Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold243
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: 1218968
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 59385 characters in sequence are not A, C, G, or T
File 1 of 4
Found at i:16422 original size:42 final size:40
Alignment explanation
Indices: 16363--16499 Score: 153
Period size: 42 Copynumber: 3.5 Consensus size: 40
16353 ATTCATTGGT
16363 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACC-TATCTTAAATGTG-AAGG
* * * *
16405 GGTTGCTAAGTGTTGATTCC-CC-AAC-T-CAT-TG--GT
1 GGTTGCTAAGTGCTGATTCCACCTATCTTAAATGTGAAGG
16438 GGTTGCTAAGTGCTGATTCCACCATATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACC-TATCTTAAATGTGAA-GG
16480 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
16500 CCCGAAGGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
33 20 0.26
34 2 0.03
36 4 0.05
37 3 0.04
38 3 0.04
39 4 0.05
41 2 0.03
42 40 0.51
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (40 bp):
GGTTGCTAAGTGCTGATTCCACCTATCTTAAATGTGAAGG
Found at i:16450 original size:75 final size:75
Alignment explanation
Indices: 16327--16501 Score: 305
Period size: 75 Copynumber: 2.3 Consensus size: 75
16317 NNNNNNNNNN
* * *
16327 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCT
16392 TAAATGTGAA
66 TAAATGTGAA
*
16402 AGGGGTTGCTAAGTGTTGATTCCCCAACTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCT
16467 TAAATGTGAA
66 TAAATGTGAA
*
16477 GGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
16502 CGAAGGGTTG
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 94 1.00
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (75 bp):
AGGGGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCT
TAAATGTGAA
Found at i:16514 original size:27 final size:27
Alignment explanation
Indices: 16479--16555 Score: 136
Period size: 27 Copynumber: 2.9 Consensus size: 27
16469 AATGTGAAGG
16479 GGGTTGCTAAGTGCTGATTCCCCCGAA
1 GGGTTGCTAAGTGCTGATTCCCCCGAA
* *
16506 GGGTTGCTAAGTGCTGATTCTCCCGAG
1 GGGTTGCTAAGTGCTGATTCCCCCGAA
16533 GGGTTGCTAAGTGCTGATTCCCC
1 GGGTTGCTAAGTGCTGATTCCCC
16556 GAATCATTGG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.16, C:0.25, G:0.31, T:0.29
Consensus pattern (27 bp):
GGGTTGCTAAGTGCTGATTCCCCCGAA
Found at i:21047 original size:48 final size:47
Alignment explanation
Indices: 20987--21087 Score: 157
Period size: 48 Copynumber: 2.1 Consensus size: 47
20977 CCAATGTACC
* *
20987 TAATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATT
1 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGT-TG
* *
21035 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAGTGTTTTAATGTTG
1 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTTG
21082 TAATTT
1 TAATTT
21088 TGCAATTAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 7 0.14
48 42 0.86
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (47 bp):
TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTTG
Found at i:21655 original size:6 final size:6
Alignment explanation
Indices: 21646--21686 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
21636 TTGTGGCTTA
* **
21646 GGCTCG GGCTCG GTCTTA GGCTCG GGCTCG GGCTCG GGCTC
1 GGCTCG GGCTCG GGCTCG GGCTCG GGCTCG GGCTCG GGCTC
21687 TGCCTCTAGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.02, C:0.32, G:0.44, T:0.22
Consensus pattern (6 bp):
GGCTCG
Found at i:21663 original size:18 final size:18
Alignment explanation
Indices: 21642--21676 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
21632 CCGGTTGTGG
21642 CTTAGGCTCGGGCTCGGT
1 CTTAGGCTCGGGCTCGGT
21660 CTTAGGCTCGGGCTCGG
1 CTTAGGCTCGGGCTCGG
21677 GCTCGGGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.29, G:0.40, T:0.26
Consensus pattern (18 bp):
CTTAGGCTCGGGCTCGGT
Found at i:21685 original size:18 final size:18
Alignment explanation
Indices: 21618--21686 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
21608 TATGCGATCA
* *
21618 CTCGAGCTCAGGCTCCGG
1 CTCGGGCTCAGGCTCGGG
* *
21636 -TTGTGGCTTAGGCTCGGG
1 CTCG-GGCTCAGGCTCGGG
* *
21654 CTCGGTCTTAGGCTCGGG
1 CTCGGGCTCAGGCTCGGG
*
21672 CTCGGGCTCGGGCTC
1 CTCGGGCTCAGGCTC
21687 TGCCTCTAGC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 2 0.05
18 36 0.90
19 2 0.05
ACGTcount: A:0.06, C:0.30, G:0.39, T:0.25
Consensus pattern (18 bp):
CTCGGGCTCAGGCTCGGG
Found at i:24041 original size:16 final size:16
Alignment explanation
Indices: 23977--24048 Score: 53
Period size: 16 Copynumber: 4.5 Consensus size: 16
23967 AACAATATGT
23977 CAAATAAATTACATAA
1 CAAATAAATTACATAA
*
23993 AAAATAAATCTA-ATCAA
1 CAAATAAAT-TACAT-AA
* *
24010 CCTAAA-ACA-CACATAA
1 -C-AAATAAATTACATAA
24026 CAAATAAATTACATAA
1 CAAATAAATTACATAA
24042 -AAATAAA
1 CAAATAAA
24049 ACATTCTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 15
0.67 0.09 0.23
Matches are distributed among these distances:
14 3 0.07
15 10 0.23
16 19 0.44
17 6 0.14
18 2 0.05
19 3 0.07
ACGTcount: A:0.64, C:0.15, G:0.00, T:0.21
Consensus pattern (16 bp):
CAAATAAATTACATAA
Found at i:24122 original size:29 final size:28
Alignment explanation
Indices: 24088--24164 Score: 120
Period size: 29 Copynumber: 2.7 Consensus size: 28
24078 TTTTTACTTC
24088 AATCAAAATTAAAAATAAATTATGAATG
1 AATCAAAATTAAAAATAAATTATGAATG
24116 AATTCAAAATTAAAAATAAATTATGAATG
1 AA-TCAAAATTAAAAATAAATTATGAATG
*
24145 AATGAAAA-TATAAAATAAAT
1 AATCAAAATTA-AAAATAAAT
24165 ACAAACATAC
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
27 2 0.04
28 16 0.35
29 28 0.61
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (28 bp):
AATCAAAATTAAAAATAAATTATGAATG
Found at i:27351 original size:36 final size:36
Alignment explanation
Indices: 27304--27377 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
27294 TTCAAAGACT
27304 TACATTTCTTGACTGTTGTTAATGAATCCCCTTCGA
1 TACATTTCTTGACTGTTGTTAATGAATCCCCTTCGA
27340 TACATTTCTTGACTGTTGTTAATGAATCCCCTTCGA
1 TACATTTCTTGACTGTTGTTAATGAATCCCCTTCGA
27376 TA
1 TA
27378 ATGACTCGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.42
Consensus pattern (36 bp):
TACATTTCTTGACTGTTGTTAATGAATCCCCTTCGA
Found at i:36682 original size:67 final size:67
Alignment explanation
Indices: 36573--36707 Score: 225
Period size: 67 Copynumber: 2.0 Consensus size: 67
36563 TTTCCAATTC
*
36573 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGAGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGACCACACTCCCGCGAACCTCATTTCTTACAGCGAGATTACCAGTCCAGGCTAAATCCCCTG
36638 CA
66 CA
* * * *
36640 AGAGACCACACTCCCGCGAACCTCATTTCTTATAGCGGGATTACCAGTTCAGGTTAAATCCCCTG
1 AGAGACCACACTCCCGCGAACCTCATTTCTTACAGCGAGATTACCAGTCCAGGCTAAATCCCCTG
36705 CA
66 CA
36707 A
1 A
36708 CGACAATTAC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (67 bp):
AGAGACCACACTCCCGCGAACCTCATTTCTTACAGCGAGATTACCAGTCCAGGCTAAATCCCCTG
CA
Found at i:36869 original size:57 final size:58
Alignment explanation
Indices: 36772--36918 Score: 192
Period size: 57 Copynumber: 2.5 Consensus size: 58
36762 ACCCTAATTC
* * * *
36772 AGATTACCCGTCCGGGCTAAATCCATTTTCCACATGTTCTTCGGGAGGGCTATATC-A-
1 AGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGA-GGCTATATCGAT
36829 AGATCACCCGTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGCTATATCAGGAT
1 AGATCACCCGTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGGGAGGCTATATC--GAT
36889 AGGATCACCCGTCCGGGCTAGATCCTTTTT
1 A-GATCACCCGTCCGGGCTAGATCCTTTTT
36919 ACCGTCAATT
Statistics
Matches: 79, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
56 15 0.19
57 35 0.44
59 1 0.01
60 1 0.01
61 21 0.27
62 6 0.08
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.30
Consensus pattern (58 bp):
AGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGCTATATCGAT
Found at i:38627 original size:11 final size:11
Alignment explanation
Indices: 38613--38660 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
38603 ATTAATCATT
38613 TAATAATAAAA
1 TAATAATAAAA
38624 TAATAATAAAAA
1 TAATAAT-AAAA
**
38636 TCTTAATAAAA
1 TAATAATAAAA
* *
38647 TATTAATTAAA
1 TAATAATAAAA
38658 TAA
1 TAA
38661 CATTTATCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 22 0.71
12 9 0.29
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:49403 original size:89 final size:90
Alignment explanation
Indices: 49251--49477 Score: 262
Period size: 92 Copynumber: 2.5 Consensus size: 90
49241 CAAATTAAAA
* *
49251 AAAAAGAAGCAATTAAACCCTTACTTTTTACTTTTGCACTT-AATTGGATACTTGAACTTTCAAA
1 AAAAA-AAGCAATTAAACCCCTACTTTTT--TTTTGCA-TTCAATTGGATACTTGAACTGTCAAA
* *
49315 ATACAT-CAAAAAGGCCCTCAAACTTTTTC
62 ATACATAAAAAAAGACCCT-AAACTTTTTC
* * * *
49344 AAAAAAAGTAATTAAATCCCT-GTTTTTTTTTGCATTCAATTGGGTACTTGAACTGTCAAAATAC
1 AAAAAAAGCAATTAAACCCCTACTTTTTTTTTGCATTCAATTGGATACTTGAACTGTCAAAATAC
*
49408 ATAAAAAAAAAGACCCTAAATTTTTTC
66 AT--AAAAAAAGACCCTAAACTTTTTC
* * *
49435 AAAAAATGCAATTAAGCCCCTACTTTTTTTTTGCACTCAATTG
1 AAAAAAAGCAATTAAACCCCTACTTTTTTTTTGCATTCAATTG
49478 CCAAAATGCA
Statistics
Matches: 114, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
88 2 0.02
89 34 0.30
91 31 0.27
92 42 0.37
93 5 0.04
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (90 bp):
AAAAAAAGCAATTAAACCCCTACTTTTTTTTTGCATTCAATTGGATACTTGAACTGTCAAAATAC
ATAAAAAAAGACCCTAAACTTTTTC
Found at i:49635 original size:26 final size:26
Alignment explanation
Indices: 49599--49664 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
49589 CACATGTGAC
49599 AAAAAA-TATAAAAA-ATAAAAATCA
1 AAAAAATTATAAAAATATAAAAATCA
* *
49623 ATAAAAATTATAAAAATTATTAAAATTA
1 A-AAAAATTATAAAAA-TATAAAAATCA
*
49651 AAAAAGTTATAAAA
1 AAAAAATTATAAAA
49665 TGCATCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 1 0.03
25 5 0.14
26 8 0.23
27 12 0.34
28 9 0.26
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (26 bp):
AAAAAATTATAAAAATATAAAAATCA
Found at i:49647 original size:18 final size:17
Alignment explanation
Indices: 49626--49665 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
49616 AAAATCAATA
49626 AAAATTATAAAAA-TTATT
1 AAAATTA-AAAAAGTTA-T
49644 AAAATTAAAAAAGTTAT
1 AAAATTAAAAAAGTTAT
49661 AAAAT
1 AAAAT
49666 GCATCAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
AAAATTAAAAAAGTTAT
Found at i:49664 original size:9 final size:9
Alignment explanation
Indices: 49599--49664 Score: 66
Period size: 9 Copynumber: 7.4 Consensus size: 9
49589 CACATGTGAC
*
49599 AAAAAATAT
1 AAAAATTAT
49608 AAAAA--AT
1 AAAAATTAT
*
49615 AAAAATCAAT
1 AAAAAT-TAT
49625 AAAAATTAT
1 AAAAATTAT
49634 AAAAATTAT
1 AAAAATTAT
*
49643 TAAAATTA-
1 AAAAATTAT
49651 AAAAAGTTAT
1 AAAAA-TTAT
49661 AAAA
1 AAAA
49665 TGCATCAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
7 7 0.14
8 4 0.08
9 26 0.53
10 12 0.24
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (9 bp):
AAAAATTAT
Found at i:49976 original size:27 final size:27
Alignment explanation
Indices: 49906--49976 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
49896 AAATATATAT
*
49906 ATTTTTTCTATATTTCTATATATTTTATA
1 ATTTTTT-TATATTT-TATATATTTTACA
*
49935 ATTGTTTCTAT-TTTTAT-TAATTTTACA
1 ATT-TTTTTATATTTTATAT-ATTTTACA
49962 ATTTTTTTATATTTT
1 ATTTTTTTATATTTT
49977 TTTACGATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
26 7 0.19
27 17 0.47
28 3 0.08
29 6 0.17
30 3 0.08
ACGTcount: A:0.25, C:0.06, G:0.01, T:0.68
Consensus pattern (27 bp):
ATTTTTTTATATTTTATATATTTTACA
Found at i:49998 original size:21 final size:21
Alignment explanation
Indices: 49955--50007 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
49945 TTTTTATTAA
*
49955 TTTTACAATTTTTTTATATTT
1 TTTTACAATTTTTATATATTT
* *
49976 TTTTACGATTTTTATA-ATCT
1 TTTTACAATTTTTATATATTT
49996 TTTT-CTAATTTT
1 TTTTAC-AATTTT
50008 ATTTTTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 1 0.04
20 12 0.44
21 14 0.52
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTACAATTTTTATATATTT
Found at i:61990 original size:9 final size:9
Alignment explanation
Indices: 61976--62031 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
61966 AAAAAAGTAT
61976 AAATATTAA
1 AAATATTAA
61985 AAATATTAA
1 AAATATTAA
61994 AAAT-TCT-A
1 AAATAT-TAA
*
62002 AAGTATATAA
1 AAATAT-TAA
62012 AAA-ATTAA
1 AAATATTAA
*
62020 AAATTTTAA
1 AAATATTAA
62029 AAA
1 AAA
62032 CATTTCTAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 11 0.28
9 25 0.64
10 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (9 bp):
AAATATTAA
Found at i:61994 original size:26 final size:27
Alignment explanation
Indices: 61964--62022 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 27
61954 ATTTATATTT
61964 TTAAAAAAGTATAAA-TAT-TAAAAATA
1 TTAAAAAAGTATAAAGTATATAAAAA-A
* *
61990 TT-AAAAATTCTAAAGTATATAAAAAA
1 TTAAAAAAGTATAAAGTATATAAAAAA
62016 TTAAAAA
1 TTAAAAA
62023 TTTTAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 10 0.36
26 8 0.29
27 10 0.36
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (27 bp):
TTAAAAAAGTATAAAGTATATAAAAAA
Found at i:62881 original size:20 final size:19
Alignment explanation
Indices: 62838--62924 Score: 79
Period size: 19 Copynumber: 4.5 Consensus size: 19
62828 TCCATATGTA
*
62838 ATAAAAATAAA-AATACATT
1 ATAAAAATAAATAA-AAATT
*
62857 CTAAAAAATAAATAAAAATT
1 AT-AAAAATAAATAAAAATT
* *
62877 ATAAAAATAAAT-TAAATA
1 ATAAAAATAAATAAAAATT
*
62895 ATAAAAATGTAATAAAAAATT
1 ATAAAAAT-AAAT-AAAAATT
62916 ATAAAAATA
1 ATAAAAATA
62925 TACCATGTGA
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
18 12 0.22
19 14 0.26
20 14 0.26
21 14 0.26
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.26
Consensus pattern (19 bp):
ATAAAAATAAATAAAAATT
Found at i:62924 original size:27 final size:27
Alignment explanation
Indices: 62866--62924 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
62856 TCTAAAAAAT
62866 AAATAAAAATTATAAAAATAAATTAAA
1 AAATAAAAATTATAAAAATAAATTAAA
* *
62893 TAATAAAAATGTA-ATAAA-AAATTATAA
1 AAATAAAAAT-TATAAAAATAAATTA-AA
62920 AAATA
1 AAATA
62925 TACCATGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 6 0.22
27 19 0.70
28 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (27 bp):
AAATAAAAATTATAAAAATAAATTAAA
Found at i:63414 original size:24 final size:22
Alignment explanation
Indices: 63372--63427 Score: 60
Period size: 26 Copynumber: 2.4 Consensus size: 22
63362 TTTTAAAATA
*
63372 TTTATAAAAATTTCAAAATTTATATT
1 TTTAAAAAAATTT-AAAA-TT-T-TT
63398 TTTAAAAAAATTT-AAATTTTT
1 TTTAAAAAAATTTAAAATTTTT
63419 TTTAAAAAA
1 TTTAAAAAA
63428 TCTAAAGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 11 0.38
22 1 0.03
23 2 0.07
24 3 0.10
26 12 0.41
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTAAAAAAATTTAAAATTTTT
Found at i:63425 original size:20 final size:20
Alignment explanation
Indices: 63396--63433 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
63386 AAAATTTATA
*
63396 TTTTTAAAAAAATTTAAATT
1 TTTTTAAAAAAATCTAAATT
*
63416 TTTTTTAAAAAATCTAAA
1 TTTTTAAAAAAATCTAAA
63434 GAATATATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTTTAAAAAAATCTAAATT
Found at i:66013 original size:14 final size:14
Alignment explanation
Indices: 65996--66039 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
65986 ATAAACCCTA
65996 AACCCCTAACACTT
1 AACCCCTAACACTT
*
66010 AACCCCTAACTCTT
1 AACCCCTAACACTT
*
66024 AACCCCTAACCCTT
1 AACCCCTAACACTT
66038 AA
1 AA
66040 ACCATAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.34, C:0.43, G:0.00, T:0.23
Consensus pattern (14 bp):
AACCCCTAACACTT
Found at i:67782 original size:7 final size:7
Alignment explanation
Indices: 67770--67797 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
67760 AATCATACAG
67770 TATTTTA
1 TATTTTA
67777 TATTTTA
1 TATTTTA
67784 TATTTTA
1 TATTTTA
67791 TATTTTA
1 TATTTTA
67798 GAGATTGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TATTTTA
Found at i:75739 original size:582 final size:582
Alignment explanation
Indices: 74628--75779 Score: 1856
Period size: 582 Copynumber: 2.0 Consensus size: 582
74618 CTTATACAAG
* *
74628 TTGAAAGGGACTAATATGGGGGAATCAGCAGGGTTCTACTACTTTTCCCTTTGTTGGAAGGCGCA
1 TTGAAAGGGACTAATATGGGGGAACCAGCAGGGTTCTACTACTTTTCCCCTTGTTGGAAGGCGCA
*
74693 GACGATTATACAAAATCAATGCAATAATCTTCACTTGAAACGGGGGACGTATATCCAAACCTGCA
66 GACGATTATACAAAATCAATGCAATAAACTTCACTTGAAACGGGGGACGTATATCCAAACCTGCA
74758 GCATACTTGGCGAAGACTTTGGGTTCCCAACTAGGTGGTCCTCCCCTAGTGAAGACATGCACGCC
131 GCATACTTGGCGAAGACTTTGGGTTCCCAACTAGGTGGTCCTCCCCTAGTGAAGACATGCACGCC
** * *
74823 TTTTAGAGGAGTCTTGCCACTGATGAGGCTATCGAGCAACTTCAAAGGCTCTAGAGACGATTCTA
196 TTCCAGAGGAGTCTTGCCACTAATGAGGCTATCGAGCAACTTCAAAGGCTCTAGAGACAATTCTA
* *
74888 ACTGTGAGGAATGTCTTTAGATTCTGCTTGGAGGATCTCAGCCTAAATGGTTGGAGGGCTGGCGA
261 ACTGTGAGGAATGTCTTCAGATTCTACTTGGAGGATCTCAGCCTAAATGGTTGGAGGGCTGGCGA
* * * *
74953 CAACTAAGAGGTCGCATGATCCGTTGGTGGGCAACTAACGATGAGTACTTGGCATCACGATTCCC
326 CAACTAAGAGGTCGCACGATCAGTTGCTGGGCAACCAACGATGAGTACTTGGCATCACGATTCCC
* * * * *
75018 TCGATCAGCTGGGCATGATATTGACTGGGTGTTTGGAGGAGCCTGCGAATTTTTTCTACTATTAT
391 TCGATCAGCTGGGCATAATATTGACGGGGTGTTTGGAGGAGCCTGCGAATTTCTTCAACCATTAT
* ** * * *
75083 TGTGGGATGTTGTTCCGTCCATTTGCCCTTCTTTAGTTCGAGCAATAGGAGAGGGTTAGAGGAGG
456 TCTAAGATGTCGTTCCGTCCATTTGCCCTTATTGAGTTCGAGCAATAGGAGAGGGTTAGAGGAGG
*
75148 TATTGACTTGTTAATTACTTCTACTAATCTTAGGGTTATTGATGGTGTAGATGAGGTACTAA
521 TACTGACTTGTTAATTACTTCTACTAATCTTAGGGTTATTGATGGTGTAGATGAGGTACTAA
* *
75210 TTGAAAGGGACTAATGTGGGGGAACCAGCAGGGTTCTACTACTTTTCCCCTTGTTGGAAGGTGCA
1 TTGAAAGGGACTAATATGGGGGAACCAGCAGGGTTCTACTACTTTTCCCCTTGTTGGAAGGCGCA
* * *
75275 GACGATTATACGAAATCAATGCAATAAACTTCACTTGGAATGGGGGACGTATATCCAAA-CTCGC
66 GACGATTATACAAAATCAATGCAATAAACTTCACTTGAAACGGGGGACGTATATCCAAACCT-GC
* *
75339 AGCATACTTGGTGAAGACTTTGTGTTCCCAACTAGGTGGTCCTCCCCTAGTGAAGACATGCACGC
130 AGCATACTTGGCGAAGACTTTGGGTTCCCAACTAGGTGGTCCTCCCCTAGTGAAGACATGCACGC
* * * *
75404 CTTCCAGAGGAGTCTTGCCACTAATGAGGCTATCGAGCAACTTTAGAGGCTCTGGAGGCAATTCT
195 CTTCCAGAGGAGTCTTGCCACTAATGAGGCTATCGAGCAACTTCAAAGGCTCTAGAGACAATTCT
* * *
75469 GACTGTGAGGAATGTCTTCAGATTCTATTTGGAGGATCTTAGCCTAAATGGTTGGAGGGCTGGCG
260 AACTGTGAGGAATGTCTTCAGATTCTACTTGGAGGATCTCAGCCTAAATGGTTGGAGGGCTGGCG
* *
75534 ACAACTAAGAGGTCGCACGATCAGTTGCTGGGCAACCAGCGATGAGTACTTGGCCTCACGATTCC
325 ACAACTAAGAGGTCGCACGATCAGTTGCTGGGCAACCAACGATGAGTACTTGGCATCACGATTCC
*
75599 CTCGATCAGCTGGGCATAATATTGACGGGGTGTTTGGAGGAGCTTGCGAATTTCTTCAACCATTA
390 CTCGATCAGCTGGGCATAATATTGACGGGGTGTTTGGAGGAGCCTGCGAATTTCTTCAACCATTA
** * *
75664 TTCTAAGATGTCGTTTTGTCCATTTGCCCTTATTGAGTTCGAGTAATAGGAGAGGGTTAGTGGAG
455 TTCTAAGATGTCGTTCCGTCCATTTGCCCTTATTGAGTTCGAGCAATAGGAGAGGGTTAGAGGAG
* *
75729 GTACTGACTTGTTAATTATTTCTACTAATCTTAGGGTTGTTGATGGTGTAG
520 GTACTGACTTGTTAATTACTTCTACTAATCTTAGGGTTATTGATGGTGTAG
75780 GGGGCAATTG
Statistics
Matches: 521, Mismatches: 48, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
581 2 0.00
582 519 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (582 bp):
TTGAAAGGGACTAATATGGGGGAACCAGCAGGGTTCTACTACTTTTCCCCTTGTTGGAAGGCGCA
GACGATTATACAAAATCAATGCAATAAACTTCACTTGAAACGGGGGACGTATATCCAAACCTGCA
GCATACTTGGCGAAGACTTTGGGTTCCCAACTAGGTGGTCCTCCCCTAGTGAAGACATGCACGCC
TTCCAGAGGAGTCTTGCCACTAATGAGGCTATCGAGCAACTTCAAAGGCTCTAGAGACAATTCTA
ACTGTGAGGAATGTCTTCAGATTCTACTTGGAGGATCTCAGCCTAAATGGTTGGAGGGCTGGCGA
CAACTAAGAGGTCGCACGATCAGTTGCTGGGCAACCAACGATGAGTACTTGGCATCACGATTCCC
TCGATCAGCTGGGCATAATATTGACGGGGTGTTTGGAGGAGCCTGCGAATTTCTTCAACCATTAT
TCTAAGATGTCGTTCCGTCCATTTGCCCTTATTGAGTTCGAGCAATAGGAGAGGGTTAGAGGAGG
TACTGACTTGTTAATTACTTCTACTAATCTTAGGGTTATTGATGGTGTAGATGAGGTACTAA
Found at i:77159 original size:69 final size:69
Alignment explanation
Indices: 77032--77181 Score: 169
Period size: 69 Copynumber: 2.2 Consensus size: 69
77022 TGTCTTCGAA
* * * **
77032 CCTTGATTGTACAGTTGGGAGCTTTTCTCTTGCTAACTATTTTAAAGGTCGCAGCTCTTCG-CCT
1 CCTTGATTTTACTGTTGGGAGCTTTGCTCTCACTAACTATTTTAAAGGTCGCAGCTCTT-GACCT
*
77096 GCGAG
65 ACGAG
* * * **
77101 CTTTTATTTTACTGTTGGGAGCTTTGGTCTCACTAACTATTTTGGAGGTCGC-GACTCTTGACCT
1 CCTTGATTTTACTGTTGGGAGCTTTGCTCTCACTAACTATTTTAAAGGTCGCAG-CTCTTGACCT
77165 ACGAG
65 ACGAG
77170 CCTTGATTTTAC
1 CCTTGATTTTAC
77182 ATCACTAACT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
68 2 0.03
69 64 0.97
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (69 bp):
CCTTGATTTTACTGTTGGGAGCTTTGCTCTCACTAACTATTTTAAAGGTCGCAGCTCTTGACCTA
CGAG
Found at i:77219 original size:53 final size:53
Alignment explanation
Indices: 77130--77235 Score: 151
Period size: 53 Copynumber: 2.0 Consensus size: 53
77120 AGCTTTGGTC
*
77130 TCACTAACTATTTTGGAGGTCGCGACTCTTGACCTACGAGCCTTGATTTTACA
1 TCACTAACTATTTTGGAGGTCACGACTCTTGACCTACGAGCCTTGATTTTACA
* * * *
77183 TCACTAACTATTTTGGAGGTTACGACTTTTTG-CCTACTAGCTTTGATTTTACA
1 TCACTAACTATTTTGGAGGTCACGAC-TCTTGACCTACGAGCCTTGATTTTACA
77236 GCTAGAAGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 43 0.91
54 4 0.09
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.39
Consensus pattern (53 bp):
TCACTAACTATTTTGGAGGTCACGACTCTTGACCTACGAGCCTTGATTTTACA
Found at i:77580 original size:207 final size:207
Alignment explanation
Indices: 77225--77616 Score: 507
Period size: 207 Copynumber: 1.9 Consensus size: 207
77215 CCTACTAGCT
* * * *** *
77225 TTGATTTTACAGCTAGAAGTTTTGCTCTCGATAATTGTTTTGGAAGTCGCGACCCTTCGTTTGTG
1 TTGATTTTACAGCTAGAAGCTTTGCTCTCGATAACTATTTTGGAAGTCGCGACCCTTCGCCCGCG
* * * * *
77290 AGCCCTGATTTTGAAGTTGAGAGTTTTGCTCTTGCTAATTGCTTTGGAGTTCACGACTCTTCACC
66 AGCCCTGATTTTGAAGCTGAGAGCTTTGCTCTCGCTAACTGCTTTGGAGGTCACGACTCTTCACC
* * *
77355 TGTGAACCTTGATTTTATAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCAGCTCTT
131 TGCGAACCTTAATTTTATAGCTGGGAGCTTTGCTCTCACTAACTGTTTTAGAGGTTGCAGCTCTT
77420 CACCTGCGAGCC
196 CACCTGCGAGCC
* * * * * * *
77432 TTGATTTTACAGCTAGGAGCTTTGCTTTCGCTAACTATTTTGGAGGTCGTGACTCTTTGCCCGCG
1 TTGATTTTACAGCTAGAAGCTTTGCTCTCGATAACTATTTTGGAAGTCGCGACCCTTCGCCCGCG
* * * *
77497 AGCCCTGATTTT-ACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCACGGCTCTTCGC
66 AGCCCTGATTTTGA-AGCTGAGAGCTTTGCTCTCGCTAACTGCTTTGGAGGTCACGACTCTTCAC
* * *
77561 TTGCGAACCTTAATTTTATAGCTGGGAGCTTTGGTCTCACTAACTGTTTTGGAGGT
130 CTGCGAACCTTAATTTTATAGCTGGGAGCTTTGCTCTCACTAACTGTTTTAGAGGT
77617 CCCAACTTTG
Statistics
Matches: 155, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
206 1 0.01
207 154 0.99
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (207 bp):
TTGATTTTACAGCTAGAAGCTTTGCTCTCGATAACTATTTTGGAAGTCGCGACCCTTCGCCCGCG
AGCCCTGATTTTGAAGCTGAGAGCTTTGCTCTCGCTAACTGCTTTGGAGGTCACGACTCTTCACC
TGCGAACCTTAATTTTATAGCTGGGAGCTTTGCTCTCACTAACTGTTTTAGAGGTTGCAGCTCTT
CACCTGCGAGCC
Found at i:77615 original size:69 final size:69
Alignment explanation
Indices: 77225--77617 Score: 360
Period size: 69 Copynumber: 5.7 Consensus size: 69
77215 CCTACTAGCT
* * * * * * * * *** *
77225 TTGATTTTACAGCTAGAAGTTTTGCTCTCGATAATTGTTTTGGAAGTCGCGACCCTTCGTTTGTG
1 TTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCACGACTCTTCACCTGCG
*
77290 AGCC
66 AACC
* * * * * * * * *
77294 CTGATTTTGA-AGTTGAGAGTTTTGCTCTTGCTAATTGCTTTGGAGTTCACGACTCTTCACCTGT
1 TTGATTTT-ACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCACGACTCTTCACCTGC
77358 GAACC
65 GAACC
* *
77363 TTGATTTTATAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCA-G-CTCTTCACCTG
1 TTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGG-T-CACGACTCTTCACCTG
*
77426 CGAGCC
64 CGAACC
* * * ** ** *
77432 TTGATTTTACAGCTAGGAGCTTTGCTTTCGCTAACTATTTTGGAGGTCGTGACTCTTTGCCCGCG
1 TTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCACGACTCTTCACCTGCG
*
77497 AGCC
66 AACC
* * * *
77501 CTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCACGGCTCTTCGCTTGCG
1 TTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCACGACTCTTCACCTGCG
77566 AACC
66 AACC
* * * *
77570 TTAATTTTATAGCTGGGAGCTTTGGTCTCACTAACTGTTTTGGAGGTC
1 TTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTC
77618 CCAACTTTGC
Statistics
Matches: 266, Mismatches: 52, Indels: 12
0.81 0.16 0.04
Matches are distributed among these distances:
67 1 0.00
68 3 0.01
69 257 0.97
70 3 0.01
71 2 0.01
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.37
Consensus pattern (69 bp):
TTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCACGACTCTTCACCTGCG
AACC
Found at i:84157 original size:364 final size:364
Alignment explanation
Indices: 83482--84169 Score: 1225
Period size: 364 Copynumber: 1.9 Consensus size: 364
83472 GATGGTACTA
* *
83482 ACATTCCCTAAGCATCCCTTGGCTTATTAGATGCGTGTCTACGGAGCACGCGGTCCTTTCTGATC
1 ACATTACCTAAGCATCCCTTGGCTTATTAGATGCGTGTCTACGGAGCACGCGGCCCTTTCTGATC
*
83547 CAGGGATTGACTCCTCCAGCGAGCTTCATGCTTGCTAGTCACGAGTAGGGATCCCTTGTAGTGCT
66 CAGGGATTGACTCCTCCAGCGAGCTTCATGCCTGCTAGTCACGAGTAGGGATCCCTTGTAGTGCT
* *
83612 CGTGATCCCTTCTGCGGACATAACTTGCAACCTCATTCCTACGAGGCTTACACGAGCTTTCCTTA
131 CGTGATCCCTTCTGCGAACATAACTTGCAACCTCATTCCTACGAGGCTTACACGAGCTCTCCTTA
*
83677 CAAGCTTTTTGTGCGAGCTATCTTTGCGGACATTTGGCATTCTAGCGGGGTCCCCAACGAACTAT
196 CAAGCTTTCTGTGCGAGCTATCTTTGCGGACATTTGGCATTCTAGCGGGGTCCCCAACGAACTAT
* * *
83742 GCCTGCAGGTGAGCATTCTTTTTCTGAGTCAGATCCGGGTCGAAGATCCGGATCCTATTCGGTCT
261 GACTGCAGGTGAGCATTCTTTTTCCGAGTCAGATCCGGGTCGAAGATCCGGATCCTATTAGGTCT
83807 TGGGGCTGATGGTACTGACATTCCTTGTCCCTGGTGCTG
326 TGGGGCTGATGGTACTGACATTCCTTGTCCCTGGTGCTG
*
83846 ACATTACCTAAGCATCCCTTGGCTTATTGGATGCGTGTCTACGGAGCACGCGGCCCTTTCTGATC
1 ACATTACCTAAGCATCCCTTGGCTTATTAGATGCGTGTCTACGGAGCACGCGGCCCTTTCTGATC
*
83911 CAGGGATTGACTCCTCCAGCGAGCTTCATGCCTGCTAGTCACGAGTGGGGATCCCTTGTAGTGCT
66 CAGGGATTGACTCCTCCAGCGAGCTTCATGCCTGCTAGTCACGAGTAGGGATCCCTTGTAGTGCT
83976 CGTGATCCCTTCTGCGAACATAACTTGCAACCTCATTCCTACGAGGCTTACACGAGCTCTCCTTA
131 CGTGATCCCTTCTGCGAACATAACTTGCAACCTCATTCCTACGAGGCTTACACGAGCTCTCCTTA
84041 CAAGCTTTCTGTGCGAGCTATCTTTGCGGACATTTGGCATT-TCAGCGGGGTCCCCAACGAACTA
196 CAAGCTTTCTGTGCGAGCTATCTTTGCGGACATTTGGCATTCT-AGCGGGGTCCCCAACGAACTA
* * * *
84105 TGATTGTAGGTGAGCATTCTTTTTCCGTGTCAGATCTGGGTCGAAGATCCGGATCCTATTAGGTC
260 TGACTGCAGGTGAGCATTCTTTTTCCGAGTCAGATCCGGGTCGAAGATCCGGATCCTATTAGGTC
84170 ATTTGGGTTG
Statistics
Matches: 308, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
363 1 0.00
364 307 1.00
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.30
Consensus pattern (364 bp):
ACATTACCTAAGCATCCCTTGGCTTATTAGATGCGTGTCTACGGAGCACGCGGCCCTTTCTGATC
CAGGGATTGACTCCTCCAGCGAGCTTCATGCCTGCTAGTCACGAGTAGGGATCCCTTGTAGTGCT
CGTGATCCCTTCTGCGAACATAACTTGCAACCTCATTCCTACGAGGCTTACACGAGCTCTCCTTA
CAAGCTTTCTGTGCGAGCTATCTTTGCGGACATTTGGCATTCTAGCGGGGTCCCCAACGAACTAT
GACTGCAGGTGAGCATTCTTTTTCCGAGTCAGATCCGGGTCGAAGATCCGGATCCTATTAGGTCT
TGGGGCTGATGGTACTGACATTCCTTGTCCCTGGTGCTG
Found at i:88800 original size:14 final size:15
Alignment explanation
Indices: 88772--88800 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88762 ACCTAATTTG
88772 TTTTATTATACTAAT
1 TTTTATTATACTAAT
88787 TTTTATTATA-TAAT
1 TTTTATTATACTAAT
88801 ACATATATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTATTATACTAAT
Found at i:99365 original size:30 final size:30
Alignment explanation
Indices: 99329--99389 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
99319 ATATGTAATG
99329 GTATTTTGGTGAATGTGGTAATGGTGTTTA
1 GTATTTTGGTGAATGTGGTAATGGTGTTTA
99359 GTATTTTGGTGAATGTGGTAATGGTGTTTA
1 GTATTTTGGTGAATGTGGTAATGGTGTTTA
99389 G
1 G
99390 GCATGTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (30 bp):
GTATTTTGGTGAATGTGGTAATGGTGTTTA
Found at i:104074 original size:17 final size:17
Alignment explanation
Indices: 104052--104094 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
104042 ATAGATCATC
*
104052 GGAAGCTTGATTTGGTT
1 GGAAGCTCGATTTGGTT
104069 GGAAGCTCGATTTGGTT
1 GGAAGCTCGATTTGGTT
104086 GGAAGCTCG
1 GGAAGCTCG
104095 TCGGAGACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.19, C:0.12, G:0.37, T:0.33
Consensus pattern (17 bp):
GGAAGCTCGATTTGGTT
Found at i:109175 original size:104 final size:104
Alignment explanation
Indices: 108952--109179 Score: 276
Period size: 104 Copynumber: 2.2 Consensus size: 104
108942 AAACTTCAAC
* * * * ** *
108952 ACAGCTCGCAATCCTATGCTCTTAGCTGATGTTTAAAGGTTAGATGAGTTATACTCTTACCCTTC
1 ACAGCTCGCAAACCTACGCTCTCAACTGATGTTTAAAGGTTAGATGAGTTATACTCACAACCTTC
**
109017 ATTTATGTGAGTAAGTTGAGTGAAGCTCGCTACTTTGAA
66 ATTTATGTGAGTAAGTTGAGTGAAGCTCGCTACTCCGAA
* *** * *
109056 ACAGTTCGTGGACCTACGCTCTCAACTGATGTTTTAAGGTTAGATGAGTTATACTCACAACCTTT
1 ACAGCTCGCAAACCTACGCTCTCAACTGATGTTTAAAGGTTAGATGAGTTATACTCACAACCTTC
* * *
109121 ATTTATTTGAGTAAGTTGAGTTAAGCTCGCTACTCCGGA
66 ATTTATGTGAGTAAGTTGAGTGAAGCTCGCTACTCCGAA
* *
109160 ATAGCTCACAAACCTACGCT
1 ACAGCTCGCAAACCTACGCT
109180 ACTAGCCGAC
Statistics
Matches: 100, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
104 100 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (104 bp):
ACAGCTCGCAAACCTACGCTCTCAACTGATGTTTAAAGGTTAGATGAGTTATACTCACAACCTTC
ATTTATGTGAGTAAGTTGAGTGAAGCTCGCTACTCCGAA
Found at i:109574 original size:16 final size:16
Alignment explanation
Indices: 109553--109583 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109543 TATTAGTAAA
*
109553 TCAACTTAAAATTTTT
1 TCAACTCAAAATTTTT
109569 TCAACTCAAAATTTT
1 TCAACTCAAAATTTT
109584 CATTCCATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (16 bp):
TCAACTCAAAATTTTT
Found at i:111486 original size:43 final size:44
Alignment explanation
Indices: 111381--111495 Score: 146
Period size: 43 Copynumber: 2.6 Consensus size: 44
111371 TGTGATTTCG
* *
111381 TGTAAGACCACGTCTGGGACGTCGGCATCGAATTGAGATTTACA
1 TGTAAGACCTCGTCTGGGACGTAGGCATCGAATTGAGATTTACA
* *
111425 TGTAAGACCTTGTCTGGGACAGT-GGCATCGATATT-TGA-TTACA
1 TGTAAGACCTCGTCTGGGAC-GTAGGCATCGA-ATTGAGATTTACA
*
111468 TGTAAGACCTCGTTTGGGACGTAGGCAT
1 TGTAAGACCTCGTCTGGGACGTAGGCAT
111496 TGTACAAGTT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
42 2 0.03
43 28 0.44
44 28 0.44
45 5 0.08
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (44 bp):
TGTAAGACCTCGTCTGGGACGTAGGCATCGAATTGAGATTTACA
Found at i:115468 original size:33 final size:33
Alignment explanation
Indices: 115427--115544 Score: 132
Period size: 33 Copynumber: 3.6 Consensus size: 33
115417 TATTCTCTGT
115427 TTGGTGTGTTGGTTGGATTAGCTCTTGTGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTGTGAGCA
* * * *
115460 TTGATGTGTTGGTTGG--TAACTCTTATGAGTA
1 TTGGTGTGTTGGTTGGATTAGCTCTTGTGAGCA
** * *
115491 TTGGTGTGTTGGAGGGATTGGCTCATGTGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTGTGAGCA
115524 TATGGTGTGTTTGGTTGGATT
1 T-TGGTGTG-TTGGTTGGATT
115545 GACGATGTAC
Statistics
Matches: 67, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
31 25 0.37
33 26 0.39
34 7 0.10
35 9 0.13
ACGTcount: A:0.14, C:0.07, G:0.36, T:0.42
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCTTGTGAGCA
Found at i:115471 original size:29 final size:30
Alignment explanation
Indices: 115438--115503 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 30
115428 TGGTGTGTTG
* *
115438 GTTGGAT-TAGCTCTTGTGAGCATTGATGT
1 GTTGGATGTAACTCTTATGAGCATTGATGT
* * *
115467 GTTGGTTGGTAACTCTTATGAGTATTGGTGT
1 GTTGGAT-GTAACTCTTATGAGCATTGATGT
115498 GTTGGA
1 GTTGGA
115504 GGGATTGGCT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
29 6 0.21
31 23 0.79
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (30 bp):
GTTGGATGTAACTCTTATGAGCATTGATGT
Found at i:116942 original size:50 final size:50
Alignment explanation
Indices: 116837--117126 Score: 239
Period size: 50 Copynumber: 5.7 Consensus size: 50
116827 TAAAGAGATT
* ** * *
116837 CCATGTAAGACCATGTTTGGGAGATGGCATTGGCATCATTGAGATTATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACTTGGCATTGGCA-C--CGAG---ATGAAAGGTC
*
116893 CCATGTAAGACCATGTCTGGGACTTGGCGTTGGCACCGAGATGAAAGGTC
1 CCATGTAAGACCATGTCTGGGACTTGGCATTGGCACCGAGATGAAAGGTC
* *
116943 CCATGTAAGACCATGTCTGGGACTTGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACTTGGCATTGGCACCGAGATGAAAGGTC
** * * * * * *
116993 CCCCGTAAGACCATGTTTGGGACATGGCATGGGCGCCGATATGAGAA-CTC
1 CCATGTAAGACCATGTCTGGGACTTGGCATTGGCACCGAGATGA-AAGGTC
* * * **
117043 CCATGTAAGACCATAG-CTGGGA-TATGGCATTGGCA--GTACAAGTAACATC
1 CCATGTAAGACCAT-GTCTGGGACT-TGGCATTGGCACCG-AGATGAAAGGTC
* * *
117092 CTATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CCATGTAAGACCATGTCTGGGACTTGGCATTGGCA
117127 TGTAATTATT
Statistics
Matches: 197, Mismatches: 30, Indels: 21
0.79 0.12 0.08
Matches are distributed among these distances:
48 4 0.02
49 34 0.17
50 122 0.62
51 2 0.01
53 3 0.02
55 1 0.01
56 31 0.16
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACTTGGCATTGGCACCGAGATGAAAGGTC
Found at i:117240 original size:25 final size:25
Alignment explanation
Indices: 117207--117268 Score: 97
Period size: 25 Copynumber: 2.4 Consensus size: 25
117197 TATTTTCCAT
117207 GAAAGTTCAGGTAAAAGCATAAATAG
1 GAAA-TTCAGGTAAAAGCATAAATAG
117233 GAAATTCAGGTAAAAGCATAAATAG
1 GAAATTCAGGTAAAAGCATAAATAG
* *
117258 CAAATTTAGGT
1 GAAATTCAGGT
117269 GAGTTATAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
25 30 0.88
26 4 0.12
ACGTcount: A:0.48, C:0.08, G:0.21, T:0.23
Consensus pattern (25 bp):
GAAATTCAGGTAAAAGCATAAATAG
Found at i:138062 original size:23 final size:23
Alignment explanation
Indices: 138036--138086 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
138026 GCAAAAGATG
138036 TGTAATATCACGAAAATTACTAC
1 TGTAATATCACGAAAATTACTAC
**
138059 TGTAATATCTTGAAAATTACTAC
1 TGTAATATCACGAAAATTACTAC
*
138082 AGTAA
1 TGTAA
138087 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (23 bp):
TGTAATATCACGAAAATTACTAC
Found at i:140728 original size:9 final size:9
Alignment explanation
Indices: 140714--140789 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
140704 TTTGTTTAAA
140714 AATTAACCG
1 AATTAACCG
140723 AATTAACCG
1 AATTAACCG
*
140732 AATTACCCG
1 AATTAACCG
*
140741 AATTACCCG
1 AATTAACCG
*
140750 AATTAACTG
1 AATTAACCG
*
140759 AATTACCCG
1 AATTAACCG
140768 AATTAACCG
1 AATTAACCG
*
140777 AGTTAACCG
1 AATTAACCG
140786 AATT
1 AATT
140790 GAATCACTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:140750 original size:27 final size:27
Alignment explanation
Indices: 140714--140789 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
140704 TTTGTTTAAA
140714 AATTAACCGAATTAACCGAATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
* *
140741 AATTACCCGAATTAACTGAATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
*
140768 AATTAACCGAGTTAACCGAATT
1 AATTAACCGAATTAACCGAATT
140790 GAATCACTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.25
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTACCCG
Found at i:140874 original size:6 final size:6
Alignment explanation
Indices: 140863--140891 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
140853 TTGTTTAGAC
140863 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
140892 AATTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
TTTAGT
Found at i:140955 original size:18 final size:18
Alignment explanation
Indices: 140932--140975 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
140922 AATTTTTATG
*
140932 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGATA
140950 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
140968 CTTGGGTT
1 ATTGGGTT
140976 TGGATTGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.11, C:0.02, G:0.45, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:146998 original size:10 final size:9
Alignment explanation
Indices: 146983--147049 Score: 55
Period size: 10 Copynumber: 7.0 Consensus size: 9
146973 ACTCCTTTCC
146983 ATAATTTTAT
1 ATAATTTT-T
146993 ATAATTTTT
1 ATAATTTTT
147002 -TAATATTTTT
1 AT-A-ATTTTT
*
147012 GTAATTTTAT
1 ATAATTTT-T
*
147022 ATTATTTTT
1 ATAATTTTT
*
147031 AATAAATTTT
1 -ATAATTTTT
147041 ATAATTTTT
1 ATAATTTTT
147050 TAAAAATTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
8 1 0.02
9 16 0.34
10 29 0.62
11 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (9 bp):
ATAATTTTT
Found at i:147028 original size:29 final size:29
Alignment explanation
Indices: 146983--147048 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
146973 ACTCCTTTCC
*
146983 ATAATTTTATATAATTTTTTAAT-ATTTTT
1 ATAATTTTATATAA-TTTTTAATAAATTTT
* *
147012 GTAATTTTATATTATTTTTAATAAATTTT
1 ATAATTTTATATAATTTTTAATAAATTTT
147041 ATAATTTT
1 ATAATTTT
147049 TTAAAAATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 8 0.25
29 24 0.75
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (29 bp):
ATAATTTTATATAATTTTTAATAAATTTT
Found at i:147040 original size:21 final size:19
Alignment explanation
Indices: 147014--147057 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
147004 ATATTTTTGT
*
147014 AATTTTATATTATTTTTAATA
1 AATTTTATAAT-TTTTTAA-A
147035 AATTTTATAATTTTTTAAA
1 AATTTTATAATTTTTTAAA
147054 AATT
1 AATT
147058 CTAATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 7 0.32
21 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTTTATAATTTTTTAAA
Found at i:147056 original size:19 final size:21
Alignment explanation
Indices: 146987--147057 Score: 71
Period size: 19 Copynumber: 3.6 Consensus size: 21
146977 CTTTCCATAA
*
146987 TTTT-ATATAATTTTTTAATAT
1 TTTTAATA-AATTTTATAATAT
* *
147008 TTTT-GT-AATTTTATATTAT
1 TTTTAATAAATTTTATAATAT
147027 TTTTAATAAATTTTATAAT-T
1 TTTTAATAAATTTTATAATAT
147047 TTTTAA-AAATT
1 TTTTAATAAATT
147058 CTAATTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 20 0.47
20 8 0.19
21 15 0.35
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (21 bp):
TTTTAATAAATTTTATAATAT
Found at i:147934 original size:24 final size:24
Alignment explanation
Indices: 147907--147958 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
147897 TTAGTAAGTC
*
147907 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
147931 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
147955 AAAT
1 AAAT
147959 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:149690 original size:24 final size:24
Alignment explanation
Indices: 149663--149715 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
149653 ATTAGTAAGT
*
149663 TAAATAAACTATACTAATAAATGC
1 TAAATAAACTATACTAATAAATAC
* *
149687 TAAATATATTATACTAATAAATAC
1 TAAATAAACTATACTAATAAATAC
149711 TAAAT
1 TAAAT
149716 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (24 bp):
TAAATAAACTATACTAATAAATAC
Found at i:157700 original size:16 final size:17
Alignment explanation
Indices: 157679--157712 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
157669 AATAAAAAAT
*
157679 TAAAATTAT-TAAATAC
1 TAAAATAATATAAATAC
157695 TAAAATAATATAAATAC
1 TAAAATAATATAAATAC
157712 T
1 T
157713 TTTTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAATAATATAAATAC
Found at i:160439 original size:23 final size:22
Alignment explanation
Indices: 160387--160450 Score: 85
Period size: 23 Copynumber: 2.9 Consensus size: 22
160377 CTCACCACTT
*
160387 TTTGGTTGTGTTTGGGGGTATA
1 TTTGGTTGTGTTTGAGGGTATA
160409 -TTGGTTGTGTTTGAAGGGTATA
1 TTTGGTTGTGTTTG-AGGGTATA
*
160431 TTTGGTTGTGCTTGGAGGGT
1 TTTGGTTGTG-TTTGAGGGT
160451 GATAGTTCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 13 0.35
22 7 0.19
23 14 0.38
24 3 0.08
ACGTcount: A:0.11, C:0.02, G:0.41, T:0.47
Consensus pattern (22 bp):
TTTGGTTGTGTTTGAGGGTATA
Found at i:162094 original size:43 final size:43
Alignment explanation
Indices: 161988--162255 Score: 319
Period size: 43 Copynumber: 6.3 Consensus size: 43
161978 TTTTTGAAAT
* * *
161988 AAACGCTGCTATAGGTCAGGACCTTTAGCGGCGC-TTTTACAC
1 AAACGCCGCTATAGCTCAGGACCTTTAGCGGCGCTTTTTCCAC
* *
162030 AAACGCCGCTATAGGTTAGGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGCTCAGGACCTTTAGCGGCGCTTTTTCCAC
* *
162073 AAACACCGATATAGCTCAGGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGCTCAGGACCTTTAGCGGCGCTTTTTCCAC
* * * * *
162116 AAATGCCGCTATAGATCAGGACCTTTAGCGACGCTTTTCCCAA
1 AAACGCCGCTATAGCTCAGGACCTTTAGCGGCGCTTTTTCCAC
* *
162159 AAACGTCGCTATAGCTCAAGACCTTTAGCGGCG-TTTTTCCCAC
1 AAACGCCGCTATAGCTCAGGACCTTTAGCGGCGCTTTTT-CCAC
* * **
162202 AGACGCCGCTATAGCTCAAGACCTTTAGCAACGCTTTGATT--AC
1 AAACGCCGCTATAGCTCAGGACCTTTAGCGGCGCTTT--TTCCAC
162245 AAACGCCGCTA
1 AAACGCCGCTA
162256 AAAGTATCGT
Statistics
Matches: 195, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
42 36 0.18
43 154 0.79
44 3 0.02
46 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGCTCAGGACCTTTAGCGGCGCTTTTTCCAC
Found at i:162347 original size:16 final size:16
Alignment explanation
Indices: 162326--162359 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
162316 AAAAATTAAA
*
162326 TATTAAAATAAAACAT
1 TATTAAAATAAAAAAT
*
162342 TATTAATATAAAAAAT
1 TATTAAAATAAAAAAT
162358 TA
1 TA
162360 ATTAGTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
TATTAAAATAAAAAAT
Found at i:164638 original size:9 final size:9
Alignment explanation
Indices: 164624--164806 Score: 93
Period size: 9 Copynumber: 20.7 Consensus size: 9
164614 TATAATGTAT
164624 TAAGTTATG
1 TAAGTTATG
164633 TAAG-T-TG
1 TAAGTTATG
164640 TAAGTTATG
1 TAAGTTATG
*
164649 TATA-ATAT-
1 TA-AGTTATG
164657 TAA-TTAAT-
1 TAAGTT-ATG
164665 TAAGTTATG
1 TAAGTTATG
164674 TAAGTTATG
1 TAAGTTATG
*
164683 TATAATATTAATG
1 --TAA-GTT-ATG
164696 TAAGTTATG
1 TAAGTTATG
164705 T-A-TTATG
1 TAAGTTATG
*
164712 TAAGTTATT
1 TAAGTTATG
*
164721 TAAGTTACG
1 TAAGTTATG
*
164730 TAAGTTGTG
1 TAAGTTATG
164739 T-A-TTATG
1 TAAGTTATG
*
164746 TGAGTTATG
1 TAAGTTATG
* *
164755 CAATTTATG
1 TAAGTTATG
* * *
164764 TAGGCTATA
1 TAAGTTATG
164773 T-A-TTATG
1 TAAGTTATG
164780 TAAGTTATTATG
1 TAAG---TTATG
164792 TAAGTTATG
1 TAAGTTATG
*
164801 CAAGTT
1 TAAGTT
164807 TATATATAAG
Statistics
Matches: 133, Mismatches: 22, Indels: 38
0.69 0.11 0.20
Matches are distributed among these distances:
7 23 0.17
8 16 0.12
9 71 0.53
10 3 0.02
11 6 0.05
12 11 0.08
13 3 0.02
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:164680 original size:34 final size:37
Alignment explanation
Indices: 164638--164719 Score: 125
Period size: 34 Copynumber: 2.3 Consensus size: 37
164628 TTATGTAAGT
164638 TGTAAGTTATGTATAATATTAAT-TAA-TTAAG-TTA
1 TGTAAGTTATGTATAATATTAATGTAAGTTAAGATTA
*
164672 TGTAAGTTATGTATAATATTAATGTAAGTTATGTATTA
1 TGTAAGTTATGTATAATATTAATGTAAGTTAAG-ATTA
164710 TGTAAGTTAT
1 TGTAAGTTAT
164720 TTAAGTTACG
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
34 23 0.53
35 3 0.07
36 4 0.09
38 13 0.30
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.48
Consensus pattern (37 bp):
TGTAAGTTATGTATAATATTAATGTAAGTTAAGATTA
Found at i:164790 original size:12 final size:11
Alignment explanation
Indices: 164775--164863 Score: 69
Period size: 12 Copynumber: 8.0 Consensus size: 11
164765 AGGCTATATA
164775 TTATGTAAGTT
1 TTATGTAAGTT
164786 ATTATGTAAG--
1 -TTATGTAAGTT
*
164796 TTATGCAAGTT
1 TTATGTAAGTT
*
164807 TATATATAAGTTT
1 T-TATGTAAG-TT
*
164820 TTATATAAG--
1 TTATGTAAGTT
164829 TTATGTAAGTT
1 TTATGTAAGTT
164840 ATTATGTAAGTT
1 -TTATGTAAGTT
*
164852 TATATATAAGTT
1 T-TATGTAAGTT
164864 ATGATATGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
9 16 0.25
11 2 0.03
12 43 0.67
13 3 0.05
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.49
Consensus pattern (11 bp):
TTATGTAAGTT
Found at i:164829 original size:33 final size:33
Alignment explanation
Indices: 164773--164866 Score: 118
Period size: 33 Copynumber: 2.8 Consensus size: 33
164763 GTAGGCTATA
* * *
164773 TATTATGTAAGTTATTATGTAAGTTATGCAAGT
1 TATTATATAAGTTTTTATATAAGTTATGCAAGT
*
164806 T-TATATATAAGTTTTTATATAAGTTATGTAAGT
1 TAT-TATATAAGTTTTTATATAAGTTATGCAAGT
* *
164839 TATTATGTAAGTTTATATATAAGTTATG
1 TATTATATAAGTTTTTATATAAGTTATG
164867 ATATGATTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
32 1 0.02
33 51 0.96
34 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.49
Consensus pattern (33 bp):
TATTATATAAGTTTTTATATAAGTTATGCAAGT
Found at i:164865 original size:21 final size:20
Alignment explanation
Indices: 164775--164866 Score: 60
Period size: 21 Copynumber: 4.2 Consensus size: 20
164765 AGGCTATATA
*
164775 TTATGTAAGTTATTATGTAAG
1 TTATGTAAGTTA-TATATAAG
*
164796 TTATGCAAGTTTATATATAAG
1 TTATGTAAG-TTATATATAAG
* * *
164817 TTTTTATATAAGTTATGTAAGTTA-
1 ---TTATGTAAGTTATAT-A-TAAG
164841 TTATGTAAGTTTATATATAAG
1 TTATGTAAG-TTATATATAAG
164862 TTATG
1 TTATG
164867 ATATGATTGA
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
20 2 0.04
21 29 0.54
22 8 0.15
23 5 0.09
24 8 0.15
25 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.49
Consensus pattern (20 bp):
TTATGTAAGTTATATATAAG
Found at i:164870 original size:12 final size:11
Alignment explanation
Indices: 164806--164870 Score: 53
Period size: 12 Copynumber: 5.7 Consensus size: 11
164796 TTATGCAAGT
164806 TTATATATAAG
1 TTATATATAAG
*
164817 TTTTTATATAAG
1 -TTATATATAAG
*
164829 -T-TATGTAAG
1 TTATATATAAG
*
164838 TTATTATGTAAG
1 TTA-TATATAAG
164850 TTTATATATAAG
1 -TTATATATAAG
164862 TTATGATAT
1 TTAT-ATAT
164871 GATTGATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
9 7 0.16
10 2 0.04
11 4 0.09
12 29 0.64
13 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (11 bp):
TTATATATAAG
Found at i:166227 original size:83 final size:83
Alignment explanation
Indices: 166140--166330 Score: 199
Period size: 83 Copynumber: 2.3 Consensus size: 83
166130 TATATTTGCA
** * * *
166140 GCGTTTTTAGCAAAAACGCCACTAAAAATTAACTTATTGAA-TAGAAACGGCGCCGTTTT-AAGA
1 GCGTTTTTAGCAAAAACGCCACTAAAAATTAAAGTACTGAAGT-GAAACAGCGACGTTTTGAA-A
* *
166203 AACTTTAATCCAT-AGTTCCG
64 AACATTAATACATCA-TTCCG
** * * * *
166223 GCGTTTTCCGTAAAAACGCCACTAAAATTTAAAGTCCTGAAGTGAAACAGTGACGTTTTGAAAAA
1 GCGTTTTTAGCAAAAACGCCACTAAAAATTAAAGTACTGAAGTGAAACAGCGACGTTTTGAAAAA
*
166288 CATTAATACATCATTGCG
66 CATTAATACATCATTCCG
*
166306 GCGTTTTTAGCATAAACGCCACTAA
1 GCGTTTTTAGCAAAAACGCCACTAA
166331 TAGATTACAC
Statistics
Matches: 87, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
83 83 0.95
84 4 0.05
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (83 bp):
GCGTTTTTAGCAAAAACGCCACTAAAAATTAAAGTACTGAAGTGAAACAGCGACGTTTTGAAAAA
CATTAATACATCATTCCG
Found at i:166895 original size:21 final size:22
Alignment explanation
Indices: 166840--166892 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
166830 AACGTCTAAC
*
166840 CCCTAACCCTTAAACCTTAAAT
1 CCCTAACCCTTAAACCATAAAT
166862 CCC-AACCCTTAAACCAT-AAT
1 CCCTAACCCTTAAACCATAAAT
166882 CCCTAATCCCT
1 CCCTAA-CCCT
166893 AAATTCATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 6 0.21
21 15 0.54
22 7 0.25
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.25
Consensus pattern (22 bp):
CCCTAACCCTTAAACCATAAAT
Found at i:167637 original size:41 final size:40
Alignment explanation
Indices: 167566--167865 Score: 304
Period size: 41 Copynumber: 7.3 Consensus size: 40
167556 TAAAATGTTT
* *
167566 TTAGCGGCGCTTTT-AAAAAAGCGCCACTAAAGACCCCAGCA
1 TTAGCGGCGCTTTTCCAAAAA-CGCCGCTAAAG-CCCCAGCA
**
167607 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGCCAAAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAA-GCCCCAGCA
** * * * *
167648 TTAGCAACAG-TTCTCCAAAAACGTCGCTAAAGGCCACAACA
1 TTAGCGGC-GCTTTTCCAAAAACGCCGCTAAA-GCCCCAGCA
*
167689 TTAGCGGCGCTTTACCAAAAACGCCGCTAAAGCCCACAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCC-CAGCA
*
167730 TTAGCGGCGCTTTTCAAAAAACGCCGCTAAAGCCTCCAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCC-CCAGCA
* * * *
167771 TTAGCGGCGC-TTCCCTAAAAACGTCGTTAAAGCCCCAACCA
1 TTAGCGGCGCTTTTCC-AAAAACGCCGCTAAAGCCCC-AGCA
* *
167812 TTAGCGGCGCTTCAT-C-AAAACGCCGCTATAGCCCCGAGCA
1 TTAGCGGCGCTT-TTCCAAAAACGCCGCTAAAGCCCC-AGCA
167852 TTAGCGGCGCTTTT
1 TTAGCGGCGCTTTT
167866 TTGAAATCGC
Statistics
Matches: 217, Mismatches: 32, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
39 1 0.00
40 40 0.18
41 166 0.76
42 10 0.05
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (40 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCAGCA
Found at i:167791 original size:123 final size:121
Alignment explanation
Indices: 167566--167865 Score: 369
Period size: 123 Copynumber: 2.4 Consensus size: 121
167556 TAAAATGTTT
* *
167566 TTAGCGGCGCTTTTA-AAAAAGCGCCACTAAAGACCCCAGCATTAGCGGCGCTTTTCCAAAAACG
1 TTAGCGGCGC-TTTACAAAAA-CGCCGCTAAAG-CCCCAGCATTAGCGGCGCTTTTCAAAAAACG
167630 CCGCTAAAGGCCAAAGCATTAGCAACAGTTCTCCAAAAACGTCGCTAAAGGCCACAA-CA
63 CCGCTAAAGGCCAAAGCATTAGCAACAGTTCTCCAAAAACGTCGCTAAA-GCCACAACCA
167689 TTAGCGGCGCTTTACCAAAAACGCCGCTAAAGCCCACAGCATTAGCGGCGCTTTTCAAAAAACGC
1 TTAGCGGCGCTTTA-CAAAAACGCCGCTAAAGCCC-CAGCATTAGCGGCGCTTTTCAAAAAACGC
** ** * *
167754 CGCTAAA-GCCTCCAGCATTAGCGGC-GCTTC-CCTAAAAACGTCGTTAAAGCCCCAACCA
64 CGCTAAAGGCC-AAAGCATTAGCAACAG-TTCTCC-AAAAACGTCGCTAAAGCCACAACCA
* *
167812 TTAGCGGCGCTTCATC-AAAACGCCGCTATAGCCCCGAGCATTAGCGGCGCTTTT
1 TTAGCGGCGCTTTA-CAAAAACGCCGCTAAAGCCCC-AGCATTAGCGGCGCTTTT
167866 TTGAAATCGC
Statistics
Matches: 158, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
121 1 0.01
122 54 0.34
123 98 0.62
124 5 0.03
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (121 bp):
TTAGCGGCGCTTTACAAAAACGCCGCTAAAGCCCCAGCATTAGCGGCGCTTTTCAAAAAACGCCG
CTAAAGGCCAAAGCATTAGCAACAGTTCTCCAAAAACGTCGCTAAAGCCACAACCA
Found at i:168035 original size:41 final size:40
Alignment explanation
Indices: 167948--168040 Score: 114
Period size: 41 Copynumber: 2.3 Consensus size: 40
167938 CTTAAAAGCA
* *** *
167948 CTGCTAATGCTCCTTTTTAGCGACTTTTTTTTTAAAATCG
1 CTGCTAATGCTCCTTTTTAGCGACGTTTTTAAAAAAAACG
* *
167988 CGGCTAATGCTCCTTTTTTAGCGGCGTTTTTAAAAAAAACG
1 CTGCTAATGCTCC-TTTTTAGCGACGTTTTTAAAAAAAACG
168029 CTGCTAATGCTC
1 CTGCTAATGCTC
168041 GATTTTTGCC
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 12 0.27
41 32 0.73
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.40
Consensus pattern (40 bp):
CTGCTAATGCTCCTTTTTAGCGACGTTTTTAAAAAAAACG
Found at i:169341 original size:30 final size:31
Alignment explanation
Indices: 169285--169350 Score: 98
Period size: 30 Copynumber: 2.1 Consensus size: 31
169275 AGATTAAAGC
*
169285 TTTTATTTTGAAATACTTGAAAAAAATCAAAA
1 TTTTATTTCGAAATACTT-AAAAAAATCAAAA
*
169317 TTTTATTTCGAAATAGTT-AAAAAATCAAAA
1 TTTTATTTCGAAATACTTAAAAAAATCAAAA
169347 TTTT
1 TTTT
169351 GTTTTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 16 0.50
32 16 0.50
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (31 bp):
TTTTATTTCGAAATACTTAAAAAAATCAAAA
Found at i:169428 original size:178 final size:179
Alignment explanation
Indices: 169128--169653 Score: 740
Period size: 178 Copynumber: 3.0 Consensus size: 179
169118 TAATTTTCTT
169128 AAAAATCAAAATTTTATTTCGAAATAGTTAAAAAAATCAAAATTTTGTTTTAAAATTTTAAACTT
1 AAAAATCAAAATTTTATTTCGAAATAGTT-AAAAAATCAAAATTTTGTTTTAAAATTTTAAACTT
*
169193 TCCTTTTAAAATTACTTAAAAAAATATATTTTTATTTTCCAAAATCTAAAGTTTCTCTTT-AAAA
65 TCCTTTTAAAATTACTTAAAAAAATATATTTTTATTTTCCAAAATCTAAACTTTCTCTTTAAAAA
169257 AAAAACTATTTTTCTTAAAGATTAAAGCTTTTATTTTGAAATACTTG-AA
130 AAAAACTATTTTTCTTAAAGATTAAAGCTTTTATTTTGAAATACTTGAAA
169306 AAAAATCAAAATTTTATTTCGAAATAGTTAAAAAATCAAAATTTTGTTTTAAAATTTTAAACTTT
1 AAAAATCAAAATTTTATTTCGAAATAGTTAAAAAATCAAAATTTTGTTTTAAAATTTTAAACTTT
169371 CCTTTTAAAATTACTTAAAAAATATATATTTTTATTTTCCAAAATCTAAACTTTCTCTTTAAAAA
66 CCTTTTAAAATTACTTAAAAAA-ATATATTTTTATTTTCCAAAATCTAAACTTTCTCTTT-AAAA
*
169436 AAAAACACTATTTTTCTTAAAGATTAAAGCTTTTATTTTGAAATAGTTGAAA
129 AAAAA-ACTATTTTTCTTAAAGATTAAAGCTTTTATTTTGAAATACTTGAAA
* * * *
169488 AAAAATCAAAA--GTA---C----T--TGAAAAAATCAAAACTTTGTTTTAAAATTTCAAACTTT
1 AAAAATCAAAATTTTATTTCGAAATAGTTAAAAAATCAAAATTTTGTTTTAAAATTTTAAACTTT
* * * * *
169542 CC-TTTAAAATAACTAAAAAAAAAAAAACAGATTTTTAATTTT-CAAAAACTAAACTTTCTCATT
66 CCTTTTAAAATTACT-----TAAAAAAATATATTTTT-ATTTTCCAAAATCTAAACTTTCTC-TT
*
169605 TAAAAAAAAAACTATTTTTCTTAAAGATTAAAGCTTTTACTTTGAAATA
124 TAAAAAAAAAACTATTTTTCTTAAAGATTAAAGCTTTTATTTTGAAATA
169654 GTTTATATAT
Statistics
Matches: 324, Mismatches: 12, Indels: 29
0.89 0.03 0.08
Matches are distributed among these distances:
170 11 0.03
171 37 0.11
173 39 0.12
174 34 0.10
175 14 0.04
177 59 0.18
178 65 0.20
180 10 0.03
181 42 0.13
182 13 0.04
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (179 bp):
AAAAATCAAAATTTTATTTCGAAATAGTTAAAAAATCAAAATTTTGTTTTAAAATTTTAAACTTT
CCTTTTAAAATTACTTAAAAAAATATATTTTTATTTTCCAAAATCTAAACTTTCTCTTTAAAAAA
AAAACTATTTTTCTTAAAGATTAAAGCTTTTATTTTGAAATACTTGAAA
Found at i:169700 original size:90 final size:91
Alignment explanation
Indices: 169572--169747 Score: 295
Period size: 91 Copynumber: 1.9 Consensus size: 91
169562 AAAAAAACAG
169572 ATTTTTAATTTTCAAAAACTAAACTTTCTCATTTAAAAAAAAA-ACTATTTTTCTTAAAGATTAA
1 ATTTTTAATTTTCAAAAACTAAACTTTCTCATTTAAAAAAAAACACTATTTTTCTTAAAGATTAA
169636 AGCTTTTACTTTGAAATAGTTTATAT
66 AGCTTTTACTTTGAAATAGTTTATAT
*
169662 ATTTTT-ATTTTCCAAAATCTAAACTTTCTC-TTTAAAAAAAAAACACTATTTTTCTTAAAGATT
1 ATTTTTAATTTT-CAAAAACTAAACTTTCTCATTT-AAAAAAAAACACTATTTTTCTTAAAGATT
*
169725 AAAGCTTTTATTTTGAAATAGTT
64 AAAGCTTTTACTTTGAAATAGTT
169748 GAAAAAAAAT
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
89 8 0.10
90 32 0.40
91 41 0.51
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.45
Consensus pattern (91 bp):
ATTTTTAATTTTCAAAAACTAAACTTTCTCATTTAAAAAAAAACACTATTTTTCTTAAAGATTAA
AGCTTTTACTTTGAAATAGTTTATAT
Found at i:169881 original size:151 final size:150
Alignment explanation
Indices: 169660--170003 Score: 520
Period size: 151 Copynumber: 2.3 Consensus size: 150
169650 AATAGTTTAT
*
169660 ATATTTTTATTTTCCAAAATCTAAACTTTCTC--TTTAAAAAAAAAACACTATTTTTCTTAAAGA
1 ATATTTTTATTTTTCAAAATCTAAACTTTCTCTTTTTAAAAAAAAAACACTATTTTTCTTAAAGA
* **
169723 TTAAAGCTTTTATTTTGAAATAGTTGAAAAAAAATCAAAAA-TTTGTTTTAAAATTTTAAACTTT
66 TTAAAGCTTTTACTTTGAAATAGTTGAAAAAAAAT-AAAAATTTTGTTTTAAAAAATTAAACTTT
*
169787 CCTTTAAAATGACTAAAAAACA
130 CCTTTAAAATAACTAAAAAA-A
*
169809 A-ATTTTTTATTTTTCAAAAACTAAACTTTCTCCTTTTTAAAAAAAAAA-ACTATTTTTCTTAAA
1 ATA-TTTTTATTTTTCAAAATCTAAACTTTCT-CTTTTTAAAAAAAAAACACTATTTTTCTTAAA
*
169872 GATTAAAGCTTTTACTTTGAAATAGTTGAAAAAAAATAAAAATTTTGTTTTAAAAAATTGAACTT
64 GATTAAAGCTTTTACTTTGAAATAGTTGAAAAAAAATAAAAATTTTGTTTTAAAAAATTAAACTT
169937 TCCTTTAAAATAACTAAAAAAA
129 TCCTTTAAAATAACTAAAAAAA
* *
169959 CTATTTTTATTTGTT-AAAATCTAAACTTTCTCTTATTAAAAAAAA
1 ATATTTTTATTT-TTCAAAATCTAAACTTTCTCTTTTTAAAAAAAA
170004 TCAAAATTTT
Statistics
Matches: 178, Mismatches: 10, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
148 1 0.01
149 40 0.22
150 31 0.17
151 93 0.52
152 13 0.07
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.41
Consensus pattern (150 bp):
ATATTTTTATTTTTCAAAATCTAAACTTTCTCTTTTTAAAAAAAAAACACTATTTTTCTTAAAGA
TTAAAGCTTTTACTTTGAAATAGTTGAAAAAAAATAAAAATTTTGTTTTAAAAAATTAAACTTTC
CTTTAAAATAACTAAAAAAA
Found at i:170765 original size:16 final size:16
Alignment explanation
Indices: 170744--170774 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
170734 TGGGCCTCTA
170744 AATGCAATGAAAAGTC
1 AATGCAATGAAAAGTC
170760 AATGCAATGAAAAGT
1 AATGCAATGAAAAGT
170775 AAACTAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (16 bp):
AATGCAATGAAAAGTC
Found at i:170828 original size:42 final size:42
Alignment explanation
Indices: 170781--171035 Score: 332
Period size: 42 Copynumber: 6.1 Consensus size: 42
170771 AAGTAAACTA
*
170781 GAAAAGTAAATGGACCTCAACACCTGGGTCTCTAAATGCAAT
1 GAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
* * * *
170823 GAAAAGTCAATGGACCTCTACACTTAGGTCTCTAAATGCAAT
1 GAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
* * * * *
170865 GAAAAGTGAATGGACCTCAATACCTGGGCCTCTAAATACAAT
1 GAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
* * *
170907 GAAAAGTAAATGGATCTCCACAGCTGGGTCTTTAAATGCAAT
1 GAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
* **
170949 GAAAAGTAAATGAACCTCCACATTTGGG-CTTCTAAATGCAAT
1 GAAAAGTAAATGGACCTCCACACCTGGGTC-TCTAAATGCAAT
* *
170991 GAAAAGTAAATGGACCTCCACACCTAGGCCTCTAAATGCAAT
1 GAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
171033 GAA
1 GAA
171036 TGTTCTCCTT
Statistics
Matches: 183, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
41 1 0.01
42 181 0.99
43 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (42 bp):
GAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
Found at i:171006 original size:126 final size:126
Alignment explanation
Indices: 170781--171035 Score: 368
Period size: 126 Copynumber: 2.0 Consensus size: 126
170771 AAGTAAACTA
* * *
170781 GAAAAGTAAATGGACCTCAACACCTGGGTCTCTAAATGCAATGAAAAGTCAATGGACCTCTACAC
1 GAAAAGTAAATGGACCTCAACACCTGGGTCTCTAAATGCAATGAAAAGTAAATGAACCTCCACAC
* * *
170846 TTAGGTCTCTAAATGCAATGAAAAGTGAATGGACCTCAATACCTGGGCCTCTAAATACAAT
66 TTAGGTCTCTAAATGCAATGAAAAGTAAATGGACCTCAACACCTAGGCCTCTAAATACAAT
* * * *
170907 GAAAAGTAAATGGATCTCCACAGCTGGGTCTTTAAATGCAATGAAAAGTAAATGAACCTCCACA-
1 GAAAAGTAAATGGACCTCAACACCTGGGTCTCTAAATGCAATGAAAAGTAAATGAACCTCCACAC
* * * *
170971 TTTGGGCTTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTAAATGCAAT
66 TTAGGTC-TCTAAATGCAATGAAAAGTAAATGGACCTCAACACCTAGGCCTCTAAATACAAT
171033 GAA
1 GAA
171036 TGTTCTCCTT
Statistics
Matches: 114, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
125 5 0.04
126 109 0.96
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (126 bp):
GAAAAGTAAATGGACCTCAACACCTGGGTCTCTAAATGCAATGAAAAGTAAATGAACCTCCACAC
TTAGGTCTCTAAATGCAATGAAAAGTAAATGGACCTCAACACCTAGGCCTCTAAATACAAT
Found at i:172060 original size:34 final size:35
Alignment explanation
Indices: 172012--172088 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 35
172002 CTCTTAATCA
* *
172012 CTTTTCTTTGTTCTTACTC-C-TT-CCTATTTCCTTT
1 CTTTTTTTTCTTCTTACTCACTTTCCCTATTT--TTT
*
172046 CTTTTTTTTCTTCTTATTCACTTTCCCTATTTTTT
1 CTTTTTTTTCTTCTTACTCACTTTCCCTATTTTTT
172081 CTTTTTTT
1 CTTTTTTT
172089 CTTTTTTCGA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 16 0.43
35 12 0.32
36 2 0.05
37 7 0.19
ACGTcount: A:0.06, C:0.25, G:0.01, T:0.68
Consensus pattern (35 bp):
CTTTTTTTTCTTCTTACTCACTTTCCCTATTTTTT
Found at i:179427 original size:16 final size:16
Alignment explanation
Indices: 179406--179438 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
179396 GACCTGGCGC
*
179406 TTGAAGCTGTAAATCT
1 TTGAAGCGGTAAATCT
179422 TTGAAGCGGTAAATCT
1 TTGAAGCGGTAAATCT
179438 T
1 T
179439 CACAATATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.36
Consensus pattern (16 bp):
TTGAAGCGGTAAATCT
Found at i:181368 original size:30 final size:30
Alignment explanation
Indices: 181334--181392 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
181324 AACTCATATA
181334 CGGCAAACGTGAACAGTGCCAAATGTCTAG
1 CGGCAAACGTGAACAGTGCCAAATGTCTAG
181364 CGGCAAACGTGAACAGTGCCAAATGTCTA
1 CGGCAAACGTGAACAGTGCCAAATGTCTA
181393 TCACCGCTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (30 bp):
CGGCAAACGTGAACAGTGCCAAATGTCTAG
Found at i:183372 original size:3 final size:3
Alignment explanation
Indices: 183364--183401 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
183354 ATTCGATCTT
183364 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
183402 TTAAAAGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:183710 original size:11 final size:11
Alignment explanation
Indices: 183694--183719 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
183684 CCTATACAAT
183694 ATTTAAAACTA
1 ATTTAAAACTA
183705 ATTTAAAACTA
1 ATTTAAAACTA
183716 ATTT
1 ATTT
183720 TACTCTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (11 bp):
ATTTAAAACTA
Found at i:184154 original size:10 final size:9
Alignment explanation
Indices: 184111--184206 Score: 75
Period size: 10 Copynumber: 9.6 Consensus size: 9
184101 GGGGAATGCG
*
184111 TAAAAAAAA
1 TAAAATAAA
184120 TATAAATAGACA
1 TA-AAATA-A-A
184132 TGAAAATAAA
1 T-AAAATAAA
184142 TAAAATGAAA
1 TAAAAT-AAA
184152 TAAGAATAAA
1 TAA-AATAAA
*
184162 TAAAAAAGACA
1 TAAAATA-A-A
*
184173 TGAAATAAA
1 TAAAATAAA
184182 TAAAATGAAA
1 TAAAAT-AAA
184192 TAAGAATAAA
1 TAA-AATAAA
184202 TAAAA
1 TAAAA
184207 ATTATACAAG
Statistics
Matches: 72, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
9 18 0.25
10 32 0.44
11 14 0.19
12 7 0.10
13 1 0.01
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.19
Consensus pattern (9 bp):
TAAAATAAA
Found at i:184159 original size:16 final size:15
Alignment explanation
Indices: 184134--184201 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 15
184124 AATAGACATG
*
184134 AAAAT-AAATAAAAT
1 AAAATAAAATGAAAT
*
184148 GAAATAAGAAT-AAAT
1 AAAATAA-AATGAAAT
184163 AAAA-AAGACATGAAAT
1 AAAATAA-A-ATGAAAT
184179 -AAATAAAATGAAAT
1 AAAATAAAATGAAAT
184193 AAGAATAAA
1 AA-AATAAA
184202 TAAAAATTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
14 15 0.33
15 15 0.33
16 15 0.33
ACGTcount: A:0.72, C:0.01, G:0.09, T:0.18
Consensus pattern (15 bp):
AAAATAAAATGAAAT
Found at i:184179 original size:40 final size:41
Alignment explanation
Indices: 184117--184207 Score: 157
Period size: 40 Copynumber: 2.2 Consensus size: 41
184107 TGCGTAAAAA
*
184117 AAATATAAATAGACATGAAAATAAATAAAATGAAATAAGAAT
1 AAATA-AAAAAGACATGAAAATAAATAAAATGAAATAAGAAT
184159 AAATAAAAAAGACATG-AAATAAATAAAATGAAATAAGAAT
1 AAATAAAAAAGACATGAAAATAAATAAAATGAAATAAGAAT
184199 AAATAAAAA
1 AAATAAAAA
184208 TTATACAAGT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 33 0.69
41 10 0.21
42 5 0.10
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (41 bp):
AAATAAAAAAGACATGAAAATAAATAAAATGAAATAAGAAT
Found at i:184745 original size:21 final size:20
Alignment explanation
Indices: 184719--184786 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
184709 GCCGAAATTT
*
184719 TTTTTTTTTGCAAAATCAAA
1 TTTTTTTTTGAAAAATCAAA
*
184739 GTTTTTTTTAGAAAAAATCATTAA
1 -TTTTTTTTTG-AAAAATCA--AA
184763 TTTTTTTTT-AAAAATCAAAA
1 TTTTTTTTTGAAAAATC-AAA
184783 TTTT
1 TTTT
184787 ATTTCGAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
20 6 0.15
21 16 0.40
22 8 0.20
23 8 0.20
24 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.51
Consensus pattern (20 bp):
TTTTTTTTTGAAAAATCAAA
Found at i:184755 original size:22 final size:22
Alignment explanation
Indices: 184730--184776 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
184720 TTTTTTTTGC
184730 AAAATCA-AAGTTTTTTTTAGAA
1 AAAATCATAAGTTTTTTTTA-AA
*
184752 AAAATCATTAATTTTTTTTTAAA
1 AAAATCA-TAAGTTTTTTTTAAA
184775 AA
1 AA
184777 TCAAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 4 0.18
24 11 0.50
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (22 bp):
AAAATCATAAGTTTTTTTTAAA
Found at i:184902 original size:148 final size:148
Alignment explanation
Indices: 184717--185205 Score: 536
Period size: 148 Copynumber: 3.3 Consensus size: 148
184707 TGGCCGAAAT
* * * *
184717 TTTTTTTTTTTGCAAAATC-AAAGTTTT-T-TTTAGAAAAAATCATTAATTTTTTTTTAAAAATC
1 TTTTTATTTTT-CAAAATCTAAACTTTTCTCTTT-GAAAAAA-CA-TAATTTTTTCTTAAAAATT
*
184779 AAA-ATTTTATTTCGAAATAGTT-AAAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCT
62 AAAGCTTTTATTT-GAAATAGTTGAAAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCT
*
184842 TTAAAATGACTTAAAAAAAATATA
126 TTAAAATAAC-TAAAAAAAATATA
* *
184866 TTTTTATTTTTCAAAATCTAAA-TTTTCTCTTTAAAAAAACACT-A-TTTTTCTTAAAGATTAAA
1 TTTTTATTTTTCAAAATCTAAACTTTTCTCTTTGAAAAAACA-TAATTTTTTCTTAAAAATTAAA
* *
184928 GCTTTTATTTTGAAGTAGTTGAAAAGAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTA
65 GCTTTTA-TTTGAAATAGTTGAAAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTA
*
184993 AAATTACTAAAAAAAATATA
129 AAATAACTAAAAAAAATATA
* * *
185013 TTTTTATTTTTCAAAAACTAAACTTTCTCCTTTTTTTTGAAAAAA-ATACTATTTTTCTTAAAAA
1 TTTTTATTTTTCAAAATCTAAACTTT-T-C---TCTTTGAAAAAACATAAT-TTTTTCTTAAAAA
* * * * *
185077 TTAAAGCTTTTACTTTGAAATAGTTGAAAAAAAATAAAAAAATTTGTTTTAAAAATTTAAAATTT
60 TTAAAGCTTTTA-TTTGAAATAGTTGAAAAAAAAT-CAAAACTTTATTTTAAAATTTTAAACTTT
*
185142 CCTTTAAAATAACTATAAAAACA-A-A
123 CCTTTAAAATAACTA-AAAAAAATATA
*
185167 TTTTTATTTGTT-AAAATCTAAAC-TTTCTCTTTAAAAAAA
1 TTTTTATTT-TTCAAAATCTAAACTTTTCTCTTTGAAAAAA
185206 AATCAAAACT
Statistics
Matches: 294, Mismatches: 28, Indels: 37
0.82 0.08 0.10
Matches are distributed among these distances:
146 15 0.05
147 48 0.16
148 79 0.27
149 21 0.07
150 4 0.01
151 2 0.01
152 2 0.01
153 12 0.04
154 64 0.22
155 41 0.14
156 6 0.02
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (148 bp):
TTTTTATTTTTCAAAATCTAAACTTTTCTCTTTGAAAAAACATAATTTTTTCTTAAAAATTAAAG
CTTTTATTTGAAATAGTTGAAAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAA
ATAACTAAAAAAAATATA
Found at i:184985 original size:20 final size:20
Alignment explanation
Indices: 184960--184997 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
184950 AAAGAAATCA
*
184960 AAACTTTATTTTAAAATTTT
1 AAACTTTACTTTAAAATTTT
*
184980 AAACTTTCCTTTAAAATT
1 AAACTTTACTTTAAAATT
184998 ACTAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (20 bp):
AAACTTTACTTTAAAATTTT
Found at i:185105 original size:154 final size:149
Alignment explanation
Indices: 184764--185195 Score: 556
Period size: 154 Copynumber: 2.9 Consensus size: 149
184754 AATCATTAAT
* * *
184764 TTTTTTTTAAAAATCAAA-ATTTTATTTCGAAATAGTT-AAAAAAAATCAAAACTTTATTTTAAA
1 TTTTTCTTAAAAATTAAAGCTTTTATTT-GAAATAGTTGAAAAAAAATCAAAACTTTATTTTAAA
*
184827 ATTTTAAACTTTCCTTTAAAATGACTTAAAAAAAATATATTTTTATTTTTCAAAATCTAAA-TTT
65 ATTTTAAACTTTCCTTTAAAATAAC-TAAAAAAAATATATTTTTATTTTTCAAAATCTAAACTTT
184891 -T-CTCTTTAAAAAAACACTA
129 CTCCTCTTTAAAAAAACACTA
* * *
184910 TTTTTCTTAAAGATTAAAGCTTTTATTTTGAAGTAGTTGAAAAGAAATCAAAACTTTATTTTAAA
1 TTTTTCTTAAAAATTAAAGCTTTTA-TTTGAAATAGTTGAAAAAAAATCAAAACTTTATTTTAAA
* *
184975 ATTTTAAACTTTCCTTTAAAATTACTAAAAAAAATATATTTTTATTTTTCAAAAACTAAACTTTC
65 ATTTTAAACTTTCCTTTAAAATAACTAAAAAAAATATATTTTTATTTTTCAAAATCTAAACTTTC
* *
185040 TCCTTTTTTTTGAAAAAAATACTA
130 TCC---TCTTT-AAAAAAACACTA
* * *
185064 TTTTTCTTAAAAATTAAAGCTTTTACTTTGAAATAGTTGAAAAAAAATAAAAAAATTTGTTTTAA
1 TTTTTCTTAAAAATTAAAGCTTTTA-TTTGAAATAGTTGAAAAAAAAT-CAAAACTTTATTTTAA
* * *
185129 AAATTTAAAATTTCCTTTAAAATAACTATAAAAACA-A-ATTTTTATTTGTT-AAAATCTAAACT
64 AATTTTAAACTTTCCTTTAAAATAACTA-AAAAAAATATATTTTTATTT-TTCAAAATCTAAACT
185191 TTCTC
127 TTCTC
185196 TTTAAAAAAA
Statistics
Matches: 251, Mismatches: 22, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
146 15 0.06
147 47 0.19
148 55 0.22
149 1 0.00
150 1 0.00
153 4 0.02
154 81 0.32
155 41 0.16
156 6 0.02
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (149 bp):
TTTTTCTTAAAAATTAAAGCTTTTATTTGAAATAGTTGAAAAAAAATCAAAACTTTATTTTAAAA
TTTTAAACTTTCCTTTAAAATAACTAAAAAAAATATATTTTTATTTTTCAAAATCTAAACTTTCT
CCTCTTTAAAAAAACACTA
Found at i:187993 original size:25 final size:25
Alignment explanation
Indices: 187956--188021 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
187946 CCTGTACGTT
187956 TATGCTCATACGAGCTATAAATCGG
1 TATGCTCATACGAGCTATAAATCGG
**
187981 TATGCTC-TCACGAGCCGTAAATCGG
1 TATGCTCAT-ACGAGCTATAAATCGG
*
188006 TAAGCTCATACGAGCT
1 TATGCTCATACGAGCT
188022 TGGACTCGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (25 bp):
TATGCTCATACGAGCTATAAATCGG
Found at i:189821 original size:19 final size:18
Alignment explanation
Indices: 189777--189823 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 18
189767 TATTCTTCTC
189777 TTCCTTTCTATTTTTATTT
1 TTCCTTT-TATTTTTATTT
189796 TTACCTTTTATTATTT-TGTT
1 TT-CCTTTTATT-TTTAT-TT
189816 TTCCTTTT
1 TTCCTTTT
189824 GACTGAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.11, C:0.15, G:0.02, T:0.72
Consensus pattern (18 bp):
TTCCTTTTATTTTTATTT
Found at i:190942 original size:26 final size:26
Alignment explanation
Indices: 190913--190962 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
190903 TTTGCCACAT
*
190913 ATACTGTTACTATCAGCTTTGCTGTG
1 ATACTGTTACTAGCAGCTTTGCTGTG
* *
190939 ATACTTTTACTGGCAGCTTTGCTG
1 ATACTGTTACTAGCAGCTTTGCTG
190963 CAATATTGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (26 bp):
ATACTGTTACTAGCAGCTTTGCTGTG
Found at i:191101 original size:28 final size:28
Alignment explanation
Indices: 191061--191119 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
191051 GGTTGCATTA
191061 CCACACTGTTACTGTATTACGCTAAGGC
1 CCACACTGTTACTGTATTACGCTAAGGC
**
191089 CCACACTGTTACTGTATTGGGCTAAGGC
1 CCACACTGTTACTGTATTACGCTAAGGC
191117 CCA
1 CCA
191120 TACAGTACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (28 bp):
CCACACTGTTACTGTATTACGCTAAGGC
Found at i:194203 original size:20 final size:20
Alignment explanation
Indices: 194178--194218 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
194168 TTCTTGTGTT
194178 TATAACATATATGTGTGAAA
1 TATAACATATATGTGTGAAA
194198 TATAACATATATGTGTGAAA
1 TATAACATATATGTGTGAAA
194218 T
1 T
194219 TCTTCTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.37
Consensus pattern (20 bp):
TATAACATATATGTGTGAAA
Found at i:195297 original size:29 final size:30
Alignment explanation
Indices: 195265--195323 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 30
195255 CAATTTCAAA
195265 TGTTAATTTGA-AAATTCATGGATCTAAAC
1 TGTTAATTTGATAAATTCATGGATCTAAAC
*
195294 TGTTAATTTTACTTAAATTCATGGATCTAA
1 TGTTAATTTGA--TAAATTCATGGATCTAA
195324 GATTTTCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 10 0.38
32 16 0.62
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (30 bp):
TGTTAATTTGATAAATTCATGGATCTAAAC
Found at i:196014 original size:7 final size:7
Alignment explanation
Indices: 196004--196030 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
195994 TTAATAGTTT
196004 AATTTTA
1 AATTTTA
196011 AATTTTA
1 AATTTTA
196018 AATTTTA
1 AATTTTA
196025 AATTTT
1 AATTTT
196031 CTTACTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
AATTTTA
Found at i:197889 original size:9 final size:9
Alignment explanation
Indices: 197875--197959 Score: 107
Period size: 9 Copynumber: 9.4 Consensus size: 9
197865 GTAGTGATTC
*
197875 AATTTGGTT
1 AATTCGGTT
*
197884 AATTTGGTT
1 AATTCGGTT
*
197893 AATTCGGGT
1 AATTCGGTT
197902 AATTCGGTT
1 AATTCGGTT
* *
197911 AATTTGGGT
1 AATTCGGTT
*
197920 AATTCGGGT
1 AATTCGGTT
197929 AATTCGGTT
1 AATTCGGTT
*
197938 AATTCGGGT
1 AATTCGGTT
197947 AATTCGGTT
1 AATTCGGTT
197956 AATT
1 AATT
197960 TTTAACCAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 67 1.00
ACGTcount: A:0.24, C:0.07, G:0.26, T:0.44
Consensus pattern (9 bp):
AATTCGGTT
Found at i:197910 original size:27 final size:27
Alignment explanation
Indices: 197875--197959 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
197865 GTAGTGATTC
* *
197875 AATTTGGTTAATTTGGTTAATTCGGGT
1 AATTCGGTTAATTTGGGTAATTCGGGT
197902 AATTCGGTTAATTTGGGTAATTCGGGT
1 AATTCGGTTAATTTGGGTAATTCGGGT
* *
197929 AATTCGGTTAATTCGGGTAATTCGGTT
1 AATTCGGTTAATTTGGGTAATTCGGGT
197956 AATT
1 AATT
197960 TTTAACCAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.24, C:0.07, G:0.26, T:0.44
Consensus pattern (27 bp):
AATTCGGTTAATTTGGGTAATTCGGGT
Found at i:198579 original size:25 final size:23
Alignment explanation
Indices: 198551--198598 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
198541 TTTAGTACTT
198551 CTCTTTTACTTGTAATGATATTTCA
1 CTCTTTTAC-T-TAATGATATTTCA
* *
198576 CTCTTTTGCTTAATGTTATTTCA
1 CTCTTTTACTTAATGATATTTCA
198599 ATATTTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
24 1 0.05
25 8 0.38
ACGTcount: A:0.21, C:0.17, G:0.08, T:0.54
Consensus pattern (23 bp):
CTCTTTTACTTAATGATATTTCA
Found at i:199893 original size:12 final size:12
Alignment explanation
Indices: 199876--199900 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
199866 TGTTATTTCG
199876 GGTCGGTTAACC
1 GGTCGGTTAACC
199888 GGTCGGTTAACC
1 GGTCGGTTAACC
199900 G
1 G
199901 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:200404 original size:25 final size:23
Alignment explanation
Indices: 200376--200423 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
200366 TTTAGTACTT
200376 CTCTTTTACTTGAAATGATATTTCA
1 CTCTTTTACTT--AATGATATTTCA
* *
200401 CTCTTTTGCTTAATGTTATTTCA
1 CTCTTTTACTTAATGATATTTCA
200424 GTTTTCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
25 10 0.48
ACGTcount: A:0.23, C:0.17, G:0.08, T:0.52
Consensus pattern (23 bp):
CTCTTTTACTTAATGATATTTCA
Found at i:210204 original size:89 final size:90
Alignment explanation
Indices: 210089--210275 Score: 360
Period size: 89 Copynumber: 2.1 Consensus size: 90
210079 CTTTTGATAT
210089 TATGA-AATGAACAATTTCTACAATTTGGTATCTAAGCTATGGAGAGTGTGACTAGTATTGTGCC
1 TATGAGAATGAACAATTTCTACAATTTGGTATCTAAGCTATGGAGAGTGTGACTAGTATTGTGCC
210153 ATTGCCTCGACTAACAAAAGTGAAC
66 ATTGCCTCGACTAACAAAAGTGAAC
210178 TATGAGAATGAACAA-TTCTACAATTTGGTATCTAAGCTATGGAGAGTGTGACTAGTATTGTGCC
1 TATGAGAATGAACAATTTCTACAATTTGGTATCTAAGCTATGGAGAGTGTGACTAGTATTGTGCC
210242 ATTGCCTCGACTAACAAAAGTGAAC
66 ATTGCCTCGACTAACAAAAGTGAAC
210267 TATGAGAAT
1 TATGAGAAT
210276 TGGAGCATCC
Statistics
Matches: 97, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
89 88 0.91
90 9 0.09
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (90 bp):
TATGAGAATGAACAATTTCTACAATTTGGTATCTAAGCTATGGAGAGTGTGACTAGTATTGTGCC
ATTGCCTCGACTAACAAAAGTGAAC
Found at i:214254 original size:48 final size:48
Alignment explanation
Indices: 214196--214292 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
214186 CATCGAGAGG
214196 ATTTTTAAAAATGAAAATAACACTTGGGATCAATCATCAGTGAACAGA
1 ATTTTTAAAAATGAAAATAACACTTGGGATCAATCATCAGTGAACAGA
214244 ATTTTTAAAAATGAAAATAACACTTGGGATCAATCATCAGTGAACAGA
1 ATTTTTAAAAATGAAAATAACACTTGGGATCAATCATCAGTGAACAGA
214292 A
1 A
214293 GGGACAATCG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.27
Consensus pattern (48 bp):
ATTTTTAAAAATGAAAATAACACTTGGGATCAATCATCAGTGAACAGA
Found at i:218315 original size:58 final size:58
Alignment explanation
Indices: 218251--218366 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
218241 GTAAGCTATT
*
218251 CCTTGAAACAATTTTATGATATGCGAATTTAAATTGAATGATCACTAGTGACAATGTA
1 CCTTGAAACAATTTTATGAGATGCGAATTTAAATTGAATGATCACTAGTGACAATGTA
* *
218309 CCTTGAAACAATTTTATGAGATGTGAATTTGAATTGAATGATCACTAGTGACAATGTA
1 CCTTGAAACAATTTTATGAGATGCGAATTTAAATTGAATGATCACTAGTGACAATGTA
218367 TTAAATTGCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.34
Consensus pattern (58 bp):
CCTTGAAACAATTTTATGAGATGCGAATTTAAATTGAATGATCACTAGTGACAATGTA
Found at i:218623 original size:23 final size:23
Alignment explanation
Indices: 218596--218641 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
218586 ATTGCATAAC
218596 ATCATTTACTATAACTTGAGCAT
1 ATCATTTACTATAACTTGAGCAT
218619 ATCATTTACTATAACTTGAGCAT
1 ATCATTTACTATAACTTGAGCAT
218642 GTAATTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (23 bp):
ATCATTTACTATAACTTGAGCAT
Found at i:232096 original size:40 final size:40
Alignment explanation
Indices: 232038--232161 Score: 110
Period size: 37 Copynumber: 3.1 Consensus size: 40
232028 ACACACCAGT
**
232038 TTGACACCCAGTGCCTCATCGGATAATTCGAAGTAGTAAA
1 TTGACACTTAGTGCCTCATCGGATAATTCGAAGTAGTAAA
* * * **
232078 CTGACACTTAGTGTCTCATCGGTTAAACCG-A--AGTAAA
1 TTGACACTTAGTGCCTCATCGGATAATTCGAAGTAGTAAA
* * * * *
232115 TTGGCACCTAGTGCCTCATCGAATAAATTTGAAGTAATAAA
1 TTGACACTTAGTGCCTCATCGGAT-AATTCGAAGTAGTAAA
232156 TTGACA
1 TTGACA
232162 TCCAGTGTCT
Statistics
Matches: 62, Mismatches: 18, Indels: 7
0.71 0.21 0.08
Matches are distributed among these distances:
37 24 0.39
38 3 0.05
39 2 0.03
40 23 0.37
41 10 0.16
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (40 bp):
TTGACACTTAGTGCCTCATCGGATAATTCGAAGTAGTAAA
Found at i:236983 original size:68 final size:68
Alignment explanation
Indices: 236874--237015 Score: 266
Period size: 68 Copynumber: 2.1 Consensus size: 68
236864 ATTCAGGCTT
236874 GATATACGTAATCGTATAACAGTTTACATTTCAATCCATTTTATCACCAATTCAATCGTAATATT
1 GATATACGTAATCGTATAACAGTTTACATTTCAATCCATTTTATCACCAATTCAATCGTAATATT
236939 TCA
66 TCA
* *
236942 GATATACGTAATTGTATAACAGTTTACATTTCAATCCATTTTATCTCCAATTCAATCGTAATATT
1 GATATACGTAATCGTATAACAGTTTACATTTCAATCCATTTTATCACCAATTCAATCGTAATATT
237007 TCA
66 TCA
237010 GATATA
1 GATATA
237016 AACAATGTCA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 72 1.00
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (68 bp):
GATATACGTAATCGTATAACAGTTTACATTTCAATCCATTTTATCACCAATTCAATCGTAATATT
TCA
Found at i:240504 original size:17 final size:16
Alignment explanation
Indices: 240472--240502 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
240462 AGCCGTTAAC
*
240472 CGAAATTTCAAAAAAT
1 CGAAATTCCAAAAAAT
240488 CGAAATTCCAAAAAA
1 CGAAATTCCAAAAAA
240503 ATTTGTAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.16, G:0.06, T:0.19
Consensus pattern (16 bp):
CGAAATTCCAAAAAAT
Found at i:241787 original size:21 final size:21
Alignment explanation
Indices: 241744--241787 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
241734 TCTCTTACGA
*
241744 TTAGGGTTTTGGGTTATTGGT
1 TTAGGGTTTAGGGTTATTGGT
*
241765 TTAGGG-TTAGGGTTTTTGTGT
1 TTAGGGTTTAGGGTTATTG-GT
241786 TT
1 TT
241788 TTAAGTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.09, C:0.00, G:0.36, T:0.55
Consensus pattern (21 bp):
TTAGGGTTTAGGGTTATTGGT
Found at i:241933 original size:95 final size:96
Alignment explanation
Indices: 241830--242146 Score: 275
Period size: 95 Copynumber: 3.3 Consensus size: 96
241820 TAAATAAGGG
* * * * * ** *
241830 ATTAGGGTTTAGGGTTT-GTCAATTAAATTAATTATAAATTTTTCAAAATTGGATTA-AGTTTCG
1 ATTAGGGTTTAGGGTTTACTCAAGTAAATTAATTAAAAAATTTTAAAAATCAGATTAGAGTTTAG
** * *
241893 TGTTTATTATTTTTTAAGAAAAAATCAATTAA
66 TG-TTAAGAGTTTTTAAGAAAAAATCAAATAA
** * *
241925 ATTAGGGTTTA-GGTTTACTTGAGTAATTTAATTAAAAAATTTTAAAAATCAGATTAGGGTTTAG
1 ATTAGGGTTTAGGGTTTACTCAAGTAAATTAATTAAAAAATTTTAAAAATCAGATTAGAGTTTAG
* *
241989 TGTTAAGGGTTTTTAAGGAAAAATCAAATAA
66 TGTTAAGAGTTTTTAAGAAAAAATCAAATAA
** * ** * * *
242020 ATTAGGGTTTAGGG-TTACTTGAGTAAATTAATTATAATGTTTTATAAAATTAGGTTAGGGTTTA
1 ATTAGGGTTTAGGGTTTACTCAAGTAAATTAATTAAAAAATTTTA-AAAATCAGATTAGAGTTTA
* * * *
242084 GAGTTTAGGGTTTTTAAGTAAAAACTCAAATAA
65 GTGTTAAGAGTTTTTAAG-AAAAAATCAAATAA
* * *
242117 GTTAGGGTTTAGGG-TTACTTAATTAAATTA
1 ATTAGGGTTTAGGGTTTACTCAAGTAAATTA
242147 TTTGTTAATT
Statistics
Matches: 186, Mismatches: 31, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
94 5 0.03
95 100 0.54
96 42 0.23
97 39 0.21
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.41
Consensus pattern (96 bp):
ATTAGGGTTTAGGGTTTACTCAAGTAAATTAATTAAAAAATTTTAAAAATCAGATTAGAGTTTAG
TGTTAAGAGTTTTTAAGAAAAAATCAAATAA
Found at i:242144 original size:97 final size:94
Alignment explanation
Indices: 241903--242146 Score: 326
Period size: 95 Copynumber: 2.5 Consensus size: 94
241893 TGTTTATTAT
* * *
241903 TTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGTTTACTTGAGTAATTTAATTAAAAAATTTT
1 TTTTTAAG-AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAATTTT
*
241968 AAAAATCAGATTAGGGTTTAGTGTTAAGGG
65 AAAAATCAGATTAGGGTTTAGAGTTAAGGG
* **
241998 TTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATGTTTT
1 TTTTTAA-GAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAATTTT
* * *
242063 ATAAAATTAGGTTAGGGTTTAGAGTTTAGGG
65 A-AAAATCAGATTAGGGTTTAGAGTTAAGGG
* * *
242094 TTTTTAAGTAAAAACTCAAATAAGTTAGGGTTTAGGGTTACTTAATTAAATTA
1 TTTTTAAG-AAAAA-TCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTA
242147 TTTGTTAATT
Statistics
Matches: 132, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
95 59 0.45
96 38 0.29
97 35 0.27
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (94 bp):
TTTTTAAGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAATTTTA
AAAATCAGATTAGGGTTTAGAGTTAAGGG
Found at i:242553 original size:126 final size:126
Alignment explanation
Indices: 242158--243326 Score: 1866
Period size: 126 Copynumber: 9.3 Consensus size: 126
242148 TTGTTAATTT
* * *
242158 AAAGAAGCTCCCAGGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* **
242223 GTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTTTTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * * *
242284 AAAGAAGCTCTCATGTGGACGCGCTTTCGCTACAGTAGCTCCTAAAAAAATAATTTCGAATAGAC
1 AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* **
242349 GTTTCTGAGCAAATAGTGTC-AAAATGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTTTTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * * *
242409 AAAGAAGCTCTCATGTGGACGCGCTTTCGCTACAGTAGCTCCTAAAAAAATAATTTCGAATAGAC
1 AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
**
242474 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTTTTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * *
242535 AAAGAAGCTCTCACGTGGACGCGCTTTCGCTACA-TAGCTCCTAAAAAAATAATTTCGAATAGAC
1 AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
242599 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
*
242660 AAAGAAGCT-TCCACATGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGA
1 AAAGAAGCTCT-CACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGA
* * *
242724 CTTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTTAGCAGAAGTACTG
65 CGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * * *
242786 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTTGAGTAGAA
1 AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
242851 GTTTCTGAGCAAATAGTGTCAAAAACG-TTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
** * *
242911 AAAGAAGCTC-CTACGTGGACATGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTTGAGTAGA
1 AAAGAAGCTCTC-ACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGA
*
242975 CGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTATTG
65 CGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* *
243037 AAATAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCGTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * *
243102 GTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGCAGTAT-CTTTGTCAGCGGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
*
243162 AAAGAAGCTC-CTACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGA
1 AAAGAAGCTCTC-ACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGA
*
243226 CGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCGGAAGTACTG
65 CGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* *
243288 AAAGAAGCTCCCACGTGAACGCGCTTTTGCTACAGTAGC
1 AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGC
243327 GCATGTTTGG
Statistics
Matches: 986, Mismatches: 47, Indels: 20
0.94 0.04 0.02
Matches are distributed among these distances:
124 3 0.00
125 477 0.48
126 504 0.51
127 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (126 bp):
AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:242631 original size:251 final size:251
Alignment explanation
Indices: 242158--243326 Score: 1887
Period size: 251 Copynumber: 4.7 Consensus size: 251
242148 TTGTTAATTT
* *
242158 AAAGAAGCTCCCAGGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCT-CCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
242223 GTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTTTTGAAAG
65 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTATTGAAAG
* *
242288 AAGCTCTCATGTGGACGCGCTTTCGCTACAGTAGCTCCTAAAAAAATAATTTCGAATAGACGTTT
130 AAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAATAGACGTTT
* **
242353 CTGAGCAAATAGTGTC-AAAATGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTTTTG
195 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * * *
242409 AAAGAAGCTCTCATGTGGACGCGCTTTCGCTACAGTAGCTCCTAAAAAAATAATTTCGAATAGAC
1 AAAGAAGCTC-CACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
*
242474 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTTTTGAAAG
65 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTATTGAAAG
*
242539 AAGCTCTCACGTGGACGCGCTTTCGCTACA-TAGCTCCTAAAAAAATAATTTCGAATAGACGTTT
130 AAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAATAGACGTTT
242603 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
195 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
*
242660 AAAGAAGCTTCCACATGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGC-TCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * * *
242725 TTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTTAGCAGAAGTACTGAAAG
65 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTATTGAAAG
* * * * * *
242790 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTTGAGTAGAAGTTT
130 AAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAATAGACGTTT
242855 CTGAGCAAATAGTGTCAAAAACG-TTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
195 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
** * *
242911 AAAGAAGCTCCTACGTGGACATGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTTGAGTAGAC
1 AAAGAAGCTCC-ACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
*
242976 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTATTGAAAT
65 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTATTGAAAG
* * *
243041 AAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCGTGAAAAAATAATTTCGAGTAGACGTTT
130 AAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAATAGACGTTT
* * *
243106 CTGAGCAAATAGTGTCAAAAATGCTTTAAGCAGTAT-CTTTGTCAGCGGAAGTACTG
195 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
*
243162 AAAGAAGCTCCTACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGAC
1 AAAGAAGCTCC-ACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
243227 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCGGAAGTACTGAAAG
65 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTATTGAAAG
* *
243292 AAGCTCCCACGTGAACGCGCTTTTGCTACAGTAGC
130 AAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGC
243327 GCATGTTTGG
Statistics
Matches: 860, Mismatches: 52, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
250 54 0.06
251 741 0.86
252 65 0.08
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (251 bp):
AAAGAAGCTCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACG
TTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTATTGAAAGA
AGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAATAGACGTTTC
TGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:246579 original size:32 final size:28
Alignment explanation
Indices: 246506--246586 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 28
246496 CCTTATTTAA
* *
246506 AAGAATTTCTATTATATTAAAAATGTAT
1 AAGAATTTCTATTATATTAAAAATATAG
246534 AAGTAAATTTCTATTAGTATATGAAATAATATAG
1 AAG--AATTTCTATTA-TAT-T-AAA-AATATAG
*
246568 AAGAATTTCTATTTTATTA
1 AAGAATTTCTATTATATTA
246587 CATCAGATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
28 3 0.07
29 1 0.02
30 12 0.27
31 6 0.14
32 11 0.25
33 3 0.07
34 8 0.18
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (28 bp):
AAGAATTTCTATTATATTAAAAATATAG
Found at i:246741 original size:21 final size:21
Alignment explanation
Indices: 246717--246769 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
246707 AACTTCTGGT
* *
246717 GGGGGTTGTGGTTGCTCCGGC
1 GGGGGTTCTGGTTCCTCCGGC
*
246738 GGGGGTTCTGGTTCCTCCGGG
1 GGGGGTTCTGGTTCCTCCGGC
*
246759 GGGGGGTCTGG
1 GGGGGTTCTGG
246770 GTGTGGGGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.00, C:0.19, G:0.55, T:0.26
Consensus pattern (21 bp):
GGGGGTTCTGGTTCCTCCGGC
Found at i:247037 original size:18 final size:18
Alignment explanation
Indices: 247011--247053 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
247001 GACTAGAAAA
* * *
247011 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
247029 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
247047 AGGATAC
1 AGGATAC
247054 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:248874 original size:11 final size:11
Alignment explanation
Indices: 248860--248927 Score: 86
Period size: 11 Copynumber: 6.2 Consensus size: 11
248850 TATTTTAAAT
248860 AGGAATTTGAG
1 AGGAATTTGAG
*
248871 AGGAACTTGAG
1 AGGAATTTGAG
248882 AGGAATTTGAG
1 AGGAATTTGAG
248893 AGGAATTTGAG
1 AGGAATTTGAG
248904 A-GAATATT-AG
1 AGGAAT-TTGAG
*
248914 AGAGAAATTGAG
1 AG-GAATTTGAG
248926 AG
1 AG
248928 AAAGGATTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
10 7 0.14
11 36 0.72
12 7 0.14
ACGTcount: A:0.41, C:0.01, G:0.34, T:0.24
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:250599 original size:30 final size:30
Alignment explanation
Indices: 250540--250600 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
250530 TATATTTCTA
250540 TCTCTTGTCTATGTTTTATTGTTTAATATG
1 TCTCTTGTCTATGTTTTATTGTTTAATATG
250570 TCTCTTGTCTATGTTTTATTGTTTAATATG
1 TCTCTTGTCTATGTTTTATTGTTTAATATG
250600 T
1 T
250601 TAAAATTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.10, G:0.13, T:0.61
Consensus pattern (30 bp):
TCTCTTGTCTATGTTTTATTGTTTAATATG
Found at i:250601 original size:17 final size:17
Alignment explanation
Indices: 250549--250601 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
250539 ATCTCTTGTC
250549 TATGTTTTATTGTTTAA
1 TATGTTTTATTGTTTAA
* * *
250566 TATG-TCTCTTG--T-C
1 TATGTTTTATTGTTTAA
250579 TATGTTTTATTGTTTAA
1 TATGTTTTATTGTTTAA
250596 TATGTT
1 TATGTT
250602 AAAATTTTAG
Statistics
Matches: 26, Mismatches: 6, Indels: 8
0.65 0.15 0.20
Matches are distributed among these distances:
13 4 0.15
14 6 0.23
16 6 0.23
17 10 0.38
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.62
Consensus pattern (17 bp):
TATGTTTTATTGTTTAA
Found at i:261481 original size:23 final size:23
Alignment explanation
Indices: 261453--261617 Score: 134
Period size: 23 Copynumber: 7.2 Consensus size: 23
261443 TTTAGGAGTT
** *
261453 ACAGAATATACCATAAAGGCTTC
1 ACAGAATACGCCACAAAGGCTTC
* *
261476 ATAGAATAGGCCACAAAGGC-TC
1 ACAGAATACGCCACAAAGGCTTC
* * *
261498 TACAGAATATGCCACAAAGTCTCC
1 -ACAGAATACGCCACAAAGGCTTC
* * * *
261522 ACAGAATATGCCATAAATGTTTC
1 ACAGAATACGCCACAAAGGCTTC
* * *
261545 ACAGAATACACCACAAATGCTCC
1 ACAGAATACGCCACAAAGGCTTC
* **
261568 ACAAAATACATCACAAAGGCTTC
1 ACAGAATACGCCACAAAGGCTTC
* *
261591 ACAGAATGCGCCATAAAGGCTTC
1 ACAGAATACGCCACAAAGGCTTC
261614 ACAG
1 ACAG
261618 GTAACTTACC
Statistics
Matches: 113, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
22 2 0.02
23 110 0.97
24 1 0.01
ACGTcount: A:0.41, C:0.25, G:0.15, T:0.19
Consensus pattern (23 bp):
ACAGAATACGCCACAAAGGCTTC
Done.