Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 183 of 410
Found at i:55866559 original size:13 final size:13
Alignment explanation
Indices: 55866523--55866572 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
55866513 CAGTCTCGAA
55866523 CACGGGTGTGTGC
1 CACGGGTGTGTGC
* * *
55866536 CGCAGGAGTGTGC
1 CACGGGTGTGTGC
55866549 CACGGGTGTGTGC
1 CACGGGTGTGTGC
* *
55866562 TACGGGCGTGT
1 CACGGGTGTGT
55866573 CCCTACTGAG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.10, C:0.22, G:0.46, T:0.22
Consensus pattern (13 bp):
CACGGGTGTGTGC
Found at i:55870848 original size:47 final size:50
Alignment explanation
Indices: 55870771--55870997 Score: 268
Period size: 46 Copynumber: 4.8 Consensus size: 50
55870761 TGTAACCCGC
*
55870771 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
* *
55870821 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
*
55870864 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
* * *
55870914 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
*
55870957 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC
55870998 CAAATATCCC
Statistics
Matches: 151, Mismatches: 13, Indels: 29
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.01
43 7 0.05
44 3 0.02
45 5 0.03
46 61 0.40
47 59 0.39
48 5 0.03
49 3 0.02
50 4 0.03
51 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (50 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
Found at i:55870885 original size:93 final size:93
Alignment explanation
Indices: 55870771--55870997 Score: 427
Period size: 93 Copynumber: 2.4 Consensus size: 93
55870761 TGTAACCCGC
55870771 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGAC
* *
55870836 TCAACTCAACGAGTTCGGGCATTCGCAT
66 TCAACTCAACGAGTTCGGACACTCGCAT
55870864 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGAC
*
55870929 TCAACTCAACGAGTTCGGACGCTCGCAT
66 TCAACTCAACGAGTTCGGACACTCGCAT
55870957 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
55870998 CAAATATCCC
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 131 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGAC
TCAACTCAACGAGTTCGGACACTCGCAT
Found at i:55872896 original size:40 final size:40
Alignment explanation
Indices: 55872773--55872900 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 40
55872763 AAATTGAATG
* * ** * **
55872773 ATATCCGGGCTAAGCCCCGAAGACAATTACGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* **
55872813 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
55872853 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-GTGATT
55872893 ATATCCGG
1 ATATCCGG
55872901 TTATATTCCG
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:55876015 original size:30 final size:30
Alignment explanation
Indices: 55875971--55876059 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
55875961 CAAAGATAAC
55875971 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
55876000 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
55876030 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
55876060 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:55876019 original size:15 final size:15
Alignment explanation
Indices: 55875971--55876050 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
55875961 CAAAGATAAC
*
55875971 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
55875985 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
55876000 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
55876015 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
55876030 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
55876045 AAGAAA
1 AAGAAA
55876051 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:55876059 original size:15 final size:15
Alignment explanation
Indices: 55875982--55876059 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
55875972 AGAAAACCGA
55875982 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
55875997 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
55876011 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
55876026 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
55876042 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
55876057 ATA
1 ATA
55876060 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:55879100 original size:46 final size:46
Alignment explanation
Indices: 55879043--55879210 Score: 209
Period size: 46 Copynumber: 3.6 Consensus size: 46
55879033 ATGCACTCAC
55879043 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
* * * *
55879089 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
**
55879136 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
55879182 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
55879211 TGCCCAAATA
Statistics
Matches: 103, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 2 0.02
45 2 0.02
46 57 0.55
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
Found at i:55879172 original size:93 final size:93
Alignment explanation
Indices: 55879038--55879214 Score: 327
Period size: 93 Copynumber: 1.9 Consensus size: 93
55879028 GTCGGATGCA
*
55879038 CTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAA
1 CTCACGAACTCGGACTCAACTCAACGAGTTCGGACACTCGCATCCATAAGTGAACTCAGACTCAA
55879103 CTCAACGAGTTCGGATGCCTAGTTACAT
66 CTCAACGAGTTCGGATGCCTAGTTACAT
* *
55879131 CTCACGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAA
1 CTCACGAACTCGGACTCAACTCAACGAGTTCGGACACTCGCATCCATAAGTGAACTCAGACTCAA
55879196 CTCAACGAGTTCGGATGCC
66 CTCAACGAGTTCGGATGCC
55879215 CAAATATCCC
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 81 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.21
Consensus pattern (93 bp):
CTCACGAACTCGGACTCAACTCAACGAGTTCGGACACTCGCATCCATAAGTGAACTCAGACTCAA
CTCAACGAGTTCGGATGCCTAGTTACAT
Found at i:55880895 original size:33 final size:32
Alignment explanation
Indices: 55880846--55880909 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
55880836 CTCGTTGCAA
* *
55880846 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
55880879 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
55880910 GTGATTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:55888034 original size:27 final size:26
Alignment explanation
Indices: 55887978--55888037 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
55887968 ACATATATAT
* *
55887978 ATATCTGTTCTGGTGGCCTAGCCACG
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
55888004 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
55888031 ATATCTG
1 ATATCTG
55888038 GCAGCCTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:55891678 original size:28 final size:28
Alignment explanation
Indices: 55891632--55891700 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
55891622 TTTAAAACCC
*
55891632 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
55891659 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
55891687 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
55891701 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:55893107 original size:20 final size:20
Alignment explanation
Indices: 55893084--55893121 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55893074 CACATCCAAA
*
55893084 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
55893104 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
55893122 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:55899416 original size:27 final size:28
Alignment explanation
Indices: 55899386--55899448 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 28
55899376 TTTAAAACCC
55899386 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATATCGGTAATTTTGCTCTT
*
55899413 TA-GGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATATCGGTAATTTTGCTCTT
55899440 TA-GGGTAAT
1 TAGGGGTAAT
55899449 TTCGTGATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.21, C:0.10, G:0.25, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATATCGGTAATTTTGCTCTT
Found at i:55899449 original size:27 final size:27
Alignment explanation
Indices: 55899396--55899452 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
55899386 TAGGGGTATA
55899396 TCGGTAATTTTGCTCTTTAGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGTAATT
55899423 TCGGTAATTTTGCTCTTTAGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGTAATT
55899450 TCG
1 TCG
55899453 TGATCTACGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.18, C:0.12, G:0.23, T:0.47
Consensus pattern (27 bp):
TCGGTAATTTTGCTCTTTAGGGTAATT
Found at i:55902771 original size:28 final size:28
Alignment explanation
Indices: 55902706--55902806 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
55902696 ATAGTGAATC
*
55902706 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
55902735 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
55902763 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
55902793 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55902807 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55910705 original size:28 final size:28
Alignment explanation
Indices: 55910640--55910740 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
55910630 ATAGTGAATC
*
55910640 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
55910669 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
55910697 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
55910727 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55910741 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55912777 original size:6 final size:6
Alignment explanation
Indices: 55912768--55912877 Score: 73
Period size: 6 Copynumber: 17.8 Consensus size: 6
55912758 ATAAAAAATG
* * *
55912768 AGAATC AGAATC AAAATC AG-GTGAC AGAATC AGAATC AAAATC AGAATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
* * * *
55912817 AGAATT AGGTGAT- AGAATT AGAATC AGAATC AGTATC AGGTAA-C AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
55912867 AAAATC AGAAT
1 AGAATC AGAAT
55912878 GTGAATGCAA
Statistics
Matches: 81, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
5 5 0.06
6 64 0.79
7 8 0.10
8 4 0.05
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:55912834 original size:31 final size:31
Alignment explanation
Indices: 55912798--55912877 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
55912788 GTGACAGAAT
* *
55912798 CAGAATCAAAATCAGAATCAGAATTAGGTGA
1 CAGAATCAAAATCAGAATCAGAATCAGGTAA
* * * *
55912829 TAGAATTAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGAATCAGGTAA
55912860 CAGAATCAAAATCAGAAT
1 CAGAATCAAAATCAGAAT
55912878 GTGAATGCAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.21
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGAATCAGGTAA
Found at i:55912855 original size:37 final size:37
Alignment explanation
Indices: 55912768--55912855 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
55912758 ATAAAAAATG
*
55912768 AGAATCAGAATCAAAATCAGGTGACAGAATCAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATCAGAATC
* * * *
55912805 AAAATCAGAATCAGAATTAGGTGATAGAATTAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATCAGAATC
*
55912842 AGAATCAGTATCAG
1 AGAATCAGAATCAG
55912856 GTAACAGAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATCAGAATC
Found at i:55912877 original size:37 final size:36
Alignment explanation
Indices: 55912762--55912877 Score: 107
Period size: 37 Copynumber: 3.3 Consensus size: 36
55912752 ACTAGAATAA
* *
55912762 AAAATGAGAATCAGAATCAAAATCAGGTGACAGAATC
1 AAAATCAGAATCAGAATCAGAATCAGGT-ACAGAATC
* * *
55912799 AGAATCAAAATCAGAATCAGAATTAGGT---G-AT-
1 AAAATCAGAATCAGAATCAGAATCAGGTACAGAATC
* * *
55912830 AGAATTAGAATCAGAATCAGTATCAGGTAACAGAATC
1 AAAATCAGAATCAGAATCAGAATCAGGT-ACAGAATC
55912867 AAAATCAGAAT
1 AAAATCAGAAT
55912878 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
31 24 0.39
32 2 0.03
33 1 0.02
35 1 0.02
36 2 0.03
37 32 0.52
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (36 bp):
AAAATCAGAATCAGAATCAGAATCAGGTACAGAATC
Found at i:55913044 original size:27 final size:26
Alignment explanation
Indices: 55912996--55913055 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
55912986 GCGAGGCTGC
*
55912996 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGACACCAGA-A
* * *
55913023 CAGATATTGTGGCTAGGACACCAGAA
1 CAGATATTGTGACGAAGACACCAGAA
55913049 CAGATAT
1 CAGATAT
55913056 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGACACCAGAA
Found at i:55913144 original size:27 final size:26
Alignment explanation
Indices: 55913096--55913147 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
55913086 GCGAGGCTGC
*
55913096 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
55913122 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
55913148 TTGCAGCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:55913369 original size:27 final size:27
Alignment explanation
Indices: 55913339--55913585 Score: 302
Period size: 27 Copynumber: 9.2 Consensus size: 27
55913329 AATACCCTAG
* * *
55913339 GGGTAAAATGGTAATTTTATAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
55913366 GGGTAAAA-AGGTAATTCTGTAAATCGA
1 GGGTAAAATA-GTAATTTTGTAAATCGA
* * *
55913393 AGGTAAAATAGTAATTTTGCAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
55913420 GGGTAAAA-AGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
55913446 GGGTAAAATAGTAATTCTGTCAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
55913473 GGGTAAAA-CGATAATTTTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
*
55913500 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
55913527 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
** * *
55913554 GGGTAAACCAGTAATTCTGTAATTCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
55913581 GGGTA
1 GGGTA
55913586 CTTTGATAAT
Statistics
Matches: 190, Mismatches: 25, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
26 25 0.13
27 163 0.86
28 2 0.01
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:55913545 original size:81 final size:82
Alignment explanation
Indices: 55913342--55913582 Score: 328
Period size: 80 Copynumber: 3.0 Consensus size: 82
55913332 ACCCTAGGGG
* * * * * *
55913342 TAAAATGGTAATTTTATAAATTGAGGGTAAAAAGGTAATTCTGTAAATCGAAGGTAAAA-TAGTA
1 TAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACCAGTA
* * *
55913406 ATTTTGCAAATCAAGGG
66 ATTTTGTAAATCGAGGA
* * *
55913423 TAAAA-AGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTCAATCGAGGGTAAAACGA-TA
1 TAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACCAGTA
55913486 ATTTTGTAAATCGAGGA
66 ATTTTGTAAATCGAGGA
55913503 TAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGT-AAACCAGTA
1 TAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACCAGTA
* *
55913567 ATTCTGTAATTCGAGG
66 ATTTTGTAAATCGAGG
55913583 GTACTTTGAT
Statistics
Matches: 141, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
80 72 0.51
81 69 0.49
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (82 bp):
TAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACCAGTA
ATTTTGTAAATCGAGGA
Found at i:55913662 original size:81 final size:79
Alignment explanation
Indices: 55913577--55913731 Score: 184
Period size: 81 Copynumber: 1.9 Consensus size: 79
55913567 ATTCTGTAAT
* * *** * *
55913577 TCGAGGGTACTTTGATAATTTTACATGTCGACGGTATTTTAATAATTTTGCAAACTGAGGGTATT
1 TCGAGGATACTTGGATAATTTTACAAACCGACGGTACTTTAATAATTTTAC-AACTG-GGGTATT
55913642 TCAGAAATTTTACAAA
64 TCAGAAATTTTACAAA
* * **
55913658 TCGAGGATACTTGGGTAATTTTATAAACCGACGGTACTTTGGTAATTTTACAACTGGGGTATTTC
1 TCGAGGATACTTGGATAATTTTACAAACCGACGGTACTTTAATAATTTTACAACTGGGGTATTTC
*
55913723 AGTAATTTT
66 AGAAATTTT
55913732 GTAAACTAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
79 17 0.27
80 5 0.08
81 40 0.65
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.39
Consensus pattern (79 bp):
TCGAGGATACTTGGATAATTTTACAAACCGACGGTACTTTAATAATTTTACAACTGGGGTATTTC
AGAAATTTTACAAA
Found at i:55913663 original size:27 final size:27
Alignment explanation
Indices: 55913577--55913731 Score: 83
Period size: 27 Copynumber: 5.8 Consensus size: 27
55913567 ATTCTGTAAT
**
55913577 TCGAGGGTACTTT-GATAATTTTACATG
1 TCGAGGGTA-TTTAGATAATTTTACAAA
* *
55913604 TCGACGGTATTTTA-ATAATTTTGCAAA
1 TCGAGGGTA-TTTAGATAATTTTACAAA
55913631 -CTGAGGGTATTTCAGA-AATTTTACAAA
1 TC-GAGGGTATTT-AGATAATTTTACAAA
* * * * *
55913658 TCGAGGATACTTGGGTAATTTTATAAA
1 TCGAGGGTATTTAGATAATTTTACAAA
* * * *
55913685 CCGACGGTACTTT-GGTAATTTTACAAC
1 TCGAGGGTA-TTTAGATAATTTTACAAA
55913712 T-G-GGGTATTTCAG-TAATTTT
1 TCGAGGGTATTT-AGATAATTTT
55913732 GTAAACTAAA
Statistics
Matches: 99, Mismatches: 20, Indels: 20
0.71 0.14 0.14
Matches are distributed among these distances:
24 3 0.03
25 11 0.11
26 7 0.07
27 74 0.75
28 4 0.04
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.39
Consensus pattern (27 bp):
TCGAGGGTATTTAGATAATTTTACAAA
Found at i:55913921 original size:17 final size:17
Alignment explanation
Indices: 55913901--55913934 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55913891 AACTTATCCA
*
55913901 ATTGGGCCCGTAGGCCC
1 ATTGGGCACGTAGGCCC
55913918 ATTGGGCACGTAGGCCC
1 ATTGGGCACGTAGGCCC
55913935 CTTTCAGCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.32, G:0.35, T:0.18
Consensus pattern (17 bp):
ATTGGGCACGTAGGCCC
Found at i:55925983 original size:93 final size:93
Alignment explanation
Indices: 55925824--55925994 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
55925814 GGATGGCTGA
* ***
55925824 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCATTGAGCTGAGTCCGAGTTCACTTATGGATGCGAACACCCAAACTCGTTGAGT
55925889 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * **
55925917 GCATCCGAGCTCATTGAGCTGAGTTCGAGTTCACTTATGGATGCGAACACCCGAGA-TTTTTGAG
1 GCATCCGAACTCATTGAGCTGAGTCCGAGTTCACTTATGGATGCGAACACCC-AAACTCGTTGAG
55925981 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
55925995 ACTTATGGGC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
93 66 0.97
94 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGCTGAGTCCGAGTTCACTTATGGATGCGAACACCCAAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:55935914 original size:23 final size:23
Alignment explanation
Indices: 55935894--55935940 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
55935884 CATTCTATTG
*
55935894 TCATACCCATGTTATTACTATGC
1 TCATACCCATGCTATTACTATGC
* *
55935917 TCATTCCCATGCTATTACCATGC
1 TCATACCCATGCTATTACTATGC
55935940 T
1 T
55935941 AATGTCACGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.38
Consensus pattern (23 bp):
TCATACCCATGCTATTACTATGC
Found at i:55937316 original size:19 final size:20
Alignment explanation
Indices: 55937289--55937330 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
55937279 TGATGTTTAA
55937289 TTTTATTTTATCTTTATT-TT
1 TTTTATTTTAT-TTTATTGTT
*
55937309 TTTTTTTTTATTTTA-TGTT
1 TTTTATTTTATTTTATTGTT
55937328 TTT
1 TTT
55937331 ATTAATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 9 0.45
20 10 0.50
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (20 bp):
TTTTATTTTATTTTATTGTT
Found at i:55938822 original size:23 final size:23
Alignment explanation
Indices: 55938796--55938839 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
55938786 CACATACTTT
55938796 CAAGTAATGACAGACATCGACTG
1 CAAGTAATGACAGACATCGACTG
55938819 CAAGTAATGACAGACATCGAC
1 CAAGTAATGACAGACATCGAC
55938840 CAAATAGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (23 bp):
CAAGTAATGACAGACATCGACTG
Found at i:55939146 original size:38 final size:38
Alignment explanation
Indices: 55939084--55939223 Score: 199
Period size: 38 Copynumber: 3.6 Consensus size: 38
55939074 CAACACAAAA
* * *
55939084 CCTGCGGGACTTTAAGCTCGGATATAATACCAGCACTAGG
1 CCTGCGGGA-TTTAA-CCCGGATATAATACCAGCACGAAG
*
55939124 CCTGTGGGATTTAACCCGGATATAATACCAGCACGAAG
1 CCTGCGGGATTTAACCCGGATATAATACCAGCACGAAG
* *
55939162 CCTGAGGGATTTAACCCAGATATAATACCAGCACGAAG
1 CCTGCGGGATTTAACCCGGATATAATACCAGCACGAAG
*
55939200 CCTACGGGATTTAACCCGGATATA
1 CCTGCGGGATTTAACCCGGATATA
55939224 TTTCTAGCAT
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 78 0.86
39 5 0.05
40 8 0.09
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.21
Consensus pattern (38 bp):
CCTGCGGGATTTAACCCGGATATAATACCAGCACGAAG
Found at i:55942281 original size:13 final size:13
Alignment explanation
Indices: 55942260--55942299 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
55942250 GAAGTAATCA
*
55942260 CACACGGGCATGT
1 CACACGGGCGTGT
*
55942273 CACAGGGGCGTGT
1 CACACGGGCGTGT
55942286 CACACGGGCGTGT
1 CACACGGGCGTGT
55942299 C
1 C
55942300 CCTGCCGAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.17, C:0.30, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:55948144 original size:45 final size:44
Alignment explanation
Indices: 55948064--55948297 Score: 336
Period size: 43 Copynumber: 5.3 Consensus size: 44
55948054 ATTTTGTCTT
* *
55948064 CTAGGCTCGAA-GCCTGATATCATTTCACCGACATTATAGCCTG
1 CTAGGCTCAAAGGCCTGATATCATTTCACCGGCATTATAGCCTG
55948107 CTAGGCTCAAAGGCCTGA-A-CAGTATGTCACCGGCATTATAGCCTG
1 CTAGGCTCAAAGGCCTGATATCA-T-T-TCACCGGCATTATAGCCTG
* *
55948152 CTAGGCTCAAAGGCCCGAATAGT-ATCTCACCGGCATTATAGCCTG
1 CTAGGCTCAAAGGCCTG-ATA-TCATTTCACCGGCATTATAGCCTG
55948197 CTAGGCT-AAAGGCCTGATATCATTTCACCGGCATTATAGCCTG
1 CTAGGCTCAAAGGCCTGATATCATTTCACCGGCATTATAGCCTG
*
55948240 CTAGGCTCAAAGGCCTGATATCATTTCACC-GCATTATAGCCTA
1 CTAGGCTCAAAGGCCTGATATCATTTCACCGGCATTATAGCCTG
55948283 CTAGGCTCAAAGGCC
1 CTAGGCTCAAAGGCC
55948298 CGATTAGTAC
Statistics
Matches: 174, Mismatches: 7, Indels: 20
0.87 0.03 0.10
Matches are distributed among these distances:
42 3 0.02
43 70 0.40
44 37 0.21
45 60 0.34
46 1 0.01
47 2 0.01
48 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (44 bp):
CTAGGCTCAAAGGCCTGATATCATTTCACCGGCATTATAGCCTG
Found at i:55948237 original size:88 final size:89
Alignment explanation
Indices: 55948064--55948297 Score: 320
Period size: 88 Copynumber: 2.7 Consensus size: 89
55948054 ATTTTGTCTT
* * * *
55948064 CTAGGCTCGAA-GCCTGATATCATTTCACCGACATTATAGCCTGCTAGGCTCAAAGGCCTGAACA
1 CTAGGCTCAAAGGCCCGATATCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAACA
55948128 GTATGTCACCGGCATTATAGCCTG
66 GTATGTCACCGGCATTATAGCCTG
55948152 CTAGGCTCAAAGGCCCGAATAGT-ATCTCACCGGCATTATAGCCTGCTAGGCT-AAAGGCCTGAT
1 CTAGGCTCAAAGGCCCG-ATA-TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGA-
55948215 ATCA-T-T-TCACCGGCATTATAGCCTG
63 A-CAGTATGTCACCGGCATTATAGCCTG
* * *
55948240 CTAGGCTCAAAGGCCTGATATCATTTCACC-GCATTATAGCCTACTAGGCTCAAAGGCC
1 CTAGGCTCAAAGGCCCGATATCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCC
55948298 CGATTAGTAC
Statistics
Matches: 132, Mismatches: 7, Indels: 15
0.86 0.05 0.10
Matches are distributed among these distances:
86 20 0.15
87 17 0.13
88 45 0.34
89 15 0.11
90 32 0.24
91 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (89 bp):
CTAGGCTCAAAGGCCCGATATCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAACA
GTATGTCACCGGCATTATAGCCTG
Found at i:55959683 original size:18 final size:20
Alignment explanation
Indices: 55959632--55959685 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
55959622 TCTCATGGGT
**
55959632 TTGGGCCGTTCTGGGCCATG
1 TTGGGCCGTAATGGGCCATG
*
55959652 TTGGGCCGTAATGGGCCGTG
1 TTGGGCCGTAATGGGCCATG
55959672 -TGGGCC-TAATGGGC
1 TTGGGCCGTAATGGGC
55959686 TTATAGGCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 8 0.26
19 6 0.19
20 17 0.55
ACGTcount: A:0.09, C:0.22, G:0.43, T:0.26
Consensus pattern (20 bp):
TTGGGCCGTAATGGGCCATG
Found at i:55963116 original size:22 final size:19
Alignment explanation
Indices: 55963091--55963132 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
55963081 TGATAAGTAT
55963091 TAATATATAATTATATTCATTA
1 TAATATAT-ATTA-ATT-ATTA
55963113 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
55963132 T
1 T
55963133 CAACTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:55963121 original size:16 final size:15
Alignment explanation
Indices: 55963088--55963129 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
55963078 GGATGATAAG
55963088 TATTAATATATAATTA
1 TATTAAT-TATAATTA
*
55963104 TATTCATTATAATATA
1 TATTAATTATAAT-TA
55963120 TATTAATTAT
1 TATTAATTAT
55963130 TATCAACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:55969019 original size:80 final size:80
Alignment explanation
Indices: 55968935--55969083 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
55968925 TATGGTAACC
* * * *
55968935 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
55968999 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
55969015 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
55969080 CCGG
66 CCGG
55969084 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:55969025 original size:40 final size:38
Alignment explanation
Indices: 55968976--55969083 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
55968966 ATCACGATTT
*
55968976 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
55969016 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
55969056 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
55969084 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:55978672 original size:30 final size:30
Alignment explanation
Indices: 55978638--55978703 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
55978628 TCACTTGGTT
*
55978638 GTGTGAGTCACATGGCCT-GGGCATACGGCC
1 GTGTGAGTCACATGG-CTGGGGCACACGGCC
55978668 GTGTGAGTCACATGGCTGGGGCACACGGCC
1 GTGTGAGTCACATGGCTGGGGCACACGGCC
55978698 GTGTGA
1 GTGTGA
55978704 CCCCTGCAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 2 0.06
30 32 0.94
ACGTcount: A:0.17, C:0.24, G:0.39, T:0.20
Consensus pattern (30 bp):
GTGTGAGTCACATGGCTGGGGCACACGGCC
Found at i:55979564 original size:27 final size:27
Alignment explanation
Indices: 55979525--55980003 Score: 527
Period size: 27 Copynumber: 17.9 Consensus size: 27
55979515 AAGGGGTCTA
* *
55979525 ACGATTTTACCTTTATGTGATAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
* *
55979552 ACGATTTT-CCCTTTATCTGATAAAATT
1 ACGATTTTGCCC-TTATGTGATAAAATG
* *
55979579 ATGATTTTGCCCATATGTGATAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
* * *
55979606 ACGATTTTACCCTTATGCGATACAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
* *
55979633 ACGATTCTGCCCTTATATGATAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
* *
55979660 ATGATTTTGCTCTTATGTGATAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
* * *
55979687 ATGATTTTACCCTTA--TGACAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
* * * *
55979712 ATGATTTTACACTTATGTGATAAAATA
1 ACGATTTTGCCCTTATGTGATAAAATG
*
55979739 ACGATTTTGCCCTTATATGATAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
** *
55979766 AAAATTTTACCCTTATGTGATAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
55979793 ACGATTTTGCCCTTATGTGATAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
* * *
55979820 AGGATTTTGCTCTTATGTGATTAAAA-A
1 ACGATTTTGCCCTTATGTGA-TAAAATG
55979847 ACGATTTTGCCCTTATGTGATAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
* *
55979874 ACGATTTTGCCCTTAGGCGATAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
** * * *
55979901 ATAATTTTCCCCTTATGCGACAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
* * *
55979928 ACGA-TTTCCCCTTAAGCGATAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
* * * *
55979954 ACAATTTTACCATTATGTGATAAATTG
1 ACGATTTTGCCCTTATGTGATAAAATG
*
55979981 ACGATTTTGCCCTCATGTGATAA
1 ACGATTTTGCCCTTATGTGATAA
55980004 CCCTTATGTG
Statistics
Matches: 379, Mismatches: 66, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
25 23 0.06
26 30 0.08
27 318 0.84
28 8 0.02
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (27 bp):
ACGATTTTGCCCTTATGTGATAAAATG
Found at i:55980024 original size:41 final size:41
Alignment explanation
Indices: 55979966--55980043 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
55979956 AATTTTACCA
*
55979966 TTATGTGATAAATTGACGATTTTGCCCTCATGTGATAACCC
1 TTATGTGATAAATTGACGATTTTACCCTCATGTGATAACCC
* *
55980007 TTATGTGATAGAA-TGACGATTTTACCTTTATGTGATA
1 TTATGTGATA-AATTGACGATTTTACCCTCATGTGATA
55980044 GAATAACAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 31 0.94
42 2 0.06
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (41 bp):
TTATGTGATAAATTGACGATTTTACCCTCATGTGATAACCC
Found at i:55980029 original size:68 final size:68
Alignment explanation
Indices: 55979936--55980071 Score: 175
Period size: 68 Copynumber: 2.0 Consensus size: 68
55979926 TGACGATTTC
* *
55979936 CCCTTAAGCGATAAAATGACAATTTTACCATTATGTGATA-AATTGACGATTTTGCCCTCATGTG
1 CCCTTAAGCGATAAAATGACAATTTTACCATTATGTGATAGAA-TAACAATTTTGCCCTCATGTG
55980000 ATAA
65 ATAA
* * * * * * *
55980004 CCCTTATGTGATAGAATGACGATTTTACCTTTATGTGATAGAATAACAATTTTTCCCTTATGTGA
1 CCCTTAAGCGATAAAATGACAATTTTACCATTATGTGATAGAATAACAATTTTGCCCTCATGTGA
55980069 TAA
66 TAA
55980072 AATGACGATT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
68 56 0.97
69 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (68 bp):
CCCTTAAGCGATAAAATGACAATTTTACCATTATGTGATAGAATAACAATTTTGCCCTCATGTGA
TAA
Found at i:55980042 original size:27 final size:27
Alignment explanation
Indices: 55980004--55980239 Score: 312
Period size: 27 Copynumber: 8.7 Consensus size: 27
55979994 CATGTGATAA
* *
55980004 CCCTTATGTGATAGAATGACGATTTTA
1 CCCTTATGTGATAAAATGACGATTTTT
* * * *
55980031 CCTTTATGTGATAGAATAACAATTTTT
1 CCCTTATGTGATAAAATGACGATTTTT
*
55980058 CCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTT
* * * *
55980085 CCTTTATGTGATAAAATGAAGAGTTTA
1 CCCTTATGTGATAAAATGACGATTTTT
*
55980112 CCCTTATATGATAAAATGACGATTTTT
1 CCCTTATGTGATAAAATGACGATTTTT
*
55980139 CCCTTATGTGATAAAATGACAATTTTT
1 CCCTTATGTGATAAAATGACGATTTTT
* *
55980166 CCCTTATGTGATAAAATCACGATTTTA
1 CCCTTATGTGATAAAATGACGATTTTT
55980193 CCCTTATGTGATAAAATGAC-ATTTTTT
1 CCCTTATGTGATAAAATGACGA-TTTTT
*
55980220 CCCTTATGTGATCAAATGAC
1 CCCTTATGTGATAAAATGAC
55980240 CTTAAGACCC
Statistics
Matches: 182, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 1 0.01
27 181 0.99
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACGATTTTT
Found at i:55980262 original size:54 final size:54
Alignment explanation
Indices: 55980004--55980266 Score: 210
Period size: 54 Copynumber: 4.9 Consensus size: 54
55979994 CATGTGATAA
* * ** * * * *
55980004 CCCTTATGTGATAGAATGACGATTTTACCTTTATGTGATAGAATAACAATTTTT
1 CCCTTATGTGATAAAATCACGATTAGACCCTCATGTGATAAAATGACAATTTTT
* * * * * *
55980058 CCCTTATGTGATAAAATGACGATTTTG-CCTTTATGTGATAAAATGA-AGAGTTTA
1 CCCTTATGTGATAAAATCACGA-TTAGACCCTCATGTGATAAAATGACA-ATTTTT
* * *** *
55980112 CCCTTATATGATAAAATGACGATTTTTCCCTTATGTGATAAAATGACAATTTTT
1 CCCTTATGTGATAAAATCACGATTAGACCCTCATGTGATAAAATGACAATTTTT
** * *
55980166 CCCTTATGTGATAAAATCACGATTTTACCCTTATGTGATAAAATGACATTTTTT
1 CCCTTATGTGATAAAATCACGATTAGACCCTCATGTGATAAAATGACAATTTTT
* * * *
55980220 CCCTTATGTGATCAAATGAC-CTTAAGACCCTCATAG-GGTAAAATGAC
1 CCCTTATGTGATAAAATCACGATT-AGACCCTCAT-GTGATAAAATGAC
55980267 TGAAATACTC
Statistics
Matches: 181, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
53 6 0.03
54 170 0.94
55 5 0.03
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (54 bp):
CCCTTATGTGATAAAATCACGATTAGACCCTCATGTGATAAAATGACAATTTTT
Found at i:55980279 original size:27 final size:27
Alignment explanation
Indices: 55980249--55980301 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
55980239 CCTTAAGACC
*
55980249 CTCATAGGGTAAAATGACTGAAATACT
1 CTCATAGGGTAAAATGACCGAAATACT
* *
55980276 CTCATATGGTAAAATTACCGAAATAC
1 CTCATAGGGTAAAATGACCGAAATAC
55980302 CCCTAAGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (27 bp):
CTCATAGGGTAAAATGACCGAAATACT
Found at i:55982577 original size:27 final size:27
Alignment explanation
Indices: 55982363--55982577 Score: 240
Period size: 27 Copynumber: 8.1 Consensus size: 27
55982353 AGGGGGTCTA
* *
55982363 ACGATTTTACCCTTACGTGATAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
* * * * *
55982390 ACAATTTTGCTCGTATGCGATAATATG
1 ACGATTTTGCCCTTATGTGATAAAATG
* *
55982417 ATGA-TTTCCCCTTATGTGATAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
*
55982443 ACGATTTTGCCCTTTTGTGATAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
* *
55982470 GC-ATTTTACCCTTATGTGATAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
* * * *
55982496 ACAATTTTACCCTTTTATGATAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
*
55982523 TCGATTTTGCCCTTA--TGATAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
*
55982548 ACGATTTTACCCTTATGTGATAAAATG
1 ACGATTTTGCCCTTATGTGATAAAATG
55982575 ACG
1 ACG
55982578 TATATGATAA
Statistics
Matches: 155, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
25 23 0.15
26 43 0.28
27 89 0.57
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (27 bp):
ACGATTTTGCCCTTATGTGATAAAATG
Found at i:55982608 original size:27 final size:27
Alignment explanation
Indices: 55982594--55983556 Score: 1084
Period size: 27 Copynumber: 35.9 Consensus size: 27
55982584 ATAAAATTTT
* ***
55982594 GATTTTACCCTTATATGATAAAATTTT
1 GATTTTACCCTTATGTGATAAAATGAC
* *
55982621 GATTTTACCTTTATGTGATAAAATGGC
1 GATTTTACCCTTATGTGATAAAATGAC
*
55982648 GATTTCACCCCTT-TGTGATAAAATGAC
1 GATTTTA-CCCTTATGTGATAAAATGAC
* *
55982675 AATTTTACCCTTTTGTGATAAAATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
* * *
55982702 AATTTTTCCCTTA--TGATAAAATCAC
1 GATTTTACCCTTATGTGATAAAATGAC
55982727 GATTTTACCCTTATGTGATAAAATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
* *
55982754 GATTTTTCCCTTATGTGATAACATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
* * *
55982781 AATTTTGCCCTTATGCGATAAAATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
* *
55982808 -AGTTTTGCCCTTATGCGATAAAATGAC
1 GA-TTTTACCCTTATGTGATAAAATGAC
* * *
55982835 AATTTTGCCCTTATGTGATAAAATGAT
1 GATTTTACCCTTATGTGATAAAATGAC
* * *
55982862 GATTTTCCCCTTATGTGGTAAAATGTC
1 GATTTTACCCTTATGTGATAAAATGAC
*
55982889 GATTTTGCCCTTA--TGATAAAATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
55982914 GATTTTACCCTTATGTGATAAAATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
* ***
55982941 GATTTTACCCTTATATGATAAAATTTT
1 GATTTTACCCTTATGTGATAAAATGAC
* *
55982968 GATTTTACCCTTATGTGATAACATGGC
1 GATTTTACCCTTATGTGATAAAATGAC
*
55982995 GATTTCACCCCTT-TGTGATAAAATGAC
1 GATTTTA-CCCTTATGTGATAAAATGAC
* *
55983022 AATTTTACCCTTTTGTGATAAAATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
* *
55983049 AATTTTTCCCTTA--TGATAAAATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
*
55983074 GATTTTACTCTTATGTGATAAAATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
* * *
55983101 AATTTTTCCCTTATGTGATAACATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
* * *
55983128 AATTTTGCCCTTATGCGATAAAATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
* * *
55983155 -AGTTTTGCCCTTATGCGATACAATGAC
1 GA-TTTTACCCTTATGTGATAAAATGAC
* * * *
55983182 AATTTTGCCCTTATGCGATAAAATGAT
1 GATTTTACCCTTATGTGATAAAATGAC
* *
55983209 GATTTTCCCCTTATGTGGTAAAATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
* * *
55983236 GATTTTGCCTTTATGTGATAAAATGAT
1 GATTTTACCCTTATGTGATAAAATGAC
** * *
55983263 GATTTTGTCCTTATGCGATAAAGTGAC
1 GATTTTACCCTTATGTGATAAAATGAC
* **
55983290 GATTTTCCCCTTATGCAATAAAATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
* * *
55983317 GATTTTCCCCTTATGCGATAAAATGAT
1 GATTTTACCCTTATGTGATAAAATGAC
* * *
55983344 GATTTTGCCCTTATATGATAAAATGAT
1 GATTTTACCCTTATGTGATAAAATGAC
**
55983371 GATTTTGTCCTTAT-TAGATAAAATGAC
1 GATTTTACCCTTATGT-GATAAAATGAC
* *
55983398 GATTTTATCCTTATGTGATAGAATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
55983425 GATTTTACCCTTATGTGATAAAATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
*
55983452 GATTTTACCCTTATGTGATAGAATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
* *
55983479 GATTTTGCCCTTATGTGATCAAATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
* *
55983506 GATTTTGCCCTTATGTGATAGAATGAC
1 GATTTTACCCTTATGTGATAAAATGAC
*
55983533 GATTTTGCCCTTATGTGATCAAAA
1 GATTTTACCCTTATGTGAT-AAAA
55983557 GCCCTAAATA
Statistics
Matches: 821, Mismatches: 98, Indels: 33
0.86 0.10 0.03
Matches are distributed among these distances:
25 66 0.08
26 13 0.02
27 727 0.89
28 15 0.02
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (27 bp):
GATTTTACCCTTATGTGATAAAATGAC
Found at i:55982635 original size:71 final size:69
Alignment explanation
Indices: 55982511--55982645 Score: 189
Period size: 71 Copynumber: 1.9 Consensus size: 69
55982501 TTTACCCTTT
*
55982511 TATGATAAAATGTCGATTTTGCCCTTATGATAAAATGACGATTTTACCCTTATGTGATAAAATGA
1 TATGATAAAATGTCGATTTTACCCTTATGATAAAATGACGATTTTACCCTTATGTGATAAAATGA
55982576 CGTA
66 CGTA
* * *** *
55982580 TATGATAAAATTTTGATTTTACCCTTATATGATAAAATTTTGATTTTACCTTTATGTGATAAAAT
1 TATGATAAAATGTCGATTTTACCC-T-TATGATAAAATGACGATTTTACCCTTATGTGATAAAAT
55982645 G
64 G
55982646 GCGATTTCAC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
69 21 0.37
70 1 0.02
71 35 0.61
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.41
Consensus pattern (69 bp):
TATGATAAAATGTCGATTTTACCCTTATGATAAAATGACGATTTTACCCTTATGTGATAAAATGA
CGTA
Found at i:55983669 original size:27 final size:27
Alignment explanation
Indices: 55983562--55983677 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
55983552 CAAAAGCCCT
*
55983562 AAATACCCTCACAGGGTAAAATGA-TCG
1 AAATACCCTCATAGGGTAAAATGACT-G
* * *
55983589 AAATGCCCTCATAGGGTAAAATTACCG
1 AAATACCCTCATAGGGTAAAATGACTG
* *
55983616 AAATACCCCCATAGGGTAGAATGACTG
1 AAATACCCTCATAGGGTAAAATGACTG
* *
55983643 AAATACCCTTATAGGGTAAAATAACTG
1 AAATACCCTCATAGGGTAAAATGACTG
*
55983670 TAATACCC
1 AAATACCC
55983678 CGGCAAGGTA
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (27 bp):
AAATACCCTCATAGGGTAAAATGACTG
Found at i:55984062 original size:18 final size:19
Alignment explanation
Indices: 55984035--55984084 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
55984025 TGTTTGCATT
55984035 CTGCACTGATTACTGG-TA
1 CTGCACTGATTACTGGTTA
* *
55984053 CTGCATTGATCA-TGGTTA
1 CTGCACTGATTACTGGTTA
55984071 CTGCACTGATTACT
1 CTGCACTGATTACT
55984085 ACCTCTTCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 22 0.85
19 1 0.04
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (19 bp):
CTGCACTGATTACTGGTTA
Found at i:55985648 original size:79 final size:80
Alignment explanation
Indices: 55985548--55985716 Score: 245
Period size: 79 Copynumber: 2.1 Consensus size: 80
55985538 GCTACTCATT
* *
55985548 CAAATGCCTTCGGGACATAGCCCG-ATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACATAGCCCGAAAT-TAGTAACTCGCACAAATACCTTC-GGATCTTAACCC
55985611 GGATTTAGTAACTCGCA
64 GGATTTAGTAACTCGCA
* * **
55985628 CCAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCACAAATACCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACATAGCCCGAAATTAGTAACTCGCACAAATACCTTCGGATCTTAACCCGG
55985692 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
55985707 CAAATGCCTT
1 CAAATGCCTT
55985717 TGGATCTTAG
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
78 3 0.04
79 62 0.77
80 15 0.19
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGAAATTAGTAACTCGCACAAATACCTTCGGATCTTAACCCGG
ATTTAGTAACTCGCA
Found at i:55985722 original size:40 final size:39
Alignment explanation
Indices: 55985548--55985772 Score: 238
Period size: 40 Copynumber: 5.6 Consensus size: 39
55985538 GCTACTCATT
*
55985548 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
*
55985588 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
55985628 CCAATGCCTTCGGGCTTAGCCCGAAATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* *
55985667 CAAATACCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
55985707 CAAATGCCTTTGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
* *
55985748 CAAA-CCCTTTAGGACTTAGCCCGGA
1 CAAATGCC-TTCGGACTTAGCCCGGA
55985773 CATCATTCGA
Statistics
Matches: 160, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 108 0.68
41 17 0.11
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:55993376 original size:40 final size:39
Alignment explanation
Indices: 55993249--55993378 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
55993239 ATGCTGGAAA
* *
55993249 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
55993289 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
55993329 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
55993369 TTATATCCGG
1 TTATATCCGG
55993379 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:55996451 original size:40 final size:40
Alignment explanation
Indices: 55996385--55996551 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
55996375 AAATTGAATG
* * *
55996385 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
55996424 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
55996464 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
55996504 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
55996544 ATATCCGG
1 ATATCCGG
55996552 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:55997904 original size:24 final size:24
Alignment explanation
Indices: 55997877--55997926 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
55997867 CCCTCGTGTC
55997877 CGACACCGGCGATGGTCTCGGGTT
1 CGACACCGGCGATGGTCTCGGGTT
55997901 CGACACCGGCGATGGTCTCGGGTT
1 CGACACCGGCGATGGTCTCGGGTT
55997925 CG
1 CG
55997927 GGGTGTTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.12, C:0.30, G:0.38, T:0.20
Consensus pattern (24 bp):
CGACACCGGCGATGGTCTCGGGTT
Found at i:56003897 original size:40 final size:39
Alignment explanation
Indices: 56003770--56003899 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
56003760 ATGCTGGAAA
* *
56003770 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
56003810 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
56003850 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
56003890 TTATATCCGG
1 TTATATCCGG
56003900 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:56007529 original size:79 final size:78
Alignment explanation
Indices: 56007418--56007642 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 78
56007408 GCTACTCGTT
* * *
56007418 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCTGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGACTTAGCCCGG
56007483 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* * *
56007498 CCAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATACCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGA-CTTAGCCCGG
56007562 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* * * *
56007577 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTC-GGACTTAGCCCG
56007641 GA
63 GA
56007643 CATCATTCGA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 4 0.03
79 66 0.52
80 44 0.35
81 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGAT
TTAGTAACTCGCA
Found at i:56007642 original size:40 final size:40
Alignment explanation
Indices: 56007399--56007642 Score: 275
Period size: 40 Copynumber: 6.1 Consensus size: 40
56007389 CGGAATTTAA
** *
56007399 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
56007439 CCGGTTATAGTAACTCGCACAAATGCCTTCTGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56007479 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56007518 CCGGA-ATTAGTAACTCGCACAAATACCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
56007558 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
56007598 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
56007638 CCGGA
1 CCGGA
56007643 CATCATTCGA
Statistics
Matches: 176, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.18
40 131 0.74
41 11 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:56012516 original size:20 final size:20
Alignment explanation
Indices: 56012491--56012533 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
56012481 AAATAGTTTA
56012491 ATAGACATAGATTATATTTT
1 ATAGACATAGATTATATTTT
56012511 ATAGACATAGATTATATTTT
1 ATAGACATAGATTATATTTT
56012531 ATA
1 ATA
56012534 TTATGTCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (20 bp):
ATAGACATAGATTATATTTT
Found at i:56012552 original size:28 final size:28
Alignment explanation
Indices: 56012518--56012573 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
56012508 TTTATAGACA
*
56012518 TAGATTATATTTTATATTATGTCAAGTT
1 TAGATTATATTTTATACTATGTCAAGTT
56012546 TAGATTATATTTTATACTATGTCAAGTT
1 TAGATTATATTTTATACTATGTCAAGTT
56012574 AAATAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (28 bp):
TAGATTATATTTTATACTATGTCAAGTT
Found at i:56014236 original size:27 final size:27
Alignment explanation
Indices: 56014189--56014541 Score: 431
Period size: 27 Copynumber: 13.1 Consensus size: 27
56014179 AGGGGGTCTC
56014189 ACGATTTTACCCTTATGTGATAAAATG
1 ACGATTTTACCCTTATGTGATAAAATG
* * * *
56014216 ACGATTTTTCCTTTCTTTGATAAAATG
1 ACGATTTTACCCTTATGTGATAAAATG
*
56014243 ACGATTTTGCCCTTATGTGATAAAATG
1 ACGATTTTACCCTTATGTGATAAAATG
* * **
56014270 ACAATTTTTCCCTTATGCAATAAAATG
1 ACGATTTTACCCTTATGTGATAAAATG
*
56014297 ACAATTTTACCCTTATGTGATAAAATG
1 ACGATTTTACCCTTATGTGATAAAATG
56014324 ACGATTTTACCCTTATGTGATAAAATG
1 ACGATTTTACCCTTATGTGATAAAATG
* *
56014351 ACGATTTTACCTTTATGTGATAAAATT
1 ACGATTTTACCCTTATGTGATAAAATG
* * * * *
56014378 ATGATTTTGCCCTTATATGATATATTGG
1 ACGATTTTACCCTTATGTGATAAAAT-G
** *
56014406 A-GATTTTTTCCATATGTGATAAAATG
1 ACGATTTTACCCTTATGTGATAAAATG
*
56014432 ATGATTTTGA-CCTTATGTGATAAAATG
1 ACGATTTT-ACCCTTATGTGATAAAATG
* *
56014459 ACGATTTTGCCCTTATGTGATAAAATA
1 ACGATTTTACCCTTATGTGATAAAATG
* *
56014486 ACAATTTTGCCCTTATGTGATAAAATG
1 ACGATTTTACCCTTATGTGATAAAATG
* *
56014513 ACGATTTTGCCCTTATGTGATCAAATG
1 ACGATTTTACCCTTATGTGATAAAATG
56014540 AC
1 AC
56014542 CTAAATACCC
Statistics
Matches: 282, Mismatches: 40, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 279 0.99
28 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (27 bp):
ACGATTTTACCCTTATGTGATAAAATG
Found at i:56014565 original size:27 final size:27
Alignment explanation
Indices: 56014535--56014670 Score: 118
Period size: 27 Copynumber: 5.1 Consensus size: 27
56014525 TTATGTGATC
*
56014535 AAATGACCTAAATACCCTCATAGGGTA
1 AAATGACCTAAATACCCTCATAAGGTA
* *
56014562 AAATGATCAAAATACCCTCATAAGGTA
1 AAATGACCTAAATACCCTCATAAGGTA
* *
56014589 AAATTA-CTGAAATACCC-CACAAGGTA
1 AAATGACCT-AAATACCCTCATAAGGTA
* * ** *
56014615 CAATGACCGAAATACCCTTGTAGGGTA
1 AAATGACCTAAATACCCTCATAAGGTA
*
56014642 AAATGA-CTATAGTA-CCTCGATAAGGTA
1 AAATGACCTA-AATACCCTC-ATAAGGTA
56014669 AA
1 AA
56014671 TTAATAGATT
Statistics
Matches: 85, Mismatches: 19, Indels: 10
0.75 0.17 0.09
Matches are distributed among these distances:
26 26 0.31
27 59 0.69
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (27 bp):
AAATGACCTAAATACCCTCATAAGGTA
Found at i:56014626 original size:26 final size:27
Alignment explanation
Indices: 56014535--56014648 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 27
56014525 TTATGTGATC
* *
56014535 AAATGACCTAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCTCATAAGGTA
* *
56014562 AAATGATCAAAATACCCTCATAAGGTA
1 AAATGACCGAAATACCCTCATAAGGTA
* * *
56014589 AAATTACTGAAATACCC-CACAAGGTA
1 AAATGACCGAAATACCCTCATAAGGTA
* ** *
56014615 CAATGACCGAAATACCCTTGTAGGGTA
1 AAATGACCGAAATACCCTCATAAGGTA
56014642 AAATGAC
1 AAATGAC
56014649 TATAGTACCT
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
26 22 0.31
27 48 0.69
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCATAAGGTA
Found at i:56016714 original size:27 final size:27
Alignment explanation
Indices: 56016667--56016856 Score: 247
Period size: 27 Copynumber: 7.0 Consensus size: 27
56016657 CTAGGGGGTC
*
56016667 TGACGATTTTACCCTTATGTGATAAAA
1 TGACGATTTTGCCCTTATGTGATAAAA
* *
56016694 TGACGATTTTGCCTTTTTGTGATAAAA
1 TGACGATTTTGCCCTTATGTGATAAAA
56016721 TGACGATTTT-CCCTTTATGTGATAAAA
1 TGACGATTTTGCCC-TTATGTGATAAAA
* * *
56016748 TGATGATTTTTCCCTTATGAGATAAAA
1 TGACGATTTTGCCCTTATGTGATAAAA
* *
56016775 TAACGATTTTGCCCTGATGTGATAAAA
1 TGACGATTTTGCCCTTATGTGATAAAA
* *
56016802 TAACAATTTTGCCCTTATGTGATAAAA
1 TGACGATTTTGCCCTTATGTGATAAAA
* * *
56016829 TGATGATTTTGCCCTTATCTGATCAAA
1 TGACGATTTTGCCCTTATGTGATAAAA
56016856 T
1 T
56016857 AACCTAAATA
Statistics
Matches: 142, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 137 0.96
28 3 0.02
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.39
Consensus pattern (27 bp):
TGACGATTTTGCCCTTATGTGATAAAA
Found at i:56016883 original size:27 final size:27
Alignment explanation
Indices: 56016853--56016923 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
56016843 TTATCTGATC
* ***
56016853 AAATAACCTAAATACCCTCCTAGGGTA
1 AAATAACCGAAATACCCTAAGAGGGTA
* *
56016880 AAATGACCGAAATACCATAAGAGGGTA
1 AAATAACCGAAATACCCTAAGAGGGTA
56016907 AAATAACCGAAATACCC
1 AAATAACCGAAATACCC
56016924 CCATAGAGTA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.46, C:0.23, G:0.14, T:0.17
Consensus pattern (27 bp):
AAATAACCGAAATACCCTAAGAGGGTA
Found at i:56016965 original size:27 final size:26
Alignment explanation
Indices: 56016853--56016967 Score: 79
Period size: 27 Copynumber: 4.3 Consensus size: 26
56016843 TTATCTGATC
* *
56016853 AAATAACCTAAATACCCTCC-TAGGGTA
1 AAATGACCGAAATACCC-CCATA-GGTA
*** *
56016880 AAATGACCGAAATACCATAAGAGGGTA
1 AAATGACCGAAATACCCCCATA-GGTA
*
56016907 AAATAACCGAAATACCCCCATAGAGTA
1 AAATGACCGAAATACCCCCATAG-GTA
* * **
56016934 GAATGATCGAAATACCCCTGTAAGGTA
1 AAATGACCGAAATACCCCCAT-AGGTA
56016961 AAATGAC
1 AAATGAC
56016968 TATAGTACCC
Statistics
Matches: 67, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
26 1 0.01
27 64 0.96
28 2 0.03
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (26 bp):
AAATGACCGAAATACCCCCATAGGTA
Found at i:56019027 original size:27 final size:27
Alignment explanation
Indices: 56018997--56019108 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
56018987 ATAGGAGGTC
*
56018997 TGACGATTTTATACTTATGTGATAAAA
1 TGACGATTTTATCCTTATGTGATAAAA
* * *
56019024 TGACGATTTTACCCTTTTCTGATAAAA
1 TGACGATTTTATCCTTATGTGATAAAA
*
56019051 TGACAATTTT-TCCCTTATGTGATAAAA
1 TGACGATTTTAT-CCTTATGTGATAAAA
* *
56019078 TGACGATTTT-TCCCTTATCTGATCAAA
1 TGACGATTTTAT-CCTTATGTGATAAAA
56019105 TGAC
1 TGAC
56019109 CTAAATACCA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.40
Consensus pattern (27 bp):
TGACGATTTTATCCTTATGTGATAAAA
Found at i:56019132 original size:27 final size:27
Alignment explanation
Indices: 56019102--56019198 Score: 113
Period size: 27 Copynumber: 3.6 Consensus size: 27
56019092 TTATCTGATC
*
56019102 AAATGACCTAAATACCATCATAGGGTA
1 AAATGACCGAAATACCATCATAGGGTA
*
56019129 AAATGACCGAAATACCTTCATAGGGTA
1 AAATGACCGAAATACCATCATAGGGTA
* * **
56019156 AAATTATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCATCATAGGGTA
* **
56019183 GAATGGTCGAAATACC
1 AAATGACCGAAATACC
56019199 CCTGTAAGGT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (27 bp):
AAATGACCGAAATACCATCATAGGGTA
Found at i:56019213 original size:26 final size:27
Alignment explanation
Indices: 56019162--56019213 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
56019152 GGTAAAATTA
*
56019162 TCGAAATACCCCCATAGGGTAGAATGG
1 TCGAAATACCCCCATAAGGTAGAATGG
**
56019189 TCGAAATACCCCTGTAAGGTA-AATG
1 TCGAAATACCCCCATAAGGTAGAATG
56019214 ACTATAGTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
TCGAAATACCCCCATAAGGTAGAATGG
Found at i:56023353 original size:2 final size:2
Alignment explanation
Indices: 56023346--56023377 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
56023336 ATGAAAGTGC
56023346 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56023378 CTTAAGAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56040498 original size:13 final size:13
Alignment explanation
Indices: 56040480--56040504 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56040470 ACAAACGATA
56040480 AAATTTTCACACG
1 AAATTTTCACACG
56040493 AAATTTTCACAC
1 AAATTTTCACAC
56040505 ATATTAATTC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:56044828 original size:26 final size:26
Alignment explanation
Indices: 56044792--56044842 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
56044782 GAACAAATCT
**
56044792 GTCAATTTACCTTACTGGGGTATTCA
1 GTCAATTTACCTTACAAGGGTATTCA
*
56044818 GTCATTTTACCTTACAAGGGTATTC
1 GTCAATTTACCTTACAAGGGTATTC
56044843 CGGTCAATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.39
Consensus pattern (26 bp):
GTCAATTTACCTTACAAGGGTATTCA
Found at i:56044916 original size:27 final size:27
Alignment explanation
Indices: 56044792--56044932 Score: 90
Period size: 27 Copynumber: 5.3 Consensus size: 27
56044782 GAACAAATCT
* * *
56044792 GTCAATTTACCTTACTG-GGGTA-TTCA
1 GTCATTTTACCCTA-TGAGGGTATTTCG
* ** *
56044818 GTCATTTTACCTTACAAGGGTATTCCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
56044845 GTCAATCTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *** *
56044872 ATAATTTTATAATGTGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
56044899 GCCATTTTACCCTATGAGAGTA-TTCAG
1 GTCATTTTACCCTATGAGGGTATTTC-G
56044926 GTCATTT
1 GTCATTT
56044933 GATCACATAA
Statistics
Matches: 84, Mismatches: 28, Indels: 5
0.72 0.24 0.04
Matches are distributed among these distances:
26 21 0.25
27 63 0.75
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:56044957 original size:27 final size:27
Alignment explanation
Indices: 56044927--56045221 Score: 396
Period size: 27 Copynumber: 11.0 Consensus size: 27
56044917 AGTATTCAGG
*
56044927 TCATTTGATCACATAAGGGCAAAATCA
1 TCATTTTATCACATAAGGGCAAAATCA
*
56044954 TCATTTTATCACATAAGGGCAAAATCG
1 TCATTTTATCACATAAGGGCAAAATCA
*
56044981 TCAATTTATCACATAAGGGCAAAATCA
1 TCATTTTATCACATAAGGGCAAAATCA
* * *
56045008 TCAATTTATCACATAAGGGAAAAATCG
1 TCATTTTATCACATAAGGGCAAAATCA
* *
56045035 TCATTTTATCACATAAGGGTAAAATCG
1 TCATTTTATCACATAAGGGCAAAATCA
* *
56045062 TCACTTTATCACATAAGGGTAAAATCA
1 TCATTTTATCACATAAGGGCAAAATCA
* *
56045089 TCATTTTATCATATAAGGGTAAAATCA
1 TCATTTTATCACATAAGGGCAAAATCA
*
56045116 TCATTTTATCGCATAAGGGCAAAATCA
1 TCATTTTATCACATAAGGGCAAAATCA
* *
56045143 TCATTTTATCACATAAAAGG-AAAAT-G
1 TCATTTTATCACAT-AAGGGCAAAATCA
* * *
56045169 TCATTTTATCACAAAAAGGAAAAATCA
1 TCATTTTATCACATAAGGGCAAAATCA
*
56045196 TCATTTTATCACATAAGGGTAAAATC
1 TCATTTTATCACATAAGGGCAAAATC
56045222 GTCAGACCCT
Statistics
Matches: 242, Mismatches: 23, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
25 5 0.02
26 18 0.07
27 215 0.89
28 4 0.02
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.30
Consensus pattern (27 bp):
TCATTTTATCACATAAGGGCAAAATCA
Found at i:56047319 original size:27 final size:27
Alignment explanation
Indices: 56047272--56047369 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 27
56047262 TACCTTACAG
* * * *
56047272 GGGTATTTTGACCATTCTACCCTATGG
1 GGGTATTTCGATCATTTTACCCTATGA
*
56047299 GGGTATTTCGATAATTTTACCCTATGA
1 GGGTATTTCGATCATTTTACCCTATGA
* *
56047326 AGGTATTTCGGTCATTTTACCCTATGA
1 GGGTATTTCGATCATTTTACCCTATGA
* * *
56047353 TGGTATTTAGGTCATTT
1 GGGTATTTCGATCATTT
56047370 GATCAGATAA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGATCATTTTACCCTATGA
Found at i:56047393 original size:27 final size:27
Alignment explanation
Indices: 56047363--56047474 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
56047353 TGGTATTTAG
* *
56047363 GTCATTTGATCAGATAAGGGAAAAATC
1 GTCATTTTATCACATAAGGGAAAAATC
*
56047390 GTCATTTTATCACATAAGGGAAAAATT
1 GTCATTTTATCACATAAGGGAAAAATC
* * *
56047417 GTCATTTTATCAGAAAAGGGTAAAATC
1 GTCATTTTATCACATAAGGGAAAAATC
*
56047444 GTCATTTTATCACATAA-GTATAAAATC
1 GTCATTTTATCACATAAGGGA-AAAATC
56047471 GTCA
1 GTCA
56047475 GACCTCCTAT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 72 0.99
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGAAAAATC
Found at i:56047469 original size:54 final size:54
Alignment explanation
Indices: 56047363--56047474 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
56047353 TGGTATTTAG
* *
56047363 GTCATTTGATCAGATAAGGGAAAAATCGTCATTTTATCACATAAGGGAAAAATT
1 GTCATTTGATCAGAAAAGGGAAAAATCGTCATTTTATCACATAAGGGAAAAATC
* * *
56047417 GTCATTTTATCAGAAAAGGGTAAAATCGTCATTTTATCACATAA-GTATAAAATC
1 GTCATTTGATCAGAAAAGGGAAAAATCGTCATTTTATCACATAAGGGA-AAAATC
56047471 GTCA
1 GTCA
56047475 GACCTCCTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
53 2 0.04
54 50 0.96
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (54 bp):
GTCATTTGATCAGAAAAGGGAAAAATCGTCATTTTATCACATAAGGGAAAAATC
Found at i:56049607 original size:27 final size:27
Alignment explanation
Indices: 56049505--56049619 Score: 90
Period size: 27 Copynumber: 4.3 Consensus size: 27
56049495 GGGTACTATA
* *
56049505 GTCATTTTACCTTA-CAGGGGTATTTCG
1 GTCATTTTACCCTAGGA-GGGTATTTCG
* * *
56049532 ATCATTCTACTCTATGG-GGGTATTTCG
1 GTCATTTTACCCTA-GGAGGGTATTTCG
* *** *
56049559 GTTATTTTACCCTCTTATGGTATTTCG
1 GTCATTTTACCCTAGGAGGGTATTTCG
*
56049586 GTCATTTTACCCTAGGAGGGTATTTAG
1 GTCATTTTACCCTAGGAGGGTATTTCG
*
56049613 GTTATTT
1 GTCATTT
56049620 GATCAGATAA
Statistics
Matches: 65, Mismatches: 20, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTAGGAGGGTATTTCG
Found at i:56049646 original size:27 final size:27
Alignment explanation
Indices: 56049616--56049805 Score: 247
Period size: 27 Copynumber: 7.0 Consensus size: 27
56049606 TATTTAGGTT
* * *
56049616 ATTTGATCAGATAAGGGCAAAATCATC
1 ATTTTATCACATAAGGGCAAAATCGTC
* *
56049643 ATTTTATCACATAAGGGCAAAATTGTT
1 ATTTTATCACATAAGGGCAAAATCGTC
* *
56049670 ATTTTATCACATCAGGGCAAAATCGTT
1 ATTTTATCACATAAGGGCAAAATCGTC
* * *
56049697 ATTTTATCTCATAAGGGAAAAATCATC
1 ATTTTATCACATAAGGGCAAAATCGTC
56049724 ATTTTATCACATAAAGGG-AAAATCGTC
1 ATTTTATCACAT-AAGGGCAAAATCGTC
* *
56049751 ATTTTATCACAAAAAGGCAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
*
56049778 ATTTTATCACATAAGGGTAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
56049805 A
1 A
56049806 GACCCCCTAG
Statistics
Matches: 142, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 4 0.03
27 133 0.94
28 5 0.04
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.31
Consensus pattern (27 bp):
ATTTTATCACATAAGGGCAAAATCGTC
Found at i:56051856 original size:27 final size:27
Alignment explanation
Indices: 56051826--56051940 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 27
56051816 AGGTACTACA
**
56051826 GTCATTTTACCCTACAAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * * * *
56051853 GTCATTGTACCTTGTGGGGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
56051880 GTAATTTTACCTTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
56051907 ATCATTTTACCCTATGAGGGTATTTAG
1 GTCATTTTACCCTATGAGGGTATTTCG
56051934 GTCATTT
1 GTCATTT
56051941 GATCACATAA
Statistics
Matches: 70, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:56051964 original size:27 final size:27
Alignment explanation
Indices: 56051934--56052313 Score: 483
Period size: 27 Copynumber: 14.1 Consensus size: 27
56051924 GGGTATTTAG
*
56051934 GTCATTTGATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
56051961 GTCATTTTATCACATAAGGGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
* *
56051988 GTTATTTTATCATATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
56052015 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
56052042 GTCATTTTATCACATAAGGTCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* * **
56052069 ATCATTTTATCACATATGGAAAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* * *
56052096 -TCCAATATATCATATAAGGGCAAAATC
1 GT-CATTTTATCACATAAGGGCAAAATC
* * * *
56052123 ATAATTTTATCACATAAAGGTAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
56052150 GTCATTTTATCACATAAGGGTAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* * *
56052177 GTTATTTTATCACATAAGGGTAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
** * *
56052204 GTCATTTTATTGCATAAGGGAAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
*
56052231 GTCATTTGATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* * *
56052258 GTCATTTTATCAAAGAAAGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
56052285 GTCATTTTATCACATAAGGGTAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
56052312 GT
1 GT
56052314 GAGACCCCCT
Statistics
Matches: 305, Mismatches: 46, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 303 0.99
28 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCAAAATC
Found at i:56056176 original size:30 final size:30
Alignment explanation
Indices: 56056140--56056240 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
56056130 GACAAGATTG
* * *
56056140 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
56056170 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
56056198 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
56056227 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56056241 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:56056252 original size:29 final size:28
Alignment explanation
Indices: 56056169--56056244 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
56056159 AAAATTGTAC
* *
56056169 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
56056197 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
56056226 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
56056245 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:56063973 original size:30 final size:30
Alignment explanation
Indices: 56063937--56064037 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
56063927 GACAAGATTG
* * *
56063937 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
56063967 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
56063995 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
56064024 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56064038 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:56064049 original size:29 final size:28
Alignment explanation
Indices: 56063966--56064041 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
56063956 AAAATTGTAC
* *
56063966 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
56063994 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
56064023 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
56064042 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:56070960 original size:54 final size:54
Alignment explanation
Indices: 56070896--56070999 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 54
56070886 CAAATTTTCA
56070896 AATTAAACATGATAATCTAAGAAG-ATATATTTATTTTTCATCATCAAACATGAT
1 AATTAAACATGATAATCTAA-AAGCATATATTTATTTTTCATCATCAAACATGAT
*
56070950 AATTAAACATGATAATCTAACAGCATATATTTATTTTTCATCATCAAACA
1 AATTAAACATGATAATCTAAAAGCATATATTTATTTTTCATCATCAAACA
56071000 ACAAAAACCA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
53 2 0.04
54 46 0.96
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (54 bp):
AATTAAACATGATAATCTAAAAGCATATATTTATTTTTCATCATCAAACATGAT
Found at i:56070971 original size:13 final size:13
Alignment explanation
Indices: 56070941--56070965 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56070931 TTTCATCATC
56070941 AAACATGATAATT
1 AAACATGATAATT
56070954 AAACATGATAAT
1 AAACATGATAAT
56070966 CTAACAGCAT
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:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
AAACATGATAATT
Found at i:56073016 original size:15 final size:16
Alignment explanation
Indices: 56072989--56073018 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
56072979 AGAGTACGAG
56072989 ATATGAGAATGTATAT
1 ATATGAGAATGTATAT
56073005 ATATGA-AATGTATA
1 ATATGAGAATGTATA
56073019 ATCTTTATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (16 bp):
ATATGAGAATGTATAT
Found at i:56085002 original size:2 final size:2
Alignment explanation
Indices: 56084995--56085022 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
56084985 ATGAAAGTGC
56084995 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56085023 CTTAAGAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56097121 original size:39 final size:40
Alignment explanation
Indices: 56097021--56097202 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
56097011 TCGAATGATG
* * *
56097021 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
56097061 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
56097101 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
56097139 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
56097180 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
56097203 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:56097166 original size:78 final size:80
Alignment explanation
Indices: 56097021--56097202 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
56097011 TCGAATGATG
* * * *
56097021 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
56097086 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
56097101 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
56097163 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
56097180 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
56097203 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:56102730 original size:46 final size:46
Alignment explanation
Indices: 56102640--56102770 Score: 140
Period size: 46 Copynumber: 2.8 Consensus size: 46
56102630 GAGTGCCAGA
* * * *
56102640 TAAGACTATGTCTGGGACATGGCATCGGTATTGAGACG-AGAGCTAATG
1 TAAGAC-ATGTCTGGGAC-TTGCATCGG-CTCGAGATGTAGAGCTAATG
*
56102688 TAAGACATGTCTGGGACTTGCATCGGCCTCGAGATGTA-AGCTAGTG
1 TAAGACATGTCTGGGACTTGCATCGG-CTCGAGATGTAGAGCTAATG
* *
56102734 TAAGACATGTCTGGGACATGTATCGGCTACGAGATGT
1 TAAGACATGTCTGGGACTTGCATCGGCT-CGAGATGT
56102771 GTCAGTGTAA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
45 2 0.03
46 53 0.73
47 12 0.16
48 6 0.08
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (46 bp):
TAAGACATGTCTGGGACTTGCATCGGCTCGAGATGTAGAGCTAATG
Found at i:56103488 original size:7 final size:7
Alignment explanation
Indices: 56103476--56103507 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
56103466 GTTGTCTTCT
56103476 TGTTTGA
1 TGTTTGA
56103483 TGTTTGA
1 TGTTTGA
56103490 TGTTTGA
1 TGTTTGA
56103497 TGTTTGA
1 TGTTTGA
56103504 TGTT
1 TGTT
56103508 GTGGTGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.59
Consensus pattern (7 bp):
TGTTTGA
Found at i:56104436 original size:27 final size:28
Alignment explanation
Indices: 56104380--56104449 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
56104370 AAATTTGTAC
56104380 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
56104408 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
56104435 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56104450 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:56111352 original size:7 final size:7
Alignment explanation
Indices: 56111340--56111364 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
56111330 GTTGTCTTCT
56111340 TGTTTGA
1 TGTTTGA
56111347 TGTTTGA
1 TGTTTGA
56111354 TGTTTGA
1 TGTTTGA
56111361 TGTT
1 TGTT
56111365 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:56112299 original size:27 final size:28
Alignment explanation
Indices: 56112243--56112312 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
56112233 AAATTTGTAC
56112243 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
56112271 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
56112298 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56112313 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:56121287 original size:46 final size:48
Alignment explanation
Indices: 56121180--56121398 Score: 152
Period size: 46 Copynumber: 4.6 Consensus size: 48
56121170 CCACATTATG
* * *
56121180 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-ATCATTGAGAAG-
1 AGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGA-CCTCGAGATGT
** *
56121228 AGAGTTAGTGTAAGA-CATGTCTTGGACATGCATCGACCTCGAGATGT
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGT
* *** *
56121275 A-AGCCAGTGTAAGA-CATATCTCACACATGCATCG-GCTCCGAGATGT
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACCT-CGAGATGT
* * * * * *
56121321 ---GTCAGTGTAAGACCATGTTTAGGACATGGCATCGGCAC-GGATATGT
1 AGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGAC-CTCGAGATGT
*
56121367 GAGAGCTAGTGTAAGACCATGTCTGGGACATG
1 -AGAGCCAGTGTAAGACCATGTCTGGGACATG
56121399 ACGTCGGCCT
Statistics
Matches: 134, Mismatches: 26, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
44 11 0.08
45 11 0.08
46 59 0.44
47 15 0.11
48 14 0.10
49 1 0.01
50 23 0.17
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGT
Found at i:56121406 original size:50 final size:49
Alignment explanation
Indices: 56121324--56121440 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 49
56121314 GAGATGTGTC
* * * *
56121324 AGTGTAAGACCATGTTTAGGACATGGCATCGGCAC-GGATATGTGAGAGCT-
1 AGTGTAAGACCATGTCTGGGACATGACATCGGC-CTCGAT-TGTGAGAG-TA
* * *
56121374 AGTGTAAGACCATGTCTGGGACATGACGTCGGCCTCGATTTTGATAGTA
1 AGTGTAAGACCATGTCTGGGACATGACATCGGCCTCGATTGTGAGAGTA
56121423 AGTGTAAGACCATGTCTG
1 AGTGTAAGACCATGTCTG
56121441 AACATGGCAT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
48 1 0.02
49 25 0.43
50 32 0.55
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGACATCGGCCTCGATTGTGAGAGTA
Found at i:56121461 original size:24 final size:25
Alignment explanation
Indices: 56121429--56121478 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
56121419 AGTAAGTGTA
*
56121429 AGACCATGTCT-GAACATGGCATCG
1 AGACCATGTCTAGAACATGACATCG
*
56121453 AGACCATGTCTAGGACATGACATCG
1 AGACCATGTCTAGAACATGACATCG
56121478 A
1 A
56121479 CTTGATGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (25 bp):
AGACCATGTCTAGAACATGACATCG
Found at i:56138385 original size:40 final size:40
Alignment explanation
Indices: 56138258--56138387 Score: 158
Period size: 40 Copynumber: 3.2 Consensus size: 40
56138248 ATGCTGGAAA
*
56138258 TTATATCCGGG-TCAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCT-AAGACCCGAAGGC-ATTCGTGCGAGTGG
* * * *
56138298 CTACATCTGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
56138338 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
56138378 TTATATCCGG
1 TTATATCCGG
56138388 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 4 0.05
40 71 0.93
41 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:56145372 original size:40 final size:39
Alignment explanation
Indices: 56145207--56145390 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
56145197 AAATTGAATG
* * *
56145207 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
56145247 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
56145287 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
56145327 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
56145366 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
56145391 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:56145415 original size:80 final size:81
Alignment explanation
Indices: 56145247--56145435 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
56145237 GCTGGAAATT
* * * *
56145247 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
56145312 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
56145328 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
56145391 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
56145407 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
56145436 ACGAGTAGCG
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:56153460 original size:40 final size:39
Alignment explanation
Indices: 56153295--56153478 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
56153285 AAATTGAATG
* * *
56153295 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
56153335 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
56153375 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
56153415 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
56153454 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
56153479 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:56153503 original size:80 final size:81
Alignment explanation
Indices: 56153335--56153523 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
56153325 GCTGGAAATT
* * * *
56153335 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
56153400 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
56153416 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
56153479 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
56153495 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
56153524 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:56159914 original size:78 final size:81
Alignment explanation
Indices: 56159788--56159969 Score: 221
Period size: 78 Copynumber: 2.3 Consensus size: 81
56159778 GACTCGCTCA
** * *
56159788 AATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTC-GGATCCTAACCCGG
* *
56159851 GTTTAGTAACTT-GCAC
65 ATATAGTAACTTAGCAC
* **
56159867 AATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
*
56159930 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
56159946 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
56159970 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
77 3 0.03
78 45 0.51
79 29 0.33
80 11 0.12
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
TATAGTAACTTAGCAC
Found at i:56159969 original size:40 final size:39
Alignment explanation
Indices: 56159779--56159969 Score: 179
Period size: 40 Copynumber: 4.8 Consensus size: 39
56159769 GGATATAACG
* ** * *
56159779 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
56159819 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
56159859 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
56159897 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATATAGTA
* *
56159937 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
56159970 CATCATTCGA
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 71 0.57
41 8 0.06
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:56161513 original size:28 final size:28
Alignment explanation
Indices: 56161481--56161579 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
56161471 GCAATAAGCC
*
56161481 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
56161509 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
56161537 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
56161566 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56161580 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:56171758 original size:27 final size:27
Alignment explanation
Indices: 56171728--56171986 Score: 190
Period size: 27 Copynumber: 9.6 Consensus size: 27
56171718 TAATAAATAG
*
56171728 AAATTACTAAAATACCCCTAGTTTGTA
1 AAATTACTGAAATACCCCTAGTTTGTA
* *
56171755 AAATTACTGAAGTACCCC-CGATTTGTA
1 AAATTACTGAAATACCCCTAG-TTTGTA
* * *
56171782 AAATTA-TCAAAATACCCCCAATTTGTA
1 AAATTACT-GAAATACCCCTAGTTTGTA
* * * * *
56171809 AAATTACTGACATA-CCCTCGATTATG
1 AAATTACTGAAATACCCCTAGTTTGTA
* *
56171835 AAATTATTGAAATA-CCCTCAATTTGTA
1 AAATTACTGAAATACCCCT-AGTTTGTA
* *
56171862 AAATTACCGAAATACCCCT-GATTTGTG
1 AAATTACTGAAATACCCCTAG-TTTGTA
** *
56171889 AAATTACCAAAATA-CCCTCAATTTGTA
1 AAATTACTGAAATACCCCT-AGTTTGTA
* *
56171916 AAATTACCGAAATACCCACGA-TTTGTA
1 AAATTACTGAAATACCC-CTAGTTTGTA
* * *
56171943 AAATTACTGAAACACCCCCAATTTGTA
1 AAATTACTGAAATACCCCTAGTTTGTA
**
56171970 AAATTACCAAAATACCC
1 AAATTACTGAAATACCC
56171987 TTGTAGTGTA
Statistics
Matches: 183, Mismatches: 37, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
26 30 0.16
27 144 0.79
28 8 0.04
29 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACTGAAATACCCCTAGTTTGTA
Found at i:56171810 original size:54 final size:54
Alignment explanation
Indices: 56171728--56172013 Score: 312
Period size: 54 Copynumber: 5.3 Consensus size: 54
56171718 TAATAAATAG
* * * *
56171728 AAATTA-CTAAAATACCCCTAGTTTGTAAAATTACTGAAGTACCCCCGATTTGTA
1 AAATTATC-AAAATACCCCCAATTTGTAAAATTACCGAAATACCCCCGATTTGTA
* * *
56171782 AAATTATCAAAATACCCCCAATTTGTAAAATTACTGACATACCCTCGATTATG--
1 AAATTATCAAAATACCCCCAATTTGTAAAATTACCGAAATACCCCCGATT-TGTA
** * * *
56171835 AAATTATTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCTGATTTGTG
1 AAATTATCAAAATACCCCCAATTTGTAAAATTACCGAAATACCCCCGATTTGTA
* * *
56171889 AAATTACCAAAATACCCTCAATTTGTAAAATTACCGAAATACCCACGATTTGTA
1 AAATTATCAAAATACCCCCAATTTGTAAAATTACCGAAATACCCCCGATTTGTA
* * * ** *
56171943 AAATTA-CTGAAACACCCCCAATTTGTAAAATTACCAAAATACCCTTG-TAGTGTA
1 AAATTATC-AAAATACCCCCAATTTGTAAAATTACCGAAATACCCCCGAT-TTGTA
56171997 AAATTATCAAAATACCC
1 AAATTATCAAAATACCC
56172014 TTGTAGTGTA
Statistics
Matches: 198, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
52 2 0.01
53 45 0.23
54 147 0.74
55 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATTATCAAAATACCCCCAATTTGTAAAATTACCGAAATACCCCCGATTTGTA
Found at i:56171996 original size:27 final size:27
Alignment explanation
Indices: 56171966--56172045 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
56171956 ACCCCCAATT
56171966 TGTAAAATTACCAAAATACCCTTGTAG
1 TGTAAAATTACCAAAATACCCTTGTAG
*
56171993 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATTACCAAAATACCCTTGTAG
* * *
56172020 TGTAAAATGACCGACATACCCTTGTA
1 TGTAAAATTACCAAAATACCCTTGTA
56172046 AGGTAAATGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCTTGTAG
Found at i:56171997 original size:81 final size:81
Alignment explanation
Indices: 56171728--56172013 Score: 283
Period size: 81 Copynumber: 3.5 Consensus size: 81
56171718 TAATAAATAG
* * * * * *
56171728 AAATTACTAAAATACCCCTAGT-TTGTAAAATTACTGAAGTACCCCCGATTTGTAAAATTA-TCA
1 AAATTACCAAAATA-CCCTTGTATTGTAAAATTACCGAAATACCCACGATTTGTAAAATTACT-G
56171791 AAATACCCCCAATTTGTA
64 AAATACCCCCAATTTGTA
** * * * * ** * * *
56171809 AAATTACTGACATACCCTCG-ATTATGAAATTATTGAAATACCCTCAATTTGTAAAATTACCGAA
1 AAATTACCAAAATACCCTTGTATTGTAAAATTACCGAAATACCCACGATTTGTAAAATTACTGAA
** *
56171873 ATACCCCTGATTTGTG
66 ATACCCCCAATTTGTA
**
56171889 AAATTACCAAAATACCC-TCAATTTGTAAAATTACCGAAATACCCACGATTTGTAAAATTACTGA
1 AAATTACCAAAATACCCTTGTA-TTGTAAAATTACCGAAATACCCACGATTTGTAAAATTACTGA
*
56171953 AACACCCCCAATTTGTA
65 AATACCCCCAATTTGTA
* * *
56171970 AAATTACCAAAATACCCTTGTAGTGTAAAATTATCAAAATACCC
1 AAATTACCAAAATACCCTTGTATTGTAAAATTACCGAAATACCC
56172014 TTGTAGTGTA
Statistics
Matches: 165, Mismatches: 35, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
80 67 0.41
81 96 0.58
82 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGTATTGTAAAATTACCGAAATACCCACGATTTGTAAAATTACTGAA
ATACCCCCAATTTGTA
Found at i:56180605 original size:40 final size:39
Alignment explanation
Indices: 56180541--56180746 Score: 171
Period size: 40 Copynumber: 5.2 Consensus size: 39
56180531 CGGAATACAA
* * * *
56180541 CCGGATATACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACACTTGCACAAATGCCTTCGGGTCTTAGC
* *
56180580 CCGAATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATAGAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
** * *
56180620 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATAGAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* ** * *
56180660 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGAT-AGAACACTTGCACAAAT-GCCTTCGGGTCTTAGC
* * * * * *
56180700 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATAGAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
56180740 CCGGATA
1 CCGGATA
56180747 TCATTCAATT
Statistics
Matches: 136, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
39 11 0.08
40 120 0.88
41 5 0.04
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATAGAACACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56180688 original size:80 final size:80
Alignment explanation
Indices: 56180541--56180746 Score: 204
Period size: 80 Copynumber: 2.6 Consensus size: 80
56180531 CGGAATACAA
* * * * *
56180541 CCGGATAT-ACCACATGCACGAATGCCTTCGGGTCTTAGCCCGAATAGAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATAGAACGACTAGCACAAATG
*
56180605 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * **
56180620 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATGTGGTC-ACTAGCAC-AAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGAT-AGAACGACTAGCACAAAT
*
56180683 GGCCTTCGGGTCTTAAC
65 -GCCTTCGGGTATTAAC
** * ** *
56180700 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTA-TTAGCCCGGATA
56180747 TCATTCAATT
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
79 11 0.11
80 91 0.88
81 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:56183807 original size:27 final size:27
Alignment explanation
Indices: 56183777--56183916 Score: 142
Period size: 27 Copynumber: 5.2 Consensus size: 27
56183767 ATTACTGTTT
** *
56183777 TACCCTCAATTTACAAAATTACCAAAA
1 TACCCTCGGTTTATAAAATTACCAAAA
* *
56183804 TACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCGGTTTATAAAATTACCAAAA
* *
56183831 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GGTTTATAAAATTACCAAAA
**
56183858 TACCCTTTGTTTATAAAATTACCAAAA
1 TACCCTCGGTTTATAAAATTACCAAAA
*
56183885 TACCCAT-GGTTTGA-AAAATTACTAAAA
1 TACCC-TCGGTTT-ATAAAATTACCAAAA
56183912 TACCC
1 TACCC
56183917 CTGTAGGGTA
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
27 92 0.98
28 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.31
Consensus pattern (27 bp):
TACCCTCGGTTTATAAAATTACCAAAA
Found at i:56183876 original size:81 final size:81
Alignment explanation
Indices: 56183786--56183945 Score: 225
Period size: 81 Copynumber: 2.0 Consensus size: 81
56183776 TTACCCTCAA
* **
56183786 TTTACAAAATTACCAAAATACCCTTGGTTT-ATAAAATCACCAAAATACCCCTGGT-TTGTAAAA
1 TTTACAAAATTACCAAAATACCCATGGTTTGA-AAAATCACCAAAATACCCCT-GTAGGGTAAAA
56183849 TTACTAAAATACCCTTTG
64 TTACTAAAATACCCTTTG
* * *
56183867 TTTATAAAATTACCAAAATACCCATGGTTTGAAAAATTACTAAAATACCCCTGTAGGGTAAAATT
1 TTTACAAAATTACCAAAATACCCATGGTTTGAAAAATCACCAAAATACCCCTGTAGGGTAAAATT
*
56183932 ACTGAAATACCCTT
66 ACTAAAATACCCTT
56183946 GTGGGGTAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 67 0.96
82 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCATGGTTTGAAAAATCACCAAAATACCCCTGTAGGGTAAAATT
ACTAAAATACCCTTTG
Found at i:56183929 original size:27 final size:27
Alignment explanation
Indices: 56183899--56183960 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
56183889 CATGGTTTGA
56183899 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
56183926 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
56183953 AAAATTAC
1 AAAATTAC
56183961 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:56183929 original size:54 final size:54
Alignment explanation
Indices: 56183791--56183943 Score: 166
Period size: 54 Copynumber: 2.8 Consensus size: 54
56183781 CTCAATTTAC
* ** * * *
56183791 AAAATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATGGTTTGA
* **
56183845 AAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGA
1 AAAATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGA
* **
56183899 AAAATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACCC
1 AAAATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
56183944 TTGTGGGGTA
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.03
54 83 0.95
55 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGA
Done.