Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 31 of 132
Found at i:8487058 original size:24 final size:24
Alignment explanation
Indices: 8487031--8487080 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
8487021 ACCACCTCCC
* *
8487031 TCACCTTCACCACCTTTATTACCA
1 TCACCCTCACCACCTTCATTACCA
8487055 TCACCCTCACCACCTTCATTACCA
1 TCACCCTCACCACCTTCATTACCA
8487079 TC
1 TC
8487081 GCCATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.46, G:0.00, T:0.30
Consensus pattern (24 bp):
TCACCCTCACCACCTTCATTACCA
Found at i:8488373 original size:42 final size:43
Alignment explanation
Indices: 8488314--8488453 Score: 201
Period size: 43 Copynumber: 3.3 Consensus size: 43
8488304 TTATAAGGAA
* * *
8488314 AAACGCCGTTATAGAACATGGTCTTTAGCGACGC-CTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTTCCCAC
* *
8488356 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTTTTCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTTCCCAC
* *
8488399 AAACGCCACTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTTCCCAC
*
8488442 AAACGCCTCTAA
1 AAACGCCGCTAA
8488454 CATTAACAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 31 0.36
43 56 0.64
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTTCCCAC
Found at i:8496164 original size:41 final size:41
Alignment explanation
Indices: 8496059--8496281 Score: 308
Period size: 41 Copynumber: 5.5 Consensus size: 41
8496049 GCGTTTTTCT
* *
8496059 CATAAGCCCCACTATTGCTTTGACCTTTAGCGGCGCTTGCC
1 CATAAGCGCCGCTATTGCTTTGACCTTTAGCGGCGCTTGCC
**
8496100 CA-AAGCGCCGCTATTGCACTGACCTTTAGCGGCGCTTGCC
1 CATAAGCGCCGCTATTGCTTTGACCTTTAGCGGCGCTTGCC
8496140 CATAAGCGCCGCTATTGCTTTGACCTTTAGCGGCGCTTGCC
1 CATAAGCGCCGCTATTGCTTTGACCTTTAGCGGCGCTTGCC
* * * **
8496181 CATAAGCGCTGCTATTGCTCTGACCTTTAGCGGCGTTTATGTG
1 CATAAGCGCCGCTATTGCTTTGACCTTTAGCGGCG-CT-TGCC
* *
8496224 C--AAGAGCCGCTATTGCTTTGACCTTTAGCGGTGCTTGCC
1 CATAAGCGCCGCTATTGCTTTGACCTTTAGCGGCGCTTGCC
8496263 CATAAGCGCCGCTATTGCT
1 CATAAGCGCCGCTATTGCT
8496282 CTATCTTTTG
Statistics
Matches: 158, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
39 3 0.02
40 37 0.23
41 114 0.72
42 1 0.01
43 3 0.02
ACGTcount: A:0.17, C:0.30, G:0.24, T:0.29
Consensus pattern (41 bp):
CATAAGCGCCGCTATTGCTTTGACCTTTAGCGGCGCTTGCC
Found at i:8496357 original size:81 final size:82
Alignment explanation
Indices: 8496070--8496323 Score: 320
Period size: 82 Copynumber: 3.1 Consensus size: 82
8496060 ATAAGCCCCA
* *
8496070 CTATTGCTTTGACCTTTAGCGGCGCTTGCCCA-AAGCGCCGCTATTGCACTGACCTTTAGCGGCG
1 CTATTGCTTTGACCTTTAGCGGTGCTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCG
*** **
8496134 CTTGCCCAT--AAGCGCCG
66 -TT-TATATGAAAAAGCCG
* *
8496151 CTATTGCTTTGACCTTTAGCGGCGCTTGCCCATAAGCGCTGCTATTGCTCTGACCTTTAGCGGCG
1 CTATTGCTTTGACCTTTAGCGGTGCTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCG
* * *
8496216 TTTATGTGCAAGAGCCG
66 TTTATATGAAAAAGCCG
* *
8496233 CTATTGCTTTGACCTTTAGCGGTGCTTGCCCATAAGCGCCGCTATTGCTCT-ATCTTTTGCGGCG
1 CTATTGCTTTGACCTTTAGCGGTGCTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCG
8496297 TTTATAT-AAAAACGCCG
66 TTTATATGAAAAA-GCCG
8496314 CTATTGCTTT
1 CTATTGCTTT
8496324 ATCTTTTACG
Statistics
Matches: 155, Mismatches: 14, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
80 4 0.03
81 65 0.42
82 86 0.55
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.32
Consensus pattern (82 bp):
CTATTGCTTTGACCTTTAGCGGTGCTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCG
TTTATATGAAAAAGCCG
Found at i:8498211 original size:21 final size:21
Alignment explanation
Indices: 8498169--8498211 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
8498159 AATTAAAATT
* *
8498169 TAAATATTTTTTTACTATAAA
1 TAAATATTTTGTGACTATAAA
8498190 TAAATTATTTTGTGACTA-AAA
1 TAAA-TATTTTGTGACTATAAA
8498211 T
1 T
8498212 TTAAGGCGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (21 bp):
TAAATATTTTGTGACTATAAA
Found at i:8500599 original size:40 final size:40
Alignment explanation
Indices: 8500544--8500625 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
8500534 TCATGAACTG
8500544 ATGTGGGATGTTGACCGAGCACCATATGGAGTTGTCATAA
1 ATGTGGGATGTTGACCGAGCACCATATGGAGTTGTCATAA
8500584 ATGTGGGATGTTGACCGAGCACCATATGGAGTTGTCATAA
1 ATGTGGGATGTTGACCGAGCACCATATGGAGTTGTCATAA
8500624 AT
1 AT
8500626 ACCTTCGAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (40 bp):
ATGTGGGATGTTGACCGAGCACCATATGGAGTTGTCATAA
Found at i:8501656 original size:94 final size:94
Alignment explanation
Indices: 8501495--8501833 Score: 507
Period size: 94 Copynumber: 3.6 Consensus size: 94
8501485 TGCTTGATTT
* *
8501495 GCATATGTTACGAGTCCTCGTCAGCTTAGTGTGAGCAGCATCGTATACTAGTAACAGTTTTATGT
1 GCATATGTTACGAGTCCTCGTCAGCTTAGTGTGAGCAGCATCGTATACTGGTAACAGTTATATGT
* *
8501560 ACAAATACCGTATCGATGACTGAGGTACC
66 ACAGATACCGTATCGATGGCTGAGGTACC
* * * * *
8501589 GCATATGCTGCGAGTCCTCGTCAGCTTAGTGTGAGCAGCATTGTATATTGGTAACAATTATATGT
1 GCATATGTTACGAGTCCTCGTCAGCTTAGTGTGAGCAGCATCGTATACTGGTAACAGTTATATGT
* *
8501654 ACAGATACCATATCGATGGCTGAGGTCCC
66 ACAGATACCGTATCGATGGCTGAGGTACC
*
8501683 GCATATGTTACAAGTCCTCGTCAGCTTAGTGTGAGCAGCATCGTATACTGGTAACAGTTATATGT
1 GCATATGTTACGAGTCCTCGTCAGCTTAGTGTGAGCAGCATCGTATACTGGTAACAGTTATATGT
* *
8501748 ACAGATACCGTATCGATGGTTGAGGTACT
66 ACAGATACCGTATCGATGGCTGAGGTACC
* * * * *
8501777 GCATATGTTACGGGTCTTCATCAGCTTAGTGTGAGCAGCATCGAATACTAGTAACAG
1 GCATATGTTACGAGTCCTCGTCAGCTTAGTGTGAGCAGCATCGTATACTGGTAACAG
8501834 AGACAATTTT
Statistics
Matches: 218, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 218 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (94 bp):
GCATATGTTACGAGTCCTCGTCAGCTTAGTGTGAGCAGCATCGTATACTGGTAACAGTTATATGT
ACAGATACCGTATCGATGGCTGAGGTACC
Found at i:8506637 original size:20 final size:20
Alignment explanation
Indices: 8506609--8506679 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
8506599 TTCAAAAAAA
*
8506609 GTCAATGGTGAAAGTCAACG
1 GTCAATGGTCAAAGTCAACG
*
8506629 GTCAGTGGTCAAAGTCAACG
1 GTCAATGGTCAAAGTCAACG
* *
8506649 GTCAATGATCAAAGTCAA-A
1 GTCAATGGTCAAAGTCAACG
*
8506668 GTCAACGGTCAA
1 GTCAATGGTCAA
8506680 CGGTCGAGTC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 10 0.23
20 34 0.77
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (20 bp):
GTCAATGGTCAAAGTCAACG
Found at i:8506651 original size:13 final size:13
Alignment explanation
Indices: 8506635--8506679 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
8506625 AACGGTCAGT
8506635 GGTCAAAGTCAAC
1 GGTCAAAGTCAAC
*
8506648 GGTCAATGATCAA-
1 GGTCAAAG-TCAAC
*
8506661 AGTCAAAGTCAAC
1 GGTCAAAGTCAAC
8506674 GGTCAA
1 GGTCAA
8506680 CGGTCGAGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (13 bp):
GGTCAAAGTCAAC
Found at i:8512647 original size:6 final size:6
Alignment explanation
Indices: 8512636--8512665 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
8512626 AAAATCATTC
8512636 ATAAAT ATAAAT ATAAAT ATATAAT ATAAA
1 ATAAAT ATAAAT ATAAAT ATA-AAT ATAAA
8512666 GTCTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:8512672 original size:14 final size:13
Alignment explanation
Indices: 8512636--8512678 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
8512626 AAAATCATTC
8512636 ATAAATATA-AAT
1 ATAAATATATAAT
8512648 ATAAATATATAAT
1 ATAAATATATAAT
*
8512661 ATAAAGTCTATAAT
1 ATAAA-TATATAAT
8512675 -TAAA
1 ATAAA
8512679 ATAAAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 9 0.32
13 12 0.43
14 7 0.25
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (13 bp):
ATAAATATATAAT
Found at i:8517203 original size:29 final size:29
Alignment explanation
Indices: 8517150--8517251 Score: 132
Period size: 29 Copynumber: 3.4 Consensus size: 29
8517140 ATTAAAATTA
* *
8517150 TTTAATAATTTTTTTATTTCAAAAAAATAAT
1 TTTAATAA-TTTTATATTT-TAAAAAATAAT
8517181 TTTAATAATTTTATATTTTAAAAAATAAT
1 TTTAATAATTTTATATTTTAAAAAATAAT
** * *
8517210 TCAAAAAATTTTATATTTTAAAATATAAT
1 TTTAATAATTTTATATTTTAAAAAATAAT
8517239 TTTAATAATTTTA
1 TTTAATAATTTTA
8517252 AAATCATTTG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 45 0.73
30 9 0.15
31 8 0.13
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTAATAATTTTATATTTTAAAAAATAAT
Found at i:8517241 original size:20 final size:22
Alignment explanation
Indices: 8517216--8517255 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8517206 TAATTCAAAA
8517216 AATTTT-AT-ATTTTAAAATAT
1 AATTTTAATAATTTTAAAATAT
8517236 AATTTTAATAATTTTAAAAT
1 AATTTTAATAATTTTAAAAT
8517256 CATTTGCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTTTAATAATTTTAAAATAT
Found at i:8520565 original size:27 final size:27
Alignment explanation
Indices: 8520525--8520584 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
8520515 GTGCTAAACA
**
8520525 GAGAGCACTTTACGTGCT-AAATAATCG
1 GAGAGCACAATACGTGCTAAAATAA-CG
8520552 GAGAGCACAATACGTGCTAAAATAACG
1 GAGAGCACAATACGTGCTAAAATAACG
8520579 GAGAGC
1 GAGAGC
8520585 GCGCTAGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 24 0.80
28 6 0.20
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (27 bp):
GAGAGCACAATACGTGCTAAAATAACG
Found at i:8522704 original size:29 final size:28
Alignment explanation
Indices: 8522671--8522766 Score: 115
Period size: 29 Copynumber: 3.4 Consensus size: 28
8522661 ATTTAAATTC
8522671 AATCCTTTTATTTTATATTTTTTTATTTT
1 AATCCTTTTATTTTATATTTTTTTA-TTT
8522700 AATCCTTTTATTTTA-ATTTTTTTAAATTT
1 AATCCTTTTATTTTATATTTTTTT--ATTT
* *
8522729 AATCCTTTCATTTTGT-TTTTATTTATTT
1 AATCCTTTTATTTTATATTTT-TTTATTT
*
8522757 AATCTTTTTA
1 AATCCTTTTA
8522767 ATCATTTGTA
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
28 20 0.34
29 35 0.59
30 4 0.07
ACGTcount: A:0.23, C:0.08, G:0.01, T:0.68
Consensus pattern (28 bp):
AATCCTTTTATTTTATATTTTTTTATTT
Found at i:8522708 original size:14 final size:14
Alignment explanation
Indices: 8522671--8522742 Score: 72
Period size: 14 Copynumber: 5.0 Consensus size: 14
8522661 ATTTAAATTC
8522671 AATCCTTTTATTTT
1 AATCCTTTTATTTT
**
8522685 ATATTTTTTTATTTT
1 A-ATCCTTTTATTTT
8522700 AATCCTTTTATTTT
1 AATCCTTTTATTTT
** *
8522714 AATTTTTTTAAATTT
1 AATCCTTTT-ATTTT
*
8522729 AATCCTTTCATTTT
1 AATCCTTTTATTTT
8522743 GTTTTTATTT
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
14 23 0.51
15 22 0.49
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.67
Consensus pattern (14 bp):
AATCCTTTTATTTT
Found at i:8525357 original size:40 final size:40
Alignment explanation
Indices: 8525279--8525357 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
8525269 CAAAAATTCT
* * *
8525279 GTTAGTTTTCTAGGTCACTTTAGTGACTAATGTAATCTTC
1 GTTAGTTCTCTAGGTCACCTTAGTGACTAATATAATCTTC
* * *
8525319 GTTAGTTCTGTAGGTCACCTTATTGACTAATATTATCTT
1 GTTAGTTCTCTAGGTCACCTTAGTGACTAATATAATCTT
8525358 TTGAATTCGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.23, C:0.15, G:0.16, T:0.46
Consensus pattern (40 bp):
GTTAGTTCTCTAGGTCACCTTAGTGACTAATATAATCTTC
Found at i:8528698 original size:19 final size:18
Alignment explanation
Indices: 8528669--8528711 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
8528659 TTTTAAAAAT
8528669 AATTTTTTAATTAAATTA
1 AATTTTTTAATTAAATTA
* *
8528687 TATTTGTTTAATTCAATTA
1 AATTT-TTTAATTAAATTA
8528706 AATTTT
1 AATTTT
8528712 GATCAGTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
AATTTTTTAATTAAATTA
Found at i:8530919 original size:21 final size:21
Alignment explanation
Indices: 8530895--8530937 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
8530885 AACAAGAATC
* *
8530895 AAAACAGCAGCAAAACTAACA
1 AAAACAGCAACAAAAATAACA
**
8530916 AAAATGGCAACAAAAATAACA
1 AAAACAGCAACAAAAATAACA
8530937 A
1 A
8530938 CAAAAACAGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.65, C:0.19, G:0.09, T:0.07
Consensus pattern (21 bp):
AAAACAGCAACAAAAATAACA
Found at i:8530953 original size:23 final size:24
Alignment explanation
Indices: 8530927--8530978 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
8530917 AAATGGCAAC
8530927 AAAAATAA-CAACAAAAACAGTAA
1 AAAAATAAGCAACAAAAACAGTAA
* *
8530950 AAAAA-AAGCAACCAAAATAGTAA
1 AAAAATAAGCAACAAAAACAGTAA
8530973 AAAAAT
1 AAAAAT
8530979 GGCAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.73, C:0.12, G:0.06, T:0.10
Consensus pattern (24 bp):
AAAAATAAGCAACAAAAACAGTAA
Found at i:8535526 original size:11 final size:11
Alignment explanation
Indices: 8535510--8535536 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
8535500 ACGGGTAAAG
8535510 ATAATTTTACT
1 ATAATTTTACT
8535521 ATAATTTTACT
1 ATAATTTTACT
8535532 ATAAT
1 ATAAT
8535537 AGCAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (11 bp):
ATAATTTTACT
Found at i:8535762 original size:24 final size:24
Alignment explanation
Indices: 8535709--8535762 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
8535699 TTCGTAACTC
* *
8535709 AAATAAATTATGCTAATAAATACA
1 AAATATATTATACTAATAAATACA
*
8535733 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACA
8535757 AAATAT
1 AAATAT
8535763 TTTAGAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACA
Found at i:8537585 original size:32 final size:34
Alignment explanation
Indices: 8537548--8537659 Score: 94
Period size: 32 Copynumber: 3.4 Consensus size: 34
8537538 AAAAACACAT
* *
8537548 AAAAATAACATCCAAACAAC-C-AAAACAATAAC
1 AAAAATAACAGCAAAACAACACAAAAACAATAAC
8537580 AAAAATAACAGCAAAACAACAACAAAAACAAT---
1 AAAAATAACAGCAAAACAAC-ACAAAAACAATAAC
* * *
8537612 AAAAATAGCAACAAAA-ATAGCAACAAAAATAATAAC
1 AAAAATAACAGCAAAACA-A-C-ACAAAAACAATAAC
8537648 AAAAAT-ACAGCA
1 AAAAATAACAGCA
8537660 TCAAAACAGT
Statistics
Matches: 65, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
31 1 0.02
32 33 0.51
33 12 0.18
34 1 0.02
35 12 0.18
36 6 0.09
ACGTcount: A:0.69, C:0.19, G:0.04, T:0.09
Consensus pattern (34 bp):
AAAAATAACAGCAAAACAACACAAAAACAATAAC
Found at i:8537594 original size:12 final size:12
Alignment explanation
Indices: 8537562--8537654 Score: 77
Period size: 12 Copynumber: 8.1 Consensus size: 12
8537552 ATAACATCCA
* *
8537562 AACAACCAAAAC
1 AACAACAAAAAT
*
8537574 AATAACAAAAAT
1 AACAACAAAAAT
* *
8537586 AACAGC-AAAAC
1 AACAACAAAAAT
8537597 AACAAC--AAA-
1 AACAACAAAAAT
*
8537606 AACAATAAAAAT
1 AACAACAAAAAT
*
8537618 AGCAACAAAAAT
1 AACAACAAAAAT
*
8537630 AGCAACAAAAAT
1 AACAACAAAAAT
*
8537642 AATAACAAAAAT
1 AACAACAAAAAT
8537654 A
1 A
8537655 CAGCATCAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
9 5 0.08
10 3 0.05
11 12 0.18
12 46 0.70
ACGTcount: A:0.71, C:0.17, G:0.03, T:0.09
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:8539625 original size:29 final size:29
Alignment explanation
Indices: 8539593--8539717 Score: 123
Period size: 29 Copynumber: 4.3 Consensus size: 29
8539583 AAGGAAAAAT
* *
8539593 AGGGTCAAAATGAAATTTTGAAAAGTTTG
1 AGGGTCAAATTGAAATTTTGGAAAGTTTG
* *
8539622 AGGG-CTAAATTTGAATTTTTGGGAAGTTTG
1 AGGGTC-AAA-TTGAAATTTTGGAAAGTTTG
*
8539652 AGGGTCAAATTCG-AATTTTGGAAAG-TTC
1 AGGGTCAAATT-GAAATTTTGGAAAGTTTG
* *
8539680 AGAGGTCAAATTCAAATTTTGGGAAGTTT-
1 AG-GGTCAAATTGAAATTTTGGAAAGTTTG
8539709 AGGGTCAAA
1 AGGGTCAAA
8539718 ATGTGATTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
28 12 0.15
29 41 0.51
30 26 0.32
31 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.33
Consensus pattern (29 bp):
AGGGTCAAATTGAAATTTTGGAAAGTTTG
Found at i:8539660 original size:59 final size:56
Alignment explanation
Indices: 8539592--8539720 Score: 152
Period size: 59 Copynumber: 2.2 Consensus size: 56
8539582 TAAGGAAAAA
* * *
8539592 TAGGGTCAAAATGAAATTTTGAAAAGTT-TGAGGGCTAAATTTGAATTTTTGGGAAGTT
1 TAGGGTCAAAATG-AATTTTGAAAAGTTCAGAGGGC-AAA-TTCAAATTTTGGGAAGTT
* * *
8539650 TGAGGGTCAAATTCGAATTTTGGAAAGTTCAGAGGTCAAATTCAAATTTTGGGAAGTT
1 T-AGGGTCAAAAT-GAATTTTGAAAAGTTCAGAGGGCAAATTCAAATTTTGGGAAGTT
8539708 TAGGGTCAAAATG
1 TAGGGTCAAAATG
8539721 TGATTTTTCG
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
56 1 0.02
57 10 0.16
58 18 0.30
59 26 0.43
60 6 0.10
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.33
Consensus pattern (56 bp):
TAGGGTCAAAATGAATTTTGAAAAGTTCAGAGGGCAAATTCAAATTTTGGGAAGTT
Found at i:8539728 original size:29 final size:27
Alignment explanation
Indices: 8539592--8539737 Score: 114
Period size: 29 Copynumber: 5.0 Consensus size: 27
8539582 TAAGGAAAAA
* *
8539592 TAGGGTCAAAATGAAATTTTGAAAAGTT
1 TAGGGTCAAATTG-AATTTTGGAAAGTT
*
8539620 TGAGGG-CTAAATTTGAATTTTTGGGAAGTT
1 T-AGGGTC-AAA-TTGAA-TTTTGGAAAGTT
8539650 TGAGGGTCAAATTCGAATTTTGGAAAGTT
1 T-AGGGTCAAATT-GAATTTTGGAAAGTT
* * *
8539679 CAGAGGTCAAATTCAAATTTTGGGAAGTT
1 TAG-GGTCAAATT-GAATTTTGGAAAGTT
* *
8539708 TAGGGTCAAAATGTGATTTTTCGAAAGTT
1 TAGGGTC-AAAT-TGAATTTTGGAAAGTT
8539737 T
1 T
8539738 GGGATTGAAA
Statistics
Matches: 97, Mismatches: 12, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
28 8 0.08
29 63 0.65
30 25 0.26
31 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (27 bp):
TAGGGTCAAATTGAATTTTGGAAAGTT
Found at i:8540541 original size:18 final size:19
Alignment explanation
Indices: 8540518--8540553 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8540508 AAAAAAATAA
8540518 GTATGTACGTA-TATATAC
1 GTATGTACGTATTATATAC
*
8540536 GTATGTATGTATTATATA
1 GTATGTACGTATTATATA
8540554 TCGAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (19 bp):
GTATGTACGTATTATATAC
Found at i:8540582 original size:15 final size:16
Alignment explanation
Indices: 8540562--8540592 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8540552 TATCGAAAAT
8540562 ATAAAAA-ATAAATAG
1 ATAAAAATATAAATAG
8540577 ATAAAAATATAAATAG
1 ATAAAAATATAAATAG
8540593 GTGTATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (16 bp):
ATAAAAATATAAATAG
Found at i:8541672 original size:85 final size:85
Alignment explanation
Indices: 8541524--8541687 Score: 233
Period size: 85 Copynumber: 1.9 Consensus size: 85
8541514 TGCTTCATTA
* *
8541524 ATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCGGCTCATTATTTCAATCCACTTCTCT
1 ATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGGCTCATTATTTCAACCCACTTCTCT
8541589 GTATCTCATCAGGAAGACGG
66 GTATCTCATCAGGAAGACGG
* * * *
8541609 ATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACC-GCTTTATTGCTTT-GACCCATTTCT
1 ATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGGC-TCATT-ATTTCAACCCACTTCT
*
8541672 CTGTATCTTATCAGGA
64 CTGTATCTCATCAGGA
8541688 TGATGGGGGT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
84 2 0.03
85 65 0.93
86 3 0.04
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (85 bp):
ATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGGCTCATTATTTCAACCCACTTCTCT
GTATCTCATCAGGAAGACGG
Found at i:8541787 original size:209 final size:208
Alignment explanation
Indices: 8541403--8541814 Score: 617
Period size: 209 Copynumber: 2.0 Consensus size: 208
8541393 GCTTCATCTC
* * * * *
8541403 TTGGTCTACTTCTTTGTATCTCATCAAGAAGATGATCGTTTTATTGCTTTGACACACTTCTCTAT
1 TTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCGCTTTATTGCTTTGACACACTTCTCTAT
* *
8541468 ATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTTGCTTCATTAATTTGGTCT
66 ATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCACTAATTTGGTCT
* *
8541533 ACTTCTCTATATCTCATCAGGAAGATGACCGGCTCATTATTTCAATCCACTTCTCTGTATCTCAT
131 ACTTCTCTATACCTCATCAGGAAGATGACCGCCTCATTATTTCAATCCACTTCTCTGTATCTCAT
*
8541598 CAGGAAGACGGAT
196 CAAGAAGACGGAT
* * * *
8541611 TTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTGCTTTGACCCATTTCTCTGT
1 TTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCGCTTTATTGCTTTGACACACTTCTCTAT
* * *
8541676 ATCTTATCAGGATGATGGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCACTGATTTGGTC
66 ATCTCATCAGGAAGAT-GGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCACTAATTTGGTC
* * * * *
8541741 TACTTTTCTGTACCTTATTAGGAAGATGACCGCCTCATTGTTTCAATCCACTTCTCTGTATCTCA
130 TACTTCTCTATACCTCATCAGGAAGATGACCGCCTCATTATTTCAATCCACTTCTCTGTATCTCA
8541806 TCAAGAAGA
195 TCAAGAAGA
8541815 TGACTGCTTT
Statistics
Matches: 181, Mismatches: 22, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
208 70 0.39
209 111 0.61
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (208 bp):
TTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCGCTTTATTGCTTTGACACACTTCTCTAT
ATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCACTAATTTGGTCT
ACTTCTCTATACCTCATCAGGAAGATGACCGCCTCATTATTTCAATCCACTTCTCTGTATCTCAT
CAAGAAGACGGAT
Found at i:8541818 original size:48 final size:48
Alignment explanation
Indices: 8541762--8541863 Score: 134
Period size: 48 Copynumber: 2.1 Consensus size: 48
8541752 ACCTTATTAG
*
8541762 GAAGATGACCGCCTCATTG-TTTCAATCCACTTCTCTGTATCTCATCAA
1 GAAGATGACCGCCTCATTGCTTT-AACCCACTTCTCTGTATCTCATCAA
* * * * *
8541810 GAAGATGACTGCTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAG
1 GAAGATGACCGCCTCATTGCTTTAACCCACTTCTCTGTATCTCATCAA
8541858 GAAGAT
1 GAAGAT
8541864 TGGGTTTGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 44 0.94
49 3 0.06
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (48 bp):
GAAGATGACCGCCTCATTGCTTTAACCCACTTCTCTGTATCTCATCAA
Found at i:8541952 original size:171 final size:172
Alignment explanation
Indices: 8541615--8541979 Score: 588
Period size: 171 Copynumber: 2.1 Consensus size: 172
8541605 ACGGATTTGG
* * *
8541615 TCCACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTGCTTTGACCCATTTCTCTGTATCT
1 TCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTGCTTTGACCCACTTCTCTGTATCT
* *
8541680 TATCAGGATGATGGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCACTGATTTGGTCTACT
66 CATCAGGAAGATGGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCACTGATTTGGTCTACT
* * * *
8541745 TTTCTGTACCTTATTAGGAAGATGACCGCCTCATTGTTTCAA
131 TATCTATACCTCATCAGGAAGATGACCGCCTCATTGTTTCAA
*
8541787 TCCACTTCTCTGTATCTCATCAAGAAGATGACTGCTTTATTGCTTTGACCCACTTCTCTGTATCT
1 TCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTGCTTTGACCCACTTCTCTGTATCT
* * *
8541852 CATCAGGAAGAT-TGGGTTTGAAGTCTCATTCGTATTGAGCTTCTCTTTACTGATTTGGTCTACT
66 CATCAGGAAGATGGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCACTGATTTGGTCTACT
* *
8541916 TATCTATATCTCATCAGGAAGATGATCGCCTCATTGTTTCAA
131 TATCTATACCTCATCAGGAAGATGACCGCCTCATTGTTTCAA
8541958 TCCACTTCTCTGTATCTCATCA
1 TCCACTTCTCTGTATCTCATCA
8541980 GAAAGACGGA
Statistics
Matches: 178, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
171 107 0.60
172 71 0.40
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (172 bp):
TCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTGCTTTGACCCACTTCTCTGTATCT
CATCAGGAAGATGGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCACTGATTTGGTCTACT
TATCTATACCTCATCAGGAAGATGACCGCCTCATTGTTTCAA
Found at i:8542169 original size:207 final size:208
Alignment explanation
Indices: 8541787--8542485 Score: 1053
Period size: 208 Copynumber: 3.4 Consensus size: 208
8541777 ATTGTTTCAA
*
8541787 TCCACTTCTCTGTATCTCATCAAGAAGATGACTGCTTTATTGCTTTGACCCACTTCTCTGTATCT
1 TCCACTTCTCTGTATCTCATCAAGAAGATGACTGCTTTATTACTTTGACCCACTTCTCTGTATCT
* * * *
8541852 CATCAGGAAGATTGGGTTTGAAGTCTCATTCGTATTGAGCTTCTCTTTACTGATTTGGTCTACTT
66 CATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTACTT
* *
8541917 ATCTATATCTCATCAGGAAGATGATCGCCTCATTGTTTCAATCCACTTCTCTGTATCTCATCAGA
131 CTCTGTATCTCATCAGGAAGATGATCGCCTCATTGTTTCAATCCACTTCTCTGTATCTCATCAGA
*
8541982 AAGACGGATTTGG
196 AAGATGGATTTGG
* * *
8541995 TCCACTTCTTTGTATCTCATCAGGAAGATGACTGCTTTATTACTTTGACCCACTTCTCTGAATCT
1 TCCACTTCTCTGTATCTCATCAAGAAGATGACTGCTTTATTACTTTGACCCACTTCTCTGTATCT
* * *
8542060 CATTAGGAAGA-GGGGTTTGAAGTCTCATTCGTATTAAGCTTCGCTTCATTAATTTGGTCTACTT
66 CATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTACTT
* *
8542124 CTCTGTATCTCATCAGGAAGATGATCGCCTCATTGTTTTAATCCACTTCTCTGTATCTCATTAGG
131 CTCTGTATCTCATCAGGAAGATGATCGCCTCATTGTTTCAATCCACTTCTCTGTATCTCATCA-G
8542189 AAA-ATGGATTTGG
195 AAAGATGGATTTGG
* * * *
8542202 TTCACTTCTTTGTATCTCATCATGAAGATGA-TCGCTTTATTACTTTAACCCACTTCTCTGTATC
1 TCCACTTCTCTGTATCTCATCAAGAAGATGACT-GCTTTATTACTTTGACCCACTTCTCTGTATC
* * *
8542266 TCATCAGGAAGATGAGTTTTGAAGTCTCATTCGTATTGGGCTTCGCTTCATTGATTTGGTCTACT
65 TCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTACT
* *
8542331 TCTCTGTATCTCATCAAGAAGATGACCGCCTCATTGTTTCAATCCACTTCTCTGTATCTCATCAG
130 TCTCTGTATCTCATCAGGAAGATGATCGCCTCATTGTTTCAATCCACTTCTCTGTATCTCATCAG
*
8542396 GAAGATGGATTTGG
195 AAAGATGGATTTGG
* * ** * ** *
8542410 TCCACTTCTCTGTATCTCATCAAAAAGATGACTGCTTCATTGTTTTAATTCACTTCTTTGTATCT
1 TCCACTTCTCTGTATCTCATCAAGAAGATGACTGCTTTATTACTTTGACCCACTTCTCTGTATCT
8542475 CATCAGGAAGA
66 CATCAGGAAGA
8542486 CAGATTTGGT
Statistics
Matches: 445, Mismatches: 41, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
206 1 0.00
207 187 0.42
208 256 0.58
209 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (208 bp):
TCCACTTCTCTGTATCTCATCAAGAAGATGACTGCTTTATTACTTTGACCCACTTCTCTGTATCT
CATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTACTT
CTCTGTATCTCATCAGGAAGATGATCGCCTCATTGTTTCAATCCACTTCTCTGTATCTCATCAGA
AAGATGGATTTGG
Found at i:8542172 original size:48 final size:46
Alignment explanation
Indices: 8542120--8542280 Score: 142
Period size: 48 Copynumber: 3.6 Consensus size: 46
8542110 AATTTGGTCT
8542120 ACTTCTCTGTATCTCATCAGGAAGATGATCGCCTCATTGTTTTAATCC
1 ACTTCTCTGTATCTCATCAGGAAGATGATCG-CTCATT-TTTTAATCC
* * **
8542168 ACTTCTCTGTATCTCATTAGGAA-A--AT-G--GATTTGGT--T-C
1 ACTTCTCTGTATCTCATCAGGAAGATGATCGCTCATTTTTTAATCC
* * * * *
8542205 ACTTCTTTGTATCTCATCATGAAGATGATCGCTTTATTACTTTAACCC
1 ACTTCTCTGTATCTCATCAGGAAGATGATCGC-TCATT-TTTTAATCC
8542253 ACTTCTCTGTATCTCATCAGGAAGATGA
1 ACTTCTCTGTATCTCATCAGGAAGATGA
8542281 GTTTTGAAGT
Statistics
Matches: 88, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
37 21 0.24
38 2 0.02
40 4 0.05
41 4 0.05
44 4 0.05
45 3 0.03
47 1 0.01
48 49 0.56
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.39
Consensus pattern (46 bp):
ACTTCTCTGTATCTCATCAGGAAGATGATCGCTCATTTTTTAATCC
Found at i:8542255 original size:85 final size:85
Alignment explanation
Indices: 8542111--8542275 Score: 242
Period size: 85 Copynumber: 1.9 Consensus size: 85
8542101 CGCTTCATTA
** *
8542111 ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGATCGCCTCATTGTTTTAATCCACTTCTCT
1 ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGATCGCCTCATTACTTTAACCCACTTCTCT
*
8542176 GTATCTCATTAGGAAAATGG
66 GTATCTCATCAGGAAAATGG
* * * *
8542196 ATTTGGT-TCACTTCTTTGTATCTCATCATGAAGATGATCGCTTTATTACTTTAACCCACTTCTC
1 ATTTGGTCT-ACTTCTCTGTATCTCATCAGGAAGATGATCGCCTCATTACTTTAACCCACTTCTC
8542260 TGTATCTCATCAGGAA
65 TGTATCTCATCAGGAA
8542276 GATGAGTTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
84 1 0.01
85 70 0.99
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (85 bp):
ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGATCGCCTCATTACTTTAACCCACTTCTCT
GTATCTCATCAGGAAAATGG
Found at i:8542380 original size:48 final size:45
Alignment explanation
Indices: 8542328--8542485 Score: 143
Period size: 48 Copynumber: 3.6 Consensus size: 45
8542318 GATTTGGTCT
8542328 ACTTCTCTGTATCTCATCAAGAAGATGACCGCCTCATTGTTTCAATCC
1 ACTTCTCTGTATCTCATCAAGAAGATGA-CG-CTCATTGTTT-AATCC
* **
8542376 ACTTCTCTGTATCTCATCAGGAAGATG--G---A---TTTGGTCC
1 ACTTCTCTGTATCTCATCAAGAAGATGACGCTCATTGTTTAATCC
* *
8542413 ACTTCTCTGTATCTCATCAAAAAGATGACTGCTTCATTGTTTTAATTC
1 ACTTCTCTGTATCTCATCAAGAAGATGAC-GC-TCATTG-TTTAATCC
* *
8542461 ACTTCTTTGTATCTCATCAGGAAGA
1 ACTTCTCTGTATCTCATCAAGAAGA
8542486 CAGATTTGGT
Statistics
Matches: 88, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
37 28 0.32
38 3 0.03
40 1 0.01
41 1 0.01
44 1 0.01
45 1 0.01
48 53 0.60
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (45 bp):
ACTTCTCTGTATCTCATCAAGAAGATGACGCTCATTGTTTAATCC
Found at i:8542464 original size:85 final size:85
Alignment explanation
Indices: 8542318--8542569 Score: 326
Period size: 85 Copynumber: 3.0 Consensus size: 85
8542308 TCGCTTCATT
* * *
8542318 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGCCTCATTGTTTCAATCCACTTCTC
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTAATCCACTTCTC
**
8542383 TGTATCTCATCAGGAAGATG
66 TGTATCTCATCAGGAAGACA
* * * *
8542403 GATTTGGTCCACTTCTCTGTATCTCATCAAAAAGATGACTGCTTCATTGTTTTAATTCACTTCTT
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTAATCCACTTCTC
8542468 TGTATCTCATCAGGAAGACA
66 TGTATCTCATCAGGAAGACA
* * * * * * * * *
8542488 GATTTGGTTCACTTCTCTGCATCTCGA-CAGGAAGATGACCACTTTATTGCTTTGACCCATTTCT
1 GATTTGGTCCACTTCTCTGTATCTC-ATCAAGAAGATGACCGCTTCATTGTTTTAATCCACTTCT
8542552 CTGTATCTCATCAGGAAG
65 CTGTATCTCATCAGGAAG
8542570 TTGGGGTTTG
Statistics
Matches: 144, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
85 143 0.99
86 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTAATCCACTTCTC
TGTATCTCATCAGGAAGACA
Found at i:8542494 original size:293 final size:293
Alignment explanation
Indices: 8542110--8542719 Score: 846
Period size: 293 Copynumber: 2.1 Consensus size: 293
8542100 TCGCTTCATT
* **
8542110 AATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGATCGCCTCATTGTTTTAATCCACTTCTC
1 AATTTGGTCCACTTCTCTGTATCTCATCAAAAAGATGATCGCCTCATTGTTTTAATCCACTTCTC
* ** * * * * *
8542175 TGTATCTCATTAGGAAAATGGATTTGGTTCACTTCTTTGTATCTC-ATCATGAAGATGATCGCTT
66 TGTATCTCATCAGGAAAACAGATTTGGTTCACTTCTCTGCATCTCGA-CAGGAAGATGACCACTT
* * *
8542239 TATTACTTTAACCCACTTCTCTGTATCTCATCAGGAAGATGAGTTTTGAAGTCTCATTCGTATTG
130 TATTACTTTAACCCACTTCTCTGTATCTCATCAGGAAGATGAGGTTTGAAGCCTCATTCGTACTG
* * *
8542304 GGCTTCGCTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGCCTCATTGTT
195 AGCTTCGCTTCATAGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATAACCGCCTCATTGTT
* *
8542369 TCAATCCACTTCTCTGTATCTCATCAGGAAGATG
260 TCAATCCACTTCTCTGTATCTCATCAAGAAGACG
* * *
8542403 GATTTGGTCCACTTCTCTGTATCTCATCAAAAAGATGA-CTGCTTCATTGTTTTAATTCACTTCT
1 AATTTGGTCCACTTCTCTGTATCTCATCAAAAAGATGATC-GCCTCATTGTTTTAATCCACTTCT
* *
8542467 TTGTATCTCATCAGGAAGACAGATTTGGTTCACTTCTCTGCATCTCGACAGGAAGATGACCACTT
65 CTGTATCTCATCAGGAAAACAGATTTGGTTCACTTCTCTGCATCTCGACAGGAAGATGACCACTT
* * * * * *
8542532 TATTGCTTTGACCCATTTCTCTGTATCTCATCAGGAAGTTGGGGTTTGAAGCCTCATTCGTGCTG
130 TATTACTTTAACCCACTTCTCTGTATCTCATCAGGAAGATGAGGTTTGAAGCCTCATTCGTACTG
* * * * *
8542597 AGCTTCGCTTTATAGATTTGGTCTACTTTTCTGTATTTCATCAAGAAGATAACCGCTTCATTTTT
195 AGCTTCGCTTCATAGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATAACCGCCTCATTGTT
*
8542662 TCAATCCACTTTTCTGTATCTCATCAAGAAGACG
260 TCAATCCACTTCTCTGTATCTCATCAAGAAGACG
* *
8542696 AATTTGGTTCACTTCTCTGCATCT
1 AATTTGGTCCACTTCTCTGTATCT
8542720 TGTAGGAAGA
Statistics
Matches: 276, Mismatches: 39, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
292 1 0.00
293 274 0.99
294 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (293 bp):
AATTTGGTCCACTTCTCTGTATCTCATCAAAAAGATGATCGCCTCATTGTTTTAATCCACTTCTC
TGTATCTCATCAGGAAAACAGATTTGGTTCACTTCTCTGCATCTCGACAGGAAGATGACCACTTT
ATTACTTTAACCCACTTCTCTGTATCTCATCAGGAAGATGAGGTTTGAAGCCTCATTCGTACTGA
GCTTCGCTTCATAGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATAACCGCCTCATTGTTT
CAATCCACTTCTCTGTATCTCATCAAGAAGACG
Found at i:8542853 original size:39 final size:38
Alignment explanation
Indices: 8542757--8542946 Score: 130
Period size: 39 Copynumber: 4.8 Consensus size: 38
8542747 CACATAACTG
* * *
8542757 CAATCTACCCCATGATCGAGGTAAGAGATTGGATGATGGCT
1 CAATCTGCCTCATGATCGGGGTAAGAGATTGGATGAT---T
* * * * *
8542798 GTAATTTACCTTATGATCGGGGTAAGAGATTGGATGGTT
1 -CAATCTGCCTCATGATCGGGGTAAGAGATTGGATGATT
* * * **
8542837 ACAATCTGTCTAATGATCGGGGTAAAAGATCAGATGACTGT
1 -CAATCTGCCTCATGATCGGGGTAAGAGATTGGATGA-T-T
* * * *
8542878 -AATCTGCCCCATGATCGGGGTAAGAGGTTGGGTGCTT
1 CAATCTGCCTCATGATCGGGGTAAGAGATTGGATGATT
* * *
8542915 CAATCTGCCTCACGGTCGGGGTAAGATATTGG
1 CAATCTGCCTCATGATCGGGGTAAGAGATTGG
8542947 TGCCTTCAAT
Statistics
Matches: 115, Mismatches: 30, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
37 1 0.01
38 27 0.23
39 54 0.47
40 1 0.01
41 1 0.01
42 31 0.27
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (38 bp):
CAATCTGCCTCATGATCGGGGTAAGAGATTGGATGATT
Found at i:8545136 original size:3 final size:3
Alignment explanation
Indices: 8545128--8545158 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8545118 ATCATCCCTC
8545128 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
8545159 TTTCAATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:8549702 original size:29 final size:29
Alignment explanation
Indices: 8549669--8549763 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 29
8549659 GTTAACAATG
*
8549669 AAATTTTGGAAAGTTCGAGGG-CTAAATTT
1 AAATTTTGGAAAGTT-GAGGGTCTAAATTC
* * * *
8549698 AAATTTTTGGGAAGTTTAGGGTTTGAATTC
1 AAA-TTTTGGAAAGTTGAGGGTCTAAATTC
* *
8549728 AAATTTTGGAAAGTTTAAGGGTC-AAATCC
1 AAATTTTGGAAAG-TTGAGGGTCTAAATTC
8549757 AAATTTT
1 AAATTTT
8549764 TAGGAAGTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
29 27 0.51
30 26 0.49
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (29 bp):
AAATTTTGGAAAGTTGAGGGTCTAAATTC
Found at i:8549813 original size:29 final size:29
Alignment explanation
Indices: 8549758--8549890 Score: 117
Period size: 29 Copynumber: 4.5 Consensus size: 29
8549748 GTCAAATCCA
*
8549758 AATTTTTAGG-AAGTTTGGGGATCAAAATAT
1 AATTTTT-GGAAAGTTCGGGGAT-AAAATAT
*
8549788 GATTTTTGGAAAGTTCGGGGATAAAATAT
1 AATTTTTGGAAAGTTCGGGGATAAAATAT
* * * *
8549817 GATTTTTAGAAAGTTCAGGGG-TCAAATCT
1 AATTTTTGGAAAGTTC-GGGGATAAAATAT
* * *
8549846 AAATTTTTGGAAAGTTTGAGGTTAAAATAT
1 -AATTTTTGGAAAGTTCGGGGATAAAATAT
* *
8549876 AATTTCTAGAAAGTT
1 AATTTTTGGAAAGTT
8549891 AAGGGATCTC
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
29 46 0.53
30 40 0.47
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.37
Consensus pattern (29 bp):
AATTTTTGGAAAGTTCGGGGATAAAATAT
Found at i:8549822 original size:59 final size:59
Alignment explanation
Indices: 8549758--8549895 Score: 154
Period size: 59 Copynumber: 2.3 Consensus size: 59
8549748 GTCAAATCCA
* * * *
8549758 AATTTTTAGGAAGTT-TGGGGATCAAA-ATATGATTTTTGGAAAGTTCGGGGATAAAATAT
1 AATTTTTAGAAAGTTCAGGGG-TCAAATATA-AATTTTTGGAAAGTTCGAGGATAAAATAT
* * * *
8549817 GATTTTTAGAAAGTTCAGGGGTCAAATCTAAATTTTTGGAAAGTTTGAGGTTAAAATAT
1 AATTTTTAGAAAGTTCAGGGGTCAAATATAAATTTTTGGAAAGTTCGAGGATAAAATAT
* *
8549876 AATTTCTAGAAAGTTAAGGG
1 AATTTTTAGAAAGTTCAGGG
8549896 ATCTCTTGGG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 60 0.91
60 6 0.09
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (59 bp):
AATTTTTAGAAAGTTCAGGGGTCAAATATAAATTTTTGGAAAGTTCGAGGATAAAATAT
Found at i:8549859 original size:30 final size:30
Alignment explanation
Indices: 8549672--8549861 Score: 117
Period size: 30 Copynumber: 6.4 Consensus size: 30
8549662 AACAATGAAA
* *
8549672 TTTTGGAAAGTTCGAGGGCT-AAATTTAAAT
1 TTTTGGAAAGTTC-AGGGGTCAAATATAAAT
* * * **
8549702 TTTTGGGAAGTTTAGGGTTTGAAT-TCAAA-
1 TTTTGGAAAGTTCAGGGGTCAAATAT-AAAT
* * **
8549731 TTTTGGAAAGTTTAAGGGTCAAATCCAAAT
1 TTTTGGAAAGTTCAGGGGTCAAATATAAAT
* *
8549761 TTTTAGG-AAGTT-TGGGGATCAAA-ATATGAT
1 TTTT-GGAAAGTTCAGGGG-TCAAATATA-AAT
* *
8549791 TTTTGGAAAGTTC-GGGGATAAAATAT-GAT
1 TTTTGGAAAGTTCAGGGG-TCAAATATAAAT
* *
8549820 TTTTAGAAAGTTCAGGGGTCAAATCTAAAT
1 TTTTGGAAAGTTCAGGGGTCAAATATAAAT
8549850 TTTTGGAAAGTT
1 TTTTGGAAAGTT
8549862 TGAGGTTAAA
Statistics
Matches: 127, Mismatches: 21, Indels: 24
0.74 0.12 0.14
Matches are distributed among these distances:
29 55 0.43
30 68 0.54
31 4 0.03
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (30 bp):
TTTTGGAAAGTTCAGGGGTCAAATATAAAT
Found at i:8554655 original size:46 final size:44
Alignment explanation
Indices: 8554565--8554657 Score: 127
Period size: 46 Copynumber: 2.1 Consensus size: 44
8554555 TTACAGCATT
*
8554565 ATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACACAAGAATACTATTACAGCCCTATTCC
8554609 ATTCCATTCAACCAAA-A-AACTGAAATACTGATTACAGCCCTATTCC
1 ATTCCATTCAACCAAACACAA--G-AATACT-ATTACAGCCCTATTCC
8554655 ATT
1 ATT
8554658 ACAATTCTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
42 2 0.05
43 1 0.02
44 17 0.39
45 6 0.14
46 18 0.41
ACGTcount: A:0.39, C:0.28, G:0.05, T:0.28
Consensus pattern (44 bp):
ATTCCATTCAACCAAACACAAGAATACTATTACAGCCCTATTCC
Found at i:8554660 original size:16 final size:16
Alignment explanation
Indices: 8554639--8554678 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
8554629 TGAAATACTG
8554639 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
***
8554655 ATTACAATTCTATTCC
1 ATTACAGCCCTATTCC
8554671 ATTACAGC
1 ATTACAGC
8554679 GAACCAAACG
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:8554904 original size:2 final size:2
Alignment explanation
Indices: 8554897--8555011 Score: 106
Period size: 2 Copynumber: 58.0 Consensus size: 2
8554887 TAAATAGGCG
* * * * * * *
8554897 TA TA TA TA TA TA CA TA TA TA TG TA CA CA CA CA CA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
8554939 TA TA TA TA T- TA TA TA TA CA TA TA CA TA TA TA TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
8554980 CA TA TA TA TA TA TA TA TA CA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8555012 GGTGTTAGTA
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
1 1 0.01
2 95 0.99
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (2 bp):
TA
Found at i:8560309 original size:47 final size:44
Alignment explanation
Indices: 8560225--8560313 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 44
8560215 TCTAAATTAA
*
8560225 TCCTTAAACTTGACAATTATTACATTGGGGCATGAACATTTTAG
1 TCCTTAAACTTGACAATTATTACATTAGGGCATGAACATTTTAG
*
8560269 TCCTTAAACTTGACAGTTATTATTACATTAGGGTATGAACATTTT
1 TCCTTAAACTTGACA---ATTATTACATTAGGGCATGAACATTTT
8560314 TTTGTCCAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
44 15 0.38
47 25 0.62
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (44 bp):
TCCTTAAACTTGACAATTATTACATTAGGGCATGAACATTTTAG
Found at i:8568410 original size:30 final size:31
Alignment explanation
Indices: 8568348--8568408 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
8568338 TTTAAATTTT
* *
8568348 TAATAAATAAATTATATTTTATCCTTTTAAAA
1 TAATAAA-AATTTATATTTAATCCTTTTAAAA
8568380 TAATAAAAATTTA-ATTTAAT-CTTTTAAAA
1 TAATAAAAATTTATATTTAATCCTTTTAAAA
8568409 ATTATATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 9 0.33
30 6 0.22
31 5 0.19
32 7 0.26
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (31 bp):
TAATAAAAATTTATATTTAATCCTTTTAAAA
Found at i:8572375 original size:12 final size:12
Alignment explanation
Indices: 8572357--8572440 Score: 77
Period size: 12 Copynumber: 7.3 Consensus size: 12
8572347 TTGTTTGTGC
8572357 TGTTATTTTTGT
1 TGTTATTTTTGT
*
8572369 TGCTA--TTT-T
1 TGTTATTTTTGT
**
8572378 TGTTATTTTTAA
1 TGTTATTTTTGT
8572390 TGTTA-TTTTGT
1 TGTTATTTTTGT
*
8572401 TGTTATTTTTGC
1 TGTTATTTTTGT
* * *
8572413 TGCTGTTTTGGT
1 TGTTATTTTTGT
8572425 TGTTATTTTTGT
1 TGTTATTTTTGT
8572437 TGTT
1 TGTT
8572441 TGGATGTTAT
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
9 5 0.09
10 3 0.05
11 12 0.22
12 35 0.64
ACGTcount: A:0.10, C:0.04, G:0.18, T:0.69
Consensus pattern (12 bp):
TGTTATTTTTGT
Found at i:8572407 original size:23 final size:24
Alignment explanation
Indices: 8572357--8572434 Score: 74
Period size: 23 Copynumber: 3.4 Consensus size: 24
8572347 TTGTTTGTGC
**
8572357 TGTTATTTTTGTTGCTA-TTT--T
1 TGTTATTTTTAATGCTATTTTGGT
*
8572378 TGTTATTTTTAATGTTATTTT-GT
1 TGTTATTTTTAATGCTATTTTGGT
** *
8572401 TGTTATTTTTGCTGCTGTTTTGGT
1 TGTTATTTTTAATGCTATTTTGGT
8572425 TGTTATTTTT
1 TGTTATTTTT
8572435 GTTGTTTGGA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
21 14 0.30
22 3 0.06
23 18 0.38
24 12 0.26
ACGTcount: A:0.10, C:0.04, G:0.17, T:0.69
Consensus pattern (24 bp):
TGTTATTTTTAATGCTATTTTGGT
Found at i:8572449 original size:44 final size:44
Alignment explanation
Indices: 8572339--8572454 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 44
8572329 TTGATTGATG
* * * *
8572339 TTTTCATGTTGTTTGTGCTGTTATTTTTGTTGCTATTTTTGTTAT
1 TTTTAATGTTGTTTG-GATGTTATTTTTGCTGCTATTTTGGTTAT
* * * * *
8572384 TTTTAATGTTATTTTGTTGTTATTTTTGCTGCTGTTTTGGTTGT
1 TTTTAATGTTGTTTGGATGTTATTTTTGCTGCTATTTTGGTTAT
*
8572428 TATTT-TTGTTGTTTGGATGTTATTTTT
1 T-TTTAATGTTGTTTGGATGTTATTTTT
8572455 ATGCGTTTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
44 43 0.74
45 15 0.26
ACGTcount: A:0.09, C:0.04, G:0.19, T:0.67
Consensus pattern (44 bp):
TTTTAATGTTGTTTGGATGTTATTTTTGCTGCTATTTTGGTTAT
Found at i:8572462 original size:21 final size:21
Alignment explanation
Indices: 8572401--8572462 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 21
8572391 GTTATTTTGT
* *
8572401 TGTTATTTTTGCTGCTGTTTTGGT
1 TGTTATTTTT-ATGC-G-TTTGGA
* *
8572425 TGTTATTTTTGT-TGTTTGGA
1 TGTTATTTTTATGCGTTTGGA
8572445 TGTTATTTTTATGCGTTT
1 TGTTATTTTTATGCGTTT
8572463 TTACTATTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.50
21 5 0.16
23 1 0.03
24 10 0.31
ACGTcount: A:0.08, C:0.05, G:0.23, T:0.65
Consensus pattern (21 bp):
TGTTATTTTTATGCGTTTGGA
Found at i:8572591 original size:19 final size:18
Alignment explanation
Indices: 8572567--8572602 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
8572557 TAATATAATT
8572567 TTTTTTAATGTATTTTAAA
1 TTTTTTAATGT-TTTTAAA
8572586 TTTTTTAATGTTTTTAA
1 TTTTTTAATGTTTTTAA
8572603 GTGTATTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
TTTTTTAATGTTTTTAAA
Found at i:8577489 original size:16 final size:17
Alignment explanation
Indices: 8577437--8577482 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
8577427 TATATATACA
*
8577437 TATATTTATTTATGTATTT
1 TATATTT-TTTAT-TAATT
8577456 TATATTTTTTATTAATT
1 TATATTTTTTATTAATT
8577473 TAT-TTTTTTA
1 TATATTTTTTA
8577483 CTTATTTCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 7 0.27
17 7 0.27
18 5 0.19
19 7 0.27
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (17 bp):
TATATTTTTTATTAATT
Found at i:8580787 original size:98 final size:99
Alignment explanation
Indices: 8580525--8580900 Score: 315
Period size: 99 Copynumber: 3.9 Consensus size: 99
8580515 GGATCGAATA
* * * * * *
8580525 AACATCAAATCCCATACCCTTGAGTTGTAGTGGGTC-GAATTAAAACATCGAAGCAGATCTCAAT
1 AACATCAAATCTCATACCCTTAAGTTGCAGTAGGTCAG-ATTAAAACAACGAAGCAAATCTCAAT
* * * *
8580589 GTCTCTGAGGTTATAGTGGAAT----AG-AGTGA-
65 TTCCCTGAGGTTACAGTGGAATGGAGAGAAGTTAC
* * * * ** * ** ** *
8580618 AGCATCAGATC-CTATATCCCTAAAGTTGCAGTAGATTGGATCAAAATGA-GTAA-CGGATATCA
1 AACATCAAATCTC-ATA-CCCTTAAGTTGCAGTAGGTCAGATTAAAACAACG-AAGCAAATCTCA
*
8580680 ATGTCCCTGAGGTTACAGTGGAATGGAGAGAAGTTAC
63 ATTTCCCTGAGGTTACAGTGGAATGGAGAGAAGTTAC
* *
8580717 AACATCAAAT-TCATACCCTTAAGTTGCAGTAGGTTAGATTAAAACAATGAAGCAAATCTCAATT
1 AACATCAAATCTCATACCCTTAAGTTGCAGTAGGTCAGATTAAAACAACGAAGCAAATCTCAATT
* *
8580781 TCCCTGAGGTTACAATAGAATGGAGAGAAGTTAC
66 TCCCTGAGGTTACAGTGGAATGGAGAGAAGTTAC
* * * * * * * * *
8580815 AATATCATATCTCATACCTTTGAGTTGTAGTGGGTCGGATTAAAATAACGAAGCAGATCTCAATT
1 AACATCAAATCTCATACCCTTAAGTTGCAGTAGGTCAGATTAAAACAACGAAGCAAATCTCAATT
8580880 TCCCTGAGGTTACAGTGGAAT
66 TCCCTGAGGTTACAGTGGAAT
8580901 AGAATGAAGC
Statistics
Matches: 225, Mismatches: 44, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
92 1 0.00
93 42 0.19
94 22 0.10
95 1 0.00
97 30 0.13
98 56 0.25
99 73 0.32
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (99 bp):
AACATCAAATCTCATACCCTTAAGTTGCAGTAGGTCAGATTAAAACAACGAAGCAAATCTCAATT
TCCCTGAGGTTACAGTGGAATGGAGAGAAGTTAC
Found at i:8581184 original size:42 final size:42
Alignment explanation
Indices: 8581121--8581407 Score: 376
Period size: 42 Copynumber: 6.8 Consensus size: 42
8581111 CACCATCCAA
* *
8581121 TCTTTTACCCCTAATCCAGAGGGGCAGATTGAAGCTATCTAG
1 TCTTTTACCCCTAATCTAGAGGGGCAGATTGAAGCCATCTAG
* * * *
8581163 TCTTTTATCCCTAATCTAGAGGAGCAGATTGAAGCCATCCAA
1 TCTTTTACCCCTAATCTAGAGGGGCAGATTGAAGCCATCTAG
* * * * * *
8581205 TCTTTTACCCCTAATCGAGAGGGGTAAATTAAAGTCATTTAG
1 TCTTTTACCCCTAATCTAGAGGGGCAGATTGAAGCCATCTAG
* *
8581247 TCTTTTACCCCTAATCTAAAGGGGCAGATTAAAGCCATCTAG
1 TCTTTTACCCCTAATCTAGAGGGGCAGATTGAAGCCATCTAG
* * *
8581289 TCTTTTACCCCCAATCTAGAGGGGTAGATTGAAGTCATCTAG
1 TCTTTTACCCCTAATCTAGAGGGGCAGATTGAAGCCATCTAG
* * *
8581331 TCTTTTTACCCCTAATCTAGAAGGGCAGATTGAAGCCATCCAA
1 TC-TTTTACCCCTAATCTAGAGGGGCAGATTGAAGCCATCTAG
*
8581374 TCTTTTACCCCTAATCTAGAAGGGCAGATTGAAG
1 TCTTTTACCCCTAATCTAGAGGGGCAGATTGAAG
8581408 TCACACACTC
Statistics
Matches: 211, Mismatches: 33, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
42 175 0.83
43 36 0.17
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (42 bp):
TCTTTTACCCCTAATCTAGAGGGGCAGATTGAAGCCATCTAG
Found at i:8581866 original size:24 final size:24
Alignment explanation
Indices: 8581822--8581867 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
8581812 AAACCAAAAA
*
8581822 TATTTTAATTAAAAAGTCCAAAGT
1 TATTTTAATTAAAAAGCCCAAAGT
*
8581846 TATTTTAAATTACAAA-CCCAAA
1 TATTTT-AATTAAAAAGCCCAAA
8581868 ACCTAAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (24 bp):
TATTTTAATTAAAAAGCCCAAAGT
Found at i:8582898 original size:9 final size:9
Alignment explanation
Indices: 8582884--8582943 Score: 84
Period size: 9 Copynumber: 6.2 Consensus size: 9
8582874 TTTCAAAAAA
8582884 AATAATTTT
1 AATAATTTT
8582893 AATAATTTT
1 AATAATTTT
8582902 AAAATAATTTT
1 --AATAATTTT
8582913 AATAATTTT
1 AATAATTTT
8582922 AAAATAATTTT
1 --AATAATTTT
8582933 AATAATTTT
1 AATAATTTT
8582942 AA
1 AA
8582944 AATCATTTGC
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
9 29 0.62
11 18 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AATAATTTT
Found at i:8582907 original size:20 final size:20
Alignment explanation
Indices: 8582882--8582951 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
8582872 TATTTCAAAA
8582882 AAAATAATTTTAATAATTTT
1 AAAATAATTTTAATAATTTT
8582902 AAAATAATTTTAATAATTTT
1 AAAATAATTTTAATAATTTT
8582922 AAAATAATTTTAATAATTTT
1 AAAATAATTTTAATAATTTT
*
8582942 AAAATCATTT
1 AAAATAATTT
8582952 GCTGACGTGC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAATAATTTTAATAATTTT
Found at i:8583287 original size:18 final size:19
Alignment explanation
Indices: 8583254--8583289 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8583244 ATTTATGTAT
*
8583254 TTTATATTTTATTTATTTA
1 TTTATATTTTACTTATTTA
8583273 TTTAT-TTTTACTTATTT
1 TTTATATTTTACTTATTT
8583290 CGAAACTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATATTTTACTTATTTA
Found at i:8584390 original size:17 final size:18
Alignment explanation
Indices: 8584370--8584408 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
8584360 ATTTGTTTTA
8584370 ATTTTTCATTT-ATTAT-T
1 ATTTTT-ATTTCATTATGT
8584387 ATTTTTATTTCATTATGT
1 ATTTTTATTTCATTATGT
8584405 ATTT
1 ATTT
8584409 ACTTGTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.20
17 11 0.55
18 5 0.25
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (18 bp):
ATTTTTATTTCATTATGT
Found at i:8585715 original size:31 final size:30
Alignment explanation
Indices: 8585679--8585736 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
8585669 TTTATAAAAA
*
8585679 AATTATAACAAATTATTTATAAATTATTGAG
1 AATTATAACAAATTATTAAT-AATTATTGAG
* *
8585710 AATTATAAGAAGTTATTAATAATTATT
1 AATTATAACAAATTATTAATAATTATT
8585737 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (30 bp):
AATTATAACAAATTATTAATAATTATTGAG
Found at i:8589485 original size:49 final size:49
Alignment explanation
Indices: 8589413--8589512 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
8589403 CTTTTCAACA
8589413 CTTAAAAGATAGAATGAAAAGAAAGGTTGACGGATGGAGTACAAAGTGG
1 CTTAAAAGATAGAATGAAAAGAAAGGTTGACGGATGGAGTACAAAGTGG
8589462 CTTAAAAGATAGAATGAAAAGAAAGGTTGACGGATGGAGTACAAAGTGG
1 CTTAAAAGATAGAATGAAAAGAAAGGTTGACGGATGGAGTACAAAGTGG
8589511 CT
1 CT
8589513 ATCTCAAGGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.44, C:0.07, G:0.30, T:0.19
Consensus pattern (49 bp):
CTTAAAAGATAGAATGAAAAGAAAGGTTGACGGATGGAGTACAAAGTGG
Found at i:8589507 original size:25 final size:25
Alignment explanation
Indices: 8589430--8589507 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
8589420 GATAGAATGA
8589430 AAAGAAAGGTTGACGGATGGAGTAC
1 AAAGAAAGGTTGACGGATGGAGTAC
* * ** * *
8589455 AAAG--TGGCTTAAAAGATAGAATGA-
1 AAAGAAAGG-TTGACGGATGGAGT-AC
8589479 AAAGAAAGGTTGACGGATGGAGTAC
1 AAAGAAAGGTTGACGGATGGAGTAC
8589504 AAAG
1 AAAG
8589508 TGGCTATCTC
Statistics
Matches: 36, Mismatches: 12, Indels: 10
0.62 0.21 0.17
Matches are distributed among these distances:
23 2 0.06
24 14 0.39
25 18 0.50
26 2 0.06
ACGTcount: A:0.45, C:0.06, G:0.32, T:0.17
Consensus pattern (25 bp):
AAAGAAAGGTTGACGGATGGAGTAC
Found at i:8595941 original size:17 final size:18
Alignment explanation
Indices: 8595904--8595942 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
8595894 TTAAACATTG
*
8595904 AGAATTGACAAAAACAGA
1 AGAATTGACAAAAAAAGA
*
8595922 AGAATTG-CAAAAAAATA
1 AGAATTGACAAAAAAAGA
8595939 AGAA
1 AGAA
8595943 AAGACAAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.64, C:0.08, G:0.15, T:0.13
Consensus pattern (18 bp):
AGAATTGACAAAAAAAGA
Found at i:8600718 original size:34 final size:34
Alignment explanation
Indices: 8600675--8600748 Score: 148
Period size: 34 Copynumber: 2.2 Consensus size: 34
8600665 CATGATTATT
8600675 GATTTTGGTATTTTTTTAAAATATATATAATTTG
1 GATTTTGGTATTTTTTTAAAATATATATAATTTG
8600709 GATTTTGGTATTTTTTTAAAATATATATAATTTG
1 GATTTTGGTATTTTTTTAAAATATATATAATTTG
8600743 GATTTT
1 GATTTT
8600749 AATTCAAGGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (34 bp):
GATTTTGGTATTTTTTTAAAATATATATAATTTG
Found at i:8600890 original size:34 final size:34
Alignment explanation
Indices: 8600850--8600917 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
8600840 GATCGGATCG
* *
8600850 ATTTATTAAAAAGAATCGATTTAATATATTTTTT
1 ATTTATTAAAAAGAATCGATTCAATACATTTTTT
8600884 ATTTATTAAAAAGAATCGATTCAATACATTTTTT
1 ATTTATTAAAAAGAATCGATTCAATACATTTTTT
8600918 TATGTATTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (34 bp):
ATTTATTAAAAAGAATCGATTCAATACATTTTTT
Found at i:8601254 original size:30 final size:29
Alignment explanation
Indices: 8601197--8601259 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 29
8601187 TAATGTATAA
* *
8601197 TTTTATACATAAATTATGATTTTATTTAG
1 TTTTATACATAAATTATGAATTGATTTAG
*
8601226 TTTTATACATAAAATTTTGAATTGATTTAG
1 TTTTATACAT-AAATTATGAATTGATTTAG
8601256 TTTT
1 TTTT
8601260 CACAAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (29 bp):
TTTTATACATAAATTATGAATTGATTTAG
Found at i:8608244 original size:20 final size:20
Alignment explanation
Indices: 8608207--8608247 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
8608197 ATACATGAAA
*
8608207 TTAAAAAAATAACTCTTAAT
1 TTAAAAAAATAACACTTAAT
8608227 TTAAAGAAAATAA-ACTTAAT
1 TTAAA-AAAATAACACTTAAT
8608247 T
1 T
8608248 ATCTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (20 bp):
TTAAAAAAATAACACTTAAT
Found at i:8610885 original size:12 final size:12
Alignment explanation
Indices: 8610868--8610904 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
8610858 ACAATTCATA
8610868 TCACTTTCAATT
1 TCACTTTCAATT
*
8610880 TCACTTTCACTT
1 TCACTTTCAATT
8610892 TCACTTTCAATT
1 TCACTTTCAATT
8610904 T
1 T
8610905 TGATCACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (12 bp):
TCACTTTCAATT
Found at i:8610887 original size:6 final size:6
Alignment explanation
Indices: 8610868--8610900 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
8610858 ACAATTCATA
*
8610868 TCACTT TCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCA
8610901 ATTTTGATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.21, C:0.30, G:0.00, T:0.48
Consensus pattern (6 bp):
TCACTT
Found at i:8611077 original size:22 final size:22
Alignment explanation
Indices: 8611051--8611096 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
8611041 TAAACATATA
*
8611051 ATATTTCGCATATACATTGTTC
1 ATATTTCACATATACATTGTTC
8611073 ATATTTCACATATACATTGTTC
1 ATATTTCACATATACATTGTTC
8611095 AT
1 AT
8611097 CACATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.46
Consensus pattern (22 bp):
ATATTTCACATATACATTGTTC
Found at i:8611101 original size:18 final size:20
Alignment explanation
Indices: 8611059--8611104 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
8611049 TAATATTTCG
8611059 CATATACATTGTTCATATTTCA
1 CATATACATTGTTCA-A-TTCA
8611081 CATATACATTGTTC-A-TCA
1 CATATACATTGTTCAATTCA
8611099 CATATA
1 CATATA
8611105 TATCATCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.38
20 1 0.04
22 14 0.58
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (20 bp):
CATATACATTGTTCAATTCA
Found at i:8622009 original size:17 final size:16
Alignment explanation
Indices: 8621965--8622010 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
8621955 AAAAAATAGA
8621965 AATTTATAAAAATTAT
1 AATTTATAAAAATTAT
* **
8621981 TATAAATGAAAAATTAT
1 AATTTAT-AAAAATTAT
8621998 AATTTATAAAAAT
1 AATTTATAAAAAT
8622011 AATTTAAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (16 bp):
AATTTATAAAAATTAT
Found at i:8628403 original size:19 final size:20
Alignment explanation
Indices: 8628376--8628415 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8628366 TTAAACATTT
* *
8628376 TATATAAAAATATT-ATTAC
1 TATAAAAAAACATTCATTAC
8628395 TATAAAAAAACATTCATTAC
1 TATAAAAAAACATTCATTAC
8628415 T
1 T
8628416 TTATTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (20 bp):
TATAAAAAAACATTCATTAC
Found at i:8632709 original size:9 final size:8
Alignment explanation
Indices: 8632662--8632747 Score: 54
Period size: 9 Copynumber: 10.4 Consensus size: 8
8632652 AAATTTAAAA
8632662 TTTAATTAT
1 TTTAATT-T
*
8632671 TGTAA-TT
1 TTTAATTT
8632678 TTT-A-TT
1 TTTAATTT
8632684 TTTAATTTT
1 TTTAA-TTT
8632693 TTTAATTT
1 TTTAATTT
8632701 TTTAGATTT
1 TTTA-ATTT
*
8632710 TTGAATTT
1 TTTAATTT
8632718 AGATTTAA-TT
1 ---TTTAATTT
*
8632728 ATTAATTT
1 TTTAATTT
8632736 TGTTAATTT
1 T-TTAATTT
8632745 TTT
1 TTT
8632748 GTTAACATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
6 6 0.10
7 8 0.13
8 16 0.26
9 26 0.42
10 2 0.03
11 4 0.06
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (8 bp):
TTTAATTT
Found at i:8635429 original size:1 final size:1
Alignment explanation
Indices: 8635423--8635452 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
8635413 CTGAGGCAAT
*
8635423 CCCCCCCCCCCCCCCGCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
8635453 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.97, G:0.03, T:0.00
Consensus pattern (1 bp):
C
Found at i:8635444 original size:15 final size:15
Alignment explanation
Indices: 8635424--8635452 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8635414 TGAGGCAATC
8635424 CCCCCCCCCCCCCCG
1 CCCCCCCCCCCCCCG
8635439 CCCCCCCCCCCCCC
1 CCCCCCCCCCCCCC
8635453 AAAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.97, G:0.03, T:0.00
Consensus pattern (15 bp):
CCCCCCCCCCCCCCG
Found at i:8637026 original size:1 final size:1
Alignment explanation
Indices: 8637022--8637051 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
8637012 TCTACTTTTA
8637022 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
8637052 TTCTTCCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:8657780 original size:21 final size:20
Alignment explanation
Indices: 8657742--8657782 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8657732 CTAATGTTTC
*
8657742 GTTATTTTTCTCTTTATTTT
1 GTTATTTTTCTCTATATTTT
*
8657762 GTTATTTTTTTACTATATTTT
1 GTTATTTTTCT-CTATATTTT
8657783 AATTTCGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.15, C:0.07, G:0.05, T:0.73
Consensus pattern (20 bp):
GTTATTTTTCTCTATATTTT
Found at i:8658306 original size:49 final size:49
Alignment explanation
Indices: 8658234--8658332 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
8658224 ATAGATGGGA
8658234 CTCATCCGGATTCGAATCTACGAGGAACAGTGATAGATTTTATTTTGAG
1 CTCATCCGGATTCGAATCTACGAGGAACAGTGATAGATTTTATTTTGAG
8658283 CTCATCCGGATTCGAATCTACGAGGAACAGTGATAGATTTTATTTTGAG
1 CTCATCCGGATTCGAATCTACGAGGAACAGTGATAGATTTTATTTTGAG
8658332 C
1 C
8658333 GGCTTCGAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (49 bp):
CTCATCCGGATTCGAATCTACGAGGAACAGTGATAGATTTTATTTTGAG
Found at i:8662652 original size:2 final size:2
Alignment explanation
Indices: 8662645--8662670 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8662635 TAAAAATGAT
8662645 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
8662671 GGTGGAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8663180 original size:18 final size:19
Alignment explanation
Indices: 8663168--8663203 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8663158 AAATAATTTT
8663168 AAAATTCAAAATATTTATA
1 AAAATTCAAAATATTTATA
8663187 AAAATTCAAAA-ATTTAT
1 AAAATTCAAAATATTTAT
8663204 TTTTTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTCAAAATATTTATA
Found at i:8663212 original size:22 final size:22
Alignment explanation
Indices: 8663164--8663223 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
8663154 AAAAAAATAA
8663164 TTTTAAAATTC-AAAA--TATT
1 TTTTAAAATTCAAAAATTTATT
* *
8663183 TATAAAAATTCAAAAATTTATT
1 TTTTAAAATTCAAAAATTTATT
8663205 TTTTAAAATT-ATAAAATTT
1 TTTTAAAATTCA-AAAATTT
8663224 TAAAAAATCT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 9 0.27
20 4 0.12
21 1 0.03
22 19 0.58
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTTAAAATTCAAAAATTTATT
Found at i:8663487 original size:21 final size:21
Alignment explanation
Indices: 8663462--8663505 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
8663452 TTTTTAATTT
*
8663462 AATTTGATCTAATTCGATTCG
1 AATTTGATCTAACTCGATTCG
* * *
8663483 AATTTTATTTTACTCGATTCG
1 AATTTGATCTAACTCGATTCG
8663504 AA
1 AA
8663506 AAAATTTCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (21 bp):
AATTTGATCTAACTCGATTCG
Found at i:8664645 original size:21 final size:21
Alignment explanation
Indices: 8664619--8664669 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
8664609 ATAATAGTAT
8664619 AATCCAAATATAAAATTTAGA
1 AATCCAAATATAAAATTTAGA
* * *
8664640 AATCCAAACATAAAGTTTATA
1 AATCCAAATATAAAATTTAGA
8664661 AATCCAAAT
1 AATCCAAAT
8664670 TACATAATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.55, C:0.14, G:0.04, T:0.27
Consensus pattern (21 bp):
AATCCAAATATAAAATTTAGA
Found at i:8664796 original size:46 final size:46
Alignment explanation
Indices: 8664730--8664868 Score: 244
Period size: 46 Copynumber: 3.0 Consensus size: 46
8664720 TTAATCATGT
8664730 TCATCATGGCATGATGAGATATCCGAAACTTCGTTTGTCTCATCAA
1 TCATCATGGCATGATGAGATATCCGAAACTTCGTTTGTCTCATCAA
*
8664776 TCATCATGGCATGATGAGATATCCGAAATTTCGTTTGTCTCATCAA
1 TCATCATGGCATGATGAGATATCCGAAACTTCGTTTGTCTCATCAA
*
8664822 TCATCATGGCAT-AGTGGGATATCCGAAACTTCGTTTGTCTCATCAA
1 TCATCATGGCATGA-TGAGATATCCGAAACTTCGTTTGTCTCATCAA
8664868 T
1 T
8664869 GATAATAGTT
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
45 1 0.01
46 88 0.99
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (46 bp):
TCATCATGGCATGATGAGATATCCGAAACTTCGTTTGTCTCATCAA
Found at i:8667001 original size:32 final size:31
Alignment explanation
Indices: 8666964--8667036 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 31
8666954 ATATTAAATT
8666964 TTTAATCAA-TCTTAATTTCTTTAAA-AGTTTG
1 TTTAATCAATTC-TAATTTCTTTAAAGA-TTTG
8666995 TATTAATCAATTCTAATTTCTTTAAAGATTTG
1 T-TTAATCAATTCTAATTTCTTTAAAGATTTG
8667027 TTCTAATCAA
1 TT-TAATCAA
8667037 CCTCTAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
31 2 0.05
32 33 0.87
33 3 0.08
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.49
Consensus pattern (31 bp):
TTTAATCAATTCTAATTTCTTTAAAGATTTG
Found at i:8667927 original size:19 final size:22
Alignment explanation
Indices: 8667905--8667947 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
8667895 CTAATTTGAA
8667905 TATTA-TTTA-AAT-GCATATT
1 TATTACTTTATAATAGCATATT
*
8667924 TATTACTTTATAATATCATATT
1 TATTACTTTATAATAGCATATT
8667946 TA
1 TA
8667948 AAATGAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 4 0.20
21 3 0.15
22 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (22 bp):
TATTACTTTATAATAGCATATT
Found at i:8669273 original size:38 final size:38
Alignment explanation
Indices: 8669222--8669297 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
8669212 CCATTAATTA
8669222 ATACTATAATTTCTTTTCGATTAAACATATTATGAAAG
1 ATACTATAATTTCTTTTCGATTAAACATATTATGAAAG
8669260 ATACTATAATTTCTTTTCGATTAAACATATTATGAAAG
1 ATACTATAATTTCTTTTCGATTAAACATATTATGAAAG
8669298 TTTCCTGATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (38 bp):
ATACTATAATTTCTTTTCGATTAAACATATTATGAAAG
Found at i:8669901 original size:35 final size:35
Alignment explanation
Indices: 8669855--8669923 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
8669845 TTTCCCCCTG
*
8669855 TCGTCTTCTCCTCTCTCTCTATTTTATTCTTTTTA
1 TCGTCTCCTCCTCTCTCTCTATTTTATTCTTTTTA
* * * *
8669890 TCGTCTCCTCCTTTCTCTTTGTTTTATTTTTTTT
1 TCGTCTCCTCCTCTCTCTCTATTTTATTCTTTTT
8669924 GCTAATTTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.06, C:0.26, G:0.04, T:0.64
Consensus pattern (35 bp):
TCGTCTCCTCCTCTCTCTCTATTTTATTCTTTTTA
Found at i:8669997 original size:26 final size:26
Alignment explanation
Indices: 8669968--8670018 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
8669958 AGAAATATTA
8669968 TATTTAGGGTACTTGTATTGAAGTTG
1 TATTTAGGGTACTTGTATTGAAGTTG
8669994 TATTTAGGGTACTTGTATTGAAGTT
1 TATTTAGGGTACTTGTATTGAAGTT
8670019 TTGAACATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.24, C:0.04, G:0.25, T:0.47
Consensus pattern (26 bp):
TATTTAGGGTACTTGTATTGAAGTTG
Found at i:8671007 original size:30 final size:30
Alignment explanation
Indices: 8670943--8671008 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
8670933 GTCAAATTTG
* *
8670943 AATTTTTGAAAATTTTAGGGGTCAAATCAA
1 AATTTTTGAAAATTTTAGAGGTCAAATAAA
8670973 AATTTTTAGAAAA-TTTAGAGGTCAAA-AAA
1 AATTTTT-GAAAATTTTAGAGGTCAAATAAA
8671002 TAATTTT
1 -AATTTT
8671009 AAAATAAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 2 0.06
30 25 0.78
31 5 0.16
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.38
Consensus pattern (30 bp):
AATTTTTGAAAATTTTAGAGGTCAAATAAA
Found at i:8672589 original size:35 final size:35
Alignment explanation
Indices: 8672548--8672631 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 35
8672538 ATTGAATTGT
* *
8672548 TTCAATCTATGATCGGGGTAAGAGATCGGATGGTC
1 TTCAATCTATGATCGGGGTAAGAGATCAGATAGTC
*
8672583 TTCAATCTACCCCATGATCGGGGTAAGAGATTAGATAGTC
1 TTCAATCT-----ATGATCGGGGTAAGAGATCAGATAGTC
8672623 TTCAATCTA
1 TTCAATCTA
8672632 CCCTCTGGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
35 9 0.22
40 32 0.78
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (35 bp):
TTCAATCTATGATCGGGGTAAGAGATCAGATAGTC
Found at i:8672611 original size:40 final size:40
Alignment explanation
Indices: 8672560--8673068 Score: 403
Period size: 40 Copynumber: 12.8 Consensus size: 40
8672550 CAATCTATGA
* * *
8672560 TCGGGGTAAGAGATCGGATGGTCTTCAATCTACCCCATGA
1 TCGGGGTAAGAGATTGGATGGTCTTCAATCTGCCCCATGG
* * *
8672600 TCGGGGTAAGAGATTAGATAGTCTTCAATCTACCCTC-TGG
1 TCGGGGTAAGAGATTGGATGGTCTTCAATCTGCCC-CATGG
** * * *
8672640 TTAGGGTAAAAGATCT-GATGGTCTTTAATCTGCTCTC-TGG
1 TCGGGGTAAGAGAT-TGGATGGTCTTCAATCTGC-CCCATGG
** ** * * * *
8672680 TTAGGACAAAAGATTGGATGATTTTCAATCTACCCTC-TGG
1 TCGGGGTAAGAGATTGGATGGTCTTCAATCTGCCC-CATGG
** * * ** *
8672720 TTAGGGTAAAAGATTGGATTG-CTTCAATCTTTCTCATGG
1 TCGGGGTAAGAGATTGGATGGTCTTCAATCTGCCCCATGG
* *
8672759 TCGGGGTAAGAGTTTGGATGG-CTTCAATCTGCCCCATGA
1 TCGGGGTAAGAGATTGGATGGTCTTCAATCTGCCCCATGG
* *
8672798 TCTGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTC-TGG
1 TCGGGGTAAGAGATTGGATGGTCTTCAATCTGCCC-CATGG
** * * * *
8672838 TTAGGGTAAAAGATTGGATTG-CTTCAATTTGCCCCGTGG
1 TCGGGGTAAGAGATTGGATGGTCTTCAATCTGCCCCATGG
*
8672877 TCGGGGTAAGAGATTGGATGGTCTTCAATCTGCCTTC-TGG
1 TCGGGGTAAGAGATTGGATGGTCTTCAATCTGCC-CCATGG
** * * * *
8672917 TTAGAGTAAAAGATTGGACT-G-CTTTAATCTGCCTCATGG
1 TCGGGGTAAGAGATTGGA-TGGTCTTCAATCTGCCCCATGG
* *
8672956 TTGGGGTAAGAGATTGGATGGTCTTCAATCTGCCCCAAGG
1 TCGGGGTAAGAGATTGGATGGTCTTCAATCTGCCCCATGG
*
8672996 TCGGGGTAAGAGATTGGATGATCTTCAATCTGCCCTC-TGG
1 TCGGGGTAAGAGATTGGATGGTCTTCAATCTGCCC-CATGG
** * * *
8673036 TTAGGGTAAAAGATTGAAAGGTCTTCAATCTGC
1 TCGGGGTAAGAGATTGGATGGTCTTCAATCTGC
8673069 TCTCCGATTA
Statistics
Matches: 382, Mismatches: 71, Indels: 32
0.79 0.15 0.07
Matches are distributed among these distances:
38 5 0.01
39 124 0.32
40 246 0.64
41 7 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (40 bp):
TCGGGGTAAGAGATTGGATGGTCTTCAATCTGCCCCATGG
Found at i:8672818 original size:158 final size:158
Alignment explanation
Indices: 8672563--8673066 Score: 511
Period size: 158 Copynumber: 3.2 Consensus size: 158
8672553 TCTATGATCG
* * * * * *
8672563 GGGTAAGAGATCGGATGGTCTTCAATCTACCCCATGATCGGGGTAAGAGATTAGATAGTCTTCAA
1 GGGTAAAAGATTGGATGGTCTTCAATCTACCTCATGGTCGGGGTAAGAGATTGGAT-GGCTTCAA
* * * * **
8672628 TCTACCCTC-TGGTTAGGGTAAAAGATCTGATGGTCTTTAATCTGCTCTCTGGTTAGGACAAAAG
65 TCTGCCC-CATGGTTAGGGTAAGAGATCGGATGGTCTTCAATCTGC-CTCTGGTTAGGGTAAAAG
* *
8672692 ATTGGATGATTTTCAATCTACCCTCTGGTTA
128 ATTGGATGATCTTCAATCTGCCCTCTGGTTA
* ** *
8672723 GGGTAAAAGATTGGATTG-CTTCAATCTTTCTCATGGTCGGGGTAAGAGTTTGGATGGCTTCAAT
1 GGGTAAAAGATTGGATGGTCTTCAATCTACCTCATGGTCGGGGTAAGAGATTGGATGGCTTCAAT
*
8672787 CTGCCCCATGATCT-GGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGA
66 CTGCCCCATGGT-TAGGGTAAGAGATCGGATGGTCTTCAATCTG-CCTCTGGTTAGGGTAAAAGA
* **
8672851 TTGGAT--TGCTTCAATTTGCCC-CGTGGTCG
129 TTGGATGAT-CTTCAATCTGCCCTC-TGGTTA
* * ** * * *
8672880 GGGTAAGAGATTGGATGGTCTTCAATCTGCCTTC-TGGTTAGAGTAAAAGATTGGACT-GCTTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTACC-TCATGGTCGGGGTAAGAGATTGGA-TGGCTTCA
* * * * * ** *
8672943 ATCTGCCTCATGGTTGGGGTAAGAGATTGGATGGTCTTCAATCTGCCCCAAGGTCGGGGTAAGAG
64 ATCTGCCCCATGGTTAGGGTAAGAGATCGGATGGTCTTCAATCTGCCTC-TGGTTAGGGTAAAAG
8673008 ATTGGATGATCTTCAATCTGCCCTCTGGTTA
128 ATTGGATGATCTTCAATCTGCCCTCTGGTTA
* *
8673039 GGGTAAAAGATTGAAAGGTCTTCAATCT
1 GGGTAAAAGATTGGATGGTCTTCAATCT
8673067 GCTCTCCGAT
Statistics
Matches: 285, Mismatches: 46, Indels: 27
0.80 0.13 0.08
Matches are distributed among these distances:
156 2 0.01
157 35 0.12
158 154 0.54
159 77 0.27
160 17 0.06
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (158 bp):
GGGTAAAAGATTGGATGGTCTTCAATCTACCTCATGGTCGGGGTAAGAGATTGGATGGCTTCAAT
CTGCCCCATGGTTAGGGTAAGAGATCGGATGGTCTTCAATCTGCCTCTGGTTAGGGTAAAAGATT
GGATGATCTTCAATCTGCCCTCTGGTTA
Found at i:8672824 original size:79 final size:78
Alignment explanation
Indices: 8672563--8673095 Score: 398
Period size: 79 Copynumber: 6.7 Consensus size: 78
8672553 TCTATGATCG
* * * * *
8672563 GGGTAAGAGATCGGATGGTCTTCAATCTACCC-CATGATCGGGGTAAGAGATTAGATAGTCTTCA
1 GGGTAAGAGATCGGATGGTCTTCAATCT-CCCTC-TGGTCAGGGTAAAAGATTGGAT-GGCTTCA
*
8672627 ATCTACCCTC-TGGTTA
63 ATCTGCCC-CATGGTTA
* * * * * ** **
8672643 GGGTAAAAGATCTGATGGTCTTTAATCTGCTCTCTGGTTAGGACAAAAGATTGGATGATTTTCAA
1 GGGTAAGAGATCGGATGGTCTTCAATCT-CCCTCTGGTCAGGGTAAAAGATTGGATG-GCTTCAA
*
8672708 TCTACCCTC-TGGTTA
64 TCTGCCC-CATGGTTA
* * * ** * * *
8672723 GGGTAAAAGATTGGATTG-CTTCAATCTTTCTCATGGTCGGGGTAAGAGTTTGGATGGCTTCAAT
1 GGGTAAGAGATCGGATGGTCTTCAATCTCCCTC-TGGTCAGGGTAAAAGATTGGATGGCTTCAAT
*
8672787 CTGCCCCATGATCT-
65 CTGCCCCATGGT-TA
* *
8672801 GGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAAT
1 GGGTAAGAGATCGGATGGTCTTCAATCT-CCCTCTGGTCAGGGTAAAAGATTGGATGGCTTCAAT
* * **
8672866 TTGCCCCGTGGTCG
65 CTGCCCCATGGTTA
* * * * *
8672880 GGGTAAGAGATTGGATGGTCTTCAATCTGCCTTCTGGTTAGAGTAAAAGATTGGACT-GCTTTAA
1 GGGTAAGAGATCGGATGGTCTTCAATCT-CCCTCTGGTCAGGGTAAAAGATTGGA-TGGCTTCAA
* *
8672944 TCTGCCTCATGGTTG
64 TCTGCCCCATGGTTA
* * * * *
8672959 GGGTAAGAGATTGGATGGTCTTCAATCTGCCC-CAAGGTCGGGGTAAGAGATTGGATGATCTTCA
1 GGGTAAGAGATCGGATGGTCTTCAATCT-CCCTC-TGGTCAGGGTAAAAGATTGGATG-GCTTCA
8673023 ATCTGCCCTC-TGGTTA
63 ATCTGCCC-CATGGTTA
* * * * * * * *
8673039 GGGTAAAAGATTGAAAGGTCTTCAATCTGCTCTCCGATTAGGGTAAAAGATTGGATG
1 GGGTAAGAGATCGGATGGTCTTCAATCT-CCCTCTGGTCAGGGTAAAAGATTGGATG
8673096 ATTGTAACTT
Statistics
Matches: 370, Mismatches: 69, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
77 1 0.00
78 35 0.09
79 187 0.51
80 144 0.39
81 3 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (78 bp):
GGGTAAGAGATCGGATGGTCTTCAATCTCCCTCTGGTCAGGGTAAAAGATTGGATGGCTTCAATC
TGCCCCATGGTTA
Found at i:8673080 original size:40 final size:40
Alignment explanation
Indices: 8672999--8673091 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
8672989 CCCAAGGTCG
* * * * *
8672999 GGGTAAGAGATTGGATGATCTTCAATCTGCCCTCTGGTTA
1 GGGTAAAAGATTGAAAGATCTTCAATCTGCCCTCCGATTA
* *
8673039 GGGTAAAAGATTGAAAGGTCTTCAATCTGCTCTCCGATTA
1 GGGTAAAAGATTGAAAGATCTTCAATCTGCCCTCCGATTA
8673079 GGGTAAAAGATTG
1 GGGTAAAAGATTG
8673092 GATGATTGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (40 bp):
GGGTAAAAGATTGAAAGATCTTCAATCTGCCCTCCGATTA
Found at i:8675025 original size:25 final size:24
Alignment explanation
Indices: 8674976--8675101 Score: 145
Period size: 23 Copynumber: 5.4 Consensus size: 24
8674966 ACACTAGCGC
*
8674976 GCTCTCTGT-TTAGCAC-GTCTCGT
1 GCTCTCTGTATTAGCACTGTGT-GT
8674999 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-TATTAGCACTGTGTGT
* *
8675024 GCTTTCTG-ATTAGCACTTTGTGT
1 GCTCTCTGTATTAGCACTGTGTGT
* *
8675047 GCTCTCTG-ATTAGTACTTTGTGT
1 GCTCTCTGTATTAGCACTGTGTGT
*
8675070 ACTCTCTGT-TTAGCACTGTGTGT
1 GCTCTCTGTATTAGCACTGTGTGT
8675093 GCTCTCTGT
1 GCTCTCTGT
8675102 TGCCCAGCAC
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
23 70 0.78
24 1 0.01
25 16 0.18
26 3 0.03
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (24 bp):
GCTCTCTGTATTAGCACTGTGTGT
Found at i:8675143 original size:69 final size:71
Alignment explanation
Indices: 8675000--8675146 Score: 198
Period size: 69 Copynumber: 2.1 Consensus size: 71
8674990 ACGTCTCGTG
* *
8675000 CTCTCTGTTATTAGCACTGTGTGTGCTTTCTGATTAGCACTTTGTGTGCTCTCTGATTAGTACTT
1 CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGATTAGTACTT
8675065 TGTGTA
66 TGTGTA
8675071 CTCTCTG-T-TTAGCACTGTGTGTGCTCTCTG-TTGCCCAGCAC-TTATGTGCTCTCTG-TTAGT
1 CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATT----AGCACTTTATGTGCTCTCTGATTAGT
8675131 ACTTTG-GTA
62 ACTTTGTGTA
8675140 CTCTCTG
1 CTCTCTG
8675147 CTTGTTCCGT
Statistics
Matches: 70, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
68 2 0.03
69 31 0.44
70 12 0.17
71 20 0.29
72 5 0.07
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.44
Consensus pattern (71 bp):
CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGATTAGTACTT
TGTGTA
Found at i:8680420 original size:49 final size:49
Alignment explanation
Indices: 8680358--8680588 Score: 166
Period size: 49 Copynumber: 4.7 Consensus size: 49
8680348 TTCAGAGTGT
** ** *
8680358 AAGATTCATCGTTGCGGCCCCAATCTTTCCCTTCATATCTCTAAGGTAT
1 AAGATTCGCCGTTGCGGCTTCAATCTTTCCCTTCATATCTCTAAGGTAC
* * * *
8680407 AAGGTTCGCCGTTGCAGCTTCAA-CATTT-CCTTCTATAACTCTAGGGTAC
1 AAGATTCGCCGTTGCGGCTTCAATC-TTTCCCTTC-ATATCTCTAAGGTAC
* * ** * *
8680456 AAGATTCACCGTCGCGATTTCAATCTTTCTCATCACGT-TCT-TAAGGTAC
1 AAGATTCGCCGTTGCGGCTTCAATCTTTCCCTTCA--TATCTCTAAGGTAC
* * * * *
8680505 AAGGTTCGCCGTTGTGGCTTCAACCTTTCTCTTCATATCTCT-AGAGTAT
1 AAGATTCGCCGTTGCGGCTTCAATCTTTCCCTTCATATCTCTAAG-GTAC
* * * *
8680554 TAGATTTGTCGTTGAGGCTTCAATCTTTCCCTTCA
1 AAGATTCGCCGTTGCGGCTTCAATCTTTCCCTTCA
8680589 AACTTCTAGA
Statistics
Matches: 138, Mismatches: 35, Indels: 18
0.72 0.18 0.09
Matches are distributed among these distances:
47 1 0.01
48 11 0.08
49 119 0.86
50 6 0.04
51 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.36
Consensus pattern (49 bp):
AAGATTCGCCGTTGCGGCTTCAATCTTTCCCTTCATATCTCTAAGGTAC
Found at i:8680460 original size:98 final size:97
Alignment explanation
Indices: 8680358--8680588 Score: 241
Period size: 98 Copynumber: 2.4 Consensus size: 97
8680348 TTCAGAGTGT
** *
8680358 AAGATTCATCGTTGCGGCCCCAATCTTTCCCTTCA-TATCTCTAAGGTATAAGGTTCGCCGTTGC
1 AAGATTCATCGTTGCGGCTTCAATCTTTCCCTTCACT-TCT-TAAGGTACAAGGTTCGCCGTTGC
*
8680422 AGCTTCAACATTTC-CTTCTATAACTCTAGGGTAC
64 AGCTTCAACATTTCTCTTC-ATAACTCTAGAGTAC
* * ** * * **
8680456 AAGATTCACCGTCGCGATTTCAATCTTTCTCATCACGTTCTTAAGGTACAAGGTTCGCCGTTGTG
1 AAGATTCATCGTTGCGGCTTCAATCTTTCCCTTCAC-TTCTTAAGGTACAAGGTTCGCCGTTGCA
* * *
8680521 GCTTCAACCTTTCTCTTCATATCTCTAGAGTAT
65 GCTTCAACATTTCTCTTCATAACTCTAGAGTAC
* ** *
8680554 TAGATTTGTCGTTGAGGCTTCAATCTTTCCCTTCA
1 AAGATTCATCGTTGCGGCTTCAATCTTTCCCTTCA
8680589 AACTTCTAGA
Statistics
Matches: 105, Mismatches: 25, Indels: 6
0.77 0.18 0.04
Matches are distributed among these distances:
98 97 0.92
99 7 0.07
100 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.36
Consensus pattern (97 bp):
AAGATTCATCGTTGCGGCTTCAATCTTTCCCTTCACTTCTTAAGGTACAAGGTTCGCCGTTGCAG
CTTCAACATTTCTCTTCATAACTCTAGAGTAC
Found at i:8681531 original size:7 final size:7
Alignment explanation
Indices: 8681496--8681521 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8681486 TTTTTTCCTT
8681496 TTTTTAA
1 TTTTTAA
8681503 TTTTTAA
1 TTTTTAA
8681510 TTTTTAA
1 TTTTTAA
8681517 TTTTT
1 TTTTT
8681522 TTTATTTTTT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:8688790 original size:51 final size:51
Alignment explanation
Indices: 8688665--8688902 Score: 282
Period size: 51 Copynumber: 4.6 Consensus size: 51
8688655 TTTCATTTAA
* ** * * *
8688665 TACTCACGATGACATATAGTCATCGGACCTCTTGTTCCATATAGGGTTTCATA
1 TACTCACGATGACATTTAGTCATCGGACCT-TTAATCCATA-ATGGATTCATT
* * * *
8688718 TACTCACGATGACACTGAGTCATCAGACCTTTAATCCATCATGGATTCATT
1 TACTCACGATGACATTTAGTCATCGGACCTTTAATCCATAATGGATTCATT
* * *
8688769 TACTCACGATGACATTTAGTCATTGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACATTTAGTCATCGGACCTTTAATCCATAATGGATTCATT
* * *
8688820 TACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTAAAT-GATTCATT
1 TACTCACGATGACATTTAGTCATCGGACCTTTAATCCAT-AATGGATTCATT
8688871 TACTCACGATGAC-TCTTAGTCATCGGACCTTT
1 TACTCACGATGACAT-TTAGTCATCGGACCTTT
8688903 TCGTTTATAG
Statistics
Matches: 161, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
51 126 0.78
52 9 0.06
53 26 0.16
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (51 bp):
TACTCACGATGACATTTAGTCATCGGACCTTTAATCCATAATGGATTCATT
Found at i:8688843 original size:102 final size:103
Alignment explanation
Indices: 8688665--8688902 Score: 311
Period size: 102 Copynumber: 2.3 Consensus size: 103
8688655 TTTCATTTAA
* ** * *
8688665 TACTCACGATGACATATAGTCATCGGACCTCTTGTTCCATATAGGGTTTCATATACTCACGATGA
1 TACTCACGATGACATTTAGTCATCGGACCT-TTAATCCATATAAGGATTCATATACTCACGATGA
*
8688730 CACTGAGTCATCAGACCTTTAATCCAT-CATGGATTCATT
65 CACTGAGTCATCAGACCTTTAATCCATAAAT-GATTCATT
* * *
8688769 TACTCACGATGACATTTAGTCATTGGACCTTTAATCCGTA-AAGGATTCATTTACTCACGATGAC
1 TACTCACGATGACATTTAGTCATCGGACCTTTAATCCATATAAGGATTCATATACTCACGATGAC
* * * *
8688833 ACTTAGTCATCGGACCTTTAATTCGTAAATGATTCATT
66 ACTGAGTCATCAGACCTTTAATCCATAAATGATTCATT
8688871 TACTCACGATGAC-TCTTAGTCATCGGACCTTT
1 TACTCACGATGACAT-TTAGTCATCGGACCTTT
8688903 TCGTTTATAG
Statistics
Matches: 118, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
101 1 0.01
102 80 0.68
103 9 0.08
104 28 0.24
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (103 bp):
TACTCACGATGACATTTAGTCATCGGACCTTTAATCCATATAAGGATTCATATACTCACGATGAC
ACTGAGTCATCAGACCTTTAATCCATAAATGATTCATT
Found at i:8690189 original size:11 final size:11
Alignment explanation
Indices: 8690159--8690198 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
8690149 TCTCCCCCGT
8690159 CCTCTCCC-TC
1 CCTCTCCCATC
*
8690169 CCTCTACCATC
1 CCTCTCCCATC
*
8690180 GCTCTCCCATC
1 CCTCTCCCATC
8690191 CCTCTCCC
1 CCTCTCCC
8690199 TCTTCCCCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
10 7 0.28
11 18 0.72
ACGTcount: A:0.07, C:0.62, G:0.03, T:0.28
Consensus pattern (11 bp):
CCTCTCCCATC
Found at i:8690311 original size:33 final size:33
Alignment explanation
Indices: 8690274--8690344 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
8690264 CCGACCCTCT
* * * *
8690274 CCCTAT-CCTCTACTGTCCCTTTCCTTCTGCTAA
1 CCCTATCCCTC-ACCGTCACTTTCCCTCTACTAA
8690307 CCCTATCCCTCACCGTCACTTTCCCTCTACTAA
1 CCCTATCCCTCACCGTCACTTTCCCTCTACTAA
8690340 CCCTA
1 CCCTA
8690345 CTCAAGCTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 29 0.88
34 4 0.12
ACGTcount: A:0.15, C:0.46, G:0.04, T:0.34
Consensus pattern (33 bp):
CCCTATCCCTCACCGTCACTTTCCCTCTACTAA
Found at i:8691416 original size:18 final size:17
Alignment explanation
Indices: 8691395--8691447 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
8691385 CCATGTCAGC
* *
8691395 AAAAAAAATTTAAACTT
1 AAAAAAAAATTAAAATT
*
8691412 AAAAACATAATTAAAATT
1 AAAAA-AAAATTAAAATT
*
8691430 AAAAAAATAGTTAAAATT
1 AAAAAAA-AATTAAAATT
8691448 TTTTTGGGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 6 0.21
18 23 0.79
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (17 bp):
AAAAAAAAATTAAAATT
Found at i:8692171 original size:216 final size:214
Alignment explanation
Indices: 8691713--8692342 Score: 926
Period size: 216 Copynumber: 2.9 Consensus size: 214
8691703 AGGGAAGGCT
* *
8691713 AAAGAACAGAGGGTTTTGAATTGTGATTAGGGTCTGGGGAAGGAAAGATTGATGAGTTTGTGTTC
1 AAAGAACAGAGGGTTTTGAATTGTGATT-GGGTCTGGGGAAGGAAAAATTGATGGGTTTGTGTTC
* *
8691778 GAAATTTGAACTATGATAACCTATTTGCTATCTATGCAAGAATCTCAGCCGTATGCGAGAAAAAT
65 GAAATTTGAACTATGATAACCTATTTGCTATCTATGCAAGAATCTCAACCGTATGCAAGAAAAA-
* * * *
8691843 AAAATTGTTTTGG-TGTTTGGTTGATGGGAAAATGTAAGAAAATCTGATAATTTCTTGTTGCTAA
129 CAAATTTTTTTGGATGTTTGGTTGATGGGAAAATGTAAGAAAATATGAGAATTTCTTGTTGCTAA
*
8691907 AGAATTTGCACTTGGTTTCCT
194 AGAATTTGCACTTGGTTTCCC
* * * * *
8691928 AAAGAACAAAGGGTTTTGAATTGTGATTGGGTCTTGAGGAAGTAAATATTGATGGGTTTGTGTTT
1 AAAGAACAGAGGGTTTTGAATTGTGATTGGGTC-TGGGGAAGGAAAAATTGATGGGTTTGTGTTC
* *
8691993 GAAATTTGAACTATGATAACGC-ATTTCCTATCTATGCAAGAATCTCAATCGTATGCAAGAAAAA
65 GAAATTTGAACTATGATAAC-CTATTTGCTATCTATGCAAGAATCTCAACCGTATGCAAGAAAAA
* *
8692057 CAAATTTTTATTGGATGTTTGGTTGATGGGAAAATGTAAGAAAATTTG-GAAATTTCTTGTTGTT
129 CAAATTTTT-TTGGATGTTTGGTTGATGGGAAAATGTAAGAAAATATGAG-AATTTCTTGTTGCT
*
8692121 GAAGAATTTGCACTTGGTTTCCC
192 AAAGAATTTGCACTTGGTTTCCC
* *
8692144 AAAGAACAGAGGGTTTTGAACTGTGATTGAGTCCTGGGGAAGGAAAAATTGATGGGTTTGTGTTC
1 AAAGAACAGAGGGTTTTGAATTGTGATTGGGT-CTGGGGAAGGAAAAATTGATGGGTTTGTGTTC
* * *
8692209 AAAATTTGAACTATGATAACCTATTTGCTATCTATGCAAGAATCTCAGCTGTATGCAAGAAAAAC
65 GAAATTTGAACTATGATAACCTATTTGCTATCTATGCAAGAATCTCAACCGTATGCAAGAAAAAC
*
8692274 AAATTTTTTTTTGAGTGTTTGG-TGATGGGAAAATGTAAGAAAATATGAGAATTTCTTGTTGCTA
130 AAA-TTTTTTTGGA-TGTTTGGTTGATGGGAAAATGTAAGAAAATATGAGAATTTCTTGTTGCTA
8692338 AAGAA
193 AAGAA
8692343 AAAGATGATG
Statistics
Matches: 372, Mismatches: 33, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
214 12 0.03
215 116 0.31
216 230 0.62
217 14 0.04
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (214 bp):
AAAGAACAGAGGGTTTTGAATTGTGATTGGGTCTGGGGAAGGAAAAATTGATGGGTTTGTGTTCG
AAATTTGAACTATGATAACCTATTTGCTATCTATGCAAGAATCTCAACCGTATGCAAGAAAAACA
AATTTTTTTGGATGTTTGGTTGATGGGAAAATGTAAGAAAATATGAGAATTTCTTGTTGCTAAAG
AATTTGCACTTGGTTTCCC
Found at i:8692419 original size:29 final size:30
Alignment explanation
Indices: 8692372--8692439 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
8692362 ATTAAAATTA
8692372 TTTAATAATTTCATTA-TTTAAAAAGATAAT
1 TTTAATAATTTCATTATTTTAAAAA-ATAAT
*
8692402 TTTAATAATTTTA-TATTTTAAAAAATAAT
1 TTTAATAATTTCATTATTTTAAAAAATAAT
8692431 TTTAA-AATT
1 TTTAATAATT
8692440 ATTTGCTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 4 0.11
29 12 0.33
30 20 0.56
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
TTTAATAATTTCATTATTTTAAAAAATAAT
Found at i:8693036 original size:14 final size:15
Alignment explanation
Indices: 8692999--8693047 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
8692989 ATTTAAATAC
* *
8692999 TGAAAAAATAAGTGT
1 TGAAAAATTAAGTAT
8693014 TGAAAAATTAAGTAT
1 TGAAAAATTAAGTAT
*
8693029 T-AAAAATTTAAGTAG
1 TGAAAAA-TTAAGTAT
8693044 TGAA
1 TGAA
8693048 TTTAAGTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 5 0.17
15 22 0.76
16 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (15 bp):
TGAAAAATTAAGTAT
Found at i:8713908 original size:13 final size:13
Alignment explanation
Indices: 8713892--8713916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8713882 TTTCCATCAC
8713892 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
8713905 ACTTTTCAAAAG
1 ACTTTTCAAAAG
8713917 CAATGCTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:8714846 original size:3 final size:3
Alignment explanation
Indices: 8714838--8714867 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
8714828 GTGCAAAGTT
8714838 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8714868 ATAGACAATA
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:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8722323 original size:18 final size:18
Alignment explanation
Indices: 8722283--8722317 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8722273 TATATGTTAT
8722283 AAATT-ACATAATATATA
1 AAATTAACATAATATATA
8722300 AAATTAACATAATATATA
1 AAATTAACATAATATATA
8722318 TTATTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATTAACATAATATATA
Found at i:8722975 original size:31 final size:31
Alignment explanation
Indices: 8722939--8723043 Score: 124
Period size: 31 Copynumber: 3.4 Consensus size: 31
8722929 TAATCACATT
* *
8722939 AATATTAATTTAATAAAATATTATCTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
** * *
8722970 AATATTAAATT-A-AATTTAATATCTCATATT
1 AATATTAAATTAATAAAATAATATCT-AGATA
*
8723000 AATATTAAATTAATAAAATACTATCTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
8723031 AATATTAAATTAA
1 AATATTAAATTAA
8723044 ATTTAATATT
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
29 9 0.15
30 15 0.25
31 27 0.45
32 9 0.15
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (31 bp):
AATATTAAATTAATAAAATAATATCTAGATA
Found at i:8723013 original size:61 final size:61
Alignment explanation
Indices: 8722936--8723052 Score: 216
Period size: 61 Copynumber: 1.9 Consensus size: 61
8722926 AATTAATCAC
* *
8722936 ATTAATATTAATTTAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATATCTCAT
1 ATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATATCTCAT
8722997 ATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATAT
1 ATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATAT
8723053 TAAATTCATC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (61 bp):
ATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATATCTCAT
Found at i:8736740 original size:112 final size:114
Alignment explanation
Indices: 8736532--8736745 Score: 387
Period size: 112 Copynumber: 1.9 Consensus size: 114
8736522 AAGGTCGTTG
8736532 CATTTTCTTGTTTCAATAAATTACTTAGCTTTTCTTTTCTATCTCTTCGTTGATTATCTCTATTG
1 CATTTTCTTGTTTCAATAAATTACTTAGCTTTTCTTTTCTATCTCTTCGTTGATTATCTCTATTG
**
8736597 AGAAATTTAATCCTTATCATTTTGGTATCAAAGCAAACCTTTTCTATCT
66 AGAAATCCAATCCTTATCATTTTGGTATCAAAGCAAACCTTTTCTATCT
*
8736646 CATTTTCTT-TTTCAATAAATTACTTAGCTTTTCTTTTCTATCTCTTTGTT-ATTATCTCTATTG
1 CATTTTCTTGTTTCAATAAATTACTTAGCTTTTCTTTTCTATCTCTTCGTTGATTATCTCTATTG
8736709 AGAAATCCAATCCTTATCATTTTGGTATCAAAGCAAA
66 AGAAATCCAATCCTTATCATTTTGGTATCAAAGCAAA
8736746 ATGACCATCA
Statistics
Matches: 97, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
112 48 0.49
113 40 0.41
114 9 0.09
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.49
Consensus pattern (114 bp):
CATTTTCTTGTTTCAATAAATTACTTAGCTTTTCTTTTCTATCTCTTCGTTGATTATCTCTATTG
AGAAATCCAATCCTTATCATTTTGGTATCAAAGCAAACCTTTTCTATCT
Found at i:8739204 original size:160 final size:154
Alignment explanation
Indices: 8738918--8739233 Score: 517
Period size: 160 Copynumber: 2.0 Consensus size: 154
8738908 GGTCTACTAT
* *
8738918 TGGATATTGTGTTTTTGGTGGAAATTTAGTATCATGAATAAGTAGAATGTTGTATTTCTGTGGAG
1 TGGATATTATGTTTTTGGTGGAAATTTAGTATCATGAATAAGTAGAATGTTGTATTTCTATGGAG
8738983 GTTGAAACCAGAGATAAGGCTATGGCACAATTTACGTGTGAAGTCATGTGGATATAACATCTGTT
66 GTTGAAACCAGAGATAA-GCTATGGCACAATTTACGTGTGAAGTCATGTGGATATAACATCTGTT
*
8739048 AATTGAAATTGGATTGAAGCATACA
130 AATTGAAATTGGATTAAAGCATACA
8739073 TGGATATTATGTTTTTGGTGGAAATTTAGTATCATGAATGACTGAGAAGTAGAATGTTGTATTTC
1 TGGATATTATGTTTTTGGTGGAAATTTAGTATCATG-A--A-T---AAGTAGAATGTTGTATTTC
*
8739138 TATGGAGGTTGAAACCAGAGATAA-CTATGGCACAATTTGCGTGTGAAGTCATGTGGATATAACA
59 TATGGAGGTTGAAACCAGAGATAAGCTATGGCACAATTTACGTGTGAAGTCATGTGGATATAACA
8739202 TCTGTTAATTGAAATTGGATTAAAGCATACA
124 TCTGTTAATTGAAATTGGATTAAAGCATACA
8739233 T
1 T
8739234 CACTAGCAAA
Statistics
Matches: 150, Mismatches: 4, Indels: 9
0.92 0.02 0.06
Matches are distributed among these distances:
155 35 0.23
156 1 0.01
158 1 0.01
159 1 0.01
160 70 0.47
162 42 0.28
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (154 bp):
TGGATATTATGTTTTTGGTGGAAATTTAGTATCATGAATAAGTAGAATGTTGTATTTCTATGGAG
GTTGAAACCAGAGATAAGCTATGGCACAATTTACGTGTGAAGTCATGTGGATATAACATCTGTTA
ATTGAAATTGGATTAAAGCATACA
Done.