Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 8 of 211
Found at i:2776699 original size:13 final size:12
Alignment explanation
Indices: 2776673--2776704 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
2776663 GGCCCGCCCG
2776673 TATTATTTTTTA
1 TATTATTTTTTA
2776685 TATTA-TTTTTA
1 TATTATTTTTTA
2776696 TA-TATTTTT
1 TATTATTTTT
2776705 AAAATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.11
11 12 0.63
12 5 0.26
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:2776701 original size:10 final size:11
Alignment explanation
Indices: 2776673--2776705 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
2776663 GGCCCGCCCG
2776673 TATTATTTTTTA
1 TATTA-TTTTTA
2776685 TATTATTTTTA
1 TATTATTTTTA
2776696 TA-TATTTTTA
1 TATTATTTTTA
2776706 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 8 0.38
11 8 0.38
12 5 0.24
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:2776848 original size:30 final size:30
Alignment explanation
Indices: 2776812--2776874 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
2776802 ACTTAACAAG
2776812 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
2776842 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
2776872 CAA
1 CAA
2776875 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:2783738 original size:855 final size:855
Alignment explanation
Indices: 2782088--2783773 Score: 3077
Period size: 855 Copynumber: 2.0 Consensus size: 855
2782078 CGCGTGACTC
2782088 AAGTTAGAGAGTTACACTGGTATGGACACGGGCTGGGACACGGTCGTGCGCCTCACATCGAATGC
1 AAGTTAGAGAGTTACACTGGTATGGACACGGGCTGGGACACGGTCGTGCGCCTCACATCGAATGC
* *
2782153 CCACACGGCCTGGCCACACGAGTATGTGTCCCCTGCACCTAATTTTTTTTTTAAATTTCACGAAA
66 CCACACGGCCTGGCCACACGAGTATGTGTCCCCTGCACCTAAATTTTTTTTGAAATTTCACGAAA
*
2782218 AATTCTCTAAGTTCCCGATATAGTCCTGACTTATTTCTAATGCATAAATTGGGTCTCGATGGCCC
131 AATTCTCTAAGTTCCCGATATAGTCCCGACTTATTTCTAATGCATAAATTGGGTCTCGATGGCCC
*
2782283 ATATAAGGGACATTATGATTGAATAGGTTAGATTTCAGATATAAATAACAAATGATATGATTTAA
196 ATATAAGGGACATTATGATTGAATAGGTTAGATTTCAGATATAAATAACAAATGATATAATTTAA
*
2782348 TTATATTTTATGTGTACACTTCGGTAATACTTCGTAATCCTGTTTCGACAACGAATATAGGTTAA
261 TTATATTTTATGTGTACACTTCGATAATACTTCGTAATCCTGTTTCGACAACGAATATAGGTTAA
* *
2782413 GGGTGTTATATTTGTTGGTATTAGAGCCAAATTTAGCCGATTCTCAGACTAACATAGCAAGTGCG
326 GGGTGTTATATTTGTTGGTATTAGAGCCAAATTTAGCCAATTCTCAGACTAACATAGCAACTGCG
*
2782478 AGTTTAGCTATACATGTCATTATATAATTTGTGATAGTGTGATATCTCCTGACTAATTTAAACAT
391 AGTTTAGCTATACATGCCATTATATAATTTGTGATAGTGTGATATCTCCTGACTAATTTAAACAT
2782543 GTTTTCCATATAGTAATGTCGTCCAACCAAGCTTCAGTTCAAAGAGCTGCATCGAGTAGTAGAAG
456 GTTTTCCATATAGTAATGTCGTCCAACCAAGCTTCAGTTCAAAGAGCTGCATCGAGTAGTAGAAG
* * * *
2782608 GCTCGTATCTAAGGGCTGAGTTGAGGAGGCTAAAGAAACCTTTTTCCAAATGATGAATGAATAGT
521 GCCCATATCTAAGGGCCGAGGTGAGGAGGCTAAAGAAACCTTTTTCCAAATGATGAATGAATAGT
2782673 TTACTGAATATTTAAGAATAAATCCCGCTGCACAACAACCTTCCCCTTTTGTTCCTCAACCGTTT
586 TTACTGAATATTTAAGAATAAATCCCGCTGCACAACAACCTTCCCCTTTTGTTCCTCAACCGTTT
* *
2782738 CTTGATATGCCATAAGGTACAGAGCTTGTTAGATCTAATAAGCCTCCAGTAGCTAAAATTCACAA
651 CTTGATATGCCACAAGGTACAGAGCTTGTTAGATCTAATAAGCCTCCAGTAGCTAAAATCCACAA
*
2782803 ATATGAGGCAGAAGAATTTAGGGCTACTGTTGAAGATGATCCAGAAAGGGCTGAATTTTGGCTAG
716 ATATGAGGCAGAAGAATTTAGAGCTACTGTTGAAGATGATCCAGAAAGGGCTGAATTTTGGCTAG
2782868 AAAACACTATCAGAGTTCTGGATGAATTATCTTGCACACCTGACGAATGTTTGAAATATGTTGTA
781 AAAACACTATCAGAGTTCTGGATGAATTATCTTGCACACCTGACGAATGTTTGAAATATGTTGTA
2782933 TCTCTGCTAA
846 TCTCTGCTAA
*
2782943 AAGTTAGAGAGTTACACTGGTATGGACACGGGTTGGGACACGGTCGTGCGCCTCACATCGAATGC
1 AAGTTAGAGAGTTACACTGGTATGGACACGGGCTGGGACACGGTCGTGCGCCTCACATCGAATGC
*
2783008 CCACACGGCCTGGCCACACGAGTATGTGTCCCCTGCACCTAAATTTTTTTTGAAATTTCGCGAAA
66 CCACACGGCCTGGCCACACGAGTATGTGTCCCCTGCACCTAAATTTTTTTTGAAATTTCACGAAA
*
2783073 AATTCTCTGAGTTCCCGATATAGTCCCGACTTATTTCTAATGCATAAATTGGGTCTCGATGGCCC
131 AATTCTCTAAGTTCCCGATATAGTCCCGACTTATTTCTAATGCATAAATTGGGTCTCGATGGCCC
* *
2783138 ATATAAGGGACATTATGATTGAATAGGTTAGATTTCAGATATGAATAGCAAATGATATAATTTAA
196 ATATAAGGGACATTATGATTGAATAGGTTAGATTTCAGATATAAATAACAAATGATATAATTTAA
* *
2783203 TTATATTTTATGTGTACACTTCGATAATACTTCGTAATCCTGTTTCGACAATGAATATAGGTTAG
261 TTATATTTTATGTGTACACTTCGATAATACTTCGTAATCCTGTTTCGACAACGAATATAGGTTAA
* * *
2783268 GGGTGTTATATTTGTTGGTATTGGAGCCAAGTTTAGCCAATTCTCAGACTAACGTAGCAACTGCG
326 GGGTGTTATATTTGTTGGTATTAGAGCCAAATTTAGCCAATTCTCAGACTAACATAGCAACTGCG
2783333 AGTTTAGCTATACATGCCATTATATAATTTGTGATAGTGTGATATCTCCTGACTAATTTAAACAT
391 AGTTTAGCTATACATGCCATTATATAATTTGTGATAGTGTGATATCTCCTGACTAATTTAAACAT
2783398 GTTTTCCATATAGTAATGTCGTCCAACCAAGCTTCAGTTCAAAGAGCTGCATCGAGTAGTAGAAG
456 GTTTTCCATATAGTAATGTCGTCCAACCAAGCTTCAGTTCAAAGAGCTGCATCGAGTAGTAGAAG
*
2783463 GCCCATATCTGAGGGCCGAGGTGAGGAGGCTAAAGAAACCTTTTTCCAAATGATGAATGAATAGT
521 GCCCATATCTAAGGGCCGAGGTGAGGAGGCTAAAGAAACCTTTTTCCAAATGATGAATGAATAGT
* * *
2783528 TTATTGAATATTTAAGAATAAATCTCGCTGTACAACAACCTTCCCCTTTTG-TCCTTCAACCGTT
586 TTACTGAATATTTAAGAATAAATCCCGCTGCACAACAACCTTCCCCTTTTGTTCC-TCAACCGTT
*
2783592 TCTTGATATGCCACAAGGTACAGAGCTTGTTAGATCTAGTAAGCCTCCAGTAGCTAAAATCCACA
650 TCTTGATATGCCACAAGGTACAGAGCTTGTTAGATCTAATAAGCCTCCAGTAGCTAAAATCCACA
2783657 AATATGAGGCAGAAGAATTTAGAGCTACTGTTGAAGATGATCCAGAAAGGGCTGAATTTTGGCTA
715 AATATGAGGCAGAAGAATTTAGAGCTACTGTTGAAGATGATCCAGAAAGGGCTGAATTTTGGCTA
*
2783722 GAAAACACTATCAGAGTTCTGGATGAATTGTCTTGCACACCTGACGAATGTT
780 GAAAACACTATCAGAGTTCTGGATGAATTATCTTGCACACCTGACGAATGTT
2783774 CTGGATGAAT
Statistics
Matches: 799, Mismatches: 31, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
854 3 0.00
855 796 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (855 bp):
AAGTTAGAGAGTTACACTGGTATGGACACGGGCTGGGACACGGTCGTGCGCCTCACATCGAATGC
CCACACGGCCTGGCCACACGAGTATGTGTCCCCTGCACCTAAATTTTTTTTGAAATTTCACGAAA
AATTCTCTAAGTTCCCGATATAGTCCCGACTTATTTCTAATGCATAAATTGGGTCTCGATGGCCC
ATATAAGGGACATTATGATTGAATAGGTTAGATTTCAGATATAAATAACAAATGATATAATTTAA
TTATATTTTATGTGTACACTTCGATAATACTTCGTAATCCTGTTTCGACAACGAATATAGGTTAA
GGGTGTTATATTTGTTGGTATTAGAGCCAAATTTAGCCAATTCTCAGACTAACATAGCAACTGCG
AGTTTAGCTATACATGCCATTATATAATTTGTGATAGTGTGATATCTCCTGACTAATTTAAACAT
GTTTTCCATATAGTAATGTCGTCCAACCAAGCTTCAGTTCAAAGAGCTGCATCGAGTAGTAGAAG
GCCCATATCTAAGGGCCGAGGTGAGGAGGCTAAAGAAACCTTTTTCCAAATGATGAATGAATAGT
TTACTGAATATTTAAGAATAAATCCCGCTGCACAACAACCTTCCCCTTTTGTTCCTCAACCGTTT
CTTGATATGCCACAAGGTACAGAGCTTGTTAGATCTAATAAGCCTCCAGTAGCTAAAATCCACAA
ATATGAGGCAGAAGAATTTAGAGCTACTGTTGAAGATGATCCAGAAAGGGCTGAATTTTGGCTAG
AAAACACTATCAGAGTTCTGGATGAATTATCTTGCACACCTGACGAATGTTTGAAATATGTTGTA
TCTCTGCTAA
Found at i:2783825 original size:39 final size:39
Alignment explanation
Indices: 2783712--2783838 Score: 142
Period size: 39 Copynumber: 3.4 Consensus size: 39
2783702 AAAGGGCTGA
*
2783712 ATTTTGGCTAGAAAACACTATCAGAGTTCTGGATGAATT
1 ATTTTGGCTAGAAAACACTATCAAAGTTCTGGATGAATT
* * * *
2783751 GTCTT-GC----ACAC-CTGA-CGAATGTTCTGGATGAATT
1 ATTTTGGCTAGAAAACACT-ATC-AAAGTTCTGGATGAATT
2783785 ATTTTGGCTAGAAAACACTATCAAAGTTCTGGATGAATT
1 ATTTTGGCTAGAAAACACTATCAAAGTTCTGGATGAATT
2783824 ATTTTGGCTAGAAAA
1 ATTTTGGCTAGAAAA
2783839 GACTCAGCCT
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
33 3 0.04
34 22 0.31
35 2 0.03
38 2 0.03
39 38 0.54
40 3 0.04
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.33
Consensus pattern (39 bp):
ATTTTGGCTAGAAAACACTATCAAAGTTCTGGATGAATT
Found at i:2788882 original size:21 final size:21
Alignment explanation
Indices: 2788858--2788898 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2788848 GCCTAAAATT
* *
2788858 TGAATTTGATTGAATTGAATA
1 TGAATTTCATTAAATTGAATA
2788879 TGAATTTCATTAAATTGAAT
1 TGAATTTCATTAAATTGAAT
2788899 TAAATTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (21 bp):
TGAATTTCATTAAATTGAATA
Found at i:2791677 original size:18 final size:17
Alignment explanation
Indices: 2791644--2791682 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
2791634 TTTTATAAAT
2791644 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
2791662 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
2791679 TGTG
1 TGTG
2791683 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:2791814 original size:8 final size:8
Alignment explanation
Indices: 2791801--2791826 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2791791 CACTAGAGAC
2791801 CAGTGTTA
1 CAGTGTTA
2791809 CAGTGTTA
1 CAGTGTTA
2791817 CAGTGTTA
1 CAGTGTTA
2791825 CA
1 CA
2791827 CTGAGTCCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (8 bp):
CAGTGTTA
Found at i:2791943 original size:23 final size:23
Alignment explanation
Indices: 2791916--2791991 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
2791906 AGTGTTATTG
2791916 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
2791939 TTCAGTGGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
2791962 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
2791985 ATCAGTG
1 ATCAGTG
2791992 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:2796047 original size:18 final size:18
Alignment explanation
Indices: 2796024--2796071 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
2796014 AAAATATGAG
*
2796024 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
2796042 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
2796060 AAATGATGTTCA
1 AAATGATGTTCA
2796072 AATTGATGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:2796596 original size:72 final size:72
Alignment explanation
Indices: 2796496--2796667 Score: 260
Period size: 72 Copynumber: 2.4 Consensus size: 72
2796486 AACAATAATG
* * *
2796496 CTAAA-CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTCTGGTCTTTGGATATTGAATTTATGTTCTACTT
2796560 ATTTAT-
66 ATTTATA
* * *
2796566 GTGTAATCTAGTTTTATTAATAGTTGTTTATGTCTGGTCTTTGGATATTGAATTTATGTTCTACT
1 CT-AAATCTAGTTTTATCAATAGTTGTTTATGTCTGGTCTTTGGATATTGAATTTATGTTCTACT
2796631 TATTTATA
65 TATTTATA
2796639 CTAAAT-TAGTTTTATCAATAGTTGTTTAT
1 CTAAATCTAGTTTTATCAATAGTTGTTTAT
2796668 AAATGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
70 1 0.01
71 24 0.27
72 64 0.71
73 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.14, T:0.53
Consensus pattern (72 bp):
CTAAATCTAGTTTTATCAATAGTTGTTTATGTCTGGTCTTTGGATATTGAATTTATGTTCTACTT
ATTTATA
Found at i:2801656 original size:27 final size:26
Alignment explanation
Indices: 2801596--2801654 Score: 102
Period size: 25 Copynumber: 2.3 Consensus size: 26
2801586 ATAAAAAACA
2801596 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAATATTATAAC-TTTTTTATTT
2801623 ACCAAAATATTATAA-TTTTTTATTT
1 ACCAAAATATTATAACTTTTTTATTT
2801648 ACCAAAA
1 ACCAAAA
2801655 AAAAAACAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 17 0.53
27 15 0.47
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (26 bp):
ACCAAAATATTATAACTTTTTTATTT
Found at i:2801819 original size:22 final size:22
Alignment explanation
Indices: 2801794--2802018 Score: 123
Period size: 22 Copynumber: 10.1 Consensus size: 22
2801784 TTGGGGGGAG
*
2801794 AAGGAGGGGAAAGAAAGAAAGA
1 AAGGAGAGGAAAGAAAGAAAGA
2801816 AAGGAGAGGAAAGAAAGAAAGA
1 AAGGAGAGGAAAGAAAGAAAGA
2801838 AAGGAGAGGAAAGAAAG-AA-A
1 AAGGAGAGGAAAGAAAGAAAGA
2801858 AA-GA-AGGAAAGAAAAGGAAAGGA
1 AAGGAGAGGAAAG-AAA-GAAA-GA
**
2801881 GAA-GAGAAAAAAAGAAAGAAAGAA
1 -AAGGAG-AGGAAAGAAAGAAAG-A
* *
2801905 GAAGAAGAGGAAAGGAGAGGAAA-A
1 -AAGGAGAGGAAA-GA-AAGAAAGA
* * *
2801929 AA-GAAAGAAAAAGAAGGAAAGAA
1 AAGGAGAG-GAAAGAAAGAAAG-A
* *
2801952 AAGGAAAGGAGAAGAGAA-AAAAA
1 AAGGAGAGGA-AAGA-AAGAAAGA
* *
2801975 AAAGA-AAG-AAG-AAGAAGAGGA
1 AAGGAGAGGAAAGAAAGAA-A-GA
2801996 AAGGAGAGGAAA-AAAGAAAGA
1 AAGGAGAGGAAAGAAAGAAAGA
2802017 AA
1 AA
2802019 AAGAAGAAAA
Statistics
Matches: 161, Mismatches: 18, Indels: 49
0.71 0.08 0.21
Matches are distributed among these distances:
18 9 0.06
19 7 0.04
20 8 0.05
21 19 0.12
22 48 0.30
23 23 0.14
24 29 0.18
25 8 0.05
26 10 0.06
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (22 bp):
AAGGAGAGGAAAGAAAGAAAGA
Found at i:2801860 original size:10 final size:10
Alignment explanation
Indices: 2801847--2802071 Score: 78
Period size: 10 Copynumber: 22.5 Consensus size: 10
2801837 AAAGGAGAGG
2801847 AAAGAAAGAA
1 AAAGAAAGAA
*
2801857 AAAGAAGGAA
1 AAAGAAAGAA
* *
2801867 AGA-AAAGGA
1 AAAGAAAGAA
*
2801876 AAGGAGAAGAGA
1 AAAGA-AAGA-A
2801888 AAA-AAAG--
1 AAAGAAAGAA
2801895 AAAGAAAGAA
1 AAAGAAAGAA
* *
2801905 GAAGAAGAGGA
1 AAAGAA-AGAA
* *
2801916 AAGGAGAGGAAA
1 AAAGA-AAG-AA
2801928 AAAGAAAGAA
1 AAAGAAAGAA
*
2801938 AAAGAAGGAA
1 AAAGAAAGAA
* *
2801948 AGA-AAAGGA
1 AAAGAAAGAA
*
2801957 AAGGAGAAG-A
1 AAAGA-AAGAA
*
2801967 GAA-AAA-AA
1 AAAGAAAGAA
2801975 AAAGAAAGAA
1 AAAGAAAGAA
* *
2801985 GAAGAAGAGGA
1 AAAGAA-AGAA
* *
2801996 AAGGAGAGGAAA
1 AAAGA-AAG-AA
2802008 AAAGAAAGAA
1 AAAGAAAGAA
2802018 AAAG-AAG-A
1 AAAGAAAGAA
*
2802026 AAAGAAAAGGA
1 AAAG-AAAGAA
*
2802037 AAGGAGAAGAGA
1 AAAGA-AAGA-A
2802049 AAAGAAA-AA
1 AAAGAAAGAA
2802058 AAA-AAAGAA
1 AAAGAAAGAA
*
2802067 GAAGA
1 AAAGA
2802072 GGGAAGGAAG
Statistics
Matches: 154, Mismatches: 37, Indels: 48
0.64 0.15 0.20
Matches are distributed among these distances:
7 3 0.02
8 17 0.11
9 25 0.16
10 55 0.36
11 34 0.22
12 20 0.13
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:2801897 original size:80 final size:79
Alignment explanation
Indices: 2801836--2802098 Score: 396
Period size: 80 Copynumber: 3.4 Consensus size: 79
2801826 AAGAAAGAAA
2801836 GAAAGGAGAGG-AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAGAAAGA
1 GAAAGGAGAGGAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAGAAAGA
2801900 AAGAAGAAGAAGAG
66 AAGAAGAAGAAGAG
2801914 GAAAGGAGAGGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAA-AAA
1 GAAAGGAGAGG--AAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAGAAA
2801978 GAAAGAAGAAGAAGAG
64 GAAAGAAGAAGAAGAG
*
2801994 GAAAGGAGAGGAAAAAAGAAAGAAAAAGAAGAAAAGAAAAGGAAAGGAGAAGAGAAAAGAAA-AA
1 GAAAGGAGAGG--AAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA-AAAGAA
2802058 A-AAA-AAGAAGAAGAG
63 AGAAAGAAGAAGAAGAG
* * *
2802073 GGAAGGA-AGG-AAGGAAAAAAAAAGAA
1 GAAAGGAGAGGAAAAGAAAGAAAAAGAA
2802099 AAAAAGGTAA
Statistics
Matches: 177, Mismatches: 4, Indels: 11
0.92 0.02 0.06
Matches are distributed among these distances:
75 14 0.08
78 14 0.08
79 17 0.10
80 79 0.45
81 53 0.30
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (79 bp):
GAAAGGAGAGGAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAGAAAGA
AAGAAGAAGAAGAG
Found at i:2802053 original size:28 final size:25
Alignment explanation
Indices: 2801875--2802072 Score: 95
Period size: 24 Copynumber: 7.5 Consensus size: 25
2801865 AAAGAAAAGG
*
2801875 AAAGGAGAAGAGAAAA-AAAGAAAGAA
1 AAAGAAGAAGAGAAAAGAAA-AAA-AA
*
2801901 AGAAGAAGAAGAGGAAAGGAGAGGAAAAAAG
1 A-AAGAAGAAGA-GAAA--AGA--AAAAAAA
* *
2801932 AAAGAA-AA-AG-AAGGAAAGAAAAGG
1 AAAGAAGAAGAGAAAAGAAA-AAAA-A
*
2801956 AAAGGAGAAGAGAAAA-AAAAAAGAA
1 AAAGAAGAAGAGAAAAGAAAAAA-AA
*
2801981 AGAAGAAGAAGAGGAAAGGAGAGGAAAAAAG
1 A-AAGAAGAAGA-GAAA--AGA--AAAAAAA
* **
2802012 AAAGAAAAAGAAGAAAAG--AAAAGG
1 AAAGAAGAAG-AGAAAAGAAAAAAAA
*
2802036 AAAGGAGAAGAGAAAAGAAAAAAAA
1 AAAGAAGAAGAGAAAAGAAAAAAAA
2802061 AAAGAAGAAGAG
1 AAAGAAGAAGAG
2802073 GGAAGGAAGG
Statistics
Matches: 134, Mismatches: 15, Indels: 47
0.68 0.08 0.24
Matches are distributed among these distances:
22 2 0.01
23 11 0.08
24 21 0.16
25 21 0.16
26 18 0.13
27 16 0.12
28 7 0.05
29 3 0.02
30 19 0.14
31 6 0.04
32 8 0.06
33 2 0.01
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (25 bp):
AAAGAAGAAGAGAAAAGAAAAAAAA
Found at i:2805979 original size:11 final size:11
Alignment explanation
Indices: 2805963--2805989 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2805953 TTTATAACTT
2805963 AATTTGGATAC
1 AATTTGGATAC
2805974 AATTTGGATAC
1 AATTTGGATAC
2805985 AATTT
1 AATTT
2805990 AAGCATAAAC
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:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:2806844 original size:11 final size:11
Alignment explanation
Indices: 2806817--2806860 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
2806807 AGTTAAATGT
*
2806817 TATTTAATTAA
1 TATTTTATTAA
2806828 TATTTTATTAA
1 TATTTTATTAA
* *
2806839 GATTTTTAGTAA
1 TA-TTTTATTAA
2806851 TATTTTATTA
1 TATTTTATTA
2806861 TTAAATGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:2811515 original size:3 final size:3
Alignment explanation
Indices: 2811507--2811545 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
2811497 TCTTAATACT
*
2811507 AAC AAC AAC AAC AAC AAC AAT AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
2811546 TATAATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.67, C:0.31, G:0.00, T:0.03
Consensus pattern (3 bp):
AAC
Found at i:2811698 original size:11 final size:11
Alignment explanation
Indices: 2811678--2811719 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
2811668 TAAAAAATAC
2811678 CTTCTTTTTCT
1 CTTCTTTTTCT
*
2811689 CTTCTCTTTCT
1 CTTCTTTTTCT
2811700 C-TCTTTTTCT
1 CTTCTTTTTCT
2811710 CTTCTTTTTC
1 CTTCTTTTTC
2811720 GTAGCACCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:2811705 original size:21 final size:21
Alignment explanation
Indices: 2811680--2811719 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2811670 AAAAATACCT
2811680 TCTTTTTCTCTTCTCTTTCTC
1 TCTTTTTCTCTTCTCTTTCTC
*
2811701 TCTTTTTCTCTTCTTTTTC
1 TCTTTTTCTCTTCTCTTTC
2811720 GTAGCACCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (21 bp):
TCTTTTTCTCTTCTCTTTCTC
Found at i:2811878 original size:27 final size:27
Alignment explanation
Indices: 2811806--2811879 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
2811796 AACACGAGTA
*
2811806 GTGCCGCCAATCA-GTATGGCACCATTG
1 GTGCCGCCAATCACCT-TGGCACCATTG
** *
2811833 GTGCCGCCAATGGCTTTGGCA-CATTTG
1 GTGCCGCCAATCACCTTGGCACCA-TTG
*
2811860 TTGCCGCCAATCACCTTGGC
1 GTGCCGCCAATCACCTTGGC
2811880 CTGACCAGGG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.05
27 35 0.92
28 1 0.03
ACGTcount: A:0.18, C:0.31, G:0.26, T:0.26
Consensus pattern (27 bp):
GTGCCGCCAATCACCTTGGCACCATTG
Found at i:2812003 original size:26 final size:27
Alignment explanation
Indices: 2811952--2812014 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
2811942 TTTTTTTGGT
*
2811952 ATATTTTGGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAACTTATA
2811979 ATATTTTGGTAAAT-AAAAAACTTATA
1 ATATTTTGGTAAATAAAAAAACTTATA
2812005 ATATTTTGGT
1 ATATTTTGGT
2812015 TTTTTTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 21 0.60
27 14 0.40
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.43
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAACTTATA
Found at i:2821259 original size:34 final size:33
Alignment explanation
Indices: 2821189--2821255 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
2821179 ATTCTTAAGT
2821189 ATGTTTTTTCAACTTTGTATTTTATTAAATTTA
1 ATGTTTTTTCAACTTTGTATTTTATTAAATTTA
2821222 ATGTTTTTTCAACTTTGTATTTTATTAAATTTA
1 ATGTTTTTTCAACTTTGTATTTTATTAAATTTA
2821255 A
1 A
2821256 ATGTGACTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (33 bp):
ATGTTTTTTCAACTTTGTATTTTATTAAATTTA
Found at i:2821287 original size:14 final size:14
Alignment explanation
Indices: 2821268--2821294 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2821258 GTGACTGAAT
2821268 TATAAATTTTAACA
1 TATAAATTTTAACA
2821282 TATAAATTTTAAC
1 TATAAATTTTAAC
2821295 TTAAGGATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
TATAAATTTTAACA
Found at i:2827475 original size:17 final size:17
Alignment explanation
Indices: 2827453--2827488 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
2827443 TACACTAAGT
*
2827453 GGATATGTGTCATCTAA
1 GGATATGTATCATCTAA
2827470 GGATATGTATCATCTAA
1 GGATATGTATCATCTAA
2827487 GG
1 GG
2827489 GAGAGTGGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (17 bp):
GGATATGTATCATCTAA
Found at i:2831103 original size:39 final size:39
Alignment explanation
Indices: 2831049--2831128 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
2831039 TTGGAAGGTC
2831049 TGCGCATTGCATGGGACATGGGGTTCAGGCAGATTGAAT
1 TGCGCATTGCATGGGACATGGGGTTCAGGCAGATTGAAT
*
2831088 TGCGCATTGCGTGGGACATGGGGTTCAGGCAGATTGAAT
1 TGCGCATTGCATGGGACATGGGGTTCAGGCAGATTGAAT
2831127 TG
1 TG
2831129 AAATGCGATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.21, C:0.15, G:0.38, T:0.26
Consensus pattern (39 bp):
TGCGCATTGCATGGGACATGGGGTTCAGGCAGATTGAAT
Found at i:2834158 original size:13 final size:13
Alignment explanation
Indices: 2834135--2834167 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2834125 TTGTTATTTA
*
2834135 TTTTC-TTTTTCT
1 TTTTCATTTTTCC
2834147 TTTTCATTTTTCC
1 TTTTCATTTTTCC
2834160 TTTTCATT
1 TTTTCATT
2834168 ATTTAGGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCATTTTTCC
Found at i:2836069 original size:35 final size:35
Alignment explanation
Indices: 2836023--2836091 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
2836013 CTCAATTTCA
*
2836023 ACTTCAACTCAACCATGAGAGTCATGTTCATTTTT
1 ACTTCAACTCAACCATGAGAATCATGTTCATTTTT
*
2836058 ACTTCAGCTCAACCATGAGAATCATGTTCATTTT
1 ACTTCAACTCAACCATGAGAATCATGTTCATTTT
2836092 CACTAGGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (35 bp):
ACTTCAACTCAACCATGAGAATCATGTTCATTTTT
Found at i:2839971 original size:19 final size:20
Alignment explanation
Indices: 2839943--2839980 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
2839933 ATTTTTGGTT
2839943 AAAAATTACCCGAATTACCG
1 AAAAATTACCCGAATTACCG
2839963 AAAAA-TACCCGAATTACC
1 AAAAATTACCCGAATTACC
2839981 CGAATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.47, C:0.26, G:0.08, T:0.18
Consensus pattern (20 bp):
AAAAATTACCCGAATTACCG
Found at i:2843946 original size:31 final size:31
Alignment explanation
Indices: 2843911--2843970 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
2843901 CTACTTTTGA
*
2843911 CAATTAATCTTCGAAGTATAATATAATAAAC
1 CAATTAATCTACGAAGTATAATATAATAAAC
*
2843942 CAATTCATCTACGAAGTATAATATAATAA
1 CAATTAATCTACGAAGTATAATATAATAA
2843971 TCTATCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.32
Consensus pattern (31 bp):
CAATTAATCTACGAAGTATAATATAATAAAC
Found at i:2847436 original size:24 final size:24
Alignment explanation
Indices: 2847386--2847436 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
2847376 TTATTTTAGT
*** * *
2847386 AACTGTATAAATATGGCAGTAAGA
1 AACTGTATAAATAACCCAGAAAAA
2847410 AACTGTATAAATAACCCAGAAAAA
1 AACTGTATAAATAACCCAGAAAAA
2847434 AAC
1 AAC
2847437 AGCACTTATC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.53, C:0.14, G:0.14, T:0.20
Consensus pattern (24 bp):
AACTGTATAAATAACCCAGAAAAA
Found at i:2851764 original size:11 final size:11
Alignment explanation
Indices: 2851733--2851788 Score: 69
Period size: 11 Copynumber: 5.2 Consensus size: 11
2851723 ATAAACACCA
*
2851733 ATTTTTAAAAA
1 ATTTTTAAAAT
* *
2851744 AATTTAAAAAT
1 ATTTTTAAAAT
2851755 ATTTTTAAAAT
1 ATTTTTAAAAT
*
2851766 ATTTTTGAAAT
1 ATTTTTAAAAT
2851777 A-TTTTAAAAT
1 ATTTTTAAAAT
2851787 AT
1 AT
2851789 AAAAAATATA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
10 9 0.24
11 28 0.76
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (11 bp):
ATTTTTAAAAT
Found at i:2851796 original size:9 final size:9
Alignment explanation
Indices: 2851782--2851806 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2851772 GAAATATTTT
2851782 AAAATATAA
1 AAAATATAA
2851791 AAAATATAA
1 AAAATATAA
2851800 AAAATAT
1 AAAATAT
2851807 TTTTTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAATATAA
Found at i:2853155 original size:98 final size:98
Alignment explanation
Indices: 2852983--2853177 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
2852973 ACAATAAAAT
* * *
2852983 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACTCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAAAACGTTAGGGCACAATTCC
*
2853048 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
2853081 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAAAACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAAAACGTTAGGGCACAATTCC
*
2853146 TTTAAAATCCCAAACTCGGAATATTTCCTTTA
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTA
2853178 TTGTTTTTAG
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAAAACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:2853513 original size:19 final size:18
Alignment explanation
Indices: 2853491--2853548 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 18
2853481 ATGAATAAAT
2853491 AAAATCAATATACATAATA
1 AAAATCAATATACAT-ATA
*
2853510 AAAAT-AAT-CACATATA
1 AAAATCAATATACATATA
*
2853526 AAATATCAA-ATAAATCATA
1 AAA-ATCAATATACAT-ATA
2853545 AAAA
1 AAAA
2853549 AAATTCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
16 6 0.19
17 6 0.19
18 9 0.28
19 11 0.34
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATCAATATACATATA
Found at i:2854087 original size:25 final size:22
Alignment explanation
Indices: 2854030--2854079 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
2854020 ATATATAGCT
**
2854030 AAAATAATAATAATTACATATG
1 AAAATAATAATAATTACATAAC
2854052 AAAATAATAATAATTACATTAAC
1 AAAATAATAATAATTACA-TAAC
2854075 AAAAT
1 AAAAT
2854080 TAACTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAATAATAATAATTACATAAC
Found at i:2854637 original size:22 final size:23
Alignment explanation
Indices: 2854594--2854638 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2854584 AAATTAAATC
*
2854594 TCTAAGATTACAAAATCGTATCT
1 TCTAAGATTACAAAATCATATCT
*
2854617 TCTAAGATTAC-ATATCATATCT
1 TCTAAGATTACAAAATCATATCT
2854639 AGGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATCT
Found at i:2854644 original size:19 final size:19
Alignment explanation
Indices: 2854617--2854670 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
2854607 AATCGTATCT
2854617 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
* *
2854636 TCTAGGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
2854655 TCTAAGATTTCATATC
1 TCTAAGATTACATATC
2854671 CTCAAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:2858051 original size:15 final size:15
Alignment explanation
Indices: 2858031--2858064 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2858021 TTAATCATAA
2858031 TTAATTAATAAAAAC
1 TTAATTAATAAAAAC
* *
2858046 TTAATTAATTAAACC
1 TTAATTAATAAAAAC
2858061 TTAA
1 TTAA
2858065 GTGTAATCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAATTAATAAAAAC
Found at i:2860301 original size:32 final size:32
Alignment explanation
Indices: 2860265--2860325 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
2860255 GTTAGGCAAC
*
2860265 TTTGGCCAATGAAAAAACGGCACATGGCATGT
1 TTTGGCCAATGAAAAAACGCCACATGGCATGT
*
2860297 TTTGGCCAATGAAAAAATGCCACATGGCA
1 TTTGGCCAATGAAAAAACGCCACATGGCA
2860326 ATTAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (32 bp):
TTTGGCCAATGAAAAAACGCCACATGGCATGT
Found at i:2860550 original size:23 final size:23
Alignment explanation
Indices: 2860517--2860561 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2860507 TAATATATAC
2860517 TTTTTAAAAAAATTAAAAATATT
1 TTTTTAAAAAAATTAAAAATATT
* * *
2860540 TTTTTATAAAATTTTAAAATAT
1 TTTTTAAAAAAATTAAAAATAT
2860562 ATAATTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTTTAAAAAAATTAAAAATATT
Found at i:2860607 original size:19 final size:19
Alignment explanation
Indices: 2860576--2860628 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
2860566 TTTTAAATTT
2860576 TAAAAATTCAAAATAAT-ATA
1 TAAAAATT-AAAA-AATGATA
* *
2860596 TAAAAATTAAAAAGTGTTA
1 TAAAAATTAAAAAATGATA
2860615 TAAAAATTAAAAAA
1 TAAAAATTAAAAAA
2860629 AGGTATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 2 0.07
19 19 0.66
20 8 0.28
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (19 bp):
TAAAAATTAAAAAATGATA
Found at i:2860639 original size:21 final size:21
Alignment explanation
Indices: 2860576--2860639 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 21
2860566 TTTTAAATTT
*
2860576 TAAAAATTCAAAATAA--TATA
1 TAAAAATT-AAAAAAAGGTATA
2860596 TAAAAATT--AAAAAGTGT-TA
1 TAAAAATTAAAAAAAG-GTATA
*
2860615 TAAAAATTAAAAAAAGGTATT
1 TAAAAATTAAAAAAAGGTATA
2860636 TAAA
1 TAAA
2860640 TTTTTTTACA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
17 4 0.11
19 10 0.28
20 11 0.31
21 11 0.31
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (21 bp):
TAAAAATTAAAAAAAGGTATA
Found at i:2860773 original size:18 final size:18
Alignment explanation
Indices: 2860730--2860784 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
2860720 TTATAAAAAA
*
2860730 TTATAA-TTTATGTTT-T
1 TTATAATTTTATATTTAT
*
2860746 TTCTATATTTTATATTTAT
1 TTATA-ATTTTATATTTAT
*
2860765 TTATAATTTTA-ATATAT
1 TTATAATTTTATATTTAT
2860782 TTA
1 TTA
2860785 ACTTTATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 4 0.12
17 9 0.28
18 14 0.44
19 5 0.16
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
TTATAATTTTATATTTAT
Found at i:2862510 original size:9 final size:9
Alignment explanation
Indices: 2862496--2862523 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
2862486 GAAAATACAT
2862496 CTACTGCTG
1 CTACTGCTG
2862505 CTACTGCTG
1 CTACTGCTG
2862514 CTACTGCTG
1 CTACTGCTG
2862523 C
1 C
2862524 ATACAATACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.36, G:0.21, T:0.32
Consensus pattern (9 bp):
CTACTGCTG
Found at i:2875053 original size:29 final size:30
Alignment explanation
Indices: 2874996--2875059 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
2874986 GGGTAAACTA
* *
2874996 TATTAGTAAATTTATTTTTGGTCACCCAAC
1 TATTACTAAATTTAGTTTTGGTCACCCAAC
* *
2875026 TATTACTAAATTT-GTTTTGGTCATCCAAT
1 TATTACTAAATTTAGTTTTGGTCACCCAAC
2875055 TATTA
1 TATTA
2875060 AAAGTTACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (30 bp):
TATTACTAAATTTAGTTTTGGTCACCCAAC
Found at i:2884061 original size:5 final size:5
Alignment explanation
Indices: 2884051--2884076 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2884041 GTATTACAAT
2884051 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
2884077 AATAAATGCT
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:2885477 original size:4 final size:4
Alignment explanation
Indices: 2885468--2885493 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2885458 ATATACCTAA
2885468 GTAT GTAT GTAT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GT
2885494 TTGCGGGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:2887019 original size:13 final size:13
Alignment explanation
Indices: 2887001--2887027 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2886991 ATGTCACCAA
2887001 GAGTCACTAACCG
1 GAGTCACTAACCG
2887014 GAGTCACTAACCG
1 GAGTCACTAACCG
2887027 G
1 G
2887028 TAAACACGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.15
Consensus pattern (13 bp):
GAGTCACTAACCG
Found at i:2890263 original size:3 final size:3
Alignment explanation
Indices: 2890255--2890283 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2890245 GTTAAATGTA
2890255 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2890284 ATAAAATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2890799 original size:20 final size:18
Alignment explanation
Indices: 2890760--2890817 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 18
2890750 TTTTTAAAAA
2890760 AAAATATTTTTGAAATTTTT
1 AAAATA-TTTTG-AATTTTT
2890780 ATAAATATTTTGAATCTTTT
1 A-AAATATTTTGAAT-TTTT
*
2890800 AAAATTATTCTGAATTTT
1 AAAA-TATTTTGAATTTT
2890818 CTTTTTAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 9 0.26
20 20 0.59
21 5 0.15
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.53
Consensus pattern (18 bp):
AAAATATTTTGAATTTTT
Found at i:2891012 original size:45 final size:45
Alignment explanation
Indices: 2890963--2891054 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
2890953 TTACTTATTA
2890963 GAGTTGACTCAAATAATTCGATTAACTCTAAATTCGATTTTTTTC
1 GAGTTGACTCAAATAATTCGATTAACTCTAAATTCGATTTTTTTC
2891008 GAGTTGACTCAAATAATTCGATTAACTCTAAATTCGATTTTTTTC
1 GAGTTGACTCAAATAATTCGATTAACTCTAAATTCGATTTTTTTC
2891053 GA
1 GA
2891055 TTTTTAATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (45 bp):
GAGTTGACTCAAATAATTCGATTAACTCTAAATTCGATTTTTTTC
Found at i:2898323 original size:28 final size:27
Alignment explanation
Indices: 2898280--2898365 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 27
2898270 TAAATAAATT
2898280 TATATATCTT-TCATTTATTAAAACTTTA
1 TATATATCTTAT-ATTTATTAAAA-TTTA
* *
2898308 TATATATCTTATATTTTTTAATATTTA
1 TATATATCTTATATTTATTAAAATTTA
*
2898335 TATTATAGTATTATATATTATTATAAATTTA
1 TA-TATA-TCTTATAT-TTATTA-AAATTTA
2898366 GTTTTTATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
27 6 0.12
28 23 0.48
29 8 0.17
30 5 0.10
31 6 0.12
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.57
Consensus pattern (27 bp):
TATATATCTTATATTTATTAAAATTTA
Found at i:2903028 original size:29 final size:29
Alignment explanation
Indices: 2902995--2903051 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
2902985 CTAAAGGCTT
*
2902995 GCCTATAAGGT-TTCACATGCAAGGGGTTC
1 GCCTAT-AGGTGTTCACATACAAGGGGTTC
*
2903024 GCCTATAGGTGTTCGCATACAAGGGGTT
1 GCCTATAGGTGTTCACATACAAGGGGTT
2903052 GACATGCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (29 bp):
GCCTATAGGTGTTCACATACAAGGGGTTC
Found at i:2904066 original size:3 final size:3
Alignment explanation
Indices: 2904060--2904084 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2904050 TTTTTTTACC
2904060 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
2904085 ACATGAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2904979 original size:16 final size:17
Alignment explanation
Indices: 2904958--2904993 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2904948 ATACTTTTTA
*
2904958 AATATATAAATAA-TAT
1 AATATAAAAATAATTAT
2904974 AATATAAAAATAATTAT
1 AATATAAAAATAATTAT
2904991 AAT
1 AAT
2904994 TAATTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AATATAAAAATAATTAT
Found at i:2905432 original size:28 final size:26
Alignment explanation
Indices: 2905394--2905471 Score: 97
Period size: 25 Copynumber: 3.0 Consensus size: 26
2905384 ATGAAATTGA
2905394 AAAT-AAATTATTTAATAATTAAATT
1 AAATAAAATTATTTAATAATTAAATT
2905419 AGAAATAAAATTATTTAATAATT-AATT
1 --AAATAAAATTATTTAATAATTAAATT
* * *
2905446 AAATAGAATTAATTAGTAATTAAATT
1 AAATAAAATTATTTAATAATTAAATT
2905472 CATGAATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
25 18 0.39
26 4 0.09
27 8 0.17
28 16 0.35
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (26 bp):
AAATAAAATTATTTAATAATTAAATT
Found at i:2911941 original size:36 final size:35
Alignment explanation
Indices: 2911900--2912005 Score: 99
Period size: 36 Copynumber: 2.9 Consensus size: 35
2911890 CTAATGAGGC
2911900 GCGGAGCTCATATTACTTTGGACATACCGATGAAG
1 GCGGAGCTCATATTACTTTGGACATACCGATGAAG
* **
2911935 TGCGGAG-TACACATTACTTTGGTTTATACCGATG-AG
1 -GCGGAGCT-CATATTACTTTGG-ACATACCGATGAAG
* * *
2911971 GCGTGAAACGCATATTACTTTGGACATACCAATGA
1 GCG-G-AGCTCATATTACTTTGGACATACCGATGA
2912006 TGCATTAGGT
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
35 4 0.07
36 29 0.53
37 22 0.40
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (35 bp):
GCGGAGCTCATATTACTTTGGACATACCGATGAAG
Found at i:2921137 original size:29 final size:29
Alignment explanation
Indices: 2921104--2921159 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
2921094 GTGATGGCTG
* *
2921104 AAAGTACTAGAACTCATATTGTATTTTTT
1 AAAGTACTAAAACTCAGATTGTATTTTTT
2921133 AAAGTACTAAAACTCAGATTGTATTTT
1 AAAGTACTAAAACTCAGATTGTATTTT
2921160 ACTTCATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (29 bp):
AAAGTACTAAAACTCAGATTGTATTTTTT
Found at i:2922110 original size:22 final size:23
Alignment explanation
Indices: 2922084--2922126 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
2922074 ACTAATGTTC
*
2922084 AATTTGGTACCT-AATTTTTTCT
1 AATTTGATACCTGAATTTTTTCT
*
2922106 AATTTGATACTTGAATTTTTT
1 AATTTGATACCTGAATTTTTT
2922127 TTGTCCTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (23 bp):
AATTTGATACCTGAATTTTTTCT
Found at i:2924066 original size:21 final size:21
Alignment explanation
Indices: 2924020--2924068 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
2924010 AAACTATCCA
*
2924020 AAATAATATAAAATATAATAT
1 AAATAATATAAAATATAAAAT
*
2924041 TAATAATATTAAAATA-AAAAT
1 AAATAATA-TAAAATATAAAAT
2924062 AAATAAT
1 AAATAAT
2924069 CTTTTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATAATATAAAATATAAAAT
Found at i:2941271 original size:15 final size:16
Alignment explanation
Indices: 2941239--2941285 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
2941229 ATAATTCAAA
* **
2941239 TTCAACAATTAACCTT
1 TTCAACACTTAATTTT
2941255 TTC-ACACTTAATTTT
1 TTCAACACTTAATTTT
*
2941270 TTCAATACTTAATTTT
1 TTCAACACTTAATTTT
2941286 CAATTTATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.49
Consensus pattern (16 bp):
TTCAACACTTAATTTT
Found at i:2951637 original size:3 final size:3
Alignment explanation
Indices: 2951629--2951657 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2951619 GTGTCTGAGG
2951629 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2951658 GATGGGTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2953657 original size:9 final size:9
Alignment explanation
Indices: 2953638--2953667 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
2953628 AAGCGATTTT
2953638 GAGTAAAAAC
1 GAGT-AAAAC
2953648 GAGTAAAAC
1 GAGTAAAAC
2953657 GAGTAAAAC
1 GAGTAAAAC
2953666 GA
1 GA
2953668 CATAATCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.57, C:0.10, G:0.23, T:0.10
Consensus pattern (9 bp):
GAGTAAAAC
Found at i:2954335 original size:23 final size:23
Alignment explanation
Indices: 2954303--2954377 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
2954293 ATGTTATTGA
2954303 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* *
2954326 TCAGTAGTAGCTTCAGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
2954349 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
2954372 TCAGTG
1 TCAGTG
2954378 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:2958907 original size:5 final size:5
Alignment explanation
Indices: 2958897--2958938 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
2958887 TATTTATTTT
2958897 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA
2958939 TACTTAATTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:2963009 original size:18 final size:19
Alignment explanation
Indices: 2962981--2963018 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
2962971 ATTTGGTACC
2962981 TGAGTTTTTTGTATCCCAA
1 TGAGTTTTTTGTATCCCAA
2963000 TGAG-TTTTTGTATCCCAA
1 TGAGTTTTTTGTATCCCAA
2963018 T
1 T
2963019 TAAGTACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (19 bp):
TGAGTTTTTTGTATCCCAA
Found at i:2965107 original size:17 final size:17
Alignment explanation
Indices: 2965085--2965118 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2965075 CAAATTTTGC
2965085 TTAAA-TCTATTTATATT
1 TTAAATTCTA-TTATATT
2965102 TTAAATTCTATTATATT
1 TTAAATTCTATTATATT
2965119 ACTTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAAATTCTATTATATT
Found at i:2966434 original size:29 final size:30
Alignment explanation
Indices: 2966375--2966432 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2966365 TCTGAGCCTT
*
2966375 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
2966405 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
2966433 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:2966661 original size:13 final size:13
Alignment explanation
Indices: 2966643--2966674 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2966633 TTTCCAGCAA
2966643 TTATGAATTTATT
1 TTATGAATTTATT
2966656 TTATGAATTTATT
1 TTATGAATTTATT
*
2966669 TGATGA
1 TTATGA
2966675 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:2966882 original size:50 final size:50
Alignment explanation
Indices: 2966769--2967010 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
2966759 ATTTGGGTAA
* * *
2966769 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
2966825 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2966875 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2966925 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
** *
2966975 AGAACATCTCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
2967011 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 28 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:2966958 original size:100 final size:103
Alignment explanation
Indices: 2966769--2967018 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
2966759 ATTTGGGTAA
2966769 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
2966834 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
2966875 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
2966937 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* * *
2966975 AGAACATCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
2967019 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.39
101 38 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:2968823 original size:64 final size:64
Alignment explanation
Indices: 2968742--2968869 Score: 204
Period size: 64 Copynumber: 2.0 Consensus size: 64
2968732 ATCTACATTA
* * * *
2968742 ATTTCACGTAGGTGTTATCAAAGGTTTAA-TTTCATAATATGGTTGAGATTAGAGCTAATAATGG
1 ATTTCACATAAGTGTTATCAAAGG-TTAATTTTCATAATATGGCTGAGATTAGAGCTAACAATGG
2968806 ATTTCACATAAGTGTTATCAAAGGTTAATTTTCATAATATGGCTGAGATTAGAGCTAACAATGG
1 ATTTCACATAAGTGTTATCAAAGGTTAATTTTCATAATATGGCTGAGATTAGAGCTAACAATGG
2968870 GCCGATTTCG
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 4 0.07
64 55 0.93
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.36
Consensus pattern (64 bp):
ATTTCACATAAGTGTTATCAAAGGTTAATTTTCATAATATGGCTGAGATTAGAGCTAACAATGG
Found at i:2974000 original size:90 final size:90
Alignment explanation
Indices: 2973847--2974028 Score: 330
Period size: 90 Copynumber: 2.0 Consensus size: 90
2973837 GGCTTAAAGA
*
2973847 GCAGAATAAGTGCAAGGAGGGGATTGATATTGCTAAACAGCGCCTGTCACAAGAACAGGCGAGGA
1 GCAGAATAAGAGCAAGGAGGGGATTGATATTGCTAAACAGCGCCTGTCACAAGAACAGGCGAGGA
*
2973912 GAAAGAAGATGTGGGGGTTCTCACG
66 GAAAGAAGATGTGGGGGTTCACACG
2973937 GCAGAATAAGAGCAAGGAGGGGATTGATATTGCTAAACAGCGCC-GATCACAAGAACAGGCGAGG
1 GCAGAATAAGAGCAAGGAGGGGATTGATATTGCTAAACAGCGCCTG-TCACAAGAACAGGCGAGG
2974001 AGAAAGAAGATGTGGGGGTTCACACG
65 AGAAAGAAGATGTGGGGGTTCACACG
2974027 GC
1 GC
2974029 TGTGATCAAG
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
89 1 0.01
90 88 0.99
ACGTcount: A:0.35, C:0.16, G:0.35, T:0.15
Consensus pattern (90 bp):
GCAGAATAAGAGCAAGGAGGGGATTGATATTGCTAAACAGCGCCTGTCACAAGAACAGGCGAGGA
GAAAGAAGATGTGGGGGTTCACACG
Found at i:2974746 original size:18 final size:17
Alignment explanation
Indices: 2974720--2974769 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 17
2974710 ATCAAGAATT
*
2974720 TTATGAAATTATATATTA
1 TTATTAAATTATAT-TTA
2974738 TTATTAAATTATATTTA
1 TTATTAAATTATATTTA
*
2974755 ATATT-AATTAT-TTTA
1 TTATTAAATTATATTTA
2974770 AATTATACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 4 0.13
16 6 0.20
17 7 0.23
18 13 0.43
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTATTAAATTATATTTA
Found at i:2974752 original size:16 final size:16
Alignment explanation
Indices: 2974726--2974774 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 16
2974716 AATTTTATGA
*
2974726 AATTATATATTATTATT
1 AATTATAT-TTAATATT
2974743 AAATTATATTTAATATT
1 -AATTATATTTAATATT
2974760 AATTAT-TTTAA-ATT
1 AATTATATTTAATATT
2974774 A
1 A
2974775 TACAAATTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 4 0.13
15 5 0.17
16 6 0.20
17 7 0.23
18 8 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTATATTTAATATT
Found at i:2974820 original size:91 final size:91
Alignment explanation
Indices: 2974249--2974801 Score: 998
Period size: 91 Copynumber: 6.1 Consensus size: 91
2974239 TTTAGTAAAT
* * *
2974249 TTTATTATTAAGAATTTTATGAACTTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 TTTATTATCAAAAATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
2974314 AAATTGTATAAATTCATATAAGAAAA
66 AAATTGTATAAATTCATATAAGAAAA
*
2974340 TTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 TTTATTATCAAAAATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
*
2974405 AAATTGTATAAGTTCATATAAGAAAA
66 AAATTGTATAAATTCATATAAGAAAA
2974431 TTTATTATCAAAAATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 TTTATTATCAAAAATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
*
2974496 AAATTGTATAAGTTCATATAAGAAAA
66 AAATTGTATAAATTCATATAAGAAAA
2974522 TTTATTATCAAAAATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 TTTATTATCAAAAATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
*
2974587 AAATTGTATAAGTTCATATAAGAAAA
66 AAATTGTATAAATTCATATAAGAAAA
2974613 TTTATTATCAAAAATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 TTTATTATCAAAAATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
*
2974678 AAATTATATAAATTCATATAAGAAAA
66 AAATTGTATAAATTCATATAAGAAAA
* *
2974704 TTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATATTTAATATTAATTATTTT
1 TTTATTATCAAAAATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
* *
2974769 AAATTATACAAATTCATATAAGAAAA
66 AAATTGTATAAATTCATATAAGAAAA
2974795 TTTATTA
1 TTTATTA
2974802 GTTTTAATTA
Statistics
Matches: 453, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 453 1.00
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (91 bp):
TTTATTATCAAAAATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
AAATTGTATAAATTCATATAAGAAAA
Found at i:2974846 original size:18 final size:17
Alignment explanation
Indices: 2974818--2974852 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2974808 ATTATTTTAA
*
2974818 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
2974835 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
2974853 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:2974941 original size:120 final size:120
Alignment explanation
Indices: 2974816--2975234 Score: 723
Period size: 120 Copynumber: 3.5 Consensus size: 120
2974806 TAATTATTTT
*
2974816 AAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATT
1 AAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATT
*
2974880 TTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAA
65 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAA
* *
2974936 AAATTTTATTAAATTATAAATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATTTTT
1 AAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTT
*
2975001 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAA
66 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAA
* * *
2975056 GAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATGATATTT
1 AAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTT
2975121 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAA
66 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAA
* *
2975176 GAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
2975235 ATGATTAAAT
Statistics
Matches: 286, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
120 278 0.97
121 8 0.03
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTT
TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAA
Found at i:2974956 original size:17 final size:18
Alignment explanation
Indices: 2974931--2974971 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
2974921 AATATTGATT
*
2974931 ATTAAAAATTTT-ATTAA
1 ATTATAAATTTTAATTAA
2974948 ATTATAAATTTTAATTAA
1 ATTATAAATTTTAATTAA
*
2974966 AATATA
1 ATTATA
2974972 TTTAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATAAATTTTAATTAA
Found at i:2975051 original size:66 final size:65
Alignment explanation
Indices: 2974975--2975164 Score: 190
Period size: 66 Copynumber: 3.1 Consensus size: 65
2974965 AAATATATTT
2974975 AATAATAATTATGTTAAATTATTTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATAATAATTATGTTAAA-TATTTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
2975040 G
65 G
* * * *
2975041 AATATTAATTA--TTAAGA-ATTTTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-
1 AATAATAATTATGTTAA-ATATTTT-TTATAGTATCATATATTATGATTTGAGTAAATTCATATA
**
2975093 TT
64 AG
*
2975095 AATAATAATTATGTTAAATGATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATAATAATTATGTTAAAT-ATTTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
2975160 G
65 G
2975161 AATA
1 AATA
2975165 TTGATTATTA
Statistics
Matches: 95, Mismatches: 13, Indels: 32
0.68 0.09 0.23
Matches are distributed among these distances:
54 10 0.11
55 5 0.05
56 8 0.08
57 7 0.07
58 1 0.01
59 10 0.11
60 8 0.08
61 10 0.11
62 1 0.01
63 8 0.08
64 8 0.08
65 5 0.05
66 14 0.15
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.47
Consensus pattern (65 bp):
AATAATAATTATGTTAAATATTTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:2975097 original size:15 final size:15
Alignment explanation
Indices: 2975062--2975103 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2975052 TTAAGAATTT
*
2975062 TATTAAATTAT-ATA
1 TATTTAATTATAATA
2975076 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
2975090 TATTTAATAATAAT
1 TATTTAATTATAAT
2975104 TATGTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:2975212 original size:16 final size:16
Alignment explanation
Indices: 2975191--2975232 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
2975181 TTATTAAATT
*
2975191 ATATATTTTAATTATA
1 ATATATTTTAATAATA
2975207 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
2975222 AT-TATGTTTAA
1 ATATAT-TTTAA
2975233 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:2975217 original size:15 final size:15
Alignment explanation
Indices: 2975182--2975223 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2975172 TTAAGAATTT
*
2975182 TATTAAATTAT-ATA
1 TATTTAATTATAATA
2975196 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
2975210 TATTTAATAATAAT
1 TATTTAATTATAAT
2975224 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:2975427 original size:44 final size:45
Alignment explanation
Indices: 2975377--2975466 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
2975367 ACCTCTATTC
*
2975377 CATTCAACCAAACACA-AGA-ATACTATTATGCCTCTATTCCATTA
1 CATTCAACCAAACA-ATAGATATACTATTACGCCTCTATTCCATTA
* * *
2975421 CATTCAACCAAACAATTGATTTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAATAGATATACTATTACGCCTCTATTCCATTA
2975466 C
1 C
2975467 GCCTATATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.03
44 16 0.40
45 23 0.57
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (45 bp):
CATTCAACCAAACAATAGATATACTATTACGCCTCTATTCCATTA
Found at i:2975467 original size:16 final size:16
Alignment explanation
Indices: 2975446--2975478 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2975436 TTGATTTGCT
*
2975446 ATTACGCCTCTATTCC
1 ATTACGCCTATATTCC
2975462 ATTACGCCTATATTCC
1 ATTACGCCTATATTCC
2975478 A
1 A
2975479 ATACAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCCTATATTCC
Found at i:2975581 original size:16 final size:16
Alignment explanation
Indices: 2975560--2975599 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
2975550 ATATAGTCTA
*
2975560 TTTGAGTTAGGATAAT
1 TTTGAGTTAAGATAAT
*
2975576 TTTGAGTTAAGATAGT
1 TTTGAGTTAAGATAAT
*
2975592 TTCGAGTT
1 TTTGAGTT
2975600 CATGTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.45
Consensus pattern (16 bp):
TTTGAGTTAAGATAAT
Found at i:2980408 original size:24 final size:24
Alignment explanation
Indices: 2980363--2980409 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2980353 TTAATTATTG
* *
2980363 AAATTTTCATTTTCGAACAAATTA
1 AAATTTTCACTTTCGAAAAAATTA
2980387 AAATTTTCAGCTTTC-AAAAAATT
1 AAATTTTCA-CTTTCGAAAAAATT
2980410 GCTTTTAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATTTTCACTTTCGAAAAAATTA
Found at i:2986946 original size:22 final size:24
Alignment explanation
Indices: 2986902--2986946 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
2986892 TAGATATTAA
*
2986902 ATGTAATCTTTAGAAGATATGATT
1 ATGTAATCATTAGAAGATATGATT
*
2986926 ATGTAAT-ATTAG-AGATTTGAT
1 ATGTAATCATTAGAAGATATGAT
2986947 ATTTTGATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 4 0.21
24 7 0.37
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (24 bp):
ATGTAATCATTAGAAGATATGATT
Found at i:2996527 original size:2 final size:2
Alignment explanation
Indices: 2996520--2996556 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2996510 TTTTCGATTG
2996520 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T- TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2996557 AAACACACTC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:3001619 original size:13 final size:13
Alignment explanation
Indices: 3001601--3001625 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3001591 AGCGACAGAT
3001601 GGGATATGTTTAC
1 GGGATATGTTTAC
3001614 GGGATATGTTTA
1 GGGATATGTTTA
3001626 TATTTGTTTT
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:0.24, C:0.04, G:0.32, T:0.40
Consensus pattern (13 bp):
GGGATATGTTTAC
Found at i:3012615 original size:23 final size:25
Alignment explanation
Indices: 3012573--3012625 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
3012563 TTATCTTAGT
*
3012573 AAAAAAACTGAGAAATC-AAAAGAA
1 AAAAAAACTGAGAAAACAAAAAGAA
*
3012597 AAAAAAACT-ATAAAACAAAAAGAA
1 AAAAAAACTGAGAAAACAAAAAGAA
*
3012621 CAAAA
1 AAAAA
3012626 GACCCTTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.75, C:0.09, G:0.08, T:0.08
Consensus pattern (25 bp):
AAAAAAACTGAGAAAACAAAAAGAA
Found at i:3015084 original size:6 final size:6
Alignment explanation
Indices: 3015073--3015101 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
3015063 AGCAGGCCTA
3015073 TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATAT
3015102 ATGCCTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:3016738 original size:14 final size:14
Alignment explanation
Indices: 3016711--3016748 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
3016701 ATTCCCTCTT
*
3016711 TAAAAAGGAA-AAA
1 TAAAAAGAAATAAA
*
3016724 TAAAAATAAATAAA
1 TAAAAAGAAATAAA
3016738 TAAAAAGAAAT
1 TAAAAAGAAAT
3016749 CCAAGATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (14 bp):
TAAAAAGAAATAAA
Found at i:3024843 original size:23 final size:23
Alignment explanation
Indices: 3024800--3024852 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
3024790 TAACTTAAGT
*
3024800 AAAAAAAACGAAAATCAAAAAGA
1 AAAAAAAACGAAAAACAAAAAGA
*
3024823 AAAAAAAACTATAAAAC-AAAAGA
1 AAAAAAAACGA-AAAACAAAAAGA
*
3024846 ACAAAAA
1 AAAAAAA
3024853 GACCCTTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.79, C:0.09, G:0.06, T:0.06
Consensus pattern (23 bp):
AAAAAAAACGAAAAACAAAAAGA
Found at i:3036637 original size:23 final size:25
Alignment explanation
Indices: 3036595--3036647 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
3036585 TTATCTTAGT
*
3036595 AAAAAAACTGAGAAATC-AAAAGAA
1 AAAAAAACTGAGAAAACAAAAAGAA
*
3036619 AAAAAAACT-ATAAAACAAAAAGAA
1 AAAAAAACTGAGAAAACAAAAAGAA
*
3036643 CAAAA
1 AAAAA
3036648 GACCCTTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.75, C:0.09, G:0.08, T:0.08
Consensus pattern (25 bp):
AAAAAAACTGAGAAAACAAAAAGAA
Found at i:3039109 original size:6 final size:6
Alignment explanation
Indices: 3039098--3039126 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
3039088 AGCAGGCCTA
3039098 TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATAT
3039127 ATGCCTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:3053610 original size:13 final size:14
Alignment explanation
Indices: 3053580--3053612 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
3053570 CAATATTGTT
3053580 ATATTAATAATAAA
1 ATATTAATAATAAA
*
3053594 ATATTAAT-ATCAA
1 ATATTAATAATAAA
3053607 ATATTA
1 ATATTA
3053613 TCTATTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATTAATAATAAA
Found at i:3053906 original size:20 final size:18
Alignment explanation
Indices: 3053864--3053912 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 18
3053854 ATCCTCACCC
3053864 TTAATATTTTCTACTCAT
1 TTAATATTTTCTACTCAT
*
3053882 TTAATTTTTTCTACTCATCT
1 TTAATATTTTCTACTCA--T
3053902 TTAATATTTTC
1 TTAATATTTTC
3053913 AATCTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 16 0.59
20 11 0.41
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAATATTTTCTACTCAT
Found at i:3054453 original size:8 final size:8
Alignment explanation
Indices: 3054392--3054440 Score: 62
Period size: 8 Copynumber: 6.1 Consensus size: 8
3054382 TTTTATTTTT
3054392 ATTTTTAA
1 ATTTTTAA
3054400 ATTTTTAA
1 ATTTTTAA
3054408 ATTTTTAA
1 ATTTTTAA
**
3054416 ATTTTTTT
1 ATTTTTAA
**
3054424 ATTTTTTT
1 ATTTTTAA
3054432 ATTTTTAA
1 ATTTTTAA
3054440 A
1 A
3054441 ATAATTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
ATTTTTAA
Found at i:3056467 original size:32 final size:30
Alignment explanation
Indices: 3056431--3056519 Score: 74
Period size: 32 Copynumber: 2.9 Consensus size: 30
3056421 CGGCCCGTTT
* **
3056431 TTAAAATAAATACCAAAAATTTATTTTAAAAA
1 TTAAAA-AAATACAAAAAAAATATTTT-AAAA
* *
3056463 TTAAAACAAAAATAAAAAAAATATTTTAAAA
1 TTAAAA-AAATACAAAAAAAATATTTTAAAA
* *
3056494 TTAAAAAAAT--TAAAAAAGTATTTTAA
1 TTAAAAAAATACAAAAAAAATATTTTAA
3056520 TAATATTTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
28 14 0.29
30 3 0.06
31 10 0.21
32 21 0.44
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (30 bp):
TTAAAAAAATACAAAAAAAATATTTTAAAA
Found at i:3056525 original size:39 final size:42
Alignment explanation
Indices: 3056482--3056562 Score: 123
Period size: 39 Copynumber: 2.0 Consensus size: 42
3056472 AAATAAAAAA
3056482 AATATTTTAAAATTAAAA-AA-ATT-AAAAAAGTATTTTAAT
1 AATATTTTAAAATTAAAATAATATTAAAAAAAGTATTTTAAT
*
3056521 AATATTTTAAAATTAAAATAATTTTTAAAAAAAGTATTTTAA
1 AATATTTTAAAATTAAAATAA-TATTAAAAAAAGTATTTTAA
3056563 AATTAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
39 18 0.49
40 2 0.05
42 2 0.05
43 15 0.41
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (42 bp):
AATATTTTAAAATTAAAATAATATTAAAAAAAGTATTTTAAT
Found at i:3060798 original size:26 final size:28
Alignment explanation
Indices: 3060737--3060801 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 28
3060727 TTTTATTCTC
*
3060737 TCTACTTAAAAATAGATAAATTAGTCCTT
1 TCTA-TTAAAAATAGATAAATTAGTCATT
** *
3060766 TAGATTAAAAA-AG-TAAATTGGTCATT
1 TCTATTAAAAATAGATAAATTAGTCATT
3060792 TCTATTAAAA
1 TCTATTAAAA
3060802 TTTATCTACT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 19 0.63
27 2 0.07
28 7 0.23
29 2 0.07
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (28 bp):
TCTATTAAAAATAGATAAATTAGTCATT
Found at i:3069001 original size:11 final size:11
Alignment explanation
Indices: 3068985--3069039 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
3068975 ATTTTTTTAA
3068985 TTTTAAAATAT
1 TTTTAAAATAT
3068996 TTTTAAAATACT
1 TTTTAAAATA-T
* *
3069008 TTTT-TATTAT
1 TTTTAAAATAT
*
3069018 TTTTTAAATAT
1 TTTTAAAATAT
*
3069029 TTTTAATATAT
1 TTTTAAAATAT
3069040 ATATATTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 5 0.14
11 26 0.72
12 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:3071091 original size:20 final size:23
Alignment explanation
Indices: 3071041--3071091 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 23
3071031 ATCTTGAAAA
3071041 GTTTTTTTATCGATTTCTTTTTTC
1 GTTTTTTTA-CGATTTCTTTTTTC
3071065 G-TTTTTTA-GA-TTCTTTTTT-
1 GTTTTTTTACGATTTCTTTTTTC
3071084 GTTTTTTT
1 GTTTTTTT
3071092 GTTTTTTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 1 0.04
20 15 0.58
21 2 0.08
23 7 0.27
24 1 0.04
ACGTcount: A:0.08, C:0.08, G:0.10, T:0.75
Consensus pattern (23 bp):
GTTTTTTTACGATTTCTTTTTTC
Found at i:3071709 original size:26 final size:27
Alignment explanation
Indices: 3071680--3071741 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
3071670 TATTATTCCT
* *
3071680 GTACTTATACACGCATTT-TTTATATA
1 GTACATATACACACATTTCTTTATATA
* *
3071706 GTACATATAGACATATTTCTTTATATA
1 GTACATATACACACATTTCTTTATATA
* *
3071733 ATATATATA
1 GTACATATA
3071742 TATTCTTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.45
Consensus pattern (27 bp):
GTACATATACACACATTTCTTTATATA
Found at i:3071817 original size:16 final size:16
Alignment explanation
Indices: 3071782--3071819 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3071772 TTACATACGT
*
3071782 TTTTATTTTTTTATCA
1 TTTTATTTTTTTAACA
3071798 TTTTATCTTTTTTAAC-
1 TTTTAT-TTTTTTAACA
3071814 TTTTAT
1 TTTTAT
3071820 ATATTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTATTTTTTTAACA
Found at i:3073313 original size:22 final size:22
Alignment explanation
Indices: 3073270--3073315 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
3073260 GTTTTTTTTT
* *
3073270 ATTTTTTTAAATTCGACCTTTA
1 ATTTTTTTAAATTCCACATTTA
3073292 ATTTATTTTAAATTCCA-ATTTA
1 ATTT-TTTTAAATTCCACATTTA
3073314 AT
1 AT
3073316 CATTTTGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.54
Consensus pattern (22 bp):
ATTTTTTTAAATTCCACATTTA
Found at i:3078603 original size:14 final size:13
Alignment explanation
Indices: 3078583--3078648 Score: 51
Period size: 14 Copynumber: 4.8 Consensus size: 13
3078573 TTGCAATTTG
3078583 ATTCTCAATTTCTT
1 ATTCTCAATTT-TT
*
3078597 GTTCTCAATCTTTT
1 ATTCTCAAT-TTTT
**
3078611 ATTCTCAATTGTCA
1 ATTCTCAATT-TTT
*
3078625 ATTCTCGATTTTTT
1 ATTCTC-AATTTTT
*
3078639 ATTCTAAATT
1 ATTCTCAATT
3078649 CCCAATTTCA
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
13 4 0.10
14 31 0.77
15 5 0.12
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.55
Consensus pattern (13 bp):
ATTCTCAATTTTT
Found at i:3078666 original size:28 final size:28
Alignment explanation
Indices: 3078598--3078665 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
3078588 CAATTTCTTG
* * **
3078598 TTCTCAATCTTTTATTCTCAATTGTCAA
1 TTCTCAATTTTTTATTCTAAATTCCCAA
*
3078626 TTCTCGATTTTTTATTCTAAATTCCCAA
1 TTCTCAATTTTTTATTCTAAATTCCCAA
3078654 TT-TCAATTTTTT
1 TTCTCAATTTTTT
3078666 TTTTAATTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 9 0.26
28 25 0.74
ACGTcount: A:0.24, C:0.19, G:0.03, T:0.54
Consensus pattern (28 bp):
TTCTCAATTTTTTATTCTAAATTCCCAA
Found at i:3078838 original size:52 final size:52
Alignment explanation
Indices: 3078772--3078876 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
3078762 TAATAAATGG
*
3078772 TAAGAAAATGTTATTAAATTATTTAATTTTAAACAGTTAGTTATTATGATGT
1 TAAGAAAATATTATTAAATTATTTAATTTTAAACAGTTAGTTATTATGATGT
* * *
3078824 TAAGAAACTATTATTAAATTATTTAATTTTAAATAGTTAGTTATTATGTTGT
1 TAAGAAAATATTATTAAATTATTTAATTTTAAACAGTTAGTTATTATGATGT
3078876 T
1 T
3078877 TAGATTATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (52 bp):
TAAGAAAATATTATTAAATTATTTAATTTTAAACAGTTAGTTATTATGATGT
Found at i:3083000 original size:6 final size:6
Alignment explanation
Indices: 3082989--3083019 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
3082979 TCTGAAATCG
*
3082989 ATATAC ATATAC ATATAC ATATAG ATATAC A
1 ATATAC ATATAC ATATAC ATATAC ATATAC A
3083020 ACTTGTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (6 bp):
ATATAC
Found at i:3085283 original size:12 final size:12
Alignment explanation
Indices: 3085268--3085294 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3085258 ATTTTAAAAA
3085268 TAATTTAATTTT
1 TAATTTAATTTT
3085280 TAATTTAATTTT
1 TAATTTAATTTT
3085292 TAA
1 TAA
3085295 AAATTATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TAATTTAATTTT
Found at i:3085737 original size:28 final size:28
Alignment explanation
Indices: 3085664--3085739 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
3085654 AATTCCTCGT
*
3085664 TTATTACTTTTTCATTTTAATATTTAAA
1 TTATTATTTTTTCATTTTAATATTTAAA
* *
3085692 --ATTATTCTCTCTCATTTTAGTATTTAAA
1 TTATTATT-T-TTTCATTTTAATATTTAAA
*
3085720 TTATTATTTATTTCTTTTTA
1 TTATTATTT-TTTCATTTTA
3085740 TCTAAAAGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
26 5 0.13
27 1 0.03
28 17 0.45
29 9 0.24
30 6 0.16
ACGTcount: A:0.28, C:0.09, G:0.01, T:0.62
Consensus pattern (28 bp):
TTATTATTTTTTCATTTTAATATTTAAA
Found at i:3092377 original size:72 final size:73
Alignment explanation
Indices: 3092287--3092461 Score: 239
Period size: 72 Copynumber: 2.4 Consensus size: 73
3092277 AAAATCACAT
* * *
3092287 ATAAACAACTATTGATAAAACTAATTTAGTA-AAAAATAAGTAGAATATAAATTCAATATCTAAA
1 ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
*
3092351 GACCAAAC
66 AACCAAAC
* * *
3092359 ATAAACAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAACATAAATTCAATATCCAA
1 ATAAACAACTATTGATAAAACTA-ATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAA
3092422 AAACCAAAC
65 AAACCAAAC
* *
3092431 ATAAATAACTATTGATAAAACTAGTTTAGCA
1 ATAAACAACTATTGATAAAACTAATTTAGCA
3092462 TTGTTGTTTA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
71 1 0.01
72 84 0.95
73 3 0.03
ACGTcount: A:0.54, C:0.13, G:0.06, T:0.26
Consensus pattern (73 bp):
ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
AACCAAAC
Found at i:3092900 original size:18 final size:18
Alignment explanation
Indices: 3092879--3092926 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
3092869 TCCATCAATT
*
3092879 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
3092897 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
*
3092915 TAAACATCATTT
1 TGAACATCATTT
3092927 CTCATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:3096645 original size:21 final size:21
Alignment explanation
Indices: 3096619--3096659 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3096609 ATCTGCTCAA
* *
3096619 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
3096640 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
3096660 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:3100794 original size:25 final size:25
Alignment explanation
Indices: 3100764--3100834 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
3100754 AGGAACAAAG
* *
3100764 CACCAGCAGAGGAACAAATAACCAA
1 CACCAGTAGAGGAACAAAGAACCAA
* * *
3100789 CACCAGTAGAAGAACAAAGAACTAG
1 CACCAGTAGAGGAACAAAGAACCAA
*
3100814 CACCAGTAGAGGATCAAAGAA
1 CACCAGTAGAGGAACAAAGAA
3100835 GTAGTAGAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.51, C:0.23, G:0.20, T:0.07
Consensus pattern (25 bp):
CACCAGTAGAGGAACAAAGAACCAA
Found at i:3101345 original size:45 final size:45
Alignment explanation
Indices: 3101253--3101341 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 45
3101243 CTAAAAATCA
* *
3101253 ATTAACAATATCATTGAAAATCAAAAAAAATTATTAATTTATTTT
1 ATTAACAATATCATTAAAAAACAAAAAAAATTATTAATTTATTTT
*
3101298 ATTAACAATATCATTAAAAAAC-AATAAAATTATTAATTTATTTT
1 ATTAACAATATCATTAAAAAACAAAAAAAATTATTAATTTATTTT
3101342 TATTGGTAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 21 0.51
45 20 0.49
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.40
Consensus pattern (45 bp):
ATTAACAATATCATTAAAAAACAAAAAAAATTATTAATTTATTTT
Done.