Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 13 of 136
Found at i:4073148 original size:27 final size:27
Alignment explanation
Indices: 4073117--4073444 Score: 396
Period size: 27 Copynumber: 12.3 Consensus size: 27
4073107 ATTTATGGGC
* *
4073117 AAATGACCGAAATACCCTCGATGGGAA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
4073144 AAATGACCGAAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
4073171 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
4073198 AAATGACTGAAATATCCTCGATGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
4073225 AAATGACTGAAATACCTTCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
4073252 AAATGACTGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
4073279 AAATGATCAAAATACCCTC-AAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
4073305 AAATGACCGAAATACCCTCGAAGAGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
4073332 AAATAACCGAAATACTCCTAG-AGGGTA
1 AAATGACCGAAATAC-CCTCGAAGGGTA
* *
4073359 AAATGATCGAAATACCC-CCAGAGGGTA
1 AAATGACCGAAATACCCTCGA-AGGGTA
** *
4073386 AAATGATTGAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
4073413 AAATAACCAAAATACCCTC-AA-GGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
4073438 AAATGAC
1 AAATGAC
4073445 TGTTATACCT
Statistics
Matches: 259, Mismatches: 37, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.04
26 27 0.10
27 217 0.84
28 5 0.02
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:4073795 original size:28 final size:28
Alignment explanation
Indices: 4073755--4073859 Score: 129
Period size: 28 Copynumber: 3.8 Consensus size: 28
4073745 ACTGTACTGG
*
4073755 TTACTGTATTGGGCTACGGCCCACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
* *
4073783 TTACTGTACTGGGTTAAGGCCCACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
* * *
4073811 TTACTGTGTTGGGCTAAGGCCCACATTG
1 TTACTGTATTGGGCTAAGGCCCACACTA
* * *
4073839 TTTCTATTTTGGGCTAAGGCC
1 TTACTGTATTGGGCTAAGGCC
4073860 TACGCTGTAC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTA
Found at i:4074702 original size:18 final size:17
Alignment explanation
Indices: 4074669--4074704 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
4074659 TTAAACTAGA
*
4074669 GAAAACTAAGACTGTAG
1 GAAAACTAAAACTGTAG
4074686 GAAAACTGAAAACTGTAG
1 GAAAACT-AAAACTGTAG
4074704 G
1 G
4074705 GAGACTCTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.47, C:0.11, G:0.25, T:0.17
Consensus pattern (17 bp):
GAAAACTAAAACTGTAG
Found at i:4079408 original size:10 final size:10
Alignment explanation
Indices: 4079393--4079431 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
4079383 GGTTAAGTAA
*
4079393 TTTGGGTGTG
1 TTTGGGAGTG
4079403 TTTGGGAGTG
1 TTTGGGAGTG
*
4079413 TTTGGGAGTA
1 TTTGGGAGTG
4079423 TTTGAGGAG
1 TTTG-GGAG
4079432 CCTGGGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 22 0.85
11 4 0.15
ACGTcount: A:0.13, C:0.00, G:0.46, T:0.41
Consensus pattern (10 bp):
TTTGGGAGTG
Found at i:4080781 original size:27 final size:27
Alignment explanation
Indices: 4080750--4081023 Score: 336
Period size: 27 Copynumber: 10.1 Consensus size: 27
4080740 ATTCATGGGC
*
4080750 AAATGACCGAAATACCCTCGATGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
4080777 AAATGACCGAAATACCCCCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
4080804 AAATGACCAAAATACCCTCTAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
4080831 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
4080858 AAATGACCAAAATACCCTCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
4080885 AAATGATCGAAATACCTTCGGAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
** * *
4080912 AAATGATTGAAATACCCCCGGAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
4080939 AAATGACC-AAGATACCTTTGAAGGGTA
1 AAATGACCGAA-ATACCCTCGAAGGGTA
*
4080966 AAATGACCGAAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
4080993 AAATGACCGAAATA-GCTCCATAGGGTA
1 AAATGACCGAAATACCCTCGA-AGGGTA
4081020 AAAT
1 AAAT
4081024 AACTGTTATA
Statistics
Matches: 212, Mismatches: 32, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 5 0.02
27 205 0.97
28 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.17
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:4081420 original size:28 final size:28
Alignment explanation
Indices: 4081380--4081458 Score: 122
Period size: 28 Copynumber: 2.8 Consensus size: 28
4081370 CTATACTGGC
*
4081380 TACTATATTGGGCTAAGGCCCACACTAT
1 TACTATACTGGGCTAAGGCCCACACTAT
* *
4081408 TACTGTACTGGGCTAAAGCCCACACTAT
1 TACTATACTGGGCTAAGGCCCACACTAT
*
4081436 TACTATATTGGGCTAAGGCCCAC
1 TACTATACTGGGCTAAGGCCCAC
4081459 CCTGTACTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (28 bp):
TACTATACTGGGCTAAGGCCCACACTAT
Found at i:4088741 original size:25 final size:26
Alignment explanation
Indices: 4088685--4088744 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
4088675 TTGTATGTTA
*
4088685 AGCTCGCATACCAAGTTTGCAGATTG
1 AGCTCGCATACCAAGTTTACAGATTG
* *
4088711 AGCTCGCATATCGAGTTTACA-ATTG
1 AGCTCGCATACCAAGTTTACAGATTG
4088736 AGCTCGCAT
1 AGCTCGCAT
4088745 GATGTTAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
25 13 0.42
26 18 0.58
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AGCTCGCATACCAAGTTTACAGATTG
Found at i:4089217 original size:6 final size:6
Alignment explanation
Indices: 4089206--4089230 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4089196 TTTTCTTTAA
4089206 AAAATT AAAATT AAAATT AAAATT A
1 AAAATT AAAATT AAAATT AAAATT A
4089231 TATAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:4104844 original size:19 final size:18
Alignment explanation
Indices: 4104816--4104860 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 18
4104806 CCAGTTCCAT
4104816 TTCCATTCTTGAAAGTTA
1 TTCCATTCTTGAAAGTTA
4104834 TTCCTATTCTTGAAAGTTA
1 TTCC-ATTCTTGAAAGTTA
4104853 TTCTCATT
1 TTC-CATT
4104861 TAATTTATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.16
19 20 0.80
20 1 0.04
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.49
Consensus pattern (18 bp):
TTCCATTCTTGAAAGTTA
Found at i:4107149 original size:37 final size:36
Alignment explanation
Indices: 4107087--4107162 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
4107077 GATAATCACT
*
4107087 TTAATATTAAATTAATAAAATACTATTAAGATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAACATAA-TA
4107124 TTAA-ATTAAATTTAATAAGAA-ACTATTAACATAATA
1 TTAATATTAAA-TTAATAA-AATACTATTAACATAATA
4107160 TTA
1 TTA
4107163 TTTTTGGAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
36 11 0.31
37 23 0.64
38 2 0.06
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAACATAATA
Found at i:4117548 original size:84 final size:82
Alignment explanation
Indices: 4117392--4117555 Score: 193
Period size: 84 Copynumber: 2.0 Consensus size: 82
4117382 AACTTCCTTA
*
4117392 GGGAAATAAATTATTTTGGGATGATGTCTAACCCCATAATTTCCTCAATGAAATCAATTATGTAG
1 GGGAAATAAATTATTTTGGGATGATGTCTAACCCCATAATTTCCTCAAGGAAATCAATTATGTAG
*
4117457 GCAAATGGCTAGCCTCG
66 GCAAATGGCAAGCCTCG
* * ** * ** *
4117474 GGGAAATCAATTATCTTTTGGGCTGATGTCTGGCTCCATAATTTCCTCGGGGAAATCAGTTATGT
1 GGGAAATAAATTA--TTTTGGGATGATGTCTAACCCCATAATTTCCTCAAGGAAATCAATTATGT
* **
4117539 ATGTTAATGGCAAGCCT
64 AGGCAAATGGCAAGCCT
4117556 AATAACTTTC
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
82 12 0.18
84 55 0.82
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (82 bp):
GGGAAATAAATTATTTTGGGATGATGTCTAACCCCATAATTTCCTCAAGGAAATCAATTATGTAG
GCAAATGGCAAGCCTCG
Found at i:4119158 original size:22 final size:22
Alignment explanation
Indices: 4119130--4119175 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
4119120 AGTGGGGGGA
4119130 GAAAACCAAGTTTAGTTGCATT
1 GAAAACCAAGTTTAGTTGCATT
4119152 GAAAACCAAGTTTAGTTGCATT
1 GAAAACCAAGTTTAGTTGCATT
4119174 GA
1 GA
4119176 TGTATTCGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (22 bp):
GAAAACCAAGTTTAGTTGCATT
Found at i:4122561 original size:16 final size:15
Alignment explanation
Indices: 4122540--4122569 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4122530 AATTAAATAC
4122540 AACAACATTTATTAAT
1 AACAACATTT-TTAAT
4122556 AACAACATTTTTAA
1 AACAACATTTTTAA
4122570 GTTGAAACAT
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:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
AACAACATTTTTAAT
Found at i:4129373 original size:15 final size:15
Alignment explanation
Indices: 4129341--4129389 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
4129331 TACTTTAATC
4129341 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
4129356 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
* *
4129371 ATGGTAATGTATATAT
1 ATGGTTA-GTATTTAT
4129387 ATG
1 ATG
4129390 TGCATGGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 9 0.30
15 11 0.37
16 10 0.33
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:4129650 original size:22 final size:22
Alignment explanation
Indices: 4129625--4129787 Score: 125
Period size: 22 Copynumber: 7.0 Consensus size: 22
4129615 GAGTAAATGA
4129625 ATGTATATGCTGTCAAATTTTG
1 ATGTATATGCTGTCAAATTTTG
* *
4129647 ATGTATAAATGCAGTCCAATTATAT-
1 ATGTAT--ATGCTGTCAAATT-T-TG
*
4129672 ATGTATATGCTATCAAATTTTG
1 ATGTATATGCTGTCAAATTTTG
** *
4129694 ATGTATAAATGCAATCCAATTATAT-
1 ATGTAT--ATGCTGTCAAATT-T-TG
4129719 ATGTATATGCTGTCAAATTTTG
1 ATGTATATGCTGTCAAATTTTG
*
4129741 ATGTATAAATGCAGTCCAAATTTTG
1 ATGTAT--ATGCTGT-CAAATTTTG
*
4129766 -TATATATGCTGTCCAAATTTTG
1 ATGTATATGCTGT-CAAATTTTG
4129788 GTGTGAAAAT
Statistics
Matches: 115, Mismatches: 13, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
21 2 0.02
22 36 0.31
23 20 0.17
24 32 0.28
25 23 0.20
26 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (22 bp):
ATGTATATGCTGTCAAATTTTG
Found at i:4129799 original size:47 final size:47
Alignment explanation
Indices: 4129625--4129787 Score: 258
Period size: 47 Copynumber: 3.5 Consensus size: 47
4129615 GAGTAAATGA
4129625 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
* *
4129672 ATGTATATGCTATCAAATTTTGATGTATAAATGCAATCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
4129719 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAATT-T-T
1 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCC-AATTATAT
* *
4129765 GTATATATGCTGTCCAAATTTTG
1 ATGTATATGCTGT-CAAATTTTG
4129788 GTGTGAAAAT
Statistics
Matches: 108, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
46 12 0.11
47 92 0.85
48 4 0.04
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (47 bp):
ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
Found at i:4129815 original size:46 final size:46
Alignment explanation
Indices: 4129628--4129841 Score: 185
Period size: 47 Copynumber: 4.6 Consensus size: 46
4129618 TAAATGAATG
*
4129628 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCC-AATTAT-ATA
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAATT-TGGTA
* * *
4129673 TGTATATGCTATCAAATTTTGATGTATAAATGCAATCC-AATTAT-ATA
1 --TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAATT-TGGTA
*
4129720 TGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAATTTTGTA
1 --TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAATTTGGTA
* * *
4129768 TATATGCTGTCCAAATTTTGGTGTGA-AAATGCTA-T-CTAGTTTGGTA
1 TATATGCTGT-CAAATTTTGATGT-ATAAATGC-AGTCCAAATTTGGTA
4129814 TATAAATGCTGTTCAAA--TTGATGTATAA
1 TAT--ATGCTG-TCAAATTTTGATGTATAA
4129842 TAATTGTCCA
Statistics
Matches: 148, Mismatches: 10, Indels: 19
0.84 0.06 0.11
Matches are distributed among these distances:
45 1 0.01
46 29 0.20
47 99 0.67
48 18 0.12
49 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (46 bp):
TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAATTTGGTA
Found at i:4129823 original size:94 final size:94
Alignment explanation
Indices: 4129631--4129841 Score: 245
Period size: 94 Copynumber: 2.3 Consensus size: 94
4129621 ATGAATGTAT
*
4129631 ATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTATCAAATTTTGAT
1 ATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATATATATGCTATCAAATTTTGAT
* *
4129696 GTATAAATGCAATCCAATTATATATGTAT
66 GTATAAATGCAATCCAATTATATATATAA
* *
4129725 ATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAATT-T-TGTATATATGCTGTCCAAATTTTG
1 ATGCTGTCAAATTTTGATGTATAAATGCAGTCC-AATTATATATATATATGCTAT-CAAATTTTG
* * * * *
4129788 GTGTGA-AAATGCTATCTAGTT-TGGTATATAA
64 ATGT-ATAAATGCAATCCAATTAT-ATATATAA
4129819 ATGCTGTTCAAA--TTGATGTATAA
1 ATGCTG-TCAAATTTTGATGTATAA
4129842 TAATTGTCCA
Statistics
Matches: 102, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
93 23 0.23
94 69 0.68
95 10 0.10
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (94 bp):
ATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATATATATGCTATCAAATTTTGAT
GTATAAATGCAATCCAATTATATATATAA
Found at i:4134773 original size:29 final size:29
Alignment explanation
Indices: 4134727--4134799 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
4134717 GATTTTTATG
*
4134727 TTATGTATATTATTTTAT-TATATAATATA
1 TTATGTATATTATATTATAT-TATAATATA
*
4134756 TTATGTTATATTA-ATTATATTATATTATA
1 TTATG-TATATTATATTATATTATAATATA
4134785 TTAT-TATA-TATATTA
1 TTATGTATATTATATTA
4134800 ATAAAGTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 2 0.05
27 8 0.21
29 21 0.54
30 8 0.21
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (29 bp):
TTATGTATATTATATTATATTATAATATA
Found at i:4134777 original size:5 final size:5
Alignment explanation
Indices: 4134732--4134799 Score: 70
Period size: 5 Copynumber: 13.4 Consensus size: 5
4134722 TTATGTTATG
*
4134732 TATAT TAT-T T-TAT TATAT AATATAT TATGT TATAT TA-AT TATAT TATAT
1 TATAT TATAT TATAT TATAT --TATAT TATAT TATAT TATAT TATAT TATAT
4134781 TATAT TATTAT ATATAT TA
1 TATAT TA-TAT -TATAT TA
4134800 ATAAAGTAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
3 1 0.02
4 8 0.15
5 32 0.59
6 6 0.11
7 7 0.13
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:4135487 original size:48 final size:49
Alignment explanation
Indices: 4135414--4135511 Score: 180
Period size: 48 Copynumber: 2.0 Consensus size: 49
4135404 AAGAAAAGGG
4135414 CAAAATTAGATTTTAAAGCTTCAAGCTTAATTGGTAAGTTAAATTTAGCC
1 CAAAATTAGA-TTTAAAGCTTCAAGCTTAATTGGTAAGTTAAATTTAGCC
4135464 CAAAATTAGA-TTAAAGCTTCAAGCTTAATTGGTAAGTTAAATTTAGCC
1 CAAAATTAGATTTAAAGCTTCAAGCTTAATTGGTAAGTTAAATTTAGCC
4135512 ATTTTCTCTT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 38 0.79
50 10 0.21
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (49 bp):
CAAAATTAGATTTAAAGCTTCAAGCTTAATTGGTAAGTTAAATTTAGCC
Found at i:4147193 original size:5 final size:5
Alignment explanation
Indices: 4147183--4147223 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
4147173 CCCAAGTATT
4147183 CAACC CAACC CAATTACC CAACC CAACC CAACC CAACC CAA
1 CAACC CAACC C-A--ACC CAACC CAACC CAACC CAACC CAA
4147224 TCATAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 27 0.82
6 1 0.03
7 1 0.03
8 4 0.12
ACGTcount: A:0.41, C:0.54, G:0.00, T:0.05
Consensus pattern (5 bp):
CAACC
Found at i:4147194 original size:18 final size:18
Alignment explanation
Indices: 4147171--4147213 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
4147161 ACCCAATCTA
**
4147171 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
4147189 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
4147207 AACCCAA
1 AACCCAA
4147214 CCCAACCCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:4147360 original size:9 final size:9
Alignment explanation
Indices: 4147331--4147397 Score: 80
Period size: 9 Copynumber: 7.4 Consensus size: 9
4147321 GTAGTGATTC
*
4147331 AATTTGGTT
1 AATTCGGTT
**
4147340 AATTTAGTT
1 AATTCGGTT
*
4147349 AATTCGGGT
1 AATTCGGTT
4147358 AATTCGGTT
1 AATTCGGTT
*
4147367 AATTCGGGT
1 AATTCGGTT
*
4147376 AATTCGTTT
1 AATTCGGTT
4147385 AATTCGGTT
1 AATTCGGTT
4147394 AATT
1 AATT
4147398 ACCAAAAAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 49 1.00
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.46
Consensus pattern (9 bp):
AATTCGGTT
Found at i:4153077 original size:26 final size:26
Alignment explanation
Indices: 4153041--4153092 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
4153031 CGAGGAATGT
4153041 GGAAATATCAAGAACAATACTGCTTA
1 GGAAATATCAAGAACAATACTGCTTA
4153067 GGAAATATCAAGAACAATACTGCTTA
1 GGAAATATCAAGAACAATACTGCTTA
4153093 CTTGATTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (26 bp):
GGAAATATCAAGAACAATACTGCTTA
Found at i:4157293 original size:117 final size:117
Alignment explanation
Indices: 4157194--4157443 Score: 464
Period size: 117 Copynumber: 2.1 Consensus size: 117
4157184 ATAAATTCAC
4157194 TATTATATTTAATTTTATATTGAAATTTATCATTTTAATTTTGTTTGATTAAATTTTTTCACTAA
1 TATTAT-TTTAATTTTA-ATTGAAATTTATCATTTTAATTTTGTTTGATTAAATTTTTTCACTAA
*
4157259 ATTTTATTTTTCAATTTCAATTTAAAATAGTTTGAAGATAAAATTTAATAAAAA
64 ATTTTATTTTTCAATTTCAATTTAAAATAGTTTGAAGATAAAATTAAATAAAAA
4157313 TATTATTTTAATTTTAATTGAAATTTATCATTTTAATTTTGTTTGATTAAATTTTTTCACTAAAT
1 TATTATTTTAATTTTAATTGAAATTTATCATTTTAATTTTGTTTGATTAAATTTTTTCACTAAAT
*
4157378 TTTATTTTTCAATTTCAATTTAAAATAGTTTGAAGATAAAATTTAATAAAAA
66 TTTATTTTTCAATTTCAATTTAAAATAGTTTGAAGATAAAATTAAATAAAAA
4157430 TATTATTTTAATTT
1 TATTATTTTAATTT
4157444 AATACTTAAA
Statistics
Matches: 131, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
117 115 0.88
118 10 0.08
119 6 0.05
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (117 bp):
TATTATTTTAATTTTAATTGAAATTTATCATTTTAATTTTGTTTGATTAAATTTTTTCACTAAAT
TTTATTTTTCAATTTCAATTTAAAATAGTTTGAAGATAAAATTAAATAAAAA
Found at i:4164111 original size:13 final size:13
Alignment explanation
Indices: 4164095--4164119 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4164085 TTTTTCAAGA
4164095 AAATTCTTTAATC
1 AAATTCTTTAATC
4164108 AAATTCTTTAAT
1 AAATTCTTTAAT
4164120 TGAACAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATTCTTTAATC
Found at i:4165517 original size:24 final size:24
Alignment explanation
Indices: 4165490--4165541 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
4165480 AATCAAGGTC
* *
4165490 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
4165514 AAATATATTTTACTCATAAATACT
1 AAATATATTATACTAATAAATACT
4165538 AAAT
1 AAAT
4165542 CTTCTAGAAA
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:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:4170117 original size:3 final size:3
Alignment explanation
Indices: 4170109--4170137 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4170099 TTTAGTGGCT
4170109 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
4170138 TTCCCATTAT
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):
ATC
Found at i:4171746 original size:18 final size:16
Alignment explanation
Indices: 4171723--4171757 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
4171713 AAAATTATAG
4171723 TTCTTTTGCTTCTTCTGT
1 TTCTTTTG-TTCTT-TGT
4171741 TTCTTTTGTTCTTTGT
1 TTCTTTTGTTCTTTGT
4171757 T
1 T
4171758 CTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 5 0.29
18 8 0.47
ACGTcount: A:0.00, C:0.17, G:0.11, T:0.71
Consensus pattern (16 bp):
TTCTTTTGTTCTTTGT
Found at i:4172249 original size:3 final size:3
Alignment explanation
Indices: 4172241--4172271 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4172231 AACTTGCTCC
4172241 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4172272 NNNNNNNNNN
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4176650 original size:38 final size:36
Alignment explanation
Indices: 4176591--4176665 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 36
4176581 ACTAATTAAA
* * *
4176591 AAAATGACAAAAAAATATTAGATTTACTGGTGATTT
1 AAAATGACAAAAAAACATTAGATATACCGGTGATTT
4176627 AAAATGACACAGAAAAACATTAGATATACCGGTGATTT
1 AAAATGACA-A-AAAAACATTAGATATACCGGTGATTT
4176665 A
1 A
4176666 TGTATTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 9 0.26
37 1 0.03
38 24 0.71
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.28
Consensus pattern (36 bp):
AAAATGACAAAAAAACATTAGATATACCGGTGATTT
Found at i:4185395 original size:57 final size:57
Alignment explanation
Indices: 4185332--4185443 Score: 165
Period size: 57 Copynumber: 1.9 Consensus size: 57
4185322 TTTTAGGTCA
* *
4185332 TTTTCATTTTGGCA-AAAACCATATTCATTTCCAAATGATTT-TATTTCTCCATTTTTT
1 TTTTCATTTAGG-AGAAAACCATAATCATTTCCAAATG-TTTCTATTTCTCCATTTTTT
4185389 TTTTCATTTAGGAGAAAACCATAATCATTTCCAAATGTTTCCTATTTCTCCATTT
1 TTTTCATTTAGGAGAAAACCATAATCATTTCCAAATGTTT-CTATTTCTCCATTT
4185444 CATCATTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
56 4 0.08
57 33 0.66
58 13 0.26
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (57 bp):
TTTTCATTTAGGAGAAAACCATAATCATTTCCAAATGTTTCTATTTCTCCATTTTTT
Found at i:4189187 original size:29 final size:29
Alignment explanation
Indices: 4189145--4189400 Score: 169
Period size: 29 Copynumber: 8.8 Consensus size: 29
4189135 CAATGGTCGT
* * *
4189145 AACCGTCCCTTTTCATATTCGACGGTAGA
1 AACCATCCCTTTTCATAATCGATGGTAGA
**
4189174 AACCATCCCTTTTCATAATCGATGGCCGA
1 AACCATCCCTTTTCATAATCGATGGTAGA
*
4189203 AACCATCCCTTTTCATAATCGATAGCT-GA
1 AACCATCCCTTTTCATAATCGAT-GGTAGA
* * * * *
4189232 AGCTATCCCTTTTCATATTTGATGGTCA-T
1 AACCATCCCTTTTCATAATCGATGGT-AGA
* * * * *
4189261 CACCATCCCTTTTCATAGTTGATGGTCGT
1 AACCATCCCTTTTCATAATCGATGGTAGA
* * *
4189290 CACTATCCCTTTTCATAATCGATAGTCA-A
1 AACCATCCCTTTTCATAATCGATGGT-AGA
* * * **
4189319 AGCTATCCCTTTTCATAATTGATAGCCA-A
1 AACCATCCCTTTTCATAATCGAT-GGTAGA
* * * * * *
4189348 AGCTATCCCTTTTCATAGTTGATGGTTGT
1 AACCATCCCTTTTCATAATCGATGGTAGA
*
4189377 CACCATCCCTTTTCATAATCGATG
1 AACCATCCCTTTTCATAATCGATG
4189401 ATCGCCGATA
Statistics
Matches: 180, Mismatches: 40, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
28 3 0.02
29 176 0.98
30 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (29 bp):
AACCATCCCTTTTCATAATCGATGGTAGA
Found at i:4189241 original size:58 final size:57
Alignment explanation
Indices: 4189178--4189399 Score: 214
Period size: 58 Copynumber: 3.8 Consensus size: 57
4189168 GGTAGAAACC
*
4189178 ATCCCTTTTCATAATCGATGGCCGAAACCATCCCTTTTCATAATCGATAGCTGAAGCT
1 ATCCCTTTTCATAATCGATGGTC-AAACCATCCCTTTTCATAATCGATAGCTGAAGCT
* * * * * * *
4189236 ATCCCTTTTCATATTTGATGGTCATCACCATCCCTTTTCATAGTTGAT-GGTCGTCA-CT
1 ATCCCTTTTCATAATCGATGGTCA-AACCATCCCTTTTCATAATCGATAGCT-G-AAGCT
* * * **
4189294 ATCCCTTTTCATAATCGATAGTCAAAGCTATCCCTTTTCATAATTGATAGCCAAAGCT
1 ATCCCTTTTCATAATCGATGGTCAAA-CCATCCCTTTTCATAATCGATAGCTGAAGCT
* * ***
4189352 ATCCCTTTTCATAGTTGATGGTTGTCACCATCCCTTTTCATAATCGAT
1 ATCCCTTTTCATAATCGATGG-TCAAACCATCCCTTTTCATAATCGAT
4189400 GATCGCCGAT
Statistics
Matches: 131, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
57 5 0.04
58 122 0.93
59 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.37
Consensus pattern (57 bp):
ATCCCTTTTCATAATCGATGGTCAAACCATCCCTTTTCATAATCGATAGCTGAAGCT
Found at i:4189298 original size:87 final size:86
Alignment explanation
Indices: 4189173--4189399 Score: 303
Period size: 87 Copynumber: 2.6 Consensus size: 86
4189163 TCGACGGTAG
* * * ** *
4189173 AAACCATCCCTTTTCATAATCGATGGCCGAAACCATCCCTTTTCATAATCGATAG-CTGAAGCTA
1 AAACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGTC-AAAGCTA
* * *
4189237 TCCCTTTTCATATTTGATGGTC
65 TCCCTTTTCATAATTGATAGCC
* *
4189259 ATCACCATCCCTTTTCATAGTTGATGGTCGTCACTATCCCTTTTCATAATCGATAGTCAAAGCTA
1 A-AACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCAAAGCTA
4189324 TCCCTTTTCATAATTGATAGCC
65 TCCCTTTTCATAATTGATAGCC
* *
4189346 AAAGCTATCCCTTTTCATAGTTGATGGTTGTCACCATCCCTTTTCATAATCGAT
1 AAA-CCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGAT
4189400 GATCGCCGAT
Statistics
Matches: 123, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
86 2 0.02
87 120 0.98
88 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (86 bp):
AAACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCAAAGCTAT
CCCTTTTCATAATTGATAGCC
Found at i:4190452 original size:12 final size:13
Alignment explanation
Indices: 4190435--4190473 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
4190425 GACACTTCGT
4190435 AAATATTTATAA-
1 AAATATTTATAAC
4190447 AAATATTTATAAC
1 AAATATTTATAAC
* *
4190460 AAATTTTTCTAAC
1 AAATATTTATAAC
4190473 A
1 A
4190474 TTATATTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (13 bp):
AAATATTTATAAC
Found at i:4192640 original size:34 final size:34
Alignment explanation
Indices: 4192590--4192753 Score: 188
Period size: 34 Copynumber: 4.8 Consensus size: 34
4192580 AAAAGATGTG
* *
4192590 TGAATAGGAAAGATTCCCTGCAAGGAATGATGCA
1 TGAACAGGAAAGATTCCCTGCAAGAAATGATGCA
* * *
4192624 TGAACAGGAAAAATTCCCTGCAAGAAAAGACG-A
1 TGAACAGGAAAGATTCCCTGCAAGAAATGATGCA
* *
4192657 GGTGAGA-AAGAAAGATTCCCTGCAAGAAATGATGCG
1 --TGA-ACAGGAAAGATTCCCTGCAAGAAATGATGCA
* **
4192693 TGAACAGGAAAGATTCCTTGCAAGAAATGATGTG
1 TGAACAGGAAAGATTCCCTGCAAGAAATGATGCA
*
4192727 TGAACAGGAAATATTCCCTGCAAGAAA
1 TGAACAGGAAAGATTCCCTGCAAGAAA
4192754 AGACAAGAAA
Statistics
Matches: 110, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
33 2 0.02
34 81 0.74
35 26 0.24
36 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.18
Consensus pattern (34 bp):
TGAACAGGAAAGATTCCCTGCAAGAAATGATGCA
Found at i:4192688 original size:69 final size:68
Alignment explanation
Indices: 4192577--4192753 Score: 212
Period size: 69 Copynumber: 2.6 Consensus size: 68
4192567 GAAATGATGT
* * * * *
4192577 AAGAAAAGATGTGTGAATAGGAAAGATTCCCTGCAAGGAATGATGCATGAACAGGAAAAATTCCC
1 AAGAAAAGACGGGTGAACAAGAAAGATTCCCTGCAAGAAATGATGCATGAACAGGAAAAATTCCC
4192642 TGC
66 TGC
* *
4192645 AAGAAAAGACGAGGTGAGA-AAGAAAGATTCCCTGCAAGAAATGATGCGTGAACAGGAAAGATTC
1 AAGAAAAGACG-GGTGA-ACAAGAAAGATTCCCTGCAAGAAATGATGCATGAACAGGAAAAATTC
*
4192709 CTTGC
64 CCTGC
* * * * *
4192714 AAGAAATGATGTGTGAACAGGAAATATTCCCTGCAAGAAA
1 AAGAAAAGACGGGTGAACAAGAAAGATTCCCTGCAAGAAA
4192754 AGACAAGAAA
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
67 1 0.01
68 34 0.36
69 58 0.62
70 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.18
Consensus pattern (68 bp):
AAGAAAAGACGGGTGAACAAGAAAGATTCCCTGCAAGAAATGATGCATGAACAGGAAAAATTCCC
TGC
Found at i:4193051 original size:14 final size:14
Alignment explanation
Indices: 4193032--4193058 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4193022 AATTTTTAAA
4193032 TTAAGTTTTCAAAC
1 TTAAGTTTTCAAAC
4193046 TTAAGTTTTCAAA
1 TTAAGTTTTCAAA
4193059 TTATAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (14 bp):
TTAAGTTTTCAAAC
Found at i:4196294 original size:41 final size:41
Alignment explanation
Indices: 4196237--4196354 Score: 209
Period size: 41 Copynumber: 2.9 Consensus size: 41
4196227 GAGTTTTTGG
4196237 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
* *
4196278 GGCCTTTAGCGGCGTTTTTGAAGAAGCACCGTTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
*
4196319 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAAT
4196355 AATAATCAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
Found at i:4197639 original size:21 final size:20
Alignment explanation
Indices: 4197605--4197645 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
4197595 TATGGATTTA
*
4197605 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
4197625 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
4197646 AGGAGTTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:4197912 original size:19 final size:19
Alignment explanation
Indices: 4197888--4197929 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
4197878 AATTATAAGA
*
4197888 AAAAATAAAATACAAAAAT
1 AAAAATAAAATAAAAAAAT
*
4197907 AAAAATGAAATAAAAAAAT
1 AAAAATAAAATAAAAAAAT
4197926 AAAA
1 AAAA
4197930 TTTATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAAATAAAATAAAAAAAT
Found at i:4206524 original size:26 final size:26
Alignment explanation
Indices: 4206488--4206545 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
4206478 GGTTTAGGGT
4206488 GTTACATTTAGTAGTATCAGAGCCAG
1 GTTACATTTAGTAGTATCAGAGCCAG
4206514 GTTACATTTAGTAGTATCAGAGCCAG
1 GTTACATTTAGTAGTATCAGAGCCAG
4206540 GTTACA
1 GTTACA
4206546 AAACTCGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (26 bp):
GTTACATTTAGTAGTATCAGAGCCAG
Found at i:4206733 original size:26 final size:26
Alignment explanation
Indices: 4206667--4206727 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
4206657 CTGTAAGTGC
*
4206667 TCTGAAACTGATACATGCTATGATAT
1 TCTGAAACTGATATATGCTATGATAT
*
4206693 TCTGAAACTGATATATGTTATGATAT
1 TCTGAAACTGATATATGCTATGATAT
4206719 TCTGAAACT
1 TCTGAAACT
4206728 ACTATAGGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (26 bp):
TCTGAAACTGATATATGCTATGATAT
Found at i:4209318 original size:26 final size:26
Alignment explanation
Indices: 4209289--4209359 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
4209279 ATATCGCGGT
* * *
4209289 AAAGCTGCCAGTAATAGTGATGCAGC
1 AAAGCTGCCAGTAATAGTAACGAAGC
4209315 AAAGCTGCCAGTAATAGTAACGAAGC
1 AAAGCTGCCAGTAATAGTAACGAAGC
*
4209341 AAAGCTGCCAGTAACAGTA
1 AAAGCTGCCAGTAATAGTA
4209360 TATGTGGCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (26 bp):
AAAGCTGCCAGTAATAGTAACGAAGC
Found at i:4209556 original size:27 final size:27
Alignment explanation
Indices: 4209534--4210217 Score: 727
Period size: 27 Copynumber: 25.3 Consensus size: 27
4209524 AGGGGTATAA
4209534 CGGTCATTTTACCCTTCGAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
* *
4209561 CAGTCATTTTACCCTTCGGGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
*
4209588 CGGTCATTTTACCCATT-GGGGGTATTT
1 CGGTCATTTTACCC-TTCGAGGGTATTT
* * * *
4209615 CGATC-CTTTACCCTTTGAAGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
* *
4209641 CGATCATTTTACCCTTCGAGCGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
* * *
4209668 CGATCATTTTACCCCTCGGGGGGTATTT
1 CGGTCATTTTACCCTTC-GAGGGTATTT
* **
4209696 CGATCA-TTTACCCTTCGGAATGTATTT
1 CGGTCATTTTACCCTTC-GAGGGTATTT
* *
4209723 TGGTCCTTTTACCCTTCGAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
4209750 CGGTCATTTTACCCTTC-AGGGGTATTT
1 CGGTCATTTTACCCTTCGA-GGGTATTT
* **
4209777 CGGCCATTTTACCCTTTAAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
* * **
4209804 CAGTCATTTTACCTTTTAAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
* *
4209831 TGGTTATTTTACCCTTCGAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
* *
4209858 CAGTCATTTTACCCTTCGGGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
*
4209885 CGGTCATTTTACCCATT-GGGGGTATTT
1 CGGTCATTTTACCC-TTCGAGGGTATTT
* * * *
4209912 CGATC-CTTTACCCTTTGAAGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
* *
4209938 CGATCATTTTACCCTTCGAGCGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
* * *
4209965 CGATCATTTTACCCCTCGGGGGGTATTT
1 CGGTCATTTTACCCTTC-GAGGGTATTT
* **
4209993 CGATCATTTTACCCTTCGAATGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
* *
4210020 TGGTCCTTTTACCCTTCGAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
4210047 CGGTCATTTTACCCTTC-AGGGGTATTT
1 CGGTCATTTTACCCTTCGA-GGGTATTT
* **
4210074 CGGCCATTTTACCCTTTAAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
* * **
4210101 CAGTCATTTTACCTTTTAAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
* *
4210128 TGGTTATTTTACCCTTCGAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
* *
4210155 CAGTCATTTTATCCTTCG-GAGGTATTT
1 CGGTCATTTTACCCTTCGAG-GGTATTT
**
4210182 CGGTCATTTTACCCTTTAAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
*
4210209 CGGTTATTT
1 CGGTCATTT
4210218 AGGCCCATTA
Statistics
Matches: 559, Mismatches: 83, Indels: 30
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.01
26 43 0.08
27 457 0.82
28 55 0.10
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.43
Consensus pattern (27 bp):
CGGTCATTTTACCCTTCGAGGGTATTT
Found at i:4210073 original size:297 final size:297
Alignment explanation
Indices: 4209539--4210210 Score: 1283
Period size: 297 Copynumber: 2.3 Consensus size: 297
4209529 TATAACGGTC
4209539 ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCAT
1 ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCAT
4209604 TGGGGGTATTTCGATCCTTTACCCTTTGAAGGTATTTCGATCATTTTACCCTTCGAGCGTATTTC
66 TGGGGGTATTTCGATCCTTTACCCTTTGAAGGTATTTCGATCATTTTACCCTTCGAGCGTATTTC
4209669 GATCATTTTACCCCTCGGGGGGTATTTCGATCATTTACCCTTCGGAATGTATTTTGGTCCTTTTA
131 GATCATTTTACCCCTCGGGGGGTATTTCGATCATTTACCCTTCGGAATGTATTTTGGTCCTTTTA
4209734 CCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAGGGGTATTTCGGCCATTTTACCCTTTAAGGG
196 CCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAGGGGTATTTCGGCCATTTTACCCTTTAAGGG
4209799 TATTTCAGTCATTTTACCTTTTAAGGGTATTTTGGTT
261 TATTTCAGTCATTTTACCTTTTAAGGGTATTTTGGTT
4209836 ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCAT
1 ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCAT
4209901 TGGGGGTATTTCGATCCTTTACCCTTTGAAGGTATTTCGATCATTTTACCCTTCGAGCGTATTTC
66 TGGGGGTATTTCGATCCTTTACCCTTTGAAGGTATTTCGATCATTTTACCCTTCGAGCGTATTTC
4209966 GATCATTTTACCCCTCGGGGGGTATTTCGATCATTTTACCCTTC-GAATGTATTTTGGTCCTTTT
131 GATCATTTTACCCCTCGGGGGGTATTTCGATCA-TTTACCCTTCGGAATGTATTTTGGTCCTTTT
4210030 ACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAGGGGTATTTCGGCCATTTTACCCTTTAAGG
195 ACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAGGGGTATTTCGGCCATTTTACCCTTTAAGG
4210095 GTATTTCAGTCATTTTACCTTTTAAGGGTATTTTGGTT
260 GTATTTCAGTCATTTTACCTTTTAAGGGTATTTTGGTT
* * *
4210133 ATTTTACCCTTCGAGGGTATTTCAGTCATTTTATCCTTCGGAGGTATTTCGGTCATTTTACCCTT
1 ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCAT
**
4210198 TAAGGGTATTTCG
66 TGGGGGTATTTCG
4210211 GTTATTTAGG
Statistics
Matches: 369, Mismatches: 5, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
297 359 0.97
298 10 0.03
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.42
Consensus pattern (297 bp):
ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCAT
TGGGGGTATTTCGATCCTTTACCCTTTGAAGGTATTTCGATCATTTTACCCTTCGAGCGTATTTC
GATCATTTTACCCCTCGGGGGGTATTTCGATCATTTACCCTTCGGAATGTATTTTGGTCCTTTTA
CCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAGGGGTATTTCGGCCATTTTACCCTTTAAGGG
TATTTCAGTCATTTTACCTTTTAAGGGTATTTTGGTT
Found at i:4210905 original size:34 final size:35
Alignment explanation
Indices: 4210857--4210929 Score: 112
Period size: 34 Copynumber: 2.1 Consensus size: 35
4210847 GAAGAGGGAG
* *
4210857 AGAAAGGCAGTATTCGGCCA-AAAGAGAAGAAGAA
1 AGAAAGGCAATATTCGGCCACAAAGAAAAGAAGAA
*
4210891 AGAAAGGCAATATTCGGCCACAAAGAAAAGAGGAA
1 AGAAAGGCAATATTCGGCCACAAAGAAAAGAAGAA
4210926 AGAA
1 AGAA
4210930 CCAAGGGCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 19 0.54
35 16 0.46
ACGTcount: A:0.52, C:0.12, G:0.27, T:0.08
Consensus pattern (35 bp):
AGAAAGGCAATATTCGGCCACAAAGAAAAGAAGAA
Found at i:4211096 original size:5 final size:5
Alignment explanation
Indices: 4211086--4211114 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
4211076 GACAGAGAGA
4211086 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
4211115 ACCAAAAGCT
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:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:4214303 original size:23 final size:24
Alignment explanation
Indices: 4214273--4214588 Score: 130
Period size: 23 Copynumber: 13.3 Consensus size: 24
4214263 TCTACCCTGT
*
4214273 TTGGACAAC-TCTTATACATC-AAA
1 TTGGACAACAT-TTATACACCAAAA
4214296 TTGGACAACATTTATACACCAAAA
1 TTGGACAACATTTATACACCAAAA
*
4214320 TTGGACAGCATTTATACA--ATAAA
1 TTGGACAACATTTATACACCA-AAA
* * * * *
4214343 TTGGGCAGCATATATATA-TAAAA
1 TTGGACAACATTTATACACCAAAA
* *
4214366 TTGAACAACATTTTTTACACCAAAA
1 TTGGACAACA-TTTATACACCAAAA
* * * *
4214391 TTTGAGAGCATATATACACC-AAA
1 TTGGACAACATTTATACACCAAAA
* * * * *
4214414 TTGGGCAGCATATATATATA-TATCAAT
1 TTGGACAACAT-T-TATACACCA--AAA
* * * *
4214441 TTTGACAATATTTTTACATCAAAA
1 TTGGACAACATTTATACACCAAAA
* ** *
4214465 TTTGACAGTATATATACACC-AAA
1 TTGGACAACATTTATACACCAAAA
* * * * *
4214488 TTGGGCAGCATATATATATC-AAA
1 TTGGACAACATTTATACACCAAAA
* * * *
4214511 TTGGACAGCATTTTTATACCGAAA
1 TTGGACAACATTTATACACCAAAA
* * *
4214535 TTGGACAGCATATAGACACCAAAA
1 TTGGACAACATTTATACACCAAAA
* * *
4214559 TCGG-CAGCATTTTTACACCAAAA
1 TTGGACAACATTTATACACCAAAA
4214582 TTGGACA
1 TTGGACA
4214589 GAATATAGAC
Statistics
Matches: 223, Mismatches: 56, Indels: 27
0.73 0.18 0.09
Matches are distributed among these distances:
22 1 0.00
23 112 0.50
24 80 0.36
25 19 0.09
26 2 0.01
27 9 0.04
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (24 bp):
TTGGACAACATTTATACACCAAAA
Found at i:4214335 original size:47 final size:47
Alignment explanation
Indices: 4214284--4214610 Score: 214
Period size: 47 Copynumber: 6.9 Consensus size: 47
4214274 TGGACAACTC
* * *
4214284 TTATACATCAAATTGGACAACATTTATACACCAAAATTGGACAGCAT
1 TTATACACCAAATTGGACAGCATATATACACCAAAATTGGACAGCAT
** * * * * *
4214331 TTATACAATAAATTGGGCAGCATATATATA-TAAAATTGAACAACATT
1 TTATACACCAAATTGGACAGCATATATACACCAAAATTGGACAGCA-T
* * * *
4214378 TTTTACACCAAAATTTGAGAGCATATATACACC-AAATTGGGCAGCATAT
1 TTATACACC-AAATTGGACAGCATATATACACCAAAATTGGACAGC--AT
* * * * ** * * * * *
4214427 ATATATATATCAATTTTGACAATATTTTTACATCAAAATTTGACAGTAT
1 -T-TATACACCAAATTGGACAGCATATATACACCAAAATTGGACAGCAT
* * * *
4214476 ATATACACCAAATTGGGCAGCATATATATATC-AAATTGGACAGCAT
1 TTATACACCAAATTGGACAGCATATATACACCAAAATTGGACAGCAT
* * * *
4214522 TTTTATACCGAAATTGGACAGCATATAGACACCAAAATCGG-CAGCAT
1 TTATACACC-AAATTGGACAGCATATATACACCAAAATTGGACAGCAT
* * * *
4214569 TTTTACACCAAAATTGGACAGAATATAGACACC-GAATTGGAC
1 TTATACACC-AAATTGGACAGCATATATACACCAAAATTGGAC
4214611 TTGAATCGAA
Statistics
Matches: 210, Mismatches: 59, Indels: 22
0.72 0.20 0.08
Matches are distributed among these distances:
46 35 0.17
47 108 0.51
48 32 0.15
49 3 0.01
50 18 0.09
51 14 0.07
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (47 bp):
TTATACACCAAATTGGACAGCATATATACACCAAAATTGGACAGCAT
Found at i:4214479 original size:74 final size:72
Alignment explanation
Indices: 4214285--4214568 Score: 308
Period size: 74 Copynumber: 3.9 Consensus size: 72
4214275 GGACAACTCT
* * * * **
4214285 TATACATCAAATTGGACAACATTTATACACCAAAATTGGACAGCATTTATACAATAAATTGGGCA
1 TATA-ATC-AATTTGACAACATTTTTACACCAAAATTTGACAGCATATATACACCAAATTGGGCA
4214350 GCATATATA
64 GCATATATA
*
4214359 TATAA--AA-TTGAACAACATTTTTTACACCAAAATTTGAGAGCATATATACACCAAATTGGGCA
1 TATAATCAATTTG-ACAACA-TTTTTACACCAAAATTTGACAGCATATATACACCAAATTGGGCA
4214421 GCATATATA
64 GCATATATA
* * *
4214430 TATATATCAATTTTGACAATATTTTTACATCAAAATTTGACAGTATATATACACCAAATTGGGCA
1 TATA-ATCAA-TTTGACAACATTTTTACACCAAAATTTGACAGCATATATACACCAAATTGGGCA
4214495 GCATATATA
64 GCATATATA
* * * * * * * * *
4214504 TATCA--AATTGGACAGCATTTTTATACCGAAATTGGACAGCATATAGACACCAAAATCGGCAGC
1 TATAATCAATTTGACAACATTTTTACACCAAAATTTGACAGCATATATACACCAAATTGGGCAGC
4214567 AT
66 AT
4214569 TTTTACACCA
Statistics
Matches: 180, Mismatches: 23, Indels: 18
0.81 0.10 0.08
Matches are distributed among these distances:
69 2 0.01
70 55 0.31
71 53 0.29
72 1 0.01
73 2 0.01
74 59 0.33
75 5 0.03
76 3 0.02
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (72 bp):
TATAATCAATTTGACAACATTTTTACACCAAAATTTGACAGCATATATACACCAAATTGGGCAGC
ATATATA
Found at i:4214542 original size:70 final size:70
Alignment explanation
Indices: 4214285--4214568 Score: 334
Period size: 70 Copynumber: 4.0 Consensus size: 70
4214275 GGACAACTCT
* * * **
4214285 TATACATCAAATTGGACAACATTTATACACCAAAATTGGACAGCATTTATACAATAAATTGGGCA
1 TATATATCAAATTGGACAACATTTTTACACCAAAATTGGACAGCATATATACACCAAATTGGGCA
4214350 GCATA
66 GCATA
* * * *
4214355 TATATATAAAATTGAACAACATTTTTTACACCAAAATTTGAGAGCATATATACACCAAATTGGGC
1 TATATATCAAATTGGACAACA-TTTTTACACCAAAATTGGACAGCATATATACACCAAATTGGGC
4214420 AGCATATATA
65 AGC----ATA
* * * * * *
4214430 TATATATCAATTTTGACAATATTTTTACATCAAAATTTGACAGTATATATACACCAAATTGGGCA
1 TATATATCAAATTGGACAACATTTTTACACCAAAATTGGACAGCATATATACACCAAATTGGGCA
4214495 GCATA
66 GCATA
* * * * * *
4214500 TATATATCAAATTGGACAGCATTTTTATACCGAAATTGGACAGCATATAGACACCAAAATCGGCA
1 TATATATCAAATTGGACAACATTTTTACACCAAAATTGGACAGCATATATACACCAAATTGGGCA
4214565 GCAT
66 GCAT
4214569 TTTTACACCA
Statistics
Matches: 180, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
70 78 0.43
71 40 0.22
74 43 0.24
75 19 0.11
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (70 bp):
TATATATCAAATTGGACAACATTTTTACACCAAAATTGGACAGCATATATACACCAAATTGGGCA
GCATA
Found at i:4215863 original size:23 final size:22
Alignment explanation
Indices: 4215833--4215906 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 22
4215823 TCTACCCTGT
4215833 TTGGACAACTCTTATACATCAAA
1 TTGGACAACT-TTATACATCAAA
*
4215856 TTGGACAACATTTATACACCAAAA
1 TTGGACAAC-TTTATACATC-AAA
*
4215880 TTGGACAGCTTTTATACAAT-AAA
1 TTGGACAAC-TTTATAC-ATCAAA
4215903 TTGG
1 TTGG
4215907 GCAGCATATA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
23 24 0.55
24 19 0.43
25 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (22 bp):
TTGGACAACTTTATACATCAAA
Found at i:4216049 original size:23 final size:23
Alignment explanation
Indices: 4216022--4216170 Score: 129
Period size: 23 Copynumber: 6.4 Consensus size: 23
4216012 TTTTACATCA
* *
4216022 AAATTTGACAGTATATATACACC
1 AAATTGGACAGCATATATACACC
* * *
4216045 AAATTGGGCAGCATATATATATC
1 AAATTGGACAGCATATATACACC
* * *
4216068 AAATTGGACAGCATTTTTATACC
1 AAATTGGACAGCATATATACACC
*
4216091 GAAATTGGACAGCATATAGACACC
1 -AAATTGGACAGCATATATACACC
* * *
4216115 AAAATCGG-CAGCATTTTTACACC
1 -AAATTGGACAGCATATATACACC
* *
4216138 AAAATTGGACAGAATATAGACACC
1 -AAATTGGACAGCATATATACACC
*
4216162 GAATTGGAC
1 AAATTGGAC
4216171 TTGAATCGAA
Statistics
Matches: 100, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
23 64 0.64
24 36 0.36
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (23 bp):
AAATTGGACAGCATATATACACC
Found at i:4216069 original size:47 final size:47
Alignment explanation
Indices: 4216022--4216155 Score: 119
Period size: 47 Copynumber: 2.9 Consensus size: 47
4216012 TTTTACATCA
* * *
4216022 AAATTTGACAGTATATATACACC-AAATTGGGCAGCATATATATATC
1 AAATTGGACAGCATATATACACCGAAATTGGACAGCATATATATATC
* * * * * *
4216068 AAATTGGACAGCATTTTTATACCGAAATTGGACAGCATATAGACACC
1 AAATTGGACAGCATATATACACCGAAATTGGACAGCATATATATATC
* * * * *
4216115 AAAATCGG-CAGCATTTTTACACCAAAATTGGACAGAATATA
1 -AAATTGGACAGCATATATACACCGAAATTGGACAGCATATA
4216156 GACACCGAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
46 18 0.25
47 49 0.67
48 6 0.08
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (47 bp):
AAATTGGACAGCATATATACACCGAAATTGGACAGCATATATATATC
Found at i:4216117 original size:70 final size:70
Alignment explanation
Indices: 4215845--4216128 Score: 309
Period size: 70 Copynumber: 4.0 Consensus size: 70
4215835 GGACAACTCT
* * * * **
4215845 TATACATCAAATTGGACAACATTTATACACCAAAATTGGACAGCTTTTATACAATAAATTGGGCA
1 TATATATCAAATTGGACAACATTTTTACACCAAAATTGGACAGCATATATACACCAAATTGGGCA
4215910 GCATA
66 GCATA
* * * *
4215915 TATATATAAAATTGAACAACATTTTTTACACCAAAATTTGAGAGCATATATACACC-AATTGGGC
1 TATATATCAAATTGGACAACA-TTTTTACACCAAAATTGGACAGCATATATACACCAAATTGGGC
4215979 AGGCATATATA
65 A-GC----ATA
* * * * * *
4215990 TATATATCAATTTTGACAATATTTTTACATCAAAATTTGACAGTATATATACACCAAATTGGGCA
1 TATATATCAAATTGGACAACATTTTTACACCAAAATTGGACAGCATATATACACCAAATTGGGCA
4216055 GCATA
66 GCATA
* * * * * *
4216060 TATATATCAAATTGGACAGCATTTTTATACCGAAATTGGACAGCATATAGACACCAAAATCGGCA
1 TATATATCAAATTGGACAACATTTTTACACCAAAATTGGACAGCATATATACACCAAATTGGGCA
4216125 GCAT
66 GCAT
4216129 TTTTACACCA
Statistics
Matches: 177, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
70 87 0.49
71 29 0.16
74 33 0.19
75 28 0.16
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (70 bp):
TATATATCAAATTGGACAACATTTTTACACCAAAATTGGACAGCATATATACACCAAATTGGGCA
GCATA
Found at i:4216125 original size:145 final size:145
Alignment explanation
Indices: 4215845--4216125 Score: 350
Period size: 145 Copynumber: 1.9 Consensus size: 145
4215835 GGACAACTCT
* *
4215845 TATACATCAAATTGGACAACATTTATACACCAAAATTGGACAGCTTTTATACAATAAATTGGGCA
1 TATACATCAAATTGGACAACATTTATACACCAAAATTGGACAGCTTATATACAACAAATTGGGCA
* * * *
4215910 GCATATATATATAAAATTGAACAACATTTTTTACACCAAAATTTGAGAGCATATATACACCAATT
66 GCATATATATATAAAATTGAACAACATTTTTTACACCAAAATTGGACAGCATATAGACACCAAAT
*
4215975 GGGCAGGCATATATA
131 CGGCAGGCATATATA
* * * * * * * *
4215990 TATATATCAATTTTGACAATATTTTTACATCAAAATTTGACAG-TATATATACACCAAATTGGGC
1 TATACATCAAATTGGACAACATTTATACACCAAAATTGGACAGCT-TATATACAACAAATTGGGC
* * * * *
4216054 AGCATATATATATCAAATTGGACAGCA-TTTTTATACCGAAATTGGACAGCATATAGACACCAAA
65 AGCATATATATATAAAATTGAACAACATTTTTTACACCAAAATTGGACAGCATATAGACACC-AA
4216118 ATCGGCAG
129 ATCGGCAG
4216126 CATTTTTACA
Statistics
Matches: 114, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
144 30 0.26
145 84 0.74
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (145 bp):
TATACATCAAATTGGACAACATTTATACACCAAAATTGGACAGCTTATATACAACAAATTGGGCA
GCATATATATATAAAATTGAACAACATTTTTTACACCAAAATTGGACAGCATATAGACACCAAAT
CGGCAGGCATATATA
Found at i:4217134 original size:40 final size:37
Alignment explanation
Indices: 4217052--4217145 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 37
4217042 TGACCTCGGT
* * *
4217052 TTCGCACACTTAGTGCCCATTATTTAACATCATTTAA
1 TTCGCACACTTAGTGCTCACTATTCAACATCATTTAA
4217089 TTCGCACACTTAGTGCTCACTATTCAACCTCATCATTTAA
1 TTCGCACACTTAGTGCTCACTATTCAA---CATCATTTAA
*
4217129 TTCGCATACTTAGTGCT
1 TTCGCACACTTAGTGCT
4217146 AATCATATAG
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
37 24 0.48
40 26 0.52
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.37
Consensus pattern (37 bp):
TTCGCACACTTAGTGCTCACTATTCAACATCATTTAA
Found at i:4218034 original size:20 final size:20
Alignment explanation
Indices: 4218011--4218048 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4218001 GTGTTTTATT
4218011 TTATTATCATTATACTAACA
1 TTATTATCATTATACTAACA
* *
4218031 TTATTATTATTTTACTAA
1 TTATTATCATTATACTAA
4218049 GTTAACCTTT
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:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATTATCATTATACTAACA
Found at i:4219929 original size:34 final size:34
Alignment explanation
Indices: 4219886--4219953 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
4219876 GCATTTTTGA
* *
4219886 CACTGTACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
*
4219919 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAGACTGT
4219954 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:4223668 original size:279 final size:278
Alignment explanation
Indices: 4223159--4223986 Score: 934
Period size: 279 Copynumber: 2.9 Consensus size: 278
4223149 GACAAATGAC
* * * * * * * *
4223159 ATGTTTAGGTTCGTCTACTAATATAAGTTGTCTTTTCGTAGTACTATTCGACCTCATAATAGTGC
1 ATGTTTAGGTTTGTCTACTAATAT-AGTTGTCATTACGTATTAC-AATC-A-CT-ACAACACTGC
* * * * *
4223224 TTAGTATTAGTTTAAACATTAGATAACCAATAAGCAACATTTTCTTCTATTTT-TTTTTCATGCA
61 TTAGTATTAGTTTAAACATTAGACAACCAATGAGCAACATTTGCTTCTATTTTGCTTTGCATG-A
** * *
4223288 AAAACCATGTGAGGGCAATATGCAAAGTATTAATGTAATTCATGAATAATTGTATTAACCAATCT
125 AAAACCATGTGAGGAAAATATACAAAGTATTAATGTAATTCATGAATAATTTTATTAACCAATCT
* * *
4223353 GTTCGAAAAAATTACAAGTGTACTTAGACAAAAATACTACACTTAGGGCACCAAATCCAACATTT
190 GTTCGAAAAAATTACAATTGTAC-AAGAC-AAAATACTACACTTAGGGCACCAGATCCAACATTT
*
4223418 TGCTCATTTTCGATTAGACTAAGTAT
253 TGCTCATTTTCGATTAGACTAAGGAT
* * * *
4223444 GTGTTTAGGTTTGTCTACTAATATAAGTTGTCTTTGCGTATTACAATC-C-A-ACCACTGCTTAG
1 ATGTTTAGGTTTGTCTACTAATAT-AGTTGTCATTACGTATTACAATCACTACAACACTGCTTAG
*
4223506 TATTAGTTTAAACATTAGACAACCAATGAGCAACATTTGCTTCTATTTTGCATTGCATGAAAAAA
65 TATTAGTTTAAACATTAGACAACCAATGAGCAACATTTGCTTCTATTTTGCTTTGCATG-AAAAA
* * *
4223571 CCATGTGAGGAAAATATACATAGTATTAATGTAATTCATGAATAATTTTATTGACCAATCTATTC
129 CCATGTGAGGAAAATATACAAAGTATTAATGTAATTCATGAATAATTTTATTAACCAATCTGTTC
* *
4223636 GAAAAAATTACAATTGTACAGAGACGAAAATACTACACTTAGGGCACCAGATCCAATAGTTTGCT
194 GAAAAAATTACAATTGTACA-AGAC-AAAATACTACACTTAGGGCACCAGATCCAACATTTTGCT
*
4223701 CATTTTCGATTAGAGTAAGGAT
257 CATTTTCGATTAGACTAAGGAT
* * * ** * *
4223723 ATGTTTAGGTTTGTCTGCTGATATAGTTGTCATTATGTATTATGATCTGACTACGTAATACTACT
1 ATGTTTAGGTTTGTCTACTAATATAGTTGTCATTACGTATTACAATC--ACTAC--AACACTGCT
* *
4223788 TAGTATTAGTTTAAACATTAGACAACCAATGAGCAACATTTGCTTCCATTTTGCTTTG-AGTGCA
62 TAGTATTAGTTTAAACATTAGACAACCAATGAGCAACATTTGCTTCTATTTTGCTTTGCA-TGAA
* * ** *
4223852 AAACTATGTGAGGACAATTATACAAAGTATATTAATGTAA-TCAATGAATTTTTTTATTAACTAA
126 AAACCATGTGAGGA-AAATATACAAAG--TATTAATGTAATTC-ATGAATAATTTTATTAACCAA
* * * *
4223916 TCTGTTTGAAAAAATTACAAGTT-TACAA-ACAAATATACTACCCTCAAGGCACCAGATCCAACA
187 TCTGTTCGAAAAAATTACAA-TTGTACAAGACAAA-ATACTACACTTAGGGCACCAGATCCAACA
4223979 TTTATGCT
250 TTT-TGCT
4223987 AGGTTCGTAG
Statistics
Matches: 468, Mismatches: 58, Indels: 33
0.84 0.10 0.06
Matches are distributed among these distances:
278 73 0.16
279 169 0.36
281 2 0.00
282 1 0.00
284 21 0.04
285 143 0.31
286 7 0.01
287 50 0.11
288 2 0.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Consensus pattern (278 bp):
ATGTTTAGGTTTGTCTACTAATATAGTTGTCATTACGTATTACAATCACTACAACACTGCTTAGT
ATTAGTTTAAACATTAGACAACCAATGAGCAACATTTGCTTCTATTTTGCTTTGCATGAAAAACC
ATGTGAGGAAAATATACAAAGTATTAATGTAATTCATGAATAATTTTATTAACCAATCTGTTCGA
AAAAATTACAATTGTACAAGACAAAATACTACACTTAGGGCACCAGATCCAACATTTTGCTCATT
TTCGATTAGACTAAGGAT
Found at i:4231716 original size:25 final size:25
Alignment explanation
Indices: 4231695--4231767 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
4231685 AGCCTTTTTG
4231695 GATAATTTGCCACAAGGGCTTTACA
1 GATAATTTGCCACAAGGGCTTTACA
*
4231720 GATAATTTGCCATAAGGGCTTTACA
1 GATAATTTGCCACAAGGGCTTTACA
* * * *
4231745 GATAACTCGTCACAAAGGCTTTA
1 GATAATTTGCCACAAGGGCTTTA
4231768 TTTGGTTTGC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (25 bp):
GATAATTTGCCACAAGGGCTTTACA
Found at i:4234438 original size:61 final size:58
Alignment explanation
Indices: 4234334--4234449 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 58
4234324 CACTTTAATA
* *
4234334 TTAAATTAATATAATACTTATCAAGATAAATATTAAGTTAAATTTAATATTAAATCTT
1 TTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATCTT
* *
4234392 TTAAATTAATAGAATATTTATCTATAAGATAAATATTAAATTAAATTTCATATTAAAT
1 TTAAATTAATAGAATACTTATC---AAGATAAATATTAAATTAAATTTAATATTAAAT
4234450 GATCACTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 20 0.39
61 31 0.61
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (58 bp):
TTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATCTT
Found at i:4236664 original size:41 final size:44
Alignment explanation
Indices: 4236615--4236764 Score: 132
Period size: 42 Copynumber: 3.5 Consensus size: 44
4236605 AGCCGTTACT
* * * *
4236615 CGGTGGAATCAACACTTAGCAACCAAC-TT-ATATTCAGTGATA
1 CGGTGGAATCAGCACTTAGCAACCAACTTTCACAATCAATGATA
* *
4236657 CGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAATGATA
1 CGGTGGAATCAGCACTTAGCAACCAACTTTCACAATCAATGATA
* * * * *
4236699 CGGTGGAATTAGCACTTAGCAACCACCTTT-AGAATCAATAATT
1 CGGTGGAATCAGCACTTAGCAACCAACTTTCACAATCAATGATA
** *
4236742 TAG-GAAATCAGCACTTAGCAACC
1 CGGTGGAATCAGCACTTAGCAACC
4236765 CCTCAAGGAA
Statistics
Matches: 89, Mismatches: 15, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
40 1 0.01
41 20 0.22
42 34 0.38
43 29 0.33
44 5 0.06
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (44 bp):
CGGTGGAATCAGCACTTAGCAACCAACTTTCACAATCAATGATA
Found at i:4236816 original size:41 final size:41
Alignment explanation
Indices: 4236770--4236876 Score: 180
Period size: 41 Copynumber: 2.6 Consensus size: 41
4236760 CAACCCCTCA
4236770 AGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGAG-TCG
1 AGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTG-GTTCG
* *
4236811 GGGAATCTACACTTAGCAACCCCTTTTTGATCAGTGGTTCG
1 AGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGGTTCG
4236852 AGGAATCTGCACTTAGCAACCCCTT
1 AGGAATCTGCACTTAGCAACCCCTT
4236877 ACATTCAATG
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.02
41 60 0.98
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (41 bp):
AGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGGTTCG
Found at i:4242593 original size:22 final size:22
Alignment explanation
Indices: 4242538--4242595 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
4242528 AACTTTTTAG
* *
4242538 TTTTTTA-ACTTTCTTTATATT
1 TTTTTTATAATTTTTTTATATT
*
4242559 TTTTTT-TAGATTTTTTTGTATT
1 TTTTTTATA-ATTTTTTTATATT
4242581 TTTTTTATAATTTTT
1 TTTTTTATAATTTTT
4242596 CAGAAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 7 0.23
22 22 0.71
23 2 0.06
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.76
Consensus pattern (22 bp):
TTTTTTATAATTTTTTTATATT
Found at i:4256363 original size:69 final size:69
Alignment explanation
Indices: 4256149--4256411 Score: 274
Period size: 69 Copynumber: 3.8 Consensus size: 69
4256139 CATTCTTATG
* * ** *
4256149 ATATTAAGGTTCACAAGCAAAAAGTTGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
1 ATATTAAGGTTCACAAGCGAAGAGCCGCAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
*
4256214 TGTC
66 TGTA
* ** * * * * * *
4256218 ACATTAAGGTTTGCAAGCGAAGAGCTGCAACCTCTAAAATAGTTAGTGAGAGCAAAACTCCTAGC
1 ATATTAAGGTTCACAAGCGAAGAGCCGCAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
*
4256283 TGTT
66 TGTA
** * *
4256287 ATATTAAGGTTCACAAGTTAAGAGCCGCAACCTCCAAAACAGTTAGCGAGAGTAAAGCTCCCAAC
1 ATATTAAGGTTCACAAGCGAAGAGCCGCAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
4256352 TGTA
66 TGTA
* * * * * ** *
4256356 ATGTTAAGATTCGCAGGGGAAGAGCCATAACCTCCAAAACAGTTAGCAAGAGCAAA
1 ATATTAAGGTTCACAAGCGAAGAGCCGCAACCTCCAAAACAGTTAGCGAGAGCAAA
4256412 TGTAATACCC
Statistics
Matches: 159, Mismatches: 35, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 159 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (69 bp):
ATATTAAGGTTCACAAGCGAAGAGCCGCAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
TGTA
Found at i:4256400 original size:138 final size:138
Alignment explanation
Indices: 4256149--4256411 Score: 328
Period size: 138 Copynumber: 1.9 Consensus size: 138
4256139 CATTCTTATG
** * *
4256149 ATATTAAGGTTCACAAGCAAAAAGTTGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
1 ATATTAAGGTTCACAAGCAAAAAGCCGCAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAAC
* * * ** * * **
4256214 TGTCACATTAAGGTTTGCAAGCGAAGAGCTGCAACCTCTAAAATAGTTAGTGAGAGCAAAACTCC
66 TGTAACATTAAGATTCGCAAGCGAAGAGCCACAACCTCCAAAACAGTTAGCAAGAGCAAAACTCC
4256279 TAGCTGTT
131 TAGCTGTT
** * *
4256287 ATATTAAGGTTCACAAGTTAAGAGCCGCAACCTCCAAAACAGTTAGCGAGAGTAAAGCTCCCAAC
1 ATATTAAGGTTCACAAGCAAAAAGCCGCAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAAC
** * * *
4256352 TGTAATGTTAAGATTCGCAGGGGAAGAGCCATAACCTCCAAAACAGTTAGCAAGAGCAAA
66 TGTAACATTAAGATTCGCAAGCGAAGAGCCACAACCTCCAAAACAGTTAGCAAGAGCAAA
4256412 TGTAATACCC
Statistics
Matches: 103, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
138 103 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (138 bp):
ATATTAAGGTTCACAAGCAAAAAGCCGCAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAAC
TGTAACATTAAGATTCGCAAGCGAAGAGCCACAACCTCCAAAACAGTTAGCAAGAGCAAAACTCC
TAGCTGTT
Found at i:4265444 original size:7 final size:7
Alignment explanation
Indices: 4265431--4265465 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
4265421 TTGAGTCAAA
4265431 AAAAATG
1 AAAAATG
*
4265438 GAAAATG
1 AAAAATG
4265445 -AAAATG
1 AAAAATG
4265451 AAAAATG
1 AAAAATG
4265458 AAAAATG
1 AAAAATG
4265465 A
1 A
4265466 TGAAAAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:4265450 original size:13 final size:13
Alignment explanation
Indices: 4265432--4265461 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4265422 TGAGTCAAAA
*
4265432 AAAATGGAAAATG
1 AAAATGAAAAATG
4265445 AAAATGAAAAATG
1 AAAATGAAAAATG
4265458 AAAA
1 AAAA
4265462 ATGATGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:4265470 original size:17 final size:17
Alignment explanation
Indices: 4265448--4265481 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4265438 GAAAATGAAA
4265448 ATGAAAAA-TGAAAAATG
1 ATGAAAAAGT-AAAAATG
4265465 ATGAAAAAGTAAAAATG
1 ATGAAAAAGTAAAAATG
4265482 GAGAGGCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.18
Consensus pattern (17 bp):
ATGAAAAAGTAAAAATG
Found at i:4267022 original size:129 final size:128
Alignment explanation
Indices: 4266792--4267095 Score: 466
Period size: 129 Copynumber: 2.4 Consensus size: 128
4266782 AAAACCTAGC
* * *
4266792 TCCCTAACCAGAAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGTAGTAGCAGAGC
1 TCCCTAACTAGCAGTGGAATAGGTT-GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGC
* *
4266857 ATATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGCCCTATA
65 AGATCGAAGAAGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGCCCTATA
**
4266921 TCCCTAACTAGCAGTGGAATAGGTTGGAAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGC
1 TCCCTAACTAGCAGTGGAATAGGTTGG-AAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGC
* *
4266986 AGATCGAAGAAGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATT
65 AGATCGAAGAAGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGCCCTATA
** *
4267050 TCCCT-GGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTC
1 TCCCTAACT-AGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTC
4267096 TCTGAGGTTG
Statistics
Matches: 161, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
128 21 0.13
129 140 0.87
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (128 bp):
TCCCTAACTAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGCA
GATCGAAGAAGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGCCCTATA
Found at i:4267469 original size:216 final size:216
Alignment explanation
Indices: 4267086--4267651 Score: 861
Period size: 216 Copynumber: 2.6 Consensus size: 216
4267076 GAAATTACAG
* *
4267086 ATCTTATCTCTCTGAGGTTGCAGTGAGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTA
1 ATCTTATCTCCCTGAGGTTGCAGTGAGCAGATTGAAGTCGATAATCCTATCTCCCTGAAATTGTA
* *
4267151 GTGGAACGGATTAAAGTAATGGATCTTATCTCTCT-AAAGTTGCAGTAGAGTGGATCGCATCAGG
66 GTGGAACGGATTAAAGTAATAGATCTTATCTCTCTGAAA-TTGCAGTAGAGTAGATCGCATCAGG
* * * *
4267215 TCTTATCTCCCTAAGGTTGCAGCGGAGTAGATTGAGAAAGTAAGTCTTATCCCCTTGAAGTCACA
130 TCTTATCTCCCTAAGGTTGCAGCAGAGCAGACTGAGAAAGTAAGTCTTATCCCCCTGAAGTCACA
4267280 GTGGGGCAGAACGAAGAAGCAA
195 GTGGGGCAGAACGAAGAAGCAA
* **
4267302 ATCTTATCTCCCTAAGGTTGCAGTAGAGCAGATTGAAACCGATAATCCTATCTCCCTGAAATTGT
1 ATCTTATCTCCCTGAGGTTGCAGT-GAGCAGATTGAAGTCGATAATCCTATCTCCCTGAAATTGT
* *
4267367 AGTGGAACGGATTAAAGTAATAG-TCTTATCTCTCTGAAATTGCAGCAGAGTAGATCACATCAGG
65 AGTGGAACGGATTAAAGTAATAGATCTTATCTCTCTGAAATTGCAGTAGAGTAGATCGCATCAGG
*
4267431 TCTTATCTCCCTGAA-GTTGTAGCAGAGCAGACTGAGAAAGTAAGTCTTATCCCCCTGAAGTCAC
130 TCTTATCTCCCT-AAGGTTGCAGCAGAGCAGACTGAGAAAGTAAGTCTTATCCCCCTGAAGTCAC
*
4267495 AGTGGGGCAGACCGAAGAAGCAA
194 AGTGGGGCAGAACGAAGAAGCAA
* * *
4267518 ATCTTATCTTCCTGAGGTTGCAGTGGAGTAGGTTGAAGTCGATAATCCTATCTCCCT-AAAGTTG
1 ATCTTATCTCCCTGAGGTTGCAGT-GAGCAGATTGAAGTCGATAATCCTATCTCCCTGAAA-TTG
* * * *
4267582 TAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAA
64 TAGTGGAACGGATTAAAGTAATAGATCTTATCTCTCTGAAATTGCAGTAGAGTAGATCGCATCAG
4267647 GTCTT
129 GTCTT
4267652 GCCGACTAGA
Statistics
Matches: 317, Mismatches: 28, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
215 3 0.01
216 210 0.66
217 104 0.33
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (216 bp):
ATCTTATCTCCCTGAGGTTGCAGTGAGCAGATTGAAGTCGATAATCCTATCTCCCTGAAATTGTA
GTGGAACGGATTAAAGTAATAGATCTTATCTCTCTGAAATTGCAGTAGAGTAGATCGCATCAGGT
CTTATCTCCCTAAGGTTGCAGCAGAGCAGACTGAGAAAGTAAGTCTTATCCCCCTGAAGTCACAG
TGGGGCAGAACGAAGAAGCAA
Found at i:4268350 original size:39 final size:39
Alignment explanation
Indices: 4268302--4268381 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
4268292 CCCAAAGTCT
4268302 AACCCGAATTACCCAATACACCCCAGCCCAATAACCAAA
1 AACCCGAATTACCCAATACACCCCAGCCCAATAACCAAA
*
4268341 AACCTGAATTACCCAATACACCCCAGCCCAATAACCAAA
1 AACCCGAATTACCCAATACACCCCAGCCCAATAACCAAA
4268380 AA
1 AA
4268382 TCCTAAGCCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.45, C:0.39, G:0.05, T:0.11
Consensus pattern (39 bp):
AACCCGAATTACCCAATACACCCCAGCCCAATAACCAAA
Found at i:4270980 original size:12 final size:13
Alignment explanation
Indices: 4270950--4270979 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4270940 AAGAAAAAGC
4270950 AAAAACCGCAAAA
1 AAAAACCGCAAAA
*
4270963 AAAAACCGTAAAA
1 AAAAACCGCAAAA
4270976 AAAA
1 AAAA
4270980 CAAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.17, G:0.07, T:0.03
Consensus pattern (13 bp):
AAAAACCGCAAAA
Found at i:4277471 original size:3 final size:3
Alignment explanation
Indices: 4277463--4277530 Score: 118
Period size: 3 Copynumber: 22.7 Consensus size: 3
4277453 AATCTATCCT
4277463 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
4277511 TTA TTA TTG TTA TTG TTA TT
1 TTA TTA TTA TTA TTA TTA TT
4277531 TAACTAATTT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4285697 original size:2 final size:2
Alignment explanation
Indices: 4285690--4285748 Score: 91
Period size: 2 Copynumber: 29.5 Consensus size: 2
4285680 TACAAAACAT
* * *
4285690 GA GA GA GA GA GG GA GA GG GG GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4285732 GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA G
4285749 TCCTACTAAG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4289003 original size:7 final size:7
Alignment explanation
Indices: 4288991--4289016 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4288981 AAAAGTGGGT
4288991 TAAAAAA
1 TAAAAAA
4288998 TAAAAAA
1 TAAAAAA
4289005 TAAAAAA
1 TAAAAAA
4289012 TAAAA
1 TAAAA
4289017 TAAAATGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:4296782 original size:16 final size:16
Alignment explanation
Indices: 4296761--4296791 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4296751 TGAGTTGAGA
*
4296761 AAATTATTTAATTAAG
1 AAATTAATTAATTAAG
4296777 AAATTAATTAATTAA
1 AAATTAATTAATTAA
4296792 TTTAAATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AAATTAATTAATTAAG
Found at i:4298972 original size:30 final size:30
Alignment explanation
Indices: 4298915--4299018 Score: 136
Period size: 30 Copynumber: 3.3 Consensus size: 30
4298905 AATGTTTTAA
*
4298915 AATTGATTTGTATATGTATACATATATATTGTTG
1 AATTGATTTGTATATG--T--ATATATATTGTAG
**
4298949 AATTGATTTGTATATGTATATATATTGCCG
1 AATTGATTTGTATATGTATATATATTGTAG
*
4298979 AATTAATTTGTATATGTATATATATTGTAG
1 AATTGATTTGTATATGTATATATATTGTAG
4299009 AATTGATTTG
1 AATTGATTTG
4299019 AGCATTGGAT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
30 47 0.73
32 1 0.02
34 16 0.25
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (30 bp):
AATTGATTTGTATATGTATATATATTGTAG
Found at i:4299233 original size:43 final size:43
Alignment explanation
Indices: 4299141--4299239 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 43
4299131 GGTGTGATTT
*
4299141 CATGTAAGACCATGTCTGAGACATTGGCATCGAAGTGAGAAAA
1 CATGTAAGACCATGTCTGAGACAGTGGCATCGAAGTGAGAAAA
* * * **
4299184 CGTGTAAGACCATGTCTGGGACAGTGGCATCGATA-TGTGTTAA
1 CATGTAAGACCATGTCTGAGACAGTGGCATCGA-AGTGAGAAAA
4299227 CATGTAAGACCAT
1 CATGTAAGACCAT
4299240 ATCCGGGATA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 47 0.98
44 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGAGACAGTGGCATCGAAGTGAGAAAA
Found at i:4302478 original size:45 final size:44
Alignment explanation
Indices: 4302356--4302511 Score: 140
Period size: 45 Copynumber: 3.4 Consensus size: 44
4302346 AGTTTGTTTT
* * **
4302356 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCCACCA
1 GTCTGCCCCACTGCAACTTCAGGGAGATAAGACT---TG-CATCC-TTA
**
4302405 -TCTGTTCCACTGCAACTTCAGGGAGATAAGA-TTCGCCAT-CTTCA
1 GTCTGCCCCACTGCAACTTCAGGGAGATAAGACTT-G-CATCCTT-A
*
4302449 GTCTGCCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTCCTTA
1 GTCTGCCCCACTGCAACTTCAGGGA-GATAAGACTTGCATCCTTA
4302493 GTCTGCCCCACTGCAACTT
1 GTCTGCCCCACTGCAACTT
4302512 TGATCTACTT
Statistics
Matches: 93, Mismatches: 8, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
44 28 0.30
45 32 0.34
46 2 0.02
47 1 0.01
48 30 0.32
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (44 bp):
GTCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGCATCCTTA
Found at i:4302511 original size:44 final size:45
Alignment explanation
Indices: 4302411--4302511 Score: 138
Period size: 44 Copynumber: 2.3 Consensus size: 45
4302401 ACCATCTGTT
4302411 CCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCC
1 CCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCC
*
4302456 CCACTGCAACTTCA-GGAGGATAAGACTT-G-CTTCCTT-AGTCTGCC
1 CCACTGCAACTTCAGGGA-GATAAGA-TTCGCCAT-CTTCAGTCTGCC
4302500 CCACTGCAACTT
1 CCACTGCAACTT
4302512 TGATCTACTT
Statistics
Matches: 52, Mismatches: 1, Indels: 7
0.87 0.02 0.12
Matches are distributed among these distances:
44 25 0.48
45 25 0.48
46 2 0.04
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.26
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCC
Found at i:4302766 original size:132 final size:132
Alignment explanation
Indices: 4302524--4302913 Score: 584
Period size: 132 Copynumber: 3.0 Consensus size: 132
4302514 ATCTACTTCG
* *
4302524 CTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAAGGAGATAGAATTA
1 CTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTA
* * * * *
4302589 TTGGCTTCAATGTACTCGATTGCAACCTCAGGGAGGTAAAATCCACCATCTTCGATCTAG-TCTA
66 CTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCT-GCTCCA
4302653 CTA
130 CTA
* * * * *
4302656 CTGCTTAGGGAGACAAGGTCTGAAATCTTCAATCTATTCCACTGCTGCCGAGGGAGATAGAATTA
1 CTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTA
*** *
4302721 CTGGCTTCAATGTACTCCACCATAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCAC
66 CTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCAC
4302786 TA
131 TA
* * *
4302788 CTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTATTGCCTAGGGCGATAGAATTA
1 CTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTA
*
4302853 CTGGCTTTAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCT
66 CTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCT
4302914 TTCTTCGATC
Statistics
Matches: 229, Mismatches: 28, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
131 1 0.00
132 228 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
CTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTA
CTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCAC
TA
Found at i:4303057 original size:89 final size:89
Alignment explanation
Indices: 4302906--4303417 Score: 997
Period size: 89 Copynumber: 5.8 Consensus size: 89
4302896 CACCATCTTT
4302906 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
4302971 CTTCACGCCAATACATGAAGACAA
66 CTTCACGCCAATACATGAAGACAA
4302995 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
4303060 CTTCACGCCAATACATGAAGACAA
66 CTTCACGCCAATACATGAAGACAA
4303084 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
4303149 CTTCACGCCAATACATGAAGACAA
66 CTTCACGCCAATACATGAAGACAA
4303173 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
4303238 CTTCACGCCAATACATGAAGACAA
66 CTTCACGCCAATACATGAAGACAA
4303262 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
4303327 CTTCACGCCAATACATGAAGACAA
66 CTTCACGCCAATACATGAAGACAA
* **
4303351 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTCAATCTA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
4303416 CT
66 CT
4303418 CCACCACCAG
Statistics
Matches: 420, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 420 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (89 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
CTTCACGCCAATACATGAAGACAA
Found at i:4303481 original size:89 final size:88
Alignment explanation
Indices: 4302943--4303674 Score: 423
Period size: 89 Copynumber: 8.2 Consensus size: 88
4302933 ACCAGTATGG
* ** * * * *** *
4302943 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGCTTTCTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCT
* * * ***
4303007 TCGATCTACTTCGCCACCAGTATGG
66 TTGATCTACTTC-ACGCCA-TACAT
* ** * * * *** *
4303032 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGCTTTCTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCT
* * * ***
4303096 TCGATCTACTTCGCCACCAGTATGG
66 TTGATCTACTTC-ACGCCA-TACAT
* ** * * * *** *
4303121 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGCTTTCTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCT
* * * ***
4303185 TCGATCTACTTCGCCACCAGTATGG
66 TTGATCTACTTC-ACGCCA-TACAT
* ** * * * *** *
4303210 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGCTTTCTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCT
* * * ***
4303274 TCGATCTACTTCGCCACCAGTATGG
66 TTGATCTACTTC-ACGCCA-TACAT
* ** * * * *** *
4303299 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGCTTTCTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCT
* * * ***
4303363 TCGATCTACTTCGCCACCAGTATGG
66 TTGATCTACTTC-ACGCCA-TACAT
* * * * ** * *
4303388 GAAGACAAGATCTGCTTTCTTCAATCTACTCCACCACCAGTATGGGGAGACAATATCTATTGTAT
1 GAAGACAAGATCTGCTTTCTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCT
4303453 TTGATCTACTTCACGCCGATACAT
66 TTGATCTACTTCACGCC-ATACAT
* ** ** * *
4303477 GAAGACAAGATCTG-TTTTTTTTATCGGCTTCGCCACCAGTATGGGAAGATAAGATCTGGTATCT
1 GAAGACAAGATCTGCTTTCTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCT
* *
4303541 TTGGTCTACTTCACACCAGTACAT
66 TTGATCTACTTCACGCCA-TACAT
*
4303565 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTTTCTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCT
4303630 TTGATCTACTTCACGCCAATACAT
66 TTGATCTACTTCACGCC-ATACAT
4303654 GAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTTTCTT
4303675 GGATCNNNNN
Statistics
Matches: 591, Mismatches: 47, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
87 1 0.00
88 70 0.12
89 487 0.82
90 33 0.06
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (88 bp):
GAAGACAAGATCTGCTTTCTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCT
TTGATCTACTTCACGCCATACAT
Found at i:4303483 original size:178 final size:178
Alignment explanation
Indices: 4302906--4303679 Score: 921
Period size: 178 Copynumber: 4.4 Consensus size: 178
4302896 CACCATCTTT
* **
4302906 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
1 GATCTGCTTTCTTCGATCTACTTCACCACCAGTACAGGAAGACAAGATCTGCTATCTTTGATCTA
4302971 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
66 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
* * *
4303036 ACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAA
131 ACAAGATCTGCTATCTTCGATCTACTTCACACCAATACAGGAAGACAA
* **
4303084 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
1 GATCTGCTTTCTTCGATCTACTTCACCACCAGTACAGGAAGACAAGATCTGCTATCTTTGATCTA
4303149 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
66 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
* * *
4303214 ACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAA
131 ACAAGATCTGCTATCTTCGATCTACTTCACACCAATACAGGAAGACAA
* **
4303262 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
1 GATCTGCTTTCTTCGATCTACTTCACCACCAGTACAGGAAGACAAGATCTGCTATCTTTGATCTA
4303327 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
66 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
* * * * ** *
4303392 ACAAGATCTGCTTTCTTCAATCTACTCCACCACCAGTATGGGGAGACAA
131 ACAAGATCTGCTATCTTCGATCTACTTCA-CACCAATACAGGAAGACAA
* * * * * * * * *
4303441 TATCT-ATTGTATTTGATCTACTTCA-CGCC-GATACATGAAGACAAGATCTG-TTTTTTTTATC
1 GATCTGCTT-TCTTCGATCTACTTCACCACCAG-TACAGGAAGACAAGATCTGCTATCTTTGATC
** * * * *** * * * * * * ***
4303502 GGCTTCGCCACCAGTATGGGAAGATAAGATCTGGTATCTTTGGTCTACTTC-ACACCAGTACATG
64 TACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGG
* * * **
4303566 AAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAA
128 AAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATACAGGAAGACAA
* * * * * * *
4303618 GATCTGCTATCTTTGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTTGGATC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAGTACAGGAAGACAAGATCTGCTATCTTTGATC
4303680 NNNNNNNNNN
Statistics
Matches: 537, Mismatches: 51, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
177 111 0.21
178 396 0.74
179 30 0.06
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (178 bp):
GATCTGCTTTCTTCGATCTACTTCACCACCAGTACAGGAAGACAAGATCTGCTATCTTTGATCTA
CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
ACAAGATCTGCTATCTTCGATCTACTTCACACCAATACAGGAAGACAA
Found at i:4303483 original size:267 final size:267
Alignment explanation
Indices: 4302906--4303674 Score: 911
Period size: 267 Copynumber: 2.9 Consensus size: 267
4302896 CACCATCTTT
* * * **
4302906 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
1 GATCTGATTTATTCGATCTACTTCACCACCAGTACAGGAAGACAAGATCTGCTATCTTTGATCTA
4302971 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
66 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
4303036 ACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGAT
131 ACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGAT
* ** * * *
4303101 CTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATG
196 CTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTCAATCTACTCCACACCAATACAGG
4303166 AAGACAA
261 AAGACAA
* * * **
4303173 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
1 GATCTGATTTATTCGATCTACTTCACCACCAGTACAGGAAGACAAGATCTGCTATCTTTGATCTA
4303238 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
66 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
4303303 ACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGAT
131 ACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGAT
* **
4303368 CTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTCAATCTACTCCACCACCAGTATGG
196 CTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTCAATCTACTCCA-CACCAATACAG
*
4303433 GGAGACAA
260 GAAGACAA
* * * * * * *
4303441 TATCT-ATTGTATTTGATCTACTTCA-CGCC-GATACATGAAGACAAGATCTG-TTTTTTTTATC
1 GATCTGATT-TATTCGATCTACTTCACCACCAG-TACAGGAAGACAAGATCTGCTATCTTTGATC
** * * * *** * * * * * * ***
4303502 GGCTTCGCCACCAGTATGGGAAGATAAGATCTGGTATCTTTGGTCTACTTC-ACACCAGTACATG
64 TACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGG
* * * * * *** *
4303566 AAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTT
128 AAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTT
* * * * ***
4303631 TGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTT
192 CGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTT
4303675 GGATCNNNNN
Statistics
Matches: 442, Mismatches: 55, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
266 78 0.18
267 334 0.76
268 30 0.07
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (267 bp):
GATCTGATTTATTCGATCTACTTCACCACCAGTACAGGAAGACAAGATCTGCTATCTTTGATCTA
CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
ACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGAT
CTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTCAATCTACTCCACACCAATACAGG
AAGACAA
Found at i:4316516 original size:16 final size:17
Alignment explanation
Indices: 4316495--4316526 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4316485 ATTGGGTTGA
4316495 GAAAATT-ATTTAATAG
1 GAAAATTAATTTAATAG
4316511 GAAAATTAATTTAATA
1 GAAAATTAATTTAATA
4316527 AATACAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (17 bp):
GAAAATTAATTTAATAG
Found at i:4321797 original size:16 final size:17
Alignment explanation
Indices: 4321771--4321805 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
4321761 AATTTTTTTT
4321771 ATCACCAATACAATGTG
1 ATCACCAATACAATGTG
4321788 ATCA-CAATACAATGTG
1 ATCACCAATACAATGTG
4321804 AT
1 AT
4321806 AGCTTTCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (17 bp):
ATCACCAATACAATGTG
Found at i:4322695 original size:10 final size:10
Alignment explanation
Indices: 4322680--4322722 Score: 59
Period size: 11 Copynumber: 4.0 Consensus size: 10
4322670 CCTAAATCCT
4322680 TTCTCTCAAA
1 TTCTCTCAAA
4322690 TTCTCTCCAATA
1 TTCTCT-CAA-A
4322702 TTCTCTCAAA
1 TTCTCTCAAA
4322712 TTCCTCTCAAA
1 TT-CTCTCAAA
4322723 AAAAGCTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.30
11 14 0.47
12 7 0.23
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.40
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:4324858 original size:21 final size:21
Alignment explanation
Indices: 4324834--4324873 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4324824 TTACCGGTGG
* * *
4324834 AACCAGAATCCCCGTCGGAGC
1 AACCACAACCCCCGCCGGAGC
4324855 AACCACAACCCCCGCCGGA
1 AACCACAACCCCCGCCGGA
4324874 AGCTGGACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.45, G:0.20, T:0.05
Consensus pattern (21 bp):
AACCACAACCCCCGCCGGAGC
Found at i:4328465 original size:126 final size:125
Alignment explanation
Indices: 4328231--4328645 Score: 573
Period size: 126 Copynumber: 3.3 Consensus size: 125
4328221 GGCCAAACAG
* * * *
4328231 GAGCTATTGTAGCAAAAGTGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTACTGACAAAGCATC
1 GAGCTACTATAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * * *
4328296 CTGCTTAAAGCATTTTTGACACTATTTGCTCAGAAATGTCTACTCAGAATTATTTTTT-TA
66 CTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTC-GAATTATTTTTTCAA
* * *
4328356 GAAGTTACTATAGCAAAACCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCGT
1 G-AGCTACTATAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCAT
* *
4328421 CCCGTTTAAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCGAAATTATTTTTTCAA
65 CCTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCG-AATTATTTTTTCAA
* *
4328483 GAGCTACTATAGCAAAAGCGGGTCCACATGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTATAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* *
4328548 CTGCTTAAAGCGTTTTTGACACTATTTGCTT-AGAAACGTCTTCTCGAAGTTATTTTTTCAG
66 CTGCTTAAAGCGTTTTTGACACTATTTG-TTCAGAAACGTCTACTCGAA-TTATTTTTTCAA
* * * * *
4328609 GAGCTATTGTAGCAAAAGAGTGTTCACGTGGGAGCTT
1 GAGCTACTATAGCAAAAGCGCGTCCACGTGGGAGCTT
4328646 TTTTAAATTA
Statistics
Matches: 257, Mismatches: 28, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
125 4 0.02
126 249 0.97
127 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (125 bp):
GAGCTACTATAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
CTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCGAATTATTTTTTCAA
Found at i:4330159 original size:31 final size:29
Alignment explanation
Indices: 4330092--4330160 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
4330082 TTTTAAAAAA
*
4330092 TTTAGTGACTAAATCAGAAAAATTAATAG
1 TTTAGTGACTAAATCAGAAAAATCAATAG
* *
4330121 TTGAGTGATTGAAAT-AGAACAAAGTCAATAG
1 TTTAGTGACT-AAATCAGAA-AAA-TCAATAG
4330152 TTTAGTGAC
1 TTTAGTGAC
4330161 CATTTTTGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
29 12 0.38
30 7 0.22
31 13 0.41
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.30
Consensus pattern (29 bp):
TTTAGTGACTAAATCAGAAAAATCAATAG
Found at i:4335345 original size:14 final size:15
Alignment explanation
Indices: 4335302--4335345 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
4335292 AAATTAATAT
*
4335302 TTTTAATTTTTCAATA
1 TTTTAATTTTT-ACTA
*
4335318 TTTTAATTTCTACTA
1 TTTTAATTTTTACTA
4335333 TTTT-ATTTTTACT
1 TTTTAATTTTTACT
4335346 TTATTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 8 0.32
15 7 0.28
16 10 0.40
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTAATTTTTACTA
Found at i:4336801 original size:9 final size:9
Alignment explanation
Indices: 4336784--4336820 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
4336774 TGAGTTTTCG
4336784 AATTCGAAT
1 AATTCGAAT
*
4336793 AACTCGAAT
1 AATTCGAAT
4336802 AATTCGAAT
1 AATTCGAAT
4336811 AATTCGAAT
1 AATTCGAAT
4336820 A
1 A
4336821 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:4345349 original size:24 final size:24
Alignment explanation
Indices: 4345317--4345369 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
4345307 ATTAAAAGAC
4345317 CTCTTAGTCATTTTAGACTAACTT
1 CTCTTAGTCATTTTAGACTAACTT
4345341 CTCTTAGTCATTTTAGACTAACTT
1 CTCTTAGTCATTTTAGACTAACTT
4345365 C-CTTA
1 CTCTTA
4345370 AGCATACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 4 0.14
24 25 0.86
ACGTcount: A:0.25, C:0.23, G:0.08, T:0.45
Consensus pattern (24 bp):
CTCTTAGTCATTTTAGACTAACTT
Found at i:4349770 original size:22 final size:22
Alignment explanation
Indices: 4349742--4349787 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
4349732 AAATTTCCCT
4349742 TAGGCTAGCTAGATTAAGCTAA
1 TAGGCTAGCTAGATTAAGCTAA
4349764 TAGGCTAGCTAGATTAAGCTAA
1 TAGGCTAGCTAGATTAAGCTAA
4349786 TA
1 TA
4349788 CGAGCTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (22 bp):
TAGGCTAGCTAGATTAAGCTAA
Found at i:4352348 original size:18 final size:18
Alignment explanation
Indices: 4352325--4352359 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4352315 NNNNNNNNTA
4352325 AATAATTTAAA-ATTTTAT
1 AATAA-TTAAATATTTTAT
4352343 AATAATTAAATATTTTA
1 AATAATTAAATATTTTA
4352360 CAAATAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATAATTAAATATTTTAT
Found at i:4352661 original size:32 final size:32
Alignment explanation
Indices: 4352593--4352659 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 32
4352583 TTAAATTTGT
* *
4352593 AAAAATTTTAATTAGACCTTTCAAAATCTTTA
1 AAAAATTTTAATTAAACCTTTCAAAATCTTAA
4352625 AAAAATTTTAA-TAAACCTTTCAAAAT-TTAA
1 AAAAATTTTAATTAAACCTTTCAAAATCTTAA
4352655 AAAAA
1 AAAAA
4352660 AAAAAATAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 8 0.24
31 14 0.42
32 11 0.33
ACGTcount: A:0.52, C:0.10, G:0.01, T:0.36
Consensus pattern (32 bp):
AAAAATTTTAATTAAACCTTTCAAAATCTTAA
Found at i:4356684 original size:79 final size:79
Alignment explanation
Indices: 4356553--4356706 Score: 281
Period size: 79 Copynumber: 1.9 Consensus size: 79
4356543 ACAAGCCACA
*
4356553 GAAAATAAGAATGCAAGAGAGGGAGAAATTTGAGGGAATGCTCTTAAGAATTATTATTGCTCCAA
1 GAAAATAAGAACGCAAGAGAGGGAGAAATTTGAGGGAATGCTCTTAAGAATTATTATTGCTCCAA
*
4356618 ACTCAAGTGTCACG
66 ACGCAAGTGTCACG
*
4356632 GAAAATAAGAACGCAAGAGAGGGAGAAATTTGAGTGAATGCTCTTAAGAATTATTATTGCTCCAA
1 GAAAATAAGAACGCAAGAGAGGGAGAAATTTGAGGGAATGCTCTTAAGAATTATTATTGCTCCAA
4356697 ACGCAAGTGT
66 ACGCAAGTGT
4356707 TTTACAATGA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (79 bp):
GAAAATAAGAACGCAAGAGAGGGAGAAATTTGAGGGAATGCTCTTAAGAATTATTATTGCTCCAA
ACGCAAGTGTCACG
Found at i:4356845 original size:23 final size:22
Alignment explanation
Indices: 4356802--4356859 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
4356792 AAAGGGTATC
* *
4356802 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
4356823 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
4356846 TGCATATCATATCT
1 TACAAATCATATCT
4356860 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:4357564 original size:89 final size:89
Alignment explanation
Indices: 4357410--4357685 Score: 372
Period size: 89 Copynumber: 3.1 Consensus size: 89
4357400 CTACTTAGGG
* * * * * * * *
4357410 AGACAGGATCTACAATTTTCAACCTACTCCACTGCAAACTCAGAGAGGCAAGGCTGGTGTTTTCG
1 AGACAAGATCTACTATCTTCAATCTGCTCCGCTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCG
** *
4357475 ATCTGCTTCATTGCCAGTACAGGA
66 ATCTGCTTCGCTGCCAATACAGGA
* * * *
4357499 AGACAAGATCTGCTATTTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGTAAGGCTGGTGTCTTCG
1 AGACAAGATCTACTATCTTCAATCTGCTCCGCTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCG
* * *
4357564 ATCTGCTTCGCTACCAATATAAGA
66 ATCTGCTTCGCTGCCAATACAGGA
*
4357588 AGACAAGATCTACTATCTTCAATCTGCTCCGCTGTAAACTCAGGGAGGCAAGGCTGGTGTCTTCG
1 AGACAAGATCTACTATCTTCAATCTGCTCCGCTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCG
*
4357653 ATCTACTTCGCTGCCAATACAGGA
66 ATCTGCTTCGCTGCCAATACAGGA
4357677 AGACAAGAT
1 AGACAAGAT
4357686 TTGCAACTTT
Statistics
Matches: 162, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
89 162 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.26
Consensus pattern (89 bp):
AGACAAGATCTACTATCTTCAATCTGCTCCGCTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCG
ATCTGCTTCGCTGCCAATACAGGA
Found at i:4357570 original size:44 final size:44
Alignment explanation
Indices: 4357436--4357666 Score: 128
Period size: 44 Copynumber: 5.2 Consensus size: 44
4357426 TTTCAACCTA
* * *
4357436 CTCCACTGCAAACTCAGAGAGGCAAGGCTGGTGTTTTCGATCTG
1 CTCCGCTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* ** * * * * * * * *
4357480 CTTCATTGC-CAGTACAGGAAGACAAGATCTGCTATTTTC-AGTCTG
1 CTCCGCTGCAAACT-CAGGGAGGCAAG-GCTGGTGTCTTCGA-TCTG
*
4357525 CTCCGCTGCAAACTCAGGGAGGTAAGGCTGGTGTCTTCGATCTG
1 CTCCGCTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* * * * * * ** * *
4357569 CTTCGCTACCAATA-T-AAGAAGACAAGATCTACTATCTTCAATCTG
1 CTCCGCT-GCAA-ACTCAGGGAGGCAAG-GCTGGTGTCTTCGATCTG
* *
4357614 CTCCGCTGTAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTA
1 CTCCGCTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
*
4357658 CTTCGCTGC
1 CTCCGCTGC
4357667 CAATACAGGA
Statistics
Matches: 130, Mismatches: 47, Indels: 20
0.66 0.24 0.10
Matches are distributed among these distances:
43 3 0.02
44 64 0.49
45 60 0.46
46 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (44 bp):
CTCCGCTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
Found at i:4357752 original size:44 final size:42
Alignment explanation
Indices: 4357702--4357836 Score: 119
Period size: 44 Copynumber: 3.1 Consensus size: 42
4357692 CTTTAGAGGT
*
4357702 ATAGGATTCGTCATTTTAATCTGCTCCACTGCAATTTCAAGGAG
1 ATAGGATTAGT-ATTTTAATCTGCTCCACTGCAATTT-AAGGAG
* * * * *
4357746 ATAGGATTAATAGCTTCAATCTACTCCACTGCAAATTTAGGGAG
1 ATAGGATTAGTA-TTTTAATCTGCTCCACTGC-AATTTAAGGAG
* * *
4357790 ATAAGATTGGTATTTTCAA-CTTGCTCCAATGCAACTTTAAGGAG
1 ATAGGATTAGTATTTT-AATC-TGCTCCACTGCAA-TTTAAGGAG
4357834 ATA
1 ATA
4357837 AGGTTTGATG
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
43 6 0.08
44 61 0.85
45 5 0.07
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (42 bp):
ATAGGATTAGTATTTTAATCTGCTCCACTGCAATTTAAGGAG
Found at i:4358286 original size:44 final size:44
Alignment explanation
Indices: 4358214--4358668 Score: 394
Period size: 44 Copynumber: 10.2 Consensus size: 44
4358204 GCTTTCTTCA
* *
4358214 ATAAGACTTGTAACTTTAATCTGGTCCACTGCAACTTCAGGGAG
1 ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
*
4358258 ATAGGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
1 ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * *
4358302 ATAGGATTAT-TGACTTTAATCTGCTCCACTGCAACTTCAGAGAG
1 ATAAGATT-TGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * ** * * *
4358346 ATAAGATTTGCCATCTGCAGTCTGCCCCACTGCAACTTCAGGGGG
1 ATAAGATTTG-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * ** * * *
4358391 ATAAAACTTGCTTTCTTCAATCTGCTCCACTGCAACTTCAAGAAG
1 ATAAGATTTG-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * *
4358436 ATAAGACTTGTAACTTTAATCCGCTCCATTGCAACTTTAGGGAG
1 ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* ** * *
4358480 ATAGGATTAT-TGGCTTTAATCTGCTCCACTGCAACTTTAGGAAG
1 ATAAGATT-TGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * * * *
4358524 ATAAGATTTGCCATCTTTAGTCTACCCCACTACAACTTCAGGG-G
1 ATAAGATTTG-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* ** * * * * *
4358568 AATAAGACTTGCTTTCTTCAGTCTACTCCACTGTAACTTCAGAGAG
1 -ATAAGATTTG-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * * *
4358614 ATAAGACTTGTAACTTTAATCCGCTCCATTGCAACCTCAGAGAG
1 ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
4358658 ATAAGATTTGT
1 ATAAGATTTGT
4358669 GGTTTCACTA
Statistics
Matches: 334, Mismatches: 69, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
43 2 0.01
44 192 0.57
45 139 0.42
46 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
Found at i:4358537 original size:178 final size:178
Alignment explanation
Indices: 4358231--4358665 Score: 640
Period size: 178 Copynumber: 2.4 Consensus size: 178
4358221 TTGTAACTTT
* * * * * * *
4358231 AATCTGGTCCACTGCAACTTCAGGGAGATAGGATTTGTAACTTTAATCTGCTCCACTGCAACTTC
1 AATCTGCTCCACTGCAACTTCAAGAAGATAAGACTTGTAACTTTAATCCGCTCCATTGCAACTTC
4358296 AGGGAGATAGGATTATTGACTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCCATC
66 AGGGAGATAGGATTATTGACTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCCATC
* * *
4358361 TGCAGTCTGCCCCACTGCAACTTCAGGGGGATAAAACTTGCTTTCTTC
131 TGCAGTCTACCCCACTACAACTTCAGGGGAATAAAACTTGCTTTCTTC
*
4358409 AATCTGCTCCACTGCAACTTCAAGAAGATAAGACTTGTAACTTTAATCCGCTCCATTGCAACTTT
1 AATCTGCTCCACTGCAACTTCAAGAAGATAAGACTTGTAACTTTAATCCGCTCCATTGCAACTTC
* *
4358474 AGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTTAG-GAAGATAAGATTTGCCAT
66 AGGGAGATAGGATTATTGACTTTAATCTGCTCCACTGCAACTTCAGAG-AGATAAGATTTGCCAT
** *
4358538 CTTTAGTCTACCCCACTACAACTTCAGGGGAATAAGACTTGCTTTCTTC
130 CTGCAGTCTACCCCACTACAACTTCAGGGGAATAAAACTTGCTTTCTTC
* * * *
4358587 AGTCTACTCCACTGTAACTTC-AGAGAGATAAGACTTGTAACTTTAATCCGCTCCATTGCAACCT
1 AATCTGCTCCACTGCAACTTCAAGA-AGATAAGACTTGTAACTTTAATCCGCTCCATTGCAACTT
* *
4358651 CAGAGAGATAAGATT
65 CAGGGAGATAGGATT
4358666 TGTGGTTTCA
Statistics
Matches: 232, Mismatches: 23, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
177 4 0.02
178 228 0.98
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (178 bp):
AATCTGCTCCACTGCAACTTCAAGAAGATAAGACTTGTAACTTTAATCCGCTCCATTGCAACTTC
AGGGAGATAGGATTATTGACTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCCATC
TGCAGTCTACCCCACTACAACTTCAGGGGAATAAAACTTGCTTTCTTC
Found at i:4358981 original size:24 final size:24
Alignment explanation
Indices: 4358945--4359000 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
4358935 CAAATTTCCC
* *
4358945 CCACTGTAGTCTTCATGGTTCAAA
1 CCACTGTAATCTTCAAGGTTCAAA
*
4358969 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAA
4358993 CCACTGTA
1 CCACTGTA
4359001 CTTTTGGGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAA
Found at i:4363198 original size:19 final size:19
Alignment explanation
Indices: 4363174--4363217 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
4363164 GTGAAAATCA
*
4363174 AATGCATATG-ATGCAATG
1 AATGCAGATGCATGCAATG
*
4363192 TAATGCAGATGCATGGAATG
1 -AATGCAGATGCATGCAATG
4363212 AATGCA
1 AATGCA
4363218 AAAAGAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (19 bp):
AATGCAGATGCATGCAATG
Found at i:4365748 original size:79 final size:79
Alignment explanation
Indices: 4365617--4365767 Score: 275
Period size: 79 Copynumber: 1.9 Consensus size: 79
4365607 CAAGCCACAG
**
4365617 AAAATAAGAATGCAAGAGAGGGAGAAATTTGAGTGAATGCTCTTAAGAATTATTATTGCTCCAAA
1 AAAATAAGAACACAAGAGAGGGAGAAATTTGAGTGAATGCTCTTAAGAATTATTATTGCTCCAAA
4365682 CTCAAGTGTCACGA
66 CTCAAGTGTCACGA
*
4365696 AAAATAAGAACACAAGAGAGGGAGAAATTTGAGTGAATGCTCTTAAGAATTATTGTTGCTCCAAA
1 AAAATAAGAACACAAGAGAGGGAGAAATTTGAGTGAATGCTCTTAAGAATTATTATTGCTCCAAA
4365761 CTCAAGT
66 CTCAAGT
4365768 ATTTTACAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (79 bp):
AAAATAAGAACACAAGAGAGGGAGAAATTTGAGTGAATGCTCTTAAGAATTATTATTGCTCCAAA
CTCAAGTGTCACGA
Found at i:4365908 original size:23 final size:22
Alignment explanation
Indices: 4365878--4365922 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4365868 AAATTAAATC
4365878 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
4365901 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
4365923 AAAATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:4369917 original size:2 final size:2
Alignment explanation
Indices: 4369910--4369939 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4369900 GTATAAAGGT
4369910 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
4369940 CAAGGTTCGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4370191 original size:2 final size:2
Alignment explanation
Indices: 4370179--4370211 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
4370169 TTAGTTGAAG
*
4370179 TA TA AA TA TA TA TA TA -A 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
4370212 CAAGGTTCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:4370204 original size:17 final size:17
Alignment explanation
Indices: 4370179--4370211 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4370169 TTAGTTGAAG
4370179 TATAAATATATATATAA
1 TATAAATATATATATAA
*
4370196 TATATATATATATATA
1 TATAAATATATATATA
4370212 CAAGGTTCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATAAATATATATATAA
Found at i:4370369 original size:272 final size:275
Alignment explanation
Indices: 4369877--4370395 Score: 981
Period size: 272 Copynumber: 1.9 Consensus size: 275
4369867 AAAATGCTTA
4369877 AAATGTTATTGAATTTAGTTGAAGTATAAAGGTTATATATATATATATATATATATATATATACA
1 AAATGTTATTGAATTTAGTTGAAGTATAAA-G--ATATATATATATATATATATATATATATACA
4369942 AGGTTCGAATTCACACATGTATATACATGTATAAATTATTGGTTTAATCAAAGGTATGTATATAT
63 AGGTTCGAATTCACACATGTATATACATGTATAAATTATTGGTTTAATCAAAGGTATGTATATAT
4370007 ATGTGTACATAAGGTTCGAATAAATGCATAGGTATATACATGTATAAACCTTTGGATTGGATTTA
128 ATGTGTACATAAGGTTCGAATAAATGCATAGGTATATACATGTATAAACCTTTGGATTGGATTTA
*
4370072 TAATATGTATATTATACTTGTTTAAGTAGTTTCGAATAAGCATGCAAATATATATATTATGAATG
193 TAATATGTATATTATACTTGTTTAAGTAATTTCGAATAAGCATGCAAATATATATATTATGAATG
4370137 GTATATAAGTATATACAT
258 GTATATAAGTATATACAT
4370155 AAATGTTATTGAATTTAGTTGAAGTAT-AA-ATATATATATA-ATATATATATATATATACAAGG
1 AAATGTTATTGAATTTAGTTGAAGTATAAAGATATATATATATATATATATATATATATACAAGG
4370217 TTCGAATTCACACATGTATATACATGTATAAATTATTGGTTTAATCAAAGGTATGTATATATATG
66 TTCGAATTCACACATGTATATACATGTATAAATTATTGGTTTAATCAAAGGTATGTATATATATG
4370282 TGTACATAAGGTTCGAATAAATGCATAGGTATATACATGTATAAACCTTTGGATTGGATTTATAA
131 TGTACATAAGGTTCGAATAAATGCATAGGTATATACATGTATAAACCTTTGGATTGGATTTATAA
4370347 TATGTATATTATACTTGTTTAAGTAATTTCGAATAAGCATGCAAATATA
196 TATGTATATTATACTTGTTTAAGTAATTTCGAATAAGCATGCAAATATA
4370396 CTTGTTTACA
Statistics
Matches: 240, Mismatches: 1, Indels: 6
0.97 0.00 0.02
Matches are distributed among these distances:
272 200 0.83
273 11 0.05
277 2 0.01
278 27 0.11
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (275 bp):
AAATGTTATTGAATTTAGTTGAAGTATAAAGATATATATATATATATATATATATATATACAAGG
TTCGAATTCACACATGTATATACATGTATAAATTATTGGTTTAATCAAAGGTATGTATATATATG
TGTACATAAGGTTCGAATAAATGCATAGGTATATACATGTATAAACCTTTGGATTGGATTTATAA
TATGTATATTATACTTGTTTAAGTAATTTCGAATAAGCATGCAAATATATATATTATGAATGGTA
TATAAGTATATACAT
Found at i:4371090 original size:13 final size:13
Alignment explanation
Indices: 4371072--4371207 Score: 50
Period size: 13 Copynumber: 10.5 Consensus size: 13
4371062 ATTTTTAATG
4371072 TAATATACTATTT
1 TAATATACTATTT
*
4371085 TAATATACTGATTAC
1 TAATATACT-ATT-T
** **
4371100 TGTTATAAAATTT
1 TAATATACTATTT
4371113 GTAATATACTA-TT
1 -TAATATACTATTT
*
4371126 T--TA-AC-AAT-
1 TAATATACTATTT
4371134 TAATATACTATTAT
1 TAATATACTATT-T
* * *
4371148 AAATATATTTTTT
1 TAATATACTATTT
* *
4371161 TAATATATTGTTT
1 TAATATACTATTT
* *
4371174 TAATATATTGTTAT
1 TAATATACTATT-T
* *
4371188 AAATATACTGTTT
1 TAATATACTATTT
4371201 TAATATA
1 TAATATA
4371208 ATGTTTTAAC
Statistics
Matches: 93, Mismatches: 19, Indels: 22
0.69 0.14 0.16
Matches are distributed among these distances:
8 2 0.02
9 3 0.03
10 4 0.04
11 2 0.02
12 3 0.03
13 42 0.45
14 32 0.34
15 5 0.05
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (13 bp):
TAATATACTATTT
Found at i:4371148 original size:42 final size:42
Alignment explanation
Indices: 4371070--4371150 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
4371060 TAATTTTTAA
* * *
4371070 TGTAATATACTATTTTAATATACTGATTACTGTTATAAAATT
1 TGTAATATACTATTTTAACATACTAATTACTATTATAAAATT
*
4371112 TGTAATATACTATTTTAACA-ATTAATATACTATTATAAA
1 TGTAATATACTATTTTAACATACTAAT-TACTATTATAAA
4371151 TATATTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 4 0.12
42 30 0.88
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (42 bp):
TGTAATATACTATTTTAACATACTAATTACTATTATAAAATT
Found at i:4371175 original size:47 final size:47
Alignment explanation
Indices: 4371114--4371242 Score: 137
Period size: 40 Copynumber: 2.9 Consensus size: 47
4371104 ATAAAATTTG
* * * * *
4371114 TAATATACTATTTTAACAATTAATATACTATTATAAATATATTTTTT
1 TAATATAATGTTTTAACAATTAATATACTGTTATAAATATACTGTTT
*
4371161 TAATATATTGTTTT---AA-T-ATAT--TGTTATAAATATACTGTTT
1 TAATATAATGTTTTAACAATTAATATACTGTTATAAATATACTGTTT
**
4371201 TAATATAATGTTTTAACTTTTAATATACTGTTATAAATATAC
1 TAATATAATGTTTTAACAATTAATATACTGTTATAAATATAC
4371243 ATTTAATTTG
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
40 29 0.43
42 4 0.06
43 1 0.01
44 3 0.04
45 4 0.06
47 26 0.39
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (47 bp):
TAATATAATGTTTTAACAATTAATATACTGTTATAAATATACTGTTT
Done.