Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 67 of 210
Found at i:20074787 original size:19 final size:19
Alignment explanation
Indices: 20074765--20074819 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
20074755 CCACTGTCAC
20074765 CCACCGTAATAAAATTTGT
1 CCACCGTAATAAAATTTGT
* *
20074784 CCACCATAATTAAATTTGT
1 CCACCGTAATAAAATTTGT
* *
20074803 CCACCGAAATCAAATTT
1 CCACCGTAATAAAATTT
20074820 TTTATTAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (19 bp):
CCACCGTAATAAAATTTGT
Found at i:20075378 original size:16 final size:16
Alignment explanation
Indices: 20075357--20075406 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
20075347 TGGGATGGAA
20075357 AGGGAGTAAAAGTTTT
1 AGGGAGTAAAAGTTTT
***
20075373 AGGGAG--AAAGTGGG
1 AGGGAGTAAAAGTTTT
*
20075387 AGGGAGTAAAAATTTT
1 AGGGAGTAAAAGTTTT
20075403 AGGG
1 AGGG
20075407 GAAAATAAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 4
0.69 0.19 0.11
Matches are distributed among these distances:
14 11 0.44
16 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.40, T:0.22
Consensus pattern (16 bp):
AGGGAGTAAAAGTTTT
Found at i:20076110 original size:17 final size:17
Alignment explanation
Indices: 20076090--20076136 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
20076080 CACATTTTAT
20076090 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
20076107 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
20076125 A-TATTTATATTA
1 ATTATTTATATTA
20076137 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:20076581 original size:5 final size:5
Alignment explanation
Indices: 20076571--20076601 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
20076561 CTCGAAAATT
20076571 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
20076602 GAATGCTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:20076763 original size:9 final size:9
Alignment explanation
Indices: 20076751--20076779 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
20076741 GATATTCAAT
20076751 TTATTCGAA
1 TTATTCGAA
20076760 TTATTCGAA
1 TTATTCGAA
20076769 TTATTCGAA
1 TTATTCGAA
20076778 TT
1 TT
20076780 CGAAAACTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (9 bp):
TTATTCGAA
Found at i:20078319 original size:2 final size:2
Alignment explanation
Indices: 20078312--20078355 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
20078302 TGACAACCTA
20078312 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20078354 AT
1 AT
20078356 TACAATATGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20087152 original size:76 final size:76
Alignment explanation
Indices: 20087069--20087222 Score: 263
Period size: 76 Copynumber: 2.0 Consensus size: 76
20087059 AATAATTATA
**
20087069 ATTTTTTAAAATCTAGCGGTAAGAAATTTAAATATTAACATAAATAATATGTATCTTTATTAGGT
1 ATTTTTTAAAATCTAGCGGTAAGAAATTTAAATAACAACATAAATAATATGTATCTTTATTAGGT
* *
20087134 TCATGATTCAC
66 TCACGATTAAC
*
20087145 ATTTTTTAAAATCTAGCGGTAAGAAATTTAAATAACAACATAAATAATATTTATCTTTATTAGGT
1 ATTTTTTAAAATCTAGCGGTAAGAAATTTAAATAACAACATAAATAATATGTATCTTTATTAGGT
20087210 TCACGATTAAC
66 TCACGATTAAC
20087221 AT
1 AT
20087223 AAATTATTGT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.40
Consensus pattern (76 bp):
ATTTTTTAAAATCTAGCGGTAAGAAATTTAAATAACAACATAAATAATATGTATCTTTATTAGGT
TCACGATTAAC
Found at i:20087844 original size:16 final size:17
Alignment explanation
Indices: 20087816--20087849 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
20087806 TGACAATTCA
20087816 TTCCAATCTATTTATTT
1 TTCCAATCTATTTATTT
20087833 TTCCAA-CTATTTATTT
1 TTCCAATCTATTTATTT
20087849 T
1 T
20087850 CTCCCCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.59
Consensus pattern (17 bp):
TTCCAATCTATTTATTT
Found at i:20094992 original size:22 final size:23
Alignment explanation
Indices: 20094961--20095003 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
20094951 AAAAAAAATC
*
20094961 TGCTAATTTTATTTTTGTTTTAA
1 TGCTAATTTTATTGTTGTTTTAA
*
20094984 TGCT-ATTTTCTTGTTGTTTT
1 TGCTAATTTTATTGTTGTTTT
20095004 CTCCTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.14, C:0.07, G:0.12, T:0.67
Consensus pattern (23 bp):
TGCTAATTTTATTGTTGTTTTAA
Found at i:20098520 original size:22 final size:22
Alignment explanation
Indices: 20098492--20098533 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
20098482 CACCCTTCAA
20098492 AGTTCCAAGGCAGACTTTGACC
1 AGTTCCAAGGCAGACTTTGACC
*
20098514 AGTTCCAAGGCTGACTTTGA
1 AGTTCCAAGGCAGACTTTGA
20098534 TCAACTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (22 bp):
AGTTCCAAGGCAGACTTTGACC
Found at i:20105398 original size:7 final size:7
Alignment explanation
Indices: 20105386--20105420 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
20105376 TCATTCTACA
20105386 ATTTCAT
1 ATTTCAT
20105393 ATTTCAT
1 ATTTCAT
*
20105400 ATTTCAC
1 ATTTCAT
20105407 ATTTCAT
1 ATTTCAT
20105414 ATTTCAT
1 ATTTCAT
20105421 TTCACATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (7 bp):
ATTTCAT
Found at i:20105410 original size:21 final size:19
Alignment explanation
Indices: 20105386--20105431 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 19
20105376 TCATTCTACA
20105386 ATTTCATATTTCATATTTCAC
1 ATTTCATATTTC--ATTTCAC
20105407 ATTTCATATTTCATTTCAC
1 ATTTCATATTTCATTTCAC
20105426 ATTTCA
1 ATTTCA
20105432 CTTAAATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 13 0.52
21 12 0.48
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTCATATTTCATTTCAC
Found at i:20105428 original size:7 final size:7
Alignment explanation
Indices: 20105386--20105432 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
20105376 TCATTCTACA
*
20105386 ATTTCAT
1 ATTTCAC
*
20105393 ATTTCAT
1 ATTTCAC
20105400 ATTTCAC
1 ATTTCAC
*
20105407 ATTTCAT
1 ATTTCAC
20105414 ATTT--C
1 ATTTCAC
20105419 ATTTCAC
1 ATTTCAC
20105426 ATTTCAC
1 ATTTCAC
20105433 TTAAATTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
5 4 0.11
7 31 0.89
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (7 bp):
ATTTCAC
Found at i:20109581 original size:18 final size:19
Alignment explanation
Indices: 20109549--20109593 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
20109539 CCCCTATTTC
20109549 TAAAATTTTTATATTTT-TT
1 TAAAA-TTTTATATTTTATT
*
20109568 TAAAATTTTCTATTTTATT
1 TAAAATTTTATATTTTATT
*
20109587 TCAAATT
1 TAAAATT
20109594 GATCCCTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
TAAAATTTTATATTTTATT
Found at i:20116086 original size:23 final size:23
Alignment explanation
Indices: 20116055--20116119 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
20116045 TATTGAATTT
20116055 ATATATTTTAAAATTTTATAAAAA
1 ATAT-TTTTAAAATTTTATAAAAA
* * *
20116079 ATATTTTTAAACTTTTTTAAAAT
1 ATATTTTTAAAATTTTATAAAAA
* *
20116102 A-ATTTTTACATTTTTATA
1 ATATTTTTAAAATTTTATA
20116120 TTTTTATAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 14 0.40
23 17 0.49
24 4 0.11
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATTTTTAAAATTTTATAAAAA
Found at i:20118026 original size:22 final size:22
Alignment explanation
Indices: 20117990--20118053 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
20117980 AAAATAGTGA
*
20117990 AAAACAATAAGAAAATAACAAC
1 AAAACAATAAAAAAATAACAAC
* * *
20118012 AAAATAATATAAAAAA-AGCAAG
1 AAAACAATA-AAAAAATAACAAC
*
20118034 AAAACAGTAAAAAAATAACA
1 AAAACAATAAAAAAATAACA
20118054 GTTTCTTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 6 0.18
22 22 0.67
23 5 0.15
ACGTcount: A:0.73, C:0.09, G:0.06, T:0.11
Consensus pattern (22 bp):
AAAACAATAAAAAAATAACAAC
Found at i:20129862 original size:23 final size:23
Alignment explanation
Indices: 20129818--20129862 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
20129808 GAATTTGACG
*
20129818 ATAATAGTTTATTAAATAAAAAA
1 ATAATAGTTTATTAAAAAAAAAA
* *
20129841 ATAATA-TTTTTTAAAAATAAAA
1 ATAATAGTTTATTAAAAAAAAAA
20129863 TAAAATAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
ATAATAGTTTATTAAAAAAAAAA
Found at i:20131416 original size:82 final size:82
Alignment explanation
Indices: 20131328--20131490 Score: 317
Period size: 82 Copynumber: 2.0 Consensus size: 82
20131318 ACCATAAACA
20131328 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTTAACTTAAATGAAATAAAAGCTTAAAAG
1 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTTAACTTAAATGAAATAAAAGCTTAAAAG
20131393 TAATAAAATAACTCTAG
66 TAATAAAATAACTCTAG
*
20131410 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTTAACTTGAATGAAATAAAAGCTTAAAAG
1 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTTAACTTAAATGAAATAAAAGCTTAAAAG
20131475 TAATAAAATAACTCTA
66 TAATAAAATAACTCTA
20131491 TATCCTAGAG
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.28
Consensus pattern (82 bp):
TAATTAAAATAACTACTAAAACACTCTCAATCACTCTTAACTTAAATGAAATAAAAGCTTAAAAG
TAATAAAATAACTCTAG
Found at i:20134322 original size:16 final size:16
Alignment explanation
Indices: 20134301--20134331 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20134291 GAGATTAAGA
*
20134301 AATTAAATTAATTAAT
1 AATTAAATCAATTAAT
20134317 AATTAAATCAATTAA
1 AATTAAATCAATTAA
20134332 ATTAGTATAA
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:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAAATCAATTAAT
Found at i:20148742 original size:28 final size:28
Alignment explanation
Indices: 20148697--20148752 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
20148687 ACGTATTCCC
20148697 AATTCATAAATGTTAGCTTGTGTGAGCA
1 AATTCATAAATGTTAGCTTGTGTGAGCA
20148725 AATTCATAAAT-TTCAGCTTGTGTGAGCA
1 AATTCATAAATGTT-AGCTTGTGTGAGCA
20148753 CTATAATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (28 bp):
AATTCATAAATGTTAGCTTGTGTGAGCA
Found at i:20155375 original size:5 final size:6
Alignment explanation
Indices: 20155356--20155385 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
20155346 CGAATGTGGC
20155356 TTTCTT TTTCTT TTTCTT TTTC-T TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
20155386 AGCTAGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTCTT
Found at i:20158923 original size:16 final size:17
Alignment explanation
Indices: 20158891--20158925 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20158881 TTTCTACTTA
*
20158891 ACATGTTTAAGTTCATT
1 ACATGATTAAGTTCATT
20158908 ACATGATTAA-TTCATT
1 ACATGATTAAGTTCATT
20158924 AC
1 AC
20158926 TTACACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (17 bp):
ACATGATTAAGTTCATT
Found at i:20162504 original size:14 final size:14
Alignment explanation
Indices: 20162485--20162514 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20162475 TTTTTTAATT
20162485 TTGAGTTAATCGAA
1 TTGAGTTAATCGAA
*
20162499 TTGAGTTATTCGAA
1 TTGAGTTAATCGAA
20162513 TT
1 TT
20162515 ATTCAAGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (14 bp):
TTGAGTTAATCGAA
Found at i:20162738 original size:18 final size:19
Alignment explanation
Indices: 20162704--20162739 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
20162694 AATAATTTTC
20162704 AAAATTCTAAATATTTATT
1 AAAATTCTAAATATTTATT
20162723 AAAATTCTAAAT-TTTAT
1 AAAATTCTAAATATTTAT
20162740 ATTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATTCTAAATATTTATT
Found at i:20162742 original size:24 final size:24
Alignment explanation
Indices: 20162714--20162760 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
20162704 AAAATTCTAA
*
20162714 ATATTTATT-AAAATTCTAAATTTT
1 ATATTT-TTAAAAATTATAAATTTT
20162738 ATATTTTTAAAAATTATAAATTT
1 ATATTTTTAAAAATTATAAATTT
20162761 AAAAAATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATTTTTAAAAATTATAAATTTT
Found at i:20165869 original size:21 final size:21
Alignment explanation
Indices: 20165843--20165882 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
20165833 AAAAAAATCA
*
20165843 ATTTTCATTTTAG-TTTGTATT
1 ATTTTC-TTATAGATTTGTATT
20165864 ATTTTCTTATAGATTTGTA
1 ATTTTCTTATAGATTTGTA
20165883 CCAATGGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (21 bp):
ATTTTCTTATAGATTTGTATT
Found at i:20190458 original size:22 final size:20
Alignment explanation
Indices: 20190412--20190464 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
20190402 AGGCCGGAGA
20190412 AGAGAAAGGGGGTGAGATAG
1 AGAGAAAGGGGGTGAGATAG
*
20190432 AGAGAAATGGGGTGAGATAG
1 AGAGAAAGGGGGTGAGATAG
*
20190452 AGAGAGAGGGGGT
1 AGAGAAAGGGGGT
20190465 TCAGCCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.51, T:0.11
Consensus pattern (20 bp):
AGAGAAAGGGGGTGAGATAG
Found at i:20190923 original size:6 final size:6
Alignment explanation
Indices: 20190914--20191082 Score: 135
Period size: 6 Copynumber: 28.2 Consensus size: 6
20190904 TTTAGTCCTG
* *
20190914 TTATTG TTATTG TTATT- TTCATTA TTATTA TTATTA TTATTA TTATTA
1 TTATTA TTATTA TTATTA TT-ATTA TTATTA TTATTA TTATTA TTATTA
* * *
20190962 TTATTA TTATTA TTATTA TTATCA TTACTA GTATTA TTATTA GTT-TTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA -TTATTA
** * ** ** * * * *
20191010 TTGCTA TTTTTA ACATTA TTATTA GAATTA TTATTA ATGTCA TTACTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* **
20191058 TTAATA TTATTA TTACCA TTATTA T
1 TTATTA TTATTA TTATTA TTATTA T
20191083 ATACATATAT
Statistics
Matches: 128, Mismatches: 31, Indels: 8
0.77 0.19 0.05
Matches are distributed among these distances:
5 4 0.03
6 120 0.94
7 4 0.03
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.59
Consensus pattern (6 bp):
TTATTA
Found at i:20191011 original size:15 final size:15
Alignment explanation
Indices: 20190914--20191082 Score: 135
Period size: 15 Copynumber: 11.3 Consensus size: 15
20190904 TTTAGTCCTG
* *
20190914 TTATTGTTATTGTTA
1 TTATTATTATTATTA
20190929 TT-TTCATTATTATTA
1 TTATT-ATTATTATTA
20190944 TTATTATTATTATTA
1 TTATTATTATTATTA
20190959 TTATTATTATTATTA
1 TTATTATTATTATTA
*
20190974 TTATTATTATCATTA
1 TTATTATTATTATTA
* *
20190989 CTAGTATTATTATTA
1 TTATTATTATTATTA
** *
20191004 GTT-TTATTGCTATTT
1 -TTATTATTATTATTA
**
20191019 TTAACATTATTATTA
1 TTATTATTATTATTA
** * *
20191034 GAATTATTATTAATG
1 TTATTATTATTATTA
* * *
20191049 TCATTACTATTAATA
1 TTATTATTATTATTA
**
20191064 TTATTATTACCATTA
1 TTATTATTATTATTA
20191079 TTAT
1 TTAT
20191083 ATACATATAT
Statistics
Matches: 119, Mismatches: 31, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
14 4 0.03
15 112 0.94
16 3 0.03
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.59
Consensus pattern (15 bp):
TTATTATTATTATTA
Found at i:20193200 original size:16 final size:16
Alignment explanation
Indices: 20193161--20193193 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
20193151 CGTTTGGTTC
20193161 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
20193177 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
20193193 G
1 G
20193194 GCGTAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.24
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:20193233 original size:45 final size:44
Alignment explanation
Indices: 20193182--20193273 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 44
20193172 ATAGAGCTGT
20193182 AATGGAATAGAGGCGTAATAGTAATTTAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGT-A-TTAATGTGTTTGGTTGAATGG
* *
20193227 AATGGAATGGAGGCGTAATAGTATTATTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGTATTAATGTGTTTGGTTGAATGG
20193271 AAT
1 AAT
20193274 AATGTTGTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 4 0.09
44 19 0.43
45 21 0.48
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGTATTAATGTGTTTGGTTGAATGG
Found at i:20193541 original size:12 final size:12
Alignment explanation
Indices: 20193524--20193566 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
20193514 TATAATACTA
20193524 TAAAATATAATT
1 TAAAATATAATT
*
20193536 TAAAATGATTATT
1 TAAAAT-ATAATT
*
20193549 ATTAAATATAATT
1 -TAAAATATAATT
20193562 TAAAA
1 TAAAA
20193567 AATATATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 10 0.40
13 10 0.40
14 5 0.20
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:20193587 original size:120 final size:121
Alignment explanation
Indices: 20193421--20193690 Score: 472
Period size: 120 Copynumber: 2.2 Consensus size: 121
20193411 TATTTTAACG
* *
20193421 TAATTATTATTAAATAT-ATTTTAATAATAATATATAATTTAATAAAATTCTTAATATTAAATAT
1 TAATTATTATTAAATATAATTTAAAAAATAATATATAATTTAATAAAATTCTTAATATTAAATAT
*
20193485 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAA
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTCAAAA
*
20193541 TGATTATTATTAAATATAATTTAAAAAAT-ATATATAATTTAATAAAATTCTTAATATTAAATAT
1 TAATTATTATTAAATATAATTTAAAAAATAATATATAATTTAATAAAATTCTTAATATTAAATAT
20193605 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTCAAAA
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTCAAAA
*
20193661 TAATTATTATTAAATATAGTTTAATAAAAT
1 TAATTATTATTAAATATAATTTAA-AAAAT
20193691 TCAATATAAT
Statistics
Matches: 142, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
120 128 0.90
121 14 0.10
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (121 bp):
TAATTATTATTAAATATAATTTAAAAAATAATATATAATTTAATAAAATTCTTAATATTAAATAT
TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTCAAAA
Found at i:20193625 original size:59 final size:61
Alignment explanation
Indices: 20193447--20193639 Score: 229
Period size: 61 Copynumber: 3.2 Consensus size: 61
20193437 TATTTTAATA
20193447 ATAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATC
1 ATAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATC
* * * * * *
20193508 ATAATATATAATACT-ATAAAA-T-ATAAT-TTAAAATGATTATTAT-TAAATATAATTTAAAA-
1 ATAATATATAAT-TTAATAAAATTCTTAATATT-AAAT-ATTCTTATATGAAT-TTA-CTAAAAT
*
20193567 A
61 C
20193568 AT-ATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATC
1 ATAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATC
20193628 ATAATATATAAT
1 ATAATATATAAT
20193640 ACTATAAAAT
Statistics
Matches: 106, Mismatches: 14, Indels: 24
0.74 0.10 0.17
Matches are distributed among these distances:
58 3 0.03
59 32 0.30
60 24 0.23
61 44 0.42
62 3 0.03
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (61 bp):
ATAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATC
Found at i:20193713 original size:99 final size:100
Alignment explanation
Indices: 20193572--20193752 Score: 303
Period size: 99 Copynumber: 1.8 Consensus size: 100
20193562 TAAAAAATAT
20193572 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTC-TAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
20193637 AATACTATAAAATATAATTCAAAATAATTATTATTAA
65 AATACTATAAAA-ATAATTCAAAATAATTATTATTAA
* * *
20193674 ATATAGTTTAATAAAATTC-AATA-TAATTATTCTTATATGAATTTACTAAAGTCATAATATATA
1 ATATAATTTAATAAAATTCTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATA
20193737 ATACTATAAAAATAAT
66 ATACTATAAAAATAAT
20193753 ATATAATCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
98 5 0.07
99 49 0.64
100 4 0.05
102 18 0.24
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.41
Consensus pattern (100 bp):
ATATAATTTAATAAAATTCTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATA
ATACTATAAAAATAATTCAAAATAATTATTATTAA
Found at i:20194977 original size:23 final size:23
Alignment explanation
Indices: 20194951--20194996 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
20194941 TGCATTAATG
20194951 TAAATAGCTATTT-AAATAAAAAA
1 TAAATA-CTATTTGAAATAAAAAA
* *
20194974 TAAATATTTTTTGAAATAAAAAA
1 TAAATACTATTTGAAATAAAAAA
20194997 AATATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (23 bp):
TAAATACTATTTGAAATAAAAAA
Found at i:20196145 original size:6 final size:6
Alignment explanation
Indices: 20196134--20196172 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
20196124 ATTTATTATT
20196134 AATGTG AATGTG AATGTG AATGTG AATGTG AATGTG AAT
1 AATGTG AATGTG AATGTG AATGTG AATGTG AATGTG AAT
20196173 ATCAATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (6 bp):
AATGTG
Found at i:20196403 original size:18 final size:18
Alignment explanation
Indices: 20196380--20196419 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
20196370 TTTTTTCGAG
*
20196380 ATTTTGATATTTACACTC
1 ATTTTGATATTTACACTA
20196398 ATTTTGATATTTACACTA
1 ATTTTGATATTTACACTA
20196416 ATTT
1 ATTT
20196420 ACTGTCAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (18 bp):
ATTTTGATATTTACACTA
Found at i:20200184 original size:14 final size:14
Alignment explanation
Indices: 20200165--20200193 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20200155 ACTTTTCTCA
20200165 GGGCTGCATCACTT
1 GGGCTGCATCACTT
20200179 GGGCTGCATCACTT
1 GGGCTGCATCACTT
20200193 G
1 G
20200194 TAACTTGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.28, G:0.31, T:0.28
Consensus pattern (14 bp):
GGGCTGCATCACTT
Found at i:20208748 original size:16 final size:16
Alignment explanation
Indices: 20208724--20208761 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
20208714 TTTGGTTCGC
* *
20208724 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
20208740 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
20208756 TGTAAT
1 TGTAAT
20208762 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:20208806 original size:45 final size:44
Alignment explanation
Indices: 20208740--20208830 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
20208730 GGATTAGAGG
*
20208740 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
20208785 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
20208829 TG
1 TG
20208831 GAATAGAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 18 0.44
45 23 0.56
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:20209165 original size:156 final size:157
Alignment explanation
Indices: 20208881--20209193 Score: 574
Period size: 156 Copynumber: 2.0 Consensus size: 157
20208871 CTAGAATACC
*
20208881 CTTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATT
1 CTTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATT
* *
20208946 ATTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAA
66 AATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAA
20209011 ATATATAATTTAA-AAAATTCTTAATA
131 ATATATAATTTAATAAAATTCTTAATA
*
20209037 CTTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATT
1 CTTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATT
*
20209102 AATATCAATAATAAATAATTTAATCGTATTTAAACATAATTATTATTAAATATATTATAATTAAA
66 AATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAA
20209167 ATATATAATTTAATAAAATTCTTAATA
131 ATATATAATTTAATAAAATTCTTAATA
20209194 ATTAATATTC
Statistics
Matches: 151, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
156 138 0.91
157 13 0.09
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
CTTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATT
AATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAA
ATATATAATTTAATAAAATTCTTAATA
Found at i:20209168 original size:16 final size:16
Alignment explanation
Indices: 20209131--20209172 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
20209121 TTAATCGTAT
*
20209131 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
20209147 TT-AAATATATTATAA
1 TTAAAATATATTATAA
20209162 TTAAAATATAT
1 TTAAAATATAT
20209173 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:20209179 original size:14 final size:15
Alignment explanation
Indices: 20209140--20209181 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
20209130 TTTAAACATA
*
20209140 ATTATTATTAAATAT
1 ATTATAATTAAATAT
20209155 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
20209169 A-TATAATTTAATA
1 ATTATAATTAAATA
20209182 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:20209419 original size:14 final size:15
Alignment explanation
Indices: 20209370--20209421 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
20209360 GTAAAATATA
20209370 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
20209385 TATTAAATATATTAT
1 AATTAAATATATTAT
20209400 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
20209413 AATTTAATA
1 AATTAAATA
20209422 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:20209556 original size:120 final size:120
Alignment explanation
Indices: 20209134--20209546 Score: 724
Period size: 120 Copynumber: 3.4 Consensus size: 120
20209124 ATCGTATTTA
20209134 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
20209199 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
20209254 AACATAATTATTGTTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
20209319 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
20209374 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
20209439 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAAA-TT
* * * *
20209494 GAA-ACAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
20209547 TAAAATAATT
Statistics
Matches: 283, Mismatches: 7, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
119 7 0.02
120 274 0.97
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:20209633 original size:24 final size:26
Alignment explanation
Indices: 20209587--20209634 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
20209577 TATGAATTTG
20209587 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAATAATAATTATTACA
*
20209613 TATAATTTAATA-AATAA-TATTA
1 TATAATTTAAAATAATAATTATTA
20209635 AATTTCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 5 0.24
26 11 0.52
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
TATAATTTAAAATAATAATTATTACA
Found at i:20209638 original size:92 final size:92
Alignment explanation
Indices: 20209542--20209770 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
20209532 TGATTTAATA
* * *
20209542 AAATTT-AAAATAATT-GTAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCGTAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
20209604 ATTATTACATATAATTTAATAAATAATATT
64 A-TATTAAATATAATTTAATAAATAATATT
* * * * *
20209634 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCGTAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
20209699 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAAATAATATT
* * *
20209724 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCGTAATAAT-AAAT-TATATTATATGAATTTA
20209771 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 81 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCGTAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAAATAATATT
Found at i:20213463 original size:48 final size:47
Alignment explanation
Indices: 20213429--20213611 Score: 294
Period size: 48 Copynumber: 3.8 Consensus size: 47
20213419 ATTTCTTGAT
*
20213429 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-TCCTTA
* *
20213477 TTTTAATAAAATATTAAAGTCCTTAATTTAATTATTGATTAGTCTTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-TCCTTA
20213525 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-TCCTTA
* *
20213573 TTTTAATGAAATATTAAAGTCTTTATTTTAATTATTGAT
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGAT
20213612 GTAATTATTT
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 128 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (47 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTATCCTTA
Found at i:20213469 original size:25 final size:25
Alignment explanation
Indices: 20213441--20213611 Score: 137
Period size: 25 Copynumber: 7.1 Consensus size: 25
20213431 TTAATAAAAT
20213441 ATTAAAGTCCTTATTTTAAATATTG
1 ATTAAAGTCCTTATTTTAAATATTG
* *
20213466 ATT--AGTCCTTATTTTAATAAAAT-
1 ATTAAAGTCCTTATTTTAA-ATATTG
* *
20213489 ATTAAAGTCCTTAATTTAATTATTG
1 ATTAAAGTCCTTATTTTAAATATTG
* * *
20213514 ATT--AGTCTTTATTTTAATAAAAT-
1 ATTAAAGTCCTTATTTTAA-ATATTG
*
20213537 ATTAAAGTCCTTATTTTAATTATTG
1 ATTAAAGTCCTTATTTTAAATATTG
*
20213562 ATT--AGTCCTTATTTT-AATGAAAT-
1 ATTAAAGTCCTTATTTTAAAT--ATTG
* *
20213585 ATTAAAGTCTTTATTTTAATTATTG
1 ATTAAAGTCCTTATTTTAAATATTG
20213610 AT
1 AT
20213612 GTAATTATTT
Statistics
Matches: 112, Mismatches: 20, Indels: 28
0.70 0.12 0.17
Matches are distributed among these distances:
22 2 0.02
23 47 0.42
24 13 0.12
25 48 0.43
26 2 0.02
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (25 bp):
ATTAAAGTCCTTATTTTAAATATTG
Found at i:20213579 original size:23 final size:24
Alignment explanation
Indices: 20213445--20213611 Score: 148
Period size: 23 Copynumber: 7.0 Consensus size: 24
20213435 TAAAATATTA
*
20213445 AAGTCCTTATTTTAAATATTGATT
1 AAGTCCTTATTTTAATTATTGATT
* *
20213469 -AGTCCTTATTTTAATAAAAT-ATT
1 AAGTCCTTATTTTAAT-TATTGATT
*
20213492 AAAGTCCTTAATTTAATTATTGATT
1 -AAGTCCTTATTTTAATTATTGATT
* * *
20213517 -AGTCTTTATTTTAATAAAAT-ATT
1 AAGTCCTTATTTTAAT-TATTGATT
20213540 AAAGTCCTTATTTTAATTATTGATT
1 -AAGTCCTTATTTTAATTATTGATT
* *
20213565 -AGTCCTTATTTTAATGAAAT-ATT
1 AAGTCCTTATTTTAAT-TATTGATT
*
20213588 AAAGTCTTTATTTTAATTATTGAT
1 -AAGTCCTTATTTTAATTATTGAT
20213612 GTAATTATTT
Statistics
Matches: 113, Mismatches: 18, Indels: 23
0.73 0.12 0.15
Matches are distributed among these distances:
23 51 0.45
24 12 0.11
25 50 0.44
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (24 bp):
AAGTCCTTATTTTAATTATTGATT
Found at i:20213593 original size:96 final size:96
Alignment explanation
Indices: 20213429--20213611 Score: 330
Period size: 96 Copynumber: 1.9 Consensus size: 96
20213419 ATTTCTTGAT
20213429 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
20213494 AGTCCTTAATTTAATTATTGATTAGTCTTTA
66 AGTCCTTAATTTAATTATTGATTAGTCTTTA
* *
20213525 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATGAAATATTAA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
* *
20213590 AGTCTTTATTTTAATTATTGAT
66 AGTCCTTAATTTAATTATTGAT
20213612 GTAATTATTT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 83 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (96 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
AGTCCTTAATTTAATTATTGATTAGTCTTTA
Found at i:20215901 original size:5 final size:5
Alignment explanation
Indices: 20215891--20215916 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20215881 AAAGAGAGTT
20215891 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
20215917 AAGAGAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:20218075 original size:19 final size:20
Alignment explanation
Indices: 20218049--20218094 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
20218039 AAAAAAAGAA
*
20218049 TCAAAATAATTATTAAAATT
1 TCAAAATAATTATAAAAATT
*
20218069 T-AAAATATTTATAAAAATT
1 TCAAAATAATTATAAAAATT
20218088 TCAAAAT
1 TCAAAAT
20218095 TCATATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (20 bp):
TCAAAATAATTATAAAAATT
Found at i:20218141 original size:21 final size:20
Alignment explanation
Indices: 20218099--20218159 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
20218089 CAAAATTCAT
*
20218099 ATTTTTAAGAAAAATTATAAA
1 ATTTTTAA-AAAAATTAAAAA
*
20218120 ATTTTTAAAAAATTCTAAAAA
1 ATTTTTAAAAAAAT-TAAAAA
* * *
20218141 ATATATAAAAAAGTTAAAA
1 ATTTTTAAAAAAATTAAAA
20218160 TTTTAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 10 0.29
21 24 0.71
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (20 bp):
ATTTTTAAAAAAATTAAAAA
Found at i:20218953 original size:6 final size:6
Alignment explanation
Indices: 20218945--20218991 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
20218935 ATTTTTCAAG
* *
20218945 AAAACG AAAACG AAAACA AAAACA AAAACA AAAACA AAAACA AAAAC
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAAC
20218992 GACTATTTCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.79, C:0.17, G:0.04, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:20230389 original size:16 final size:18
Alignment explanation
Indices: 20230368--20230411 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
20230358 TTTAATATGT
20230368 TATAAAT-T-ACATAATA
1 TATAAATATAACATAATA
*
20230384 TATAAATATAATATAATA
1 TATAAATATAACATAATA
*
20230402 TATTAATATA
1 TATAAATATA
20230412 TTATAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 7 0.29
17 1 0.04
18 16 0.67
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
TATAAATATAACATAATA
Found at i:20230401 original size:18 final size:18
Alignment explanation
Indices: 20230378--20230417 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
20230368 TATAAATTAC
20230378 ATAATATATAAATATAAT
1 ATAATATATAAATATAAT
* *
20230396 ATAATATATTAATATATT
1 ATAATATATAAATATAAT
20230414 ATAA
1 ATAA
20230418 ATTTAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAATATATAAATATAAT
Found at i:20232370 original size:32 final size:32
Alignment explanation
Indices: 20232331--20232398 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
20232321 TTATATAAAT
* * *
20232331 GTTACATTTTTGTCACTTATCTGTTAACTTCC
1 GTTACATTTTGGCCACTTATCCGTTAACTTCC
20232363 GTTACATTTTGGCCACTTATCCGTTAACTTCC
1 GTTACATTTTGGCCACTTATCCGTTAACTTCC
20232395 GTTA
1 GTTA
20232399 AGATGGTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.19, C:0.24, G:0.12, T:0.46
Consensus pattern (32 bp):
GTTACATTTTGGCCACTTATCCGTTAACTTCC
Found at i:20244904 original size:20 final size:20
Alignment explanation
Indices: 20244879--20244918 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
20244869 CCCCTATAGG
*
20244879 ACACTTGTCAACTCTTTACT
1 ACACTTGCCAACTCTTTACT
20244899 ACACTTGCCAACTCTTTACT
1 ACACTTGCCAACTCTTTACT
20244919 CTGCTTCTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.33, G:0.05, T:0.38
Consensus pattern (20 bp):
ACACTTGCCAACTCTTTACT
Found at i:20249551 original size:20 final size:20
Alignment explanation
Indices: 20249528--20249570 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
20249518 AGTCCCAAAA
20249528 TTATTATTCTATAAAT-TTTT
1 TTATT-TTCTATAAATATTTT
* *
20249548 TTATTTTCTTTATATATTTT
1 TTATTTTCTATAAATATTTT
20249568 TTA
1 TTA
20249571 AAAAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATTTTCTATAAATATTTT
Found at i:20249601 original size:27 final size:26
Alignment explanation
Indices: 20249560--20249622 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
20249550 ATTTTCTTTA
* *
20249560 TATATTTTTTAAAAAATTA-AAATTTT
1 TATAATTTTTAAAAAAATATAAA-TTT
20249586 TATAATTTTTAAAAAAATATAAATTT
1 TATAATTTTTAAAAAAATATAAATTT
*
20249612 TAGAATTTTTA
1 TATAATTTTTA
20249623 TAAATATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 30 0.91
27 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
TATAATTTTTAAAAAAATATAAATTT
Found at i:20249624 original size:18 final size:18
Alignment explanation
Indices: 20249603--20249646 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
20249593 TTTAAAAAAA
20249603 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAG-ATTTT
*
20249621 TATAAATATTTTGATTTT
1 TATAAATATTTAGATTTT
20249639 TA-AAATAT
1 TATAAATAT
20249647 ATTTTGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 6 0.25
18 14 0.58
19 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
TATAAATATTTAGATTTT
Found at i:20249648 original size:19 final size:20
Alignment explanation
Indices: 20249608--20249679 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
20249598 AAAAATATAA
*
20249608 ATTTTAGAATTTTTATAA-AT
1 ATTTT-GAATTTTTAAAATAT
20249628 ATTTTG-ATTTTTAAAATAT
1 ATTTTGAATTTTTAAAATAT
**
20249647 ATTTTGAAAATTTAAAATAT
1 ATTTTGAATTTTTAAAATAT
20249667 ATTTTGAATTTTT
1 ATTTTGAATTTTT
20249680 TTTATAATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
18 9 0.20
19 9 0.20
20 27 0.60
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAATAT
Found at i:20253548 original size:19 final size:19
Alignment explanation
Indices: 20253524--20253566 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
20253514 TTTTATATTT
20253524 AAAATTAATA-AAAATGT-TA
1 AAAATT-ATAGAAAAT-TATA
20253543 AAAATTATAGAAAATTATA
1 AAAATTATAGAAAATTATA
20253562 AAAAT
1 AAAAT
20253567 ATTTAAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AAAATTATAGAAAATTATA
Found at i:20253556 original size:10 final size:9
Alignment explanation
Indices: 20253524--20253583 Score: 59
Period size: 10 Copynumber: 6.3 Consensus size: 9
20253514 TTTTATATTT
20253524 AAAATTAATA
1 AAAATT-ATA
20253534 AAAATGT-TA
1 AAAAT-TATA
20253543 AAAATTATA
1 AAAATTATA
20253552 GAAAATTATA
1 -AAAATTATA
*
20253562 AAAATATTTA
1 AAAAT-TATA
*
20253572 AAGATTATA
1 AAAATTATA
20253581 AAA
1 AAA
20253584 TATATATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
8 1 0.02
9 19 0.45
10 21 0.50
11 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:20253556 original size:29 final size:29
Alignment explanation
Indices: 20253524--20253580 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
20253514 TTTTATATTT
20253524 AAAATTAATAAAAAT-GTTAAAAATTATAG
1 AAAATT-ATAAAAATAGTTAAAAATTATAG
* *
20253553 AAAATTATAAAAATATTTAAAGATTATA
1 AAAATTATAAAAATAGTTAAAAATTATA
20253581 AAATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAATTATAAAAATAGTTAAAAATTATAG
Found at i:20253564 original size:18 final size:19
Alignment explanation
Indices: 20253543--20253589 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
20253533 AAAAATGTTA
20253543 AAAATTATAGAAA-ATTAT
1 AAAATTATAGAAAGATTAT
* **
20253561 AAAAATATTTAAAGATTAT
1 AAAATTATAGAAAGATTAT
20253580 AAAATATATA
1 AAAAT-TATA
20253590 TATATAAGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 10 0.45
19 9 0.41
20 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
AAAATTATAGAAAGATTAT
Found at i:20253749 original size:30 final size:28
Alignment explanation
Indices: 20253715--20253781 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 28
20253705 TATAATTATG
*
20253715 AAAAAATTGTAAAATT-TGTGAAAATATATT
1 AAAAAATTG-AAAATTAT-TAAAAATAT-TT
*
20253745 AAAAATATAGAAAATTATTAAAAATATTT
1 AAAAA-ATTGAAAATTATTAAAAATATTT
20253774 AAAAAATT
1 AAAAAATT
20253782 AAGTTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
28 2 0.06
29 7 0.22
30 19 0.59
31 4 0.12
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (28 bp):
AAAAAATTGAAAATTATTAAAAATATTT
Found at i:20253752 original size:9 final size:9
Alignment explanation
Indices: 20253735--20253810 Score: 59
Period size: 10 Copynumber: 8.1 Consensus size: 9
20253725 AAAATTTGTG
20253735 AAAATATATT
1 AAAA-ATATT
20253745 AAAAATA-T
1 AAAAATATT
20253753 AGAAAATTATT
1 A-AAAA-TATT
20253764 AAAAATATTT
1 AAAAATA-TT
20253774 AAAAA-ATT
1 AAAAATATT
*
20253782 AAGTTAAT-TT
1 AA--AAATATT
*
20253792 AAAATTATT
1 AAAAATATT
20253801 AAAAATATT
1 AAAAATATT
20253810 A
1 A
20253811 TTAAAAAATA
Statistics
Matches: 54, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
8 8 0.15
9 21 0.39
10 23 0.43
11 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (9 bp):
AAAAATATT
Found at i:20253765 original size:19 final size:20
Alignment explanation
Indices: 20253734--20253771 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
20253724 TAAAATTTGT
20253734 GAAAATATATTAAAAATATA
1 GAAAATATATTAAAAATATA
20253754 GAAAAT-TATTAAAAATAT
1 GAAAATATATTAAAAATAT
20253772 TTAAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
GAAAATATATTAAAAATATA
Found at i:20253812 original size:12 final size:11
Alignment explanation
Indices: 20253735--20253819 Score: 54
Period size: 11 Copynumber: 7.5 Consensus size: 11
20253725 AAAATTTGTG
20253735 AAAATATATT-A
1 AAAAT-TATTAA
*
20253746 AAAA-TA-TAG
1 AAAATTATTAA
20253755 AAAATTATT-A
1 AAAATTATTAA
20253765 AAAA-TATTTAA
1 AAAATTA-TTAA
20253776 AAAATTAAGTTAA
1 AAAATT-A-TTAA
20253789 TTTAAAATTATTAA
1 ---AAAATTATTAA
20253803 AAATATTATTAA
1 AAA-ATTATTAA
20253815 AAAAT
1 AAAAT
20253820 AAAAATCATA
Statistics
Matches: 60, Mismatches: 3, Indels: 22
0.71 0.04 0.26
Matches are distributed among these distances:
8 1 0.02
9 8 0.13
10 8 0.13
11 15 0.25
12 12 0.20
13 5 0.08
14 4 0.07
15 1 0.02
16 6 0.10
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (11 bp):
AAAATTATTAA
Found at i:20253832 original size:37 final size:36
Alignment explanation
Indices: 20253742--20253832 Score: 89
Period size: 37 Copynumber: 2.4 Consensus size: 36
20253732 GTGAAAATAT
20253742 ATTAA-AAATATAGAAAATTATTAAAAATATTTAAAAA
1 ATTAAGAAATAT--AAAATTATTAAAAATATTTAAAAA
* *
20253779 ATTAAGTTAATTTAAAATTATTAAAAATATTATTAAAAA
1 ATTAAG-AAATATAAAATTATTAAAAATA-T-TTAAAAA
20253818 A-TAA-AAATCATAAAA
1 ATTAAGAAAT-ATAAAA
20253833 ACCAATTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
36 3 0.07
37 26 0.58
38 4 0.09
39 12 0.27
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (36 bp):
ATTAAGAAATATAAAATTATTAAAAATATTTAAAAA
Found at i:20253879 original size:56 final size:57
Alignment explanation
Indices: 20253733--20253889 Score: 159
Period size: 56 Copynumber: 2.8 Consensus size: 57
20253723 GTAAAATTTG
* *
20253733 TGAAAATATATTAAAAATATAGAAAATTATTAAAAATATTTAAAAAATTAAGTTAAT
1 TGAAAATATATTAAAAATATAGAAAAATATTAAAAATATTAAAAAAATTAAGTTAAT
* *
20253790 TTAAAAT-TATTAAAAATATTATTAAAAA-A-TAAAAATCA-TAAAAACCAATT-A-TTAA-
1 TGAAAATATATTAAAAATA-TA-GAAAAATATTAAAAAT-ATTAAAAA--AATTAAGTTAAT
*
20253845 TGAAAGATAT-TTAAAAATATAGAAAAATATTAAAATTATTAAAAA
1 TGAAA-ATATATTAAAAATATAGAAAAATATTAAAAATATTAAAAA
20253890 TTGATTTAAT
Statistics
Matches: 83, Mismatches: 7, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
54 5 0.06
55 8 0.10
56 50 0.60
57 12 0.14
58 8 0.10
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (57 bp):
TGAAAATATATTAAAAATATAGAAAAATATTAAAAATATTAAAAAAATTAAGTTAAT
Found at i:20253992 original size:41 final size:38
Alignment explanation
Indices: 20253918--20253996 Score: 95
Period size: 41 Copynumber: 2.0 Consensus size: 38
20253908 ATATTTTTAT
*
20253918 AATTTTATATATATTTATAATTTCTGCACTTTAAAATA
1 AATTTTATATATATTTATAATTTCTACACTTTAAAATA
* * *
20253956 AATTTTATAATATTTTTAATAAATTTCTATATTTTAAAATA
1 AATTTTAT-ATATATTT-AT-AATTTCTACACTTTAAAATA
20253997 TTTTTAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 8 0.24
39 7 0.21
40 2 0.06
41 17 0.50
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (38 bp):
AATTTTATATATATTTATAATTTCTACACTTTAAAATA
Found at i:20254068 original size:20 final size:19
Alignment explanation
Indices: 20254036--20254079 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
20254026 AATATTTTGT
* *
20254036 ATTTTTAATATTTTTTATA
1 ATTTTTAATATTTATAATA
*
20254055 ATTTTTAGTCATTTATAATA
1 ATTTTTAAT-ATTTATAATA
20254075 ATTTT
1 ATTTT
20254080 ATAAGGTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTTAATATTTATAATA
Found at i:20274003 original size:29 final size:26
Alignment explanation
Indices: 20273971--20274023 Score: 70
Period size: 29 Copynumber: 1.9 Consensus size: 26
20273961 TCTGAAAGTA
*
20273971 TTTATTTATTTTTGAATTAATTTTTTATT
1 TTTATATATTTTT-AATT--TTTTTTATT
20274000 TTTATATATTTTTAATTTTTTTTA
1 TTTATATATTTTTAATTTTTTTTA
20274024 GAATTAGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
28 4 0.17
29 12 0.52
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (26 bp):
TTTATATATTTTTAATTTTTTTTATT
Found at i:20275725 original size:13 final size:13
Alignment explanation
Indices: 20275707--20275757 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
20275697 AGTTCTTCAT
*
20275707 TGCTTTTGGGAAG
1 TGCTTTTGAGAAG
* *
20275720 TGCTTTTCAAAAG
1 TGCTTTTGAGAAG
20275733 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
20275746 TACTTTTGAGAA
1 TGCTTTTGAGAA
20275758 ATTTGAGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:20280643 original size:45 final size:45
Alignment explanation
Indices: 20280574--20280794 Score: 309
Period size: 45 Copynumber: 4.9 Consensus size: 45
20280564 TATGAAACGA
* *
20280574 TATAAACGAAAAGGAAAAGGCCATAGTTGAAAGATACTATGGCAT
1 TATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCAT
20280619 TATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCAT
1 TATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCAT
* *
20280664 TATAATCGAAAAGGAAAAGACCATAGTTGAAAGAAACTATGACAT
1 TATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCAT
* * * *
20280709 TGTAATCAAAAAGGAAAAGATCATAGTTGAAAGATAATATGGCAT
1 TATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCAT
** * * *
20280754 TA-AATAAAAAATGAAAAAAACAATAGTTGAAAGATACTATG
1 TATAATCGAAAA-GGAAAAGACCATAGTTGAAAGATACTATG
20280795 ACATCGTTTG
Statistics
Matches: 158, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
44 8 0.05
45 150 0.95
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.22
Consensus pattern (45 bp):
TATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCAT
Found at i:20282876 original size:21 final size:20
Alignment explanation
Indices: 20282812--20282876 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
20282802 TCGTCTATCA
20282812 ATTATTTATG-TGTTTATTTT
1 ATTATTTATGTTGTTTA-TTT
*
20282832 ATTTATTTATAATCTGTTTA-TT
1 A-TTATTTAT-GT-TGTTTATTT
20282854 ATTATTTATGTTTGTTTATTT
1 ATTATTTATG-TTGTTTATTT
20282875 AT
1 AT
20282877 ATCTTAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
20 7 0.19
21 21 0.57
22 3 0.08
24 6 0.16
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.68
Consensus pattern (20 bp):
ATTATTTATGTTGTTTATTT
Found at i:20299648 original size:22 final size:22
Alignment explanation
Indices: 20299595--20299637 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
20299585 TTTATTGTTC
20299595 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
20299617 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
20299638 TAGCCATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:20304188 original size:24 final size:22
Alignment explanation
Indices: 20304161--20304220 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 22
20304151 TTTTTAAAAT
* *
20304161 TTTAAAAATAAAATGATTAGATTC
1 TTTAAAAATAAAAAGATTA-A-AC
20304185 TTTAAATAA-AAAAAGATTAAAC
1 TTTAAA-AATAAAAAGATTAAAC
*
20304207 TTTAAATATAAAAA
1 TTTAAAAATAAAAA
20304221 AATATAGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 1 0.03
22 12 0.39
23 1 0.03
24 15 0.48
25 2 0.06
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.33
Consensus pattern (22 bp):
TTTAAAAATAAAAAGATTAAAC
Found at i:20305006 original size:2 final size:2
Alignment explanation
Indices: 20304999--20305039 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
20304989 ATAAATTGAA
20304999 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20305040 AAGTTCAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20307513 original size:4 final size:4
Alignment explanation
Indices: 20307504--20307528 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
20307494 TTTTGACATT
20307504 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
20307529 AACACTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:20311858 original size:14 final size:14
Alignment explanation
Indices: 20311841--20311893 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
20311831 CTCCACCGGA
20311841 CCACCACCACCAAT
1 CCACCACCACCAAT
* *
20311855 CCACCTCCACCGGA-
1 CCACCACCACC-AAT
20311869 CCACCACCACCAAT
1 CCACCACCACCAAT
*
20311883 CCACCTCCACC
1 CCACCACCACC
20311894 TCCGGTCCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 1 0.03
14 30 0.94
15 1 0.03
ACGTcount: A:0.28, C:0.60, G:0.04, T:0.08
Consensus pattern (14 bp):
CCACCACCACCAAT
Found at i:20311861 original size:28 final size:28
Alignment explanation
Indices: 20311829--20311893 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
20311819 CAATTCGAAG
20311829 ACCTCCACCGGACCACCACCACCAATCC
1 ACCTCCACCGGACCACCACCACCAATCC
20311857 ACCTCCACCGGACCACCACCACCAATCC
1 ACCTCCACCGGACCACCACCACCAATCC
20311885 ACCTCCACC
1 ACCTCCACC
20311894 TCCGGTCCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.28, C:0.58, G:0.06, T:0.08
Consensus pattern (28 bp):
ACCTCCACCGGACCACCACCACCAATCC
Found at i:20313463 original size:14 final size:14
Alignment explanation
Indices: 20313444--20313470 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20313434 TTAAAAAAAT
20313444 TTAAGTTTGATTTA
1 TTAAGTTTGATTTA
20313458 TTAAGTTTGATTT
1 TTAAGTTTGATTT
20313471 TAAACCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (14 bp):
TTAAGTTTGATTTA
Found at i:20314782 original size:45 final size:45
Alignment explanation
Indices: 20314718--20314806 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
20314708 ATTGGGAAAT
20314718 TGTTCGAAGAATTATAAAAGTATTAGAGCCTTTTTATCATCTTAA
1 TGTTCGAAGAATTATAAAAGTATTAGAGCCTTTTTATCATCTTAA
20314763 TGTTCGAAGAATTATAAAAGTATTAGAGCCTTTTTATCATCTTA
1 TGTTCGAAGAATTATAAAAGTATTAGAGCCTTTTTATCATCTTA
20314807 CATTGAAGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.40
Consensus pattern (45 bp):
TGTTCGAAGAATTATAAAAGTATTAGAGCCTTTTTATCATCTTAA
Found at i:20315701 original size:15 final size:14
Alignment explanation
Indices: 20315683--20315712 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
20315673 AATTCAATAC
20315683 ATATATA-TTAAAT
1 ATATATATTTAAAT
20315696 ATATATATTTAAAT
1 ATATATATTTAAAT
20315710 ATA
1 ATA
20315713 ATAAGTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATATTTAAAT
Found at i:20316099 original size:2 final size:2
Alignment explanation
Indices: 20316092--20316120 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20316082 ATAACCATAA
20316092 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20316121 AATTATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20316436 original size:13 final size:13
Alignment explanation
Indices: 20316418--20316445 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20316408 ATCGTTTGTG
20316418 TATATATATAATA
1 TATATATATAATA
20316431 TATATATATAATA
1 TATATATATAATA
20316444 TA
1 TA
20316446 CTCATTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATATATAATA
Found at i:20316945 original size:41 final size:41
Alignment explanation
Indices: 20316888--20316990 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
20316878 TGATTCGATA
* * * *
20316888 CACCGGCTTTTAGCCTGCTAGACCTATAGTCCGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
* * * *
20316929 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
20316970 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
20316991 GCACATAGCC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
Found at i:20317004 original size:41 final size:41
Alignment explanation
Indices: 20316928--20317005 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
20316918 CCGAAATGTA
** *
20316928 TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTATT
* *
20316969 TCACCGGCATTAAGCCTGCTAGGCACATAGCCTGAAT
1 TCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAAT
20317006 AACTCAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTATT
Found at i:20318106 original size:13 final size:13
Alignment explanation
Indices: 20318088--20318112 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20318078 TCAAACTATC
20318088 AAATTTTCACACG
1 AAATTTTCACACG
20318101 AAATTTTCACAC
1 AAATTTTCACAC
20318113 ATATAACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:20319271 original size:16 final size:19
Alignment explanation
Indices: 20319245--20319282 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
20319235 TTAATTTAAA
20319245 TAAATTATTTTT-TCAA-T
1 TAAATTATTTTTCTCAACT
20319262 TAAA-TATTTTTCTCAACT
1 TAAATTATTTTTCTCAACT
20319280 TAA
1 TAA
20319283 TTCTAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 8 0.42
18 4 0.21
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (19 bp):
TAAATTATTTTTCTCAACT
Found at i:20323858 original size:21 final size:21
Alignment explanation
Indices: 20323834--20323876 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20323824 ATGAATTATT
*
20323834 TATGTTATATATGTATTAATG
1 TATGTAATATATGTATTAATG
* *
20323855 TATGTAATGTATGTTTTAATG
1 TATGTAATATATGTATTAATG
20323876 T
1 T
20323877 TTCGTTTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.53
Consensus pattern (21 bp):
TATGTAATATATGTATTAATG
Found at i:20333155 original size:22 final size:21
Alignment explanation
Indices: 20333125--20333170 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
20333115 ATTCAACTAT
* * *
20333125 ATTTTAAAAACAAAATGGAACC
1 ATTTGAAAAA-AAAAAGGAAAC
20333147 ATTTGAAAAAAAAAAGGAAAC
1 ATTTGAAAAAAAAAAGGAAAC
20333168 ATT
1 ATT
20333171 ATGTTATTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.59, C:0.09, G:0.11, T:0.22
Consensus pattern (21 bp):
ATTTGAAAAAAAAAAGGAAAC
Found at i:20338908 original size:16 final size:16
Alignment explanation
Indices: 20338887--20338924 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
20338877 AATAGTTTCG
*
20338887 GATACAGAGCA-ATTCA
1 GATACACAGCAGA-TCA
20338903 GATACACAGCAGATCA
1 GATACACAGCAGATCA
20338919 GATACA
1 GATACA
20338925 AAAACAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.16
Consensus pattern (16 bp):
GATACACAGCAGATCA
Found at i:20341696 original size:113 final size:113
Alignment explanation
Indices: 20341553--20341775 Score: 401
Period size: 113 Copynumber: 2.0 Consensus size: 113
20341543 AAAAGCGAAT
* *
20341553 CTCTATCTGTGATAAGCAAAATCAAGATTTCATGTAACCTCACAATCTTAGACACGTACAGTTTA
1 CTCTATCCGTGATAAGCAAAATCAAGATTTCATGTAACCTCACAATCTTAGACACGTACAATTTA
*
20341618 GCTAACCTCTATAGCAAATAATCAGTTTTGATTAGAAGAAAATGTAAC
66 GCTAACCTCTATAGCAAATAATCAGTTCTGATTAGAAGAAAATGTAAC
*
20341666 CTCTATCCGTGATAAGCAAAATCGAGATTTCATGTAACCTCACAATCTTAGACACGTACAATTTA
1 CTCTATCCGTGATAAGCAAAATCAAGATTTCATGTAACCTCACAATCTTAGACACGTACAATTTA
*
20341731 GCTAACCTCTATAGCAAATAATCGGTTCTGATTAGAAGAAAATGT
66 GCTAACCTCTATAGCAAATAATCAGTTCTGATTAGAAGAAAATGT
20341776 GTAGACTTGG
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 105 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (113 bp):
CTCTATCCGTGATAAGCAAAATCAAGATTTCATGTAACCTCACAATCTTAGACACGTACAATTTA
GCTAACCTCTATAGCAAATAATCAGTTCTGATTAGAAGAAAATGTAAC
Found at i:20342951 original size:120 final size:121
Alignment explanation
Indices: 20342730--20342976 Score: 415
Period size: 120 Copynumber: 2.0 Consensus size: 121
20342720 TGCCAGAACG
*
20342730 AACTTGAGCTTCTCAAAGCTCGACTGATACTCCTCAGACCACCTGAATAGGGCATTCTTACGCAG
1 AACTTGAGCTTCTCAAAGCTCAACTGATACTCCTCAGACCACCTGAATAGGGCATTCTTACGCAG
* * * *
20342795 TAACTTAGTCATGGGAGATACAATCAGGGAGAATCCCTTGATAAACTTCTAGTAGT
66 TAACTTAGTCATGGGAGATACAATCAGGGAGAATCCCTCGACAAACCTCCAGTAGT
* *
20342851 AACTTGA-CTTCTTAAAGCTCAACTGATACTCCTCAGACCACCTGAATGGGGCATTCTTACGCAG
1 AACTTGAGCTTCTCAAAGCTCAACTGATACTCCTCAGACCACCTGAATAGGGCATTCTTACGCAG
*
20342915 TAACTTAGTCATGGGAGATACAATCAGGGAGAATCCCTCGACAAACCTCCGGTAGT
66 TAACTTAGTCATGGGAGATACAATCAGGGAGAATCCCTCGACAAACCTCCAGTAGT
20342971 AACTTG
1 AACTTG
20342977 CTAACCCGAG
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
120 111 0.94
121 7 0.06
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (121 bp):
AACTTGAGCTTCTCAAAGCTCAACTGATACTCCTCAGACCACCTGAATAGGGCATTCTTACGCAG
TAACTTAGTCATGGGAGATACAATCAGGGAGAATCCCTCGACAAACCTCCAGTAGT
Found at i:20345510 original size:19 final size:19
Alignment explanation
Indices: 20345486--20345543 Score: 116
Period size: 19 Copynumber: 3.1 Consensus size: 19
20345476 TGTGACCCTC
20345486 ATCCACGACTTCCTTGTGA
1 ATCCACGACTTCCTTGTGA
20345505 ATCCACGACTTCCTTGTGA
1 ATCCACGACTTCCTTGTGA
20345524 ATCCACGACTTCCTTGTGA
1 ATCCACGACTTCCTTGTGA
20345543 A
1 A
20345544 CTCATAAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.31
Consensus pattern (19 bp):
ATCCACGACTTCCTTGTGA
Found at i:20346270 original size:16 final size:16
Alignment explanation
Indices: 20346249--20346290 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
20346239 TCACAATAGT
*
20346249 TTCAGATACAAAGTAG
1 TTCAGATACAAAGCAG
*
20346265 TTCAGATACATAGCAG
1 TTCAGATACAAAGCAG
*
20346281 ATCAGATACA
1 TTCAGATACA
20346291 GAAACAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.24
Consensus pattern (16 bp):
TTCAGATACAAAGCAG
Found at i:20350611 original size:21 final size:21
Alignment explanation
Indices: 20350578--20350621 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
20350568 CAAAAGAAGA
20350578 AGGAACACACCCAGTCCAATC
1 AGGAACACACCCAGTCCAATC
* *
20350599 AGGAGCACGCCCAGTCCAATC
1 AGGAACACACCCAGTCCAATC
20350620 AG
1 AG
20350622 CCAAACTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.36, G:0.20, T:0.09
Consensus pattern (21 bp):
AGGAACACACCCAGTCCAATC
Found at i:20355816 original size:16 final size:16
Alignment explanation
Indices: 20355795--20355847 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
20355785 TTGGTTCGCT
*
20355795 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGGC
20355811 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
20355827 GTAATGGAATTGAGGC
1 GTAATGGAATAGAGGC
20355843 GTAAT
1 GTAAT
20355848 AGCAATTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.06, G:0.34, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:20355878 original size:45 final size:44
Alignment explanation
Indices: 20355827--20355923 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
20355817 GAATAGAGGC
* *
20355827 GTAATGGAATTGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
20355872 GTAATGGAATAGAGACGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAGAATTCATGTGTTTGGTTGAAT
*
20355916 GGAATGGA
1 GTAATGGA
20355924 GGTGTAATAG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.52
45 21 0.46
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
GTAATGGAATAGAGACGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:20358061 original size:190 final size:190
Alignment explanation
Indices: 20357738--20358117 Score: 733
Period size: 190 Copynumber: 2.0 Consensus size: 190
20357728 TGCAGATCTA
20357738 TCAATGACATTTCAAATTTGTTTGCAGATGGAAAACAAAAAGAAAGACGATAACTATCTAGAGGT
1 TCAATGACATTTCAAATTTGTTTGCAGATGGAAAACAAAAAGAAAGACGATAACTATCTAGAGGT
*
20357803 TGTAATTGTTAAAAATTTACAATAAATGAGACTTTTTAATTAAAAGGCTCACCCTTGCCAATTTT
66 TGTAATTATTAAAAATTTACAATAAATGAGACTTTTTAATTAAAAGGCTCACCCTTGCCAATTTT
*
20357868 TGTGACTTAGCATCCACCCATCAATGGTAAAAAGAAGAAAGGACCAAGCGGATATCATGG
131 TGTGACTTAGCACCCACCCATCAATGGTAAAAAGAAGAAAGGACCAAGCGGATATCATGG
20357928 TCAATGACATTTCAAATTTGTTTGCAGATGGAAAACAAAAAGAAAGACGATAACTATCTAGAGGT
1 TCAATGACATTTCAAATTTGTTTGCAGATGGAAAACAAAAAGAAAGACGATAACTATCTAGAGGT
20357993 TGTAATTATTAAAAATTTACAATAAATGAGACTTTTTAATTAAAAGGCTCACCCTTGCCAATTTT
66 TGTAATTATTAAAAATTTACAATAAATGAGACTTTTTAATTAAAAGGCTCACCCTTGCCAATTTT
*
20358058 TGTGACTTAGCCCCCACCCATCAATGGTAAAAAGAAGAAAGGACCAAGCGGATATCATGG
131 TGTGACTTAGCACCCACCCATCAATGGTAAAAAGAAGAAAGGACCAAGCGGATATCATGG
20358118 CAGTTAAAAC
Statistics
Matches: 187, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
190 187 1.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (190 bp):
TCAATGACATTTCAAATTTGTTTGCAGATGGAAAACAAAAAGAAAGACGATAACTATCTAGAGGT
TGTAATTATTAAAAATTTACAATAAATGAGACTTTTTAATTAAAAGGCTCACCCTTGCCAATTTT
TGTGACTTAGCACCCACCCATCAATGGTAAAAAGAAGAAAGGACCAAGCGGATATCATGG
Found at i:20358418 original size:2 final size:2
Alignment explanation
Indices: 20358411--20358448 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
20358401 TGCTATATGC
20358411 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20358449 TCAATGCATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20360144 original size:17 final size:17
Alignment explanation
Indices: 20360122--20360162 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
20360112 ATTTGACACC
* *
20360122 CAAAAGTGATTTTGCAG
1 CAAAAGCGATTTTACAG
20360139 CAAAAGCGATTTTACAG
1 CAAAAGCGATTTTACAG
20360156 CAAAAGC
1 CAAAAGC
20360163 TCAAATTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (17 bp):
CAAAAGCGATTTTACAG
Found at i:20365265 original size:90 final size:88
Alignment explanation
Indices: 20365112--20365404 Score: 311
Period size: 90 Copynumber: 3.3 Consensus size: 88
20365102 CACCGGGTTA
* * * * * * *
20365112 TGGATAAACCACAAAAGTTACAGGTTAATACGCTGGCAAATGGTTGTGAGTACACAACGTAATTG
1 TGGATGAACCACCAATGTTGCAGGTTAATACGCTGTCAGATGGTTGTGA-TACACAACATAATTG
* **
20365177 CAGATGAAAGCAGCCAGAATGTGGG
65 CAGAT-AAAGCAGCCAAAAAATGGG
* *
20365202 TGGATGAACCACCAATGTTGCAGGTTAATACGTTGTTAGATGGTTGTGGATACACAACATAATTG
1 TGGATGAACCACCAATGTTGCAGGTTAATACGCTGTCAGATGGTTGT-GATACACAACATAATTG
**
20365267 CAGATAAGAGTTGCCAAAAAATGGG
65 CAGATAA-AGCAGCCAAAAAATGGG
* * * *
20365292 TGGATGAACCACCAATGTTGTAGGTTAATATGCTGTCAGATGGTTGTGAAAGCACAACATATTTG
1 TGGATGAACCACCAATGTTGCAGGTTAATACGCTGTCAGATGGTTGTGATA-CACAACATAATTG
* **
20365357 CAGATAAAAGCTA-CCAAATAATCTG
65 CAGAT-AAAGC-AGCCAAAAAATGGG
20365382 TGGATGAACCACCAGA-GTTGCAG
1 TGGATGAACCACCA-ATGTTGCAG
20365405 ATTATTAATC
Statistics
Matches: 171, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
89 5 0.03
90 161 0.94
91 5 0.03
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (88 bp):
TGGATGAACCACCAATGTTGCAGGTTAATACGCTGTCAGATGGTTGTGATACACAACATAATTGC
AGATAAAGCAGCCAAAAAATGGG
Found at i:20368129 original size:10 final size:10
Alignment explanation
Indices: 20368114--20368147 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
20368104 AACTAGCATC
20368114 TATATATACA
1 TATATATACA
20368124 TATATATACA
1 TATATATACA
* *
20368134 TGTATATATA
1 TATATATACA
20368144 TATA
1 TATA
20368148 GGCATCCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (10 bp):
TATATATACA
Found at i:20370732 original size:29 final size:29
Alignment explanation
Indices: 20370682--20370759 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 29
20370672 CCAAAACTAT
* * *
20370682 ACATTAACTATGGTTTAATGTGTAATTGTAC
1 ACATGAACTTTGGTTT--TGTGCAATTGTAC
* *
20370713 ACATGAACTTTGGTTTTGTGCAATTTTAT
1 ACATGAACTTTGGTTTTGTGCAATTGTAC
* *
20370742 ACATGAAATTTGGATTTG
1 ACATGAACTTTGGTTTTG
20370760 ATCAAATTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 26 0.65
31 14 0.35
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (29 bp):
ACATGAACTTTGGTTTTGTGCAATTGTAC
Found at i:20375373 original size:20 final size:20
Alignment explanation
Indices: 20375343--20375382 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
20375333 TTTTTTTTTT
20375343 GCATTCATTTCA-TTCATCA
1 GCATTCATTTCATTTCATCA
20375362 GCATTACATTTCATTTCATCA
1 GCATT-CATTTCATTTCATCA
20375383 TATGCATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 7 0.37
21 7 0.37
ACGTcount: A:0.28, C:0.25, G:0.05, T:0.42
Consensus pattern (20 bp):
GCATTCATTTCATTTCATCA
Found at i:20376456 original size:28 final size:28
Alignment explanation
Indices: 20376424--20376479 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
20376414 CTCTTCTAGA
20376424 GAAGGAAACAACAATACTTTTCATAAAC
1 GAAGGAAACAACAATACTTTTCATAAAC
20376452 GAAGGAAACAACAATACTTTTCATAAAC
1 GAAGGAAACAACAATACTTTTCATAAAC
20376480 TCTCTACAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.18, G:0.11, T:0.21
Consensus pattern (28 bp):
GAAGGAAACAACAATACTTTTCATAAAC
Found at i:20379811 original size:36 final size:36
Alignment explanation
Indices: 20379760--20379832 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
20379750 AAGAAGAACA
*
20379760 TCCCCAGAAATTAAACTTTGATGGGGCCTCAAACGC
1 TCCCCAGAAACTAAACTTTGATGGGGCCTCAAACGC
*
20379796 TCCCCAGAAACTAAACTTTGATGGGGCCTCCAACGC
1 TCCCCAGAAACTAAACTTTGATGGGGCCTCAAACGC
20379832 T
1 T
20379833 ATGGGTAACG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (36 bp):
TCCCCAGAAACTAAACTTTGATGGGGCCTCAAACGC
Found at i:20381425 original size:44 final size:44
Alignment explanation
Indices: 20381375--20381839 Score: 436
Period size: 44 Copynumber: 10.5 Consensus size: 44
20381365 GTGGTGAATT
* * * * * *
20381375 TTATCTCTCTGAAGTCT-TAGTGGATCAGATTAAAGCCACGAATC
1 TTATCTCCCTGAAGT-TGCAGTGGAGCAGATTGAAGCTACAAATC
* * * *
20381419 TTATCTCCCTGAAGTTGTAATGGAGCAGATTAAAGCCACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
* * * *
20381463 TTATCTCCCTGAAGTTGAAGTGGAGCAGGTTGGAGTTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
* ** * *
20381507 TTATCTCCCTGAAGTTACAGTGGAATAGATTGGAGTTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
*
20381551 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTTG-AGC-ACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGCTACAAATC
* * * * *
20381594 TTATCTCCGTGAAGTTGTAGTGGAGCAGATTAAAGCCA-AAAGTT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAA-TC
* * * **
20381638 TTATCTCCTTGAAGTTGCAGCGGAGCAGATTGAAGATAGTGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAATC
* *
20381683 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
* **
20381727 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAATC
* * * * ** * **
20381772 CTATCTCTCTGAAGTTGCGGTTGAGTGGATTGAAACTACACTTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
*
20381816 CTATAC-CCCTGAAGTTGCAGTGGA
1 TTAT-CTCCCTGAAGTTGCAGTGGA
20381840 TTAGAACAAT
Statistics
Matches: 353, Mismatches: 59, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
42 2 0.01
43 42 0.12
44 235 0.67
45 72 0.20
46 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
Found at i:20381727 original size:176 final size:176
Alignment explanation
Indices: 20381375--20381757 Score: 502
Period size: 176 Copynumber: 2.2 Consensus size: 176
20381365 GTGGTGAATT
* * *
20381375 TTATCTCTCTGAAGTCT-TAGTGGATCAGATTAAAGCCACGAATCTTATCTCCCTGAAGTTGTAA
1 TTATCTCCCTGAAGT-TGTAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGTAA
* * * *
20381439 TGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGAAGTGGAGCAGGTTGGAGTTACAA
65 TGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGAAGCGGAGCAGATTGAAGATACAA
* * * *
20381504 ATCTTATCTCCCTGAAGTTACAGTGGAATAGATTGGAGTTACAAATC
130 ATCTTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGCTACAAATC
** * *
20381551 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTTGAG-CACAAATCTTATCTCCGTGAAGTTGTAGT
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGTAAT
* * * **
20381615 GGAGCAGATTAAAGCCA-AAAGTTTTATCTCCTTGAAGTTGCAGCGGAGCAGATTGAAGATAGTG
66 GGAGCAGATTAAAGCCACAAA-TCTTATCTCCCTGAAGTTGAAGCGGAGCAGATTGAAGATA-CA
* * *
20381679 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATC
129 AATCTTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGCTACAAATC
*
20381727 TTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATT
20381758 GAAGATAGTG
Statistics
Matches: 180, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
174 3 0.02
175 77 0.43
176 100 0.56
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (176 bp):
TTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGTAAT
GGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGAAGCGGAGCAGATTGAAGATACAAA
TCTTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGCTACAAATC
Found at i:20381803 original size:89 final size:88
Alignment explanation
Indices: 20381414--20381839 Score: 432
Period size: 89 Copynumber: 4.8 Consensus size: 88
20381404 TTAAAGCCAC
* * * * *
20381414 GAATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTT
1 GAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTT
* * * * *
20381479 GAAGTGGAGCAGGTTGGAGTTAC
66 GCAGTGGAGCAGATTGAAGATAT
* * * ** * *
20381502 AAATCTTATCTCCCTGAAGTTACAGTGGAATAGATTGGAGTTACAAATCTTATCTCCCTGAAGTT
1 GAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTT
* *
20381567 GTAGTGGAGCAGATTTG-AGCACA-
66 GCAGTGGAGCAGA-TTGAAG-ATAT
* * * * *
20381590 -AATCTTATCTC-CGTGAAGTTGTAGTGGAGCAGATTAAAGCCA-AAAGTTTTATCTCCTTGAAG
1 GAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGAAGCTACAAA-TCTTATCTCCCTGAAG
*
20381652 TTGCAGCGGAGCAGATTGAAGATAGT
64 TTGCAGTGGAGCAGATTGAAGATA-T
*
20381678 GAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTT
1 GAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTT
20381743 GCAGTGGAGCAGATTGAAGATAGT
66 GCAGTGGAGCAGATTGAAGATA-T
* * * ** * ** *
20381767 GAATCCTATCTCTCTGAAGTTGCGGTTGAGTGGATTGAAACTACACTTCCTATAC-CCCTGAAGT
1 GAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTAT-CTCCCTGAAGT
20381831 TGCAGTGGA
65 TGCAGTGGA
20381840 TTAGAACAAT
Statistics
Matches: 284, Mismatches: 43, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
86 9 0.03
87 61 0.21
88 68 0.24
89 141 0.50
90 5 0.02
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (88 bp):
GAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTGAAGATAT
Found at i:20383738 original size:3 final size:3
Alignment explanation
Indices: 20383730--20383817 Score: 72
Period size: 3 Copynumber: 28.7 Consensus size: 3
20383720 TTTATGCACC
* * * *
20383730 ATT ATT ATT ATC ATT ATT -TT ATTT ATT -TAT ATT ATT AAT ATA ATA
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT AT-T ATT ATT ATT ATT ATT
* *
20383775 ATA ATT ATGCT ATG ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT AT--T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
20383818 AAATTGATAT
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
2 3 0.04
3 61 0.86
4 4 0.06
5 3 0.04
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:20385483 original size:19 final size:19
Alignment explanation
Indices: 20385459--20385504 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
20385449 AAGTATCTTT
*
20385459 TTTGCATT-CATTTCATGCA
1 TTTGCATTCCATTACAT-CA
20385478 TTTGCATTCCATTACATCA
1 TTTGCATTCCATTACATCA
*
20385497 TATGCATT
1 TTTGCATT
20385505 AGACACCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.46
Consensus pattern (19 bp):
TTTGCATTCCATTACATCA
Found at i:20388383 original size:21 final size:22
Alignment explanation
Indices: 20388345--20388393 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
20388335 ATGAAATGAA
*
20388345 AAAAAT-AAAAAAGTGAAAAGG
1 AAAAATGAAAAAAGTGAAAAAG
*
20388366 AAAAATGAAAAATG-GAAAAAG
1 AAAAATGAAAAAAGTGAAAAAG
*
20388387 TAAAATG
1 AAAAATG
20388394 GAGAGGCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.12
Consensus pattern (22 bp):
AAAAATGAAAAAAGTGAAAAAG
Done.