Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 227 of 343
Found at i:74780889 original size:16 final size:16
Alignment explanation
Indices: 74780865--74780895 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
74780855 AATATCAAAT
74780865 TCAACTTATTCAATTA
1 TCAACTTATTCAATTA
*
74780881 TCAATTTATTCAATT
1 TCAACTTATTCAATT
74780896 TAGCCCAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.48
Consensus pattern (16 bp):
TCAACTTATTCAATTA
Found at i:74790030 original size:43 final size:43
Alignment explanation
Indices: 74789972--74790064 Score: 168
Period size: 43 Copynumber: 2.2 Consensus size: 43
74789962 AACACTAAGG
*
74789972 GACACACAGCAGTGTAACATAACCGTGTGTCACATACGGCTAA
1 GACACACAGCAGTGTAACATAACCGTGTGTCACACACGGCTAA
*
74790015 GACACACAGCCGTGTAACATAACCGTGTGTCACACACGGCTAA
1 GACACACAGCAGTGTAACATAACCGTGTGTCACACACGGCTAA
74790058 GACACAC
1 GACACAC
74790065 CCCTGTGTCT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.16
Consensus pattern (43 bp):
GACACACAGCAGTGTAACATAACCGTGTGTCACACACGGCTAA
Found at i:74790205 original size:33 final size:33
Alignment explanation
Indices: 74790163--74790233 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
74790153 TGGTACCAAT
74790163 ACAAGGCATAAATAAGCATTCAATCAAATTCAA
1 ACAAGGCATAAATAAGCATTCAATCAAATTCAA
74790196 ACAAGGCATAAATAAGCATTCAATCAAATTCAA
1 ACAAGGCATAAATAAGCATTCAATCAAATTCAA
*
74790229 CCAAG
1 ACAAG
74790234 CATCATTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.51, C:0.20, G:0.10, T:0.20
Consensus pattern (33 bp):
ACAAGGCATAAATAAGCATTCAATCAAATTCAA
Found at i:74794980 original size:21 final size:20
Alignment explanation
Indices: 74794942--74794982 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
74794932 TTTGATCCTA
74794942 ATTTTAAAAAATACATAAAT
1 ATTTTAAAAAATACATAAAT
74794962 ATTTTCAAAATAATA-ATAAAT
1 ATTTT-AAAA-AATACATAAAT
74794983 TTAAATTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 10 0.53
22 4 0.21
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTTTAAAAAATACATAAAT
Found at i:74795024 original size:25 final size:24
Alignment explanation
Indices: 74794991--74795038 Score: 87
Period size: 25 Copynumber: 2.0 Consensus size: 24
74794981 ATTTAAATTC
74794991 TATATTAATATTAAATAAATATAAT
1 TATATTAATATTAAATAAA-ATAAT
74795016 TATATTAATATTAAATAAAATAA
1 TATATTAATATTAAATAAAATAA
74795039 AAATCTCCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TATATTAATATTAAATAAAATAAT
Found at i:74795747 original size:26 final size:26
Alignment explanation
Indices: 74795686--74795747 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
74795676 AGTATATATT
*
74795686 ATATAATATTTTATATAGTATTTAGAAA
1 ATAT-ATATTTCATATA-TATTTAGAAA
*
74795714 ACAT-TATTTCATAT-TATTTATGAAA
1 ATATATATTTCATATATATTTA-GAAA
74795739 ATATATATT
1 ATATATATT
74795748 ATTTTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 6 0.21
25 7 0.24
26 13 0.45
28 3 0.10
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (26 bp):
ATATATATTTCATATATATTTAGAAA
Found at i:74797812 original size:14 final size:14
Alignment explanation
Indices: 74797772--74797834 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 14
74797762 TAACATTAAA
*
74797772 AATAAA-AATATTT
1 AATAAATAAAATTT
* *
74797785 AATTTAATATAATTT
1 AA-TAAATAAAATTT
74797800 AATAAATAAAATTT
1 AATAAATAAAATTT
*
74797814 AAAAAAATAAAAATTT
1 -AATAAAT-AAAATTT
74797830 AATAA
1 AATAA
74797835 CGAAAATACA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
13 2 0.05
14 13 0.33
15 17 0.44
16 7 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AATAAATAAAATTT
Found at i:74797821 original size:15 final size:15
Alignment explanation
Indices: 74797790--74797831 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
74797780 TATTTAATTT
* *
74797790 AATATAATTT-AATA
1 AATAAAATTTAAAAA
74797804 AATAAAATTTAAAAA
1 AATAAAATTTAAAAA
74797819 AATAAAAATTTAA
1 AAT-AAAATTTAA
74797832 TAACGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 9 0.38
15 6 0.25
16 9 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAAAATTTAAAAA
Found at i:74799001 original size:24 final size:24
Alignment explanation
Indices: 74798974--74799025 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
74798964 CTCATGCTTT
74798974 CTTTACATGTTCATCGTGTTCATG
1 CTTTACATGTTCATCGTGTTCATG
74798998 CTTTACATGTTCATCGTGTTCATG
1 CTTTACATGTTCATCGTGTTCATG
74799022 CTTT
1 CTTT
74799026 CTTTTCATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.48
Consensus pattern (24 bp):
CTTTACATGTTCATCGTGTTCATG
Found at i:74802132 original size:12 final size:13
Alignment explanation
Indices: 74802115--74802139 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74802105 AACCCTTTTC
74802115 TTTTTTCCCCAAT
1 TTTTTTCCCCAAT
74802128 TTTTTTCCCCAA
1 TTTTTTCCCCAA
74802140 ATCAGCTCCC
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:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTTTTCCCCAAT
Found at i:74802191 original size:76 final size:77
Alignment explanation
Indices: 74802051--74802228 Score: 238
Period size: 76 Copynumber: 2.3 Consensus size: 77
74802041 AACCCCAAAA
* * * *
74802051 TTTTTTCACCAAATCAGTTCCCCCTCTCTCCAAATCCCTAAGTTTTTTTTCCCGAACCCTTTTCT
1 TTTTTTCCCCAAATCAGCTCCCCCTCTCTCCAAATCCCTAAGTTTTCTTTCCCGAACCCCTTTCT
74802116 TTTTTCCCCAAT
66 TTTTTCCCCAAT
* *
74802128 TTTTTTCCCCAAATCAGCTCCCCTTTTC-CCAAAATCCCTAAG-TTTCTTTCCC-AGACCCCTTT
1 TTTTTTCCCCAAATCAGCTCCCCCTCTCTCC-AAATCCCTAAGTTTTCTTTCCCGA-ACCCCTTT
74802190 CTTTTTTCCCCAAT
64 CTTTTTTCCCCAAT
**
74802204 TTTTTT-CCCAAATCAATTCCCCCTC
1 TTTTTTCCCCAAATCAGCTCCCCCTC
74802229 GAAATCCCTA
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
75 16 0.18
76 38 0.43
77 35 0.39
ACGTcount: A:0.19, C:0.37, G:0.03, T:0.41
Consensus pattern (77 bp):
TTTTTTCCCCAAATCAGCTCCCCCTCTCTCCAAATCCCTAAGTTTTCTTTCCCGAACCCCTTTCT
TTTTTCCCCAAT
Found at i:74802895 original size:13 final size:13
Alignment explanation
Indices: 74802879--74802909 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
74802869 ATGGAAGGCT
74802879 GAAATTTTATTAG
1 GAAATTTTATTAG
74802892 GAAATTTTATTAG
1 GAAATTTTATTAG
*
74802905 AAAAT
1 GAAAT
74802910 AATTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (13 bp):
GAAATTTTATTAG
Found at i:74811725 original size:17 final size:17
Alignment explanation
Indices: 74811703--74811742 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
74811693 TACAGTCGCC
74811703 CGTGTGGGGCACATGGG
1 CGTGTGGGGCACATGGG
*
74811720 CGTGTGGGGTACATGGG
1 CGTGTGGGGCACATGGG
74811737 CGTGTG
1 CGTGTG
74811743 TGATTACACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.10, C:0.15, G:0.53, T:0.23
Consensus pattern (17 bp):
CGTGTGGGGCACATGGG
Found at i:74814719 original size:21 final size:20
Alignment explanation
Indices: 74814646--74814726 Score: 74
Period size: 22 Copynumber: 3.9 Consensus size: 20
74814636 GTTAAAACAA
*
74814646 CAAAGAATCGATTCAAACAA-
1 CAAAGAATCGATTTAAA-AAG
* * *
74814666 TAATGAATTGATTTAAAACAG
1 CAAAGAATCGATTTAAAA-AG
*
74814687 CAAAAAAATCGATTTAAAGAAG
1 C-AAAGAATCGATTTAAA-AAG
74814709 CAAAGAATCGATTTAAAA
1 CAAAGAATCGATTTAAAA
74814727 TAACAATCAT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
19 1 0.02
20 15 0.31
21 15 0.31
22 16 0.33
23 1 0.02
ACGTcount: A:0.54, C:0.11, G:0.12, T:0.22
Consensus pattern (20 bp):
CAAAGAATCGATTTAAAAAG
Found at i:74814769 original size:24 final size:24
Alignment explanation
Indices: 74814713--74814769 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
74814703 AAGAAGCAAA
*
74814713 GAATCGATTTAAAATAACAATCAT
1 GAATCGATTTAAAACAACAATCAT
*
74814737 GGATCGATTTAAAACAACAATCAT
1 GAATCGATTTAAAACAACAATCAT
*
74814761 GAATTGATT
1 GAATCGATT
74814770 CAAAGAAGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (24 bp):
GAATCGATTTAAAACAACAATCAT
Found at i:74814838 original size:42 final size:44
Alignment explanation
Indices: 74814743--74814851 Score: 150
Period size: 42 Copynumber: 2.5 Consensus size: 44
74814733 TCATGGATCG
* *
74814743 ATTTAAAACAACAATCATGAATTGATTCAAAGAAGCAAAAAAATCA
1 ATTTAAAACAACAA--ATCAATCGATTCAAAGAAGCAAAAAAATCA
*
74814789 ATTTAAAACAACAAA-CAATCGATTCAAAGAAG-AAAAAAATCT
1 ATTTAAAACAACAAATCAATCGATTCAAAGAAGCAAAAAAATCA
74814831 ATTTAAAACAACAAATTCAAT
1 ATTTAAAACAACAAA-TCAAT
74814852 AAAACAAACT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
42 24 0.41
43 15 0.26
44 5 0.09
46 14 0.24
ACGTcount: A:0.58, C:0.14, G:0.06, T:0.22
Consensus pattern (44 bp):
ATTTAAAACAACAAATCAATCGATTCAAAGAAGCAAAAAAATCA
Found at i:74817385 original size:11 final size:11
Alignment explanation
Indices: 74817371--74817406 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
74817361 ATATCCAAAT
*
74817371 AATAATAATAA
1 AATAATAGTAA
74817382 AATAATAGTAA
1 AATAATAGTAA
*
74817393 CATAATAGTAA
1 AATAATAGTAA
74817404 AAT
1 AAT
74817407 GGTAGCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.28
Consensus pattern (11 bp):
AATAATAGTAA
Found at i:74817438 original size:22 final size:22
Alignment explanation
Indices: 74817413--74817459 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
74817403 AAATGGTAGC
*
74817413 AAAATAGAAAGAAAACAATAAA
1 AAAATAGAAAGAAAACAACAAA
* **
74817435 AAAATAGCATTAAAACAACAAA
1 AAAATAGAAAGAAAACAACAAA
74817457 AAA
1 AAA
74817460 TTTGGTCATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.11
Consensus pattern (22 bp):
AAAATAGAAAGAAAACAACAAA
Found at i:74832087 original size:9 final size:8
Alignment explanation
Indices: 74832056--74832088 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
74832046 TAGTCCTAAT
74832056 TCACAAAA
1 TCACAAAA
74832064 TCACAAAA
1 TCACAAAA
74832072 TCACAAAA
1 TCACAAAA
74832080 TACACAAAA
1 T-CACAAAA
74832089 ATCTGCTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.64, C:0.24, G:0.00, T:0.12
Consensus pattern (8 bp):
TCACAAAA
Found at i:74834741 original size:48 final size:46
Alignment explanation
Indices: 74834643--74835012 Score: 243
Period size: 48 Copynumber: 7.8 Consensus size: 46
74834633 GATTGTGTGC
*
74834643 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-ATGAGAG-C
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGA-GAGAGAG
*
74834689 TAGTGTAAGACCATGTCTGGGACATGACATCGGCATTGAGACGAGAG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-GAGAG
* * * *
74834736 ATAGTGTAAAACCATGTCTGAGACATGGCATCGGC-TATGAGA-TGTG
1 -TAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGAGAGAG
* * ** * *
74834782 TCAGTGTAAGATCATGTCTGGGACATGGCATCGACACAGATAGAGGTG
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAGA-GAG
* * * ** *
74834830 TCAATGTAAGACCATGTTTGGGACATAGCATCGGCACAGATATGTGAGAG
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG--A-GAGAGAG
* * * * *
74834880 CCAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTTGATCGCGATAG
1 -TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA--GAGAGAG
* *
74834929 TCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATGTATGAG-C
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-G-A-GAGAG
* * * *
74834977 CAGTATAAGACCATATCTAGGACATGGCATCGGCAT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
74835013 CCTACCCTAT
Statistics
Matches: 258, Mismatches: 46, Indels: 38
0.75 0.13 0.11
Matches are distributed among these distances:
45 7 0.03
46 48 0.19
47 45 0.17
48 85 0.33
49 38 0.15
50 33 0.13
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAGAGAG
Found at i:74834789 original size:94 final size:94
Alignment explanation
Indices: 74834644--74835012 Score: 331
Period size: 94 Copynumber: 3.9 Consensus size: 94
74834634 ATTGTGTGCT
* * *
74834644 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGA-GAGCTAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-C-TATGA-GATGAGCCAGTGTAAGACCATGTC
*
74834706 TGGGACATGACATCGGCATTGAGACGAGAGAT-
63 TGGGACATGGCATCGGCATTGAGACGAGAG-TC
* * * * *
74834738 AGTGTAAAACCATGTCTGAGACATGGCATCGGCTATGAGATGTGTCAGTGTAAGATCATGTCTGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATGAGCCAGTGTAAGACCATGTCTGG
* ** * *
74834803 GACATGGCATCGACACAGATA-GAGGTGTC
66 GACATGGCATCGGCATTGAGACGA-GAGTC
* * * *
74834832 AATGTAAGACCATGTTTGGGACATAGCATCGGCACAGATATGTGA-GAGCCAGTGTAAGACCATG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG--C---TATGAGATGAGCCAGTGTAAGACCATG
* * *
74834896 TCTGGGACATGGCGTCGGCCTTGATCG-CGATAGTC
61 TCTGGGACATGGCATCGGCATTGA--GACGAGAGTC
* * *
74834931 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGATGTATGAGCCAGTATAAGACCATATCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGA-G-ATGAGCCAGTGTAAGACCATGTCT
*
74834995 AGGACATGGCATCGGCAT
64 GGGACATGGCATCGGCAT
74835013 CCTACCCTAT
Statistics
Matches: 218, Mismatches: 41, Indels: 30
0.75 0.14 0.10
Matches are distributed among these distances:
93 7 0.03
94 78 0.36
95 15 0.07
96 43 0.20
97 1 0.00
98 35 0.16
99 37 0.17
100 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCATTGAGACGAGAGTC
Found at i:74837751 original size:66 final size:65
Alignment explanation
Indices: 74837661--74837783 Score: 192
Period size: 66 Copynumber: 1.9 Consensus size: 65
74837651 TAGGCCGTGC
* * *
74837661 CAAACTTGTAGGGTATATTGACTTATGCGATAAGGCCAAGTCACACGCCCGTGTGCTAAGTCCTG
1 CAAACTTGTAGGGTATACTGACTTATGCCACAAGGCCAA-TCACACGCCCGTGTGCTAAGTCCTG
74837726 T
65 T
* *
74837727 CAAATTTGTAGGGTATACTGACTTATGCCACACGGCCAATCACACGCCCGTGTGCTA
1 CAAACTTGTAGGGTATACTGACTTATGCCACAAGGCCAATCACACGCCCGTGTGCTA
74837784 GGCCGTGTGA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
65 18 0.35
66 34 0.65
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (65 bp):
CAAACTTGTAGGGTATACTGACTTATGCCACAAGGCCAATCACACGCCCGTGTGCTAAGTCCTGT
Found at i:74838668 original size:43 final size:43
Alignment explanation
Indices: 74838602--74838687 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
74838592 TTGAAGAGTT
*
74838602 TCCATAACTAGGGTTTTTGGCCAAGCTTCCAAGCTCGATTTTA
1 TCCATAACTAGGGTTTTTAGCCAAGCTTCCAAGCTCGATTTTA
* *
74838645 TCCATAGCTAGGGTTTTTAGCCAAGCTTCCAAGCTTGATTTTA
1 TCCATAACTAGGGTTTTTAGCCAAGCTTCCAAGCTCGATTTTA
74838688 AGTCCGTTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (43 bp):
TCCATAACTAGGGTTTTTAGCCAAGCTTCCAAGCTCGATTTTA
Found at i:74841533 original size:27 final size:27
Alignment explanation
Indices: 74841511--74841712 Score: 138
Period size: 27 Copynumber: 7.5 Consensus size: 27
74841501 AAATTACTGA
*
74841511 AATACCCTCGATTTGTAGAATTACCAT
1 AATACCCTCGATTTATAGAATTACCAT
** *
74841538 TTTACCCTCGATTTATAGAATTACCGT
1 AATACCCTCGATTTATAGAATTACCAT
* * *
74841565 -TTCACCCTCGATTTACAAAATTACCAT
1 AAT-ACCCTCGATTTATAGAATTACCAT
** * *
74841592 TTTACCTTCAATTTATAGAATTACCAT
1 AATACCCTCGATTTATAGAATTACCAT
** * **
74841619 TTTACCCTCGATTTACAGAATTACTGT
1 AATACCCTCGATTTATAGAATTACCAT
** * *
74841646 TTTACCCTCGATTTAAAAAATTACCAT
1 AATACCCTCGATTTATAGAATTACCAT
** * *
74841673 TTTACCCTC-AGTTTACAAAATTACCAT
1 AATACCCTCGA-TTTATAGAATTACCAT
**
74841700 TTTACCCTCGATT
1 AATACCCTCGATT
74841713 GTGAAATTAC
Statistics
Matches: 150, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.02
27 144 0.96
28 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
AATACCCTCGATTTATAGAATTACCAT
Found at i:74841587 original size:54 final size:54
Alignment explanation
Indices: 74841513--74841712 Score: 276
Period size: 54 Copynumber: 3.7 Consensus size: 54
74841503 ATTACTGAAA
** * *
74841513 TACCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
* * *
74841567 CACCCTCGATTTACAAAATTACCATTTTACCTTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
* ** * *
74841621 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTAAAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
74841675 TACCCTC-AGTTTACAAAATTACCATTTTACCCTCGATT
1 TACCCTCGA-TTTACAAAATTACCATTTTACCCTCGATT
74841713 GTGAAATTAC
Statistics
Matches: 127, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
53 1 0.01
54 126 0.99
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
Found at i:74841630 original size:81 final size:81
Alignment explanation
Indices: 74841513--74841712 Score: 310
Period size: 81 Copynumber: 2.5 Consensus size: 81
74841503 ATTACTGAAA
* * *
74841513 TACCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATT
1 TACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATT
*
74841578 TACAAAATTACCATTT
66 TAAAAAATTACCATTT
* * *
74841594 TACCTTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATT
74841659 TAAAAAATTACCATTT
66 TAAAAAATTACCATTT
* * *
74841675 TACCCTCAGTTTACAAAATTACCATTTTACCCTCGATT
1 TACCCTCAATTTATAGAATTACCATTTTACCCTCGATT
74841713 GTGAAATTAC
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 108 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (81 bp):
TACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATT
TAAAAAATTACCATTT
Found at i:74841786 original size:80 final size:80
Alignment explanation
Indices: 74841675--74841866 Score: 181
Period size: 80 Copynumber: 2.4 Consensus size: 80
74841665 ATTACCATTT
* ** *** * * * * *
74841675 TACCCTCAGTTTACAAAATTACCATTTTACCCTCGATTGTGAAATTACTAAAATGCCCCT-GTAG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTAGATTGTAAAATTACCAAAATACCACTGGTAG
74841739 GATAAAATTACCAAAA
66 G-TAAAATTACCAAAA
* * * * *
74841755 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTAGTTTGTAAAATTACCGAAATACCATTGGTT
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTAGATTGTAAAATTACCAAAATACCACTGGTA
* * *
74841819 TGTGAAATTACCGAAA
65 GGTAAAATTACCAAAA
74841835 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
74841867 CTGATTTACA
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
79 1 0.01
80 86 0.95
81 4 0.04
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (80 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTAGATTGTAAAATTACCAAAATACCACTGGTAG
GTAAAATTACCAAAA
Found at i:74841798 original size:53 final size:54
Alignment explanation
Indices: 74841741--74841868 Score: 186
Period size: 53 Copynumber: 2.4 Consensus size: 54
74841731 CCCTGTAGGA
*
74841741 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCT-AGTTTG
1 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCAATTTG
* ** * * *
74841794 TAAAATTACCGAAATACCATTGGTTTGTGAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCAATTTG
74841848 TAAAATTACCAAAATACCCCT
1 TAAAATTACCAAAATACCCCT
74841869 GATTTACAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
53 41 0.64
54 23 0.36
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCAATTTG
Found at i:74841953 original size:27 final size:27
Alignment explanation
Indices: 74841741--74841979 Score: 192
Period size: 27 Copynumber: 8.8 Consensus size: 27
74841731 CCCTGTAGGA
* * *
74841741 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCGAAATACCCTTGGTTTG
* *
74841768 TAAAATTACCAAAATACCC-TAGTTTG
1 TAAAATTACCGAAATACCCTTGGTTTG
*
74841794 TAAAATTACCGAAATACCATTGGTTTG
1 TAAAATTACCGAAATACCCTTGGTTTG
* ***
74841821 TGAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACCGAAATACCCTTGGTTTG
* * * *
74841848 TAAAATTACCAAAATACCCCTGATTTA
1 TAAAATTACCGAAATACCCTTGGTTTG
* ** * *
74841875 CAAAATTATAGAAATACCCTTGACTTTC
1 TAAAATTACCGAAATACCCTTG-GTTTG
** * *
74841903 TAAAAATTATAGAAATACCATTGGTTTA
1 T-AAAATTACCGAAATACCCTTGGTTTG
* *
74841931 CAAAATTACTGAAATACCCTTGGTTTG
1 TAAAATTACCGAAATACCCTTGGTTTG
* * * *
74841958 TAGATTTACCAAAACACCCTTG
1 TAAAATTACCGAAATACCCTTG
74841980 TAGGATGAAA
Statistics
Matches: 173, Mismatches: 36, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
26 24 0.14
27 123 0.71
28 6 0.03
29 20 0.12
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTTGGTTTG
Found at i:74841971 original size:110 final size:107
Alignment explanation
Indices: 74841741--74841950 Score: 262
Period size: 110 Copynumber: 1.9 Consensus size: 107
74841731 CCCTGTAGGA
** * * *
74841741 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTAGTTTGTAAAATTACCGA
1 TAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTACTTTCTAAAATTACAGA
***
74841806 AATACCATTGGTTTGTGAAATTACCGAAATACCCTCAATTTG
66 AATACCATTGGTTTACAAAATTACCGAAATACCCTCAATTTG
*
74841848 TAAAATTACCAAAATACCCCT-GATTTACAAAATTA-TAGAAATACCCTTGACTTTCTAAAAATT
1 TAAAATTACCAAAATACCCCTAG-TTTACAAAATTACCA-AAATACCC-T-ACTTTCT-AAAATT
* *
74841911 ATAGAAATACCATTGGTTTACAAAATTACTGAAATACCCT
61 ACAGAAATACCATTGGTTTACAAAATTACCGAAATACCCT
74841951 TGGTTTGTAG
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
106 2 0.02
107 39 0.45
108 1 0.01
109 5 0.06
110 40 0.46
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (107 bp):
TAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTACTTTCTAAAATTACAGA
AATACCATTGGTTTACAAAATTACCGAAATACCCTCAATTTG
Found at i:74842062 original size:27 final size:26
Alignment explanation
Indices: 74842010--74842074 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 26
74842000 AACCCTAATA
74842010 GGTAAAATGACCGTAAAGTCCCTGTAG
1 GGTAAAATGACCGTAAAG-CCCTGTAG
* *
74842037 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCC-TGTAG
74842064 GGTAAAATGAC
1 GGTAAAATGAC
74842075 GAATATGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 29 0.88
28 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (26 bp):
GGTAAAATGACCGTAAAGCCCTGTAG
Found at i:74842923 original size:25 final size:24
Alignment explanation
Indices: 74842885--74842954 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
74842875 AGGAAGTGCT
* *
74842885 AAAAGGGCTCTGCCCCAGTTTGCC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
74842909 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
74842934 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
74842955 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:74842967 original size:24 final size:23
Alignment explanation
Indices: 74842885--74842981 Score: 88
Period size: 25 Copynumber: 4.0 Consensus size: 23
74842875 AGGAAGTGCT
*
74842885 AAAAGGGCTCTGCCCCAGTT-TGCC
1 AAAAGGGCTTTGCCCCAGTTAT--C
74842909 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAG-TTATC
*
74842934 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
74842958 AAAAGAGGCTAAGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
74842982 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 4 0.06
24 13 0.21
25 43 0.68
26 2 0.03
27 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.25
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:74843161 original size:42 final size:42
Alignment explanation
Indices: 74843102--74843193 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
74843092 TAGTCTCCCC
*
74843102 AAATGGGCTTGCATACATTCATTAACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTAACATTACATGTGATATTG
*
74843144 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTAACATTACATGTGATATTG
74843186 AAATGGGC
1 AAATGGGC
74843194 CTAAGGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTAACATTACATGTGATATTG
Found at i:74843252 original size:31 final size:31
Alignment explanation
Indices: 74843217--74843300 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
74843207 CGTTTACAGT
74843217 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
74843248 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
74843279 AAATGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
74843301 TCAAGACTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:74848575 original size:26 final size:26
Alignment explanation
Indices: 74848539--74848599 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
74848529 TTGTGGTCGG
74848539 TAAAT-ATACGACAGGACTCACCATA
1 TAAATAATACGACAGGACTCACCATA
74848564 TAAATAATACGACAGGACTCACCATA
1 TAAATAATACGACAGGACTCACCATA
74848590 TAAATAATAC
1 TAAATAATAC
74848600 CTCTAAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 5 0.14
26 30 0.86
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.21
Consensus pattern (26 bp):
TAAATAATACGACAGGACTCACCATA
Found at i:74851949 original size:20 final size:20
Alignment explanation
Indices: 74851921--74851972 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
74851911 AAGGCAATGC
*
74851921 ACACGCCCGTGTGCTATGGG
1 ACACACCCGTGTGCTATGGG
74851941 ACACACCCGTGTGCTATGGG
1 ACACACCCGTGTGCTATGGG
*
74851961 ACACACTCGTGT
1 ACACACCCGTGT
74851973 CCTCAGCCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.21
Consensus pattern (20 bp):
ACACACCCGTGTGCTATGGG
Found at i:74854754 original size:131 final size:132
Alignment explanation
Indices: 74854576--74854909 Score: 386
Period size: 132 Copynumber: 2.5 Consensus size: 132
74854566 TGAAAACCTA
* * * * ** *
74854576 AAGGAATATTCGATTGTTTTGAGCAGACGAGGAATTATAACCCAGCACGATAGGGCA-TGATTCC
1 AAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACT-ATTCC
** * * * * * *
74854640 -CAAATTGTCAAACGCCAAATATTACCTTCATTTTAAATG-ATTTTTAGAATATATGCGTGAAAT
65 GCAAATTACCAAACACCAAATATCACCTTCATTTTAAA-GAATTTTTAAAAGACATGAGTGAAAT
74854703 TTTG
129 TTTG
* *
74854707 AAGGGATATTTGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACTATTCCG
1 AAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACTATTCCG
* * * * ** * *
74854772 CGAATTACCAAATATCGAATATCGTCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAATTT
66 CAAATTACCAAACACCAAATATCACCTTCATTTTAAAGAATTTTTAAAAGACATGAGTGAAATTT
74854837 TG
131 TG
*
74854839 AAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACTATTCCG
1 AAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACTATTCCG
74854904 CGAAAT
66 C-AAAT
74854910 GCCAAATATC
Statistics
Matches: 170, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
131 54 0.32
132 113 0.66
133 3 0.02
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (132 bp):
AAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACTATTCCG
CAAATTACCAAACACCAAATATCACCTTCATTTTAAAGAATTTTTAAAAGACATGAGTGAAATTT
TG
Found at i:74854841 original size:132 final size:132
Alignment explanation
Indices: 74854696--74854950 Score: 447
Period size: 132 Copynumber: 1.9 Consensus size: 132
74854686 GAATATATGC
* *
74854696 GTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAGG
1 GTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGG
*
74854761 GCACTATTCCGCGAATTACCAAATATCGAATATCGTCTTCGTTTTAAAGAATTTTTAAAAGGCAT
66 GCACTATTCCGCGAAATACCAAATATCGAATATCGTCTTCGTTTTAAAGAATTTTTAAAAGGCAT
74854826 GA
131 GA
*
74854828 GTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGG
1 GTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGG
* * *
74854893 GCACTATTCCGCGAAATGCCAAATATCGAGTCTCGTCTTCGTTTTAAAGAATTTTTAA
66 GCACTATTCCGCGAAATACCAAATATCGAATATCGTCTTCGTTTTAAAGAATTTTTAA
74854951 TAATTGTGAA
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 116 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (132 bp):
GTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGG
GCACTATTCCGCGAAATACCAAATATCGAATATCGTCTTCGTTTTAAAGAATTTTTAAAAGGCAT
GA
Found at i:74856128 original size:2 final size:2
Alignment explanation
Indices: 74856121--74856151 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
74856111 CCAAAGTGAG
74856121 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
74856152 AAAGTTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:74856671 original size:3 final size:3
Alignment explanation
Indices: 74856663--74856700 Score: 58
Period size: 3 Copynumber: 12.0 Consensus size: 3
74856653 AAAAAGTAAC
74856663 AAT AAT AAT AAT AAT AAT AAT AAT AAAT CAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT
74856701 GATGATGATG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
3 27 0.82
4 6 0.18
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:74858771 original size:14 final size:14
Alignment explanation
Indices: 74858752--74858781 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
74858742 ACTTTAACAC
74858752 ATGCATATTCTCAT
1 ATGCATATTCTCAT
74858766 ATGCATATTCTCAT
1 ATGCATATTCTCAT
74858780 AT
1 AT
74858782 TCTAAACCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (14 bp):
ATGCATATTCTCAT
Found at i:74874356 original size:21 final size:20
Alignment explanation
Indices: 74874328--74874366 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
74874318 CAAAACTTGT
*
74874328 ATAACTATCATCAAACATTC
1 ATAACTATCATAAAACATTC
74874348 ATAATCTATCATAAAACAT
1 ATAA-CTATCATAAAACAT
74874367 CAAAATACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAACTATCATAAAACATTC
Found at i:74875050 original size:42 final size:42
Alignment explanation
Indices: 74874998--74875082 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
74874988 ATCAGCAACC
*
74874998 AACACCCTCCAAGCCCCTAACCTCAAATATTATCCAGAATTT
1 AACAACCTCCAAGCCCCTAACCTCAAATATTATCCAGAATTT
*
74875040 AACAACCTCCAAGCCCCTAACCTCAAATATTTTCCAGAATTT
1 AACAACCTCCAAGCCCCTAACCTCAAATATTATCCAGAATTT
74875082 A
1 A
74875083 GTCGTTTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.36, C:0.34, G:0.05, T:0.25
Consensus pattern (42 bp):
AACAACCTCCAAGCCCCTAACCTCAAATATTATCCAGAATTT
Found at i:74878104 original size:17 final size:17
Alignment explanation
Indices: 74878084--74878121 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
74878074 GTTTACTTAT
*
74878084 TTTTCTTTATTTATTTC
1 TTTTCGTTATTTATTTC
*
74878101 TTTTCGTTATTTATTTG
1 TTTTCGTTATTTATTTC
74878118 TTTT
1 TTTT
74878122 TATTCCCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.08, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTTCGTTATTTATTTC
Found at i:74882045 original size:27 final size:26
Alignment explanation
Indices: 74882015--74882068 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
74882005 AACAAATTAG
74882015 TATACAAAACAATTCGAAATGAAATAA
1 TATACAAAACAATTCGAAAT-AAATAA
* * **
74882042 TATATAAAGCAATTTTAAATAAATAA
1 TATACAAAACAATTCGAAATAAATAA
74882068 T
1 T
74882069 TTATGAAGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.30
Consensus pattern (26 bp):
TATACAAAACAATTCGAAATAAATAA
Found at i:74883525 original size:35 final size:35
Alignment explanation
Indices: 74883447--74883561 Score: 146
Period size: 34 Copynumber: 3.3 Consensus size: 35
74883437 GAATTTGGGC
*
74883447 TTTA-GGGTTTTTTATTTTGGGTTTTAAGTTTGGG
1 TTTATGGGTTTTTTATTTTGGGTTTTAAGTTTAGG
* * *
74883481 CTGAT-GGTTTTTTATTTTGGGTTTTAAGTTTAGA
1 TTTATGGGTTTTTTATTTTGGGTTTTAAGTTTAGG
**
74883515 TTTATGGGTTTTGAATTTTGGGTTTTTAA-TTTAGG
1 TTTATGGGTTTTTTATTTTGGG-TTTTAAGTTTAGG
74883550 TTTATGGGTTTT
1 TTTATGGGTTTT
74883562 GAATTTTGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
34 32 0.46
35 31 0.45
36 6 0.09
ACGTcount: A:0.15, C:0.01, G:0.26, T:0.58
Consensus pattern (35 bp):
TTTATGGGTTTTTTATTTTGGGTTTTAAGTTTAGG
Found at i:74883536 original size:14 final size:15
Alignment explanation
Indices: 74883514--74883547 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
74883504 TTAAGTTTAG
74883514 ATTTATGGGTTTTGA
1 ATTTATGGGTTTTGA
*
74883529 ATTT-TGGGTTTTTA
1 ATTTATGGGTTTTGA
74883543 ATTTA
1 ATTTA
74883548 GGTTTATGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (15 bp):
ATTTATGGGTTTTGA
Found at i:74883562 original size:35 final size:35
Alignment explanation
Indices: 74883447--74883569 Score: 144
Period size: 35 Copynumber: 3.6 Consensus size: 35
74883437 GAATTTGGGC
** *
74883447 TTTA-GGGTTTTTTATTTTGGGTTTTAAGTTTGGG
1 TTTATGGGTTTTGAATTTTGGGTTTTAAGTTTAGG
* * ** *
74883481 CTGAT-GGTTTTTTATTTTGGGTTTTAAGTTTAGA
1 TTTATGGGTTTTGAATTTTGGGTTTTAAGTTTAGG
74883515 TTTATGGGTTTTGAATTTTGGGTTTTTAA-TTTAGG
1 TTTATGGGTTTTGAATTTTGGG-TTTTAAGTTTAGG
74883550 TTTATGGGTTTTGAATTTTG
1 TTTATGGGTTTTGAATTTTG
74883570 TAACTGGACT
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
34 32 0.42
35 39 0.51
36 6 0.08
ACGTcount: A:0.15, C:0.01, G:0.26, T:0.58
Consensus pattern (35 bp):
TTTATGGGTTTTGAATTTTGGGTTTTAAGTTTAGG
Found at i:74883921 original size:44 final size:44
Alignment explanation
Indices: 74883835--74883951 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 44
74883825 CTTCAATTTT
* * ** ** *
74883835 CTTCACTGTAACTTTAGGAAGATAAGATTTTTGGTTTTAATCTG
1 CTTCACTGCAACTTTAGGGAGATAAGATTAATGGCCTCAATCTG
*
74883879 CTTCACTGCAACTTTAGGGAGATGAGATTAATGGCCTCAATCTG
1 CTTCACTGCAACTTTAGGGAGATAAGATTAATGGCCTCAATCTG
* *
74883923 C-TCTACTGCAACTTCAAGGAGATAAGATT
1 CTTC-ACTGCAACTTTAGGGAGATAAGATT
74883952 CGCCATGATA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 2 0.03
44 59 0.97
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (44 bp):
CTTCACTGCAACTTTAGGGAGATAAGATTAATGGCCTCAATCTG
Found at i:74884171 original size:45 final size:45
Alignment explanation
Indices: 74884107--74884192 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
74884097 TTGTGACTTG
*
74884107 TATCTTTAATCTATTCCACTAAAACTTCAGGGAAATAAGACCTGC
1 TATCTTCAATCTATTCCACTAAAACTTCAGGGAAATAAGACCTGC
* ** *
74884152 TATCTTCAGTCTATTCCACTGCAACTTCAGGGAGATAAGAC
1 TATCTTCAATCTATTCCACTAAAACTTCAGGGAAATAAGAC
74884193 TTGTAACTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (45 bp):
TATCTTCAATCTATTCCACTAAAACTTCAGGGAAATAAGACCTGC
Found at i:74884607 original size:44 final size:44
Alignment explanation
Indices: 74884548--74884653 Score: 176
Period size: 44 Copynumber: 2.4 Consensus size: 44
74884538 TTAGGGAAAC
*
74884548 AAGATCTACAATCTTCAGTCTGCTTCCTTGCTACATCAGGAAGAT
1 AAGAT-TACAATCTTCAGTCTGCTTCCTTGCTACATCAAGAAGAT
*
74884593 AAGATTACAATCTTCAGTCTGCTTCCTTGCTACATCAAGTAGAT
1 AAGATTACAATCTTCAGTCTGCTTCCTTGCTACATCAAGAAGAT
*
74884637 AAGACTACAATCTTCAG
1 AAGATTACAATCTTCAG
74884654 CCAGTACCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
44 53 0.91
45 5 0.09
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (44 bp):
AAGATTACAATCTTCAGTCTGCTTCCTTGCTACATCAAGAAGAT
Found at i:74884665 original size:44 final size:44
Alignment explanation
Indices: 74884548--74884667 Score: 134
Period size: 44 Copynumber: 2.7 Consensus size: 44
74884538 TTAGGGAAAC
* * * *
74884548 AAGATCTACAATCTTCAGTCTGCTTCCTTGCTACATCAGGAAGAT
1 AAGA-CTACAATCTTCAGCCAGCTCCCTTGCTACATCAAGAAGAT
* * * * *
74884593 AAGATTACAATCTTCAGTCTGCTTCCTTGCTACATCAAGTAGAT
1 AAGACTACAATCTTCAGCCAGCTCCCTTGCTACATCAAGAAGAT
74884637 AAGACTACAATCTTCAGCCAG-TACCCTTGCT
1 AAGACTACAATCTTCAGCCAGCT-CCCTTGCT
74884668 GCTCAGGGAG
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
43 1 0.01
44 62 0.93
45 4 0.06
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (44 bp):
AAGACTACAATCTTCAGCCAGCTCCCTTGCTACATCAAGAAGAT
Found at i:74884783 original size:44 final size:43
Alignment explanation
Indices: 74884735--74885147 Score: 298
Period size: 44 Copynumber: 9.6 Consensus size: 43
74884725 AGATTCACCG
* * *
74884735 TCTTCAATCTGTTTCACTACTGCTTAGGGAGATAAGATCTATAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TGTAA
** * * * *
74884779 TCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGT-G
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTGTAA
* * * * *
74884821 GCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATT-CACCG
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTGTA--A
* * * *
74884865 TCTTCGATCTGCTCCACTACTACTTAAGGAGATGAGATCTGTAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TGTAA
* ** * * * * *
74884909 TATTCAGCCTACTCCACTAATGCTTAGGGAGATAGGATGGT-G
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTGTAA
* * * *
74884951 GCTTAAATCTGCTCCAC-ACTGCTTAGGGAGACAAGATT-CACCA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTGTA--A
* *
74884994 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCCGTAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TGTAA
** * * * *
74885038 TCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGT-G
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTGTAA
* * * *
74885080 GCTTAAATCTACTCCACTACTGCTTAGGGAGACAAGATCTGTAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TGTAA
** * *
74885124 TCTTCAGCCTACTCCACTGCTGCT
1 TCTTCAATCTGCTCCACTACTGCT
74885148 CAAGGAGACA
Statistics
Matches: 279, Mismatches: 77, Indels: 26
0.73 0.20 0.07
Matches are distributed among these distances:
41 17 0.06
42 74 0.27
43 21 0.08
44 164 0.59
45 1 0.00
46 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (43 bp):
TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTGTAA
Found at i:74884875 original size:130 final size:130
Alignment explanation
Indices: 74884716--74885117 Score: 680
Period size: 130 Copynumber: 3.1 Consensus size: 130
74884706 TCGCTACCTC
* * * * *
74884716 AGGGGGACAAGATTCACCGTCTTCAATCTGTTTCACTACTGCTTAGGGAGATAAGATCTATAATC
1 AGGGAGACAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATC
74884781 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTT
66 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTT
* * * *
74884846 AGGGAGACAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAAGGAGATGAGATCTGTAATA
1 AGGGAGACAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATC
*
74884911 TTCAGCCTACTCCACTAATGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCAC-ACTGCTT
66 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTT
* *
74884975 AGGGAGACAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCCGTAATC
1 AGGGAGACAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATC
*
74885040 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTT
66 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTT
74885105 AGGGAGACAAGAT
1 AGGGAGACAAGAT
74885118 CTGTAATCTT
Statistics
Matches: 253, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
129 121 0.48
130 132 0.52
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (130 bp):
AGGGAGACAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATC
TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTT
Found at i:74886497 original size:3 final size:3
Alignment explanation
Indices: 74886489--74886559 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
74886479 CTCTCTTATT
74886489 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
74886537 TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TT
74886560 TTGGCATCAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:74887269 original size:10 final size:10
Alignment explanation
Indices: 74887254--74887279 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
74887244 CTTTCCCTCC
74887254 TTTTTTTGTT
1 TTTTTTTGTT
74887264 TTTTTTTGTT
1 TTTTTTTGTT
74887274 TTTTTT
1 TTTTTT
74887280 AATTTGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:74891900 original size:27 final size:26
Alignment explanation
Indices: 74891870--74891923 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
74891860 AACAAATTAG
74891870 TATACAAAACAATTTGAAATGAAATAA
1 TATACAAAACAATTTGAAAT-AAATAA
* * *
74891897 TATATAAAGCAATTTTAAATAAATAA
1 TATACAAAACAATTTGAAATAAATAA
74891923 T
1 T
74891924 TCATGAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (26 bp):
TATACAAAACAATTTGAAATAAATAA
Found at i:74893843 original size:155 final size:153
Alignment explanation
Indices: 74893562--74893861 Score: 442
Period size: 155 Copynumber: 1.9 Consensus size: 153
74893552 TTTTTTTTAT
*** * *
74893562 AAAAAAGAGAAAGTTTAGATTTTTATTTTAAAAATCTATTTTTTAGTCATATTAAAGGAAAAGTT
1 AAAAAAGAGAAAGTTTAGATTTTTAAACTAAAAATATATTTTTTAGTCATATTAAAGGAAAACTT
*
74893627 TAAATTCTTAAAATAAAGTTCTGATCTTTTTTAACTATTTCGATATAAAATTTTGATTTTTAAGA
66 TAAATTCTTAAAATAAAGTTCTGATCTTTTTTAACTATTTCGAAATAAAATTTTGATTTTTAAGA
*
74893692 AAAATAGTGATTTTTTTAAATAA
131 AAAATAGTAATTTTTTTAAATAA
* *
74893715 AAAAAAGAGAAAGTTTAGATTTTTTAAACTAAAAATATGTTTTTTAGTCATTTTAAA-GAAAATC
1 AAAAAAGAGAAAGTTTAGA-TTTTTAAACTAAAAATATATTTTTTAGTCATATTAAAGGAAAA-C
* *
74893779 TTTAAATTTTTGAAAATAAAGTTTTGAT-TTTTTTCAACTATTTCGAAATAAAATTTTGATTTTT
64 TTTAAATTCTT-AAAATAAAGTTCTGATCTTTTTT-AACTATTTCGAAATAAAATTTTGATTTTT
*
74893843 AAGAAAAGTAGTAATTTTT
127 AAGAAAAATAGTAATTTTT
74893862 AAAAAAAAAT
Statistics
Matches: 131, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
153 24 0.18
154 47 0.36
155 60 0.46
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (153 bp):
AAAAAAGAGAAAGTTTAGATTTTTAAACTAAAAATATATTTTTTAGTCATATTAAAGGAAAACTT
TAAATTCTTAAAATAAAGTTCTGATCTTTTTTAACTATTTCGAAATAAAATTTTGATTTTTAAGA
AAAATAGTAATTTTTTTAAATAA
Found at i:74897934 original size:16 final size:16
Alignment explanation
Indices: 74897913--74897946 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
74897903 CCCCTCTTGG
*
74897913 TTCTACTAACCCGATT
1 TTCTACTAACCCAATT
74897929 TTCTACTAACCCAATT
1 TTCTACTAACCCAATT
74897945 TT
1 TT
74897947 TGGGATGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.03, T:0.41
Consensus pattern (16 bp):
TTCTACTAACCCAATT
Found at i:74902560 original size:20 final size:20
Alignment explanation
Indices: 74902535--74902580 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
74902525 AAAAATAAAA
74902535 TTTTTA-TATTTTCAAATATT
1 TTTTTATTATTTTCAAA-ATT
*
74902555 TTTTTATTATTTTTAAAATT
1 TTTTTATTATTTTCAAAATT
*
74902575 ATTTTA
1 TTTTTA
74902581 CTTAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTATTATTTTCAAAATT
Found at i:74902579 original size:21 final size:21
Alignment explanation
Indices: 74902534--74902579 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
74902524 TAAAAATAAA
74902534 ATTTTTATATTTTCAAATATT
1 ATTTTTATATTTTCAAATATT
*
74902555 -TTTTTATTATTTTTAAA-ATT
1 ATTTTTA-TATTTTCAAATATT
74902575 ATTTT
1 ATTTT
74902580 ACTTAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTTATATTTTCAAATATT
Found at i:74906532 original size:18 final size:17
Alignment explanation
Indices: 74906509--74906543 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
74906499 ATATGCACAG
74906509 TCAGATACAGATACATAT
1 TCAGATACAGATA-ATAT
*
74906527 TCAGATTCAGATAATAT
1 TCAGATACAGATAATAT
74906544 ATTTAGTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.31
Consensus pattern (17 bp):
TCAGATACAGATAATAT
Found at i:74913251 original size:16 final size:16
Alignment explanation
Indices: 74913230--74913261 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
74913220 AATATATATT
*
74913230 TTGAATTTTGAATTTA
1 TTGAATTATGAATTTA
74913246 TTGAATTATGAATTTA
1 TTGAATTATGAATTTA
74913262 AAAAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (16 bp):
TTGAATTATGAATTTA
Found at i:74914226 original size:21 final size:20
Alignment explanation
Indices: 74914178--74914226 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
74914168 GTAAATTTTT
74914178 TATTTTATAAATTACTTTAA
1 TATTTTATAAATTACTTTAA
* * **
74914198 AATATTATAATATTTTTTTAA
1 TATTTTATAA-ATTACTTTAA
74914219 TATTTTAT
1 TATTTTAT
74914227 CACACCTTTA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTTTATAAATTACTTTAA
Found at i:74914243 original size:23 final size:22
Alignment explanation
Indices: 74914217--74914282 Score: 54
Period size: 23 Copynumber: 3.2 Consensus size: 22
74914207 ATATTTTTTT
74914217 AATATTTTATCACACCTTTATAG
1 AATATTTTATCACA-CTTTATAG
**
74914240 AATAACTTATCA-A--TT-T--
1 AATATTTTATCACACTTTATAG
74914256 AATATTTTATCACATCTTTATAG
1 AATATTTTATCACA-CTTTATAG
74914279 AATA
1 AATA
74914283 ACTTATCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
16 10 0.31
17 1 0.03
18 1 0.03
19 2 0.06
20 2 0.06
21 1 0.03
22 1 0.03
23 14 0.44
ACGTcount: A:0.39, C:0.14, G:0.03, T:0.44
Consensus pattern (22 bp):
AATATTTTATCACACTTTATAG
Found at i:74914303 original size:39 final size:39
Alignment explanation
Indices: 74914214--74914292 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
74914204 ATAATATTTT
74914214 TTTAATATTTTATCACACCTTTATAGAATAACTTATCAA
1 TTTAATATTTTATCACACCTTTATAGAATAACTTATCAA
*
74914253 TTTAATATTTTATCACATCTTTATAGAATAACTTATCAA
1 TTTAATATTTTATCACACCTTTATAGAATAACTTATCAA
74914292 T
1 T
74914293 CCTTAATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.14, G:0.03, T:0.46
Consensus pattern (39 bp):
TTTAATATTTTATCACACCTTTATAGAATAACTTATCAA
Found at i:74921990 original size:49 final size:49
Alignment explanation
Indices: 74921935--74922030 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
74921925 GAAACATCCC
74921935 TTAGTTCATATCTTTGATGTTCAGGAAAAGAAAATATATTTCTTAAAGT
1 TTAGTTCATATCTTTGATGTTCAGGAAAAGAAAATATATTTCTTAAAGT
74921984 TTAGTTCATATCTTTGATGTTCAGGAAAAGAAAATATATTTCTTAAA
1 TTAGTTCATATCTTTGATGTTCAGGAAAAGAAAATATATTTCTTAAA
74922031 ACTTGAGCAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.41
Consensus pattern (49 bp):
TTAGTTCATATCTTTGATGTTCAGGAAAAGAAAATATATTTCTTAAAGT
Found at i:74929078 original size:3 final size:3
Alignment explanation
Indices: 74929070--74929116 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
74929060 ACTAATCTCA
74929070 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
74929117 ACCCCTTTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:74936537 original size:26 final size:26
Alignment explanation
Indices: 74936508--74936587 Score: 151
Period size: 26 Copynumber: 3.1 Consensus size: 26
74936498 ATATAAATTA
74936508 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
74936534 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
74936560 ATAATGGGTTAGGTAGATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
74936586 AT
1 AT
74936588 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:74937776 original size:8 final size:8
Alignment explanation
Indices: 74937763--74937792 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
74937753 AGATCGGCAC
74937763 AAGCCGAA
1 AAGCCGAA
74937771 AAGCCGAA
1 AAGCCGAA
*
74937779 ATGCCGAA
1 AAGCCGAA
74937787 AAGCCG
1 AAGCCG
74937793 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:74938222 original size:27 final size:27
Alignment explanation
Indices: 74938182--74938322 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 27
74938172 AGGAAGCGTC
74938182 CTGGTGGC-CATGCCACAATTATCTGAT
1 CTGGTGGCTC-TGCCACAATTATCTGAT
*
74938209 TTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
74938235 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
74938263 CTGGTAGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
74938290 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
74938317 CTGGTG
1 CTGGTG
74938323 ACTTCGTCAC
Statistics
Matches: 98, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
26 11 0.11
27 82 0.84
28 5 0.05
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:74938261 original size:54 final size:54
Alignment explanation
Indices: 74938179--74938322 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
74938169 TGGAGGAAGC
* *
74938179 GTCCTGGTGGCCATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
74938233 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTAGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
74938287 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
74938323 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 6 0.07
54 77 0.93
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:74938333 original size:27 final size:26
Alignment explanation
Indices: 74938192--74938340 Score: 142
Period size: 27 Copynumber: 5.5 Consensus size: 26
74938182 CTGGTGGCCA
*
74938192 TGCCACAATTATCTGATT-TGGTGGCTC
1 TGCCACAA-TATCTG-TTCTGGTGACTC
* * *
74938219 TGCCACATATATCTGTCCTGGTGGCTA
1 TGCCACA-ATATCTGTTCTGGTGACTC
*
74938246 TGCCACAATTATCTGATCTGGT-AGCTC
1 TGCCACAA-TATCTGTTCTGGTGA-CTC
*
74938273 TGCCACATATATCTGTTCTGGTGGCTC
1 TGCCACA-ATATCTGTTCTGGTGACTC
74938300 TGCCACAATATCTGTATCTGGTGACT-
1 TGCCACAATATCTGT-TCTGGTGACTC
*
74938326 TCGTCACAATATCTG
1 T-GCCACAATATCTG
74938341 GCAACCTCGT
Statistics
Matches: 104, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
26 11 0.11
27 91 0.88
28 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:74938334 original size:81 final size:80
Alignment explanation
Indices: 74938192--74938340 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 80
74938182 CTGGTGGCCA
*
74938192 TGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTATGCCACAATTA
1 TGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTATGCCACAA-TA
74938257 TCTGATCTGGTAGCTC
65 TCTGATCTGGTAGCTC
* *
74938273 TGCCAC-ATATATCTG-TTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT-TCGTCACA
1 TGCCACAAT-TATCTGATT-TGGTGGCTCTGCCACATATATCTGT-CCTGGTGACTAT-GCCACA
74938334 ATATCTG
62 ATATCTG
74938341 GCAACCTCGT
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
80 19 0.31
81 42 0.69
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (80 bp):
TGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTATGCCACAATAT
CTGATCTGGTAGCTC
Found at i:74939640 original size:49 final size:48
Alignment explanation
Indices: 74939434--74939630 Score: 290
Period size: 48 Copynumber: 4.1 Consensus size: 48
74939424 TTATGTAATC
**
74939434 CAATGTACCTAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTG
1 CAATGTATTTAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTG
* *
74939482 TAATGTATTTAATTTATATTATAAAGTTTGTTCCAAGTTTTAATGTTG
1 CAATGTATTTAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTG
*
74939530 TC-ATGTATTTAATTTATATTACAAATTTTGTTCCAAGTTTTAATGTTG
1 -CAATGTATTTAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTG
**
74939578 CAAT-TAATTTAATTTATGACCACAAAGTTTGTTCCAAGTTTTAATGTTG
1 CAATGT-ATTTAATTTAT-ATTACAAAGTTTGTTCCAAGTTTTAATGTTG
74939627 CAAT
1 CAAT
74939631 TAATCTAATT
Statistics
Matches: 135, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
47 2 0.01
48 101 0.75
49 32 0.24
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (48 bp):
CAATGTATTTAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTG
Found at i:74942079 original size:16 final size:16
Alignment explanation
Indices: 74942060--74942132 Score: 53
Period size: 16 Copynumber: 4.4 Consensus size: 16
74942050 ATAACACGCC
74942060 AAATAAATTACATAAA
1 AAATAAATTACATAAA
74942076 AAATAAATCTA-ATAAA
1 AAATAAAT-TACATAAA
* * *
74942092 CCTAAA-ACA-CACATAAC
1 ---AAATAAATTACATAAA
74942109 AAATAAATTACATAAAA
1 AAATAAATTACAT-AAA
74942126 AAATAAA
1 AAATAAA
74942133 ACATTCTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 15
0.67 0.09 0.23
Matches are distributed among these distances:
14 3 0.07
15 2 0.05
16 18 0.42
17 15 0.35
18 2 0.05
19 3 0.07
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATAAATTACATAAA
Found at i:74942280 original size:12 final size:12
Alignment explanation
Indices: 74942262--74942319 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
74942252 TAATACCTTA
74942262 CAAAAATAAAAT
1 CAAAAATAAAAT
* *
74942274 TAAAAATTAAAT
1 CAAAAATAAAAT
*
74942286 CCAAAAT-AAAT
1 CAAAAATAAAAT
*
74942297 CAACAATAACAA-
1 CAAAAATAA-AAT
74942309 CAAAAA-AAAAT
1 CAAAAATAAAAT
74942320 TAACATTTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
10 2 0.06
11 11 0.31
12 21 0.58
13 2 0.06
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAAATAAAAT
Found at i:74946540 original size:32 final size:32
Alignment explanation
Indices: 74946503--74946565 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
74946493 ATTTAAACGT
74946503 TAATGTCTAAATTAAAAATTTTAAAAATTGAA
1 TAATGTCTAAATTAAAAATTTTAAAAATTGAA
*
74946535 TAATGTCTAAATTGAAAATTTTAAAAATTGA
1 TAATGTCTAAATTAAAAATTTTAAAAATTGA
74946566 GTTACCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (32 bp):
TAATGTCTAAATTAAAAATTTTAAAAATTGAA
Found at i:74946562 original size:16 final size:16
Alignment explanation
Indices: 74946511--74946565 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
74946501 GTTAATGTCT
*
74946511 AAATTAAAAATTTTAA
1 AAATTGAAAATTTTAA
*
74946527 AAATTGAATAATGTCT--
1 AAATTGAA-AAT-TTTAA
74946543 AAATTGAAAATTTTAA
1 AAATTGAAAATTTTAA
74946559 AAATTGA
1 AAATTGA
74946566 GTTACCAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 2 0.06
15 3 0.09
16 22 0.69
17 3 0.09
18 2 0.06
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (16 bp):
AAATTGAAAATTTTAA
Found at i:74953655 original size:6 final size:6
Alignment explanation
Indices: 74953644--74953668 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
74953634 TATTTTTCAC
74953644 CTCTTT CTCTTT CTCTTT CTCTTT C
1 CTCTTT CTCTTT CTCTTT CTCTTT C
74953669 AACACACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (6 bp):
CTCTTT
Found at i:74959603 original size:27 final size:27
Alignment explanation
Indices: 74959566--74959728 Score: 206
Period size: 27 Copynumber: 6.0 Consensus size: 27
74959556 AGCATGGCTG
* *
74959566 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
74959592 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATAT-GTGGCAGAGCCA
*
74959620 CCAGAACAGATATATGTGGTAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * *
74959647 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
74959674 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
74959701 CCAGATCAGATA-ATTGTGGCATAGCCA
1 CCAGAACAGATATA-TGTGGCAGAGCCA
74959728 C
1 C
74959729 TAGGACGCTT
Statistics
Matches: 121, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.05
27 98 0.81
28 17 0.14
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:74959625 original size:54 final size:54
Alignment explanation
Indices: 74959566--74959728 Score: 256
Period size: 54 Copynumber: 3.0 Consensus size: 54
74959556 AGCATGGCTG
* * * *
74959566 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
* *
74959620 CCAGAACAGATATATGTGGTAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
74959674 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
74959728 C
1 C
74959729 TAGGACGCTT
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 83 0.83
55 17 0.17
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
Found at i:74961387 original size:26 final size:26
Alignment explanation
Indices: 74961351--74961460 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
74961341 CATGAAATTC
74961351 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
74961377 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
74961403 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
74961429 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
74961455 TTATCA
1 TTATCA
74961461 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:74965475 original size:20 final size:20
Alignment explanation
Indices: 74965419--74965468 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
74965409 TCTTTTTAAT
74965419 TCGATTCATTATTGTTTGAA
1 TCGATTCATTATTGTTTGAA
* **
74965439 TCTATTTTTTATTGTTTGAA
1 TCGATTCATTATTGTTTGAA
74965459 TCGATTCATT
1 TCGATTCATT
74965469 GTGGTTTAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.56
Consensus pattern (20 bp):
TCGATTCATTATTGTTTGAA
Found at i:74968198 original size:25 final size:24
Alignment explanation
Indices: 74968170--74968224 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
74968160 ATAGCAGAAG
*
74968170 AGAAGAAA-AAAGAGAGGGAGAAAAA
1 AGAAGAAAGAAAG-GA-GAAGAAAAA
*
74968195 AGAAAGAAAGAATGGAGAAGAAAAA
1 AG-AAGAAAGAAAGGAGAAGAAAAA
74968220 AGAAG
1 AGAAG
74968225 GATTATGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 3 0.12
25 12 0.46
26 8 0.31
27 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (24 bp):
AGAAGAAAGAAAGGAGAAGAAAAA
Found at i:74968304 original size:10 final size:11
Alignment explanation
Indices: 74968276--74968315 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
74968266 TTGTTTATTG
74968276 TTATTTTT-AT
1 TTATTTTTAAT
*
74968286 GTTGTTTTTAAT
1 -TTATTTTTAAT
74968298 TTATTTTTAAT
1 TTATTTTTAAT
74968309 TTATTTT
1 TTATTTT
74968316 GTTAGTAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 24 0.92
12 2 0.08
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (11 bp):
TTATTTTTAAT
Found at i:74969407 original size:16 final size:17
Alignment explanation
Indices: 74969386--74969425 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
74969376 TACAATGTTG
* *
74969386 ATTTTTT-TTTCATTAA
1 ATTTTTTATTTAAGTAA
74969402 ATTTTTTATTTAAGTAA
1 ATTTTTTATTTAAGTAA
74969419 ATTTTTT
1 ATTTTTT
74969426 GCTGTTCGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTTTATTTAAGTAA
Found at i:74978290 original size:36 final size:35
Alignment explanation
Indices: 74978250--74978361 Score: 109
Period size: 36 Copynumber: 3.1 Consensus size: 35
74978240 TAAATAAAAG
* *
74978250 TACTGAATGACTGACTGTTATTGAATAATTGATCGT
1 TACTGAATAACTGATTGTTATTGAATAATTGAT-GT
** *
74978286 TACTGAATAACTGATTGCTT-TTGAGCAAATGATTGT
1 TACTGAATAACTGATTG-TTATTGAATAATTGA-TGT
* * *
74978322 TACTGAATAACTAATTGCTACTGAATAATTGAATGT
1 TACTGAATAACTGATTGTTATTGAATAATTG-ATGT
74978358 TACT
1 TACT
74978362 AAATGAAACT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
35 1 0.02
36 56 0.92
37 4 0.07
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (35 bp):
TACTGAATAACTGATTGTTATTGAATAATTGATGT
Found at i:74978361 original size:18 final size:18
Alignment explanation
Indices: 74978250--74978361 Score: 68
Period size: 18 Copynumber: 6.2 Consensus size: 18
74978240 TAAATAAAAG
* *
74978250 TACTGAATGACTGACTGT
1 TACTGAATAACTGAATGT
* *
74978268 TATTGAATAATTG-ATCGT
1 TACTGAATAACTGAAT-GT
*
74978286 TACTGAATAACTGATTGCT
1 TACTGAATAACTGAATG-T
* ** * *
74978305 T-TTGAGCAAATGATTGT
1 TACTGAATAACTGAATGT
*
74978322 TACTGAATAACT-AATTGC
1 TACTGAATAACTGAA-TGT
*
74978340 TACTGAATAATTGAATGT
1 TACTGAATAACTGAATGT
74978358 TACT
1 TACT
74978362 AAATGAAACT
Statistics
Matches: 69, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
17 4 0.06
18 60 0.87
19 5 0.07
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGAATGT
Found at i:74980232 original size:22 final size:22
Alignment explanation
Indices: 74980204--74980247 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
74980194 TCATGGAAGA
74980204 ATTGGAAAAAGATATATTTTAT
1 ATTGGAAAAAGATATATTTTAT
74980226 ATTGGAAAAAGATATATTTTAT
1 ATTGGAAAAAGATATATTTTAT
74980248 CTCCTAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (22 bp):
ATTGGAAAAAGATATATTTTAT
Found at i:74981117 original size:33 final size:33
Alignment explanation
Indices: 74981050--74981132 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
74981040 AACTTGAGCT
* * * *
74981050 GGGAGAAGTGGAGTACTGCGATGGATATAAGCC
1 GGGAGGAGTGGAGTACTGCAATAGATACAAGCC
**
74981083 GGGAGGAGTGGAGTACTGCAATAGATACGTGCC
1 GGGAGGAGTGGAGTACTGCAATAGATACAAGCC
* *
74981116 GGGAAGAGTGAAGTACT
1 GGGAGGAGTGGAGTACT
74981133 ATAGTGGATA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.30, C:0.12, G:0.40, T:0.18
Consensus pattern (33 bp):
GGGAGGAGTGGAGTACTGCAATAGATACAAGCC
Found at i:74984280 original size:43 final size:43
Alignment explanation
Indices: 74984230--74984380 Score: 169
Period size: 43 Copynumber: 3.5 Consensus size: 43
74984220 TATCCCAGAT
* * * *
74984230 ATGGTCTTACATGTTATCACATATCGATGCCACTTTCCTAAAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCTAGAC
* * ** *
74984273 AGGGTCTTACATGAAATCGTATAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCTAGAC
** * *
74984316 ATGGTCTTACACATAATCACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCTAGAC
74984359 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
74984381 CTTGGAAATC
Statistics
Matches: 86, Mismatches: 20, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
42 1 0.01
43 85 0.99
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCTAGAC
Found at i:74984573 original size:40 final size:41
Alignment explanation
Indices: 74984500--74984578 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 41
74984490 CATTCGTAGC
**
74984500 AATTCAATGATAATGAAACATATATAATTCAA-TTAAATTA
1 AATTCAATGATAATGAAACATATATAACACAATTTAAATTA
* *
74984540 AATTCAATGATAAAT-AAGCATTTATAACACAATTTAAAT
1 AATTCAATGAT-AATGAAACATATATAACACAATTTAAAT
74984579 ATGTTTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 24 0.73
41 9 0.27
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (41 bp):
AATTCAATGATAATGAAACATATATAACACAATTTAAATTA
Found at i:74984937 original size:19 final size:18
Alignment explanation
Indices: 74984913--74984959 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
74984903 CACATAATTT
74984913 CAAAATTCACAATTTAGT-C
1 CAAAATTCAC-ATTT-GTAC
* *
74984932 CAAAATTGACATTTTTAC
1 CAAAATTCACATTTGTAC
74984950 CAAAATTCAC
1 CAAAATTCAC
74984960 TTTACAAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 14 0.58
19 9 0.38
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (18 bp):
CAAAATTCACATTTGTAC
Found at i:74988658 original size:29 final size:29
Alignment explanation
Indices: 74988575--74988659 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
74988565 GAGGGTTTGA
* *
74988575 AAAAAATAA-TTTGTACAAGATGGGTTCTG
1 AAAAAATAATTTTG-ACGAGATGGATTCTG
* * * *
74988604 AAAAAATAGTTTTGAGGGGATAGATTCT-
1 AAAAAATAATTTTGACGAGATGGATTCTG
74988632 AACAAAATAATTTTGACGAGATGGATTC
1 AA-AAAATAATTTTGACGAGATGGATTC
74988660 AGTTTTGTAT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
28 2 0.05
29 38 0.86
30 4 0.09
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (29 bp):
AAAAAATAATTTTGACGAGATGGATTCTG
Found at i:74993641 original size:28 final size:28
Alignment explanation
Indices: 74993567--74993641 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
74993557 TCAAATATGG
* *
74993567 CACTTAGTGTGCAAAATATTGAGAACGG
1 CACTTAGTGTGCGAAATATTGAGAACGA
* *
74993595 CACTTAGTGTGCGAGATATTGAGAATGA
1 CACTTAGTGTGCGAAATATTGAGAACGA
* *
74993623 CATTTAGTGTGTGAAATAT
1 CACTTAGTGTGCGAAATAT
74993642 CGAATGGTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (28 bp):
CACTTAGTGTGCGAAATATTGAGAACGA
Found at i:75000369 original size:28 final size:28
Alignment explanation
Indices: 75000338--75000418 Score: 117
Period size: 28 Copynumber: 2.9 Consensus size: 28
75000328 CATCAAATAT
*
75000338 GGCACTTAGTGTGCGAAATATTGAGAAC
1 GGCACTTAGTGTGCGAAATATTGAAAAC
* * *
75000366 GGCATTTAGTGTGCGAGATATTGAAAAT
1 GGCACTTAGTGTGCGAAATATTGAAAAC
*
75000394 GGCACTTAGTGTGTGAAATATTGAA
1 GGCACTTAGTGTGCGAAATATTGAA
75000419 TGGTTCAGCG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.32, C:0.10, G:0.28, T:0.30
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAAATATTGAAAAC
Found at i:75000397 original size:56 final size:56
Alignment explanation
Indices: 75000311--75000417 Score: 162
Period size: 56 Copynumber: 1.9 Consensus size: 56
75000301 GCTATATCTA
75000311 GCATTTAGTGTGCAAGACATCAAATATGGCACTTAGTGTGCGAAATATTGAGAACG
1 GCATTTAGTGTGCAAGACATCAAATATGGCACTTAGTGTGCGAAATATTGAGAACG
* * * *
75000367 GCATTTAGTGTGCGAGATATTGAAA-ATGGCACTTAGTGTGTGAAATATTGA
1 GCATTTAGTGTGCAAGACA-TCAAATATGGCACTTAGTGTGCGAAATATTGA
75000418 ATGGTTCAGC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
56 42 0.91
57 4 0.09
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (56 bp):
GCATTTAGTGTGCAAGACATCAAATATGGCACTTAGTGTGCGAAATATTGAGAACG
Found at i:75000681 original size:37 final size:37
Alignment explanation
Indices: 75000631--75000704 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
75000621 ATGTTATGTG
75000631 AGATATGAACTATAGTTGCTTTAACTAAATATACATA
1 AGATATGAACTATAGTTGCTTTAACTAAATATACATA
75000668 AGATATGAACTATAGTTGCTTTAACTAAATATACATA
1 AGATATGAACTATAGTTGCTTTAACTAAATATACATA
75000705 TGGCAATTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (37 bp):
AGATATGAACTATAGTTGCTTTAACTAAATATACATA
Found at i:75006400 original size:35 final size:35
Alignment explanation
Indices: 75006322--75006402 Score: 110
Period size: 35 Copynumber: 2.3 Consensus size: 35
75006312 TGGCATTACG
75006322 GAGTGGCATCATGGCAATAGTCTACTGGCTCTATA
1 GAGTGGCATCATGGCAATAGTCTACTGGCTCTATA
* * * *
75006357 GAGCGGCATCATGGTAATGGTTTACTGGCTCTAT-
1 GAGTGGCATCATGGCAATAGTCTACTGGCTCTATA
75006391 GAAGTGGCATCA
1 G-AGTGGCATCA
75006403 CGAAGATGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 1 0.03
35 39 0.98
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (35 bp):
GAGTGGCATCATGGCAATAGTCTACTGGCTCTATA
Found at i:75006929 original size:28 final size:28
Alignment explanation
Indices: 75006885--75006961 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
75006875 AGAGAAAGAG
75006885 ATGTCCACCAA-AGACTATCTTATGCGGGA
1 ATGTCCACCAAGA-ACTATCTTATG-GGGA
* *
75006914 A-GTCCTCCAAGAACTATCTTATGTGGA
1 ATGTCCACCAAGAACTATCTTATGGGGA
*
75006941 ATGTCCACCAAGGACTATCTT
1 ATGTCCACCAAGAACTATCTT
75006962 GAAGACGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 4 0.10
28 36 0.86
29 2 0.05
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (28 bp):
ATGTCCACCAAGAACTATCTTATGGGGA
Found at i:75015609 original size:165 final size:165
Alignment explanation
Indices: 75015337--75015667 Score: 653
Period size: 165 Copynumber: 2.0 Consensus size: 165
75015327 TCAGCATATC
75015337 TTTTCGCTGAAAGCTGCTAGTTGAAACAATACTTTGTCCTTCAATGGACCCCTCTGTTGGTTAAG
1 TTTTCGCTGAAAGCTGCTAGTTGAAACAATACTTTGTCCTTCAATGGACCCCTCTGTTGGTTAAG
75015402 CATTCTAGTTTTTCTGTCGTATTGGTGTATCATTTCCTATGGGAATTAAACTGATGAAGCGATCT
66 CATTCTAGTTTTTCTGTCGTATTGGTGTATCATTTCCTATGGGAATTAAACTGATGAAGCGATCT
*
75015467 CGAATGATCATCTGAAGTGAGACTTGGCTTCTGAA
131 CAAATGATCATCTGAAGTGAGACTTGGCTTCTGAA
75015502 TTTTCGCTGAAAGCTGCTAGTTGAAACAATACTTTGTCCTTCAATGGACCCCTCTGTTGGTTAAG
1 TTTTCGCTGAAAGCTGCTAGTTGAAACAATACTTTGTCCTTCAATGGACCCCTCTGTTGGTTAAG
75015567 CATTCTAGTTTTTCTGTCGTATTGGTGTATCATTTCCTATGGGAATTAAACTGATGAAGCGATCT
66 CATTCTAGTTTTTCTGTCGTATTGGTGTATCATTTCCTATGGGAATTAAACTGATGAAGCGATCT
75015632 CAAATGATCATCTGAAGTGAGACTTGGCTTCTGAA
131 CAAATGATCATCTGAAGTGAGACTTGGCTTCTGAA
75015667 T
1 T
75015668 ATTTTACGTC
Statistics
Matches: 165, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
165 165 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (165 bp):
TTTTCGCTGAAAGCTGCTAGTTGAAACAATACTTTGTCCTTCAATGGACCCCTCTGTTGGTTAAG
CATTCTAGTTTTTCTGTCGTATTGGTGTATCATTTCCTATGGGAATTAAACTGATGAAGCGATCT
CAAATGATCATCTGAAGTGAGACTTGGCTTCTGAA
Found at i:75026125 original size:35 final size:33
Alignment explanation
Indices: 75026084--75026155 Score: 81
Period size: 35 Copynumber: 2.1 Consensus size: 33
75026074 TGGTGTTTGA
75026084 TTATGATAAATAAATAAATTGAAATTTTAAATTAT
1 TTATGATAAATAAATAAA-TGAAATTTT-AATTAT
* * * * *
75026119 TTATGATGAATGAATGAATGAGATTTTGATTAT
1 TTATGATAAATAAATAAATGAAATTTTAATTAT
75026152 TTAT
1 TTAT
75026156 AGTGAACTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 9 0.28
34 8 0.25
35 15 0.47
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.44
Consensus pattern (33 bp):
TTATGATAAATAAATAAATGAAATTTTAATTAT
Found at i:75027774 original size:22 final size:23
Alignment explanation
Indices: 75027732--75027774 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
75027722 TTTATTTTAT
*
75027732 TTTATTTTAATATAATTATTGGG
1 TTTATTTTAATATAATAATTGGG
*
75027755 TTTATTTT-ATTTAATAATTG
1 TTTATTTTAATATAATAATTG
75027775 AATGATGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (23 bp):
TTTATTTTAATATAATAATTGGG
Found at i:75035708 original size:29 final size:29
Alignment explanation
Indices: 75035645--75035710 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
75035635 TTATACTCTT
*
75035645 TTAA-TAA-TTTTTAATTTTTTAAAATAA
1 TTAATTAATTTTTTAAATTTTTAAAATAA
* *
75035672 ATATTTAATTTTTTAAAATTTTTAAAA-AA
1 TTAATTAATTTTTT-AAATTTTTAAAATAA
75035701 TTAATTAATT
1 TTAATTAATT
75035711 GTGACATGAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
27 2 0.06
28 3 0.10
29 15 0.48
30 11 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (29 bp):
TTAATTAATTTTTTAAATTTTTAAAATAA
Found at i:75042642 original size:8 final size:8
Alignment explanation
Indices: 75042629--75042658 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
75042619 ATATAATATA
75042629 AAAAATTC
1 AAAAATTC
75042637 AAAAATTC
1 AAAAATTC
75042645 AAAAATTC
1 AAAAATTC
75042653 AAAAAT
1 AAAAAT
75042659 GAGATACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAAATTC
Found at i:75053040 original size:21 final size:20
Alignment explanation
Indices: 75053012--75053051 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
75053002 AAAAAGATAA
75053012 AATCAAGTT-TATAAGACTTG
1 AATCAAGTTCT-TAAGACTTG
75053032 AATCTAAGTTCTTAAGACTT
1 AATC-AAGTTCTTAAGACTT
75053052 CCTATTAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 13 0.72
22 1 0.06
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (20 bp):
AATCAAGTTCTTAAGACTTG
Found at i:75054295 original size:30 final size:29
Alignment explanation
Indices: 75054237--75054294 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
75054227 AATTAAAATT
*
75054237 CCCAAAAAATAATAAAAATTTTAAAAAAA
1 CCCAAAAAATAATAAAAATTTAAAAAAAA
*
75054266 CCCAAAAAA-AACTTAAAATTTAAAAAAAA
1 CCCAAAAAATAA-TAAAAATTTAAAAAAAA
75054295 AACTAATCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (29 bp):
CCCAAAAAATAATAAAAATTTAAAAAAAA
Found at i:75054600 original size:21 final size:20
Alignment explanation
Indices: 75054576--75054621 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
75054566 AATTTCTTTA
*
75054576 AAAATATAAAAAAAAACACAT
1 AAAATACAAAAAAAAAC-CAT
* *
75054597 AAAATGCAATAAAAAACCAT
1 AAAATACAAAAAAAAACCAT
75054617 AAAAT
1 AAAAT
75054622 TTCCCAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.72, C:0.11, G:0.02, T:0.15
Consensus pattern (20 bp):
AAAATACAAAAAAAAACCAT
Found at i:75056189 original size:13 final size:13
Alignment explanation
Indices: 75056159--75056197 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
75056149 TTTACTCTTG
* *
75056159 ATTTTACAAAAAG
1 ATTTTACTAAAAT
*
75056172 GTTTTACTAAAAT
1 ATTTTACTAAAAT
75056185 ATTTTACTAAAAT
1 ATTTTACTAAAAT
75056198 TATGATTTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (13 bp):
ATTTTACTAAAAT
Found at i:75058305 original size:90 final size:90
Alignment explanation
Indices: 75058145--75058417 Score: 282
Period size: 90 Copynumber: 3.0 Consensus size: 90
75058135 AATTAATAAT
** * * * **
75058145 CTGCAAC-TCTGGTGGTTCATCCACAAATTATCTGGTAGCTTTTATATGCAAAAATGTTGTGCAT
1 CTGCAACAT-TGGTGGTTCATCCACCCATTTTTTGGCAGCTTTTATATGCAATTATGTTGTGCAT
** *
75058209 TTACAACCATCTGGTAGCGTATTGAC
65 CCACAACCATCTGGCAGCGTATTGAC
* *
75058235 CTGCAACATTGGTGGTTCATCCACCCATTTTTTGGCAGCTTTTATTTGCAATTATGTTGTGTATC
1 CTGCAACATTGGTGGTTCATCCACCCATTTTTTGGCAGCTTTTATATGCAATTATGTTGTGCATC
* * *
75058300 CACAACCATCTGGCAACATATTAAC
66 CACAACCATCTGGCAGCGTATTGAC
* * ** * * *
75058325 TTGCAACAATGGTGGTTCATCCACCCACATTTTGGTC-GCTCTCATCTGCAATTATGTTGTGCA-
1 CTGCAACATTGGTGGTTCATCCACCCATTTTTTGG-CAGCTTTTATATGCAATTATGTTGTGCAT
* *
75058388 CTCACAACCATTTGCCAGCGTATTGAC
65 C-CACAACCATCTGGCAGCGTATTGAC
75058415 CTG
1 CTG
75058418 TAACTTTTGT
Statistics
Matches: 151, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
89 1 0.01
90 148 0.98
91 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (90 bp):
CTGCAACATTGGTGGTTCATCCACCCATTTTTTGGCAGCTTTTATATGCAATTATGTTGTGCATC
CACAACCATCTGGCAGCGTATTGAC
Found at i:75059174 original size:21 final size:23
Alignment explanation
Indices: 75059130--75059174 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
75059120 CATGAGTTGT
* *
75059130 TTTTTTTCTAAAATTAGAATAAA
1 TTTTCTTCTAAAATTAGAACAAA
75059153 TTTTCTTCTAAAA-TA-AACAAA
1 TTTTCTTCTAAAATTAGAACAAA
75059174 T
1 T
75059175 GTTTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 2 0.10
23 12 0.60
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTTCTTCTAAAATTAGAACAAA
Found at i:75059691 original size:15 final size:15
Alignment explanation
Indices: 75059669--75059706 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
75059659 GGATATATTA
*
75059669 TTATATTAATTAATAT
1 TTATATTAA-AAATAT
75059685 TTA-ATTAAAAATAT
1 TTATATTAAAAATAT
75059699 TTATATTA
1 TTATATTA
75059707 TTATCACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 9 0.45
16 3 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATATTAAAAATAT
Found at i:75059920 original size:20 final size:20
Alignment explanation
Indices: 75059897--75059946 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
75059887 AAATCCAAAT
75059897 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
* *
75059917 TAAAATCCTGAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
75059937 TAAGAATACT
1 TAA-AATACT
75059947 GATGTGGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:75062468 original size:10 final size:10
Alignment explanation
Indices: 75062441--75062506 Score: 50
Period size: 10 Copynumber: 6.6 Consensus size: 10
75062431 AATTAAAAAG
75062441 ATAAAAATTTT
1 ATAAAAA-TTT
*
75062452 ATTAAAATTT
1 ATAAAAATTT
75062462 ATAAAAATGTT
1 ATAAAAAT-TT
*
75062473 -T-AATATTT
1 ATAAAAATTT
75062481 ATTAAAAGATTT
1 A-TAAAA-ATTT
75062493 AT-AAAA-TT
1 ATAAAAATTT
75062501 ATAAAA
1 ATAAAA
75062507 TCCATAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
8 6 0.13
9 8 0.18
10 15 0.33
11 11 0.24
12 5 0.11
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (10 bp):
ATAAAAATTT
Found at i:75062475 original size:19 final size:19
Alignment explanation
Indices: 75062453--75062506 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
75062443 AAAAATTTTA
75062453 TTAAAATTTATAAAA-ATGT
1 TTAAAATTTATAAAAGAT-T
*
75062472 TTAATATTTATTAAAAGATT
1 TTAAAATTTA-TAAAAGATT
75062492 TATAAAA-TTATAAAA
1 T-TAAAATTTATAAAA
75062507 TCCATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 14 0.47
20 10 0.33
21 6 0.20
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
TTAAAATTTATAAAAGATT
Found at i:75068180 original size:24 final size:26
Alignment explanation
Indices: 75068151--75068204 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
75068141 TAAGCATTAT
* *
75068151 ATAAAAAGT-TAAAATAGAT-AAT-A
1 ATAAAAAATGTAAAATAAATAAATAA
75068174 ATAAAAAATGTAAAATAAATAAATAA
1 ATAAAAAATGTAAAATAAATAAATAA
75068200 ATAAA
1 ATAAA
75068205 TAGAATGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 8 0.31
24 9 0.35
25 3 0.12
26 6 0.23
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (26 bp):
ATAAAAAATGTAAAATAAATAAATAA
Found at i:75068312 original size:23 final size:25
Alignment explanation
Indices: 75068254--75068342 Score: 82
Period size: 29 Copynumber: 3.6 Consensus size: 25
75068244 AAATAGTAAT
*
75068254 GAAA-ATAATATTAGTATATAAATA
1 GAAATATAATAATAGTATATAAATA
75068278 GAAATA-AA-AATA-TA-ATAAATA
1 GAAATATAATAATAGTATATAAATA
75068299 GAAATATAATAATAGTAGAAATATAAATA
1 GAAATATAATAATAGT----ATATAAATA
75068328 GATAA-ATAATAATAG
1 GA-AATATAATAATAG
75068343 CATTAGAATA
Statistics
Matches: 54, Mismatches: 1, Indels: 15
0.77 0.01 0.21
Matches are distributed among these distances:
21 13 0.24
22 4 0.07
23 7 0.13
24 7 0.13
25 1 0.02
28 1 0.02
29 19 0.35
30 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (25 bp):
GAAATATAATAATAGTATATAAATA
Found at i:75068319 original size:17 final size:15
Alignment explanation
Indices: 75068279--75068324 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
75068269 ATATAAATAG
*
75068279 AAATAAAAATATAAT
1 AAATAGAAATATAAT
75068294 AAATAGAAATATAAT
1 AAATAGAAATATAAT
75068309 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
75068325 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Done.