Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 72 of 120
Found at i:21663587 original size:58 final size:58
Alignment explanation
Indices: 21663435--21663588 Score: 159
Period size: 58 Copynumber: 2.7 Consensus size: 58
21663425 CCCTCAGATA
* ***
21663435 ATGAAAAGGGATAGCTTCGGTTATCGAATATGAAAAGAGATAACTTCAGCTATCGAAT
1 ATGAAAAGGGATAGCTACGACCATCGAATATGAAAAGAGATAACTTCAGCTATCGAAT
* * * * * * * *
21663493 ATGAAAAGGGATAGCTTCGGCTATCGAATATAAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTACGACCATCGAATATGAAAAGAGATAACTTCAGCTATCGAAT
*
21663551 ATGAAAAGGGAT-GGTGACGACCATC-AACTATGAAAAGA
1 ATGAAAAGGGATAGCT-ACGACCATCGAA-TATGAAAAGA
21663589 TATGGTGACG
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
57 4 0.05
58 78 0.95
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.23
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTACGACCATCGAATATGAAAAGAGATAACTTCAGCTATCGAAT
Found at i:21666497 original size:9 final size:9
Alignment explanation
Indices: 21666483--21666530 Score: 59
Period size: 9 Copynumber: 5.8 Consensus size: 9
21666473 TTATTAATTC
21666483 TAATTATTT
1 TAATTATTT
21666492 TAATTATTT
1 TAATTATTT
*
21666501 TAATTA-AT
1 TAATTATTT
21666509 T-A--ATTT
1 TAATTATTT
21666515 TAATTATTT
1 TAATTATTT
21666524 TAATTAT
1 TAATTAT
21666531 CTAACCCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
5 1 0.03
6 2 0.06
7 2 0.06
8 2 0.06
9 26 0.79
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TAATTATTT
Found at i:21666507 original size:13 final size:14
Alignment explanation
Indices: 21666491--21666520 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
21666481 TCTAATTATT
21666491 TTAATT-ATTTTAA
1 TTAATTAATTTTAA
21666504 TTAATTAATTTTAA
1 TTAATTAATTTTAA
21666518 TTA
1 TTA
21666521 TTTTAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTAATTAATTTTAA
Found at i:21666518 original size:23 final size:22
Alignment explanation
Indices: 21666483--21666529 Score: 85
Period size: 23 Copynumber: 2.1 Consensus size: 22
21666473 TTATTAATTC
21666483 TAATTATTTTAATTATTTTAAT
1 TAATTATTTTAATTATTTTAAT
21666505 TAATTAATTTTAATTATTTTAAT
1 TAATT-ATTTTAATTATTTTAAT
21666528 TA
1 TA
21666530 TCTAACCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TAATTATTTTAATTATTTTAAT
Found at i:21666519 original size:32 final size:31
Alignment explanation
Indices: 21666471--21666530 Score: 102
Period size: 32 Copynumber: 1.9 Consensus size: 31
21666461 CCTAACAAAA
21666471 AATTATTAATTCTAATTATTTTAATTATTTT
1 AATTATTAATTCTAATTATTTTAATTATTTT
*
21666502 AATTAATTAATTTTAATTATTTTAATTAT
1 AATT-ATTAATTCTAATTATTTTAATTAT
21666531 CTAACCCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (31 bp):
AATTATTAATTCTAATTATTTTAATTATTTT
Found at i:21666542 original size:32 final size:32
Alignment explanation
Indices: 21666475--21666542 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
21666465 ACAAAAAATT
* **
21666475 ATTAATTCTAATTATTTTAATTATTTTAATTA
1 ATTAATTCTAATTATTTTAATTATTCTAACCA
*
21666507 ATTAATTTTAATTATTTTAATTA-TCTAACCCA
1 ATTAATTCTAATTATTTTAATTATTCTAA-CCA
21666539 ATTA
1 ATTA
21666543 CGGTTTTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 4 0.13
32 27 0.87
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.54
Consensus pattern (32 bp):
ATTAATTCTAATTATTTTAATTATTCTAACCA
Found at i:21678895 original size:19 final size:20
Alignment explanation
Indices: 21678856--21678897 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
21678846 GTGACCCCTG
*
21678856 TTTTGAAAATTTTTAGGTTT
1 TTTTGAAAATTTTTAGATTT
*
21678876 TTTTG-AAATTTTTTGATTT
1 TTTTGAAAATTTTTAGATTT
21678895 TTT
1 TTT
21678898 CTGACTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (20 bp):
TTTTGAAAATTTTTAGATTT
Found at i:21682902 original size:13 final size:14
Alignment explanation
Indices: 21682886--21682914 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21682876 GGATTTTAAC
21682886 TTTTATTTT-TGGA
1 TTTTATTTTGTGGA
21682899 TTTTATTTTGTGGA
1 TTTTATTTTGTGGA
21682913 TT
1 TT
21682915 ACTATTGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.14, C:0.00, G:0.17, T:0.69
Consensus pattern (14 bp):
TTTTATTTTGTGGA
Found at i:21690755 original size:22 final size:21
Alignment explanation
Indices: 21690704--21690760 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
21690694 GTACTATGCA
* *
21690704 AATGAAACGGGTAAGAAAAGG
1 AATGGAACGGGTAAGAAAAAG
*
21690725 AATGTAACGGGTAAGAAAAAG
1 AATGGAACGGGTAAGAAAAAG
21690746 ATATGGAAC-GGTAAG
1 A-ATGGAACGGGTAAG
21690761 TGACTTAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 26 0.81
22 6 0.19
ACGTcount: A:0.49, C:0.05, G:0.32, T:0.14
Consensus pattern (21 bp):
AATGGAACGGGTAAGAAAAAG
Found at i:21692982 original size:10 final size:10
Alignment explanation
Indices: 21692967--21692991 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21692957 ATTTATGAAC
21692967 AAACACATTA
1 AAACACATTA
21692977 AAACACATTA
1 AAACACATTA
21692987 AAACA
1 AAACA
21692992 AACTAAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.20, G:0.00, T:0.16
Consensus pattern (10 bp):
AAACACATTA
Found at i:21693024 original size:74 final size:76
Alignment explanation
Indices: 21692934--21693083 Score: 214
Period size: 74 Copynumber: 2.0 Consensus size: 76
21692924 TAACTGATTC
*
21692934 CAACTAAATAGGCACCTGCAAATATTTATGAACAAACACATTAAAACACA-TTAAA-ACAAACTA
1 CAACTAAATAGGCACCTGCAAACATTTATGAACAAACACATTAAAACACATTTAAACACAAACTA
21692997 AACTTAATAAG
66 AACTTAATAAG
* * * * * *
21693008 CAACTAAATAGTCACCTGCAAGCATTTATTAACAAACACGTTAAAACACATTTAAACACATATTA
1 CAACTAAATAGGCACCTGCAAACATTTATGAACAAACACATTAAAACACATTTAAACACAAACTA
*
21693073 GACTTAATAAG
66 AACTTAATAAG
21693084 TTTAATTAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
74 45 0.68
75 5 0.08
76 16 0.24
ACGTcount: A:0.49, C:0.19, G:0.07, T:0.24
Consensus pattern (76 bp):
CAACTAAATAGGCACCTGCAAACATTTATGAACAAACACATTAAAACACATTTAAACACAAACTA
AACTTAATAAG
Found at i:21694303 original size:26 final size:28
Alignment explanation
Indices: 21694234--21694306 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 28
21694224 TTAACTCCAT
*
21694234 GGGTATTTCGGTCATTTT-CCCCTTCAG
1 GGGTATTTCGATCATTTTACCCCTTCAG
* * *
21694261 GGGTATTTCGATAATTTTACCCTTTGA-
1 GGGTATTTCGATCATTTTACCCCTTCAG
21694288 GGG-ATTTCGATCATTTTAC
1 GGGTATTTCGATCATTTTAC
21694307 GCTATAGGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
26 15 0.38
27 19 0.47
28 6 0.15
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (28 bp):
GGGTATTTCGATCATTTTACCCCTTCAG
Found at i:21696477 original size:19 final size:19
Alignment explanation
Indices: 21696450--21696542 Score: 79
Period size: 19 Copynumber: 5.1 Consensus size: 19
21696440 TTATTCCAGC
*
21696450 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
21696469 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
* * *
21696488 -A-GTAATTTATTCT-AG--C
1 AACTTAA-TTA-ACTAAGATG
*
21696504 AACTTAATTAATTAAGATG
1 AACTTAATTAACTAAGATG
*
21696523 AACTCAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
21696542 A
1 A
21696543 GTAATTTATT
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
16 1 0.02
17 9 0.16
18 9 0.16
19 38 0.67
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:21696505 original size:54 final size:54
Alignment explanation
Indices: 21696440--21696565 Score: 216
Period size: 54 Copynumber: 2.3 Consensus size: 54
21696430 CAACAATAAA
*
21696440 TTATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
* * *
21696494 TTATTCTAGCAACTTAATTAATTAAGATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
21696548 TTATTCCAGCAACTAAAT
1 TTATTCCAGCAACTAAAT
21696566 ACTTATTCCA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (54 bp):
TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
Found at i:21696669 original size:20 final size:21
Alignment explanation
Indices: 21696640--21696679 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
21696630 AGCTTGAAGA
* *
21696640 AGCTAGAATTGAGC-TCATTG
1 AGCTAAAATTAAGCTTCATTG
21696660 AGCTAAAATTAAGCTTCATT
1 AGCTAAAATTAAGCTTCATT
21696680 TTGCACTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
AGCTAAAATTAAGCTTCATTG
Found at i:21699446 original size:37 final size:37
Alignment explanation
Indices: 21699396--21699470 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
21699386 TCTAAAAGTC
21699396 AAAATTAAAAAGAGGCGAGCTTTAAAAGCCCAATGTG
1 AAAATTAAAAAGAGGCGAGCTTTAAAAGCCCAATGTG
21699433 AAAATTAAAAAGAGGCGAGCTTTAAAAGCCCAATGTG
1 AAAATTAAAAAGAGGCGAGCTTTAAAAGCCCAATGTG
21699470 A
1 A
21699471 GATCAACACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.19
Consensus pattern (37 bp):
AAAATTAAAAAGAGGCGAGCTTTAAAAGCCCAATGTG
Found at i:21700522 original size:25 final size:25
Alignment explanation
Indices: 21700484--21700532 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
21700474 ATTAATTGGT
21700484 TCCAATGTAAGTTCAGCCGAATCTA
1 TCCAATGTAAGTTCAGCCGAATCTA
* *
21700509 TCCAATGTATGTTCAGTCGAATCT
1 TCCAATGTAAGTTCAGCCGAATCT
21700533 GTAGAAAAGC
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:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (25 bp):
TCCAATGTAAGTTCAGCCGAATCTA
Found at i:21713143 original size:23 final size:23
Alignment explanation
Indices: 21713117--21713162 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
21713107 CTTTCTCACT
* *
21713117 GTAGGAATTTTTGGGGTATTACA
1 GTAGGAATTTTCGGGATATTACA
*
21713140 GTAGTAATTTTCGGGATATTACA
1 GTAGGAATTTTCGGGATATTACA
21713163 AAGCTACTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.39
Consensus pattern (23 bp):
GTAGGAATTTTCGGGATATTACA
Found at i:21713520 original size:50 final size:50
Alignment explanation
Indices: 21713446--21713545 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
21713436 CGGACTGATC
*
21713446 ATCAGTCTGAGGATTAAATGCAGTGCTAAAATGCAACCGCGTACCAAGAG
1 ATCAGTCTAAGGATTAAATGCAGTGCTAAAATGCAACCGCGTACCAAGAG
21713496 ATCAGTCTAAGGATTAAATGCAGTGCTAAAATGCAACCGCGTACCAAGAG
1 ATCAGTCTAAGGATTAAATGCAGTGCTAAAATGCAACCGCGTACCAAGAG
21713546 CTTCCTGTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (50 bp):
ATCAGTCTAAGGATTAAATGCAGTGCTAAAATGCAACCGCGTACCAAGAG
Found at i:21725210 original size:41 final size:41
Alignment explanation
Indices: 21725160--21725275 Score: 171
Period size: 40 Copynumber: 2.9 Consensus size: 41
21725150 ATAATTAATT
21725160 ATACCCCTGAATTGCACATACGTGCCCCTATTTGTAATTCG
1 ATACCCCTGAATTGCACATACGTGCCCCTATTTGTAATTCG
** * * *
21725201 ATACCCCTGAATTGCACATATATGCCCC-GTTTGTACTTTG
1 ATACCCCTGAATTGCACATACGTGCCCCTATTTGTAATTCG
*
21725241 ATACCCCTGAATTGCACATACGTGCCCCTTTTTGT
1 ATACCCCTGAATTGCACATACGTGCCCCTATTTGT
21725276 GCTTTAGTGA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
40 35 0.53
41 31 0.47
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (41 bp):
ATACCCCTGAATTGCACATACGTGCCCCTATTTGTAATTCG
Found at i:21725298 original size:81 final size:82
Alignment explanation
Indices: 21725160--21725314 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 82
21725150 ATAATTAATT
* * * *
21725160 ATACCCCTGAATTGCACATACGTGCCCCTATTTGTAATTCGATACCCCTGAATTGCACATATATG
1 ATACCCCTGAATTGCACATACGTGCCCCTATTTGTAATTAGATACCACTAAAGTGCACATATATG
21725225 CCCC-GTTTGTACTTTG
66 CCCCTGTTTGTACTTTG
* ** *
21725241 ATACCCCTGAATTGCACATACGTGCCCCTTTTTGTGCTTTAG-TGA-CACTAAAGTGCACATATG
1 ATACCCCTGAATTGCACATACGTGCCCCTATTTGT-AATTAGAT-ACCACTAAAGTGCACATATA
21725304 TGCCCCTGTTT
64 TGCCCCTGTTT
21725315 ACACTCAGAG
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
81 55 0.87
82 8 0.13
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.34
Consensus pattern (82 bp):
ATACCCCTGAATTGCACATACGTGCCCCTATTTGTAATTAGATACCACTAAAGTGCACATATATG
CCCCTGTTTGTACTTTG
Found at i:21725737 original size:20 final size:21
Alignment explanation
Indices: 21725714--21725753 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21725704 ACCATATTCT
*
21725714 TTCAT-TTTTTTCTCATTTAC
1 TTCATCTTCTTTCTCATTTAC
*
21725734 TTCATCTTCTTTCTCTTTTA
1 TTCATCTTCTTTCTCATTTA
21725754 GTTTGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.65
Consensus pattern (21 bp):
TTCATCTTCTTTCTCATTTAC
Found at i:21742716 original size:5 final size:5
Alignment explanation
Indices: 21742706--21742773 Score: 82
Period size: 5 Copynumber: 13.6 Consensus size: 5
21742696 GTATATATAT
* * * * * *
21742706 ATTCC ATTCC ATACC ATTTC ATTCC ATACT ATTCC ATTTC ATACC ATTCC
1 ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC
21742756 ATTCC ATTCC ATTCC ATT
1 ATTCC ATTCC ATTCC ATT
21742774 TCATCAAGCA
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.25, C:0.34, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTCC
Found at i:21742730 original size:15 final size:15
Alignment explanation
Indices: 21742706--21742773 Score: 100
Period size: 15 Copynumber: 4.5 Consensus size: 15
21742696 GTATATATAT
21742706 ATTCCATTCCATACC
1 ATTCCATTCCATACC
* *
21742721 ATTTCATTCCATACT
1 ATTCCATTCCATACC
*
21742736 ATTCCATTTCATACC
1 ATTCCATTCCATACC
*
21742751 ATTCCATTCCATTCC
1 ATTCCATTCCATACC
21742766 ATTCCATT
1 ATTCCATT
21742774 TCATCAAGCA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.25, C:0.34, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTCCATTCCATACC
Found at i:21743857 original size:51 final size:51
Alignment explanation
Indices: 21743682--21744123 Score: 402
Period size: 51 Copynumber: 8.7 Consensus size: 51
21743672 ATTCGATACT
* *
21743682 CGTAGTAGCCTTCACATAGTACTACACACGTGATC-AA-TTTTTACGGTTCA
1 CGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTTCA
* *
21743732 CGTAATAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTTCA
1 CGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTTCA
* * *
21743782 CGTAGTAGCCTTCACATAGTACTACATACGTGACTAAAGCTTTTCGGTACA
1 CGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTTCA
* * * * * **
21743833 CATAGTATCCTTCACTTAGTACTACACATGTGACC--ATCATTTATCAATTCA
1 CGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGC-TTT-TCGGTTCA
* * * *
21743884 CGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTGGGTACA
1 CGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTTCA
** * * * * *
21743935 TATTGTAG-CTTCACTTAGTACTACACATGTGACCATTA--TTTATCGATTCA
1 CGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTTT-TCGGTTCA
* * *
21743985 CGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACA
1 CGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTTCA
** * * * * * *
21744036 TATTGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TTTATTGATTCA
1 CGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTTT-TCGGTTCA
*
21744087 CGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
1 CGTAGTAGCCTTCACATAGTACTACACACGTGACCAA
21744124 CACTTTCACT
Statistics
Matches: 312, Mismatches: 66, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
49 4 0.01
50 119 0.38
51 178 0.57
52 9 0.03
53 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (51 bp):
CGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTTCA
Found at i:21743947 original size:152 final size:151
Alignment explanation
Indices: 21743684--21744021 Score: 362
Period size: 152 Copynumber: 2.2 Consensus size: 151
21743674 TCGATACTCG
* * ** *
21743684 TAGTAGCCTTCACATAGTACTACACACGTGATCAATTTTTACGGTTCACGTAATAGCCTTCACAT
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAATTTATACAATTCACGTAATAGCCTTCACAC
* * * *
21743749 AGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTAGCCTTCACATAGTACTACATACGTG
66 AGTACTACACACGTGACCAAGTTCTACGGTACACATAGTAGCCTTCACATAGTACTACATACGTG
21743814 ACTAAAGCTTTTCGGTACACA
131 ACTAAAGCTTTTCGGTACACA
* * * *
21743835 TAGTATCCTTCACTTAGTACTACACATGTGACCATCATTTAT-CAATTCACGTAGTAGCCTTCAC
1 TAGTAGCCTTCACATAGTACTACACACGTGACCA--ATTTATACAATTCACGTAATAGCCTTCAC
* * * * *
21743899 ACAGTACTACACACGTGACCAAAGCTTCT-GGGTACATATTGTAG-CTTCACTTAGTACTACACA
64 ACAGTACTACACACGTGACC-AAG-TTCTACGGTACACATAGTAGCCTTCACATAGTACTACATA
* * * * * *
21743962 TGTGACCATTA--TTTATCGATTCACG
127 CGTGACTA-AAGCTTT-TCGGTACACA
*
21743987 TAGTAGCCTTCACACAGTACTACACACGTGACCAA
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAA
21744022 AGCTTCTCGG
Statistics
Matches: 153, Mismatches: 28, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
150 1 0.01
151 33 0.22
152 97 0.63
153 19 0.12
154 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (151 bp):
TAGTAGCCTTCACATAGTACTACACACGTGACCAATTTATACAATTCACGTAATAGCCTTCACAC
AGTACTACACACGTGACCAAGTTCTACGGTACACATAGTAGCCTTCACATAGTACTACATACGTG
ACTAAAGCTTTTCGGTACACA
Found at i:21744034 original size:203 final size:202
Alignment explanation
Indices: 21743741--21744123 Score: 606
Period size: 203 Copynumber: 1.9 Consensus size: 202
21743731 ACGTAATAGC
* *
21743741 CTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTAGCCTTCACATAGTACTA
1 CTTCACATAGTACTACACACGTGATCAAGTTTTACGATTCACGTAGTAGCCTTCACACAGTACTA
* * * *
21743806 CATACGTGACTAAAGCTTTTCGGTACACATAGTATCCTTCACTTAGTACTACACATGTGACCATC
66 CACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATC
21743871 ATTTATCAATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTGGGTACAT
131 ATTTATCAATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTGGGTACAT
21743936 ATTGTAG
196 ATTGTAG
* * * *
21743943 CTTCACTTAGTACTACACATGTGA-CCATTATTTATCGATTCACGTAGTAGCCTTCACACAGTAC
1 CTTCACATAGTACTACACACGTGATCAAGT-TTTA-CGATTCACGTAGTAGCCTTCACACAGTAC
* *
21744007 TACACACGTGACCAAAGCTTCTCGGTACATATTGTAGCCTTCACTTAGTACTACACATGTGACCA
64 TACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCA
* **
21744072 TTATTTATTGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
129 TCATTTATCAATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
21744124 CACTTTCACT
Statistics
Matches: 164, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
201 3 0.02
202 26 0.16
203 135 0.82
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (202 bp):
CTTCACATAGTACTACACACGTGATCAAGTTTTACGATTCACGTAGTAGCCTTCACACAGTACTA
CACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATC
ATTTATCAATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTGGGTACAT
ATTGTAG
Found at i:21747186 original size:12 final size:12
Alignment explanation
Indices: 21747171--21747200 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21747161 TTAGGTTGTT
21747171 ACACGGCCTAGC
1 ACACGGCCTAGC
*
21747183 ACACGGCCTGGC
1 ACACGGCCTAGC
21747195 ACACGG
1 ACACGG
21747201 GCGTGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:21748931 original size:40 final size:41
Alignment explanation
Indices: 21748873--21749037 Score: 190
Period size: 41 Copynumber: 4.1 Consensus size: 41
21748863 AAAATGTCGT
* * * * *
21748873 AAAAGGTAAAGTATTAGCGACATTTTT-GCATAAACGCCGC
1 AAAAGGTAAAGCAATAGCGGCATTTTTCTCATAAACACCGC
* *
21748913 AAAAAGTAAAGCAATAGCGGCATTTTTCTCATAAACACCGT
1 AAAAGGTAAAGCAATAGCGGCATTTTTCTCATAAACACCGC
* * * *
21748954 AAAAGGTAAATCAATAGCGGCGTTTTTCTCATAAACGCTGC
1 AAAAGGTAAAGCAATAGCGGCATTTTTCTCATAAACACCGC
* * *
21748995 TAAAGGCAAAGCAATAGCGGCATTTTT-ACATAAACACCGC
1 AAAAGGTAAAGCAATAGCGGCATTTTTCTCATAAACACCGC
21749035 AAA
1 AAA
21749038 TATTTTTTAC
Statistics
Matches: 103, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
40 35 0.34
41 68 0.66
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (41 bp):
AAAAGGTAAAGCAATAGCGGCATTTTTCTCATAAACACCGC
Found at i:21749028 original size:81 final size:81
Alignment explanation
Indices: 21748870--21749033 Score: 215
Period size: 81 Copynumber: 2.0 Consensus size: 81
21748860 TTGAAAATGT
* *
21748870 CGTAAAAGGTAAAGTATTAGCGACATTTTTGCATAAACGCCGCAAAAAGTAAAGCAATAGCGGCA
1 CGTAAAAGGTAAAGTAATAGCGACATTTTTGCATAAACGCCGCAAAAAGCAAAGCAATAGCGGCA
*
21748935 TTTTTCTCATAAACAC
66 TTTTTCACATAAACAC
* * * * * *
21748951 CGTAAAAGGTAAA-TCAATAGCGGCGTTTTTCTCATAAACGCTGCTAAAGGCAAAGCAATAGCGG
1 CGTAAAAGGTAAAGT-AATAGCGACATTTTT-GCATAAACGCCGCAAAAAGCAAAGCAATAGCGG
21749015 CATTTTT-ACATAAACAC
64 CATTTTTCACATAAACAC
21749032 CG
1 CG
21749034 CAAATATTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
80 1 0.01
81 36 0.50
82 35 0.49
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (81 bp):
CGTAAAAGGTAAAGTAATAGCGACATTTTTGCATAAACGCCGCAAAAAGCAAAGCAATAGCGGCA
TTTTTCACATAAACAC
Found at i:21751881 original size:18 final size:18
Alignment explanation
Indices: 21751858--21751894 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21751848 TGAATTTTAA
21751858 AATTTGAATAACTCGAAT
1 AATTTGAATAACTCGAAT
*
21751876 AATTTGAATAATTCGAAT
1 AATTTGAATAACTCGAAT
21751894 A
1 A
21751895 GAAACTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (18 bp):
AATTTGAATAACTCGAAT
Found at i:21751940 original size:29 final size:29
Alignment explanation
Indices: 21751900--21751958 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
21751890 GAATAGAAAC
* *
21751900 TATATTTTTTATTTTTCAAATACACCACA
1 TATATTTTTTATTTTTAAAAAACACCACA
*
21751929 TATATTTTTTATTTTTAAAAAACACTACA
1 TATATTTTTTATTTTTAAAAAACACCACA
21751958 T
1 T
21751959 TTAAAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (29 bp):
TATATTTTTTATTTTTAAAAAACACCACA
Found at i:21756860 original size:22 final size:21
Alignment explanation
Indices: 21756835--21756904 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 21
21756825 TGGTTTGTTA
21756835 TTGTTGTTGGTTAATTGGACTT
1 TTGTTGTTGGTTAATTGGA-TT
21756857 TTGTTGGTTTGG-T--TT-G-TT
1 TTGTT-G-TTGGTTAATTGGATT
21756875 ATTGTTGTTGGTTAATTGGATTT
1 -TTGTTGTTGGTTAATTGGA-TT
21756898 TTGTTGT
1 TTGTTGT
21756905 GTTCTTTTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 18
0.68 0.00 0.32
Matches are distributed among these distances:
17 4 0.10
18 4 0.10
19 5 0.13
20 3 0.08
21 3 0.08
22 12 0.31
23 4 0.10
24 4 0.10
ACGTcount: A:0.10, C:0.01, G:0.29, T:0.60
Consensus pattern (21 bp):
TTGTTGTTGGTTAATTGGATT
Found at i:21756865 original size:41 final size:41
Alignment explanation
Indices: 21756819--21756903 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
21756809 TGTTATTAGT
21756819 TTGGTTTGGTTTGTTATTGTTGTTGGTTAATTGGACTTTTG
1 TTGGTTTGGTTTGTTATTGTTGTTGGTTAATTGGACTTTTG
*
21756860 TTGGTTTGGTTTGTTATTGTTGTTGGTTAATTGGATTTTTG
1 TTGGTTTGGTTTGTTATTGTTGTTGGTTAATTGGACTTTTG
21756901 TTG
1 TTG
21756904 TGTTCTTTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.09, C:0.01, G:0.29, T:0.60
Consensus pattern (41 bp):
TTGGTTTGGTTTGTTATTGTTGTTGGTTAATTGGACTTTTG
Found at i:21756903 original size:19 final size:19
Alignment explanation
Indices: 21756838--21756903 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
21756828 TTTGTTATTG
*
21756838 TTGTTGGTTAATTGGACTT
1 TTGTTGGTTAATTGGATTT
** * *
21756857 TTGTTGGTTTGGTTTGTTATTG
1 TTGTTGG-TT-AATTG-GATTT
21756879 TTGTTGGTTAATTGGATTT
1 TTGTTGGTTAATTGGATTT
21756898 TTGTTG
1 TTGTTG
21756904 TGTTCTTTTG
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
19 16 0.46
20 5 0.14
21 5 0.14
22 9 0.26
ACGTcount: A:0.11, C:0.02, G:0.29, T:0.59
Consensus pattern (19 bp):
TTGTTGGTTAATTGGATTT
Found at i:21759799 original size:19 final size:20
Alignment explanation
Indices: 21759755--21759804 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
21759745 CAAAAATAAA
21759755 ATAAAATAAAATATTAATTAT
1 ATAAAAT-AAATATTAATTAT
*
21759776 AT-AAATAAATATTATTTA-
1 ATAAAATAAATATTAATTAT
21759794 ATTAAAATAAA
1 A-TAAAATAAA
21759805 GGTCATGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 12 0.46
20 11 0.42
21 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAAATAAATATTAATTAT
Found at i:21759997 original size:43 final size:43
Alignment explanation
Indices: 21759801--21760005 Score: 153
Period size: 43 Copynumber: 4.6 Consensus size: 43
21759791 TTAATTAAAA
* * ** * * * **
21759801 TAAAGGTCATGTTATTTAATGGCGTTTGTGAGAAAAACACCAC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAACCGCGGC
* * * *
21759844 TAAAGATTATGTTCTATAGCGGTGTTTGTGGGAAAAGCGTC-GC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAACCG-CGGC
** *
21759887 TAAAGGTC-TGTTCTATAGAAGCGTTTGTAGGAAAAGCGCCGCTAGTTGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAA---CCGC--G--GC
* *
21759936 TAAAGGTCATGTTTTATAGCGGCGTTTATGGGAAAACCGCGGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAACCGCGGC
*
21759979 TAAAGGTCATGTTCTATAGTGGCGTTT
1 TAAAGGTCATGTTCTATAGCGGCGTTT
21760006 TTCCACATAA
Statistics
Matches: 127, Mismatches: 25, Indels: 20
0.74 0.15 0.12
Matches are distributed among these distances:
42 23 0.18
43 63 0.50
44 2 0.02
45 3 0.02
47 4 0.03
49 10 0.08
50 22 0.17
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (43 bp):
TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAACCGCGGC
Found at i:21764720 original size:25 final size:25
Alignment explanation
Indices: 21764692--21764802 Score: 100
Period size: 25 Copynumber: 4.4 Consensus size: 25
21764682 CCACCACTTG
* *
21764692 TGAGAGCATACCAATTTATAGCTCA
1 TGAGAGCATACCGATTTACAGCTCA
* * *
21764717 TGAGAGCATACCGACTTATAGCTTA
1 TGAGAGCATACCGATTTACAGCTCA
* *
21764742 TGAGAGCGTACCGATCTACAGCTCA
1 TGAGAGCATACCGATTTACAGCTCA
* * *
21764767 -AATGAGCATACCTATTCACAGCTCA
1 TGA-GAGCATACCGATTTACAGCTCA
21764792 T-ATGAGCATAC
1 TGA-GAGCATAC
21764803 TTGTACATGA
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
24 1 0.01
25 70 0.99
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (25 bp):
TGAGAGCATACCGATTTACAGCTCA
Found at i:21766668 original size:22 final size:23
Alignment explanation
Indices: 21766635--21766678 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
21766625 TCTATCGAAA
21766635 ATTATCAAAATTAATAAAAATTT
1 ATTATCAAAATTAATAAAAATTT
*
21766658 ATTAT-AAAATTAATTAAAATT
1 ATTATCAAAATTAATAAAAATT
21766679 CAACATGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTATCAAAATTAATAAAAATTT
Found at i:21769174 original size:26 final size:26
Alignment explanation
Indices: 21769145--21769197 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
21769135 CAAGGAACAG
* *
21769145 TATTCGTCATTTTCGAAATCAGGTAA
1 TATTCATCATTTTAGAAATCAGGTAA
21769171 TATTCATCATTTTAGAAATCAGGTAA
1 TATTCATCATTTTAGAAATCAGGTAA
21769197 T
1 T
21769198 TCAATACCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (26 bp):
TATTCATCATTTTAGAAATCAGGTAA
Found at i:21774120 original size:8 final size:8
Alignment explanation
Indices: 21774107--21774133 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
21774097 TTATGAAACT
21774107 TAATTAAC
1 TAATTAAC
21774115 TAATTAAC
1 TAATTAAC
21774123 TAATTAAC
1 TAATTAAC
21774131 TAA
1 TAA
21774134 GTAGCTAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (8 bp):
TAATTAAC
Found at i:21775716 original size:18 final size:18
Alignment explanation
Indices: 21775684--21775733 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
21775674 CTTTGTTCGA
* *
21775684 ACTCTCTCTTGTTCT-TC
1 ACTCTTTCTTTTTCTATC
21775701 ACTCGTTTCTTTTTCTATC
1 ACTC-TTTCTTTTTCTATC
*
21775720 TCTCTTTCTTTTTC
1 ACTCTTTCTTTTTC
21775734 CATTCTTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 19 0.68
19 5 0.18
ACGTcount: A:0.06, C:0.30, G:0.04, T:0.60
Consensus pattern (18 bp):
ACTCTTTCTTTTTCTATC
Found at i:21775744 original size:19 final size:18
Alignment explanation
Indices: 21775706--21775747 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 18
21775696 TCTTCACTCG
*
21775706 TTTCTTTTTCTATCTCTC
1 TTTCTTTTTCCATCTCTC
21775724 TTTCTTTTTCCA--T-TC
1 TTTCTTTTTCCATCTCTC
21775739 TTTCTTTTT
1 TTTCTTTTT
21775748 TGACAATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 11 0.48
16 1 0.04
18 11 0.48
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTCTTTTTCCATCTCTC
Found at i:21778652 original size:8 final size:8
Alignment explanation
Indices: 21778639--21778665 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
21778629 TTATGAAACT
21778639 TAATTAAC
1 TAATTAAC
21778647 TAATTAAC
1 TAATTAAC
21778655 TAATTAAC
1 TAATTAAC
21778663 TAA
1 TAA
21778666 GTTGCTAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (8 bp):
TAATTAAC
Found at i:21783974 original size:15 final size:15
Alignment explanation
Indices: 21783954--21783996 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
21783944 TTCGGTAAAT
21783954 TATAATATGTTATCA
1 TATAATATGTTATCA
21783969 TATAATATGTTATCA
1 TATAATATGTTATCA
*
21783984 TAAAATA-GTTATC
1 TATAATATGTTATC
21783997 TCTTTTAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 6 0.22
15 21 0.78
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (15 bp):
TATAATATGTTATCA
Found at i:21795092 original size:3 final size:3
Alignment explanation
Indices: 21795084--21795135 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
21795074 GAGGTTACAG
21795084 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21795132 TTA T
1 TTA T
21795136 ATACCTGGTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21797394 original size:67 final size:67
Alignment explanation
Indices: 21797315--21797478 Score: 188
Period size: 67 Copynumber: 2.4 Consensus size: 67
21797305 TTAAGGGTTT
*
21797315 AAAATTATTTTTTA-TGAAAATATTGAATAAGTGAGCTATGAAAGTATTCTCTAGTT-AATGCGA
1 AAAATTATTTTTTAGTGAAAATAATGAA-AAGTGAGCTATGAAAGTATTCTCTA-TTCAATGCGA
21797378 GATC
64 GATC
* * * *** * *
21797382 AAAATTATTTTTTATTAAAAATAGTGAAAAGTGAGCTATTCGAGTATTCTCTATTCAATGTGGGA
1 AAAATTATTTTTTAGTGAAAATAATGAAAAGTGAGCTATGAAAGTATTCTCTATTCAATGCGAGA
*
21797447 TT
66 TC
21797449 AAAATTAATTTTTTTAGTGAAAATAATGAA
1 AAAATT-A-TTTTTTAGTGAAAATAATGAA
21797479 GAAATTGACA
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
66 2 0.02
67 50 0.61
68 12 0.15
69 18 0.22
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (67 bp):
AAAATTATTTTTTAGTGAAAATAATGAAAAGTGAGCTATGAAAGTATTCTCTATTCAATGCGAGA
TC
Found at i:21797521 original size:251 final size:252
Alignment explanation
Indices: 21797149--21797697 Score: 616
Period size: 251 Copynumber: 2.2 Consensus size: 252
21797139 CTCTTAATGG
* * * *
21797149 AAATAGTAAAGAAGTGAGCCATGAGAGTATTTTCTAGTT-AATGTGGCATCAAAATTAACTTTTT
1 AAATAGTGAA-AAGTGAGCTATTAGAGTATTCTCTA-TTCAATGTGGCATCAAAATTAACTTTTT
* * *
21797213 AATGAAAACAGTGAAGAAATTAGTACTTATTTATAGGATAAGTGTGAGTATGAGAGTGTTCTCTA
64 AATGAAAACAATGAAGAAATTAGTACTTATTTATAAGATAAGTGTGAGTACGAGAGTGTTCTCTA
* * * * *
21797278 GTA-C-ATGTGGGATTAAAATTAAATTTTTTAAGG-GTTTAAAATT-ATTTTTTATGAAAATATT
129 --ACCAATGTAGGATTAAAATT-AACTTTTTAAGGAG-TTAAAATTAATTTTTAATGAAAACAGT
* * * *
21797339 GAATAAGTGAGCTATGAAAGTA-TTCTCTAGTTAATGCGAGATCAAAATT-A-TTTTTTATTAA
190 GAAGAAGTGAGCTATGAAAGTACTT-TCTAGTCAATGCGAGATCAAAATTAACTTTTGTAATAA
* * * *
21797400 AAATAGTGAAAAGTGAGCTATTCGAGTATTCTCTATTCAATGTGGGATTAAAATTAATTTTTTTA
1 AAATAGTGAAAAGTGAGCTATTAGAGTATTCTCTATTCAATGTGGCATCAAAATTAA-CTTTTTA
* * *
21797465 GTGAAAATAATGAAGAAATT-G-ACAGTTATTTTTACAG-TAAGTGTGAGTACGAGAGTGTTCTC
65 ATGAAAACAATGAAGAAATTAGTAC--TTATTTATA-AGATAAGTGTGAGTACGAGAGTGTTCTC
*
21797527 TAACCAATGTAGGATTAAGATTAACTTTTTAAGGAGTTAAAATTAATTTTTAATGAAAACAGTGA
127 TAACCAATGTAGGATTAAAATTAACTTTTTAAGGAGTTAAAATTAATTTTTAATGAAAACAGTGA
* * * * *
21797592 AGAAGTGAGCTCTGAGAGTACTTTCTAGTCAATGTGGGATTAAAATTAACTTTTGTAATAA
192 AGAAGTGAGCTATGAAAGTACTTTCTAGTCAATGCGAGATCAAAATTAACTTTTGTAATAA
* * **
21797653 AAATAGTGAAAAGATGAACTATTAGAGTATCCTCTCGTCAATGTG
1 AAATAGTGAAAAG-TGAGCTATTAGAGTATTCTCTATTCAATGTG
21797698 CTTATTTATA
Statistics
Matches: 251, Mismatches: 34, Indels: 23
0.81 0.11 0.07
Matches are distributed among these distances:
249 5 0.02
250 59 0.24
251 135 0.54
252 4 0.02
253 22 0.09
254 26 0.10
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.36
Consensus pattern (252 bp):
AAATAGTGAAAAGTGAGCTATTAGAGTATTCTCTATTCAATGTGGCATCAAAATTAACTTTTTAA
TGAAAACAATGAAGAAATTAGTACTTATTTATAAGATAAGTGTGAGTACGAGAGTGTTCTCTAAC
CAATGTAGGATTAAAATTAACTTTTTAAGGAGTTAAAATTAATTTTTAATGAAAACAGTGAAGAA
GTGAGCTATGAAAGTACTTTCTAGTCAATGCGAGATCAAAATTAACTTTTGTAATAA
Found at i:21797561 original size:21 final size:21
Alignment explanation
Indices: 21797537--21797579 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
21797527 TAACCAATGT
*
21797537 AGGA-TTAAGATTAACTTTTTA
1 AGGAGTTAAAATTAA-TTTTTA
21797558 AGGAGTTAAAATTAATTTTTA
1 AGGAGTTAAAATTAATTTTTA
21797579 A
1 A
21797580 TGAAAACAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (21 bp):
AGGAGTTAAAATTAATTTTTA
Found at i:21797693 original size:70 final size:68
Alignment explanation
Indices: 21797563--21797697 Score: 157
Period size: 70 Copynumber: 2.0 Consensus size: 68
21797553 TTTTAAGGAG
* * * *
21797563 TTAAAATTAATTTTTAATGAAAACAGTGAAGAAGTGAGCTCTGAGAGTACTTTCTAGTCAATGTG
1 TTAAAATTAATTTTTAATAAAAACAGTGAAGAAGTGAACTATGAGAGTACTCTCTAGTCAATGTG
21797628 GGA
66 GGA
* * *
21797631 TTAAAATTAACTTTTGTAATAAAAATAGTGAA-AAGATGAACTATTAGAGTA-TCCTCTCGTCAA
1 TTAAAATTAA-TTTT-TAATAAAAACAGTGAAGAAG-TGAACTATGAGAGTACT-CTCTAGTCAA
21797694 TGTG
62 TGTG
21797698 CTTATTTATA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
68 10 0.18
69 8 0.14
70 38 0.68
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.33
Consensus pattern (68 bp):
TTAAAATTAATTTTTAATAAAAACAGTGAAGAAGTGAACTATGAGAGTACTCTCTAGTCAATGTG
GGA
Found at i:21798001 original size:70 final size:70
Alignment explanation
Indices: 21797864--21798002 Score: 194
Period size: 70 Copynumber: 2.0 Consensus size: 70
21797854 ACTAAGTGAA
* * *
21797864 CTATGAGAGTATTCTCTAGTTAATGTGTGATTAAAATTAACCTTTTTAATGAAAATAGTGAATAA
1 CTATGAGAGTATTCTCTAGTCAATGTGTGATTAAAATTAACCTTTTTAATGAAAATAATGAAAAA
21797929 TTGAG
66 TTGAG
*
21797934 CTATGAGAGTATTCTCTGGTCAATGTAG-GATTAAAATTAA-CTTTTTAAT-AAAACTAATGAAG
1 CTATGAGAGTATTCTCTAGTCAATGT-GTGATTAAAATTAACCTTTTTAATGAAAA-TAATGAA-
21797996 AAATTGA
63 AAATTGA
21798003 CACTTATTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
68 4 0.06
69 15 0.24
70 42 0.68
71 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.37
Consensus pattern (70 bp):
CTATGAGAGTATTCTCTAGTCAATGTGTGATTAAAATTAACCTTTTTAATGAAAATAATGAAAAA
TTGAG
Found at i:21800591 original size:31 final size:31
Alignment explanation
Indices: 21800556--21800634 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
21800546 TCATGCGTGC
* *
21800556 ACCTTACTAAATGGATCTCCACATTCGGCTA
1 ACCTTACTAAATGGATCCCCACATTCGGCCA
* * *
21800587 ACCTTGCTAAATGAACCCCCACATTCGGCCA
1 ACCTTACTAAATGGATCCCCACATTCGGCCA
21800618 ACC-TACATAAATAGGAT
1 ACCTTAC-TAAAT-GGAT
21800635 GAACTAATAT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
30 2 0.05
31 34 0.89
32 2 0.05
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.24
Consensus pattern (31 bp):
ACCTTACTAAATGGATCCCCACATTCGGCCA
Found at i:21806109 original size:26 final size:26
Alignment explanation
Indices: 21806080--21806141 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
21806070 AATGAAAACA
*
21806080 TTTGTGGCATATTTGAAATGGAAGCC
1 TTTGTGGCATATCTGAAATGGAAGCC
**
21806106 TTTGTGGTGTATCTGAAATGGAAGCC
1 TTTGTGGCATATCTGAAATGGAAGCC
21806132 TTTGTGGCAT
1 TTTGTGGCAT
21806142 TTTCTAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.23, C:0.11, G:0.29, T:0.37
Consensus pattern (26 bp):
TTTGTGGCATATCTGAAATGGAAGCC
Found at i:21806573 original size:39 final size:39
Alignment explanation
Indices: 21806519--21806595 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
21806509 AAGCTAACGG
* *
21806519 TAAGACTAGTAAGTACGAGACGTGTGCATAGGTATAACC
1 TAAGACTAGGAAGTACGAGACGTGTCCATAGGTATAACC
21806558 TAAGACTAGGAAGTACGAGACGTGTCCATAGGTATAAC
1 TAAGACTAGGAAGTACGAGACGTGTCCATAGGTATAAC
21806596 AGTAAGGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (39 bp):
TAAGACTAGGAAGTACGAGACGTGTCCATAGGTATAACC
Found at i:21807274 original size:23 final size:23
Alignment explanation
Indices: 21807238--21807288 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
21807228 ACAAGTATGT
21807238 TGTAATATCCCGAAAATTACTAC
1 TGTAATATCCCGAAAATTACTAC
21807261 TGTAATA-CCTCGAAAATTACTAC
1 TGTAATATCC-CGAAAATTACTAC
*
21807284 AGTAA
1 TGTAA
21807289 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATATCCCGAAAATTACTAC
Found at i:21812212 original size:45 final size:45
Alignment explanation
Indices: 21812149--21812242 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
21812139 GTTACGCATA
*
21812149 CATAGTCACCCATCCACTCAGGATTTAGGTATGCCACACTATGAG
1 CATAGTCACCCATCCACTCAGGATTTAGGTATGCCACACTATGAC
*
21812194 CATAGTCACCTATCCACTCAGGATTTAGGTATGCCACACTATGAC
1 CATAGTCACCCATCCACTCAGGATTTAGGTATGCCACACTATGAC
21812239 CATA
1 CATA
21812243 AAAGGTGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (45 bp):
CATAGTCACCCATCCACTCAGGATTTAGGTATGCCACACTATGAC
Found at i:21813262 original size:35 final size:35
Alignment explanation
Indices: 21813210--21813301 Score: 98
Period size: 35 Copynumber: 2.6 Consensus size: 35
21813200 GTATTGTAGG
** ** *
21813210 ACTTATATACTGCTTACATGGTGTCACTTCGAAGGA
1 ACTTATATACTATTTACATGGTGTCACCCCCAA-GA
*
21813246 AC-TATATAAC-ATTTACAAGGTGTCACCCCCAAGA
1 ACTTATAT-ACTATTTACATGGTGTCACCCCCAAGA
21813280 ACTTATATACTATTTACATGGT
1 ACTTATATACTATTTACATGGT
21813302 TTTGCCTCGA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
34 6 0.13
35 36 0.78
36 4 0.09
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.33
Consensus pattern (35 bp):
ACTTATATACTATTTACATGGTGTCACCCCCAAGA
Found at i:21814931 original size:38 final size:38
Alignment explanation
Indices: 21814883--21814971 Score: 124
Period size: 38 Copynumber: 2.3 Consensus size: 38
21814873 GAATGACAAT
* * *
21814883 TCATGTCTACTGTTTCTACCATTGATCTCATGTTTTAA
1 TCATGCCTACTATTTCTACCATTGATCGCATGTTTTAA
* *
21814921 TCATGCCTACTATTTCTGCCATTGATCGCGTGTTTTAA
1 TCATGCCTACTATTTCTACCATTGATCGCATGTTTTAA
*
21814959 TCATGCATACTAT
1 TCATGCCTACTAT
21814972 ATTGTTTCTG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.44
Consensus pattern (38 bp):
TCATGCCTACTATTTCTACCATTGATCGCATGTTTTAA
Found at i:21815120 original size:20 final size:20
Alignment explanation
Indices: 21815096--21815165 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
21815086 AGTATATCTG
21815096 CAATACTGGTGGCTTGTCCA
1 CAATACTGGTGGCTTGTCCA
* * *** *
21815116 TAATACTAGCAACTTGTCTA
1 CAATACTGGTGGCTTGTCCA
*
21815136 CAATTCTGGTGGCTTGTCCA
1 CAATACTGGTGGCTTGTCCA
21815156 CAAT-CTGGTG
1 CAATACTGGTG
21815166 TGTTATTGGC
Statistics
Matches: 37, Mismatches: 13, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
19 6 0.16
20 31 0.84
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (20 bp):
CAATACTGGTGGCTTGTCCA
Found at i:21815121 original size:40 final size:40
Alignment explanation
Indices: 21815077--21815155 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
21815067 GCTTGTTTGC
* *
21815077 AATACTAGC-AGTATATCTGCAATACTGGTGGCTTGTCCAT
1 AATACTAGCAACT-TATCTACAATACTGGTGGCTTGTCCAT
* *
21815117 AATACTAGCAACTTGTCTACAATTCTGGTGGCTTGTCCA
1 AATACTAGCAACTTATCTACAATACTGGTGGCTTGTCCA
21815156 CAATCTGGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 32 0.94
41 2 0.06
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (40 bp):
AATACTAGCAACTTATCTACAATACTGGTGGCTTGTCCAT
Found at i:21826379 original size:31 final size:31
Alignment explanation
Indices: 21826326--21826391 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
21826316 TCATGCATGC
* * * * *
21826326 ACCTTGCTAAATGGATCTCCACATTTGGCTA
1 ACCTTGCTAAATGAACCCCCACATTCGGCCA
21826357 ACCTTGCTAAATGAACCCCCACATTCGGCCA
1 ACCTTGCTAAATGAACCCCCACATTCGGCCA
21826388 ACCT
1 ACCT
21826392 ACATAAATAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.26
Consensus pattern (31 bp):
ACCTTGCTAAATGAACCCCCACATTCGGCCA
Found at i:21829721 original size:15 final size:15
Alignment explanation
Indices: 21829684--21829721 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
21829674 CAATTTTTCA
21829684 CTCACTTTTTCTTTT
1 CTCACTTTTTCTTTT
21829699 -TCATCTTTTTCTTTT
1 CTCA-CTTTTTCTTTT
21829714 CTCACTTT
1 CTCACTTT
21829722 CTTTTCACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 3 0.14
15 15 0.71
16 3 0.14
ACGTcount: A:0.08, C:0.26, G:0.00, T:0.66
Consensus pattern (15 bp):
CTCACTTTTTCTTTT
Found at i:21829781 original size:18 final size:19
Alignment explanation
Indices: 21829732--21829797 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
21829722 CTTTTCACTC
* *
21829732 TCTTTTTTGAGTTTTC-TT
1 TCTTTTTTCATTTTTCTTT
21829750 TCTTTTTTTCATTTTTCTTT
1 TC-TTTTTTCATTTTTCTTT
21829770 TCTTTTTT-ATTTTCGCTCTTT
1 TCTTTTTTCATTTT---TCTTT
21829791 TCTTTTT
1 TCTTTTT
21829798 CTATCATTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
18 7 0.17
19 18 0.44
20 4 0.10
21 12 0.29
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.76
Consensus pattern (19 bp):
TCTTTTTTCATTTTTCTTT
Found at i:21833177 original size:31 final size:31
Alignment explanation
Indices: 21833119--21833184 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
21833109 TCATGCATGC
* * * *
21833119 ACCTTGCTAAATGGATCTCCACATTCGGCTA
1 ACCTTGCTAAATGAACCCCCACATTCGGCCA
*
21833150 ACCTTGCTAAATGAACCCCCACGTTCGGCCA
1 ACCTTGCTAAATGAACCCCCACATTCGGCCA
21833181 ACCT
1 ACCT
21833185 ACATAAATAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.35, G:0.15, T:0.24
Consensus pattern (31 bp):
ACCTTGCTAAATGAACCCCCACATTCGGCCA
Found at i:21834689 original size:22 final size:22
Alignment explanation
Indices: 21834661--21834705 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
21834651 ATTATGATGA
21834661 TTGATATG-ATGAGATTTATATT
1 TTGATATGTATGAGA-TTATATT
*
21834683 TTGATATGTATGTGATTATATT
1 TTGATATGTATGAGATTATATT
21834705 T
1 T
21834706 GTGTTGACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:21835476 original size:52 final size:52
Alignment explanation
Indices: 21835398--21835506 Score: 218
Period size: 52 Copynumber: 2.1 Consensus size: 52
21835388 ATTTTACTCG
21835398 CAACTAATAATATCCATAATTGAGATCTATTTTGAAAACATGGTTGCACCTT
1 CAACTAATAATATCCATAATTGAGATCTATTTTGAAAACATGGTTGCACCTT
21835450 CAACTAATAATATCCATAATTGAGATCTATTTTGAAAACATGGTTGCACCTT
1 CAACTAATAATATCCATAATTGAGATCTATTTTGAAAACATGGTTGCACCTT
21835502 CAACT
1 CAACT
21835507 GATCAAATAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (52 bp):
CAACTAATAATATCCATAATTGAGATCTATTTTGAAAACATGGTTGCACCTT
Found at i:21849624 original size:13 final size:13
Alignment explanation
Indices: 21849606--21849637 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
21849596 TTAATTTACC
21849606 AAATTAACCTTAT
1 AAATTAACCTTAT
*
21849619 ACATTAACCTTAT
1 AAATTAACCTTAT
21849632 AAATTA
1 AAATTA
21849638 TATTAACGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTAACCTTAT
Found at i:21854173 original size:22 final size:22
Alignment explanation
Indices: 21854145--21854201 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
21854135 AAGGTGGAAG
21854145 TTATGTGGTAGTTTATC-TGCGA
1 TTATGTGGTAGTTTATCAT-CGA
*
21854167 TTATGTGGTCG-TTATCATCGA
1 TTATGTGGTAGTTTATCATCGA
* *
21854188 ATATGTGGTGGTTT
1 TTATGTGGTAGTTT
21854202 GTCCATAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.18, C:0.09, G:0.28, T:0.46
Consensus pattern (22 bp):
TTATGTGGTAGTTTATCATCGA
Found at i:21856420 original size:16 final size:16
Alignment explanation
Indices: 21856399--21856430 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21856389 GAGTCTTAGT
21856399 TCTGAGTTGTTGTGAC
1 TCTGAGTTGTTGTGAC
21856415 TCTGAGTTGTTGTGAC
1 TCTGAGTTGTTGTGAC
21856431 ACTCAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.31, T:0.44
Consensus pattern (16 bp):
TCTGAGTTGTTGTGAC
Found at i:21856616 original size:19 final size:19
Alignment explanation
Indices: 21856594--21856631 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21856584 TCAATCATTT
21856594 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
21856613 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
21856632 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:21860775 original size:21 final size:21
Alignment explanation
Indices: 21860747--21860815 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
21860737 TCATGAGAGC
21860747 TAAACAAAAACCCATAAGGGT
1 TAAACAAAAACCCATAAGGGT
* * * * * *
21860768 TGAACAAAAGCTCGTAAGAGC
1 TAAACAAAAACCCATAAGGGT
*
21860789 TAAACAGAAACCCATAAGGGT
1 TAAACAAAAACCCATAAGGGT
21860810 TAAACA
1 TAAACA
21860816 GAAGCTCGAA
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.49, C:0.19, G:0.17, T:0.14
Consensus pattern (21 bp):
TAAACAAAAACCCATAAGGGT
Found at i:21860780 original size:42 final size:42
Alignment explanation
Indices: 21860733--21860876 Score: 166
Period size: 42 Copynumber: 3.4 Consensus size: 42
21860723 GGCTGAATAG
* *
21860733 AAGCTCATGAGAGCTAAACAAAAACCCATAAGGGTTGAACAA
1 AAGCTCATAAGAGCTAAACAAAAACCCATAAGGGTTAAACAA
* * *
21860775 AAGCTCGTAAGAGCTAAACAGAAACCCATAAGGGTTAAACAG
1 AAGCTCATAAGAGCTAAACAAAAACCCATAAGGGTTAAACAA
* ** * *
21860817 AAGCTCGA-AAGAGCTAAACGAAAACTTATAAGGGTTAAATAG
1 AAGCTC-ATAAGAGCTAAACAAAAACCCATAAGGGTTAAACAA
21860859 AAGCTCGA-AAGAGCTAAA
1 AAGCTC-ATAAGAGCTAAA
21860877 AAGAAAGTAA
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (42 bp):
AAGCTCATAAGAGCTAAACAAAAACCCATAAGGGTTAAACAA
Found at i:21860834 original size:21 final size:21
Alignment explanation
Indices: 21860770--21860881 Score: 68
Period size: 21 Copynumber: 5.3 Consensus size: 21
21860760 ATAAGGGTTG
* *
21860770 AACAAAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGAAAGAGCTA
* * * *
21860791 AACAGAAAC-CCATAAGGGTTA
1 AACAGAAGCTCGA-AAGAGCTA
21860812 AACAGAAGCTCGAAAGAGCTA
1 AACAGAAGCTCGAAAGAGCTA
* * * *
21860833 AAC-GAAAACT-TATAAGGGTTA
1 AACAG-AAGCTCGA-AAGAGCTA
*
21860854 AATAGAAGCTCGAAAGAGCTA
1 AACAGAAGCTCGAAAGAGCTA
*
21860875 AAAAGAA
1 AACAGAA
21860882 AGTAAAATAT
Statistics
Matches: 65, Mismatches: 20, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
20 3 0.05
21 58 0.89
22 4 0.06
ACGTcount: A:0.50, C:0.15, G:0.21, T:0.14
Consensus pattern (21 bp):
AACAGAAGCTCGAAAGAGCTA
Found at i:21863841 original size:20 final size:19
Alignment explanation
Indices: 21863814--21863855 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
21863804 CCTTTCAAAT
21863814 TTTCTTACTTT-CATTTTCA
1 TTTCTTACTTTCCATTTT-A
21863833 TTTCATTACTTTCCATTTTA
1 TTTC-TTACTTTCCATTTTA
21863853 TTT
1 TTT
21863856 ACTTTCTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTCTTACTTTCCATTTTA
Found at i:21868100 original size:20 final size:21
Alignment explanation
Indices: 21868063--21868102 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
21868053 GCATTTTAGT
*
21868063 TAAGTTTTAATTACATTTAAG
1 TAAGTTTTAATTAAATTTAAG
*
21868084 TAAG-TTTAGTTAAATTTAA
1 TAAGTTTTAATTAAATTTAA
21868103 TAAAGTGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (21 bp):
TAAGTTTTAATTAAATTTAAG
Found at i:21869194 original size:14 final size:14
Alignment explanation
Indices: 21869173--21869205 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
21869163 TTTCTTGTGA
21869173 TTTA-TTTCTTTAT
1 TTTATTTTCTTTAT
*
21869186 TTTATTTTCTTTCT
1 TTTATTTTCTTTAT
21869200 TTTATT
1 TTTATT
21869206 GTTATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTTCTTTAT
Found at i:21875720 original size:10 final size:11
Alignment explanation
Indices: 21875680--21875720 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
21875670 AACATAAACA
21875680 TTTTAGTTAAG
1 TTTTAGTTAAG
* *
21875691 TTTTAATTATG
1 TTTTAGTTAAG
21875702 TTTTA-TTAAG
1 TTTTAGTTAAG
21875712 -TTTAGTTAA
1 TTTTAGTTAA
21875721 ATTCAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
9 4 0.15
10 8 0.31
11 14 0.54
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (11 bp):
TTTTAGTTAAG
Found at i:21877117 original size:21 final size:21
Alignment explanation
Indices: 21877091--21877130 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
21877081 GGTACGTTCA
21877091 GAGGCGATCAAAAACAAAACG
1 GAGGCGATCAAAAACAAAACG
21877112 GAGGCGATCAAAAACAAAA
1 GAGGCGATCAAAAACAAAA
21877131 TCGTACGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.17, G:0.23, T:0.05
Consensus pattern (21 bp):
GAGGCGATCAAAAACAAAACG
Found at i:21881558 original size:10 final size:12
Alignment explanation
Indices: 21881533--21881561 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
21881523 TCAGGTAGTT
21881533 ACACGGCCTAAC
1 ACACGGCCTAAC
21881545 ACACGGCCTAAC
1 ACACGGCCTAAC
21881557 ACACG
1 ACACG
21881562 AGCGTGTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.41, G:0.17, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAAC
Found at i:21883732 original size:18 final size:17
Alignment explanation
Indices: 21883699--21883737 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
21883689 TTTTATAAAT
21883699 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
21883717 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
21883734 TGTG
1 TGTG
21883738 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:21883989 original size:23 final size:23
Alignment explanation
Indices: 21883963--21884107 Score: 254
Period size: 23 Copynumber: 6.3 Consensus size: 23
21883953 AGTGTTATTG
21883963 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
21883986 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
*
21884009 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACGT
*
21884032 ATCAGTGGTAGCTTTGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
*
21884055 ATCAGTGGTAGCTTCAGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
*
21884078 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACGT
21884101 ATCAGTG
1 ATCAGTG
21884108 TGGCACTTAT
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 115 1.00
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACGT
Found at i:21884970 original size:27 final size:27
Alignment explanation
Indices: 21884940--21884997 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
21884930 TGGAATGGAG
21884940 AGGAGGAGGAGGAGGACAATAAAATGT
1 AGGAGGAGGAGGAGGACAATAAAATGT
21884967 AGGAGGAGGAGGAGGACAATAAAATGT
1 AGGAGGAGGAGGAGGACAATAAAATGT
21884994 AGGA
1 AGGA
21884998 AATAATAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.45, C:0.03, G:0.41, T:0.10
Consensus pattern (27 bp):
AGGAGGAGGAGGAGGACAATAAAATGT
Found at i:21896721 original size:47 final size:46
Alignment explanation
Indices: 21896656--21896803 Score: 161
Period size: 47 Copynumber: 3.2 Consensus size: 46
21896646 AGCTATTGGC
* * *
21896656 AGTTTATTTGCGATTTTGGTGGCTTGTCCACGATATTGATTATCAGT
1 AGTTTATCTGCGATTTTGGTGGCTTATCCACGATATTGATTAT-GGT
* * * * * *
21896703 AGTTTATCTGTGAGTTTGGTTGCTTTTCCATGATATTGATTAATGGC
1 AGTTTATCTGCGATTTTGGTGGCTTATCCACGATATTGATT-ATGGT
* * *
21896750 AGTTTATCTACAATTTTGGTGGGTTATCCACGATATTGATTATTGGT
1 AGTTTATCTGCGATTTTGGTGGCTTATCCACGATATTGATTA-TGGT
21896797 AGTTTAT
1 AGTTTAT
21896804 TTTTGTTACT
Statistics
Matches: 82, Mismatches: 17, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
46 1 0.01
47 79 0.96
48 2 0.02
ACGTcount: A:0.21, C:0.11, G:0.22, T:0.46
Consensus pattern (46 bp):
AGTTTATCTGCGATTTTGGTGGCTTATCCACGATATTGATTATGGT
Found at i:21898264 original size:32 final size:33
Alignment explanation
Indices: 21898204--21898287 Score: 98
Period size: 32 Copynumber: 2.5 Consensus size: 33
21898194 TTGTCAAAGT
* *
21898204 TGTGTTAAGTAAGTTGGTGTACAATATA-CAAA
1 TGTGTTAAGTAAGTTGGCGCACAATATACCAAA
* * **
21898236 TGTGTTCAGTAAGTTGGCGCACAGTATACGCCCA
1 TGTGTTAAGTAAGTTGGCGCACAATATAC-CAAA
21898270 TGTGTTAAGTAAGTTGGC
1 TGTGTTAAGTAAGTTGGC
21898288 ATACTAATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 24 0.56
34 19 0.44
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (33 bp):
TGTGTTAAGTAAGTTGGCGCACAATATACCAAA
Found at i:21901418 original size:50 final size:52
Alignment explanation
Indices: 21901337--21901451 Score: 162
Period size: 50 Copynumber: 2.2 Consensus size: 52
21901327 CATAATGATT
*
21901337 CAGGCATGTTTTTGGGTGAGGATGTGTAGCCTACAGGCTTGGCACTTAGTGCC
1 CAGGCATG-TTTTGGGAGAGGATGTGTAGCCTACAGGCTTGGCACTTAGTGCC
* * *
21901390 CAGGCATGTTTT-GGAG-GGATGTTTAGCCTACGGGCTTGGCATTTAGTGCC
1 CAGGCATGTTTTGGGAGAGGATGTGTAGCCTACAGGCTTGGCACTTAGTGCC
*
21901440 CAGGCGTGTTTT
1 CAGGCATGTTTT
21901452 TGGATGGCAG
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
50 42 0.74
51 3 0.05
52 4 0.07
53 8 0.14
ACGTcount: A:0.16, C:0.18, G:0.34, T:0.32
Consensus pattern (52 bp):
CAGGCATGTTTTGGGAGAGGATGTGTAGCCTACAGGCTTGGCACTTAGTGCC
Found at i:21908728 original size:20 final size:18
Alignment explanation
Indices: 21908699--21908736 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 18
21908689 TTACATGCCA
21908699 AAGTAAAAAATTGATTTTT
1 AAGTAAAAAA-TGATTTTT
21908718 AAGTGAAAAAATGATTTTT
1 AAGT-AAAAAATGATTTTT
21908737 GTGGCCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.39
Consensus pattern (18 bp):
AAGTAAAAAATGATTTTT
Found at i:21923299 original size:45 final size:45
Alignment explanation
Indices: 21923233--21923419 Score: 236
Period size: 45 Copynumber: 4.2 Consensus size: 45
21923223 TACTACGTGT
* * * *
21923233 ACCGGGTACCATTGATAATAAAGGTGGTTGTTGTGTGCTGATTCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
*
21923278 ACCGGGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* *
21923323 ACCGGGTA-CTATTGATTATGAAGGTGGTTGCTATGTGCTAATTCC
1 ACCGGGTATC-ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* ** *
21923368 ACCGAGTATCATTGGCTATAAGGGTGG-TGCTATGTGCTGA-TCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
*
21923411 ACCGTGTAT
1 ACCGGGTAT
21923420 TTGTTATTAT
Statistics
Matches: 127, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
43 11 0.09
44 13 0.10
45 102 0.80
46 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (45 bp):
ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
Found at i:21927619 original size:32 final size:32
Alignment explanation
Indices: 21927578--21927654 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
21927568 TTATCTTTGC
21927578 TTCGACAATAATGTAGGGGCGAAATTCAAGTT
1 TTCGACAATAATGTAGGGGCGAAATTCAAGTT
21927610 TTCGACAATAATGTAGGGGCGAAATTCAAGTT
1 TTCGACAATAATGTAGGGGCGAAATTCAAGTT
*
21927642 TTC-ACAACAATGT
1 TTCGACAATAATGT
21927655 CGATTACTCC
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 9 0.20
32 35 0.80
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (32 bp):
TTCGACAATAATGTAGGGGCGAAATTCAAGTT
Found at i:21930531 original size:5 final size:5
Alignment explanation
Indices: 21930521--21930551 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
21930511 TGAGCATTCG
21930521 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
21930552 AATTTTCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:21931078 original size:19 final size:19
Alignment explanation
Indices: 21931026--21931079 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
21931016 ATGACTAAAC
21931026 AATTTAATAATA-AAA-AT
1 AATTTAATAATATAAATAT
* * *
21931043 AATATAA-AATGTGAAATTT
1 AATTTAATAATAT-AAATAT
21931062 AATTTAATAATATAAATA
1 AATTTAATAATATAAATA
21931080 GTAGGTATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
16 3 0.11
17 6 0.22
18 3 0.11
19 11 0.41
20 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (19 bp):
AATTTAATAATATAAATAT
Found at i:21931590 original size:9 final size:9
Alignment explanation
Indices: 21931576--21931612 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
21931566 TATAGTTTGA
21931576 TATTCGAAT
1 TATTCGAAT
21931585 TATTCGAAT
1 TATTCGAAT
*
21931594 TATTCGAGT
1 TATTCGAAT
21931603 TATTCGAAT
1 TATTCGAAT
21931612 T
1 T
21931613 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:21931683 original size:9 final size:9
Alignment explanation
Indices: 21931666--21931696 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
21931656 TCGAGTTGAT
21931666 TCGAATAAC
1 TCGAATAAC
*
21931675 TCGATTAAC
1 TCGAATAAC
21931684 TCGAATAAC
1 TCGAATAAC
21931693 TCGA
1 TCGA
21931697 TTCGTTTAAC
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:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:21934149 original size:15 final size:14
Alignment explanation
Indices: 21934129--21934159 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
21934119 CTCAATTTGC
21934129 TTTCTTTTTTCTTTT
1 TTTCTTTTTT-TTTT
21934144 TTTCTTTTTTTTTT
1 TTTCTTTTTTTTTT
21934158 TT
1 TT
21934160 GCATTTCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTCTTTTTTTTTT
Found at i:21934283 original size:15 final size:15
Alignment explanation
Indices: 21934263--21934293 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21934253 ATAAAATTTA
*
21934263 TATTTATTTAAGAAG
1 TATTTATTTAAAAAG
21934278 TATTTATTTAAAAAG
1 TATTTATTTAAAAAG
21934293 T
1 T
21934294 GAAGATGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (15 bp):
TATTTATTTAAAAAG
Found at i:21967265 original size:12 final size:12
Alignment explanation
Indices: 21967240--21967278 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
21967230 ACTCGCTTCT
* *
21967240 TTACTTACTCAC
1 TTACTTGCTTAC
*
21967252 TTACTTGTTTAC
1 TTACTTGCTTAC
21967264 TTACTTGCTTAC
1 TTACTTGCTTAC
21967276 TTA
1 TTA
21967279 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:21967602 original size:50 final size:50
Alignment explanation
Indices: 21967526--21967667 Score: 151
Period size: 50 Copynumber: 2.8 Consensus size: 50
21967516 TTTTCTATAC
* * * * **
21967526 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAAAGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
* * * * *
21967576 TGCCCATGCCATGTCCCAAACATGGTCTTA-AGGGGGACCTCTCATCTCGG
1 TGCCAAAGCCATATCCCAAACATGGTCTTACA-TGGGACCTCTCATATCGG
* *
21967626 TGCCAAAGCCATATCCTAGACATGGTCTTACATGGGACCTCT
1 TGCCAAAGCCATATCCCAAACATGGTCTTACATGGGACCTCT
21967668 GATAATCTCA
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
49 1 0.01
50 73 0.97
51 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAAAGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:21971905 original size:40 final size:40
Alignment explanation
Indices: 21971819--21971927 Score: 112
Period size: 40 Copynumber: 2.8 Consensus size: 40
21971809 CGTTTGGATA
* ** * *
21971819 AAAAAACGCCGCTAAAGATCGATCATTAGTGGCGCTTTCT
1 AAAAAACGCCGCTAAAGATCGAGCATTAGCAGCGATTTAT
** * *
21971859 GGAAAACACCGCTAAAGATCGAGCATTAGCAGCTATTTAT
1 AAAAAACGCCGCTAAAGATCGAGCATTAGCAGCGATTTAT
* *
21971899 AAAAAACGCCGCTAAAAAT-AAGCATTAGC
1 AAAAAACGCCGCTAAAGATCGAGCATTAGC
21971928 GGCGTTTTCC
Statistics
Matches: 55, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
39 9 0.16
40 46 0.84
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAGATCGAGCATTAGCAGCGATTTAT
Found at i:21972052 original size:41 final size:41
Alignment explanation
Indices: 21971995--21972186 Score: 269
Period size: 41 Copynumber: 4.7 Consensus size: 41
21971985 TTTCGGGGGG
**
21971995 TTTAGCGGCGTTTTTGAGAAAGTTCCGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* *
21972036 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGATCTGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * *
21972077 TTTAGCGGCGTTTTTGACAAAGCGACACTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
** *
21972118 TTTAGCTACGTTTTCGAGAAAGCGCCGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
*
21972159 TTTAGCAGCGTTTTTGATG-AAGCGCCGC
1 TTTAGCGGCGTTTTTGA-GAAAGCGCCGC
21972187 GAATTCTCTA
Statistics
Matches: 132, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
41 131 0.99
42 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:21972479 original size:7 final size:7
Alignment explanation
Indices: 21972461--21972556 Score: 52
Period size: 7 Copynumber: 13.4 Consensus size: 7
21972451 GTGTTACCAT
*
21972461 TTTAAGG
1 TTTATGG
21972468 TTTATGG
1 TTTATGG
*
21972475 ATTATGGG
1 TTTAT-GG
21972483 TTTAGTGG
1 TTTA-TGG
21972491 -TTATGG
1 TTTATGG
21972497 TTTATGG
1 TTTATGG
**
21972504 TTTAAAG
1 TTTATGG
**
21972511 TTTGGGG
1 TTTATGG
*
21972518 TTTAAGG
1 TTTATGG
21972525 TTTA-GAG
1 TTTATG-G
*
21972532 GTTATGTG
1 TTTATG-G
* *
21972540 TTAAGGG
1 TTTATGG
21972547 TTTATGG
1 TTTATGG
21972554 TTT
1 TTT
21972557 TAGAGTTTAG
Statistics
Matches: 67, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
6 4 0.06
7 50 0.75
8 12 0.18
9 1 0.01
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (7 bp):
TTTATGG
Found at i:21972486 original size:15 final size:13
Alignment explanation
Indices: 21972466--21972505 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 13
21972456 ACCATTTTAA
21972466 GGTTTATGGATTAT
1 GGTTTATGG-TTAT
21972480 GGGTTTAGTGGTTAT
1 -GGTTTA-TGGTTAT
21972495 GGTTTATGGTT
1 GGTTTATGGTT
21972506 TAAAGTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.21
14 6 0.25
15 10 0.42
16 3 0.12
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (13 bp):
GGTTTATGGTTAT
Found at i:21972486 original size:22 final size:21
Alignment explanation
Indices: 21972461--21972513 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
21972451 GTGTTACCAT
21972461 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGTTTATGGATTAT-GG
* *
21972483 TTT-AGTGGTTATGGTTTATGG
1 TTTAAG-GTTTATGGATTATGG
*
21972504 TTTAAAGTTT
1 TTTAAGGTTT
21972514 GGGGTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (21 bp):
TTTAAGGTTTATGGATTATGG
Found at i:21972845 original size:21 final size:20
Alignment explanation
Indices: 21972820--21972862 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
21972810 ATATATGGAT
21972820 TTATGGATT-AGGGATTAGGGA
1 TTATGGATTAAGGG-TT-GGGA
*
21972841 TTATGGTTTAAGGGTTGGGA
1 TTATGGATTAAGGGTTGGGA
21972861 TT
1 TT
21972863 TAAGGTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 10 0.50
22 4 0.20
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (20 bp):
TTATGGATTAAGGGTTGGGA
Found at i:21972871 original size:21 final size:20
Alignment explanation
Indices: 21972837--21972877 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
21972827 TTAGGGATTA
*
21972837 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
21972857 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
21972878 AGAAGTTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:21972906 original size:21 final size:21
Alignment explanation
Indices: 21972869--21972937 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
21972859 GATTTAAGGT
** *
21972869 TTAGGGGTTAGAAGTTAGGGG
1 TTAGGGGTTAGGGGTTAGGAG
*
21972890 TTAGGGGTTAGGGGTTAAGAG
1 TTAGGGGTTAGGGGTTAGGAG
* * *
21972911 TTAGGGATTTAGGGTTTAGGAT
1 TTAGGG-GTTAGGGGTTAGGAG
21972933 TTAGG
1 TTAGG
21972938 AATTTAAGAG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
21 23 0.59
22 16 0.41
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.33
Consensus pattern (21 bp):
TTAGGGGTTAGGGGTTAGGAG
Found at i:21972936 original size:22 final size:22
Alignment explanation
Indices: 21972897--21972943 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
21972887 GGGTTAGGGG
*
21972897 TTAGGGGTTAAGAGTTAGGGAT
1 TTAGGGGTTAAGAGTTAGGAAT
* * *
21972919 TTAGGGTTTAGGATTTAGGAAT
1 TTAGGGGTTAAGAGTTAGGAAT
21972941 TTA
1 TTA
21972944 AGAGTCGGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (22 bp):
TTAGGGGTTAAGAGTTAGGAAT
Found at i:21973578 original size:26 final size:27
Alignment explanation
Indices: 21973523--21973574 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
21973513 TTTTGCGGCG
*
21973523 TTTTAATAAAAAGCGCCACAAAAGATA
1 TTTTAATAAAAAGCGCCACAAAAAATA
*
21973550 TTTT-ATAAAAA-CGCCGCAAAAAATA
1 TTTTAATAAAAAGCGCCACAAAAAATA
21973575 ATTTCACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 12 0.52
26 7 0.30
27 4 0.17
ACGTcount: A:0.52, C:0.15, G:0.10, T:0.23
Consensus pattern (27 bp):
TTTTAATAAAAAGCGCCACAAAAAATA
Found at i:21976371 original size:43 final size:43
Alignment explanation
Indices: 21976277--21976582 Score: 384
Period size: 43 Copynumber: 7.1 Consensus size: 43
21976267 GTTATGATTT
* * **
21976277 TAGCGGCGTTTTTGCGAGAAGCGCCAG-TAAAGGT-TTGTTCTA
1 TAGCGGCGTTTGTGGGAGAAGCGCC-GCTAAAGGTCTTGAGCTA
*
21976319 TAGCGGCGTTTGTGGGA-AAGGAGCCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTGGGAGAA-GCGCCGCTAAAGGTCTTGAGCTA
* * *
21976362 TAGCGGCGTTTTTTGGAGAAGCGCCGCTAAAGGCCTTGAGCTA
1 TAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGAGCTA
** *
21976405 TAGTAGCGTTTGTGGGAGAAGTGCCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGAGCTA
*
21976448 TAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGAGCTA
* * *
21976491 TAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCCTAATCTA
1 TAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGAGCTA
* * * * * *
21976534 TAACAGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGATCTA
1 TAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGAGCTA
21976577 TAGCGG
1 TAGCGG
21976583 TATTTATTCC
Statistics
Matches: 231, Mismatches: 29, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
41 3 0.01
42 26 0.11
43 200 0.87
44 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGAGCTA
Found at i:21998687 original size:16 final size:17
Alignment explanation
Indices: 21998666--21998699 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
21998656 AATAATAGGG
*
21998666 GCAAAATTGT-AATTTT
1 GCAAAAGTGTGAATTTT
21998682 GCAAAAGTGTGAATTTT
1 GCAAAAGTGTGAATTTT
21998699 G
1 G
21998700 GATTAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (17 bp):
GCAAAAGTGTGAATTTT
Found at i:21999171 original size:6 final size:6
Alignment explanation
Indices: 21999160--21999196 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
21999150 GCATCGATGT
21999160 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA A
1 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA A
21999197 TGGTTTCAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:22011110 original size:138 final size:138
Alignment explanation
Indices: 22010862--22011280 Score: 662
Period size: 138 Copynumber: 3.0 Consensus size: 138
22010852 TAGAAAAATG
* * * *
22010862 AATTATATTCTTTCCAAAAGAATATTAGTTTACTTGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
22010927 TATAA-TTGTTTATATTAATAAATTTGTTAAAATATATACAATTAATATTTTGTATGAATTAAAT
66 TATAACTT-TTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
22010991 TCATATATT
130 TCATATATT
* *
22011000 AATTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATAATTTGATCGAAATTAATTAA
1 AATTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
22011065 TATAACTTTTTATATTAATAATTTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTTTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
22011130 CATATATT
131 CATATATT
* * * *
22011138 AATTATATTCTTTTCAAAATAATATTAATTTCTATGTTTTTTAT-TTTTGACCTAAATTAATTAA
1 AATTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
** **
22011202 TATAACTACTTATATTAATAAATTCCGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTTTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
22011267 CATATATT
131 CATATATT
22011275 AATTAT
1 AATTAT
22011281 GTTCATGTTC
Statistics
Matches: 260, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
137 91 0.35
138 167 0.64
139 2 0.01
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (138 bp):
AATTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTTTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:22012711 original size:45 final size:44
Alignment explanation
Indices: 22012648--22012891 Score: 186
Period size: 45 Copynumber: 5.5 Consensus size: 44
22012638 GATGTCATGG
* * * * *
22012648 TATCTTCCAACCATGGTCTTATGTATTTTCGAAGTAGTGCCATAG
1 TATCTTTCAACTATGGTCTTAT-TATTTTCGAATTAATGCCATAA
** *
22012693 TATCTTTCAACTATGGTCTTATTCGTATCGAATTTAATGCCATAA
1 TATCTTTCAACTATGGTCTTATTATTTTCGAA-TTAATGCCATAA
** * ** * ** *
22012738 TATCTTTCAACTATGGTCTTACACATTTTTGGTTTAGTGTTATAT
1 TATCTTTCAACTATGGTCTTA-TTATTTTCGAATTAATGCCATAA
**
22012783 TATCTTTCAACTATGGTCTTATTCA-TTTCGGTTTAATGCCATAA
1 TATCTTTCAACTATGGTCTTATT-ATTTTCGAATTAATGCCATAA
* * * ** * *
22012827 TATCTTTCAACTATGGTCTTACTCTTTTTGGGTAAAATGCCATGA
1 TATCTTTCAACTATGGTCTTATTATTTTCGAAT-TAATGCCATAA
22012872 TATCTTTCAA-TCATGGTCTT
1 TATCTTTCAACT-ATGGTCTT
22012892 TCTTGTTTCT
Statistics
Matches: 160, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
44 50 0.31
45 107 0.67
46 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.44
Consensus pattern (44 bp):
TATCTTTCAACTATGGTCTTATTATTTTCGAATTAATGCCATAA
Found at i:22012848 original size:89 final size:89
Alignment explanation
Indices: 22012693--22012857 Score: 278
Period size: 89 Copynumber: 1.9 Consensus size: 89
22012683 AGTGCCATAG
*
22012693 TATCTTTCAACTATGGTCTTATTCGTATCGAATTTAATGCCATAATATCTTTCAACTATGGTCTT
1 TATCTTTCAACTATGGTCTTATTCATATCGAATTTAATGCCATAATATCTTTCAACTATGGTCTT
22012758 ACACATTTTTGGTTTAGTGTTATAT
66 ACAC-TTTTTGGTTTAGTGTTATAT
* *
22012783 TATCTTTCAACTATGGTCTTATTCATTTCG-GTTTAATGCCATAATATCTTTCAACTATGGTCTT
1 TATCTTTCAACTATGGTCTTATTCATATCGAATTTAATGCCATAATATCTTTCAACTATGGTCTT
*
22012847 ACTCTTTTTGG
66 ACACTTTTTGG
22012858 GTAAAATGCC
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
88 7 0.10
89 36 0.51
90 28 0.39
ACGTcount: A:0.24, C:0.17, G:0.12, T:0.47
Consensus pattern (89 bp):
TATCTTTCAACTATGGTCTTATTCATATCGAATTTAATGCCATAATATCTTTCAACTATGGTCTT
ACACTTTTTGGTTTAGTGTTATAT
Found at i:22012876 original size:89 final size:90
Alignment explanation
Indices: 22012685--22012891 Score: 269
Period size: 89 Copynumber: 2.3 Consensus size: 90
22012675 TTCGAAGTAG
*
22012685 TGCCATAGTATCTTTCAACTATGGTCTTATTCGTATCGAATTTAATGCCATAATATCTTTCAACT
1 TGCCATAGTATCTTTCAACTATGGTCTTATTCATATCGAATTTAATGCCATAATATCTTTCAACT
** *
22012750 ATGGTCTTACACATTTTTGGTTTAG
66 ATGGTCTTACACATTTTTGGTAAAA
** * * *
22012775 TGTTATATTATCTTTCAACTATGGTCTTATTCATTTCG-GTTTAATGCCATAATATCTTTCAACT
1 TGCCATAGTATCTTTCAACTATGGTCTTATTCATATCGAATTTAATGCCATAATATCTTTCAACT
*
22012839 ATGGTCTTACTC-TTTTTGGGTAAAA
66 ATGGTCTTACACATTTTT-GGTAAAA
22012864 TGCCAT-GATATCTTTCAA-TCATGGTCTT
1 TGCCATAG-TATCTTTCAACT-ATGGTCTT
22012892 TCTTGTTTCT
Statistics
Matches: 101, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
88 6 0.06
89 62 0.61
90 33 0.33
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (90 bp):
TGCCATAGTATCTTTCAACTATGGTCTTATTCATATCGAATTTAATGCCATAATATCTTTCAACT
ATGGTCTTACACATTTTTGGTAAAA
Found at i:22017363 original size:25 final size:24
Alignment explanation
Indices: 22017297--22017364 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
22017287 ACCGATTCTT
22017297 AGCTAGAGAGAGCTTACCAATATTC
1 AGCTAGAG-GAGCTTACCAATATTC
* * * *
22017322 AGCTAGCATGAGTTTACCATTATTT
1 AGCTAG-AGGAGCTTACCAATATTC
*
22017347 AGTTTAGAGGAGCTTACC
1 AG-CTAGAGGAGCTTACC
22017365 GTTTACAGCT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
25 30 0.88
26 4 0.12
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (24 bp):
AGCTAGAGGAGCTTACCAATATTC
Found at i:22031850 original size:19 final size:21
Alignment explanation
Indices: 22031822--22031865 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
22031812 GTGATCCCTA
*
22031822 TTTCCCAAATTTTC-ATTTT-
1 TTTCCAAAATTTTCTATTTTG
22031841 TTTCCAAAATTTTCTATTTTG
1 TTTCCAAAATTTTCTATTTTG
22031862 TTTC
1 TTTC
22031866 AAATTTAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.59
20 5 0.23
21 4 0.18
ACGTcount: A:0.20, C:0.18, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTCCAAAATTTTCTATTTTG
Found at i:22031869 original size:19 final size:18
Alignment explanation
Indices: 22031826--22031871 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
22031816 TCCCTATTTC
22031826 CCAAATTTTCATTTTTTT
1 CCAAATTTTCATTTTTTT
22031844 CCAAAATTTTCTATTTTGTTT
1 CC-AAATTTTC-ATTTT-TTT
22031865 -CAAATTT
1 CCAAATTT
22031872 AATCCTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.08
19 14 0.56
20 6 0.24
21 3 0.12
ACGTcount: A:0.26, C:0.15, G:0.02, T:0.57
Consensus pattern (18 bp):
CCAAATTTTCATTTTTTT
Found at i:22033529 original size:287 final size:286
Alignment explanation
Indices: 22032919--22033787 Score: 1123
Period size: 288 Copynumber: 3.0 Consensus size: 286
22032909 AATCTCGTCT
* * *
22032919 AAAAATTCTACTCATGTAGTCTTCACTAAAGTGGTCATAACTTGAGATCCCAAAAGCAAAA-GTG
1 AAAAATTCTACTCACGCAGTCTTCACTAAA-TGGTCATAACTTGAGATCCCAAAATCAAAATG-G
* * * * * *
22032983 AGTGGTTTAAGGTGCATTACGAAGGTATGAAACAGATCTTCAATTGATGTGCAGACATATTGTCC
64 AGTGGTTCAA-GTGCATTACGAAGGTAAGAAATAAATCTTCAATCGATATGCAGACATATTGTCC
* * * * *
22033048 CAAAAGTGCTTGGATCCATTCCACAAATGCACTGCAAGTCGACTGAATATAATATGACTAAGCGT
128 AAAAAATGCTTGGATCCATTCCACAAATGCACTGCAAGTTGACTAAATATAACATGACTAAGCGT
* * * ** * ***
22033113 GTGGGATTGATTAGGGTCCTTGATGTGTAATGCCTAAGCTTATTAACATCTTCCAAATGAAATTG
193 GTGGGCTTGATTGGGGTCCTTGAAGTGTAACACCTAAGCTTATTAACATCTTCCACATGGGCTTG
* *
22033178 TCATCATGGATTGATATTTGAAGTCCACG
258 TCATCATGGATTGATATTTTAAGTCCACA
*
22033207 AAAAATTCTACTCACGCAGTCTTCACTAAAATGGTCATAACTTGAGATCCCAAATTCAAAATGGA
1 AAAAATTCTACTCACGCAGTCTTCACT-AAATGGTCATAACTTGAGATCCCAAAATCAAAATGGA
* * *
22033272 GTGGTTCAGAGTGCATTGCGAAGGTAAAAAATAAATCTTCAATCGATATGCAGACATATTGTCCT
65 GTGGTTCA-AGTGCATTACGAAGGTAAGAAATAAATCTTCAATCGATATGCAGACATATTGTCCA
* * ** * *
22033337 AAAAATGCTTGGATCCCTTCCA-AAACTACACCACAAGTTGACTAAATAT-ACATGGCTAAGTGT
129 AAAAATGCTTGGATCCATTCCACAAA-TGCACTGCAAGTTGACTAAATATAACATGACTAAGCGT
* *
22033400 TTGGGCTTGATTGGGGTCCTTGAAGTGTAACACCTAAGCTTATTAACATCTTTCACATGGGCTTG
193 GTGGGCTTGATTGGGGTCCTTGAAGTGTAACACCTAAGCTTATTAACATCTTCCACATGGGCTTG
*
22033465 TTATCATGGATTGATATTTTAAGTCCACA
258 TCATCATGGATTGATATTTTAAGTCCACA
** * * * *
22033494 AAAAATTCTACTTGCGCAGTCTTCACTACAATGGTCATAACTTGACATCCCAAACTCGAAATCGA
1 AAAAATTCTACTCACGCAGTCTTCACTA-AATGGTCATAACTTGAGATCCCAAAATCAAAATGGA
* * * *
22033559 ATGGTTCAAAGTGCATTACAAAGGTAAGAAATAAATCTTCAATCGATATGCTGACATATTCTCCA
65 GTGGTTC-AAGTGCATTACGAAGGTAAGAAATAAATCTTCAATCGATATGCAGACATATTGTCCA
* * * * *
22033624 AAAAATGCTTGGATCCATTCGACAAATGCATTGCAAGTTTACTTAATATAACATTACTAAGCGTG
129 AAAAATGCTTGGATCCATTCCACAAATGCACTGCAAGTTGACTAAATATAACATGACTAAGCGTG
* *
22033689 TGGGCTTGATTGGAGTCCTTGAAGTGTAACACCTAAGCTTCTTAACATCTTCCACATGGGCTTGT
194 TGGGCTTGATTGGGGTCCTTGAAGTGTAACACCTAAGCTTATTAACATCTTCCACATGGGCTTGT
* *
22033754 CATCATGGATTAATATTTTAATTCCACGA
259 CATCATGGATTGATATTTTAAGTCCAC-A
22033783 AAAAA
1 AAAAA
22033788 AATTTTCCTT
Statistics
Matches: 504, Mismatches: 68, Indels: 17
0.86 0.12 0.03
Matches are distributed among these distances:
286 1 0.00
287 244 0.48
288 248 0.49
289 11 0.02
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (286 bp):
AAAAATTCTACTCACGCAGTCTTCACTAAATGGTCATAACTTGAGATCCCAAAATCAAAATGGAG
TGGTTCAAGTGCATTACGAAGGTAAGAAATAAATCTTCAATCGATATGCAGACATATTGTCCAAA
AAATGCTTGGATCCATTCCACAAATGCACTGCAAGTTGACTAAATATAACATGACTAAGCGTGTG
GGCTTGATTGGGGTCCTTGAAGTGTAACACCTAAGCTTATTAACATCTTCCACATGGGCTTGTCA
TCATGGATTGATATTTTAAGTCCACA
Found at i:22035394 original size:29 final size:27
Alignment explanation
Indices: 22035347--22035426 Score: 74
Period size: 26 Copynumber: 3.0 Consensus size: 27
22035337 AATACTGTAT
*
22035347 ATGT-GGAAGTACATAAGGACTATCTAAA
1 ATGTAGGAAGTCCATAAGGACTATCT--A
* * *
22035375 ATGTAGGAAGTCCATCAGGACTGTCTT
1 ATGTAGGAAGTCCATAAGGACTATCTA
* *
22035402 TTGTA-GAAGTCCATTAGGACTATCT
1 ATGTAGGAAGTCCATAAGGACTATCT
22035427 TTGGTAGAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 18 0.41
27 4 0.09
28 4 0.09
29 18 0.41
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (27 bp):
ATGTAGGAAGTCCATAAGGACTATCTA
Found at i:22035414 original size:26 final size:26
Alignment explanation
Indices: 22035376--22035518 Score: 97
Period size: 26 Copynumber: 5.4 Consensus size: 26
22035366 CTATCTAAAA
*
22035376 TGTAGGAAGTCCATCAGGACTGTCTTT
1 TGTA-GAAGTCCATCAGGACTATCTTT
*
22035403 TGTAGAAGTCCATTAGGACTATCTTT
1 TGTAGAAGTCCATCAGGACTATCTTT
* ** * * *
22035429 GGTAGAAAAACCATCAGTATTATCTTC
1 TGTAG-AAGTCCATCAGGACTATCTTT
**
22035456 TGTAGAAAGTCTGTCAGGACTATCTTT
1 TGTAG-AAGTCCATCAGGACTATCTTT
* ** *** *
22035483 GGGGGAAGTTTGTGAGGACTATCTTT
1 TGTAGAAGTCCATCAGGACTATCTTT
*
22035509 TGTGGAAGTC
1 TGTAGAAGTC
22035519 TGTGAAGACT
Statistics
Matches: 90, Mismatches: 25, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
26 50 0.56
27 40 0.44
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (26 bp):
TGTAGAAGTCCATCAGGACTATCTTT
Found at i:22035522 original size:26 final size:26
Alignment explanation
Indices: 22035462--22035532 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
22035452 CTTCTGTAGA
*
22035462 AAGTCTGTCAGGACTATCTTTGGGGG
1 AAGTCTGTGAGGACTATCTTTGGGGG
* * *
22035488 AAGTTTGTGAGGACTATCTTTTGTGG
1 AAGTCTGTGAGGACTATCTTTGGGGG
*
22035514 AAGTCTGTGAAGACTATCT
1 AAGTCTGTGAGGACTATCT
22035533 AAAATGGAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.35
Consensus pattern (26 bp):
AAGTCTGTGAGGACTATCTTTGGGGG
Done.