Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 112 of 208
Found at i:36782833 original size:27 final size:27
Alignment explanation
Indices: 36782801--36783165 Score: 296
Period size: 27 Copynumber: 13.5 Consensus size: 27
36782791 ATAGGTATAA
* * *
36782801 CAGTCATTTTACCTTATAGGGGAACTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* *
36782828 CTGTCATTTTACCCTATTGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* *
36782855 CAATCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* ** *
36782882 CAGTTATTTTACCCTATTTGGATATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* *
36782909 CGGTCCTTTTACCCTATAGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
** * *
36782936 TGGTTC-TTTTATCCTATTGGGGTATTT
1 CAG-TCATTTTACCCTATAGGGGTATTT
*
36782963 CAGTCATTTTACCTTAT-GAGGGTATTT
1 CAGTCATTTTACCCTATAG-GGGTATTT
* *
36782990 CAATCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* *
36783017 CACTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* * *
36783044 CGGTTATTTTACCCTAT-GAGGATATTT
1 CAGTCATTTTACCCTATAG-GGGTATTT
* *
36783071 CGGTCATTTTACCCTATTA-GGTTATTT
1 CAGTCATTTTACCCTA-TAGGGGTATTT
* * **
36783098 CTA-TCATTTT-CATCTATTAGGGTTAAAAT
1 C-AGTCATTTTAC-CCTA-TAGGGGT-ATTT
36783127 -AGTCATTTTACCCT-TCAGGGGTATTT
1 CAGTCATTTTACCCTAT-AGGGGTATTT
**
36783153 TTGTCATTTTACC
1 CAGTCATTTTACC
36783166 TATTTTGGGG
Statistics
Matches: 279, Mismatches: 44, Indels: 30
0.79 0.12 0.08
Matches are distributed among these distances:
26 8 0.03
27 251 0.90
28 17 0.06
29 3 0.01
ACGTcount: A:0.20, C:0.18, G:0.17, T:0.45
Consensus pattern (27 bp):
CAGTCATTTTACCCTATAGGGGTATTT
Found at i:36782891 original size:81 final size:81
Alignment explanation
Indices: 36782801--36783107 Score: 350
Period size: 81 Copynumber: 3.8 Consensus size: 81
36782791 ATAGGTATAA
* * *
36782801 CAGTCATTTTACCTTATAGGGGA-ACTTCTGTCATTTTACCCTATTGGGGTATTTCAATCATTTT
1 CAGTCATTTTACCCTAT-GGGGATATTTCGGTCATTTTACCCTATTGGGGTATTTCAATCATTTT
36782865 ACCCTATGGGGGTATTT
65 ACCCTATGGGGGTATTT
* ** * * ***
36782882 CAGTTATTTTACCCTATTTGGATATTTCGGTCCTTTTACCCTATAGGGGTATTTTGGTTC-TTTT
1 CAGTCATTTTACCCTATGGGGATATTTCGGTCATTTTACCCTATTGGGGTA-TTTCAATCATTTT
* *
36782946 ATCCTATTGGGGTATTT
65 ACCCTATGGGGGTATTT
* ** * *
36782963 CAGTCATTTTACCTTATGAGGG-TATTTCAATCATTTTACCCTATGGGGGTATTTCACTCATTTT
1 CAGTCATTTTACCCTATG-GGGATATTTCGGTCATTTTACCCTATTGGGGTATTTCAATCATTTT
36783027 ACCCTATGGGGGTATTT
65 ACCCTATGGGGGTATTT
* * * * * *
36783044 CGGTTATTTTACCCTATGAGGATATTTCGGTCATTTTACCCTATTAGGTTATTTCTATCATTTT
1 CAGTCATTTTACCCTATGGGGATATTTCGGTCATTTTACCCTATTGGGGTATTTCAATCATTTT
36783108 CATCTATTAG
Statistics
Matches: 184, Mismatches: 37, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
80 10 0.05
81 167 0.91
82 7 0.04
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.45
Consensus pattern (81 bp):
CAGTCATTTTACCCTATGGGGATATTTCGGTCATTTTACCCTATTGGGGTATTTCAATCATTTTA
CCCTATGGGGGTATTT
Found at i:36783435 original size:19 final size:19
Alignment explanation
Indices: 36783413--36783455 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
36783403 AAGACCATTG
36783413 GGCCCACAC-AGCCCATTTC
1 GGCCCA-ACGAGCCCATTTC
*
36783432 GGCCCAACGTGGCCCATTTC
1 GGCCCAACG-AGCCCATTTC
36783452 GGCC
1 GGCC
36783456 TAAGCCCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 6 0.29
20 13 0.62
ACGTcount: A:0.16, C:0.44, G:0.23, T:0.16
Consensus pattern (19 bp):
GGCCCAACGAGCCCATTTC
Found at i:36788269 original size:24 final size:25
Alignment explanation
Indices: 36788236--36788290 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
36788226 TTCCTGAGTG
* *
36788236 AATCCCTTTGAATTAGCTTTTAAC-
1 AATCCATTTGAATTAGCTTCTAACA
36788260 AATCCATTTGAATTAGCTTCTAACA
1 AATCCATTTGAATTAGCTTCTAACA
36788285 AATCCA
1 AATCCA
36788291 AACATTCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 22 0.79
25 6 0.21
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (25 bp):
AATCCATTTGAATTAGCTTCTAACA
Found at i:36790138 original size:8 final size:8
Alignment explanation
Indices: 36790125--36790149 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
36790115 TTTTAAATAA
36790125 TATTTTAT
1 TATTTTAT
36790133 TATTTTAT
1 TATTTTAT
36790141 TATTTTAT
1 TATTTTAT
36790149 T
1 T
36790150 GTTTAGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:36792734 original size:23 final size:22
Alignment explanation
Indices: 36792691--36792734 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
36792681 TTCTAAGTCG
36792691 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
36792714 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
36792735 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:36792984 original size:51 final size:50
Alignment explanation
Indices: 36792869--36793063 Score: 187
Period size: 51 Copynumber: 3.9 Consensus size: 50
36792859 TAATGATGTT
* * * * * *
36792869 CGGTTCACATAGTAGCCTACACGTAGTACTATACATGTGACCATTACCA-TC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA--AACATTC
* * * *
36792920 TGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAAC-TATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAACAT-TC
* * * * * *
36792971 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTT
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACATTC
*
36793021 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA
36793064 TCACTTTCAC
Statistics
Matches: 115, Mismatches: 25, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
50 44 0.38
51 69 0.60
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (50 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACATTC
Found at i:36793047 original size:101 final size:101
Alignment explanation
Indices: 36792876--36793060 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
36792866 GTTCGGTTCA
* * *
36792876 CATAGTAGCCTACACGTAGTACTATACATGTGACCATTACCATCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCTGATACACGTAGTAGCCTGCA
36792941 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* * * *
36792978 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTTCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCT-GATACACGTAGTAGCCTGCA
36793042 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
36793061 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 6 0.08
101 38 0.51
102 31 0.41
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCTGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:36796590 original size:40 final size:40
Alignment explanation
Indices: 36796530--36796615 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
36796520 AAATTGTAGT
36796530 TGTACTTTGAGTTAGCTTAAAAGCATTCATTCATTAGGTCC
1 TGTA-TTTGAGTTAGCTTAAAAGCATTCATTCATTAGGTCC
*
36796571 TGTATTTGAGTTAGCTTAAAAGCATTCATTCATTAGGTCG
1 TGTATTTGAGTTAGCTTAAAAGCATTCATTCATTAGGTCC
36796611 TGTAT
1 TGTAT
36796616 ACTTATGATT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 40 0.91
41 4 0.09
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.41
Consensus pattern (40 bp):
TGTATTTGAGTTAGCTTAAAAGCATTCATTCATTAGGTCC
Found at i:36797077 original size:27 final size:27
Alignment explanation
Indices: 36797039--36797121 Score: 123
Period size: 27 Copynumber: 3.1 Consensus size: 27
36797029 TTTTGATTAT
*
36797039 CCTATAGGAGCATTACGATCATTTTAC
1 CCTACAGGAGCATTACGATCATTTTAC
36797066 CCTACAGGAGCATTAC-AGTCATTTTAC
1 CCTACAGGAGCATTACGA-TCATTTTAC
* *
36797093 CCTACAGGGGCGTTACGATCATTTTAC
1 CCTACAGGAGCATTACGATCATTTTAC
36797120 CC
1 CC
36797122 ATTGAGGGTA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 1 0.02
27 49 0.96
28 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (27 bp):
CCTACAGGAGCATTACGATCATTTTAC
Found at i:36797141 original size:27 final size:27
Alignment explanation
Indices: 36797111--36797226 Score: 121
Period size: 27 Copynumber: 4.3 Consensus size: 27
36797101 GGCGTTACGA
*
36797111 TCATTTTACCCATT-GAGGGTATTTTGG
1 TCATTTTACCC-TTCGAGGGTATTTTAG
* *
36797138 TCATTTTACCCATTGGA-GGTA-TTTCG
1 TCATTTTACCC-TTCGAGGGTATTTTAG
* *
36797164 ATCATTTTACCCTTCGAGTGTATTATAG
1 -TCATTTTACCCTTCGAGGGTATTTTAG
*
36797192 TAATTTTACCCTTCGAGGGTATTTTAG
1 TCATTTTACCCTTCGAGGGTATTTTAG
*
36797219 TAATTTTA
1 TCATTTTA
36797227 TAATCTTTCT
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
26 8 0.10
27 64 0.83
28 5 0.06
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.45
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTTAG
Found at i:36797166 original size:54 final size:54
Alignment explanation
Indices: 36797054--36797215 Score: 143
Period size: 54 Copynumber: 3.0 Consensus size: 54
36797044 AGGAGCATTA
* * * * * ** *
36797054 CGATCATTTTACCCTAC-AGGAGCATTACAGTCATTTTACCCTAC-AGGGGCGTTA
1 CGATCATTTTACCCTTCGAGG-GTATTATAGTAATTTTACCCTTCGA-GGGTATTT
* * * *
36797108 CGATCATTTTACCCATT-GAGGGTATTTTGGTCATTTTACCCATTGGA-GGTATTT
1 CGATCATTTTACCC-TTCGAGGGTATTATAGTAATTTTACCC-TTCGAGGGTATTT
*
36797162 CGATCATTTTACCCTTCGAGTGTATTATAGTAATTTTACCCTTCGAGGGTATTT
1 CGATCATTTTACCCTTCGAGGGTATTATAGTAATTTTACCCTTCGAGGGTATTT
36797216 TAGTAATTTT
Statistics
Matches: 87, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
53 6 0.07
54 75 0.86
55 5 0.06
56 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (54 bp):
CGATCATTTTACCCTTCGAGGGTATTATAGTAATTTTACCCTTCGAGGGTATTT
Found at i:36810953 original size:16 final size:15
Alignment explanation
Indices: 36810913--36810959 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
36810903 AGATGATAAT
36810913 TATTAATATATAATTA
1 TATTAAT-TATAATTA
36810929 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
*
36810945 TATTAATTATTATTA
1 TATTAATTATAATTA
36810960 GCTTTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 9 0.33
16 17 0.63
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:36810958 original size:10 final size:11
Alignment explanation
Indices: 36810911--36810959 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
36810901 AAAGATGATA
36810911 ATTATTAATAT
1 ATTATTAATAT
* *
36810922 ATAATTATATCT
1 ATTATTA-ATAT
36810934 ATTA-TAATAT
1 ATTATTAATAT
36810944 A-TATTAAT-T
1 ATTATTAATAT
36810953 ATTATTA
1 ATTATTA
36810960 GCTTTATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
9 4 0.13
10 13 0.42
11 8 0.26
12 6 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTATTAATAT
Found at i:36810958 original size:22 final size:23
Alignment explanation
Indices: 36810911--36810959 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
36810901 AAAGATGATA
36810911 ATTATTAATATATAATTATATCT
1 ATTATTAATATATAATTATATCT
36810934 ATTA-TAATATAT-ATTA-AT-T
1 ATTATTAATATATAATTATATCT
36810953 ATTATTA
1 ATTATTA
36810960 GCTTTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.20
20 4 0.16
21 4 0.16
22 8 0.32
23 4 0.16
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTATTAATATATAATTATATCT
Found at i:36811569 original size:25 final size:25
Alignment explanation
Indices: 36811516--36811569 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
36811506 ATTTTCATTT
* *
36811516 AATTATCTAATTTTTCAATTTATTG
1 AATTATCTAATTTTTCAATTAATTA
36811541 AATTAT-TAATATTTT-ATATTAATTA
1 AATTATCTAAT-TTTTCA-ATTAATTA
36811566 AATT
1 AATT
36811570 TTTGAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (25 bp):
AATTATCTAATTTTTCAATTAATTA
Found at i:36813834 original size:30 final size:30
Alignment explanation
Indices: 36813779--36813835 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
36813769 GTTAAACGAT
**
36813779 AGCTCACCAGGTTAAAGTTTGTCAAGCTTG
1 AGCTCACCAGGTTAAAGTTCATCAAGCTTG
*
36813809 AGCTCACTAGGTTAAAGTTCATCAAGC
1 AGCTCACCAGGTTAAAGTTCATCAAGC
36813836 CCAAGCCAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (30 bp):
AGCTCACCAGGTTAAAGTTCATCAAGCTTG
Found at i:36823758 original size:10 final size:11
Alignment explanation
Indices: 36823733--36823757 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36823723 ATTTGGGAGC
36823733 AAAATGAGTGA
1 AAAATGAGTGA
36823744 AAAATGAGTGA
1 AAAATGAGTGA
36823755 AAA
1 AAA
36823758 TTAGACAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (11 bp):
AAAATGAGTGA
Found at i:36824892 original size:25 final size:23
Alignment explanation
Indices: 36824852--36824905 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
36824842 TAATTTAGCC
* *
36824852 ATTTTT-TATTTTATTTTATTTT
1 ATTTTTATATTTTATTTAATTTA
36824874 ATTTTTATATTTTTGATTTAATTTA
1 ATTTTTATA-TTTT-ATTTAATTTA
36824899 ATTTTTA
1 ATTTTTA
36824906 CACTTTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 6 0.22
23 2 0.07
24 4 0.15
25 15 0.56
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (23 bp):
ATTTTTATATTTTATTTAATTTA
Found at i:36825630 original size:12 final size:12
Alignment explanation
Indices: 36825613--36825643 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
36825603 CCCTCATCAT
36825613 AGGTTACCTTTG
1 AGGTTACCTTTG
36825625 AGGTTACCTTTG
1 AGGTTACCTTTG
*
36825637 GGGTTAC
1 AGGTTAC
36825644 AAGTTCAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.29, T:0.39
Consensus pattern (12 bp):
AGGTTACCTTTG
Found at i:36827753 original size:5 final size:5
Alignment explanation
Indices: 36827738--36827775 Score: 67
Period size: 5 Copynumber: 7.4 Consensus size: 5
36827728 TTATTGCATG
36827738 TTAATT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TT
1 TTAA-T TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TT
36827776 TAAAAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTAAT
Found at i:36828588 original size:28 final size:28
Alignment explanation
Indices: 36828547--36828670 Score: 198
Period size: 28 Copynumber: 4.5 Consensus size: 28
36828537 CTATTCAGTG
*
36828547 ACAGT-ACAGTGTGGGCCTTAGCTCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
36828574 ATAGTAATAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
36828602 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
36828630 ACAG-AATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
36828658 ACAGTAACAGTGT
1 ACAGTAACAGTGT
36828671 AGTGCAATAA
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
27 6 0.07
28 81 0.91
29 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:36828801 original size:26 final size:26
Alignment explanation
Indices: 36828772--36828845 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
36828762 ACACACCAAT
*
36828772 ATCGCAGCAAAGCTGCCAGTAAT-TG
1 ATCGCAGCAAAGCTGCCAGTAATAAG
*
36828797 CATCGCAGCAGAGCTGCCAGT-ATCAAG
1 -ATCGCAGCAAAGCTGCCAGTAAT-AAG
*
36828824 ATCGTAGCAAAGCTGCCAGTAA
1 ATCGCAGCAAAGCTGCCAGTAA
36828846 CAGTATATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.05
26 37 0.90
27 2 0.05
ACGTcount: A:0.32, C:0.26, G:0.24, T:0.18
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGTAATAAG
Found at i:36829120 original size:54 final size:53
Alignment explanation
Indices: 36829058--36829282 Score: 233
Period size: 54 Copynumber: 4.2 Consensus size: 53
36829048 AAGGCCATTA
* * * *
36829058 CAGTCATTTTATCTCCTA-GGGGTGTAAC-AGTCATTTTACCCTATAGGGTTATTT
1 CAGTCATTTTA-C-CCTATGGGGTATATCGA-TCATTTTACCCTATGGGGGTATTT
* * *
36829112 CAGTCATTTTACCCTATAAGGGCATTTCGATCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGTATATCGATCATTTTACCCTATGGGGGTATTT
** * * *
36829166 TGGTTATTTTACCCTATGGGGATATTTCGTTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGG-TATATCGATCATTTTACCCTATGGGGGTATTT
* *
36829220 CGGTCATTTTACCCTATGGGGGTAT-TC-AGTCATTTTATCCTATGGGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGTATATCGA-TCATTTTACCCTATGGGGGTATTT
36829273 CAGTCATTTT
1 CAGTCATTTT
36829283 CATCTATTGG
Statistics
Matches: 147, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
52 4 0.03
53 38 0.26
54 100 0.68
55 5 0.03
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (53 bp):
CAGTCATTTTACCCTATGGGGTATATCGATCATTTTACCCTATGGGGGTATTT
Found at i:36829289 original size:27 final size:27
Alignment explanation
Indices: 36829085--36829282 Score: 258
Period size: 27 Copynumber: 7.4 Consensus size: 27
36829075 AGGGGTGTAA
* *
36829085 CAGTCATTTTACCCTATAGGGTTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
** *
36829112 CAGTCATTTTACCCTATAAGGGCATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
36829139 C-GATCATTTTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
** * *
36829166 TGGTTATTTTACCCTATGGGGATATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
36829193 C-GTTCATTTTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
*
36829220 CGGTCATTTTACCCTATGGGGGTA-TT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
36829246 CAGTCATTTTATCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
36829273 CAGTCATTTT
1 CAGTCATTTT
36829283 CATCTATTGG
Statistics
Matches: 152, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
26 26 0.17
27 124 0.82
28 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTATTT
Found at i:36829294 original size:27 final size:26
Alignment explanation
Indices: 36829058--36829297 Score: 162
Period size: 27 Copynumber: 8.9 Consensus size: 26
36829048 AAGGCCATTA
* * * **
36829058 CAGTCATTTTATCTCCTAGGGGTGTAA
1 CAGTCATTTTATCT-ATGGGGGTATTT
* * *
36829085 CAGTCATTTTACCCTATAGGGTTATTT
1 CAGTCATTTTA-TCTATGGGGGTATTT
* ** *
36829112 CAGTCATTTTACCCTATAAGGGCATTT
1 CAGTCATTTTA-TCTATGGGGGTATTT
*
36829139 C-GATCATTTTACCCTATGGGGGTATTT
1 CAG-TCATTTTA-TCTATGGGGGTATTT
** * * *
36829166 TGGTTATTTTACCCTATGGGGATATTT
1 CAGTCATTTTA-TCTATGGGGGTATTT
*
36829193 C-GTTCATTTTACCCTATGGGGGTATTT
1 CAG-TCATTTTA-TCTATGGGGGTATTT
* *
36829220 CGGTCATTTTACCCTATGGGGGTA-TT
1 CAGTCATTTTA-TCTATGGGGGTATTT
36829246 CAGTCATTTTATCCTATGGGGGTATTT
1 CAGTCATTTTAT-CTATGGGGGTATTT
36829273 CAGTCATTTTCATCTATTGGGGGTA
1 CAGTCATTTT-ATCTA-TGGGGGTA
36829298 AAATAATCAT
Statistics
Matches: 184, Mismatches: 20, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
26 25 0.14
27 145 0.79
28 14 0.08
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (26 bp):
CAGTCATTTTATCTATGGGGGTATTT
Found at i:36829297 original size:81 final size:80
Alignment explanation
Indices: 36829060--36829282 Score: 272
Period size: 81 Copynumber: 2.8 Consensus size: 80
36829050 GGCCATTACA
* * *
36829060 GTCATTTTATCTCCTA-GGGGTGTA-ACAGTCATTTTACCCTATAGGGTTATTTCAGTCATTTTA
1 GTCATTTTA-C-CCTATGGGG-GTATTCAGTCATTTTACCCTATGGGGATATTTCAGTCATTTTA
** *
36829123 CCCTATAAGGGCATTTCG
63 CCCTATGGGGGTATTTCG
* ** *
36829141 ATCATTTTACCCTATGGGGGTATTTTGGTTATTTTACCCTATGGGGATATTTC-GTTCATTTTAC
1 GTCATTTTACCCTATGGGGGTA-TTCAGTCATTTTACCCTATGGGGATATTTCAG-TCATTTTAC
36829205 CCTATGGGGGTATTTCG
64 CCTATGGGGGTATTTCG
* *
36829222 GTCATTTTACCCTATGGGGGTATTCAGTCATTTTATCCTATGGGGGTATTTCAGTCATTTT
1 GTCATTTTACCCTATGGGGGTATTCAGTCATTTTACCCTATGGGGATATTTCAGTCATTTT
36829283 CATCTATTGG
Statistics
Matches: 121, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
79 7 0.06
80 38 0.31
81 76 0.63
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (80 bp):
GTCATTTTACCCTATGGGGGTATTCAGTCATTTTACCCTATGGGGATATTTCAGTCATTTTACCC
TATGGGGGTATTTCG
Found at i:36829343 original size:81 final size:81
Alignment explanation
Indices: 36829090--36829340 Score: 233
Period size: 81 Copynumber: 3.1 Consensus size: 81
36829080 TGTAACAGTC
* * ** * ** *
36829090 ATTTTACCCTATAGGGTTATTTCAG-TCATTTTACCCTATAAGGGCATTTCGATCATTTTACCCT
1 ATTTTACCCTATGGGGATATTTC-GTTCATTTTACCCTATGGGGGTAAATCAATCATTTTACCCT
36829154 ATGGGGGTATTTTGGTT
65 ATGGGGGTATTTTGGTT
** **
36829171 ATTTTACCCTATGGGGATATTTCGTTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTA
1 ATTTTACCCTATGGGGATATTTCGTTCATTTTACCCTATGGGGGTAAATCAATCATTTTACCCTA
** *
36829236 TGGGGGTA-TTCAGTC
66 TGGGGGTATTTTGGTT
* * * *
36829251 ATTTTATCCTATGGGGGTATTTCAG-TCATTTT-CATCTATTGGGGGTAAAAT-AATCATTTTAT
1 ATTTTACCCTATGGGGATATTTC-GTTCATTTTAC-CCTA-TGGGGGT-AAATCAATCATTTTAC
* *
36829313 CCTTTAGGGGTATTTTGGTT
62 CCTATGGGGGTATTTTGGTT
36829333 ATTTTACC
1 ATTTTACC
36829341 TATTTTGAGG
Statistics
Matches: 141, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
79 1 0.01
80 36 0.26
81 91 0.65
82 13 0.09
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (81 bp):
ATTTTACCCTATGGGGATATTTCGTTCATTTTACCCTATGGGGGTAAATCAATCATTTTACCCTA
TGGGGGTATTTTGGTT
Found at i:36831182 original size:11 final size:11
Alignment explanation
Indices: 36831166--36831204 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
36831156 GAACAATCAA
36831166 GAGAGAAAAGT
1 GAGAGAAAAGT
36831177 GAGAGAAAAGT
1 GAGAGAAAAGT
36831188 GAGAGAAAAGT
1 GAGAGAAAAGT
36831199 GA-AGAA
1 GAGAGAA
36831205 TGGATGGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 4 0.14
11 24 0.86
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.08
Consensus pattern (11 bp):
GAGAGAAAAGT
Found at i:36841676 original size:51 final size:51
Alignment explanation
Indices: 36841600--36841783 Score: 223
Period size: 51 Copynumber: 3.6 Consensus size: 51
36841590 AATGAACACG
* *
36841600 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGTCACA
* * * *
36841651 TGTGTAGTACTAAGTGAAGACTACTATGTGTACCGA-AAAGCT-TTGGTCAAA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA--TATTGGTCACA
* * * *
36841702 TGTGTAGTACTATGTGGAGGCTACTACGTGGACCG-TAAA-ACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA-TTGGTCACA
36841752 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
36841784 TCGAATGATA
Statistics
Matches: 112, Mismatches: 16, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
50 39 0.35
51 72 0.64
52 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGTCACA
Found at i:36841783 original size:101 final size:102
Alignment explanation
Indices: 36841600--36841788 Score: 265
Period size: 101 Copynumber: 1.9 Consensus size: 102
36841590 AATGAACACG
* * *
36841600 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGGACCGATAAATAATGATCACATGTGTAGTACTAAG
*
36841665 TGAAGACTACTATGTGTACCGAAAAGCTTTGGTCAAA
66 TGAAGACTACTACGTGTACCGAAAAGCTTTGGTCAAA
* * * *
36841702 TGTGTAGTACTATGTGGAGGCTACTACGTGGACCG-TAAA-ACTTGATCACGTGTGTAGTACTAT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGGACCGATAAATA-ATGATCACATGTGTAGTACTAA
* *
36841765 GTGAAGGCTACTACGTGTATCGAA
65 GTGAAGACTACTACGTGTACCGAA
36841789 TGATAATAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
100 1 0.01
101 43 0.57
102 32 0.42
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (102 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGGACCGATAAATAATGATCACATGTGTAGTACTAAG
TGAAGACTACTACGTGTACCGAAAAGCTTTGGTCAAA
Found at i:36856868 original size:32 final size:32
Alignment explanation
Indices: 36856831--36856907 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
36856821 ATGCATGTGT
* * **
36856831 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
36856863 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
36856895 GTAACTTTTCATA
1 GTAACTTTTCATA
36856908 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:36861377 original size:32 final size:32
Alignment explanation
Indices: 36861340--36861416 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
36861330 ATGCATGTGT
* * **
36861340 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
36861372 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
36861404 GTAACTTTTCATA
1 GTAACTTTTCATA
36861417 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:36866678 original size:25 final size:25
Alignment explanation
Indices: 36866650--36866702 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
36866640 GAAATTTCAA
*
36866650 TTAATCAACCTAGAGTTAATTGCTC
1 TTAATCAACATAGAGTTAATTGCTC
*
36866675 TTAATCAACATAGAGTTAGTTGCTC
1 TTAATCAACATAGAGTTAATTGCTC
36866700 TTA
1 TTA
36866703 CTCTCGAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (25 bp):
TTAATCAACATAGAGTTAATTGCTC
Found at i:36867619 original size:73 final size:72
Alignment explanation
Indices: 36867474--36867645 Score: 254
Period size: 73 Copynumber: 2.4 Consensus size: 72
36867464 AAAATAAGTA
36867474 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCCCGAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCCCGAGCTTT
36867539 CGGGGAT
66 CGGGGAT
* * * * ***
36867546 TTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGGCCAATGACGCTGTTTTGTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTCCCGAGCTT
36867611 TCGGGGAT
65 TCGGGGAT
* *
36867619 TTAGCGGCGTTTTTAAGAACGCGCCGC
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC
36867646 TAACATTCAG
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
72 26 0.29
73 63 0.71
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (72 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCCCGAGCTTT
CGGGGAT
Found at i:36867694 original size:114 final size:114
Alignment explanation
Indices: 36867545--36868082 Score: 799
Period size: 114 Copynumber: 4.7 Consensus size: 114
36867535 CTTTCGGGGA
* * * *
36867545 TTTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGGCCAATGACGCTGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
* ***
36867610 TTCGGGGATTTAGCGGCGTTTTTAAGAACGCGCCGCTAACATTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * **
36867659 TTTAGTGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACAACGATGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
* ** *
36867724 TTCGGGGATTTAGCGGCGTTTTAAAGAAATTGCCGCTAATGCTCAAGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
*
36867773 GTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
36867838 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* *
36867887 TTTAGCGGCGTTTTTGGGGAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTATTT-TGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGT-TTTGTGAGC
* * *
36867951 TTTCGGGGATTTAGCGGCGCTTTTAAGAAAGAGCCGCTAATGTTCAGGGC
65 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * ** * *
36868001 TTTAGCAGCGTTTTTGAGAAAGCGCCGCAAATAATTCTAAGCCCAATGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
*
36868066 TTTGGGGATTTAGCGGC
66 TTCGGGGATTTAGCGGC
36868083 CAAAAATGCT
Statistics
Matches: 385, Mismatches: 37, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
113 3 0.01
114 379 0.98
115 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:36869599 original size:97 final size:92
Alignment explanation
Indices: 36869481--36869672 Score: 253
Period size: 97 Copynumber: 2.0 Consensus size: 92
36869471 AATTTTTAGC
*
36869481 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAA-TATTTTGCGGCGTTTTTATGAAAAGCG
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAA-AATTA-TTT---G-GTTTTTAT-AAAAACG
* *
36869545 CCGCAAATAATAAATCAATTAATAAAAACA-AAA
59 CCGCAAAAAATAAATCAATTAATAAAAAAATAAA
* *
36869578 ATAGCAAAGCGGCGTCATTTTGTTCAAAATGAAAAATTATTTGTTTTTTATAAAAACGCCGCAAA
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAAATTATTTGGTTTTTATAAAAACGCCGCAAA
*
36869643 AAATAAATCAATTTATAAAAAAATAAA
66 AAATAAATCAATTAATAAAAAAATAAA
36869670 ATA
1 ATA
36869673 AAAAACTTTT
Statistics
Matches: 87, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
91 33 0.38
92 13 0.15
93 1 0.01
96 5 0.06
97 35 0.40
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (92 bp):
ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAAATTATTTGGTTTTTATAAAAACGCCGCAAA
AAATAAATCAATTAATAAAAAAATAAA
Found at i:36869927 original size:106 final size:107
Alignment explanation
Indices: 36869578--36869932 Score: 500
Period size: 107 Copynumber: 3.3 Consensus size: 107
36869568 AAAAACAAAA
* *** *
36869578 ATAGCAAAGCGGCGTCATTTTGTTCAAAATGAAA-AATTATTTGTTTTTTATAAAAACGCCGCAA
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGA--CGTTTTTTATAAAAACGCCGCAA
*
36869642 AAAATAAATCAATTTATAAAAAAATAAAATAAAAAACTTTTAGC
64 AAAATAAATCAATTTATAAAAAAATAAAATAAAAAATTTTTAGC
*
36869686 ATAGCAAAACGGCGTCATTTTGTTGAAAATGAAATAGCGACGTTTTTTATAAAAACGCCGCAAAA
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGACGTTTTTTATAAAAACGCCGCAAAA
* *
36869751 AATAAATCAATATATAAAAAAATAAAATAAAAAATCTTTAGC
66 AATAAATCAATTTATAAAAAAATAAAATAAAAAATTTTTAGC
* * * *
36869793 AGAGCAAAACGGCGTCATTTTGTTCAAAATGACATAGCGGCATTTTTTTATAAAAACGCCGC-AA
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGAC-GTTTTTTATAAAAACGCCGCAAA
* * *
36869857 AAATAAATCAATTTAT-AAAAAACAAAATAAAAAATTTTTCGA
65 AAATAAATCAATTTATAAAAAAATAAAATAAAAAATTTTTAGC
* *
36869899 ATAGAAAAATGGCGTCATTTTGTTCAAAATGAAA
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAA
36869933 ATTTTATTAC
Statistics
Matches: 222, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
106 52 0.23
107 117 0.53
108 51 0.23
109 2 0.01
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (107 bp):
ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGACGTTTTTTATAAAAACGCCGCAAAA
AATAAATCAATTTATAAAAAAATAAAATAAAAAATTTTTAGC
Found at i:36872341 original size:13 final size:13
Alignment explanation
Indices: 36872311--36872410 Score: 60
Period size: 13 Copynumber: 7.6 Consensus size: 13
36872301 ACTTTAGTGT
* *
36872311 ATTACTTGAATAT
1 ATTACTTAAATAA
*
36872324 TTTACTTAAATAA
1 ATTACTTAAATAA
*
36872337 ATTACTTAAATAC
1 ATTACTTAAATAA
*
36872350 ATTACTT-ACTAAA
1 ATTACTTAAAT-AA
** **
36872363 ATTGGGTTAAATTT
1 ATT-ACTTAAATAA
36872377 ATTACTTAAA-AA
1 ATTACTTAAATAA
* *
36872389 TGTTACTTAAATAC
1 -ATTACTTAAATAA
36872403 ATTACTTA
1 ATTACTTA
36872411 CTAAAATTTA
Statistics
Matches: 63, Mismatches: 19, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
12 2 0.03
13 53 0.84
14 6 0.10
15 2 0.03
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (13 bp):
ATTACTTAAATAA
Found at i:36872364 original size:26 final size:26
Alignment explanation
Indices: 36872335--36872418 Score: 91
Period size: 26 Copynumber: 3.2 Consensus size: 26
36872325 TTACTTAAAT
36872335 AAATTACTTAAATACATTACTTACTA
1 AAATTACTTAAATACATTACTTACTA
** **
36872361 AAATTGGGTTAAATTTATTACTTA--A
1 AAATT-ACTTAAATACATTACTTACTA
36872386 AAATGTTACTTAAATACATTACTTACTA
1 AAA--TTACTTAAATACATTACTTACTA
36872414 AAATT
1 AAATT
36872419 TAAGTATATA
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
25 4 0.09
26 21 0.47
27 16 0.36
28 4 0.09
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (26 bp):
AAATTACTTAAATACATTACTTACTA
Found at i:36872491 original size:18 final size:19
Alignment explanation
Indices: 36872450--36872493 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
36872440 AAATAACTTA
36872450 TTAAAATATATTGAATTAC
1 TTAAAATATATTGAATTAC
*
36872469 TTAAATATATATT-ATTTAC
1 TTAAA-ATATATTGAATTAC
36872488 -TAAAAT
1 TTAAAAT
36872494 TGAGTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 2 0.09
18 4 0.17
19 10 0.43
20 7 0.30
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (19 bp):
TTAAAATATATTGAATTAC
Found at i:36874412 original size:22 final size:22
Alignment explanation
Indices: 36874369--36874412 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
36874359 TTGTGGCGCT
**
36874369 AAAAAGCGCCGCTAAATGCCTA
1 AAAAAGCGCCGCTAAAAACCTA
36874391 AAAAAGCGCCGCTAAAAACCTA
1 AAAAAGCGCCGCTAAAAACCTA
36874413 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.27, G:0.16, T:0.11
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAACCTA
Found at i:36875361 original size:20 final size:19
Alignment explanation
Indices: 36875336--36875376 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
36875326 TTTAACCCTG
*
36875336 AACCTCAAACCCTAAATCCC
1 AACCTCAAACCATAAA-CCC
36875356 AACCTCAAACCATAAACCC
1 AACCTCAAACCATAAACCC
36875375 AA
1 AA
36875377 AGCTTGAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.12
Consensus pattern (19 bp):
AACCTCAAACCATAAACCC
Found at i:36875464 original size:21 final size:20
Alignment explanation
Indices: 36875425--36875469 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
36875415 TTAATTTAGT
36875425 GTTTGGGGTTTAAGTTTAAG
1 GTTTGGGGTTTAAGTTTAAG
*
36875445 GTTTGGGGTTTAGGGTTTAAG
1 GTTTGGGGTTTA-AGTTTAAG
36875466 GTTT
1 GTTT
36875470 AGGATTCAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.47
Consensus pattern (20 bp):
GTTTGGGGTTTAAGTTTAAG
Found at i:36875468 original size:14 final size:14
Alignment explanation
Indices: 36875425--36875472 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
36875415 TTAATTTAGT
*
36875425 GTTTGGGGTTTAA-
1 GTTTAGGGTTTAAG
* **
36875438 GTTTAAGGTTTGGG
1 GTTTAGGGTTTAAG
36875452 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
36875466 GTTTAGG
1 GTTTAGG
36875473 ATTCAAGATT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 9 0.33
14 18 0.67
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:36875987 original size:3 final size:3
Alignment explanation
Indices: 36875979--36876011 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
36875969 GGTGAAAATG
36875979 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
36876012 GGATTTGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:36876186 original size:98 final size:97
Alignment explanation
Indices: 36876062--36876255 Score: 343
Period size: 98 Copynumber: 2.0 Consensus size: 97
36876052 AAAAGCTTGA
36876062 GAACTTGGTCTCTAAGTAATGAAAATTTGTATTGAAAGTTGATGCATTGATAAGCTAGTAAACAT
1 GAACTTGGTCTCTAAGTAATGAAAATTTGTATTGAAAGTTGATGCATTGATAAGCTAGTAAACAT
*
36876127 AAGGTGTATTAACAACTATGGCTCAATATAGC
66 AACGTGTATTAACAACTATGGCTCAATATAGC
* * *
36876159 GAACTTGGTCTATTAAGTAATGAAAATTTGTATTGAAAGTTGATGCATTGATTAGCTAGTAAGCA
1 GAACTTGGTCT-CTAAGTAATGAAAATTTGTATTGAAAGTTGATGCATTGATAAGCTAGTAAACA
36876224 TAACGTGTATTAACAACTATGGCTCAATATAG
65 TAACGTGTATTAACAACTATGGCTCAATATAG
36876256 AAACATAGTT
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
97 11 0.12
98 81 0.88
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (97 bp):
GAACTTGGTCTCTAAGTAATGAAAATTTGTATTGAAAGTTGATGCATTGATAAGCTAGTAAACAT
AACGTGTATTAACAACTATGGCTCAATATAGC
Found at i:36878640 original size:18 final size:18
Alignment explanation
Indices: 36878617--36878652 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
36878607 TAGATTATGG
36878617 TATGTGGGTAAAAATTTT
1 TATGTGGGTAAAAATTTT
*
36878635 TATGTGGGTAAAAGTTTT
1 TATGTGGGTAAAAATTTT
36878653 ACGTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (18 bp):
TATGTGGGTAAAAATTTT
Found at i:36878652 original size:17 final size:18
Alignment explanation
Indices: 36878617--36878653 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
36878607 TAGATTATGG
*
36878617 TATGTGGGTAAAAATTTT
1 TATGTGGGTAAAAAGTTT
36878635 TATGTGGGT-AAAAGTTT
1 TATGTGGGTAAAAAGTTT
36878652 TA
1 TA
36878654 CGTAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.43
Consensus pattern (18 bp):
TATGTGGGTAAAAAGTTT
Found at i:36880088 original size:27 final size:27
Alignment explanation
Indices: 36880058--36880235 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
36880048 ATATTGAGCC
* *
36880058 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
36880085 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
36880112 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
36880140 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
36880167 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
36880194 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
36880221 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36880236 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:36880170 original size:55 final size:54
Alignment explanation
Indices: 36880058--36880235 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
36880048 ATATTGAGCC
* * * * *
36880058 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
36880112 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
36880167 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
36880221 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36880236 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:36887487 original size:27 final size:27
Alignment explanation
Indices: 36887457--36887634 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
36887447 ATATTGAGCC
* *
36887457 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
36887484 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
36887511 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
36887539 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
36887566 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
36887593 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
36887620 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36887635 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:36887569 original size:55 final size:54
Alignment explanation
Indices: 36887457--36887634 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
36887447 ATATTGAGCC
* * * * *
36887457 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
36887511 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
36887566 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
36887620 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36887635 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:36890198 original size:81 final size:81
Alignment explanation
Indices: 36890064--36890289 Score: 303
Period size: 81 Copynumber: 2.8 Consensus size: 81
36890054 AATTGTTTCT
* * * * * *
36890064 TGAATTGCACATACGTGTCCCTGTTTATACTTCGGTACTCCTAAATTGCACATACGTGCCCCTAT
1 TGAATTACACATACGTGCCCCTGTTTGTACTTTGATAC-CCTGAATTGCACATACGTGCCCCTAT
36890129 TTGTACTTCGGTACCCC
65 TTGTACTTCGGTACCCC
* *
36890146 TGAATTACACATACGTG-CCCTTTTTGTACTTTGATACCGCTGAATTGCACATACGTTCCCCTAT
1 TGAATTACACATACGTGCCCCTGTTTGTACTTTGATACC-CTGAATTGCACATACGTGCCCCTAT
*
36890210 TTGTACTTTGGTACCCC
65 TTGTACTTCGGTACCCC
* *
36890227 TGAATTTCACATACGTGCCCCTGTTTGTAC-TTCAGTACCCCTGAATTGCACATACGTGCCCCT
1 TGAATTACACATACGTGCCCCTGTTTGTACTTTGA-TA-CCCTGAATTGCACATACGTGCCCCT
36890290 GTTTACACTC
Statistics
Matches: 128, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
80 1 0.01
81 74 0.58
82 51 0.40
83 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (81 bp):
TGAATTACACATACGTGCCCCTGTTTGTACTTTGATACCCTGAATTGCACATACGTGCCCCTATT
TGTACTTCGGTACCCC
Found at i:36890247 original size:21 final size:21
Alignment explanation
Indices: 36890223--36890290 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
36890213 TACTTTGGTA
36890223 CCCCTGAATTTCACATACGTG
1 CCCCTGAATTTCACATACGTG
* * *
36890244 CCCCTG--TTTGTAC-TTCAGTA
1 CCCCTGAATTT-CACATAC-GTG
*
36890264 CCCCTGAATTGCACATACGTG
1 CCCCTGAATTTCACATACGTG
36890285 CCCCTG
1 CCCCTG
36890291 TTTACACTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
19 5 0.14
20 10 0.29
21 16 0.46
22 4 0.11
ACGTcount: A:0.19, C:0.35, G:0.16, T:0.29
Consensus pattern (21 bp):
CCCCTGAATTTCACATACGTG
Found at i:36890281 original size:122 final size:122
Alignment explanation
Indices: 36890064--36890287 Score: 351
Period size: 122 Copynumber: 1.8 Consensus size: 122
36890054 AATTGTTTCT
* *
36890064 TGAATTGCACATACGTGTCCCTGTTTATACTTCGGTACTCCTAAATTGCACATACGTGCCCCTAT
1 TGAATTGCACATACGTGTCCCTATTTATACTTCGGTACCCCTAAATTGCACATACGTGCCCCTAT
*
36890129 TTGTACTTCGGTACCCCTGAATTACACATACGTGCCCTTTTTGTACTTTGATACCGC
66 TTGTACTTCAGTACCCCTGAATTACACATACGTGCCCTTTTTGTACTTTGATACCGC
* * * * *
36890186 TGAATTGCACATACGT-TCCCCTATTTGTACTTTGGTACCCCTGAATTTCACATACGTGCCCCTG
1 TGAATTGCACATACGTGT-CCCTATTTATACTTCGGTACCCCTAAATTGCACATACGTGCCCCTA
*
36890250 TTTGTACTTCAGTACCCCTGAATTGCACATACGTGCCC
65 TTTGTACTTCAGTACCCCTGAATTACACATACGTGCCC
36890288 CTGTTTACAC
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
121 1 0.01
122 91 0.99
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (122 bp):
TGAATTGCACATACGTGTCCCTATTTATACTTCGGTACCCCTAAATTGCACATACGTGCCCCTAT
TTGTACTTCAGTACCCCTGAATTACACATACGTGCCCTTTTTGTACTTTGATACCGC
Found at i:36890290 original size:41 final size:41
Alignment explanation
Indices: 36890064--36890293 Score: 318
Period size: 41 Copynumber: 5.6 Consensus size: 41
36890054 AATTGTTTCT
* * *
36890064 TGAATTGCACATACGTGTCCCTGTTTATACTTCGGTACTCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
36890105 TAAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
36890146 TGAATTACACATACGTG-CCCTTTTTGTACTTTGATACCGC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
36890186 TGAATTGCACATACGTTCCCCTATTTGTACTTTGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
36890227 TGAATTTCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
36890268 TGAATTGCACATACGTGCCCCTGTTT
1 TGAATTGCACATACGTGCCCCTGTTT
36890294 ACACTCTAGT
Statistics
Matches: 166, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 34 0.20
41 132 0.80
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:36897865 original size:11 final size:12
Alignment explanation
Indices: 36897849--36897877 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
36897839 TTCTTAATGG
36897849 TGAATG-ATATT
1 TGAATGAATATT
36897860 TGAATGAATATT
1 TGAATGAATATT
36897872 TGAATG
1 TGAATG
36897878 TTCTTATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (12 bp):
TGAATGAATATT
Found at i:36902102 original size:3 final size:3
Alignment explanation
Indices: 36902094--36902146 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
36902084 AACTAATACA
* * * * * *
36902094 AAT AAT AAT ACT AAT AAT TAT AGT AAC ATT AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
36902142 AAT AA
1 AAT AA
36902147 AAAATAGTTA
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:36904115 original size:219 final size:219
Alignment explanation
Indices: 36903723--36904177 Score: 698
Period size: 219 Copynumber: 2.1 Consensus size: 219
36903713 ACTGCACCAC
* * ** *
36903723 TAGGGAAATAAGATCTGTAATTCTTTTGTCTATTCCACTGTAATATCAGGGAGATAAGACCTGAT
1 TAGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCACTGTAATATCAGGGAGATAAGACCTAAT
* ** *
36903788 GCGATCTACTCTACTGTATCTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTTCACTATAATC
66 GCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTATAATC
* *
36903853 TCAGGGAAATAGGATTACTGGCTTTAATCTTCTTCGTTGTAATCTCAGGGAGATAAGATTCACCA
131 TCAGGGAAATAGGATTACTGGCTTCAATCTTCTTCGCTGTAATCTCAGGGAGATAAGATTCACCA
*
36903918 TTTTCAAT-TAGCTCCACTATTGCT
196 TCTTCAATCT-GCTCCACTATTGCT
* * *
36903942 TAGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCGCTGTAATCTCAGGGAGATGAGACCTAAT
1 TAGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCACTGTAATATCAGGGAGATAAGACCTAAT
* *
36904007 GCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTATTCCACTCCACTGTAATC
66 GCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTATAATC
36904072 TCAGGGAAATAGGATTACTGGCTTCAAT-TTGCTTCGCTGTAATCTCAGGGAGATAAGATTCACC
131 TCAGGGAAATAGGATTACTGGCTTCAATCTT-CTTCGCTGTAATCTCAGGGAGATAAGATTCACC
*
36904136 ATCTTCGATCTGCTCCACTATTGCT
195 ATCTTCAATCTGCTCCACTATTGCT
* *
36904161 CAGGGAGACAAGATCTG
1 TAGGGAGATAAGATCTG
36904178 TTATATTCAC
Statistics
Matches: 214, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
218 2 0.01
219 211 0.99
220 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (219 bp):
TAGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCACTGTAATATCAGGGAGATAAGACCTAAT
GCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTATAATC
TCAGGGAAATAGGATTACTGGCTTCAATCTTCTTCGCTGTAATCTCAGGGAGATAAGATTCACCA
TCTTCAATCTGCTCCACTATTGCT
Found at i:36923907 original size:21 final size:23
Alignment explanation
Indices: 36923862--36923908 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
36923852 TCACCTGCAA
* *
36923862 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
36923885 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
36923906 TAA
1 TAA
36923909 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:36924589 original size:7 final size:7
Alignment explanation
Indices: 36924577--36924603 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
36924567 GTCATTGCTA
36924577 GTTGTTT
1 GTTGTTT
36924584 GTTGTTT
1 GTTGTTT
36924591 GTTGTTT
1 GTTGTTT
36924598 GTTGTT
1 GTTGTT
36924604 GCAAGTGCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.30, T:0.70
Consensus pattern (7 bp):
GTTGTTT
Found at i:36931771 original size:41 final size:41
Alignment explanation
Indices: 36931712--36931911 Score: 163
Period size: 41 Copynumber: 4.9 Consensus size: 41
36931702 CGATTTTTAA
* *
36931712 ACCTTTAGCGGCGTTTTTA-CTTTAGCGCCGCTAAT-TCTCCG
1 ACCTTTAGCGGCGTTTTTATC-TGAGCGCCACTAATGT-TCCG
* *
36931753 ATCTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGTTCTG
1 ACCTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGTTCCG
* * * * *
36931794 GCCTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAAAGTT-CG
1 ACCTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGTTCCG
*** * ** *
36931834 TGTTTTTAGTGGCGTTTTTATCTGAGCGCCACTAATACTCTG
1 -ACCTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGTTCCG
* * * *
36931876 GCCTTTAGCGGCGTTTTATATGTAAGCGCCGCTAAT
1 ACCTTTAGCGGCGTTTT-TATCTGAGCGCCACTAAT
36931912 AGTAACAAAA
Statistics
Matches: 127, Mismatches: 27, Indels: 9
0.78 0.17 0.06
Matches are distributed among these distances:
40 1 0.01
41 108 0.85
42 18 0.14
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (41 bp):
ACCTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGTTCCG
Found at i:36931850 original size:82 final size:83
Alignment explanation
Indices: 36931756--36931910 Score: 258
Period size: 82 Copynumber: 1.9 Consensus size: 83
36931746 TTCTCCGATC
** *
36931756 TTTAGCGGCGTTTTTATCTGAGCGCCACTAATGTTCTGGCCTTTAGCGGCGTTTT-TGTCTAAGC
1 TTTAGCGGCGTTTTTATCTGAGCGCCACTAATACTCTGGCCTTTAGCGGCGTTTTATATCTAAGC
36931820 GCCGCTAAAGTTCGTGTT
66 GCCGCTAAAGTTCGTGTT
* *
36931838 TTTAGTGGCGTTTTTATCTGAGCGCCACTAATACTCTGGCCTTTAGCGGCGTTTTATATGTAAGC
1 TTTAGCGGCGTTTTTATCTGAGCGCCACTAATACTCTGGCCTTTAGCGGCGTTTTATATCTAAGC
36931903 GCCGCTAA
66 GCCGCTAA
36931911 TAGTAACAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
82 52 0.78
83 15 0.22
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.37
Consensus pattern (83 bp):
TTTAGCGGCGTTTTTATCTGAGCGCCACTAATACTCTGGCCTTTAGCGGCGTTTTATATCTAAGC
GCCGCTAAAGTTCGTGTT
Found at i:36932463 original size:14 final size:14
Alignment explanation
Indices: 36932399--36932465 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
36932389 GACTGGGTAT
*
36932399 AGATTTAAGGTTTG
1 AGATTTAGGGTTTG
* *
36932413 GGATTTAAGG-TT-
1 AGATTTAGGGTTTG
*
36932425 A-ATTTAGGGGTTG
1 AGATTTAGGGTTTG
* *
36932438 GGGTTTAGGGGTTTG
1 AGATTTA-GGGTTTG
36932453 AGATTTAGGGTTT
1 AGATTTAGGGTTT
36932466 CAACGATCAT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
11 7 0.17
12 2 0.05
13 2 0.05
14 19 0.46
15 11 0.27
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (14 bp):
AGATTTAGGGTTTG
Found at i:36937247 original size:16 final size:16
Alignment explanation
Indices: 36937186--36937264 Score: 74
Period size: 16 Copynumber: 5.0 Consensus size: 16
36937176 ACACATAGCC
* *
36937186 TACATGACTTATATAA
1 TACATAACTTACATAA
* *
36937202 TACACAACTTAAATAA
1 TACATAACTTACATAA
*
36937218 TTTAAATAACTTACATAA
1 --TACATAACTTACATAA
36937236 TACATAACTTACAT--
1 TACATAACTTACATAA
36937250 T-CATAACTTACATAA
1 TACATAACTTACATAA
36937265 ACTTATATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
13 12 0.23
14 1 0.02
16 26 0.50
18 13 0.25
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.34
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:36937256 original size:13 final size:15
Alignment explanation
Indices: 36937223--36937263 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
36937213 AATAATTTAA
36937223 ATAACTTACATAATAC
1 ATAACTTACAT-ATAC
36937239 ATAACTTACAT-T-C
1 ATAACTTACATATAC
36937252 ATAACTTACATA
1 ATAACTTACATA
36937264 AACTTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAACTTACATATAC
Found at i:36937370 original size:25 final size:22
Alignment explanation
Indices: 36937342--36937395 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 22
36937332 ATACATAAAT
36937342 TACATAACTTAATTAATTAATATTA
1 TACATAACTT-A--AATTAATATTA
*
36937367 TACATAACTTACATTAATATTA
1 TACATAACTTAAATTAATATTA
36937389 TACATAA
1 TACATAA
36937396 ATTACATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 17 0.61
24 1 0.04
25 10 0.36
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
TACATAACTTAAATTAATATTA
Found at i:36937385 original size:22 final size:22
Alignment explanation
Indices: 36937352--36937402 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
36937342 TACATAACTT
36937352 AATTA-ATTAATATTATACATA
1 AATTACATTAATATTATACATA
*
36937373 ACTTACATTAATATTATACATA
1 AATTACATTAATATTATACATA
36937395 AATTACAT
1 AATTACAT
36937403 AACTTAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTACATTAATATTATACATA
Found at i:36937389 original size:56 final size:56
Alignment explanation
Indices: 36937327--36937436 Score: 211
Period size: 56 Copynumber: 2.0 Consensus size: 56
36937317 GGGAGATGTG
36937327 ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTA
1 ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTA
*
36937383 ATATTATACATAAATTACATAACTTAGTTAATTAATATTATACATAACTTACAT
1 ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACAT
36937437 AACATTTTAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.41
Consensus pattern (56 bp):
ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTA
Found at i:36937476 original size:9 final size:9
Alignment explanation
Indices: 36937462--36937592 Score: 70
Period size: 9 Copynumber: 15.9 Consensus size: 9
36937452 TGCATAATAA
36937462 ATAACTTAC
1 ATAACTTAC
36937471 ATAACTTAC
1 ATAACTTAC
36937480 ATAA--TAC
1 ATAACTTAC
*
36937487 ATAACTTAT
1 ATAACTTAC
* *
36937496 ATGACTTAT
1 ATAACTTAC
36937505 ATAACTTAC
1 ATAACTTAC
*
36937514 AT-A---GC
1 ATAACTTAC
* *
36937519 ATAATTTTC
1 ATAACTTAC
36937528 ATAA--TAC
1 ATAACTTAC
*
36937535 ACAACTTAC
1 ATAACTTAC
** *
36937544 ATAGTTTTC
1 ATAACTTAC
*
36937553 ATAA--TAA
1 ATAACTTAC
36937560 ATAACTTAC
1 ATAACTTAC
36937569 ATAA--TAC
1 ATAACTTAC
36937576 ATAACTTAC
1 ATAACTTAC
*
36937585 ATAGCTTA
1 ATAACTTA
36937593 ATTATACTTA
Statistics
Matches: 93, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
5 3 0.03
6 1 0.01
7 24 0.26
8 1 0.01
9 64 0.69
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (9 bp):
ATAACTTAC
Found at i:36937483 original size:25 final size:25
Alignment explanation
Indices: 36937454--36937579 Score: 91
Period size: 25 Copynumber: 5.2 Consensus size: 25
36937444 TAACAATTTG
36937454 CATAATAAATAACTTACATAACTTA
1 CATAATAAATAACTTACATAACTTA
* * *
36937479 CATAATACATAACTTATATGACTT-
1 CATAATAAATAACTTACATAACTTA
* * * * *
36937503 -AT-ATAACTTACATAGCATAATTTT
1 CATAATAAATAACTTA-CATAACTTA
* * ** *
36937527 CATAATACACAACTTACATAGTTTT
1 CATAATAAATAACTTACATAACTTA
36937552 CATAATAAATAACTTACATAA--TA
1 CATAATAAATAACTTACATAACTTA
36937575 CATAA
1 CATAA
36937580 CTTACATAGC
Statistics
Matches: 77, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
22 8 0.10
23 13 0.17
25 49 0.64
26 7 0.09
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (25 bp):
CATAATAAATAACTTACATAACTTA
Found at i:36937487 original size:16 final size:16
Alignment explanation
Indices: 36937468--36937587 Score: 78
Period size: 16 Copynumber: 7.9 Consensus size: 16
36937458 ATAAATAACT
36937468 TACATAACTTACATAA
1 TACATAACTTACATAA
* *
36937484 TACATAACTTATATGACT
1 TACATAACTTACAT-A-A
*
36937502 TATATAACTTACAT-A
1 TACATAACTTACATAA
* * *
36937517 -GCATAATTTTCATAA
1 TACATAACTTACATAA
* *
36937532 TACACAACTTACATAG
1 TACATAACTTACATAA
36937548 T---T---TT-CATAA
1 TACATAACTTACATAA
*
36937557 TAAATAACTTACATAA
1 TACATAACTTACATAA
36937573 TACATAACTTACATA
1 TACATAACTTACATA
36937588 GCTTAATTAT
Statistics
Matches: 76, Mismatches: 17, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
9 5 0.07
10 2 0.03
12 1 0.01
14 9 0.12
15 3 0.04
16 43 0.57
17 1 0.01
18 12 0.16
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.36
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:36943124 original size:66 final size:65
Alignment explanation
Indices: 36943017--36943165 Score: 210
Period size: 66 Copynumber: 2.3 Consensus size: 65
36943007 GAGGAAATTA
* *
36943017 CACAACTTAAAGCAGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAACAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
36943081 G
65 G
* * *
36943082 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAACAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
36943147 G
65 G
*
36943148 CACCAGCTTAAAGCAGAT
1 CA-CAACTTAAAGCAGAT
36943166 ATGGCAGCAA
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
65 2 0.03
66 68 0.92
67 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAACAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:36943173 original size:66 final size:66
Alignment explanation
Indices: 36943018--36943187 Score: 191
Period size: 66 Copynumber: 2.6 Consensus size: 66
36943008 AGGAAATTAC
* ** * *
36943018 ACAACTTAAAGCAGAGGCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
1 ACAACTGAAAGCAGATACAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
36943083 T
66 T
* *
36943084 ACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCCAG
1 ACAACTGAAAGCAGATACAGCAGCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG
36943148 C-
65 CT
* * ** * *
36943149 ACCAGCTTAAAGCAGATATGGCAGCAAGAGAAGCAGAGG
1 A-CAACTGAAAGCAGATACAGCAGCGAGAGAAGCTGAGG
36943188 CGGCAGCTAG
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 85 0.94
67 4 0.04
ACGTcount: A:0.42, C:0.19, G:0.26, T:0.13
Consensus pattern (66 bp):
ACAACTGAAAGCAGATACAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
T
Found at i:36943192 original size:21 final size:21
Alignment explanation
Indices: 36943168--36943247 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 21
36943158 AAGCAGATAT
*
36943168 GGCAGCAAGAGAAGCAGAGGC
1 GGCAGCGAGAGAAGCAGAGGC
* * *
36943189 GGCAGCTAGAGAAGTACAGGC
1 GGCAGCGAGAGAAGCAGAGGC
* * *
36943210 TGCAGTGAGGGAAGCAGAGGC
1 GGCAGCGAGAGAAGCAGAGGC
* *
36943231 TGCAGCGAGGGAAGCAG
1 GGCAGCGAGAGAAGCAG
36943248 GGCAGCGTCA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.33, C:0.17, G:0.44, T:0.06
Consensus pattern (21 bp):
GGCAGCGAGAGAAGCAGAGGC
Found at i:36943618 original size:43 final size:43
Alignment explanation
Indices: 36943552--36943906 Score: 243
Period size: 43 Copynumber: 8.2 Consensus size: 43
36943542 ATCTGCCAAA
* * ** *
36943552 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCAGGGTC
* * *
36943595 TTTAGCGACGTTTGTGGAAAAAGCGCCACTAAAGATCATGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCAGGGTC
* ** * *
36943638 TTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGATTAGGTTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCAGGGTC
* *** * **
36943681 TTTAGTGGCGTTTTGTGGTTGAAGCGCCGCTATAGATCATAGTC
1 TTTAGCGGCG-TTTGTGGAAAAAGCGCCGCTAAAGATCAGGGTC
* * * *
36943725 TATT-GCGGCGTTT-TAAGG-GAAACCGCCGCTAAAGATTAGGTTC
1 T-TTAGCGGCGTTTGT--GGAAAAAGCGCCGCTAAAGATCAGGGTC
* ** * * *
36943768 TTTAGTGGCGTTTGTGGTCAAAGTGCCGGTATAGATCAGGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCAGGGTC
* * * * ** *
36943811 TATT-GCGGCGTTTGAGAAAAAAACGCCGCTAAAGACCCTGATC
1 T-TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCAGGGTC
* * * * *
36943854 TATAGCGGCGCTTCTAGCACAAA-CGCCGCTAAAGATCAGGGTC
1 TTTAGCGGCGTTTGT-GGAAAAAGCGCCGCTAAAGATCAGGGTC
36943897 TTTAGCGGCG
1 TTTAGCGGCG
36943907 CTTCCACTAA
Statistics
Matches: 235, Mismatches: 67, Indels: 20
0.73 0.21 0.06
Matches are distributed among these distances:
42 6 0.03
43 187 0.80
44 40 0.17
45 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCAGGGTC
Found at i:36943745 original size:87 final size:86
Alignment explanation
Indices: 36943571--36943823 Score: 328
Period size: 87 Copynumber: 2.9 Consensus size: 86
36943561 GTTTTTGGTC
* * * * * * *
36943571 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGACGTTTGTGGAAAAAGCGCCACTAAAGATCATGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTATAGATCATGG
**
36943636 TCT-TTAGCGGCGTTTTTGGGG
66 TCTATT-GCGGCGTTTTAAGGG
** *
36943657 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTTGTGGTTGAAGCGCCGCTATAGATCATA
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCG-TTTGTGGTAAAAGCGCCGCTATAGATCATG
36943722 GTCTATTGCGGCGTTTTAAGGG
65 GTCTATTGCGGCGTTTTAAGGG
* * * * *
36943744 AAACCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGTGCCGGTATAGATCAGGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTATAGATCATGG
36943809 TCTATTGCGGCGTTT
66 TCTATTGCGGCGTTT
36943824 GAGAAAAAAA
Statistics
Matches: 146, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
86 70 0.48
87 74 0.51
88 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTATAGATCATGG
TCTATTGCGGCGTTTTAAGGG
Found at i:36943838 original size:86 final size:86
Alignment explanation
Indices: 36943575--36943845 Score: 312
Period size: 86 Copynumber: 3.1 Consensus size: 86
36943565 TTGGTCAAAG
* * * * * * *
36943575 CGCCGCTAAAGATAAGGGTCTTTAGCGACGTTTGTGGAAAAAGCGCCACTAAAGATCATGGTCT-
1 CGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTATAGATCATGGTCTA
* * *
36943639 TTAGCGGCGTTTTTGGGGAAAG
66 TT-GCGGCGTTTTAGAGGAAAA
** *
36943661 CGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTTGTGGTTGAAGCGCCGCTATAGATCATAGTCT
1 CGCCGCTAAAGATTAGGTTCTTTAGTGGCG-TTTGTGGTAAAAGCGCCGCTATAGATCATGGTCT
*
36943726 ATTGCGGCGTTTTA-AGGGAAAC
65 ATTGCGGCGTTTTAGA-GGAAAA
* * * *
36943748 CGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGTGCCGGTATAGATCAGGGTCTA
1 CGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTATAGATCATGGTCTA
* **
36943813 TTGCGGCGTTTGAGAAAAAAA
66 TTGCGGCGTTTTAGAGGAAAA
36943834 CGCCGCTAAAGA
1 CGCCGCTAAAGA
36943846 CCCTGATCTA
Statistics
Matches: 158, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
86 82 0.52
87 74 0.47
88 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (86 bp):
CGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTATAGATCATGGTCTA
TTGCGGCGTTTTAGAGGAAAA
Found at i:36944058 original size:22 final size:22
Alignment explanation
Indices: 36944030--36944072 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
36944020 CTGCAGCGCT
*
36944030 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
*
36944052 AAAAAGCGTCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
36944073 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:36946172 original size:29 final size:29
Alignment explanation
Indices: 36946126--36946198 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
36946116 AAGTTTAGTC
* * *
36946126 ATTTGAGCATTTTGTAAAAAGTTTGACCTTT
1 ATTTGAGCA-TTT-TAAAAAATTTAACATTT
*
36946157 ATTTGACCATTTTAAAAAATTTAACATTT
1 ATTTGAGCATTTTAAAAAATTTAACATTT
*
36946186 ATTTTAGCATTTT
1 ATTTGAGCATTTT
36946199 TTATAAATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
29 25 0.69
30 3 0.08
31 8 0.22
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (29 bp):
ATTTGAGCATTTTAAAAAATTTAACATTT
Found at i:36950822 original size:27 final size:27
Alignment explanation
Indices: 36950792--36950843 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
36950782 ATTTAAGGTA
36950792 TCAGCATGCAAATAGGGAAGAAATGGG
1 TCAGCATGCAAATAGGGAAGAAATGGG
*
36950819 TCAGCATGCGAATAGGGAAGAAATG
1 TCAGCATGCAAATAGGGAAGAAATG
36950844 CTGACCCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.33, T:0.15
Consensus pattern (27 bp):
TCAGCATGCAAATAGGGAAGAAATGGG
Found at i:36952722 original size:16 final size:15
Alignment explanation
Indices: 36952697--36952727 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
36952687 TTAAAATTCA
36952697 ATGAATATTTAAATT
1 ATGAATATTTAAATT
36952712 ATGACATATTTAAATT
1 ATGA-ATATTTAAATT
36952728 GTGTTTGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (15 bp):
ATGAATATTTAAATT
Found at i:36957397 original size:34 final size:35
Alignment explanation
Indices: 36957359--36957425 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
36957349 TGTAAAATTT
*
36957359 TTTTCCGGAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGGAAAATGATTTACTGGAAAATATTTTAC
* *
36957393 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGGAAAATGATTTACTGGAAAATATTTT
36957426 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGGAAAATGATTTACTGGAAAATATTTTAC
Found at i:36957399 original size:20 final size:20
Alignment explanation
Indices: 36957374--36957413 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
36957364 CGGAAAATGA
*
36957374 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
36957394 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
36957414 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:36957429 original size:14 final size:15
Alignment explanation
Indices: 36957359--36957429 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 15
36957349 TGTAAAATTT
*
36957359 TTTTCCGGAAAATGA
1 TTTTCTGGAAAATGA
36957374 -TTTCTGGAAAATGTTTTA
1 TTTTCTGGAAAATG----A
*
36957392 CTTTTCTGTAAAATGA
1 -TTTTCTGGAAAATGA
*
36957408 TTTACTGGAAAAT-A
1 TTTTCTGGAAAATGA
36957422 TTTTCTGG
1 TTTTCTGG
36957430 TGTTTGATTG
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
14 20 0.44
15 11 0.24
16 1 0.02
18 1 0.02
20 12 0.27
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.44
Consensus pattern (15 bp):
TTTTCTGGAAAATGA
Found at i:36957525 original size:20 final size:20
Alignment explanation
Indices: 36957500--36957576 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
36957490 TCCGGAAAAG
36957500 TTGTTTTTACATATATTAAA
1 TTGTTTTTACATATATTAAA
*
36957520 TTGTTTTTACATATATATTAA
1 TTGTTTTTACATATAT-TAAA
** *
36957541 TAAATTTTT--ATATTTTAAA
1 T-TGTTTTTACATATATTAAA
36957560 TTGTTTTTACATATATT
1 TTGTTTTTACATATATT
36957577 GCAATGATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
18 5 0.11
19 4 0.09
20 27 0.60
21 4 0.09
22 5 0.11
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (20 bp):
TTGTTTTTACATATATTAAA
Found at i:36957600 original size:40 final size:40
Alignment explanation
Indices: 36957510--36957600 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 40
36957500 TTGTTTTTAC
* *
36957510 ATATATTAAATTGTTTTTACATATATATTAATAAATTTTT
1 ATATAATAAATTGTTTTTACATATATATCAATAAATTTTT
** * *
36957550 ATATTTTAAATTGTTTTTACATATAT-TGCAATGATTTATTT
1 ATATAATAAATTGTTTTTACATATATAT-CAATAAATT-TTT
36957591 ATA-AATAAAT
1 ATATAATAAAT
36957601 AAATCAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
39 1 0.02
40 36 0.84
41 6 0.14
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (40 bp):
ATATAATAAATTGTTTTTACATATATATCAATAAATTTTT
Found at i:36957615 original size:18 final size:18
Alignment explanation
Indices: 36957592--36957627 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36957582 GATTTATTTA
36957592 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
36957610 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
36957628 GGTTTAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:36958518 original size:14 final size:14
Alignment explanation
Indices: 36958499--36958528 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36958489 TTAACACTAA
*
36958499 TCAAAATAAGTGCT
1 TCAAAATAAGTCCT
36958513 TCAAAATAAGTCCT
1 TCAAAATAAGTCCT
36958527 TC
1 TC
36958529 CATAAACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (14 bp):
TCAAAATAAGTCCT
Found at i:36962818 original size:22 final size:23
Alignment explanation
Indices: 36962791--36962834 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
36962781 TTAGCGAACA
36962791 AAATATATAAATAT-AAATAAAC
1 AAATATATAAATATGAAATAAAC
* *
36962813 AAATATTTATATATGAAATAAA
1 AAATATATAAATATGAAATAAA
36962835 ATATAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (23 bp):
AAATATATAAATATGAAATAAAC
Found at i:36976089 original size:24 final size:24
Alignment explanation
Indices: 36976074--36976125 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
36976064 AATCAAAGTC
36976074 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
36976098 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
36976122 AAAT
1 AAAT
36976126 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:36978821 original size:40 final size:41
Alignment explanation
Indices: 36978716--36978861 Score: 176
Period size: 40 Copynumber: 3.6 Consensus size: 41
36978706 GCTACTCGTT
*
36978716 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* *
36978756 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* * * *
36978796 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAC-TCGCA
36978837 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36978862 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
39 4 0.04
40 74 0.81
41 13 0.14
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
Found at i:36980358 original size:56 final size:56
Alignment explanation
Indices: 36980291--36980406 Score: 214
Period size: 56 Copynumber: 2.1 Consensus size: 56
36980281 AGTTTATTGT
36980291 CCATGCTTCTTATTTTATTCTTCCATTAACACAACACGTTTCATGACATGTTTTGC
1 CCATGCTTCTTATTTTATTCTTCCATTAACACAACACGTTTCATGACATGTTTTGC
* *
36980347 CCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTGC
1 CCATGCTTCTTATTTTATTCTTCCATTAACACAACACGTTTCATGACATGTTTTGC
36980403 CCAT
1 CCAT
36980407 CACCCTTTGT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
CCATGCTTCTTATTTTATTCTTCCATTAACACAACACGTTTCATGACATGTTTTGC
Found at i:36987371 original size:39 final size:40
Alignment explanation
Indices: 36987254--36987438 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
36987244 GCTACTCGTT
* *
36987254 CAAATGCCTTCGGGACATAGCCCCG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
36987294 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
36987334 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
36987373 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
* *
36987414 CAAA-ACCTTAGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36987439 CATCATTCGA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 76 0.61
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:36988932 original size:56 final size:56
Alignment explanation
Indices: 36988865--36988984 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
36988855 TATTAGTTTA
36988865 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
36988921 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
36988977 TTGCCCAT
1 TTGCCCAT
36988985 CACCCTTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:36992450 original size:24 final size:24
Alignment explanation
Indices: 36992435--36992486 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
36992425 AATCAAAGTC
36992435 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
36992459 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
36992483 AAAT
1 AAAT
36992487 CCTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:36995060 original size:39 final size:39
Alignment explanation
Indices: 36995014--36995089 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
36995004 GAGAGAAAAT
*
36995014 AAATCAATTTTTGCAATATCATCTATCTTTTTATGAACC
1 AAATCAATTTTTGCAATATCATCTAACTTTTTATGAACC
36995053 AAATCAATTTTTGCAATATCATCTAACTTTTTATGAA
1 AAATCAATTTTTGCAATATCATCTAACTTTTTATGAA
36995090 GCATTGGGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (39 bp):
AAATCAATTTTTGCAATATCATCTAACTTTTTATGAACC
Found at i:36996748 original size:38 final size:38
Alignment explanation
Indices: 36996692--36996779 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
36996682 TCAACCCAAG
* * *
36996692 GTCTTGAGACATAGGGGTTAGTATCTCAAAAAATCTAT
1 GTCTCGAGACATAAGGGTTAGTATCTCAAAAAATATAT
*
36996730 GTCTCGAGACATAAGGGTTAGTATTTCAAAAAATATAT
1 GTCTCGAGACATAAGGGTTAGTATCTCAAAAAATATAT
36996768 GTCTCGAGACAT
1 GTCTCGAGACAT
36996780 GGTCCAATTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (38 bp):
GTCTCGAGACATAAGGGTTAGTATCTCAAAAAATATAT
Found at i:36998458 original size:13 final size:13
Alignment explanation
Indices: 36998440--36998467 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36998430 ATAGAATAAG
36998440 GTTTTTAAATTTA
1 GTTTTTAAATTTA
36998453 GTTTTTAAATTTA
1 GTTTTTAAATTTA
36998466 GT
1 GT
36998468 GAATTTCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (13 bp):
GTTTTTAAATTTA
Found at i:37008250 original size:15 final size:17
Alignment explanation
Indices: 37008225--37008273 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 17
37008215 TATGTCACCA
*
37008225 GGCCATATGTCTCACAC
1 GGCCATGTGTCTCACAC
*
37008242 GG-C-TGTGTCGC-CA-
1 GGCCATGTGTCTCACAC
37008255 GGCCATGTGTCTCACAC
1 GGCCATGTGTCTCACAC
37008272 GG
1 GG
37008274 TTGAGTCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
13 2 0.08
14 3 0.12
15 13 0.52
16 3 0.12
17 4 0.16
ACGTcount: A:0.16, C:0.33, G:0.29, T:0.22
Consensus pattern (17 bp):
GGCCATGTGTCTCACAC
Found at i:37008256 original size:30 final size:30
Alignment explanation
Indices: 37008207--37008273 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
37008197 ATACTAGGGA
*
37008207 CACACGACTATGTCACCAGGCCATATGTCT
1 CACACGGCTATGTCACCAGGCCATATGTCT
* * *
37008237 CACACGGCTGTGTCGCCAGGCCATGTGTCT
1 CACACGGCTATGTCACCAGGCCATATGTCT
37008267 CACACGG
1 CACACGG
37008274 TTGAGTCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.21, C:0.34, G:0.24, T:0.21
Consensus pattern (30 bp):
CACACGGCTATGTCACCAGGCCATATGTCT
Found at i:37018137 original size:7 final size:7
Alignment explanation
Indices: 37018122--37018194 Score: 67
Period size: 7 Copynumber: 10.4 Consensus size: 7
37018112 TTTATTCCTA
*
37018122 AATTCTC
1 AATTTTC
37018129 AATTTTC
1 AATTTTC
* *
37018136 AATCTCC
1 AATTTTC
37018143 AATTTTC
1 AATTTTC
37018150 AATTTT-
1 AATTTTC
37018156 ATATTTTC
1 A-ATTTTC
*
37018164 AATCTTC
1 AATTTTC
* *
37018171 AAATTTA
1 AATTTTC
*
37018178 AATTTTT
1 AATTTTC
37018185 AATTTTC
1 AATTTTC
37018192 AAT
1 AAT
37018195 CCTCAATCCT
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
6 1 0.02
7 50 0.96
8 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (7 bp):
AATTTTC
Found at i:37018162 original size:28 final size:28
Alignment explanation
Indices: 37018120--37018195 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
37018110 TTTTTATTCC
* * *
37018120 TAAATTCTCAATTTTCAATCTCCAATTT
1 TAAATTTTTAATTTTCAATCTCCAAATT
* *
37018148 TCAA-TTTTATATTTTCAATCTTCAAATT
1 TAAATTTTTA-ATTTTCAATCTCCAAATT
37018176 TAAATTTTTAATTTTCAATC
1 TAAATTTTTAATTTTCAATC
37018196 CTCAATCCTC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 3 0.08
28 32 0.80
29 5 0.12
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (28 bp):
TAAATTTTTAATTTTCAATCTCCAAATT
Found at i:37018166 original size:21 final size:21
Alignment explanation
Indices: 37018122--37018194 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
37018112 TTTATTCCTA
* * * *
37018122 AATTCTCAATTTTCAATCTCC
1 AATTTTCAATTTTAAATTTTC
*
37018143 AATTTTCAATTTTATATTTTC
1 AATTTTCAATTTTAAATTTTC
* * *
37018164 AATCTTCAAATTTAAATTTTT
1 AATTTTCAATTTTAAATTTTC
37018185 AATTTTCAAT
1 AATTTTCAAT
37018195 CCTCAATCCT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTTTCAATTTTAAATTTTC
Found at i:37018200 original size:7 final size:7
Alignment explanation
Indices: 37018190--37018216 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
37018180 TTTTTAATTT
37018190 TCAATCC
1 TCAATCC
37018197 TCAATCC
1 TCAATCC
37018204 TCAATCC
1 TCAATCC
37018211 TCAATC
1 TCAATC
37018217 TACAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.41, G:0.00, T:0.30
Consensus pattern (7 bp):
TCAATCC
Found at i:37018736 original size:7 final size:7
Alignment explanation
Indices: 37018724--37018749 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
37018714 CCTAAATTCA
37018724 CAATCTT
1 CAATCTT
37018731 CAATCTT
1 CAATCTT
37018738 CAATCTT
1 CAATCTT
37018745 CAATC
1 CAATC
37018750 CCCAATCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (7 bp):
CAATCTT
Found at i:37024026 original size:25 final size:25
Alignment explanation
Indices: 37023998--37024133 Score: 89
Period size: 24 Copynumber: 5.6 Consensus size: 25
37023988 ATACGAGTAC
* *
37023998 ATAACGGGAAGCTCTTTTGAGCCAT
1 ATAACGGGAAGCTCATGTGAGCCAT
* *
37024023 ATAACGGGAAGATCATGTGAGTCAT
1 ATAACGGGAAGCTCATGTGAGCCAT
* * * * *
37024048 GTAATGGGAAGCTCAAGAGAGCCAA
1 ATAACGGGAAGCTCATGTGAGCCAT
* * * *
37024073 AT-TCAGAAAGCTCATGCGAGCCA-
1 ATAACGGGAAGCTCATGTGAGCCAT
* * * *
37024096 ATATCGGGAAGTTCAAGCGAGCCA-
1 ATAACGGGAAGCTCATGTGAGCCAT
*
37024120 ATATCGGGAAGCTC
1 ATAACGGGAAGCTC
37024134 CGAAAAGCCA
Statistics
Matches: 87, Mismatches: 23, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
23 2 0.02
24 45 0.52
25 40 0.46
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (25 bp):
ATAACGGGAAGCTCATGTGAGCCAT
Found at i:37024115 original size:24 final size:24
Alignment explanation
Indices: 37024053--37024133 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
37024043 GTCATGTAAT
*
37024053 GGGAAGCTCAAGAGAGCCAA-ATTC
1 GGGAAGCTCAAGCGAGCCAATA-TC
* * *
37024077 AGAAAGCTCATGCGAGCCAATATC
1 GGGAAGCTCAAGCGAGCCAATATC
*
37024101 GGGAAGTTCAAGCGAGCCAATATC
1 GGGAAGCTCAAGCGAGCCAATATC
37024125 GGGAAGCTC
1 GGGAAGCTC
37024134 CGAAAAGCCA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
24 46 0.98
25 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.28, T:0.15
Consensus pattern (24 bp):
GGGAAGCTCAAGCGAGCCAATATC
Found at i:37024167 original size:25 final size:25
Alignment explanation
Indices: 37024127--37024193 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
37024117 CCAATATCGG
* * *
37024127 GAAGCTCCGAAAAGCCA-TTAACCGA
1 GAAGCTCCTAAGAGCCAGTT-ACCAA
* *
37024152 GAAGCTCTTAAGAGCCAGTTATCAA
1 GAAGCTCCTAAGAGCCAGTTACCAA
37024177 GAAGCTCCTAAGAGCCA
1 GAAGCTCCTAAGAGCCA
37024194 ATGTTCAGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 33 0.94
26 2 0.06
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.16
Consensus pattern (25 bp):
GAAGCTCCTAAGAGCCAGTTACCAA
Found at i:37024314 original size:25 final size:25
Alignment explanation
Indices: 37024251--37024315 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
37024241 CATTAATCGA
* * *
37024251 GAAGCTCGCAAGAACCATATAACGG
1 GAAGCTCGTAAGAGCCAAATAACGG
* *
37024276 GAAGCTCATAAGAGCCAAATATCGG
1 GAAGCTCGTAAGAGCCAAATAACGG
*
37024301 GACGCTCGTAAGAGC
1 GAAGCTCGTAAGAGC
37024316 TGCGGTGTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (25 bp):
GAAGCTCGTAAGAGCCAAATAACGG
Found at i:37026142 original size:19 final size:19
Alignment explanation
Indices: 37026118--37026182 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
37026108 AATGCATCCT
37026118 ATGTGACGCGTTTTCACTG
1 ATGTGACGCGTTTTCACTG
* * *
37026137 ATGTGATGTTTCCTGTATC-CT-
1 ATGTGACG---CGT-TTTCACTG
37026158 ATGTGACGCGTTTTCACTG
1 ATGTGACGCGTTTTCACTG
37026177 ATGTGA
1 ATGTGA
37026183 TGTTTCCTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
17 3 0.09
18 4 0.12
19 13 0.38
21 7 0.21
22 4 0.12
23 3 0.09
ACGTcount: A:0.17, C:0.18, G:0.25, T:0.40
Consensus pattern (19 bp):
ATGTGACGCGTTTTCACTG
Found at i:37026160 original size:40 final size:40
Alignment explanation
Indices: 37026113--37026193 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
37026103 GTAAAAATGC
37026113 ATCCTATGTGACGCGTTTTCACTGATGTGATGTTTCCTGT
1 ATCCTATGTGACGCGTTTTCACTGATGTGATGTTTCCTGT
37026153 ATCCTATGTGACGCGTTTTCACTGATGTGATGTTTCCTGT
1 ATCCTATGTGACGCGTTTTCACTGATGTGATGTTTCCTGT
37026193 A
1 A
37026194 GGATGTGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (40 bp):
ATCCTATGTGACGCGTTTTCACTGATGTGATGTTTCCTGT
Found at i:37027018 original size:30 final size:30
Alignment explanation
Indices: 37026984--37027046 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
37026974 AAAAGTTGGT
37026984 AAAAAAAATTTT-GGG-CCCTTAAAAACTA
1 AAAAAAAATTTTGGGGCCCCTTAAAAACTA
* *
37027012 AAAAAAATTTTTGGGGCCCCTTAAAAACTG
1 AAAAAAAATTTTGGGGCCCCTTAAAAACTA
37027042 AAAAA
1 AAAAA
37027047 TAATATTTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 11 0.35
29 3 0.10
30 17 0.55
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.24
Consensus pattern (30 bp):
AAAAAAAATTTTGGGGCCCCTTAAAAACTA
Found at i:37027063 original size:31 final size:30
Alignment explanation
Indices: 37026999--37027064 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
37026989 AAATTTTGGG
* * **
37026999 CCCTTAAAAACTAAAAAAAATTTTTGGGGC
1 CCCTTAAAAACTAAAAAAAATATTTCGAAC
*
37027029 CCCTTAAAAACTGAAAAATAATATTTCGAAC
1 CCCTTAAAAACT-AAAAAAAATATTTCGAAC
37027060 CCCTT
1 CCCTT
37027065 TCAGCCTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.27
Consensus pattern (30 bp):
CCCTTAAAAACTAAAAAAAATATTTCGAAC
Found at i:37027456 original size:22 final size:20
Alignment explanation
Indices: 37027424--37027471 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
37027414 AAATAATGTT
37027424 AAAA-TTTTATAAAAATATTA
1 AAAATTTTTATAAAAATA-TA
**
37027444 AAAATTTTATATAAACTTATA
1 AAAATTTT-TATAAAAATATA
37027465 AAAATTT
1 AAAATTT
37027472 ATAAATATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.17
21 12 0.50
22 8 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTTTTATAAAAATATA
Found at i:37027497 original size:10 final size:10
Alignment explanation
Indices: 37027394--37027613 Score: 93
Period size: 10 Copynumber: 22.4 Consensus size: 10
37027384 CATTTTTCTA
*
37027394 ATAAAAAATC
1 ATAAAAAATT
37027404 ATAAAAAA--
1 ATAAAAAATT
*
37027412 ATAAATAATGT
1 ATAAAAAAT-T
**
37027423 -TAAAATTTT
1 ATAAAAAATT
37027432 ATAAAAATATT
1 ATAAAAA-ATT
**
37027443 A-AAAATTTT
1 ATAAAAAATT
* *
37027452 ATATAAACTT
1 ATAAAAAATT
*
37027462 ATAAAAATTT
1 ATAAAAAATT
*
37027472 AT-AAATATGT
1 ATAAAAAAT-T
37027482 AT--AAAATT
1 ATAAAAAATT
37027490 ATAAAAAAATT
1 AT-AAAAAATT
* *
37027501 ATAAAACATC
1 ATAAAAAATT
*
37027511 CT-AAAAATT
1 ATAAAAAATT
*
37027520 ATAAAAAA-A
1 ATAAAAAATT
*
37027529 AGT-TAAAATT
1 A-TAAAAAATT
* *
37027539 -TATAAATTT
1 ATAAAAAATT
*
37027548 ATAAAAAAATAG
1 AT-AAAAAAT-T
* *
37027560 AAAAAAAATC
1 ATAAAAAATT
*
37027570 ATAAAAACTT
1 ATAAAAAATT
**
37027580 ATAATGAATT
1 ATAAAAAATT
37027590 ATAAAAAATT
1 ATAAAAAATT
37027600 ATAAAAAATT
1 ATAAAAAATT
37027610 ATAA
1 ATAA
37027614 TTTTTAAAAA
Statistics
Matches: 154, Mismatches: 39, Indels: 34
0.68 0.17 0.15
Matches are distributed among these distances:
8 11 0.07
9 29 0.19
10 90 0.58
11 23 0.15
12 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:37027622 original size:25 final size:25
Alignment explanation
Indices: 37027589--37027661 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
37027579 TATAATGAAT
*
37027589 TATAAAAAATTATAAAAAATTATA-A
1 TATATAAAATTATAAAAAATTA-ACA
* * * *
37027614 TTTTTAAAAATATAAAATATTAACA
1 TATATAAAATTATAAAAAATTAACA
37027639 TATATATAAATTATTAAAAAATT
1 TATATA-AAATTA-TAAAAAATT
37027662 CATTTATTGA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
24 1 0.03
25 22 0.61
26 5 0.14
27 8 0.22
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (25 bp):
TATATAAAATTATAAAAAATTAACA
Found at i:37028071 original size:37 final size:36
Alignment explanation
Indices: 37028030--37028181 Score: 107
Period size: 37 Copynumber: 4.1 Consensus size: 36
37028020 TTTTATAGTA
*
37028030 TTTATAAGTTT-TTATGATTTTATATAATTTTTATAAG
1 TTTAT-AGTTTATTATAATTTT-TATAATTTTTATAAG
* * * *
37028067 TTTATA-TTTTTTAAATATTTTTA-ATATATTTTATTAT
1 TTTATAGTTTATTATA-ATTTTTATA-AT-TTTTATAAG
*
37028104 TTTCATAATTTATTATAAGTTTTTTATAA-TTTTATAAG
1 TTT-ATAGTTTATTATAA--TTTTTATAATTTTTATAAG
* *
37028142 CTTTAT-GTTTGTTATAACTTTTATAATTTTATATAAG
1 -TTTATAGTTTATTATAATTTTTATAATTTT-TATAAG
37028179 TTT
1 TTT
37028182 TTAATATGAA
Statistics
Matches: 92, Mismatches: 11, Indels: 25
0.72 0.09 0.20
Matches are distributed among these distances:
35 12 0.13
36 14 0.15
37 35 0.38
38 13 0.14
39 10 0.11
40 7 0.08
41 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (36 bp):
TTTATAGTTTATTATAATTTTTATAATTTTTATAAG
Found at i:37028132 original size:11 final size:10
Alignment explanation
Indices: 37028030--37028136 Score: 66
Period size: 10 Copynumber: 11.1 Consensus size: 10
37028020 TTTTATAGTA
*
37028030 TTTATAAGTT
1 TTTATAATTT
*
37028040 TTTATGATTT
1 TTTATAATTT
*
37028050 TATATAA-TT
1 TTTATAATTT
*
37028059 TTTATAA--G
1 TTTATAATTT
37028067 TTTAT-ATTT
1 TTTATAATTT
37028076 TTTA-AATATT
1 TTTATAAT-TT
*
37028086 TTTA-ATATAT
1 TTTATA-ATTT
*
37028096 TTTATTA-TT
1 TTTATAATTT
*
37028105 TTCATAATTT
1 TTTATAATTT
*
37028115 ATTATAAGTTT
1 TTTATAA-TTT
37028126 TTTATAATTT
1 TTTATAATTT
37028136 T
1 T
37028137 ATAAGCTTTA
Statistics
Matches: 74, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
7 1 0.01
8 5 0.07
9 20 0.27
10 37 0.50
11 11 0.15
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.64
Consensus pattern (10 bp):
TTTATAATTT
Done.