 final size:114
Alignment explanation
Indices: 22084315--22084539 Score: 441
Period size: 114 Copynumber: 2.0 Consensus size: 114
22084305 AACTTTGGAT
22084315 AATGTTTTAGGGTTTTTCTTTTTTGCATGATTTGTTATGTTAAATTATAATTGAAATAATTTGAA
1 AATGTTTTAGGGTTTTTCTTTTTTGCATGATTTGTTATGTTAAATTATAATTGAAATAATTTGAA
22084380 GAAACAAAACTAAAATGACAGACTATTTTTATAACAAAATTTATTATAA
66 GAAACAAAACTAAAATGACAGACTATTTTTATAACAAAATTTATTATAA
*
22084429 AATGTTTTAGGGTTTTTCTTTTTTGCATGATTTGTTATTTTAAATTATAATTGAAATAATTTGAA
1 AATGTTTTAGGGTTTTTCTTTTTTGCATGATTTGTTATGTTAAATTATAATTGAAATAATTTGAA
22084494 GAAACAAAACTAAAATGACAGACTATTTTTATAACAAAATTTATTA
66 GAAACAAAACTAAAATGACAGACTATTTTTATAACAAAATTTATTA
22084540 GACTCCAAGT
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 110 1.00
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (114 bp):
AATGTTTTAGGGTTTTTCTTTTTTGCATGATTTGTTATGTTAAATTATAATTGAAATAATTTGAA
GAAACAAAACTAAAATGACAGACTATTTTTATAACAAAATTTATTATAA
Found at i:22096320 original size:21 final size:21
Alignment explanation
Indices: 22096296--22096336 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22096286 TGGAACTTAT
22096296 ATTTTTTAAATTTTGAAAATC
1 ATTTTTTAAATTTTGAAAATC
**
22096317 ATTTTTTTTATTTTGAAAAT
1 ATTTTTTAAATTTTGAAAAT
22096337 TTAAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (21 bp):
ATTTTTTAAATTTTGAAAATC
Found at i:22102699 original size:3 final size:3
Alignment explanation
Indices: 22102693--22102724 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
22102683 GTTATAAAAA
22102693 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22102725 ACAGTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22106399 original size:91 final size:91
Alignment explanation
Indices: 22106252--22106459 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
22106242 TTGATTTTAG
* *
22106252 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
22106317 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
22106344 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
22106409 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
22106435 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
22106460 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:22106428 original size:26 final size:28
Alignment explanation
Indices: 22106374--22106434 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
22106364 TATTATCAAG
* *
22106374 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
22106402 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
22106428 AATTATA
1 AATTATA
22106435 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:22106434 original size:44 final size:43
Alignment explanation
Indices: 22106292--22106434 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
22106282 GAATTTTATG
* *
22106292 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
22106336 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
22106383 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
22106427 AAATTATA
1 AAATTATA
22106435 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:22106735 original size:122 final size:123
Alignment explanation
Indices: 22106475--22106889 Score: 739
Period size: 122 Copynumber: 3.4 Consensus size: 123
22106465 AATTATTTTA
*
22106475 AATTTTATTAAGTCATATATTTTAATTAAAATATGTTTAATATTAATTATTTCAAATTATCTTTT
1 AATTTTATTAAGTCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
22106540 ATAGAATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAAGAATTATTAAG
66 ATAGAATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAAGAATTATTAAG
22106598 AATTTTATTAAGTCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
1 AATTTTATTAAGTCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
22106663 ATAG-ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAAGAATTATTAAG
66 ATAGAATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAAGAATTATTAAG
22106720 AATTTTATTAAGTCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
1 AATTTTATTAAGTCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
* *
22106785 ATAGTATCATATATTATGATTTGAGTAAATTTATATAAGAATATT---AATTATTAAG
66 ATAGAATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAAGAATTATTAAG
* * * *
22106840 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
1 AATTTTATTAAGTCATATATTTTAATTAAAATATATTTAATATTAATTAT
22106890 GTTTTTTTTA
Statistics
Matches: 285, Mismatches: 6, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
120 56 0.20
122 122 0.43
123 107 0.38
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (123 bp):
AATTTTATTAAGTCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
ATAGAATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAAGAATTATTAAG
Found at i:22106880 original size:15 final size:15
Alignment explanation
Indices: 22106845--22106886 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22106835 TTAAGAATTT
*
22106845 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22106859 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22106873 TATTTAATAATAAT
1 TATTTAATTATAAT
22106887 TATGTTTTTT
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:22108568 original size:61 final size:61
Alignment explanation
Indices: 22108503--22108690 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
22108493 TTATAGTATC
22108503 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
22108564 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
22108623 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
22108684 ATATATT
1 ATATATT
22108691 TTAATTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 26 0.27
61 36 0.37
62 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:22108590 original size:15 final size:15
Alignment explanation
Indices: 22108555--22108606 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
22108545 TTAAGAATTT
*
22108555 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22108569 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22108583 TATTTAATAATAAT-
1 TATTTAATTATAATA
22108597 TATGTTAATT
1 TAT-TTAATT
22108607 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22108633 original size:120 final size:120
Alignment explanation
Indices: 22108488--22108722 Score: 461
Period size: 120 Copynumber: 2.0 Consensus size: 120
22108478 TTGACGTTCA
22108488 ATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAAT
1 ATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAAT
*
22108553 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTT
66 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATAATGTTAATTT
22108608 ATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAAT
1 ATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAAT
22108673 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATAATGTT
66 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATAATGTT
22108723 TAAATATGAT
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 114 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (120 bp):
ATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAAT
TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATAATGTTAATTT
Found at i:22108710 original size:15 final size:15
Alignment explanation
Indices: 22108675--22108717 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
22108665 TTAAGAATTT
*
22108675 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22108689 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22108703 TATTTAATAATAATA
1 TATTTAATTATAATA
22108718 ATGTTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.32
14 5 0.20
15 12 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22108960 original size:16 final size:16
Alignment explanation
Indices: 22108939--22108992 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
22108929 TTGATTTGCT
22108939 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
22108955 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
22108971 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
22108987 AATACA
1 ATTACA
22108993 GCCATTACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.28, C:0.35, G:0.02, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:22109799 original size:3 final size:3
Alignment explanation
Indices: 22109791--22109818 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22109781 ACACACACAC
22109791 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
22109819 AGTAATTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:22110582 original size:218 final size:218
Alignment explanation
Indices: 22110204--22110645 Score: 884
Period size: 218 Copynumber: 2.0 Consensus size: 218
22110194 AGAGTTCTCT
22110204 GCATAAAAAATGGCTTGTTACGTTGGCTTCTTAGGAATTGCTGTTCTAATTTAGCAATTTAGTTG
1 GCATAAAAAATGGCTTGTTACGTTGGCTTCTTAGGAATTGCTGTTCTAATTTAGCAATTTAGTTG
22110269 TCTTGTTATGTTGTCTGCTGGTGTACTGAGATGAATTTGATGCTGAAATTTTATCTGAATTTTGG
66 TCTTGTTATGTTGTCTGCTGGTGTACTGAGATGAATTTGATGCTGAAATTTTATCTGAATTTTGG
22110334 ATTTGTAAGGGTGCTTGTTGTAATTGAATTTCAGTAGTTTTGTTTTGACAACACTGCTTTATTAA
131 ATTTGTAAGGGTGCTTGTTGTAATTGAATTTCAGTAGTTTTGTTTTGACAACACTGCTTTATTAA
22110399 TAAACTTATTTTGCTTTTCTAAA
196 TAAACTTATTTTGCTTTTCTAAA
22110422 GCATAAAAAATGGCTTGTTACGTTGGCTTCTTAGGAATTGCTGTTCTAATTTAGCAATTTAGTTG
1 GCATAAAAAATGGCTTGTTACGTTGGCTTCTTAGGAATTGCTGTTCTAATTTAGCAATTTAGTTG
22110487 TCTTGTTATGTTGTCTGCTGGTGTACTGAGATGAATTTGATGCTGAAATTTTATCTGAATTTTGG
66 TCTTGTTATGTTGTCTGCTGGTGTACTGAGATGAATTTGATGCTGAAATTTTATCTGAATTTTGG
22110552 ATTTGTAAGGGTGCTTGTTGTAATTGAATTTCAGTAGTTTTGTTTTGACAACACTGCTTTATTAA
131 ATTTGTAAGGGTGCTTGTTGTAATTGAATTTCAGTAGTTTTGTTTTGACAACACTGCTTTATTAA
22110617 TAAACTTATTTTGCTTTTCTAAA
196 TAAACTTATTTTGCTTTTCTAAA
22110640 GCATAA
1 GCATAA
22110646 TATGTTTGTT
Statistics
Matches: 224, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
218 224 1.00
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.45
Consensus pattern (218 bp):
GCATAAAAAATGGCTTGTTACGTTGGCTTCTTAGGAATTGCTGTTCTAATTTAGCAATTTAGTTG
TCTTGTTATGTTGTCTGCTGGTGTACTGAGATGAATTTGATGCTGAAATTTTATCTGAATTTTGG
ATTTGTAAGGGTGCTTGTTGTAATTGAATTTCAGTAGTTTTGTTTTGACAACACTGCTTTATTAA
TAAACTTATTTTGCTTTTCTAAA
Found at i:22112845 original size:117 final size:117
Alignment explanation
Indices: 22112715--22113291 Score: 1091
Period size: 117 Copynumber: 4.9 Consensus size: 117
22112705 TTAATTAAAA
*
22112715 ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAATAAT
1 ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAAT
*
22112780 TTTATTAGATTATATATTTTAATTAAAATATATTTAATAATTATTTCAAATT
66 TTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTTCAAATT
22112832 ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAAT
1 ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAAT
22112897 TTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATT
66 TTTATTAAATTATATATTTTAATTAAAATATA-TT--TAATAATTATTTCAAATT
22112952 ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAAT
1 ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAAT
22113017 TTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTTCAAATT
66 TTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTTCAAATT
22113069 ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAAT
1 ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAAT
*
22113134 TTTATTAAAATATATATTTTAATTAAAATATATTTAATAATTATTTCAAATT
66 TTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTTCAAATT
*
22113186 ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTACTATTAAGAAT
1 ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAAT
22113251 TTTATTAAATTATATATTTTAATTAAAATATATTTAATAAT
66 TTTATTAAATTATATATTTTAATTAAAATATATTTAATAAT
22113292 AATTATGTTA
Statistics
Matches: 452, Mismatches: 5, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
117 333 0.74
118 2 0.00
119 2 0.00
120 115 0.25
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (117 bp):
ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAAT
TTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTTCAAATT
Found at i:22112902 original size:15 final size:16
Alignment explanation
Indices: 22112874--22112903 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22112864 TAAATTCATA
22112874 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
22112890 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
22112904 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:22112923 original size:18 final size:17
Alignment explanation
Indices: 22112895--22112929 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22112885 ATTATTAAGA
*
22112895 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
22112912 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
22112930 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:22113022 original size:15 final size:16
Alignment explanation
Indices: 22112994--22113023 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22112984 TAAATTCATA
22112994 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
22113010 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
22113024 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:22113043 original size:18 final size:17
Alignment explanation
Indices: 22113015--22113049 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22113005 ATTATTAAGA
*
22113015 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
22113032 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
22113050 TTAATAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:22113139 original size:15 final size:16
Alignment explanation
Indices: 22113111--22113140 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22113101 TAAATTCATA
22113111 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
22113127 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
22113141 AAATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:22113168 original size:16 final size:17
Alignment explanation
Indices: 22113132--22113166 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
22113122 ATTATTAAGA
22113132 ATTTTATTAAAATATAT
1 ATTTTATTAAAATATAT
22113149 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
22113167 TTAATAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:22113174 original size:18 final size:18
Alignment explanation
Indices: 22113137--22113176 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22113127 TAAGAATTTT
*
22113137 ATTAAAATATATATTTTA
1 ATTAAAATATATATTATA
22113155 ATTAAAATATAT-TTAATA
1 ATTAAAATATATATT-ATA
22113173 ATTA
1 ATTA
22113177 TTTCAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAAAATATATATTATA
Found at i:22113277 original size:18 final size:17
Alignment explanation
Indices: 22113249--22113283 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22113239 ACTATTAAGA
*
22113249 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
22113266 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
22113284 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:22113297 original size:237 final size:236
Alignment explanation
Indices: 22112715--22113291 Score: 1095
Period size: 237 Copynumber: 2.4 Consensus size: 236
22112705 TTAATTAAAA
*
22112715 ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAATAAT
1 ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAAT
*
22112780 TTTATTAGATTATATATTTTAATTAAAATATATTTAATAATTATTTCAAATTATATTTTATAGTA
66 TTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTTCAAATTATATTTTATAGTA
*
22112845 TCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTAT
131 TCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAAATAT
22112910 ATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATT
196 ATATTTTAATTAAAATATATTT-ATAATAATTATTTCAAATT
22112952 ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAAT
1 ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAAT
22113017 TTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTTCAAATTATATTTTATAGTA
66 TTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTTCAAATTATATTTTATAGTA
22113082 TCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAAATAT
131 TCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAAATAT
22113147 ATATTTTAATTAAAATATA-TT-TAATAATTATTTCAAATT
196 ATATTTTAATTAAAATATATTTATAATAATTATTTCAAATT
*
22113186 ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTACTATTAAGAAT
1 ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAAT
22113251 TTTATTAAATTATATATTTTAATTAAAATATATTTAATAAT
66 TTTATTAAATTATATATTTTAATTAAAATATATTTAATAAT
22113292 AATTATGTTA
Statistics
Matches: 336, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
234 123 0.37
236 2 0.01
237 211 0.63
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (236 bp):
ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAAT
TTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTTCAAATTATATTTTATAGTA
TCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAAATAT
ATATTTTAATTAAAATATATTTATAATAATTATTTCAAATT
Found at i:22113481 original size:39 final size:43
Alignment explanation
Indices: 22113429--22113530 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 43
22113419 TTTCCTTATA
* *
22113429 CTATTACACCTCTATTC-T-ATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCATCATTCAACCAAACAAAAGAATTAC
* *
22113469 C-ATTACGTCTCTATTCCATTCCATTCAACTAAACAAAAGAATTAC
1 CTATTACGCCTCTATT-CA-T-CATTCAACCAAACAAAAGAATTAC
22113514 CTATTACGCCTCTATTC
1 CTATTACGCCTCTATTC
22113531 CATTACGCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
39 12 0.24
40 2 0.04
42 1 0.02
44 17 0.34
45 5 0.10
46 13 0.26
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.31
Consensus pattern (43 bp):
CTATTACGCCTCTATTCATCATTCAACCAAACAAAAGAATTAC
Found at i:22113497 original size:44 final size:46
Alignment explanation
Indices: 22113442--22113534 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 46
22113432 TTACACCTCT
* * *
22113442 ATTCTATTCAACCAAACACAAGAA-TACC-ATTACGTCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
*
22113486 ATTCCATTCAACTAAACAAAAGAATTACCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
22113532 ATT
1 ATT
22113535 ACGCATCTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 21 0.49
45 4 0.09
46 18 0.42
ACGTcount: A:0.37, C:0.28, G:0.04, T:0.31
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:22113537 original size:16 final size:16
Alignment explanation
Indices: 22113516--22113568 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
22113506 AGAATTACCT
22113516 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
* *
22113532 ATTACGCATCTATTCA
1 ATTACGCCTCTATTCC
*
22113548 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
22113564 ATTAC
1 ATTAC
22113569 AGCGAACCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.26, C:0.32, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:22118691 original size:36 final size:36
Alignment explanation
Indices: 22118651--22118723 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
22118641 AATTGTGTAC
*
22118651 TTTGAATGGATGCAATTCTAACATTAGTAGGGAGGA
1 TTTGAATGGATGCAATTCTAAAATTAGTAGGGAGGA
22118687 TTTGAATGGATGCAATTCTAAAATTAGTAGGGAGGA
1 TTTGAATGGATGCAATTCTAAAATTAGTAGGGAGGA
22118723 T
1 T
22118724 CTCGTGACCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (36 bp):
TTTGAATGGATGCAATTCTAAAATTAGTAGGGAGGA
Found at i:22122906 original size:17 final size:18
Alignment explanation
Indices: 22122873--22122906 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22122863 ATGTTGTGCC
*
22122873 AAACTATTTTTGTGCTTG
1 AAACTATTTTGGTGCTTG
22122891 AAACTA-TTTGGTGCTT
1 AAACTATTTTGGTGCTT
22122907 ATCATTCTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.47
Consensus pattern (18 bp):
AAACTATTTTGGTGCTTG
Found at i:22126217 original size:12 final size:12
Alignment explanation
Indices: 22126200--22126226 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22126190 GGGAAACCCT
22126200 AAAACACAACAA
1 AAAACACAACAA
22126212 AAAACACAACAA
1 AAAACACAACAA
22126224 AAA
1 AAA
22126227 GAGAACAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAACACAACAA
Found at i:22136966 original size:18 final size:19
Alignment explanation
Indices: 22136943--22136982 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
22136933 ACGCCTTTTT
22136943 TTACATT-CATGCAT-TGCA
1 TTACATTGCAT-CATATGCA
22136961 TTACATTGCATCATATGCA
1 TTACATTGCATCATATGCA
22136980 TTA
1 TTA
22136983 TGGTCCACCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (19 bp):
TTACATTGCATCATATGCA
Found at i:22145629 original size:132 final size:132
Alignment explanation
Indices: 22145392--22145768 Score: 567
Period size: 132 Copynumber: 2.9 Consensus size: 132
22145382 CAAATCAGTA
* * *
22145392 AAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGGCAGCAAATCTTATCTTT
1 AAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTT
* * *
22145457 CAAAGATAGTGGGAAGCAAATTTAAGCCACCAAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTATCTCCCTGAGCAACAGCGGAGTAGGT
22145522 TG
131 TG
* *
22145524 AAGATTGCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCAAAGACGGCAAATATTATCTTT
1 AAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTT
*
22145589 CCAAGATAGTGGGAAGTAGATTTAAGCCACCAAGCCTTATCTCTCC-GAGCAACAGCGGAGTAGG
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTATCTC-CCTGAGCAACAGCGGAGTAGG
22145653 TTG
130 TTG
** * * *
22145656 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCATATCAAAGACGGAAAATCTTATCATT
1 AAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTT
* * * * *
22145721 CCAAGATAGTGGGAAGCAGGTTTAAGTCACCGAGCCCTGTCTCCCTGA
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTATCTCCCTGA
22145769 TGTTGCAGTG
Statistics
Matches: 221, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
131 2 0.01
132 217 0.98
133 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (132 bp):
AAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTT
CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTATCTCCCTGAGCAACAGCGGAGTAGGT
TG
Found at i:22149754 original size:17 final size:16
Alignment explanation
Indices: 22149732--22149771 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
22149722 TCCCTCTTCC
22149732 CTCATCTCATCATCCCT
1 CTCATCTCATCAT-CCT
22149749 CTCATCTC-TCATCCT
1 CTCATCTCATCATCCT
22149764 CTC-TCTCA
1 CTCATCTCA
22149772 ACTCTCATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 6 0.27
16 4 0.18
17 8 0.36
ACGTcount: A:0.15, C:0.47, G:0.00, T:0.38
Consensus pattern (16 bp):
CTCATCTCATCATCCT
Found at i:22149758 original size:19 final size:19
Alignment explanation
Indices: 22149736--22149779 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
22149726 TCTTCCCTCA
*
22149736 TCTCATCATCCCTCTCATC
1 TCTCATCATCCCTCTCAAC
* *
22149755 TCTCATCCTCTCTCTCAAC
1 TCTCATCATCCCTCTCAAC
22149774 TCTCAT
1 TCTCAT
22149780 AGCTCTCACG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.16, C:0.45, G:0.00, T:0.39
Consensus pattern (19 bp):
TCTCATCATCCCTCTCAAC
Found at i:22160697 original size:16 final size:17
Alignment explanation
Indices: 22160672--22160706 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
22160662 AGTTTTTGAA
22160672 TCATCCCTCATCC-CTC
1 TCATCCCTCATCCTCTC
*
22160688 TCATCTCTCATCCTCTC
1 TCATCCCTCATCCTCTC
22160705 TC
1 TC
22160707 TCAACTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.11, C:0.51, G:0.00, T:0.37
Consensus pattern (17 bp):
TCATCCCTCATCCTCTC
Found at i:22169351 original size:21 final size:21
Alignment explanation
Indices: 22169325--22169365 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22169315 AGCATATAAA
22169325 TTATAACTTATAATTATTTTT
1 TTATAACTTATAATTATTTTT
* *
22169346 TTATAATTTTTAATTATTTT
1 TTATAACTTATAATTATTTT
22169366 CCAAAGTCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTATAACTTATAATTATTTTT
Found at i:22175979 original size:4 final size:4
Alignment explanation
Indices: 22175970--22176010 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
22175960 TTGCTTGTAT
*
22175970 ATAA ATAA ATAA ATAAA ATGA A-AA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA A
22176011 GGCTCAAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 2 0.06
4 27 0.82
5 4 0.12
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:22177653 original size:12 final size:12
Alignment explanation
Indices: 22177636--22177660 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22177626 ATAGGAATGC
22177636 AATTTCAAATTT
1 AATTTCAAATTT
22177648 AATTTCAAATTT
1 AATTTCAAATTT
22177660 A
1 A
22177661 TTGAATTATT
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (12 bp):
AATTTCAAATTT
Found at i:22182958 original size:60 final size:60
Alignment explanation
Indices: 22182865--22182984 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
22182855 ATAAGTATGG
*
22182865 TTACACAGCCAAGTCACACGCCCGTGTGCATAGAATCTACAGGGGACACACGACTGTGTC
1 TTACACAGCCAAGTCACACGCCCGTGTGCATAGAACCTACAGGGGACACACGACTGTGTC
* *
22182925 TTACACAGCCAAGTCACACGCCTGTGTGCATAGAACCTACAGGGGACACACGATTGTGTC
1 TTACACAGCCAAGTCACACGCCCGTGTGCATAGAACCTACAGGGGACACACGACTGTGTC
22182985 ACACGCCCGT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.19
Consensus pattern (60 bp):
TTACACAGCCAAGTCACACGCCCGTGTGCATAGAACCTACAGGGGACACACGACTGTGTC
Found at i:22191195 original size:43 final size:43
Alignment explanation
Indices: 22191132--22191221 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
22191122 AGCCACAGTA
* *
22191132 GTGTCGCATAGCCGTATGTCACACATGG-TAAAGACTCACGCCC
1 GTGTCGCATAGCAGTATGTCACACACGGCT-AAGACTCACGCCC
* * *
22191175 GTGTCGCATGGCAGTGTGTCACACACGGCTAAGACTCACGGCC
1 GTGTCGCATAGCAGTATGTCACACACGGCTAAGACTCACGCCC
22191218 GTGT
1 GTGT
22191222 TGTAGGCCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
43 40 0.98
44 1 0.02
ACGTcount: A:0.22, C:0.29, G:0.28, T:0.21
Consensus pattern (43 bp):
GTGTCGCATAGCAGTATGTCACACACGGCTAAGACTCACGCCC
Found at i:22193226 original size:45 final size:45
Alignment explanation
Indices: 22193162--22193515 Score: 307
Period size: 45 Copynumber: 7.9 Consensus size: 45
22193152 TTTATTCTCG
** * * *** * *
22193162 TCTTGATGCCATAGTGTCTTCCAACCATGGTCTTATTTTTTTGAT
1 TCTTGATGCCATAACGTCTTTCAACCATGGTCTTACTCGATAGAA
* *
22193207 TCTTGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAA
1 TCTTGATGCCATAACGTCTTTCAACCATGGTCTTACTCGATAGAA
* * *
22193252 TCATGATGCCGTAACGTCTTTCAATCATGGTCTTACTCGATAGAA
1 TCTTGATGCCATAACGTCTTTCAACCATGGTCTTACTCGATAGAA
* * ** * * * *
22193297 T-TATGATGCCGTAACATCTTTCATTCATGGTGTTACTTGTTAAAA
1 TCT-TGATGCCATAACGTCTTTCAACCATGGTCTTACTCGATAGAA
* * ** *
22193342 TCGTGATGGCATAACGTCTTTCAGTCATGGTCTTACTCAATAGAA
1 TCTTGATGCCATAACGTCTTTCAACCATGGTCTTACTCGATAGAA
* * ** *
22193387 TCGTGATGCCATAATGTCTTTCAGTCATGGTTTTACTCGATAGAA
1 TCTTGATGCCATAACGTCTTTCAACCATGGTCTTACTCGATAGAA
* * *
22193432 T-TGTGATGCCATAACATCTTTCAATCATGGTCTTACTCGTTAGAA
1 TCT-TGATGCCATAACGTCTTTCAACCATGGTCTTACTCGATAGAA
* * * ** *
22193477 TCGTGATGCCATGACTTCTTTCAGTCATGGTCTTTCTCG
1 TCTTGATGCCATAACGTCTTTCAACCATGGTCTTACTCG
22193516 TTTTTGGTAT
Statistics
Matches: 257, Mismatches: 48, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
45 257 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (45 bp):
TCTTGATGCCATAACGTCTTTCAACCATGGTCTTACTCGATAGAA
Found at i:22193375 original size:135 final size:135
Alignment explanation
Indices: 22193210--22193515 Score: 452
Period size: 135 Copynumber: 2.3 Consensus size: 135
22193200 TTTTGATTCT
*
22193210 TGATGCCATAACGTCTTTCAG-CTATGGTCTTACTCGATAGAATCATGATGCCGTAACGTCTTTC
1 TGATGCCATAACGTCTTTCAGTC-ATGGTCTTACTCGATAGAATCATGATGCCATAACGTCTTTC
* * * *
22193274 AATCATGGTCTTACTCGATAGAATTATGATGCCGTAACATCTTTCATTCATGGTGTTACTTGTTA
65 AATCATGGTCTTACTCGATAGAATTATGATGCCATAACATCTTTCAATCATGGTCTTACTCGTTA
22193339 AAATCG
130 AAATCG
* * * *
22193345 TGATGGCATAACGTCTTTCAGTCATGGTCTTACTCAATAGAATCGTGATGCCATAATGTCTTTCA
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCATGATGCCATAACGTCTTTCA
* * * *
22193410 GTCATGGTTTTACTCGATAGAATTGTGATGCCATAACATCTTTCAATCATGGTCTTACTCGTTAG
66 ATCATGGTCTTACTCGATAGAATTATGATGCCATAACATCTTTCAATCATGGTCTTACTCGTTAA
22193475 AATCG
131 AATCG
* * *
22193480 TGATGCCATGACTTCTTTCAGTCATGGTCTTTCTCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCG
22193516 TTTTTGGTAT
Statistics
Matches: 152, Mismatches: 18, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
135 151 0.99
136 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (135 bp):
TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCATGATGCCATAACGTCTTTCA
ATCATGGTCTTACTCGATAGAATTATGATGCCATAACATCTTTCAATCATGGTCTTACTCGTTAA
AATCG
Found at i:22193517 original size:45 final size:45
Alignment explanation
Indices: 22193210--22193515 Score: 389
Period size: 45 Copynumber: 6.8 Consensus size: 45
22193200 TTTTGATTCT
*
22193210 TGATGCCATAACGTCTTTCAG-CTATGGTCTTACTCGATAGAATCA
1 TGATGCCATAACGTCTTTCAGTC-ATGGTCTTACTCGATAGAATCG
* * **
22193255 TGATGCCGTAACGTCTTTCAATCATGGTCTTACTCGATAGAATTA
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
* * * * * * *
22193300 TGATGCCGTAACATCTTTCATTCATGGTGTTACTTGTTAAAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
* *
22193345 TGATGGCATAACGTCTTTCAGTCATGGTCTTACTCAATAGAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
* * *
22193390 TGATGCCATAATGTCTTTCAGTCATGGTTTTACTCGATAGAATTG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
* * *
22193435 TGATGCCATAACATCTTTCAATCATGGTCTTACTCGTTAGAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
* * *
22193480 TGATGCCATGACTTCTTTCAGTCATGGTCTTTCTCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCG
22193516 TTTTTGGTAT
Statistics
Matches: 225, Mismatches: 35, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
45 224 1.00
46 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
Found at i:22199248 original size:45 final size:45
Alignment explanation
Indices: 22199194--22199498 Score: 373
Period size: 45 Copynumber: 6.8 Consensus size: 45
22199184 GTTTGATTCC
* * * *
22199194 TGATACCATAGCGTGTTTCAG-CTATGGTCTTGCTCGATAGAATCG
1 TGATGCCATAACGTCTTTCAGTC-ATGGTCTTACTCGATAGAATCG
** * * * *
22199239 CCATGCCATAACGTTTTTCAATCGTGGTCTTACTCGATAGAATTG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
* * *
22199284 TGATGCCATAACGTCTTTCACTCATGGTCTTACTCGTTAGAATTG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
*
22199329 TGATGCCATAACATCTTTCAGTCATGGTCTTACTCGATAGAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
*
22199374 TGATGCCATAATGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
* ** *
22199419 TTATGCCATAACACCTTTTAGTCATGGTCTTACTC-ATTAGAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGA-TAGAATCG
* *
22199464 TGGTGCCATAACTTC-TTCTAGTCATGGTCTTACTC
1 TGATGCCATAACGTCTTTC-AGTCATGGTCTTACTC
22199499 ATTTCTAGTA
Statistics
Matches: 226, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
44 3 0.01
45 222 0.98
46 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
Found at i:22200321 original size:80 final size:80
Alignment explanation
Indices: 22200188--22200351 Score: 310
Period size: 80 Copynumber: 2.0 Consensus size: 80
22200178 GTGCTAGCTG
22200188 GACCAAGTTGCAACGATTTCAAAAACATAAAATTTACTAGAAATAAACTCAAAAAGAATACCATG
1 GACCAAGTTGCAACGATTTCAAAAACATAAAATTTACTAGAAATAAACTCAAAAAGAATACCATG
22200253 CATGCTCCAAAAGAA
66 CATGCTCCAAAAGAA
22200268 GACCAAGTTGCAACGATTTCAAAAACATAAAATTTACTAGAAATAAACTCAAAAAGAATACCATG
1 GACCAAGTTGCAACGATTTCAAAAACATAAAATTTACTAGAAATAAACTCAAAAAGAATACCATG
* *
22200333 CTTGCTCTAAAAGAA
66 CATGCTCCAAAAGAA
22200348 GACC
1 GACC
22200352 GAATGCTCAA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.21
Consensus pattern (80 bp):
GACCAAGTTGCAACGATTTCAAAAACATAAAATTTACTAGAAATAAACTCAAAAAGAATACCATG
CATGCTCCAAAAGAA
Found at i:22207074 original size:41 final size:41
Alignment explanation
Indices: 22207029--22207110 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
22207019 ACATTGCATG
22207029 ATGCCAACCTAAATTGTAGACAGAAAACCCTTGAGTTGAAA
1 ATGCCAACCTAAATTGTAGACAGAAAACCCTTGAGTTGAAA
22207070 ATGCCAACCTAAATTGTAGACAGAAAACCCTTGAGTTGAAA
1 ATGCCAACCTAAATTGTAGACAGAAAACCCTTGAGTTGAAA
22207111 TGTGAAAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (41 bp):
ATGCCAACCTAAATTGTAGACAGAAAACCCTTGAGTTGAAA
Found at i:22209874 original size:22 final size:22
Alignment explanation
Indices: 22209846--22209891 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
22209836 ACCGGTAGAG
22209846 TTAGAAAGAATTCATAATGTGT
1 TTAGAAAGAATTCATAATGTGT
22209868 TTAGAAAGAATTCATAATGTGT
1 TTAGAAAGAATTCATAATGTGT
22209890 TT
1 TT
22209892 CATGTATCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.39
Consensus pattern (22 bp):
TTAGAAAGAATTCATAATGTGT
Found at i:22216700 original size:45 final size:44
Alignment explanation
Indices: 22216606--22216767 Score: 182
Period size: 45 Copynumber: 3.6 Consensus size: 44
22216596 TTGGAAATAT
* * * ** **
22216606 AGGTGGATGCTATGTGCTGATTCCACCCGATATTAATGAAAATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCGGATACCAATG-GTATAA
*
22216651 AGGTGGTTGCTATGTGCTGATTTCACCGGATACCAATGGTTATAT
1 AGGTGGTTGCTATGTGCTGATTTCACCGGATACCAATGG-TATAA
* * * *
22216696 AGGTGGTTGCTATGTGTTGATTTTACCAGG-TACCATTAGTATAA
1 AGGTGGTTGCTATGTGCTGATTTCACC-GGATACCAATGGTATAA
22216740 AGGTGGTTGCTATGTGCTGATTTCACCG
1 AGGTGGTTGCTATGTGCTGATTTCACCG
22216768 AGTACTATTG
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.01
44 29 0.29
45 68 0.68
46 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.35
Consensus pattern (44 bp):
AGGTGGTTGCTATGTGCTGATTTCACCGGATACCAATGGTATAA
Found at i:22221297 original size:30 final size:30
Alignment explanation
Indices: 22221057--22221293 Score: 169
Period size: 30 Copynumber: 8.0 Consensus size: 30
22221047 ATGCTTGACA
* * * * *
22221057 CATCCTTTTTCTTTATTCGATAGCTGAGGC
1 CATCCCTTTTCATAATTCGATAGCCGAAGC
* * * * *
22221087 TATCCATTTTCATAATTTGATAACCGAAAC
1 CATCCCTTTTCATAATTCGATAGCCGAAGC
* *
22221117 TATCCCTTTTCATAATTTGATAGCCGAAGC
1 CATCCCTTTTCATAATTCGATAGCCGAAGC
* *
22221147 CATCCCTTTTCATGA-TCGATAACCGAAGC
1 CATCCCTTTTCATAATTCGATAGCCGAAGC
* * * * *
22221176 CACCCCTTTTCATAGTTCGATGGTCGTCA-C
1 CATCCCTTTTCATAATTCGATAGCCG-AAGC
* * * * *
22221206 CATCCCCTTCCATAATT-GATGGTCGTCA-C
1 CATCCCTTTTCATAATTCGATAGCCG-AAGC
**
22221235 CATCCCTTTTCATAA-TCGATAGTTGAAGC
1 CATCCCTTTTCATAATTCGATAGCCGAAGC
* *
22221264 TATCCCTTTTCATAGTTCGATAGCCGAAGC
1 CATCCCTTTTCATAATTCGATAGCCGAAGC
22221294 TATCTCATTT
Statistics
Matches: 166, Mismatches: 36, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
28 2 0.01
29 69 0.42
30 94 0.57
31 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (30 bp):
CATCCCTTTTCATAATTCGATAGCCGAAGC
Found at i:22227828 original size:20 final size:20
Alignment explanation
Indices: 22227803--22227841 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
22227793 TACTTTCTTT
22227803 TTTACTTACTCT-CTTACTTC
1 TTTACTTACT-TGCTTACTTC
22227823 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
22227842 AAAAAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.26, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTC
Found at i:22228098 original size:49 final size:51
Alignment explanation
Indices: 22228037--22228182 Score: 156
Period size: 56 Copynumber: 2.8 Consensus size: 51
22228027 TGATAATAAC
* * *
22228037 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-T-TC-C-TG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTATATCTCAAG
* *
22228084 TACTGCCAATGCCATGTCCAAGACATGATCTTACATGGGACCTCTCATAATCTCAAAG
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--TCT-AT-ATCTC-AAG
22228142 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCT
22228183 CATTGCCTTA
Statistics
Matches: 81, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
48 1 0.01
49 34 0.42
51 2 0.02
53 1 0.01
54 3 0.04
55 2 0.02
56 36 0.44
57 1 0.01
58 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (51 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTATATCTCAAG
Found at i:22231691 original size:29 final size:30
Alignment explanation
Indices: 22231564--22231718 Score: 122
Period size: 29 Copynumber: 5.3 Consensus size: 30
22231554 CTCTTTTAAA
*
22231564 AATTTGATGGT-GATCACCATCCCTTTTCAT
1 AATTCGATGGTCG-TCACCATCCCTTTTCAT
** * * *
22231594 TGTTCAATGGGCGTCGCCATCCC-TTTCAT
1 AATTCGATGGTCGTCACCATCCCTTTTCAT
* * * ***
22231623 AATTTGCTAG-CCAAAGCCATCCCTTTTCAT
1 AATTCGATGGTCGTCA-CCATCCCTTTTCAT
* *
22231653 AGTTCGATGGTCGTCACCATCCCTTTCCAT
1 AATTCGATGGTCGTCACCATCCCTTTTCAT
*
22231683 AATT-GATGGTCGTCACCTTCCCTTTTCAT
1 AATTCGATGGTCGTCACCATCCCTTTTCAT
22231712 AA-TCGAT
1 AATTCGAT
22231719 AGCCGAAGCT
Statistics
Matches: 93, Mismatches: 27, Indels: 11
0.71 0.21 0.08
Matches are distributed among these distances:
28 2 0.02
29 45 0.48
30 43 0.46
31 3 0.03
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (30 bp):
AATTCGATGGTCGTCACCATCCCTTTTCAT
Found at i:22231705 original size:59 final size:57
Alignment explanation
Indices: 22231567--22231712 Score: 152
Period size: 59 Copynumber: 2.5 Consensus size: 57
22231557 TTTTAAAAAT
* *
22231567 TTGATGGTGATCACCATCCCTTTTCATTGTTCAATGGGCGTCGCCATCCCTTTCATAA
1 TTGATGGTG-TCACCATCCCTTTTCATAGTTCAATGGGCGTCACCATCCCTTTCATAA
* * * *
22231625 TT--TGCTAGCCAAAGCCATCCCTTTTCATAGTTCGATGGTCGTCACCATCCCTTTCCATAA
1 TTGATGGT-GTC--A-CCATCCCTTTTCATAGTTCAATGGGCGTCACCATCCCTTT-CATAA
*
22231685 TTGATGGTCGTCACCTTCCCTTTTCATA
1 TTGATGGT-GTCACCATCCCTTTTCATA
22231713 ATCGATAGCC
Statistics
Matches: 71, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
56 4 0.06
57 1 0.01
58 3 0.04
59 50 0.70
60 8 0.11
62 5 0.07
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.36
Consensus pattern (57 bp):
TTGATGGTGTCACCATCCCTTTTCATAGTTCAATGGGCGTCACCATCCCTTTCATAA
Found at i:22259385 original size:117 final size:117
Alignment explanation
Indices: 22259179--22259389 Score: 345
Period size: 117 Copynumber: 1.8 Consensus size: 117
22259169 TTTGGTTTGT
* *
22259179 TGGTTATTTGAGATTTATTATTGCAATTTCAATGCCACAATGTAGGGTTTGTTTTGTTGATTTGT
1 TGGTTATTTGAGATTTATTATTGCAATCTCAATGCCACAATGTAGGGTTTGTTTTGTCGATTTGT
*
22259244 GATGCGACAGTGGTCCCGATGTTGTTGATAAAGCTGTTGTTAAAATTGTATA
66 GATGCAACAGTGGTCCCGATGTTGTTGATAAAGCTGTTGTTAAAATTGTATA
* *
22259296 TGGTTATTTGTGATTTATTATTGCAAATCT-AGTGCCACAATGTAGGGTTTGTTTTGTCGATTTG
1 TGGTTATTTGAGATTTATTATTGC-AATCTCAATGCCACAATGTAGGGTTTGTTTTGTCGATTTG
22259360 TGATGCAACAGTGGTCTCC-ATGTTGTTGAT
65 TGATGCAACAGTGGTC-CCGATGTTGTTGAT
22259390 TTCTGTTATT
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
117 81 0.93
118 6 0.07
ACGTcount: A:0.22, C:0.10, G:0.24, T:0.43
Consensus pattern (117 bp):
TGGTTATTTGAGATTTATTATTGCAATCTCAATGCCACAATGTAGGGTTTGTTTTGTCGATTTGT
GATGCAACAGTGGTCCCGATGTTGTTGATAAAGCTGTTGTTAAAATTGTATA
Found at i:22259941 original size:33 final size:33
Alignment explanation
Indices: 22259897--22260039 Score: 105
Period size: 33 Copynumber: 4.3 Consensus size: 33
22259887 TGTTAACTGT
22259897 TGGGGAAGGTGATGTTGAAGGGGTAGAAGT-TGA
1 TGGGGAAGGTGATGTTGAAGGGGTAGAA-TATGA
* * *
22259930 TGGGGATGGTGATGATT-AATGGTTAGAATATGA
1 TGGGGAAGGTGATG-TTGAAGGGGTAGAATATGA
* * * ** * *
22259963 TGGTGAAGGTGATCTCGAAATGGTAGAATCTGT
1 TGGGGAAGGTGATGTTGAAGGGGTAGAATATGA
* *
22259996 TGGGGAGGGTGATGTATG-AGGGGTACAAGT-TGA
1 TGGGGAAGGTGATGT-TGAAGGGGTAGAA-TATGA
*
22260029 TGGGGAGGGTG
1 TGGGGAAGGTG
22260040 TGTCTACTAT
Statistics
Matches: 85, Mismatches: 20, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
32 2 0.02
33 79 0.93
34 4 0.05
ACGTcount: A:0.26, C:0.03, G:0.44, T:0.27
Consensus pattern (33 bp):
TGGGGAAGGTGATGTTGAAGGGGTAGAATATGA
Found at i:22269208 original size:27 final size:27
Alignment explanation
Indices: 22269170--22269234 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
22269160 CTATTGGGCT
* * *
22269170 CCTTCAATTGTGACGACTTTTAGTATG
1 CCTTGAATTGTGACGACTTTCAATATG
*
22269197 CCTTGAATTGTGATGACTTTCAATATG
1 CCTTGAATTGTGACGACTTTCAATATG
*
22269224 TCTTGAATTGT
1 CCTTGAATTGT
22269235 CTCTTCATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.43
Consensus pattern (27 bp):
CCTTGAATTGTGACGACTTTCAATATG
Found at i:22274132 original size:48 final size:47
Alignment explanation
Indices: 22274063--22274193 Score: 192
Period size: 48 Copynumber: 2.8 Consensus size: 47
22274053 AGTAATGTAG
* * *
22274063 ATAAACTG-CAACTTAATAATATCGTGGACAAGCCATAAATTTTACAT
1 ATAAACTGTC-ACATAAAAATATCGTGGACAAGCCACAAATTTTACAT
*
22274110 ATAAAACTGTCACATAAAAATATCGTGGACAAGCCACAAATTTTGCAT
1 AT-AAACTGTCACATAAAAATATCGTGGACAAGCCACAAATTTTACAT
*
22274158 ATAAACTGTCACATAAAAATATCGTGGACAATCCAC
1 ATAAACTGTCACATAAAAATATCGTGGACAAGCCAC
22274194 CACTTTTGTA
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
47 35 0.45
48 41 0.53
49 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (47 bp):
ATAAACTGTCACATAAAAATATCGTGGACAAGCCACAAATTTTACAT
Found at i:22274182 original size:47 final size:47
Alignment explanation
Indices: 22274063--22274218 Score: 197
Period size: 47 Copynumber: 3.3 Consensus size: 47
22274053 AGTAATGTAG
* * * *
22274063 ATAAACTG-CAACTTAATAATATCGTGGACAAGCCATAAATTTTACAT
1 ATAAACTGTC-ACATAAAAATATCGTGGACAAGCCACAAATTTTGCAT
22274110 ATAAAACTGTCACATAAAAATATCGTGGACAAGCCACAAATTTTGCAT
1 AT-AAACTGTCACATAAAAATATCGTGGACAAGCCACAAATTTTGCAT
* * * * *
22274158 ATAAACTGTCACATAAAAATATCGTGGACAATCCACCACTTTTGTAG
1 ATAAACTGTCACATAAAAATATCGTGGACAAGCCACAAATTTTGCAT
*
22274205 ATAAACTGCCACAT
1 ATAAACTGTCACAT
22274219 CTTTCACCTT
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
47 55 0.57
48 41 0.42
49 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.27
Consensus pattern (47 bp):
ATAAACTGTCACATAAAAATATCGTGGACAAGCCACAAATTTTGCAT
Found at i:22280660 original size:47 final size:47
Alignment explanation
Indices: 22280591--22280728 Score: 197
Period size: 47 Copynumber: 2.9 Consensus size: 47
22280581 AAGGTGGAAA
* * *
22280591 ATGTGGCAGTTTATTTGCAAAAGTGGTGGCTTGTCCACGATACTTT-T
1 ATGTGACAGTTTATTTGCAAAAGTGGTGGCTTGTCCACAATA-TTTCC
* *
22280638 ATGTGACAGTTTATATGCAAAAGTAGTGGCTTGTCCACAATATTTCC
1 ATGTGACAGTTTATTTGCAAAAGTGGTGGCTTGTCCACAATATTTCC
* *
22280685 ATGTGACACTTTATTTGCAAAAGTGGTGGCTTGTCCATAATATT
1 ATGTGACAGTTTATTTGCAAAAGTGGTGGCTTGTCCACAATATT
22280729 ATTAATTTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 3 0.04
47 78 0.96
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (47 bp):
ATGTGACAGTTTATTTGCAAAAGTGGTGGCTTGTCCACAATATTTCC
Found at i:22282928 original size:22 final size:23
Alignment explanation
Indices: 22282902--22282957 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
22282892 ATTATATGTA
* *
22282902 TTAATTCATAATATAA-TTAATT
1 TTAATTTATAATACAATTTAATT
*
22282924 TTAATTTAT-ATCCAATTTAATT
1 TTAATTTATAATACAATTTAATT
22282946 TTAATTTATAAT
1 TTAATTTATAAT
22282958 TGTTAGGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.14
22 23 0.79
23 2 0.07
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAATTTATAATACAATTTAATT
Found at i:22283569 original size:18 final size:19
Alignment explanation
Indices: 22283541--22283577 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
22283531 TTAATCACCC
22283541 TCTTCCAGCAAAGTATTTT
1 TCTTCCAGCAAAGTATTTT
*
22283560 TCTT-CAGCAAAGTGTTTT
1 TCTTCCAGCAAAGTATTTT
22283578 AAATAGCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (19 bp):
TCTTCCAGCAAAGTATTTT
Found at i:22284830 original size:21 final size:21
Alignment explanation
Indices: 22284804--22284845 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
22284794 TTGAAAATGG
22284804 TTTATTATATAGTTTTCATGC
1 TTTATTATATAGTTTTCATGC
22284825 TTTATTATATAGTTTTCATGC
1 TTTATTATATAGTTTTCATGC
22284846 AATAAATGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.57
Consensus pattern (21 bp):
TTTATTATATAGTTTTCATGC
Found at i:22292186 original size:19 final size:19
Alignment explanation
Indices: 22292162--22292231 Score: 59
Period size: 19 Copynumber: 3.4 Consensus size: 19
22292152 ATGTAATTTG
22292162 TTAAGAAGAAATTTTCTAA
1 TTAAGAAGAAATTTTCTAA
** *
22292181 TTAAGAATTAATTTAATGTAA
1 TTAAGAAGAAATTT--TCTAA
22292202 TTTGTTAAGAAGAAATTTTCTAA
1 ----TTAAGAAGAAATTTTCTAA
22292225 TTAAGAA
1 TTAAGAA
22292232 TTAATTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
19 19 0.49
21 4 0.10
23 4 0.10
25 12 0.31
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (19 bp):
TTAAGAAGAAATTTTCTAA
Found at i:22292193 original size:44 final size:44
Alignment explanation
Indices: 22292141--22292238 Score: 196
Period size: 44 Copynumber: 2.2 Consensus size: 44
22292131 CCTTTCTTGG
22292141 GAATTAATTTAATGTAATTTGTTAAGAAGAAATTTTCTAATTAA
1 GAATTAATTTAATGTAATTTGTTAAGAAGAAATTTTCTAATTAA
22292185 GAATTAATTTAATGTAATTTGTTAAGAAGAAATTTTCTAATTAA
1 GAATTAATTTAATGTAATTTGTTAAGAAGAAATTTTCTAATTAA
22292229 GAATTAATTT
1 GAATTAATTT
22292239 TTTTTCACTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (44 bp):
GAATTAATTTAATGTAATTTGTTAAGAAGAAATTTTCTAATTAA
Found at i:22292218 original size:25 final size:25
Alignment explanation
Indices: 22292146--22292219 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
22292136 CTTGGGAATT
22292146 AATTTAATGTAATTTGTTAAGAAGA
1 AATTTAATGTAATTTGTTAAGAAGA
* **
22292171 AATTT--TCTAA----TTAAGAATT
1 AATTTAATGTAATTTGTTAAGAAGA
22292190 AATTTAATGTAATTTGTTAAGAAGA
1 AATTTAATGTAATTTGTTAAGAAGA
22292215 AATTT
1 AATTT
22292220 TCTAATTAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
19 12 0.32
21 4 0.11
23 4 0.11
25 17 0.46
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.43
Consensus pattern (25 bp):
AATTTAATGTAATTTGTTAAGAAGA
Found at i:22292237 original size:19 final size:19
Alignment explanation
Indices: 22292171--22292239 Score: 57
Period size: 19 Copynumber: 3.3 Consensus size: 19
22292161 GTTAAGAAGA
22292171 AATTTTCTAATTAAGAATT
1 AATTTTCTAATTAAGAATT
* **
22292190 AATTTAATGTAATTTGTTAAGAAGA
1 AATTT--TCTAA----TTAAGAATT
22292215 AATTTTCTAATTAAGAATT
1 AATTTTCTAATTAAGAATT
22292234 AATTTT
1 AATTTT
22292240 TTTTCACTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
19 18 0.47
21 4 0.11
23 4 0.11
25 12 0.32
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (19 bp):
AATTTTCTAATTAAGAATT
Found at i:22294071 original size:22 final size:23
Alignment explanation
Indices: 22294028--22294073 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
22294018 TTTTAGGTCT
*
22294028 TTAGGAATTTATTTCTTTCATAA
1 TTAGGAATTTATTTCTTGCATAA
22294051 TTAGG-ATTTAATTTC-TGCATAA
1 TTAGGAATTT-ATTTCTTGCATAA
22294073 T
1 T
22294074 AAAACATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (23 bp):
TTAGGAATTTATTTCTTGCATAA
Found at i:22296787 original size:50 final size:50
Alignment explanation
Indices: 22296672--22296900 Score: 169
Period size: 50 Copynumber: 4.5 Consensus size: 50
22296662 TAAAGTCATA
** * * * * * *
22296672 TCCCAGACATGGTCTTACATGGGATGTTTCCTACAT--TACAAATGTCATA
1 TCCCAGACATGGTCTTACATGGGACCTCTCATA-ATGATGCCAATGCCATG
* ** * *
22296721 TCCCAGATATGGTCTTACATGGGAGTTCTCATATTGATGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATAATGATGCCAATGCCATG
** * *
22296771 TCCCAGACATGGTCTTACGGGGGACCTCTCAT-CTCAGTGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATAATGA-TGCCAATGCCATG
* * *
22296821 TCCCAGGA-ATGGTCTTACGTGGGACCTCTCATAACCCCAATGATGCTAATGTCATG
1 TCCCA-GACATGGTCTTACATGGGACCTCTCAT------AATGATGCCAATGCCATG
22296877 TCCCAGACATGGTCTTACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
22296901 TCTCATTCCC
Statistics
Matches: 143, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
48 1 0.01
49 30 0.21
50 75 0.52
51 2 0.01
55 2 0.01
56 31 0.22
57 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.28
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATAATGATGCCAATGCCATG
Found at i:22308948 original size:11 final size:11
Alignment explanation
Indices: 22308916--22308974 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
22308906 AGAAAAGAGA
*
22308916 GAATGATGAAT
1 GAATGAGGAAT
22308927 G-ATGA-GAAT
1 GAATGAGGAAT
22308936 GAATGAGGAAT
1 GAATGAGGAAT
*
22308947 GATTGAGGGATGAT
1 GAATGA-GGA--AT
22308961 GAATGAAGGAAT
1 GAATG-AGGAAT
22308973 GA
1 GA
22308975 GAGGGTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 10 0.25
12 7 0.17
14 9 0.22
15 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.36, T:0.22
Consensus pattern (11 bp):
GAATGAGGAAT
Found at i:22309107 original size:15 final size:15
Alignment explanation
Indices: 22309078--22309107 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
22309068 GCTTAGTGGC
22309078 TTTTGACTTGATTTT
1 TTTTGACTTGATTTT
22309093 TTTTG-CTTGATTTT
1 TTTTGACTTGATTTT
22309107 T
1 T
22309108 AAGCAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (15 bp):
TTTTGACTTGATTTT
Found at i:22311366 original size:75 final size:75
Alignment explanation
Indices: 22311207--22311369 Score: 170
Period size: 75 Copynumber: 2.2 Consensus size: 75
22311197 TTAAATATGA
* * * ** *
22311207 AAAACACATAATGCAAGTCTTAAAGGATGCTAATGTATTAATGTAAAGCATTAACTAAAAATGCA
1 AAAACACATAATTCAAGTCTTAAAAGATGCTAATGTATTAATGCAAAAAATTAAATAAAAATGCA
* *
22311272 TTCAATAATC
66 TTCAACAAAC
* * *
22311282 AAGAA-ACATAATTCACA-TTTTAAAAGATG-TAGATGTATTAATGCAAAAAATTAAATATAGAT
1 AA-AACACATAATTCA-AGTCTTAAAAGATGCTA-ATGTATTAATGCAAAAAATTAAATAAAAAT
*
22311344 GCATTTAACAAAC
63 GCATTCAACAAAC
22311357 AAAACACATAATT
1 AAAACACATAATT
22311370 AAAAATTGAA
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
74 4 0.06
75 65 0.90
76 3 0.04
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (75 bp):
AAAACACATAATTCAAGTCTTAAAAGATGCTAATGTATTAATGCAAAAAATTAAATAAAAATGCA
TTCAACAAAC
Found at i:22320289 original size:75 final size:75
Alignment explanation
Indices: 22320199--22320342 Score: 184
Period size: 75 Copynumber: 1.9 Consensus size: 75
22320189 TGATCTGCTT
* * * * *
22320199 CATTATGTGTTTTGTTTGTTAAATGCATCTTTATTTAATGTTTTGCATTAATACATCTA-CATCT
1 CATTATGTGTTTTGTTTATTAAATGCATCTTTAGTTAATGCTTTACATTAATACAT-TAGCATCC
22320263 TTTAAAATGCC
65 TTTAAAATGCC
* * *
22320274 CATTATGT-TTCTTGTTTATTGAATGCGTTTTTAGTTAATGCTTTACATTAATACATTAGCATCC
1 CATTATGTGTT-TTGTTTATTAAATGCATCTTTAGTTAATGCTTTACATTAATACATTAGCATCC
22320338 TTTAA
65 TTTAA
22320343 GACTTGCATT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
74 4 0.07
75 55 0.93
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.49
Consensus pattern (75 bp):
CATTATGTGTTTTGTTTATTAAATGCATCTTTAGTTAATGCTTTACATTAATACATTAGCATCCT
TTAAAATGCC
Found at i:22320353 original size:75 final size:74
Alignment explanation
Indices: 22320199--22320361 Score: 179
Period size: 75 Copynumber: 2.2 Consensus size: 74
22320189 TGATCTGCTT
* * * * *
22320199 CATTATGTGTTTTGTTTGTTAAATGCATCTTTATTTAATGTTTTGCATTAATACATCTACATCTT
1 CATTATGTGTTTTGTTTATTAAATGCATCTTTAGTTAATGCTTTACATTAATACATCTACATCCT
22320264 TTAAAATGCC
66 TTAAAATG-C
* * *
22320274 CATTATGT-TTCTTGTTTATTGAATGCGTTTTTAGTTAATGCTTTACATTAATACAT-TAGCATC
1 CATTATGTGTT-TTGTTTATTAAATGCATCTTTAGTTAATGCTTTACATTAATACATCTA-CATC
*
22320337 CTTTAAGACTTG-
64 CTTTAA-A-ATGC
22320349 CATTATGTGTTTT
1 CATTATGTGTTTT
22320362 TCATATTTAA
Statistics
Matches: 74, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
74 4 0.05
75 65 0.88
76 3 0.04
77 2 0.03
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.50
Consensus pattern (74 bp):
CATTATGTGTTTTGTTTATTAAATGCATCTTTAGTTAATGCTTTACATTAATACATCTACATCCT
TTAAAATGC
Found at i:22320556 original size:41 final size:41
Alignment explanation
Indices: 22320505--22320674 Score: 225
Period size: 41 Copynumber: 4.2 Consensus size: 41
22320495 ACAAAAATAC
* *
22320505 ATTCAGGGGTATCGAAGTACAAATAGGGGCACATATGTGCA
1 ATTCAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCA
* * * ** * *
22320546 ATTCAAGGGTACCTAAGTACAAACAAAGGTAC-TTTGTGCA
1 ATTCAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCA
*
22320586 ATTCAGGGGTACCGAAGTACAAGTAGGGGCACGTATGTGCA
1 ATTCAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCA
* *
22320627 ATTCAGGGGTATCAAAGTACAAATAGGGGCACGTATGTGCA
1 ATTCAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCA
22320668 ATTCAGG
1 ATTCAGG
22320675 AATAATCTTC
Statistics
Matches: 109, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 32 0.29
41 77 0.71
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (41 bp):
ATTCAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCA
Found at i:22320926 original size:43 final size:43
Alignment explanation
Indices: 22320860--22320948 Score: 135
Period size: 43 Copynumber: 2.1 Consensus size: 43
22320850 ATCTATATAG
* *
22320860 ACAAATTTAATCCATTTAGTATCCCTGGCATTCAATTTAGTCC
1 ACAAATTTAATCCATTTAGTATCCCTAGCATTCAATGTAGTCC
*
22320903 ACAACTTTAATCCATTT-GATATCCCTAGCATTCAATGTAGTCC
1 ACAAATTTAATCCATTTAG-TATCCCTAGCATTCAATGTAGTCC
22320946 ACA
1 ACA
22320949 TTTCATATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
42 1 0.02
43 41 0.98
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.35
Consensus pattern (43 bp):
ACAAATTTAATCCATTTAGTATCCCTAGCATTCAATGTAGTCC
Found at i:22325938 original size:51 final size:50
Alignment explanation
Indices: 22325778--22325951 Score: 183
Period size: 51 Copynumber: 3.5 Consensus size: 50
22325768 AGTGAAAGTG
* * * *
22325778 ATGGCCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAT
1 ATGGTCACGTGTATAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGGT
* * * * * *
22325829 A-GGTCGCATGTATAATACTATGTGCAGGCTACTATGCGTACCGGATAGT
1 ATGGTCACGTGTATAGTACTATGTGCAGGCTACTACGTGTACCGGATGGT
* * *
22325878 TTCGATCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGGATGGT
1 AT-GGTCACGTGTATAGTACTATGTGCAGGCTACTACGTGTACCGGATGGT
22325929 AATGGTCACGTG--TAGTACTATGT
1 -ATGGTCACGTGTATAGTACTATGT
22325952 ACAAGGTACT
Statistics
Matches: 99, Mismatches: 21, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
49 14 0.14
50 35 0.35
51 49 0.49
52 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (50 bp):
ATGGTCACGTGTATAGTACTATGTGCAGGCTACTACGTGTACCGGATGGT
Found at i:22326019 original size:45 final size:45
Alignment explanation
Indices: 22325968--22326062 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
22325958 TACTATGTGA
* *
22325968 ACCGAACATCATTGATTAGTAAGGTGATTGATATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGATTGATATGTGCTGAATCC
* *
22326013 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGATTGATATGTGCTGAATCC
22326058 ACCGA
1 ACCGA
22326063 GTATCTGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGATTGATATGTGCTGAATCC
Found at i:22330908 original size:101 final size:102
Alignment explanation
Indices: 22330784--22330968 Score: 277
Period size: 101 Copynumber: 1.8 Consensus size: 102
22330774 AAAGTGATGG
* *
22330784 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCCCCTGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGATAATGGTCACATGTGTAGT
*
22330847 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
65 AATATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
* * *
22330885 TCACGTGTGTAGTACTA-GTTGCAGGCTACTACGTGTATCGGATGGTAATGGTCAGATGTGTAGT
1 TCACGTGTGTAGTACTATG-TGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGT
22330949 AATATGTGCAGGCTACTATG
65 AATATGTGCAGGCTACTATG
22330969 TGAACCGAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 5 0.07
101 39 0.52
102 31 0.41
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
ATATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:22330914 original size:51 final size:50
Alignment explanation
Indices: 22330784--22330966 Score: 176
Period size: 51 Copynumber: 3.6 Consensus size: 50
22330774 AAAGTGATGG
* *
22330784 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGATAGA
* * * * *
22330834 TCCCCTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGG-ATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAAT-G-ATAGA
* * * *
22330885 TCACGTGTGTAGTACTA-GTTGCAGGCTACTACGTGTATCGG-ATGGTAATGG
1 TCACGTGTGTAGTACTATG-TGCAGGCTACTACGCGTACCGGAATGAT-A-GA
*
22330936 TCA-GATGTGTAGTAATATGTGCAGGCTACTA
1 TCACG-TGTGTAGTACTATGTGCAGGCTACTA
22330967 TGTGAACCGA
Statistics
Matches: 110, Mismatches: 16, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
49 3 0.03
50 41 0.37
51 65 0.59
52 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGATAGA
Found at i:22331079 original size:45 final size:45
Alignment explanation
Indices: 22330972--22331066 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
22330962 TACTATGTGA
* * * *
22330972 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGATGATTCC
1 ACCGAACATCATTTATTAATAAGGTGGTTGCTATATGATGAATCC
*
22331017 ACCGAACATCATTTATTAATAAGGTGGTTGCTATATGCTGAATCC
1 ACCGAACATCATTTATTAATAAGGTGGTTGCTATATGATGAATCC
22331062 ACCGA
1 ACCGA
22331067 GTATCTATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTTATTAATAAGGTGGTTGCTATATGATGAATCC
Found at i:22336470 original size:19 final size:19
Alignment explanation
Indices: 22336446--22336484 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
22336436 TTTTACATTA
*
22336446 ATTTTTTTGGCTTAATATT
1 ATTTTTTAGGCTTAATATT
*
22336465 ATTTTTTAGGCTTATTATT
1 ATTTTTTAGGCTTAATATT
22336484 A
1 A
22336485 GTACAAGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (19 bp):
ATTTTTTAGGCTTAATATT
Found at i:22336985 original size:27 final size:26
Alignment explanation
Indices: 22336937--22336987 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
22336927 TAGAATTAAT
*
22336937 TTGTTATTCATCATTTGCTTTGTATA
1 TTGTTAATCATCATTTGCTTTGTATA
22336963 TTGTTAATCAATCATATTG-TTTGTA
1 TTGTTAATC-ATCAT-TTGCTTTGTA
22336988 AGAATTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 11 0.50
28 3 0.14
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.55
Consensus pattern (26 bp):
TTGTTAATCATCATTTGCTTTGTATA
Found at i:22340549 original size:19 final size:18
Alignment explanation
Indices: 22340525--22340570 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
22340515 CGCTCCATTT
* *
22340525 TGCATTCATTTCATGCATC
1 TGCATTCATGTCAT-CATA
22340544 TGCATTGCATGTCATCATA
1 TGCATT-CATGTCATCATA
22340563 TGCATTCA
1 TGCATTCA
22340571 AGATTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (18 bp):
TGCATTCATGTCATCATA
Found at i:22341779 original size:19 final size:19
Alignment explanation
Indices: 22341755--22341793 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
22341745 TAGATGGTGG
22341755 GGAGAATAATCGAAGGTCA
1 GGAGAATAATCGAAGGTCA
22341774 GGAGAATAATCGAAGGTCA
1 GGAGAATAATCGAAGGTCA
22341793 G
1 G
22341794 CTTCAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.33, T:0.15
Consensus pattern (19 bp):
GGAGAATAATCGAAGGTCA
Done.