Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007832.1 Hibiscus syriacus cultivar Beakdansim tig00110174_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4020056
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 21
Found at i:1716958 original size:156 final size:157
Alignment explanation
Indices: 1716758--1717054 Score: 384
Period size: 156 Copynumber: 1.9 Consensus size: 157
1716748 GAGACAATTT
* * * * *
1716758 ATTTCAAAACAAATTTCGTCTCATTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTT
1 ATTTCAAAACAAATTGCGTCTCACTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGAT
* * * *
1716823 TCAC-ATTAAACAAAGTTGATCTCA-TTTGAGATCG-TATCTATTTCAAAACAAATTTCATCTCG
66 TCACTA-AAAACAAAATTAATCTCACCTT-AGATCGTTATCTATTTCAAAACAAATTTCATCTCG
1716885 CTTGAGACATTTTTCCACAAATTTTGAGA
129 CTTGAGACATTTTTCCACAAATTTTGAGA
* * * *
1716914 ATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGAT
1 ATTTCAAAACAAATTGCGTCTCACTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGAT
* * * * *
1716979 TCACTAAAAACAAAATTAATCTCACCTTAGATTGTTGTTTCTTTCAAAACAAATTTCGTCTCGCT
66 TCACTAAAAACAAAATTAATCTCACCTTAGATCGTTATCTATTTCAAAACAAATTTCATCTCGCT
*
1717044 TGAGACCTTTT
131 TGAGACATTTT
1717055 CCCTTTGAGA
Statistics
Matches: 119, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
156 80 0.67
157 39 0.33
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (157 bp):
ATTTCAAAACAAATTGCGTCTCACTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGAT
TCACTAAAAACAAAATTAATCTCACCTTAGATCGTTATCTATTTCAAAACAAATTTCATCTCGCT
TGAGACATTTTTCCACAAATTTTGAGA
Found at i:1717060 original size:105 final size:102
Alignment explanation
Indices: 1716919--1717157 Score: 288
Period size: 105 Copynumber: 2.3 Consensus size: 102
1716909 TGAGAATTTT
* * *
1716919 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
*
1716983 TAAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 T-AAAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
1717024 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* * *
1717089 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
1717126 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
1717158 TCTAAAAACA
Statistics
Matches: 118, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 4 0.03
105 78 0.66
106 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
TAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:1717148 original size:36 final size:36
Alignment explanation
Indices: 1717103--1717222 Score: 113
Period size: 36 Copynumber: 3.4 Consensus size: 36
1717093 ACAAAGTTGA
**
1717103 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
1717139 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* * * *
1717175 TCTCATTTGAGACTATATCT-T-AAAGCAAA-TTTCG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTT-G
*
1717209 TCTCGCTTGAGACA
1 TCTCACTTGAGACA
1717223 TCATTTTCTC
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
33 3 0.04
34 19 0.27
35 8 0.11
36 40 0.57
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:1717512 original size:26 final size:25
Alignment explanation
Indices: 1717473--1717615 Score: 146
Period size: 26 Copynumber: 5.3 Consensus size: 25
1717463 TTCTTTTGAG
1717473 GAAAAAATCTTTGAGTTTGTTCCTCTT
1 GAAAAAATC-TTGAGTTTGTTCCT-TT
1717500 GAAAAAATCTTGAGTTTGTTCCTCTT
1 GAAAAAATCTTGAGTTTGTTCCT-TT
1717526 G-AAAAATCTTTGAGTTTGTTCCTTTT
1 GAAAAAATC-TTGAGTTTGTTCC-TTT
1717552 GAATAAAAATCTTGGAGTTTGTTCCTTT
1 G-A-AAAAATCTT-GAGTTTGTTCCTTT
*
1717580 GGAATAAAAATCTGTGAG-TTGTTTCGTTT
1 -G-A-AAAAATCT-TGAGTTTG-TTCCTTT
1717609 GAAAAAA
1 GAAAAAA
1717616 AAAATCTTTG
Statistics
Matches: 106, Mismatches: 1, Indels: 19
0.84 0.01 0.15
Matches are distributed among these distances:
25 7 0.07
26 39 0.37
27 11 0.10
28 9 0.08
29 39 0.37
30 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.42
Consensus pattern (25 bp):
GAAAAAATCTTGAGTTTGTTCCTTT
Found at i:1717531 original size:52 final size:55
Alignment explanation
Indices: 1717475--1717577 Score: 176
Period size: 52 Copynumber: 1.9 Consensus size: 55
1717465 CTTTTGAGGA
1717475 AAAAATCTTTGAGTTTGTTCCTCTTG-A-AAAAATCTT-GAGTTTGTTCCTCTTG
1 AAAAATCTTTGAGTTTGTTCCTCTTGAATAAAAATCTTGGAGTTTGTTCCTCTTG
*
1717527 AAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGAGTTTGTTCCT
1 AAAAATCTTTGAGTTTGTTCCTCTTGAATAAAAATCTTGGAGTTTGTTCCT
1717578 TTGGAATAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
52 25 0.53
53 1 0.02
54 9 0.19
55 12 0.26
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.45
Consensus pattern (55 bp):
AAAAATCTTTGAGTTTGTTCCTCTTGAATAAAAATCTTGGAGTTTGTTCCTCTTG
Found at i:1717569 original size:29 final size:28
Alignment explanation
Indices: 1717465--1717616 Score: 154
Period size: 29 Copynumber: 5.5 Consensus size: 28
1717455 AAGACAATTT
*
1717465 CTTTTGAGGAAAAAATCTTTGAGTTTGTTC
1 CTTTTGA--AAAAAATCTTGGAGTTTGTTC
*
1717495 CTCTTG-AAAAAATCTT-GAGTTTGTTC
1 CTTTTGAAAAAAATCTTGGAGTTTGTTC
* *
1717521 CTCTTG--AAAAATCTTTGAGTTTGTTC
1 CTTTTGAAAAAAATCTTGGAGTTTGTTC
1717547 CTTTTGAATAAAAATCTTGGAGTTTGTTC
1 CTTTTGAA-AAAAATCTTGGAGTTTGTTC
* *
1717576 CTTTGGAATAAAAATC-TGTGAG-TTGTTT
1 CTTTTGAA-AAAAATCTTG-GAGTTTGTTC
*
1717604 CGTTTGAAAAAAA
1 CTTTTGAAAAAAA
1717617 AAATCTTTGA
Statistics
Matches: 110, Mismatches: 7, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
25 9 0.08
26 31 0.28
27 15 0.14
28 13 0.12
29 37 0.34
30 5 0.05
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (28 bp):
CTTTTGAAAAAAATCTTGGAGTTTGTTC
Found at i:1717711 original size:29 final size:30
Alignment explanation
Indices: 1717678--1717807 Score: 93
Period size: 30 Copynumber: 4.1 Consensus size: 30
1717668 ATTTTGTGAA
*
1717678 AAAAATC-TTAAGATAGTTTCTTTTGAAAC
1 AAAAATCTTTAAGATAGTTTCTTTGGAAAC
* * *
1717707 AAAAATCTTTGAGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTAAGATAGTTTCTTTGGAAAC
* * *
1717737 AAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAAC
1 AAAA------ATCT-TTAAGATAGTTTCTTTGGAAAC
* *
1717774 AAAAATCTTTGAG-TCTGTTTCTTTGGAAAC
1 AAAAATCTTTAAGAT-AGTTTCTTTGGAAAC
1717804 AAAA
1 AAAA
1717808 TTTTGTCTCT
Statistics
Matches: 77, Mismatches: 15, Indels: 17
0.71 0.14 0.16
Matches are distributed among these distances:
29 8 0.10
30 42 0.55
31 3 0.04
36 3 0.04
37 21 0.27
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (30 bp):
AAAAATCTTTAAGATAGTTTCTTTGGAAAC
Found at i:1717727 original size:30 final size:30
Alignment explanation
Indices: 1717693--1717807 Score: 95
Period size: 30 Copynumber: 3.6 Consensus size: 30
1717683 TCTTAAGATA
*
1717693 GTTTCTTTTGAAACAAAAATCTTTGAGTTT
1 GTTTCTTTGGAAACAAAAATCTTTGAGTTT
* * * *
1717723 GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
1 GTTTCTTTGGAAACAAAA------ATCT-TTGAGTTT
* * *
1717760 ATTTCTTTTGAAACAAAAATCTTTGAGTCT
1 GTTTCTTTGGAAACAAAAATCTTTGAGTTT
1717790 GTTTCTTTGGAAACAAAA
1 GTTTCTTTGGAAACAAAA
1717808 TTTTGTCTCT
Statistics
Matches: 64, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
30 37 0.58
31 3 0.05
36 3 0.05
37 21 0.33
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (30 bp):
GTTTCTTTGGAAACAAAAATCTTTGAGTTT
Found at i:1717765 original size:67 final size:67
Alignment explanation
Indices: 1717683--1717862 Score: 317
Period size: 67 Copynumber: 2.7 Consensus size: 67
1717673 GTGAAAAAAA
* *
1717683 TCTTAAGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTC
1 TCTTAAGATAATTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTC
1717748 TC
66 TC
1717750 TCTTAAGATAATTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTC
1 TCTTAAGATAATTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTC
1717815 TC
66 TC
*
1717817 TCTTAAGATAATTTCTTTTGGAAA-AAAAATCTTTGAATCTGTTTCT
1 TCTTAAGATAATTTCTTTT-GAAACAAAAATCTTTGAGTCTGTTTCT
1717863 CTTAAAATGA
Statistics
Matches: 109, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
67 105 0.96
68 4 0.04
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (67 bp):
TCTTAAGATAATTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTC
TC
Found at i:1717774 original size:37 final size:38
Alignment explanation
Indices: 1717724--1717851 Score: 125
Period size: 37 Copynumber: 3.6 Consensus size: 38
1717714 TTTGAGTTTG
1717724 TTTCTTTGGAAACAAAAT-TTTGTCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATCTTTGTCTCTCTTAAGATAA
* **
1717761 TTTCTTTTGAAACAAAAATCTTTG--AGTC-T--G----
1 TTTCTTTGGAAAC-AAAATCTTTGTCTCTCTTAAGATAA
1717791 TTTCTTTGGAAACAAAAT-TTTGTCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATCTTTGTCTCTCTTAAGATAA
*
1717828 TTTCTTTTGGAAAAAAAATCTTTG
1 TTTC-TTTGGAAACAAAATCTTTG
1717852 AATCTGTTTC
Statistics
Matches: 71, Mismatches: 7, Indels: 24
0.70 0.07 0.24
Matches are distributed among these distances:
28 4 0.06
29 5 0.07
30 14 0.20
31 1 0.01
33 1 0.01
34 1 0.01
36 1 0.01
37 18 0.25
38 18 0.25
39 8 0.11
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (38 bp):
TTTCTTTGGAAACAAAATCTTTGTCTCTCTTAAGATAA
Found at i:1718166 original size:69 final size:68
Alignment explanation
Indices: 1718082--1718211 Score: 197
Period size: 69 Copynumber: 1.9 Consensus size: 68
1718072 GATGTGATCC
* *
1718082 ATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTC-TAAAGACAACTTCTTTTGAAAAAAA
1718147 AAAA
65 AAAA
* * **
1718151 ATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTCGAGACAACTTCTTTTGAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAA
1718212 TACCCACCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
68 19 0.35
69 36 0.65
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.42
Consensus pattern (68 bp):
ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAAAAAA
AAA
Found at i:1718786 original size:66 final size:65
Alignment explanation
Indices: 1718645--1718787 Score: 146
Period size: 66 Copynumber: 2.2 Consensus size: 65
1718635 AACAAAACAA
* * * * *
1718645 ACATC-TTTGAGATCGTTTCCCTTGAAATGAATTTTGTCTCATTTGAGACAGTTTCCCATGAAAC
1 ACATCTTTTGAGAACGTTTCCCTTAAAATAAATTTTGTCTCACTTGAGACAGATTCCCATGAAAC
** * * *
1718709 ACAGATATTTGAGAACGTTTCCCTTAAAAATAAATTTTGTCTCGCTTGAGACA-ATTCCCTTTAA
1 ACATCT-TTTGAGAACGTTTCCCTT-AAAATAAATTTTGTCTCACTTGAGACAGATTCCCATGAA
1718773 AC
64 AC
*
1718775 GTCATCTTTTGAG
1 -ACATCTTTTGAG
1718788 TTGTTTCATT
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
64 3 0.05
66 33 0.53
67 26 0.42
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (65 bp):
ACATCTTTTGAGAACGTTTCCCTTAAAATAAATTTTGTCTCACTTGAGACAGATTCCCATGAAAC
Found at i:1718876 original size:28 final size:27
Alignment explanation
Indices: 1718845--1718926 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 27
1718835 GAAACACATT
1718845 ATCTTTGAGCTTGTTTTTCTTGAAACAA
1 ATCTTTGAG-TTGTTTTTCTTGAAACAA
*
1718873 ATCTTCGAGTCTGTTTCTT-TTGAAACAA
1 ATCTTTGAGT-TGTTT-TTCTTGAAACAA
* *
1718901 ATCTTTGAATTGGTTTCTCTTGAAAC
1 ATCTTTGAGTT-GTTTTTCTTGAAAC
1718927 CATAACTCCT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 3 0.07
28 41 0.89
29 2 0.04
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.45
Consensus pattern (27 bp):
ATCTTTGAGTTGTTTTTCTTGAAACAA
Found at i:1719043 original size:43 final size:43
Alignment explanation
Indices: 1718984--1719447 Score: 311
Period size: 43 Copynumber: 10.7 Consensus size: 43
1718974 TCATCCCCAG
*
1718984 ACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACTATAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACTATAGATA
* * * *
1719027 ACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 ACCAGACC-TCCTCATCACGTAGGAGCCGTG---TCAACTATAGAT-A
* * * * ****
1719074 A-CAGAACTCTTCATCACGTATGAGCCGTGTC-ATTCCCCA-A
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACTATAGATA
* *
1719114 ACCAGATCTCCTCATCACGTAGGAGACGTGTCAACTATAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACTATAGATA
* * * *
1719157 ACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATG
1 ACCAGACC-TCCTCATCACGTAGGAGCCGTG---TCAACTATAGATA
* * * * * ****
1719203 GCCAGAACTCTTCATCACGTATGAGCCGTGTC-ATTCCCCA-A
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACTATAGATA
*
1719244 ACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACTATAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACTATAGATA
* * * *
1719287 ACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATG
1 ACCAGACC-TCCTCATCACGTAGGAGCCGTG---TCAACTATAGATA
* * * * * ****
1719333 GCCAGAACTCTTCATCACGTATGAGCCGTGTC-ATTCCCCA-A
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACTATAGATA
* * *
1719374 ACCAGATCTCCTCATCACGTAGGAGCTGTGTCAACCATAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACTATAGATA
*
1719417 ACCAG-CCGTCCTCATCACGTAGGAACCGTGT
1 ACCAGACC-TCCTCATCACGTAGGAGCCGTGT
1719448 TATCACCTTA
Statistics
Matches: 314, Mismatches: 83, Indels: 48
0.71 0.19 0.11
Matches are distributed among these distances:
40 1 0.00
41 81 0.26
42 18 0.06
43 112 0.36
46 98 0.31
47 4 0.01
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (43 bp):
ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACTATAGATA
Found at i:1719091 original size:46 final size:46
Alignment explanation
Indices: 1718983--1719484 Score: 266
Period size: 46 Copynumber: 11.5 Consensus size: 46
1718973 GTCATCCCCA
* * * *
1718983 GACCAGATCTCCTCATCACGTAGGAGCCGTG---TCAACTATAGAT
1 GACCAGAACTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAT
* *
1719026 AACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAT
1 GACCAGAAC-TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAT
* * * * *
1719072 GGA-CAGAACTCTTCATCACGTATGAGCCGTGTCATTC-CC--CA-A-
1 -GACCAGAACTCCTCATCACGTAGGAACCGTGTTA-TCACCTTTAGAT
* * *
1719114 -ACCAGATCTCCTCATCACGTAGGAGA-CGTG---TCAACTATAGAT
1 GACCAGAACTCCTCATCACGTAGGA-ACCGTGTTATCACCTTTAGAT
* *
1719156 AACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAT
1 GACCAGAAC-TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAT
* * * * * *
1719202 GGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTC-CC--CA-A-
1 GACCAGAACTCCTCATCACGTAGGAACCGTGTTA-TCACCTTTAGAT
* * * *
1719244 -ACCAGATCTCCTCATCACGTAGGAGCCGTG---TCAACTATAGAT
1 GACCAGAACTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAT
* *
1719286 AACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAT
1 GACCAGAAC-TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAT
* * * * * *
1719332 GGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTC-CC--CA-A-
1 GACCAGAACTCCTCATCACGTAGGAACCGTGTTA-TCACCTTTAGAT
* * * * *
1719374 -ACCAGATCTCCTCATCACGTAGGAGCTGTGTCA--ACC-ATAGAT
1 GACCAGAACTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAT
* * *
1719416 AACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGAT
1 GACCAGAAC-TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAT
* *
1719462 GGCCAAGAACTCTTCATCACGTA
1 GACC-AGAACTCCTCATCACGTA
1719485 TGAGCAGTGT
Statistics
Matches: 351, Mismatches: 63, Indels: 86
0.70 0.13 0.17
Matches are distributed among these distances:
37 4 0.01
38 2 0.01
39 2 0.01
40 4 0.01
41 80 0.23
42 5 0.01
43 107 0.30
44 3 0.01
45 3 0.01
46 116 0.33
47 24 0.07
48 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (46 bp):
GACCAGAACTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAT
Found at i:1719171 original size:130 final size:130
Alignment explanation
Indices: 1718955--1719536 Score: 990
Period size: 130 Copynumber: 4.5 Consensus size: 130
1718945 CCAGCCGTCC
* * * *
1718955 TCATCATGTAGGAACCGTGTCA-TCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAAC
1 TCATCACGTATGAGCCGTGTCATTCCCCAAACCAGATCTCCTCATCACGTAGGAGCCGTGTCAAC
*
1719019 TATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGACAGAACTCT
66 TATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
*
1719084 TCATCACGTATGAGCCGTGTCATTCCCCAAACCAGATCTCCTCATCACGTAGGAGACGTGTCAAC
1 TCATCACGTATGAGCCGTGTCATTCCCCAAACCAGATCTCCTCATCACGTAGGAGCCGTGTCAAC
1719149 TATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
66 TATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1719214 TCATCACGTATGAGCCGTGTCATTCCCCAAACCAGATCTCCTCATCACGTAGGAGCCGTGTCAAC
1 TCATCACGTATGAGCCGTGTCATTCCCCAAACCAGATCTCCTCATCACGTAGGAGCCGTGTCAAC
1719279 TATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
66 TATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
*
1719344 TCATCACGTATGAGCCGTGTCATTCCCCAAACCAGATCTCCTCATCACGTAGGAGCTGTGTCAAC
1 TCATCACGTATGAGCCGTGTCATTCCCCAAACCAGATCTCCTCATCACGTAGGAGCCGTGTCAAC
* *
1719409 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTC
66 TATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTC
1719474 T
130 T
* * * * * *
1719475 TCATCACGTATGAGCAGTGTCA-ACCCTC-GACCAGATTTCCTCATCACGTAGGAACCATGTCA
1 TCATCACGTATGAGCCGTGTCATTCCC-CAAACCAGATCTCCTCATCACGTAGGAGCCGTGTCA
1719537 CCCTTAGACG
Statistics
Matches: 433, Mismatches: 17, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
129 19 0.04
130 384 0.89
131 30 0.07
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (130 bp):
TCATCACGTATGAGCCGTGTCATTCCCCAAACCAGATCTCCTCATCACGTAGGAGCCGTGTCAAC
TATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
Found at i:1719752 original size:3 final size:3
Alignment explanation
Indices: 1719744--1719849 Score: 205
Period size: 3 Copynumber: 35.7 Consensus size: 3
1719734 TCTAATTGTA
1719744 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1719792 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1719839 ATT ATT ATT AT
1 ATT ATT ATT AT
1719850 GCTTATTTAT
Statistics
Matches: 102, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 100 0.98
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1720410 original size:24 final size:25
Alignment explanation
Indices: 1720370--1720420 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
1720360 GAGATTCGGA
1720370 AAAAAAAAAAACGAAAAT-AGAAGG
1 AAAAAAAAAAACGAAAATAAGAAGG
*
1720394 AAAAAAAAGAA-GAAAAATAAGAAGG
1 AAAAAAAAAAACG-AAAATAAGAAGG
1720419 AA
1 AA
1720421 GCTCTCACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 1 0.04
24 15 0.62
25 8 0.33
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (25 bp):
AAAAAAAAAAACGAAAATAAGAAGG
Found at i:1720503 original size:159 final size:157
Alignment explanation
Indices: 1720280--1720596 Score: 591
Period size: 159 Copynumber: 2.0 Consensus size: 157
1720270 GCTCATGCCC
1720280 TATATTCTAGATCTCATGATATCTATCTAAAGAAGACCATAAATTGAATGGAGAGAACGAAAAGA
1 TATATTCTAGATCTCATGATATCTATCTAAAGAAGACCATAAATTGAATGGAGAGAACGAAAAGA
1720345 AGAGGACAGAGAGAGGAGATTCGGAAAAAAAAAAAACGAAAATAGAAGG-AAAAAAAAGAAGAAA
66 AGAGGACAGAGAGAGGAGATTCGG---AAAAAAAAACGAAAATAGAAGGAAAAAAAAAGAAGAAA
1720409 AATAAGAAGGAAGCTCTCACCTTTGGTTCA
128 AATAAGAAGGAAGCTCTCACCTTTGGTTCA
1720439 TATATTCTAGATCTCATGATATCTATCTAAAGAAGACCATAAATTGAATGGAGAGAACGAAAAGA
1 TATATTCTAGATCTCATGATATCTATCTAAAGAAGACCATAAATTGAATGGAGAGAACGAAAAGA
*
1720504 AGAGGACAGAGAGAGGAGATTCGGAAAAAAAAATGAAAATAGAAGGAAAAAAAAAGAAGAAAAAT
66 AGAGGACAGAGAGAGGAGATTCGGAAAAAAAAACGAAAATAGAAGGAAAAAAAAAGAAGAAAAAT
1720569 AAGAAGGAAGCTCTCACCTTTGGTTCA
131 AAGAAGGAAGCTCTCACCTTTGGTTCA
1720596 T
1 T
1720597 CTGCCACCAT
Statistics
Matches: 156, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
156 21 0.13
157 46 0.29
159 89 0.57
ACGTcount: A:0.50, C:0.10, G:0.21, T:0.18
Consensus pattern (157 bp):
TATATTCTAGATCTCATGATATCTATCTAAAGAAGACCATAAATTGAATGGAGAGAACGAAAAGA
AGAGGACAGAGAGAGGAGATTCGGAAAAAAAAACGAAAATAGAAGGAAAAAAAAAGAAGAAAAAT
AAGAAGGAAGCTCTCACCTTTGGTTCA
Found at i:1723281 original size:16 final size:16
Alignment explanation
Indices: 1723260--1723292 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1723250 TCAAAATTGT
*
1723260 TTTGAAAATTTGGAAA
1 TTTGAAAATATGGAAA
1723276 TTTGAAAATATGGAAA
1 TTTGAAAATATGGAAA
1723292 T
1 T
1723293 ATGATATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.36
Consensus pattern (16 bp):
TTTGAAAATATGGAAA
Found at i:1724006 original size:12 final size:12
Alignment explanation
Indices: 1723989--1724015 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1723979 TTAAATATAA
1723989 AAATAATTTTTT
1 AAATAATTTTTT
1724001 AAATAATTTTTT
1 AAATAATTTTTT
1724013 AAA
1 AAA
1724016 AGTGTAATAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
AAATAATTTTTT
Found at i:1726296 original size:3 final size:3
Alignment explanation
Indices: 1726290--1726333 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
1726280 TCTCTTCTTT
1726290 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1726334 TTGGTTTTAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1730213 original size:29 final size:29
Alignment explanation
Indices: 1730168--1730230 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
1730158 TGTACTCATG
1730168 GTCGCTGGCAACACGGACAACACTAGATA
1 GTCGCTGGCAACACGGACAACACTAGATA
*
1730197 GTCGCTGGCAACTCGGACAACACTAGATA
1 GTCGCTGGCAACACGGACAACACTAGATA
1730226 GTCGC
1 GTCGC
1730231 ATACGTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.30, C:0.29, G:0.25, T:0.16
Consensus pattern (29 bp):
GTCGCTGGCAACACGGACAACACTAGATA
Found at i:1737098 original size:16 final size:16
Alignment explanation
Indices: 1737079--1737149 Score: 63
Period size: 16 Copynumber: 4.2 Consensus size: 16
1737069 TTTCACTTTA
1737079 TATTTTTTTTATTTTT
1 TATTTTTTTTATTTTT
1737095 TATTTTTTTCCGT-TTGTTT
1 TATTTTTTT---TATT-TTT
* *
1737114 TATTTTATTTATTTCT
1 TATTTTTTTTATTTTT
* *
1737130 TATTGTCTTTATTTTT
1 TATTTTTTTTATTTTT
1737146 TATT
1 TATT
1737150 CACTTTCATT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
16 29 0.64
17 2 0.04
18 2 0.04
19 12 0.27
ACGTcount: A:0.13, C:0.06, G:0.04, T:0.77
Consensus pattern (16 bp):
TATTTTTTTTATTTTT
Found at i:1737119 original size:25 final size:25
Alignment explanation
Indices: 1737085--1737145 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 25
1737075 TTTATATTTT
*
1737085 TTTTATTTTTTATTTTTTTCCGT-TTG
1 TTTTA-TTTTTATTTATTT-CGTATTG
*
1737111 TTTTA-TTTTATTTATTTCTTATTG
1 TTTTATTTTTATTTATTTCGTATTG
1737135 TCTTTATTTTT
1 T-TTTATTTTT
1737146 TATTCACTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 2 0.07
24 15 0.50
25 4 0.13
26 9 0.30
ACGTcount: A:0.11, C:0.07, G:0.05, T:0.77
Consensus pattern (25 bp):
TTTTATTTTTATTTATTTCGTATTG
Found at i:1737155 original size:16 final size:16
Alignment explanation
Indices: 1737121--1737163 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
1737111 TTTTATTTTA
* **
1737121 TTTATTTCTTATTGTC
1 TTTATTTTTTATTCAC
1737137 TTTATTTTTTATTCAC
1 TTTATTTTTTATTCAC
1737153 TTTCATTTTTT
1 TTT-ATTTTTT
1737164 TCCCCTTAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTATTTTTTATTCAC
Found at i:1741188 original size:95 final size:96
Alignment explanation
Indices: 1740935--1741292 Score: 483
Period size: 94 Copynumber: 3.7 Consensus size: 96
1740925 AGATTATAAT
* *
1740935 ATTATATATATACAATAAAGCTTGAGATGTCCCTCTAAAGTAATTGGTTAAACGCCCCGGCTTTA
1 ATTATATATATACAATAAAGCTTGAGATGTCCCTCTAAAGCAATTGGTTAAACACCCCGGCTTTA
*
1741000 TAGATAAGATTCAGCTAGCCTGATAAAGGTG
66 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
* **
1741031 A-T-TATATATACAATAAAGCTTGAGATGTCCCTCTAAAGCAATTAGTTAAACACCATGGCTTTA
1 ATTATATATATACAATAAAGCTTGAGATGTCCCTCTAAAGCAATTGGTTAAACACCCCGGCTTTA
* *
1741094 TGGATAAGATTCAACTAGCCTAATAAAGGTG
66 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
* * * * ** *
1741125 ATTATA-ATGTACAATAAAGCTTGAGTTGTCTCTCTAGAGCAATTGGTTAAATGCCCCGACTTTA
1 ATTATATATATACAATAAAGCTTGAGATGTCCCTCTAAAGCAATTGGTTAAACACCCCGGCTTTA
*
1741189 TGGATAATATTCAGCTAGCCTGATAAAGGTG
66 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
*
1741220 ATTATAATATCTATACAATAATA--TTGAGTTGTCCCTCTAAAGCAATTGGTTAAAACACCCCGG
1 ATTAT-ATA--TATACAATAA-AGCTTGAGATGTCCCTCTAAAGCAATTGGTT-AAACACCCCGG
1741283 CTTTATGGAT
61 CTTTATGGAT
1741293 CCAGCTAGCC
Statistics
Matches: 227, Mismatches: 27, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
94 85 0.37
95 83 0.37
96 4 0.02
97 1 0.00
98 26 0.11
99 27 0.12
100 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (96 bp):
ATTATATATATACAATAAAGCTTGAGATGTCCCTCTAAAGCAATTGGTTAAACACCCCGGCTTTA
TGGATAAGATTCAGCTAGCCTGATAAAGGTG
Found at i:1742225 original size:17 final size:17
Alignment explanation
Indices: 1742199--1742240 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
1742189 TAACATGTTT
1742199 CGTATATACATTTTAGG
1 CGTATATACATTTTAGG
*
1742216 CGTATGTACATTTTAGG
1 CGTATATACATTTTAGG
*
1742233 CATATATA
1 CGTATATA
1742241 AGAGCATCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (17 bp):
CGTATATACATTTTAGG
Found at i:1742776 original size:66 final size:65
Alignment explanation
Indices: 1742699--1742926 Score: 253
Period size: 66 Copynumber: 3.4 Consensus size: 65
1742689 TTAAAAATTT
* *
1742699 TTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTT-AAACAAAAAATTTGAATTTGTTTTCCTTGAAACAAA
1742764 G
65 G
* * * * **
1742765 TTTTGTCTCTCTTGAGACAATTTCTCTTAAA-ACAAATTTTGCCTCTCTTGAGACATTTTCTCTT
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTAAACAAAAAATTTG--AAT-TT--G---TTTTC-CTT
*
1742829 AAAACAAA-
57 GAAACAAAG
*
1742837 TTTTGTCTCTCTTGAGACGGTTTCCCTTAAAACAAAAAATTTGAATTTGTTTTCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTT-AAACAAAAAATTTGAATTTGTTTTCCTTGAAACAAA
1742902 G
65 G
1742903 TTTTGTCTCTCTTGAGACAGTTTC
1 TTTTGTCTCTCTTGAGACAGTTTC
1742927 TTTTAGAACT
Statistics
Matches: 133, Mismatches: 17, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
64 8 0.06
65 13 0.10
66 54 0.41
67 2 0.02
69 2 0.02
71 2 0.02
72 31 0.23
73 13 0.10
74 8 0.06
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (65 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTAAACAAAAAATTTGAATTTGTTTTCCTTGAAACAAAG
Found at i:1742798 original size:37 final size:36
Alignment explanation
Indices: 1742749--1742872 Score: 178
Period size: 36 Copynumber: 3.4 Consensus size: 36
1742739 TTGAATTTGT
*
1742749 TTTC-CTTGAAACAAAGTTTTGTCTCTCTTGAGACAA
1 TTTCTCTTAAAACAAA-TTTTGTCTCTCTTGAGACAA
* *
1742785 TTTCTCTTAAAACAAATTTTGCCTCTCTTGAGACAT
1 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAA
**
1742821 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGG
1 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAA
*
1742857 TTTCCCTTAAAACAAA
1 TTTCTCTTAAAACAAA
1742873 AAATTTGAAT
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
36 70 0.88
37 10 0.12
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (36 bp):
TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAA
Found at i:1742812 original size:21 final size:20
Alignment explanation
Indices: 1742787--1742849 Score: 55
Period size: 21 Copynumber: 3.3 Consensus size: 20
1742777 TGAGACAATT
1742787 TCTCTTAAAACAAATTTTGCC
1 TCTCTTAAAACAAATTTTG-C
* *
1742808 TCTCTTGAGAC--A-TTT--
1 TCTCTTAAAACAAATTTTGC
1742823 TCTCTTAAAACAAATTTTGTC
1 TCTCTTAAAACAAATTTTG-C
1742844 TCTCTT
1 TCTCTT
1742850 GAGACGGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
15 9 0.28
17 1 0.03
18 6 0.19
19 1 0.03
21 15 0.47
ACGTcount: A:0.27, C:0.22, G:0.06, T:0.44
Consensus pattern (20 bp):
TCTCTTAAAACAAATTTTGC
Found at i:1742854 original size:36 final size:36
Alignment explanation
Indices: 1742618--1742734 Score: 155
Period size: 36 Copynumber: 3.2 Consensus size: 36
1742608 TAATTTACTC
1742618 AAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT
1 AAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTT
*
1742655 AAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
** * *
1742691 AAAA-ATTTTTTTGTCTCTCTTGAGACGGTTTCCCTT
1 AAAACA-AATTTTGTCTCTCTTGAGACAGTTTCTCTT
*
1742727 GAAACAAA
1 AAAACAAA
1742735 AACTTTGAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
35 1 0.01
36 59 0.86
37 9 0.13
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
Found at i:1742870 original size:138 final size:139
Alignment explanation
Indices: 1742619--1743112 Score: 714
Period size: 138 Copynumber: 3.6 Consensus size: 139
1742609 AATTTACTCA
1742619 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAAC-AAATTTTGTCTCTCTTGAGACAT
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAAATTTTGTCTCTCTTGAGACAT
**
1742683 TTTCTCTTAAAA-ATTTTTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATTT
66 TTTCTCTTAAAACA-AATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATTT
1742747 GTTTTCCTTG
130 GTTTTCCTTG
* *
1742757 AAACAAAGTTTTGTCTCTCTTGAGACAATTTCTCTTAAAAC-AAATTTTGCCTCTCTTGAGACAT
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAAATTTTGTCTCTCTTGAGACAT
* *
1742821 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTAAAACAAAAAATTTGAATTTG
66 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATTTG
1742886 TTTTCCTTG
131 TTTTCCTTG
* * *
1742895 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTTTAGAACTAAATTTTGTCTCTCTTGAGACAT
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAAATTTTGTCTCTCTTGAGACAT
* * * * * *
1742960 TTTCTCGTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATCTCTGAATTTA
66 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATTTG
1743024 TTTTCCTTG
131 TTTTCCTTG
** * * **
1743033 AAACAAA-TTGCGTCTC-CTTTGAGATAGTTTCTTTTGGAACAAAATTTTGTCTCTCTTGAGACA
1 AAACAAAGTTTTGTCTCTC-TTGAGACAGTTTCTCTTAAAACAAAATTTTGTCTCTCTTGAGACA
*
1743096 GTTTT-TCTTGAAACAAA
65 -TTTTCTCTTAAAACAAA
1743113 ATATTTGAAT
Statistics
Matches: 327, Mismatches: 25, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
136 1 0.00
137 59 0.18
138 199 0.61
139 68 0.21
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (139 bp):
AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAAATTTTGTCTCTCTTGAGACAT
TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATTTG
TTTTCCTTG
Found at i:1742984 original size:36 final size:36
Alignment explanation
Indices: 1742887--1743012 Score: 173
Period size: 36 Copynumber: 3.5 Consensus size: 36
1742877 TTGAATTTGT
*
1742887 TTTC-CTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTAAAACAAA-TTTTGTCTCTCTTGAGACAG
* * *
1742923 TTTCTTTTAGAACTAAATTTTGTCTCTCTTGAGACAT
1 TTTCTCTTAAAAC-AAATTTTGTCTCTCTTGAGACAG
*
1742960 TTTCTCGTAAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
*
1742996 TTTCTCTTGAAACAAAT
1 TTTCTCTTAAAACAAAT
1743013 CTCTGAATTT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
36 41 0.53
37 34 0.44
38 3 0.04
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (36 bp):
TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:1743804 original size:18 final size:18
Alignment explanation
Indices: 1743781--1743825 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
1743771 TATATATATA
*
1743781 TATATATTATTTTTTATG
1 TATATATTATTATTTATG
1743799 TATATATT-TTATTTATG
1 TATATATTATTATTTATG
1743816 TAT-TATTATT
1 TATATATTATT
1743826 GTTATTAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 4 0.16
17 13 0.52
18 8 0.32
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (18 bp):
TATATATTATTATTTATG
Found at i:1745031 original size:15 final size:16
Alignment explanation
Indices: 1744997--1745042 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
1744987 ATTATTACTT
* *
1744997 TTTTAGTATTTTTTTA
1 TTTTAGTATATTTATA
1745013 TTTTA-TATATTTATA
1 TTTTAGTATATTTATA
1745028 TTTTTAGT-TATTTAT
1 -TTTTAGTATATTTAT
1745043 TATTATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 8 0.31
16 17 0.65
17 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (16 bp):
TTTTAGTATATTTATA
Found at i:1745227 original size:25 final size:25
Alignment explanation
Indices: 1745195--1745253 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
1745185 TTTCACTTTA
*
1745195 TTTT-TTTTTATTTTTTTCCGT-TTG
1 TTTTATTTTTATTTATTT-CGTATTG
*
1745219 TTTTA-TTTTATTTATTTCTTATTG
1 TTTTATTTTTATTTATTTCGTATTG
1745243 TCTTTATTTTT
1 T-TTTATTTTT
1745254 TATTCACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 2 0.07
24 19 0.66
25 4 0.14
26 4 0.14
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.78
Consensus pattern (25 bp):
TTTTATTTTTATTTATTTCGTATTG
Found at i:1751664 original size:12 final size:12
Alignment explanation
Indices: 1751647--1751697 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
1751637 TTCAAAGAGG
1751647 TTTTATATTTAA
1 TTTTATATTTAA
1751659 TTTTATA-TTATA
1 TTTTATATTTA-A
*
1751671 TTTGAT-TTTAA
1 TTTTATATTTAA
1751682 TTTTA-ATATTAA
1 TTTTATAT-TTAA
1751694 TTTT
1 TTTT
1751698 TTAAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:1751705 original size:13 final size:14
Alignment explanation
Indices: 1751682--1751765 Score: 56
Period size: 14 Copynumber: 6.4 Consensus size: 14
1751672 TTGATTTTAA
1751682 TTTTAATATTAATT
1 TTTTAATATTAATT
1751696 TTTTAA-ATTAA--
1 TTTTAATATTAATT
* *
1751707 -TTAAATATTATTT
1 TTTTAATATTAATT
* *
1751720 TTTTAATAAT-ATA
1 TTTTAATATTAATT
*
1751733 TTATAGATATTAA--
1 TTTTA-ATATTAATT
*
1751746 TTTTAATATTAACT
1 TTTTAATATTAATT
1751760 TTTTAA
1 TTTTAA
1751766 ATAAATTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
10 4 0.08
11 4 0.08
12 7 0.13
13 14 0.26
14 23 0.43
15 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (14 bp):
TTTTAATATTAATT
Found at i:1751713 original size:24 final size:27
Alignment explanation
Indices: 1751685--1751749 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 27
1751675 ATTTTAATTT
*
1751685 TAATATTAATTTTTTAA-ATTA-ATTA
1 TAATATTAATTTTTTAATAATATATTA
*
1751710 -AATATTATTTTTTTAATAATATATTA
1 TAATATTAATTTTTTAATAATATATTA
1751736 TAGATATTAATTTT
1 TA-ATATTAATTTT
1751750 AATATTAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
24 15 0.45
25 3 0.09
26 4 0.12
27 1 0.03
28 10 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
TAATATTAATTTTTTAATAATATATTA
Found at i:1751756 original size:64 final size:65
Alignment explanation
Indices: 1751657--1751815 Score: 211
Period size: 64 Copynumber: 2.5 Consensus size: 65
1751647 TTTTATATTT
* * * *
1751657 AATTTT-ATATTATATT-T-GAT-TTTAATTTTAATATTAATTTTTTAAATTAATTAAATATTAT
1 AATTTTAATAATATATTATAGATATTTAATTTTAATATTAACTTTTTAAATAAATTAAATATTAA
**
1751718 TTTTTTAATAATATATTATAGATA-TTAATTTTAATATTAACTTTTTAAATAAATTAAATATTAA
1 AATTTTAATAATATATTATAGATATTTAATTTTAATATTAACTTTTTAAATAAATTAAATATTAA
* *
1751782 AATTTTGATATTATATTATAGATATTTAATTTTA
1 AATTTTAATAATATATTATAGATATTTAATTTTA
1751816 TATCATATAA
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
61 4 0.05
62 9 0.11
63 1 0.01
64 60 0.72
65 9 0.11
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (65 bp):
AATTTTAATAATATATTATAGATATTTAATTTTAATATTAACTTTTTAAATAAATTAAATATTAA
Found at i:1751838 original size:21 final size:22
Alignment explanation
Indices: 1751810--1751857 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
1751800 TAGATATTTA
1751810 ATTT-TATATCA-TATAAATTAT
1 ATTTATATATCATTA-AAATTAT
*
1751831 -TTTATATATTATTAAAATTAT
1 ATTTATATATCATTAAAATTAT
1751852 ATTTAT
1 ATTTAT
1751858 TTTAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 3 0.13
21 13 0.57
22 7 0.30
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTATATATCATTAAAATTAT
Found at i:1752033 original size:37 final size:39
Alignment explanation
Indices: 1751992--1752066 Score: 100
Period size: 37 Copynumber: 1.9 Consensus size: 39
1751982 ATTGTTTGAT
1751992 AATTAAGATTTTAAAA-TATAAAATATAA-AAAATTATA
1 AATTAAGATTTTAAAATTATAAAATATAACAAAATTATA
* * *
1752029 AATTATGTTTTTAAAATTTTAAAATATAATCAAAATTA
1 AATTAAGATTTTAAAATTATAAAATATAA-CAAAATTA
1752067 AATAAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 14 0.44
38 11 0.34
40 7 0.22
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (39 bp):
AATTAAGATTTTAAAATTATAAAATATAACAAAATTATA
Found at i:1752375 original size:31 final size:31
Alignment explanation
Indices: 1752340--1752400 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
1752330 TAGTTGTATG
* *
1752340 AATTATTTAAATTTCAATATTGTAAAACTCA
1 AATTATTTAAATCTCAATATTGCAAAACTCA
*
1752371 AATTATTTAAATCTCAGTATTGCAAAACTC
1 AATTATTTAAATCTCAATATTGCAAAACTC
1752401 TTTTAAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.39
Consensus pattern (31 bp):
AATTATTTAAATCTCAATATTGCAAAACTCA
Found at i:1752386 original size:16 final size:16
Alignment explanation
Indices: 1752340--1752386 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1752330 TAGTTGTATG
*
1752340 AATTATTTAAATTTC-
1 AATTATTTAAATCTCA
*
1752355 AA-TATTGTAAAACTCA
1 AATTATT-TAAATCTCA
1752371 AATTATTTAAATCTCA
1 AATTATTTAAATCTCA
1752387 GTATTGCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 10 0.38
17 4 0.15
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.43
Consensus pattern (16 bp):
AATTATTTAAATCTCA
Found at i:1759658 original size:25 final size:26
Alignment explanation
Indices: 1759625--1759742 Score: 97
Period size: 26 Copynumber: 4.7 Consensus size: 26
1759615 GGATTTTTTT
*
1759625 AGTGGTTTAGGGTTTTT-TATGTTAGA
1 AGTGATTTAGGGTTTTTATATGTTA-A
* *
1759651 A-TGATTTAGAGTTTTT-TAT-AT-A
1 AGTGATTTAGGGTTTTTATATGTTAA
*
1759673 A-T-AGTTTAGGGTTTTTATTTGTTAA
1 AGTGA-TTTAGGGTTTTTATATGTTAA
* *
1759698 AGTGGTTTAGGGTTTTTATTTGTTAA
1 AGTGATTTAGGGTTTTTATATGTTAA
* *
1759724 AGTGGTTTAAGGTTTTTAT
1 AGTGATTTAGGGTTTTTAT
1759743 TTTTTAAGTG
Statistics
Matches: 78, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
21 1 0.01
22 14 0.18
23 2 0.03
24 2 0.03
25 18 0.23
26 41 0.53
ACGTcount: A:0.23, C:0.00, G:0.24, T:0.53
Consensus pattern (26 bp):
AGTGATTTAGGGTTTTTATATGTTAA
Found at i:1759686 original size:22 final size:24
Alignment explanation
Indices: 1759629--1759714 Score: 63
Period size: 25 Copynumber: 3.5 Consensus size: 24
1759619 TTTTTTAGTG
*
1759629 GTTTAGGGTTTTTTATGTTAGAAT
1 GTTTAGGGTTTTTTATGATAGAAT
*
1759653 GATTTAGAGTTTTTTAT-AT--AAT
1 G-TTTAGGGTTTTTTATGATAGAAT
* *
1759675 AGTTTAGGGTTTTTATTTGTTA-AAGT
1 -GTTTAGGGTTTTT-TATGATAGAA-T
1759701 GGTTTAGGGTTTTT
1 -GTTTAGGGTTTTT
1759715 ATTTGTTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
22 14 0.28
23 3 0.06
24 3 0.06
25 16 0.32
26 14 0.28
ACGTcount: A:0.22, C:0.00, G:0.23, T:0.55
Consensus pattern (24 bp):
GTTTAGGGTTTTTTATGATAGAAT
Found at i:1759705 original size:26 final size:26
Alignment explanation
Indices: 1759676--1759749 Score: 130
Period size: 26 Copynumber: 2.8 Consensus size: 26
1759666 TTATATAATA
1759676 GTTTAGGGTTTTTATTTGTTAAAGTG
1 GTTTAGGGTTTTTATTTGTTAAAGTG
1759702 GTTTAGGGTTTTTATTTGTTAAAGTG
1 GTTTAGGGTTTTTATTTGTTAAAGTG
* *
1759728 GTTTAAGGTTTTTATTTTTTAA
1 GTTTAGGGTTTTTATTTGTTAA
1759750 GTGATATAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (26 bp):
GTTTAGGGTTTTTATTTGTTAAAGTG
Found at i:1759751 original size:25 final size:26
Alignment explanation
Indices: 1759676--1759763 Score: 124
Period size: 26 Copynumber: 3.4 Consensus size: 26
1759666 TTATATAATA
*
1759676 GTTTAGGGTTTTTATTTGTTAAAGTG
1 GTTTAAGGTTTTTATTTGTTAAAGTG
*
1759702 GTTTAGGGTTTTTATTTGTTAAAGTG
1 GTTTAAGGTTTTTATTTGTTAAAGTG
*
1759728 GTTTAAGGTTTTTATTT-TTTAAGTG
1 GTTTAAGGTTTTTATTTGTTAAAGTG
* *
1759753 ATATAAGGTTT
1 GTTTAAGGTTT
1759764 ATTGTTTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
25 16 0.28
26 42 0.72
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.55
Consensus pattern (26 bp):
GTTTAAGGTTTTTATTTGTTAAAGTG
Found at i:1759961 original size:30 final size:31
Alignment explanation
Indices: 1759893--1759973 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
1759883 GTAAAAAAAA
*
1759893 AAGAAAATAAAATGACATAAATTGAAAGTAC
1 AAGAAAATAAAATCACATAAATTGAAAGTAC
*
1759924 AAGAAAATAAAATCACATAAATTGAAA-TAT
1 AAGAAAATAAAATCACATAAATTGAAAGTAC
* * *
1759954 TAGAAAATACAATTACATAA
1 AAGAAAATAAAATCACATAA
1759974 GTAATGGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 19 0.42
31 26 0.58
ACGTcount: A:0.62, C:0.07, G:0.09, T:0.22
Consensus pattern (31 bp):
AAGAAAATAAAATCACATAAATTGAAAGTAC
Found at i:1767019 original size:22 final size:21
Alignment explanation
Indices: 1766977--1767016 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1766967 GAGTTTATTT
*
1766977 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1766998 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1767017 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1768968 original size:19 final size:19
Alignment explanation
Indices: 1768941--1768978 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1768931 CGTTGAACAG
1768941 TGGGGGGAATCGGTACCCT
1 TGGGGGGAATCGGTACCCT
* *
1768960 TGGGTGGAATCGGTTCCCT
1 TGGGGGGAATCGGTACCCT
1768979 CCGAGCATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.21, G:0.39, T:0.26
Consensus pattern (19 bp):
TGGGGGGAATCGGTACCCT
Found at i:1771367 original size:20 final size:19
Alignment explanation
Indices: 1771339--1771376 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
1771329 AACTAAAACA
1771339 AAAATATATATTT-ATTATC
1 AAAATATAT-TTTAATTATC
1771358 AAAATAATATTTTAATTAT
1 AAAAT-ATATTTTAATTAT
1771377 ATAACGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATATATTTTAATTATC
Found at i:1771371 original size:19 final size:20
Alignment explanation
Indices: 1771339--1771376 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
1771329 AACTAAAACA
1771339 AAAATATATATTT-ATTATC
1 AAAATATATATTTAATTATC
1771358 AAAATA-ATATTTTAATTAT
1 AAAATATATA-TTTAATTAT
1771377 ATAACGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 9 0.53
20 5 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAATATATATTTAATTATC
Found at i:1774413 original size:17 final size:17
Alignment explanation
Indices: 1774391--1774437 Score: 87
Period size: 17 Copynumber: 2.8 Consensus size: 17
1774381 TAACTCATTT
1774391 CTTTATTCAGCTTATAA
1 CTTTATTCAGCTTATAA
1774408 CTTTATTCAGCTTATAA
1 CTTTATTCAGCTTATAA
1774425 CTTTATTCA-CTTA
1 CTTTATTCAGCTTA
1774438 GCCCAATGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 4 0.13
17 26 0.87
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (17 bp):
CTTTATTCAGCTTATAA
Found at i:1774522 original size:23 final size:22
Alignment explanation
Indices: 1774491--1774542 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
1774481 GTAGAATTTG
* *
1774491 TCCCTAAGGACCACGTAGGAGTA
1 TCCCGAAGGACCACATA-GAGTA
* *
1774514 TCCCGAAGGATCACATAGATTA
1 TCCCGAAGGACCACATAGAGTA
1774536 TCCCGAA
1 TCCCGAA
1774543 TGATCGCGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (22 bp):
TCCCGAAGGACCACATAGAGTA
Found at i:1781417 original size:20 final size:21
Alignment explanation
Indices: 1781389--1781434 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
1781379 ATTATTTAAT
*
1781389 TTATCAAATATAATC-TAAAA
1 TTATAAAATATAATCATAAAA
* *
1781409 TTATAAAATATATTCATAATA
1 TTATAAAATATAATCATAAAA
1781430 TTATA
1 TTATA
1781435 TTTTAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (21 bp):
TTATAAAATATAATCATAAAA
Found at i:1781423 original size:60 final size:60
Alignment explanation
Indices: 1781356--1781536 Score: 168
Period size: 60 Copynumber: 3.1 Consensus size: 60
1781346 AACCATATAT
*
1781356 ATATATTCTTTTCACATTATAATATTATTTAATTTATCAAATATAATCTAAAATTATAAA
1 ATATATTCTTTTCACATTATAATATTATTTAATTTATCAAATATAATATAAAATTATAAA
* * * ** * *
1781416 ATATATTCATAATATT-ATATTTTAA-ATAAAGT-ATTT-T-GAATAT-ATAT---A-TAT-AT
1 ATATATTC-T--T-TTCACATTATAATATTATTTAATTTATCAAATATAATATAAAATTATAAA
*
1781469 ATATATTCTTTTCACATAATAATATTATTTAATTTATCAAATATAATATAAAATTATAAA
1 ATATATTCTTTTCACATTATAATATTATTTAATTTATCAAATATAATATAAAATTATAAA
1781529 ATATATTC
1 ATATATTC
1781537 ATAATATTAT
Statistics
Matches: 90, Mismatches: 16, Indels: 30
0.66 0.12 0.22
Matches are distributed among these distances:
49 2 0.02
50 7 0.08
51 4 0.04
52 5 0.06
53 10 0.11
54 8 0.09
55 5 0.06
58 4 0.04
59 8 0.09
60 18 0.20
61 5 0.06
62 4 0.04
63 8 0.09
64 2 0.02
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (60 bp):
ATATATTCTTTTCACATTATAATATTATTTAATTTATCAAATATAATATAAAATTATAAA
Found at i:1781474 original size:113 final size:113
Alignment explanation
Indices: 1781350--1781567 Score: 400
Period size: 113 Copynumber: 1.9 Consensus size: 113
1781340 TTTCTTAACC
* *
1781350 ATATATATATATTCTTTTCACATTATAATATTATTTAATTTATCAAATATAATCTAAAATTATAA
1 ATATATATATATTCTTTTCACATAATAATATTATTTAATTTATCAAATATAATATAAAATTATAA
*
1781415 AATATATTCATAATATTATATTTTAAATAAAGTATTTTGAATATATAT
66 AATATATTCATAATATTATATTTTAAAGAAAGTATTTTGAATATATAT
1781463 ATATATATATATTCTTTTCACATAATAATATTATTTAATTTATCAAATATAATATAAAATTATAA
1 ATATATATATATTCTTTTCACATAATAATATTATTTAATTTATCAAATATAATATAAAATTATAA
*
1781528 AATATATTCATAATATTATATTTTAAAGAAATTATTTTGA
66 AATATATTCATAATATTATATTTTAAAGAAAGTATTTTGA
1781568 GGGTAAAATA
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 101 1.00
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (113 bp):
ATATATATATATTCTTTTCACATAATAATATTATTTAATTTATCAAATATAATATAAAATTATAA
AATATATTCATAATATTATATTTTAAAGAAAGTATTTTGAATATATAT
Found at i:1781530 original size:20 final size:21
Alignment explanation
Indices: 1781502--1781547 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
1781492 ATTATTTAAT
*
1781502 TTATCAAATATAAT-ATAAAA
1 TTATAAAATATAATCATAAAA
* *
1781522 TTATAAAATATATTCATAATA
1 TTATAAAATATAATCATAAAA
1781543 TTATA
1 TTATA
1781548 TTTTAAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (21 bp):
TTATAAAATATAATCATAAAA
Found at i:1784550 original size:22 final size:22
Alignment explanation
Indices: 1784525--1784586 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
1784515 AGATAATTTA
*
1784525 AAATAATATTA-TTTAAATAAAT
1 AAATAATATGATTTTAAA-AAAT
*
1784547 AAATATTATGATTTTAAAAAAT
1 AAATAATATGATTTTAAAAAAT
*
1784569 AAATAAAAT-ATTTTAAAA
1 AAATAATATGATTTTAAAA
1784587 TATTTACATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.26
22 20 0.57
23 6 0.17
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
AAATAATATGATTTTAAAAAAT
Found at i:1789809 original size:52 final size:53
Alignment explanation
Indices: 1789744--1789850 Score: 171
Period size: 52 Copynumber: 2.0 Consensus size: 53
1789734 CACAAGATGG
* *
1789744 GGCACATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAA
1 GGCACATA-AAATAGGAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
*
1789798 GGCACAT-AAATAGGAAACTAGCCTAGAGTTAGGGAATTATAACTAATCACAA
1 GGCACATAAAATAGGAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
1789850 G
1 G
1789851 AATATTATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
52 43 0.86
54 7 0.14
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (53 bp):
GGCACATAAAATAGGAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
Found at i:1798490 original size:19 final size:20
Alignment explanation
Indices: 1798463--1798507 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
1798453 TTTCTTATTC
*
1798463 CTTTCTTTTT-GCTGTTTTG
1 CTTTTTTTTTCGCTGTTTTG
*
1798482 CTTTTTTTTTCTCTGTTTTG
1 CTTTTTTTTTCGCTGTTTTG
1798502 CATTTT
1 C-TTTT
1798508 CTATTTGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
20 9 0.41
21 4 0.18
ACGTcount: A:0.02, C:0.16, G:0.11, T:0.71
Consensus pattern (20 bp):
CTTTTTTTTTCGCTGTTTTG
Found at i:1810025 original size:23 final size:22
Alignment explanation
Indices: 1809995--1810075 Score: 92
Period size: 23 Copynumber: 3.6 Consensus size: 22
1809985 CATGACAGTG
*
1809995 TGCATCGATGCATATTCAAGGCA
1 TGCATCGATGCACATTCAAGG-A
* *
1810018 TGCATCGATTCACCTTCAAGG-
1 TGCATCGATGCACATTCAAGGA
*
1810039 TGTATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AA-GGA
1810063 TGCATCGATGCAC
1 TGCATCGATGCAC
1810076 TGTTAAGTGT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 14 0.29
22 2 0.04
23 20 0.42
24 12 0.25
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Found at i:1810056 original size:44 final size:44
Alignment explanation
Indices: 1809974--1810094 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 44
1809964 AACCCGACGG
* *
1809974 ATGCATCGATGCA-TGAC-AGTGTGCATCGATGCATATTC-AAGGC
1 ATGCATCGATGCACTGTCAAGTGT--ATCGATGCACATTCAAAGGC
* *
1810017 ATGCATCGATTCACCT-TCAAGGTGTATCGATGCACATTCAAAGGG
1 ATGCATCGATGCA-CTGTCAA-GTGTATCGATGCACATTCAAAGGC
*
1810062 ATGCATCGATGCACTGTTAAGTGTATCGATGCA
1 ATGCATCGATGCACTGTCAAGTGTATCGATGCA
1810095 TGAAGCACAA
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
43 12 0.18
44 29 0.44
45 21 0.32
46 4 0.06
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (44 bp):
ATGCATCGATGCACTGTCAAGTGTATCGATGCACATTCAAAGGC
Found at i:1814336 original size:117 final size:118
Alignment explanation
Indices: 1814116--1814337 Score: 254
Period size: 117 Copynumber: 1.9 Consensus size: 118
1814106 CTTTCAAATC
* * *
1814116 AAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAGAGTT
1 AAAATTTTCTTTTTCAATACTTTCAAATTTCAGTTTTGAAAGCTATAAATCCTTCTTCAACAGTT
* *
1814181 TATTTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAATTTG
66 TATTTTGATTTTCAAAATCCATTTTCCTTTCTAAAAGAAGTTTGTTTAATTTG
* * * * *
1814234 AAAA-TTTCTTTTTCAA-AGTTTTCAGATTTTAGTTTTGAAAGCTATAACTCCTTTTTCAACA-T
1 AAAATTTTCTTTTTCAATA-CTTTCAAATTTCAGTTTTGAAAGCTATAAATCCTTCTTCAACAGT
* * * **
1814296 TTCATTTTGTTTTTCCAAGTCTGTTTTACCTTTC-AAAAGAAG
65 TT-ATTTTGATTTTCAAAATCCATTTT-CCTTTCTAAAAGAAG
1814338 ATCATTTTTA
Statistics
Matches: 86, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
116 4 0.05
117 73 0.85
118 9 0.10
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.48
Consensus pattern (118 bp):
AAAATTTTCTTTTTCAATACTTTCAAATTTCAGTTTTGAAAGCTATAAATCCTTCTTCAACAGTT
TATTTTGATTTTCAAAATCCATTTTCCTTTCTAAAAGAAGTTTGTTTAATTTG
Found at i:1815664 original size:60 final size:60
Alignment explanation
Indices: 1815572--1815686 Score: 180
Period size: 60 Copynumber: 1.9 Consensus size: 60
1815562 TGCATCGAAT
* *
1815572 ACCTGAGTGCATCATGCATGGCTAGTGCATCGATGCAT-CAATGTATTCGATGTTTCAAA
1 ACCTGAGTGCATCATGCATGGCTAGTGCATCGATGCATGAAATGCATTCGATGTTTCAAA
1815631 ACCTGAGTGCATCGATGCATGG-TATGTGCATCGATGCATGAAATGCATTCGATGTT
1 ACCTGAGTGCATC-ATGCATGGCTA-GTGCATCGATGCATGAAATGCATTCGATGTT
1815687 CAATTTATTC
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
59 15 0.29
60 22 0.43
61 14 0.27
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (60 bp):
ACCTGAGTGCATCATGCATGGCTAGTGCATCGATGCATGAAATGCATTCGATGTTTCAAA
Found at i:1818577 original size:68 final size:68
Alignment explanation
Indices: 1818467--1818602 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
1818457 TTTATTATCT
*
1818467 TACCAAATGAACATATAGGCTCGAATCACAATTCACATAACATTAGGAGTCACTTCTTATCGTAG
1 TACCAAATGAACATATAGGCTCGAATCACAATTCACAAAACATTAGGAGTCACTTCTTATCGTAG
1818532 TAA
66 TAA
1818535 TACCAAATGAACATATAGGCTCGAATCACAATTCACAAAACATTAGGAGTCACTTCTTATCGTAG
1 TACCAAATGAACATATAGGCTCGAATCACAATTCACAAAACATTAGGAGTCACTTCTTATCGTAG
1818600 TAA
66 TAA
1818603 CTCCATCACA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (68 bp):
TACCAAATGAACATATAGGCTCGAATCACAATTCACAAAACATTAGGAGTCACTTCTTATCGTAG
TAA
Found at i:1822813 original size:22 final size:22
Alignment explanation
Indices: 1822770--1822819 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
1822760 TGAGAAAAAA
*
1822770 TATGAATGGGTACCGATACCCC
1 TATGAATGGGTACCAATACCCC
** *
1822792 TATGAATGGGTATTAATTCCCC
1 TATGAATGGGTACCAATACCCC
1822814 TATGAA
1 TATGAA
1822820 GACTCAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (22 bp):
TATGAATGGGTACCAATACCCC
Found at i:1822880 original size:33 final size:33
Alignment explanation
Indices: 1822843--1822973 Score: 208
Period size: 33 Copynumber: 4.0 Consensus size: 33
1822833 AATGCAAAAA
*
1822843 GGGTACCGATACCACTATGGGTATCAATACCCT
1 GGGTACCGATACCCCTATGGGTATCAATACCCT
*
1822876 GGGTACCGATACCCCTATGGGTATCAATACCCC
1 GGGTACCGATACCCCTATGGGTATCAATACCCT
** *
1822909 AAGTACCGATACCCATATGGGTATCAATACCCT
1 GGGTACCGATACCCCTATGGGTATCAATACCCT
*
1822942 CGGTACCGATACCCCTATGGGTATCAATACCC
1 GGGTACCGATACCCCTATGGGTATCAATACCC
1822974 CAAGGCTCCA
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 89 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (33 bp):
GGGTACCGATACCCCTATGGGTATCAATACCCT
Found at i:1822915 original size:66 final size:66
Alignment explanation
Indices: 1822845--1822977 Score: 241
Period size: 66 Copynumber: 2.0 Consensus size: 66
1822835 TGCAAAAAGG
*
1822845 GTACCGATA-CCACTATGGGTATCAATACCCTGGGTACCGATACCCCTATGGGTATCAATACCCC
1 GTACCGATACCCA-TATGGGTATCAATACCCTCGGTACCGATACCCCTATGGGTATCAATACCCC
1822909 AA
65 AA
1822911 GTACCGATACCCATATGGGTATCAATACCCTCGGTACCGATACCCCTATGGGTATCAATACCCCA
1 GTACCGATACCCATATGGGTATCAATACCCTCGGTACCGATACCCCTATGGGTATCAATACCCCA
1822976 A
66 A
1822977 G
1 G
1822978 GCTCCAACGG
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
66 62 0.95
67 3 0.05
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (66 bp):
GTACCGATACCCATATGGGTATCAATACCCTCGGTACCGATACCCCTATGGGTATCAATACCCCA
A
Found at i:1822974 original size:18 final size:18
Alignment explanation
Indices: 1822851--1822974 Score: 95
Period size: 18 Copynumber: 7.4 Consensus size: 18
1822841 AAGGGTACCG
*
1822851 ATACCACTATGGGTATCA
1 ATACCCCTATGGGTATCA
* *
1822869 ATA-CCC--TGGGTACCG
1 ATACCCCTATGGGTATCA
1822884 ATACCCCTATGGGTATCA
1 ATACCCCTATGGGTATCA
* * *
1822902 ATACCCC-A--AGTACCG
1 ATACCCCTATGGGTATCA
*
1822917 ATACCCATATGGGTATCA
1 ATACCCCTATGGGTATCA
* * *
1822935 ATA-CCC--TCGGTACCG
1 ATACCCCTATGGGTATCA
1822950 ATACCCCTATGGGTATCA
1 ATACCCCTATGGGTATCA
1822968 ATACCCC
1 ATACCCC
1822975 AAGGCTCCAA
Statistics
Matches: 78, Mismatches: 19, Indels: 18
0.68 0.17 0.16
Matches are distributed among these distances:
15 29 0.37
16 7 0.09
17 5 0.06
18 37 0.47
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (18 bp):
ATACCCCTATGGGTATCA
Found at i:1826126 original size:28 final size:28
Alignment explanation
Indices: 1826094--1826155 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
1826084 TATTTTCCAA
1826094 CAATTGGTAACAATTGGTATCTTTTTAC
1 CAATTGGTAACAATTGGTATCTTTTTAC
1826122 CAATTGGTAACAATTGGTATCTTTTTAC
1 CAATTGGTAACAATTGGTATCTTTTTAC
1826150 CAATTG
1 CAATTG
1826156 TTATCTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (28 bp):
CAATTGGTAACAATTGGTATCTTTTTAC
Found at i:1826127 original size:18 final size:18
Alignment explanation
Indices: 1826104--1826165 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 18
1826094 CAATTGGTAA
1826104 CAATTGGTATCTTTTTAC
1 CAATTGGTATCTTTTTAC
1826122 CAATTGGTA-------AC
1 CAATTGGTATCTTTTTAC
1826133 -AATTGGTATCTTTTTAC
1 CAATTGGTATCTTTTTAC
*
1826150 CAATTGTTATCTTTTT
1 CAATTGGTATCTTTTT
1826166 CATTAAACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 16
0.67 0.02 0.31
Matches are distributed among these distances:
10 8 0.23
11 2 0.06
17 2 0.06
18 23 0.66
ACGTcount: A:0.24, C:0.15, G:0.11, T:0.50
Consensus pattern (18 bp):
CAATTGGTATCTTTTTAC
Found at i:1826399 original size:18 final size:18
Alignment explanation
Indices: 1826376--1826429 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
1826366 AAAAATATGA
1826376 ATGGGTACCGATACCCCT
1 ATGGGTACCGATACCCCT
* *
1826394 ATGGGTATCAATA--CC-
1 ATGGGTACCGATACCCCT
1826409 ATGGGTACCGATACCCCT
1 ATGGGTACCGATACCCCT
1826427 ATG
1 ATG
1826430 AATGGGTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
15 11 0.38
16 2 0.07
17 2 0.07
18 14 0.48
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (18 bp):
ATGGGTACCGATACCCCT
Found at i:1826437 original size:22 final size:22
Alignment explanation
Indices: 1826409--1826453 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1826399 TATCAATACC
* *
1826409 ATGGGTACCGATACCCCTATGA
1 ATGGGTACCAATACACCTATGA
*
1826431 ATGGGTATCAATACACCTATGA
1 ATGGGTACCAATACACCTATGA
1826453 A
1 A
1826454 GACTCAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (22 bp):
ATGGGTACCAATACACCTATGA
Found at i:1826505 original size:18 final size:18
Alignment explanation
Indices: 1826484--1826540 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
1826474 AAGGGTACCG
1826484 ATACCCCTATGGGTATCA
1 ATACCCCTATGGGTATCA
*
1826502 ATA-CCC--TGGGTATCG
1 ATACCCCTATGGGTATCA
* *
1826517 ATATCCCTATGGGCATCA
1 ATACCCCTATGGGTATCA
1826535 ATACCC
1 ATACCC
1826541 TAAGGCTCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 11 0.34
16 3 0.09
17 3 0.09
18 15 0.47
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (18 bp):
ATACCCCTATGGGTATCA
Found at i:1826513 original size:15 final size:15
Alignment explanation
Indices: 1826493--1826541 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
1826483 GATACCCCTA
1826493 TGGGTATCAATACCC
1 TGGGTATCAATACCC
*
1826508 TGGGTATCGATATCCC
1 TGGGTATCAATA-CCC
*
1826524 TATGGGCATCAATACCC
1 --TGGGTATCAATACCC
1826541 T
1 T
1826542 AAGGCTCCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 12 0.43
16 3 0.11
17 3 0.11
18 10 0.36
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (15 bp):
TGGGTATCAATACCC
Found at i:1826519 original size:33 final size:33
Alignment explanation
Indices: 1826476--1826541 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1826466 GAATGAAAAA
*
1826476 GGGTACCGATACCCCTATGGGTATCAATACCCT
1 GGGTACCGATACCCCTATGGGCATCAATACCCT
* *
1826509 GGGTATCGATATCCCTATGGGCATCAATACCCT
1 GGGTACCGATACCCCTATGGGCATCAATACCCT
1826542 AAGGCTCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (33 bp):
GGGTACCGATACCCCTATGGGCATCAATACCCT
Found at i:1830201 original size:21 final size:23
Alignment explanation
Indices: 1830177--1830219 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
1830167 TATAAAATTA
1830177 TATG-AAATA-ATTATAAAAAAG
1 TATGTAAATATATTATAAAAAAG
*
1830198 TATGTTTAATATATTATAAAAA
1 TATG-TAAATATATTATAAAAA
1830220 TATTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
23 4 0.22
24 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (23 bp):
TATGTAAATATATTATAAAAAAG
Found at i:1830236 original size:33 final size:33
Alignment explanation
Indices: 1830198--1830264 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
1830188 TATAAAAAAG
1830198 TATGTTTAATATATTATAAAAATATTTATTTAA
1 TATGTTTAATATATTATAAAAATATTTATTTAA
1830231 TATGTTTAATATATTATAAAAATATTTATTTAA
1 TATGTTTAATATATTATAAAAATATTTATTTAA
1830264 T
1 T
1830265 TTTTTAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (33 bp):
TATGTTTAATATATTATAAAAATATTTATTTAA
Found at i:1830455 original size:23 final size:23
Alignment explanation
Indices: 1830423--1830524 Score: 111
Period size: 23 Copynumber: 4.5 Consensus size: 23
1830413 GATAATTTAA
*
1830423 AAATATTATTATTTAAAATAAAT
1 AAATAATATTATTTAAAATAAAT
1830446 AAATAATATTATTTAAAATAAAT
1 AAATAATATTATTTAAAATAAAT
* * *
1830469 AAATAATATGATTTTAAA-AACT
1 AAATAATATTATTTAAAATAAAT
*
1830491 AAATAA-A-TATTTTAAAATAATT
1 AAATAATATTA-TTTAAAATAAAT
**
1830513 TCATAATATTAT
1 AAATAATATTAT
1830525 AAATATACTT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
20 1 0.02
21 7 0.11
22 16 0.24
23 40 0.61
24 2 0.03
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (23 bp):
AAATAATATTATTTAAAATAAAT
Found at i:1830464 original size:19 final size:19
Alignment explanation
Indices: 1830392--1830470 Score: 60
Period size: 19 Copynumber: 4.1 Consensus size: 19
1830382 GGTTATGTAC
1830392 AATATTATTTAAAATTAAAT
1 AATATTATTTAAAA-TAAAT
1830412 AGATA--ATTT--AA-AAAT
1 A-ATATTATTTAAAATAAAT
*
1830427 ATTATTATTTAAAATAAATAAAT
1 AATATTATTT---A-AAATAAAT
1830450 AATATTATTTAAAATAAAT
1 AATATTATTTAAAATAAAT
1830469 AA
1 AA
1830471 ATAATATGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 21
0.67 0.03 0.30
Matches are distributed among these distances:
14 2 0.04
15 5 0.11
16 4 0.09
17 2 0.04
19 14 0.30
20 2 0.04
21 3 0.06
22 2 0.04
23 13 0.28
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (19 bp):
AATATTATTTAAAATAAAT
Found at i:1832646 original size:20 final size:20
Alignment explanation
Indices: 1832617--1832655 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1832607 TCATCTCAAA
1832617 TCATCCAATATCGATATTGT
1 TCATCCAATATCGATATTGT
*
1832637 TCATCTAATATCGATATTG
1 TCATCCAATATCGATATTG
1832656 AAACCCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (20 bp):
TCATCCAATATCGATATTGT
Found at i:1833829 original size:377 final size:377
Alignment explanation
Indices: 1833134--1833867 Score: 1035
Period size: 377 Copynumber: 1.9 Consensus size: 377
1833124 AGAAAATATG
* * * * *
1833134 GAGAAATGAAGGAGAAGAAATGAAGAGAAAATGATGAAATGGGAGATATAAAAGTTCTCATCTTT
1 GAGAAATGAAGAAGAAGAAATGAAGAGAAAAAGATAAAATGGGAGATATAAAAGCTATCATCTTT
*
1833199 TAAAAAGGGTGAAATTGCACAATTGATCCTTCCTCATCTTTAAACAATTCAAAAATTATCATTTT
66 TAAAAAGGGTGAAATTGCACAATTGATCATTCCTCATCTTTAAACAATTCAAAAATTATCATTTT
* * * *
1833264 ATGGCTAATTGGGCCAATTACAACTCAATTAACACCAACGAATTAAATTATTAAATTCATGGGGT
131 ATGGCTAATTGGCCCAATTACAACTCAATTAACACCAACGAATTAAATTATGAAATTCACGAGGT
* * *
1833329 CCATATACCTCTTGGGTAAACCCGAAACTACTAGCGTAGAATTTGGGGTGTTACAACTCTTCATT
196 CCACATACCTCTTGGGTAAACCCGAAACTACTAGCGTAGAATTTGGGGTGTTACAACTCTCCACT
** *
1833394 TCTTAAAAGAAATTTCATCCTCGAAATTTGTTTGGGTAGAATAACGACCTATCCTTAGGTCTAAA
261 TCTTAAAAGAAATTTCATCCTCGAAATTTACTTGGGTAGAATAACGACCTATCCTTAGGTCCAAA
*
1833459 ACTTAAAAAATCTCTGAGCACCTAGACTCTTATCAAATGGAGAGGAAATAGTA
326 ACTT-AAAAATCTCTGAGCACCTAAACTCTTATCAAATGGAGAGGAAATAGTA
* *
1833512 GAGAAATTAAGAAGAAGAAATGAAGAGAAAAAGATAAAATGGGAGATATAGAAGCTATCATCTTT
1 GAGAAATGAAGAAGAAGAAATGAAGAGAAAAAGATAAAATGGGAGATATAAAAGCTATCATCTTT
* * * *
1833577 TAAAAAGGGTGAAATTGCATAATTGATCATTCCTCATCTTTATACAATTCAAAAA-TCTCCTTTT
66 TAAAAAGGGTGAAATTGCACAATTGATCATTCCTCATCTTTAAACAATTCAAAAATTATCATTTT
* * * * *
1833641 ATTGCTAATTGGACCCAATTCCAACTCAA-TAAGC-CCGATGACTTAAATTATGAAATTCACGAG
131 ATGGCTAATTGG-CCCAATTACAACTCAATTAA-CACCAACGAATTAAATTATGAAATTCACGAG
* * ** * * * *
1833704 GTTCACATGCCTCTTGGGTAAACTTGGAACTACTAGCGTGGAATTTTGGGTGTTACAACTCTCCC
194 GTCCACATACCTCTTGGGTAAACCCGAAACTACTAGCGTAGAATTTGGGGTGTTACAACTCTCCA
*
1833769 CTTCTTAAAAGAAATTTTATCCTCGAAATTTACTTGGGTTA-AATAACGACCTATCCTTAGGTCC
259 CTTCTTAAAAGAAATTTCATCCTCGAAATTTACTTGGG-TAGAATAACGACCTATCCTTAGGTCC
** * *
1833833 AACGCTTATAAATCTTTGAGCACCTAAACTCTTAT
323 AAAACTTAAAAATCTCTGAGCACCTAAACTCTTAT
1833868 TACATATGAT
Statistics
Matches: 312, Mismatches: 41, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
376 25 0.08
377 160 0.51
378 127 0.41
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (377 bp):
GAGAAATGAAGAAGAAGAAATGAAGAGAAAAAGATAAAATGGGAGATATAAAAGCTATCATCTTT
TAAAAAGGGTGAAATTGCACAATTGATCATTCCTCATCTTTAAACAATTCAAAAATTATCATTTT
ATGGCTAATTGGCCCAATTACAACTCAATTAACACCAACGAATTAAATTATGAAATTCACGAGGT
CCACATACCTCTTGGGTAAACCCGAAACTACTAGCGTAGAATTTGGGGTGTTACAACTCTCCACT
TCTTAAAAGAAATTTCATCCTCGAAATTTACTTGGGTAGAATAACGACCTATCCTTAGGTCCAAA
ACTTAAAAATCTCTGAGCACCTAAACTCTTATCAAATGGAGAGGAAATAGTA
Found at i:1841285 original size:21 final size:21
Alignment explanation
Indices: 1841235--1841310 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
1841225 TCCTTTAGGG
1841235 GAAAGGATCGATCCCTTACTA
1 GAAAGGATCGATCCCTTACTA
* * * *
1841256 AAAATGATCGGTCCCTTGAC-C
1 GAAAGGATCGATCCCTT-ACTA
* **
1841277 GAAAGGATCGATCCCTCAGGA
1 GAAAGGATCGATCCCTTACTA
1841298 GAAAGGATCGATC
1 GAAAGGATCGATC
1841311 TCTTTTCAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 1 0.02
21 40 0.93
22 2 0.05
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.20
Consensus pattern (21 bp):
GAAAGGATCGATCCCTTACTA
Found at i:1846759 original size:10 final size:10
Alignment explanation
Indices: 1846740--1846770 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1846730 AACGAACATA
*
1846740 ATAAATGAAC
1 ATAAACGAAC
1846750 ATAAACGAAC
1 ATAAACGAAC
1846760 ATAAACGAAC
1 ATAAACGAAC
1846770 A
1 A
1846771 ACACAAACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.61, C:0.16, G:0.10, T:0.13
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:1846760 original size:37 final size:36
Alignment explanation
Indices: 1846703--1846773 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
1846693 CATTTAAATG
* *
1846703 ATAAACGAACGTAAATGAACACAAACAAACGAACATA
1 ATAAACGAACATAAACGAACACAAACAAAC-AACATA
* * *
1846740 ATAAATGAACATAAACGAACATAAACGAACAACA
1 ATAAACGAACATAAACGAACACAAACAAACAACA
1846774 CAAACACAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 4 0.14
37 25 0.86
ACGTcount: A:0.61, C:0.18, G:0.10, T:0.11
Consensus pattern (36 bp):
ATAAACGAACATAAACGAACACAAACAAACAACATA
Found at i:1846773 original size:23 final size:22
Alignment explanation
Indices: 1846705--1846778 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 22
1846695 TTTAAATGAT
* *
1846705 AAACGAACGTAAATGAACACAAAC
1 AAACGAACATAAA-GAACA-ACAC
* *
1846729 AAACGAACATAATA-AATGAACAT
1 AAACGAACATAA-AGAA-CAACAC
1846752 AAACGAACATAAACGAACAACAC
1 AAACGAACATAAA-GAACAACAC
1846775 AAAC
1 AAAC
1846779 ACAAAAAACA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
22 1 0.03
23 24 0.60
24 14 0.35
25 1 0.03
ACGTcount: A:0.61, C:0.20, G:0.09, T:0.09
Consensus pattern (22 bp):
AAACGAACATAAAGAACAACAC
Found at i:1847296 original size:21 final size:21
Alignment explanation
Indices: 1847270--1847320 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
1847260 GGAACCATGG
*
1847270 GATCGAAGAAGCTACATGGGA
1 GATCGAAGAAGCTACATAGGA
1847291 GATCGAAGAAGCTACATAGGA
1 GATCGAAGAAGCTACATAGGA
*
1847312 GACCGAAGA
1 GATCGAAGA
1847321 GGACATGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.41, C:0.16, G:0.31, T:0.12
Consensus pattern (21 bp):
GATCGAAGAAGCTACATAGGA
Found at i:1855886 original size:12 final size:12
Alignment explanation
Indices: 1855860--1855897 Score: 53
Period size: 10 Copynumber: 3.2 Consensus size: 12
1855850 TCTCAATCTC
1855860 TTTAATTTGTTTA
1 TTTAATTT-TTTA
1855873 TTTAATTTTTTA
1 TTTAATTTTTTA
1855885 TTT-A-TTTTTA
1 TTTAATTTTTTA
1855895 TTT
1 TTT
1855898 TAAAACAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 9 0.36
11 1 0.04
12 7 0.28
13 8 0.32
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (12 bp):
TTTAATTTTTTA
Found at i:1857943 original size:20 final size:21
Alignment explanation
Indices: 1857914--1858016 Score: 111
Period size: 21 Copynumber: 5.0 Consensus size: 21
1857904 AAATCATTGT
1857914 CCAGGGGGTACAGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
* * **
1857935 CCA-GGGGTATAAATTTGCCC
1 CCAGGGGGTACAGATTCCCCC
* *
1857955 CCAGGGGGTACCGATT-CCTC
1 CCAGGGGGTACAGATTCCCCC
* *
1857975 CCAGGGGGAACAAATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
*
1857996 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
1858017 TGTCTAATGG
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
20 31 0.48
21 33 0.52
ACGTcount: A:0.20, C:0.36, G:0.27, T:0.17
Consensus pattern (21 bp):
CCAGGGGGTACAGATTCCCCC
Found at i:1857971 original size:41 final size:42
Alignment explanation
Indices: 1857914--1858016 Score: 138
Period size: 41 Copynumber: 2.5 Consensus size: 42
1857904 AAATCATTGT
* * * **
1857914 CCAGGGGGTACAGATTCCCCCCCA-GGGGTATAAATTTGCCC
1 CCAGGGGGTACCGATTCCCCCCCAGGGGGAACAAATTCCCCC
*
1857955 CCAGGGGGTACCGATT-CCTCCCAGGGGGAACAAATTCCCCC
1 CCAGGGGGTACCGATTCCCCCCCAGGGGGAACAAATTCCCCC
1857996 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
1858017 TGTCTAATGG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 6 0.11
41 44 0.83
42 3 0.06
ACGTcount: A:0.20, C:0.36, G:0.27, T:0.17
Consensus pattern (42 bp):
CCAGGGGGTACCGATTCCCCCCCAGGGGGAACAAATTCCCCC
Found at i:1859433 original size:3 final size:3
Alignment explanation
Indices: 1859412--1859449 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
1859402 TGAAGAAAGG
* *
1859412 GAA G-A GAA GAA AAA TAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1859450 TGAGGACGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:1866012 original size:5 final size:5
Alignment explanation
Indices: 1865964--1866029 Score: 55
Period size: 5 Copynumber: 13.0 Consensus size: 5
1865954 GAGGTAACCC
* * **
1865964 ATTTT ATTTC ATTTT CATTTT A-TTT ATTTC ATTCC A-TTT ATTTT ATTTTT
1 ATTTT ATTTT ATTTT -ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A-TTTT
1866014 ATTTTT ATTTT ATTTT
1 A-TTTT ATTTT ATTTT
1866030 TTTCTCTGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
4 6 0.12
5 29 0.57
6 16 0.31
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:1866880 original size:14 final size:14
Alignment explanation
Indices: 1866861--1866889 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1866851 TTCGAACAGC
1866861 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
1866875 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
1866889 A
1 A
1866890 CTTTGTTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:1868910 original size:15 final size:15
Alignment explanation
Indices: 1868890--1868927 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
1868880 AAGCGACTGA
1868890 TGTTGCTGATTCTGC
1 TGTTGCTGATTCTGC
1868905 TGTTGCTGATTCTGC
1 TGTTGCTGATTCTGC
*
1868920 TGCTGCTG
1 TGTTGCTG
1868928 TTGTTGCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.05, C:0.21, G:0.29, T:0.45
Consensus pattern (15 bp):
TGTTGCTGATTCTGC
Found at i:1868935 original size:12 final size:12
Alignment explanation
Indices: 1868920--1868945 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1868910 CTGATTCTGC
1868920 TGCTGCTGTTGT
1 TGCTGCTGTTGT
1868932 TGCTGCTGTTGT
1 TGCTGCTGTTGT
1868944 TG
1 TG
1868946 TAACATACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.15, G:0.35, T:0.50
Consensus pattern (12 bp):
TGCTGCTGTTGT
Found at i:1868935 original size:15 final size:15
Alignment explanation
Indices: 1868917--1868978 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
1868907 TTGCTGATTC
1868917 TGCTGCTGCTGTTGT
1 TGCTGCTGCTGTTGT
*
1868932 TGCTGCTGTTGTTGT
1 TGCTGCTGCTGTTGT
** * *
1868947 AACATAC-CCTGTTGT
1 TGC-TGCTGCTGTTGT
*
1868962 TGCTGCTACTGTTGT
1 TGCTGCTGCTGTTGT
1868977 TG
1 TG
1868979 TTGTGATGGT
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.08, C:0.19, G:0.27, T:0.45
Consensus pattern (15 bp):
TGCTGCTGCTGTTGT
Found at i:1870914 original size:458 final size:458
Alignment explanation
Indices: 1870056--1871430 Score: 2603
Period size: 458 Copynumber: 3.0 Consensus size: 458
1870046 CTGTTTTTGC
1870056 AAAAGTAGCAGGGGCAATGAAGGCTGCCGGTGGTGCTAAGCTGGGTGCTGCTGCAACTGCCATGA
1 AAAAGTAGCAGGGGCAATGAAGGCTGCCGGTGGTGCTAAGCTGGGTGCTGCTGCAACTGCCATGA
1870121 CTGTGGCTGCATCAGCTGCTATGACAGGATCCAAACAGGACCCAAGAGATGGATCTAAGCGACCT
66 CTGTGGCTGCATCAGCTGCTATGACAGGATCCAAACAGGACCCAAGAGATGGATCTAAGCGACCT
*
1870186 CCAAAATGATATGCCTTCTCTTTCTTTCTTTTGGCAGCTTGTAGATGTTTGCATTTTAGGTAGCA
131 CCAAAATGATATGCCTTCTCTTTCTTTCTTTCGGCAGCTTGTAGATGTTTGCATTTTAGGTAGCA
1870251 TACTTGGCTGCTCACAGGGAAGCTTGTCGAGAGCAGATGGCTATGCTTGGCGATCCGTTTTTGGT
196 TACTTGGCTGCTCACAGGGAAGCTTGTCGAGAGCAGATGGCTATGCTTGGCGATCCGTTTTTGGT
* *
1870316 CATTACTGAGTTTTCTTTTGAAATCACTTGAAATACGAAAAACCAACATTTTTTATTTGAATTAA
261 CATTACTGAGTTTTCTTTTGAAATCACTTGAAATAAGAAAAACCAACGTTTTTTATTTGAATTAA
1870381 GAAGATGGTATGTTGCTATTCAAGTACAAACGTGAATGTTTCTCTTACATTCTAAAGCATAAAGT
326 GAAGATGGTATGTTGCTATTCAAGTACAAACGTGAATGTTTCTCTTACATTCTAAAGCATAAAGT
*
1870446 ACAGTTGTTTTATTTGAAGTAGCCTTTCTGACTCACTTGCATACAGCCCAAACGCACATTCCCTC
391 ACAGTTGTTTTATTTGAAGTAGCCTTTCTGGCTCACTTGCATACAGCCCAAACGCACATTCCCTC
1870511 TGG
456 TGG
1870514 AAAAGTAGCAGGGGCAATGAAGGCTGCCGGTGGTGCTAAGCTGGGTGCTGCTGCAACTGCCATGA
1 AAAAGTAGCAGGGGCAATGAAGGCTGCCGGTGGTGCTAAGCTGGGTGCTGCTGCAACTGCCATGA
1870579 CTGTGGCTGCATCAGCTGCTATGACAGGATCCAAACAGGACCCAAGAGATGGATCTAAGCGACCT
66 CTGTGGCTGCATCAGCTGCTATGACAGGATCCAAACAGGACCCAAGAGATGGATCTAAGCGACCT
*
1870644 CCAAAATGATATGCCTTCTCTTTCTTTCTTTCGGCAGCTTGTAGATGTTTCCATTTTAGGTAGCA
131 CCAAAATGATATGCCTTCTCTTTCTTTCTTTCGGCAGCTTGTAGATGTTTGCATTTTAGGTAGCA
* *
1870709 TACTTGGCTGCTCACAGGGAAGTTTGTCGAGAGCAGATGGATATGCTTGGCGATCCGTTTTTGGT
196 TACTTGGCTGCTCACAGGGAAGCTTGTCGAGAGCAGATGGCTATGCTTGGCGATCCGTTTTTGGT
1870774 CATTACTGAGTTTTCTTTTGAAATCACTTGAAATAAGAAAAACCAACGTTTTTTATTTGAATTAA
261 CATTACTGAGTTTTCTTTTGAAATCACTTGAAATAAGAAAAACCAACGTTTTTTATTTGAATTAA
1870839 GAAGATGGTATGTTGCTATTCAAGTACAAACGTGAATGTTTCTCTTACATTCTAAAGCATAAAGT
326 GAAGATGGTATGTTGCTATTCAAGTACAAACGTGAATGTTTCTCTTACATTCTAAAGCATAAAGT
* *
1870904 ACAATTGTTTTATTTGAAGTAGCCTTTCTGGCTCACTTGCATACAGCCCAAACGCACATTTCCTC
391 ACAGTTGTTTTATTTGAAGTAGCCTTTCTGGCTCACTTGCATACAGCCCAAACGCACATTCCCTC
1870969 TGG
456 TGG
*
1870972 AGAAGTAGCAGGGGCAATGAAGGCTGCCGGTGGTGCTAAGCTGGGTGCTGCTGCAACTGCCATGA
1 AAAAGTAGCAGGGGCAATGAAGGCTGCCGGTGGTGCTAAGCTGGGTGCTGCTGCAACTGCCATGA
1871037 CTGTGGCTGCATCAGCTGCTATGACAGGATCCAAACAGGACCCAAGAGATGGATCTAAGCGACCT
66 CTGTGGCTGCATCAGCTGCTATGACAGGATCCAAACAGGACCCAAGAGATGGATCTAAGCGACCT
*
1871102 CCAAAATGATATGCCTTCTCTTTCTTTCTTTCGACAGCTTGTAGATGTTTGCATTTTAGGTAGCA
131 CCAAAATGATATGCCTTCTCTTTCTTTCTTTCGGCAGCTTGTAGATGTTTGCATTTTAGGTAGCA
*
1871167 TACTTGGCTTCTCACAGGGAAGCTTGTCGAGAGCAGATGGCTATGCTTGGCGATCCGTTTTTGGT
196 TACTTGGCTGCTCACAGGGAAGCTTGTCGAGAGCAGATGGCTATGCTTGGCGATCCGTTTTTGGT
*
1871232 CATTACTGAGTTTTTTTTTGAAATCACTTGAAATAAGAAAAACCAACGTTTTTTATTTGAATTAA
261 CATTACTGAGTTTTCTTTTGAAATCACTTGAAATAAGAAAAACCAACGTTTTTTATTTGAATTAA
1871297 GAAGATGGTATGTTGCTATTCAAGTACAAACGTGAATGTTTCTCTTACATTCTAAAGCATAAAGT
326 GAAGATGGTATGTTGCTATTCAAGTACAAACGTGAATGTTTCTCTTACATTCTAAAGCATAAAGT
*
1871362 ACGGTTGTTTTATTT---GTAGCCTTTCTGGCTCACTTGCATACAGCCCAAACGCACATTCCCTC
391 ACAGTTGTTTTATTTGAAGTAGCCTTTCTGGCTCACTTGCATACAGCCCAAACGCACATTCCCTC
1871424 TGG
456 TGG
1871427 AAAA
1 AAAA
1871431 TGGAAACATT
Statistics
Matches: 897, Mismatches: 20, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
455 52 0.06
458 845 0.94
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (458 bp):
AAAAGTAGCAGGGGCAATGAAGGCTGCCGGTGGTGCTAAGCTGGGTGCTGCTGCAACTGCCATGA
CTGTGGCTGCATCAGCTGCTATGACAGGATCCAAACAGGACCCAAGAGATGGATCTAAGCGACCT
CCAAAATGATATGCCTTCTCTTTCTTTCTTTCGGCAGCTTGTAGATGTTTGCATTTTAGGTAGCA
TACTTGGCTGCTCACAGGGAAGCTTGTCGAGAGCAGATGGCTATGCTTGGCGATCCGTTTTTGGT
CATTACTGAGTTTTCTTTTGAAATCACTTGAAATAAGAAAAACCAACGTTTTTTATTTGAATTAA
GAAGATGGTATGTTGCTATTCAAGTACAAACGTGAATGTTTCTCTTACATTCTAAAGCATAAAGT
ACAGTTGTTTTATTTGAAGTAGCCTTTCTGGCTCACTTGCATACAGCCCAAACGCACATTCCCTC
TGG
Found at i:1879728 original size:24 final size:25
Alignment explanation
Indices: 1879701--1879766 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 25
1879691 TAACTGGCAC
1879701 CACATCACCTTGTTCACTAGGCT-T
1 CACATCACCTTGTTCACTAGGCTCT
*** * *
1879725 CACAAGGCTTTGTTCACTTGGCTCT
1 CACATCACCTTGTTCACTAGGCTCT
*
1879750 C-CATCACCTTGTCCACT
1 CACATCACCTTGTTCACT
1879767 GAGTTGCTCA
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
24 29 0.94
25 2 0.06
ACGTcount: A:0.18, C:0.35, G:0.14, T:0.33
Consensus pattern (25 bp):
CACATCACCTTGTTCACTAGGCTCT
Found at i:1879790 original size:48 final size:48
Alignment explanation
Indices: 1879746--1879862 Score: 164
Period size: 48 Copynumber: 2.4 Consensus size: 48
1879736 GTTCACTTGG
*
1879746 CTCTCCATCACCTTGTCCACTGAGTTGCTCATGACTTCGATCACTAGA
1 CTCTCCACCACCTTGTCCACTGAGTTGCTCATGACTTCGATCACTAGA
* * * * *
1879794 ATCTCCACCACCTTGTCCACTGAGTTGTTCATGACTTTGTTCA-TCGAA
1 CTCTCCACCACCTTGTCCACTGAGTTGCTCATGACTTCGATCACTAG-A
1879842 CTCTCCACCACCTTGTCCACT
1 CTCTCCACCACCTTGTCCACT
1879863 AAGCTCATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 2 0.03
48 59 0.97
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (48 bp):
CTCTCCACCACCTTGTCCACTGAGTTGCTCATGACTTCGATCACTAGA
Found at i:1896773 original size:22 final size:24
Alignment explanation
Indices: 1896743--1896791 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
1896733 ATTGCCTTCG
* *
1896743 TTGATTGTTGATTG-TGTTGAC-T
1 TTGACTGTTGATCGATGTTGACGT
1896765 TTGACTGTTGATCGATGTTGACGT
1 TTGACTGTTGATCGATGTTGACGT
1896789 TTG
1 TTG
1896792 TCAAAAAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.52
23 7 0.30
24 4 0.17
ACGTcount: A:0.14, C:0.08, G:0.29, T:0.49
Consensus pattern (24 bp):
TTGACTGTTGATCGATGTTGACGT
Found at i:1897770 original size:3 final size:3
Alignment explanation
Indices: 1897762--1897790 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
1897752 TGATTTTTAA
1897762 TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1897791 AAAAATATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:1899438 original size:24 final size:24
Alignment explanation
Indices: 1899410--1899496 Score: 86
Period size: 24 Copynumber: 3.6 Consensus size: 24
1899400 AATTCATTTG
1899410 TTTATGTTCGTTTATGTTCGTTCA
1 TTTATGTTCGTTTATGTTCGTTCA
* * *
1899434 TTTATATTCATATATGTTCGTTCA
1 TTTATGTTCGTTTATGTTCGTTCA
* ** *
1899458 TTTATGTTTGTGAATGTTCGTTTA
1 TTTATGTTCGTTTATGTTCGTTCA
*
1899482 TGTT-CGTTCGTTTAT
1 T-TTATGTTCGTTTAT
1899497 ATTAAGCCCA
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
24 47 0.96
25 2 0.04
ACGTcount: A:0.16, C:0.10, G:0.16, T:0.57
Consensus pattern (24 bp):
TTTATGTTCGTTTATGTTCGTTCA
Found at i:1899563 original size:16 final size:16
Alignment explanation
Indices: 1899542--1899576 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1899532 TCCAATCATT
1899542 AATATTTTAAAACCCA
1 AATATTTTAAAACCCA
* *
1899558 AATATTTTTAAACTCA
1 AATATTTTAAAACCCA
1899574 AAT
1 AAT
1899577 CAATTAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (16 bp):
AATATTTTAAAACCCA
Found at i:1899902 original size:38 final size:37
Alignment explanation
Indices: 1899784--1900112 Score: 307
Period size: 38 Copynumber: 8.8 Consensus size: 37
1899774 CATATATATC
** ***
1899784 TATATATTATATAGTTTGCAAATGGTTTTTGAAAATA
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAATA
* * *
1899821 CGTATATAATATATAATTTTTTTAAAATATTTTTGAAAATA
1 --TATATATTATAT-A-GTTTTTAAAACATTTTTGAAAATA
*
1899862 TATATATTATATAGTTTTTAAAGCATTTTTGAAAAGTA
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAA-TA
*
1899900 TATA-A-TATATAGTTTTTAAAACATTTTAG-AAATA
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAATA
1899934 TATATATTATATATAGTTTTTAAAATCA-TTTTGAAAATA
1 TATATA-T-TATATAGTTTTTAAAA-CATTTTTGAAAATA
* **
1899973 TATGCTA-TATAGTTTTTTTTAAAACATTTTTG-AAA-A
1 TAT-ATATTATA-TAGTTTTTAAAACATTTTTGAAAATA
* * *
1900009 CATATATTATATAGTTTTGAAAATATTTTT-AAAATA
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAATA
*
1900045 TATATAATATATATAGTTTTTGAAAACATTTTTTAAAACT-
1 TATAT-AT-TATATAGTTTTT-AAAACATTTTTGAAAA-TA
*
1900085 TATATATTATATAGTTTTGAAAACATTT
1 TATATATTATATAGTTTTTAAAACATTT
1900113 ATCTATTATA
Statistics
Matches: 243, Mismatches: 27, Indels: 42
0.78 0.09 0.13
Matches are distributed among these distances:
34 6 0.02
35 24 0.10
36 34 0.14
37 40 0.16
38 64 0.26
39 44 0.18
40 12 0.05
41 19 0.08
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (37 bp):
TATATATTATATAGTTTTTAAAACATTTTTGAAAATA
Found at i:1899968 original size:111 final size:111
Alignment explanation
Indices: 1899809--1900112 Score: 361
Period size: 111 Copynumber: 2.7 Consensus size: 111
1899799 TTGCAAATGG
*
1899809 TTTTTGAAAATACGTATATAATATATA-ATTTTTTTAAAAT-ATTTTTGAAAATATATATATTAT
1 TTTTT-AAAATA--TATATAATATATATA-GTTTTTAAAATCATTTTTGAAAATATATATATTAT
* * *
1899872 ATAGTTTTTAAAGCATTTTTGAAAAGTATATAATATATAGTTTTTAAAACA
62 ATAGTTTTTAAAACATTTTTGAAAA-CATATAATATATAGTTTTGAAAACA
* *
1899923 -TTTTAGAAATATATATATTATATATAGTTTTTAAAATCA-TTTTGAAAATATATGCTA-TATAG
1 TTTTTA-AAATATATATAATATATATAGTTTTTAAAATCATTTTTGAAAATATAT-ATATTATA-
** * *
1899985 TTTTTTTTAAAACATTTTTGAAAACATATATTATATAGTTTTGAAAATA
63 TAGTTTTTAAAACATTTTTGAAAACATATAATATATAGTTTTGAAAACA
*
1900034 TTTTTAAAATATATATAATATATATAGTTTTTGAAAA-CATTTTTTAAAACT-TATATATTATAT
1 TTTTTAAAATATATATAATATATATAGTTTTT-AAAATCATTTTTGAAAA-TATATATATTATAT
*
1900097 AGTTTTGAAAACATTT
64 AGTTTTTAAAACATTT
1900113 ATCTATTATA
Statistics
Matches: 164, Mismatches: 16, Indels: 23
0.81 0.08 0.11
Matches are distributed among these distances:
111 104 0.63
112 50 0.30
113 10 0.06
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (111 bp):
TTTTTAAAATATATATAATATATATAGTTTTTAAAATCATTTTTGAAAATATATATATTATATAG
TTTTTAAAACATTTTTGAAAACATATAATATATAGTTTTGAAAACA
Found at i:1900120 original size:27 final size:27
Alignment explanation
Indices: 1900075--1900139 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
1900065 TGAAAACATT
1900075 TTTTAAAAC--TTATATATTATATAG-
1 TTTTAAAACATTTATATATTATATAGA
*
1900099 TTTTGAAAACATTTATCTATTATATAGA
1 TTTT-AAAACATTTATATATTATATAGA
1900127 TTTTAAAACATTT
1 TTTTAAAACATTT
1900140 TTGAAAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
24 4 0.11
25 5 0.14
27 23 0.64
28 4 0.11
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (27 bp):
TTTTAAAACATTTATATATTATATAGA
Found at i:1900179 original size:32 final size:30
Alignment explanation
Indices: 1900150--1900210 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
1900140 TTGAAAATTT
1900150 ATATATAATATATAGTTTTTTTAAAAAAATAA
1 ATATATAATATATAG--TTTTTAAAAAAATAA
* *
1900182 ATTTATATTATATAGTTTTTAAAAAAATA
1 ATATATAATATATAGTTTTTAAAAAAATA
1900211 CTTTTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 14 0.52
32 13 0.48
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (30 bp):
ATATATAATATATAGTTTTTAAAAAAATAA
Found at i:1901538 original size:1 final size:1
Alignment explanation
Indices: 1901527--1901674 Score: 62
Period size: 1 Copynumber: 148.0 Consensus size: 1
1901517 TATCTTATTA
* ** * * * * * * * *
1901527 TTTTTTATTTTTTTCATTTTTTTATTTTATTTTTTTTTTTATTATTTATTTTTTTCTATTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * ** * * *
1901592 TTATTATTTATTTTTTTTATTTTATTTTTATTGTTTCTTTTTTTTTTCTTTCATTTCTTTATCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
1901657 TTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTT
1901675 AGTTTCTTTA
Statistics
Matches: 97, Mismatches: 50, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
1 97 1.00
ACGTcount: A:0.11, C:0.05, G:0.02, T:0.82
Consensus pattern (1 bp):
T
Found at i:1901551 original size:27 final size:24
Alignment explanation
Indices: 1901516--1901666 Score: 114
Period size: 27 Copynumber: 5.9 Consensus size: 24
1901506 TTGTTTTCCT
1901516 TTATCTTATTATTTTTTATTTTTTTCA
1 TTAT-TTATT-TTTTTTATTTTTTT-A
*
1901543 TTTTTTTATTTTATTTT-TTTTTTTA
1 -TTATTTATTTT-TTTTATTTTTTTA
1901568 TTATTTATTTTTTTCTATTGTTTTTTA
1 TTATTTATTTTTTT-TA-T-TTTTTTA
1901595 TTATTTATTTTTTTTATTTTATTT-
1 TTATTTATTTTTTTTATTTT-TTTA
1901619 TTATTGT-TTCTTTTTT-TTTTCTTTCA
1 TTATT-TATT-TTTTTTATTTT-TTT-A
* *
1901645 TTTCTTTATCTTTTTT-TTTTTT
1 -TTATTTATTTTTTTTATTTTTT
1901667 GTTTTTTTAG
Statistics
Matches: 106, Mismatches: 5, Indels: 27
0.77 0.04 0.20
Matches are distributed among these distances:
23 3 0.03
24 28 0.26
25 14 0.13
26 23 0.22
27 35 0.33
28 3 0.03
ACGTcount: A:0.13, C:0.05, G:0.01, T:0.81
Consensus pattern (24 bp):
TTATTTATTTTTTTTATTTTTTTA
Found at i:1901561 original size:24 final size:22
Alignment explanation
Indices: 1901529--1901674 Score: 97
Period size: 24 Copynumber: 6.5 Consensus size: 22
1901519 TCTTATTATT
**
1901529 TTTTATTTTTTTCATTTTTTTA
1 TTTTATTTTTTTTTTTTTTTTA
*
1901551 TTTTA--TTTTTTTTTTTATTA
1 TTTTATTTTTTTTTTTTTTTTA
1901571 -TTTATTTTTTTCTATTGTTTTTTA
1 TTTTATTTTTTT-T-TT-TTTTTTA
*
1901595 --TTATTTATTTTTTTTATTTTA
1 TTTTATTT-TTTTTTTTTTTTTA
* *
1901616 TTTTTATTGTTTCTTTTTTTTTTC
1 -TTTTATT-TTTTTTTTTTTTTTA
* *
1901640 TTTCATTTCTTTATCTTTTTTTT-
1 TTTTATTT-TTT-TTTTTTTTTTA
*
1901663 TTTTGTTTTTTT
1 TTTTATTTTTTT
1901675 AGTTTCTTTA
Statistics
Matches: 99, Mismatches: 13, Indels: 25
0.72 0.09 0.18
Matches are distributed among these distances:
19 4 0.04
20 12 0.12
21 12 0.12
22 12 0.12
23 23 0.23
24 35 0.35
25 1 0.01
ACGTcount: A:0.11, C:0.05, G:0.02, T:0.82
Consensus pattern (22 bp):
TTTTATTTTTTTTTTTTTTTTA
Found at i:1901623 original size:51 final size:50
Alignment explanation
Indices: 1901489--1901675 Score: 156
Period size: 51 Copynumber: 3.6 Consensus size: 50
1901479 CTCTCTTTAT
1901489 TTTATTT-TTTTATTTGTTTGTTTTCCTTTATCTTATTATTTTTTATTTTTTTCA
1 TTTATTTATTTTATTT-TTT-TTTT--TTTAT-TTATTATTTTTTATTTTTTTCA
* *
1901543 TTTTTTTATTTTATTTTTTTTTTTATTATTTATT-TTTTTCTATTGTTTTTTA
1 TTTATTTATTTTATTTTTTTTTTT-TTATTTATTATTTTT-TATT-TTTTTCA
*
1901595 -TTATTTATTTT-TTTTATTTTATTTTTATTGT-TTCTTTTTT-TTTTCTTTCA
1 TTTATTTATTTTATTTT-TTTT-TTTTTATT-TATTATTTTTTATTTT-TTTCA
*
1901645 TTTCTTTATCTTT-TTTTTTTTTGTTTT-TTTA
1 TTTATTTAT-TTTATTTTTTTTT-TTTTATTTA
1901676 GTTTCTTTAT
Statistics
Matches: 115, Mismatches: 5, Indels: 30
0.77 0.03 0.20
Matches are distributed among these distances:
49 3 0.03
50 18 0.16
51 47 0.41
52 26 0.23
53 4 0.03
54 9 0.08
55 8 0.07
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (50 bp):
TTTATTTATTTTATTTTTTTTTTTTTATTTATTATTTTTTATTTTTTTCA
Found at i:1905586 original size:95 final size:95
Alignment explanation
Indices: 1905410--1905664 Score: 324
Period size: 95 Copynumber: 2.7 Consensus size: 95
1905400 CCAAATTATA
* * *
1905410 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGTAATTAGTTAAACGCCCCGGCTTTA
1 ATTATA-ATATACAATAAAGCTTGAGTTGTCCCTCTATAGCAATTAGTTAAACACCCCGGCTTTA
*
1905475 TGGATAAGACTAAGCTAGCTTGATAAAGGCG
65 TGGATAAGACTAAGCTAGCCTGATAAAGGCG
* *
1905506 ATTATAATATACAATAAAGCTTGAGTTATCCCTCTATAGCAATTGGTTAAACACCCCGGCTTTAT
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTATAGCAATTAGTTAAACACCCCGGCTTTAT
* * * *
1905571 GGATAATATTCAGCTAGCCTGATAAAGGTG
66 GGATAAGACTAAGCTAGCCTGATAAAGGCG
* * * *
1905601 ATTATAATAT-C--TATA--TTAAGTTGTCCCTCTAGT-GCAATTAGTTAAACTCCCCGGCTATA
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTA-TAGCAATTAGTTAAACACCCCGGCTTTA
1905660 TGGAT
65 TGGAT
1905665 TCAGTTAACC
Statistics
Matches: 142, Mismatches: 16, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
90 42 0.30
91 1 0.01
92 3 0.02
94 1 0.01
95 89 0.63
96 6 0.04
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTATAGCAATTAGTTAAACACCCCGGCTTTAT
GGATAAGACTAAGCTAGCCTGATAAAGGCG
Found at i:1906831 original size:84 final size:84
Alignment explanation
Indices: 1906690--1907773 Score: 1098
Period size: 84 Copynumber: 13.1 Consensus size: 84
1906680 CTATTTTTTA
* * * * * *
1906690 GCAGCATAACTCAAGGCTAGAAAGGTTATCTTCCAGCAAAATACCTT-GAATTTCGACTACACTC
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCG-AGTTCGACTACACTC
1906754 AGCTCAAAGGCACATCATTT
65 AGCTCAAAGGCACATCATTT
* * *
1906774 GCAGCATAGCTAAAGGCTAGAAGGGTTATCTGCCACCAAAATACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
*
1906839 GCTCTAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * * * * *
1906858 GCAACATAGCTCAAGGCGAGAAGTGTTATTTGCCAACAAAAAACCTTCGAGTTTGACTACGCTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
* * *
1906923 GCTCCAAGGAACATCATTA
66 GCTCAAAGGCACATCATTT
* * * * * * * * *
1906942 GTAGCATAACTCAAGGCTAGAATGGTTATCTTCCAACAAAAGAACTTAGAGTTTGACTACGCTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
* *
1907007 GCTCCAAGGAACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * * * * *
1907026 ACAACATAGCTCAAGGCTAGAATGGTTATTTGCCAACAAAATACCTTCGATTTCGACTACGCTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
*
1907091 GCTCCAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * ** * * * * **
1907110 GTAACATAGCTCAAGGAAAGAAGGGTTATTTTCCAACAAAAGACCTTTGAGTTCGACTACGGTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
* *
1907175 ACTCAAAGGCATATCATTT
66 GCTCAAAGGCACATCATTT
* * * * *
1907194 GTAGCATAGCTCAAGGCAAAAAGGGTTATCT---ACC-AAAGACCTTCGAGTTCGACTGCGCTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
*
1907255 GCTCCAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * *
1907274 GCAGCATAACTCAAGGCTAGAAGGGTTATCTG---CC-AAAGACCTTCGAGTTTGATTCCACTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
*
1907335 GTTCAAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * *
1907354 GCAGCATAGCTCTAGGCAAGAAGGGTTATCTG---CC-AAAGACCTTAGAGTTCGATTACACTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
1907415 GCTCAAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * *
1907434 GCAACATAGCTCAAGACAAGAAGGGTTATCTG---CC-AAAGACCTTCGAGTTTGATTACACTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
**
1907495 GCTCGGAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * *
1907514 GCAGAATAACTCAAGGCTAGAAGGGTTATCTTCCA--AAGAAGACCTTCGAGTTTGATTACACTC
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAA-AAGACCTTCGAGTTCGACTACACTC
**
1907577 AGCTCATTGGCACATCATTT
65 AGCTCAAAGGCACATCATTT
* * * *
1907597 GCAGTATAACTCAAGGCTAGAAGGGTTATCTG---CC-AAATACCTTCGAGTTCGATTACACTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
1907658 GCTCAAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * * * * *
1907677 ACAGCATAGCTCAAGGCGAGAAGGTTTATCTGTCACCACAAGACATTCGAGTTCGATTACATTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
* *
1907742 ACTCAAAGGCATATCAAATTT
66 GCTCAAAGGCACATC--ATTT
*
1907763 ACAGCATAGCT
1 GCAGCATAGCT
1907774 TAAGTCGAAA
Statistics
Matches: 868, Mismatches: 117, Indels: 28
0.86 0.12 0.03
Matches are distributed among these distances:
80 349 0.40
81 3 0.00
82 1 0.00
83 74 0.09
84 425 0.49
85 1 0.00
86 15 0.02
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (84 bp):
GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
GCTCAAAGGCACATCATTT
Found at i:1908228 original size:37 final size:38
Alignment explanation
Indices: 1908185--1908398 Score: 199
Period size: 37 Copynumber: 5.7 Consensus size: 38
1908175 CATATATATC
* ***
1908185 TATATATTATATAG-TTTGTAAATGGTTTTTGAAAATACA
1 TATATATTATATAGTTTTTTAAAACATTTTTGAAAAT--A
* **
1908224 TATATAATATATAGTTTTTTTAAAACATTTAAGAAAATA
1 TATATATTATATAG-TTTTTTAAAACATTTTTGAAAATA
* *
1908263 TATATATTATATAG-TTTTTAAAGCATTTTGGAAAAT-
1 TATATATTATATAGTTTTTTAAAACATTTTTGAAAATA
*
1908299 TATATAATATATAGTTTTTTTAAAACATTTTTG-AAAT-
1 TATATATTATATAG-TTTTTTAAAACATTTTTGAAAATA
* * *
1908336 CATATATTATATAG-TTTTGAAAATATTTTT-AAAATA
1 TATATATTATATAGTTTTTTAAAACATTTTTGAAAATA
*
1908372 TATATAATATATATAGTTTTTGAAAAC
1 TATAT-AT-TATATAGTTTTTTAAAAC
1908399 TTATATATTA
Statistics
Matches: 146, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
35 18 0.12
36 17 0.12
37 37 0.25
38 22 0.15
39 36 0.25
41 16 0.11
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.47
Consensus pattern (38 bp):
TATATATTATATAGTTTTTTAAAACATTTTTGAAAATA
Found at i:1908245 original size:75 final size:74
Alignment explanation
Indices: 1908157--1908384 Score: 224
Period size: 73 Copynumber: 3.1 Consensus size: 74
1908147 ATTTTCGTCC
* * *
1908157 ATATATA--TTTTTTATATACA-TATATATCTATATATTATATAGTTTGTAAATGGTTTTTGAAA
1 ATATATAGTTTTTTTA-AAACATTATAAATCTATATATTATATAGTTTGTAAATGATTTTTGAAA
1908219 ATACATATATA
65 ATA-ATATATA
* * * *
1908230 ATATATAGTTTTTTTAAAACATTTAAGAAAATATATATATTATATAGTTTTTAAA-GCATTTTGG
1 ATATATAGTTTTTTTAAAACA-TT-A-TAAATCTATATATTATATAGTTTGTAAATG-ATTTTTG
1908294 AAAAT--TATATA
62 AAAATAATATATA
* *
1908305 ATATATAGTTTTTTTAAAACATTTTTGAAATC-ATATATTATATAGTTTTGAAAAT-ATTTTT-A
1 ATATATAGTTTTTTTAAAACA-TTAT-AAATCTATATATTATATAG-TTTGTAAATGATTTTTGA
1908367 AAAT-ATATATA
63 AAATAATATATA
1908378 ATATATA
1 ATATATA
1908385 TAGTTTTTGA
Statistics
Matches: 131, Mismatches: 13, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
72 5 0.04
73 38 0.29
74 14 0.11
75 37 0.28
76 1 0.01
77 2 0.02
78 34 0.26
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.48
Consensus pattern (74 bp):
ATATATAGTTTTTTTAAAACATTATAAATCTATATATTATATAGTTTGTAAATGATTTTTGAAAA
TAATATATA
Found at i:1908385 original size:75 final size:76
Alignment explanation
Indices: 1908186--1908392 Score: 244
Period size: 75 Copynumber: 2.7 Consensus size: 76
1908176 ATATATATCT
* * *
1908186 ATATATTATATAG-TTTGTAAATGGTTTTTGAAAATACATATATAATATATAGTTTTTTTAAAAC
1 ATATATTATATAGTTTTGAAAAT-ATTTTT-AAAATATATATAT-ATATATAGTTTTTTTAAAAC
*
1908250 ATTTAAGAAAATAT
63 ATTTAAGAAAATAC
* ** *
1908264 ATATATTATATAGTTTTTAAAGCATTTTGGAAAAT-TATATA-ATATATAGTTTTTTTAAAACAT
1 ATATATTATATAGTTTTGAAAATATTTT-TAAAATATATATATATATATAGTTTTTTTAAAACAT
**
1908327 TTTTG-AAAT-C
65 TTAAGAAAATAC
1908337 ATATATTATATAGTTTTGAAAATATTTTTAAAATATATATAATATATATAGTTTTT
1 ATATATTATATAGTTTTGAAAATATTTTTAAAATATATAT-ATATATATAGTTTTT
1908393 GAAAACTTAT
Statistics
Matches: 110, Mismatches: 14, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
72 5 0.05
73 30 0.27
74 5 0.05
75 38 0.35
77 5 0.05
78 22 0.20
79 5 0.05
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (76 bp):
ATATATTATATAGTTTTGAAAATATTTTTAAAATATATATATATATATAGTTTTTTTAAAACATT
TAAGAAAATAC
Found at i:1908450 original size:27 final size:27
Alignment explanation
Indices: 1908361--1908454 Score: 122
Period size: 27 Copynumber: 3.5 Consensus size: 27
1908351 TTTGAAAATA
* *
1908361 TTTTTAAAATATATATA-ATATATATAG
1 TTTTTAAAACATTTATATAT-TATATAG
1908388 TTTTTGAAAAC--TTATATATTATATAG
1 TTTTT-AAAACATTTATATATTATATAG
*
1908414 TTTTGAAAACATTTATATATTATATAG
1 TTTTTAAAACATTTATATATTATATAG
1908441 TTTTTAAAACATTT
1 TTTTTAAAACATTT
1908455 TTTAAAATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
25 5 0.08
26 15 0.25
27 35 0.59
28 4 0.07
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (27 bp):
TTTTTAAAACATTTATATATTATATAG
Done.