Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold35
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: 4812169
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17994 characters in sequence are not A, C, G, or T
File 25 of 30
Found at i:3946483 original size:42 final size:40
Alignment explanation
Indices: 3946422--3946515 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 40
3946412 CTCTTTTTCA
* * *
3946422 CTTTATCCTTAAGAAGCAAGACACT-TTCCTTTTCTTCTCTTC
1 CTTTGTCCTCAAGAAGCAAGAC-CTATTCC-ATTC-TCTCTTC
* * *
3946464 CTTTGTCCTCAAGGAGCAAGACCTATTTCATTCTCTTTTC
1 CTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTCTCTTC
3946504 CTTTGTCCTCAA
1 CTTTGTCCTCAA
3946516 AAAGTGGGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 18 0.40
41 5 0.11
42 22 0.49
ACGTcount: A:0.20, C:0.29, G:0.10, T:0.41
Consensus pattern (40 bp):
CTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTCTCTTC
Found at i:3947181 original size:20 final size:21
Alignment explanation
Indices: 3947132--3947187 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
3947122 AATTTCAATA
3947132 ATTTGTATCGATACAAACAGT
1 ATTTGTATCGATACAAACAGT
** *
3947153 AAATGTATCGATACATA-AGT
1 ATTTGTATCGATACAAACAGT
*
3947173 GTTTGTATCGATACA
1 ATTTGTATCGATACA
3947188 GTGCATCGCT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (21 bp):
ATTTGTATCGATACAAACAGT
Found at i:3948061 original size:62 final size:62
Alignment explanation
Indices: 3947907--3948455 Score: 694
Period size: 62 Copynumber: 8.8 Consensus size: 62
3947897 GACAAATAGA
*
3947907 CACCAA-TTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCTTGCTCTTTGAGGACTAGAAAGGTGC
1 CACCAACTT-GTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTA-AAAGGTGC
* * * * * * *
3947970 CACCAACTTGTATGGGCCTCGAAATGAAAAAGGCGTCTTGCTCTTTGAAGACTAAAGGGTGC
1 CACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGC
* * * * * * * *
3948032 CACCAACTTATATGGGCTTCGAAAAGAAAAAGGCATCTTGTTTTTTGAGGACTAGAAGGTGC
1 CACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGC
* * *
3948094 CACCAACTTGTGTGGGCTTCG-AAAGAAAAAGGCATCCTGTTCTTTGAGGACTAGAAAGGTGC
1 CACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTA-AAAGGTGC
*
3948156 CACCAACTTGTGTGGGCTTT-AAAAGGAAAAAGTCGTCCTGCTCTTTGAGGACTAAAAGGTGC
1 CACCAACTTGTGTGGGCTTTGAAAA-GAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGC
* * * * *
3948218 CACCAGCTTGTGTGGGCTTTGAAAAGACAAAGACGTCTTGCTCTTTGAGGACTAAGAGGTGC
1 CACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGC
*
3948280 CACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGGTGC
1 CACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTA-AAAGGTGC
* * * *
3948343 CACCAATTTATGTGGGCTTTG-AAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGGTGC
1 CACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACT-AAAAGGTGC
* ** * *
3948405 CACCAGCTCATGTGGGCTTT-AAAAGGAAAAGGCGTCATGCTCTTTGAGGAC
1 CACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGAC
3948456 AAAGGAAAAA
Statistics
Matches: 433, Mismatches: 45, Indels: 17
0.87 0.09 0.03
Matches are distributed among these distances:
61 30 0.07
62 298 0.69
63 103 0.24
64 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (62 bp):
CACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGC
Found at i:3948244 original size:186 final size:187
Alignment explanation
Indices: 3947907--3948455 Score: 775
Period size: 186 Copynumber: 2.9 Consensus size: 187
3947897 GACAAATAGA
*
3947907 CACCAA-TTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCTTGCTCTTTGAGGACTAGAAAGGTGCC
1 CACCAACTT-GTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCC
* * * * * * *
3947971 ACCAACTTGTATGGGCCTCGAAATGAAAAAGGCGTCTTGCTCTTTGAAGACTAAAGGGTGCCACC
65 ACCAACTTGTGTGGGCTTTGAAAGGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACC
* * * * * *
3948036 AACTTATATGGGCTTCGAAAAGAAAAAGGCATCTTGTTTTTTGAGGACT-AGAAGGTGC
130 AGCTTATGTGGGCTTTGAAAAGAAAAAGGCGTCTTGCTCTTTGAGGACTAAG-AGGTGC
* * *
3948094 CACCAACTTGTGTGGGCTTCG-AAAGAAAAAGGCATCCTGTTCTTTGAGGACTAGAAAGGTGCCA
1 CACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCA
* *
3948158 CCAACTTGTGTGGGCTTTAAAAGGAAAAAGTCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCA
66 CCAACTTGTGTGGGCTTTGAAAGGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCA
* * *
3948223 GCTTGTGTGGGCTTTGAAAAGACAAAGACGTCTTGCTCTTTGAGGACTAAGAGGTGC
131 GCTTATGTGGGCTTTGAAAAGAAAAAGGCGTCTTGCTCTTTGAGGACTAAGAGGTGC
*
3948280 CACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGGTGCCA
1 CACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCA
* * *
3948345 CCAATTTATGTGGGCTTTGAAAGG-AAAAGGCATCCTGCTCTTTGAGGACTAAAAAGGTGCCACC
66 CCAACTTGTGTGGGCTTTGAAAGGAAAAAGGCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACC
* * *
3948409 AGCTCATGTGGGCTTT-AAAAGGAAAAGGCGTCATGCTCTTTGAGGAC
130 AGCTTATGTGGGCTTTGAAAAGAAAAAGGCGTCTTGCTCTTTGAGGAC
3948456 AAAGGAAAAA
Statistics
Matches: 321, Mismatches: 37, Indels: 9
0.87 0.10 0.02
Matches are distributed among these distances:
186 212 0.66
187 107 0.33
188 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (187 bp):
CACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCA
CCAACTTGTGTGGGCTTTGAAAGGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCA
GCTTATGTGGGCTTTGAAAAGAAAAAGGCGTCTTGCTCTTTGAGGACTAAGAGGTGC
Found at i:3948645 original size:18 final size:18
Alignment explanation
Indices: 3948602--3948650 Score: 82
Period size: 17 Copynumber: 2.8 Consensus size: 18
3948592 TAGCTAGTAG
3948602 GTGGAGGATTCGACATAT
1 GTGGAGGATTCGACATAT
*
3948620 G-CGAGGATTCGACATAT
1 GTGGAGGATTCGACATAT
3948637 GTGGAGGATTCGAC
1 GTGGAGGATTCGAC
3948651 TTGGCCACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24
Consensus pattern (18 bp):
GTGGAGGATTCGACATAT
Found at i:3963637 original size:31 final size:30
Alignment explanation
Indices: 3963566--3963855 Score: 184
Period size: 29 Copynumber: 9.6 Consensus size: 30
3963556 TTCCTCACCC
*
3963566 TTCAAAAGTCCACAAGTCAGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
*
3963596 TTC-AAAGCCCACAAGTCAGTGGCATTTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-TCTTT
* *
3963626 TTCAAAAGCCCACAAGTCAGTGGCAAC--C
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
* * *
3963654 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
** *
3963683 TTCCGAAGCCCACAAGTCGGTGGCATC-TT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
* * * *
3963712 TTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-TCTTT
** * * *
3963743 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCA-TCTTT
** * *
3963778 TTCTTTTTAAGCCCACAAGGT-AGTGGCACCCTT
1 TTC---AAAAGCCCACAA-GTCAGTGGCATCTTT
* *
3963811 TTCAAAAGCCCACAAGTCAGTGGCAAC-CT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
3963840 TT-AAAAGCCCACAAGT
1 TTCAAAAGCCCACAAGT
3963856 TAGTAGCAAC
Statistics
Matches: 213, Mismatches: 32, Indels: 32
0.77 0.12 0.12
Matches are distributed among these distances:
27 21 0.10
28 17 0.08
29 51 0.24
30 49 0.23
31 26 0.12
33 7 0.03
34 17 0.08
35 25 0.12
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCTTT
Found at i:3963762 original size:35 final size:34
Alignment explanation
Indices: 3963721--3963795 Score: 105
Period size: 35 Copynumber: 2.2 Consensus size: 34
3963711 TTTCCAAAGT
* *
3963721 CCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCCATAGCACTCTTTTTCTTTT-TAAGC
* *
3963756 TCACAACTCTATAGCACTCTTTTTCTTTTTAAGC
1 CCACAACTCCATAGCACTCTTTTTCTTTTTAAGC
3963790 CCACAA
1 CCACAA
3963796 GGTAGTGGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 10 0.29
35 25 0.71
ACGTcount: A:0.23, C:0.31, G:0.09, T:0.37
Consensus pattern (34 bp):
CCACAACTCCATAGCACTCTTTTTCTTTTTAAGC
Found at i:3963812 original size:34 final size:36
Alignment explanation
Indices: 3963731--3963812 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 36
3963721 CCACAACTCC
* *
3963731 GTGGCACTCTTTTTCTTTTGTAAGCTCACAACTCTA
1 GTGGCACTCTTTTTCTTTTGTAAGCCCACAACGCTA
* *
3963767 -TAGCACTCTTTTTCTTTT-TAAGCCCACAA-GGTA
1 GTGGCACTCTTTTTCTTTTGTAAGCCCACAACGCTA
*
3963800 GTGGCACCCTTTT
1 GTGGCACTCTTTT
3963813 CAAAAGCCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
33 2 0.05
34 20 0.51
35 17 0.44
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.40
Consensus pattern (36 bp):
GTGGCACTCTTTTTCTTTTGTAAGCCCACAACGCTA
Found at i:3963820 original size:30 final size:29
Alignment explanation
Indices: 3963786--3963909 Score: 123
Period size: 28 Copynumber: 4.3 Consensus size: 29
3963776 TTTTCTTTTT
*
3963786 AAGCCCACAAGGTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGGTAGTGGCAACC-TTTCAA
3963816 AAGCCCACAA-GTCAGTGGCAACCTTT-AA
1 AAGCCCACAAGGT-AGTGGCAACCTTTCAA
* *
3963844 AAGCCCACAAGTTAGTAGCAACC-TTCAA
1 AAGCCCACAAGGTAGTGGCAACCTTTCAA
* * *
3963872 AAGCACACAA-GTTGAT-GCAAACCTCTCAA
1 AAGCCCACAAGGTAG-TGGC-AACCTTTCAA
3963901 AAGCCCACA
1 AAGCCCACA
3963910 CAAGTTGGTG
Statistics
Matches: 80, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
27 6 0.08
28 37 0.46
29 18 0.22
30 19 0.24
ACGTcount: A:0.37, C:0.30, G:0.16, T:0.17
Consensus pattern (29 bp):
AAGCCCACAAGGTAGTGGCAACCTTTCAA
Found at i:3964055 original size:49 final size:48
Alignment explanation
Indices: 3963929--3964158 Score: 254
Period size: 48 Copynumber: 4.8 Consensus size: 48
3963919 GGCGTCTCCT
* *
3963929 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGCC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCCC
* * **
3963977 TTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC-CC
* * *
3964026 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCA-----CC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCCC
* *
3964069 TTTAAGTCCAATATAGTTGGCCTTGAATCAACATATTGGCACCTTTTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TTCC--C
* * *
3964121 TTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
3964159 ACATCCTTTT
Statistics
Matches: 149, Mismatches: 23, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
43 36 0.24
48 42 0.28
49 36 0.24
50 1 0.01
52 34 0.23
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (48 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCCC
Found at i:3964093 original size:43 final size:43
Alignment explanation
Indices: 3963929--3964114 Score: 147
Period size: 43 Copynumber: 4.1 Consensus size: 43
3963919 GGCGTCTCCT
* * * *
3963929 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGCC
1 TTTAAGTCCAATATAGCTGACCTTGAATCAACACATTGGCA-----CC
* * * * *
3963977 TTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTC
1 TTTAAGTCCAATATAGCTGACCTTGAATCAACACATTGGCA-C--C
* *
3964023 ATATTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCACC
1 ---TTTAAGTCCAATATAGCTGACCTTGAATCAACACATTGGCACC
* * *
3964069 TTTAAGTCCAATATAGTTGGCCTTGAATCAACATATTGGCACC
1 TTTAAGTCCAATATAGCTGACCTTGAATCAACACATTGGCACC
3964112 TTT
1 TTT
3964115 TCCATCTTTA
Statistics
Matches: 119, Mismatches: 14, Indels: 15
0.80 0.09 0.10
Matches are distributed among these distances:
43 41 0.34
44 1 0.01
46 2 0.02
48 39 0.33
49 36 0.30
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (43 bp):
TTTAAGTCCAATATAGCTGACCTTGAATCAACACATTGGCACC
Found at i:3964112 original size:92 final size:95
Alignment explanation
Indices: 3963929--3964167 Score: 295
Period size: 92 Copynumber: 2.5 Consensus size: 95
3963919 GGCGTCTCCT
* * * * * *
3963929 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGCCTTTAAGTCCAATATCGC
1 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATT-G-A-CAT-CCTTTAAGTCCAATATAGC
*
3963994 TGGCCTTAAATCAGCATATTGGCACC-TT-CATA
62 TGGCCTTAAATCAACATATTGGCACCTTTCCATA
* *
3964026 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCA-CCTTTAAGTCCAATATAGTTGGC
1 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGACATCCTTTAAGTCCAATATAGCTGGC
* *
3964090 CTTGAATCAACATATTGGCACCTTTTCCATC
66 CTTAAATCAACATATTGGCACC-TTTCCATA
* *
3964121 TTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGACATCCTTT
3964168 TTCTCATCTT
Statistics
Matches: 124, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
92 41 0.33
94 3 0.02
95 41 0.33
96 6 0.05
97 33 0.27
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (95 bp):
TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGACATCCTTTAAGTCCAATATAGCTGGC
CTTAAATCAACATATTGGCACCTTTCCATA
Found at i:3964146 original size:52 final size:53
Alignment explanation
Indices: 3964068--3964221 Score: 184
Period size: 52 Copynumber: 2.9 Consensus size: 53
3964058 ACATTGGCAC
3964068 CTTTAAGTCCAATATAGTTGGCCTTGAATCAACATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAACATATTGGCACCTTTTCTCAT
* * * * * *
3964120 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAACATATTGGCA-CC-TTTTCTCAT
* * * * *
3964175 CTTTAAGCCCAATATCGTTGGTCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAACATATTGGCACCTTT
3964222 ATCACTTTTT
Statistics
Matches: 82, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
52 36 0.44
53 5 0.06
54 6 0.07
55 35 0.43
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGTTGGCCTTGAATCAACATATTGGCACCTTTTCTCAT
Found at i:3965006 original size:20 final size:20
Alignment explanation
Indices: 3964962--3965013 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
3964952 ATTTCAACGA
3964962 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATAAAGT
* ***
3964982 ATTGTATCGATACATATTTT
1 TTTGTATCGATACATAAAGT
3965002 TTTGTATCGATA
1 TTTGTATCGATA
3965014 AAATTCAAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (20 bp):
TTTGTATCGATACATAAAGT
Found at i:3965075 original size:13 final size:13
Alignment explanation
Indices: 3965057--3965081 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3965047 ATCACTTAAA
3965057 TGTATCGATACAT
1 TGTATCGATACAT
3965070 TGTATCGATACA
1 TGTATCGATACA
3965082 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3965094 original size:20 final size:20
Alignment explanation
Indices: 3965069--3965121 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
3965059 TATCGATACA
3965069 TTGTATCGATACACTGATCT
1 TTGTATCGATACACTGATCT
3965089 TTGTATCGATACACTGATCT
1 TTGTATCGATACACTGATCT
3965109 TTGTATCGATACA
1 TTGTATCGATACA
3965122 TGCAGGCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (20 bp):
TTGTATCGATACACTGATCT
Found at i:3966504 original size:15 final size:15
Alignment explanation
Indices: 3966484--3966514 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3966474 ATTTCGTTTG
*
3966484 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3966499 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3966514 G
1 G
3966515 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3968345 original size:21 final size:21
Alignment explanation
Indices: 3968316--3968360 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3968306 AAGTTTTCAT
*
3968316 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
3968336 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
3968358 TTT
1 TTT
3968361 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:3971029 original size:19 final size:19
Alignment explanation
Indices: 3971005--3971087 Score: 97
Period size: 19 Copynumber: 4.6 Consensus size: 19
3970995 GCTTAAATTA
3971005 TATCGATACAAAACTTATG
1 TATCGATACAAAACTTATG
*
3971024 TATCGATACAACACTTATG
1 TATCGATACAAAACTTATG
3971043 TATCGATAC---A--T-TG
1 TATCGATACAAAACTTATG
*
3971056 TATCGATACAACACTTTATG
1 TATCGATACAAAAC-TTATG
3971076 TATCGATACAAA
1 TATCGATACAAA
3971088 TCGTTGAAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
19 28 0.51
20 13 0.24
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.33
Consensus pattern (19 bp):
TATCGATACAAAACTTATG
Found at i:3971059 original size:13 final size:13
Alignment explanation
Indices: 3971041--3971065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3971031 ACAACACTTA
3971041 TGTATCGATACAT
1 TGTATCGATACAT
3971054 TGTATCGATACA
1 TGTATCGATACA
3971066 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3971063 original size:32 final size:33
Alignment explanation
Indices: 3971022--3971085 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
3971012 ACAAAACTTA
3971022 TGTATCGATACAACAC-TTATGTATCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
3971054 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
3971086 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:3972059 original size:49 final size:49
Alignment explanation
Indices: 3971927--3972713 Score: 1003
Period size: 49 Copynumber: 16.5 Consensus size: 49
3971917 ATGTGTTGAG
* * * *
3971927 TCAAGGCCAGCTACATTGAATTTAAAGACGGAAAATGTGCCAATATGCTGAT
1 TCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAATATGCTGAT
* * *
3971979 TCAAGGCCAGCTATATTGGACTT-----A-AAGGTGCCAATGTGTTGAT
1 TCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
*
3972022 TCAAGGCTAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
1 TCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
* * *
3972071 TCAAGGCCAGCTATATTGGACTT-----A-AAGGTGTCAATGTGCTGAT
1 TCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
* *
3972114 TCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
1 TCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
* * *
3972163 TCAAGGCCAG-TGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
1 TCAAGGCCAGCT-ACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
* * * *
3972212 TCAAGGCTAGCTATATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 TCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
* *
3972261 TCAAGGCCAGCTACCTTGGACTTAAATAAGAAGGTGCCAATATGCTGAT
1 TCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
* * *
3972310 TCAAGGCCAGCTATATTGGCCTT-----A-AAGGTGCCAATGTGCTGAT
1 TCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
* *
3972353 TCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
1 TCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
* *
3972402 TCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 TCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
* *
3972451 TCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
1 TCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
* *
3972500 TCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 TCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
3972549 TCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
1 TCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
* * *
3972598 TCAAGGCCAGCTATATTGGCCTT-----A-AAGGTGCCAATGTGCTGAT
1 TCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
*
3972641 TCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
1 TCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
* * *
3972690 TTAAGGCCAGCTATATTGGGCTTA
1 TCAAGGCCAGCTACATTGGACTTA
3972714 GAAGGGTTGC
Statistics
Matches: 653, Mismatches: 56, Indels: 55
0.85 0.07 0.07
Matches are distributed among these distances:
43 153 0.23
44 4 0.01
48 2 0.00
49 473 0.72
50 1 0.00
52 20 0.03
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
TCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
Found at i:3972299 original size:239 final size:238
Alignment explanation
Indices: 3971915--3972713 Score: 1154
Period size: 239 Copynumber: 3.4 Consensus size: 238
3971905 AAAATGATGT
* * * * * *
3971915 CAATGTGTTGAGTCAAGGCCAGCTACATTGAATTTAAAGACGGAAAATGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-TG--AAGGTGCCAATATGCTGATT
* *
3971980 CAAGGCCAGCTATATTGGACTT-AA-A-G--GTGCCAATGTGTTGATTCAAGGCTAGCTACATTG
63 CAAGGCCAGCTATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTG
*
3972040 GACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGTCAA
128 GACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAA
*
3972105 TGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGC
193 TGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
3972151 CAATATGCTGATTCAAGGCCAG-TGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
* * *
3972215 AGGCTAGCTATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCTACCTTGG
65 AGGCCAGCTATATTGGACTTAAAGATGAAG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGG
* *
3972280 ACTTAAATAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGCCTTAAAGGTGCCAAT
129 ACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAT
3972345 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
194 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
3972390 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
*
3972455 GGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
66 GGCCAGCTATATTGGACTTAAAGATGAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
* * *
3972520 CTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTG
130 CTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTG
* * *
3972585 CCAATATGCTGATTCAAGGCCAGCTATATTGGCCTT----A--AAGGTGC
189 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
3972629 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTTAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
*
3972694 GGCCAGCTATATTGGGCTTA
66 GGCCAGCTATATTGGACTTA
3972714 GAAGGGTTGC
Statistics
Matches: 510, Mismatches: 38, Indels: 27
0.89 0.07 0.05
Matches are distributed among these distances:
233 39 0.08
234 2 0.00
235 3 0.01
236 33 0.06
238 1 0.00
239 389 0.76
240 2 0.00
241 1 0.00
244 1 0.00
245 39 0.08
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (238 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGT
GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:3972445 original size:288 final size:288
Alignment explanation
Indices: 3971853--3972713 Score: 1190
Period size: 288 Copynumber: 3.0 Consensus size: 288
3971843 AAAAGTGAGA
* * ** * * *
3971853 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAATGATGTCAA
1 AAGATGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGAT--G---AA-GGTGCCAA
* * * * * *
3971918 TGTGTTGAGTCAAGGCCAGCTACATTGAATTTAAAGACGGAAAATGTGCCAATATGCTGATTCAA
60 TGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-TGAAGA--TGCCAATATGCTGATTCAA
* * * * * *
3971983 GGCCAGCTATATTGGAC-T---T-A-AAGGTGCCAATGTGTTGATTCAAGGCTAGCTACATTGGA
122 GGCCAGCTACATTGGACTTAAATAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGC
* *
3972042 CTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTG
187 CTT-----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
* *
3972101 TCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATG
246 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
3972144 AAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
* *
3972209 GATTCAAGGCTAGCTATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCTA
66 GATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCTA
*
3972274 CCTTGGACTTAAATAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGCCTTAAAGGT
131 CATTGGACTTAAATAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGCCTTAAAGGT
3972339 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTC
196 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTC
3972404 AAGGCCAGCTACATTGGACTTAAAGATG
261 AAGGCCAGCTACATTGGACTTAAAGATG
*
3972432 AAGATGCCAATATGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAGATGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
3972496 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCT
65 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCT
*
3972561 ACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGCCTTAAAGG
130 ACATTGGACTTAAATAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGCCTTAAAGG
*
3972626 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
195 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
* * *
3972691 TAAGGCCAGCTATATTGGGCTTA
260 CAAGGCCAGCTACATTGGACTTA
3972714 GAAGGGTTGC
Statistics
Matches: 520, Mismatches: 37, Indels: 29
0.89 0.06 0.05
Matches are distributed among these distances:
282 74 0.14
283 2 0.00
284 4 0.01
285 37 0.07
286 4 0.01
287 1 0.00
288 354 0.68
289 2 0.00
291 42 0.08
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (288 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
GATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCTA
CATTGGACTTAAATAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGCCTTAAAGGT
GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTC
AAGGCCAGCTACATTGGACTTAAAGATG
Found at i:3972757 original size:33 final size:33
Alignment explanation
Indices: 3972713--3973000 Score: 430
Period size: 32 Copynumber: 8.9 Consensus size: 33
3972703 TATTGGGCTT
*
3972713 AGAAGGGTTGCCACTGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
3972746 AGAATGGTTGCCACCAACTTGTATGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
3972779 AG-AGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
3972811 AAGAA-GGTTGCCACCAACTTGTGTGGGCTTT-G
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
3972843 AAAAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
3972876 AG-AGGGTTGCTACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
3972907 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT--
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
3972938 AGAA-GGTTGCCACCGACTTGTGTAGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
3972970 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
3973001 TGAAGGTTGC
Statistics
Matches: 231, Mismatches: 16, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
30 25 0.11
31 10 0.04
32 110 0.48
33 85 0.37
34 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:3972797 original size:65 final size:64
Alignment explanation
Indices: 3972706--3973022 Score: 434
Period size: 65 Copynumber: 5.0 Consensus size: 64
3972696 CCAGCTATAT
* *
3972706 TGGGC-TTAGA-AGGGTTGCCACTGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTA
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAA-GGTTGCCACCAACTTGTG
3972769 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAAGGTTGCCACCAACTTGTG
* * * * *
3972834 TGGGCTTT-GAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCTACCGACTTGTG
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTGCCACCAACTTGTG
*
3972898 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTGTGGGCTTT--AGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTGCCACCAACTTGTG
* * *
3972960 TAGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTT--TGAAGGTTGCCACTAACTTGTG
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTGCCACCAACTTGTG
3973023 GGCTTTTGAA
Statistics
Matches: 233, Mismatches: 15, Indels: 12
0.90 0.06 0.05
Matches are distributed among these distances:
62 27 0.12
63 57 0.24
64 61 0.26
65 84 0.36
66 4 0.02
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (64 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTGCCACCAACTTGTG
Found at i:3973833 original size:13 final size:13
Alignment explanation
Indices: 3973815--3973840 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3973805 CAATTTTTTG
3973815 TGTATCGATACAT
1 TGTATCGATACAT
3973828 TGTATCGATACAT
1 TGTATCGATACAT
3973841 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3974577 original size:21 final size:21
Alignment explanation
Indices: 3974536--3974579 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3974526 CTCCCCTTTA
* *
3974536 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
3974557 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
3974578 TC
1 TC
3974580 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:3978487 original size:15 final size:15
Alignment explanation
Indices: 3978467--3978497 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3978457 ATTTCGTTTG
*
3978467 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3978482 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3978497 G
1 G
3978498 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3980330 original size:21 final size:21
Alignment explanation
Indices: 3980301--3980345 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3980291 AAGTTTTCAT
*
3980301 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
3980321 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
3980343 TTT
1 TTT
3980346 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:3982581 original size:13 final size:13
Alignment explanation
Indices: 3982563--3982588 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3982553 CAATTTTTTG
3982563 TGTATCGATACAT
1 TGTATCGATACAT
3982576 TGTATCGATACAT
1 TGTATCGATACAT
3982589 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3983029 original size:34 final size:34
Alignment explanation
Indices: 3982976--3983392 Score: 405
Period size: 34 Copynumber: 12.8 Consensus size: 34
3982966 TAACAGACAT
* *
3982976 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
3983010 GAAAGAGTGCCATGGAGTTGTGGACTTAAAAGG-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
3983043 AAAAG-GTGCCACGGAGTTGTGGACTTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGA
* *
3983077 AAAAGA-TGCCACAGAGTTGTGGACTGAAAAGGAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG-A
* * *
3983111 AAAAGGGTGCCATGGAGTCGTGGACTTAAAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
3983143 ----G-GTGCCACGGAGTTGTGGACTTTGAAAA-GA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TT-AAAAGGA
* *
3983173 AAAA-AGTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* * * **
3983206 AAAATAGTGCCACGAAGTTGTGGGCTTTGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
3983240 AAAAGAGTGCCACGGAGTTGTGGACTTAAAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
*
3983272 ----G-GTGCCACGAAGTTGTGGACTTTGAAAA-GA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TT-AAAAGGA
* *
3983302 AAAAG-GTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
**
3983335 AAAAGAGTGCCACGGAGTTGTGGACTTTGAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
3983367 AAAAGA-TGCCACTGAGTCGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGACTT
3983393 TGGAAAGAGA
Statistics
Matches: 327, Mismatches: 32, Indels: 51
0.80 0.08 0.12
Matches are distributed among these distances:
27 35 0.11
28 6 0.02
29 10 0.03
31 18 0.06
32 30 0.09
33 38 0.12
34 170 0.52
35 20 0.06
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:3983272 original size:129 final size:129
Alignment explanation
Indices: 3983011--3983392 Score: 535
Period size: 129 Copynumber: 3.0 Consensus size: 129
3983001 TTAAAAGGAG
* * * * *
3983011 AAAGAGTGCCATGGAGTTGTGGAC-TT-AAAAGGAAAAGGTGCCACGGAGTTGTGGACTTTAAAA
1 AAAGGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTAGAA
*** * *
3983074 GGAAAAAGA-TGCCAC-AGAGTTGTGGACTGAAAAGGAAAAAAGGGTGCCATGGAGTCGTGGACT
65 GGAAAAAGAGTGCCACGA-AGTTGTGGACTTTGAAGG-AAAAAGAGTGCCACGGAGTCGTGGACT
3983137 TA
128 TA
*
3983139 AAAGGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTAGAAG
1 AAAGGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAGAAG
* * *
3983204 GAAAAATAGTGCCACGAAGTTGTGGGCTTTGAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTA
66 GAAAAAGAGTGCCACGAAGTTGTGGACTTTGAAGGAAAAAGAGTGCCACGGAGTCGTGGACTTA
*
3983268 AAAGGGTGCCACGAAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAGAAG
1 AAAGGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAGAAG
* *
3983333 GAAAAAGAGTGCCACGGAGTTGTGGACTTTGAA-G-AAAAGA-TGCCACTGAGTCGTGGACTT
66 GAAAAAGAGTGCCACGAAGTTGTGGACTTTGAAGGAAAAAGAGTGCCACGGAGTCGTGGACTT
3983393 TGGAAAGAGA
Statistics
Matches: 229, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
126 18 0.08
127 6 0.03
128 23 0.10
129 134 0.59
130 47 0.21
131 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.20
Consensus pattern (129 bp):
AAAGGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAGAAG
GAAAAAGAGTGCCACGAAGTTGTGGACTTTGAAGGAAAAAGAGTGCCACGGAGTCGTGGACTTA
Found at i:3983311 original size:95 final size:96
Alignment explanation
Indices: 3982975--3983362 Score: 372
Period size: 95 Copynumber: 4.0 Consensus size: 96
3982965 CTAACAGACA
* * * *
3982975 TAAAAGGGTGCCACGAAGTTGTGGACTT-AAAAGGAGAAAGAGTGCCATGGAGTTGTGGACTTAA
1 TAAAAGGGTGCCACGAAGTTGTGGACTTGAAAAGGAAAAAGGGTGCCACGGAGTTGTGGACTTAG
3983039 AAGGAAAAG-GTGCCACGGAGTTGTGGACTT
66 AAGGAAAAGAGTGCCACGGAGTTGTGGACTT
* *
3983069 TAAAAGGAAAAAGATGCCAC-AGAGTTGTGGAC-TGAAAAGGAAAAAAGGGTGCCATGGAGTCGT
1 TAAAAGG-----G-TGCCACGA-AGTTGTGGACTTGAAAAGG-AAAAAGGGTGCCACGGAGTTGT
*
3983132 GGACTT------AAAAGGGTGCCACGGAGTTGTGGACTT
58 GGACTTAGAAGGAAAAGAGTGCCACGGAGTTGTGGACTT
* * * * ** *
3983165 TGAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTT-AGAAGGAAAAATAGTGCCACGAAGTTGTGG
1 T-AAAAG-----GGTGCCACGAAGTTGTGGACTTGAAAAGGAAAAAGGGTGCCACGGAGTTGTGG
* *
3983229 GCTTTGAAGGAAAAAGAGTGCCACGGAGTTGTGGAC-T
60 ACTTAGAAGG-AAAAGAGTGCCACGGAGTTGTGGACTT
*
3983266 TAAAAGGGTGCCACGAAGTTGTGGACTTTGAAAA-GAAAAA-GGTGCCACGGAGTTGTGGGCTTA
1 TAAAAGGGTGCCACGAAGTTGTGGAC-TTGAAAAGGAAAAAGGGTGCCACGGAGTTGTGGACTTA
3983329 GAAGGAAAAAGAGTGCCACGGAGTTGTGGACTT
65 GAAGG-AAAAGAGTGCCACGGAGTTGTGGACTT
3983362 T
1 T
3983363 GAAGAAAAGA
Statistics
Matches: 245, Mismatches: 21, Indels: 54
0.77 0.07 0.17
Matches are distributed among these distances:
94 7 0.03
95 95 0.39
96 52 0.21
97 10 0.04
99 3 0.01
100 27 0.11
101 27 0.11
102 24 0.10
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (96 bp):
TAAAAGGGTGCCACGAAGTTGTGGACTTGAAAAGGAAAAAGGGTGCCACGGAGTTGTGGACTTAG
AAGGAAAAGAGTGCCACGGAGTTGTGGACTT
Found at i:3983406 original size:30 final size:30
Alignment explanation
Indices: 3983335--3983551 Score: 204
Period size: 30 Copynumber: 7.1 Consensus size: 30
3983325 CTTAGAAGGA
* *
3983335 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTG-AG
3983367 AAAAGATGCCACTGAGTCGTGGACTTTG-G
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* * *
3983396 AAAGAGATGCCACTGAATTGTGGAATTTGAG
1 AAA-AGATGCCACTGAGTCGTGGACTTTGAG
* * *
3983427 ACAAGATGCCACTAAGTCGTGGACTTCAAGAAG
1 AAAAGATGCCACTGAGTCGTGGACTT--TG-AG
* * *
3983460 GAAAGATGCCACTGAGTCATGGACTTCG-G
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* *
3983489 AAAGAGATGCCACTGAATTGTGGACTTTGAG
1 AAA-AGATGCCACTGAGTCGTGGACTTTGAG
* * * *
3983520 ACAAGATGCCACTAAGTCATGGACTTTAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
3983550 AA
1 AA
3983552 GGAAAGATGC
Statistics
Matches: 150, Mismatches: 28, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
29 7 0.05
30 85 0.57
31 27 0.18
32 7 0.05
33 24 0.16
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:3983407 original size:95 final size:95
Alignment explanation
Indices: 3983138--3983518 Score: 305
Period size: 95 Copynumber: 4.0 Consensus size: 95
3983128 TCGTGGACTT
* * * * * *
3983138 AAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTAGAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTG--AAGAAAAGA-TGCCACTGAGTCGTGGACTT---T
*
3983203 GGAAAAATAGTGCCAC-GAAGTTGTGGGCTTTGAAGGA
60 GGAAAAAGA-TGCCACGGAA-TTGTGGGCTTTGAAGGA
* * *
3983240 AAAAGAGTGCCACGGAGTTGTGGAC-TT--A-AAAGGGTGCCAC-GAAGTTGTGGACTTTGAAAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAGAAAAGATGCCACTG-AGTCGTGGACTTTG----
* * *
3983300 GAAAAAGGTGCCACGGAGTTGTGGGCTTAGAAGGA
61 GAAAAAGATGCCACGGAATTGTGGGCTTTGAAGGA
*
3983335 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAAAG
1 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAAAA
* **
3983400 AGATGCCACTGAATTGTGGAATTTG-A-G-
66 AGATGCCACGGAATTGTGGGCTTTGAAGGA
* ** * * * * *
3983427 ACAAGA-TGCCACTAAGTCGTGGACTTCAAGAAGGAAAGATGCCACTGAGTCATGGACTTCGGAA
1 AAAAGAGTGCCACGGAGTTGTGGACTT--TGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAA
* * *
3983491 AGAGATGCCACTGAATTGTGGACTTTGA
64 AAAGATGCCACGGAATTGTGGGCTTTGA
3983519 GACAAGATGC
Statistics
Matches: 236, Mismatches: 29, Indels: 36
0.78 0.10 0.12
Matches are distributed among these distances:
91 17 0.07
92 6 0.03
93 59 0.25
94 2 0.01
95 87 0.37
96 13 0.06
97 1 0.00
98 1 0.00
99 23 0.10
100 1 0.00
101 2 0.01
102 24 0.10
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.22
Consensus pattern (95 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAAAA
AGATGCCACGGAATTGTGGGCTTTGAAGGA
Found at i:3983417 original size:61 final size:62
Alignment explanation
Indices: 3983011--3983563 Score: 255
Period size: 61 Copynumber: 8.7 Consensus size: 62
3983001 TTAAAAGGAG
* ** * *
3983011 AAAGAGTGCCA-TGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTTAAAAG
1 AAAGA-TGCCACTGAAGTTGTGGACTTTGAA-GAAAAGATGCCACTGAGTTGTGGACTTT----G
3983075 GAA
60 GAA
* *** * *
3983078 AAAGATGCCACAG-AGTTGTGGACTGAAAAGGAAAAAAGGGTGCCA-TGGAGTCGTGGAC-TT--
1 AAAGATGCCACTGAAGTTGTGGACTTTGAA-G--AAAA-GATGCCACT-GAGTTGTGGACTTTGG
3983138 AA
61 AA
* * * * * * *
3983140 AAGGGTGCCAC-GGAGTTGTGGACTTTGAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTAGAAG
1 AAAGATGCCACTGAAGTTGTGGACTTTG--AAGAAAAGA-TGCCACTGAGTTGTGGACTT---TG
3983204 GAA
60 GAA
* * *
3983207 AAATAGTGCCAC-GAAGTTGTGGGCTTTGAAGGAAAAAGAGTGCCACGGAGTTGTGGAC-TT--A
1 AAAGA-TGCCACTGAAGTTGTGGACTTTGAA-G-AAAAGA-TGCCACTGAGTTGTGGACTTTGGA
3983268 A
62 A
* * * * * *
3983269 AAGGGTGCCAC-GAAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAGAAG
1 AAAGATGCCACTGAAGTTGTGGACTTTG--AAG-AAAAGATGCCACTGAGTTGTGGACTT---TG
3983333 GAA
60 GAA
* *
3983336 AAAGAGTGCCAC-GGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAA
1 AAAGA-TGCCACTGAAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTTGTGGACTTTGGAA
* * * * * **
3983398 AGAGATGCCACTGAA-TTGTGGAATTTG-AGACAAGATGCCACTAAGTCGTGGACTTCAAGAA
1 AAAGATGCCACTGAAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTTGTGGACTT-TGGAA
** * *
3983459 GGAAAGATGCCACTG-AGTCATGGACTTCG--GAAAGAGATGCCACTGAATTGTGGACTTT-GAG
1 --AAAGATGCCACTGAAGTTGTGGACTTTGAAGAAA-AGATGCCACTGAGTTGTGGACTTTGGA-
3983520 A
62 A
* ** *
3983521 CAAGATGCCACT-AAGTCATGGACTTTAAGAAGGAAAGATGCCA
1 AAAGATGCCACTGAAGTTGTGGACTTT--GAAGAAAAGATGCCA
3983564 ATGCCACTGA
Statistics
Matches: 388, Mismatches: 58, Indels: 84
0.73 0.11 0.16
Matches are distributed among these distances:
60 49 0.13
61 79 0.20
62 51 0.13
63 51 0.13
64 5 0.01
65 22 0.06
66 27 0.07
67 17 0.04
68 70 0.18
69 17 0.04
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.21
Consensus pattern (62 bp):
AAAGATGCCACTGAAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTTGTGGACTTTGGAA
Found at i:3983477 original size:93 final size:93
Alignment explanation
Indices: 3983363--3983563 Score: 348
Period size: 93 Copynumber: 2.2 Consensus size: 93
3983353 TGTGGACTTT
* * *
3983363 GAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAATTGTGGAATTTGAGA
1 GAAGGAAAGATGCCACTGAGTCATGGACTTCGGAAAGAGATGCCACTGAATTGTGGAATTTGAGA
*
3983428 CAAGATGCCACTAAGTCGTGGACTTCAA
66 CAAGATGCCACTAAGTCATGGACTTCAA
*
3983456 GAAGGAAAGATGCCACTGAGTCATGGACTTCGGAAAGAGATGCCACTGAATTGTGGACTTTGAGA
1 GAAGGAAAGATGCCACTGAGTCATGGACTTCGGAAAGAGATGCCACTGAATTGTGGAATTTGAGA
*
3983521 CAAGATGCCACTAAGTCATGGACTTTAA
66 CAAGATGCCACTAAGTCATGGACTTCAA
3983549 GAAGGAAAGATGCCA
1 GAAGGAAAGATGCCA
3983564 ATGCCACTGA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 102 1.00
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.21
Consensus pattern (93 bp):
GAAGGAAAGATGCCACTGAGTCATGGACTTCGGAAAGAGATGCCACTGAATTGTGGAATTTGAGA
CAAGATGCCACTAAGTCATGGACTTCAA
Found at i:3991850 original size:52 final size:52
Alignment explanation
Indices: 3991766--3991881 Score: 160
Period size: 52 Copynumber: 2.2 Consensus size: 52
3991756 ATGAAAAGTT
* * * *
3991766 GCCTGCATGTATCGATACATTTAATAGTGTATCGATGCATTTGGGCAAATTC
1 GCCTGCATGTATCGACACATTTAATAATGTATCGATACATCTGGGCAAATTC
* * * *
3991818 GCCTACATGTATCGACATATTTTATAATGTATCGATACATCTGGGCAAATTT
1 GCCTGCATGTATCGACACATTTAATAATGTATCGATACATCTGGGCAAATTC
3991870 GCCTGCATGTAT
1 GCCTGCATGTAT
3991882 TGATACAAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (52 bp):
GCCTGCATGTATCGACACATTTAATAATGTATCGATACATCTGGGCAAATTC
Found at i:3991901 original size:52 final size:52
Alignment explanation
Indices: 3991764--3991908 Score: 159
Period size: 52 Copynumber: 2.8 Consensus size: 52
3991754 ATATGAAAAG
* * * *
3991764 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATGCATTTGGGCAAAT
1 TTGCCTGCATGTATCGATACAATTATTAGTGTATCGATACATCTGGGCAAAT
* * * *
3991816 TCGCCTACATGTATCG--ACATATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-ATTAT-TAGTGTATCGATACATCTGGGCAAAT
* **
3991868 TTGCCTGCATGTATTGATACAAAGATTAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAATTATTAGTGTATCGATACA
3991909 ATGTATCGAT
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
50 3 0.04
51 2 0.03
52 64 0.86
53 2 0.03
54 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACAATTATTAGTGTATCGATACATCTGGGCAAAT
Found at i:3991915 original size:13 final size:13
Alignment explanation
Indices: 3991897--3991921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3991887 CAAAGATTAG
3991897 TGTATCGATACAA
1 TGTATCGATACAA
3991910 TGTATCGATACA
1 TGTATCGATACA
3991922 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3991990 original size:19 final size:18
Alignment explanation
Indices: 3991966--3992061 Score: 77
Period size: 13 Copynumber: 5.7 Consensus size: 18
3991956 GCTTAAATTA
3991966 TATCGATACAAAACTTATG
1 TATCGATAC-AAACTTATG
3991985 TATCGATAC--A--T-TG
1 TATCGATACAAACTTATG
*
3991998 TATCAATACAACACTTATG
1 TATCGATACAA-ACTTATG
3992017 TATCGATAC--A--T-TG
1 TATCGATACAAACTTATG
3992030 TATCGATACAACACTTTATG
1 TATCGATACAA-AC-TTATG
3992050 TATCGATACAAA
1 TATCGATACAAA
3992062 TCGTTGAAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 26
0.69 0.02 0.29
Matches are distributed among these distances:
13 21 0.34
14 2 0.03
16 4 0.06
18 1 0.02
19 21 0.34
20 13 0.21
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (18 bp):
TATCGATACAAACTTATG
Found at i:3992014 original size:32 final size:32
Alignment explanation
Indices: 3991966--3992059 Score: 161
Period size: 32 Copynumber: 2.9 Consensus size: 32
3991956 GCTTAAATTA
*
3991966 TATCGATACAAAACTTATGTATCGATACATTG
1 TATCGATACAACACTTATGTATCGATACATTG
*
3991998 TATCAATACAACACTTATGTATCGATACATTG
1 TATCGATACAACACTTATGTATCGATACATTG
3992030 TATCGATACAACACTTTATGTATCGATACA
1 TATCGATACAACAC-TTATGTATCGATACA
3992060 AATCGTTGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 43 0.74
33 15 0.26
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (32 bp):
TATCGATACAACACTTATGTATCGATACATTG
Found at i:3997134 original size:12 final size:12
Alignment explanation
Indices: 3997117--3997141 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3997107 TTTCACTTGG
3997117 AAGATGACATCA
1 AAGATGACATCA
3997129 AAGATGACATCA
1 AAGATGACATCA
3997141 A
1 A
3997142 TGGCCAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
AAGATGACATCA
Found at i:3997981 original size:20 final size:20
Alignment explanation
Indices: 3997956--3998012 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
3997946 ATGTATGGAT
3997956 ATAATGTATTGATACAATAA
1 ATAATGTATTGATACAATAA
*
3997976 ATAATGTATTGATACAATGA
1 ATAATGTATTGATACAATAA
*
3997996 ATAATGTATCGATACAA
1 ATAATGTATTGATACAA
3998013 ATTGTGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.33
Consensus pattern (20 bp):
ATAATGTATTGATACAATAA
Found at i:3998383 original size:52 final size:52
Alignment explanation
Indices: 3998313--3998568 Score: 160
Period size: 52 Copynumber: 4.9 Consensus size: 52
3998303 AATGAACTCA
* * * *** *
3998313 ATGATAAGAGTGCCAATGTGCTGATTCACGGCCAGTGACCTTGGACTTAAAG
1 ATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAG
3998365 ATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAG
1 ATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAG
* * * * * ** * * * * *
3998417 ACGATAAG-GTGGCAATATATTGATTCAAGGCTAGCGATATTGGGCTTAAAG
1 ATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAG
* * ** * * * *
3998468 ATGA-CA-AAGGCACCAATGTATTGATTCAAGGCCAGCGACATTAGACTTAGAG
1 ATGAGAAGAATG--CCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAG
* * ** * *
3998520 ATGA-AAGGAATACCAATGTGCTGATTGAAGATCAGCGACATTGGACTTA
1 ATGAGAA-GAATGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTA
3998569 GAAGGAGATG
Statistics
Matches: 160, Mismatches: 39, Indels: 10
0.77 0.19 0.05
Matches are distributed among these distances:
50 2 0.01
51 36 0.22
52 120 0.75
54 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (52 bp):
ATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAG
Found at i:3998681 original size:28 final size:28
Alignment explanation
Indices: 3998649--3998833 Score: 199
Period size: 28 Copynumber: 6.5 Consensus size: 28
3998639 CACCAACTTG
** * *
3998649 TGTGGGCTTTTGAGAGGTGCCACTAACT
1 TGTGGGCTTTAAAAAGGTGCCACTGACT
* *
3998677 TGTGGGCTTTAAAAAAGTGCCATTGACT
1 TGTGGGCTTTAAAAAGGTGCCACTGACT
* * *
3998705 TATGGGCTTTAAAAGGGATGCCACTAACT
1 TGTGGGCTTTAAAAAGG-TGCCACTGACT
* * *
3998734 TATGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTAAAAAGGTGCCACTGACT
* * *
3998762 TATGGGCTTTAAAAGGGGATGCCATTGACT
1 TGTGGGCTTTAAAA-AGG-TGCCACTGACT
3998792 TGTGGGCTTTAAAAAGGTGCCACTGACT
1 TGTGGGCTTTAAAAAGGTGCCACTGACT
*
3998820 TGTAGGCTTTAAAA
1 TGTGGGCTTTAAAA
3998834 GTTGCTGTAG
Statistics
Matches: 131, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
28 82 0.63
29 26 0.20
30 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTAAAAAGGTGCCACTGACT
Found at i:3998730 original size:57 final size:57
Alignment explanation
Indices: 3998666--3998834 Score: 241
Period size: 57 Copynumber: 2.9 Consensus size: 57
3998656 TTTTGAGAGG
*
3998666 TGCCACTAACTTGTGGGCTTTAAAAAAGTGCCATTGACTTATGGGCTTTAAAAGGGA
1 TGCCACTAACTTGTGGGCTTTAAAAAAGTGCCACTGACTTATGGGCTTTAAAAGGGA
* *
3998723 TGCCACTAACTTATGGGCTTT-GAAAAGATGCCACTGACTTATGGGCTTTAAAAGGGGA
1 TGCCACTAACTTGTGGGCTTTAAAAAAG-TGCCACTGACTTATGGGCTTTAAAA-GGGA
* * * * *
3998781 TGCCATTGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTAGGCTTTAAAAG
1 TGCCACTAACTTGTGGGCTTTAAAAAAGTGCCACTGACTTATGGGCTTTAAAAG
3998835 TTGCTGTAGA
Statistics
Matches: 99, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
56 5 0.05
57 45 0.45
58 45 0.45
59 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (57 bp):
TGCCACTAACTTGTGGGCTTTAAAAAAGTGCCACTGACTTATGGGCTTTAAAAGGGA
Found at i:3998813 original size:58 final size:58
Alignment explanation
Indices: 3998666--3998834 Score: 250
Period size: 58 Copynumber: 2.9 Consensus size: 58
3998656 TTTTGAGAGG
* *
3998666 TGCCACTAACTTGTGGGCTTTAAAAAAGTGCCATTGACTTATGGGCTTTAAAA-GGGA
1 TGCCACTAACTTGTGGGCTTTAAAAAGGTGCCACTGACTTATGGGCTTTAAAAGGGGA
* * *
3998723 TGCCACTAACTTATGGGCTTTGAAAAGATGCCACTGACTTATGGGCTTTAAAAGGGGA
1 TGCCACTAACTTGTGGGCTTTAAAAAGGTGCCACTGACTTATGGGCTTTAAAAGGGGA
* * * *
3998781 TGCCATTGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTAGGCTTTAAAAG
1 TGCCACTAACTTGTGGGCTTTAAAAAGGTGCCACTGACTTATGGGCTTTAAAAG
3998835 TTGCTGTAGA
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
57 48 0.48
58 51 0.52
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (58 bp):
TGCCACTAACTTGTGGGCTTTAAAAAGGTGCCACTGACTTATGGGCTTTAAAAGGGGA
Found at i:3999110 original size:13 final size:13
Alignment explanation
Indices: 3999092--3999116 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3999082 CAAAAAATGT
3999092 TGTATCGATACAA
1 TGTATCGATACAA
3999105 TGTATCGATACA
1 TGTATCGATACA
3999117 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3999200 original size:13 final size:13
Alignment explanation
Indices: 3999182--3999206 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3999172 ATTACTCACA
3999182 TGTATCGATACAT
1 TGTATCGATACAT
3999195 TGTATCGATACA
1 TGTATCGATACA
3999207 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3999343 original size:52 final size:52
Alignment explanation
Indices: 3999215--3999335 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
3999205 CACTGATCTT
*
3999215 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
3999267 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3999319 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
3999336 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:4002481 original size:28 final size:27
Alignment explanation
Indices: 4002449--4002515 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
4002439 TAAAAGGGGA
4002449 TGCCACTGACTTATGGGTTTGAAAAAAG
1 TGCCACTGACTTATGGGTTT-AAAAAAG
* * * *
4002477 TGCCATTAATTTATGGGTTTAAAAAGG
1 TGCCACTGACTTATGGGTTTAAAAAAG
*
4002504 TGACACTGACTT
1 TGCCACTGACTT
4002516 GTCGGCTTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
27 14 0.45
28 17 0.55
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.33
Consensus pattern (27 bp):
TGCCACTGACTTATGGGTTTAAAAAAG
Found at i:4002663 original size:29 final size:29
Alignment explanation
Indices: 4002606--4003110 Score: 235
Period size: 30 Copynumber: 16.7 Consensus size: 29
4002596 CAAAGTTAAT
*
4002606 GGAGTTGTGGAATTT-AAAAGGGTGCCAC
1 GGAGTTGTGGACTTTAAAAAGGGTGCCAC
4002634 GGAGTTGTGGACTTTAAAAAGGGTGCCAC
1 GGAGTTGTGGACTTTAAAAAGGGTGCCAC
* * *
4002663 GGAGATATGGACTTTAAAAAGGGATGCCAT
1 GGAGTTGTGGACTTTAAAAAGGG-TGCCAC
* * *
4002693 AGAGTTGTGGATTTTAAAAAAGGGGTGCCAT
1 GGAGTTGTGGACTTT-AAAAA-GGGTGCCAC
* * ** *
4002724 GGAGTTTTGAACTTTGAAGAAAAATGTGCCAT
1 GGAGTTGTGGACTTT--A-AAAAGGGTGCCAC
* *
4002756 GGAGTTATGGACTTTGAAGAAAAAGGTGCCAC
1 GGAGTTGTGGACTTT--A-AAAAGGGTGCCAC
* * * *
4002788 AGAGTTCTAGACTTTAAAAAAAGAGGTGCCAT
1 GGAGTTGTGGACTTT--AAAAAG-GGTGCCAC
*
4002820 GGAGTTGTGGACTTCTAAAAAAAGGATGCCAC
1 GGAGTTGTGGACTT-T--AAAAAGGGTGCCAC
** *
4002852 TAAGTTGTGGATTTTAAAAAGAGGTGCCAC
1 GGAGTTGTGGACTTTAAAAAG-GGTGCCAC
* * *
4002882 -GAGGTTGTGGACTTTGAGAAGAGATGCCAC
1 GGA-GTTGTGGACTTTAAAAAG-GGTGCCAC
* * * * * * *
4002912 TGTGTCGTGGACTTTGGATAA-GATGCTAC
1 GGAGTTGTGGACTTT-AAAAAGGGTGCCAC
** * *
4002941 TTAGTCGTGGACTTTAAGAAGGGATGCCAC
1 GGAGTTGTGGACTTTAAAAAGGG-TGCCAC
* ** * * *
4002971 TGAGTCATGGACTTTGAGAAGGGGGCCAC
1 GGAGTTGTGGACTTTAAAAAGGGTGCCAC
* * * * *
4003000 TGAGTCGTGGACTTAAAAAAGAGATGCGAC
1 GGAGTTGTGGACTTTAAAAAG-GGTGCCAC
** ** *
4003030 TAAGTCATGGACTTTGAAAAAGGTTGCCAC
1 GGAGTTGTGGACTTT-AAAAAGGGTGCCAC
** ** **
4003060 TAAGTCATGGACTTTTAAAAA-AATGCCAC
1 GGAGTTGTGGAC-TTTAAAAAGGGTGCCAC
*
4003089 GGAGTTGTAGACTTTAAGAAAG
1 GGAGTTGTGGACTTTAA-AAAG
4003111 TTACTTCACT
Statistics
Matches: 387, Mismatches: 71, Indels: 36
0.78 0.14 0.07
Matches are distributed among these distances:
28 22 0.06
29 100 0.26
30 122 0.32
31 41 0.11
32 89 0.23
33 13 0.03
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (29 bp):
GGAGTTGTGGACTTTAAAAAGGGTGCCAC
Found at i:4002709 original size:59 final size:59
Alignment explanation
Indices: 4002613--4002727 Score: 153
Period size: 59 Copynumber: 1.9 Consensus size: 59
4002603 AATGGAGTTG
*
4002613 TGGAATTTAAAAGGGTGCCACGGAGTTGTGGACTTT-AAAAA-GGGTGCCACGGAGATA
1 TGGAATTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAAAGGGGTGCCACGGAGATA
* * * *
4002670 TGGACTTTAAAAAGGGATGCCATAGAGTTGTGGATTTTAAAAAAGGGGTGCCATGGAG
1 TGGAATTT-AAAAGGG-TGCCACAGAGTTGTGGACTTTAAAAAAGGGGTGCCACGGAG
4002728 TTTTGAACTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
57 7 0.14
58 7 0.14
59 18 0.37
60 5 0.10
61 12 0.24
ACGTcount: A:0.32, C:0.10, G:0.33, T:0.24
Consensus pattern (59 bp):
TGGAATTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAAAGGGGTGCCACGGAGATA
Found at i:4002754 original size:32 final size:32
Alignment explanation
Indices: 4002716--4002850 Score: 125
Period size: 32 Copynumber: 4.2 Consensus size: 32
4002706 TTAAAAAAGG
*
4002716 GGTGCCATGGAGTTTTGAACTTTGAAGAAAAA
1 GGTGCCATGGAGTTATGAACTTTGAAGAAAAA
* *
4002748 TGTGCCATGGAGTTATGGACTTTGAAGAAAAA
1 GGTGCCATGGAGTTATGAACTTTGAAGAAAAA
** * *
4002780 GGTGCCACAGAGTTCT-AGACTTT-AAAAAAAGA
1 GGTGCCATGGAGTTATGA-ACTTTGAAGAAAA-A
* *
4002812 GGTGCCATGGAGTTGTGGACTTCT-AA-AAAAA
1 GGTGCCATGGAGTTATGAACTT-TGAAGAAAAA
4002843 GGATGCCA
1 GG-TGCCA
4002851 CTAAGTTGTG
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
31 9 0.11
32 73 0.86
33 3 0.04
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (32 bp):
GGTGCCATGGAGTTATGAACTTTGAAGAAAAA
Found at i:4002793 original size:64 final size:63
Alignment explanation
Indices: 4002621--4002880 Score: 177
Period size: 64 Copynumber: 4.2 Consensus size: 63
4002611 TGTGGAATTT
* * * * * * *
4002621 AAAAG-GGTGCCACGGAGTTGTGGACTT-T-AAAAAGGGTGCCACGGAGATATGGACTTT--A
1 AAAAGAGGTGCCATGGAGTTATGGACTTCTAAAAAAAGGTGCCACAGAGTTCTAGACTTTAAA
* * * * ** *
4002679 AAAAG-GGATGCCATAGAGTTGTGGA-TTTTAAAAAAGGGGTGCCATGGAGTT-TTGAACTTTGA
1 AAAAGAGG-TGCCATGGAGTTATGGACTTCTAAAAAA-AGGTGCCACAGAGTTCTAG-ACTTT-A
*
4002741 AG
62 AA
*
4002743 AAAA-ATGTGCCATGGAGTTATGGACTT-TGAAGAAAAAGGTGCCACAGAGTTCTAGACTTTAAA
1 AAAAGAGGTGCCATGGAGTTATGGACTTCT-AA-AAAAAGGTGCCACAGAGTTCTAGACTTTAAA
* * * *
4002806 AAAAGAGGTGCCATGGAGTTGTGGACTTCTAAAAAAAGGATGCCACTA-AGTTGTGGA-TTT-TA
1 AAAAGAGGTGCCATGGAGTTATGGACTTCTAAAAAAAGG-TGCCAC-AGAGTTCTAGACTTTAAA
4002868 AAAAGAGGTGCCA
1 AAAAGAGGTGCCA
4002881 CGAGGTTGTG
Statistics
Matches: 166, Mismatches: 19, Indels: 30
0.77 0.09 0.14
Matches are distributed among these distances:
58 9 0.05
59 16 0.10
60 7 0.04
61 18 0.11
62 14 0.08
63 32 0.19
64 62 0.37
65 8 0.05
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.25
Consensus pattern (63 bp):
AAAAGAGGTGCCATGGAGTTATGGACTTCTAAAAAAAGGTGCCACAGAGTTCTAGACTTTAAA
Found at i:4002961 original size:59 final size:59
Alignment explanation
Indices: 4002888--4003074 Score: 189
Period size: 59 Copynumber: 3.2 Consensus size: 59
4002878 CCACGAGGTT
* * * * * *
4002888 GTGGACTTTGAGAAGAGATGCCACTGTGTCGTGGACTTTG-GATAAGATGCTACTTAGTC
1 GTGGACTTTAAGAAGAGATGCCACTGAGTCATGGACTTTGAGA-AAGAGGCCACTGAGTC
* * *
4002947 GTGGACTTTAAGAAGGGATGCCACTGAGTCATGGACTTTGAGAAGGGGGCCACTGAGTC
1 GTGGACTTTAAGAAGAGATGCCACTGAGTCATGGACTTTGAGAAAGAGGCCACTGAGTC
* * * * * *
4003006 GTGGACTTAAAAAAGAGATGCGACTAAGTCATGGACTTTGAAAAAG-GTTGCCACTAAGTC
1 GTGGACTTTAAGAAGAGATGCCACTGAGTCATGGACTTTGAGAAAGAG--GCCACTGAGTC
*
4003066 ATGGACTTT
1 GTGGACTTT
4003075 TAAAAAAATG
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
58 1 0.01
59 86 0.81
60 19 0.18
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (59 bp):
GTGGACTTTAAGAAGAGATGCCACTGAGTCATGGACTTTGAGAAAGAGGCCACTGAGTC
Found at i:4002969 original size:89 final size:88
Alignment explanation
Indices: 4002844--4003074 Score: 234
Period size: 89 Copynumber: 2.6 Consensus size: 88
4002834 CTAAAAAAAG
* * ** *
4002844 GATGCCACTAAGTTGTGGATTTTAAAAAGAGGTGCCAC-GAGGTTGTGGACTTTGAGAAGAGATG
1 GATGCCACTAAGTCGTGGACTTTAAAAAGAGGTGCCACTGA-GTCATGGACTTTGAGAAG-GAGG
*
4002908 CCACTGTGTCGTGGACTTTGGATAA
64 CCACTGAGTCGTGGACTTTGGATAA
* * * *
4002933 GATGCTACTTAGTCGTGGACTTTAAGAAG-GGATGCCACTGAGTCATGGACTTTGAGAAGGGGGC
1 GATGCCACTAAGTCGTGGACTTTAAAAAGAGG-TGCCACTGAGTCATGGACTTTGAGAAGGAGGC
*** *
4002997 CACTGAGTCGTGGACTTAAAAAAGA
65 CACTGAGTCGTGGACTTTGGATA-A
* * * *
4003022 GATGCGACTAAGTCATGGACTTTGAAAAAG-GTTGCCACTAAGTCATGGACTTT
1 GATGCCACTAAGTCGTGGACTTT-AAAAAGAGGTGCCACTGAGTCATGGACTTT
4003075 TAAAAAAATG
Statistics
Matches: 118, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
88 23 0.19
89 87 0.74
90 8 0.07
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (88 bp):
GATGCCACTAAGTCGTGGACTTTAAAAAGAGGTGCCACTGAGTCATGGACTTTGAGAAGGAGGCC
ACTGAGTCGTGGACTTTGGATAA
Found at i:4003088 original size:89 final size:88
Alignment explanation
Indices: 4002821--4003102 Score: 199
Period size: 89 Copynumber: 3.1 Consensus size: 88
4002811 AGGTGCCATG
* * ** * * * *
4002821 GAGTTGTGGACTTCTAAAAAAAGGATGCCACTAAGTTGTGGATTTTAA-AAAGAGGTGCCACGAG
1 GAGTCGTGGAC-T-TAAAAAAA-GATGCGACTAAGTCATGGACTTTAAGAAAG-GATGCCACTAA
** * *
4002885 GTTGTGGACTTTGAGAAGAGATGCCACT
62 GTCATGGACTTTGA-AAAAAATGCCACT
* *** * * * * * *
4002913 GTGTCGTGGACTTTGGATAAGATGCTACTTAGTCGTGGACTTTAAGAAGGGATGCCACTGAGTCA
1 GAGTCGTGGACTTAAAAAAAGATGCGACTAAGTCATGGACTTTAAGAAAGGATGCCACTAAGTCA
* ****
4002978 TGGACTTTGAGAAGGGGGCCACT
66 TGGACTTTGAAAAAAATGCCACT
*
4003001 GAGTCGTGGACTTAAAAAAGAGATGCGACTAAGTCATGGACTTTGAA-AAAGGTTGCCACTAAGT
1 GAGTCGTGGACTTAAAAAA-AGATGCGACTAAGTCATGGACTTT-AAGAAAGGATGCCACTAAGT
* *
4003065 CATGGACTTTTAAAAAAATGCCACG
64 CATGGACTTTGAAAAAAATGCCACT
* *
4003090 GAGTTGTAGACTT
1 GAGTCGTGGACTT
4003103 TAAGAAAGTT
Statistics
Matches: 145, Mismatches: 42, Indels: 9
0.74 0.21 0.05
Matches are distributed among these distances:
88 22 0.15
89 104 0.72
90 9 0.06
91 1 0.01
92 9 0.06
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (88 bp):
GAGTCGTGGACTTAAAAAAAGATGCGACTAAGTCATGGACTTTAAGAAAGGATGCCACTAAGTCA
TGGACTTTGAAAAAAATGCCACT
Found at i:4003685 original size:20 final size:20
Alignment explanation
Indices: 4003660--4003710 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
4003650 TTTTACAATT
*
4003660 TGTATCGATACAATAGGT-AA
1 TGTATCGATAC-ATAAGTGAA
*
4003680 TGTATCGATACATAATTGAA
1 TGTATCGATACATAAGTGAA
4003700 TGTATCGATAC
1 TGTATCGATAC
4003711 TTGCTTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:4003718 original size:20 final size:21
Alignment explanation
Indices: 4003678--4003732 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
4003668 TACAATAGGT
4003678 AATGTATCGATACATAATTG-
1 AATGTATCGATACATAATTGA
* **
4003698 AATGTATCGATACTTGCTTGA
1 AATGTATCGATACATAATTGA
*
4003719 AATATATCGATACA
1 AATGTATCGATACA
4003733 AAACCACTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATAATTGA
Found at i:4006321 original size:79 final size:78
Alignment explanation
Indices: 4006215--4006489 Score: 304
Period size: 79 Copynumber: 3.5 Consensus size: 78
4006205 CATCACGGGA
* * * ** * * *
4006215 ATACTCCAACCCCATCAATTCCAAGGGGATACTCCAAACTCGTTTTTATTTCCAAAATACTAAAT
1 ATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGTTTTTATTTCCAAAATATTAAAT
* *
4006280 TTTTCATCTTAGAG
66 TTTTCATC-TGGGG
* * * * * *
4006294 ATACTCCGACCCCGTTATTTCTGAGGGGGTACTCTAACCCCATTTTTATTTTCAAAATGTTAAAT
1 ATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGTTTTTATTTCCAAAATATTAAAT
4006359 TTTTCATCTCGGGG
66 TTTTCATCT-GGGG
* * * *
4006373 ATACTCCAACCCCATCAATTCTGAGGGGATATTCCAACCCCGTTTTTATTTCCAAAATATTAAAT
1 ATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGTTTTTATTTCCAAAATATTAAAT
4006438 TTTTC-TC-GGGG
66 TTTTCATCTGGGG
**
4006449 ATACTCCAATACCGTTATTT-TCGAGGGGATACTCCAACCCC
1 ATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAACCCC
4006490 ATTATTTTCG
Statistics
Matches: 162, Mismatches: 32, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
75 1 0.01
76 37 0.23
78 3 0.02
79 121 0.75
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (78 bp):
ATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGTTTTTATTTCCAAAATATTAAAT
TTTTCATCTGGGG
Found at i:4006469 original size:28 final size:28
Alignment explanation
Indices: 4006445--4006520 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
4006435 AATTTTTCTC
* *
4006445 GGGGATACTCCAATACCGTTATTTTCGA
1 GGGGATACTCCAACACCATTATTTTCGA
*
4006473 GGGGATACTCCAACCCCATTATTTTCGA
1 GGGGATACTCCAACACCATTATTTTCGA
* *
4006501 GGGGATACTCTAACCCCATT
1 GGGGATACTCCAACACCATT
4006521 TTAATTTCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (28 bp):
GGGGATACTCCAACACCATTATTTTCGA
Found at i:4006488 original size:104 final size:107
Alignment explanation
Indices: 4006369--4006596 Score: 277
Period size: 104 Copynumber: 2.2 Consensus size: 107
4006359 TTTTCATCTC
* * *
4006369 GGGGATACTCCAACCCCATCAATTCT-GAGGGGATATTCCAACCCCGTTTTTATTTCCAAAATAT
1 GGGGATACTCCAACCCCAT-AATTCTCGAGGGGATACTCCAACCCCATTTTAATTTCCAAAATAT
* *
4006433 T-AAA-TTTT-TCTCGGGGATACTCCAATACCGTTATTT-TCGA
65 TCAAATTTTTATCTCGGGGATACTCCAAGACCGTTATTTCT-AA
* * * *
4006473 GGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCTAACCCCATTTTAATTTCTAAAATATT
1 GGGGATACTCCAACCCCATAATTCTCGAGGGGATACTCCAACCCCATTTTAATTTCCAAAATATT
* * * *
4006538 CAAATTTTTATTTTGGGGATACTTCAAGCCCGTTATTTCTAA
66 CAAATTTTTATCTCGGGGATACTCCAAGACCGTTATTTCTAA
*
4006580 GAGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
4006597 GTTTGTTTCC
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
103 4 0.04
104 53 0.50
105 3 0.03
106 4 0.04
107 40 0.38
108 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (107 bp):
GGGGATACTCCAACCCCATAATTCTCGAGGGGATACTCCAACCCCATTTTAATTTCCAAAATATT
CAAATTTTTATCTCGGGGATACTCCAAGACCGTTATTTCTAA
Found at i:4006497 original size:158 final size:157
Alignment explanation
Indices: 4006202--4006492 Score: 408
Period size: 158 Copynumber: 1.9 Consensus size: 157
4006192 ACATCGAATG
*
4006202 TTTCATCACGGGAATACTCCAACCCCATCAATTCCAAGGGGATACTCCAAACTCGTTTTTATTTC
1 TTTCATCACGGGAATACTCCAACCCCATCAATTCCAAGGGGATACTCCAAACCCGTTTTTATTTC
* * * *
4006267 CAAAATACTAAATTTTTCATCTTAGAGATACTCCGACCCCGTTATTTCTGAGGGGGTACTCTAAC
66 CAAAATACTAAATTTTTCATC-TAGAGATACTCCAACACCGTTATTTCTGAGGGGATACTCCAAC
4006332 CCCATTTTTATTTTCAAAATGTTAAATT
130 CCCATTTTTATTTTCAAAATGTTAAATT
* * ** * *
4006360 TTTCATCTCGGGGATACTCCAACCCCATCAATTCTGAGGGGATATTCCAACCCCGTTTTTATTTC
1 TTTCATCACGGGAATACTCCAACCCCATCAATTCCAAGGGGATACTCCAAACCCGTTTTTATTTC
* * * *
4006425 CAAAATATTAAATTTTTC-TC-GGGGATACTCCAATACCGTTATTT-TCGAGGGGATACTCCAAC
66 CAAAATACTAAATTTTTCATCTAGAGATACTCCAACACCGTTATTTCT-GAGGGGATACTCCAAC
4006487 CCCATT
130 CCCATT
4006493 ATTTTCGAGG
Statistics
Matches: 117, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
154 1 0.01
155 39 0.33
157 2 0.02
158 75 0.64
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.34
Consensus pattern (157 bp):
TTTCATCACGGGAATACTCCAACCCCATCAATTCCAAGGGGATACTCCAAACCCGTTTTTATTTC
CAAAATACTAAATTTTTCATCTAGAGATACTCCAACACCGTTATTTCTGAGGGGATACTCCAACC
CCATTTTTATTTTCAAAATGTTAAATT
Found at i:4006682 original size:261 final size:262
Alignment explanation
Indices: 4006215--4006715 Score: 664
Period size: 261 Copynumber: 1.9 Consensus size: 262
4006205 CATCACGGGA
* * *
4006215 ATACTCCAACCCCATCAATTCCAAGGGGATACTCCAAACTCGTTTTTATTTCCAAAATACTAAAT
1 ATACTCCAACCCCATCAATTCCAAGGGGATACTCCAAACCCATTTTAATTTCCAAAATACTAAAT
* * * * * * *
4006280 TTTTCATCTTAGAGATACTCCGACCCCGTTATTTCTGAGGGGGTACTCTAACCCCATTTTTATTT
66 TTTTCATCTTAGAGATACTCCAACCCCGTTATTTCTAAGAGGATACTCCAACCCCATTTGTATTC
* * * * *
4006345 TCAAAATGTTAAATTTTTCATCTCGGGGATACTCCAACCCCATCAATTCTGAGGGGATATTCCAA
131 CCAAAATGTTAAATTTTTCATCTCGGGGATACTCCAACCCCATCAAATCCGAGGAGATACTCCAA
* *
4006410 CCCCGTTTTTATTTCCAAAATATTAAATTTTTCTCGGGGATACTCCAATACCGTTATTTTCGAGG
196 CCCCATTTTTATTTCCAAAATATTAAATTTTTCTCAGGGATACTCCAATACCGTTATTTTCGAGG
4006475 GG
261 GG
* * * * * * * *
4006477 ATACTCCAACCCCATTATTTTCGAGGGGATACTCTAACCCCATTTTAATTTCTAAAATATTCAAA
1 ATACTCCAACCCCATCAATTCCAAGGGGATACTCCAAACCCATTTTAATTTCCAAAATACT-AAA
* * * * * *
4006542 TTTTT-ATTTTGGGGATACTTCAAGCCCGTTATTTCTAAGAGGATACTCCAACCCCGTTTGT-TT
65 TTTTTCATCTTAGAGATACTCCAACCCCGTTATTTCTAAGAGGATACTCCAACCCCATTTGTATT
* *
4006605 CCCAAAATGTTAACTTTTTCATCTCGGGGATACTCTAACCCCATCAAATCCGAGGAGATACTCCA
130 CCCAAAATGTTAAATTTTTCATCTCGGGGATACTCCAACCCCATCAAATCCGAGGAGATACTCCA
* *
4006670 ATCCCATTTTTATTTCCAAAATATTAAATTTTTCTTAGGGATACTC
195 ACCCCATTTTTATTTCCAAAATATTAAATTTTTCTCAGGGATACTC
4006716 TAACCCCATT
Statistics
Matches: 203, Mismatches: 35, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
261 101 0.50
262 94 0.46
263 8 0.04
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (262 bp):
ATACTCCAACCCCATCAATTCCAAGGGGATACTCCAAACCCATTTTAATTTCCAAAATACTAAAT
TTTTCATCTTAGAGATACTCCAACCCCGTTATTTCTAAGAGGATACTCCAACCCCATTTGTATTC
CCAAAATGTTAAATTTTTCATCTCGGGGATACTCCAACCCCATCAAATCCGAGGAGATACTCCAA
CCCCATTTTTATTTCCAAAATATTAAATTTTTCTCAGGGATACTCCAATACCGTTATTTTCGAGG
GG
Found at i:4006732 original size:48 final size:48
Alignment explanation
Indices: 4006661--4006768 Score: 198
Period size: 48 Copynumber: 2.2 Consensus size: 48
4006651 AATCCGAGGA
* *
4006661 GATACTCCAATCCCATTTTTATTTCCAAAATATTAAATTTTTCTTAGG
1 GATACTCTAACCCCATTTTTATTTCCAAAATATTAAATTTTTCTTAGG
4006709 GATACTCTAACCCCATTTTTATTTCCAAAATATTAAATTTTTCTTAGG
1 GATACTCTAACCCCATTTTTATTTCCAAAATATTAAATTTTTCTTAGG
4006757 GATACTCTAACC
1 GATACTCTAACC
4006769 TTGTTATTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.42
Consensus pattern (48 bp):
GATACTCTAACCCCATTTTTATTTCCAAAATATTAAATTTTTCTTAGG
Found at i:4006892 original size:78 final size:75
Alignment explanation
Indices: 4006707--4006952 Score: 264
Period size: 76 Copynumber: 3.2 Consensus size: 75
4006697 ATTTTTCTTA
* * * * *
4006707 GGGATACTCTAACCCCATTTTTATTTCCAAAATATTAAATTTTTC-TTAGGGATACTCTAACCTT
1 GGGATACTCAAACCCCATTTTTATTTCAAAAATATTAAA-TTTTCATTGGGGATACTCCAACC-C
* *
4006771 GTTATTTTCT-AC
64 ATTATTTT-TGAG
*
4006783 GGGATACTC-CACCCCATTTTTATTTCCAAAAATATTAAATTTATCATTGGGGATACTCCAACCC
1 GGGATACTCAAACCCCATTTTTATTT-CAAAAATATTAAATTT-TCATTGGGGATACTCCAACCC
4006847 ATTATTTTTGAGG
64 ATTATTTTTGA-G
* * *
4006860 GGGGTACTCAAACCCCATTTTTATTTCTAAAAATATCAAAATTTTCACATCGGGGATACTCCAAC
1 GGGATACTCAAACCCCATTTTTATTTC-AAAAATAT-TAAATTTT--CATTGGGGATACTCCAAC
*
4006925 CCATTATTTTCGAG
62 CCATTATTTTTGAG
*
4006939 AGGATACTCAAACC
1 GGGATACTCAAACC
4006953 TCGTTATTTT
Statistics
Matches: 146, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
75 19 0.13
76 31 0.21
77 24 0.16
78 24 0.16
79 19 0.13
80 29 0.20
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (75 bp):
GGGATACTCAAACCCCATTTTTATTTCAAAAATATTAAATTTTCATTGGGGATACTCCAACCCAT
TATTTTTGAG
Found at i:4006944 original size:107 final size:106
Alignment explanation
Indices: 4006833--4007068 Score: 291
Period size: 107 Copynumber: 2.2 Consensus size: 106
4006823 TTATCATTGG
* *
4006833 GGATACTCCAACCCATTATTTTTGAGGGGGGTACTCAAACCCCATTTTTATTTCTAAAAATATCA
1 GGATACTCCAACCCATTATTTTTGA-GGGGATACTCAAACCCCACTTTTATTTCT-AAAATATCA
4006898 AAATTTTCA-CATCGGGGATACTCCAACC-CATTATTT-TCGAGA
64 AAATTTTCATC-TCGGGGATACTCCAACCTCATTATTTCT-GAGA
* * * * * * * *
4006940 GGATACTCAAACCTCGTTATTTTTTAGGGGATCCTCTAATCCCGCTTTTATTTCTAAAATATTAA
1 GGATACTCCAACC-CATTATTTTTGAGGGGATACTCAAACCCCACTTTTATTTCTAAAATATCAA
*
4007005 AATTTTCATCTCGGGGATACTCCAACCTCGTTATTTCTGAGA
65 AATTTTCATCTCGGGGATACTCCAACCTCATTATTTCTGAGA
*
4007047 GGATACTCCAACCCCTT-TTTTT
1 GGATACTCCAACCCATTATTTTT
4007069 CCCAAAATGT
Statistics
Matches: 112, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
105 5 0.04
106 37 0.33
107 59 0.53
108 11 0.10
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (106 bp):
GGATACTCCAACCCATTATTTTTGAGGGGATACTCAAACCCCACTTTTATTTCTAAAATATCAAA
ATTTTCATCTCGGGGATACTCCAACCTCATTATTTCTGAGA
Found at i:4006971 original size:28 final size:27
Alignment explanation
Indices: 4006911--4006971 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
4006901 TTTTCACATC
*
4006911 GGGGATACTCCAACCCATTATTTTCGA
1 GGGGATACTCAAACCCATTATTTTCGA
* * **
4006938 GAGGATACTCAAACCTCGTTATTTTTTA
1 GGGGATACTCAAACC-CATTATTTTCGA
4006966 GGGGAT
1 GGGGAT
4006972 CCTCTAATCC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (27 bp):
GGGGATACTCAAACCCATTATTTTCGA
Found at i:4007023 original size:79 final size:78
Alignment explanation
Indices: 4006940--4007814 Score: 516
Period size: 78 Copynumber: 11.2 Consensus size: 78
4006930 ATTTTCGAGA
* * * * * *
4006940 GGATACTCAAACCTCGTTATTTTTTAGGGGATCCTCTAATCCCGCTTTTATTTCTAAAATATTAA
1 GGATACTCCAACCTCATTATTTTTGAGGGGATACTCTAA-CCCGTTTTTATTTCCAAAATATTAA
4007005 AATTTTCATCTCGG
65 AATTTTCATCTCGG
* * * * * * *
4007019 GGATACTCCAACCTCGTTATTTCTGAGAGGATACTCCAACCCCTTTTT-TTCCCAAAATGTTAAA
1 GGATACTCCAACCTCATTATTTTTGAGGGGATACTCTAACCCGTTTTTATTTCCAAAATATTAAA
* * *
4007083 TTTTTCACCTCGA
66 ATTTTCATCTCGG
* * * * * * *
4007096 GGATACTCCAACCCCATCAATTTCGAGGGGATACTCCAACGTCGTTTTTGTTTCCAAAATATT-A
1 GGATACTCCAACCTCATTATTTTTGAGGGGATACTCTAAC-CCGTTTTTATTTCCAAAATATTAA
*
4007160 AATTTT--TCTCGA
65 AATTTTCATCTCGG
* * *
4007172 GGATACTCCAATCC-CGTTATTTTCT-AGGGGATACTCTAGCCCCATTTTTATTTCCAAAAATAT
1 GGATACTCCAA-CCTCATTATTTT-TGAGGGGATACTCTA-ACCCGTTTTTATTTCC-AAAATAT
4007235 T-AAATTTATCAT-T-GG
62 TAAAATTT-TCATCTCGG
* * * * * *
4007250 GGATACTCCAACCCCATTATTTTCG-GGAGAGTACTCTAACCCCATTTTTATTTCTAAAAATATC
1 GGATACTCCAACCTCATTATTTTTGAGGGGA-TACTCTAA-CCCGTTTTTATTTC-CAAAATATT
* * *
4007314 AACATTTTCACCACTGG
63 AAAATTTTCATCTC-GG
* ** * * *
4007331 GGATACTCCCACCAT-ACCATTATTGAAGGGATACTCCAACCCCCGTTTTTATTTCCAAAATA-T
1 GGATACTCCAACC-TCATTATTTTTGAGGGGATACTCTAA--CCCGTTTTTATTTCCAAAATATT
* * *
4007394 CAAATTTTCACCATCAG
63 AAAATTTTCATC-TCGG
* * * * * *
4007411 GGACACTCTAACCCCATCATTTCTGAGGGGATACTCTAACCTCGTTTTTATTTCTAAAATATTAA
1 GGATACTCCAACCTCATTATTTTTGAGGGGATACTCTAACC-CGTTTTTATTTCCAAAATATTAA
4007476 AATTTTCATCTCGG
65 AATTTTCATCTCGG
* * * * * * * *
4007490 GGATACTCCAACCTCATTATTTCTAAGAGGATACTCTGACCCCGTGTTT-TTCCCCAAATGTTAA
1 GGATACTCCAACCTCATTATTTTTGAGGGGATACTCT-AACCCGTTTTTATTTCCAAAATATTAA
* * *
4007554 ATTTTTTATCTCGA
65 AATTTTCATCTCGG
* * * * * * * * * ** *
4007568 GAATACTGCAACCCCATCAATTTCGAGGAGATATTCCAATCCTATTTTTATTTTCAAAATATT-A
1 GGATACTCCAACCTCATTATTTTTGAGGGGATACTCTAA-CCCGTTTTTATTTCCAAAATATTAA
**
4007632 AATTTT--TCTCAA
65 AATTTTCATCTCGG
* * * *
4007644 GGATACTCCAACC-CTGTTATTTTTTAAGGGATACTCTAGCCCTGTTTTTATTTCCAAAAATATT
1 GGATACTCCAACCTC-ATTATTTTTGAGGGGATACTCTAACCC-GTTTTTATTTCC-AAAATATT
**
4007708 -AAATTTATCAT-T-AA
63 AAAATTT-TCATCTCGG
** ** * * * * *
4007722 GGATACTTTAA-CTCCA-TATTTTCAAGGGGGTAATCTAATCCCATTTTTATTTCTAAAAATATC
1 GGATACTCCAACCT-CATTATTTTTGAGGGGATACTCTAA-CCCGTTTTTATTTC-CAAAATATT
* * *
4007785 AAATTTTTCACCATTGG
63 AAAATTTTCATC-TCGG
4007802 GGATACTCCAACC
1 GGATACTCCAACC
4007815 CCTATTTTTA
Statistics
Matches: 608, Mismatches: 145, Indels: 84
0.73 0.17 0.10
Matches are distributed among these distances:
75 3 0.00
76 85 0.14
77 131 0.22
78 152 0.25
79 120 0.20
80 65 0.11
81 35 0.06
82 17 0.03
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (78 bp):
GGATACTCCAACCTCATTATTTTTGAGGGGATACTCTAACCCGTTTTTATTTCCAAAATATTAAA
ATTTTCATCTCGG
Found at i:4007122 original size:184 final size:183
Alignment explanation
Indices: 4006756--4007141 Score: 431
Period size: 184 Copynumber: 2.1 Consensus size: 183
4006746 TTTTTCTTAG
* * * *
4006756 GGATACTCTAACCTTGTTATTTTCTACGGGATACTCCACCCCATTTTTATTTCCAAAAATATTAA
1 GGATACTCAAACCTCGTTATTTTCTACGGGATACTCAACCCCACTTTTATTTCCAAAAATATTAA
* * *
4006821 ATTTATCATTGGGGATACTCCAACCCATTATTTTTGAGGGGGGTACTCAAACCCCATTTTTATTT
66 ATTTATCATTGGGGATACTCCAACCCATTATTTCTGAGGAGGATACTCAAACCCCA-TTTTATTT
* * * *
4006886 CTAAAAATATCAAAATTTTCACATCGGGGATACTCCAACCCATTATTTTCGAGA
130 CCAAAAATATCAAAATTTTCACATCGAGGATACTCCAACCCATCAATTTCGAGA
* * * * * *
4006940 GGATACTCAAACCTCGTTATTTTTTAGGGGATCCTCTAATCCCGCTTTTATTT-CTAAAATATTA
1 GGATACTCAAACCTCGTTATTTTCTACGGGATACTC-AACCCCACTTTTATTTCCAAAAATATT-
* *
4007004 AAATTT-TCATCTCGGGGATACTCCAACCTCGTTATTTCTGA-GAGGATACTCCAACCCC-TTTT
64 AAATTTATCAT-T-GGGGATACTCCAACC-CATTATTTCTGAGGAGGATACTCAAACCCCATTTT
* * * * * *
4007066 -TTTCCCAAAATGTTAAATTTTTCACCTCGAGGATACTCCAACCCCATCAATTTCGAGG
126 ATTTCCAAAAATATCAAAATTTTCACATCGAGGATACTCCAA-CCCATCAATTTCGAGA
* *
4007124 GGATACTCCAACGTCGTT
1 GGATACTCAAACCTCGTT
4007142 TTTGTTTCCA
Statistics
Matches: 169, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
183 34 0.20
184 77 0.46
185 19 0.11
186 29 0.17
187 10 0.06
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (183 bp):
GGATACTCAAACCTCGTTATTTTCTACGGGATACTCAACCCCACTTTTATTTCCAAAAATATTAA
ATTTATCATTGGGGATACTCCAACCCATTATTTCTGAGGAGGATACTCAAACCCCATTTTATTTC
CAAAAATATCAAAATTTTCACATCGAGGATACTCCAACCCATCAATTTCGAGA
Found at i:4007155 original size:464 final size:466
Alignment explanation
Indices: 4006257--4007168 Score: 1193
Period size: 464 Copynumber: 2.0 Consensus size: 466
4006247 TCCAAACTCG
* *
4006257 TTTTTATTTCCAAAATACTAAATTTTTCATCTTAGAGATACTCCGACCCCGTTATTTCTGAGGGG
1 TTTTTATTTCCAAAATACTAAATTTTT-ATCTTAGAGATACTCCAACCCCGTTATTTCTGACGGG
* * * *
4006322 GTACTCTAACCCCATTTTTATTTTCAAAATGTTAAATTTTTCATCTCGGGGATACTCCAACCCCA
65 ATACTCTAACCCCATTTTTATTTCCAAAATATTAAATTTATCATCTCGGGGATACTCCAACCCCA
* * * * * *
4006387 TCAATTCTGAGGGGATATTCCAACCCCGTTTTTATTTCCAAAATATTAAATTTTTCTCGGGGATA
130 TCAATTCTGAGGGGATACTCAAACCCCATTTTTATTTCAAAAATATAAAATTTTACTCGGGGATA
* * *
4006452 CTCCAATACCGTTATTTTCGAGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCTAACCC
195 CTCCAATACCATTATTTTCGAGAGGATACTCAAACCCCATTATTTTCGAGGGGATACTCTAACCC
* * * * *
4006517 CATTTTAATTTCTAAAATATTCAAATTTTTATTTTGGGGATACTTCAAGCCCGTTATTTCTAAGA
260 CATTTTAATTTCTAAAATATTAAAATTTTCATCTCGGGGATACTCCAAGCCCGTTATTTCTAAGA
* * * *
4006582 GGATACTCCAACCCCGTTTGTTTCCCAAAATGTTAACTTTTTCATCTCGGGGATACTCTAACCCC
325 GGATACTCCAACCCCGTTTGTTTCCCAAAATGTTAAATTTTTCACCTCGAGGATACTCCAACCCC
4006647 ATCAAATCCGAGGAGATACTCCAATCCCATTTTTATTTCCAAAATATTAAATTTTTCTTAGGGAT
390 ATCAAATCCGAGGAGATACTCCAATCCCATTTTTATTTCCAAAATATTAAATTTTTCTTAGGGAT
4006712 ACTCTAACCCCA
455 ACTCTAACCCCA
* * * **
4006724 TTTTTATTTCCAAAATATTAAA-TTTT-TCTTAGGGATACTCTAACCTTGTTATTTTCT-ACGGG
1 TTTTTATTTCCAAAATACTAAATTTTTATCTTAGAGATACTCCAACCCCGTTA-TTTCTGACGGG
*
4006786 ATACTC-CACCCCATTTTTATTTCCAAAAATATTAAATTTATCAT-T-GGGGATACTCCAA-CCC
65 ATACTCTAACCCCATTTTTATTTCC-AAAATATTAAATTTATCATCTCGGGGATACTCCAACCCC
* * * *
4006847 ATTATTTTTGAGGGGGGTACTCAAACCCCATTTTTATTTCTAAAAATATCAAAATTTTCACATCG
129 ATCAATTCTGA-GGGGATACTCAAACCCCATTTTTATTTC-AAAAATAT-AAAATTTT-AC-TCG
* * * ** *
4006912 GGGATACTCCAA-CCCATTATTTTCGAGAGGATACTCAAACCTCGTTATTTTTTAGGGGATCCTC
189 GGGATACTCCAATACCATTATTTTCGAGAGGATACTCAAACCCCATTATTTTCGAGGGGATACTC
4006976 TAATCCCGC-TTTT-ATTTCTAAAATATTAAAATTTTCATCTCGGGGATACTCCAA-CCTCGTTA
254 TAA-CCC-CATTTTAATTTCTAAAATATTAAAATTTTCATCTCGGGGATACTCCAAGCC-CGTTA
* *
4007038 TTTCTGAGAGGATACTCCAACCCC-TTTTTTTCCCAAAATGTTAAATTTTTCACCTCGAGGATAC
316 TTTCTAAGAGGATACTCCAACCCCGTTTGTTTCCCAAAATGTTAAATTTTTCACCTCGAGGATAC
* * * * * *
4007102 TCCAACCCCATCAATTTCGAGGGGATACTCCAA-CGTCGTTTTTGTTTCCAAAATATTAAATTTT
381 TCCAACCCCATCAAATCCGAGGAGATACTCCAATC-CCATTTTTATTTCCAAAATATTAAATTTT
4007166 TCT
445 TCT
4007169 CGAGGATACT
Statistics
Matches: 386, Mismatches: 48, Indels: 25
0.84 0.10 0.05
Matches are distributed among these distances:
461 11 0.03
462 37 0.10
463 25 0.06
464 149 0.39
465 116 0.30
466 26 0.07
467 22 0.06
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.37
Consensus pattern (466 bp):
TTTTTATTTCCAAAATACTAAATTTTTATCTTAGAGATACTCCAACCCCGTTATTTCTGACGGGA
TACTCTAACCCCATTTTTATTTCCAAAATATTAAATTTATCATCTCGGGGATACTCCAACCCCAT
CAATTCTGAGGGGATACTCAAACCCCATTTTTATTTCAAAAATATAAAATTTTACTCGGGGATAC
TCCAATACCATTATTTTCGAGAGGATACTCAAACCCCATTATTTTCGAGGGGATACTCTAACCCC
ATTTTAATTTCTAAAATATTAAAATTTTCATCTCGGGGATACTCCAAGCCCGTTATTTCTAAGAG
GATACTCCAACCCCGTTTGTTTCCCAAAATGTTAAATTTTTCACCTCGAGGATACTCCAACCCCA
TCAAATCCGAGGAGATACTCCAATCCCATTTTTATTTCCAAAATATTAAATTTTTCTTAGGGATA
CTCTAACCCCA
Found at i:4007467 original size:161 final size:158
Alignment explanation
Indices: 4007211--4007498 Score: 366
Period size: 161 Copynumber: 1.8 Consensus size: 158
4007201 GATACTCTAG
* * ** * *
4007211 CCCCATTTTTATTTCCAAAAATATTAAATTTATCATTGGGGATACTCCAACCCCATTATTTTCGG
1 CCCCATTTTTATTTCCAAAAATATCAAATTTACCATCAGGGACACTCCAACCCCATCATTTTCGG
*
4007276 GAGAGTACTCTAACCCCATTTTTATTTCTAAAAATATCAACATTTTCACCACTGGGGATACTCCC
66 GAGAGTACTCTAACCCCATTTTTATTTCT-AAAATATCAAAATTTTCACCAC-GGGGATACTCCC
4007341 ACCATACCATTATTGAAGGGATACTCCAAC
129 ACCATACCATTATTGAAGGGATACTCCAAC
* *
4007371 CCCCGTTTTTATTTCC-AAAATATCAAATTTTCACCATCAGGGACACTCTAACCCCATCA-TTTC
1 CCCCATTTTTATTTCCAAAAATATCAAA-TTT-ACCATCAGGGACACTCCAACCCCATCATTTTC
* * * * * *
4007434 TGAGGGGA-TACTCTAACCTCGTTTTTATTTCTAAAATATTAAAATTTTCATCTCGGGGATACTC
64 -G-GGAGAGTACTCTAACCCCATTTTTATTTCTAAAATATCAAAATTTTCACCACGGGGATACTC
4007498 C
127 C
4007499 AACCTCATTA
Statistics
Matches: 109, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
159 21 0.19
160 40 0.37
161 44 0.40
162 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (158 bp):
CCCCATTTTTATTTCCAAAAATATCAAATTTACCATCAGGGACACTCCAACCCCATCATTTTCGG
GAGAGTACTCTAACCCCATTTTTATTTCTAAAATATCAAAATTTTCACCACGGGGATACTCCCAC
CATACCATTATTGAAGGGATACTCCAAC
Found at i:4007876 original size:54 final size:55
Alignment explanation
Indices: 4007763--4007876 Score: 144
Period size: 52 Copynumber: 2.1 Consensus size: 55
4007753 AATCTAATCC
** *
4007763 CATTTTTATTTCTAAAAATATCAAATTTTTCACCATTGGGGATACTCCAACCCCT
1 CATTTTTATTTCTAAAAATATCAAATTTTTCACCATCAGAGATACTCCAACCCCT
* * *
4007818 -ATTTTTATTTC-CAAAATATC-GATTTTTCACCATCAGAGATACTTCAACCCCAT
1 CATTTTTATTTCTAAAAATATCAAATTTTTCACCATCAGAGATACTCCAACCCC-T
4007871 CATTTT
1 CATTTT
4007877 CCGAGGGGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
52 26 0.51
53 9 0.18
54 16 0.31
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (55 bp):
CATTTTTATTTCTAAAAATATCAAATTTTTCACCATCAGAGATACTCCAACCCCT
Found at i:4014733 original size:6 final size:6
Alignment explanation
Indices: 4014724--4014774 Score: 50
Period size: 6 Copynumber: 8.0 Consensus size: 6
4014714 CTTTGCACTT
*
4014724 TTTTTG TTTTTG TTTTTG TTTTT- TTTCATTT TTTTTG TGCTTTTG TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTT--TTG TTTTTG T--TTTTG TTTTTG
4014775 ACTTTTTCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
5 3 0.08
6 25 0.64
7 2 0.05
8 9 0.23
ACGTcount: A:0.02, C:0.04, G:0.14, T:0.80
Consensus pattern (6 bp):
TTTTTG
Found at i:4014767 original size:21 final size:21
Alignment explanation
Indices: 4014721--4014767 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
4014711 TGCCTTTGCA
* *
4014721 CTTTTTTTGTTTTTGTTTTTG
1 CTTTTTTTATTTTTGTTTGTG
*
4014742 TTTTTTTTCATTTTT-TTTGTG
1 CTTTTTTT-ATTTTTGTTTGTG
4014763 CTTTT
1 CTTTT
4014768 GTTTTTGACT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.02, C:0.06, G:0.11, T:0.81
Consensus pattern (21 bp):
CTTTTTTTATTTTTGTTTGTG
Found at i:4014781 original size:33 final size:32
Alignment explanation
Indices: 4014722--4014790 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
4014712 GCCTTTGCAC
* *
4014722 TTTTTTTGTTTTTGTTTTTG-TTTTTTTTCAT
1 TTTTTTTGTTTTTGTTTTTGACTTTTTATCAT
4014753 TTTTTTTGTGCTTTTGTTTTTGACTTTTTCATCAT
1 TTTTTTTGT--TTTTGTTTTTGACTTTTT-ATCAT
4014788 TTT
1 TTT
4014791 GAAGAGAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 9 0.28
33 11 0.34
34 5 0.16
35 7 0.22
ACGTcount: A:0.06, C:0.07, G:0.10, T:0.77
Consensus pattern (32 bp):
TTTTTTTGTTTTTGTTTTTGACTTTTTATCAT
Found at i:4017545 original size:70 final size:69
Alignment explanation
Indices: 4017413--4017562 Score: 255
Period size: 70 Copynumber: 2.2 Consensus size: 69
4017403 GCCTTCCATA
* *
4017413 TATCGAAACATGGTTCCAAAGGTTAAAAATTTTAATTTTTATAATTTGTATCGATATAATTAGTG
1 TATCGATACATGGTTCCAAAGGTTAAAAATTTAAATTTTTATAATTTGTATCGATATAATTAGTG
4017478 AATG
66 AATG
*
4017482 TATCGATACATGGTTTCAAAGGTTAAAAATTTCAAATTTTTATAATTTGTATCGATATAATTAGT
1 TATCGATACATGGTTCCAAAGGTTAAAAATTT-AAATTTTTATAATTTGTATCGATATAATTAGT
4017547 GAATG
65 GAATG
*
4017552 TATCAATACAT
1 TATCGATACAT
4017563 AAGTGTATGT
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
69 30 0.39
70 46 0.61
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (69 bp):
TATCGATACATGGTTCCAAAGGTTAAAAATTTAAATTTTTATAATTTGTATCGATATAATTAGTG
AATG
Found at i:4017572 original size:20 final size:20
Alignment explanation
Indices: 4017544--4017582 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4017534 CGATATAATT
4017544 AGTGAATGTATCAATACATA
1 AGTGAATGTATCAATACATA
* *
4017564 AGTGTATGTATCGATACAT
1 AGTGAATGTATCAATACAT
4017583 GTCTCAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (20 bp):
AGTGAATGTATCAATACATA
Found at i:4018446 original size:19 final size:20
Alignment explanation
Indices: 4018403--4018453 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
4018393 TACAAGCCAA
**
4018403 TGTATCGATACATTTTATGG
1 TGTATCGATACATACTATGG
*
4018423 TGTATCGATACATACTGT-G
1 TGTATCGATACATACTATGG
4018442 TGTATCGATACA
1 TGTATCGATACA
4018454 AGTTTAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATACTATGG
Found at i:4018512 original size:20 final size:20
Alignment explanation
Indices: 4018487--4018537 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4018477 CCAATGACTT
* **
4018487 GTATCGATCCATTTTTTCAA
1 GTATCGATACATTTAGTCAA
*
4018507 GTATCGATACATTTAGTCAT
1 GTATCGATACATTTAGTCAA
4018527 GTATCGATACA
1 GTATCGATACA
4018538 ATATATTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAA
Found at i:4020855 original size:20 final size:21
Alignment explanation
Indices: 4020826--4020866 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
4020816 TATTTTTGAT
4020826 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
4020845 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
4020867 AAGAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:4025534 original size:18 final size:18
Alignment explanation
Indices: 4025513--4025548 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4025503 TCTGAGTCAC
4025513 CATCATCATCATCGTCTT
1 CATCATCATCATCGTCTT
*
4025531 CATCATCTTCATCGTCTT
1 CATCATCATCATCGTCTT
4025549 TGATGGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.33, G:0.06, T:0.42
Consensus pattern (18 bp):
CATCATCATCATCGTCTT
Found at i:4027173 original size:13 final size:13
Alignment explanation
Indices: 4027155--4027179 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4027145 CATTTTATGG
4027155 TGTATCGATACAA
1 TGTATCGATACAA
4027168 TGTATCGATACA
1 TGTATCGATACA
4027180 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4027195 original size:32 final size:33
Alignment explanation
Indices: 4027132--4027199 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
4027122 CGTTACAAGC
**
4027132 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
4027165 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
4027197 CAA
1 CAA
4027200 GTTTAGCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:4028809 original size:13 final size:13
Alignment explanation
Indices: 4028791--4028816 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4028781 AAATTTTTTG
4028791 TGTATCGATACAT
1 TGTATCGATACAT
4028804 TGTATCGATACAT
1 TGTATCGATACAT
4028817 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4028911 original size:20 final size:20
Alignment explanation
Indices: 4028885--4028941 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
4028875 TACATCTTTT
4028885 TCATGTATCGATACTTTGCAA
1 TCATGTATCGATACTTTG-AA
4028906 -CATGTATCGATACTTTGAA
1 TCATGTATCGATACTTTGAA
**
4028925 TTGTGTATCGATACTTT
1 TCATGTATCGATACTTT
4028942 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (20 bp):
TCATGTATCGATACTTTGAA
Found at i:4029565 original size:21 final size:21
Alignment explanation
Indices: 4029524--4029567 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4029514 CTCCCCTTTA
* *
4029524 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
4029545 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
4029566 TC
1 TC
4029568 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:4033480 original size:15 final size:15
Alignment explanation
Indices: 4033460--4033490 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4033450 ATTTCGTTTG
*
4033460 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4033475 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4033490 G
1 G
4033491 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4035322 original size:21 final size:21
Alignment explanation
Indices: 4035293--4035337 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4035283 AAGTTTTCAT
*
4035293 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
4035313 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
4035335 TTT
1 TTT
4035338 CAACTTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:4037601 original size:13 final size:13
Alignment explanation
Indices: 4037583--4037608 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4037573 CAATTTTTTG
4037583 TGTATCGATACAT
1 TGTATCGATACAT
4037596 TGTATCGATACAT
1 TGTATCGATACAT
4037609 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4037620 original size:32 final size:33
Alignment explanation
Indices: 4037563--4037626 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
4037553 TACAAGCCAA
**
4037563 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
4037596 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
4037627 AGTTTGGCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:4039955 original size:79 final size:79
Alignment explanation
Indices: 4039808--4040362 Score: 456
Period size: 79 Copynumber: 7.1 Consensus size: 79
4039798 TCTTCGATGG
* * * * * *
4039808 TGGAAAATTGATGTTTTGGAAAT-AGACCGAGGTTGGAGTATCCTCC-CAAAAATAACAGGGTTA
1 TGGAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCC-CCTCAGAAATAACGGGGTTG
4039871 GAGTATCCCCGATTA
65 GAGTATCCCCGATTA
* * *
4039886 TGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAATGGGGTTGG
1 TGGAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGG
**
4039951 AGTATCCCCGATGG
66 AGTATCCCCGATTA
* * * * *
4039965 TGAAAAATCGGTGTTTTGGAAATAAAATTGGGGTTGGAGTATCTCCTCAGAAATAACGGGGTTGG
1 TGGAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGG
4040030 AGTATCCCCGATTA
66 AGTATCCCCGATTA
** ** * *
4040044 TGGAAAATCCATGTTTTGGAAAT-AAGGCTGGGATTGGAGTATCCCCTC-GAAGGTAACGGGGTT
1 TGGAAAATTGATGTTTTGGAAATAAAATC-GGGGTTGGAGTATCCCCTCAGAA-ATAACGGGGTT
* ** *
4040107 AGAGTATCCTTGATTG
64 GGAGTATCCCCGATTA
** * * * **
4040123 T-GAAAAGTTGATGTTTTGGGAAA-AAAA-CTAAGGTTGGTGTATCCCCTTAGAAACAATAGGGT
1 TGGAAAA-TTGATGTTTT-GGAAATAAAATC-GGGGTTGGAGTATCCCCTCAGAAATAACGGGGT
*
4040185 TGGAGTATCCACGATTA
63 TGGAGTATCCCCGATTA
* *** * * * * *
4040202 -GAGAAAATTGATGTTTTAGAAATAAGGCCAGGATTGGAGTATCTCCT-TGAAAATAACAGGGTT
1 TG-GAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTT
* *
4040265 GGAGTATCCCTGATTG
64 GGAGTATCCCCGATTA
* *
4040281 T-GAAAAGTTGGTGTTTT--AAA-AAAA-CTGTGGTTGG-GATATCCCCTCAGAAATAACGGGGT
1 TGGAAAA-TTGATGTTTTGGAAATAAAATC-GGGGTTGGAG-TATCCCCTCAGAAATAACGGGGT
* *
4040340 TGGAGTATTCCTGATTA
63 TGGAGTATCCCCGATTA
*
4040357 TAGAAA
1 TGGAAA
4040363 TTTTGGTATT
Statistics
Matches: 384, Mismatches: 74, Indels: 39
0.77 0.15 0.08
Matches are distributed among these distances:
75 2 0.01
76 41 0.11
77 8 0.02
78 44 0.11
79 273 0.71
80 16 0.04
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (79 bp):
TGGAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGG
AGTATCCCCGATTA
Found at i:4040081 original size:158 final size:157
Alignment explanation
Indices: 4039786--4040362 Score: 601
Period size: 158 Copynumber: 3.7 Consensus size: 157
4039776 ATAAAAAAAT
* ** * * * *
4039786 GGGGTCGGAGTATCTTCGATGGTGGAAAATTGATGTTTTGGAAATAGACCGAGGTTGGAGTATCC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATTGATGTTTTGGAAAAAAACTGAGGTTGGAGTATCC
* * **
4039851 TCC-CAAAAATAACAGGGTTAGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAA-AAT
66 -CCTCAGAAATAACAGGGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAGGCT
* *
4039914 CGGGGTTGGAGTATCCCCTCGGAAATAAT
130 -GGGATTGGAGTATCCCCTCGGAAATAAC
* * * *
4039943 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGGTGTTTTGGAAATAAAATTGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATTGATGTTTTGGAAA-AAAACTGAGGTTGGAGTATC
* * ** *
4040008 TCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGGAAAATCCATGTTTTGGAAATAAGGCT
65 CCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAGGCT
*
4040073 GGGATTGGAGTATCCCCTC-GAAGGTAAC
130 GGGATTGGAGTATCCCCTCGGAA-ATAAC
* ** * * * *
4040101 GGGGTTAGAGTATCCTTGATTGTGAAAAGTTGATGTTTTGGGAAAAAAACTAAGGTTGGTGTATC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATTGATGTTTT-GGAAAAAAACTGAGGTTGGAGTATC
* * * *
4040166 CCCTTAGAAACAATAGGGTTGGAGTATCCACGATTA-GAGAAAATTGATGTTTTAGAAATAAGGC
65 CCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTATG-GAAAATTGATGTTTTAGAAATAAGGC
** * * *
4040230 CAGGATTGGAGTATCTCCTTGAAAATAAC
129 TGGGATTGGAGTATCCCCTCGGAAATAAC
* * * * * *
4040259 AGGGTTGGAGTATCCCTGATTGTGAAAAGTTGGTGTTTT--AAAAAAACTGTGGTTGG-GATATC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATTGATGTTTTGGAAAAAAACTGAGGTTGGAG-TATC
* * * *
4040321 CCCTCAGAAATAACGGGGTTGGAGTATTCCTGATTATAGAAA
65 CCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTATGGAAA
4040363 TTTTGGTATT
Statistics
Matches: 348, Mismatches: 63, Indels: 20
0.81 0.15 0.05
Matches are distributed among these distances:
154 1 0.00
155 52 0.15
157 44 0.13
158 243 0.70
159 8 0.02
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.29
Consensus pattern (157 bp):
GGGGTTGGAGTATCCCCGATGGTGAAAAATTGATGTTTTGGAAAAAAACTGAGGTTGGAGTATCC
CCTCAGAAATAACAGGGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAGGCTG
GGATTGGAGTATCCCCTCGGAAATAAC
Found at i:4040226 original size:237 final size:235
Alignment explanation
Indices: 4039808--4040279 Score: 517
Period size: 237 Copynumber: 2.0 Consensus size: 235
4039798 TCTTCGATGG
**
4039808 TGGAAAATTGATGTTTTGGAAATAGACCGAGGTTGGAGTATCCTCCCAAAAATAACAGGGTTAGA
1 TGGAAAATCCATGTTTTGGAAATAGACCGAGGTTGGAGTATCCTCCCAAAAATAACAGGGTTAGA
** *
4039873 GTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAA
66 GTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCAAGGTTGGAGTATCCCCTCAGAA
* * * * * *** *
4039938 ATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGGTGTTTTGGAAATAAAATTGGGGTTGGA
131 ACAATAGGGTTGGAGTATCCACGAT-GTGAAAAATCGATGTTTTAGAAATAAAACCAGGATTGGA
*
4040003 GTATCTCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATTA
195 GTATCTCCT-AGAAAATAACAGGGTTGGAGTATCCCCGATTA
* * * ** *
4040044 TGGAAAATCCATGTTTTGGAAATAAGGCTG-GGATTGGAGTATCC-CCTCGAAGGTAACGGGGTT
1 TGGAAAATCCATGTTTTGGAAAT-AGACCGAGG-TTGGAGTATCCTCC-CAAAAATAACAGGGTT
** * * *
4040107 AGAGTATCCTTGATTGT-GAAAAGTTGATGTTTTGGGAAA-AAAA-CTAAGGTTGGTGTATCCCC
63 AGAGTATCCCCGATTATGGAAAA-TTGATGTTTT-AGAAATAAAATC-AAGGTTGGAGTATCCCC
* * **
4040169 TTAGAAACAATAGGGTTGGAGTATCCACGAT-TAGAGAAAATTGATGTTTTAGAAATAAGGCCAG
125 TCAGAAACAATAGGGTTGGAGTATCCACGATGT-GA-AAAATCGATGTTTTAGAAATAAAACCAG
* *
4040233 GATTGGAGTATCTCCTTGAAAATAACAGGGTTGGAGTATCCCTGATT
188 GATTGGAGTATCTCCTAGAAAATAACAGGGTTGGAGTATCCCCGATT
4040280 GTGAAAAGTT
Statistics
Matches: 195, Mismatches: 32, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
235 1 0.01
236 34 0.17
237 156 0.80
238 4 0.02
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (235 bp):
TGGAAAATCCATGTTTTGGAAATAGACCGAGGTTGGAGTATCCTCCCAAAAATAACAGGGTTAGA
GTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCAAGGTTGGAGTATCCCCTCAGAA
ACAATAGGGTTGGAGTATCCACGATGTGAAAAATCGATGTTTTAGAAATAAAACCAGGATTGGAG
TATCTCCTAGAAAATAACAGGGTTGGAGTATCCCCGATTA
Found at i:4042126 original size:27 final size:27
Alignment explanation
Indices: 4042072--4042173 Score: 91
Period size: 27 Copynumber: 3.7 Consensus size: 27
4042062 ATTTGGAAGA
* *
4042072 ATTTTTAATTTTAATTTTTAATAGTTTTGG
1 ATTTTT-ATTTTATTTTTTAAT--TTTTCG
* *
4042102 ATTTTT-TTTTGTTTCTTTGATTTTTCG
1 ATTTTTATTTTATTT-TTTAATTTTTCG
*
4042129 ATTTTTATTTTATTTTTTAATTTTT-A
1 ATTTTTATTTTATTTTTTAATTTTTCG
* *
4042155 ATTTCTATATTATTTTTTA
1 ATTTTTATTTTATTTTTTA
4042174 TTTCTTGAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
26 17 0.28
27 20 0.33
28 13 0.21
29 5 0.08
30 6 0.10
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.71
Consensus pattern (27 bp):
ATTTTTATTTTATTTTTTAATTTTTCG
Found at i:4043100 original size:52 final size:50
Alignment explanation
Indices: 4042893--4043784 Score: 273
Period size: 52 Copynumber: 17.6 Consensus size: 50
4042883 TAATGGGCTA
* * **
4042893 ATTCAAGGCCAACGACATTGGACTTAAAGAGGACAAAGGCGCCAATATGCTG
1 ATTCAAGGCCAACGACATTAGACTTAAAGATG--AAAGATGCCAATATGCTG
* * * * * * * *
4042945 ATTCAAGGCTAGCGATATTAGGCTTAAAGGTGCGAATGATGTCAATGTGCTG
1 ATTCAAGGCCAACGACATTAGACTTAAAGAT--GAAAGATGCCAATATGCTG
* * * * * *
4042997 ATTCACGGCCAATGACATTAGACTTGAAGATGAGAAGAATACTAATGTGCTG
1 ATTCAAGGCCAACGACATTAGACTTAAAGATGA-AAG-ATGCCAATATGCTG
* * **
4043049 ATTCAAGGCCAACGACATTGGGCTTAGGGATGTTAAAGATGCCAATATGCTG
1 ATTCAAGGCCAACGACATTAGACTTAAAGATG--AAAGATGCCAATATGCTG
* * * ** * * *
4043101 ATTCAAGGCCAGCAATATCGGACTTAAAGATG-GAGGTGCCAATGA-GCTA
1 ATTCAAGGCCAACGACATTAGACTTAAAGATGAAAGATGCCAAT-ATGCTG
* * * * * * *
4043150 ATTCAAGGCTAGCAACATTGGACGTAAATG-TGGTAAAGGTGCCAATATG-TT
1 ATTCAAGGCCAACGACATTAGACTTAAA-GAT-G-AAAGATGCCAATATGCTG
* * * * ** *
4043201 AGTTCAAGGCCAACAATAGTGGACTT-AA-A-G---G-TGCCAATGCGTTG
1 A-TTCAAGGCCAACGACATTAGACTTAAAGATGAAAGATGCCAATATGCTG
* * *
4043245 ATTCAAGGCCAGCGACATTGGACTTTAACATGATAAGGATGAGAAGGATGCCAATATGCTA
1 ATTCAAGGCCAACGACATTAGAC--T----T-A-AA-GATGA-AA-GATGCCAATATGCTG
* * * * * * * * *
4043306 ATTTAAGGCCAGCAATATTGGACTTAAAGATACAAAGAATGTCAATGTGTTG
1 ATTCAAGGCCAACGACATTAGACTTAAAGAT-GAAAG-ATGCCAATATGCTG
* * * ** * * * * *
4043358 ATCCACGACCAGTGACATTCGACTTGAAGATGAGAAGAATACTAATGTGCTG
1 ATTCAAGGCCAACGACATTAGACTTAAAGATGA-AAG-ATGCCAATATGCTG
* * * * * * *
4043410 ATTCAAGCCCAACGACATTGGACTTAAAGATG-GAGGTGCCATTGTGCTA
1 ATTCAAGGCCAACGACATTAGACTTAAAGATGAAAGATGCCAATATGCTG
* * * * * *
4043459 ATTCAAGGCTAGCGTCATTGGACTTAAATG-TGGTGAAGGTGCCAATATGCTG
1 ATTCAAGGCCAACGACATTAGACTTAAA-GAT-G-AAAGATGCCAATATGCTG
* * * * *
4043511 ATTCAAGGCCAGCAATATTGGACTT-AA-A-G---G-TGCCAATGTGCTG
1 ATTCAAGGCCAACGACATTAGACTTAAAGATGAAAGATGCCAATATGCTG
* * * *
4043554 ATTCAAGGCCAACGACATTGGGCTTAGGAATG-TTAAAGATACCAATATGCTG
1 ATTCAAGGCCAACGACATTAGACTTA--AA-GATGAAAGATGCCAATATGCTG
* * * * * * * * *
4043606 ATTCAAGGTCAGCGATATCAGACTTAGAGATG-ATGGTTCCAATGTGCTG
1 ATTCAAGGCCAACGACATTAGACTTAAAGATGAAAGATGCCAATATGCTG
* * * * * * *
4043655 ATTCAAGGCCAGCAACATTGGACTTAAATAT-AAAGGTGCCAATGTGCTA
1 ATTCAAGGCCAACGACATTAGACTTAAAGATGAAAGATGCCAATATGCTG
* * * ** * *
4043704 ATTCAAGGCTAGCGACATTGGACTTAAATTTGGTAAAGATGCTAATATCCTG
1 ATTCAAGGCCAACGACATTAGACTTAAAGAT-G-AAAGATGCCAATATGCTG
* * *
4043756 ATTCAAGGCCAGCGATATTGGACTTAAAG
1 ATTCAAGGCCAACGACATTAGACTTAAAG
4043785 GTGCCAATGT
Statistics
Matches: 630, Mismatches: 154, Indels: 112
0.70 0.17 0.12
Matches are distributed among these distances:
43 59 0.09
44 4 0.01
45 1 0.00
46 2 0.00
48 2 0.00
49 152 0.24
50 11 0.02
51 12 0.02
52 344 0.55
53 6 0.01
54 4 0.01
55 2 0.00
59 1 0.00
60 1 0.00
61 29 0.05
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (50 bp):
ATTCAAGGCCAACGACATTAGACTTAAAGATGAAAGATGCCAATATGCTG
Found at i:4043267 original size:43 final size:43
Alignment explanation
Indices: 4043183--4043269 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
4043173 GTAAATGTGG
* *
4043183 TAAAGGTGCCAATATGTTAGTTCAAGGCCAACAATAGTGGACT
1 TAAAGGTGCCAATACGTTAGTTCAAGGCCAACAACAGTGGACT
* * * *
4043226 TAAAGGTGCCAATGCGTT-GATTCAAGGCCAGCGACATTGGACT
1 TAAAGGTGCCAATACGTTAG-TTCAAGGCCAACAACAGTGGACT
4043269 T
1 T
4043270 TAACATGATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
42 1 0.03
43 36 0.97
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (43 bp):
TAAAGGTGCCAATACGTTAGTTCAAGGCCAACAACAGTGGACT
Found at i:4043501 original size:361 final size:350
Alignment explanation
Indices: 4042831--4043538 Score: 818
Period size: 361 Copynumber: 2.0 Consensus size: 350
4042821 AGAAGAGTGA
* * * * * *
4042831 TAAAGATGCCAATATGCTGATTCAAGGCTAGCAATATTGGGCTTAAAGGTGCTAATGGGCTAATT
1 TAAAGATGCCAATATGCTGATTCAAGGCCAACAATAGTGGACTTAAAGGTGCCAATGCGCTAATT
* * *
4042896 CAAGGCCAACGACATTGGACTTAAAGAGGACAAAGGCGCCAATATGCTGATTCAAGGCTAGCGAT
66 CAAGGCCAACGACATTGGACTTAAAGAGGACAAAGGCGCCAATATGCTAATTCAAGGCCAGCAAT
* * * * *
4042961 ATTAGGCTTAAAGGTGCGAATGATGTCAATGTGCTGATTCACGGCCAATGACATTAGACTTGAAG
131 ATTAGGCTTAAAGATACGAAAGATGTCAATGTGCTGATCCACGACCAATGACATTAGACTTGAAG
* * **
4043026 ATGAGAAGAATACTAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAGGGATGTTAAAGATGC
196 ATGAGAAGAATACTAATGTGCTGATTCAAGCCCAACGACATTGGACTTAAAGATG-T-AAGATGC
*
4043091 CAATATGCTGATTCAAGGCCAGCAATATCGGACTTAAAGATGGAGGTGCCAATGA-GCTAATTCA
259 CAATATGCTAATTCAAGGCCAGCAATATCGGACTTAAAGATGGAGGTGCCAAT-ATGCTAATTCA
*
4043155 AGGCTAGCAACATTGGACGTAAATGTGG
323 AGGCCAGCAACATTGGACGTAAATGTGG
* * * *
4043183 TAAAGGTGCCAATATG-TTAGTTCAAGGCCAACAATAGTGGACTTAAAGGTGCCAATGCGTTGAT
1 TAAAGATGCCAATATGCTGA-TTCAAGGCCAACAATAGTGGACTTAAAGGTGCCAATGCGCTAAT
* * * *
4043247 TCAAGGCCAGCGACATTGGACTTTAACATGATAAGGATGAGAAGGATGCCAATATGCTAATTTAA
65 TCAAGGCCAACGACATTGGAC-TTAA-A-G---AGGA-CA-AAGG-CGCCAATATGCTAATTCAA
* *
4043312 GGCCAGCAATATT-GGACTTAAAGATAC-AAAGAATGTCAATGTGTTGATCCACGACCAGTGACA
121 GGCCAGCAATATTAGG-CTTAAAGATACGAAAG-ATGTCAATGTGCTGATCCACGACCAATGACA
*
4043375 TTCGACTTGAAGATGAGAAGAATACTAATGTGCTGATTCAAGCCCAACGACATTGGACTTAAAGA
184 TTAGACTTGAAGATGAGAAGAATACTAATGTGCTGATTCAAGCCCAACGACATTGGACTTAAAGA
* * * * * * *
4043440 TG-GAGGTGCCATTGTGCTAATTCAAGGCTAGC-GTCATTGGACTTAAATG-TGGTGAAGGTGCC
249 TGTAAGATGCCAATATGCTAATTCAAGGCCAGCAAT-ATCGGACTTAAA-GAT-G-G-AGGTGCC
* * *
4043502 AATATGCTGATTCAAGGCCAGCAATATTGGACTTAAA
309 AATATGCTAATTCAAGGCCAGCAACATTGGACGTAAA
4043539 GGTGCCAATG
Statistics
Matches: 297, Mismatches: 41, Indels: 27
0.81 0.11 0.07
Matches are distributed among these distances:
351 2 0.01
352 71 0.24
353 4 0.01
354 1 0.00
355 1 0.00
357 1 0.00
358 40 0.13
359 3 0.01
360 11 0.04
361 163 0.55
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (350 bp):
TAAAGATGCCAATATGCTGATTCAAGGCCAACAATAGTGGACTTAAAGGTGCCAATGCGCTAATT
CAAGGCCAACGACATTGGACTTAAAGAGGACAAAGGCGCCAATATGCTAATTCAAGGCCAGCAAT
ATTAGGCTTAAAGATACGAAAGATGTCAATGTGCTGATCCACGACCAATGACATTAGACTTGAAG
ATGAGAAGAATACTAATGTGCTGATTCAAGCCCAACGACATTGGACTTAAAGATGTAAGATGCCA
ATATGCTAATTCAAGGCCAGCAATATCGGACTTAAAGATGGAGGTGCCAATATGCTAATTCAAGG
CCAGCAACATTGGACGTAAATGTGG
Found at i:4043606 original size:95 final size:93
Alignment explanation
Indices: 4043443--4043731 Score: 301
Period size: 95 Copynumber: 3.0 Consensus size: 93
4043433 TTAAAGATGG
* * * * *
4043443 AGGTGCCATTGTGCTAATTCAAGGCTAGCGTCATTGGACTTAAATGTGGTGAAGGTGCCAATATG
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAATGT--TAAAGGTGCCAATATG
*
4043508 CTGATTCAAGGCCAGCAATATTGGACTTAA
64 CTGATTCAAGGCCAGCGATATTGGACTTAA
* * * *
4043538 AGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAGGAATGTTAAAGATACCAATATG
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AATGTTAAAGGTGCCAATATG
* **
4043603 CTGATTCAAGGTCAGCGATATCAGACTTAGAGA
64 CTGATTCAAGGCCAGCGATATTGGACTT--A-A
* * * *
4043636 TGATGGTTCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAT-ATAAAGGTGCCAATGT
1 --A-GGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAATGTTAAAGGTGCCAATAT
* * *
4043700 GCTAATTCAAGGCTAGCGACATTGGACTTAA
63 GCTGATTCAAGGCCAGCGATATTGGACTTAA
4043731 A
1 A
4043732 TTTGGTAAAG
Statistics
Matches: 159, Mismatches: 27, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
93 1 0.01
95 74 0.47
96 1 0.01
97 6 0.04
98 36 0.23
99 3 0.02
100 1 0.01
101 37 0.23
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (93 bp):
AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAATGTTAAAGGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTAA
Found at i:4043741 original size:150 final size:140
Alignment explanation
Indices: 4043494--4043824 Score: 382
Period size: 150 Copynumber: 2.3 Consensus size: 140
4043484 AAATGTGGTG
* * *
4043494 AAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC---TTAAAGGTGCCAATGTGCTGAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTATTAAAGGTGCCAATGTGCTAAT
* * * *
4043556 TCAAGGCCAACGACATTGGGCTTAGGAATGTTAAAGATACCAATATGCTGATTCAAGGTCAGCGA
66 TCAAGGCCAACGACATTGGACTTA-GAATGGTAAAGATACCAATATCCTGATTCAAGGCCAGCGA
4043621 TATCAGACTTAGA
130 TATCAGACTT--A
*
4043634 GATGATGGTTCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAATATAAAGGTGCCAATG
1 -A--A-GGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT--AT-TAAAGGTGCCAATG
* * * *
4043699 TGCTAATTCAAGGCTAGCGACATTGGACTTA-AATTTGGTAAAGATGCTAATATCCTGATTCAAG
59 TGCTAATTCAAGGCCAACGACATTGGACTTAGAA--TGGTAAAGATACCAATATCCTGATTCAAG
**
4043763 GCCAGCGATATTGGACTTA
122 GCCAGCGATATCAGACTTA
* *
4043782 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACACTGGACTTA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTA
4043825 GAAAGAGATG
Statistics
Matches: 162, Mismatches: 17, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
141 1 0.01
142 1 0.01
143 1 0.01
144 72 0.44
145 1 0.01
147 1 0.01
148 3 0.02
149 1 0.01
150 81 0.50
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (140 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTATTAAAGGTGCCAATGTGCTAAT
TCAAGGCCAACGACATTGGACTTAGAATGGTAAAGATACCAATATCCTGATTCAAGGCCAGCGAT
ATCAGACTTA
Found at i:4044050 original size:32 final size:32
Alignment explanation
Indices: 4043962--4044051 Score: 94
Period size: 32 Copynumber: 2.8 Consensus size: 32
4043952 GGGTTGCTAC
* *
4043962 AACTTGTGTGGGCTTTAGA-AAGGGTCACCACT
1 AACTTATGTGGGCTTTAGAGAA-GGTTACCACT
* * *
4043994 AACTTTTATGGGCTTT-GAAGAAGGTTGCCACT
1 AACTTATGTGGGCTTTAG-AGAAGGTTACCACT
*
4044026 AGCTTATGTGGGCTTTAGAGAAGGTT
1 AACTTATGTGGGCTTTAGAGAAGGTT
4044052 CCTCCACTAG
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
31 1 0.02
32 44 0.92
33 3 0.06
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.32
Consensus pattern (32 bp):
AACTTATGTGGGCTTTAGAGAAGGTTACCACT
Found at i:4045664 original size:20 final size:20
Alignment explanation
Indices: 4045641--4045684 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
4045631 TCTTTTTTTC
4045641 TTTTTTGTATGTTTTTATGT
1 TTTTTTGTATGTTTTTATGT
* *
4045661 TTTTTTGTTTGTTTTTTTGT
1 TTTTTTGTATGTTTTTATGT
4045681 TTTT
1 TTTT
4045685 CTTTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.05, C:0.00, G:0.14, T:0.82
Consensus pattern (20 bp):
TTTTTTGTATGTTTTTATGT
Found at i:4045677 original size:22 final size:22
Alignment explanation
Indices: 4045635--4045701 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
4045625 TTTCTTTCTT
* *
4045635 TTTTTCTTTTTTGTATGTTTTTA
1 TTTTTCTTTATT-TATTTTTTTA
* * *
4045658 TGTTTT-TTTGTTTGTTTTTTTG
1 T-TTTTCTTTATTTATTTTTTTA
4045680 TTTTTCTTTATTTATTTTTTTA
1 TTTTTCTTTATTTATTTTTTTA
4045702 CGAAGGATGC
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
21 4 0.11
22 21 0.60
23 6 0.17
24 4 0.11
ACGTcount: A:0.07, C:0.03, G:0.09, T:0.81
Consensus pattern (22 bp):
TTTTTCTTTATTTATTTTTTTA
Found at i:4045681 original size:12 final size:12
Alignment explanation
Indices: 4045658--4045682 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4045648 TATGTTTTTA
4045658 TGTTTTTTTGTT
1 TGTTTTTTTGTT
4045670 TGTTTTTTTGTT
1 TGTTTTTTTGTT
4045682 T
1 T
4045683 TTCTTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (12 bp):
TGTTTTTTTGTT
Found at i:4053031 original size:129 final size:125
Alignment explanation
Indices: 4052742--4053101 Score: 374
Period size: 129 Copynumber: 2.9 Consensus size: 125
4052732 ATCGATGTTC
* * * ** *
4052742 TAGAAATAAAAATCGGGGTTGGAGGATCCCCTCGAAAATAACAGGGTTGGAGTAT-CCTAATTAT
1 TAGAAAT-AAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGT
* * ** *
4052806 -AGAAAATTGGTATTTTGAAAATAAAATTGGAGTTGGAGTATCCCCGATTGTGGAAAATTGG
65 GAG-AAATTGGTGTTTTGGAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAATTGG
* * *
4052867 T---AATAAAGTCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCGATTGTG
1 TAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTG
* *
4052929 AGAAATTGGTGTTTTGGAAATAAAACCGGAG-TGGAATATCTCCGATTGTGGAAGATTGG
66 AGAAATTGGTGTTTTGGAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAATTGG
* * * *
4052988 TATTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCGGAAATAACGAGATTGGAGCATCCCCGA
1 -----TAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGA
* * * * *
4053053 TTGTGAAAAACTGGTGTTTT-GAGAATAAAATCGGGGTTGGAGTATCCCC
61 TTGTGAGAAATTGGTGTTTTGGA-AATAAAACCGGAGTTGGAATATCCCC
4053102 TCGGAAATAA
Statistics
Matches: 194, Mismatches: 29, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
121 66 0.34
122 34 0.18
123 2 0.01
125 1 0.01
126 1 0.01
128 2 0.01
129 78 0.40
130 10 0.05
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.28
Consensus pattern (125 bp):
TAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTG
AGAAATTGGTGTTTTGGAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAATTGG
Found at i:4053090 original size:79 final size:79
Alignment explanation
Indices: 4052970--4053132 Score: 238
Period size: 79 Copynumber: 2.1 Consensus size: 79
4052960 TGGAATATCT
* * *
4052970 CCGATTGTGGAAGATTGGTATTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCGGAAATAACG
1 CCGATTGTGAAAAACTGGTATTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCGGAAATAACG
4053035 AGATTGGAGCATCC
66 AGATTGGAGCATCC
* * *
4053049 CCGATTGTGAAAAACTGGTGTTTT-GAGAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAAT
1 CCGATTGTGAAAAACTGGTATTTTAGA-AATAAAATCAGGGTTGGAGTATCCCCTCGGAAATAAC
* *
4053113 GGGATTGGAGTATCC
65 GAGATTGGAGCATCC
4053128 CCGAT
1 CCGAT
4053133 GACATAACGG
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
78 2 0.03
79 73 0.97
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGATTGTGAAAAACTGGTATTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCGGAAATAACG
AGATTGGAGCATCC
Found at i:4053139 original size:28 final size:28
Alignment explanation
Indices: 4053084--4053160 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
4053074 AGAATAAAAT
* ***
4053084 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGATTGGAGTATCCCCGATGAAATAA
* *
4053112 TGGGATTGGAGTATCCCCGATGACATAA
1 CGGGATTGGAGTATCCCCGATGAAATAA
* *
4053140 CGGGGTTGGAGTACCCCCGAT
1 CGGGATTGGAGTATCCCCGAT
4053161 TATGAAAAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.22
Consensus pattern (28 bp):
CGGGATTGGAGTATCCCCGATGAAATAA
Found at i:4053256 original size:28 final size:26
Alignment explanation
Indices: 4053193--4053262 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 26
4053183 TATAAAACCG
*
4053193 GGGTTGGAGTATCCTCTCGAAAATAC
1 GGGTTGGAGTATCCCCTCGAAAATAC
*
4053219 TGGG-GGGAGTATCCCCTCGAAAATAAC
1 -GGGTTGGAGTATCCCCTCGAAAAT-AC
4053246 GGGATTGGAGTATCCCC
1 GGG-TTGGAGTATCCCC
4053263 AATGACATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 21 0.57
27 5 0.14
28 11 0.30
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (26 bp):
GGGTTGGAGTATCCCCTCGAAAATAC
Found at i:4053317 original size:133 final size:134
Alignment explanation
Indices: 4053085--4053369 Score: 439
Period size: 133 Copynumber: 2.1 Consensus size: 134
4053075 GAATAAAATC
* * * *
4053085 GGGGTTGGAGTATCCCCTCGGAAATAATGGGATTGGAGTATCCCCGATGACATAACGGGGTTGGA
1 GGGG-TGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCAATGACATAACGGGGTTGAA
* *
4053150 GTACCCCCGATTATGAAAAATCAATATTTTAGATATAAAACCGGGGTTGGAGTAT-CCTCTCGAA
65 GTACCCCCGATTATGAAAAATCAATATTTTAGATATAAAACCGAGGTTGGAGTATCCCT-TCAAA
*
4053214 AATACT
129 AATAAT
4053220 GGGG-GGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCAATGACATAACGGGGTTGAAG
1 GGGGTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCAATGACATAACGGGGTTGAAG
* * *
4053284 TACCCCCGATTATGAAAAATCCATATTTTAGATATAAAGCTGAGGTTGGAGTATCCCTTCAAAAA
66 TACCCCCGATTATGAAAAATCAATATTTTAGATATAAAACCGAGGTTGGAGTATCCCTTCAAAAA
4053349 TAAT
131 TAAT
4053353 GGGGTTGGAGTATCCCC
1 GGGG-TGGAGTATCCCC
4053370 AAGATGAAAA
Statistics
Matches: 137, Mismatches: 10, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
133 119 0.87
134 3 0.02
135 15 0.11
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (134 bp):
GGGGTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCAATGACATAACGGGGTTGAAG
TACCCCCGATTATGAAAAATCAATATTTTAGATATAAAACCGAGGTTGGAGTATCCCTTCAAAAA
TAAT
Found at i:4055691 original size:13 final size:13
Alignment explanation
Indices: 4055673--4055702 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4055663 AAAATGCCTG
*
4055673 AATGTATCGATGC
1 AATGTATCGATAC
4055686 AATGTATCGATAC
1 AATGTATCGATAC
4055699 AATG
1 AATG
4055703 CAAAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:4055705 original size:18 final size:19
Alignment explanation
Indices: 4055682--4055719 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
4055672 GAATGTATCG
4055682 ATGC-AATGTATCGATACA
1 ATGCAAATGTATCGATACA
4055700 ATGCAAAATGTATCGATACA
1 ATGC-AAATGTATCGATACA
4055720 TCTGGGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
20 14 0.78
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (19 bp):
ATGCAAATGTATCGATACA
Found at i:4055766 original size:20 final size:20
Alignment explanation
Indices: 4055735--4055789 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
4055725 GTAAACCCAG
* *
4055735 AATGTATCGATACAATGAAT
1 AATGCATCGATACAATGAAC
*
4055755 AATGCATTGATACAATGAAC
1 AATGCATCGATACAATGAAC
*
4055775 AATGTATCGATACAA
1 AATGCATCGATACAA
4055790 ATTGTGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (20 bp):
AATGCATCGATACAATGAAC
Found at i:4057717 original size:13 final size:13
Alignment explanation
Indices: 4057699--4057724 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4057689 GTTCTGACTT
4057699 CCTTCCTTTGCCA
1 CCTTCCTTTGCCA
4057712 CCTTCCTTTGCCA
1 CCTTCCTTTGCCA
4057725 ATTTAGCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.46, G:0.08, T:0.38
Consensus pattern (13 bp):
CCTTCCTTTGCCA
Found at i:4061670 original size:50 final size:51
Alignment explanation
Indices: 4061577--4061676 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 51
4061567 CGAAGTATCC
* *
4061577 CCCGATTGTGAAAAATTGATATTTTAGAAATAAAGCTAGGGTTGGAGTATG
1 CCCGATGGTGAAAAATTGATATTTTAGAAATAAAGCGAGGGTTGGAGTATG
* * *
4061628 CCCGATGGTG-AAAATTGATGTTTTGGAAATAAAATCGA-GGTTGGAGTAT
1 CCCGATGGTGAAAAATTGATATTTTAGAAAT-AAAGCGAGGGTTGGAGTAT
4061677 CCCCTCAGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
50 29 0.67
51 14 0.33
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (51 bp):
CCCGATGGTGAAAAATTGATATTTTAGAAATAAAGCGAGGGTTGGAGTATG
Found at i:4061736 original size:79 final size:78
Alignment explanation
Indices: 4061616--4062035 Score: 314
Period size: 79 Copynumber: 5.3 Consensus size: 78
4061606 ATAAAGCTAG
* ** * *
4061616 GGTTGGAGTATGCCCGATGGTGAAAAT-TGATGTTTTGGAAATAAAATCGAGG-TTGGAGTATCC
1 GGTTGGAGTATCCCCGATTATGAAAATCT-ATGTTTTAGAAATAAAAACG-GGATTGGAGTATCC
4061679 CCTCAGAAATAATGA
64 CCTCAGAAATAATGA
*** *
4061694 GGTTGGAGTATCCCCGATTATGGAAAATCTATGTTTTAGAAATAAGGTCGGGATTGGAGTATCCT
1 GGTTGGAGTATCCCCGATTAT-GAAAATCTATGTTTTAGAAATAAAAACGGGATTGGAGTATCCC
* *
4061759 CTCAAAAATAATAA
65 CTCAGAAATAATGA
* * ** * * * * *
4061773 GGTTGGAGTATCCCTGATTGTGAAAAGTCGGTGTTTTGGAAA-AAAAACTAGGCTTAGAGGATCC
1 GGTTGGAGTATCCCCGATTATGAAAA-TCTATGTTTTAGAAATAAAAAC-GGGATTGGAGTATCC
* * *
4061837 CTTCAGAAACAATGG
64 CCTCAGAAATAATGA
* * * * * *
4061852 GGATGGAGTATGCCCGATTATAAAAAATCGATGTTTTAGAACT-AAAGCTGGGATTGGAGTATCC
1 GGTTGGAGTATCCCCGATTAT-GAAAATCTATGTTTTAGAAATAAAAAC-GGGATTGGAGTATCC
* * *
4061916 CATCAAAAACAATG-
64 CCTCAGAAATAATGA
** * * * * *
4061930 GAGTTGGAGTATCCGTGATTGTGAAAGGT-TAGTGTTTT-GAAAAAAAAACTGGGGTTGGGGTAT
1 G-GTTGGAGTATCCCCGATTATGAAA-ATCTA-TGTTTTAGAAATAAAAAC-GGGATTGGAGTAT
* *
4061993 CCCCTCAGAAATAACGG
62 CCCCTCAGAAATAATGA
4062010 GGTTGGAGTATCCCCGATTATAGAAA
1 GGTTGGAGTATCCCCGATTAT-GAAA
4062036 TTTTGGTATT
Statistics
Matches: 267, Mismatches: 62, Indels: 24
0.76 0.18 0.07
Matches are distributed among these distances:
78 36 0.13
79 221 0.83
80 10 0.04
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.28
Consensus pattern (78 bp):
GGTTGGAGTATCCCCGATTATGAAAATCTATGTTTTAGAAATAAAAACGGGATTGGAGTATCCCC
TCAGAAATAATGA
Found at i:4061755 original size:129 final size:130
Alignment explanation
Indices: 4061486--4061757 Score: 336
Period size: 130 Copynumber: 2.1 Consensus size: 130
4061476 AAAAAAACGC
* * *
4061486 GGTTGGAGTATCCCCGATGGCGAAAAATTGATGTTTTGGAAACAGACCAAGGTTAGAGTATCCTC
1 GGTTGGAGTATCCCCGATGGCGAAAAATTGATGTTTTGGAAAAAAACCAAGGTTAGAGTATCCCC
* *
4061551 TCAGAAATAACGGGGTCGAAGTATCCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAGCTAG
66 TCAGAAATAACGAGGTCGAAGTATCCCCCGATTATGAAAAATTGATATTTTAGAAATAAAGCTAG
* * * * *
4061616 GGTTGGAGTATGCCCGATGGTG-AAAATTGATGTTTTGGAAATAAAATCGAGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATGGCGAAAAATTGATGTTTTGGAAA-AAAACCAAGGTTAGAGTATCCC
* * * * * *
4061680 CTCAGAAATAATGAGGTTGGAGTAT-CCCCGATTATGGAAAATCT-ATGTTTTAGAAAT-AAGGT
65 CTCAGAAATAACGAGGTCGAAGTATCCCCCGATTATGAAAAAT-TGATATTTTAGAAATAAAGCT
*
4061742 CG
129 AG
4061744 GGATTGGAGTATCC
1 GG-TTGGAGTATCC
4061758 TCTCAAAAAT
Statistics
Matches: 121, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
128 7 0.06
129 56 0.46
130 58 0.48
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (130 bp):
GGTTGGAGTATCCCCGATGGCGAAAAATTGATGTTTTGGAAAAAAACCAAGGTTAGAGTATCCCC
TCAGAAATAACGAGGTCGAAGTATCCCCCGATTATGAAAAATTGATATTTTAGAAATAAAGCTAG
Found at i:4061936 original size:158 final size:156
Alignment explanation
Indices: 4061616--4062031 Score: 482
Period size: 158 Copynumber: 2.6 Consensus size: 156
4061606 ATAAAGCTAG
* * * * *
4061616 GGTTGGAGTATGCCC-GATGGTGAAAA-TTGATGTTTTGGAAATAAAATCGAGGTTGGAGTATCC
1 GGTTGGAGTAT-CCCTGATTGTGAAAAGTTGGTGTTTTGGAAA-AAAAACTAGGTT-GAGGATCC
* ** * *
4061679 CCTCAGAAATAATGAGGTTGGAGTATCCCCGATTATGGAAAATCTATGTTTTAGAAATAAGGTCG
63 CCTCAGAAATAATGGGGTTGGAGTATCCCCGATTATAAAAAATCGATGTTTTAGAAATAAGCTCG
*
4061744 GGATTGGAGTATCCTCTCAAAAATAATAA
128 GGATTGGAGTATCCTCTCAAAAACAATAA
*
4061773 GGTTGGAGTATCCCTGATTGTGAAAAGTCGGTGTTTTGGAAAAAAAACTAGGCTTAGAGGATCCC
1 GGTTGGAGTATCCCTGATTGTGAAAAGTTGGTGTTTTGGAAAAAAAACTAGG-TT-GAGGATCCC
* * * * *
4061838 TTCAGAAACAATGGGGATGGAGTATGCCCGATTATAAAAAATCGATGTTTTAGAACTAAAGCT-G
64 CTCAGAAATAATGGGGTTGGAGTATCCCCGATTATAAAAAATCGATGTTTTAGAAAT-AAGCTCG
*
4061902 GGATTGGAGTATCC-CATCAAAAACAAT-G
128 GGATTGGAGTATCCTC-TCAAAAACAATAA
* * * * * *
4061930 GAGTTGGAGTATCCGTGATTGTGAAAGGTTAGTGTTTTGAAAAAAAAACTGGGGTTGGGGTATCC
1 G-GTTGGAGTATCCCTGATTGTGAAAAGTTGGTGTTTTGGAAAAAAAACT-AGGTTGAGG-ATCC
*
4061995 CCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATA
63 CCTCAGAAATAATGGGGTTGGAGTATCCCCGATTATA
4062032 GAAATTTTGG
Statistics
Matches: 220, Mismatches: 31, Indels: 15
0.83 0.12 0.06
Matches are distributed among these distances:
156 3 0.01
157 34 0.15
158 177 0.80
159 6 0.03
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (156 bp):
GGTTGGAGTATCCCTGATTGTGAAAAGTTGGTGTTTTGGAAAAAAAACTAGGTTGAGGATCCCCT
CAGAAATAATGGGGTTGGAGTATCCCCGATTATAAAAAATCGATGTTTTAGAAATAAGCTCGGGA
TTGGAGTATCCTCTCAAAAACAATAA
Done.