Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 63 of 259
Found at i:20078167 original size:13 final size:13
Alignment explanation
Indices: 20078149--20078173 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20078139 TGGTCATCAT
20078149 GGTGTGAACACAA
1 GGTGTGAACACAA
20078162 GGTGTGAACACA
1 GGTGTGAACACA
20078174 TGATCAATAC
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:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:20078692 original size:10 final size:10
Alignment explanation
Indices: 20078679--20078716 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
20078669 TTGTAGCTAA
20078679 ATTGAGCTCG
1 ATTGAGCTCG
20078689 ATTGAGCT-G
1 ATTGAGCTCG
20078698 ACTTGAGCTCG
1 A-TTGAGCTCG
*
20078709 AGTGAGCT
1 ATTGAGCT
20078717 GGAAACGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (10 bp):
ATTGAGCTCG
Found at i:20078696 original size:20 final size:20
Alignment explanation
Indices: 20078656--20078716 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
20078646 ACCAATAAAA
20078656 TAAA-TGAGCT-GAATTGTAGC
1 TAAATTGAGCTCG-ATTG-AGC
20078676 TAAATTGAGCTCGATTGAGC
1 TAAATTGAGCTCGATTGAGC
* * *
20078696 TGACTTGAGCTCGAGTGAGC
1 TAAATTGAGCTCGATTGAGC
20078716 T
1 T
20078717 GGAAACGAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 25 0.69
21 10 0.28
22 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (20 bp):
TAAATTGAGCTCGATTGAGC
Found at i:20078717 original size:20 final size:20
Alignment explanation
Indices: 20078680--20078717 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20078670 TGTAGCTAAA
*
20078680 TTGAGCTCGATTGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
20078700 TTGAGCTCGAGTGAGCTG
1 TTGAGCTCGAGTGAGCTG
20078718 GAAACGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (20 bp):
TTGAGCTCGAGTGAGCTGAC
Found at i:20080755 original size:9 final size:10
Alignment explanation
Indices: 20080740--20080779 Score: 64
Period size: 10 Copynumber: 4.1 Consensus size: 10
20080730 GTTATACAAG
20080740 TTAAAAAAAA
1 TTAAAAAAAA
*
20080750 -TCAAAAAAA
1 TTAAAAAAAA
20080759 TTAAAAAAAA
1 TTAAAAAAAA
20080769 TTAAAAAAAA
1 TTAAAAAAAA
20080779 T
1 T
20080780 CGAAAAAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (10 bp):
TTAAAAAAAA
Found at i:20080757 original size:10 final size:10
Alignment explanation
Indices: 20080742--20080787 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
20080732 TATACAAGTT
20080742 AAAAAAAATC
1 AAAAAAAATC
*
20080752 -AAAAAAATT
1 AAAAAAAATC
*
20080761 AAAAAAAATT
1 AAAAAAAATC
20080771 AAAAAAAATC
1 AAAAAAAATC
*
20080781 GAAAAAA
1 AAAAAAA
20080788 GTGATTTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
9 8 0.25
10 24 0.75
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.13
Consensus pattern (10 bp):
AAAAAAAATC
Found at i:20080762 original size:19 final size:19
Alignment explanation
Indices: 20080740--20080777 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
20080730 GTTATACAAG
20080740 TTAAAAAAAATCAAAAAAA
1 TTAAAAAAAATCAAAAAAA
*
20080759 TTAAAAAAAATTAAAAAAA
1 TTAAAAAAAATCAAAAAAA
20080778 ATCGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (19 bp):
TTAAAAAAAATCAAAAAAA
Found at i:20086304 original size:12 final size:12
Alignment explanation
Indices: 20086287--20086319 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
20086277 GGAAATTTGA
20086287 AAAAAAAAATTC
1 AAAAAAAAATTC
20086299 AAAAAAAAATTC
1 AAAAAAAAATTC
20086311 AAAAAAAAA
1 AAAAAAAAA
20086320 ATCGAAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAAAAAAATTC
Found at i:20086914 original size:20 final size:20
Alignment explanation
Indices: 20086891--20086944 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
20086881 AGTTTTTCCC
*
20086891 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
20086911 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
20086931 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
20086945 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:20086926 original size:30 final size:30
Alignment explanation
Indices: 20086891--20086964 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
20086881 AGTTTTTCCC
20086891 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
20086921 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
20086951 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
20086965 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:20086954 original size:20 final size:20
Alignment explanation
Indices: 20086891--20086955 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
20086881 AGTTTTTCCC
* * * *
20086891 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
20086911 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
20086930 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
20086951 AGCTC
1 AGCTC
20086956 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:20093932 original size:20 final size:20
Alignment explanation
Indices: 20093886--20093932 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
20093876 AGCTCGTTTC
*
20093886 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
20093906 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
20093926 CAGCTCA
1 CAGCTCA
20093933 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:20095438 original size:13 final size:13
Alignment explanation
Indices: 20095422--20095480 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 13
20095412 AAAAAAAATC
20095422 AAAAAAAATTCGA
1 AAAAAAAATTCGA
*
20095435 AAAAAAAATTTGA
1 AAAAAAAATTCGA
20095448 TTGAAAAAAAATTC-A
1 ---AAAAAAAATTCGA
*
20095463 AAAAAAAAGT-GA
1 AAAAAAAATTCGA
20095475 AAAAAA
1 AAAAAA
20095481 TCGAGCAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 16 0.41
13 12 0.31
15 1 0.03
16 10 0.26
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.17
Consensus pattern (13 bp):
AAAAAAAATTCGA
Found at i:20096718 original size:48 final size:47
Alignment explanation
Indices: 20096639--20096744 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
20096629 GAGTGTCATG
*
20096639 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
20096687 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
20096735 GAAAAAGAAA
1 GAAAAAGAAA
20096745 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:20098461 original size:20 final size:20
Alignment explanation
Indices: 20098415--20098461 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
20098405 AGCTCGTTTC
*
20098415 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
20098435 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
20098455 CAGCTCA
1 CAGCTCA
20098462 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:20104167 original size:30 final size:30
Alignment explanation
Indices: 20104133--20104229 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
20104123 TAAACTAAAA
*
20104133 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * * *
20104163 TGAGCTGAGGCTAAACTCCTAAACTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
20104193 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
20104222 ATGAGCTA
1 -TGAGCTA
20104230 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
29 1 0.02
30 48 0.98
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:20105095 original size:33 final size:33
Alignment explanation
Indices: 20105058--20105123 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
20105048 AAATTTGATA
* *
20105058 GACAACAACACAGGGGGAATATGAAACAATTGT
1 GACAACAACACAAGGGAAATATGAAACAATTGT
20105091 GACAACAACACAAGGGAAATATGAAACAATTGT
1 GACAACAACACAAGGGAAATATGAAACAATTGT
20105124 AAGTTAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.48, C:0.15, G:0.21, T:0.15
Consensus pattern (33 bp):
GACAACAACACAAGGGAAATATGAAACAATTGT
Found at i:20107753 original size:21 final size:21
Alignment explanation
Indices: 20107708--20107770 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
20107698 TTTGAACCAT
* * *
20107708 TACCAATTCGTACCAAATACCA
1 TACCATTTCATACC-AATTCCA
20107730 TACCATTTCATACCAATTCCA
1 TACCATTTCATACCAATTCCA
*
20107751 TACCATTTCCTACCAATTCC
1 TACCATTTCATACCAATTCC
20107771 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.35, G:0.02, T:0.30
Consensus pattern (21 bp):
TACCATTTCATACCAATTCCA
Found at i:20107754 original size:11 final size:11
Alignment explanation
Indices: 20107708--20107770 Score: 60
Period size: 10 Copynumber: 5.9 Consensus size: 11
20107698 TTTGAACCAT
*
20107708 TACCAATT-CG
1 TACCAATTCCA
*
20107718 TACCAAATACCA
1 TACC-AATTCCA
*
20107730 TACC-ATTTCA
1 TACCAATTCCA
20107740 TACCAATTCCA
1 TACCAATTCCA
*
20107751 TACCATTTCC-
1 TACCAATTCCA
20107761 TACCAATTCC
1 TACCAATTCC
20107771 CAAATACCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
10 21 0.49
11 17 0.40
12 5 0.12
ACGTcount: A:0.33, C:0.35, G:0.02, T:0.30
Consensus pattern (11 bp):
TACCAATTCCA
Found at i:20108913 original size:15 final size:15
Alignment explanation
Indices: 20108881--20108914 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
20108871 GTTCAACGAA
*
20108881 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
20108896 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
20108911 GAGG
1 GAGG
20108915 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:20113995 original size:22 final size:22
Alignment explanation
Indices: 20113967--20114010 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
20113957 TTTTGAACCA
20113967 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
20113989 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
20114011 AATACCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:20116525 original size:26 final size:26
Alignment explanation
Indices: 20116449--20116538 Score: 67
Period size: 26 Copynumber: 3.3 Consensus size: 26
20116439 TTGTTATTAA
** * *
20116449 ATTTTAATAGGATTATTATTAAACAT
1 ATTTTAATATAATAATTATTAATCAT
*
20116475 AATTTT-ATAATAATAACTAATTTAATCAT
1 -ATTTTAAT-ATAATAA-TTA-TTAATCAT
20116504 ATTTTAATATAATAATTATTAAAT-AT
1 ATTTTAATATAATAATTATT-AATCAT
*
20116530 AATTTAATA
1 ATTTTAATA
20116539 AAAAATATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
26 14 0.27
27 14 0.27
28 14 0.27
29 9 0.18
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (26 bp):
ATTTTAATATAATAATTATTAATCAT
Found at i:20116533 original size:55 final size:56
Alignment explanation
Indices: 20116449--20116573 Score: 146
Period size: 55 Copynumber: 2.2 Consensus size: 56
20116439 TTGTTATTAA
** * * * * *
20116449 ATTTTAATAGGATTATTATTAAACATAATTTTAT-AATAATA-ACTAATTTAATCAT
1 ATTTTAATATAATAATTATTAAACATAATTTAATAAAAAATATA-TAATTTAATAAC
*
20116504 ATTTTAATATAATAATTATTAAATATAATTTAATAAAAAATATATAATTTAATAAC
1 ATTTTAATATAATAATTATTAAACATAATTTAATAAAAAATATATAATTTAATAAC
20116560 ATTCTTAATATAAT
1 ATT-TTAATATAAT
20116574 TTGGTTCATC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
55 29 0.49
56 19 0.32
57 11 0.19
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (56 bp):
ATTTTAATATAATAATTATTAAACATAATTTAATAAAAAATATATAATTTAATAAC
Found at i:20116545 original size:28 final size:27
Alignment explanation
Indices: 20116463--20116539 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 27
20116453 TAATAGGATT
* *
20116463 ATTATTAAACATAATTTTATAATAATA
1 ATTATTAAATATAATTTAATAATAATA
* * *
20116490 ACTAATTTAATCATATTTTAAT-ATAATA
1 A-TTATTAAAT-ATAATTTAATAATAATA
20116518 ATTATTAAATATAATTTAATAA
1 ATTATTAAATATAATTTAATAA
20116540 AAAATATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 9 0.23
27 9 0.23
28 13 0.33
29 8 0.21
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (27 bp):
ATTATTAAATATAATTTAATAATAATA
Found at i:20121197 original size:17 final size:18
Alignment explanation
Indices: 20121175--20121209 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
20121165 AAGAGTAAAG
20121175 GAAGAAGA-AAAGAATTT
1 GAAGAAGAGAAAGAATTT
*
20121192 GAAGAAGAGAGAGAATTT
1 GAAGAAGAGAAAGAATTT
20121210 AGGAGAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (18 bp):
GAAGAAGAGAAAGAATTT
Found at i:20131434 original size:16 final size:16
Alignment explanation
Indices: 20131413--20131452 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
20131403 GTTGAACTGG
*
20131413 TTTTTATTTTTA-AAT
1 TTTTTAATTTTATAAT
20131428 ATTTTTAATTTTATAAT
1 -TTTTTAATTTTATAAT
20131445 TTTTTAAT
1 TTTTTAAT
20131453 AATTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTAATTTTATAAT
Found at i:20139672 original size:3 final size:3
Alignment explanation
Indices: 20139664--20139689 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20139654 AATATGGTTC
20139664 TGT TGT TGT TGT TGT TGT TGT TGT TG
1 TGT TGT TGT TGT TGT TGT TGT TGT TG
20139690 CCCCTTATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.35, T:0.65
Consensus pattern (3 bp):
TGT
Found at i:20142846 original size:29 final size:29
Alignment explanation
Indices: 20142814--20142872 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
20142804 TTGCGAATTC
*
20142814 TTGGACTGCCCACCATTTTGGCTTGCACT
1 TTGGACTGCCCACCAATTTGGCTTGCACT
*
20142843 TTGGACTGTCCACCAATTTGGCTTGCACT
1 TTGGACTGCCCACCAATTTGGCTTGCACT
20142872 T
1 T
20142873 GGATTGTCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.15, C:0.29, G:0.20, T:0.36
Consensus pattern (29 bp):
TTGGACTGCCCACCAATTTGGCTTGCACT
Found at i:20142894 original size:28 final size:29
Alignment explanation
Indices: 20142814--20142895 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 29
20142804 TTGCGAATTC
* * *
20142814 TTGGACTGCCCACCATTTTGGCTTGCACT
1 TTGGACTGTCCACCAATTTAGCTTGCACT
*
20142843 TTGGACTGTCCACCAATTTGGCTTGCAC-
1 TTGGACTGTCCACCAATTTAGCTTGCACT
* ** *
20142871 TTGGATTGTCTGCCACTTTAGCTTG
1 TTGGACTGTCCACCAATTTAGCTTG
20142896 TAGTGTCCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 20 0.43
29 26 0.57
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.37
Consensus pattern (29 bp):
TTGGACTGTCCACCAATTTAGCTTGCACT
Found at i:20142947 original size:29 final size:29
Alignment explanation
Indices: 20142905--20142978 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 29
20142895 GTAGTGTCCA
*
20142905 TCATTTTGGCTTGCACTTTGGACTATCCG
1 TCATTTTGGCTTGCACTTTGGACTACCCG
20142934 TCATTTTGGCTTGCAC-TTGGACTACCCG
1 TCATTTTGGCTTGCACTTTGGACTACCCG
* *
20142962 TCACTTTGGCTTTCACT
1 TCATTTTGGCTTGCACT
20142979 GTCTACCATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 25 0.61
29 16 0.39
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.41
Consensus pattern (29 bp):
TCATTTTGGCTTGCACTTTGGACTACCCG
Found at i:20142967 original size:79 final size:79
Alignment explanation
Indices: 20142818--20143002 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 79
20142808 GAATTCTTGG
* * * ** *
20142818 ACTGCCCACCATTTTGGCTTGCACTTTGGACTGTCCACCAATTTGGCTTGCACTTGGATTGTCTG
1 ACTGTCCACCATTTTGGCTTGCACTTTGGACTATCCACCAATTTGGCTTGCACTTGGACTACCCG
20142883 CCACTTTAGCTTGT-
66 CCACTTTAGCTT-TC
* * ** *
20142897 AGTGTCCATCATTTTGGCTTGCACTTTGGACTATCCGTCATTTTGGCTTGCACTTGGACTACCCG
1 ACTGTCCACCATTTTGGCTTGCACTTTGGACTATCCACCAATTTGGCTTGCACTTGGACTACCCG
* *
20142962 TCACTTTGGCTTTC
66 CCACTTTAGCTTTC
*
20142976 ACTGTCTACCATTTTGGCTTGCACTTT
1 ACTGTCCACCATTTTGGCTTGCACTTT
20143003 TTCATCTCGT
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 1 0.01
79 88 0.99
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.39
Consensus pattern (79 bp):
ACTGTCCACCATTTTGGCTTGCACTTTGGACTATCCACCAATTTGGCTTGCACTTGGACTACCCG
CCACTTTAGCTTTC
Found at i:20145511 original size:3 final size:3
Alignment explanation
Indices: 20145503--20145527 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
20145493 TGAATGCTTA
20145503 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
20145528 GATTTTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:20148557 original size:3 final size:3
Alignment explanation
Indices: 20148549--20148577 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
20148539 GTTTAAGGTA
20148549 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
20148578 ATAGAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:20154762 original size:251 final size:251
Alignment explanation
Indices: 20154417--20154881 Score: 702
Period size: 251 Copynumber: 1.9 Consensus size: 251
20154407 GTGGTGTTTT
* * *
20154417 AACGCCACTGAAGGTATGCTATAGTGGCGTTTTATATTGAAACGCCGCAAATCCATAAATGTTTG
1 AACGCCACTGAAGGTATACTATAGTGGCGTTTTATATAGAAACACCGCAAATCCATAAATGTTTG
* * * *
20154482 TCTGTACGAAAACGGCGTCGTTTTCTTAAATGATTTGAACTCCTTACTGGCGTTTTTATTTAAAA
66 TCTGAACGAAAACGGCATCGTTTTCTTAAATGATTTGAACTCATTACTGGCGTTTGTATTTAAAA
* * * *
20154547 CGCCGCAAACTGTGATATTTAGCGGCGTTTGGTATGGAAACGCCACAAATGTGCATTACAAAATG
131 CGCCGC-AACTGTAAGATTTAGCGGCGTTTAGTATGAAAACGCCACAAATGTGCATTACAAAATG
20154612 TTCAGAACGTCACCGTTTCGTTACATGAATTTGAATTTTAGTGGCGTTTGTATGAAA
195 TTCAGAACGTCACCGTTTCGTTACATGAATTTGAATTTTAGTGGCGTTTGTATGAAA
* *
20154669 AACGCCACAT-AAGGTATAC-AGTAGTGGCGTTTT-TATAGAAACACCGCAAATTCATACATGTT
1 AACGCCAC-TGAAGGTATACTA-TAGTGGCGTTTTATATAGAAACACCGCAAATCCATAAATGTT
* * *
20154731 TTTGTGAACGAAAACGGCATCGTTTTCTTAAATGATTTGAACTCATTAGTGGCGTTTGTATTTAA
64 TGTCTGAACGAAAACGGCATCGTTTTCTTAAATGATTTGAACTCATTACTGGCGTTTGTATTTAA
* *
20154796 AACGCCGCAACTGTAAGCTTTAGCGGCGTTTAGTATGAAAACGCCACAAATGTGTATTACAAAAT
129 AACGCCGCAACTGTAAGATTTAGCGGCGTTTAGTATGAAAACGCCACAAATGTGCATTACAAAAT
**
20154861 GTTCAGAACGTTGCCGTTTCG
194 GTTCAGAACGTCACCGTTTCG
20154882 GTTGAGGAAC
Statistics
Matches: 191, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
250 70 0.37
251 92 0.48
252 28 0.15
253 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (251 bp):
AACGCCACTGAAGGTATACTATAGTGGCGTTTTATATAGAAACACCGCAAATCCATAAATGTTTG
TCTGAACGAAAACGGCATCGTTTTCTTAAATGATTTGAACTCATTACTGGCGTTTGTATTTAAAA
CGCCGCAACTGTAAGATTTAGCGGCGTTTAGTATGAAAACGCCACAAATGTGCATTACAAAATGT
TCAGAACGTCACCGTTTCGTTACATGAATTTGAATTTTAGTGGCGTTTGTATGAAA
Found at i:20169052 original size:27 final size:27
Alignment explanation
Indices: 20169020--20169110 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
20169010 CCGCTTTGTG
* *
20169020 GTAAAATGACTGTAATGCCCCTGTGTT
1 GTAAAATGACTGTATTGCCCCTATGTT
* * *
20169047 GTAAAATGACTATTTTG-CCCTTTG-T
1 GTAAAATGACTGTATTGCCCCTATGTT
* *
20169072 GTTAAAATGAATGTATTGCCCCTATGTG
1 G-TAAAATGACTGTATTGCCCCTATGTT
20169100 GTAAAATGACT
1 GTAAAATGACT
20169111 ATTTTTCCCT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
25 2 0.04
26 19 0.37
27 29 0.57
28 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (27 bp):
GTAAAATGACTGTATTGCCCCTATGTT
Found at i:20169077 original size:26 final size:26
Alignment explanation
Indices: 20169013--20169245 Score: 200
Period size: 26 Copynumber: 8.9 Consensus size: 26
20169003 CCTAGACCCG
* **
20169013 CTTTGTGGTAAAATGACTGTAATGCCC
1 CTTTGTGGTAAAATGACTATTTTG-CC
* *
20169040 CTGTGTTGTAAAATGACTATTTTGCC
1 CTTTGTGGTAAAATGACTATTTTGCC
* * * *
20169066 CTTTGTGTTAAAATGAATGTATTGCCC
1 CTTTGTGGTAAAATGACTATTTTG-CC
* *
20169093 CTATGTGGTAAAATGACTATTTTTCC
1 CTTTGTGGTAAAATGACTATTTTGCC
* * *
20169119 CTTTGTGGTTAAATGGCTATTTTTCC
1 CTTTGTGGTAAAATGACTATTTTGCC
* *
20169145 CTTTGTGGTTAAATGACTATTTTTCC
1 CTTTGTGGTAAAATGACTATTTTGCC
** * *
20169171 CCATGAGGTAAAATGACTGTTGTT-CC
1 CTTTGTGGTAAAATGACTATT-TTGCC
* *
20169197 CTTAGGTGGTGAAATGACTATTTTGCC
1 CTT-TGTGGTAAAATGACTATTTTGCC
* *
20169224 CTTTATGGTAAGATGAC-ATTTT
1 CTTTGTGGTAAAATGACTATTTT
20169246 ACCCCTATGT
Statistics
Matches: 166, Mismatches: 36, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
25 5 0.03
26 101 0.61
27 60 0.36
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (26 bp):
CTTTGTGGTAAAATGACTATTTTGCC
Found at i:20169133 original size:53 final size:52
Alignment explanation
Indices: 20169013--20169256 Score: 206
Period size: 53 Copynumber: 4.6 Consensus size: 52
20169003 CCTAGACCCG
* * * *
20169013 CTTTGTGGTAAAATGACTGTAATGCCCCTGTGTTGTAAAATGACTATTTTGCC
1 CTTTGTGGTTAAATGACTGT-TTGCCCCTATGTGGTAAAATGACTATTTTGCC
* *
20169066 CTTTGT-GTTAAAATGAATGTATTGCCCCTATGTGGTAAAATGACTATTTTTCC
1 CTTTGTGGTT-AAATGACTGT-TTGCCCCTATGTGGTAAAATGACTATTTTGCC
* * ** * * *
20169119 CTTTGTGGTTAAATGGCTATTTTTCCCTTTGTGGTTAAATGACTATTTTTCC
1 CTTTGTGGTTAAATGACTGTTTGCCCCTATGTGGTAAAATGACTATTTTGCC
** * * * * * *
20169171 CCATGAGGTAAAATGACTGTTGTTCCCTTAGGTGGTGAAATGACTATTTTGCC
1 CTTTGTGGTTAAATGACTGTT-TGCCCCTATGTGGTAAAATGACTATTTTGCC
* *
20169224 CTTTATGG-TAAGATGACAT-TTTACCCCTATGTG
1 CTTTGTGGTTAA-ATGAC-TGTTTGCCCCTATGTG
20169257 ATGTATGTTT
Statistics
Matches: 153, Mismatches: 33, Indels: 11
0.78 0.17 0.06
Matches are distributed among these distances:
52 56 0.37
53 93 0.61
54 4 0.03
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (52 bp):
CTTTGTGGTTAAATGACTGTTTGCCCCTATGTGGTAAAATGACTATTTTGCC
Found at i:20169240 original size:79 final size:78
Alignment explanation
Indices: 20169050--20169254 Score: 234
Period size: 79 Copynumber: 2.6 Consensus size: 78
20169040 CTGTGTTGTA
* * * * * * *
20169050 AAATGACTATTTTGCCCTTTGTGTTAAAATGAATGTATTGCCCCTATGTGGTAAAATGACTATTT
1 AAATGACTATTTTGCCCTTTGTGGT-AAATGACTATTTTACCCCTATGAGGTAAAATGACTATTG
* *
20169115 TTCCCTTTGTGGTT
65 TTCCCTTGGTGGTG
* * * *
20169129 AAATGGCTATTTTTCCCTTTGTGGTTAAATGACTATTTTTCCCC-ATGAGGTAAAATGACTGTTG
1 AAATGACTATTTTGCCCTTTGTGG-TAAATGACTATTTTACCCCTATGAGGTAAAATGACTATTG
20169193 TTCCCTTAGGTGGTG
65 TTCCCTT-GGTGGTG
*
20169208 AAATGACTATTTTGCCCTTTATGGTAAGATGAC-ATTTTACCCCTATG
1 AAATGACTATTTTGCCCTTTGTGGTAA-ATGACTATTTTACCCCTATG
20169255 TGATGTATGT
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 36 0.34
79 69 0.65
80 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (78 bp):
AAATGACTATTTTGCCCTTTGTGGTAAATGACTATTTTACCCCTATGAGGTAAAATGACTATTGT
TCCCTTGGTGGTG
Found at i:20174979 original size:40 final size:40
Alignment explanation
Indices: 20174895--20175078 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
20174885 TTGAATGCTG
* * * *
20174895 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
20174934 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
20174975 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
20175015 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
20175055 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
20175079 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:20175032 original size:80 final size:81
Alignment explanation
Indices: 20174895--20175075 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
20174885 TTGAATGCTG
* *
20174895 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
20174959 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
20174975 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
20175036 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
20175055 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
20175076 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:20178669 original size:45 final size:45
Alignment explanation
Indices: 20178608--20178877 Score: 355
Period size: 45 Copynumber: 6.0 Consensus size: 45
20178598 CTCAAATCAT
* * * *
20178608 CGGCATTTTA-CCTGCTAGGCTCGAAA-GCCGGAATAGTGTCTCAC
1 CGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAATATCTCAC
20178652 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCTCAC
*
20178697 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATTTCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCTCAC
* * * * *
20178742 CGGCATTATAGACTGCTAGGCTCAAAGACCCGACTAACATTTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCTCAC
* * * * *
20178787 CGGCATTATAGCTTGCTAGGCTCAAAAGCCCGAGTAACATTTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCTCAC
* * *
20178832 CGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCTCAC
20178877 C
1 C
20178878 AGTTCTTTCC
Statistics
Matches: 204, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
44 12 0.06
45 192 0.94
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (45 bp):
CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCTCAC
Found at i:20184975 original size:21 final size:22
Alignment explanation
Indices: 20184923--20184975 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
20184913 AAATAAAGTC
*
20184923 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
20184944 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
20184966 CATGTATCAT
1 CATGTATCAT
20184976 CATTTACTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:20188120 original size:29 final size:29
Alignment explanation
Indices: 20188086--20188159 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
20188076 TAATCAACCG
*
20188086 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
* **
20188115 CGCACACTCAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
20188144 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
20188160 ATCTCACAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 3 0.08
29 35 0.92
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:20191994 original size:40 final size:40
Alignment explanation
Indices: 20191911--20192025 Score: 99
Period size: 40 Copynumber: 2.9 Consensus size: 40
20191901 TTGAATGCTG
* * * * * *
20191911 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
20191951 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
20191991 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA
20192026 AATTTAATGA
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
39 1 0.02
40 52 0.85
41 8 0.13
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:20192092 original size:40 final size:40
Alignment explanation
Indices: 20192038--20192508 Score: 653
Period size: 40 Copynumber: 12.1 Consensus size: 40
20192028 TTTAATGAAG
20192038 ATTCG-GCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
1 ATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
20192077 ATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
1 ATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
20192117 ATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
1 ATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
20192157 ATTCGTGCGAGTTATTAAATCCGGGTTAAGT-CCGAAGGC
1 ATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
* * *
20192196 ATTCGTGCGAGTTGTT-AATTC-GGTTATGT-CCGAA-GC
1 ATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
* * * * *
20192232 ATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 ATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
* ** * * *
20192271 ATTTGAACGAG-GAGCTATATCCGGGTTAAGT-CCGAAGGC
1 ATTCGTGCGAGTTA-TTAAATCCGGGTTAAGTCCCGAAGGC
20192310 ATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
1 ATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
20192350 ATTCGTGCGAGTTATT-AATCCGGGTTAAGT-CCGAA-GC
1 ATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
20192387 ATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
1 ATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
* *
20192427 ATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGC
1 ATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
* * * * *
20192467 ATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 ATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
20192506 ATT
1 ATT
20192509 TGAACGAGGA
Statistics
Matches: 390, Mismatches: 30, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
35 9 0.02
36 8 0.02
37 37 0.09
38 28 0.07
39 118 0.30
40 190 0.49
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
ATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
Found at i:20198222 original size:20 final size:20
Alignment explanation
Indices: 20198199--20198236 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20198189 CAAATAAGTA
20198199 ATAAAAG-CTAAAAATTTACG
1 ATAAAAGTCT-AAAATTTACG
*
20198219 ATAATAGTCTAAAATTTA
1 ATAAAAGTCTAAAATTTA
20198237 GGTGTGGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.32
Consensus pattern (20 bp):
ATAAAAGTCTAAAATTTACG
Found at i:20199773 original size:42 final size:42
Alignment explanation
Indices: 20199722--20200022 Score: 494
Period size: 42 Copynumber: 7.2 Consensus size: 42
20199712 ATGTTTCTAA
*
20199722 TGGGACATCGACATCGTATCTGATTTCGTGTAAGACCATGTC
1 TGGGACATCGGCATCGTATCTGATTTCGTGTAAGACCATGTC
* *
20199764 TAGGACATCGGCATCGTATCTGATTTCGTGTAAGACCATGTT
1 TGGGACATCGGCATCGTATCTGATTTCGTGTAAGACCATGTC
* * *
20199806 TGGGACATTGGCATCGTATCTGATTTCATGTAAGATCATGTC
1 TGGGACATCGGCATCGTATCTGATTTCGTGTAAGACCATGTC
*
20199848 TGGGACATCGGCATCTTATCTGATTTCGTGTAAGACCATGTC
1 TGGGACATCGGCATCGTATCTGATTTCGTGTAAGACCATGTC
*
20199890 TGGGACATCGGCATCGTATTTGATTTCGTGTAAGACCATGTC
1 TGGGACATCGGCATCGTATCTGATTTCGTGTAAGACCATGTC
*
20199932 TGGGACATCGACATCGTATCTGATTTCGTGTAAGACCATGTC
1 TGGGACATCGGCATCGTATCTGATTTCGTGTAAGACCATGTC
* * *
20199974 TGGGACATCGACATCGTATCTGATTTCGTGTAAGACCCTATC
1 TGGGACATCGGCATCGTATCTGATTTCGTGTAAGACCATGTC
20200016 TGGGACA
1 TGGGACA
20200023 GAGGCATCAA
Statistics
Matches: 241, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 241 1.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (42 bp):
TGGGACATCGGCATCGTATCTGATTTCGTGTAAGACCATGTC
Found at i:20202587 original size:79 final size:81
Alignment explanation
Indices: 20202451--20202633 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
20202441 TCGAATGATG
* *
20202451 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
20202515 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
20202530 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
20202592 TTTGTGCTAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
20202610 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
20202634 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:20202649 original size:40 final size:40
Alignment explanation
Indices: 20202452--20202635 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
20202442 CGAATGATGT
* * * *
20202452 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
20202492 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
20202532 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
20202570 TCCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
20202611 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
20202636 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:20202657 original size:79 final size:79
Alignment explanation
Indices: 20202504--20202668 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
20202494 GGACTAAGAT
* **
20202504 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
20202569 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
20202583 CCGAAGGCATTTGTGCTAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
20202646 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
20202662 CCGAAGG
1 CCGAAGG
20202669 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:20216280 original size:22 final size:22
Alignment explanation
Indices: 20216252--20216294 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
20216242 CACTAAGTCA
*
20216252 ACAGAACAGCTCAACGCCATAG
1 ACAGAACAGCTAAACGCCATAG
* *
20216274 ACAGAACGGCTAAAGGCCATA
1 ACAGAACAGCTAAACGCCATA
20216295 AATATCGCAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
ACAGAACAGCTAAACGCCATAG
Found at i:20216981 original size:25 final size:24
Alignment explanation
Indices: 20216935--20216981 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
20216925 TACCCACACG
*
20216935 GGCCCATAGGCCCATTGCGGCCCA
1 GGCCCATAGGCCCATAGCGGCCCA
* *
20216959 GGCCCATGAGGCTCATAGTGGCC
1 GGCCCAT-AGGCCCATAGCGGCC
20216982 TTCCTCGACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.17, C:0.36, G:0.32, T:0.15
Consensus pattern (24 bp):
GGCCCATAGGCCCATAGCGGCCCA
Found at i:20219332 original size:21 final size:20
Alignment explanation
Indices: 20219298--20219336 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
20219288 AAAATTGTAT
*
20219298 ATCTATTAACAAACATTCATA
1 ATCTATCAACAAAC-TTCATA
*
20219319 ATCTATCAAGAAACTTCA
1 ATCTATCAACAAACTTCA
20219337 AAATACACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (20 bp):
ATCTATCAACAAACTTCATA
Found at i:20221675 original size:9 final size:9
Alignment explanation
Indices: 20221661--20221685 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20221651 ACTGAGCTTC
20221661 CAACTCTTT
1 CAACTCTTT
20221670 CAACTCTTT
1 CAACTCTTT
20221679 CAACTCT
1 CAACTCT
20221686 ATCAGAGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.36, G:0.00, T:0.40
Consensus pattern (9 bp):
CAACTCTTT
Found at i:20246287 original size:12 final size:12
Alignment explanation
Indices: 20246270--20246295 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20246260 TTTTTCTCCC
20246270 TCCTCAGTATAA
1 TCCTCAGTATAA
20246282 TCCTCAGTATAA
1 TCCTCAGTATAA
20246294 TC
1 TC
20246296 TTATGCATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCCTCAGTATAA
Found at i:20264347 original size:39 final size:40
Alignment explanation
Indices: 20264247--20264428 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
20264237 TCGAATGATG
* * *
20264247 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
20264286 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
20264327 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
20264366 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
20264405 AACCGGG-T--GTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
20264429 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
37 16 0.13
39 37 0.30
40 60 0.49
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:20264435 original size:37 final size:39
Alignment explanation
Indices: 20264300--20264428 Score: 176
Period size: 39 Copynumber: 3.3 Consensus size: 39
20264290 GGACTAAGAT
* *
20264300 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGG-TTAGTC
*
20264339 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTT-AGTC
20264379 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGG-T-GTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAGTC
20264416 CCGAAGGCATTTG
1 CCGAAGGCATTTG
20264429 AACGAGTAGC
Statistics
Matches: 83, Mismatches: 4, Indels: 8
0.87 0.04 0.08
Matches are distributed among these distances:
37 16 0.19
38 1 0.01
39 34 0.41
40 30 0.36
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAGTC
Found at i:20276692 original size:31 final size:31
Alignment explanation
Indices: 20276651--20276723 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 31
20276641 TAAAAAATAA
* *
20276651 AAATTCAATTTTTTTTAAAAAATTGA-TGATC
1 AAATTTAATTTTTTTTAAAAAATTAATTG-TC
*
20276682 ATATTTAA-TTTTTTTAAAAAATTAATTGTC
1 AAATTTAATTTTTTTTAAAAAATTAATTGTC
20276712 AAATTTAATTTT
1 AAATTTAATTTT
20276724 AAGAAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 25 0.69
31 11 0.31
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (31 bp):
AAATTTAATTTTTTTTAAAAAATTAATTGTC
Found at i:20278152 original size:34 final size:34
Alignment explanation
Indices: 20278109--20278174 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
20278099 AATGCCAATC
20278109 AAGCTAAAACTCAATCAATATAGAATTTATCTTT
1 AAGCTAAAACTCAATCAATATAGAATTTATCTTT
20278143 AAGCTAAAACTCAATCAATATAGAATTTATCT
1 AAGCTAAAACTCAATCAATATAGAATTTATCT
20278175 GTTTATTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.33
Consensus pattern (34 bp):
AAGCTAAAACTCAATCAATATAGAATTTATCTTT
Found at i:20278709 original size:16 final size:17
Alignment explanation
Indices: 20278688--20278724 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
20278678 GGCATAATTT
20278688 AAAATGAAAATT-TAAA
1 AAAATGAAAATTATAAA
20278704 AAAATGAAAATTATAAA
1 AAAATGAAAATTATAAA
20278721 AAAA
1 AAAA
20278725 AGGAAGATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (17 bp):
AAAATGAAAATTATAAA
Found at i:20283758 original size:58 final size:58
Alignment explanation
Indices: 20283668--20283786 Score: 202
Period size: 58 Copynumber: 2.1 Consensus size: 58
20283658 TGTAAAAGCA
* * *
20283668 ATTTTGTTGTGATATAGGGGGCCATAAGGATTAGGGCTCATATTGATATTTGAAGGCC
1 ATTTTGTTGTGATATAGGGGGCAATAAGGATTAAGGCTCATATTGATATTCGAAGGCC
*
20283726 ATTTTGTTGTGATATAGGGGGCAATAAGGATTAAGGCTCATATTGATATTCGAAGTCC
1 ATTTTGTTGTGATATAGGGGGCAATAAGGATTAAGGCTCATATTGATATTCGAAGGCC
20283784 ATT
1 ATT
20283787 GAAGCTGAAG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.35
Consensus pattern (58 bp):
ATTTTGTTGTGATATAGGGGGCAATAAGGATTAAGGCTCATATTGATATTCGAAGGCC
Found at i:20288470 original size:15 final size:15
Alignment explanation
Indices: 20288442--20288475 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
20288432 GTAATTGATG
*
20288442 TGTGGATGACTTGGT
1 TGTGGATGAATTGGT
*
20288457 TGTGGTTGAATTGGT
1 TGTGGATGAATTGGT
20288472 TGTG
1 TGTG
20288476 TGTATATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.41, T:0.44
Consensus pattern (15 bp):
TGTGGATGAATTGGT
Found at i:20292199 original size:14 final size:14
Alignment explanation
Indices: 20292180--20292208 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20292170 TGTGCCACAC
20292180 ACGACTAGTAGACA
1 ACGACTAGTAGACA
20292194 ACGACTAGTAGACA
1 ACGACTAGTAGACA
20292208 A
1 A
20292209 GCCCGTGTGT
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:0.45, C:0.21, G:0.21, T:0.14
Consensus pattern (14 bp):
ACGACTAGTAGACA
Found at i:20297985 original size:43 final size:42
Alignment explanation
Indices: 20297863--20298007 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 42
20297853 TAAGACCACA
* * *
20297863 TCTGGGACATTGGCATCG-ACTTGAGATTTACATGTAAGACCATG
1 TCTGGGACAGTGGCATCGTA-TT-CGA-TTACATGTAAGACCCTG
* * ***
20297907 TCTGGGACA-TCGACATCGTATTTGATTTTGTGTAAGACCCTG
1 TCTGGGACAGT-GGCATCGTATTCGATTACATGTAAGACCCTG
20297949 TCTGGGACAGTGGCATCAGTATTCGATTACATGTAAGACCAC-G
1 TCTGGGACAGTGGCATC-GTATTCGATTACATGTAAGACC-CTG
20297992 TCTGGGA-AGTTGGCAT
1 TCTGGGACAG-TGGCAT
20298008 TGTACGAGCT
Statistics
Matches: 84, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
42 29 0.35
43 36 0.43
44 18 0.21
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (42 bp):
TCTGGGACAGTGGCATCGTATTCGATTACATGTAAGACCCTG
Found at i:20304538 original size:21 final size:21
Alignment explanation
Indices: 20304512--20304558 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
20304502 AAGTGTACTG
*
20304512 TACTGGCAGCTCTGTTGCAAT
1 TACTGGCAGCTCTGCTGCAAT
* *
20304533 TACTGGCAGCTTTGCTGTAAT
1 TACTGGCAGCTCTGCTGCAAT
20304554 TACTG
1 TACTG
20304559 AATAGTGCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (21 bp):
TACTGGCAGCTCTGCTGCAAT
Found at i:20310883 original size:42 final size:42
Alignment explanation
Indices: 20310820--20310973 Score: 164
Period size: 42 Copynumber: 3.6 Consensus size: 42
20310810 ACTAAGTCTA
*
20310820 CGTGTAAGACCATATTTGGGATATGGCATCGATATGAGATTT
1 CGTGTAAGACCATATTTGGGATATGGCATCAATATGAGATTT
* * * * ** *
20310862 TGTTTAAGACCACATTTGGGATGTGAAATTAATATGAGATTT
1 CGTGTAAGACCATATTTGGGATATGGCATCAATATGAGATTT
* * * * **
20310904 CGTGTAAGACCATAGTTGGGCTATTGGCATCTATACGAGATCC
1 CGTGTAAGACCATATTTGGGATA-TGGCATCAATATGAGATTT
*
20310947 CATGTAAGACCATATTTGGGATATGGC
1 CGTGTAAGACCATATTTGGGATATGGC
20310974 GTTGGTATGG
Statistics
Matches: 87, Mismatches: 24, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
42 55 0.63
43 32 0.37
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCATATTTGGGATATGGCATCAATATGAGATTT
Found at i:20312165 original size:20 final size:20
Alignment explanation
Indices: 20312136--20312189 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
20312126 CATGGCCTGC
*
20312136 CCACATGGGCGTGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
*
20312156 CCACACGGGCATGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
*
20312176 CCACACGGACGTGT
1 CCACACGGGCGTGT
20312190 GGCTCTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.37, G:0.28, T:0.13
Consensus pattern (20 bp):
CCACACGGGCGTGTCCCAAG
Found at i:20328206 original size:42 final size:42
Alignment explanation
Indices: 20328161--20328308 Score: 145
Period size: 42 Copynumber: 3.5 Consensus size: 42
20328151 TAAGGATACG
*
20328161 TGTAAGACCATATCTAGGATATGGCATCGATATGAGATTTCG
1 TGTAAGACCATATCTAGGATATGGCATCGATATGAGATTTCA
* * * * *
20328203 TGTAAGACCACATTTGGGATGTGGCATTGATATGAGATTTCA
1 TGTAAGACCATATCTAGGATATGGCATCGATATGAGATTTCA
* ** * * * *
20328245 TGTAACACCATGGCTGGGCTATTGGCATCGATACGAGA-TCCTA
1 TGTAAGACCATATCTAGGATA-TGGCATCGATATGAGATTTC-A
*
20328288 TGTAAGACTATATCTAGGATA
1 TGTAAGACCATATCTAGGATA
20328309 CGGCGTTGGT
Statistics
Matches: 82, Mismatches: 22, Indels: 3
0.77 0.21 0.03
Matches are distributed among these distances:
42 52 0.63
43 30 0.37
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGATATGGCATCGATATGAGATTTCA
Found at i:20334854 original size:39 final size:39
Alignment explanation
Indices: 20334797--20334929 Score: 205
Period size: 39 Copynumber: 3.4 Consensus size: 39
20334787 ATGCATGTTA
20334797 CTGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATG
1 CTGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATG
* *
20334836 CTGGAAATATATCTGGACTTGAAGTCCGCAGGCTTTATG
1 CTGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATG
* * *
20334875 CTGGAAACATATCCGGACTTAAAGTCCGCAGGC-TAAGTG
1 CTGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TG
20334914 CTGGAAAAATATCCGG
1 CTGGAAAAATATCCGG
20334930 GCTAAGTCCC
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 2 0.02
39 84 0.98
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (39 bp):
CTGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATG
Found at i:20334955 original size:78 final size:78
Alignment explanation
Indices: 20334797--20334956 Score: 191
Period size: 78 Copynumber: 2.1 Consensus size: 78
20334787 ATGCATGTTA
* * * *
20334797 CTGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGCTGGAAATATATCTGGACTTGAAGTC
1 CTGGAAAAATATCCGGACTTAAAGTCCGCAGGCTTAATGCTGGAAAAATATCCGGACTTGAAGTC
* *
20334862 CGCAGGCTTTATG
66 CGAAGGCTTCATG
* *
20334875 CTGGAAACATATCCGGACTTAAAGTCCGCAGGC-TAAGTGCTGGAAAAATATCCGGGC-T-AAGT
1 CTGGAAAAATATCCGGACTTAAAGTCCGCAGGCTTAA-TGCTGGAAAAATATCCGGACTTGAAGT
*
20334937 CCCGAAGGCATTCGTG
65 -CCGAAGGC-TTCATG
20334953 CTGG
1 CTGG
20334957 TGTTATATCC
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
76 4 0.06
77 10 0.14
78 56 0.80
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (78 bp):
CTGGAAAAATATCCGGACTTAAAGTCCGCAGGCTTAATGCTGGAAAAATATCCGGACTTGAAGTC
CGAAGGCTTCATG
Found at i:20334987 original size:14 final size:14
Alignment explanation
Indices: 20334968--20334998 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
20334958 GTTATATCCG
20334968 GGCTAAGTCCTGAA
1 GGCTAAGTCCTGAA
20334982 GGCTAAGTCCTGAA
1 GGCTAAGTCCTGAA
20334996 GGC
1 GGC
20334999 ATTCGTGCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.19
Consensus pattern (14 bp):
GGCTAAGTCCTGAA
Found at i:20335009 original size:53 final size:53
Alignment explanation
Indices: 20334929--20335037 Score: 182
Period size: 53 Copynumber: 2.1 Consensus size: 53
20334919 AAAATATCCG
* *
20334929 GGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCTGAA
1 GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAA
* *
20334982 GGCTAAGTCCTGAAGGCATTCGTGCTGGTATTATATCTGGGCTAAGTCCCGAA
1 GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAA
20335035 GGC
1 GGC
20335038 ATTCGTGCTG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (53 bp):
GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAA
Found at i:20335036 original size:39 final size:39
Alignment explanation
Indices: 20334982--20335151 Score: 250
Period size: 39 Copynumber: 4.3 Consensus size: 39
20334972 AAGTCCTGAA
* *
20334982 GGCTAAGTCCTGAAGGCATTCGTGCTGGTATTATATCTG
1 GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCG
**
20335021 GGCTAAGTCCCGAAGGCATTCGTGCTGGTGCTATATCCG
1 GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCG
* * *
20335060 GGCTAAGTCCCGAAGGCATTCGTGCTAGTGTTATATTCG
1 GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCG
*
20335099 GGCTAAGTCCCGAAGGCATTTGTGCTGGTATTATATCCG
1 GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCG
20335138 GGCTTAAAGTCCCG
1 GGC-T-AAGTCCCG
20335152 CATGCTTTGT
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 109 0.92
40 1 0.01
41 8 0.07
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCG
Found at i:20341543 original size:12 final size:13
Alignment explanation
Indices: 20341526--20341563 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
20341516 ATCCTGGAAT
20341526 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
20341538 ATTAAGAACACATA
1 ATTAAGAACA-AGA
20341552 ATTAAGAACAAG
1 ATTAAGAACAAG
20341564 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:20342834 original size:20 final size:20
Alignment explanation
Indices: 20342781--20342834 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
20342771 CACGGCCTGC
20342781 CCACACGAGCGTGTCCCAAG
1 CCACACGAGCGTGTCCCAAG
* * *
20342801 CCATATGAGTGTGTCCCAAG
1 CCACACGAGCGTGTCCCAAG
*
20342821 CCACACGGGCGTGT
1 CCACACGAGCGTGT
20342835 GGCTCTTAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.22, C:0.33, G:0.28, T:0.17
Consensus pattern (20 bp):
CCACACGAGCGTGTCCCAAG
Found at i:20345506 original size:31 final size:33
Alignment explanation
Indices: 20345446--20345507 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
20345436 AAAATAAGCT
20345446 TGATATTGTTAATATAATTTGGTTGGTTTAAAA
1 TGATATTGTTAATATAATTTGGTTGGTTTAAAA
*
20345479 TGAT-TTGTTTATAT-ATTTGAGTT-GTTTAA
1 TGATATTGTTAATATAATTTG-GTTGGTTTAA
20345508 TTGCTTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 11 0.41
32 12 0.44
33 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (33 bp):
TGATATTGTTAATATAATTTGGTTGGTTTAAAA
Found at i:20348048 original size:40 final size:40
Alignment explanation
Indices: 20347974--20348235 Score: 366
Period size: 40 Copynumber: 6.6 Consensus size: 40
20347964 AACCCAAGTA
* * *
20347974 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * *
20348013 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
20348053 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
20348093 CCTTCGGGACTTAGCCCGAATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
20348133 CCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
20348173 CCTTCGGGACTTAGCCCGGATATAATCACTAGCAAAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
20348213 CCTTCGGGACATAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
20348236 CATTCGAATA
Statistics
Matches: 203, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 12 0.06
40 188 0.93
41 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:20356640 original size:79 final size:81
Alignment explanation
Indices: 20356498--20356680 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
20356488 TACTCGTTCA
* *
20356498 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
20356562 TTTAGT-AGC-TCGCACC
66 TATAGTCA-CTTAGCA-C
**
20356578 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
*
20356640 ATATGGTCACTTAGCAC
65 ATATAGTCACTTAGCAC
*
20356657 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
20356681 CATCATTCGA
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
78 3 0.03
79 58 0.64
80 29 0.32
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTCACTTAGCAC
Found at i:20356680 original size:40 final size:40
Alignment explanation
Indices: 20356477--20356680 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
20356467 CAGAATTTAA
** *
20356477 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20356517 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
20356557 CCGGATTTAGTAGCTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
20356596 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
20356636 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
20356676 CCGGA
1 CCGGA
20356681 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:20369666 original size:26 final size:26
Alignment explanation
Indices: 20369637--20369687 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
20369627 GTCTATCGCG
20369637 AGGCTGATGCATGTCCCAGACATGTA
1 AGGCTGATGCATGTCCCAGACATGTA
20369663 AGGCTGATGCATGTCCCAGACATGT
1 AGGCTGATGCATGTCCCAGACATGT
20369688 CTTAAACTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (26 bp):
AGGCTGATGCATGTCCCAGACATGTA
Found at i:20369779 original size:46 final size:47
Alignment explanation
Indices: 20369663--20369789 Score: 168
Period size: 48 Copynumber: 2.7 Consensus size: 47
20369653 CAGACATGTA
* *
20369663 AGGCTGATGCATGTCCCAGACATGTCTTAAACTGGCTTAAATATCTTG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATA-CTTG
* *
20369711 AGGCCGATGCATGTCCCAGACATGTCTTACGCTGGCTCT-CATA-TTG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TAAATACTTG
* *
20369757 TGGCCGATGCATGTCCCAGACATATCTTACACT
1 AGGCCGATGCATGTCCCAGACATGTCTTACACT
20369790 AGCACACATA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
46 33 0.46
48 37 0.52
49 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (47 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATACTTG
Found at i:20369800 original size:46 final size:46
Alignment explanation
Indices: 20369663--20369800 Score: 159
Period size: 46 Copynumber: 3.0 Consensus size: 46
20369653 CAGACATGTA
* * * * *
20369663 AGGCTGATGCATGTCCCAGACATGTCTTAAACTGGCTTAAATATCTTG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGC--ACACATATTG
* * *
20369711 AGGCCGATGCATGTCCCAGACATGTCTTACGCTGGCTCTCATATTG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCACACATATTG
* * *
20369757 TGGCCGATGCATGTCCCAGACATATCTTACACTAGCACACATAT
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCACACATAT
20369801 CACCCAATAT
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 43 0.57
48 33 0.43
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (46 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCACACATATTG
Found at i:20370518 original size:13 final size:13
Alignment explanation
Indices: 20370500--20370526 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20370490 CTAAAAGTAC
20370500 AAAAATCATCAAA
1 AAAAATCATCAAA
20370513 AAAAATCATCAAA
1 AAAAATCATCAAA
20370526 A
1 A
20370527 TCACTTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATCATCAAA
Found at i:20372478 original size:31 final size:31
Alignment explanation
Indices: 20372442--20372504 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
20372432 AACGTAAAGT
20372442 AAGTTAACATAAAGGCTATTAAAATCTCCTA
1 AAGTTAACATAAAGGCTATTAAAATCTCCTA
20372473 AAGTTAACATAAAGGCTATTAAAATCTCCTA
1 AAGTTAACATAAAGGCTATTAAAATCTCCTA
20372504 A
1 A
20372505 TCATAGGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.29
Consensus pattern (31 bp):
AAGTTAACATAAAGGCTATTAAAATCTCCTA
Found at i:20377852 original size:22 final size:23
Alignment explanation
Indices: 20377827--20377872 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
20377817 CAACTAAATC
20377827 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
20377849 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
20377872 A
1 A
20377873 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:20377878 original size:23 final size:23
Alignment explanation
Indices: 20377834--20377878 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
20377824 ATCAATTCAA
*
20377834 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
20377857 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
20377879 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:20380496 original size:131 final size:131
Alignment explanation
Indices: 20380262--20380520 Score: 491
Period size: 131 Copynumber: 2.0 Consensus size: 131
20380252 TCACTCTAAT
20380262 AACTTTTACACCTATTACAATTTAGTCCTTTTCATTTAATTGACTACCCAAACATTAAAATTTCC
1 AACTTTTACACCTATTACAATTTAGTCCTTTTCATTTAATTGACTACCCAAACATTAAAATTTCC
* *
20380327 TAACGAAATTTTAATACCACATTAATAGCATTTCATAAATATTTATAAATTTATTTTTGACTCAG
66 TAACGAAATTTTAATACCACATTAATAACATTTCATAAATATTTATAAAATTATTTTTGACTCAG
20380392 C
131 C
*
20380393 AACTTTTACACTTATTACAATTTAGTCCTTTTCATTTAATTGACTACCCAAACATTAAAATTTCC
1 AACTTTTACACCTATTACAATTTAGTCCTTTTCATTTAATTGACTACCCAAACATTAAAATTTCC
20380458 TAACGAAATTTTAATACCACATTAATAACATTTCATAAATATTTATAAAATTATTTTTGACTC
66 TAACGAAATTTTAATACCACATTAATAACATTTCATAAATATTTATAAAATTATTTTTGACTC
20380521 GGTTTTACGA
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 125 1.00
ACGTcount: A:0.37, C:0.18, G:0.04, T:0.41
Consensus pattern (131 bp):
AACTTTTACACCTATTACAATTTAGTCCTTTTCATTTAATTGACTACCCAAACATTAAAATTTCC
TAACGAAATTTTAATACCACATTAATAACATTTCATAAATATTTATAAAATTATTTTTGACTCAG
C
Found at i:20382080 original size:34 final size:34
Alignment explanation
Indices: 20381995--20382088 Score: 86
Period size: 33 Copynumber: 2.8 Consensus size: 34
20381985 CAGTGCAAAG
* * **
20381995 CAGTATGGGCCTAAGCCCA-TATCAGTGGCAATAT
1 CAGTGTGGGCCTTAGCCCATTA-CAGTAACAATAT
* * *
20382029 CAGAGT-GGCTTTAGCCCATTACAGTAACAGTAT
1 CAGTGTGGGCCTTAGCCCATTACAGTAACAATAT
20382062 CAGTGTGGGCCTTAGCCCAATT-CAGTA
1 CAGTGTGGGCCTTAGCCC-ATTACAGTA
20382089 TAGTATAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
33 24 0.50
34 21 0.44
35 3 0.06
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (34 bp):
CAGTGTGGGCCTTAGCCCATTACAGTAACAATAT
Found at i:20386654 original size:27 final size:26
Alignment explanation
Indices: 20386617--20386730 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 26
20386607 AGCATGGCTG
*
20386617 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
20386643 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
**
20386670 CCAGAAACAGATATTTGTGGTAGAGCCA
1 CCAG-AACAGATA-TTGTGACAGAGCCA
* * * * *
20386698 CCGGATCAAATATTTATGGCAGAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
20386725 CCAGAA
1 CCAGAA
20386731 TGCTTCCTCC
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 5 0.07
27 53 0.71
28 17 0.23
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:20386711 original size:54 final size:55
Alignment explanation
Indices: 20386617--20386730 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 55
20386607 AGCATGGCTG
* * *
20386617 CCAG-AACAGATATTGTGACAGAGTCACCAGATACAGATA-TTGTGGCAGAGCCA
1 CCAGAAACAGATATTGTGACAGAGCCACCAGATACAAATATTTATGGCAGAGCCA
** *
20386670 CCAGAAACAGATATTTGTGGTAGAGCCACCGGAT-CAAATATTTATGGCAGAGCCA
1 CCAGAAACAGATA-TTGTGACAGAGCCACCAGATACAAATATTTATGGCAGAGCCA
20386725 CCAGAA
1 CCAGAA
20386731 TGCTTCCTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 4 0.08
54 13 0.25
55 35 0.67
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (55 bp):
CCAGAAACAGATATTGTGACAGAGCCACCAGATACAAATATTTATGGCAGAGCCA
Found at i:20386853 original size:24 final size:25
Alignment explanation
Indices: 20386826--20386879 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
20386816 TTTCAGTCAA
*
20386826 AATTAAC-CCTAGGGGTATAATGGT
1 AATTAACACCTAGGGGTATAATAGT
**
20386850 AATTTTGCACCTAGGGGTATAATAGT
1 AA-TTAACACCTAGGGGTATAATAGT
20386876 AATT
1 AATT
20386880 TTCATTCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 2 0.08
25 5 0.20
26 18 0.72
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (25 bp):
AATTAACACCTAGGGGTATAATAGT
Found at i:20411946 original size:28 final size:28
Alignment explanation
Indices: 20411878--20411956 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 28
20411868 CTGCCAGAAC
* * *
20411878 AATATAGTGACAGAGTCACCA-AATACA
1 AATATTGTGGCAGAGCCACCAGAATACA
20411905 AATATTGTGGCAGAGCCACCAGAA-ACA
1 AATATTGTGGCAGAGCCACCAGAATACA
*
20411932 GATATTTGTGGCAGAGCCACCAGAA
1 AATA-TTGTGGCAGAGCCACCAGAA
20411957 CGCTTCCTCC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
27 24 0.52
28 22 0.48
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.18
Consensus pattern (28 bp):
AATATTGTGGCAGAGCCACCAGAATACA
Found at i:20412087 original size:27 final size:28
Alignment explanation
Indices: 20412057--20412122 Score: 84
Period size: 26 Copynumber: 2.5 Consensus size: 28
20412047 GTGAAAATTA
*
20412057 ACCTTAGGGGTATAATGGTAATTTT-GC
1 ACCTTAGGGGTATAATAGTAATTTTCGC
* *
20412084 ACC-TAGGGCTATAATAGTAATTTTCGT
1 ACCTTAGGGGTATAATAGTAATTTTCGC
20412111 A-CTTAGGGGTAT
1 ACCTTAGGGGTAT
20412123 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 20 0.61
27 13 0.39
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.36
Consensus pattern (28 bp):
ACCTTAGGGGTATAATAGTAATTTTCGC
Found at i:20416620 original size:15 final size:15
Alignment explanation
Indices: 20416600--20416629 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20416590 AACAAATGGT
20416600 CTAATTACCATCTAA
1 CTAATTACCATCTAA
20416615 CTAATTACCATCTAA
1 CTAATTACCATCTAA
20416630 GGACCTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (15 bp):
CTAATTACCATCTAA
Found at i:20424692 original size:34 final size:35
Alignment explanation
Indices: 20424640--20424705 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
20424630 CTAGCTACAG
*
20424640 TCTCAGTCTTCTAAAGTTTTCAGT-TTTCCCTACTA
1 TCTCAGTCTTCTAAAG-TTTCAGTATTACCCTACTA
*
20424675 TCTCAGT-TTCTACAGTTTCAGTATTACCCTA
1 TCTCAGTCTTCTAAAGTTTCAGTATTACCCTA
20424706 ACTACAGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 7 0.25
34 14 0.50
35 7 0.25
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (35 bp):
TCTCAGTCTTCTAAAGTTTCAGTATTACCCTACTA
Found at i:20432474 original size:15 final size:16
Alignment explanation
Indices: 20432443--20432475 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
20432433 CGTAACTTTT
20432443 AACTTAATTAACATTTA
1 AACTTAATT-ACATTTA
20432460 AACTTAATT-CATTTA
1 AACTTAATTACATTTA
20432475 A
1 A
20432476 TTGCTTACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (16 bp):
AACTTAATTACATTTA
Found at i:20433948 original size:28 final size:27
Alignment explanation
Indices: 20433874--20434017 Score: 183
Period size: 28 Copynumber: 5.4 Consensus size: 27
20433864 GATATGACAC
* *
20433874 TGTGCTAAGTGAAATAAGACCATGACA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
*
20433901 --T-CTAAGTGAAAGAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
*
20433925 GTGTGCTAAGTGAAATAAGACCATGGCA
1 -TGTGCTAAGTGAAATAAGTCCATGGCA
20433953 --T-CTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
20433978 TGTGCTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
20434005 TGGTGCTAAGTGA
1 T-GTGCTAAGTGA
20434018 GAAATTTCCC
Statistics
Matches: 102, Mismatches: 6, Indels: 17
0.82 0.05 0.14
Matches are distributed among these distances:
24 41 0.40
25 3 0.03
27 4 0.04
28 54 0.53
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.24
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGCA
Found at i:20434002 original size:52 final size:52
Alignment explanation
Indices: 20433874--20434005 Score: 228
Period size: 52 Copynumber: 2.5 Consensus size: 52
20433864 GATATGACAC
* *
20433874 TGTGCTAAGTGAAATAAGACCATGACATCTAAGTGAAAGAAGTCCATGGCAG
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAAGAAGTCCATGGCAA
*
20433926 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAAGAAGTCCATGGCAA
*
20433978 TGTGCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGACCATGGCAT
20434006 GGTGCTAAGT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAAGAAGTCCATGGCAA
Found at i:20434096 original size:51 final size:51
Alignment explanation
Indices: 20434041--20434240 Score: 278
Period size: 51 Copynumber: 3.9 Consensus size: 51
20434031 TGAACCTTAG
*
20434041 GAATAAAATAGCTTTGGACACAAGTGTGGTATTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * * *
20434092 GAATATAATAGCTTTAGACACAAGTGTGGTACTAAGTTAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
20434143 GAATAAAATAGCTTCGGACACAAGTGTGGTACTATGTGAAGGCCATTTTCT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
20434194 GAATAAAATAACTTTGG-CTACAGAG-GTTGTACTATGTGAAGGCCACT
1 GAATAAAATAGCTTTGGAC-ACA-AGTGTGGTACTATGTGAAGGCCACT
20434241 GTGTAACCAT
Statistics
Matches: 131, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
50 1 0.01
51 128 0.98
52 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:20436733 original size:24 final size:24
Alignment explanation
Indices: 20436706--20436751 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
20436696 ATTTTTGGAC
20436706 CAAATTTCAATTTACCTATAGAAA
1 CAAATTTCAATTTACCTATAGAAA
20436730 CAAATTTCAATTTACCTATAGA
1 CAAATTTCAATTTACCTATAGA
20436752 CTAACTTCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.35
Consensus pattern (24 bp):
CAAATTTCAATTTACCTATAGAAA
Found at i:20441955 original size:66 final size:63
Alignment explanation
Indices: 20441798--20441955 Score: 167
Period size: 66 Copynumber: 2.5 Consensus size: 63
20441788 CATTATGATG
* * * *
20441798 TGGCTAGGTCGCATGGGTGATACT-A-TGTGTACACCAGTAGACAAGAGAGCTACGGGATATA
1 TGGCTAGGTCGCATGGGTGGTACTAAGTGAGGACACCAGTAGACAAGAGAGCTACGGGATAAA
* * * * *
20441859 TGTAGCTAGGTCGTATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGATA
1 TG--GCTAGGTCGCATGGGTGGTACTAAGTG-AGGACACCA-GTAGACAAGAGAGCTACGGGATA
20441924 AA
62 AA
*
20441926 CTGGCTAGGTCACATGGGTGGTACTAAGTG
1 -TGGCTAGGTCGCATGGGTGGTACTAAGTG
20441956 TTCACCATGT
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
61 2 0.03
63 17 0.22
64 1 0.01
65 2 0.03
66 29 0.38
67 23 0.30
68 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.23
Consensus pattern (63 bp):
TGGCTAGGTCGCATGGGTGGTACTAAGTGAGGACACCAGTAGACAAGAGAGCTACGGGATAAA
Found at i:20441977 original size:63 final size:62
Alignment explanation
Indices: 20441798--20441977 Score: 184
Period size: 63 Copynumber: 2.8 Consensus size: 62
20441788 CATTATGATG
* * *
20441798 TGGCTAGGTCGCATGGGTGATACTATGTGTACACCA-GTAGACAAGAGAGCTACGGGATATA
1 TGGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGGGATAAA
* * * * * *
20441859 TGTAGCTAGGTCGTATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGATA
1 TG--GCTAGGTCGCATGGGTGGTACTAAGT---GTACACCATGTAGACAAGAGAGCTACGGGATA
20441924 AA
61 AA
* *
20441926 CTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 -TGGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGC
20441978 CGAACTATAT
Statistics
Matches: 95, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
61 2 0.02
62 1 0.01
63 39 0.41
66 28 0.29
67 23 0.24
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (62 bp):
TGGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGGGATAAA
Found at i:20455687 original size:22 final size:22
Alignment explanation
Indices: 20455659--20455780 Score: 59
Period size: 22 Copynumber: 5.3 Consensus size: 22
20455649 TTCCACATCC
20455659 ATCACATTGGCCTTTCGGCCTT
1 ATCACATTGGCCTTTCGGCCTT
** * *
20455681 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CTTTCGGCCTT
*
20455705 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCTTTCGGCCTT
* * * * *
20455728 ATCTCATATATGCATGTTC-ACATT
1 ATCACAT-T-GGCCT-TTCGGCCTT
*
20455752 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCTTTCGGCCTT
20455775 ATCACA
1 ATCACA
20455781 CATACACATG
Statistics
Matches: 69, Mismatches: 21, Indels: 20
0.63 0.19 0.18
Matches are distributed among these distances:
22 26 0.38
23 11 0.16
24 11 0.16
25 21 0.30
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCTTTCGGCCTT
Found at i:20455694 original size:47 final size:47
Alignment explanation
Indices: 20455631--20456092 Score: 646
Period size: 47 Copynumber: 9.7 Consensus size: 47
20455621 CCCTTCGGGA
* * * *
20455631 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCTTTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
20455678 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
20455725 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
20455772 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
20455819 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
20455866 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
20455913 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
20455960 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* * *
20456009 CTTATCACATATATACACT-TTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
20456056 CTTATCACATATATATACACT-TTCACATTCATCACAT
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACAT
20456093 CATGTACAGA
Statistics
Matches: 383, Mismatches: 26, Indels: 10
0.91 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 312 0.81
49 69 0.18
50 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:20466732 original size:43 final size:43
Alignment explanation
Indices: 20466607--20466770 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
20466597 CGGAAAGCTC
* * *
20466607 GTACAATGCCAATATCCCAGACGTGGTCTTACATGT-AATCAA
1 GTACAATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAA
* * * * * *
20466649 ATATCGATGCCACTGTCCCAGATAAGGTCTTACAC-AAAATCAA
1 GTA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAA
* * *
20466692 GTACGATGCCAATGTCCTAGTCATGGTCTTACACGTAAATCATAA
1 GTACAATGCCAATGTCCCAGACATGGTCTTACACGTAAATC--AA
* *
20466737 GT-CAATGCCAACGTCCCAGACGTGGTCTTACACG
1 GTACAATGCCAATGTCCCAGACATGGTCTTACACG
20466771 AAAACACATA
Statistics
Matches: 96, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
42 28 0.29
43 37 0.39
44 27 0.28
45 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
GTACAATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAA
Found at i:20466756 original size:86 final size:86
Alignment explanation
Indices: 20466607--20466774 Score: 189
Period size: 85 Copynumber: 2.0 Consensus size: 86
20466597 CGGAAAGCTC
* * * *
20466607 GTACAATGCCAATATCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGAT
1 GTACAATGCCAATATCCCAGACATGGTCTTACACGTAATCAAATATCAATGCCACTGTCCCAGAC
20466672 AAGGTCTTACAC-AAAATCAA
66 AAGGTCTTACACGAAAATCAA
* * * * *
20466692 GTACGATGCCAATGTCCTAGTCATGGTCTTACACGTAAATCATAA-GTCAATGCCAAC-GTCCCA
1 GTACAATGCCAATATCCCAGACATGGTCTTACACGT-AATCA-AATATCAATGCC-ACTGTCCCA
**
20466755 GACGTGGTCTTACACGAAAA
63 GACAAGGTCTTACACGAAAA
20466775 CACATATCGG
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
85 30 0.44
86 30 0.44
87 8 0.12
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (86 bp):
GTACAATGCCAATATCCCAGACATGGTCTTACACGTAATCAAATATCAATGCCACTGTCCCAGAC
AAGGTCTTACACGAAAATCAA
Found at i:20468095 original size:19 final size:19
Alignment explanation
Indices: 20468067--20468107 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
20468057 TTCATCATAA
* *
20468067 TAAAATAAAATAATAAAAG
1 TAAAACAAAACAATAAAAG
*
20468086 TAAAACAAAACCATAAAAG
1 TAAAACAAAACAATAAAAG
20468105 TAA
1 TAA
20468108 TTAAGCGGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (19 bp):
TAAAACAAAACAATAAAAG
Found at i:20468615 original size:28 final size:28
Alignment explanation
Indices: 20468567--20468657 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
20468557 GTGACAGAGT
*
20468567 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
20468596 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
20468624 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
20468652 CACCAG
1 CACCAG
20468658 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:20468803 original size:28 final size:28
Alignment explanation
Indices: 20468763--20468883 Score: 197
Period size: 28 Copynumber: 4.3 Consensus size: 28
20468753 AAATTAACCC
*
20468763 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
20468791 TAGGGGTAAAAAGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
* *
20468819 TAGAGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
20468847 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
20468875 TAGGGGTAT
1 TAGGGGTAT
20468884 TCTAGTACAT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 87 1.00
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:20469146 original size:8 final size:8
Alignment explanation
Indices: 20469130--20469161 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
20469120 CCCAAAATAC
20469130 CGGCTTTT
1 CGGCTTTT
*
20469138 CGGCATTT
1 CGGCTTTT
20469146 CGGCTTTT
1 CGGCTTTT
20469154 CGGCTTTT
1 CGGCTTTT
20469162 GTCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:20477513 original size:28 final size:28
Alignment explanation
Indices: 20477480--20477566 Score: 104
Period size: 28 Copynumber: 3.1 Consensus size: 28
20477470 CACATACCTA
* *
20477480 TATATGGCCCACAAGGCCCAATCTC-TT
1 TATATGGCCCACTAGGCCCAATCACATT
*
20477507 TCATATGGCCTACTAGGCCCAATCACATT
1 T-ATATGGCCCACTAGGCCCAATCACATT
* *
20477536 TATGTGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCACTAGGCCC-AATCACATT
20477565 TA
1 TA
20477567 CAGTCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
27 1 0.02
28 36 0.71
29 14 0.27
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (28 bp):
TATATGGCCCACTAGGCCCAATCACATT
Found at i:20477829 original size:16 final size:16
Alignment explanation
Indices: 20477810--20477845 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
20477800 ACATTTTAGT
20477810 TTTTCAGCATTTTGGC
1 TTTTCAGCATTTTGGC
**
20477826 TTTTTGGCATTTTGGC
1 TTTTCAGCATTTTGGC
20477842 TTTT
1 TTTT
20477846 GTCGATCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.08, C:0.14, G:0.19, T:0.58
Consensus pattern (16 bp):
TTTTCAGCATTTTGGC
Found at i:20486947 original size:14 final size:15
Alignment explanation
Indices: 20486930--20486958 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
20486920 TCACGAAAAT
20486930 TTCACACAT-ATAAA
1 TTCACACATAATAAA
20486944 TTCACACATAATAAA
1 TTCACACATAATAAA
20486959 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:20489032 original size:40 final size:40
Alignment explanation
Indices: 20488834--20489016 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
20488824 TGGATGATAA
* *
20488834 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
20488874 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
20488914 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
20488954 CTGGGCTATGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
20488994 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
20489017 CGAGTGAGTA
Statistics
Matches: 134, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 1 0.01
40 133 0.99
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:20489032 original size:80 final size:79
Alignment explanation
Indices: 20488834--20489051 Score: 273
Period size: 80 Copynumber: 2.7 Consensus size: 79
20488824 TGGATGATAA
*
20488834 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGT-GACTAGTTTCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTAG-CTA-TATCGGGCTAAGTCCCGAAGGCATT
*
20488897 TGTGCGAGTTACTATAT
63 GGTGCGAGTTACTATAT
* *
20488914 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCTGGGCTATGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAG-TAGCTATATC-GGGCTAAGTCCCGAAGGCATTG
20488978 GTGCGAGTTACTATAT
64 GTGCGAGTTACTATAT
* * * * *
20488994 CCGGGCTATGTCCCGAAGGCATTCGAGTGAGTAGCTATACTC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTAGCTATA-TCGGGCTAAGTCCCGAAGG
20489052 TACTTGGCTT
Statistics
Matches: 121, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
79 18 0.15
80 100 0.83
81 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTAGCTATATCGGGCTAAGTCCCGAAGGCATTGGT
GCGAGTTACTATAT
Found at i:20505495 original size:16 final size:15
Alignment explanation
Indices: 20505470--20505499 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
20505460 GTACGTAAAA
20505470 CTCATATGTGATGAG
1 CTCATATGTGATGAG
20505485 CTCATTATGTGATGA
1 CTCA-TATGTGATGA
20505500 ACCCTCAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (15 bp):
CTCATATGTGATGAG
Found at i:20514883 original size:38 final size:38
Alignment explanation
Indices: 20514805--20514993 Score: 297
Period size: 38 Copynumber: 4.9 Consensus size: 38
20514795 AAACCCAAAC
* * *
20514805 ATAACACCAGCACGAAGCCTACGTGACTTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTTAACCCGGAT
20514844 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
20514882 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* *
20514920 ATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* * *
20514958 ATATTACCAGTACAAAGCCTGCGGGATTTAACCCGG
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
20514994 GTACAATCTC
Statistics
Matches: 144, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
38 121 0.84
39 23 0.16
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.20
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:20519027 original size:31 final size:31
Alignment explanation
Indices: 20518987--20519048 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
20518977 GTTCATATAA
20518987 CATAGTACTTAACTTACCATTCATTCTAATT
1 CATAGTACTTAACTTACCATTCATTCTAATT
*
20519018 CATATTACTTAACTTACCATTCATTCTAATT
1 CATAGTACTTAACTTACCATTCATTCTAATT
20519049 TGAGGTAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.23, G:0.02, T:0.44
Consensus pattern (31 bp):
CATAGTACTTAACTTACCATTCATTCTAATT
Found at i:20519968 original size:51 final size:51
Alignment explanation
Indices: 20519906--20520010 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
20519896 CGATTCCTCC
20519906 TTTATTCAAATGAGATTTAACATTTCTCAAGCATTAACAAGGATGTGATTA
1 TTTATTCAAATGAGATTTAACATTTCTCAAGCATTAACAAGGATGTGATTA
*
20519957 TTTATTTAAATGAGATTTAACATTTCTCAAGCATTAACAAGGATGTGATTA
1 TTTATTCAAATGAGATTTAACATTTCTCAAGCATTAACAAGGATGTGATTA
20520008 TTT
1 TTT
20520011 CTTACATCTA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.40
Consensus pattern (51 bp):
TTTATTCAAATGAGATTTAACATTTCTCAAGCATTAACAAGGATGTGATTA
Found at i:20529869 original size:27 final size:27
Alignment explanation
Indices: 20529828--20529946 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 27
20529818 TGGATAAGTT
* *
20529828 GTAGAATTACTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
20529855 ATAGAATTATCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
20529882 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
20529909 GTAGAATTACCGAGATACCCTTATGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
20529936 GTAAAATTACC
1 GTAGAATTACC
20529947 ATTTTGCCCC
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Done.