Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 31 of 144
Found at i:7635599 original size:25 final size:27
Alignment explanation
Indices: 7635571--7635633 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
7635561 GTTAAGAGAG
7635571 AAATATTTTTTATTTAAT-TTAATATA
1 AAATATTTTTTATTTAATATTAATATA
7635597 AATATAATTATTTTTATTTAATATTAATAT-
1 AA-AT-A-T-TTTTTATTTAATATTAATATA
7635627 AAATATT
1 AAATATT
7635634 AATATAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
26 3 0.09
27 3 0.09
28 2 0.06
29 3 0.09
30 14 0.44
31 7 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
AAATATTTTTTATTTAATATTAATATA
Found at i:7635609 original size:31 final size:33
Alignment explanation
Indices: 7635573--7635654 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 33
7635563 TAAGAGAGAA
7635573 ATATTTTTTATTTAATTTAATATAAATA-TAAT
1 ATATTTTTTATTTAATTTAATATAAATATTAAT
7635605 -TA-TTTTTATTTAATATTAATATAAATATTAAT
1 ATATTTTTTATTTAAT-TTAATATAAATATTAAT
7635637 ATAATTTTTTATTTAATT
1 AT-ATTTTTTATTTAATT
7635655 ATATTTTAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
30 12 0.27
31 14 0.31
32 4 0.09
33 1 0.02
34 2 0.04
35 12 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (33 bp):
ATATTTTTTATTTAATTTAATATAAATATTAAT
Found at i:7635633 original size:12 final size:12
Alignment explanation
Indices: 7635616--7635640 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7635606 ATTTTTATTT
7635616 AATATTAATATA
1 AATATTAATATA
7635628 AATATTAATATA
1 AATATTAATATA
7635640 A
1 A
7635641 TTTTTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATATTAATATA
Found at i:7640125 original size:130 final size:133
Alignment explanation
Indices: 7639951--7640204 Score: 329
Period size: 130 Copynumber: 1.9 Consensus size: 133
7639941 TCCTTTTTCC
*
7639951 AAACATGGTCAAATTACAAAATCTATCCCTCTATTTTATAAAAATTGAGAAGTGGA-C-A-T-T-
1 AAACAAGGTCAAATTACAAAATCTATCCCTCTATTTTATAAAAATTGAGAAGTGGACCTATTGTC
* * *
7640011 TTTTTTATTAAATGCTCTAATTATACAATTTATCCCTCTACTTAGGTCTACAATTATCGTTTTCC
66 TTTTTTACTAAATGCTCTAATTAAAAAATTTATCCCTCTACTTAGGTC-A-AATTATCGTTTTCC
7640076 TTTTA
129 TTTTA
* * * * *
7640081 AAACAAGGTCCAATTCCAAAATTTATCCCTCTATTTTATGAAAATTGAGAAGTTGATCCCTCTAT
1 AAACAAGGTCAAATTACAAAATCTATCCCTCTATTTTATAAAAATTGAGAAGTGGA---C-CTAT
*
7640146 TGTCTTTTTTACTAAATGCTCTAATTAAAAAATTTATCCCTTTACTTAGGTCAAATTAT
62 TGTCTTTTTTACTAAATGCTCTAATTAAAAAATTTATCCCTCTACTTAGGTCAAATTAT
7640205 AAAATTTATC
Statistics
Matches: 105, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
130 50 0.48
135 1 0.01
136 1 0.01
137 7 0.07
138 2 0.02
139 44 0.42
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (133 bp):
AAACAAGGTCAAATTACAAAATCTATCCCTCTATTTTATAAAAATTGAGAAGTGGACCTATTGTC
TTTTTTACTAAATGCTCTAATTAAAAAATTTATCCCTCTACTTAGGTCAAATTATCGTTTTCCTT
TTA
Found at i:7640296 original size:63 final size:64
Alignment explanation
Indices: 7640204--7640323 Score: 172
Period size: 63 Copynumber: 1.9 Consensus size: 64
7640194 GGTCAAATTA
*
7640204 TAAAATTTATCCGTCTACTTAATTAAAAATTGAGAAGTT-GATCCCTTTATTGTTTTTGTTTTAC
1 TAAAATTTATCCCTCTACTTAATTAAAAATTGAGAAGTTAG-TCCCTTTATTGTTTTTGTTTTAC
* * * *
7640268 TAAAATTTATCCCTCTATTTTA-TGAAAATTGAGAAGTTAGTCTCTTTATTGTTTTT
1 TAAAATTTATCCCTCTACTTAATTAAAAATTGAGAAGTTAGTCCCTTTATTGTTTTT
7640324 TTAACTAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
63 30 0.60
64 20 0.40
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (64 bp):
TAAAATTTATCCCTCTACTTAATTAAAAATTGAGAAGTTAGTCCCTTTATTGTTTTTGTTTTAC
Found at i:7642786 original size:82 final size:81
Alignment explanation
Indices: 7642643--7642855 Score: 329
Period size: 82 Copynumber: 2.6 Consensus size: 81
7642633 TATGATACTG
*
7642643 CTCACACAAGCTGATGAGAACTCGC-AACATATGCGAAGACTCAACCATCGATACGGGCTAGAAT
1 CTCACACAAGCTGATGAGAA-TC-CTAACATATGCGAAGACTCAACCATCAATACGGGCTAGAAT
7642707 TTCTCACTCTCGATGCTA
64 TTCTCACTCTCGATGCTA
* *
7642725 CTCACACAAGCTGATGAGAATCCATAACATATGCGAAGACTCAACCATCAATATGGTCTAGAATT
1 CTCACACAAGCTGATGAGAATCC-TAACATATGCGAAGACTCAACCATCAATACGGGCTAGAATT
* *
7642790 TCTCACTCTTGATGCTG
65 TCTCACTCTCGATGCTA
*
7642807 CTCACACAAGCTTATGAGAATCCGTAACATATGCGAAGACTCAACCATC
1 CTCACACAAGCTGATGAGAATCC-TAACATATGCGAAGACTCAACCATC
7642856 GGAGGAATCC
Statistics
Matches: 122, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
80 1 0.01
81 2 0.02
82 119 0.98
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.23
Consensus pattern (81 bp):
CTCACACAAGCTGATGAGAATCCTAACATATGCGAAGACTCAACCATCAATACGGGCTAGAATTT
CTCACTCTCGATGCTA
Found at i:7664729 original size:21 final size:20
Alignment explanation
Indices: 7664688--7664733 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
7664678 ATATATATAG
*
7664688 TTTTTTTCTTTTTATCAATT
1 TTTTTTTCTTTCTATCAATT
* *
7664708 TTTTCTTTCTTTCTCTCTATT
1 TTTT-TTTCTTTCTATCAATT
7664729 TTTTT
1 TTTTT
7664734 CATGTGACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTTTCTTTCTATCAATT
Found at i:7665783 original size:19 final size:17
Alignment explanation
Indices: 7665759--7665797 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
7665749 CTTTATCTTT
*
7665759 TTCTCTTGCTTCTTCTCTC
1 TTCTCTT-CTTCCTC-CTC
7665778 TTCTCTTCTTCCTCCTC
1 TTCTCTTCTTCCTCCTC
7665795 TTC
1 TTC
7665798 CTCAACACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 6 0.32
19 7 0.37
ACGTcount: A:0.00, C:0.41, G:0.03, T:0.56
Consensus pattern (17 bp):
TTCTCTTCTTCCTCCTC
Found at i:7671318 original size:38 final size:38
Alignment explanation
Indices: 7671267--7671460 Score: 246
Period size: 38 Copynumber: 5.1 Consensus size: 38
7671257 GTTATACGCT
7671267 GTGTTTATCGGGCTTAGTGCCTAGCAAGCTTCGTGTCG
1 GTGTTTATCGGGCTTAGTGCCTAGCAAGCTTCGTGTCG
* *
7671305 GTGTTTATCGGGCTTAGTGCCTAGCAGGCTTCGTGACG
1 GTGTTTATCGGGCTTAGTGCCTAGCAAGCTTCGTGTCG
* * *
7671343 GTGTTTATCGGGCTTAGTGCCTAGCAGGCTTCGTGGCT
1 GTGTTTATCGGGCTTAGTGCCTAGCAAGCTTCGTGTCG
* * * * ** *
7671381 GTGTTTTTCGGGCTTAATGCCTAG-TAGACTTTGTACCA
1 GTGTTTATCGGGCTTAGTGCCTAGCAAG-CTTCGTGTCG
* *
7671419 GTGTTTATCGGGCTTAGTGCCTGGCAAGCTTAGTGTCG
1 GTGTTTATCGGGCTTAGTGCCTAGCAAGCTTCGTGTCG
7671457 GTGT
1 GTGT
7671461 ATTTATCAGA
Statistics
Matches: 134, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
37 1 0.01
38 131 0.98
39 2 0.01
ACGTcount: A:0.13, C:0.20, G:0.32, T:0.35
Consensus pattern (38 bp):
GTGTTTATCGGGCTTAGTGCCTAGCAAGCTTCGTGTCG
Found at i:7671531 original size:41 final size:40
Alignment explanation
Indices: 7671455--7671551 Score: 95
Period size: 41 Copynumber: 2.4 Consensus size: 40
7671445 AGCTTAGTGT
*** * *
7671455 CGGTGTATTTATCAGACTTTGTGCCTAGTAGGTTTCATGC
1 CGGTGTATTTATCAGACTTTAAACCTAGCAAGTTTCATGC
* *
7671495 CGGTGTATATTATCAGGCTTTAAACCTAGCAAGTTTCGTGC
1 CGGTGTAT-TTATCAGACTTTAAACCTAGCAAGTTTCATGC
**
7671536 TAGTGTATTGTATCAG
1 CGGTGTATT-TATCAG
7671552 GTAACTTGTA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
40 9 0.20
41 37 0.80
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (40 bp):
CGGTGTATTTATCAGACTTTAAACCTAGCAAGTTTCATGC
Found at i:7676076 original size:26 final size:26
Alignment explanation
Indices: 7676037--7676087 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
7676027 ATCCCCAGCT
*
7676037 CAAAGCCTAATAGATAAACATCGACA
1 CAAAGCCTAATAGATAAACACCGACA
** *
7676063 CAAAGCCTGCTAGATTAACACCGAC
1 CAAAGCCTAATAGATAAACACCGAC
7676088 TCGAGGCTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.43, C:0.27, G:0.14, T:0.16
Consensus pattern (26 bp):
CAAAGCCTAATAGATAAACACCGACA
Found at i:7677550 original size:15 final size:15
Alignment explanation
Indices: 7677530--7677559 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7677520 TTTGTGGTCC
7677530 TGAAACCACTATTTT
1 TGAAACCACTATTTT
*
7677545 TGAAACCATTATTTT
1 TGAAACCACTATTTT
7677560 CAACACCACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (15 bp):
TGAAACCACTATTTT
Found at i:7678332 original size:3 final size:3
Alignment explanation
Indices: 7678324--7678373 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
7678314 GAAACAAAGA
7678324 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7678372 AA
1 AA
7678374 AAACCCAATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7680269 original size:34 final size:34
Alignment explanation
Indices: 7680227--7680325 Score: 135
Period size: 34 Copynumber: 2.9 Consensus size: 34
7680217 TGTGCTGGAT
7680227 GGACTAGCTCTTACGAGCATTTGGTGTGTTGAAG
1 GGACTAGCTCTTACGAGCATTTGGTGTGTTGAAG
* * * * ***
7680261 GGATTAGCTCTTACGAGCATATGATGTTTTGGTT
1 GGACTAGCTCTTACGAGCATTTGGTGTGTTGAAG
7680295 GGACTAGCTCTTACGAGCATTTGGTGTGTTG
1 GGACTAGCTCTTACGAGCATTTGGTGTGTTG
7680326 GATGTTTAAC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 54 1.00
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.36
Consensus pattern (34 bp):
GGACTAGCTCTTACGAGCATTTGGTGTGTTGAAG
Found at i:7682509 original size:32 final size:32
Alignment explanation
Indices: 7682461--7682525 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
7682451 AACTCGAGTA
*
7682461 AAATTAAAATGTGATCCCTAAATGCATGATTT
1 AAATTAAAATGCGATCCCTAAATGCATGATTT
*
7682493 AAATTAAGATGCGATCCCTAAATGCATGATTT
1 AAATTAAAATGCGATCCCTAAATGCATGATTT
7682525 A
1 A
7682526 TTTAATGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (32 bp):
AAATTAAAATGCGATCCCTAAATGCATGATTT
Found at i:7683167 original size:15 final size:15
Alignment explanation
Indices: 7683149--7683181 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
7683139 GCATAAATTT
7683149 AAATTACAA-AAATAA
1 AAATTA-AATAAATAA
7683164 AAATTAAATAAATAA
1 AAATTAAATAAATAA
7683179 AAA
1 AAA
7683182 ATATATAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATTAAATAAATAA
Found at i:7687997 original size:16 final size:16
Alignment explanation
Indices: 7687978--7688054 Score: 57
Period size: 16 Copynumber: 4.4 Consensus size: 16
7687968 ATGTTGATAG
7687978 TATTTTATTAATTTAA
1 TATTTTATTAATTTAA
7687994 TATTAAATTGATT-ATCTTAA
1 TATT---TT-ATTAAT-TTAA
* **
7688014 TGTTAAATTTAATTTAA
1 TATTTTAT-TAATTTAA
7688031 TATTTTATTAATTTAA
1 TATTTTATTAATTTAA
7688047 TATATTTA
1 TAT-TTTA
7688055 ATTTTAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
16 17 0.36
17 14 0.30
18 2 0.04
19 4 0.09
20 10 0.21
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (16 bp):
TATTTTATTAATTTAA
Found at i:7688014 original size:58 final size:55
Alignment explanation
Indices: 7687950--7688127 Score: 154
Period size: 58 Copynumber: 3.1 Consensus size: 55
7687940 ATTTTAATTA
7687950 ATTTAATATTAAATATTTATGTTGATAGTATTTTATTAATTTAATATTAAATTGATT
1 ATTTAAT-TTAAATATTTAT-TTGATAGTATTTTATTAATTTAATATTAAATTGATT
* *
7688007 ATCTTAATGTTAAAT-TTAATTT-A-A-TATTTTATTAATTTAATATATTTAATT--TT
1 AT-TTAAT-TTAAATATTTATTTGATAGTATTTTATTAATTT-A-ATATTAAATTGATT
* * *
7688060 AAATTTAATCT-AATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGATT
1 --ATTTAATTTAAATATTTAT-TTGAT-AGTATTTTATTAATTTAATATTAAATTGATT
7688118 AAGTTTAATT
1 -A-TTTAATT
7688128 ATAGTTGAAC
Statistics
Matches: 98, Mismatches: 9, Indels: 27
0.73 0.07 0.20
Matches are distributed among these distances:
52 3 0.03
53 21 0.21
54 9 0.09
55 13 0.13
56 10 0.10
57 10 0.10
58 32 0.33
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (55 bp):
ATTTAATTTAAATATTTATTTGATAGTATTTTATTAATTTAATATTAAATTGATT
Found at i:7688031 original size:42 final size:42
Alignment explanation
Indices: 7687985--7688076 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
7687975 TAGTATTTTA
*
7687985 TTAAT-TTAATATTAAATTGAT-TATCTTAATGTTAAATTTAAT
1 TTAATATT-ATATTAAATTAATATAT-TTAATGTTAAATTTAAT
* * *
7688027 TTAATATTTTATTAATTTAATATATTTAATTTTAAATTTAAT
1 TTAATATTATATTAAATTAATATATTTAATGTTAAATTTAAT
*
7688069 CTAATATT
1 TTAATATT
7688077 TATCTTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
42 38 0.88
43 5 0.12
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (42 bp):
TTAATATTATATTAAATTAATATATTTAATGTTAAATTTAAT
Found at i:7688043 original size:21 final size:19
Alignment explanation
Indices: 7688016--7688077 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 19
7688006 TATCTTAATG
*
7688016 TTAAATTTAATTTAATATT
1 TTAAATTTAATATAATATT
*
7688035 TTATTAATTTAATATATTTAATT
1 TTA--AATTTAATATA-AT-ATT
*
7688058 TTAAATTTAATCTAATATT
1 TTAAATTTAATATAATATT
7688077 T
1 T
7688078 ATCTTGATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 7 0.20
20 1 0.03
21 20 0.57
22 1 0.03
23 6 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAAATTTAATATAATATT
Found at i:7690667 original size:18 final size:18
Alignment explanation
Indices: 7690644--7690686 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
7690634 AATAGATTTT
7690644 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
7690662 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
7690680 TTAATTA
1 TTAATTA
7690687 CACCTTGATC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:7696903 original size:7 final size:7
Alignment explanation
Indices: 7696891--7696916 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7696881 ATACTTAAAC
7696891 TTAAAAT
1 TTAAAAT
7696898 TTAAAAT
1 TTAAAAT
7696905 TTAAAAT
1 TTAAAAT
7696912 TTAAA
1 TTAAA
7696917 TTATGTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TTAAAAT
Found at i:7711630 original size:9 final size:9
Alignment explanation
Indices: 7711613--7711643 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7711603 AATTAAATAG
7711613 TTCGAGTTA
1 TTCGAGTTA
*
7711622 TTTGAGTTA
1 TTCGAGTTA
7711631 TTCGAGTTA
1 TTCGAGTTA
7711640 TTCG
1 TTCG
7711644 GATCAACTCG
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:0.19, C:0.10, G:0.23, T:0.48
Consensus pattern (9 bp):
TTCGAGTTA
Found at i:7711818 original size:1 final size:1
Alignment explanation
Indices: 7711814--7711842 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
7711804 ATTTTTGCTT
7711814 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
7711843 ACTTTAGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:7715946 original size:16 final size:15
Alignment explanation
Indices: 7715925--7715954 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
7715915 CATGTATCCC
7715925 TATATCATATTTTTTG
1 TATATCAT-TTTTTTG
7715941 TATATCATTTTTTT
1 TATATCATTTTTTT
7715955 ATCTTATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (15 bp):
TATATCATTTTTTTG
Found at i:7717713 original size:13 final size:13
Alignment explanation
Indices: 7717697--7717729 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
7717687 GACAAATAGT
*
7717697 AAAGAGCAGAGCA
1 AAAGAGAAGAGCA
7717710 AAAGAGAAGAGCA
1 AAAGAGAAGAGCA
7717723 AAAGAGA
1 AAAGAGA
7717730 GCGTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.61, C:0.09, G:0.30, T:0.00
Consensus pattern (13 bp):
AAAGAGAAGAGCA
Found at i:7723033 original size:21 final size:19
Alignment explanation
Indices: 7723007--7723055 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
7722997 GGAGTTTTTG
*
7723007 GTATCGAGAGATGCATGACTT
1 GTATCGAGAAAT-CAT-ACTT
7723028 GTATCGGTAGAAATCATACTT
1 GTATC-G-AGAAATCATACTT
7723049 GTATCGA
1 GTATCGA
7723056 TAGAGCTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 1 0.04
21 14 0.56
22 4 0.16
23 5 0.20
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (19 bp):
GTATCGAGAAATCATACTT
Found at i:7728421 original size:21 final size:22
Alignment explanation
Indices: 7728392--7728434 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
7728382 TAATGATTAT
*
7728392 AAATAGGTTTAA-TAAAGGTTAA
1 AAATAGG-TTAATTAAAGCTTAA
7728414 AAAT-GGTTAATTAAAGCTTAA
1 AAATAGGTTAATTAAAGCTTAA
7728435 TGATGAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.16, T:0.33
Consensus pattern (22 bp):
AAATAGGTTAATTAAAGCTTAA
Found at i:7729025 original size:18 final size:18
Alignment explanation
Indices: 7729004--7729038 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
7728994 TAATTTCCCA
7729004 GAAGGACTT-AATTATGTT
1 GAAGGA-TTAAATTATGTT
7729022 GAAGGATTAAATTATGT
1 GAAGGATTAAATTATGT
7729039 ATTTTAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (18 bp):
GAAGGATTAAATTATGTT
Found at i:7735761 original size:23 final size:24
Alignment explanation
Indices: 7735726--7735787 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
7735716 CCTACTCATG
7735726 ATTTTCTTC-TTTTG-TTTCT-ACT
1 ATTTT-TTCTTTTTGATTTCTCACT
*
7735748 CATTTTTTCTTTTTGATTTTTCACT
1 -ATTTTTTCTTTTTGATTTCTCACT
7735773 ATTTTTCTCTTTTTG
1 ATTTTT-TCTTTTTG
7735788 GCTAAAGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
22 3 0.09
23 10 0.29
24 10 0.29
25 11 0.32
ACGTcount: A:0.10, C:0.16, G:0.05, T:0.69
Consensus pattern (24 bp):
ATTTTTTCTTTTTGATTTCTCACT
Found at i:7738751 original size:590 final size:590
Alignment explanation
Indices: 7737632--7738811 Score: 1860
Period size: 590 Copynumber: 2.0 Consensus size: 590
7737622 CTCGCCAGAA
* * *
7737632 GTGGTTGCAGACTTGCTTCATCAGCTCTCCGATTTCTAGCTCAAATCTCCAATTCACATAAAATT
1 GTGGTTGCAGACTTGCTTCATCAGCTCTCCGATTTCCAACTCAAATCTCCAATTCACACAAAATT
* * *
7737697 TTCAGAATTAAATCCCTTCACTCTTGATGATTTTTCTTCATCTTCTTTCCTCTATTTATAGGATC
66 TTCAAAATTAAATCCCTTCACTCATGATGATTTTTCTTCATCTTCTTTCCTCTATTTATACGATC
* * *
7737762 AAGAAATTGCAGATTTTCTCTATTCTCAAATCCAACAACTTTGTACAACTGTAAAAGTTTGTTAT
131 AAGAAATTGCAAATTTTCTCCATTCTCAAATCCAACAACTTTGTACAACTGTAAAAGTTTGTTAC
* * * *
7737827 TGACAGCTATGAAAATCTGATTTGTTTACTGGACTGTTGTAGAATGTCGGCGCAATTTATAATTT
196 TGACAGCTATGAAAATCTAATTTGTTTACTGGACTGTTGCAGAATGTCGACGCAATATATAATTT
* * * * * *
7737892 GCGTCGATAATTTGCCGCATTTTTGGACCAACTTGTGGCCGCAACTTTGAATGATTTCTAGCTTC
261 ACCTCGACAATTTACCGCATTTTTGGACCAACCTGTGGCCGCAACTATGAATGATTTCTAGCTTC
* * *
7737957 AAGAATGGTAGACCTTATCTTTTCTCGGATCCAGATCTAATGACAGCTATCAAAGTTAGTTAAAT
326 AAGAATGGTAGACCTCATCTCTTCTCAGATCCAGATCTAATGACAGCTATCAAAGTTAGTTAAAT
* * *
7738022 TCCAGTTGTGCACTCACGCAGATCTGGTGTGTTCTTCATAAATCTACAGATTGTCGATGCATTTT
391 TCCAGCTGTGCACTCACGCAGATCTGGTGTGTTCTTCATAAATCTACAGATTGTCGACGCATTTC
* * * * *
7738087 TGGTCGCGATTTGAATTCTTTAATTGTGGCGACAACGTGTGAAATTCTTGCGCTGGTGCTTCCAG
456 TGGTCGCGATCTGAATACTTTAATTGTGGAGACAACGTGTGAAATTCCTACGCTGGTGCTTCCAG
*
7738152 ATATACTTGTAGCTTGAATTCACTCATGCAAAGTAAAGATTTCTATGCGTCGACATCTCTAGCCG
521 ATATACTTGTAGCTTGAATTCACTCATGCAAAGTAAAGATTGCTATGCGTCGACATCTCTAGCCG
7738217 CAATT
586 CAATT
* *
7738222 GTGGTTGTAGACTTGCTTCATCAGCTC-CTCGATTTCCAACTCAAATCTCCAATTCACACAGAAT
1 GTGGTTGCAGACTTGCTTCATCAGCTCTC-CGATTTCCAACTCAAATCTCCAATTCACACAAAAT
* *
7738286 TTTCAAAATTAAATCCCTTCACTCATGATGATTTTTCTTCATCTTCTTTCCTTTATTTATACGCT
65 TTTCAAAATTAAATCCCTTCACTCATGATGATTTTTCTTCATCTTCTTTCCTCTATTTATACGAT
* * *
7738351 CAAGAAATTGTAAATTTTCTCCATTCTCAGATCCAACAACTTTGTACAATTGTAAAAGTTTGTTA
130 CAAGAAATTGCAAATTTTCTCCATTCTCAAATCCAACAACTTTGTACAACTGTAAAAGTTTGTTA
* ** * *
7738416 CTGACAGCTATGCAGTTCTAATTTGTTTACTGGATTGTTGCAGAATGTCGATGCAATATATAATT
195 CTGACAGCTATGAAAATCTAATTTGTTTACTGGACTGTTGCAGAATGTCGACGCAATATATAATT
*
7738481 TACACT-GACAATTTACCGCATTTTTGGACCAACCTGTGGCCGCAACTATGAATGCTTTCTAGCT
260 TAC-CTCGACAATTTACCGCATTTTTGGACCAACCTGTGGCCGCAACTATGAATGATTTCTAGCT
* *
7738545 TTAAGAATGGTAGACCTCATCTCTTCTCAGATCCAGATCTAATGACAGCTGTCAAAGTTAGTTAA
324 TCAAGAATGGTAGACCTCATCTCTTCTCAGATCCAGATCTAATGACAGCTATCAAAGTTAGTTAA
* * *
7738610 ATTTCAGCTGTGCACTCACGCAGATTTGGTGTGTTCTTCATAAATCTACAGATTGTCGCCGCATT
389 ATTCCAGCTGTGCACTCACGCAGATCTGGTGTGTTCTTCATAAATCTACAGATTGTCGACGCATT
*
7738675 TCTGGTCGCGATCTGAGTACTTTAATTGTGGAGACAACGTGTGAAATTCCTACGCTGGTGCTTCC
454 TCTGGTCGCGATCTGAATACTTTAATTGTGGAGACAACGTGTGAAATTCCTACGCTGGTGCTTCC
* *
7738740 AGATGTACTTGTAGCTTGAATTCACTCATGCAAAGTAAAGATTGCTATGCGTCGACATCTCTGGC
519 AGATATACTTGTAGCTTGAATTCACTCATGCAAAGTAAAGATTGCTATGCGTCGACATCTCTAGC
7738805 CGCAATT
584 CGCAATT
7738812 CGAAGCTATA
Statistics
Matches: 536, Mismatches: 52, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
589 1 0.00
590 534 1.00
591 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (590 bp):
GTGGTTGCAGACTTGCTTCATCAGCTCTCCGATTTCCAACTCAAATCTCCAATTCACACAAAATT
TTCAAAATTAAATCCCTTCACTCATGATGATTTTTCTTCATCTTCTTTCCTCTATTTATACGATC
AAGAAATTGCAAATTTTCTCCATTCTCAAATCCAACAACTTTGTACAACTGTAAAAGTTTGTTAC
TGACAGCTATGAAAATCTAATTTGTTTACTGGACTGTTGCAGAATGTCGACGCAATATATAATTT
ACCTCGACAATTTACCGCATTTTTGGACCAACCTGTGGCCGCAACTATGAATGATTTCTAGCTTC
AAGAATGGTAGACCTCATCTCTTCTCAGATCCAGATCTAATGACAGCTATCAAAGTTAGTTAAAT
TCCAGCTGTGCACTCACGCAGATCTGGTGTGTTCTTCATAAATCTACAGATTGTCGACGCATTTC
TGGTCGCGATCTGAATACTTTAATTGTGGAGACAACGTGTGAAATTCCTACGCTGGTGCTTCCAG
ATATACTTGTAGCTTGAATTCACTCATGCAAAGTAAAGATTGCTATGCGTCGACATCTCTAGCCG
CAATT
Found at i:7747773 original size:30 final size:30
Alignment explanation
Indices: 7747705--7747937 Score: 206
Period size: 30 Copynumber: 7.7 Consensus size: 30
7747695 AGGAAAAATA
* * *
7747705 GGTCAAAATCAAAATTTTAAG-AAGTTTGAG
1 GGTCAAAAT-ATAATTTTTAGAAAGTTTAAG
* * *
7747735 TGTCAAAATATAATTTTCAAAAAGTTTAAG
1 GGTCAAAATATAATTTTTAGAAAGTTTAAG
* * *
7747765 GGTTAAAATGTAATTTTTAGAAAGTTTAGG
1 GGTCAAAATATAATTTTTAGAAAGTTTAAG
* *
7747795 GGTTAAAATGTAATTTTTAGAAAGTTTAAG
1 GGTCAAAATATAATTTTTAGAAAGTTTAAG
* * ** *
7747825 CGTTAAAATGCAATTTTTATAAAGTTTAAG
1 GGTCAAAATATAATTTTTAGAAAGTTTAAG
*
7747855 GGTCAAAATCA-AATTTTTAGAAAGTTTAAA
1 GGTCAAAAT-ATAATTTTTAGAAAGTTTAAG
* *
7747885 GGTCAAAATCA-AATTTTTGGAAAG-TTAGGG
1 GGTCAAAAT-ATAATTTTTAGAAAGTTTA-AG
7747915 GGTCAAAACTA-AATTTTTGAGAA
1 GGTCAAAA-TATAATTTTT-AGAA
7747938 TTACGGGGGT
Statistics
Matches: 174, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
29 11 0.06
30 159 0.91
31 4 0.02
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.35
Consensus pattern (30 bp):
GGTCAAAATATAATTTTTAGAAAGTTTAAG
Found at i:7747820 original size:90 final size:90
Alignment explanation
Indices: 7747704--7747910 Score: 245
Period size: 90 Copynumber: 2.3 Consensus size: 90
7747694 AAGGAAAAAT
* * * *
7747704 AGGTCAAAATCAAAATTTTA-AGAAGTTTGAGTGTCAAAATATAATTTTCAAAAAGTTTAAGGGT
1 AGGTCAAAATCAAATTTTTAGA-AAGTTTAAGCGTCAAAATACAATTTTCAAAAAGTTTAAGGGT
* ** *
7747768 TAAAATGTAATTTTTAGAAAGTTTAG
65 CAAAATCAAATTTTTAGAAAGTTTAA
* * ** * * * *
7747794 GGGTTAAAATGTAATTTTTAGAAAGTTTAAGCGTTAAAATGCAATTTTTATAAAGTTTAAGGGTC
1 AGGTCAAAATCAAATTTTTAGAAAGTTTAAGCGTCAAAATACAATTTTCAAAAAGTTTAAGGGTC
7747859 AAAATCAAATTTTTAGAAAGTTTAA
66 AAAATCAAATTTTTAGAAAGTTTAA
*
7747884 AGGTCAAAATCAAATTTTTGGAAAGTT
1 AGGTCAAAATCAAATTTTTAGAAAGTT
7747911 AGGGGGTCAA
Statistics
Matches: 95, Mismatches: 21, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
90 94 0.99
91 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.17, T:0.36
Consensus pattern (90 bp):
AGGTCAAAATCAAATTTTTAGAAAGTTTAAGCGTCAAAATACAATTTTCAAAAAGTTTAAGGGTC
AAAATCAAATTTTTAGAAAGTTTAA
Found at i:7747946 original size:30 final size:30
Alignment explanation
Indices: 7747854--7747965 Score: 106
Period size: 30 Copynumber: 3.7 Consensus size: 30
7747844 TAAAGTTTAA
* *
7747854 GGGTCAAAATCAAATTTTTAGAAAGTTTA-A
1 GGGTCAAAATCAAATTTTTGGAAAG-TTAGG
*
7747884 AGGTCAAAATCAAATTTTTGGAAAGTTAGG
1 GGGTCAAAATCAAATTTTTGGAAAGTTAGG
7747914 GGGTCAAAA-CTAAATTTTT-GAGAA-TTACGG
1 GGGTCAAAATC-AAATTTTTGGA-AAGTTA-GG
* **
7747944 GGGTCAAATTTGAATTTTTGGA
1 GGGTCAAAATCAAATTTTTGGA
7747966 TAAAACAGGG
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
29 9 0.13
30 58 0.84
31 2 0.03
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (30 bp):
GGGTCAAAATCAAATTTTTGGAAAGTTAGG
Found at i:7749677 original size:42 final size:42
Alignment explanation
Indices: 7749625--7750134 Score: 278
Period size: 42 Copynumber: 12.7 Consensus size: 42
7749615 TGATTTAGGA
* * * *
7749625 GTAAAAGATTGGATGGTGGCATCAATCTCCCCCATTATTGGG
1 GTAAGAGATTGGATGATGTCTTCAATCTCCCCCATTATTGGG
* * * * *
7749667 GTAAGAGATTGGATGATGTCTTCAATTTTCCCCATGATCGAG
1 GTAAGAGATTGGATGATGTCTTCAATCTCCCCCATTATTGGG
* * *
7749709 GTAAGAAATTGGATGATGTCTTCAATCTGCCCCATTACTGGG
1 GTAAGAGATTGGATGATGTCTTCAATCTCCCCCATTATTGGG
* * ** ** * *
7749751 GTAAGAGATT---TGATGGCTTTAATCTGTCCCATGGTCGAG
1 GTAAGAGATTGGATGATGTCTTCAATCTCCCCCATTATTGGG
* *
7749790 GTAAGAGATTGGATGATGTCTTCAATCTACCCC-TTGATCGGG
1 GTAAGAGATTGGATGATGTCTTCAATCTCCCCCATT-ATTGGG
* * * ** * * **
7749832 ATAAGAGATTGGACG--G-CTGCAATCTATCACATTACT-AT
1 GTAAGAGATTGGATGATGTCTTCAATCTCCCCCATTATTGGG
* * *
7749870 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCC-TGATCGAG
1 GTAAGAGATTGGATGATGTCTTCAATCT-CCCCCATTATTGGG
* * * * * * *
7749912 GTAAGAGATTGGACG--G-CTGCAATTTGCCCCATGATCGAG
1 GTAAGAGATTGGATGATGTCTTCAATCTCCCCCATTATTGGG
* *
7749951 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATTGGG
1 GTAAGAGATTGGATGATGTCTTCAATCTCCCCCATTATTGGG
* * * * * *
7749993 GTAAAAGA-T-CA-AATG-CTTCAATCTGCCTCATGATTGGG
1 GTAAGAGATTGGATGATGTCTTCAATCTCCCCCATTATTGGG
* * ** *
7750031 GTAAAAGATTGG-TG-TGTCTTCAATCTGCCCTC-TGGTCGGG
1 GTAAGAGATTGGATGATGTCTTCAATCT-CCCCCATTATTGGG
* * * * * *
7750071 TTAAAAGA-TCG--GATG-CTTCAATCTACCCCATGATTAGG
1 GTAAGAGATTGGATGATGTCTTCAATCTCCCCCATTATTGGG
7750109 GTAAGAGATTGG-T-ATGTCTTCAATCT
1 GTAAGAGATTGGATGATGTCTTCAATCT
7750135 GCCCTCTTAT
Statistics
Matches: 365, Mismatches: 79, Indels: 50
0.74 0.16 0.10
Matches are distributed among these distances:
37 3 0.01
38 68 0.19
39 87 0.24
40 37 0.10
41 17 0.05
42 153 0.42
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
GTAAGAGATTGGATGATGTCTTCAATCTCCCCCATTATTGGG
Found at i:7749807 original size:81 final size:80
Alignment explanation
Indices: 7749625--7750173 Score: 442
Period size: 81 Copynumber: 6.8 Consensus size: 80
7749615 TGATTTAGGA
* * * * *
7749625 GTAAAAGATTGGATGGTGGCATCAATCTCCCCCATTATTGGGGTAAGAGATTGGATGATGTCTTC
1 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATTA-TGGGGTAAGAGATTGGATG--G-CTTC
*
7749690 AAT-TTTCCCCATGATCGAG
62 AATCTGT-CCCATGATCGAG
* * *
7749709 GTAAGAAATTGGATGATGTCTTCAATCTGCCCCATTACTGGGGTAAGAGATTTGATGGCTTTAAT
1 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATTA-TGGGGTAAGAGATTGGATGGCTTCAAT
*
7749774 CTGTCCCATGGTCGAG
65 CTGTCCCATGATCGAG
* * * *
7749790 GTAAGAGATTGGATGATGTCTTCAATCTACCCC-TTGATCGGGATAAGAGATTGGACGGCTGCAA
1 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATT-AT-GGGGTAAGAGATTGGATGGCTTCAA
* * * * *
7749854 TCTATCACATTA-CTAT
64 TCTGTCCCATGATCGAG
* * * * *
7749870 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCCTGATCGAGGTAAGAGATTGGACGGCTGCAAT
1 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATTAT-GGGGTAAGAGATTGGATGGCTTCAAT
* *
7749935 TTGCCCCATGATCGAG
65 CTGTCCCATGATCGAG
* * ***
7749951 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATTGGGGTAAAAGATCAAAT-GCTTCAAT
1 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATTA-TGGGGTAAGAGATTGGATGGCTTCAAT
* *
7750015 CTG-CCTCATGATTGGG
65 CTGTCC-CATGATCGAG
* ** * * *
7750031 GTAAAAGATTGG-TG-TGTCTTCAATCTGCCCTC-TGGTCGGGTTAAAAGATCGGAT-GCTTCAA
1 GTAAGAGATTGGATGATGTCTTCAATCTGCCC-CATTAT-GGGGTAAGAGATTGGATGGCTTCAA
** *
7750092 TCTACCCCATGAT-TAGG
64 TCTGTCCCATGATCGA-G
** * *
7750109 GTAAGAGATTGG-T-ATGTCTTCAATCTGCCCTC-TTATTAAGGTAAAAGACTGGAT-GCTTCAA
1 GTAAGAGATTGGATGATGTCTTCAATCTGCCC-CATTA-TGGGGTAAGAGATTGGATGGCTTCAA
7750170 TCTG
64 TCTG
7750174 CCCTCTTATT
Statistics
Matches: 389, Mismatches: 63, Indels: 32
0.80 0.13 0.07
Matches are distributed among these distances:
77 1 0.00
78 102 0.26
79 8 0.02
80 98 0.25
81 127 0.33
82 4 0.01
84 49 0.13
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (80 bp):
GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATTATGGGGTAAGAGATTGGATGGCTTCAATC
TGTCCCATGATCGAG
Found at i:7750025 original size:38 final size:38
Alignment explanation
Indices: 7749965--7750283 Score: 279
Period size: 38 Copynumber: 8.2 Consensus size: 38
7749955 GAGATTGGAT
* *
7749965 GATGTCTTCAATCTGCCC-CATGATTGGGGTAAAAGATCA
1 GATG-CTTCAATCTGCCCTC-TGATTAGGGTAAAAGATCG
* * *
7750004 AATGCTTCAATCTG-CCTCATGATTGGGGTAAAAGATTG
1 GATGCTTCAATCTGCCCTC-TGATTAGGGTAAAAGATCG
* * *
7750042 GTGTGTCTTCAATCTGCCCTCTG-GTCGGGTTAAAAGATCG
1 G-ATG-CTTCAATCTGCCCTCTGATTAGGG-TAAAAGATCG
* * *
7750082 GATGCTTCAATCTACCC-CATGATTAGGGTAAGAGATTG
1 GATGCTTCAATCTGCCCTC-TGATTAGGGTAAAAGATCG
* *
7750120 GTATGTCTTCAATCTGCCCTCTTATTAAGGTAAAAGA-CTG
1 G-ATG-CTTCAATCTGCCCTCTGATTAGGGTAAAAGATC-G
* *
7750160 GATGCTTCAATCTGCCCTCTTATTAAGGTAAAAGATCG
1 GATGCTTCAATCTGCCCTCTGATTAGGGTAAAAGATCG
* * ** * *
7750198 GATGCTTCAATCTACCCTATGATCGGGGTAAGAGATTG
1 GATGCTTCAATCTGCCCTCTGATTAGGGTAAAAGATCG
* *
7750236 GTTTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTG
1 G-ATG-CTTCAATCTGCCCTCTGATTAGGGTAAAAGATCG
*
7750276 GATTCTTC
1 GATGCTTC
7750284 TATAATACCC
Statistics
Matches: 231, Mismatches: 35, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
37 3 0.01
38 119 0.52
39 25 0.11
40 79 0.34
41 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (38 bp):
GATGCTTCAATCTGCCCTCTGATTAGGGTAAAAGATCG
Found at i:7750042 original size:161 final size:160
Alignment explanation
Indices: 7749625--7750254 Score: 480
Period size: 161 Copynumber: 3.9 Consensus size: 160
7749615 TGATTTAGGA
* * * * * * * * *
7749625 GTAAAAGATTGGATGGTGGCATCAATCTCCCCCATTATTGGGGTAAGAGATTGGATGATGTCTTC
1 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATTGGGGTAAAAGATT-CA-AATG-CTTC
* * * * *
7749690 AATTTTCCCCATGATCGAGGTAAGAA-ATTGGATGATGTCTTCAATCTGCCCCATTA-CTGGGGT
63 AATCTGCCTCATGATTGAGGTAA-AAGATTGG-TGATGTCTTCAATCTGCCCCATGATC-GGGGT
* * * *
7749753 AAGAGATTTGATGGCTTTAATCTGTCCCATGGTCGAG
125 AAGAGATTGGA-GGCTTCAATCTGCCCCATGATCGAG
* * * * * ** ** *
7749790 GTAAGAGATTGGATGATGTCTTCAATCTACCCCTTGATCGGGATAAGAGATTGGACGGCTGCAAT
1 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATTGGGGTAAAAGATTCAAATGCTTCAAT
** * * * * * * *
7749855 CTATCACATTACT-ATGTAAGAGATTGGATGATGTCTTCAATCTGCCCCCTGATCGAGGTAAGAG
66 CTGCCTCATGATTGAGGTAAAAGATTGG-TGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAG
* *
7749919 ATTGGACGGCTGCAATTTGCCCCATGATCGAG
130 ATTGGA-GGCTTCAATCTGCCCCATGATCGAG
7749951 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATTGGGGTAAAAGA-TCAAATGCTTCAAT
1 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATTGGGGTAAAAGATTCAAATGCTTCAAT
* * * *
7750015 CTGCCTCATGATTGGGGTAAAAGATTGGTG-TGTCTTCAATCTGCCCTC-TGGTCGGGTTAAAAG
66 CTGCCTCATGATTGAGGTAAAAGATTGGTGATGTCTTCAATCTGCCC-CATGATCGGGGTAAGAG
* * * *
7750078 ATCGGATGCTTCAATCTACCCCATGAT-TAGG
130 ATTGGAGGCTTCAATCTGCCCCATGATCGA-G
* ** * **
7750109 GTAAGAGATTGG-T-ATGTCTTCAATCTGCCCTC-TTATTAAGGTAAAAGACT-GGATGCTTCAA
1 GTAAGAGATTGGATGATGTCTTCAATCTGCCC-CATGATTGGGGTAAAAGATTCAAATGCTTCAA
* * * * *
7750170 TCTGCCCTC-TTATTAAGGTAAAAGA-TCG-GATG-CTTCAATCTACCCTATGATCGGGGTAAGA
65 TCTG-CCTCATGATTGAGGTAAAAGATTGGTGATGTCTTCAATCTGCCCCATGATCGGGGTAAGA
* *
7750231 GATTGGTTTGTCTTCAATCTGCCC
129 GATTGG--AGGCTTCAATCTGCCC
7750255 TCTGATTAGG
Statistics
Matches: 373, Mismatches: 80, Indels: 33
0.77 0.16 0.07
Matches are distributed among these distances:
154 29 0.08
155 4 0.01
156 68 0.18
157 8 0.02
158 30 0.08
159 32 0.09
160 21 0.06
161 123 0.33
162 13 0.03
163 1 0.00
164 1 0.00
165 43 0.12
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (160 bp):
GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATTGGGGTAAAAGATTCAAATGCTTCAAT
CTGCCTCATGATTGAGGTAAAAGATTGGTGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGA
TTGGAGGCTTCAATCTGCCCCATGATCGAG
Found at i:7750076 original size:78 final size:78
Alignment explanation
Indices: 7749870--7750233 Score: 297
Period size: 78 Copynumber: 4.6 Consensus size: 78
7749860 ACATTACTAT
* * * ** ** *
7749870 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCCTGATCGAGGTAAGAGATTGGACGGCTGCAAT
1 GTAAGAGATTGG-TG-TGTCTTCAATCTGCCCTCTGATCGGGGTAAAAGA-TCAAATGCTTCAAT
* * *
7749935 TTGCCCCATGATCGAG
63 CTGCCCCATGATTGGG
*
7749951 GTAAGAGATTGGATGATGTCTTCAATCTGCCC-CATGATTGGGGTAAAAGATCAAATGCTTCAAT
1 GTAAGAGATTGG-TG-TGTCTTCAATCTGCCCTC-TGATCGGGGTAAAAGATCAAATGCTTCAAT
*
7750015 CTGCCTCATGATTGGG
63 CTGCCCCATGATTGGG
* * * ** *
7750031 GTAAAAGATTGGTGTGTCTTCAATCTGCCCTCTGGTCGGGTTAAAAGATCGGATGCTTCAATCTA
1 GTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATCGGGGTAAAAGATCAAATGCTTCAATCTG
*
7750096 CCCCATGATTAGG
66 CCCCATGATTGGG
* * *** **
7750109 GTAAGAGATTGGTATGTCTTCAATCTGCCCTCTTATTAAGGTAAAAGA-CTGGATGCTTCAATCT
1 GTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATCGGGGTAAAAGATC-AAATGCTTCAATCT
* **
7750173 GCCCTC-TTATTAAG
65 GCCC-CATGATTGGG
* * * * * *
7750187 GTAAAAGATCGG-ATG-CTTCAATCTACCCTATGATCGGGGTAAGAGAT
1 GTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATCGGGGTAAAAGAT
7750234 TGGTTTGTCT
Statistics
Matches: 237, Mismatches: 41, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
76 24 0.10
77 4 0.02
78 127 0.54
79 4 0.02
80 33 0.14
81 45 0.19
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (78 bp):
GTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATCGGGGTAAAAGATCAAATGCTTCAATCTG
CCCCATGATTGGG
Found at i:7750111 original size:116 final size:116
Alignment explanation
Indices: 7749965--7750283 Score: 394
Period size: 116 Copynumber: 2.7 Consensus size: 116
7749955 GAGATTGGAT
* * ***
7749965 GATGTCTTCAATCTGCCCCATGATTGGGGTAAAAGA-TCAAATG-CTTCAATCTG-CCTCATGAT
1 GATG-CTTCAATCTACCCCATGATTGGGGTAAGAGATTGGTATGTCTTCAATCTGCCCTC-TGAT
* * * **
7750027 TGGGGTAAAAGATTGGTGTGTCTTCAATCTGCCCTC-TGGTCGGGTTAAAAGATCG
64 TAGGGTAAAAGATTGG-ATG-CTTCAATCTGCCCTCTTAGTAAGG-TAAAAGATCG
* *
7750082 GATGCTTCAATCTACCCCATGATTAGGGTAAGAGATTGGTATGTCTTCAATCTGCCCTCTTATTA
1 GATGCTTCAATCTACCCCATGATTGGGGTAAGAGATTGGTATGTCTTCAATCTGCCCTCTGATTA
* * *
7750147 AGGTAAAAGACTGGATGCTTCAATCTGCCCTCTTATTAAGGTAAAAGATCG
66 GGGTAAAAGATTGGATGCTTCAATCTGCCCTCTTAGTAAGGTAAAAGATCG
* * *
7750198 GATGCTTCAATCTACCCTATGATCGGGGTAAGAGATTGGTTTGTCTTCAATCTGCCCTCTGATTA
1 GATGCTTCAATCTACCCCATGATTGGGGTAAGAGATTGGTATGTCTTCAATCTGCCCTCTGATTA
*
7750263 GGGTAAAAGATTGGATTCTTC
66 GGGTAAAAGATTGGATGCTTC
7750284 TATAATACCC
Statistics
Matches: 175, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
116 131 0.75
117 14 0.08
118 26 0.15
119 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (116 bp):
GATGCTTCAATCTACCCCATGATTGGGGTAAGAGATTGGTATGTCTTCAATCTGCCCTCTGATTA
GGGTAAAAGATTGGATGCTTCAATCTGCCCTCTTAGTAAGGTAAAAGATCG
Found at i:7752368 original size:11 final size:11
Alignment explanation
Indices: 7752352--7752394 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
7752342 CCATTTTCTA
7752352 AATAAAATATT
1 AATAAAATATT
7752363 AAT-AAATATTT
1 AATAAAATA-TT
7752374 AAGTAAAATATT
1 AA-TAAAATATT
7752386 AATAAAATA
1 AATAAAATA
7752395 ATATTTAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.17
11 14 0.48
12 5 0.17
13 5 0.17
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
AATAAAATATT
Found at i:7753015 original size:21 final size:21
Alignment explanation
Indices: 7752989--7753043 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
7752979 AAAACTTGCT
*
7752989 ACTGCAACTTTGATCTGATCC
1 ACTGCAACTTCGATCTGATCC
7753010 ACTGCAACTTCGATCTGATCC
1 ACTGCAACTTCGATCTGATCC
7753031 ACTGCAACTTCGA
1 ACTGCAACTTCGA
7753044 GGTAGAAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (21 bp):
ACTGCAACTTCGATCTGATCC
Found at i:7753217 original size:49 final size:49
Alignment explanation
Indices: 7753140--7753707 Score: 321
Period size: 49 Copynumber: 11.6 Consensus size: 49
7753130 TTTACAACTT
* *
7753140 TAAGGTATAAGGTTCGTCGTTGCGGCTTCAACCTTTCCCTCCATATCTC
1 TAAGGTATAAGATTCGCCGTTGCGGCTTCAACCTTTCCCTCCATATCTC
* * * * * * *** * *
7753189 CATGGTACAAGATTCGCTGTTGCAGCTTCAATCTTTCCCAATATTTTTC
1 TAAGGTATAAGATTCGCCGTTGCGGCTTCAACCTTTCCCTCCATATCTC
* * * * *
7753238 TAAGGTATAAGGTTCACCCTTGTGGCTTCAACCTTTTCCTCCATATCTC
1 TAAGGTATAAGATTCGCCGTTGCGGCTTCAACCTTTCCCTCCATATCTC
* * ** * * *
7753287 CATGGTACT-AGATTCAG-CGTTAAGGCTTCAATCTTTCTCAT-CACATCTC
1 TAAGGTA-TAAGATTC-GCCGTTGCGGCTTCAACCTTTC-CCTCCATATCTC
* * * * *
7753336 TAAGGTATAAGGTTCGTCATTGCGGCTTCAACCTTTCCCTTCGTATCTC
1 TAAGGTATAAGATTCGCCGTTGCGGCTTCAACCTTTCCCTCCATATCTC
* * *** * * ** *
7753385 TAGGGTATTAGATTTTTCGTTGCGGCTTTAATCTTTCCCTTTACATCTC
1 TAAGGTATAAGATTCGCCGTTGCGGCTTCAACCTTTCCCTCCATATCTC
* * * * *
7753434 TAAGGTATAAGGTTTGTCGTTGCGGCTTCAACCTTTCCCTTCATCT-TC
1 TAAGGTATAAGATTCGCCGTTGCGGCTTCAACCTTTCCCTCCATATCTC
* * * * * * * * * *
7753482 -ATGGTACAAGATTCACCGTTGTGGCTTTAATCTTTCTCAT-TATTTTTC
1 TAAGGTATAAGATTCGCCGTTGCGGCTTCAACCTTTC-CCTCCATATCTC
* *
7753530 TAAGGTATAAGGTTCGCCGTTG-GAGCTTCAACCTTTCCCCCCATATCTCC
1 TAAGGTATAAGATTCGCCGTTGCG-GCTTCAACCTTTCCCTCCATATCT-C
* * * * * **
7753580 T-TGGTACAATATTTC-CCATTGCGGCTTCAATCTTTCCCAT-CACGTCTC
1 TAAGGTATAAGA-TTCGCCGTTGCGGCTTCAACCTTTCCC-TCCATATCTC
* * * ** *
7753628 TAAGGTACAAGGTTTGTTGTTGCGACTTCAACCTTTCCCTCCA-ATTCTC
1 TAAGGTATAAGATTCGCCGTTGCGGCTTCAACCTTTCCCTCCATA-TCTC
* * *
7753677 TAGGGTATAAGATTTGCCGTTGCAGCTTCAA
1 TAAGGTATAAGATTCGCCGTTGCGGCTTCAA
7753708 TTTTTCCTTA
Statistics
Matches: 381, Mismatches: 119, Indels: 38
0.71 0.22 0.07
Matches are distributed among these distances:
47 30 0.08
48 17 0.04
49 325 0.85
50 9 0.02
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.38
Consensus pattern (49 bp):
TAAGGTATAAGATTCGCCGTTGCGGCTTCAACCTTTCCCTCCATATCTC
Found at i:7753221 original size:98 final size:98
Alignment explanation
Indices: 7753099--7753714 Score: 580
Period size: 98 Copynumber: 6.3 Consensus size: 98
7753089 TTAGGGACGT
* * ** * * *
7753099 AAGATTCTCCTTTGCAGCTTCAATCTAGCCCTTTACAACTTTAAGGTATAAGGTTCGTCGTTGCG
1 AAGATTCGCCGTTGCAGCTTCAATCTTTCCCATTACATCTCTAAGGTATAAGGTTCGTCGTTGCG
7753164 GCTTCAACCTTTCCCTCCATATCTCCATGGTAC
66 GCTTCAACCTTTCCCTCCATATCTCCATGGTAC
* * ** * ** * *
7753197 AAGATTCGCTGTTGCAGCTTCAATCTTTCCCAATATTTTTCTAAGGTATAAGGTTCACCCTTGTG
1 AAGATTCGCCGTTGCAGCTTCAATCTTTCCCATTACATCTCTAAGGTATAAGGTTCGTCGTTGCG
*
7753262 GCTTCAACCTTTTCCTCCATATCTCCATGGTAC
66 GCTTCAACCTTTCCCTCCATATCTCCATGGTAC
* * * * *
7753295 TAGATTCAG-CGTT-AAGGCTTCAATCTTTCTCATCACATCTCTAAGGTATAAGGTTCGTCATTG
1 AAGATTC-GCCGTTGCA-GCTTCAATCTTTCCCATTACATCTCTAAGGTATAAGGTTCGTCGTTG
* * * * *
7753358 CGGCTTCAACCTTTCCCTTCGTATCTCTAGGGTAT
64 CGGCTTCAACCTTTCCCTCCATATCTCCATGGTAC
* *** * * * *
7753393 TAGATTTTTCGTTGCGGCTTTAATCTTTCCCTTTACATCTCTAAGGTATAAGGTTTGTCGTTGCG
1 AAGATTCGCCGTTGCAGCTTCAATCTTTCCCATTACATCTCTAAGGTATAAGGTTCGTCGTTGCG
* *
7753458 GCTTCAACCTTTCCCTTC--ATCTTCATGGTAC
66 GCTTCAACCTTTCCCTCCATATCTCCATGGTAC
* ** * * ** * *
7753489 AAGATTCACCGTTGTGGCTTTAATCTTTCTCATTATTTTTCTAAGGTATAAGGTTCGCCGTTG-G
1 AAGATTCGCCGTTGCAGCTTCAATCTTTCCCATTACATCTCTAAGGTATAAGGTTCGTCGTTGCG
* *
7753553 AGCTTCAACCTTTCCCCCCATATCTCCTTGGTAC
66 -GCTTCAACCTTTCCCTCCATATCTCCATGGTAC
* * * * * * * *
7753587 AATATTTC-CCATTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTTGTTGTTGC
1 AAGA-TTCGCCGTTGCAGCTTCAATCTTTCCCATTACATCTCTAAGGTATAAGGTTCGTCGTTGC
* * * *
7753651 GACTTCAACCTTTCCCTCCA-ATTCTCTAGGGTAT
65 GGCTTCAACCTTTCCCTCCATA-TCTCCATGGTAC
* *
7753685 AAGATTTGCCGTTGCAGCTTCAATTTTTCC
1 AAGATTCGCCGTTGCAGCTTCAATCTTTCC
7753715 TTAAAACCTG
Statistics
Matches: 417, Mismatches: 90, Indels: 22
0.79 0.17 0.04
Matches are distributed among these distances:
95 1 0.00
96 76 0.18
97 4 0.01
98 331 0.79
99 5 0.01
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (98 bp):
AAGATTCGCCGTTGCAGCTTCAATCTTTCCCATTACATCTCTAAGGTATAAGGTTCGTCGTTGCG
GCTTCAACCTTTCCCTCCATATCTCCATGGTAC
Found at i:7753659 original size:292 final size:293
Alignment explanation
Indices: 7753110--7753714 Score: 786
Period size: 292 Copynumber: 2.1 Consensus size: 293
7753100 AGATTCTCCT
** *
7753110 TTGCAGCTTCAATCTAGCCCTTTACAACTTTAAGGTATAAGGTTCGTCGTTGCGGCTTCAACCTT
1 TTGCAGCTTCAATCTTTCCCTTTACAACTCTAAGGTATAAGGTTCGTCGTTGCGGCTTCAACCTT
* *
7753175 TCCCTCCATATCTCCATGGTACAAGATTCGCTGTTGCAGCTTCAATCTTTCCCAATATTTTTCTA
66 TCCCTCCA-ATCTCCATGGTACAAGATTCACCGTTGCAGCTTCAATCTTTCCCAATATTTTTCTA
* * * *
7753240 AGGTATAAGGTTCACCCTTGTGGCTTCAACCTTTTCCTCCATATCTCCATGGTACTAGATTCAGC
130 AGGTATAAGGTTCACCCTTGTGGCTTCAACCTTTCCCCCCATATCTCCATGGTACAAGATTCACC
* * * *
7753305 GTTAAGGCTTCAATCTTTCTCATCACATCTCTAAGGTATAAGGTTCGTCATTGCGGCTTCAACCT
195 ATTAAGGCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTCGTCATTGCGACTTCAACCT
* * * **
7753370 TTCCCTTC-GTATCTCTAGGGTATTAGATTTTTCG
260 TTCCCTCCAAT-TCTCTAGGGTATAAGATTTGCCG
* * * *
7753404 TTGCGGCTTTAATCTTTCCCTTTACATCTCTAAGGTATAAGGTTTGTCGTTGCGGCTTCAACCTT
1 TTGCAGCTTCAATCTTTCCCTTTACAACTCTAAGGTATAAGGTTCGTCGTTGCGGCTTCAACCTT
* * ** * * *
7753469 TCCCTTC-ATCTTCATGGTACAAGATTCACCGTTGTGGCTTTAATCTTTCTCATTATTTTTCTAA
66 TCCCTCCAATCTCCATGGTACAAGATTCACCGTTGCAGCTTCAATCTTTCCCAATATTTTTCTAA
* * * *
7753533 GGTATAAGGTTCGCCGTTG-GAGCTTCAACCTTTCCCCCCATATCTCCTTGGTACAATATTTC-C
131 GGTATAAGGTTCACCCTTGTG-GCTTCAACCTTTCCCCCCATATCTCCATGGTACAAGA-TTCAC
** * * **
7753596 CATTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTTGTTGTTGCGACTTCAACC
194 CATTAAGGCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTCGTCATTGCGACTTCAACC
7753661 TTTCCCTCCAATTCTCTAGGGTATAAGATTTGCCG
259 TTTCCCTCCAATTCTCTAGGGTATAAGATTTGCCG
*
7753696 TTGCAGCTTCAATTTTTCC
1 TTGCAGCTTCAATCTTTCC
7753715 TTAAAACCTG
Statistics
Matches: 266, Mismatches: 42, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
291 1 0.00
292 197 0.74
293 4 0.02
294 64 0.24
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (293 bp):
TTGCAGCTTCAATCTTTCCCTTTACAACTCTAAGGTATAAGGTTCGTCGTTGCGGCTTCAACCTT
TCCCTCCAATCTCCATGGTACAAGATTCACCGTTGCAGCTTCAATCTTTCCCAATATTTTTCTAA
GGTATAAGGTTCACCCTTGTGGCTTCAACCTTTCCCCCCATATCTCCATGGTACAAGATTCACCA
TTAAGGCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTCGTCATTGCGACTTCAACCTT
TCCCTCCAATTCTCTAGGGTATAAGATTTGCCG
Found at i:7755543 original size:15 final size:16
Alignment explanation
Indices: 7755520--7755559 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
7755510 TTCATCTTGA
7755520 CTTTT-TTTTCTTCCT
1 CTTTTCTTTTCTTCCT
*
7755535 -TTTTCTTTTCTTCTT
1 CTTTTCTTTTCTTCCT
7755550 CTTTTCTTTT
1 CTTTTCTTTT
7755560 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 9 0.41
16 9 0.41
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (16 bp):
CTTTTCTTTTCTTCCT
Found at i:7755543 original size:18 final size:16
Alignment explanation
Indices: 7755522--7755562 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
7755512 CATCTTGACT
7755522 TTTTTTTCTTCCTTTTTC
1 TTTTTTTCTT-C-TTTTC
*
7755540 TTTTCTTCTTCTTTTC
1 TTTTTTTCTTCTTTTC
7755556 TTTTTTT
1 TTTTTTT
7755563 TTAAAAATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 11 0.52
17 1 0.05
18 9 0.43
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTTCTTCTTTTC
Found at i:7759896 original size:30 final size:29
Alignment explanation
Indices: 7759859--7759994 Score: 123
Period size: 30 Copynumber: 4.6 Consensus size: 29
7759849 AGGAAAAAGA
*
7759859 GGTCAAAATCAAAATTTTAGAAAGTTTAGG
1 GGTCAAAATCAAATTTTTAGAAAGTTT-GG
* ** *
7759889 GGACAAAATGTAATTTTTA-AAA-TATTTG
1 GGTCAAAATCAAATTTTTAGAAAGT-TTGG
* *
7759917 GGTCAAAATTAAATTTTTGGAAAGTTTGAG
1 GGTCAAAATCAAATTTTTAGAAAGTTTG-G
* **
7759947 GGTCAAAATCAAATTTTTGGAAAGTTCAAG
1 GGTCAAAATCAAATTTTTAGAAAGTT-TGG
*
7759977 GGTCAAATTCAAATTTTT
1 GGTCAAAATCAAATTTTT
7759995 GGATAAAATA
Statistics
Matches: 87, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
28 17 0.20
29 10 0.11
30 60 0.69
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (29 bp):
GGTCAAAATCAAATTTTTAGAAAGTTTGG
Found at i:7760007 original size:29 final size:29
Alignment explanation
Indices: 7759916--7760009 Score: 89
Period size: 30 Copynumber: 3.1 Consensus size: 29
7759906 TAAAATATTT
* ** *
7759916 GGGTCAAAATTAAATTTTTGGAAAGTTTGA
1 GGGTCAAAATCAAATTTTTGGAAA-AATAA
**
7759946 GGGTCAAAATCAAATTTTTGGAAAGTTCAA
1 GGGTCAAAATCAAATTTTTGGAAAAAT-AA
* *
7759976 GGGTCAAATTCAAATTTTTGGATAAAATAG
1 GGGTCAAAATCAAATTTTTGGA-AAAATAA
7760006 GGGT
1 GGGT
7760010 TTCGTGGGTA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 2 0.04
30 50 0.91
31 3 0.05
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.33
Consensus pattern (29 bp):
GGGTCAAAATCAAATTTTTGGAAAAATAA
Found at i:7761322 original size:3 final size:3
Alignment explanation
Indices: 7761316--7761345 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7761306 AATAATAATA
7761316 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
7761346 TCAATGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:7761383 original size:55 final size:51
Alignment explanation
Indices: 7761325--7761423 Score: 155
Period size: 50 Copynumber: 1.9 Consensus size: 51
7761315 AATGATGATG
* *
7761325 ATGATGATGATGATGATGATGTCAATGATAATAAAATAAAATATTATAACT-T
1 ATGATGATGATGATGA-CATCTCAATGATAAT-AAATAAAATATTATAACTAT
7761377 ATGATGATGATGATGACATCTCAATGATAATAAATAAAATATTATAA
1 ATGATGATGATGATGACATCTCAATGATAATAAATAAAATATTATAA
7761424 TTTATTCATA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 16 0.36
51 13 0.29
52 16 0.36
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.33
Consensus pattern (51 bp):
ATGATGATGATGATGACATCTCAATGATAATAAATAAAATATTATAACTAT
Found at i:7764733 original size:16 final size:16
Alignment explanation
Indices: 7764708--7764748 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
7764698 GAGTTAATAT
7764708 TTATTATTTAAAAAAA
1 TTATTATTTAAAAAAA
* *
7764724 TTATTGTTTAATAAAA
1 TTATTATTTAAAAAAA
*
7764740 TTAATATTT
1 TTATTATTT
7764749 TTAATGTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TTATTATTTAAAAAAA
Found at i:7768583 original size:61 final size:60
Alignment explanation
Indices: 7768507--7768625 Score: 152
Period size: 64 Copynumber: 1.9 Consensus size: 60
7768497 TTTTTATTAA
* *
7768507 ATTTTAATAGGAC-T-ATTAAATGTAATTTAATAAAAATAATAATAATAAATAATTTAATCTT
1 ATTTTAATAGAACATCATTAAATATAATTTAATAAAAATAATAAT-AT--ATAATTTAATCTT
* *
7768568 ATTTTAATATAACTATCATTAAATATAATTTAATAAAAATAATGATATATAATTTAAT
1 ATTTTAATAGAAC-ATCATTAAATATAATTTAATAAAAATAATAATATATAATTTAAT
7768626 AATATTCTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
61 21 0.41
63 3 0.06
64 27 0.53
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (60 bp):
ATTTTAATAGAACATCATTAAATATAATTTAATAAAAATAATAATATATAATTTAATCTT
Found at i:7768599 original size:64 final size:62
Alignment explanation
Indices: 7768520--7768669 Score: 171
Period size: 64 Copynumber: 2.4 Consensus size: 62
7768510 TTAATAGGAC
* ** *
7768520 TATTAAATGTAATTTAATAAAAATAATAATAATAAATAATTTAATCTTATT-TTAATATAACT-A
1 TATTAAATATAATTTAATAAAAATAATAAT-AT--ATAATTTAATAATATTCTTAAGATAACTAA
* *
7768583 TCATTAAATATAATTTAATAAAAATAATGATATATAATTTAATAATATTCTTAAGATAAGTAA
1 T-ATTAAATATAATTTAATAAAAATAATAATATATAATTTAATAATATTCTTAAGATAACTAA
7768646 TATTAAAATATGAA-TTAATAAAAA
1 TATT-AAATAT-AATTTAATAAAAA
7768670 GTATAACATA
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
61 14 0.18
62 12 0.16
63 21 0.28
64 29 0.38
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (62 bp):
TATTAAATATAATTTAATAAAAATAATAATATATAATTTAATAATATTCTTAAGATAACTAA
Found at i:7769914 original size:27 final size:27
Alignment explanation
Indices: 7769862--7769922 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
7769852 AATAATAAAC
*
7769862 AAATAAATAAAATTGACATAAAAAAAT
1 AAATAAATAAAATTGAAATAAAAAAAT
**
7769889 AAATAAATGAAAATT-AAATACCAAAAT
1 AAATAAAT-AAAATTGAAATAAAAAAAT
*
7769916 AGATAAA
1 AAATAAA
7769923 ATAATACAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 23 0.79
28 6 0.21
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (27 bp):
AAATAAATAAAATTGAAATAAAAAAAT
Found at i:7769932 original size:19 final size:18
Alignment explanation
Indices: 7769904--7769945 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
7769894 AATGAAAATT
7769904 AAATACCAAAATAGATAAA
1 AAATACCAAAATA-ATAAA
7769923 ATAATA-CAAAATAATAAA
1 A-AATACCAAAATAATAAA
7769941 AAATA
1 AAATA
7769946 AACGAGACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.18
18 6 0.27
19 8 0.36
20 4 0.18
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.19
Consensus pattern (18 bp):
AAATACCAAAATAATAAA
Found at i:7771954 original size:50 final size:50
Alignment explanation
Indices: 7771900--7772074 Score: 226
Period size: 50 Copynumber: 3.5 Consensus size: 50
7771890 GTTCAAAGAG
7771900 ATAAGATTTGTTGTTGTAGCTTCACTCCATTCCACTGCAACTTCAGGGAT
1 ATAAGATTTGTTGTTGTAGCTTCACTCCATTCCACTGCAACTTCAGGGAT
*
7771950 ATAAGATTTGTTGTTGTAGCTTCACTCCATTCCACTGCAACTTCAGGGAG
1 ATAAGATTTGTTGTTGTAGCTTCACTCCATTCCACTGCAACTTCAGGGAT
* * * * * * * *
7772000 ATTAAGATTCGTTATCGTAGTTTTAATCCGA-TCCACTGCAACTTTAAGGAT
1 A-TAAGATTTGTTGTTGTAGCTTCACTCC-ATTCCACTGCAACTTCAGGGAT
* *
7772051 ATAGGATTTGATGTTGTAGCTTCA
1 ATAAGATTTGTTGTTGTAGCTTCA
7772075 TCTTGCTCCA
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
50 66 0.62
51 39 0.37
52 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (50 bp):
ATAAGATTTGTTGTTGTAGCTTCACTCCATTCCACTGCAACTTCAGGGAT
Found at i:7772041 original size:101 final size:100
Alignment explanation
Indices: 7771930--7772367 Score: 408
Period size: 101 Copynumber: 4.3 Consensus size: 100
7771920 TTCACTCCAT
* *
7771930 TCCACTGCAACTTCAGGGATATAAGATTTGTTGTTGTAGCTTCACTCCAT-TCCACTGCAACTTC
1 TCCACTGCAACTTCAGGGATATAAGATTTGATGTTGTAGCTTCA-T-CATCTCCACTGTAACTTC
* * *
7771994 AGGGAGATTAAGATTCGTTA-TCGTAGTTTTAATCCGA
64 AGGGAGATAAAGATTTGCTACT-GTAGTTTTAATCCGA
* * * * **
7772031 TCCACTGCAACTTTAAGGATATAGGATTTGATGTTGTAGCTTCATCTTGCTCCACAATAACTTCA
1 TCCACTGCAACTTCAGGGATATAAGATTTGATGTTGTAGCTTCATCAT-CTCCACTGTAACTTCA
* * *
7772096 AGGAGATAAAGATTTGCTACTGAAATTTTTAATCCGA
65 GGGAGATAAAGATTTGCTACTG-TAGTTTTAATCCGA
* * * * *
7772133 TCCACTGCAACTTCAGTGATATAGGATTTGATGATT-TTGACTTCATCTTGCT-CACTGTAATTT
1 TCCACTGCAACTTCAGGGATATAAGATTTGATG-TTGTAG-CTTCATCAT-CTCCACTGTAACTT
* * * * *
7772196 CAGGGAAAT-AGGATTTGCTATTGTAATTTTGATCC-A
63 CAGGGAGATAAAGATTTGCTACTGTAGTTTTAATCCGA
* * * *
7772232 GTCCACTGCAACTTCAAGTATATAAGACTTGGT-TTGTAGCTTCAT-ATTGCTCCACTGTAACTT
1 -TCCACTGCAACTTCAGGGATATAAGATTTGATGTTGTAGCTTCATCA-T-CTCCACTGTAACTT
** *
7772295 CAGAAAGATAAAGATTTGCTACTGTAGCTTTTAATCCAA
63 CAGGGAGATAAAGATTTGCTACTGTAG-TTTTAATCCGA
* *
7772334 TCCACTGCAAGTTCAGGGATAT-AGATTTGCTGTT
1 TCCACTGCAACTTCAGGGATATAAGATTTGATGTT
7772368 TCATTGGTCC
Statistics
Matches: 274, Mismatches: 49, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
98 12 0.04
99 21 0.08
100 57 0.21
101 109 0.40
102 61 0.22
103 14 0.05
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (100 bp):
TCCACTGCAACTTCAGGGATATAAGATTTGATGTTGTAGCTTCATCATCTCCACTGTAACTTCAG
GGAGATAAAGATTTGCTACTGTAGTTTTAATCCGA
Found at i:7774492 original size:28 final size:28
Alignment explanation
Indices: 7774445--7774505 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
7774435 CCTTTCTTCT
*
7774445 TCCTCGATGTTACAATAATGGGTTAGAG
1 TCCTCGATGTTACAACAATGGGTTAGAG
* *
7774473 TCCTTGATGTTATAACAATGGGTTAGAG
1 TCCTCGATGTTACAACAATGGGTTAGAG
7774501 -CCTCG
1 TCCTCG
7774506 TAGAAGCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (28 bp):
TCCTCGATGTTACAACAATGGGTTAGAG
Found at i:7778068 original size:70 final size:70
Alignment explanation
Indices: 7777994--7778124 Score: 201
Period size: 70 Copynumber: 1.9 Consensus size: 70
7777984 CAAATTAATT
* **
7777994 TAAGAATGATTGATTGTATGGTATGAGTATGAA-TAAAAAGTTTGTCAAATTGGACAAGAACGAT
1 TAAGAATGATTAATTGTATGGTATGAGTACAAACT-AAAAGTTTGTCAAATTGGACAAGAACGAT
7778058 TGAATC
65 TGAATC
* *
7778064 TAAGAATGATTAATTGTGTGGTATGAGTACAAACTAAATGTTTGTCAAATTGGACAAGAAC
1 TAAGAATGATTAATTGTATGGTATGAGTACAAACTAAAAGTTTGTCAAATTGGACAAGAAC
7778125 AAAAGAATGA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 54 0.98
71 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (70 bp):
TAAGAATGATTAATTGTATGGTATGAGTACAAACTAAAAGTTTGTCAAATTGGACAAGAACGATT
GAATC
Found at i:7783571 original size:13 final size:14
Alignment explanation
Indices: 7783553--7783583 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
7783543 GCAAACTCAC
7783553 ACTGCCTTGATTA-
1 ACTGCCTTGATTAT
7783566 ACTGCCTTGATTAT
1 ACTGCCTTGATTAT
7783580 ACTG
1 ACTG
7783584 TGTCATTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (14 bp):
ACTGCCTTGATTAT
Found at i:7783602 original size:32 final size:33
Alignment explanation
Indices: 7783561--7783622 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
7783551 ACACTGCCTT
*
7783561 GATTAACTGCCTTGAT-TATACTGTGTCATTAG
1 GATTAACTGCCTTGATCTATACTGTCTCATTAG
7783593 GATTAACTGCCTTGATCTATACTGTCTCAT
1 GATTAACTGCCTTGATCTATACTGTCTCAT
7783623 CACAAGCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.40
Consensus pattern (33 bp):
GATTAACTGCCTTGATCTATACTGTCTCATTAG
Found at i:7787686 original size:21 final size:22
Alignment explanation
Indices: 7787657--7787700 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
7787647 GACATAAAAT
7787657 AAATAACAAACA-AATAAATAA
1 AAATAACAAACATAATAAATAA
* *
7787678 AAATGACAAAGATAATAAATAA
1 AAATAACAAACATAATAAATAA
7787700 A
1 A
7787701 TGAAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.16
Consensus pattern (22 bp):
AAATAACAAACATAATAAATAA
Found at i:7790654 original size:109 final size:109
Alignment explanation
Indices: 7790463--7790683 Score: 388
Period size: 109 Copynumber: 2.0 Consensus size: 109
7790453 CCATCGGTTC
* * * *
7790463 ATTTGTAGGGAGTTGTGGAGCTATTGTAACGTCCTCGATGTTGTTATTAGCAGGATTGACGATTG
1 ATTTGCAGGGAGTTGTGGAGCTATTGTAACATCCTCGATGTTGTTATTAGCAGGATTAACAATTG
7790528 GATCTTCCAGCTCTTCTCATTCCTCAAGTGGTGGTGGGTTTTGT
66 GATCTTCCAGCTCTTCTCATTCCTCAAGTGGTGGTGGGTTTTGT
*
7790572 ATTTGCAGGGAGTTGTGGAGCTATTGTAACATCCTCGATGTTGTTATTAGCAGGATTAATAATTG
1 ATTTGCAGGGAGTTGTGGAGCTATTGTAACATCCTCGATGTTGTTATTAGCAGGATTAACAATTG
*
7790637 GATCTTCCGGCTCTTCTCATTCCTCAAGTGGTGGTGGGTTTTGT
66 GATCTTCCAGCTCTTCTCATTCCTCAAGTGGTGGTGGGTTTTGT
7790681 ATT
1 ATT
7790684 GACTTTCGAT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
109 106 1.00
ACGTcount: A:0.19, C:0.15, G:0.27, T:0.39
Consensus pattern (109 bp):
ATTTGCAGGGAGTTGTGGAGCTATTGTAACATCCTCGATGTTGTTATTAGCAGGATTAACAATTG
GATCTTCCAGCTCTTCTCATTCCTCAAGTGGTGGTGGGTTTTGT
Found at i:7797570 original size:41 final size:41
Alignment explanation
Indices: 7797526--7797605 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
7797516 TATATTCTTA
7797526 AAAAAATAA-AAAAAAATTAATATATATATAGTAATTTAAT
1 AAAAAATAATAAAAAAATTAATATATATATAGTAATTTAAT
* *
7797566 AAAAATTAATAAAAAAATTAATATATGTATAGTAATTTAA
1 AAAAAATAATAAAAAAATTAATATATATATAGTAATTTAA
7797606 CATAATAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
40 8 0.22
41 29 0.78
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (41 bp):
AAAAAATAATAAAAAAATTAATATATATATAGTAATTTAAT
Found at i:7802800 original size:4 final size:4
Alignment explanation
Indices: 7802786--7802836 Score: 50
Period size: 4 Copynumber: 13.0 Consensus size: 4
7802776 AGGAGTAGGA
* ** * *
7802786 TTAT GTAT TTAT TTAT TTAT TTAT TT-T TTAT GAAT TTAT TTTT TTCT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
7802833 TTAT
1 TTAT
7802837 CTAAGTTTCT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
3 3 0.08
4 34 0.92
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:7804982 original size:25 final size:25
Alignment explanation
Indices: 7804954--7805002 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
7804944 CCTCTTGTAG
* *
7804954 TTTAGGTTTTAGTTATTTTCATTTC
1 TTTAAGTTATAGTTATTTTCATTTC
7804979 TTTAAGTTATAGTTATTTTCATTT
1 TTTAAGTTATAGTTATTTTCATTT
7805003 TGTTTTTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.06, G:0.10, T:0.63
Consensus pattern (25 bp):
TTTAAGTTATAGTTATTTTCATTTC
Found at i:7813904 original size:18 final size:17
Alignment explanation
Indices: 7813858--7813906 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
7813848 ATTTACAGGT
7813858 ATAGATAATAAGAAAACA
1 ATAGATAATAA-AAAACA
* *
7813876 ATATATAAATAAAATACA
1 ATAGAT-AATAAAAAACA
7813894 ATAAGATAATAAA
1 AT-AGATAATAAA
7813907 TTAAGTAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.22
Consensus pattern (17 bp):
ATAGATAATAAAAAACA
Found at i:7814131 original size:29 final size:30
Alignment explanation
Indices: 7814089--7814166 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
7814079 ATTAAAACCG
* *
7814089 GGTCAAATTTGAATTTTTGGAAAGTTT-AA
1 GGTCAAATTGGAATTTTTGGAAAATTTGAA
* * *
7814118 GGTCAAATTGGAATTTATAGAAAATTTGAG
1 GGTCAAATTGGAATTTTTGGAAAATTTGAA
* *
7814148 GGTTAAATTGGAAATTTTG
1 GGTCAAATTGGAATTTTTG
7814167 AGGGTTAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 23 0.59
30 16 0.41
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (30 bp):
GGTCAAATTGGAATTTTTGGAAAATTTGAA
Found at i:7814161 original size:21 final size:21
Alignment explanation
Indices: 7814137--7814187 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
7814127 GGAATTTATA
*
7814137 GAAAATTTGAGGGTTAAATTG
1 GAAATTTTGAGGGTTAAATTG
7814158 GAAATTTTGAGGGTTAAATTG
1 GAAATTTTGAGGGTTAAATTG
7814179 GAAATTTTG
1 GAAATTTTG
7814188 GAAAGTTTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.27, T:0.37
Consensus pattern (21 bp):
GAAATTTTGAGGGTTAAATTG
Found at i:7814205 original size:29 final size:30
Alignment explanation
Indices: 7814155--7814264 Score: 118
Period size: 30 Copynumber: 3.7 Consensus size: 30
7814145 GAGGGTTAAA
* * *
7814155 TTGGAAATTTTGAGGGTTAAATTGGAAA-TT
1 TTGGAAAGTTTGAGGGTCAAATT-CAAATTT
7814185 TTGGAAAGTTTG-GGGTCAAATTCAAATTT
1 TTGGAAAGTTTGAGGGTCAAATTCAAATTT
* *
7814214 TTAGAAAGTTTGAGGGTCAAACTCAAATTT
1 TTGGAAAGTTTGAGGGTCAAATTCAAATTT
**
7814244 TTTAAAAGTTT-AGGGGTCAAA
1 TTGGAAAGTTTGA-GGGTCAAA
7814265 ACATAATTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
28 3 0.04
29 23 0.33
30 44 0.63
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (30 bp):
TTGGAAAGTTTGAGGGTCAAATTCAAATTT
Found at i:7814275 original size:29 final size:28
Alignment explanation
Indices: 7814180--7814278 Score: 110
Period size: 30 Copynumber: 3.4 Consensus size: 28
7814170 GTTAAATTGG
** *
7814180 AAATTTTGGAAAGTTTGGGGTCAAATTC
1 AAATTTTTAAAAGTTTGGGGTCAAACTC
7814208 AAATTTTTAGAAAGTTTGAGGGTCAAACTC
1 AAATTTTTA-AAAGTTTG-GGGTCAAACTC
*
7814238 AAATTTTTTAAAAGTTTAGGGGTCAAA-AC
1 AAA-TTTTTAAAAGTTT-GGGGTCAAACTC
7814267 ATAATTTTTAAA
1 A-AATTTTTAAA
7814279 TAAAGTAAGG
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
28 7 0.11
29 18 0.29
30 30 0.48
31 7 0.11
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.36
Consensus pattern (28 bp):
AAATTTTTAAAAGTTTGGGGTCAAACTC
Found at i:7821057 original size:30 final size:30
Alignment explanation
Indices: 7821014--7821162 Score: 169
Period size: 30 Copynumber: 5.0 Consensus size: 30
7821004 ATTTTATCCT
*
7821014 CTGAACTTT-CAAAAATTCAAATTTGACCC
1 CTGAATTTTCCAAAAATTCAAATTTGACCC
7821043 CT-AATTTTTCCAAAAATTCAAATTTGACCC
1 CTGAA-TTTTCCAAAAATTCAAATTTGACCC
* * * *
7821073 CTAAATTTTCCAAAAATT-ATGATTTGATCG
1 CTGAATTTTCCAAAAATTCA-AATTTGACCC
* ***
7821103 TTGAATTTTCCAAAAATTTTGATTTGACCC
1 CTGAATTTTCCAAAAATTCAAATTTGACCC
*
7821133 CTGAAGTTTCCAAAAATTCAAATTTGACCC
1 CTGAATTTTCCAAAAATTCAAATTTGACCC
7821163 AATTTTAATG
Statistics
Matches: 101, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
28 2 0.02
29 6 0.06
30 91 0.90
31 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (30 bp):
CTGAATTTTCCAAAAATTCAAATTTGACCC
Found at i:7821069 original size:90 final size:90
Alignment explanation
Indices: 7820975--7821162 Score: 229
Period size: 90 Copynumber: 2.1 Consensus size: 90
7820965 TAAAATTATT
*
7820975 TTTGACCCCCAAACTATCAAAAAAATTAT-ATTTTATCCTCTGAACTTT-CAAAAATTCAAATTT
1 TTTGACCCCCAAACTATC-AAAAAATTATGATTTGATCCT-TGAACTTTCCAAAAATTCAAATTT
*
7821038 GACCCCT-AATTTTTCCAAAAATTCAAA
64 GACCCCTGAA-GTTTCCAAAAATTCAAA
* * * * * * ***
7821065 TTTGACCCCTAAATTTTCCAAAAATTATGATTTGATCGTTGAATTTTCCAAAAATTTTGATTTGA
1 TTTGACCCCCAAACTATCAAAAAATTATGATTTGATCCTTGAACTTTCCAAAAATTCAAATTTGA
7821130 CCCCTGAAGTTTCCAAAAATTCAAA
66 CCCCTGAAGTTTCCAAAAATTCAAA
7821155 TTTGACCC
1 TTTGACCC
7821163 AATTTTAATG
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
89 16 0.19
90 66 0.79
91 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (90 bp):
TTTGACCCCCAAACTATCAAAAAATTATGATTTGATCCTTGAACTTTCCAAAAATTCAAATTTGA
CCCCTGAAGTTTCCAAAAATTCAAA
Found at i:7832730 original size:49 final size:50
Alignment explanation
Indices: 7832675--7832776 Score: 134
Period size: 49 Copynumber: 2.1 Consensus size: 50
7832665 ATAGAAACAA
*
7832675 ATTGAAGACGCAATGACAAATCTCATACACCTAAAGCTGTAGA-GGGCAG
1 ATTGAAGACGCAAAGACAAATCTCATACACCTAAAGCTGTAGAGGGGCAG
** * * * *
7832724 ATTGAAGTTGCAAAGGCGAATCTCATTCTCCTAAAGCTGTAGAGGGGCAG
1 ATTGAAGACGCAAAGACAAATCTCATACACCTAAAGCTGTAGAGGGGCAG
7832774 ATT
1 ATT
7832777 AAGGTCTCAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 36 0.80
50 9 0.20
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (50 bp):
ATTGAAGACGCAAAGACAAATCTCATACACCTAAAGCTGTAGAGGGGCAG
Found at i:7832811 original size:50 final size:50
Alignment explanation
Indices: 7832689--7832803 Score: 139
Period size: 49 Copynumber: 2.3 Consensus size: 50
7832679 AAGACGCAAT
*
7832689 GACAAATCTCATACACCTAAAGCTGTAGAGGGCAGATTGAAGTTGCAAAG
1 GACAAATCTCATACTCCTAAAGCTGTAGAGGGCAGATTGAAGTTGCAAAG
* *
7832739 G-CGAATCTCATTCTCCTAAAGCTGTAGAGGGGCAGATT-AAGGTCT-C-AAG
1 GACAAATCTCATACTCCTAAAGCTGTAGA-GGGCAGATTGAA-GT-TGCAAAG
*
7832788 GACAAATCTTATACTC
1 GACAAATCTCATACTC
7832804 TTGAAGCTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
49 30 0.55
50 24 0.44
51 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (50 bp):
GACAAATCTCATACTCCTAAAGCTGTAGAGGGCAGATTGAAGTTGCAAAG
Found at i:7832900 original size:39 final size:39
Alignment explanation
Indices: 7832857--7833045 Score: 152
Period size: 40 Copynumber: 4.8 Consensus size: 39
7832847 CCCGACCATG
7832857 GGGCAGATTGAAGCAATCTAATCTTTTACCCTAACCAGA
1 GGGCAGATTGAAGCAATCTAATCTTTTACCCTAACCAGA
* * * *
7832896 GGGCAAATTGAAG-ATCATCTGATCTCTTACCCTGACCATG-
1 GGGCAGATTGAAGCA--ATCTAATCTTTTACCCTAACCA-GA
* *
7832936 GGGCAGATTGAAGCAAT-TCAGTCTTTTACCCTATCCAGA
1 GGGCAGATTGAAGCAATCT-AATCTTTTACCCTAACCAGA
* * * * ** **
7832975 AGGTAGATTGAAGACCATC-AGATCTCTTACCCCGACCATT
1 GGGCAGATTGAAG-CAATCTA-ATCTTTTACCCTAACCAGA
**
7833015 GGGCAGATTGAAATAATCTAATCTTTTACCC
1 GGGCAGATTGAAGCAATCTAATCTTTTACCC
7833046 CTAAAGCTAT
Statistics
Matches: 114, Mismatches: 26, Indels: 20
0.71 0.16 0.12
Matches are distributed among these distances:
38 3 0.03
39 52 0.46
40 57 0.50
41 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (39 bp):
GGGCAGATTGAAGCAATCTAATCTTTTACCCTAACCAGA
Found at i:7832940 original size:40 final size:39
Alignment explanation
Indices: 7832844--7833045 Score: 155
Period size: 39 Copynumber: 5.1 Consensus size: 39
7832834 CCGAATCTTC
* *
7832844 TACCCCGACCATGGGGCAGATTGAAGCAATCTAATCTTT
1 TACCCTGACCATGGGGCAGATTGAAGCAATCTAATCTCT
* * *
7832883 TACCCTAACCA-GAGGGCAAATTGAAG-ATCATCTGATCTCT
1 TACCCTGACCATG-GGGCAGATTGAAGCA--ATCTAATCTCT
* *
7832923 TACCCTGACCATGGGGCAGATTGAAGCAAT-TCAGTCTTT
1 TACCCTGACCATGGGGCAGATTGAAGCAATCT-AATCTCT
* * *
7832962 TACCCT-ATCCA-GAAGGTAGATTGAAGACCATC-AGATCTCT
1 TACCCTGA-CCATG-GGGCAGATTGAAG-CAATCTA-ATCTCT
* * ** *
7833002 TACCCCGACCATTGGGCAGATTGAAATAATCTAATCTTT
1 TACCCTGACCATGGGGCAGATTGAAGCAATCTAATCTCT
7833041 TACCC
1 TACCC
7833046 CTAAAGCTAT
Statistics
Matches: 126, Mismatches: 23, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
38 5 0.04
39 61 0.48
40 57 0.45
41 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (39 bp):
TACCCTGACCATGGGGCAGATTGAAGCAATCTAATCTCT
Found at i:7832940 original size:79 final size:79
Alignment explanation
Indices: 7832844--7833045 Score: 289
Period size: 79 Copynumber: 2.6 Consensus size: 79
7832834 CCGAATCTTC
*
7832844 TACCCCGACCATGGGGCAGATTGAAGCAATCTAATCTTTTACCCTAACCAGAGGGCAAATTGAAG
1 TACCCCGACCATGGGGCAGATTGAAGCAATCTAATCTTTTACCCTAACCAGAAGGCAAATTGAAG
* *
7832909 ATCATCTGATCTCT
66 ACCATCAGATCTCT
* * * * *
7832923 TACCCTGACCATGGGGCAGATTGAAGCAAT-TCAGTCTTTTACCCTATCCAGAAGGTAGATTGAA
1 TACCCCGACCATGGGGCAGATTGAAGCAATCT-AATCTTTTACCCTAACCAGAAGGCAAATTGAA
7832987 GACCATCAGATCTCT
65 GACCATCAGATCTCT
* **
7833002 TACCCCGACCATTGGGCAGATTGAAATAATCTAATCTTTTACCC
1 TACCCCGACCATGGGGCAGATTGAAGCAATCTAATCTTTTACCC
7833046 CTAAAGCTAT
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
78 1 0.01
79 106 0.98
80 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (79 bp):
TACCCCGACCATGGGGCAGATTGAAGCAATCTAATCTTTTACCCTAACCAGAAGGCAAATTGAAG
ACCATCAGATCTCT
Found at i:7834621 original size:30 final size:27
Alignment explanation
Indices: 7834548--7834625 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 27
7834538 TTGACCCTTA
7834548 AACTTTCTAAAAATTCAAATTTAACTCC
1 AACTTT-TAAAAATTCAAATTTAACTCC
* *
7834576 AAATTTTCCAAAAATTCAAATTTAACCCTCG
1 AACTTTT--AAAAATTCAAATTTAA--CTCC
7834607 AACTTTTAAAAAATTCAAA
1 AACTTTT-AAAAATTCAAA
7834626 ATTGATCCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
27 1 0.02
28 5 0.12
29 16 0.38
30 11 0.26
31 9 0.21
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.33
Consensus pattern (27 bp):
AACTTTTAAAAATTCAAATTTAACTCC
Found at i:7834649 original size:30 final size:30
Alignment explanation
Indices: 7834537--7834721 Score: 160
Period size: 30 Copynumber: 6.2 Consensus size: 30
7834527 AATATTATGT
* * *
7834537 TTTGACCCTTAAACTTTCTAAAAATTCAAA
1 TTTGACCCCTAAATTTTCCAAAAATTCAAA
* *
7834567 TTTAACTCC-AAATTTTCCAAAAATTCAAA
1 TTTGACCCCTAAATTTTCCAAAAATTCAAA
* * * *
7834596 TTTAACCCTCGAACTTTT-AAAAAATTCAAA
1 TTTGACCC-CTAAATTTTCCAAAAATTCAAA
* * * *
7834626 ATTGATCCATAAATTTTCCAAAAATT-ATGA
1 TTTGACCCCTAAATTTTCCAAAAATTCA-AA
* * **
7834656 TTTGACCCTTGAATTTTCCAAAAATTCTGA
1 TTTGACCCCTAAATTTTCCAAAAATTCAAA
* *
7834686 TTTGACCCCTGAAGTTTCCAAAAATTCAAA
1 TTTGACCCCTAAATTTTCCAAAAATTCAAA
7834716 TTTGAC
1 TTTGAC
7834722 TCTATTTTAA
Statistics
Matches: 125, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
29 32 0.26
30 87 0.70
31 6 0.05
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.36
Consensus pattern (30 bp):
TTTGACCCCTAAATTTTCCAAAAATTCAAA
Found at i:7834664 original size:60 final size:58
Alignment explanation
Indices: 7834523--7834682 Score: 164
Period size: 59 Copynumber: 2.7 Consensus size: 58
7834513 CCCTAAACTA
* * * *
7834523 TCCAAATATTATGTTTTGACCCTTAAACTTTCTAAAAATTCAAATTTAACTCCAAATTT
1 TCCAAAAATTATGATTTGACCCTTGAACTTT-TAAAAATTCAAAATTAACTCCAAATTT
* * * *
7834582 TCCAAAAATTCA-AATTTAACCCTCGAACTTTTAAAAAATTCAAAATTGA-TCCATAAATTT
1 TCCAAAAATT-ATGATTTGACCCTTGAACTTTT-AAAAATTCAAAATTAACTCC--AAATTT
7834642 TCCAAAAATTATGATTTGACCCTTGAA-TTTTCCAAAAATTC
1 TCCAAAAATTATGATTTGACCCTTGAACTTTT--AAAAATTC
7834683 TGATTTGACC
Statistics
Matches: 83, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
58 4 0.05
59 42 0.51
60 37 0.45
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.37
Consensus pattern (58 bp):
TCCAAAAATTATGATTTGACCCTTGAACTTTTAAAAATTCAAAATTAACTCCAAATTT
Found at i:7834704 original size:60 final size:60
Alignment explanation
Indices: 7834507--7834711 Score: 191
Period size: 60 Copynumber: 3.4 Consensus size: 60
7834497 TACAATTGTT
* * * * * * *
7834507 TTTGACCCCTAAACTATCCAAATATTATGTTTTGACCCTTAAACTTTCTAAAAATTCAAA
1 TTTGACCCCTAAATTTTCCAAAAATTATGATTTGACCCTTGAATTTTCAAAAAATTCAAA
* * * * *
7834567 TTTAACTCC-AAATTTTCCAAAAATTCA-AATTTAACCCTCGAACTTTT-AAAAAATTCAAA
1 TTTGACCCCTAAATTTTCCAAAAATT-ATGATTTGACCCTTGAA-TTTTCAAAAAATTCAAA
* * * * **
7834626 ATTGATCCATAAATTTTCCAAAAATTATGATTTGACCCTTGAATTTTCCAAAAATTCTGA
1 TTTGACCCCTAAATTTTCCAAAAATTATGATTTGACCCTTGAATTTTCAAAAAATTCAAA
* *
7834686 TTTGACCCCTGAAGTTTCCAAAAATT
1 TTTGACCCCTAAATTTTCCAAAAATT
7834712 CAAATTTGAC
Statistics
Matches: 112, Mismatches: 28, Indels: 10
0.75 0.19 0.07
Matches are distributed among these distances:
59 43 0.38
60 69 0.62
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (60 bp):
TTTGACCCCTAAATTTTCCAAAAATTATGATTTGACCCTTGAATTTTCAAAAAATTCAAA
Found at i:7834853 original size:15 final size:15
Alignment explanation
Indices: 7834833--7834872 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
7834823 ATATGTATAT
*
7834833 TATTTTATTTTATTG
1 TATTTTATTATATTG
*
7834848 TATTTTATCATATTG
1 TATTTTATTATATTG
7834863 T-TTTTATTAT
1 TATTTTATTAT
7834873 GTATACTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (15 bp):
TATTTTATTATATTG
Found at i:7854714 original size:24 final size:24
Alignment explanation
Indices: 7854687--7854750 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
7854677 AAGCCTAATT
* * *
7854687 CTAATCAATGTTAAATATATTATG
1 CTAATAAATGCTAAATATATTATA
7854711 CTAATAAATGCTAAATATATTATA
1 CTAATAAATGCTAAATATATTATA
*
7854735 CTAATAAATACTAAAT
1 CTAATAAATGCTAAAT
7854751 CTTCTAGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (24 bp):
CTAATAAATGCTAAATATATTATA
Found at i:7860533 original size:24 final size:24
Alignment explanation
Indices: 7860506--7860574 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
7860496 TGAAAAAACC
* *
7860506 TTATTCTAATCAATG-TCAAATATA
1 TTATACTAATAAATGCT-AAATATA
*
7860530 TTATGCTAATAAATGCTAAATATA
1 TTATACTAATAAATGCTAAATATA
*
7860554 TTATACTAATAAATACTAAAT
1 TTATACTAATAAATGCTAAAT
7860575 CTTCTAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 39 0.98
25 1 0.03
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.39
Consensus pattern (24 bp):
TTATACTAATAAATGCTAAATATA
Found at i:7879646 original size:17 final size:17
Alignment explanation
Indices: 7879622--7879670 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
7879612 ATATATATGG
7879622 AAATGCAATGACAATG-A
1 AAATGCAATGACAA-GAA
*
7879639 AGATGCAATGACAAGAA
1 AAATGCAATGACAAGAA
7879656 AAATGCAATGACAAG
1 AAATGCAATGACAAG
7879671 CGAAATGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 1 0.03
17 28 0.97
ACGTcount: A:0.53, C:0.12, G:0.20, T:0.14
Consensus pattern (17 bp):
AAATGCAATGACAAGAA
Found at i:7879676 original size:17 final size:17
Alignment explanation
Indices: 7879621--7879677 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
7879611 AATATATATG
7879621 GAAATGCAATGACAATGA
1 GAAATGCAATGACAA-GA
*
7879639 -AGATGCAATGACAAGA
1 GAAATGCAATGACAAGA
* *
7879655 AAAATGCAATGACAAGC
1 GAAATGCAATGACAAGA
7879672 GAAATG
1 GAAATG
7879678 TGATGATAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
16 2 0.06
17 32 0.94
ACGTcount: A:0.51, C:0.12, G:0.23, T:0.14
Consensus pattern (17 bp):
GAAATGCAATGACAAGA
Found at i:7887235 original size:20 final size:20
Alignment explanation
Indices: 7887188--7887242 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
7887178 TAATGAGAGA
*
7887188 AAATGAGCGAAAAATAAAAG
1 AAATGAGAGAAAAATAAAAG
*
7887208 AATTTGAGAGAAGAAA-AAAAG
1 AA-ATGAGAGAA-AAATAAAAG
7887229 AAATGAGAGAAAAA
1 AAATGAGAGAAAAA
7887243 GAACTTGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 3 0.10
20 10 0.33
21 14 0.47
22 3 0.10
ACGTcount: A:0.65, C:0.02, G:0.22, T:0.11
Consensus pattern (20 bp):
AAATGAGAGAAAAATAAAAG
Found at i:7893000 original size:82 final size:82
Alignment explanation
Indices: 7892905--7893068 Score: 265
Period size: 82 Copynumber: 2.0 Consensus size: 82
7892895 TAAATTAGTG
* *
7892905 GGGTCAATGTCTAAATGGTAAGAAGTTAGATTTAGTTCATATGAGGGGTTTAAATTGTTAATATG
1 GGGTCAATGTCTAAATGGTAAGAAATTAGATTTAGTTCATACGAGGGGTTTAAATTGTTAATATG
*
7892970 CCACAAGTACCTTAGCT
66 CCACAAATACCTTAGCT
** *
7892987 GGGTCAATGTCTAAATGGTGTGAAATTAGATTTATTTCATACGAGGGGTTTAAATTGTTAATATG
1 GGGTCAATGTCTAAATGGTAAGAAATTAGATTTAGTTCATACGAGGGGTTTAAATTGTTAATATG
*
7893052 CCACAAATACTTTAGCT
66 CCACAAATACCTTAGCT
7893069 ATCACACAGT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (82 bp):
GGGTCAATGTCTAAATGGTAAGAAATTAGATTTAGTTCATACGAGGGGTTTAAATTGTTAATATG
CCACAAATACCTTAGCT
Found at i:7898303 original size:39 final size:39
Alignment explanation
Indices: 7898244--7898453 Score: 167
Period size: 40 Copynumber: 5.3 Consensus size: 39
7898234 ATGGCCATCC
* * *
7898244 AATCTTTTACCTCGATCATGGCGCAGATTGGAACAATCT
1 AATCTTTTACCCCGATCATGGGGCAGATTGAAACAATCT
* * ** *
7898283 AGTCTTTTACCCCGACCATGGGGTGGATTGACGACAATCT
1 AATCTTTTACCCCGATCATGGGGCAGATTGA-AACAATCT
** * * * *
7898323 AATCTTTTACCCTAATTA-GAGGGCAGATT-AAAGATCAGCC
1 AATCTTTTACCCCGATCATG-GGGCAGATTGAAACA--ATCT
7898363 AATCTTTTACCCCGATCATGGGGCAGATTGAAACAATCT
1 AATCTTTTACCCCGATCATGGGGCAGATTGAAACAATCT
* * * *
7898402 AGTCTTTTACCCAGA-CTATGGGGCAAATTGAAGATC-ATCC
1 AATCTTTTACCCCGATC-ATGGGGCAGATTGAA-A-CAATCT
7898442 AATCTTTTACCC
1 AATCTTTTACCC
7898454 TAATCAATGG
Statistics
Matches: 132, Mismatches: 30, Indels: 17
0.74 0.17 0.09
Matches are distributed among these distances:
38 3 0.02
39 55 0.42
40 68 0.52
41 6 0.05
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (39 bp):
AATCTTTTACCCCGATCATGGGGCAGATTGAAACAATCT
Found at i:7898367 original size:40 final size:40
Alignment explanation
Indices: 7898323--7898490 Score: 141
Period size: 40 Copynumber: 4.2 Consensus size: 40
7898313 ACGACAATCT
* *
7898323 AATCTTTTACCCTAATTA-GAGGGCAGATTAAAGATCAGCC
1 AATCTTTTACCCTAATCATG-GGGCAGATTAAAGATCATCC
** * *
7898363 AATCTTTTACCCCGATCATGGGGCAGATTGAA-A-CAATCT
1 AATCTTTTACCCTAATCATGGGGCAGATTAAAGATC-ATCC
* * *
7898402 AGTCTTTTACCC-AGA-CTATGGGGCAAATTGAAGATCATCC
1 AATCTTTTACCCTA-ATC-ATGGGGCAGATTAAAGATCATCC
* * *
7898442 AATCTTTTACCCTAATCAAT-GGGTAGATTAAAGACCATTC
1 AATCTTTTACCCTAATC-ATGGGGCAGATTAAAGATCATCC
7898482 AATCTTTTA
1 AATCTTTTA
7898491 ACCCCACCAT
Statistics
Matches: 103, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
38 2 0.02
39 29 0.28
40 66 0.64
41 6 0.06
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (40 bp):
AATCTTTTACCCTAATCATGGGGCAGATTAAAGATCATCC
Found at i:7898402 original size:79 final size:80
Alignment explanation
Indices: 7898285--7898453 Score: 218
Period size: 79 Copynumber: 2.1 Consensus size: 80
7898275 AACAATCTAG
** * *
7898285 TCTTTTACCCCGACCATGGGGTGGATTGACGACAATCTAATCTTTTACCCTA-ATTA-GAGGGCA
1 TCTTTTACCCCGACCATGGGGCAGATTGACAACAATCTAATCTTTTACCC-AGACTATG-GGGCA
*
7898348 GATTAAAGATCAGCCAA
64 AATTAAAGATCAGCCAA
* *
7898365 TCTTTTACCCCGATCATGGGGCAGATTGA-AACAATCTAGTCTTTTACCCAGACTATGGGGCAAA
1 TCTTTTACCCCGACCATGGGGCAGATTGACAACAATCTAATCTTTTACCCAGACTATGGGGCAAA
* *
7898429 TTGAAGATCATCCAA
66 TTAAAGATCAGCCAA
7898444 TCTTTTACCC
1 TCTTTTACCC
7898454 TAATCAATGG
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 50 0.64
80 27 0.35
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (80 bp):
TCTTTTACCCCGACCATGGGGCAGATTGACAACAATCTAATCTTTTACCCAGACTATGGGGCAAA
TTAAAGATCAGCCAA
Found at i:7898453 original size:119 final size:119
Alignment explanation
Indices: 7898242--7898519 Score: 337
Period size: 119 Copynumber: 2.3 Consensus size: 119
7898232 GGATGGCCAT
* * * * *
7898242 CCAATCTTTTACCTCGATCATGGCGCAGATTGGAACAATCTAGTCTTTTACCCCGACCATGGGGT
1 CCAATCTTTTACCCCGATCATGGGGCAGATTGAAACAATCTAGTCTTTTACCCAGACCATGGGGC
** * * * *
7898307 GGATTGACGACAATCTAATCTTTTACCCTAATTAGA-GGGCAGATTAAAGATCAG
66 AAATTGAAGACAATCCAATCTTTTACCCTAATCA-ATGGGCAGATTAAAGACCAG
*
7898361 CCAATCTTTTACCCCGATCATGGGGCAGATTGAAACAATCTAGTCTTTTACCCAGACTATGGGGC
1 CCAATCTTTTACCCCGATCATGGGGCAGATTGAAACAATCTAGTCTTTTACCCAGACCATGGGGC
* *
7898426 AAATTGAAGATC-ATCCAATCTTTTACCCTAATCAATGGGTAGATTAAAGACCAT
66 AAATTGAAGA-CAATCCAATCTTTTACCCTAATCAATGGGCAGATTAAAGACCAG
* * * * *
7898480 TCAATCTTTTAACCCC-ACCATGAGGCAAATTGAAGCAATC
1 CCAATCTTTT-ACCCCGATCATGGGGCAGATTGAAACAATC
7898520 CAATATTTTA
Statistics
Matches: 137, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
118 1 0.01
119 130 0.95
120 6 0.04
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (119 bp):
CCAATCTTTTACCCCGATCATGGGGCAGATTGAAACAATCTAGTCTTTTACCCAGACCATGGGGC
AAATTGAAGACAATCCAATCTTTTACCCTAATCAATGGGCAGATTAAAGACCAG
Found at i:7898521 original size:79 final size:78
Alignment explanation
Indices: 7898408--7898615 Score: 215
Period size: 79 Copynumber: 2.6 Consensus size: 78
7898398 ATCTAGTCTT
* * * **
7898408 TTACCCAGACTATGGGGCAAATTGAAG-ATCATCCAATCTTTTACCCTAATCA-ATGGGTAGATT
1 TTACCCCGACCAT-GGGCAAATTGAAGCA--ATCCAATCTTTTACCCTAACCAGA-GGACAGATT
*
7898471 AAAGACCATTCAATCTT
62 AAAGACCATTCAATCTC
* * *
7898488 TTAACCCC-ACCATGAGGCAAATTGAAGCAATCCAATATTTTATCCTAACCAGAGGACAGATTGA
1 TT-ACCCCGACCATG-GGCAAATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGACAGATTAA
*
7898552 AGACCATTCGATCTC
64 AGACCATTCAATCTC
**
7898567 TTACCCCGACCATGGAGCAGTTTGAAGCAATCCAATCTTTTACTCCTAA
1 TTACCCCGACCATGG-GCAAATTGAAGCAATCCAATCTTTTAC-CCTAA
7898616 AGCTATAAAG
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
78 6 0.06
79 72 0.67
80 24 0.22
81 5 0.05
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (78 bp):
TTACCCCGACCATGGGCAAATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGACAGATTAAAG
ACCATTCAATCTC
Found at i:7898551 original size:119 final size:119
Alignment explanation
Indices: 7898242--7898572 Score: 267
Period size: 119 Copynumber: 2.8 Consensus size: 119
7898232 GGATGGCCAT
* * * * * * * * *
7898242 CCAATCTTTTACCTCGATCATG-GCGCAGATTGGAACAATCTAGTCTTTTACCCCGACCATGGGG
1 CCAATCTTTTACCCCGACCATGAG-GCAAATTGAAACAATCCAATATTTTACCCAGACCATGGGA
*** * * * * *
7898306 TGGATTGACGACAATCTAATCTTTTACCCTAATTAGAGGGCAGATTAAAGATCAG
65 CAAATTGAAGACCATCCAATCTTTTACCCTAATCAGAGGGCAGATTAAAGACCAG
* * * * * * * *
7898361 CCAATCTTTTACCCCGATCATGGGGCAGATTGAAACAATCTAGTCTTTTACCCAGACTATGGGGC
1 CCAATCTTTTACCCCGACCATGAGGCAAATTGAAACAATCCAATATTTTACCCAGACCATGGGAC
* * *
7898426 AAATTGAAGATCATCCAATCTTTTACCCTAATCA-ATGGGTAGATTAAAGACCAT
66 AAATTGAAGACCATCCAATCTTTTACCCTAATCAGA-GGGCAGATTAAAGACCAG
* * *
7898480 TCAATCTTTTAACCCC-ACCATGAGGCAAATTGAAGCAATCCAATATTTTATCCTA-ACCA-GAG
1 CCAATCTTTT-ACCCCGACCATGAGGCAAATTGAAACAATCCAATATTTTA-CCCAGACCATG-G
* * * *
7898542 GACAGATTGAAGACCATTCGATCTCTTACCC
63 GACAAATTGAAGACCATCCAATCTTTTACCC
7898573 CGACCATGGA
Statistics
Matches: 176, Mismatches: 31, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
118 2 0.01
119 165 0.94
120 9 0.05
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (119 bp):
CCAATCTTTTACCCCGACCATGAGGCAAATTGAAACAATCCAATATTTTACCCAGACCATGGGAC
AAATTGAAGACCATCCAATCTTTTACCCTAATCAGAGGGCAGATTAAAGACCAG
Found at i:7899350 original size:63 final size:59
Alignment explanation
Indices: 7899224--7899370 Score: 199
Period size: 63 Copynumber: 2.4 Consensus size: 59
7899214 CCATTTTTCT
*
7899224 TATTT-TTTTATTTTATTTATTTA-TTATGAATATAAATAAATAAATAAATATAAAATAA
1 TATTTATTTTATTTTA-TTATTTATTTATGAATATAAAGAAATAAATAAATATAAAATAA
* * *
7899282 TATTTATTTTATTTTATTATTTATTTATTTAATATTATACGAATATAAATAAATGTAAAATAA
1 TATTTATTTTATTTTATTATTTATTTA-TGAATA-TA-AAGAA-ATAAATAAATATAAAATAA
7899345 TATTTATTTTATTTTATTATTTATTT
1 TATTTATTTTATTTTATTATTTATTT
7899371 TATTACCTTA
Statistics
Matches: 79, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
58 12 0.15
59 13 0.16
60 5 0.06
61 2 0.03
62 3 0.04
63 44 0.56
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (59 bp):
TATTTATTTTATTTTATTATTTATTTATGAATATAAAGAAATAAATAAATATAAAATAA
Found at i:7900582 original size:60 final size:59
Alignment explanation
Indices: 7900501--7900793 Score: 338
Period size: 60 Copynumber: 4.9 Consensus size: 59
7900491 TTGATCGCCG
* * * * * *
7900501 AACTTTCCAAAAATTCCAATTTTACCCTTGAACTTTCCAAAAATCCAAATTTTACCCTCA
1 AACTTTCTAAAAATTCAAATTTAACCCTTAAACTTTCCAAAAATTCAAATTTAACCC-CA
* * *
7900561 AATTTTCTAAAAATTCAAATTTAACCCTCAAGCTTTCCAAAAATTCAAATTTAATCCCCA
1 AACTTTCTAAAAATTCAAATTTAACCCTTAAACTTTCCAAAAATTCAAATTTAA-CCCCA
* **
7900621 AACTTTCTAAAAATTTAAATTTAACCCTTAAACTTTCCAAAAATTCAAATTTGTCCCCTTA
1 AACTTTCTAAAAATTCAAATTTAACCCTTAAACTTTCCAAAAATTCAAATTTAACCCC--A
* * * *
7900682 AACTTTTTGAAAATTTAAATTTAACTCC-TAAACTTTTCAAAAATTTC-AATTTAACCCCTA
1 AACTTTCTAAAAATTCAAATTTAAC-CCTTAAACTTTCCAAAAA-TTCAAATTTAACCCC-A
* * *
7900742 AACTTTCTAAAAATTCAAATTTGACCCTTAAACTATCTAAAAATTCAAATTT
1 AACTTTCTAAAAATTCAAATTTAACCCTTAAACTTTCCAAAAATTCAAATTT
7900794 GTCTCGATTT
Statistics
Matches: 199, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
59 9 0.05
60 135 0.68
61 50 0.25
62 5 0.03
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (59 bp):
AACTTTCTAAAAATTCAAATTTAACCCTTAAACTTTCCAAAAATTCAAATTTAACCCCA
Found at i:7900749 original size:121 final size:121
Alignment explanation
Indices: 7900501--7900796 Score: 386
Period size: 121 Copynumber: 2.5 Consensus size: 121
7900491 TTGATCGCCG
* * * * * *
7900501 AACTTTCCAAAAATTCCAATTTTACCCTTGAACTTTCCAAAAATCCAAATTT-TACCCTCAAATT
1 AACTTTCTAAAAATTCAAATTTAACCCTTAAACTTTCCAAAAATTCAAATTTGTCCCCTCAAATT
*
7900565 TTCTAAAAATTCAAATTTAACCCTCAAGCTTTCCAAAAATTCAAATTTAATCCCCA
66 TTCTAAAAATTCAAATTTAACCCTCAAACTTTCCAAAAATTCAAATTTAATCCCCA
* *
7900621 AACTTTCTAAAAATTTAAATTTAACCCTTAAACTTTCCAAAAATTCAAATTTGTCCCCTTAAACT
1 AACTTTCTAAAAATTCAAATTTAACCCTTAAACTTTCCAAAAATTCAAATTTGTCCCCTCAAA-T
* * *
7900686 TTT-TGAAAATTTAAATTTAACTCCT-AAACTTTTCAAAAATTTC-AATTTAA-CCCCTA
65 TTTCTAAAAATTCAAATTTAAC-CCTCAAACTTTCCAAAAA-TTCAAATTTAATCCCC-A
* * *
7900742 AACTTTCTAAAAATTCAAATTTGACCCTTAAACTATCTAAAAATTCAAATTTGTC
1 AACTTTCTAAAAATTCAAATTTAACCCTTAAACTTTCCAAAAATTCAAATTTGTC
7900797 TCGATTTTAA
Statistics
Matches: 155, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
120 50 0.32
121 95 0.61
122 10 0.06
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (121 bp):
AACTTTCTAAAAATTCAAATTTAACCCTTAAACTTTCCAAAAATTCAAATTTGTCCCCTCAAATT
TTCTAAAAATTCAAATTTAACCCTCAAACTTTCCAAAAATTCAAATTTAATCCCCA
Found at i:7900794 original size:30 final size:30
Alignment explanation
Indices: 7900501--7900793 Score: 306
Period size: 30 Copynumber: 9.7 Consensus size: 30
7900491 TTGATCGCCG
* * * *
7900501 AACTTTCCAAAAATTCCAATTTTACCCTTG
1 AACTTTCTAAAAATTCAAATTTAACCCTTA
* * * *
7900531 AACTTTCCAAAAATCCAAATTTTACCCTCA
1 AACTTTCTAAAAATTCAAATTTAACCCTTA
* *
7900561 AATTTTCTAAAAATTCAAATTTAACCCTCA
1 AACTTTCTAAAAATTCAAATTTAACCCTTA
* * *
7900591 AGCTTTCCAAAAATTCAAATTTAATCCC-CA
1 AACTTTCTAAAAATTCAAATTTAA-CCCTTA
*
7900621 AACTTTCTAAAAATTTAAATTTAACCCTTA
1 AACTTTCTAAAAATTCAAATTTAACCCTTA
* **
7900651 AACTTTCCAAAAATTCAAATTTGTCCCCTTA
1 AACTTTCTAAAAATTCAAATTT-AACCCTTA
* * *
7900682 AACTTTTTGAAAATTTAAATTTAACTCC-TA
1 AACTTTCTAAAAATTCAAATTTAAC-CCTTA
*
7900712 AACTTT-TCAAAAATTTC-AATTTAACCCCTA
1 AACTTTCT-AAAAA-TTCAAATTTAACCCTTA
*
7900742 AACTTTCTAAAAATTCAAATTTGACCCTTA
1 AACTTTCTAAAAATTCAAATTTAACCCTTA
*
7900772 AACTATCTAAAAATTCAAATTT
1 AACTTTCTAAAAATTCAAATTT
7900794 GTCTCGATTT
Statistics
Matches: 224, Mismatches: 30, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
29 9 0.04
30 183 0.82
31 32 0.14
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (30 bp):
AACTTTCTAAAAATTCAAATTTAACCCTTA
Found at i:7908327 original size:15 final size:15
Alignment explanation
Indices: 7908270--7908321 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
7908260 TTTAAGCCCA
7908270 AACCTAAACCCAA-T-
1 AACC-AAACCCAATTG
*
7908284 AACCCAAACCCAAAGTG
1 AA-CCAAACCC-AATTG
7908301 AACCAAACCCAATTG
1 AACCAAACCCAATTG
7908316 AACCAA
1 AACCAA
7908322 GTCCAAACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
14 8 0.24
15 14 0.42
16 9 0.27
17 2 0.06
ACGTcount: A:0.50, C:0.35, G:0.06, T:0.10
Consensus pattern (15 bp):
AACCAAACCCAATTG
Found at i:7908361 original size:11 final size:11
Alignment explanation
Indices: 7908346--7908398 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
7908336 CAAGTCAAGC
*
7908346 CGTTGATCGAC
1 CGTTGATCGAT
*
7908357 CGTTGA-CTGGT
1 CGTTGATC-GAT
7908368 CGTTGATCGAT
1 CGTTGATCGAT
*
7908379 CGTTGACCGAT
1 CGTTGATCGAT
*
7908390 CATTGATCG
1 CGTTGATCG
7908399 TTGACCGTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 1 0.03
11 32 0.94
12 1 0.03
ACGTcount: A:0.17, C:0.23, G:0.28, T:0.32
Consensus pattern (11 bp):
CGTTGATCGAT
Found at i:7908395 original size:22 final size:22
Alignment explanation
Indices: 7908348--7908398 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
7908338 AGTCAAGCCG
* * *
7908348 TTGATCGACCGTTGACTGGTCG
1 TTGATCGACCGTTGACCGATCA
*
7908370 TTGATCGATCGTTGACCGATCA
1 TTGATCGACCGTTGACCGATCA
7908392 TTGATCG
1 TTGATCG
7908399 TTGACCGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (22 bp):
TTGATCGACCGTTGACCGATCA
Found at i:7908417 original size:6 final size:6
Alignment explanation
Indices: 7908406--7908462 Score: 51
Period size: 6 Copynumber: 8.8 Consensus size: 6
7908396 TCGTTGACCG
* * *
7908406 TTGACT TTGACT GTTGATCA TTGACT TTGATCG TTGATT GTTGACT TTGACT
1 TTGACT TTGACT -TTGA-CT TTGACT TTGA-CT TTGACT -TTGACT TTGACT
7908458 TTGAC
1 TTGAC
7908463 CCGTTGACTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
6 22 0.54
7 18 0.44
8 1 0.02
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.47
Consensus pattern (6 bp):
TTGACT
Found at i:7908421 original size:13 final size:13
Alignment explanation
Indices: 7908399--7908462 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
7908389 TCATTGATCG
*
7908399 TTGACCGTTGACT
1 TTGACTGTTGACT
*
7908412 TTGACTGTTGATCA
1 TTGACTGTTGA-CT
*
7908426 TTGACT-TTGATCG
1 TTGACTGTTGA-CT
*
7908439 TTGATTGTTGACT
1 TTGACTGTTGACT
7908452 TTGACT-TTGAC
1 TTGACTGTTGAC
7908463 CCGTTGACTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
12 5 0.12
13 27 0.63
14 11 0.26
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.45
Consensus pattern (13 bp):
TTGACTGTTGACT
Found at i:7908421 original size:20 final size:20
Alignment explanation
Indices: 7908398--7908473 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
7908388 ATCATTGATC
7908398 GTTGACCGTTGACTTTGACT
1 GTTGACCGTTGACTTTGACT
* *
7908418 GTTGATCATTGACTTTGA-T
1 GTTGACCGTTGACTTTGACT
**
7908437 CGTTGATTGTTGACTTTGACT
1 -GTTGACCGTTGACTTTGACT
7908458 -TTGACCCGTTGACTTT
1 GTTGA-CCGTTGACTTT
7908474 TTCCTAGAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
19 5 0.11
20 41 0.87
21 1 0.02
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.45
Consensus pattern (20 bp):
GTTGACCGTTGACTTTGACT
Found at i:7908442 original size:27 final size:27
Alignment explanation
Indices: 7908412--7908471 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
7908402 ACCGTTGACT
*
7908412 TTGACTGTTGATCATTGACTTTGA-TCG
1 TTGACTGTTGA-CATTGACTTTGACCCG
* *
7908439 TTGATTGTTGACTTTGACTTTGACCCG
1 TTGACTGTTGACATTGACTTTGACCCG
7908466 TTGACT
1 TTGACT
7908472 TTTTCCTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.45
Consensus pattern (27 bp):
TTGACTGTTGACATTGACTTTGACCCG
Found at i:7908470 original size:40 final size:40
Alignment explanation
Indices: 7908392--7908473 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
7908382 TGACCGATCA
*
7908392 TTGATCGTTGACCGTTGACTTTGACTGTTGATCATTGACT
1 TTGATCGTTGACCGTTGACTTTGACTGTTGACCATTGACT
** *
7908432 TTGATCGTTGATTGTTGACTTTGACT-TTGACCCGTTGACT
1 TTGATCGTTGACCGTTGACTTTGACTGTTGA-CCATTGACT
7908472 TT
1 TT
7908474 TTCCTAGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
39 4 0.11
40 33 0.89
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.45
Consensus pattern (40 bp):
TTGATCGTTGACCGTTGACTTTGACTGTTGACCATTGACT
Found at i:7915612 original size:7 final size:7
Alignment explanation
Indices: 7915602--7915654 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
7915592 ATCGTTAACT
*
7915602 TTGACCG
1 TTGACCA
*
7915609 TTGATCA
1 TTGACCA
7915616 TTGACCA
1 TTGACCA
7915623 TTGACCA
1 TTGACCA
*
7915630 TTGACTA
1 TTGACCA
*
7915637 -TGACCG
1 TTGACCA
*
7915643 TTGACCG
1 TTGACCA
7915650 TTGAC
1 TTGAC
7915655 TTTGACTTCG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
6 4 0.10
7 35 0.90
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (7 bp):
TTGACCA
Found at i:7915646 original size:20 final size:20
Alignment explanation
Indices: 7915617--7915660 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7915607 CGTTGATCAT
7915617 TGACCATTGACCATTGACTA
1 TGACCATTGACCATTGACTA
* * *
7915637 TGACCGTTGACCGTTGACTT
1 TGACCATTGACCATTGACTA
7915657 TGAC
1 TGAC
7915661 TTCGACCCGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (20 bp):
TGACCATTGACCATTGACTA
Found at i:7918547 original size:21 final size:21
Alignment explanation
Indices: 7918523--7918569 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
7918513 GTGGTTATGG
*
7918523 TTCTATCGATACAATG-ATGAC
1 TTCTATCGAAACAATGCATG-C
*
7918544 TTCTATCGAAATAATGCATGC
1 TTCTATCGAAACAATGCATGC
7918565 TTCTA
1 TTCTA
7918570 CTGATACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (21 bp):
TTCTATCGAAACAATGCATGC
Found at i:7919641 original size:193 final size:196
Alignment explanation
Indices: 7919294--7919699 Score: 482
Period size: 193 Copynumber: 2.1 Consensus size: 196
7919284 TCCCAGTACC
* * *
7919294 CGATGCTGCTCACACGA-ATTGTCGAGGACTCGAAATATATGCAGTACCCCAACCATCGGTACGA
1 CGATGCTACTCACACGAGATTGTCGAGGACTCGAAACATATGCAGTACCCCAACCATCGATACGA
* * * * * * **
7919358 TGTCTGTCTATATAATTGTCTGCTAACGATGCTGCTCACACGAGCTATCGGGTGTATGCACTTAT
66 TATCTATCTATATAACTGTCTCCTAACGATACTGCTCACACGAGCTATCGAGAATATGCACTTAT
* * * * * *
7919423 GCATAAGTCCCAGCCATCGTAGGGCCTGTAATCCATTCTAGGATT-TATA-TCTTTTTTTAACTC
131 GCATAAATCCAAACCATCATAGGGCCTGTAATCCATTCTAGGATTCTATACTCATTTCTTAACTC
7919486 A
196 A
* * * * * *
7919487 TGATGCTACTCACACGAGA-TGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACGG
1 CGATGCTACTCACACGAGATTGTCGAGGACTCGAAACATATGCAGTACCCCAACCATCGATACGA
* *
7919551 TATCTATGC-ATATAACTGT-TCCCTAACGATACTGCTCACACGAGCTGTCGAGAATATGCAGTT
66 TATCTAT-CTATATAACTGTCT-CCTAACGATACTGCTCACACGAGCTATCGAGAATATGCACTT
* * * *
7919614 ATGCATAAATCTAAACCATCATAGGGCCTGTAATCCATTCTTGGATTCTTTACTCATTTCTTGAC
129 ATGCATAAATCCAAACCATCATAGGGCCTGTAATCCATTCTAGGATTCTATACTCATTTCTTAAC
7919679 TCA
194 TCA
*
7919682 CGATGCTTCTCACACGAG
1 CGATGCTACTCACACGAG
7919700 CTGCCAAAAA
Statistics
Matches: 177, Mismatches: 31, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
192 1 0.01
193 143 0.81
194 5 0.03
195 28 0.16
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (196 bp):
CGATGCTACTCACACGAGATTGTCGAGGACTCGAAACATATGCAGTACCCCAACCATCGATACGA
TATCTATCTATATAACTGTCTCCTAACGATACTGCTCACACGAGCTATCGAGAATATGCACTTAT
GCATAAATCCAAACCATCATAGGGCCTGTAATCCATTCTAGGATTCTATACTCATTTCTTAACTC
A
Found at i:7921412 original size:22 final size:22
Alignment explanation
Indices: 7921384--7921434 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
7921374 ATACTAACTT
7921384 TTAATTCGATAATTAAAATTCC
1 TTAATTCGATAATTAAAATTCC
7921406 TTAATTCGATAATTAAAATTCC
1 TTAATTCGATAATTAAAATTCC
*
7921428 TAAATTC
1 TTAATTC
7921435 AAAATTCCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (22 bp):
TTAATTCGATAATTAAAATTCC
Found at i:7927217 original size:51 final size:51
Alignment explanation
Indices: 7927162--7927391 Score: 320
Period size: 51 Copynumber: 4.5 Consensus size: 51
7927152 GAAGTCATAA
*
7927162 TCACGATGACA-TTGAGTCATCGGACCTTTAATCCATCATGGATTCATTTAC
1 TCACGATGACACTT-AGTCATCGGACCTTTAATCCATCAAGGATTCATTTAC
* * * *
7927213 TCACGATGACACTTAGCCATCGAAACTTTAATCCATCATGGATTCATTTAC
1 TCACGATGACACTTAGTCATCGGACCTTTAATCCATCAAGGATTCATTTAC
* * *
7927264 TCATGATGACACTTAGTCATTGGACCTTTAATCCATAAAGGATTCATTTAC
1 TCACGATGACACTTAGTCATCGGACCTTTAATCCATCAAGGATTCATTTAC
** *
7927315 TCATAATGACACTTAGTCATCGGACCTTTAATCC-GCAAAGGATTCATTTAC
1 TCACGATGACACTTAGTCATCGGACCTTTAATCCATC-AAGGATTCATTTAC
*
7927366 TCACAATGACACTTAGTCATCGGACC
1 TCACGATGACACTTAGTCATCGGACC
7927392 CTTTCATTTA
Statistics
Matches: 162, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
51 160 0.99
52 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (51 bp):
TCACGATGACACTTAGTCATCGGACCTTTAATCCATCAAGGATTCATTTAC
Found at i:7932339 original size:24 final size:22
Alignment explanation
Indices: 7932312--7932365 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 22
7932302 TAAGCATGCA
7932312 AACTACCGAA-ACTTTCGTACATAT
1 AACTACCGAATAC--TCGTA-ATAT
*
7932336 AACTACC-AATACTCGTAATTT
1 AACTACCGAATACTCGTAATAT
7932357 AACTACCGA
1 AACTACCGA
7932366 TACAACTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 10 0.37
22 6 0.22
23 2 0.07
24 9 0.33
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28
Consensus pattern (22 bp):
AACTACCGAATACTCGTAATAT
Found at i:7932361 original size:21 final size:22
Alignment explanation
Indices: 7932326--7932368 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
7932316 ACCGAAACTT
7932326 TCGTACATATAACTACCAATAC
1 TCGTACATATAACTACCAATAC
* *
7932348 TCGTA-ATTTAACTACCGATAC
1 TCGTACATATAACTACCAATAC
7932369 AACTCAAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (22 bp):
TCGTACATATAACTACCAATAC
Found at i:7933055 original size:51 final size:51
Alignment explanation
Indices: 7933000--7933226 Score: 339
Period size: 51 Copynumber: 4.5 Consensus size: 51
7932990 TAGGAAGTCA
* * *
7933000 TACTCACGATGACACTAAGTCATCGAACCTTTAATCCATCATGGATTCATT
1 TACTCACGATGACACTTAGTCATCGAACCTTTAATCCATAAAGGATTCATT
* *
7933051 TACTCACGATGACACTTAGTCATTGGACCTTTAATCCATAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGAACCTTTAATCCATAAAGGATTCATT
* * * *
7933102 TACTCACAATGACACTTAGTCATCGGACCTTTAATTCATAAAGGATTAATT
1 TACTCACGATGACACTTAGTCATCGAACCTTTAATCCATAAAGGATTCATT
**
7933153 TACTCACGATGACACTTAGTCATC-AGACCTTTAATCCGCAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGA-ACCTTTAATCCATAAAGGATTCATT
7933204 TACTCACGATGACACTTAGTCAT
1 TACTCACGATGACACTTAGTCAT
7933227 TAGACCCTTC
Statistics
Matches: 160, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
51 160 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGAACCTTTAATCCATAAAGGATTCATT
Found at i:7940368 original size:51 final size:51
Alignment explanation
Indices: 7940313--7940545 Score: 346
Period size: 51 Copynumber: 4.6 Consensus size: 51
7940303 TAGGAAGTCA
* *
7940313 TACTCACGATGACA-TTGAGTCATCGGACCTTTAGTCCATCATGGATTCATT
1 TACTCACGATGACACTT-AGTCATCGGACCTTTAATCCATCAAGGATTCATT
* *
7940364 TACTCACGATGACACTTAGTCATCGGACGTTTAATCCATCATGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATCAAGGATTCATT
* *
7940415 TACTCACGATGACACTTAGTCATCGGACCTTTAATTCATAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATCAAGGATTCATT
* *
7940466 TACTCATGATGACACTTAGTCATCAGACCTTTAAT-C-TGCAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCAT-C-AAGGATTCATT
7940517 TACTCACGATGACACTTAGTCATCGGACC
1 TACTCACGATGACACTTAGTCATCGGACC
7940546 CTTTCGTTTA
Statistics
Matches: 168, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
49 1 0.01
50 1 0.01
51 164 0.98
52 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATCAAGGATTCATT
Found at i:7943460 original size:18 final size:18
Alignment explanation
Indices: 7943433--7943475 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
7943423 TTGTTCATTT
7943433 ATTT-TTATT-AATTTACA
1 ATTTATTATTAAATTTA-A
7943450 ATTTATTATTAAATTTAA
1 ATTTATTATTAAATTTAA
7943468 ATTGTATT
1 ATT-TATT
7943476 TATATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.17
18 9 0.39
19 10 0.43
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
ATTTATTATTAAATTTAA
Found at i:7943562 original size:14 final size:14
Alignment explanation
Indices: 7943543--7943577 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
7943533 AGTTTCTACC
*
7943543 CAAACCTTAAGACA
1 CAAACCTCAAGACA
7943557 CAAACCCTCAAGACA
1 CAAA-CCTCAAGACA
7943572 CAAACC
1 CAAACC
7943578 CTCACAAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.49, C:0.37, G:0.06, T:0.09
Consensus pattern (14 bp):
CAAACCTCAAGACA
Done.