Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 86 of 230
Found at i:23946166 original size:126 final size:126
Alignment explanation
Indices: 23945941--23946586 Score: 931
Period size: 126 Copynumber: 5.1 Consensus size: 126
23945931 GGCCAAACAT
*
23945941 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTTCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
23946006 CTACTTGAAGCGTTTTTGACACTATTTTTTCAAAACTGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAACTGTCTTCTCAAAATTATTTTTTCAG
* * *
23946067 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCCTTTTTCAGTAATTTTGCTGACAGCGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
23946132 CTGCTTAAAGCGTTTTTGACACTATTTGTTCAAAAAC-GTCTTTTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTC-AAAACTGTCTTCTCAAAATTATTTTTTCAG
*
23946193 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCA-TCAATTTTGCTGATAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAGTGCAT
* * *
23946257 CCTGCTTGAAGCGGTTTTAACACTATTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
65 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAACTGTCTTCTCAAAATTATTTTTTCAG
* * ** * *
23946319 GAACTACTATAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCAACAATTTTGTTGGCAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
** * *
23946384 CTGCTTGAAGTATTTTTGACACTATTTGTTTAGAAA-TGTCTTCTCAAAATTATTTTTTCAA
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCA-AAACTGTCTTCTCAAAATTATTTTTTCAG
* * * * *
23946445 GAACTACTGTAG-AAAAGAGCATCCACATGGGAGCTTTTTTCATTAATTTTGTTGACAGTGCTTC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * * * * *
23946509 CTTCTTGAAGCGTTTTTGGCACTATTTGTTTAGAACTGTCTTTTCAAAATTGTTTTTTCAA
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAACTGTCTTCTCAAAATTATTTTTTCAG
23946570 GAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
23946587 AAAAACCAAA
Statistics
Matches: 468, Mismatches: 45, Indels: 14
0.89 0.09 0.03
Matches are distributed among these distances:
124 2 0.00
125 113 0.24
126 346 0.74
127 7 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAACTGTCTTCTCAAAATTATTTTTTCAG
Found at i:23946705 original size:34 final size:32
Alignment explanation
Indices: 23946658--23946757 Score: 101
Period size: 34 Copynumber: 2.9 Consensus size: 32
23946648 TATTTTAAAA
*
23946658 AAAAAAAACTAAACCCAATTTTAATTAATTTTCTT
1 AAAAACAA-TAAACCCAA-TTTAATTAATTTT-TT
23946693 AAAAACAATAAACCCAAATTTAATTAATTTATTT
1 AAAAACAATAAACCC-AATTTAATTAATTT-TTT
* ** *
23946727 AAAACCCCTAAACCTTAATTTAATTAATTTT
1 AAAAACAATAAACC-CAATTTAATTAATTTT
23946758 GAAAAAAGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
33 1 0.02
34 46 0.81
35 10 0.18
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (32 bp):
AAAAACAATAAACCCAATTTAATTAATTTTTT
Found at i:23946875 original size:21 final size:21
Alignment explanation
Indices: 23946809--23946879 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
23946799 TAAAACCTAG
23946809 AACCCTAAATTATTTTAACAA
1 AACCCTAAATTATTTTAACAA
* ** **
23946830 AATCCTAAACCTTA--CAAACCT
1 AACCCTAAA--TTATTTTAACAA
23946851 AACCCTAAATTATTTTAACAA
1 AACCCTAAATTATTTTAACAA
23946872 AACCCTAA
1 AACCCTAA
23946880 CCCTAAAAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
19 3 0.08
21 30 0.83
23 3 0.08
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.28
Consensus pattern (21 bp):
AACCCTAAATTATTTTAACAA
Found at i:23946894 original size:42 final size:42
Alignment explanation
Indices: 23946800--23946894 Score: 129
Period size: 42 Copynumber: 2.2 Consensus size: 42
23946790 AAAAATTCCT
* *
23946800 AAAACCTAGAACCCTAAATTATTTTAACAAAATCCTAAACCTTA
1 AAAACCT--AACCCTAAATTATTTTAACAAAACCCTAAACCCTA
*
23946844 CAAACCTAACCCTAAATTATTTTAACAAAACCCT-AACCCTA
1 AAAACCTAACCCTAAATTATTTTAACAAAACCCTAAACCCTA
23946885 AAAATCCTAA
1 AAAA-CCTAA
23946895 ACTAAAAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 9 0.20
42 31 0.67
44 6 0.13
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.25
Consensus pattern (42 bp):
AAAACCTAACCCTAAATTATTTTAACAAAACCCTAAACCCTA
Found at i:23947226 original size:19 final size:20
Alignment explanation
Indices: 23947198--23947240 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
23947188 GTCATATAAA
*
23947198 AATT-TAATTTTAAA-ATTT
1 AATTATAATTTAAAACATTT
23947216 AATTATAATTTAAAACATTT
1 AATTATAATTTAAAACATTT
23947236 -ATTAT
1 AATTAT
23947241 TATTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 14 0.64
20 4 0.18
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTATAATTTAAAACATTT
Found at i:23947249 original size:19 final size:20
Alignment explanation
Indices: 23947212--23947249 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
23947202 TAATTTTAAA
*
23947212 ATTTAATTATAATTTAAAAC
1 ATTTAATTATAATTAAAAAC
*
23947232 ATTT-ATTATTATTAAAAA
1 ATTTAATTATAATTAAAAA
23947250 TCTCTTAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTAATTATAATTAAAAAC
Found at i:23955202 original size:15 final size:16
Alignment explanation
Indices: 23955182--23955217 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
23955172 ATAAAAGCAT
23955182 AACATAAAAA-TATCA
1 AACATAAAAAGTATCA
23955197 AACATAAAAAGTATCA
1 AACATAAAAAGTATCA
*
23955213 TACAT
1 AACAT
23955218 TAGTTTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.61, C:0.14, G:0.03, T:0.22
Consensus pattern (16 bp):
AACATAAAAAGTATCA
Found at i:23955243 original size:30 final size:30
Alignment explanation
Indices: 23955198--23955267 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
23955188 AAAATATCAA
*
23955198 ACAT-AAAAAGTATCATACATTAGTTTTAC
1 ACATAAAAAAGCATCATACATTAGTTTTAC
23955227 ACATAAAAAAGCATCATACATTAGTTTTAC
1 ACATAAAAAAGCATCATACATTAGTTTTAC
*
23955257 ACGTAAAAAAG
1 ACATAAAAAAG
23955268 TAGTATAGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 4 0.11
30 34 0.89
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.29
Consensus pattern (30 bp):
ACATAAAAAAGCATCATACATTAGTTTTAC
Found at i:23961735 original size:42 final size:42
Alignment explanation
Indices: 23961676--23961773 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
23961666 ACGATTCAAG
* * *
23961676 TTAGTGAGTTACACGGCCTAGCACACAGGTGTGTGGGGCATC
1 TTAGTGAGTTACACGGCCTAGAACACAGGCGTCTGGGGCATC
* * *
23961718 TTAGTAAGTTGCACGGCCTGGAACACAGGCGTCTGGGGCATC
1 TTAGTGAGTTACACGGCCTAGAACACAGGCGTCTGGGGCATC
*
23961760 TCAGTGAGTTACAC
1 TTAGTGAGTTACAC
23961774 AAGTGAGGAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.23
Consensus pattern (42 bp):
TTAGTGAGTTACACGGCCTAGAACACAGGCGTCTGGGGCATC
Found at i:23983500 original size:27 final size:29
Alignment explanation
Indices: 23983451--23983506 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
23983441 AAAATAATTT
*
23983451 TAAAATTAATATATAAAGCAAC-TAAAAA
1 TAAAATTAATATATAAAACAACTTAAAAA
*
23983479 TAAAA-TAATATATAAAATAACTTAAAAA
1 TAAAATTAATATATAAAACAACTTAAAAA
23983507 AATCATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (29 bp):
TAAAATTAATATATAAAACAACTTAAAAA
Found at i:23983559 original size:21 final size:20
Alignment explanation
Indices: 23983523--23983561 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
23983513 TTACAAAGCA
23983523 AGTTAAAATAACATATAATG
1 AGTTAAAATAACATATAATG
*
23983543 AGTTAAATATAATATATAA
1 AGTTAAA-ATAACATATAA
23983562 AAGAGGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (20 bp):
AGTTAAAATAACATATAATG
Found at i:23992746 original size:34 final size:34
Alignment explanation
Indices: 23992698--23992762 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
23992688 CAGAAGGGCG
* *
23992698 CTAATCTCCCAGTGACATTTAATTAAGCATTGCA
1 CTAATCTCCCAGTGAAATTTAATCAAGCATTGCA
*
23992732 CTAATCTCCTAGTGAAATTTAATCAAGCATT
1 CTAATCTCCCAGTGAAATTTAATCAAGCATT
23992763 AAGGGCCCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.34
Consensus pattern (34 bp):
CTAATCTCCCAGTGAAATTTAATCAAGCATTGCA
Found at i:23997704 original size:27 final size:27
Alignment explanation
Indices: 23997674--23997879 Score: 243
Period size: 27 Copynumber: 7.6 Consensus size: 27
23997664 ATATTGAGTC
* * *
23997674 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
23997701 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
23997728 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
23997756 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
23997784 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
23997811 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
23997838 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
23997865 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23997880 GTACAATTTA
Statistics
Matches: 157, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 105 0.67
28 52 0.33
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:24005805 original size:28 final size:27
Alignment explanation
Indices: 24005712--24005915 Score: 243
Period size: 27 Copynumber: 7.6 Consensus size: 27
24005702 ATATTGAGTC
* * *
24005712 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
24005739 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
24005766 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
24005794 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
24005822 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
24005849 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
24005876 CGCACACTTAGTGC-ACATAGTCAA-T
1 CGCACACTTAGTGCTACATAGTCAACT
24005901 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24005916 GTACAATTTA
Statistics
Matches: 157, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
25 15 0.10
26 7 0.04
27 84 0.54
28 51 0.32
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:24016073 original size:27 final size:27
Alignment explanation
Indices: 24016030--24016104 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
24016020 NNNNNNNNNN
*
24016030 GTCAATTCGCACACTTAGTGCATCATA
1 GTCAATTCGCACACTTAGTGCAACATA
* *
24016057 TTCATTTCGCACACTTAGTGCAACATA
1 GTCAATTCGCACACTTAGTGCAACATA
*
24016084 GTCAAATCGCACACTTAGTGC
1 GTCAATTCGCACACTTAGTGC
24016105 TGTACAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (27 bp):
GTCAATTCGCACACTTAGTGCAACATA
Found at i:24018686 original size:21 final size:20
Alignment explanation
Indices: 24018661--24018704 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
24018651 CAGTAAAATG
24018661 TTTTCTCGAAAATGATTTACT
1 TTTTCT-GAAAATGATTTACT
*
24018682 TTTTCTGGAAATGATTTACT
1 TTTTCTGAAAATGATTTACT
24018702 TTT
1 TTT
24018705 CTAGTGTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.52
Consensus pattern (20 bp):
TTTTCTGAAAATGATTTACT
Found at i:24018810 original size:18 final size:18
Alignment explanation
Indices: 24018784--24018826 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
24018774 AAAAGTTGTT
*
24018784 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
24018802 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
24018820 TTTATAT
1 TTTATAT
24018827 TTTAAATTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:24022098 original size:6 final size:6
Alignment explanation
Indices: 24022087--24022132 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
24022077 GATCAAGGAT
* * *
24022087 AGGGGA AGGGGA AGGGGA AGGGAA AGGGAA AGGGAA AGGGGA AGGG
1 AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGG
24022133 AAGATCGGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
AGGGGA
Found at i:24022104 original size:12 final size:12
Alignment explanation
Indices: 24022087--24022134 Score: 78
Period size: 12 Copynumber: 4.0 Consensus size: 12
24022077 GATCAAGGAT
*
24022087 AGGGGAAGGGGA
1 AGGGGAAGGGAA
24022099 AGGGGAAGGGAA
1 AGGGGAAGGGAA
*
24022111 AGGGAAAGGGAA
1 AGGGGAAGGGAA
24022123 AGGGGAAGGGAA
1 AGGGGAAGGGAA
24022135 GATCGGTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (12 bp):
AGGGGAAGGGAA
Found at i:24027715 original size:21 final size:21
Alignment explanation
Indices: 24027678--24027717 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24027668 ATATAAGTAT
*
24027678 ACATATACTATATATAAAACA
1 ACATATACTATACATAAAACA
24027699 ACATATA-TATTACATAAAA
1 ACATATACTA-TACATAAAA
24027718 ACGATGCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (21 bp):
ACATATACTATACATAAAACA
Found at i:24027754 original size:3 final size:3
Alignment explanation
Indices: 24027746--24027782 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
24027736 TATAAGAATA
24027746 AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
24027783 GATACAAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24027761 original size:16 final size:16
Alignment explanation
Indices: 24027749--24027781 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
24027739 AAGAATAAAT
24027749 AATAATAATAATAATA
1 AATAATAATAATAATA
24027765 AATAATAATAATAATA
1 AATAATAATAATAATA
24027781 A
1 A
24027782 TGATACAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:24027764 original size:19 final size:19
Alignment explanation
Indices: 24027737--24027782 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
24027727 GCGCATGAAT
*
24027737 ATAAGAATAAATAATAATA
1 ATAATAATAAATAATAATA
24027756 ATAATAATAAATAATAATA
1 ATAATAATAAATAATAATA
24027775 ATAATAAT
1 ATAATAAT
24027783 GATACAAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAATAATAAATAATAATA
Found at i:24028280 original size:19 final size:19
Alignment explanation
Indices: 24028256--24028309 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
24028246 AATCATATCT
24028256 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
24028275 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
24028294 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
24028310 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:24028305 original size:38 final size:40
Alignment explanation
Indices: 24028233--24028309 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
24028223 AAATTAAATC
24028233 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
24028275 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
24028310 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:24028916 original size:45 final size:45
Alignment explanation
Indices: 24028863--24029196 Score: 243
Period size: 45 Copynumber: 7.6 Consensus size: 45
24028853 TTAATCCGCC
* * *
24028863 CCACTGCAATTTTAGAGG-GATAAGACTTG-ATTTCTTGAGTCTGCT
1 CCACTGCAACTTCAG-GGAGATAAGACTCGCA-TTCTTGAGTCTGCT
*
24028908 CCACTGCAACTTCAGGGAGATAAGACTCGCATTCTTGGGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTCGCATTCTTGAGTCTGCT
* * *
24028953 CCACTGCAACTTCAGGGAGATAAGACCCG-ATGC---AATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTCGCATTCTTGAGTCTGCT
* * * * **
24028994 -CTCTGCAACTTCAGAGAGATAAGA-TCTGTGATT-TT-AATCCACT
1 CCACTGCAACTTCAGGGAGATAAGACTC-G-CATTCTTGAGTCTGCT
* * * * *
24029037 CTACTGCAACTTCAGGGAGATAGGA-T--TATTGGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTCGCATT--CTTGAGTCTGCT
* * *
24029081 CCACTACAACTTCAGGGAGATAAGATTCGTCA-TCTTCAGTCTGC-
1 CCACTGCAACTTCAGGGAGATAAGACTCG-CATTCTTGAGTCTGCT
* * * *
24029125 CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTTCTT-AGTCTGCT
1 C-CACTGCAACTTCAGGGA-GATAAGACTCGCATTCTTGAGTCTGCT
24029170 CCACTGCAACTTCAGGGAGATAAGACT
1 CCACTGCAACTTCAGGGAGATAAGACT
24029197 AGATGCGATC
Statistics
Matches: 235, Mismatches: 33, Indels: 43
0.76 0.11 0.14
Matches are distributed among these distances:
39 1 0.00
40 26 0.11
41 6 0.03
42 2 0.01
43 8 0.03
44 86 0.37
45 103 0.44
46 1 0.00
47 1 0.00
48 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGACTCGCATTCTTGAGTCTGCT
Found at i:24029003 original size:40 final size:43
Alignment explanation
Indices: 24028902--24029322 Score: 159
Period size: 44 Copynumber: 9.7 Consensus size: 43
24028892 ATTTCTTGAG
* * **
24028902 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCATTCTTGGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCATGC-T-AA
24028947 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCG-ATGC-AA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCATGCTAA
* * * * * **
24028988 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCG-CATGCTAA
** * * **
24029031 TCCACTCTACTGCAACTTCAGGGAGATAGGA---TTATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCA-T-GC--TAA
* ** *
24029075 TCTGCTCCACTACAACTTCAGGGAGATAAGATTCGTCAT-CTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCG-CATGC-T-AA
* * ** * * *
24029120 TCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTTCTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACCCGCATGC-TAA
** *
24029164 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC-GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCATGCTAA
* * * * * * **
24029205 TCTGCT-CTCTGCAACTTTAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCG-CATGCTAA
* * * * * ** *
24029248 TCCGCTCCACTACGACTTCAAGGAGATAGGATTACTGGC-T-TTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATA--A-GACCCGCATGCTAA
*
24029292 TCTGCTCCACTGCAGCTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
24029323 TTCGCCATCT
Statistics
Matches: 285, Mismatches: 66, Indels: 54
0.70 0.16 0.13
Matches are distributed among these distances:
40 47 0.16
41 14 0.05
42 5 0.02
43 14 0.05
44 130 0.46
45 70 0.25
46 1 0.00
47 3 0.01
48 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCATGCTAA
Found at i:24029219 original size:217 final size:218
Alignment explanation
Indices: 24028895--24029339 Score: 680
Period size: 217 Copynumber: 2.0 Consensus size: 218
24028885 AGACTTGATT
* * *
24028895 TCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCATTCTTGGGTCTGCTCCACTGC
1 TCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTCGCATTCTTGAGTCTGCTCCACTGC
*
24028960 AACTTCAGGGAGATAAGACCCGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGA
66 AACTTCAGGGAGATAAGACCAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGA
* * * *
24029025 TTTTAATCCACTCTACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAA
131 TTTTAATCCACTCCACTACAACTTCAAGGAGATAGGATTACTGGCTTTAATCTGCTCCACTACAA
*
24029090 CTTCAGGGAGATAAGATTCGTCA
196 CTTCAGGGAGATAAGATTCGCCA
* * *
24029113 TCTTCAGTCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTTCTT-AGTCTGCTCCACT
1 TCTTCAGTCTGCTC-CACTACAACTTCAGGGA-GATAAGACTCGCATTCTTGAGTCTGCTCCACT
* * *
24029175 GCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCTGT
64 GCAACTTCAGGGAGATAAGACCAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGT
* * *
24029240 GATTTTAATCCGCTCCACTACGACTTCAAGGAGATAGGATTACTGGCTTTAATCTGCTCCACTGC
129 GATTTTAATCCACTCCACTACAACTTCAAGGAGATAGGATTACTGGCTTTAATCTGCTCCACTAC
*
24029305 AGCTTCAGGGAGATAAGATTCGCCA
194 AACTTCAGGGAGATAAGATTCGCCA
24029330 TCTTCAGTCT
1 TCTTCAGTCT
24029340 TTTAAATTGC
Statistics
Matches: 206, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
217 168 0.82
218 38 0.18
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (218 bp):
TCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTCGCATTCTTGAGTCTGCTCCACTGC
AACTTCAGGGAGATAAGACCAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGA
TTTTAATCCACTCCACTACAACTTCAAGGAGATAGGATTACTGGCTTTAATCTGCTCCACTACAA
CTTCAGGGAGATAAGATTCGCCA
Found at i:24029755 original size:88 final size:88
Alignment explanation
Indices: 24029601--24030101 Score: 770
Period size: 88 Copynumber: 5.7 Consensus size: 88
24029591 GTTGTCAGTG
* * *
24029601 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGATGTCAGTGCAGGAAGGCAAGATCTGCTAT
*
24029666 TTTTAACCTGCTCCGCTACAACC
66 TTTTAACCTACTCCGCTACAACC
* * *
24029689 CAAGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGATGTTAGTGCAGGAAGGCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGATGTCAGTGCAGGAAGGCAAGATCTGCTAT
24029754 TTTTAACCTACTCCGCTACAACC
66 TTTTAACCTACTCCGCTACAACC
* * *
24029777 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCAAT
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGATGTCAGTGCAGGAAGGCAAGATCTGCTAT
* **
24029842 TTTTAACCTACTCCACTGTAACC
66 TTTTAACCTACTCCGCTACAACC
* * * *
24029865 CAGAGAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGATGTCAGTGCAGGAAGGCAAGATCTGCTAT
*
24029930 TTTTAACCTGCTCCGCTACAACC
66 TTTTAACCTACTCCGCTACAACC
** *
24029953 CAGGGAGGCAAGATTGGTGTCTTCGATCTGCTTCGATGTCAGTGTAGGAAGGCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGATGTCAGTGCAGGAAGGCAAGATCTGCTAT
24030018 TTTTAACCTACTCCGCTACAACC
66 TTTTAACCTACTCCGCTACAACC
* * *
24030041 CAGGGAGGTAAGGTTGGTGTCTTCGATCTGCTTC-ACTGTCGGTGCAGGAAGGCAAGATCTG
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGA-TGTCAGTGCAGGAAGGCAAGATCTG
24030102 TTATCTTCAC
Statistics
Matches: 377, Mismatches: 35, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
87 1 0.00
88 376 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (88 bp):
CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGATGTCAGTGCAGGAAGGCAAGATCTGCTAT
TTTTAACCTACTCCGCTACAACC
Found at i:24029830 original size:44 final size:44
Alignment explanation
Indices: 24029593--24030008 Score: 160
Period size: 44 Copynumber: 9.5 Consensus size: 44
24029583 GATTCATCGT
*
24029593 TGTCAGTGCAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGC
1 TGTCAGTGCAGGAAGGCAAGGCTGCTGTCTTCGATCTGCTTCGC
* * * * ** * *
24029637 TATCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGC
1 TGTCAGTGCAGGAAGGCAAG-GCTGCTGTCTTCGATCTGCTTCGC
* *** * * *
24029682 T-ACAACCCAAGG-AGGCAAGGTTGGTGTCTTCGATCTGCTTCGA
1 TGTCAGTGC-AGGAAGGCAAGGCTGCTGTCTTCGATCTGCTTCGC
* * * * ** * * *
24029725 TGTTAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCGC
1 TGTCAGTGCAGGAAGGCAAG-GCTGCTGTCTTCGATCTGCTTCGC
* *** * *
24029770 T-ACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGC
1 TGTCAGTGCAGGAAGGCAAGGCTGCTGTCTTCGATCTGCTTCGC
* * ** * ** * * * *
24029813 TGTCGGTGCAGGAAGGCAAGATCTGCAATTTTTAACCTACTCCAC
1 TGTCAGTGCAGGAAGGCAAG-GCTGCTGTCTTCGATCTGCTTCGC
*** *
24029858 TGT-AACCCA-GAGAGGCAAGGCTGATGTCTTCGATCTGCTTCGC
1 TGTCAGTGCAGGA-AGGCAAGGCTGCTGTCTTCGATCTGCTTCGC
* * * * ** * *
24029901 TGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGC
1 TGTCAGTGCAGGAAGGCAAG-GCTGCTGTCTTCGATCTGCTTCGC
* *** * ** * *
24029946 T-ACAACCCAGGGAGGCAAGATTGGTGTCTTCGATCTGCTTCGA
1 TGTCAGTGCAGGAAGGCAAGGCTGCTGTCTTCGATCTGCTTCGC
*
24029989 TGTCAGTGTAGGAAGGCAAG
1 TGTCAGTGCAGGAAGGCAAG
24030009 ATCTGCTATT
Statistics
Matches: 240, Mismatches: 120, Indels: 24
0.62 0.31 0.06
Matches are distributed among these distances:
43 67 0.28
44 104 0.43
45 69 0.29
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (44 bp):
TGTCAGTGCAGGAAGGCAAGGCTGCTGTCTTCGATCTGCTTCGC
Found at i:24030082 original size:264 final size:264
Alignment explanation
Indices: 24029606--24030101 Score: 902
Period size: 264 Copynumber: 1.9 Consensus size: 264
24029596 CAGTGCAGGA
*
24029606 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGATCTGCTATTTTTA
1 AGGCAAGGCTGATGTCTTCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGATCTGCTATTTTTA
* *
24029671 ACCTGCTCCGCTACAACCCAAGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGATGTTAGTGCAG
66 ACCTGCTCCGCTACAACCCAAGGAGGCAAGATTGGTGTCTTCGATCTGCTTCGATGTCAGTGCAG
24029736 GAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTC
131 GAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTC
*
24029801 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCAATTTTTAACCTACTCCACTGTAACCC
196 GATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCAATTTTTAACCTACTCCACTGTAACCC
24029866 AGAG
261 AGAG
* *
24029870 AGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
1 AGGCAAGGCTGATGTCTTCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGATCTGCTATTTTTA
* *
24029935 ACCTGCTCCGCTACAACCCAGGGAGGCAAGATTGGTGTCTTCGATCTGCTTCGATGTCAGTGTAG
66 ACCTGCTCCGCTACAACCCAAGGAGGCAAGATTGGTGTCTTCGATCTGCTTCGATGTCAGTGCAG
* *
24030000 GAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAACCCAGGGAGGTAAGGTTGGTGTCTTC
131 GAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTC
24030065 GATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTG
196 GATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTG
24030102 TTATCTTCAC
Statistics
Matches: 222, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
264 222 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (264 bp):
AGGCAAGGCTGATGTCTTCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGATCTGCTATTTTTA
ACCTGCTCCGCTACAACCCAAGGAGGCAAGATTGGTGTCTTCGATCTGCTTCGATGTCAGTGCAG
GAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTC
GATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCAATTTTTAACCTACTCCACTGTAACCC
AGAG
Found at i:24031452 original size:14 final size:15
Alignment explanation
Indices: 24031429--24031461 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
24031419 ATTAACGTTT
24031429 TTCCAAATAAGG-CC
1 TTCCAAATAAGGTCC
*
24031443 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
24031458 TTCC
1 TTCC
24031462 CAGCTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:24035284 original size:29 final size:30
Alignment explanation
Indices: 24035228--24035284 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
24035218 CCATTTCTAT
* *
24035228 TTTAGAAAAAAATAAAAATTAGTTGTCGAC
1 TTTAGAAAAAAACAAAAATTAGTAGTCGAC
24035258 TTTA-AAAAAAACAAAAATTGAG-AGTCG
1 TTTAGAAAAAAACAAAAATT-AGTAGTCG
24035285 CCACCAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (30 bp):
TTTAGAAAAAAACAAAAATTAGTAGTCGAC
Found at i:24036526 original size:23 final size:22
Alignment explanation
Indices: 24036467--24036526 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
24036457 AATAAAAATA
24036467 AAAACATATGTATACTATATAT
1 AAAACATATGTATACTATATAT
* *
24036489 ATAAGCATACGTATACTATATAT
1 A-AAACATATGTATACTATATAT
*
24036512 AAAACAATATATATA
1 AAAAC-ATATGTATA
24036527 TTACATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 4 0.13
23 27 0.87
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (22 bp):
AAAACATATGTATACTATATAT
Found at i:24036581 original size:3 final size:3
Alignment explanation
Indices: 24036556--24036603 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
24036546 GCGCATGAAT
* * *
24036556 ATA AGA ATA AAA ATA AAA ATA ATA ATAA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
24036602 AT
1 AT
24036604 GATACAAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:24036586 original size:22 final size:22
Alignment explanation
Indices: 24036561--24036603 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
24036551 TGAATATAAG
24036561 AATAAAAATAAAAATAATAATA
1 AATAAAAATAAAAATAATAATA
* *
24036583 AATAATAATAATAATAATAAT
1 AATAAAAATAAAAATAATAAT
24036604 GATACAAGAT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
AATAAAAATAAAAATAATAATA
Found at i:24036587 original size:16 final size:16
Alignment explanation
Indices: 24036561--24036599 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
24036551 TGAATATAAG
24036561 AATAA-AAATAAAAAT
1 AATAATAAATAAAAAT
*
24036576 AATAATAAATAATAAT
1 AATAATAAATAAAAAT
24036592 AATAATAA
1 AATAATAA
24036600 TAATGATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AATAATAAATAAAAAT
Found at i:24037083 original size:23 final size:22
Alignment explanation
Indices: 24037040--24037097 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
24037030 AAAATGTATC
* *
24037040 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
24037061 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
24037084 TGCATATCATATCT
1 TACAAATCATATCT
24037098 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:24041500 original size:32 final size:32
Alignment explanation
Indices: 24041464--24041535 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
24041454 AAACACAAGC
* *
24041464 GAACCTAGGTTCACACATGTTAATCTTTTGGT
1 GAACCTAGGTCCACACATGCTAATCTTTTGGT
** *
24041496 GAACCTAGGTCCGTACATGCTAGTCTTTTGGT
1 GAACCTAGGTCCACACATGCTAATCTTTTGGT
24041528 GAACCTAG
1 GAACCTAG
24041536 TTTCCTTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (32 bp):
GAACCTAGGTCCACACATGCTAATCTTTTGGT
Found at i:24043977 original size:5 final size:5
Alignment explanation
Indices: 24043967--24043991 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
24043957 CTCGAAAGCA
24043967 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
24043992 TTAAGTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:24044419 original size:24 final size:24
Alignment explanation
Indices: 24044392--24044438 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
24044382 TAACATATTT
*
24044392 AATTTTATTTAATTTAACTCGAAC
1 AATTTTATTTAATTCAACTCGAAC
*
24044416 AATTTTATTTAATTCAATTCGAA
1 AATTTTATTTAATTCAACTCGAA
24044439 ATTAATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (24 bp):
AATTTTATTTAATTCAACTCGAAC
Found at i:24050014 original size:2 final size:2
Alignment explanation
Indices: 24050007--24050061 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
24049997 TATGTTTAGA
24050007 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24050049 AG AG AG AG AG AG A
1 AG AG AG AG AG AG A
24050062 ACAGCCAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24051458 original size:29 final size:31
Alignment explanation
Indices: 24051407--24051467 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
24051397 TATAGTTTAA
*
24051407 TGTGTAATTTGTATACATGAAA-TTTGATTT
1 TGTGTAATTTGTATACATAAAATTTTGATTT
24051437 TGTGTAATTT-TATACATAAAATTTTGATTT
1 TGTGTAATTTGTATACATAAAATTTTGATTT
24051467 T
1 T
24051468 ATTTAATTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.52
Consensus pattern (31 bp):
TGTGTAATTTGTATACATAAAATTTTGATTT
Found at i:24051475 original size:30 final size:30
Alignment explanation
Indices: 24051409--24051475 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
24051399 TAGTTTAATG
* *
24051409 TGTAATTTGTATACATGAAATTTGATTTTG
1 TGTAATTTGTATACATAAAATTTGATTTTA
24051439 TGTAATTT-TATACATAAAATTTTGATTTTA
1 TGTAATTTGTATACATAAAA-TTTGATTTTA
*
24051469 TTTAATT
1 TGTAATT
24051476 CTTGTAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 10 0.30
30 23 0.70
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (30 bp):
TGTAATTTGTATACATAAAATTTGATTTTA
Found at i:24062959 original size:116 final size:113
Alignment explanation
Indices: 24062809--24063038 Score: 370
Period size: 116 Copynumber: 2.0 Consensus size: 113
24062799 AAATTGAATG
* *
24062809 AAATAATTGTATAGACCGGATTGGATCAAACCAGAGATAGTTGGGAAAAAACAAAAATTTTAGAT
1 AAATAATTGTATAGACAGGATTGGATCAAACCAGAGATAATTGGGAAAAAACAAAAATTTTAGAT
* * *
24062874 TAGTCCTTAAAGTTTCAACTTGTTTGCTATTTTTCTCAGGTAGGTTCAT
66 TAGTCCTTAAAGTTTCAACTTG-TTACTATTTTTCCCAAGTAGGTTCAT
* *
24062923 AAATAATTGTATAGACTAGGAATTGGATCAAACCAGAGATAATTGGGGAAAAGCAAAAATTTTAG
1 AAATAATTGTATAGAC-AGG-ATTGGATCAAACCAGAGATAATTGGGAAAAAACAAAAATTTTAG
24062988 ATTAGTCCTTAAAGTTTCAACTTGTTACTATTTTTCCCAAGTAGGTTCAT
64 ATTAGTCCTTAAAGTTTCAACTTGTTACTATTTTTCCCAAGTAGGTTCAT
24063038 A
1 A
24063039 TAGTACTTAC
Statistics
Matches: 107, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
114 16 0.15
115 26 0.24
116 65 0.61
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (113 bp):
AAATAATTGTATAGACAGGATTGGATCAAACCAGAGATAATTGGGAAAAAACAAAAATTTTAGAT
TAGTCCTTAAAGTTTCAACTTGTTACTATTTTTCCCAAGTAGGTTCAT
Found at i:24066904 original size:39 final size:38
Alignment explanation
Indices: 24066850--24066982 Score: 149
Period size: 39 Copynumber: 3.4 Consensus size: 38
24066840 TATTATAGAT
* *
24066850 TATAATGAGATCTAGCATTTGTTGCAGATCCTCGAGTAA
1 TATAACGAGATCTAGCATTTGTTGCAGATTCT-GAGTAA
* * *
24066889 TATAACAAGATCTAGCCTTTGTTGCAGATTCTTGGGTAA
1 TATAACGAGATCTAGCATTTGTTGCAGATTC-TGAGTAA
* * * *
24066928 TATAATGAGATCTAGCATCTATTGCAGATTCTTAGGTAA
1 TATAACGAGATCTAGCATTTGTTGCAGATTCTGA-GTAA
*
24066967 TATATCGAGATCTAGC
1 TATAACGAGATCTAGC
24066983 CCATTTTGTG
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
38 1 0.01
39 76 0.97
40 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (38 bp):
TATAACGAGATCTAGCATTTGTTGCAGATTCTGAGTAA
Found at i:24067004 original size:78 final size:78
Alignment explanation
Indices: 24066850--24067009 Score: 189
Period size: 78 Copynumber: 2.1 Consensus size: 78
24066840 TATTATAGAT
* * * *
24066850 TATAATGAGATCTAGCATTTGTTGCAGATCCTCGAGTAATATAACAAGATCTAGCCTTTGTTGCA
1 TATAATGAGATCTAGCATCTATTGCAGATCCTAGAGTAATATAACAAGATCTAGCCATTGTTGCA
*
24066915 GATTCTTGGGTAA
66 GATTCTCGGGTAA
* * *
24066928 TATAATGAGATCTAGCATCTATTGCAGATTCTTAG-GTAATATATCGAGATCTAGCCCATT-TTG
1 TATAATGAGATCTAGCATCTATTGCAGA-TCCTAGAGTAATATAACAAGATCTAG-CCATTGTTG
** *
24066991 TGGGTTCTCGGGTAA
64 CAGATTCTCGGGTAA
24067006 TATA
1 TATA
24067010 TGACATGGTT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
78 61 0.88
79 8 0.12
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.36
Consensus pattern (78 bp):
TATAATGAGATCTAGCATCTATTGCAGATCCTAGAGTAATATAACAAGATCTAGCCATTGTTGCA
GATTCTCGGGTAA
Found at i:24068849 original size:19 final size:20
Alignment explanation
Indices: 24068825--24068864 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
24068815 TGAGCTAGTT
*
24068825 GGAGCTGGAA-TGAGCTAAA
1 GGAGCTGAAATTGAGCTAAA
24068844 GGAGCTGAAATTGAGCTAAA
1 GGAGCTGAAATTGAGCTAAA
24068864 G
1 G
24068865 TCAGCTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.10, G:0.35, T:0.17
Consensus pattern (20 bp):
GGAGCTGAAATTGAGCTAAA
Found at i:24075918 original size:89 final size:89
Alignment explanation
Indices: 24075767--24075945 Score: 340
Period size: 89 Copynumber: 2.0 Consensus size: 89
24075757 GCTCATATGT
* *
24075767 ATATAAATGATTAACTTACCTTATATAACAAGTACATAGGTTAAACTAATGTGTATAATCAAATT
1 ATATAAACGATTAACTTACCTTATATAACAAGTACATAGGTCAAACTAATGTGTATAATCAAATT
24075832 TACCTAACATATCAAAACGCAATC
66 TACCTAACATATCAAAACGCAATC
24075856 ATATAAACGATTAACTTACCTTATATAACAAGTACATAGGTCAAACTAATGTGTATAATCAAATT
1 ATATAAACGATTAACTTACCTTATATAACAAGTACATAGGTCAAACTAATGTGTATAATCAAATT
24075921 TACCTAACATATCAAAACGCAATC
66 TACCTAACATATCAAAACGCAATC
24075945 A
1 A
24075946 CAATCAAGTG
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.30
Consensus pattern (89 bp):
ATATAAACGATTAACTTACCTTATATAACAAGTACATAGGTCAAACTAATGTGTATAATCAAATT
TACCTAACATATCAAAACGCAATC
Found at i:24076850 original size:35 final size:35
Alignment explanation
Indices: 24076804--24076873 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
24076794 AAAACATACA
*
24076804 TAGATTCACAATATAACATCTATAATGATTTAAAC
1 TAGATTCACAATATAAAATCTATAATGATTTAAAC
*
24076839 TAGATTCACAATATAAAATTTATAATGATTTAAAC
1 TAGATTCACAATATAAAATCTATAATGATTTAAAC
24076874 ATAATTACCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (35 bp):
TAGATTCACAATATAAAATCTATAATGATTTAAAC
Found at i:24081925 original size:7 final size:7
Alignment explanation
Indices: 24081915--24081939 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24081905 TTTATTTTGA
24081915 ATTTAGG
1 ATTTAGG
24081922 ATTTAGG
1 ATTTAGG
24081929 ATTTAGG
1 ATTTAGG
24081936 ATTT
1 ATTT
24081940 TTTTAAGTAT
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:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (7 bp):
ATTTAGG
Found at i:24082661 original size:20 final size:20
Alignment explanation
Indices: 24082582--24082657 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
24082572 CCTCATCAAA
*
24082582 TTATTTTATTAATAAAATAT
1 TTATTTTATTAATATAATAT
* *
24082602 TT-TTATTATTCATGTAATAT
1 TTATT-TTATTAATATAATAT
24082622 TTATTTTTATTAAT-TAATAT
1 TTA-TTTTATTAATATAATAT
24082642 TTATTTTA-TAATATAA
1 TTATTTTATTAATATAA
24082658 ATATGGGTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
18 4 0.08
19 10 0.21
20 25 0.52
21 7 0.15
22 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (20 bp):
TTATTTTATTAATATAATAT
Found at i:24082958 original size:23 final size:24
Alignment explanation
Indices: 24082916--24082962 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
24082906 TATAAAATGT
24082916 TAAAAACTTTCATAAAATTATAAA
1 TAAAAACTTTCATAAAATTATAAA
24082940 TAAAAAC-TT-ATAAATATTATAAA
1 TAAAAACTTTCATAAA-ATTATAAA
24082963 AACTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 10 0.45
24 7 0.32
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (24 bp):
TAAAAACTTTCATAAAATTATAAA
Found at i:24082961 original size:9 final size:9
Alignment explanation
Indices: 24082939--24082992 Score: 63
Period size: 9 Copynumber: 5.9 Consensus size: 9
24082929 AAAATTATAA
24082939 ATAAAAACTT
1 ATAAAAA-TT
*
24082949 ATAAATATT
1 ATAAAAATT
*
24082958 ATAAAAACT
1 ATAAAAATT
24082967 ATAAAAATT
1 ATAAAAATT
* *
24082976 CTAATAATT
1 ATAAAAATT
24082985 ATAAAAAT
1 ATAAAAAT
24082993 AAAAATAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
9 30 0.83
10 6 0.17
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:24083662 original size:8 final size:9
Alignment explanation
Indices: 24083645--24083787 Score: 54
Period size: 10 Copynumber: 14.8 Consensus size: 9
24083635 TATAAACTTA
24083645 AAAAATTAT
1 AAAAATTAT
24083654 AAAAATATAT
1 AAAAAT-TAT
*
24083664 AATAATTAT
1 AAAAATTAT
* *
24083673 AAGTAATAAT
1 AA-AAATTAT
* *
24083683 AAAACTAAT
1 AAAAATTAT
*
24083692 AATAACTTAT
1 AA-AAATTAT
* *
24083702 AATAAGTTCT
1 AA-AAATTAT
24083712 AATAAATTAT
1 AA-AAATTAT
*
24083722 AAAAAATTGT
1 -AAAAATTAT
**
24083732 AAATTTTAT
1 AAAAATTAT
24083741 AATAAAATTAT
1 -A-AAAATTAT
24083752 AAAATATTA-
1 AAAA-ATTAT
*
24083761 AAACTATATAT
1 AAA-AAT-TAT
* *
24083772 AGAATTTAT
1 AAAAATTAT
24083781 AAAAATT
1 AAAAATT
24083788 CATATATTGG
Statistics
Matches: 103, Mismatches: 21, Indels: 20
0.72 0.15 0.14
Matches are distributed among these distances:
9 40 0.39
10 53 0.51
11 10 0.10
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (9 bp):
AAAAATTAT
Found at i:24083770 original size:29 final size:30
Alignment explanation
Indices: 24083711--24083785 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 30
24083701 TAATAAGTTC
* * *
24083711 TAAT-AAATTATAAAAAATTGTAAATTTTA
1 TAATAAAATTATAAAAAATTGAAAACTATA
*
24083740 TAATAAAATTATAAAATATT-AAAACTATA
1 TAATAAAATTATAAAAAATTGAAAACTATA
*
24083769 T-ATAGAATTTATAAAAA
1 TAATA-AAATTATAAAAA
24083786 TTCATATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
28 3 0.08
29 21 0.55
30 14 0.37
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (30 bp):
TAATAAAATTATAAAAAATTGAAAACTATA
Found at i:24084478 original size:9 final size:9
Alignment explanation
Indices: 24084464--24084695 Score: 59
Period size: 9 Copynumber: 25.1 Consensus size: 9
24084454 TAAACGATTT
24084464 TTTTTATAA
1 TTTTTATAA
*
24084473 TTTTTATAC
1 TTTTTATAA
**
24084482 TTTTTA-GC
1 TTTTTATAA
*
24084490 TTTTTATGA
1 TTTTTATAA
*
24084499 TTTATTAGAA
1 TTT-TTATAA
*
24084509 TTTATAT-A
1 TTTTTATAA
24084517 TTATTTATAA
1 TT-TTTATAA
* **
24084527 ATTTTAGTGG
1 TTTTTA-TAA
*
24084537 TTTTTTTAA
1 TTTTTATAA
24084546 GTTTTTATAAA
1 -TTTTTAT-AA
* *
24084557 ATTTTAAATA
1 TTTTTATA-A
24084567 TGTTTTATAAA
1 T-TTTTAT-AA
*
24084578 TTGTATCATAA
1 TT-T-TTATAA
*
24084589 TTTAT-TAA
1 TTTTTATAA
24084597 TTTTTATAA
1 TTTTTATAA
*
24084606 TTTTTTGTAA
1 -TTTTTATAA
** *
24084616 AATTTACAA
1 TTTTTATAA
* *
24084625 GTTTTTTTTA
1 -TTTTTATAA
24084635 TTTTTATAA
1 TTTTTATAA
*
24084644 CTTTATATCAA
1 -TTTTTAT-AA
24084655 -TTTTAT--
1 TTTTTATAA
*
24084661 TTTTT-TAT
1 TTTTTATAA
24084669 TTTTTA-ATA
1 TTTTTATA-A
*
24084678 TTTTTATGA
1 TTTTTATAA
24084687 TTTTT-TAA
1 TTTTTATAA
24084695 T
1 T
24084696 GATTTCTATG
Statistics
Matches: 159, Mismatches: 41, Indels: 47
0.64 0.17 0.19
Matches are distributed among these distances:
6 1 0.01
7 4 0.03
8 26 0.16
9 62 0.39
10 46 0.29
11 16 0.10
12 4 0.03
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:24084682 original size:19 final size:20
Alignment explanation
Indices: 24084667--24084706 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
24084657 TTATTTTTTT
24084667 ATTTTTTAAT-ATTTTTATG
1 ATTTTTTAATGATTTTTATG
*
24084686 ATTTTTTAATGATTTCTATG
1 ATTTTTTAATGATTTTTATG
24084706 A
1 A
24084707 GAAAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (20 bp):
ATTTTTTAATGATTTTTATG
Found at i:24094064 original size:101 final size:101
Alignment explanation
Indices: 24093889--24094090 Score: 395
Period size: 101 Copynumber: 2.0 Consensus size: 101
24093879 CATCCCTACA
*
24093889 CGCCATATAGTGTTGATATGACACATCACAGATAATATGCAGTCGAGCTGCTAGAATATAGGCGA
1 CGCCATATAGTGTTGATATGACACATCACAGATAATAAGCAGTCGAGCTGCTAGAATATAGGCGA
24093954 AAGGTTATCGTACAGATCACTTCCTCCACATATACG
66 AAGGTTATCGTACAGATCACTTCCTCCACATATACG
24093990 CGCCATATAGTGTTGATATGACACATCACAGATAATAAGCAGTCGAGCTGCTAGAATATAGGCGA
1 CGCCATATAGTGTTGATATGACACATCACAGATAATAAGCAGTCGAGCTGCTAGAATATAGGCGA
24094055 AAGGTTATCGTACAGATCACTTCCTCCACATATACG
66 AAGGTTATCGTACAGATCACTTCCTCCACATATACG
24094091 ATTCCCACCC
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (101 bp):
CGCCATATAGTGTTGATATGACACATCACAGATAATAAGCAGTCGAGCTGCTAGAATATAGGCGA
AAGGTTATCGTACAGATCACTTCCTCCACATATACG
Found at i:24106485 original size:13 final size:13
Alignment explanation
Indices: 24106467--24106491 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24106457 TTTATTAGTG
24106467 AAAGAGTACATAT
1 AAAGAGTACATAT
24106480 AAAGAGTACATA
1 AAAGAGTACATA
24106492 CAAATTTGAT
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:0.16, T:0.20
Consensus pattern (13 bp):
AAAGAGTACATAT
Found at i:24106572 original size:20 final size:20
Alignment explanation
Indices: 24106510--24106572 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
24106500 ATACTAATAT
24106510 ATAATTATGTTCAACCTTTA
1 ATAATTATGTTCAACCTTTA
* *
24106530 ATTGATATTA--TTCAA-ATAATA
1 A-T-A-ATTATGTTCAACCT-TTA
24106551 ATAATTATGTTCAACCTTTA
1 ATAATTATGTTCAACCTTTA
24106571 AT
1 AT
24106573 TATGTTCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
18 4 0.12
19 1 0.03
20 12 0.38
21 10 0.31
22 1 0.03
23 4 0.12
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (20 bp):
ATAATTATGTTCAACCTTTA
Found at i:24107144 original size:15 final size:15
Alignment explanation
Indices: 24107124--24107154 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24107114 CCAACCTTCA
24107124 AATTTTAGGTCAATT
1 AATTTTAGGTCAATT
24107139 AATTTTAGGTCAATT
1 AATTTTAGGTCAATT
24107154 A
1 A
24107155 TACATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (15 bp):
AATTTTAGGTCAATT
Found at i:24108746 original size:11 final size:11
Alignment explanation
Indices: 24108730--24108756 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
24108720 TAGAAATTAG
24108730 TTTGTGAAACT
1 TTTGTGAAACT
24108741 TTTGTGAAACT
1 TTTGTGAAACT
24108752 TTTGT
1 TTTGT
24108757 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:24110306 original size:91 final size:91
Alignment explanation
Indices: 24110150--24110357 Score: 310
Period size: 91 Copynumber: 2.3 Consensus size: 91
24110140 TTGATTTTAG
* *
24110150 TAAATTCATATAAGAAAATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCTTATAAGAAAA-TTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* *
24110215 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
24110242 TAAATTCTTATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCTTATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
24110307 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
24110333 CAAATTCTTAAAATATAATTTATTA
1 TAAATTCTTATAAGAAAATTTATTA
24110358 GTTATAATTA
Statistics
Matches: 106, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
91 86 0.81
92 20 0.19
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (91 bp):
TAAATTCTTATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:24110332 original size:44 final size:43
Alignment explanation
Indices: 24110190--24110332 Score: 105
Period size: 44 Copynumber: 3.2 Consensus size: 43
24110180 GAATTTTATG
*
24110190 AAATTATATATCATTATTAAATTATATTTAAT-ATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATT-ATTATTTT
* * * ** *
24110234 AAATTGTATAAATTCTTATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATTATTAT---TAAATTATATTAAT-AATTATTATT-TT
24110281 AAATTATATATTATTATTAAATTATATGTAATAATTATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATTATTATTTT
24110325 AAATTATA
1 AAATTATA
24110333 CAAATTCTTA
Statistics
Matches: 74, Mismatches: 13, Indels: 24
0.67 0.12 0.22
Matches are distributed among these distances:
42 5 0.07
43 3 0.04
44 18 0.24
45 16 0.22
46 15 0.20
47 9 0.12
48 3 0.04
49 5 0.07
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATTATTATTTT
Found at i:24110719 original size:39 final size:40
Alignment explanation
Indices: 24110676--24110780 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
24110666 TTCCATTATG
24110676 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* * * *
24110715 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGATGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
*
24110760 CTATTACAGCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
24110781 ACGCCTCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 18 0.33
45 16 0.30
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:24110775 original size:45 final size:44
Alignment explanation
Indices: 24110693--24110782 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
24110683 ACCTCTATTC
24110693 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
* * *
24110737 CATTCAACCAAACAGATGATTTGCTATTACAG-CTCTATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTAC-GCCTCTATTCCATTA
24110782 C
1 C
24110783 GCCTCTATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
44 17 0.41
45 23 0.56
46 1 0.02
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
Found at i:24117679 original size:31 final size:31
Alignment explanation
Indices: 24117603--24117695 Score: 116
Period size: 31 Copynumber: 3.0 Consensus size: 31
24117593 AAACCTTTTT
* * *
24117603 ACTTTTCCCTTAAAACTTTTACT-CTTTCTC
1 ACTTTTCCCCTAAAACTTTTACTCCCTTCCC
* * *
24117633 ACTTTCCCCCCAAAACTTTTACTCCCCTCCC
1 ACTTTTCCCCTAAAACTTTTACTCCCTTCCC
*
24117664 ACTTTTCCCCTAAAACTTTTATTCCCTTCCC
1 ACTTTTCCCCTAAAACTTTTACTCCCTTCCC
24117695 A
1 A
24117696 TCCCACCTCT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
30 20 0.38
31 32 0.62
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
ACTTTTCCCCTAAAACTTTTACTCCCTTCCC
Found at i:24117802 original size:17 final size:17
Alignment explanation
Indices: 24117775--24117835 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
24117765 ACTCCCCCTA
24117775 TTTACTTTCCCTCAAACT
1 TTTACTTTCCC-CAAACT
*
24117793 TTTA-TTTCCCAAAACTT
1 TTTACTTTCCCCAAAC-T
*
24117810 TTTATTTTCCCCCTAAACT
1 TTTACTTT-CCCC-AAACT
24117829 TTTACTT
1 TTTACTT
24117836 CTCACCCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
16 4 0.11
17 11 0.31
18 7 0.19
19 10 0.28
20 4 0.11
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTACTTTCCCCAAACT
Found at i:24118344 original size:5 final size:5
Alignment explanation
Indices: 24118334--24118359 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24118324 GAACAAATAT
24118334 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
24118360 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:24120054 original size:17 final size:17
Alignment explanation
Indices: 24120032--24120065 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24120022 ATACATATAC
*
24120032 TTTTATAATTTATAATT
1 TTTTATAATTTAAAATT
*
24120049 TTTTATATTTTAAAATT
1 TTTTATAATTTAAAATT
24120066 ATATATATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTATAATTTAAAATT
Found at i:24121393 original size:14 final size:14
Alignment explanation
Indices: 24121355--24121394 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
24121345 ACAAAAAAGT
*
24121355 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
24121369 AAATCATTTTACGG
1 AAAACATTTTACAG
24121383 AAAACATTTTAC
1 AAAACATTTTAC
24121395 TGACAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:24132994 original size:22 final size:23
Alignment explanation
Indices: 24132966--24133009 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
24132956 ATAAGTTTTA
24132966 TGTGTGTTT-TTTTATGTTTATT
1 TGTGTGTTTATTTTATGTTTATT
*
24132988 TGTGTGTTTATTTTATTTTTAT
1 TGTGTGTTTATTTTATGTTTAT
24133010 GCATTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.11, C:0.00, G:0.16, T:0.73
Consensus pattern (23 bp):
TGTGTGTTTATTTTATGTTTATT
Found at i:24133466 original size:9 final size:9
Alignment explanation
Indices: 24133452--24133482 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24133442 GTTAAACGAA
24133452 TCGAGTTAT
1 TCGAGTTAT
*
24133461 TCGAGTTAA
1 TCGAGTTAT
24133470 TCGAGTTAT
1 TCGAGTTAT
24133479 TCGA
1 TCGA
24133483 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:24133560 original size:9 final size:9
Alignment explanation
Indices: 24133536--24133572 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
24133526 TGAGTTTTCG
*
24133536 AATTCAAAT
1 AATTCGAAT
*
24133545 AACTCGAAT
1 AATTCGAAT
24133554 AATTCGAAT
1 AATTCGAAT
24133563 AATTCGAAT
1 AATTCGAAT
24133572 A
1 A
24133573 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:24133655 original size:30 final size:31
Alignment explanation
Indices: 24133621--24133681 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
24133611 AAACCTTTTT
*
24133621 ACTTTTCCCTCAAAACTTTTACTCCT-TCCC
1 ACTTTTCCCCCAAAACTTTTACTCCTCTCCC
24133651 ACTTTTCCCCCAAAACTTTTACTCCTCTCCC
1 ACTTTTCCCCCAAAACTTTTACTCCTCTCCC
24133682 CTCCTAACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.20, C:0.43, G:0.00, T:0.38
Consensus pattern (31 bp):
ACTTTTCCCCCAAAACTTTTACTCCTCTCCC
Found at i:24133955 original size:16 final size:18
Alignment explanation
Indices: 24133936--24133968 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
24133926 ACTTTCCCTC
24133936 AAACTTT-TA-TTCCCCA
1 AAACTTTCTATTTCCCCA
24133952 AAACTTTCTATTTCCCC
1 AAACTTTCTATTTCCCC
24133969 CCTAAACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (18 bp):
AAACTTTCTATTTCCCCA
Found at i:24138079 original size:38 final size:38
Alignment explanation
Indices: 24138018--24138134 Score: 162
Period size: 38 Copynumber: 3.1 Consensus size: 38
24138008 AACTTTTATT
* *
24138018 ACACCGGCAATAAGCCTGCTAGGCACCAAGCCTGAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAATA
** * **
24138056 ACATTGGCACTAAGCCTGCTAGGCATAAAGCCCAAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAATA
*
24138094 ACACCGGCACCAAGCCTGCTAGGCACAAAGCCTGAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAATA
24138132 ACA
1 ACA
24138135 GTATAATTCA
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 66 1.00
ACGTcount: A:0.36, C:0.31, G:0.20, T:0.14
Consensus pattern (38 bp):
ACACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAATA
Found at i:24144797 original size:50 final size:50
Alignment explanation
Indices: 24144618--24144852 Score: 170
Period size: 50 Copynumber: 4.6 Consensus size: 50
24144608 GGTAAAGAGA
* * * **
24144618 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTCTGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-C--CGA-G--ATGAGAAC
* * ** * **
24144674 TCCCATGTAATACCATGTCTAGGACATGGTGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
** *
24144724 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* * * * * * *
24144774 TCCCATGTAAGACCATATATGGGATATGACATTGGCA--GTACAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCG-AGATGAGAAC
*
24144822 ATCCCATGTAAGATCATGTCTGGGACATGGC
1 -TCCCATGTAAGACCATGTCTGGGACATGGC
24144853 TTTGGCATGT
Statistics
Matches: 147, Mismatches: 30, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
48 4 0.03
49 29 0.20
50 77 0.52
52 1 0.01
53 2 0.01
55 1 0.01
56 33 0.22
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:24157032 original size:25 final size:25
Alignment explanation
Indices: 24157004--24157065 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
24156994 AAAAGCTGTA
24157004 AACGGTAAGCTCCTCCGAGC-CACAT
1 AACGGTAAGCTCCTCCGAGCTCA-AT
* *
24157029 AACGGTAAGCTCCTTCGAGCTGAAT
1 AACGGTAAGCTCCTCCGAGCTCAAT
*
24157054 AACTGTAAGCTC
1 AACGGTAAGCTC
24157066 ATGCAAGCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (25 bp):
AACGGTAAGCTCCTCCGAGCTCAAT
Found at i:24157074 original size:25 final size:24
Alignment explanation
Indices: 24157027--24157092 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
24157017 TCCGAGCCAC
* * *
24157027 ATAACGGTAAGCTCCTTCGAGCTGA
1 ATAAC-GTAAGCTCATGCAAGCTGA
24157052 ATAACTGTAAGCTCATGCAAGCTGA
1 ATAAC-GTAAGCTCATGCAAGCTGA
*
24157077 GTAACGATAAGCTCAT
1 ATAACG-TAAGCTCAT
24157093 ATGAGCTGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 1 0.03
25 34 0.97
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (24 bp):
ATAACGTAAGCTCATGCAAGCTGA
Found at i:24157099 original size:25 final size:23
Alignment explanation
Indices: 24157027--24157102 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 23
24157017 TCCGAGCCAC
*
24157027 ATAACGGTAAGCTCCTTCGAGCTGA
1 ATAAC-GTAAGCTCATT-GAGCTGA
24157052 ATAACTGTAAGCTCA-TGCAAGCTGA
1 ATAAC-GTAAGCTCATTG--AGCTGA
*
24157077 GTAACGATAAGCTCATATGAGCTGA
1 ATAACG-TAAGCTCAT-TGAGCTGA
24157102 A
1 A
24157103 ATCAGTAACC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
23 1 0.02
24 2 0.05
25 37 0.88
27 2 0.05
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (23 bp):
ATAACGTAAGCTCATTGAGCTGA
Found at i:24157997 original size:20 final size:19
Alignment explanation
Indices: 24157968--24158007 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
24157958 TAAAATATGA
*
24157968 TATCTTTAATGTATTTTAT
1 TATCTTTAATATATTTTAT
*
24157987 TATCATTTAATATGTTTTAT
1 TATC-TTTAATATATTTTAT
24158007 T
1 T
24158008 TAAATTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TATCTTTAATATATTTTAT
Found at i:24163286 original size:17 final size:17
Alignment explanation
Indices: 24163264--24163322 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
24163254 TACGAGTGGA
24163264 AAATATAATTATATAAT
1 AAATATAATTATATAAT
24163281 AAATAT-ATT-TATAA-
1 AAATATAATTATATAAT
* * *
24163295 AAATTTGATATAAATAAT
1 AAATATAAT-TATATAAT
*
24163313 AAATACAATT
1 AAATATAATT
24163323 TTATTTGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 4 0.12
17 11 0.33
18 6 0.18
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
AAATATAATTATATAAT
Found at i:24164811 original size:62 final size:62
Alignment explanation
Indices: 24164745--24164883 Score: 143
Period size: 62 Copynumber: 2.2 Consensus size: 62
24164735 ATTTTTAAAA
* * * ** ** * *
24164745 TTTTTAGAGTTAGGACTGAATTGACTGATTTTGTAAATGTTGAGGGCTGAATTTATTGATTT
1 TTTTTAGAATTAGGACTAAAATGACAAATTTTGTAAACATTGAGGGCTGAATTTATTAAATT
* * * *
24164807 TTTTTAGAATTAGAACTAAAATGACAAATTTTTTAAACATTGAGGGCTTAATTTGTTAAATT
1 TTTTTAGAATTAGGACTAAAATGACAAATTTTGTAAACATTGAGGGCTGAATTTATTAAATT
* *
24164869 TTTTTATATTTAGGA
1 TTTTTAGAATTAGGA
24164884 TCAAAGTGAT
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (62 bp):
TTTTTAGAATTAGGACTAAAATGACAAATTTTGTAAACATTGAGGGCTGAATTTATTAAATT
Found at i:24167813 original size:3 final size:3
Alignment explanation
Indices: 24167805--24167876 Score: 57
Period size: 3 Copynumber: 26.0 Consensus size: 3
24167795 TTCCATTTTC
*
24167805 TCT TCT TCT TC- TCC TCT TCT TCT T-T TCT TCT T-T T-T TCT TCT TC-
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * * *
24167848 TCA TAT TCT TCT TTT TC- TCT TGT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
24167877 ACTGCCCAGA
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
2 12 0.21
3 44 0.79
ACGTcount: A:0.03, C:0.29, G:0.01, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:24167822 original size:11 final size:11
Alignment explanation
Indices: 24167802--24167859 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 11
24167792 TCCTTCCATT
24167802 TTCTCTTCTTC
1 TTCTCTTCTTC
*
24167813 TTCTCCTCTTC
1 TTCTCTTCTTC
*
24167824 TTCTTTTCTTC
1 TTCTCTTCTTC
*
24167835 TT-TTTTCTTC
1 TTCTCTTCTTC
* *
24167845 TTCTCATATTC
1 TTCTCTTCTTC
24167856 TTCT
1 TTCT
24167860 TTTTCTCTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
10 10 0.25
11 30 0.75
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (11 bp):
TTCTCTTCTTC
Found at i:24167984 original size:39 final size:40
Alignment explanation
Indices: 24167941--24168022 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 40
24167931 ATGTCATGTT
*
24167941 ACTTTTCCATTA-CGTTTATAACAGAAAATGGTTAAAATG
1 ACTTTTCCATTATCGTTTAAAACAGAAAATGGTTAAAATG
** ** *
24167980 ACTTTTTTATTATTTTTTAAAATAGAAAATGGTTAAAATG
1 ACTTTTCCATTATCGTTTAAAACAGAAAATGGTTAAAATG
24168020 ACT
1 ACT
24168023 CTTTTATTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 10 0.28
40 26 0.72
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (40 bp):
ACTTTTCCATTATCGTTTAAAACAGAAAATGGTTAAAATG
Found at i:24168008 original size:40 final size:40
Alignment explanation
Indices: 24167963--24168041 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
24167953 CGTTTATAAC
*
24167963 AGAAAATGGTTAAAATGACTTTTTTATTATTTTTTAAAAT
1 AGAAAATGGTTAAAATGACTCTTTTATTATTTTTTAAAAT
24168003 AGAAAATGGTTAAAATGACTCTTTTATTATTTTTTAAAA
1 AGAAAATGGTTAAAATGACTCTTTTATTATTTTTTAAAA
24168042 GTTGAGTGAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.46
Consensus pattern (40 bp):
AGAAAATGGTTAAAATGACTCTTTTATTATTTTTTAAAAT
Found at i:24171039 original size:59 final size:59
Alignment explanation
Indices: 24170947--24171066 Score: 204
Period size: 59 Copynumber: 2.0 Consensus size: 59
24170937 TTACATTGTT
* *
24170947 ATTCTCAACTATTATTGACTCTTAGTGTTCAACTTTGAAATTCATGCTTAGACGTCTCA
1 ATTCTCAACTATTATTGACTCTTAGTGTTCAACTTCGAAATTAATGCTTAGACGTCTCA
* *
24171006 ATTCTCAGCTATTATTGACTCTTCGTGTTCAACTTCGAAATTAATGCTTAGACGTCTCA
1 ATTCTCAACTATTATTGACTCTTAGTGTTCAACTTCGAAATTAATGCTTAGACGTCTCA
24171065 AT
1 AT
24171067 CTTCGTAGAG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (59 bp):
ATTCTCAACTATTATTGACTCTTAGTGTTCAACTTCGAAATTAATGCTTAGACGTCTCA
Found at i:24172805 original size:42 final size:42
Alignment explanation
Indices: 24172757--24172979 Score: 198
Period size: 42 Copynumber: 5.3 Consensus size: 42
24172747 TCGGTTTATT
* *
24172757 TGATGATGCACTTACGTGTCAGTATATTTTCTTTGGTATATC
1 TGATGATGCACTTATGTGCCAGTATATTTTCTTTGGTATATC
* * * * *
24172799 TGATGATACACTTATGTGACAGTATATTTTCTTCGATATACC
1 TGATGATGCACTTATGTGCCAGTATATTTTCTTTGGTATATC
** *
24172841 CAATGATGCACTTATGTGCCAGTATATTTTCTTTGGTACATC
1 TGATGATGCACTTATGTGCCAGTATATTTTCTTTGGTATATC
* * * * ** * *
24172883 TGATAATGCACTTACGTGCCAGCATAATTGATTCGGTTTATC
1 TGATGATGCACTTATGTGCCAGTATATTTTCTTTGGTATATC
* * * *
24172925 CGATGATGCAC-TATGTGTTCCAATATATTTCCTTTGGTTTA-C
1 TGATGATGCACTTATGTG--CCAGTATATTTTCTTTGGTATATC
*
24172967 TCAATGATGCACT
1 T-GATGATGCACT
24172980 GCGGTGCCAG
Statistics
Matches: 141, Mismatches: 36, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
41 5 0.04
42 111 0.79
43 25 0.18
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (42 bp):
TGATGATGCACTTATGTGCCAGTATATTTTCTTTGGTATATC
Found at i:24172931 original size:84 final size:84
Alignment explanation
Indices: 24172746--24172962 Score: 238
Period size: 84 Copynumber: 2.6 Consensus size: 84
24172736 AGGTCTATAT
** * * * *
24172746 TTCGGTTTATTTGATGATGCACTTACGTGTCAGTATATTTTCTTTGGTATATCTGATGATACACT
1 TTCGGTTTATCCGATGATGCACTTATGTGCCAGTATATTTTCTTTGGTACATCTGATAATACACT
* * * **
24172811 TATGTGACAGTATATTTTC
66 TACGTGACAGCATAATTGA
* * * * *
24172830 TTCGATATACCCAATGATGCACTTATGTGCCAGTATATTTTCTTTGGTACATCTGATAATGCACT
1 TTCGGTTTATCCGATGATGCACTTATGTGCCAGTATATTTTCTTTGGTACATCTGATAATACACT
*
24172895 TACGTGCCAGCATAATTGA
66 TACGTGACAGCATAATTGA
* *
24172914 TTCGGTTTATCCGATGATGCAC-TATGTGTTCCAATATATTTCCTTTGGT
1 TTCGGTTTATCCGATGATGCACTTATGTG--CCAGTATATTTTCTTTGGT
24172963 TTACTCAATG
Statistics
Matches: 108, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
83 6 0.06
84 85 0.79
85 17 0.16
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.42
Consensus pattern (84 bp):
TTCGGTTTATCCGATGATGCACTTATGTGCCAGTATATTTTCTTTGGTACATCTGATAATACACT
TACGTGACAGCATAATTGA
Found at i:24181346 original size:86 final size:85
Alignment explanation
Indices: 24181201--24181367 Score: 214
Period size: 86 Copynumber: 2.0 Consensus size: 85
24181191 TCTCTCTCTC
* * *
24181201 TCACTCAATTAAGTACTTGAACTTTCAAAATGCATCAAACAGGCCCTCAAACTTCTTCAAAAAAA
1 TCACTCAATTAAGTACTTGAACTTTCAAAATACATCAAACAGACCCTAAAACTTCTTC--AAAAA
*
24181266 AGCAATTAAGCCC-TGCTTTTT
64 AGCAATTAAACCCATGCTTTTT
* * *
24181287 TCACTCAATTAGGTACTTGAACTTTCAAAATACATCAAGA-AGACCTTTAAAAGTT-TTCAAAAA
1 TCACTCAATTAAGTACTTGAACTTTCAAAATACATCAA-ACAGACC-CTAAAACTTCTTCAAAAA
24181350 AGCAATTAAACCCATGCT
64 AGCAATTAAACCCATGCT
24181368 CTTATTAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
84 17 0.24
85 4 0.06
86 43 0.61
87 7 0.10
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (85 bp):
TCACTCAATTAAGTACTTGAACTTTCAAAATACATCAAACAGACCCTAAAACTTCTTCAAAAAAG
CAATTAAACCCATGCTTTTT
Found at i:24181398 original size:9 final size:9
Alignment explanation
Indices: 24181386--24181482 Score: 54
Period size: 9 Copynumber: 10.6 Consensus size: 9
24181376 AAATTAGAAA
24181386 AAAAATTAT
1 AAAAATTAT
*
24181395 AAAAAATA-
1 AAAAATTAT
24181403 AAAAATTATT
1 AAAAATTA-T
** *
24181413 AAATTTTAG
1 AAAAATTAT
24181422 AAAAATTAT
1 AAAAATTAT
* *
24181431 -TAAATTTT
1 AAAAATTAT
*
24181439 AAAAATATAAA
1 AAAAAT-T-AT
*
24181450 AAAAATTGT
1 AAAAATTAT
*
24181459 AAAATTTTAT
1 AAAA-ATTAT
*
24181469 AAAAATCAT
1 AAAAATTAT
24181478 AAAAA
1 AAAAA
24181483 AACTAGGGGT
Statistics
Matches: 63, Mismatches: 19, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
8 13 0.21
9 29 0.46
10 15 0.24
11 6 0.10
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:24181425 original size:19 final size:18
Alignment explanation
Indices: 24181401--24181443 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 18
24181391 TTATAAAAAA
24181401 TAAAAAATTATTAAATTT
1 TAAAAAATTATTAAATTT
24181419 TAGAAAAATTATTAAATTT
1 TA-AAAAATTATTAAATTT
24181438 TAAAAA
1 TAAAAA
24181444 TATAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TAAAAAATTATTAAATTT
Found at i:24181453 original size:28 final size:31
Alignment explanation
Indices: 24181422--24181484 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 31
24181412 TAAATTTTAG
*
24181422 AAAAATTATTAAA-TTT-TAAAAAT-ATAAA
1 AAAAATTATAAAATTTTATAAAAATCATAAA
*
24181450 AAAAATTGTAAAATTTTATAAAAATCATAAA
1 AAAAATTATAAAATTTTATAAAAATCATAAA
24181481 AAAA
1 AAAA
24181485 CTAGGGGTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 11 0.37
29 3 0.10
30 7 0.23
31 9 0.30
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (31 bp):
AAAAATTATAAAATTTTATAAAAATCATAAA
Found at i:24181604 original size:27 final size:28
Alignment explanation
Indices: 24181569--24181630 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
24181559 AATTCTAATG
*
24181569 TTTAAT-AAATTT-TAATTTTTTCATATT
1 TTTAATAAAATTTATAATTTTTTAAT-TT
*
24181596 TTTATTAAAATTTAATAATTTTTTAATTT
1 TTTAATAAAATTT-ATAATTTTTTAATTT
24181625 TTTAAT
1 TTTAAT
24181631 TTTTTCTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 5 0.17
28 6 0.21
29 7 0.24
30 11 0.38
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTAATAAAATTTATAATTTTTTAATTT
Found at i:24181627 original size:10 final size:10
Alignment explanation
Indices: 24181614--24181655 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
24181604 AATTTAATAA
24181614 TTTTTTAA--
1 TTTTTTAATT
24181622 TTTTTTAATT
1 TTTTTTAATT
*
24181632 TTTTCTAATT
1 TTTTTTAATT
24181642 TTTTTCTAATT
1 TTTTT-TAATT
24181653 TTT
1 TTT
24181656 AATAAAGCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 8 0.28
10 13 0.45
11 8 0.28
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTAATT
Found at i:24181646 original size:11 final size:11
Alignment explanation
Indices: 24181622--24181655 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
24181612 AATTTTTTAA
24181622 TTTTT-TAA-T
1 TTTTTCTAATT
24181631 TTTTTCTAATT
1 TTTTTCTAATT
24181642 TTTTTCTAATT
1 TTTTTCTAATT
24181653 TTT
1 TTT
24181656 AATAAAGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 5 0.22
10 3 0.13
11 15 0.65
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTCTAATT
Found at i:24181654 original size:8 final size:8
Alignment explanation
Indices: 24181611--24181645 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
24181601 TAAAATTTAA
24181611 TAATTTTT
1 TAATTTTT
24181619 TAATTTTT
1 TAATTTTT
24181627 TAATTTTTT
1 TAA-TTTTT
24181636 CTAATTTTT
1 -TAATTTTT
24181645 T
1 T
24181646 TCTAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 12 0.48
9 10 0.40
10 3 0.12
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TAATTTTT
Found at i:24181865 original size:90 final size:91
Alignment explanation
Indices: 24181670--24181866 Score: 218
Period size: 90 Copynumber: 2.2 Consensus size: 91
24181660 AAGCCAAGGG
* * * *
24181670 ATTAATTACTTTTTTTTAAAAAAAGTTTGAGGGTTTTTTTGATGCATTTTGAAAGTTCAAGTACC
1 ATTAATTAC-TTTTTTTAAAAAAAGTTTGAGGATTTTTTTGATGCATTTTAAAAATTCAAGTACA
** * ****
24181735 CACTTGAATGTAAAAAAAAAGTAGGGG
65 CAAATGAATGTAAAAAAAAAGCAAAAA
* * *
24181762 CTTAATTGC-TTTTTTAAAAAAGGTTTGAGGATTTTTTTGATGCATTTTAAAAATTCAAGTACAC
1 ATTAATTACTTTTTTTAAAAAAAGTTTGAGGATTTTTTTGATGCATTTTAAAAATTCAAGTACAC
* * *
24181826 AAATGAGTG-CAAAAAAATGCAAAAA
66 AAATGAATGTAAAAAAAAAGCAAAAA
24181851 ATTAATTACTTTTTTT
1 ATTAATTACTTTTTTT
24181867 TTTTAAAGTT
Statistics
Matches: 85, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
89 16 0.19
90 62 0.73
92 7 0.08
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (91 bp):
ATTAATTACTTTTTTTAAAAAAAGTTTGAGGATTTTTTTGATGCATTTTAAAAATTCAAGTACAC
AAATGAATGTAAAAAAAAAGCAAAAA
Found at i:24183426 original size:243 final size:236
Alignment explanation
Indices: 24183057--24183692 Score: 718
Period size: 241 Copynumber: 2.6 Consensus size: 236
24183047 TCCCCCATTT
* * *
24183057 TCTTCATTTTTATTTCTCAATTGTTTATTTC-A-CCGTCT-GTTCGTGGTATTTGGTTTTCCATT
1 TCTTCATTTTT-TTTCTCAATTGTTAATTTCAATCCG-CTAGTTCGTGGAATTTGGTTTTTCATT
** * *
24183119 TCTGA-CAGTATTTAGGGCAAAAATAGGATCGTAGAATTCTAAATTTATATTCAATTAAATCAGC
64 TC-GAGTTGTATTTAGGGGAAAAAAAGGATCGTAGAA-TCTAAATTTATATTCAATTAAATCAGC
* * * * *
24183183 CTAACATTTTTGTTAATAATTGTTTTTAATAAAGTTTCGTAGCTAATAAATTTATTAATCTG-A-
127 CTAACATTTTTGTTAATTATTGTTTTTAAT----TTCCGTACCTAACAAATTGATTAATCTGAAT
* *
24183246 A-TTATTATTTATTTTGCGAAATTTGATAAAAAATTATGTTGTTTTTTCTTTG
188 ATTTATTATTTATTTTGC---A-CTGATAAAAAATTAGGTTGTTTTTTCTTTG
* *
24183298 TCTTCATTTTTGTTTCTCAATTGTTAATTCCAATCCGCTAGTTCGTGGAATTAGGTTTTTCATTT
1 TCTTCATTTTT-TTTCTCAATTGTTAATTTCAATCCGCTAGTTCGTGGAATTTGGTTTTTCATTT
* * * *
24183363 CGAGTTGTATATAGGGGAAAAGAAAAGATCGTAGAATCTAAATTTATAGTCAATTATATCAGCCT
65 CGAGTTGTATTTAGGGGAAAA-AAAGGATCGTAGAATCTAAATTTATATTCAATTAAATCAGCCT
*
24183428 AACATTTTTGTTAATTATTG--TTTCATTTCCGTACCTAACAAATTGATTAATCTGATTAAGTTA
129 AACATTTTTGTTAATTATTGTTTTTAATTTCCGTACCTAACAAATTGATTAATCTG---AA--TA
*
24183491 TTTATTATTTATTTTGCACTGATAAAAGATTAGGTTGTTTTTTCTTTG
189 TTTATTATTTATTTTGCACTGATAAAAAATTAGGTTGTTTTTTCTTTG
* * * * *
24183539 TCTTCATTTTTTCTTCTCAATTATTAATTTCAATGCGCCATTTTGTGGAATTTGGTTTTTCATTT
1 TCTTCATTTTTT-TTCTCAATTGTTAATTTCAATCCGCTAGTTCGTGGAATTTGGTTTTTCATTT
* *
24183604 TG-GATTGTATTTAGGGGGAAAAAATAGGATCGTGGAAT-TGAAATTTATATTCAATTAAATCAG
65 CGAG-TTGTATTTA-GGGGAAAAAA-AGGATCGTAGAATCT-AAATTTATATTCAATTAAATCAG
24183667 CCTAACATTTTTGTTAATTATTGTTT
126 CCTAACATTTTTGTTAATTATTGTTT
24183693 GTTTCTAATC
Statistics
Matches: 339, Mismatches: 36, Indels: 37
0.82 0.09 0.09
Matches are distributed among these distances:
237 24 0.07
240 2 0.01
241 129 0.38
242 69 0.20
243 85 0.25
244 14 0.04
245 16 0.05
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.46
Consensus pattern (236 bp):
TCTTCATTTTTTTTCTCAATTGTTAATTTCAATCCGCTAGTTCGTGGAATTTGGTTTTTCATTTC
GAGTTGTATTTAGGGGAAAAAAAGGATCGTAGAATCTAAATTTATATTCAATTAAATCAGCCTAA
CATTTTTGTTAATTATTGTTTTTAATTTCCGTACCTAACAAATTGATTAATCTGAATATTTATTA
TTTATTTTGCACTGATAAAAAATTAGGTTGTTTTTTCTTTG
Found at i:24195622 original size:276 final size:276
Alignment explanation
Indices: 24195103--24195940 Score: 1433
Period size: 276 Copynumber: 3.0 Consensus size: 276
24195093 CTGCATTTTA
*
24195103 GTTGTTATCCTACTGCAGCTGGTAGAAATTCACATTTCCTGATTCTTTTTGTTTGGTTTAGCATG
1 GTTGTTATCCTACTGCTGCTGGTAGAAATTCACATTTCCTGATTCTTTTTGTTTGGTTTAGCATG
*
24195168 TAATAAATCCAAGTTCAAGTGTTGCTAATTCCGGAGAAGCTGATGCCCATGTACCAACCGTGAGT
66 TAATAAAT-C-----CAAGTGTTGCTAATTCCGGAGAAGCTGATGCCCATGTCCCAACCGTGAGT
* * * *
24195233 AGTCATGAACTGAATTTTTCTTTTTTCTTTGGTGGGATAAATATCAAAGCTACCAATGAACTTTG
125 AATCATGAACTGAATTTTTC----CT-TTTAGTGGGATAAATATCAAAGCTACCCATGAACTTTG
* *
24195298 GTCTATATGTGGTACATGAATTTTGATTTTGTGTAATTGCATACATGAAATTTCAATTTAATTCA
185 GTCTATATATGGTACATGAATTTTGATTTTGTGCAATTGCATACATGAAATTTCAATTTAATTCA
24195363 ATTTTCACAAAACACTAACACTGTTTG
250 ATTTTCACAAAACACTAACACTGTTTG
24195390 GTTGTTATCCTACTGCTGCTGGTAGAAATTCACATTTCCTGATTCTTTTTGTTTGGTTTAGCATG
1 GTTGTTATCCTACTGCTGCTGGTAGAAATTCACATTTCCTGATTCTTTTTGTTTGGTTTAGCATG
24195455 TAATAAATCCAAGTGTTGCTAATTCCGGAGAAGCTGATGCCCATGTCCCAACCGTGAGTAATCAT
66 TAATAAATCCAAGTGTTGCTAATTCCGGAGAAGCTGATGCCCATGTCCCAACCGTGAGTAATCAT
24195520 GAACTGAATTTTTCCTTTTAGTGGGATAAATATCAAAGCTACCCATGAACTTTGGTCTATATATG
131 GAACTGAATTTTTCCTTTTAGTGGGATAAATATCAAAGCTACCCATGAACTTTGGTCTATATATG
*
24195585 GTACATGAATTTTGATTTTGTGCAGTTGCATACATGAAATTTCAATTTAATTCAATTTTCACAAA
196 GTACATGAATTTTGATTTTGTGCAATTGCATACATGAAATTTCAATTTAATTCAATTTTCACAAA
24195650 ACACTAACACTGTTTG
261 ACACTAACACTGTTTG
* *
24195666 GTTGTTATCCTATTGCTGCTAGTAGAAATTCACATTTCCTGATTCTTTTTGTTTGGTTTAGCATG
1 GTTGTTATCCTACTGCTGCTGGTAGAAATTCACATTTCCTGATTCTTTTTGTTTGGTTTAGCATG
24195731 TAATAAATCCAAGTGTTGCTAATTCCGGAGAAGCTGATGCCCATGTCCCAACCGTGAGTAATCAT
66 TAATAAATCCAAGTGTTGCTAATTCCGGAGAAGCTGATGCCCATGTCCCAACCGTGAGTAATCAT
* *
24195796 GAACTGAATTTTTTCTTTTTGTGGGATAAATATCAAAGCTACCCATGAACTTTGGTCTATATATG
131 GAACTGAATTTTTCCTTTTAGTGGGATAAATATCAAAGCTACCCATGAACTTTGGTCTATATATG
*
24195861 GTACATGAATTTTGATTTTGTGCAATTGCATACATGAAATTTCAATTTAATTCAATTTTCACATA
196 GTACATGAATTTTGATTTTGTGCAATTGCATACATGAAATTTCAATTTAATTCAATTTTCACAAA
* *
24195926 GCACTGACACTGTTT
261 ACACTAACACTGTTT
24195941 TCGACGTAAC
Statistics
Matches: 534, Mismatches: 17, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
276 392 0.73
277 1 0.00
281 68 0.13
286 1 0.00
287 72 0.13
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (276 bp):
GTTGTTATCCTACTGCTGCTGGTAGAAATTCACATTTCCTGATTCTTTTTGTTTGGTTTAGCATG
TAATAAATCCAAGTGTTGCTAATTCCGGAGAAGCTGATGCCCATGTCCCAACCGTGAGTAATCAT
GAACTGAATTTTTCCTTTTAGTGGGATAAATATCAAAGCTACCCATGAACTTTGGTCTATATATG
GTACATGAATTTTGATTTTGTGCAATTGCATACATGAAATTTCAATTTAATTCAATTTTCACAAA
ACACTAACACTGTTTG
Found at i:24196077 original size:31 final size:31
Alignment explanation
Indices: 24196042--24196129 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 31
24196032 AATGTTTACG
*
24196042 ATTGAATCAATATCAAAGTTTCATATATATA
1 ATTGAATCAAAATCAAAGTTTCATATATATA
* * * *
24196073 ATTGAATTAAAATCAAATTTTCATGTGTATA
1 ATTGAATCAAAATCAAAGTTTCATATATATA
* *
24196104 A-TAATATC-ACATCAAAG-TTCATATAT
1 ATTGA-ATCAAAATCAAAGTTTCATATAT
24196130 TACAATGTAC
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
29 7 0.16
30 9 0.20
31 29 0.64
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (31 bp):
ATTGAATCAAAATCAAAGTTTCATATATATA
Found at i:24202816 original size:4 final size:4
Alignment explanation
Indices: 24202807--24202881 Score: 132
Period size: 4 Copynumber: 18.8 Consensus size: 4
24202797 ATATTAGAAT
24202807 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
24202855 ATAC ATAC ATAA ATAT ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
24202882 TTCTAATGTT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 68 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:24206026 original size:16 final size:16
Alignment explanation
Indices: 24206005--24206036 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24205995 ATTTTACTAT
24206005 ATAGTGGTTCATAAAA
1 ATAGTGGTTCATAAAA
24206021 ATAGTGGTTCATAAAA
1 ATAGTGGTTCATAAAA
24206037 GGTTGTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
ATAGTGGTTCATAAAA
Found at i:24209682 original size:22 final size:24
Alignment explanation
Indices: 24209657--24209710 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
24209647 TTATAAATTC
24209657 AATTTAA-AATATATAAT-ACAAT
1 AATTTAAGAATATATAATAACAAT
* *
24209679 AATTTCAAGCATATTTAATAACAAT
1 AATTT-AAGAATATATAATAACAAT
*
24209704 AGTTTAA
1 AATTTAA
24209711 TCATCAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 5 0.19
23 2 0.08
24 10 0.38
25 9 0.35
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (24 bp):
AATTTAAGAATATATAATAACAAT
Found at i:24211081 original size:183 final size:183
Alignment explanation
Indices: 24210766--24211130 Score: 579
Period size: 183 Copynumber: 2.0 Consensus size: 183
24210756 ATTTTCCTTT
* *
24210766 GTTTTCGCACGCGGTTAGTGCTTGCTTAGTTTCGGTAAGTGTTTCTCTTCGTTTCTATCATGAAT
1 GTTTTCACACGCGGTTAGTGCTCGCTTAGTTTCGGTAAGTGTTTCTCTTCGTTTCTATCATGAAT
* * * * *
24210831 CTCTTAACGACTGAAGTGGTAATATTTTTTCTCTGCAGTTTGGGCGTAGGGGGAGGCTTGGACTG
66 CTCTTAACAACTGAAGTGATAATATTTTTTCTCTGCAGTTTGGGCGTAAGGAGAGGCTCGGACTG
*
24210896 GTGAATTCGATGTTCTCGTCTTAACAATAGTTAAATGGAGGGTTATCATTGGC
131 GTGAATTCGATGTTCTCGTCTTAACAATAGTTAAACGGAGGGTTATCATTGGC
* * *
24210949 GTTTTCACACGCGGTTAGTGCTCGCTTAGTTTCGGTAAGTGTTTCTTTTTGTTTCTGTCATGAAT
1 GTTTTCACACGCGGTTAGTGCTCGCTTAGTTTCGGTAAGTGTTTCTCTTCGTTTCTATCATGAAT
* *
24211014 CTCTTAACAACTGAAGTGATAATGTTTTTTCTTTGC-GATTTGGGCGTAAGGAGAGGCTCGGACT
66 CTCTTAACAACTGAAGTGATAATATTTTTTCTCTGCAG-TTTGGGCGTAAGGAGAGGCTCGGACT
* *
24211078 GGTGAATTCGGTGTTCTCGTCTTAACAATAGTTAAACGGAGGGTTATCGTTGG
130 GGTGAATTCGATGTTCTCGTCTTAACAATAGTTAAACGGAGGGTTATCATTGG
24211131 TGGTAAGTTG
Statistics
Matches: 166, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
182 1 0.01
183 165 0.99
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.38
Consensus pattern (183 bp):
GTTTTCACACGCGGTTAGTGCTCGCTTAGTTTCGGTAAGTGTTTCTCTTCGTTTCTATCATGAAT
CTCTTAACAACTGAAGTGATAATATTTTTTCTCTGCAGTTTGGGCGTAAGGAGAGGCTCGGACTG
GTGAATTCGATGTTCTCGTCTTAACAATAGTTAAACGGAGGGTTATCATTGGC
Found at i:24223863 original size:17 final size:17
Alignment explanation
Indices: 24223825--24223868 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
24223815 AAAAAGTTTC
24223825 AAAA-GGAAGAAAAAAAT
1 AAAAGGGAA-AAAAAAAT
*
24223842 -GAAGGGAAAAAAAAAT
1 AAAAGGGAAAAAAAAAT
24223858 AAAAGGGAAAA
1 AAAAGGGAAAA
24223869 TAGAGTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.05
Consensus pattern (17 bp):
AAAAGGGAAAAAAAAAT
Found at i:24224739 original size:132 final size:132
Alignment explanation
Indices: 24224574--24225730 Score: 1983
Period size: 132 Copynumber: 8.8 Consensus size: 132
24224564 CCCTACTATC
* * * * *
24224574 TTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCTACTACTGCTTAGGGAT-ACAAAATCTACA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGG-TGACAGAATCTGCA
* * * *
24224638 ATCTTTGACCTATTCTACTACTGCTTAGGGTGATAAGACTAATGGCTTAAATCTGCTTCTCCACT
65 ATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
24224703 GTA
130 GTA
24224706 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* *
24224771 TCTTCGACCTACTCCACCACTGCTTATGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
24224836 TA
131 TA
*
24224838 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGAGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
*
24224903 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGTTTCTCCACTG
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
24224968 TA
131 TA
*
24224970 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATTTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* *
24225035 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTT
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
24225100 TA
131 TA
* *
24225102 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATATGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* * *
24225167 TCTTCAACCTACTCCACTACTACTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTG
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
24225232 TA
131 TA
* * *
24225234 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCATAGGGTGACAAAATCTGTAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* *
24225299 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGTCTTAAATCTGCTTCTCCACTG
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
24225364 TA
131 TA
* *
24225366 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTACATAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
24225431 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
24225496 TA
131 TA
24225498 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
*
24225563 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGTTTAAATCTGCTTCTCCACTG
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
24225628 TA
131 TA
** *
24225630 TTGGGAAGATAAGATTCACCATCTTCGGCCTGCTCCACTACTGCTTAGGGTGACAGAATATGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* * *
24225695 TCTTCAACCTACTCCACCACTGTTTAGGGTGATAGG
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGG
24225731 TTTGTGTCTT
Statistics
Matches: 979, Mismatches: 45, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
131 1 0.00
132 978 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
TA
Found at i:24227180 original size:14 final size:14
Alignment explanation
Indices: 24227148--24227179 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
24227138 AGCCTCTCCA
24227148 TTTTTATTTTTCAT
1 TTTTTATTTTTCAT
24227162 TTTTTA-TTTTCAT
1 TTTTTATTTTTCAT
24227175 TTTTT
1 TTTTT
24227180 TGACCCAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTATTTTTCAT
Found at i:24227990 original size:13 final size:12
Alignment explanation
Indices: 24227968--24227997 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
24227958 TGACCTCTCC
24227968 TTTTTCTTTTCT
1 TTTTTCTTTTCT
24227980 TTTTCTCTTTTCT
1 TTTT-TCTTTTCT
24227993 TTTTT
1 TTTTT
24227998 TTCTCTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTCTTTTCT
Found at i:24228000 original size:16 final size:18
Alignment explanation
Indices: 24227969--24228004 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
24227959 GACCTCTCCT
24227969 TTTTCTTTTCTTTTTCTC
1 TTTTCTTTTCTTTTTCTC
24227987 TTTTC-TTT-TTTTTCTC
1 TTTTCTTTTCTTTTTCTC
24228003 TT
1 TT
24228005 ATTTTTGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 3 0.17
18 5 0.28
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTCTTTTCTTTTTCTC
Found at i:24230729 original size:19 final size:19
Alignment explanation
Indices: 24230705--24230750 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
24230695 GTGAAAATTT
* *
24230705 AATGCATATG-ATGCAATG
1 AATGCAAATGTATGAAATG
24230723 CAATGCAAATGTATGAAATG
1 -AATGCAAATGTATGAAATG
24230743 AATGCAAA
1 AATGCAAA
24230751 AAGAGACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.24
Consensus pattern (19 bp):
AATGCAAATGTATGAAATG
Found at i:24233193 original size:26 final size:25
Alignment explanation
Indices: 24233155--24233204 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
24233145 AATATTTAAA
*
24233155 AAGAGATATAGATATATATACATAAT
1 AAGAGATAAAGATATATATA-ATAAT
* *
24233181 AAGATATAAAGATATTTATAATAA
1 AAGAGATAAAGATATATATAATAA
24233205 GGTATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (25 bp):
AAGAGATAAAGATATATATAATAAT
Found at i:24233217 original size:22 final size:22
Alignment explanation
Indices: 24233166--24233222 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
24233156 AGAGATATAG
*
24233166 ATATATATACATAATAAGATAT
1 ATATATATATATAATAAGATAT
* * * *
24233188 AAAGATATTTATAATAAGGTAT
1 ATATATATATATAATAAGATAT
*
24233210 ATATATATGTATA
1 ATATATATATATA
24233223 TGAAAATTAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.39
Consensus pattern (22 bp):
ATATATATATATAATAAGATAT
Found at i:24238974 original size:2 final size:2
Alignment explanation
Indices: 24238967--24238997 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
24238957 CTTTCAATTA
*
24238967 AG AG AG AG AG AG AG AG AG AG AG GG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
24238998 ACTTAGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24241912 original size:14 final size:14
Alignment explanation
Indices: 24241884--24241930 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
24241874 TGTCTTATGA
* *
24241884 TTATTTTAGTTATG
1 TTATTTTAATCATG
24241898 TTATTTTAATCATG
1 TTATTTTAATCATG
* *
24241912 TCATTATAATCATG
1 TTATTTTAATCATG
24241926 TTATT
1 TTATT
24241931 AATTGTGCAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.57
Consensus pattern (14 bp):
TTATTTTAATCATG
Found at i:24244624 original size:19 final size:19
Alignment explanation
Indices: 24244600--24244636 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24244590 ATTTTCAAGA
24244600 TCCACACGGCCTGGGCATT
1 TCCACACGGCCTGGGCATT
* *
24244619 TCCACATGGGCTGGGCAT
1 TCCACACGGCCTGGGCAT
24244637 ACGTCCATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.32, G:0.30, T:0.22
Consensus pattern (19 bp):
TCCACACGGCCTGGGCATT
Found at i:24251598 original size:24 final size:23
Alignment explanation
Indices: 24251571--24251636 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 23
24251561 CCCTTCTATT
24251571 TTATTTTATTTATTATTTCTTATA
1 TTATTTTATTTATTA-TTCTTATA
24251595 TTA-TTTATTT-TTATT-TTACTA
1 TTATTTTATTTATTATTCTTA-TA
24251616 --ATTTTATTTATTATTCTTATA
1 TTATTTTATTTATTATTCTTATA
24251637 CTTAGATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
19 1 0.03
20 10 0.26
21 11 0.29
22 6 0.16
23 7 0.18
24 3 0.08
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (23 bp):
TTATTTTATTTATTATTCTTATA
Done.