Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 31 of 147
Found at i:6600889 original size:6 final size:6
Alignment explanation
Indices: 6600878--6600914 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
6600868 GGTAGGAAAG
*
6600878 GGTTTT GGTTTT GGTTTT GGTTTT GGTTTT TGTTTT G
1 GGTTTT GGTTTT GGTTTT GGTTTT GGTTTT GGTTTT G
6600915 ATTGATTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (6 bp):
GGTTTT
Found at i:6605868 original size:15 final size:16
Alignment explanation
Indices: 6605844--6605878 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
6605834 TCTATTTAAA
6605844 AGAA-GAAGAAGTTCC
1 AGAAGGAAGAAGTTCC
6605859 -GAAGGAAGAAGTTCC
1 AGAAGGAAGAAGTTCC
6605874 AGAAG
1 AGAAG
6605879 CCAAACCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.17
15 11 0.61
16 4 0.22
ACGTcount: A:0.46, C:0.11, G:0.31, T:0.11
Consensus pattern (16 bp):
AGAAGGAAGAAGTTCC
Found at i:6610454 original size:14 final size:15
Alignment explanation
Indices: 6610438--6610490 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
6610428 GAGTTTGAAT
6610438 TTAAATAATTTAATTTA
1 TTAAATAATTTAA--TA
*
6610455 TTAAATTAATTAAAT-
1 TTAAA-TAATTTAATA
*
6610470 TTAAATATTTTAATA
1 TTAAATAATTTAATA
6610485 TTAAAT
1 TTAAAT
6610491 TCAATTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 7 0.23
15 11 0.35
16 1 0.03
17 5 0.16
18 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAAATAATTTAATA
Found at i:6610470 original size:18 final size:17
Alignment explanation
Indices: 6610438--6610472 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6610428 GAGTTTGAAT
*
6610438 TTAAATAATTTAATTTA
1 TTAAATAATTAAATTTA
6610455 TTAAATTAATTAAATTTA
1 TTAAA-TAATTAAATTTA
6610473 AATATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAATAATTAAATTTA
Found at i:6610502 original size:21 final size:21
Alignment explanation
Indices: 6610463--6610502 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6610453 TATTAAATTA
* *
6610463 ATTAAATTTAAATATTTTAAT
1 ATTAAATTCAAATAATTTAAT
*
6610484 ATTAAATTCAATTAATTTA
1 ATTAAATTCAAATAATTTA
6610503 TAAAATTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTAAATTCAAATAATTTAAT
Found at i:6610557 original size:18 final size:19
Alignment explanation
Indices: 6610523--6610565 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
6610513 TGAGTTTTAA
* *
6610523 ATTTTAATATATTTTTATT
1 ATTTTAATAAATATTTATT
6610542 -TTTTAATAAATATTTATT
1 ATTTTAATAAATATTTATT
6610560 ATTTTA
1 ATTTTA
6610566 TTTTTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTAATAAATATTTATT
Found at i:6610788 original size:17 final size:17
Alignment explanation
Indices: 6610762--6610800 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6610752 GATTTATTTT
* *
6610762 TATTAAATTATATATAA
1 TATTAAATTATAAAAAA
*
6610779 TATTATATTATAAAAAA
1 TATTAAATTATAAAAAA
6610796 TATTA
1 TATTA
6610801 CAACTATAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTAAATTATAAAAAA
Found at i:6623793 original size:24 final size:24
Alignment explanation
Indices: 6623754--6623807 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
6623744 TTTTGTTGGA
*
6623754 TAAAAT-TATAAGATTTGAGATAT
1 TAAAATGTATAAGATTTGAGAAAT
* * *
6623777 TAAAATGTATAATATTTTATAAAT
1 TAAAATGTATAAGATTTGAGAAAT
6623801 TAAAATG
1 TAAAATG
6623808 AATCATGACA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (24 bp):
TAAAATGTATAAGATTTGAGAAAT
Found at i:6629808 original size:18 final size:19
Alignment explanation
Indices: 6629787--6629832 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
6629777 ATATTTTCAT
6629787 TAATTTATATATA-TAAAC
1 TAATTTATATATATTAAAC
* *
6629805 TAATTTAAATATATTAAAG
1 TAATTTATATATATTAAAC
6629824 TAATTTATA
1 TAATTTATA
6629833 AAAAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
TAATTTATATATATTAAAC
Found at i:6630912 original size:21 final size:21
Alignment explanation
Indices: 6630873--6630921 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
6630863 ATTTATCAAT
6630873 AATAATTTAAGTTTGAATACA-
1 AATAA-TTAAGTTTGAATACAG
* *
6630894 AATAATTGAGTTTGAAATAGAG
1 AATAATTAAGTTTG-AATACAG
6630916 AATAAT
1 AATAAT
6630922 AATCAAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.33
21 10 0.42
22 6 0.25
ACGTcount: A:0.49, C:0.02, G:0.14, T:0.35
Consensus pattern (21 bp):
AATAATTAAGTTTGAATACAG
Found at i:6631447 original size:44 final size:44
Alignment explanation
Indices: 6631396--6631484 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
6631386 TTCACACGAG
6631396 AATTTCAGAAGTTGAGACAAACACTATATAGATCACAGTAAGCT
1 AATTTCAGAAGTTGAGACAAACACTATATAGATCACAGTAAGCT
*
6631440 AATTTCAGAAGTTGAGACAAATACTATATAGATCACAGTAAGCT
1 AATTTCAGAAGTTGAGACAAACACTATATAGATCACAGTAAGCT
6631484 A
1 A
6631485 TCTGTTCGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.26
Consensus pattern (44 bp):
AATTTCAGAAGTTGAGACAAACACTATATAGATCACAGTAAGCT
Found at i:6639450 original size:20 final size:20
Alignment explanation
Indices: 6639427--6639497 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
6639417 ATTGCTACAG
*
6639427 TAATATTATAATTATTTTAT
1 TAATATAATAATTATTTTAT
*
6639447 TAATAAAATAA-TATTTTTAT
1 TAATATAATAATTA-TTTTAT
*
6639467 T-ATATAAATAATATATTATAT
1 TAATAT-AATAAT-TATTTTAT
6639488 TAATA-AATAA
1 TAATATAATAA
6639498 ATAGTGTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 5 0.12
20 26 0.62
21 6 0.14
22 5 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATATAATAATTATTTTAT
Found at i:6639456 original size:25 final size:25
Alignment explanation
Indices: 6639428--6639500 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 25
6639418 TTGCTACAGT
* *
6639428 AATATTATAATTATTTTATTAATAA
1 AATATTATAATTATTATATAAATAA
* **
6639453 AATAATATTTTTATTATATAAATAA
1 AATATTATAATTATTATATAAATAA
* * *
6639478 TATATTAT-ATTAATAAATAAATA
1 AATATTATAATTATTATATAAATA
6639501 GTGTATTATT
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 12 0.32
25 26 0.68
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
AATATTATAATTATTATATAAATAA
Found at i:6639498 original size:24 final size:24
Alignment explanation
Indices: 6639470--6639570 Score: 75
Period size: 24 Copynumber: 4.2 Consensus size: 24
6639460 TTTTTATTAT
6639470 ATAAATAATATATTATATTAATAA
1 ATAAATAATATATTATATTAATAA
* * * *
6639494 ATAAATAGTGTATTAT-TT-GTTA
1 ATAAATAATATATTATATTAATAA
*
6639516 AT--ATAATATATGATATTAATAA
1 ATAAATAATATATTATATTAATAA
*
6639538 TATAATATTAATTAATATTATATTTATAA
1 -ATAA-A-TAA-T-ATATTATATTAATAA
6639567 ATAA
1 ATAA
6639571 TATATCTATA
Statistics
Matches: 57, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
20 9 0.16
21 2 0.04
22 6 0.11
23 4 0.07
24 14 0.25
26 1 0.02
27 3 0.05
28 5 0.09
29 13 0.23
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
ATAAATAATATATTATATTAATAA
Found at i:6639574 original size:15 final size:15
Alignment explanation
Indices: 6639518--6639637 Score: 71
Period size: 15 Copynumber: 7.4 Consensus size: 15
6639508 ATTTGTTAAT
*
6639518 ATAATATATGATATTA
1 ATAATATAT-TTATTA
6639534 ATAATATAATATTAATTA
1 ATAATAT-AT-TT-ATTA
* *
6639552 ATATTATATTTATAA
1 ATAATATATTTATTA
* *
6639567 ATAATATATCTATAA
1 ATAATATATTTATTA
*
6639582 AAAATAATATTATATTA
1 ATAAT-ATATT-TATTA
* *
6639599 ATGAATA-ATATGTTA
1 AT-AATATATTTATTA
6639614 ATAATTATTATATTATTA
1 ATAA-TA-TAT-TTATTA
6639632 ATAATA
1 ATAATA
6639638 AATGGTGTCT
Statistics
Matches: 81, Mismatches: 14, Indels: 17
0.72 0.12 0.15
Matches are distributed among these distances:
14 2 0.02
15 28 0.35
16 15 0.19
17 15 0.19
18 21 0.26
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.45
Consensus pattern (15 bp):
ATAATATATTTATTA
Found at i:6639605 original size:18 final size:18
Alignment explanation
Indices: 6639434--6639609 Score: 92
Period size: 18 Copynumber: 9.4 Consensus size: 18
6639424 CAGTAATATT
*
6639434 ATAATTATTTTATTAATAAA
1 ATAA-TATTATATTAAT-AA
*
6639454 ATAATATTTTTATTATATAA
1 ATAATA-TTATATTA-ATAA
6639474 ATAATATATTATATTAATAA
1 AT-A-ATATTATATTAATAA
** *
6639494 ATAAATAGTGTATTATTTGTTA
1 AT-AATA-T-TA-TATTAATAA
* * *
6639516 AT-ATAATATATGATATTA
1 ATAATATTATATTA-ATAA
*
6639534 ATAATATAATATTAAT--
1 ATAATATTATATTAATAA
*
6639550 -TAATATTATATTTATAA
1 ATAATATTATATTAATAA
* *
6639567 ATAATA-TATCTATAAAAA
1 ATAATATTATAT-TAATAA
*
6639585 ATAATATTATATTAATGA
1 ATAATATTATATTAATAA
6639603 ATAATAT
1 ATAATAT
6639610 GTTAATAATT
Statistics
Matches: 123, Mismatches: 19, Indels: 30
0.72 0.11 0.17
Matches are distributed among these distances:
15 13 0.11
17 7 0.06
18 35 0.28
19 17 0.14
20 28 0.23
21 12 0.10
22 11 0.09
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.47
Consensus pattern (18 bp):
ATAATATTATATTAATAA
Found at i:6639618 original size:18 final size:18
Alignment explanation
Indices: 6639517--6639636 Score: 50
Period size: 18 Copynumber: 6.5 Consensus size: 18
6639507 TATTTGTTAA
*
6639517 TATAATATATGATATTAATAA
1 TATAATA-ATGA-A-TAATAT
*
6639538 TATAAT-ATTAATTAATAT
1 TATAATAATGAA-TAATAT
* * *
6639556 TATATTTATAAATAATA-
1 TATAATAATGAATAATAT
* **
6639573 TATCTATAAAAAATAATAT
1 TAT-AATAATGAATAATAT
*
6639592 TATATTAATGAATAATAT
1 TATAATAATGAATAATAT
* *
6639610 GT-TAATAAT-TATTATAT
1 -TATAATAATGAATAATAT
6639627 TATTAATAAT
1 TA-TAATAAT
6639637 AAATGGTGTC
Statistics
Matches: 78, Mismatches: 15, Indels: 15
0.72 0.14 0.14
Matches are distributed among these distances:
16 1 0.01
17 9 0.12
18 51 0.65
19 11 0.14
21 6 0.08
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.46
Consensus pattern (18 bp):
TATAATAATGAATAATAT
Found at i:6639748 original size:11 final size:11
Alignment explanation
Indices: 6639732--6639771 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
6639722 TTTCAAATTC
*
6639732 AATAAATTGAA
1 AATAAAATGAA
6639743 AATAAAATGAA
1 AATAAAATGAA
6639754 AATAAAAT-AA
1 AATAAAATGAA
*
6639764 AACAAAAT
1 AATAAAAT
6639772 TTTAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (11 bp):
AATAAAATGAA
Found at i:6640604 original size:17 final size:17
Alignment explanation
Indices: 6640579--6640632 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
6640569 TTTTTATTTG
6640579 AAAATTTTTATTATACAT
1 AAAA-TTTTATTATACAT
*
6640597 AAAATTTTATTATATA-
1 AAAATTTTATTATACAT
* * *
6640613 AAAATATTAATATACGT
1 AAAATTTTATTATACAT
6640630 AAA
1 AAA
6640633 TTTAAAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 12 0.40
17 14 0.47
18 4 0.13
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (17 bp):
AAAATTTTATTATACAT
Found at i:6640789 original size:19 final size:20
Alignment explanation
Indices: 6640765--6640803 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6640755 TTATTTTCAA
6640765 CATTAA-TAATGTAAATTTT
1 CATTAATTAATGTAAATTTT
*
6640784 CATTAATTAATGTAACTTTT
1 CATTAATTAATGTAAATTTT
6640804 TATAAACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (20 bp):
CATTAATTAATGTAAATTTT
Found at i:6642010 original size:18 final size:18
Alignment explanation
Indices: 6641987--6642025 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6641977 ATATAAATAA
6641987 ATAAATAAATAAAGTTAT
1 ATAAATAAATAAAGTTAT
* * *
6642005 ATAAATATATATATTTAT
1 ATAAATAAATAAAGTTAT
6642023 ATA
1 ATA
6642026 TATATTAGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
ATAAATAAATAAAGTTAT
Found at i:6642017 original size:12 final size:12
Alignment explanation
Indices: 6641976--6642018 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
6641966 TAACAATTCT
6641976 TATATAAATAAA
1 TATATAAATAAA
*
6641988 TAAATAAATAAA
1 TATATAAATAAA
*
6642000 GTTATATAAATATA
1 --TATATAAATAAA
6642014 TATAT
1 TATAT
6642019 TTATATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 16 0.62
14 10 0.38
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (12 bp):
TATATAAATAAA
Found at i:6642786 original size:27 final size:25
Alignment explanation
Indices: 6642756--6642834 Score: 81
Period size: 27 Copynumber: 3.1 Consensus size: 25
6642746 TTACTATTCA
*
6642756 TATTTATTATTCGTGAATATATTTATT
1 TATTTATT-TT-GTGAATATATTCATT
* *
6642783 TA-TTA-TTTATGAATATATTCGTT
1 TATTTATTTTGTGAATATATTCATT
6642806 TATATATATTTTGTGAATATATTCATT
1 TAT-T-TATTTTGTGAATATATTCATT
6642833 TA
1 TA
6642835 ATATTCACGA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
23 14 0.33
24 2 0.05
25 2 0.05
26 5 0.12
27 20 0.47
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.57
Consensus pattern (25 bp):
TATTTATTTTGTGAATATATTCATT
Found at i:6642807 original size:23 final size:23
Alignment explanation
Indices: 6642757--6642857 Score: 78
Period size: 23 Copynumber: 4.2 Consensus size: 23
6642747 TACTATTCAT
* *
6642757 ATTTATTATTCGTGAATATATTT
1 ATTTATTATTCATGAATATATTC
*
6642780 ATTTATTATTTATGAATATATTC
1 ATTTATTATTCATGAATATATTC
* **
6642803 GTTTATATATATTTTGTGAATATATTC
1 -ATT-TAT-TA-TTCATGAATATATTC
* *
6642830 ATTTAATATTCACGAAT-TAATTC
1 ATTTATTATTCATGAATAT-ATTC
6642853 ATTTA
1 ATTTA
6642858 ATTTAAACAA
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.02
23 35 0.56
24 4 0.06
25 5 0.08
26 4 0.06
27 14 0.22
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.53
Consensus pattern (23 bp):
ATTTATTATTCATGAATATATTC
Found at i:6644787 original size:20 final size:19
Alignment explanation
Indices: 6644762--6644800 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
6644752 ATGATTAATT
6644762 TATTTCTGAAGATTAT-TTAA
1 TATTTCT-AA-ATTATATTAA
6644782 TATTTCTAAATTATATTAA
1 TATTTCTAAATTATATTAA
6644801 ATTGCTCGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 6 0.33
20 7 0.39
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (19 bp):
TATTTCTAAATTATATTAA
Found at i:6646145 original size:14 final size:14
Alignment explanation
Indices: 6646126--6646154 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6646116 TTGTTTAGTT
6646126 AGTCAAAGTAAAAA
1 AGTCAAAGTAAAAA
6646140 AGTCAAAGTAAAAA
1 AGTCAAAGTAAAAA
6646154 A
1 A
6646155 AAGCAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AGTCAAAGTAAAAA
Found at i:6646161 original size:15 final size:16
Alignment explanation
Indices: 6646135--6646172 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
6646125 TAGTCAAAGT
**
6646135 AAAAAAGTCAAAGTAA
1 AAAAAAGTCAAAAAAA
6646151 AAAAAAG-CAAAAAAA
1 AAAAAAGTCAAAAAAA
6646166 AAAAAAG
1 AAAAAAG
6646173 AAATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.79, C:0.05, G:0.11, T:0.05
Consensus pattern (16 bp):
AAAAAAGTCAAAAAAA
Found at i:6646172 original size:25 final size:25
Alignment explanation
Indices: 6646144--6646197 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
6646134 TAAAAAAGTC
6646144 AAAGTAAA-AAAAAGCAAAAAAAAAA
1 AAAG-AAACAAAAAGCAAAAAAAAAA
**
6646169 AAAGAAATCAAAAATTAAAAAAAAAA
1 AAAGAAA-CAAAAAGCAAAAAAAAAA
6646195 AAA
1 AAA
6646198 TATGAAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 4 0.16
26 18 0.72
ACGTcount: A:0.83, C:0.04, G:0.06, T:0.07
Consensus pattern (25 bp):
AAAGAAACAAAAAGCAAAAAAAAAA
Found at i:6646180 original size:19 final size:19
Alignment explanation
Indices: 6646149--6646195 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
6646139 AAGTCAAAGT
6646149 AAAAAAAAGCAAAAA-AAA
1 AAAAAAAAGCAAAAATAAA
*
6646167 AAAAAGAAATCAAAAATTAAA
1 AAAAA-AAAGCAAAAA-TAAA
6646188 AAAAAAAA
1 AAAAAAAA
6646196 AATATGAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 5 0.20
19 9 0.36
20 3 0.12
21 8 0.32
ACGTcount: A:0.85, C:0.04, G:0.04, T:0.06
Consensus pattern (19 bp):
AAAAAAAAGCAAAAATAAA
Found at i:6649797 original size:22 final size:22
Alignment explanation
Indices: 6649748--6649851 Score: 77
Period size: 22 Copynumber: 4.8 Consensus size: 22
6649738 TGTAATAAGT
* *
6649748 ATAAATTAGTAGT-AATTATTG
1 ATAACTTAGTAGTAAATTAATG
* *
6649769 ATGACTTAGTAGTAAATTAATA
1 ATAACTTAGTAGTAAATTAATG
* *
6649791 ATAACTTAATAGTAAATGAATG
1 ATAACTTAGTAGTAAATTAATG
** * *
6649813 ATAGTTTAGTAGTTAA-TAGTTG
1 ATAACTTAGTAGTAAATTA-ATG
**
6649835 ATAACTTTTTAGTAAAT
1 ATAACTTAGTAGTAAAT
6649852 AAGCAATTAT
Statistics
Matches: 61, Mismatches: 19, Indels: 4
0.73 0.23 0.05
Matches are distributed among these distances:
21 12 0.20
22 49 0.80
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.40
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATTAATG
Found at i:6649894 original size:22 final size:22
Alignment explanation
Indices: 6649868--6649932 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
6649858 TTATACAATA
*
6649868 ATAAATGCATAATACTTTAATG
1 ATAAATGCATAATACTATAATG
* * *
6649890 GTAAAT-CAATCATACTATAATT
1 ATAAATGC-ATAATACTATAATG
* *
6649912 ATAAATGCATAACAATATAAT
1 ATAAATGCATAATACTATAAT
6649933 ATTAAATCAA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (22 bp):
ATAAATGCATAATACTATAATG
Found at i:6650036 original size:22 final size:22
Alignment explanation
Indices: 6650011--6650069 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
6650001 TAAATCAACG
* *
6650011 ATAACTTAATAGTAAATTAGTC
1 ATAATTTAATAGTAAATCAGTC
* *
6650033 ATAATTTAATAGGAAATCAGTT
1 ATAATTTAATAGTAAATCAGTC
*
6650055 TTAATTTAATAGTAA
1 ATAATTTAATAGTAA
6650070 TTAATTGATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCAGTC
Found at i:6650209 original size:21 final size:22
Alignment explanation
Indices: 6650163--6650212 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
6650153 TTAATCAATG
*
6650163 ATAACTTAATAGTAAAACATGC
1 ATAACTTAATAGTAAAACATGA
*
6650185 ATAATTTAATA-TAAAACA-GTA
1 ATAACTTAATAGTAAAACATG-A
6650206 ATAACTT
1 ATAACTT
6650213 GGTAGTGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 13 0.54
22 10 0.42
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (22 bp):
ATAACTTAATAGTAAAACATGA
Found at i:6650353 original size:22 final size:22
Alignment explanation
Indices: 6650111--6650354 Score: 64
Period size: 22 Copynumber: 11.2 Consensus size: 22
6650101 ACTTAAAAGC
* *
6650111 AAATCAGT-ATAATTTAGTAAT
1 AAATCATTGATAATTTAATAAT
* * * *
6650132 AAATCATCGATGATATAATAGT
1 AAATCATTGATAATTTAATAAT
* * * *
6650154 TAATCAATGATAACTTAATAGT
1 AAATCATTGATAATTTAATAAT
*
6650176 AAAACA-TGCATAATTTAAT-AT
1 AAATCATTG-ATAATTTAATAAT
* * * * ** *
6650197 AAAACAGTAATAACTTGGTAGT
1 AAATCATTGATAATTTAATAAT
* * * *
6650219 GAATCATAGATAATTTAGTCAT
1 AAATCATTGATAATTTAATAAT
* * ** *
6650241 AAATCAATAATAATTTTGTGAT
1 AAATCATTGATAATTTAATAAT
* * * * *
6650263 AAATAATTAAAAATTAAATAGT
1 AAATCATTGATAATTTAATAAT
* * **
6650285 AAATTAATGATAACATAATAAT
1 AAATCATTGATAATTTAATAAT
* * ** *
6650307 AAAT-ATATAAAAATACAATAGT
1 AAATCAT-TGATAATTTAATAAT
*
6650329 AAATCATTGATAATTTAGTAAT
1 AAATCATTGATAATTTAATAAT
6650351 AAAT
1 AAAT
6650355 GAATAACTTA
Statistics
Matches: 153, Mismatches: 64, Indels: 11
0.67 0.28 0.05
Matches are distributed among these distances:
21 23 0.15
22 128 0.84
23 2 0.01
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (22 bp):
AAATCATTGATAATTTAATAAT
Found at i:6650410 original size:22 final size:22
Alignment explanation
Indices: 6650369--6650441 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
6650359 AACTTAGTGG
* ** *
6650369 TAAATCACTAATAACGTAATAC
1 TAAATTACTAATAATTTAATAA
**
6650391 TAAATTACTAATAATTTAATTG
1 TAAATTACTAATAATTTAATAA
* * *
6650413 TAAATTAATGATAATTTAGTAA
1 TAAATTACTAATAATTTAATAA
6650435 TAAATTA
1 TAAATTA
6650442 GTTAATATCA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.38
Consensus pattern (22 bp):
TAAATTACTAATAATTTAATAA
Found at i:6650439 original size:44 final size:43
Alignment explanation
Indices: 6650240--6650441 Score: 129
Period size: 44 Copynumber: 4.7 Consensus size: 43
6650230 AATTTAGTCA
* * * * *
6650240 TAAATCAATAATAATTTTGTGATAAATAATTAAAAATTAAATAG
1 TAAATCAATGATAATTTAGTAATAAATTA-TAAAAATTTAATAG
* ** * **
6650284 TAAATTAATGATAACATAATAATAAATATATAAAAATACAATAG
1 TAAATCAATGATAATTTAGTAATAAAT-TATAAAAATTTAATAG
* * * * * *
6650328 TAAATCATTGATAATTTAGTAATAAA-T-GAATAACTTAGTGG
1 TAAATCAATGATAATTTAGTAATAAATTATAAAAATTTAATAG
* * ** * * * *
6650369 TAAATCACTAATAACGTAATACTAAATTACTAATAATTTAATTG
1 TAAATCAATGATAATTTAGTAATAAATTA-TAAAAATTTAATAG
*
6650413 TAAATTAATGATAATTTAGTAATAAATTA
1 TAAATCAATGATAATTTAGTAATAAATTA
6650442 GTTAATATCA
Statistics
Matches: 115, Mismatches: 39, Indels: 8
0.71 0.24 0.05
Matches are distributed among these distances:
41 27 0.23
42 2 0.02
44 85 0.74
45 1 0.01
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (43 bp):
TAAATCAATGATAATTTAGTAATAAATTATAAAAATTTAATAG
Found at i:6650558 original size:22 final size:22
Alignment explanation
Indices: 6650486--6650541 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
6650476 AATGATTGGT
* * **
6650486 AATCATTCATAACTAAACAGCA
1 AATCATTCATAAATTAGTAGCA
*
6650508 AATCCTTCATAAATTAGTAGCA
1 AATCATTCATAAATTAGTAGCA
6650530 AATCATTCATAA
1 AATCATTCATAA
6650542 GTTTGTAGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.29
Consensus pattern (22 bp):
AATCATTCATAAATTAGTAGCA
Found at i:6650871 original size:22 final size:22
Alignment explanation
Indices: 6650846--6650944 Score: 69
Period size: 22 Copynumber: 4.5 Consensus size: 22
6650836 TATAACAATA
6650846 TAATAGTAAATCAA-TGATAGA-T
1 TAATAGTAAAT-AACTGATA-ACT
** *
6650868 TAATAAAAAATAAGTGATAACT
1 TAATAGTAAATAACTGATAACT
* **
6650890 TAGTAGTTGATAACTGATAACT
1 TAATAGTAAATAACTGATAACT
** *
6650912 TAATAAAAAATCAA-TGATAATT
1 TAATAGTAAAT-AACTGATAACT
6650934 TAATAGTAAAT
1 TAATAGTAAAT
6650945 TAGTTTTAGT
Statistics
Matches: 58, Mismatches: 16, Indels: 6
0.73 0.20 0.08
Matches are distributed among these distances:
21 3 0.05
22 53 0.91
23 2 0.03
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (22 bp):
TAATAGTAAATAACTGATAACT
Found at i:6650975 original size:21 final size:22
Alignment explanation
Indices: 6650932--6650975 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
6650922 TCAATGATAA
* *
6650932 TTTAATAGTAAATTAGTTTTAG
1 TTTAATAGTAAATTAATTATAG
6650954 TTTAATAGT-AATTAATTATAG
1 TTTAATAGTAAATTAATTATAG
6650975 T
1 T
6650976 GAATCATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
TTTAATAGTAAATTAATTATAG
Found at i:6651010 original size:22 final size:22
Alignment explanation
Indices: 6650985--6651156 Score: 62
Period size: 22 Copynumber: 7.8 Consensus size: 22
6650975 TGAATCATAA
6650985 ATAACTTAATAGTAAATAAATG
1 ATAACTTAATAGTAAATAAATG
* * * ***
6651007 ATAATTTAGTAGTTAATTGTTG
1 ATAACTTAATAGTAAATAAATG
* * *
6651029 AAAACTTAAAAGTAAATCAAT-
1 ATAACTTAATAGTAAATAAATG
* ** *
6651050 ATAATTTAATAGTAGTTAATTATCA
1 ATAACTTAATAGTAAATAA--AT-G
* * * *
6651075 ACAACTTAATATTTAATTAATG
1 ATAACTTAATAGTAAATAAATG
* * **
6651097 ATAACTTGACAGTAAAT-TGTGG
1 ATAACTTAATAGTAAATAAAT-G
* *
6651119 ATAATTTAATA-TAAATCAATG
1 ATAACTTAATAGTAAATAAATG
* *
6651140 ATAACTTGATAATAAAT
1 ATAACTTAATAGTAAAT
6651157 TATGGTTAAT
Statistics
Matches: 101, Mismatches: 42, Indels: 14
0.64 0.27 0.09
Matches are distributed among these distances:
21 29 0.29
22 56 0.55
23 4 0.04
25 12 0.12
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (22 bp):
ATAACTTAATAGTAAATAAATG
Found at i:6651081 original size:46 final size:44
Alignment explanation
Indices: 6650987--6651083 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
6650977 AATCATAAAT
* * *
6650987 AACTTAATAGTAAATAAATGATAATTTAGTAGTTAATTGTTGAA
1 AACTTAAAAGTAAATAAATGATAATTTAGTAGTTAATTGATCAA
*
6651031 AACTTAAAAGTAAATCAAT-ATAATTTAATAGTAGTTAATT-ATCAA
1 AACTTAAAAGTAAATAAATGATAA-TT--TAGTAGTTAATTGATCAA
6651076 CAACTTAA
1 -AACTTAA
6651084 TATTTAATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
43 4 0.09
44 19 0.42
45 3 0.07
46 19 0.42
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (44 bp):
AACTTAAAAGTAAATAAATGATAATTTAGTAGTTAATTGATCAA
Found at i:6651179 original size:43 final size:42
Alignment explanation
Indices: 6651088--6651168 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 42
6651078 ACTTAATATT
* * *
6651088 TAATTAATGATAACTTGACAGTAAATTGTGGATAATTTAATA
1 TAATCAATGATAACTTGACAATAAATTATGGATAATTTAATA
* *
6651130 TAAATCAATGATAACTTGATAATAAATTATGGTTAATTT
1 T-AATCAATGATAACTTGACAATAAATTATGGATAATTT
6651169 TGTAATAATC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 1 0.03
43 32 0.97
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (42 bp):
TAATCAATGATAACTTGACAATAAATTATGGATAATTTAATA
Found at i:6651302 original size:22 final size:22
Alignment explanation
Indices: 6651261--6651325 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
6651251 AACATAATAA
*
6651261 TAAATTAATTGATAATTTAG-ATG
1 TAAATT-ATTAATAATTTAGCA-G
*
6651284 TAAATTATTAATAACTTAGCAG
1 TAAATTATTAATAATTTAGCAG
* *
6651306 TAAATCACTAATAATTTAGC
1 TAAATTATTAATAATTTAGC
6651326 TATAAATAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
22 29 0.81
23 7 0.19
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (22 bp):
TAAATTATTAATAATTTAGCAG
Found at i:6651331 original size:22 final size:22
Alignment explanation
Indices: 6651272--6651332 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
6651262 AAATTAATTG
* * * *
6651272 ATAATTTAGATGTAAATTATTA
1 ATAATTTAGCTATAAATCACTA
*
6651294 ATAACTTAGC-AGTAAATCACTA
1 ATAATTTAGCTA-TAAATCACTA
6651316 ATAATTTAGCTATAAAT
1 ATAATTTAGCTATAAAT
6651333 AAGTGATAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
22 30 0.97
23 1 0.03
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (22 bp):
ATAATTTAGCTATAAATCACTA
Found at i:6651525 original size:22 final size:22
Alignment explanation
Indices: 6651354--6651561 Score: 95
Period size: 22 Copynumber: 9.5 Consensus size: 22
6651344 AATAGCAATT
*
6651354 TAGTTAATCATTAATAATTTTA-
1 TAGTAAATCATTAATAA-TTTAG
** * *
6651376 TAGTAAATCATCGATAAATTAA
1 TAGTAAATCATTAATAATTTAG
*
6651398 TAGTAAATTAATT-ATAACTTTA-
1 TAGTAAA-TCATTAATAA-TTTAG
** * *
6651420 T--TAAAAAATGTATATAACTTAA
1 TAGTAAATCAT-TA-ATAATTTAG
* * *
6651442 TAATAAATCATCAACAATTTAG
1 TAGTAAATCATTAATAATTTAG
* * * **
6651464 TAGTAAATTAGTCATAACATAG
1 TAGTAAATCATTAATAATTTAG
* *
6651486 TAGTAAA-CAAATATTAATTTAG
1 TAGTAAATC-ATTAATAATTTAG
6651508 TAGTAAATCATTAATAATTTAG
1 TAGTAAATCATTAATAATTTAG
* * * * *
6651530 AAGTATATCAGTGATAGTTTAG
1 TAGTAAATCATTAATAATTTAG
6651552 TAGTAAATCA
1 TAGTAAATCA
6651562 CTGATAACAT
Statistics
Matches: 137, Mismatches: 38, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
19 3 0.02
20 5 0.04
21 6 0.04
22 109 0.80
23 8 0.06
24 6 0.04
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.38
Consensus pattern (22 bp):
TAGTAAATCATTAATAATTTAG
Found at i:6651949 original size:21 final size:21
Alignment explanation
Indices: 6651923--6652031 Score: 103
Period size: 21 Copynumber: 5.2 Consensus size: 21
6651913 TGATGTTACT
* * *
6651923 AAAATTTTATAAAAAATTATC
1 AAAATTGTATCAAAAGTTATC
* * *
6651944 AAAATTGTATCAATATTTACC
1 AAAATTGTATCAAAAGTTATC
* *
6651965 AAAATTATATCATAAGTTAT-
1 AAAATTGTATCAAAAGTTATC
* **
6651985 AAAAATGTATTGAAAGTTATC
1 AAAATTGTATCAAAAGTTATC
*
6652006 AAAATTTTATCAAAAGTTATC
1 AAAATTGTATCAAAAGTTATC
6652027 AAAAT
1 AAAAT
6652032 CCAAATTATA
Statistics
Matches: 68, Mismatches: 19, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
20 15 0.22
21 53 0.78
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (21 bp):
AAAATTGTATCAAAAGTTATC
Found at i:6652027 original size:10 final size:10
Alignment explanation
Indices: 6651923--6652031 Score: 74
Period size: 10 Copynumber: 10.5 Consensus size: 10
6651913 TGATGTTACT
*
6651923 AAAATTTTATA
1 AAAA-TTTATC
*
6651934 AAAAATTATC
1 AAAATTTATC
6651944 AAAATTGTATC
1 AAAATT-TATC
* *
6651955 AATATTTACC
1 AAAATTTATC
6651965 AAAATTATATC
1 AAAATT-TATC
* * *
6651976 ATAAGTTATA
1 AAAATTTATC
* *
6651986 AAAATGTATT
1 AAAATTTATC
* *
6651996 GAAAGTTATC
1 AAAATTTATC
6652006 AAAATTTTATC
1 AAAA-TTTATC
*
6652017 AAAAGTTATC
1 AAAATTTATC
6652027 AAAAT
1 AAAAT
6652032 CCAAATTATA
Statistics
Matches: 73, Mismatches: 22, Indels: 7
0.72 0.22 0.07
Matches are distributed among these distances:
10 44 0.60
11 29 0.40
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (10 bp):
AAAATTTATC
Found at i:6654067 original size:15 final size:13
Alignment explanation
Indices: 6654055--6654093 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
6654045 TCATTTAAGG
6654055 TTTATTTATTTAAA
1 TTTATTTATTT-AA
6654069 TTTATTTGATTATAA
1 TTTATTT-ATT-TAA
6654084 TTTATTTATT
1 TTTATTTATT
6654094 ATTCATGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.43
15 12 0.52
16 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (13 bp):
TTTATTTATTTAA
Found at i:6654094 original size:14 final size:15
Alignment explanation
Indices: 6654055--6654095 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
6654045 TCATTTAAGG
6654055 TTTATTTATT-TAAA
1 TTTATTTATTATAAA
6654069 TTTATTTGATTAT-AA
1 TTTATTT-ATTATAAA
6654084 TTTATTTATTAT
1 TTTATTTATTAT
6654096 TCATGAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 12 0.48
15 12 0.48
16 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
TTTATTTATTATAAA
Found at i:6660471 original size:2 final size:2
Alignment explanation
Indices: 6660464--6660488 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6660454 TTGATATAAG
6660464 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6660489 GTACACACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6663897 original size:75 final size:74
Alignment explanation
Indices: 6663818--6663980 Score: 170
Period size: 76 Copynumber: 2.2 Consensus size: 74
6663808 GTGGACTCAT
* * *
6663818 AACCCTAAAAACAAGAAACC-AATGAC-CCTAAACTTGAAA-CTATAAAAACAATACACCTTAAG
1 AACCCTAAAAACAACAAACCTAACGACTCC-AAAC-TCAAATCT-TAAAAACAATACACCTTAAG
6663880 AATAAGGATGCAA
63 AATAAGGAT-CAA
* * * *
6663893 AACCCTAAAAATACCAAACCTGACGACTCCAAACTCAAATTCTTAAAAACATTACACCTTAAGAA
1 AACCCTAAAAACAACAAACCTAACGACTCCAAACTCAAA-TCTTAAAAACAATACACCTTAAGAA
*
6663958 TAGGGATCAA
65 TAAGGATCAA
* *
6663968 AAACCTGAAAACA
1 AACCCTAAAAACA
6663981 CTAAATTCAA
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
75 34 0.47
76 35 0.48
77 4 0.05
ACGTcount: A:0.51, C:0.23, G:0.09, T:0.17
Consensus pattern (74 bp):
AACCCTAAAAACAACAAACCTAACGACTCCAAACTCAAATCTTAAAAACAATACACCTTAAGAAT
AAGGATCAA
Found at i:6664670 original size:2 final size:2
Alignment explanation
Indices: 6664663--6664687 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6664653 AGTAATAGAC
6664663 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6664688 AACAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6674479 original size:3 final size:3
Alignment explanation
Indices: 6674471--6674495 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6674461 GGAAATTAAT
6674471 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
6674496 AATTGGAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6679725 original size:18 final size:18
Alignment explanation
Indices: 6679673--6679731 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
6679663 TTATATTTTT
* *
6679673 ATATCAATATAAATTATGAT
1 ATAT-AATATAAA-TATAAA
**
6679693 ATATAATATTCATATAAA
1 ATATAATATAAATATAAA
6679711 ATATAATATAAATATATAA
1 ATATAATATAAATATA-AA
6679730 AT
1 AT
6679732 TTTTATATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 18 0.56
19 10 0.31
20 4 0.12
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (18 bp):
ATATAATATAAATATAAA
Found at i:6679728 original size:13 final size:13
Alignment explanation
Indices: 6679672--6679729 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
6679662 TTTATATTTT
6679672 TATATCAATATAAA
1 TATAT-AATATAAA
*
6679686 T-TATGATATATAA
1 TATATAATATA-AA
*
6679699 TAT-TCATATAAA
1 TATATAATATAAA
6679711 -ATATAATATAAA
1 TATATAATATAAA
6679723 TATATAA
1 TATATAA
6679730 ATTTTTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
11 2 0.05
12 15 0.41
13 18 0.49
14 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (13 bp):
TATATAATATAAA
Found at i:6685861 original size:31 final size:31
Alignment explanation
Indices: 6685826--6685889 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
6685816 CAATTATAAG
6685826 TTTAAGTCTTTACATTTATCATTGCAAATCC
1 TTTAAGTCTTTACATTTATCATTGCAAATCC
6685857 TTTAAGTCTTTACATTTATCATTGCAAATCC
1 TTTAAGTCTTTACATTTATCATTGCAAATCC
6685888 TT
1 TT
6685890 ATAACATCCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (31 bp):
TTTAAGTCTTTACATTTATCATTGCAAATCC
Found at i:6689446 original size:16 final size:17
Alignment explanation
Indices: 6689417--6689452 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
6689407 ATTTTTGTAA
*
6689417 TATTTTTGTCTTTATTT
1 TATTTTTGTATTTATTT
6689434 TATTTTTG-ATTTATTT
1 TATTTTTGTATTTATTT
6689450 TAT
1 TAT
6689453 CATTTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.75
Consensus pattern (17 bp):
TATTTTTGTATTTATTT
Found at i:6690534 original size:15 final size:15
Alignment explanation
Indices: 6690500--6690533 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6690490 ATCTCTTAAA
*
6690500 ATTTTAATCTTATTT
1 ATTTTAATCTTATCT
6690515 ATTTTAATCTT-TCT
1 ATTTTAATCTTATCT
6690529 ATTTT
1 ATTTT
6690534 TTAAATATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTAATCTTATCT
Found at i:6690845 original size:21 final size:21
Alignment explanation
Indices: 6690815--6691109 Score: 237
Period size: 21 Copynumber: 14.2 Consensus size: 21
6690805 ATAAGAAATT
*
6690815 ATATTTAATATTAATTTAATA
1 ATATTAAATATTAATTTAATA
* *
6690836 ATATTAAATAGTAATTTCATA
1 ATATTAAATATTAATTTAATA
* * *
6690857 TTATTAAATAATAATTTCATA
1 ATATTAAATATTAATTTAATA
*
6690878 ATA-TAAACTACT-ATTTAATA
1 ATATTAAA-TATTAATTTAATA
* ** *
6690898 ATGTTAAATATT-ATCGAGTA
1 ATATTAAATATTAATTTAATA
*
6690918 ATATTAAATGTTAA--T-ATA
1 ATATTAAATATTAATTTAATA
*
6690936 ATAATAAATATTAATTTAAT-
1 ATATTAAATATTAATTTAATA
6690956 ATATTAAA-ATTTAATTTAATA
1 ATATTAAATA-TTAATTTAATA
* * * *
6690977 ATATTGAATATTGATATATTA
1 ATATTAAATATTAATTTAATA
* *
6690998 ATATTAAATATTGATTTTATA
1 ATATTAAATATTAATTTAATA
* * * * *
6691019 GTATTAACTATTAATATGATT
1 ATATTAAATATTAATTTAATA
*
6691040 ATATTAAATATAAATTTAATA
1 ATATTAAATATTAATTTAATA
* *
6691061 ACATTTAAATATTATTTTAATA
1 ATA-TTAAATATTAATTTAATA
* *
6691083 ATATTTAAATAGTATTTTAATA
1 ATA-TTAAATATTAATTTAATA
6691105 ATATT
1 ATATT
6691110 TTCATATGAC
Statistics
Matches: 219, Mismatches: 45, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
18 14 0.06
19 1 0.00
20 49 0.22
21 115 0.53
22 40 0.18
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (21 bp):
ATATTAAATATTAATTTAATA
Found at i:6690943 original size:18 final size:17
Alignment explanation
Indices: 6690916--6690979 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 17
6690906 TATTATCGAG
* *
6690916 TAATATTAAATGTTAATA
1 TAATAATAAAT-TTAATT
6690934 TAATAATAAATATTAATT
1 TAATAATAAAT-TTAATT
6690952 TAATATATTAAAATTTAATT
1 TAATA-A-T-AAATTTAATT
6690972 TAATAATA
1 TAATAATA
6690980 TTGAATATTG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 1 0.03
18 21 0.52
19 2 0.05
20 12 0.30
21 4 0.10
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TAATAATAAATTTAATT
Found at i:6691007 original size:28 final size:28
Alignment explanation
Indices: 6690976--6691039 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
6690966 TTAATTTAAT
6690976 AATATTGAATATTGATA-TATTAA-TATTA
1 AATATTG-AT-TTGATAGTATTAACTATTA
*
6691004 AATATTGATTTTATAGTATTAACTATT-
1 AATATTGATTTGATAGTATTAACTATTA
6691031 AATA-TGATT
1 AATATTGATT
6691040 ATATTAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 10 0.30
27 12 0.36
28 11 0.33
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (28 bp):
AATATTGATTTGATAGTATTAACTATTA
Found at i:6691008 original size:15 final size:14
Alignment explanation
Indices: 6690916--6691060 Score: 87
Period size: 13 Copynumber: 10.8 Consensus size: 14
6690906 TATTATCGAG
*
6690916 TAATATTAA-ATGT
1 TAATATTAATATAT
6690929 TAATA-TAATA-AT
1 TAATATTAATATAT
* * *
6690941 AAATATTAATTTAA
1 TAATATTAATATAT
*
6690955 T-ATATTAAAAT-T
1 TAATATTAATATAT
6690967 TAAT-TTAATAATAT
1 TAATATTAAT-ATAT
*
6690981 TGAATATTGATATAT
1 T-AATATTAATATAT
6690996 TAATATTAA-ATAT
1 TAATATTAATATAT
* *
6691009 TGAT-TTTATAGTAT
1 TAATATTAATA-TAT
6691023 TAACTATTAATATGAT
1 TAA-TATTAATAT-AT
6691039 T-ATATTAA-ATAT
1 TAATATTAATATAT
*
6691051 AAAT-TTAATA
1 TAATATTAATA
6691061 ACATTTAAAT
Statistics
Matches: 101, Mismatches: 16, Indels: 30
0.69 0.11 0.20
Matches are distributed among these distances:
12 22 0.22
13 35 0.35
14 21 0.21
15 11 0.11
16 12 0.12
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (14 bp):
TAATATTAATATAT
Found at i:6691071 original size:11 final size:11
Alignment explanation
Indices: 6691043--6691110 Score: 66
Period size: 11 Copynumber: 6.2 Consensus size: 11
6691033 TATGATTATA
*
6691043 TTAAATATAAAT
1 TTAAATA-ATAT
*
6691055 TT-AATAACAT
1 TTAAATAATAT
*
6691065 TTAAATATTAT
1 TTAAATAATAT
*
6691076 TTTAATAATAT
1 TTAAATAATAT
*
6691087 TTAAATAGTAT
1 TTAAATAATAT
*
6691098 TTTAATAATAT
1 TTAAATAATAT
6691109 TT
1 TT
6691111 TCATATGACT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
10 5 0.11
11 39 0.85
12 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (11 bp):
TTAAATAATAT
Found at i:6691071 original size:22 final size:21
Alignment explanation
Indices: 6691043--6691110 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 21
6691033 TATGATTATA
* *
6691043 TTAAATATAAATTTAATAACAT
1 TTAAATAT-ATTTTAATAATAT
6691065 TTAAATATTATTTTAATAATAT
1 TTAAATA-TATTTTAATAATAT
6691087 TTAAATAGTATTTTAATAATAT
1 TTAAATA-TATTTTAATAATAT
6691109 TT
1 TT
6691111 TCATATGACT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
22 41 0.98
23 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (21 bp):
TTAAATATATTTTAATAATAT
Found at i:6691111 original size:11 final size:11
Alignment explanation
Indices: 6691054--6691146 Score: 82
Period size: 11 Copynumber: 8.5 Consensus size: 11
6691044 TAAATATAAA
*
6691054 TTTAATAACAT
1 TTTAATAATAT
* *
6691065 TTAAATATTAT
1 TTTAATAATAT
6691076 TTTAATAATAT
1 TTTAATAATAT
* *
6691087 TTAAATAGTAT
1 TTTAATAATAT
6691098 TTTAATAATAT
1 TTTAATAATAT
*
6691109 TTTCAT-ATGACT
1 TTTAATAAT-A-T
**
6691121 TTT-ATTTTAT
1 TTTAATAATAT
6691131 TTTAATAATAT
1 TTTAATAATAT
6691142 TTTAA
1 TTTAA
6691147 AATTAAATAT
Statistics
Matches: 65, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
10 6 0.09
11 54 0.83
12 5 0.08
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (11 bp):
TTTAATAATAT
Found at i:6691212 original size:17 final size:17
Alignment explanation
Indices: 6691171--6691212 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
6691161 TTAATTTATG
6691171 TTAATATTATTTAATAC
1 TTAATATTATTTAATAC
**
6691188 TTTTTATTATTTAATA-
1 TTAATATTATTTAATAC
6691204 TTGAATATT
1 TT-AATATT
6691213 TAAGAATATT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
TTAATATTATTTAATAC
Found at i:6691321 original size:22 final size:22
Alignment explanation
Indices: 6691296--6691365 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
6691286 TAGTATTTAG
6691296 TATT-TTTTGCAAAATATGTTAA
1 TATTATTTTG-AAAATATGTTAA
*
6691318 TATTATTTT-AATAACATGTTAA
1 TATTATTTTGAA-AATATGTTAA
** *
6691340 TATTATTTTGATGATATTTTAA
1 TATTATTTTGAAAATATGTTAA
6691362 TATT
1 TATT
6691366 TCATATCATT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 2 0.05
22 33 0.82
23 5 0.12
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (22 bp):
TATTATTTTGAAAATATGTTAA
Found at i:6691330 original size:11 final size:11
Alignment explanation
Indices: 6691314--6691457 Score: 67
Period size: 11 Copynumber: 13.8 Consensus size: 11
6691304 GCAAAATATG
6691314 TTAATATTATT
1 TTAATATTATT
** *
6691325 TTAATAACATG
1 TTAATATTATT
6691336 TTAATATTATT
1 TTAATATTATT
*
6691347 TTGATGA-TATT
1 TTAAT-ATTATT
6691358 TT-A-A-TA-T
1 TTAATATTATT
* *
6691365 TTCATATCATT
1 TTAATATTATT
6691376 TTAATATTATT
1 TTAATATTATT
*
6691387 TGAATATTA--
1 TTAATATTATT
*
6691396 --AATATTAAT
1 TTAATATTATT
*
6691405 TAAATATTATTT
1 TTAATATTA-TT
* *
6691417 TTCATGTTATT
1 TTAATATTATT
6691428 TT-ATAATT-TT
1 TTAAT-ATTATT
*
6691438 TAAATATTATT
1 TTAATATTATT
*
6691449 TTCATATTA
1 TTAATATTA
6691458 AAAACTAATT
Statistics
Matches: 101, Mismatches: 19, Indels: 26
0.69 0.13 0.18
Matches are distributed among these distances:
7 10 0.10
8 4 0.04
9 1 0.01
10 10 0.10
11 68 0.67
12 8 0.08
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.56
Consensus pattern (11 bp):
TTAATATTATT
Found at i:6691386 original size:29 final size:29
Alignment explanation
Indices: 6691354--6691416 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
6691344 ATTTTGATGA
* ** * *
6691354 TATTTTAATATTTCATATCATTTTAATAT
1 TATTTGAATATTAAATATCAATTAAATAT
*
6691383 TATTTGAATATTAAATATTAATTAAATAT
1 TATTTGAATATTAAATATCAATTAAATAT
6691412 TATTT
1 TATTT
6691417 TTCATGTTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.56
Consensus pattern (29 bp):
TATTTGAATATTAAATATCAATTAAATAT
Found at i:6691399 original size:18 final size:18
Alignment explanation
Indices: 6691378--6691413 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6691368 ATATCATTTT
* *
6691378 AATATTATTTGAATATTA
1 AATATTAATTAAATATTA
6691396 AATATTAATTAAATATTA
1 AATATTAATTAAATATTA
6691414 TTTTTCATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AATATTAATTAAATATTA
Found at i:6691495 original size:21 final size:21
Alignment explanation
Indices: 6691423--6691555 Score: 66
Period size: 21 Copynumber: 6.6 Consensus size: 21
6691413 ATTTTTCATG
* *
6691423 TTATTTTATAATTTTTAAATA
1 TTATTTTATAATATTAAAATA
*
6691444 TTA-TTT-TCATATTAAAA-A
1 TTATTTTATAATATTAAAATA
* ***
6691462 CTAATTGCGTAATATTAAAATA
1 -TTATTTTATAATATTAAAATA
**
6691484 TTATTTTATAATATTTTAATA
1 TTATTTTATAATATTAAAATA
*
6691505 ATATTTTAT--TATT-AAATA
1 TTATTTTATAATATTAAAATA
* * * *
6691523 TTA--ATATAATAATATATTA
1 TTATTTTATAATATTAAAATA
6691542 TTATTTTAATAATA
1 TTATTTT-ATAATA
6691556 ATATAATGCT
Statistics
Matches: 81, Mismatches: 21, Indels: 19
0.67 0.17 0.16
Matches are distributed among these distances:
16 3 0.04
18 10 0.12
19 20 0.25
20 4 0.05
21 37 0.46
22 7 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TTATTTTATAATATTAAAATA
Found at i:6691505 original size:11 final size:11
Alignment explanation
Indices: 6691480--6691512 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
6691470 GTAATATTAA
*
6691480 AATATTATTTT
1 AATAATATTTT
6691491 -ATAATATTTT
1 AATAATATTTT
6691501 AATAATATTTT
1 AATAATATTTT
6691512 A
1 A
6691513 TTATTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
AATAATATTTT
Found at i:6691514 original size:29 final size:29
Alignment explanation
Indices: 6691482--6691627 Score: 139
Period size: 29 Copynumber: 5.0 Consensus size: 29
6691472 AATATTAAAA
* * *
6691482 TATTATTTTATAATATTTTAATAATATTT
1 TATTATTTAATAATAATATAATAATATTT
* * *
6691511 TATTATTAAATATTAATATAATAATATAT
1 TATTATTTAATAATAATATAATAATATTT
**
6691540 TATTATTTTAATAATAATATAATGCTATTTT
1 TATTA-TTTAATAATAATATAATAATA-TTT
* * * *
6691571 TATTATTAAATACTAATTTAAGAATATTT
1 TATTATTTAATAATAATATAATAATATTT
* * *
6691600 TAATATTTAATATTATTATAATAATATT
1 TATTATTTAATAATAATATAATAATATT
6691628 CTAATATAAT
Statistics
Matches: 92, Mismatches: 23, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
29 53 0.58
30 32 0.35
31 7 0.08
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (29 bp):
TATTATTTAATAATAATATAATAATATTT
Found at i:6691568 original size:22 final size:22
Alignment explanation
Indices: 6691528--6691570 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6691518 AAATATTAAT
* *
6691528 ATAATAATATATTATTATTTTA
1 ATAATAATATAATACTATTTTA
*
6691550 ATAATAATATAATGCTATTTT
1 ATAATAATATAATACTATTTT
6691571 TATTATTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
ATAATAATATAATACTATTTTA
Found at i:6698461 original size:12 final size:12
Alignment explanation
Indices: 6698446--6698490 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
6698436 AAAAAGGAAA
*
6698446 ATGAAAAAAAAG
1 ATGAAAAAAAAT
*
6698458 ATGAGAAAAAAT
1 ATGAAAAAAAAT
*
6698470 ATG-CAAAAAAT
1 ATGAAAAAAAAT
6698481 ATGAAAAAAA
1 ATGAAAAAAA
6698491 TAAAACAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.71, C:0.02, G:0.13, T:0.13
Consensus pattern (12 bp):
ATGAAAAAAAAT
Found at i:6698477 original size:11 final size:11
Alignment explanation
Indices: 6698450--6698492 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
6698440 AGGAAAATGA
*
6698450 AAAAAAAGATG
1 AAAAAAATATG
6698461 AGAAAAAATATG
1 A-AAAAAATATG
*
6698473 CAAAAAATATG
1 AAAAAAATATG
6698484 AAAAAAATA
1 AAAAAAATA
6698493 AAACAAACGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.72, C:0.02, G:0.12, T:0.14
Consensus pattern (11 bp):
AAAAAAATATG
Found at i:6698499 original size:23 final size:23
Alignment explanation
Indices: 6698443--6698499 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
6698433 ATCAAAAAGG
*
6698443 AAAATGAA-AAAAAAGATGAGAA
1 AAAATAAACAAAAAAGATGAGAA
** *
6698465 AAAATATGCAAAAAATATGA-AA
1 AAAATAAACAAAAAAGATGAGAA
6698487 AAAATAAAACAAA
1 AAAAT-AAACAAA
6698500 CGAAAAGCCA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.74, C:0.04, G:0.11, T:0.12
Consensus pattern (23 bp):
AAAATAAACAAAAAAGATGAGAA
Found at i:6699191 original size:23 final size:23
Alignment explanation
Indices: 6699165--6699212 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
6699155 CATTGATTTA
*
6699165 GTGACATTTGCA-TTACATACATT
1 GTGACAATTGCATTTACAT-CATT
*
6699188 GTGATAATTGCATTTACATCATT
1 GTGACAATTGCATTTACATCATT
6699211 GT
1 GT
6699213 TGCGGCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (23 bp):
GTGACAATTGCATTTACATCATT
Found at i:6699784 original size:17 final size:15
Alignment explanation
Indices: 6699746--6699775 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6699736 TTACAAACTT
6699746 GAAAATTCTTGTGAA
1 GAAAATTCTTGTGAA
6699761 GAAAATTCTTGTGAA
1 GAAAATTCTTGTGAA
6699776 CCTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (15 bp):
GAAAATTCTTGTGAA
Found at i:6700175 original size:64 final size:64
Alignment explanation
Indices: 6700107--6700253 Score: 170
Period size: 65 Copynumber: 2.3 Consensus size: 64
6700097 TAGTTTAGTT
*** *
6700107 CAGATCATTTTATTTTTTAATTTGTTG-TTCAATCCTAATCATCTATTTTGATATCAACTCAATC
1 CAGATCATTTTATTTTTTAACCCG-TGATTCAATCCTAATCATCCATTTTGATATCAACTCAATC
* * * * *
6700171 CAGATCATTTTATTTTTTTAACCCGTGATTTAATCTTGATCATCCATTTTGATCTTAACTCAATC
1 CAGATCATTTTA-TTTTTTAACCCGTGATTCAATCCTAATCATCCATTTTGATATCAACTCAATC
* *
6700236 TAAATCATTTTATTTTTT
1 CAGATCATTTTATTTTTT
6700254 GTTTCGCAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
64 20 0.29
65 50 0.71
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (64 bp):
CAGATCATTTTATTTTTTAACCCGTGATTCAATCCTAATCATCCATTTTGATATCAACTCAATC
Found at i:6701640 original size:25 final size:26
Alignment explanation
Indices: 6701612--6701660 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
6701602 AATTTTTTCA
*
6701612 AAATAAAATTTTAT-AAATGATTATT
1 AAATAAAATCTTATCAAATGATTATT
*
6701637 AAATAAAATCTTATCAAATTATTA
1 AAATAAAATCTTATCAAATGATTA
6701661 AGAGATCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (26 bp):
AAATAAAATCTTATCAAATGATTATT
Found at i:6704954 original size:20 final size:19
Alignment explanation
Indices: 6704912--6704953 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
6704902 TTATCACATG
**
6704912 TTTTATTTTTTAAATTAGT
1 TTTTATTTTTTAAACAAGT
6704931 TTTTATTTCTTTAAACAA-T
1 TTTTATTT-TTTAAACAAGT
6704950 TTTT
1 TTTT
6704954 TTATTGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATTTTTTAAACAAGT
Found at i:6705011 original size:14 final size:14
Alignment explanation
Indices: 6704965--6705011 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
6704955 TATTGTAATT
*
6704965 AAATTAATTCTGAA
1 AAATAAATTCTGAA
*
6704979 AAATAAATTCTAAA
1 AAATAAATTCTGAA
* *
6704993 AAATAATTTTTGAA
1 AAATAAATTCTGAA
6705007 AAATA
1 AAATA
6705012 TTTACATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (14 bp):
AAATAAATTCTGAA
Found at i:6705744 original size:13 final size:13
Alignment explanation
Indices: 6705726--6705750 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6705716 TTAAATTAAA
6705726 TAATATTCATAAT
1 TAATATTCATAAT
6705739 TAATATTCATAA
1 TAATATTCATAA
6705751 ATGCTTTGAT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATATTCATAAT
Found at i:6708202 original size:15 final size:15
Alignment explanation
Indices: 6708175--6708216 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
6708165 ATAAAAAATT
*
6708175 AATTTTATTTATTTAA
1 AATTTT-TTTATTGAA
6708191 AATTTTTTTATTGAA
1 AATTTTTTTATTGAA
6708206 AATATTTTTTA
1 AAT-TTTTTTA
6708217 ATTATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
AATTTTTTTATTGAA
Found at i:6709400 original size:25 final size:25
Alignment explanation
Indices: 6709353--6709420 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
6709343 TTGGGACCGG
* *
6709353 ACCTCAATGGATCAATCGGGCTCGA
1 ACCTCAATGGGTCAATCGAGCTCGA
*
6709378 ACCTCAATGGGTCAA-CTGAGCTCGG
1 ACCTCAATGGGTCAATC-GAGCTCGA
* *
6709403 ATCTCAATGGGCCAATCG
1 ACCTCAATGGGTCAATCG
6709421 GGTCCAAACA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.21
Consensus pattern (25 bp):
ACCTCAATGGGTCAATCGAGCTCGA
Found at i:6712611 original size:17 final size:18
Alignment explanation
Indices: 6712589--6712624 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
6712579 ACTTTTTTAG
*
6712589 TCTAATTATAAA-AAAAA
1 TCTAATAATAAATAAAAA
6712606 TCTAATAATAAATAAAAA
1 TCTAATAATAAATAAAAA
6712624 T
1 T
6712625 TCATTGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
TCTAATAATAAATAAAAA
Found at i:6713223 original size:2 final size:2
Alignment explanation
Indices: 6713216--6713251 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
6713206 TTGTCTTACC
6713216 TA TA TA TA TA TA TA TA TA T- TA TA T- TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6713252 TGTTCAACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.10
2 28 0.90
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:6713231 original size:10 final size:10
Alignment explanation
Indices: 6713216--6713251 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
6713206 TTGTCTTACC
6713216 TATATATATA
1 TATATATATA
6713226 TATATATAT-
1 TATATATATA
6713235 TATAT-TATA
1 TATATATATA
6713244 T-TATATAT
1 TATATATAT
6713252 TGTTCAACGC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 6 0.25
9 9 0.38
10 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TATATATATA
Found at i:6713233 original size:12 final size:11
Alignment explanation
Indices: 6713216--6713251 Score: 58
Period size: 10 Copynumber: 3.5 Consensus size: 11
6713206 TTGTCTTACC
6713216 TATATATA-TA
1 TATATATATTA
6713226 TATATATATTA
1 TATATATATTA
6713237 TAT-TATATTA
1 TATATATATTA
6713247 TATAT
1 TATAT
6713252 TGTTCAACGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 18 0.75
11 6 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATATATATTA
Found at i:6717373 original size:21 final size:23
Alignment explanation
Indices: 6717343--6717387 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
6717333 AAAGATAAAT
*
6717343 AAAGAATAA-GAAATA-AAATAA
1 AAAGAATAAGGAAAAATAAATAA
*
6717364 AAAGAGTAAGGAAAAATAAATAA
1 AAAGAATAAGGAAAAATAAATAA
6717387 A
1 A
6717388 TAAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 5 0.25
23 7 0.35
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (23 bp):
AAAGAATAAGGAAAAATAAATAA
Found at i:6720968 original size:2 final size:2
Alignment explanation
Indices: 6720961--6721009 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
6720951 TTTGAAACCA
6720961 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6721003 AT AT AT A
1 AT AT AT A
6721010 GTGTATTGGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6726025 original size:23 final size:25
Alignment explanation
Indices: 6725997--6726063 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 25
6725987 ACCCGATTCA
6725997 AAACTT-C-AAATCACATCAAAACC
1 AAACTTACAAAATCACATCAAAACC
6726020 AAACTTAAAACAAAATCACATCAAAACC
1 AAACTT---ACAAAATCACATCAAAACC
*
6726048 AAACTTATAACAATCA
1 AAACTTACAA-AATCA
6726064 ACTAATTAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
23 6 0.16
25 3 0.08
26 5 0.14
27 1 0.03
28 22 0.59
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.18
Consensus pattern (25 bp):
AAACTTACAAAATCACATCAAAACC
Found at i:6726039 original size:28 final size:28
Alignment explanation
Indices: 6726004--6726060 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
6725994 TCAAAACTTC
6726004 AAATCACATCAAAACCAAACTTAAAACA
1 AAATCACATCAAAACCAAACTTAAAACA
*
6726032 AAATCACATCAAAACCAAACTTATAACA
1 AAATCACATCAAAACCAAACTTAAAACA
6726060 A
1 A
6726061 TCAACTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.60, C:0.25, G:0.00, T:0.16
Consensus pattern (28 bp):
AAATCACATCAAAACCAAACTTAAAACA
Found at i:6727272 original size:20 final size:21
Alignment explanation
Indices: 6727244--6727282 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
6727234 ATGTAAATAG
*
6727244 AAAATAAATAAAAC-AAAAAA
1 AAAACAAATAAAACTAAAAAA
6727264 AAAACAAATAAAACTAAAA
1 AAAACAAATAAAACTAAAA
6727283 CGGGAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.82, C:0.08, G:0.00, T:0.10
Consensus pattern (21 bp):
AAAACAAATAAAACTAAAAAA
Found at i:6727952 original size:77 final size:77
Alignment explanation
Indices: 6727820--6727974 Score: 294
Period size: 77 Copynumber: 2.0 Consensus size: 77
6727810 ATGTTTTCAC
6727820 CTCAAGAGTATTCAAGAATTTCATTTATTTTCTTAAAAAGACTCCGTCATTAAAAAAAGGTTTAA
1 CTCAAGAGTATTCAAGAATTTCATTTATTTTCTTAAAAAGACTCCGTCATTAAAAAAAGGTTTAA
6727885 TAATTTTTTATT
66 TAATTTTTTATT
6727897 CTCAAGAGTATTCAAGAATTTCATTTATTTTCTTAAAAAGACT-CGTCATTAAAAAAAGGTTTAA
1 CTCAAGAGTATTCAAGAATTTCATTTATTTTCTTAAAAAGACTCCGTCATTAAAAAAAGGTTTAA
*
6727961 TTATTTTTTATT
66 TAATTTTTTATT
6727973 CT
1 CT
6727975 TTATTTTTTA
Statistics
Matches: 77, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
76 34 0.44
77 43 0.56
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.43
Consensus pattern (77 bp):
CTCAAGAGTATTCAAGAATTTCATTTATTTTCTTAAAAAGACTCCGTCATTAAAAAAAGGTTTAA
TAATTTTTTATT
Found at i:6727980 original size:14 final size:13
Alignment explanation
Indices: 6727961--6727992 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
6727951 AAAGGTTTAA
6727961 TTATTTTTTATTCT
1 TTATTTTTTATT-T
6727975 TTATTTTTTATTT
1 TTATTTTTTATTT
6727988 TTATT
1 TTATT
6727993 GAAAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (13 bp):
TTATTTTTTATTT
Found at i:6729070 original size:19 final size:20
Alignment explanation
Indices: 6729023--6729060 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6729013 GAAACCTACC
6729023 AAAAAA-TTTATCGAAATCT
1 AAAAAATTTTATCGAAATCT
6729042 AAAAAATTTTATCGAAATC
1 AAAAAATTTTATCGAAATC
6729061 GAAGAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (20 bp):
AAAAAATTTTATCGAAATCT
Found at i:6729694 original size:89 final size:89
Alignment explanation
Indices: 6729589--6729843 Score: 286
Period size: 88 Copynumber: 2.9 Consensus size: 89
6729579 TAGAGGTTTC
* * * * * * * *
6729589 ATAACTTTCGAGAAATAAATAAGGCTCATATAAGCAAAGGTTCAACGACTTTAAAAAAATAAATA
1 ATAACTTTAGAAAAATAAATAAGGCTCTTCTAAGTAGAGGTTCAACGATTTTTAAAAAATAAATA
*
6729654 AGGCTCTTCTAAA-TAAA-AAGCTTA
66 AGGCTCTTCTAAAGTAAAGAA--TCA
**
6729678 ACT-ACTTTAGAAAAATAAATAAGGCTCTTCTAAGTAGAGGCTT-AATAATTTTTAAAAAATAAA
1 A-TAACTTTAGAAAAATAAATAAGGCTCTTCTAAGTAGAGG-TTCAACGATTTTTAAAAAATAAA
*
6729741 TAAGACTCTTC-AAAGTAAAGAATCA
64 TAAGGCTCTTCTAAAGTAAAGAATCA
* * * *
6729766 ATAACTTTTGAAAAATAAATAAGGGTCTTCTAAGTAGAGGCTCAACGATTTTTGAAAAATAAATA
1 ATAACTTTAGAAAAATAAATAAGGCTCTTCTAAGTAGAGGTTCAACGATTTTTAAAAAATAAATA
*
6729831 AGGCTCCTCTAAA
66 AGGCTCTTCTAAA
6729844 CAGAGGCTCA
Statistics
Matches: 139, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
87 2 0.01
88 67 0.48
89 65 0.47
90 5 0.04
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (89 bp):
ATAACTTTAGAAAAATAAATAAGGCTCTTCTAAGTAGAGGTTCAACGATTTTTAAAAAATAAATA
AGGCTCTTCTAAAGTAAAGAATCA
Found at i:6729737 original size:44 final size:44
Alignment explanation
Indices: 6729601--6729871 Score: 206
Period size: 44 Copynumber: 6.2 Consensus size: 44
6729591 AACTTTCGAG
* * * * * ** * *
6729601 AAATAAATAAGGCTCATATAAGCAAAGGTTCAACGACTTTAAAA
1 AAATAAATAAGGCTCTTCTAAGTAGAGGCTCAATAATTTTTAAA
* * * * *
6729645 AAATAAATAAGGCTCTTCTAAATAAAAAGCTTAACT-A-CTTTAGAA
1 AAATAAATAAGGCTCTTCTAAGT-AGAGGCTCAA-TAATTTTTA-AA
*
6729690 AAATAAATAAGGCTCTTCTAAGTAGAGGCTTAATAATTTTTAAA
1 AAATAAATAAGGCTCTTCTAAGTAGAGGCTCAATAATTTTTAAA
* * * ** * *
6729734 AAATAAATAAGACTCTTCAAAGTAAAGAATCAATAACTTTTGAA
1 AAATAAATAAGGCTCTTCTAAGTAGAGGCTCAATAATTTTTAAA
* ** *
6729778 AAATAAATAAGGGTCTTCTAAGTAGAGGCTCAACGATTTTTGAA
1 AAATAAATAAGGCTCTTCTAAGTAGAGGCTCAATAATTTTTAAA
* ** ** *
6729822 AAATAAATAAGGCTCCTCTAAACAGAGGCTCAACGA-CTTTAAA
1 AAATAAATAAGGCTCTTCTAAGTAGAGGCTCAATAATTTTTAAA
6729865 AAATAAA
1 AAATAAA
6729872 GCTCTTCGAC
Statistics
Matches: 185, Mismatches: 37, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
43 13 0.07
44 136 0.74
45 36 0.19
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (44 bp):
AAATAAATAAGGCTCTTCTAAGTAGAGGCTCAATAATTTTTAAA
Found at i:6730684 original size:78 final size:78
Alignment explanation
Indices: 6730499--6730711 Score: 216
Period size: 78 Copynumber: 2.7 Consensus size: 78
6730489 TCTTTTTTTA
* * * * *
6730499 GCTTCTCAACACTAACCATTTTAGAACAAGTTTCATCAGATGATCCTCATTATTTTCATCACTTG
1 GCTTCTCAACACTAGCCATTTCAGAATAAGTTTCGTCA-ATGATCCTCATTATTTTCATCACTTA
*
6730564 ATCACAATTCACAG
65 ATCACAACTCACAG
* * *
6730578 GCTTCTCAGCACTAG-CAGTTCCAAAATAAGTTTCGTCAATTGATCCTCA-TATTTTCATCACTT
1 GCTTCTCAACACTAGCCA-TTTCAGAATAAGTTTCGTCAA-TGATCCTCATTATTTTCATCACTT
* *
6730641 AATCATAACTCATAG
64 AATCACAACTCACAG
* * * * *
6730656 GCTTCTTAAAACTAGCCATTTCAGAATAAATTTTGTCAACTAATCCAT-ATTATTTT
1 GCTTCTCAACACTAGCCATTTCAGAATAAGTTTCGTCAA-TGATCC-TCATTATTTT
6730712 TATTATTTGA
Statistics
Matches: 109, Mismatches: 20, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
78 63 0.58
79 46 0.42
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (78 bp):
GCTTCTCAACACTAGCCATTTCAGAATAAGTTTCGTCAATGATCCTCATTATTTTCATCACTTAA
TCACAACTCACAG
Found at i:6731348 original size:9 final size:9
Alignment explanation
Indices: 6731347--6731420 Score: 102
Period size: 9 Copynumber: 8.7 Consensus size: 9
6731337 TTTTTTCCTT
6731347 TTTTTTTCA
1 TTTTTTTCA
6731356 TTTTTTTCA
1 TTTTTTTCA
6731365 TTTTTTTCA
1 TTTTTTTCA
6731374 TTTTTTTCA
1 TTTTTTTCA
*
6731383 TTTCTTTCA
1 TTTTTTTCA
6731392 --TTTTTCA
1 TTTTTTTCA
6731399 TTTTTTTC-
1 TTTTTTTCA
*
6731407 -TTTTCTCA
1 TTTTTTTCA
6731415 TTTTTT
1 TTTTTT
6731421 CATCTATTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
7 12 0.21
9 45 0.79
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:6731349 original size:11 final size:11
Alignment explanation
Indices: 6731335--6731380 Score: 55
Period size: 9 Copynumber: 4.5 Consensus size: 11
6731325 TCTCATTTTA
*
6731335 TTTTTTTTCCT
1 TTTTTTTTCAT
6731346 TTTTTTTTCA-
1 TTTTTTTTCAT
6731356 -TTTTTTTCA-
1 TTTTTTTTCAT
6731365 -TTTTTTTCAT
1 TTTTTTTTCAT
6731375 TTTTTT
1 TTTTTT
6731381 CATTTCTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 18 0.56
11 14 0.44
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTTCAT
Found at i:6731351 original size:18 final size:18
Alignment explanation
Indices: 6731330--6731396 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
6731320 TTTTCTCTCA
*
6731330 TTTTATTTTTTTTCCTTT
1 TTTTATTTTTTTTCATTT
*
6731348 TTTTTTCATTTTTTTCATTT
1 TTTTAT--TTTTTTTCATTT
6731368 TTTTCA-TTTTTTTCATTT
1 TTTT-ATTTTTTTTCATTT
*
6731386 CTTTCATTTTT
1 -TTTTATTTTT
6731397 CATTTTTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
18 18 0.45
19 7 0.17
20 15 0.38
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTATTTTTTTTCATTT
Found at i:6731368 original size:16 final size:17
Alignment explanation
Indices: 6731347--6731420 Score: 98
Period size: 16 Copynumber: 4.4 Consensus size: 17
6731337 TTTTTTCCTT
6731347 TTTTTTTCATTTTTTTCA
1 TTTTTTTCA-TTTTTTCA
6731365 TTTTTTTCATTTTTTTCA
1 TTTTTTTCA-TTTTTTCA
*
6731383 TTTCTTTCA-TTTTTCA
1 TTTTTTTCATTTTTTCA
*
6731399 TTTTTTTC-TTTTCTCA
1 TTTTTTTCATTTTTTCA
6731415 TTTTTT
1 TTTTTT
6731421 CATCTATTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
16 26 0.50
18 26 0.50
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTTCATTTTTTCA
Found at i:6737888 original size:45 final size:45
Alignment explanation
Indices: 6737803--6737895 Score: 125
Period size: 45 Copynumber: 2.1 Consensus size: 45
6737793 AAAATATCTT
* *
6737803 TTTTTTTTAATTTCTAAATTTTTCATCATTTGGGCCTATTTAGAAA
1 TTTTTTTTAATTTCTAAATTTTTCACCATTTGAGCCTATTTA-AAA
* **
6737849 TTTTTTTT-ATTTCTAAATTTTTCACCATTTTAGTTTATTTAAAA
1 TTTTTTTTAATTTCTAAATTTTTCACCATTTGAGCCTATTTAAAA
6737893 TTT
1 TTT
6737896 CTTTGTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 6 0.14
45 28 0.67
46 8 0.19
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.59
Consensus pattern (45 bp):
TTTTTTTTAATTTCTAAATTTTTCACCATTTGAGCCTATTTAAAA
Found at i:6737980 original size:99 final size:102
Alignment explanation
Indices: 6737862--6738082 Score: 349
Period size: 105 Copynumber: 2.2 Consensus size: 102
6737852 TTTTTATTTC
*
6737862 TAAATTTTTCACCATTTTAGTTTATTT-AAAA-TT-TCTTTGTTTTTGTTTTTTTATCTTTGGAA
1 TAAATTTTTCACCATTTTAGTCTATTTAAAAATTTGTCTTTGTTTTTGTTTTTTTATCTTTGGAA
6737924 AGAAAATAATATGATAATTTTTTCTTGAAATTTCATT
66 AGAAAATAATATGATAATTTTTTCTTGAAATTTCATT
* *
6737961 TAAAATTTTCACCATTTTAGTCTATTTAAAAATTCTTTGTTTTTGTTTTTGTTTTTTTATCTTTG
1 TAAATTTTTCACCATTTTAGTCTATTTAAAAA---TTTGTCTTTGTTTTTGTTTTTTTATCTTTG
*
6738026 GAAAGAAAATAATATGATATTTTTTTCTTGAAATTTCATT
63 GAAAGAAAATAATATGATAATTTTTTCTTGAAATTTCATT
*
6738066 TACATTTTTCACCATTT
1 TAAATTTTTCACCATTT
6738083 GGGACAAATT
Statistics
Matches: 110, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
99 25 0.23
100 4 0.04
104 2 0.02
105 79 0.72
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.55
Consensus pattern (102 bp):
TAAATTTTTCACCATTTTAGTCTATTTAAAAATTTGTCTTTGTTTTTGTTTTTTTATCTTTGGAA
AGAAAATAATATGATAATTTTTTCTTGAAATTTCATT
Found at i:6738121 original size:105 final size:105
Alignment explanation
Indices: 6737905--6738121 Score: 260
Period size: 105 Copynumber: 2.1 Consensus size: 105
6737895 TCTTTGTTTT
6737905 TGTTTTTTTATCTTTGGAAAGAAAATAATATGATAATTTTTTCTTGAAATTTCATTTAAAATTTT
1 TGTTTTTTTATCTTTGGAAAGAAAATAATATGATAATTTTTTCTTGAAATTTCATTTAAAATTTT
* * * * ** * ***
6737970 CACCATTTTAGTCTATTTAAAAATTCTTTGTTTTTGTTTT
66 CACCATTTGAGACAATTTAAAAATTCTCTCATTTAGTAGA
* * *
6738010 TGTTTTTTTATCTTTGGAAAGAAAATAATATGATATTTTTTTCTTGAAATTTCATTTACATTTTT
1 TGTTTTTTTATCTTTGGAAAGAAAATAATATGATAATTTTTTCTTGAAATTTCATTTAAAATTTT
*
6738075 CACCATTTGGGACAAATTTAAAGAAATT-TCTCATTTAG-AGA
66 CACCATTTGAGAC-AATTT-AA-AAATTCTCTCATTTAGTAGA
6738116 T-TTTTT
1 TGTTTTT
6738122 AAAAATTTAC
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
105 77 0.81
106 5 0.05
107 8 0.08
108 5 0.05
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.52
Consensus pattern (105 bp):
TGTTTTTTTATCTTTGGAAAGAAAATAATATGATAATTTTTTCTTGAAATTTCATTTAAAATTTT
CACCATTTGAGACAATTTAAAAATTCTCTCATTTAGTAGA
Found at i:6739063 original size:15 final size:15
Alignment explanation
Indices: 6739015--6739065 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
6739005 TATTTTTTTA
6739015 CTTTT-TGTGTGTAT
1 CTTTTCTGTGTGTAT
* * *
6739029 CTGTTTCTCTG-ATCT
1 CT-TTTCTGTGTGTAT
6739044 CTTTTCTGTGTGTAT
1 CTTTTCTGTGTGTAT
6739059 CTTTTCT
1 CTTTTCT
6739066 TCTATGTGAG
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
14 9 0.32
15 16 0.57
16 3 0.11
ACGTcount: A:0.06, C:0.18, G:0.16, T:0.61
Consensus pattern (15 bp):
CTTTTCTGTGTGTAT
Found at i:6739599 original size:20 final size:20
Alignment explanation
Indices: 6739574--6739612 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6739564 TTAAATTTAT
6739574 ATTTATGGTAAAATTTCTTA
1 ATTTATGGTAAAATTTCTTA
**
6739594 ATTTATTTTAAAATTTCTT
1 ATTTATGGTAAAATTTCTT
6739613 TTTATTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTTATGGTAAAATTTCTTA
Found at i:6740382 original size:14 final size:14
Alignment explanation
Indices: 6740365--6740402 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
6740355 AAATTGAATG
6740365 AATTTGATTGATTT
1 AATTTGATTGATTT
*
6740379 AATTTGATTTATTT
1 AATTTGATTGATTT
6740393 AATTTTGATT
1 AA-TTTGATT
6740403 ATAATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (14 bp):
AATTTGATTGATTT
Found at i:6743465 original size:13 final size:12
Alignment explanation
Indices: 6743440--6743464 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6743430 ATCCATTCAG
6743440 TATAAATTTTTT
1 TATAAATTTTTT
6743452 TATAAATTTTTT
1 TATAAATTTTTT
6743464 T
1 T
6743465 TTTCAATCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATAAATTTTTT
Found at i:6744437 original size:23 final size:21
Alignment explanation
Indices: 6744390--6744437 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 21
6744380 ATTAGTTTTT
**
6744390 TTATTTTATATAAAAAAGATC
1 TTATTTTATATAAAAAAGAGA
*
6744411 TTATTTTAAATATAAAAAATAGA
1 TTATTTT--ATATAAAAAAGAGA
6744434 TTAT
1 TTAT
6744438 AAATATTATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 7 0.32
23 15 0.68
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (21 bp):
TTATTTTATATAAAAAAGAGA
Found at i:6746829 original size:129 final size:126
Alignment explanation
Indices: 6746581--6746829 Score: 293
Period size: 129 Copynumber: 2.0 Consensus size: 126
6746571 TATATATTTA
* *
6746581 TTTATATTTTTAAGGAAGATAAATAAATAAAATAACAATTGAACATATCTATTCGTTTTAAATTT
1 TTTATATTTTTAAGAAAGATAAATAAATAAAATAACAATTGAACATATCTATTCATTTTAAATTT
** *
6746646 AAAAATGATAATTAGAAAGAAACGGATTAGACTTGAGTTGAATAATTGAATAAAACATATT
66 AAAAATGATAATTAGAAAGAAACAAATTAGACTTGAGTTGAATAATTAAATAAAACATATT
* * * * *
6746707 TTTATTTTTTTTAGAAAGATAAATAAATAAAATAACAATAATTTAATATATCTATTTATTTTAAA
1 TTTATATTTTTAAGAAAGATAAATAAATAAAATAAC---AATTGAACATATCTATTCATTTTAAA
* ** * * * * *
6746772 TTTAGACGTGATAATTAG-ATGAATCAAATTAGATTTGAGTTGGATCATTAAATTAAAA
63 TTTAAAAATGATAATTAGAAAGAAACAAATTAGACTTGAGTTGAATAATTAAA-TAAAA
6746830 AAATTAAATC
Statistics
Matches: 101, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
126 33 0.33
128 26 0.26
129 42 0.42
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (126 bp):
TTTATATTTTTAAGAAAGATAAATAAATAAAATAACAATTGAACATATCTATTCATTTTAAATTT
AAAAATGATAATTAGAAAGAAACAAATTAGACTTGAGTTGAATAATTAAATAAAACATATT
Found at i:6755721 original size:52 final size:52
Alignment explanation
Indices: 6755640--6755743 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
6755630 TATAAGCATA
* * *
6755640 CAAACTTGCCTATTAAGAATCTATCTCCTCATAGATTTCTTCTTCTGCAAGT
1 CAAACTTACCTATTAAGAATCTATCTCCTCATAAAATTCTTCTTCTGCAAGT
* * *
6755692 CAAACTTACCTATTAAGAATTTATTTCCTCTTAAAATTCTTCTTCTGCAAGT
1 CAAACTTACCTATTAAGAATCTATCTCCTCATAAAATTCTTCTTCTGCAAGT
6755744 ATTATTGTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCTATCTCCTCATAAAATTCTTCTTCTGCAAGT
Found at i:6757152 original size:63 final size:61
Alignment explanation
Indices: 6757022--6757364 Score: 204
Period size: 63 Copynumber: 5.5 Consensus size: 61
6757012 ATTGAAAATA
* * * ** * **
6757022 TTTTTGGCTAAAAATACCTTTAATAATCTTTTTCAATTTTTTATGAGATGATTATTCAATGCA
1 TTTTTGACCAAAAATGCCTTTAATAATCCCTTTCAA-TTTTTATTAGA-GATTATTCAATGGT
* * *
6757085 TTTTTAACCAAAAATGCCTTCAATAATCCCTTTCAATTTTGTATTAGAGATTATTTAATGTGT
1 TTTTTGACCAAAAATGCCTTTAATAATCCCTTTCAATTTT-TATTAGAGATTATTCAATG-GT
* *** *
6757148 TTTTT--CTCAGAAAATGCCTTAAATAAT-CCTTTACAAAAAAATTA-AATGAGATTATTCAA-G
1 TTTTTGAC-CA-AAAATGCCTTTAATAATCCCTTT-C--AATTTTTATTA-GAGATTATTCAATG
6757208 GT
60 GT
* ** *
6757210 ATTTTTGACTAAAAATATCTTTAATAATTCCC-TTCAGTTTTTATT-GAAGATTATTCAATGCG-
1 -TTTTTGACCAAAAATGCCTTTAATAA-TCCCTTTCAATTTTTATTAG-AGATTATTCAATG-GT
* * *
6757272 TTTTTGACCAAAAATGCCTTGAATAAT-CCTTTCTAATTTTTTTATTGGAGATTATTTAAT-GT
1 TTTTTGACCAAAAATGCCTTTAATAATCCCTTTC-AA--TTTTTATTAGAGATTATTCAATGGT
* *
6757334 ATTTTTG-CTTAGAAAACGCCTTTAATAATCC
1 -TTTTTGAC-CA-AAAATGCCTTTAATAATCC
6757365 TCTCATAAAA
Statistics
Matches: 218, Mismatches: 35, Indels: 52
0.71 0.11 0.17
Matches are distributed among these distances:
59 2 0.01
60 5 0.02
61 40 0.18
62 26 0.12
63 105 0.48
64 33 0.15
65 7 0.03
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (61 bp):
TTTTTGACCAAAAATGCCTTTAATAATCCCTTTCAATTTTTATTAGAGATTATTCAATGGT
Found at i:6757164 original size:187 final size:186
Alignment explanation
Indices: 6756936--6757374 Score: 510
Period size: 187 Copynumber: 2.3 Consensus size: 186
6756926 CAAAAAAAAA
* * * * * * *
6756936 TTTG-ATTAGAGATTATTCAATGCGTTTTTGCCCATAAAATGCATTGAATAATCCCCTCATAAAA
1 TTTGTATTAGAGATTATTTAATGTGTTTTTGCTCAGAAAATGCCTTAAATAATCCTCTCATAAAA
* * * * * ** *
6757000 TTTAATGGGGTTATTGAAAATATTTTTGGCTAAAAATACCTTTAATAA-TCTTTTTCAATTTTT-
66 TTAAATGAGATTATTCAAAATATTTTTGACTAAAAATACCTTTAATAATTC-CCTTCAGTTTTTA
6757063 TATGAGATGATTATTCAATGCATTTTTAACCAAAAATGCCTTCAATAATCCCTTTC-AA-T
130 T-TGA-A-GATTATTCAATGCATTTTTAACCAAAAATGCCTTCAATAAT-CCTTTCTAATT
* * *
6757122 TTTGTATTAGAGATTATTTAATGTGTTTTTTCTCAGAAAATGCCTTAAATAATCCTTTACAAAAA
1 TTTGTATTAGAGATTATTTAATGTGTTTTTGCTCAGAAAATGCCTTAAATAATCCTCT-C-ATAA
** *
6757187 AATTAAATGAGATTATTCAAGGTATTTTTGACTAAAAATATCTTTAATAATTCCCTTCAGTTTTT
64 AATTAAATGAGATTATTCAAAATATTTTTGACTAAAAATACCTTTAATAATTCCCTTCAGTTTTT
* * *
6757252 ATTGAAGATTATTCAATGCGTTTTTGACCAAAAATGCCTTGAATAATCCTTTCTAATT
129 ATTGAAGATTATTCAATGCATTTTTAACCAAAAATGCCTTCAATAATCCTTTCTAATT
* * * * * *
6757310 TTTTTATTGGAGATTATTTAATGTATTTTTGCTTAGAAAACGCCTTTAATAATCCTCTCATAAAA
1 TTTGTATTAGAGATTATTTAATGTGTTTTTGCTCAGAAAATGCCTTAAATAATCCTCTCATAAAA
6757375 ATTTTTAGGG
Statistics
Matches: 213, Mismatches: 33, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
186 15 0.07
187 85 0.40
188 53 0.25
189 57 0.27
190 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (186 bp):
TTTGTATTAGAGATTATTTAATGTGTTTTTGCTCAGAAAATGCCTTAAATAATCCTCTCATAAAA
TTAAATGAGATTATTCAAAATATTTTTGACTAAAAATACCTTTAATAATTCCCTTCAGTTTTTAT
TGAAGATTATTCAATGCATTTTTAACCAAAAATGCCTTCAATAATCCTTTCTAATT
Found at i:6757214 original size:126 final size:124
Alignment explanation
Indices: 6757071--6757303 Score: 292
Period size: 126 Copynumber: 1.9 Consensus size: 124
6757061 TTTATGAGAT
* *
6757071 GATTATTCAATGCATTTTTAACCAAAAATGCCTTCAATAA-TCCCTTTCAATTTTGTATT-AGAG
1 GATTATTCAAGGCATTTTTAACCAAAAATACCTTCAATAATTCCC-TTCAATTTT-TATTGA-AG
* * *
6757134 ATTATTTAATGTGTTTTT-TCTCAGAAAATGCCTTAAATAATCCTTTACAAAAAAATTAAATGA
63 ATTATTCAATGCGTTTTTGAC-CA-AAAATGCCTTAAATAATCCTTTACAAAAAAATTAAATGA
* * * * * *
6757197 GATTATTCAAGGTATTTTTGACTAAAAATATCTTTAATAATTCCCTTCAGTTTTTATTGAAGATT
1 GATTATTCAAGGCATTTTTAACCAAAAATACCTTCAATAATTCCCTTCAATTTTTATTGAAGATT
*
6757262 ATTCAATGCGTTTTTGACCAAAAATGCCTTGAATAATCCTTT
66 ATTCAATGCGTTTTTGACCAAAAATGCCTTAAATAATCCTTT
6757304 CTAATTTTTT
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
124 21 0.23
125 24 0.26
126 43 0.47
127 4 0.04
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (124 bp):
GATTATTCAAGGCATTTTTAACCAAAAATACCTTCAATAATTCCCTTCAATTTTTATTGAAGATT
ATTCAATGCGTTTTTGACCAAAAATGCCTTAAATAATCCTTTACAAAAAAATTAAATGA
Found at i:6759644 original size:375 final size:375
Alignment explanation
Indices: 6758954--6759676 Score: 1302
Period size: 375 Copynumber: 1.9 Consensus size: 375
6758944 TTTATCTCCT
* * *
6758954 GTCATTAGTATCCAAAGGAACAGCTTATCCTTTACTAAGGGAAGAACTCGTCCAACATCCCTAGT
1 GTCATTAGTATCCAAAGGAACAGCTCATCCCTCACTAAGGGAAGAACTCGTCCAACATCCCTAGT
**
6759019 AACATCCCATCAAGATATCATATCAAAACTAAACATTTGATCTCTAACTTGACTGAGATCATTAA
66 AACATCCCATCAAGATATCATATCAAAACTAAACATTTGATCTCTAACTTGACCAAGATCATTAA
* * * * *
6759084 AAGTAACTTGTACCTACTTGAGATTATTAAATGTGACTTATAGCTACCTACGTGAACACTCATTG
131 AAGTAACCTATACCTACTTGAAATTATTAAATGTGACTCATAGCTACCTACGTGAACACTCATCG
*
6759149 AGCTTCACGTATATTTCTCATCAATTATCAACAATTCTAGTAAAGTCACCACTTATTGTCTTAGA
196 AGCTTCACGTATATTTCTCATCAATTATCAACAATTCTAGTAAAGTCACCACTTATTGTCTCAGA
6759214 TATATAAGGTAATGAGGAAGCACAAATACGTAAGACAATACAAACACTTCATACCTAAGCACTTT
261 TATATAAGGTAATGAGGAAGCACAAATACGTAAGACAATACAAACACTTCATACCTAAGCACTTT
*
6759279 TCATTCATTGTAGCTCCCTTCACTAAGATAGAGCACTTTTAAATTGCCAA
326 TCATTCATTGTAACTCCCTTCACTAAGATAGAGCACTTTTAAATTGCCAA
6759329 GTCATTAGTATCCAAAGGAACAGCTCATCCCTCACTAAGGGAAGAACTCGTCCAACATCCCTAGT
1 GTCATTAGTATCCAAAGGAACAGCTCATCCCTCACTAAGGGAAGAACTCGTCCAACATCCCTAGT
6759394 AACATCCCATCAAGATATCATATCAAAACTAAACATTTGATCTCTAACTTGACCAAGATCATTAA
66 AACATCCCATCAAGATATCATATCAAAACTAAACATTTGATCTCTAACTTGACCAAGATCATTAA
6759459 AAGTAACCTATACCTACTTGAAATTATTAAATGTGACTCATAGCTACCTACGTGAACACTCATCG
131 AAGTAACCTATACCTACTTGAAATTATTAAATGTGACTCATAGCTACCTACGTGAACACTCATCG
* *
6759524 AGCTTCACGTATATTTCTCATCAATTATCAACAATTCTAGTAAAGTCACCATTTATTGTCTCATA
196 AGCTTCACGTATATTTCTCATCAATTATCAACAATTCTAGTAAAGTCACCACTTATTGTCTCAGA
*
6759589 TATATAAGGTAATGAGGAAGCACAAATATGTAAGACAATACAAACACTTCATACCTAAGCACTTT
261 TATATAAGGTAATGAGGAAGCACAAATACGTAAGACAATACAAACACTTCATACCTAAGCACTTT
*
6759654 TCGTTCATTGTAACTCCCTTCAC
326 TCATTCATTGTAACTCCCTTCAC
6759677 ACACCTTATC
Statistics
Matches: 332, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
375 332 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (375 bp):
GTCATTAGTATCCAAAGGAACAGCTCATCCCTCACTAAGGGAAGAACTCGTCCAACATCCCTAGT
AACATCCCATCAAGATATCATATCAAAACTAAACATTTGATCTCTAACTTGACCAAGATCATTAA
AAGTAACCTATACCTACTTGAAATTATTAAATGTGACTCATAGCTACCTACGTGAACACTCATCG
AGCTTCACGTATATTTCTCATCAATTATCAACAATTCTAGTAAAGTCACCACTTATTGTCTCAGA
TATATAAGGTAATGAGGAAGCACAAATACGTAAGACAATACAAACACTTCATACCTAAGCACTTT
TCATTCATTGTAACTCCCTTCACTAAGATAGAGCACTTTTAAATTGCCAA
Found at i:6767647 original size:27 final size:27
Alignment explanation
Indices: 6767590--6767647 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
6767580 TATTTATATT
** * *
6767590 ATATTTTATATAAAAATAACGTATTAT
1 ATATTTTATATAAAAATAAAATATAAA
6767617 ATATTTTATA-AAAATATAAAATATAAA
1 ATATTTTATATAAAA-ATAAAATATAAA
6767644 ATAT
1 ATAT
6767648 AATTTTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (27 bp):
ATATTTTATATAAAAATAAAATATAAA
Done.