Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 6 of 79
Found at i:1974692 original size:13 final size:13
Alignment explanation
Indices: 1974676--1974707 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
1974666 TCCAGGAACC
1974676 GAAATGGAGAGAA
1 GAAATGGAGAGAA
1974689 GAAATGGAGAGAA
1 GAAATGGAGAGAA
1974702 GAAATG
1 GAAATG
1974708 AAGATGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.38, T:0.09
Consensus pattern (13 bp):
GAAATGGAGAGAA
Found at i:1977152 original size:45 final size:45
Alignment explanation
Indices: 1977071--1977212 Score: 175
Period size: 45 Copynumber: 3.2 Consensus size: 45
1977061 ATTTGCCGGC
* *
1977071 TTACTGATTCGGCACTTTGTGTGTCG-A-ACTGTTACTGTTACTG
1 TTACAGATTCGACACTTTGTGTGTCGAATACTGTTACTGTTACTG
1977114 TTATC-GATTCGACACTTTGTGTGTCGAATACTGTTACTGTTACTG
1 TTA-CAGATTCGACACTTTGTGTGTCGAATACTGTTACTGTTACTG
* * * *
1977159 TTACAGATTC-AGCACTTTGTGTGTTGAATACTGTTATTGCTACCG
1 TTACAGATTCGA-CACTTTGTGTGTCGAATACTGTTACTGTTACTG
*
1977204 TTACTGATT
1 TTACAGATT
1977213 ACTGTATACT
Statistics
Matches: 88, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
43 23 0.26
44 4 0.05
45 61 0.69
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (45 bp):
TTACAGATTCGACACTTTGTGTGTCGAATACTGTTACTGTTACTG
Found at i:1986699 original size:43 final size:45
Alignment explanation
Indices: 1986639--1986754 Score: 137
Period size: 46 Copynumber: 2.6 Consensus size: 45
1986629 TTTTAATCCG
* * * *
1986639 CTCCACTGTAACTTCAGGGAGATAGGAT-T-ATGTCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
* * **
1986682 TTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCT-AAAGTCTTCAATCTA
1986728 CTCCACTGTAACCTCAGGGAGATAAGA
1 CTCCACTGTAACCTCAGGGAGATAAGA
1986755 CCTGGTGCGA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
43 24 0.40
44 1 0.02
46 35 0.58
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (45 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
Found at i:1986768 original size:87 final size:84
Alignment explanation
Indices: 1986558--1986797 Score: 237
Period size: 87 Copynumber: 2.8 Consensus size: 84
1986548 AGAAAAATCG
* *
1986558 ACTGTAACCTCAGGGAGATAAGACCTGGTGTGACCTGCTCTACTGTAACTTCAGAGAGATAAGAT
1 ACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGAT
** * *
1986623 CCTTTATTTTAATCCGCTCC
66 -CTAAATTTCAATCCACTCC
* * ** * * * * ** * *
1986643 ACTGTAACTTCAGGGAGATAGGATTATGTCTTCAATCTGTTCCGCTGTAACCTCAGGGAGATAAG
1 ACTGTAACCTCAGGGAGATAAGA-CCTG-GTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAG
** *
1986708 ATCTGAAAGTCTTCGGTCTACTCC
64 ATCT-AAA-T-TTCAATCCACTCC
1986732 ACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGAT
1 ACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGAT
1986797 C
66 C
1986798 CTTTNNNNNN
Statistics
Matches: 117, Mismatches: 33, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
85 21 0.18
86 4 0.03
87 60 0.51
88 3 0.03
89 29 0.25
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (84 bp):
ACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGAT
CTAAATTTCAATCCACTCC
Found at i:1986791 original size:41 final size:41
Alignment explanation
Indices: 1986558--1986795 Score: 154
Period size: 41 Copynumber: 5.6 Consensus size: 41
1986548 AGAAAAATCG
* *
1986558 ACTGTAACCTCAGGGAGATAAGACCTGGTGT-GACCTGCTCT
1 ACTGTAACCTCAGGGAGATAAGACCTGGT-TCGATCTGCTCC
* * ** ** *
1986599 ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 ACTGTAACCTCAGGGAGATAAGA-CC--TGGTTCGATCTGCTCC
* * ** * * *
1986643 ACTGTAACTTCAGGGAGATAGGATTATGTCTTCAATCTGTTCC
1 ACTGTAACCTCAGGGAGATAAGA-CCTG-GTTCGATCTGCTCC
* * * *
1986686 GCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCC
1 ACTGTAACCTCAGGGAGATAAGACCTG---G--TTCGATCTGCTCC
* *
1986732 ACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCT
1 ACTGTAACCTCAGGGAGATAAGACCTGGTTCGATCTGCTCC
* *
1986773 ACTGTAACTTCAGAGAGATAAGA
1 ACTGTAACCTCAGGGAGATAAGA
1986796 TCCTTTNNNN
Statistics
Matches: 153, Mismatches: 35, Indels: 18
0.74 0.17 0.09
Matches are distributed among these distances:
41 51 0.33
42 6 0.04
43 32 0.21
44 30 0.20
46 34 0.22
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (41 bp):
ACTGTAACCTCAGGGAGATAAGACCTGGTTCGATCTGCTCC
Found at i:1989691 original size:13 final size:13
Alignment explanation
Indices: 1989669--1989718 Score: 75
Period size: 13 Copynumber: 3.8 Consensus size: 13
1989659 TGACCTCTTC
*
1989669 TTTTTCTTTTT-A
1 TTTTTCTTTTTCT
1989681 TTTTTCTTTTTCT
1 TTTTTCTTTTTCT
1989694 TTTTTCTTTTTCT
1 TTTTTCTTTTTCT
1989707 TTTTTCTCTTTT
1 TTTTTCT-TTTT
1989719 TGACTTTGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
12 11 0.31
13 20 0.57
14 4 0.11
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTCTTTTTCT
Found at i:1989718 original size:7 final size:6
Alignment explanation
Indices: 1989666--1989710 Score: 72
Period size: 6 Copynumber: 7.3 Consensus size: 6
1989656 CCTTGACCTC
*
1989666 TTCTTT TTCTTT TTATTT TTCTTT TTCTTTT TTCTTT TTCTTT TT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTC-TTT TTCTTT TTCTTT TT
1989711 TCTCTTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 30 0.83
7 6 0.17
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.84
Consensus pattern (6 bp):
TTCTTT
Found at i:1989738 original size:8 final size:9
Alignment explanation
Indices: 1989723--1989751 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1989713 TCTTTTTGAC
1989723 TTTGATTTT
1 TTTGATTTT
1989732 TTT-ATTTT
1 TTTGATTTT
1989740 TTTGATTTT
1 TTTGATTTT
1989749 TTT
1 TTT
1989752 TTGAACTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (9 bp):
TTTGATTTT
Found at i:1997405 original size:3 final size:3
Alignment explanation
Indices: 1997397--1997456 Score: 93
Period size: 3 Copynumber: 19.3 Consensus size: 3
1997387 ACTAGTATAG
*
1997397 TAA TAA TAA TAA TAA TGAA GAAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
1997444 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
1997457 GCTAAAAAGG
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
3 49 0.92
4 4 0.08
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1998474 original size:21 final size:21
Alignment explanation
Indices: 1998448--1998488 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1998438 GGAACGGCGC
1998448 CTAGGGTTCTTCTGTTTTCTG
1 CTAGGGTTCTTCTGTTTTCTG
* *
1998469 CTAGGGTTTTTTTGTTTTCT
1 CTAGGGTTCTTCTGTTTTCT
1998489 TTTTTGGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.05, C:0.15, G:0.22, T:0.59
Consensus pattern (21 bp):
CTAGGGTTCTTCTGTTTTCTG
Found at i:2001084 original size:141 final size:143
Alignment explanation
Indices: 2000777--2001110 Score: 424
Period size: 144 Copynumber: 2.3 Consensus size: 143
2000767 TTCTCAGCCT
** ** * * * *
2000777 CCTTAGAGAAGAGAGATTTCTGAATGACTCTGGCAAGGCTTCTATTCCTTGAAACTCTTCTATCG
1 CCTTAGAGAAGAGAGATTTCCCAACCACTCTGGCAAGGCTTCTATTCCATGAAACCCTGCTATAG
* *
2000842 TTAAATATTAAAGGGTAGAAAGGAGTTGAAGTTGGTGAGTAAAACTCTTTAGCTTCCGAAAACCA
66 TCAAATATTAAAGGGCAGAAAGGAGTTGAAGTTGGTGAG-AAAACTCTTTAGCTTCCGAAAACCA
*
2000907 CTCAAATATAGATG
130 CTCAAATATAGACG
* * *
2000921 CCTTAGAGAAGAGAGATTTCCCAACCATTCTGGCAAGGCTTATATTTCATGAAACCCCTGC-ATA
1 CCTTAGAGAAGAGAGATTTCCCAACCACTCTGGCAAGGCTTCTATTCCATGAAA-CCCTGCTATA
* * ** *
2000985 GTCAAATCTTCAAGGGCAGTGAGGAGTTGAAGTTGGTGAG-GAA-TCTTTAGCTTTCC-AAAACC
65 GTCAAATATTAAAGGGCAGAAAGGAGTTGAAGTTGGTGAGAAAACTCTTTAGC-TTCCGAAAACC
2001047 ACTCAAATATAGACG
129 ACTCAAATATAGACG
* *
2001062 CCTTAGAGAAGAGAGATTTCCCAACCAGTCTGGCAAGACTTCTATTCCA
1 CCTTAGAGAAGAGAGATTTCCCAACCACTCTGGCAAGGCTTCTATTCCA
2001111 CCAAACCTTT
Statistics
Matches: 165, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
141 73 0.44
142 6 0.04
144 82 0.50
145 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (143 bp):
CCTTAGAGAAGAGAGATTTCCCAACCACTCTGGCAAGGCTTCTATTCCATGAAACCCTGCTATAG
TCAAATATTAAAGGGCAGAAAGGAGTTGAAGTTGGTGAGAAAACTCTTTAGCTTCCGAAAACCAC
TCAAATATAGACG
Found at i:2001130 original size:141 final size:143
Alignment explanation
Indices: 2000777--2001140 Score: 441
Period size: 141 Copynumber: 2.6 Consensus size: 143
2000767 TTCTCAGCCT
** ** *
2000777 CCTTAGAGAAGAGAGATTTCTGAATGACTCTGGCAAGGCTTCTATTCCTTGAAA-CTCTTCTATC
1 CCTTAGAGAAGAGAGATTTCCCAACCACTCTGGCAAGGCTTCTATTCCATGAAACCT-TTCTATC
* * *
2000841 GTTAAATATTAAAGGGTAGAAAGGAGTTGAAGTTGGTGAGTAAAACTCTTTAGCTTCCGAAAACC
65 GTCAAATCTTAAAGGGCAGAAAGGAGTTGAAGTTGGTGAG-AAAACTCTTTAGCTTCCGAAAACC
*
2000906 ACTCAAATATAGATG
129 ACTCAAATATAGACG
* * * * * *
2000921 CCTTAGAGAAGAGAGATTTCCCAACCATTCTGGCAAGGCTTATATTTCATGAAACCCCTGC-ATA
1 CCTTAGAGAAGAGAGATTTCCCAACCACTCTGGCAAGGCTTCTATTCCATGAAA-CCTTTCTATC
* ** *
2000985 GTCAAATCTTCAAGGGCAGTGAGGAGTTGAAGTTGGTGAG-GAA-TCTTTAGCTTTCC-AAAACC
65 GTCAAATCTTAAAGGGCAGAAAGGAGTTGAAGTTGGTGAGAAAACTCTTTAGC-TTCCGAAAACC
2001047 ACTCAAATATAGACG
129 ACTCAAATATAGACG
* * **
2001062 CCTTAGAGAAGAGAGATTTCCCAACCAGTCTGGCAAGACTTCTATTCCACCAAACCTTTCTATCG
1 CCTTAGAGAAGAGAGATTTCCCAACCACTCTGGCAAGGCTTCTATTCCATGAAACCTTTCTATCG
*
2001127 TCAAATCTTGAAGG
66 TCAAATCTTAAAGG
2001141 CTTTTTTGGC
Statistics
Matches: 187, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
140 4 0.02
141 92 0.49
142 6 0.03
144 82 0.44
145 2 0.01
146 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (143 bp):
CCTTAGAGAAGAGAGATTTCCCAACCACTCTGGCAAGGCTTCTATTCCATGAAACCTTTCTATCG
TCAAATCTTAAAGGGCAGAAAGGAGTTGAAGTTGGTGAGAAAACTCTTTAGCTTCCGAAAACCAC
TCAAATATAGACG
Found at i:2030457 original size:12 final size:12
Alignment explanation
Indices: 2030440--2030464 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2030430 GAAATCCCCC
2030440 ATCATTTAATTA
1 ATCATTTAATTA
2030452 ATCATTTAATTA
1 ATCATTTAATTA
2030464 A
1 A
2030465 AGCTTCTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (12 bp):
ATCATTTAATTA
Found at i:2034186 original size:17 final size:17
Alignment explanation
Indices: 2034159--2034199 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
2034149 CTTTTTTTAA
2034159 TAAAAAT-AATA-AATAT
1 TAAAAATAAATATAA-AT
2034175 TAAAAATAAATATAAAT
1 TAAAAATAAATATAAAT
*
2034192 TACAAATA
1 TAAAAATA
2034200 TACATATGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 13 0.59
18 2 0.09
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAATAAATATAAAT
Found at i:2043709 original size:22 final size:21
Alignment explanation
Indices: 2043661--2043709 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
2043651 GGTTTAAAAA
* *
2043661 TATTTTTAAAATAATTTTTTT
1 TATTTGTAAAATAATTTTTTG
2043682 TAATTTGTAAAATAATTTTTTGG
1 T-ATTTGTAAAATAATTTTTT-G
2043705 TATTT
1 TATTT
2043710 ATTTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (21 bp):
TATTTGTAAAATAATTTTTTG
Found at i:2043841 original size:11 final size:12
Alignment explanation
Indices: 2043824--2043853 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
2043814 TACAATCACC
2043824 ATTTTATTTTAT
1 ATTTTATTTTAT
2043836 -TTTTATTTTAT
1 ATTTTATTTTAT
2043847 ATTTTAT
1 ATTTTAT
2043854 AGTTGTTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
ATTTTATTTTAT
Found at i:2045604 original size:2 final size:2
Alignment explanation
Indices: 2045593--2045623 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2045583 ACATACCTTT
2045593 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2045624 AGTGAGCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2060164 original size:2 final size:2
Alignment explanation
Indices: 2060157--2060289 Score: 266
Period size: 2 Copynumber: 66.5 Consensus size: 2
2060147 AATATCAACA
2060157 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
2060199 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
2060241 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
2060283 AT AT AT A
1 AT AT AT A
2060290 GGATAATTAT
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 131 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2071811 original size:5 final size:5
Alignment explanation
Indices: 2071801--2071839 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
2071791 TGTTTGGTTA
* *
2071801 AAAAG AAAAG AAAAG AGAAG AAAAG AAAAG GAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
2071840 TATAATGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:2072414 original size:83 final size:81
Alignment explanation
Indices: 2072298--2072587 Score: 272
Period size: 83 Copynumber: 3.6 Consensus size: 81
2072288 TTGAATCCTG
* **
2072298 TACAT-AAAATACATTACTTTTGTTATACAAATTCGAGATCATGTTTAAGGGTACCCAAAAAAAC
1 TACATAAAAAGACATTACTTTTACTATACAAATTCGAGATCATGTTTAAGGGTACCCAAAAAAAC
2072362 CCTAAACCTCAAACTGTA
66 CCTAAA-CTCAAAC-GTA
* * * * *
2072380 TATATAAAAAGGCATTTCTTTTACTATACAAATTCGAAATCATGTTTGAGGGTA-CCAAAATAAA
1 TACATAAAAAGACATTACTTTTACTATACAAATTCGAGATCATGTTTAAGGGTACCCAAAA-AAA
* *
2072444 CCCTAAAACTTAAACACTA
65 CCCT-AAACTCAAAC-GTA
* * * * * * * *
2072463 TGCATAAAAAGACACTACTTTTACAATACAAATTCAAGATCATGTGTACGGG-ACATCGAAATAA
1 TACATAAAAAGACATTACTTTTACTATACAAATTCGAGATCATGTTTAAGGGTAC--CCAAAAAA
2072527 ACCCTAAA-TGC---CGTA
64 ACCCTAAACT-CAAACGTA
*
2072542 TACATAAAAAGACATTCCTTTTACTATACAAAGTT-GAGATCATGTT
1 TACATAAAAAGACATTACTTTTACTATACAAA-TTCGAGATCATGTT
2072588 CAAGAGGCAT
Statistics
Matches: 168, Mismatches: 32, Indels: 19
0.77 0.15 0.09
Matches are distributed among these distances:
79 39 0.23
80 3 0.02
82 12 0.07
83 100 0.60
84 10 0.06
85 4 0.02
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (81 bp):
TACATAAAAAGACATTACTTTTACTATACAAATTCGAGATCATGTTTAAGGGTACCCAAAAAAAC
CCTAAACTCAAACGTA
Found at i:2075846 original size:128 final size:129
Alignment explanation
Indices: 2075692--2075948 Score: 507
Period size: 128 Copynumber: 2.0 Consensus size: 129
2075682 TAAAAATAAA
2075692 TATTAAGTATAATAAAGCAAGTTTTATAAAATTTAGGTGACTTAATAATTAGTCGTTGACTTTGT
1 TATTAAGTATAATAAAGCAAGTTTTATAAAATTTAGGTGACTTAATAATTAGTCGTTGACTTTGT
2075757 CAATGCATCCATTTCTTGAAATGATTTTAATTAGGTGGATGATATTAGATTTTATATGCATCTT
66 CAATGCATCCATTTCTTGAAATGATTTTAATTAGGTGGATGATATTAGATTTTATATGCATCTT
2075821 TATTAAGTAT-ATAAAGCAAGTTTTATAAAATTTAGGTGACTTAATAATTAGTCGTTGACTTTGT
1 TATTAAGTATAATAAAGCAAGTTTTATAAAATTTAGGTGACTTAATAATTAGTCGTTGACTTTGT
2075885 CAATGCATCCATTTCTTGAAATGATTTTAATTAGGTGGATGATATTAGATTTTATATGCATCTT
66 CAATGCATCCATTTCTTGAAATGATTTTAATTAGGTGGATGATATTAGATTTTATATGCATCTT
2075949 GACTCGAGTT
Statistics
Matches: 128, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
128 118 0.92
129 10 0.08
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.43
Consensus pattern (129 bp):
TATTAAGTATAATAAAGCAAGTTTTATAAAATTTAGGTGACTTAATAATTAGTCGTTGACTTTGT
CAATGCATCCATTTCTTGAAATGATTTTAATTAGGTGGATGATATTAGATTTTATATGCATCTT
Found at i:2077847 original size:28 final size:29
Alignment explanation
Indices: 2077790--2077847 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
2077780 TTATTACTTT
*
2077790 AATTAAAACAATTTTTTAAAAAAATAAAA
1 AATTAAAACAATTTTTCAAAAAAATAAAA
* *
2077819 AATTAAAATC-ATTTTTCAATAGAATAAAA
1 AATTAAAA-CAATTTTTCAAAAAAATAAAA
2077848 TTTCAATCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (29 bp):
AATTAAAACAATTTTTCAAAAAAATAAAA
Found at i:2086337 original size:22 final size:22
Alignment explanation
Indices: 2086312--2086363 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
2086302 GTGTCATACA
2086312 TTATAAATATTATTTTTAAAAG
1 TTATAAATATTATTTTTAAAAG
* * * *
2086334 TTATAGATTTTATTTTTATATG
1 TTATAAATATTATTTTTAAAAG
2086356 TTATAAAT
1 TTATAAAT
2086364 TATAAAAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (22 bp):
TTATAAATATTATTTTTAAAAG
Found at i:2087380 original size:2 final size:2
Alignment explanation
Indices: 2087373--2087400 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2087363 TAGAGATTTC
2087373 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2087401 GAAAATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2094190 original size:29 final size:29
Alignment explanation
Indices: 2094144--2094199 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
2094134 TAAAACTATC
**
2094144 GATAATGTGCTTTTGTACACTCAAACGTT
1 GATAATGTGCTTCAGTACACTCAAACGTT
*
2094173 GATAATGTGCTTCAGTACACTCGAACG
1 GATAATGTGCTTCAGTACACTCAAACG
2094200 CATGTCCTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (29 bp):
GATAATGTGCTTCAGTACACTCAAACGTT
Found at i:2095130 original size:19 final size:20
Alignment explanation
Indices: 2095096--2095133 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2095086 TTTTAGTAAT
*
2095096 GGAATAAATTTTTTATTATA
1 GGAATAAATATTTTATTATA
2095116 GGAATAAA-ATTTTATTAT
1 GGAATAAATATTTTATTAT
2095134 CCTAGATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (20 bp):
GGAATAAATATTTTATTATA
Found at i:2120569 original size:47 final size:47
Alignment explanation
Indices: 2120491--2120603 Score: 165
Period size: 47 Copynumber: 2.4 Consensus size: 47
2120481 AAGGATGAAG
* * * *
2120491 AAGTGACAGTTTATCT-AAAAAGTGGTGGCTTGTCCACAATATTATA
1 AAGTGGCAGTTTATCTGCATAAGTGGTGGCTTGTACACAATATTATA
* *
2120537 AAGTGGCAGTTTATTTGCATAAGTGGTGGCTTGTACACAATATTATT
1 AAGTGGCAGTTTATCTGCATAAGTGGTGGCTTGTACACAATATTATA
2120584 AAGTGGCAGTTTATCTGCAT
1 AAGTGGCAGTTTATCTGCAT
2120604 TACTGTGACA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
46 14 0.24
47 45 0.76
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.35
Consensus pattern (47 bp):
AAGTGGCAGTTTATCTGCATAAGTGGTGGCTTGTACACAATATTATA
Found at i:2120623 original size:47 final size:47
Alignment explanation
Indices: 2120525--2120623 Score: 110
Period size: 47 Copynumber: 2.1 Consensus size: 47
2120515 GTGGCTTGTC
* * * * *
2120525 CACAATATTATAAAGTGGCAGTTTATTTGCATAAGTGGTGGCTTGTA
1 CACAATATTATAAAGTGGCAGTTTATCTGCATAACTGGTGACCTATA
* * *
2120572 CACAATATTATTAAGTGGCAGTTTATCTGCATTACT-GTGACACTATT
1 CACAATATTATAAAGTGGCAGTTTATCTGCATAACTGGTGAC-CTATA
2120619 CACAA
1 CACAA
2120624 ATTGGAGTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
46 4 0.09
47 39 0.91
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (47 bp):
CACAATATTATAAAGTGGCAGTTTATCTGCATAACTGGTGACCTATA
Found at i:2122323 original size:54 final size:53
Alignment explanation
Indices: 2122215--2122345 Score: 174
Period size: 54 Copynumber: 2.5 Consensus size: 53
2122205 TTTTTAATTT
*
2122215 TTGGAATATTGATTCTTTTGAATTGATTTTTTACATTTAAATCGATTGTCATG
1 TTGGAATATTGATTCTTTTGAATCGATTTTTTACATTTAAATCGATTGTCATG
* * * * *
2122268 TTGGAATACTGCTT-TTTTGAATCGATTTTTTATATGTTTAATTCGATTGTTATG
1 TTGGAATATTGATTCTTTTGAATCGATTTTTTACA--TTTAAATCGATTGTCATG
*
2122322 TTGGAATATTGTTTCTTTTGAATC
1 TTGGAATATTGATTCTTTTGAATC
2122346 AATTGTCGAT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
52 18 0.27
53 12 0.18
54 28 0.42
55 9 0.13
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.53
Consensus pattern (53 bp):
TTGGAATATTGATTCTTTTGAATCGATTTTTTACATTTAAATCGATTGTCATG
Found at i:2125184 original size:96 final size:96
Alignment explanation
Indices: 2125029--2125207 Score: 277
Period size: 96 Copynumber: 1.9 Consensus size: 96
2125019 TAATCTAAAC
* * *
2125029 TTAACACGATTCTATTTAATCTAATAAAGGTGAAACTTTTATTTTAACATCGTTATAGCTCTATA
1 TTAACACAATCCTATTTAATCTAATAAAGGTGAAACTTTTATTCTAACATCGTTATAGCTCTATA
2125094 ATCATACCAACTTCATAAGAATAATATGAAT
66 ATCATACCAACTTCATAAGAATAATATGAAT
* * * * *
2125125 TTAACACAATCCTATTTAATTTAATAGAGGTGAAACTTTTATTCTAGCGTCGTTGTAGCTCTATA
1 TTAACACAATCCTATTTAATCTAATAAAGGTGAAACTTTTATTCTAACATCGTTATAGCTCTATA
*
2125190 ATCATACCAACTTTATAA
66 ATCATACCAACTTCATAA
2125208 ATAATCATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (96 bp):
TTAACACAATCCTATTTAATCTAATAAAGGTGAAACTTTTATTCTAACATCGTTATAGCTCTATA
ATCATACCAACTTCATAAGAATAATATGAAT
Found at i:2127440 original size:27 final size:27
Alignment explanation
Indices: 2127399--2127453 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
2127389 TTACCTTTGT
*
2127399 ATTGGGTTATGCTAGAGAATTAGAAAC
1 ATTGGGTTATACTAGAGAATTAGAAAC
2127426 ATTGGGTTATACTAGAGAATTAGAAAC
1 ATTGGGTTATACTAGAGAATTAGAAAC
2127453 A
1 A
2127454 CTAACAAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (27 bp):
ATTGGGTTATACTAGAGAATTAGAAAC
Found at i:2136915 original size:43 final size:42
Alignment explanation
Indices: 2136862--2137112 Score: 278
Period size: 42 Copynumber: 6.0 Consensus size: 42
2136852 GCTTACAGAA
*
2136862 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * * **
2136904 AAATAAACGCCGTTAAAGATTATTTTCTTTAGCGGCGCTTATT
1 AAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * *
2136947 AAAAAATGCAGCTAAATATCATGTTCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
2136989 AAAAAA-GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * *
2137030 AAGAAAACGCTGCTAAA-AGTAATGTTCTATAGCGGCGCTT-GG
1 AA-AAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAGG
* * *
2137072 TCAAAAACACCGCTAAA-AGT-AGTATTCTTTAGCGGCGCTTA
1 -AAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTTA
2137113 TTTCACAAAN
Statistics
Matches: 178, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
41 36 0.20
42 78 0.44
43 64 0.36
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
Found at i:2137088 original size:126 final size:127
Alignment explanation
Indices: 2136862--2137112 Score: 314
Period size: 126 Copynumber: 2.0 Consensus size: 127
2136852 GCTTACAGAA
* *
2136862 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACGCCGTTAAAGATTAT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACGCCGTAAAAGATAAT
* * * ** *
2136927 TTTCTTTAGCGGCGCTTATTAAAAAATGCAGCTAAATA-TCA-TGTTCTTTAGCGGCGCTTAGG
66 GTTCTATAGCGGCGCTTAGTAAAAAACACAGCTAAA-AGT-AGTATTCTTTAGCGGCGCTTAGG
* *
2136989 AAAAAA-GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGA-AAACGCTGCTAAAAG-TA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAA-ATAAACGCCG-TAAAAGATA
* * *
2137051 ATGTTCTATAGCGGCGCTTGGTCAAAAACACCGCTAAAAGTAGTATTCTTTAGCGGCGCTTA
64 ATGTTCTATAGCGGCGCTTAGTAAAAAACACAGCTAAAAGTAGTATTCTTTAGCGGCGCTTA
2137113 TTTCACAAAN
Statistics
Matches: 107, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
125 2 0.02
126 93 0.87
127 12 0.11
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (127 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACGCCGTAAAAGATAAT
GTTCTATAGCGGCGCTTAGTAAAAAACACAGCTAAAAGTAGTATTCTTTAGCGGCGCTTAGG
Found at i:2147128 original size:14 final size:13
Alignment explanation
Indices: 2147111--2147162 Score: 68
Period size: 14 Copynumber: 3.8 Consensus size: 13
2147101 CCTAAACCCC
*
2147111 AAACCTAAAACTCT
1 AAACCT-AAACTGT
2147125 AAACTCTAAACTGT
1 AAAC-CTAAACTGT
2147139 AAACCCTAAACTGT
1 AAA-CCTAAACTGT
2147153 AAACCTAAAC
1 AAACCTAAAC
2147163 CATATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
13 7 0.20
14 25 0.71
15 3 0.09
ACGTcount: A:0.48, C:0.27, G:0.04, T:0.21
Consensus pattern (13 bp):
AAACCTAAACTGT
Found at i:2147135 original size:7 final size:7
Alignment explanation
Indices: 2147118--2147162 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
2147108 CCCAAACCTA
2147118 AAACTCT
1 AAACTCT
2147125 AAACTCT
1 AAACTCT
*
2147132 AAACTGT
1 AAACTCT
*
2147139 AAACCCT
1 AAACTCT
*
2147146 AAACTGT
1 AAACTCT
2147153 AAAC-CT
1 AAACTCT
2147159 AAAC
1 AAAC
2147163 CATATTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.47, C:0.27, G:0.04, T:0.22
Consensus pattern (7 bp):
AAACTCT
Found at i:2147135 original size:21 final size:21
Alignment explanation
Indices: 2147101--2147161 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
2147091 AATCATAAAT
* *
2147101 CCTAAACCCCAAACCTAAAAC
1 CCTAAACTCTAAACCTAAAAC
* *
2147122 TCTAAACTCTAAA-CTGTAAAC
1 CCTAAACTCTAAACCT-AAAAC
*
2147143 CCTAAACTGTAAACCTAAA
1 CCTAAACTCTAAACCTAAA
2147162 CCATATTTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.46, C:0.31, G:0.03, T:0.20
Consensus pattern (21 bp):
CCTAAACTCTAAACCTAAAAC
Found at i:2147331 original size:20 final size:21
Alignment explanation
Indices: 2147293--2147342 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
2147283 TCTTCAATTT
2147293 CCAAACT-AAACCCTAAAACC
1 CCAAACTCAAACCCTAAAACC
* *
2147313 CTAAACTCAAA-CCTTAAACC
1 CCAAACTCAAACCCTAAAACC
2147333 CCAAACTCAA
1 CCAAACTCAA
2147343 TCTCTAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (21 bp):
CCAAACTCAAACCCTAAAACC
Found at i:2147850 original size:38 final size:39
Alignment explanation
Indices: 2147795--2147868 Score: 114
Period size: 38 Copynumber: 1.9 Consensus size: 39
2147785 TAAACCCCTG
2147795 AGCATTAGCGGCACTTTCCGA-AAAACGCCGCTAAAGGA
1 AGCATTAGCGGCACTTTCCGAGAAAACGCCGCTAAAGGA
* **
2147833 AGCATTAGCGGCGCTTTCTTAGAAAACGCCGCTAAA
1 AGCATTAGCGGCACTTTCCGAGAAAACGCCGCTAAA
2147869 TCCACTGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 18 0.56
39 14 0.44
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (39 bp):
AGCATTAGCGGCACTTTCCGAGAAAACGCCGCTAAAGGA
Found at i:2147970 original size:75 final size:77
Alignment explanation
Indices: 2147832--2147975 Score: 195
Period size: 75 Copynumber: 1.9 Consensus size: 77
2147822 CCGCTAAAGG
* * *
2147832 AAGCATTAGCGGCGCTTTCTTAGAAAACGCCGCTAAATCCACTGAAAGTTAAGAAAACGGTGCCG
1 AAGCATTAGCGGCGCTTTCTTAGAAAACGCCGCTAAAGCCACTGAAAGATAAGAAAACGGTGCCA
2147897 TTGGGCACCCCC
66 TTGGGCACCCCC
* * **
2147909 AAGCATTAGCGGCGC-TTCATTA-AAAACGCCGCTAAGGCCTC-GAAAGATCTGAAAACGGTGCC
1 AAGCATTAGCGGCGCTTTC-TTAGAAAACGCCGCTAAAGCCACTGAAAGATAAGAAAACGGTGCC
2147971 ATTGG
65 ATTGG
2147976 ACATATGTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
75 22 0.37
76 19 0.32
77 18 0.31
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (77 bp):
AAGCATTAGCGGCGCTTTCTTAGAAAACGCCGCTAAAGCCACTGAAAGATAAGAAAACGGTGCCA
TTGGGCACCCCC
Found at i:2148166 original size:72 final size:71
Alignment explanation
Indices: 2148074--2148253 Score: 193
Period size: 72 Copynumber: 2.5 Consensus size: 71
2148064 AAAGCTGAGA
* * *
2148074 AAACGACACCGTTTGGCTTAGGTTTTTTAGCGGCGCTTCCCCAAAAATGCCGCTAAAT-CCCAAA
1 AAACGGCACCGTTTGGCTTAGG-TTTTTAGCGGCGCTTCACCAAAAACGCCGCTAAATCCCCAAA
*
2148138 AACTACGG
65 AACT-CAG
* * * ** *
2148146 AAACGGCACCGTTTGGCTTAGGATTATTAGTGGCGCTTGATTAAAAACGTCGCTAAATCCCCAAA
1 AAACGGCACCGTTTGGCTTAGG-TTTTTAGCGGCGCTTCACCAAAAACGCCGCTAAATCCCCAAA
*
2148211 AGCTCAG
65 AACTCAG
* * *
2148218 AAACGGCATCGTTGGGCTTTGGTTTTT-GCGGCGCTT
1 AAACGGCACCGTTTGGCTTAGGTTTTTAGCGGCGCTT
2148254 TCTGGAAAAC
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
70 8 0.09
71 4 0.04
72 69 0.77
73 9 0.10
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (71 bp):
AAACGGCACCGTTTGGCTTAGGTTTTTAGCGGCGCTTCACCAAAAACGCCGCTAAATCCCCAAAA
ACTCAG
Found at i:2148993 original size:14 final size:13
Alignment explanation
Indices: 2148976--2149027 Score: 68
Period size: 14 Copynumber: 3.8 Consensus size: 13
2148966 CCTAAACCCC
*
2148976 AAACCTAAAACTCT
1 AAACCT-AAACTGT
2148990 AAACTCTAAACTGT
1 AAAC-CTAAACTGT
2149004 AAACCCTAAACTGT
1 AAA-CCTAAACTGT
2149018 AAACCTAAAC
1 AAACCTAAAC
2149028 CATATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
13 7 0.20
14 25 0.71
15 3 0.09
ACGTcount: A:0.48, C:0.27, G:0.04, T:0.21
Consensus pattern (13 bp):
AAACCTAAACTGT
Found at i:2149000 original size:7 final size:7
Alignment explanation
Indices: 2148983--2149027 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
2148973 CCCAAACCTA
2148983 AAACTCT
1 AAACTCT
2148990 AAACTCT
1 AAACTCT
*
2148997 AAACTGT
1 AAACTCT
*
2149004 AAACCCT
1 AAACTCT
*
2149011 AAACTGT
1 AAACTCT
2149018 AAAC-CT
1 AAACTCT
2149024 AAAC
1 AAAC
2149028 CATATTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.47, C:0.27, G:0.04, T:0.22
Consensus pattern (7 bp):
AAACTCT
Found at i:2149000 original size:21 final size:21
Alignment explanation
Indices: 2148966--2149026 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
2148956 AATCATAAAT
* *
2148966 CCTAAACCCCAAACCTAAAAC
1 CCTAAACTCTAAACCTAAAAC
* *
2148987 TCTAAACTCTAAA-CTGTAAAC
1 CCTAAACTCTAAACCT-AAAAC
*
2149008 CCTAAACTGTAAACCTAAA
1 CCTAAACTCTAAACCTAAA
2149027 CCATATTTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.46, C:0.31, G:0.03, T:0.20
Consensus pattern (21 bp):
CCTAAACTCTAAACCTAAAAC
Found at i:2149196 original size:20 final size:21
Alignment explanation
Indices: 2149159--2149207 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
2149149 CTTCAATTTT
2149159 CAAACT-AAACCCTAAAACCC
1 CAAACTCAAACCCTAAAACCC
* *
2149179 TAAACTCAAA-CCTTAAACCC
1 CAAACTCAAACCCTAAAACCC
2149199 CAAACTCAA
1 CAAACTCAA
2149208 TCTCTAACAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (21 bp):
CAAACTCAAACCCTAAAACCC
Found at i:2149907 original size:75 final size:77
Alignment explanation
Indices: 2149769--2149912 Score: 195
Period size: 75 Copynumber: 1.9 Consensus size: 77
2149759 CCGCTAAAGG
* * *
2149769 AAGCATTAGCGGCGCTTTCTTAGAAAACGCCGCTAAATCCACTGAAAGTTAAGAAAACGGTGCCG
1 AAGCATTAGCGGCGCTTTCTTAGAAAACGCCGCTAAAGCCACTGAAAGATAAGAAAACGGTGCCA
2149834 TTGGGCACCCCC
66 TTGGGCACCCCC
* * **
2149846 AAGCATTAGCGGCGC-TTCATTA-AAAACGCCGCTAAGGCCTC-GAAAGATCTGAAAACGGTGCC
1 AAGCATTAGCGGCGCTTTC-TTAGAAAACGCCGCTAAAGCCACTGAAAGATAAGAAAACGGTGCC
2149908 ATTGG
65 ATTGG
2149913 ACATATGTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
75 22 0.37
76 19 0.32
77 18 0.31
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (77 bp):
AAGCATTAGCGGCGCTTTCTTAGAAAACGCCGCTAAAGCCACTGAAAGATAAGAAAACGGTGCCA
TTGGGCACCCCC
Found at i:2150103 original size:72 final size:71
Alignment explanation
Indices: 2150011--2150190 Score: 193
Period size: 72 Copynumber: 2.5 Consensus size: 71
2150001 AAAGCTGAGA
* * *
2150011 AAACGACACCGTTTGGCTTAGGTTTTTTAGCGGCGCTTCCCCAAAAATGCCGCTAAAT-CCCAAA
1 AAACGGCACCGTTTGGCTTAGG-TTTTTAGCGGCGCTTCACCAAAAACGCCGCTAAATCCCCAAA
2150075 AACTACGG
65 AACT-CGG
* * * ** *
2150083 AAACGGCACCGTTTGGCTTAGGATTATTAGTGGCGCTTGATTAAAAACGTCGCTAAATCCCCAAA
1 AAACGGCACCGTTTGGCTTAGG-TTTTTAGCGGCGCTTCACCAAAAACGCCGCTAAATCCCCAAA
*
2150148 AGCTCGG
65 AACTCGG
** * *
2150155 AAACGGCGTCGTTGGGCTTTGGTTTTT-GCGGCGCTT
1 AAACGGCACCGTTTGGCTTAGGTTTTTAGCGGCGCTT
2150191 TCTGGAAAAC
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
70 8 0.09
71 4 0.04
72 69 0.77
73 9 0.10
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (71 bp):
AAACGGCACCGTTTGGCTTAGGTTTTTAGCGGCGCTTCACCAAAAACGCCGCTAAATCCCCAAAA
ACTCGG
Found at i:2153250 original size:19 final size:19
Alignment explanation
Indices: 2153226--2153263 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
2153216 ATAATAGATA
2153226 AATATTTCTTATAT-TTTTT
1 AATATTT-TTATATGTTTTT
2153245 AATATTTTTATATGTTTTT
1 AATATTTTTATATGTTTTT
2153264 TTATATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (19 bp):
AATATTTTTATATGTTTTT
Found at i:2155932 original size:20 final size:21
Alignment explanation
Indices: 2155897--2155944 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
2155887 TATAGAAAAC
2155897 ACTTTTTTACCAAAAAAAGAA
1 ACTTTTTTACCAAAAAAAGAA
2155918 ACTTTTTTACCAAAAAAAGAA
1 ACTTTTTTACCAAAAAAAGAA
2155939 ACTTTT
1 ACTTTT
2155945 AAGAACGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (21 bp):
ACTTTTTTACCAAAAAAAGAA
Found at i:2158731 original size:27 final size:27
Alignment explanation
Indices: 2158690--2158744 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
2158680 TTACCTTTGT
*
2158690 ATTGGGTTATGCTAGAGAATTAGAAAC
1 ATTGGGTTATACTAGAGAATTAGAAAC
2158717 ATTGGGTTATACTAGAGAATTAGAAAC
1 ATTGGGTTATACTAGAGAATTAGAAAC
2158744 A
1 A
2158745 CTAACAAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (27 bp):
ATTGGGTTATACTAGAGAATTAGAAAC
Found at i:2177156 original size:21 final size:21
Alignment explanation
Indices: 2177130--2177188 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
2177120 AAAAATAGCG
*
2177130 GTAGCGGTGAGATTAGTTACT
1 GTAGCGGTGAGATTAGATACT
*
2177151 GTAGCGGTGAGATTGGATACT
1 GTAGCGGTGAGATTAGATACT
*
2177172 GTAGCAGTGAGATTAGA
1 GTAGCGGTGAGATTAGA
2177189 AACAAAGGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.27, C:0.08, G:0.36, T:0.29
Consensus pattern (21 bp):
GTAGCGGTGAGATTAGATACT
Found at i:2177883 original size:5 final size:5
Alignment explanation
Indices: 2177873--2177933 Score: 86
Period size: 5 Copynumber: 12.2 Consensus size: 5
2177863 AACTCTTGCA
* * * *
2177873 TAAAT TAAAT TAAAT TAAAT TAAAC TAAAC TAAAC TAAAC TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
2177923 TAAAT TAAAT T
1 TAAAT TAAAT T
2177934 GAAAATGAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 54 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (5 bp):
TAAAT
Found at i:2180371 original size:26 final size:26
Alignment explanation
Indices: 2180330--2180382 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
2180320 TTTAAAATAG
** * *
2180330 TTTTAAAATACTTTTTTATTTTTTAT
1 TTTTAAAATAAATTTTTAGTGTTTAT
2180356 TTTTAAAATAAATTTTTAGTGTTTAT
1 TTTTAAAATAAATTTTTAGTGTTTAT
2180382 T
1 T
2180383 AAAAAAGGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (26 bp):
TTTTAAAATAAATTTTTAGTGTTTAT
Found at i:2184905 original size:6 final size:6
Alignment explanation
Indices: 2184854--2184903 Score: 82
Period size: 6 Copynumber: 8.2 Consensus size: 6
2184844 ACTTAAAAAC
*
2184854 ACCCTAA ACCCTA ACCCTA ACCCTA ACCCTA ACCCTA ACCCTA ATCCTA
1 ACCCT-A ACCCTA ACCCTA ACCCTA ACCCTA ACCCTA ACCCTA ACCCTA
2184903 A
1 A
2184904 TCTAATTTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
6 37 0.88
7 5 0.12
ACGTcount: A:0.36, C:0.46, G:0.00, T:0.18
Consensus pattern (6 bp):
ACCCTA
Found at i:2193764 original size:23 final size:22
Alignment explanation
Indices: 2193738--2193797 Score: 52
Period size: 22 Copynumber: 2.7 Consensus size: 22
2193728 GTAGGTTGAG
* *
2193738 CATTGAATTTAATTTAATAAAAT
1 CATTGAAATTAAATTAA-AAAAT
*
2193761 CATTTAAATTAAATTAAAAAA-
1 CATTGAAATTAAATTAAAAAAT
2193782 C-TTGTTAAATTAAATT
1 CATTG--AAATTAAATT
2193798 TTGTTAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 2 0.06
21 1 0.03
22 14 0.45
23 14 0.45
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (22 bp):
CATTGAAATTAAATTAAAAAAT
Found at i:2206296 original size:22 final size:23
Alignment explanation
Indices: 2206259--2206303 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
2206249 AAACTAGAAA
2206259 GCAAAGATAAAAGGGTATATTAT
1 GCAAAGATAAAAGGGTATATTAT
2206282 GCAAAGAT-AAAGGGTATATTAT
1 GCAAAGATAAAAGGGTATATTAT
2206304 ATATATAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.47, C:0.04, G:0.22, T:0.27
Consensus pattern (23 bp):
GCAAAGATAAAAGGGTATATTAT
Found at i:2208690 original size:13 final size:14
Alignment explanation
Indices: 2208672--2208700 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2208662 AATCCAATTT
2208672 TCTTTTTC-AAATA
1 TCTTTTTCAAAATA
2208685 TCTTTTTCAAAATA
1 TCTTTTTCAAAATA
2208699 TC
1 TC
2208701 CGACCATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.52
Consensus pattern (14 bp):
TCTTTTTCAAAATA
Found at i:2209991 original size:5 final size:5
Alignment explanation
Indices: 2209981--2210009 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
2209971 AGAGAAGCTG
2209981 AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATA
2210010 ATAAAGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:2210653 original size:27 final size:29
Alignment explanation
Indices: 2210606--2210659 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
2210596 ACTAAATTAA
*
2210606 AATAATATTAATGTATTTAAT-ATTTTAC
1 AATAATATTAATGTATATAATAATTTTAC
2210634 AATAA-ATTAACTGTA-ATAATAATTTT
1 AATAATATTAA-TGTATATAATAATTTT
2210660 TTTGGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (29 bp):
AATAATATTAATGTATATAATAATTTTAC
Found at i:2217925 original size:2 final size:2
Alignment explanation
Indices: 2217913--2217949 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2217903 TTACTTTGGC
2217913 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2217950 ATCCTACTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2223284 original size:65 final size:66
Alignment explanation
Indices: 2223210--2223335 Score: 175
Period size: 66 Copynumber: 1.9 Consensus size: 66
2223200 TCAATTTTGT
* * *
2223210 CTTTTTTGGTCACCAAAATGGAA-ACATC-CAAAATCCAAGATAGTTGGGTGAGAAAAAAAGTTT
1 CTTTTTTGGTCACCAAAAT-GAAGACATCAAAAAATCCAAAATAGTTGGGTGACAAAAAAAGTTT
2223273 AC
65 AC
* * *
2223275 CTTTTTTGGTCACCAAAATGAAGACTTCAAAAAATCTAAAATAGTTGGGTGACCAAAAAAG
1 CTTTTTTGGTCACCAAAATGAAGACATCAAAAAATCCAAAATAGTTGGGTGACAAAAAAAG
2223336 ATAAAATTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 3 0.06
65 23 0.43
66 27 0.51
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.26
Consensus pattern (66 bp):
CTTTTTTGGTCACCAAAATGAAGACATCAAAAAATCCAAAATAGTTGGGTGACAAAAAAAGTTTA
C
Found at i:2223665 original size:18 final size:20
Alignment explanation
Indices: 2223630--2223667 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2223620 GAAAAATATT
*
2223630 AAATATATATATTATTTTTA
1 AAATATATATAGTATTTTTA
2223650 AAATATA-ATAGT-TTTTTA
1 AAATATATATAGTATTTTTA
2223668 TTTCAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
AAATATATATAGTATTTTTA
Found at i:2223782 original size:9 final size:9
Alignment explanation
Indices: 2223768--2223795 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
2223758 TTTTGTTACA
2223768 ACAATTAAT
1 ACAATTAAT
2223777 ACAATTAAT
1 ACAATTAAT
2223786 ACAATTAAT
1 ACAATTAAT
2223795 A
1 A
2223796 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:2223817 original size:68 final size:66
Alignment explanation
Indices: 2223738--2223879 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 66
2223728 TCAAGTTTGT
*
2223738 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
2223803 AAA
64 AAA
2223806 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
2223871 T
66 A
2223872 TTTACTAA
1 TTTACTAA
2223880 CAATTAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 44 0.61
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:2223889 original size:16 final size:16
Alignment explanation
Indices: 2223868--2223907 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
2223858 AATAATTTGA
2223868 TAATTTTACTAACAAT
1 TAATTTTACTAACAAT
*
2223884 TAATTTTATTAACAAT
1 TAATTTTACTAACAAT
*
2223900 TAGTTTTA
1 TAATTTTA
2223908 ATTTTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (16 bp):
TAATTTTACTAACAAT
Found at i:2223898 original size:59 final size:66
Alignment explanation
Indices: 2223738--2223901 Score: 225
Period size: 68 Copynumber: 2.5 Consensus size: 66
2223728 TCAAGTTTGT
*
2223738 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTATTA-AACAATTAATACAATTAATACAATTAATAATTTGAT
2223803 AAA
64 AAA
2223806 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTATTA-AACAATTAATACAATTAATACAATTAATAATTTGAT
*
2223869 AAT
64 AAA
2223872 TTTACTAA-C-AA-TTA-ATTTTATT-AACAATTA
1 TTTACTAATCAAAGTTAGATTTTATTAAACAATTA
2223902 GTTTTAATTT
Statistics
Matches: 94, Mismatches: 2, Indels: 9
0.90 0.02 0.09
Matches are distributed among these distances:
59 8 0.09
61 8 0.09
62 3 0.03
64 2 0.02
65 1 0.01
66 27 0.29
67 1 0.01
68 44 0.47
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAAGTTAGATTTTATTAAACAATTAATACAATTAATACAATTAATAATTTGATAA
A
Found at i:2223910 original size:22 final size:22
Alignment explanation
Indices: 2223883--2223941 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
2223873 TTACTAACAA
* *
2223883 TTAATTTTATTAACA-ATTAGTT
1 TTAATTTTATTAA-ATAATAATT
2223905 TTAATTTTATTAAATAATAATT
1 TTAATTTTATTAAATAATAATT
2223927 TTAATTTTAATTAAA
1 TTAATTTT-ATTAAA
2223942 AATGGGCCGG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 1 0.03
22 26 0.79
23 6 0.18
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TTAATTTTATTAAATAATAATT
Found at i:2228183 original size:29 final size:29
Alignment explanation
Indices: 2228128--2228197 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 29
2228118 ATTTTAAAAA
*
2228128 TAATCACTTTTATTTAACTTAAATTACATTT
1 TAATCACTTATATTTAA--TAAATTACATTT
*
2228159 TAATCACTTATATTTAA-AATATTACGTTT
1 TAATCACTTATATTTAATAA-ATTACATTT
2228188 TAATCACTTA
1 TAATCACTTA
2228198 CGTTATCGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 2 0.06
29 18 0.50
31 16 0.44
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (29 bp):
TAATCACTTATATTTAATAAATTACATTT
Found at i:2232928 original size:19 final size:20
Alignment explanation
Indices: 2232882--2232928 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
2232872 TTTTTAATAA
2232882 ATTATAAAATTAATTAAACAT
1 ATTAT-AAATTAATTAAACAT
*
2232903 ATT-TAAATTATTTAAA-AT
1 ATTATAAATTAATTAAACAT
*
2232921 TTTATAAA
1 ATTATAAA
2232929 AACGTATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 4 0.17
19 15 0.65
20 1 0.04
21 3 0.13
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTATAAATTAATTAAACAT
Found at i:2232948 original size:30 final size:29
Alignment explanation
Indices: 2232880--2233008 Score: 102
Period size: 29 Copynumber: 4.4 Consensus size: 29
2232870 AATTTTTAAT
* * * *
2232880 AAATTA-TAAAATTAAT-TAAACATATTT
1 AAATTATTAAAATTTATAAAAACTTATTA
*
2232907 AAATTATTTAAAATTTTATAAAAACGTATTA
1 AAATTA-TTAAAA-TTTATAAAAACTTATTA
* * *
2232938 AAATTCTTAAAAACTTATAAAAAATTATTTA
1 AAATTATT-AAAATTTATAAAAACTTA-TTA
* * *
2232969 AAA-TATTAAAATTGATATAAACTTATGA
1 AAATTATTAAAATTTATAAAAACTTATTA
2232997 AAATTATTAAAA
1 AAATTATTAAAA
2233009 AATCATAAGA
Statistics
Matches: 81, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
27 6 0.07
28 5 0.06
29 27 0.33
30 20 0.25
31 23 0.28
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (29 bp):
AAATTATTAAAATTTATAAAAACTTATTA
Found at i:2232950 original size:20 final size:20
Alignment explanation
Indices: 2232914--2233009 Score: 81
Period size: 20 Copynumber: 4.8 Consensus size: 20
2232904 TTTAAATTAT
* *
2232914 TTAAAATTTTATAAAAACGTA
1 TTAAAATTAT-TAAAAACTTA
*
2232935 TTAAAATTCTTAAAAACTTA
1 TTAAAATTATTAAAAACTTA
* *
2232955 TAAAAAATTATTTAAAA--TA
1 T-TAAAATTATTAAAAACTTA
*
2232974 TTAAAATTGA-TATAAACTTA
1 TTAAAATT-ATTAAAAACTTA
*
2232994 TGAAAATTATTAAAAA
1 TTAAAATTATTAAAAA
2233010 ATCATAAGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
18 10 0.17
19 5 0.08
20 24 0.40
21 21 0.35
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (20 bp):
TTAAAATTATTAAAAACTTA
Found at i:2232971 original size:10 final size:10
Alignment explanation
Indices: 2232863--2233008 Score: 62
Period size: 10 Copynumber: 14.9 Consensus size: 10
2232853 TTACAAATGA
2232863 TATTTAAAAT
1 TATTTAAAAT
2232873 T-TTTAATAA-
1 TATTTAA-AAT
2232882 -ATTATAAAAT
1 TATT-TAAAAT
*
2232892 TAATTAAACA-
1 TATTTAAA-AT
2232902 TATTT-AAAT
1 TATTTAAAAT
2232911 TATTTAAAAT
1 TATTTAAAAT
*
2232921 T-TTATAAAAACG
1 TATT-T-AAAA-T
2232933 TA-TTAAAAT
1 TATTTAAAAT
* *
2232942 TCTTAAAAACT
1 TATTTAAAA-T
**
2232953 TATAAAAAAT
1 TATTTAAAAT
2232963 TATTTAAAA-
1 TATTTAAAAT
2232972 TA-TTAAAAT
1 TATTTAAAAT
* *
2232981 TGATATAAACT
1 T-ATTTAAAAT
*
2232992 TA-TGAAAAT
1 TATTTAAAAT
2233001 TA-TTAAAA
1 TATTTAAAA
2233009 AATCATAAGA
Statistics
Matches: 103, Mismatches: 16, Indels: 35
0.67 0.10 0.23
Matches are distributed among these distances:
8 7 0.07
9 33 0.32
10 39 0.38
11 22 0.21
12 2 0.02
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (10 bp):
TATTTAAAAT
Found at i:2232976 original size:39 final size:38
Alignment explanation
Indices: 2232933--2233009 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
2232923 TATAAAAACG
* *
2232933 TATTAAAATTCTTAAAAACTTATAAAAAATTATTTAAAA
1 TATTAAAATTCATAAAAACTTAT-AAAAATTATTAAAAA
* * *
2232972 TATTAAAATTGATATAAACTTATGAAAATTATTAAAAA
1 TATTAAAATTCATAAAAACTTATAAAAATTATTAAAAA
2233010 ATCATAAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
38 13 0.39
39 20 0.61
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.38
Consensus pattern (38 bp):
TATTAAAATTCATAAAAACTTATAAAAATTATTAAAAA
Found at i:2233011 original size:31 final size:30
Alignment explanation
Indices: 2232897--2233023 Score: 98
Period size: 30 Copynumber: 4.2 Consensus size: 30
2232887 AAAATTAATT
* * **
2232897 AAACATATTTAAATTATTTAAAATTTTATAA
1 AAACTTATTAAAATTA-TTAAAAAATTATAA
* * *
2232928 AAACGTATTAAAATTCTTAAAAACTTATAA
1 AAACTTATTAAAATTATTAAAAAATTATAA
* *
2232958 AAAATTATTTAAAA-TATT--AAAATTGATAT
1 AAACTTA-TTAAAATTATTAAAAAATT-ATAA
* *
2232987 AAACTTATGAAAATTATTAAAAAATCATAA
1 AAACTTATTAAAATTATTAAAAAATTATAA
*
2233017 GAACTTA
1 AAACTTA
2233024 AACCGGATCA
Statistics
Matches: 76, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
28 10 0.13
29 13 0.17
30 29 0.38
31 24 0.32
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (30 bp):
AAACTTATTAAAATTATTAAAAAATTATAA
Found at i:2236007 original size:26 final size:25
Alignment explanation
Indices: 2235963--2236021 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 25
2235953 ACAGAAAATT
*
2235963 AAATATTTTTAATTAATTA-ATATG
1 AAATATTTTTAATTAATTATACATG
*
2235987 AATTATTTTTAAAATTAATTATACATG
1 AAATATTTTT--AATTAATTATACATG
2236014 AAATATTT
1 AAATATTT
2236022 GAATAATCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 9 0.31
26 9 0.31
27 11 0.38
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (25 bp):
AAATATTTTTAATTAATTATACATG
Found at i:2236077 original size:24 final size:22
Alignment explanation
Indices: 2236042--2236085 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
2236032 ATACAAAGAT
*
2236042 ATTTGTAAATGATATTTAAATA
1 ATTTGTAAATGATATATAAATA
2236064 ATTTGATATAATGATATATAAA
1 ATTTG-TA-AATGATATATAAA
2236086 ATATAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 2 0.11
24 12 0.63
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (22 bp):
ATTTGTAAATGATATATAAATA
Found at i:2238654 original size:17 final size:16
Alignment explanation
Indices: 2238625--2238658 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
2238615 TATATATAAA
*
2238625 AAAAAATTTAAAATAT
1 AAAAAATTAAAAATAT
2238641 AAAAAATATAAAAATAT
1 AAAAAAT-TAAAAATAT
2238658 A
1 A
2238659 TTTTTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAATTAAAAATAT
Found at i:2239139 original size:21 final size:21
Alignment explanation
Indices: 2239115--2239156 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2239105 TAGGATTCAA
2239115 GTTTAGGATTTAAAGTTTGAG
1 GTTTAGGATTTAAAGTTTGAG
**
2239136 GTTTAGGATTTAGGGTTTGAG
1 GTTTAGGATTTAAAGTTTGAG
2239157 TTTGAGTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (21 bp):
GTTTAGGATTTAAAGTTTGAG
Found at i:2239669 original size:25 final size:27
Alignment explanation
Indices: 2239624--2239677 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
2239614 AATCTCGAAT
2239624 CTTGAATCCTAAACCTCGAACC-CAAA
1 CTTGAATCCTAAACCTCGAACCACAAA
*
2239650 CTTGAATTC-AAACCAT-GAACCACAAA
1 CTTGAATCCTAAACC-TCGAACCACAAA
2239676 CT
1 CT
2239678 CCAAACCCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.41, C:0.31, G:0.07, T:0.20
Consensus pattern (27 bp):
CTTGAATCCTAAACCTCGAACCACAAA
Found at i:2240386 original size:33 final size:34
Alignment explanation
Indices: 2240349--2240426 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 34
2240339 ATTTGATTCG
2240349 TTTTATTATTTTAAAAT-AATA-ATATAAAATCAT
1 TTTTATTATTTTAAAATAAATATA-ATAAAATCAT
* * *
2240382 TTTTA-TATTTTTAATTAAATTTAATAAAATCAT
1 TTTTATTATTTTAAAATAAATATAATAAAATCAT
2240415 TATTT-TTATTTT
1 T-TTTATTATTTT
2240427 TGAACAACGA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
32 9 0.24
33 19 0.50
34 10 0.26
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (34 bp):
TTTTATTATTTTAAAATAAATATAATAAAATCAT
Found at i:2251876 original size:133 final size:134
Alignment explanation
Indices: 2251630--2251899 Score: 436
Period size: 133 Copynumber: 2.0 Consensus size: 134
2251620 ATGCACAATG
*
2251630 TGCTCATAAAAGAAGAGACACTCTTGCCCCAGCATGCAAACCCAAACCAAAAAAAAAAAACATTT
1 TGCTCATAAAAGAAGAGACACTCTTGCCCCAGCATGCAAACCCAAACC-AAAAAAAAAAACAATT
*
2251695 AACACAAATAATTTACAATCATGTTCAAACTCTGGGGAATCCATAACTACCATTCCTGAAATATT
65 AACACAAATAATTTACAATCATGTTCAAACTCTGGGGAATCCAGAACTACCATTCCTGAAATATT
2251760 TAGGC
130 TAGGC
* * * * * *
2251765 TGCTCGTAAAAGAAGAGACATTCTTGCCCCGGTATGCAAATCCAAACC-AAAAGAAAAACAATTA
1 TGCTCATAAAAGAAGAGACACTCTTGCCCCAGCATGCAAACCCAAACCAAAAAAAAAAACAATTA
2251829 ACACAAATAATTTACAATCACT-TTCAAACTCTGGGGAATCCAGAACTACCATTCCTGAAATATT
66 ACACAAATAATTTACAATCA-TGTTCAAACTCTGGGGAATCCAGAACTACCATTCCTGAAATATT
2251893 TAGGC
130 TAGGC
2251898 TG
1 TG
2251900 AGATATGCAG
Statistics
Matches: 126, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
133 82 0.65
134 1 0.01
135 43 0.34
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (134 bp):
TGCTCATAAAAGAAGAGACACTCTTGCCCCAGCATGCAAACCCAAACCAAAAAAAAAAACAATTA
ACACAAATAATTTACAATCATGTTCAAACTCTGGGGAATCCAGAACTACCATTCCTGAAATATTT
AGGC
Found at i:2255035 original size:28 final size:28
Alignment explanation
Indices: 2254986--2255040 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
2254976 TGAAATCTAT
2254986 AAAATATAAGGACAAAATTTCTGAAAATA
1 AAAATATAAGGACAAAATTTCT-AAAATA
*
2255015 AAAATAT-AGAGACTAAA-TTCTAAAAT
1 AAAATATAAG-GACAAAATTTCTAAAAT
2255041 TCCAAAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.21
28 6 0.25
29 13 0.54
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.25
Consensus pattern (28 bp):
AAAATATAAGGACAAAATTTCTAAAATA
Found at i:2263898 original size:11 final size:11
Alignment explanation
Indices: 2263882--2263907 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2263872 TCAATCTCTA
2263882 TTTTGAAGAAT
1 TTTTGAAGAAT
2263893 TTTTGAAGAAT
1 TTTTGAAGAAT
2263904 TTTT
1 TTTT
2263908 CTTTTGAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (11 bp):
TTTTGAAGAAT
Found at i:2265261 original size:13 final size:13
Alignment explanation
Indices: 2265243--2265270 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2265233 ATAGTTTTGG
2265243 ATAAAAGATACAT
1 ATAAAAGATACAT
2265256 ATAAAAGATACAT
1 ATAAAAGATACAT
2265269 AT
1 AT
2265271 TATTTTAATT
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:0.61, C:0.07, G:0.07, T:0.25
Consensus pattern (13 bp):
ATAAAAGATACAT
Found at i:2265553 original size:29 final size:30
Alignment explanation
Indices: 2265510--2265566 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
2265500 TTGAACTTAT
* * *
2265510 TTGATTCTTTTTAATAGTATAGGGACTATA
1 TTGATTCTATTTAATAATAGAGGGACTATA
2265540 TTGA-TCTATTTAATAATAGAGGGACTA
1 TTGATTCTATTTAATAATAGAGGGACTA
2265567 ATTTAATCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (30 bp):
TTGATTCTATTTAATAATAGAGGGACTATA
Found at i:2266674 original size:21 final size:21
Alignment explanation
Indices: 2266650--2266697 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
2266640 GACCTCGGTG
*
2266650 TTAAGTTTTGGAAGGGTTTAA
1 TTAAATTTTGGAAGGGTTTAA
**
2266671 TTAAAATTTTTTAAGGGTTTAA
1 TT-AAATTTTGGAAGGGTTTAA
2266693 TTAAA
1 TTAAA
2266698 AATTTTTAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (21 bp):
TTAAATTTTGGAAGGGTTTAA
Found at i:2266681 original size:23 final size:23
Alignment explanation
Indices: 2266655--2266704 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
2266645 CGGTGTTAAG
*
2266655 TTTTGGAAGGGTTTAATT-AAAA
1 TTTTTGAAGGGTTTAATTAAAAA
*
2266677 TTTTTTAAGGGTTTAATTAAAAA
1 TTTTTGAAGGGTTTAATTAAAAA
2266700 TTTTT
1 TTTTT
2266705 AACTTTTGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (23 bp):
TTTTTGAAGGGTTTAATTAAAAA
Found at i:2266704 original size:22 final size:22
Alignment explanation
Indices: 2266661--2266706 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
2266651 TAAGTTTTGG
*
2266661 AAGGGTTTAATTAAAATTTTTT
1 AAGGGTTTAATTAAAAATTTTT
2266683 AAGGGTTTAATTAAAAATTTTT
1 AAGGGTTTAATTAAAAATTTTT
2266705 AA
1 AA
2266707 CTTTTGAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (22 bp):
AAGGGTTTAATTAAAAATTTTT
Found at i:2267238 original size:21 final size:21
Alignment explanation
Indices: 2267209--2267251 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2267199 TATATTTTTA
*
2267209 TTAATAAAA-AAATCAAAAAAT
1 TTAAAAAAATAAAT-AAAAAAT
*
2267230 TTAAAAAAATATATAAAAAAT
1 TTAAAAAAATAAATAAAAAAT
2267251 T
1 T
2267252 CATAAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
TTAAAAAAATAAATAAAAAAT
Found at i:2268098 original size:108 final size:108
Alignment explanation
Indices: 2267909--2268122 Score: 338
Period size: 108 Copynumber: 2.0 Consensus size: 108
2267899 TGCGGACCTA
* *
2267909 TTATCATCAAAATCCTCCTATGGATGGATATCCACCACCGTACCAACAAGCTTATGCACCTGGCT
1 TTATCATCAAAATCCTCCTATGGATGGATATCCACCACCATACCAACAACCTTATGCACCTGGCT
* *
2267974 ATGTAGTTCAAGATTATCCGCCATCTGTTCCCCCACCACCCGG
66 ATGTAGCTCAAGATTATCCGCCACCTGTTCCCCCACCACCCGG
*
2268017 TTATCATCAAAATCCTCCTATTGATGGATATCCACCACCATACCAACAACCTTATGCACCTGGCT
1 TTATCATCAAAATCCTCCTATGGATGGATATCCACCACCATACCAACAACCTTATGCACCTGGCT
* * * * *
2268082 ATGTAGCTCAATATTATTCGTCGCCTGTTCCCCCGCCACCC
66 ATGTAGCTCAAGATTATCCGCCACCTGTTCCCCCACCACCC
2268123 AATTATCCGT
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 96 1.00
ACGTcount: A:0.26, C:0.34, G:0.13, T:0.27
Consensus pattern (108 bp):
TTATCATCAAAATCCTCCTATGGATGGATATCCACCACCATACCAACAACCTTATGCACCTGGCT
ATGTAGCTCAAGATTATCCGCCACCTGTTCCCCCACCACCCGG
Found at i:2268134 original size:30 final size:30
Alignment explanation
Indices: 2268094--2268159 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
2268084 GTAGCTCAAT
* *
2268094 ATTATTCGTCGCCTGTTCCCCCGCCACCCA
1 ATTATCCGTCGCCTGTTCCCCCACCACCCA
* *
2268124 ATTATCCGTCGTCTGTTCCTCCACCACCCA
1 ATTATCCGTCGCCTGTTCCCCCACCACCCA
2268154 ATTATC
1 ATTATC
2268160 GACCATCGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.17, C:0.42, G:0.11, T:0.30
Consensus pattern (30 bp):
ATTATCCGTCGCCTGTTCCCCCACCACCCA
Found at i:2271120 original size:33 final size:33
Alignment explanation
Indices: 2271053--2271125 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
2271043 TAGAAAAGTT
**
2271053 AATA-TTTCTAGTGTTTGGATGAATCTCTGTAA
1 AATATTTTCTAGTGTTTGGACAAATCTCTGTAA
* *
2271085 AATATTTTCTTGTGTTTGGACAAATTTTCTG-AA
1 AATATTTTCTAGTGTTTGGACAAA-TCTCTGTAA
2271118 AATATTTT
1 AATATTTT
2271126 ATAAAAACTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 4 0.11
33 26 0.74
34 5 0.14
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (33 bp):
AATATTTTCTAGTGTTTGGACAAATCTCTGTAA
Found at i:2273181 original size:21 final size:22
Alignment explanation
Indices: 2273155--2273196 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2273145 AAATTTTTTG
2273155 GAAAATGTCT-TCTTACCAAAT
1 GAAAATGTCTGTCTTACCAAAT
* *
2273176 GAAAATTTTTGTCTTACCAAA
1 GAAAATGTCTGTCTTACCAAA
2273197 CAAACAGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (22 bp):
GAAAATGTCTGTCTTACCAAAT
Found at i:2281913 original size:333 final size:334
Alignment explanation
Indices: 2281296--2281962 Score: 1327
Period size: 333 Copynumber: 2.0 Consensus size: 334
2281286 AAAATAAATT
2281296 AAGAGAGATCATCTTTAATTTACTTATATTATAATAATACTTAATAAAATATTAACATTTTAAAT
1 AAGAGAGATCATCTTTAATTTACTTATATTATAATAATACTTAATAAAATATTAACATTTTAAAT
2281361 AAAATATTAAATAATTATTATTTAATAAAAATATCATTTAAAAGTCATAGACCATTGTTTTTTTT
66 AAAATATTAAATAATTATTATTTAATAAAAATATCATTTAAAAGTCATAGACCATTGTTTTTTTT
2281426 AAGTAATGGTAAAATTGCAATTAAGTCATTTTTATCAATATAAAAATAGGAAAATTACACTTTAG
131 AAGTAATGGTAAAATTGCAATTAAGTCATTTTTATCAATATAAAAATAGGAAAATTACACTTTAG
2281491 TCTTTATATTTTCCCAACTTATTCAATTTAATTCCTGAACTCAATACCGAATTTTTAACTTAACC
196 TCTTTATATTTTCCCAACTTATTCAATTTAATTCCTGAACTCAATACCGAATTTTTAACTTAACC
2281556 ACATGCTCCTAATAATAATTCTCTATGTTTTTATGTCTGACGGTTTCCTCTAAAAACGATCACAA
261 ACATGCTCCTAATAATAATTCTCTATGTTTTTATGTCTGACGGTTTCCTCTAAAAACGATCACAA
2281621 TTTCTTATA
326 TTTCTTATA
2281630 AAGAGAGATC-TCTTTAATTTACTTATATTATAATAATACTTAATAAAATATTAACATTTTAAAT
1 AAGAGAGATCATCTTTAATTTACTTATATTATAATAATACTTAATAAAATATTAACATTTTAAAT
2281694 AAAATATTAAATAATTATTATTTAATAAAAATATCATTTAAAAGTCATAGACCATTGTTTTTTTT
66 AAAATATTAAATAATTATTATTTAATAAAAATATCATTTAAAAGTCATAGACCATTGTTTTTTTT
2281759 AAGTAATGGTAAAATTGCAATTAAGTCATTTTTATCAATATAAAAATAGGAAAATTACACTTTAG
131 AAGTAATGGTAAAATTGCAATTAAGTCATTTTTATCAATATAAAAATAGGAAAATTACACTTTAG
2281824 TCTTTATATTTTCCCAACTTATTCAATTTAATTCCTGAACTCAATACCGAATTTTTAACTTAACC
196 TCTTTATATTTTCCCAACTTATTCAATTTAATTCCTGAACTCAATACCGAATTTTTAACTTAACC
2281889 ACATGCTCCTAATAATAATTCTCTATGTTTTTATGTCTGACGGTTTCCTCTAAAAACGATCACAA
261 ACATGCTCCTAATAATAATTCTCTATGTTTTTATGTCTGACGGTTTCCTCTAAAAACGATCACAA
2281954 TTTCTTATA
326 TTTCTTATA
2281963 CTACTATCTA
Statistics
Matches: 333, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
333 323 0.97
334 10 0.03
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (334 bp):
AAGAGAGATCATCTTTAATTTACTTATATTATAATAATACTTAATAAAATATTAACATTTTAAAT
AAAATATTAAATAATTATTATTTAATAAAAATATCATTTAAAAGTCATAGACCATTGTTTTTTTT
AAGTAATGGTAAAATTGCAATTAAGTCATTTTTATCAATATAAAAATAGGAAAATTACACTTTAG
TCTTTATATTTTCCCAACTTATTCAATTTAATTCCTGAACTCAATACCGAATTTTTAACTTAACC
ACATGCTCCTAATAATAATTCTCTATGTTTTTATGTCTGACGGTTTCCTCTAAAAACGATCACAA
TTTCTTATA
Found at i:2282490 original size:23 final size:23
Alignment explanation
Indices: 2282457--2282500 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2282447 ATCAAATATA
*
2282457 CTTTTTTTTATATTT-TTTGTTTT
1 CTTTTTGTTAT-TTTATTTGTTTT
2282480 CTTTTTGTTATTTTATTTGTT
1 CTTTTTGTTATTTTATTTGTT
2282501 GACCTTGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.09, C:0.05, G:0.07, T:0.80
Consensus pattern (23 bp):
CTTTTTGTTATTTTATTTGTTTT
Found at i:2291143 original size:23 final size:23
Alignment explanation
Indices: 2291117--2291161 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2291107 TTTGGAGAGG
*
2291117 TTAAAACATAATTTTATCATTTA
1 TTAAAACATAATTTCATCATTTA
**
2291140 TTAAATTATAATTTCATCATTT
1 TTAAAACATAATTTCATCATTT
2291162 TAAGGGACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAAAACATAATTTCATCATTTA
Found at i:2297047 original size:27 final size:27
Alignment explanation
Indices: 2297009--2297094 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 27
2296999 TATAGATACG
*
2297009 AGGCGCAACTAGTTGAGCCTATCTCAA
1 AGGCGCGACTAGTTGAGCCTATCTCAA
* *
2297036 AGGCGCGACTAGTTGAGCCTATCTGAC
1 AGGCGCGACTAGTTGAGCCTATCTCAA
* * *
2297063 AGGCGCGACTAGTTGTGCCTAACTCAG
1 AGGCGCGACTAGTTGAGCCTATCTCAA
2297090 AGGCG
1 AGGCG
2297095 TGAATGGTGG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.21
Consensus pattern (27 bp):
AGGCGCGACTAGTTGAGCCTATCTCAA
Found at i:2297426 original size:20 final size:20
Alignment explanation
Indices: 2297403--2297440 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2297393 TTTTTTTTGC
2297403 ATTTCGAAATTGTTTTAAGA
1 ATTTCGAAATTGTTTTAAGA
* *
2297423 ATTTTGAAATTTTTTTAA
1 ATTTCGAAATTGTTTTAA
2297441 CAGATCTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
ATTTCGAAATTGTTTTAAGA
Found at i:2302913 original size:38 final size:39
Alignment explanation
Indices: 2302870--2302946 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
2302860 TGATATCCAA
2302870 GTTTATAT-AAAAAAATTAAATGAGTTAACAGCAACTAT
1 GTTTATATAAAAAAAATTAAATGAGTTAACAGCAACTAT
2302908 GTTTATATAAAAAAAATTAAATGAGTTAACAGCAACTAT
1 GTTTATATAAAAAAAATTAAATGAGTTAACAGCAACTAT
2302947 ATGATTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 8 0.21
39 30 0.79
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (39 bp):
GTTTATATAAAAAAAATTAAATGAGTTAACAGCAACTAT
Found at i:2303134 original size:60 final size:60
Alignment explanation
Indices: 2303041--2303173 Score: 203
Period size: 60 Copynumber: 2.2 Consensus size: 60
2303031 AAACTAAACT
* * * *
2303041 AAACACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAAATTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
*
2303101 AAACACAAAAAATTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAT
1 AAACACAAAAAATTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
*
2303161 AAAAAGCAAAAAA
1 AAACA-CAAAAAA
2303174 ATTACATTCA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
60 59 0.89
61 7 0.11
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.30
Consensus pattern (60 bp):
AAACACAAAAAATTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:2303368 original size:25 final size:24
Alignment explanation
Indices: 2303326--2303388 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
2303316 TTACCTTTTT
* *
2303326 TTCTTTATTTCTTCTTCTTCTTCTC
1 TTCTTTTTTTCTTATTC-TCTTCTC
* *
2303351 TTCTTTTTTTTTTATTCTCTTTTC
1 TTCTTTTTTTCTTATTCTCTTCTC
2303375 TCTCTTTTCTTTCT
1 T-TCTTTT-TTTCT
2303389 CTCTTCTGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 7 0.23
25 20 0.65
26 4 0.13
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (24 bp):
TTCTTTTTTTCTTATTCTCTTCTC
Found at i:2303379 original size:28 final size:33
Alignment explanation
Indices: 2303320--2303385 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
2303310 AATACATTAC
2303320 CTTTTTTTCTTTATTTCTTCTTCTTCTTCTCTT
1 CTTTTTTTCTTTATTTCTTCTTCTTCTTCTCTT
*
2303353 CTTTTTTT-TTTATTCTCTT-TTCTCTCTTTTCTT
1 CTTTTTTTCTTTATT-TCTTCTTCT-TCTTCTCTT
2303386 TCTCTCTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 10 0.33
33 20 0.67
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (33 bp):
CTTTTTTTCTTTATTTCTTCTTCTTCTTCTCTT
Found at i:2305997 original size:20 final size:20
Alignment explanation
Indices: 2305974--2306019 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2305964 GATAGTAGCC
2305974 TGGTGGAAGGGACAAAAGCA
1 TGGTGGAAGGGACAAAAGCA
* **
2305994 TGGTGTAAGGGACAGCAGCA
1 TGGTGGAAGGGACAAAAGCA
2306014 TGGTGG
1 TGGTGG
2306020 TGTAGCAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.11, G:0.43, T:0.15
Consensus pattern (20 bp):
TGGTGGAAGGGACAAAAGCA
Found at i:2306203 original size:26 final size:25
Alignment explanation
Indices: 2306163--2306220 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 25
2306153 TTTATATTTA
2306163 AATATTTTTAATAAA-AATAAAAAATT
1 AATA-TTTTAATAAACAA-AAAAAATT
*
2306189 AATATTTTAATTAAACCAAAAAAATTT
1 AATATTTTAA-TAAA-CAAAAAAAATT
2306216 AATAT
1 AATAT
2306221 AAAAAATTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.21
26 8 0.29
27 12 0.43
28 2 0.07
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (25 bp):
AATATTTTAATAAACAAAAAAAATT
Found at i:2306209 original size:25 final size:27
Alignment explanation
Indices: 2306158--2306220 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 27
2306148 CTGTATTTAT
*
2306158 ATTTAAATATTTTTAATAAAAA-TAAAAA
1 ATTT-AATA-TTTTAATAAAAACAAAAAA
* *
2306186 A-TTAATATTTTAATTAAACCAAAAAA
1 ATTTAATATTTTAATAAAAACAAAAAA
2306212 ATTTAATAT
1 ATTTAATAT
2306221 AAAAAATTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 10 0.33
26 10 0.33
27 9 0.30
28 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (27 bp):
ATTTAATATTTTAATAAAAACAAAAAA
Found at i:2306925 original size:3 final size:3
Alignment explanation
Indices: 2306919--2306951 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
2306909 GAGAGAAAGG
2306919 AGA AGA AGA AGA AGA AG- AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
2306952 AGAAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:2306938 original size:17 final size:17
Alignment explanation
Indices: 2306918--2306955 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
2306908 AGAGAGAAAG
2306918 GAGAAGAAGAAGAAGAA
1 GAGAAGAAGAAGAAGAA
2306935 GAGAAGAAGAAGAAGAA
1 GAGAAGAAGAAGAAGAA
2306952 -AGAA
1 GAGAA
2306956 AAAAAAAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (17 bp):
GAGAAGAAGAAGAAGAA
Found at i:2309414 original size:6 final size:6
Alignment explanation
Indices: 2309403--2309590 Score: 376
Period size: 6 Copynumber: 31.3 Consensus size: 6
2309393 GCATCATGCA
2309403 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
2309451 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
2309499 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
2309547 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CC
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CC
2309591 GGCATTTGAG
Statistics
Matches: 182, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 182 1.00
ACGTcount: A:0.33, C:0.34, G:0.33, T:0.00
Consensus pattern (6 bp):
CCAGAG
Found at i:2314465 original size:22 final size:23
Alignment explanation
Indices: 2314440--2314493 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
2314430 ATACCTAACT
*
2314440 TTTTTCTTCT-TTTCCTTCCTTC
1 TTTTTCTTCTGCTTCCTTCCTTC
2314462 -TTTTCTTCTGCTTCCTTCCTTC
1 TTTTTCTTCTGCTTCCTTCCTTC
2314484 TTCTTTCTTC
1 TT-TTTCTTC
2314494 CGTTTTTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 9 0.32
22 11 0.39
23 1 0.04
24 7 0.25
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTTCTTCTGCTTCCTTCCTTC
Found at i:2314589 original size:27 final size:27
Alignment explanation
Indices: 2314551--2314680 Score: 172
Period size: 27 Copynumber: 4.8 Consensus size: 27
2314541 AAAATCACAG
*
2314551 CATTGGCGCCT-CCTAATATGGCACCAC
1 CATTGGCGCCTCCCAAATA-GGCACCAC
* * *
2314578 CATTGGTGCCTCCTAGATAGGCACCAC
1 CATTGGCGCCTCCCAAATAGGCACCAC
*
2314605 CATTAGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCTCCCAAATAGGCACCAC
2314632 CATTGGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCTCCCAAATAGGCACCAC
* * *
2314659 CATTGGCGGCTTCCAGATAGGC
1 CATTGGCGCCTCCCAAATAGGC
2314681 GCCAATACTA
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
27 86 0.96
28 4 0.04
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (27 bp):
CATTGGCGCCTCCCAAATAGGCACCAC
Found at i:2315683 original size:30 final size:30
Alignment explanation
Indices: 2315649--2315708 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
2315639 TTTTCCATTC
*
2315649 TTTGTATATTATTGTCTGGTATGAACTTTA
1 TTTGTATATTATTGTCTGGTATAAACTTTA
2315679 TTTGTATATTATTGTCTGGTATAAACTTTA
1 TTTGTATATTATTGTCTGGTATAAACTTTA
2315709 GTCTAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.53
Consensus pattern (30 bp):
TTTGTATATTATTGTCTGGTATAAACTTTA
Found at i:2319903 original size:47 final size:48
Alignment explanation
Indices: 2319827--2319920 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 48
2319817 TGCAAACTTC
* *
2319827 TTAACTGCTAATTAATGCGTACAATGGAGT-CTGTTGC-TAAATTAGTA
1 TTAACTGCTAATTAATGCGCACAACGGAGTGCT-TTGCGTAAATTAGTA
*
2319874 TTAACTGCTAATTAATGTGCACAACGGAGTGCTTTGCTGTAAATTAG
1 TTAACTGCTAATTAATGCGCACAACGGAGTGCTTTGC-GTAAATTAG
2319921 AAGCCTAGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 31 0.76
48 2 0.05
49 8 0.20
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (48 bp):
TTAACTGCTAATTAATGCGCACAACGGAGTGCTTTGCGTAAATTAGTA
Found at i:2323608 original size:41 final size:41
Alignment explanation
Indices: 2323514--2323596 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
2323504 TTTTTTTACA
*
2323514 TAAAAATTTTTTAATACGAACAGGTTGGGTCAGGCTCGAGT
1 TAAAAAATTTTTAATACGAACAGGTTGGGTCAGGCTCGAGT
*
2323555 TAAAAAAATTTTAATACGAACAGGTTGGGTCAGGCTCGAGT
1 TAAAAAATTTTTAATACGAACAGGTTGGGTCAGGCTCGAGT
2323596 T
1 T
2323597 TTAACATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (41 bp):
TAAAAAATTTTTAATACGAACAGGTTGGGTCAGGCTCGAGT
Found at i:2328424 original size:20 final size:20
Alignment explanation
Indices: 2328383--2328427 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2328373 AAAAAGTACA
* *
2328383 CATATTTTTACAATTTAGTT
1 CATATTTTTACAATGTACTT
2328403 CATATGTTTTA-AATGTACTT
1 CATAT-TTTTACAATGTACTT
2328423 CATAT
1 CATAT
2328428 CATATTGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (20 bp):
CATATTTTTACAATGTACTT
Found at i:2330505 original size:31 final size:31
Alignment explanation
Indices: 2330470--2330537 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
2330460 GTAATAGCTC
*
2330470 AGTGACTCAAATGACAA-CTTTCACATAATTT
1 AGTGACTCAAATGAAAATCTTTCA-ATAATTT
* * *
2330501 AGTGACTTAAATGAAAATTTTTGAATAATTT
1 AGTGACTCAAATGAAAATCTTTCAATAATTT
2330532 AGTGAC
1 AGTGAC
2330538 CATTTTGTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 28 0.88
32 4 0.12
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (31 bp):
AGTGACTCAAATGAAAATCTTTCAATAATTT
Found at i:2330735 original size:24 final size:24
Alignment explanation
Indices: 2330701--2330752 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
2330691 TTTCTAGAAG
* **
2330701 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
2330725 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
2330749 ATTT
1 ATTT
2330753 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:2333559 original size:3 final size:3
Alignment explanation
Indices: 2333551--2333582 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2333541 CTTTTGTAGT
2333551 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2333583 CTGTATAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2337878 original size:85 final size:85
Alignment explanation
Indices: 2337776--2337946 Score: 306
Period size: 85 Copynumber: 2.0 Consensus size: 85
2337766 CTATTATATA
*
2337776 TATGATGAAAATTTTTTATGTTCAGCTTGTACCTATGTCATCTAAGTTTCATATAGAAGCATCAA
1 TATGATGAAAATTTTTTATGTTCAGCTTGTACCTATGTCATCTAAGTTCCATATAGAAGCATCAA
2337841 CCTTTACCCCAAACAAATCT
66 CCTTTACCCCAAACAAATCT
* * *
2337861 TATGATGAAAATTTTTTATGTTCAGCTTGTACCTATGTCATCTAAGTTCCATATAGAAGCTTTAT
1 TATGATGAAAATTTTTTATGTTCAGCTTGTACCTATGTCATCTAAGTTCCATATAGAAGCATCAA
2337926 CCTTTACCCCAAACAAATCT
66 CCTTTACCCCAAACAAATCT
2337946 T
1 T
2337947 GTCATAAGAA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (85 bp):
TATGATGAAAATTTTTTATGTTCAGCTTGTACCTATGTCATCTAAGTTCCATATAGAAGCATCAA
CCTTTACCCCAAACAAATCT
Found at i:2350505 original size:21 final size:21
Alignment explanation
Indices: 2350476--2350517 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2350466 TAAAATTTTA
2350476 AATAATTAAATAAATTTAATT
1 AATAATTAAATAAATTTAATT
* * *
2350497 AATATTTAATTTAATTTAATT
1 AATAATTAAATAAATTTAATT
2350518 TTTAAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATAATTAAATAAATTTAATT
Found at i:2357246 original size:20 final size:20
Alignment explanation
Indices: 2357192--2357238 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
2357182 GATAAGTGTG
2357192 GTCAAGCCACCAGAATTACA
1 GTCAAGCCACCAGAATTACA
*
2357212 GTCAAGCCACCAGAATTGCA
1 GTCAAGCCACCAGAATTACA
2357232 GTCAAGC
1 GTCAAGC
2357239 TGCCAGAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.30, G:0.19, T:0.15
Consensus pattern (20 bp):
GTCAAGCCACCAGAATTACA
Found at i:2359207 original size:21 final size:21
Alignment explanation
Indices: 2359183--2359222 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2359173 GTTTTGGGGT
2359183 TGGTCAAAATAATG-GTGTTTC
1 TGGTCAAAAT-ATGTGTGTTTC
2359204 TGGTCAAAATATGTGTGTT
1 TGGTCAAAATATGTGTGTT
2359223 GATGGCTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.28, C:0.07, G:0.25, T:0.40
Consensus pattern (21 bp):
TGGTCAAAATATGTGTGTTTC
Done.