Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1353
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: 108410
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:2729 original size:52 final size:53
Alignment explanation
Indices: 2606--2731 Score: 218
Period size: 53 Copynumber: 2.4 Consensus size: 53
2596 ATATGAAAAG
* *
2606 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGGCAAAT
*
2659 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCT-GGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGGCAAAT
2711 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
2732 AAGATTAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
52 29 0.41
53 41 0.59
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (53 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGGCAAAT
Found at i:2744 original size:52 final size:53
Alignment explanation
Indices: 2606--2751 Score: 206
Period size: 52 Copynumber: 2.8 Consensus size: 53
2596 ATATGAAAAG
* * *
2606 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGGCAAAT
1 TTGCCTGCATGTATCGATACAATTATTAGTGTATCGATACATCTGGGGCAAAT
* *
2659 TTGCCTGCATGTATCGATAC-ATTTTATAATGTATCGATACATCT-GGGCAAAT
1 TTGCCTGCATGTATCGATACAATTAT-TAGTGTATCGATACATCTGGGGCAAAT
**
2711 TTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAATTATTAGTGTATCGATACA
2752 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
52 44 0.54
53 38 0.46
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (53 bp):
TTGCCTGCATGTATCGATACAATTATTAGTGTATCGATACATCTGGGGCAAAT
Found at i:2758 original size:13 final size:13
Alignment explanation
Indices: 2740--2764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2730 CAAAGATTAG
2740 TGTATCGATACAA
1 TGTATCGATACAA
2753 TGTATCGATACA
1 TGTATCGATACA
2765 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2842 original size:33 final size:33
Alignment explanation
Indices: 2805--2871 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2795 AGTAGCTTAA
2805 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2838 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2871 A
1 A
2872 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2845 original size:13 final size:13
Alignment explanation
Indices: 2827--2851 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2817 CAAAAAAATA
2827 TGTATCGATACAT
1 TGTATCGATACAT
2840 TGTATCGATACA
1 TGTATCGATACA
2852 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2950 original size:21 final size:21
Alignment explanation
Indices: 2909--2950 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2899 GTTGGGACCT
*
2909 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
* *
2930 TGTATCGATGCATTTGGACAA
1 TGTATCGATACATTTGAACAA
2951 ACATGTAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:3778 original size:55 final size:52
Alignment explanation
Indices: 3678--4337 Score: 493
Period size: 43 Copynumber: 13.7 Consensus size: 52
3668 GAAAAGTGAT
* * * * * * **
3678 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
* *
3732 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
3785 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
3828 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
3878 -AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
3920 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
3970 AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T--A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
4014 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
4063 -AAGGTGCCAATATGCTGATTCAAGGCCAAGCGATATTGGAC-T-----T--A
1 AAAGGTGCCAATATGCTGATTCAAGGCC-AGCTACATTGAACTTAAAGATGGA
* *
4107 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
4156 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T--A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
4199 AAA-GTGCCAATGTGCTGATTCAAGGCCCAGCTACATTGGACTTAAAGAT---
1 AAAGGTGCCAATATGCTGATTCAAGG-CCAGCTACATTGAACTTAAAGATGGA
* * *
4248 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
*
4300 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTG
4338 GGCTTAGAAG
Statistics
Matches: 507, Mismatches: 50, Indels: 100
0.77 0.08 0.15
Matches are distributed among these distances:
43 141 0.28
44 47 0.09
45 3 0.01
46 1 0.00
48 6 0.01
49 125 0.25
50 69 0.14
51 1 0.00
52 67 0.13
53 6 0.01
54 5 0.01
55 36 0.07
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:3846 original size:43 final size:43
Alignment explanation
Indices: 3785--4348 Score: 543
Period size: 43 Copynumber: 12.1 Consensus size: 43
3775 TAAAGATGGA
*
3785 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
3828 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
3871 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
3920 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
3963 AAAGATGAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G---G-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
4013 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
4056 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAAGCGATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCC-AGCTACATTGGACTT
* *
4106 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
4149 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
4198 AAAAGTGCCAATGTGCTGATTCAAGGCCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGG-CCAGCTACATTGGAC-T-----T
* *
4248 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC-T-----T
* *
4297 GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 ---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
4343 AGAAGG
1 A-AAGG
4349 GTTGCCACCG
Statistics
Matches: 445, Mismatches: 39, Indels: 73
0.80 0.07 0.13
Matches are distributed among these distances:
43 147 0.33
44 48 0.11
45 4 0.01
46 5 0.01
47 3 0.01
48 4 0.01
49 124 0.28
50 72 0.16
51 1 0.00
52 37 0.08
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:4030 original size:93 final size:92
Alignment explanation
Indices: 3741--4293 Score: 944
Period size: 93 Copynumber: 5.9 Consensus size: 92
3731 AAAAGGATGT
*
3741 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATT
* *
3806 CAAGGCCAGCTATATTGGACTTAAAGGTGC
63 CAAGGCCAGCGATATTGGACTTAAAAGTGC
*
3836 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
*
3901 GGCCAGCGATATTGGACTTAAAGGTGC
66 GGCCAGCGATATTGGACTTAAAAGTGC
* *
3928 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGATGCCAATATGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AAGGTGCCAATATGCTGATTCA
3993 AGGCCAGCGATATTGGACTTAAAAGTGC
65 AGGCCAGCGATATTGGACTTAAAAGTGC
4021 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
4086 GGCCAAGCGATATTGGACTTAAAAGTGC
66 GGCC-AGCGATATTGGACTTAAAAGTGC
4114 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
4179 GGCCAGCGATATTGGACTTAAAAGTGC
66 GGCCAGCGATATTGGACTTAAAAGTGC
* * *
4206 CAATGTGCTGATTCAAGGCCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCA
1 CAATGTGCTGATTCAAGG-CCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
* *
4271 AGGCCAGCTACATTGGACTTAAA
65 AGGCCAGCGATATTGGACTTAAA
4294 GATGGAAAAG
Statistics
Matches: 443, Mismatches: 12, Indels: 8
0.96 0.03 0.02
Matches are distributed among these distances:
92 156 0.35
93 246 0.56
94 1 0.00
95 40 0.09
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTAAAAGTGC
Found at i:4055 original size:185 final size:185
Alignment explanation
Indices: 3732--4294 Score: 957
Period size: 185 Copynumber: 3.0 Consensus size: 185
3722 AAGATGAGAA
* *
3732 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-AAAGGTGCCAAT
* *
3797 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
63 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGCCAGCTAC
*
3862 ATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
128 ATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
3920 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGATGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGGTGCCAATATG
3985 CTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
66 CTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
4050 GGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAAGCGATATTGGACTT
131 GGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC-AGCGATATTGGACTT
*
4106 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AAGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGGTGCCAATATG
4170 CTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGCCCAGCTACAT
66 CTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGG-CCAGCTACAT
* * * * *
4235 TGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
130 TGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
4291 AAAG
1 AAAG
4295 ATGGAAAAGG
Statistics
Matches: 357, Mismatches: 16, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
185 199 0.56
186 112 0.31
187 41 0.11
188 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (185 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGGTGCCAATATG
CTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
GGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:4338 original size:52 final size:50
Alignment explanation
Indices: 3920--4343 Score: 482
Period size: 49 Copynumber: 8.9 Consensus size: 50
3910 TATTGGACTT
* *
3920 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * * *
3970 AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
4014 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * * *
4062 GAAGGTGCCAATATGCTGATTCAAGGCCAAGCGATATTGGAC-T-----TA
1 AAAGGTGCCAATGTGCTGATTCAAGGCC-AGCTACATTGGACTTAAAGATA
4107 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * * *
4155 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
4199 AAA-GTGCCAATGTGCTGATTCAAGGCCCAGCTACATTGGACTTAAAGAT-
1 AAAGGTGCCAATGTGCTGATTCAAGG-CCAGCTACATTGGACTTAAAGATA
*
4248 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--A
* * *
4300 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
4344 GAAGGGTTGC
Statistics
Matches: 315, Mismatches: 31, Indels: 54
0.79 0.08 0.14
Matches are distributed among these distances:
43 66 0.21
44 45 0.14
45 3 0.01
48 5 0.02
49 87 0.28
50 69 0.22
52 40 0.13
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (50 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
Found at i:4387 original size:33 final size:35
Alignment explanation
Indices: 4343--4411 Score: 124
Period size: 33 Copynumber: 2.0 Consensus size: 35
4333 TATTGGGCTT
4343 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
4377 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
4411 A
1 A
4412 TGGAGAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 26 0.76
34 8 0.24
ACGTcount: A:0.20, C:0.17, G:0.36, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:4465 original size:35 final size:36
Alignment explanation
Indices: 4397--4698 Score: 211
Period size: 34 Copynumber: 8.3 Consensus size: 36
4387 CACCGACTTG
* * *
4397 TGTGGGCTTTAGGAATGGAGAAAGA-TGCCACGGAGT
1 TGTGGGCTTTA-AAAGGGAAAAAGAGTGCCACGGAGT
*
4433 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
*
4468 TGTGGGCTTTAAAA--GAAAAA-AGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
4501 TGTGGGCTTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGC-TTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*** ** *
4539 TGTAGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGT
1 TGT-GG-GCTTTA-A---AAGGG------AA-AAAGA-GTGCCACGGAGT
*
4589 TGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*
4623 TGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
4657 TGTGGGCTTT-AAA-GG-AAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
4689 TGTGGGCTTT
1 TGTGGGCTTT
4699 GAAGAAAAAT
Statistics
Matches: 222, Mismatches: 21, Indels: 50
0.76 0.07 0.17
Matches are distributed among these distances:
32 29 0.13
33 20 0.09
34 75 0.34
35 24 0.11
36 14 0.06
37 8 0.04
38 16 0.07
39 3 0.01
40 2 0.01
42 3 0.01
43 1 0.00
48 5 0.02
49 7 0.03
50 15 0.07
ACGTcount: A:0.30, C:0.12, G:0.36, T:0.22
Consensus pattern (36 bp):
TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
Found at i:4501 original size:33 final size:35
Alignment explanation
Indices: 4397--4541 Score: 172
Period size: 35 Copynumber: 4.1 Consensus size: 35
4387 CACCGACTTG
* *
4397 TGTGGGCTTTAGGAATGGAGAAAGA-TGCCACGGAGT
1 TGTGGGCTTTA--AAAGGAAAAAGAGTGCCACGGAGT
*
4433 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAGAGTGCCACGGAGT
*
4468 TGTGGGCTTTAAAA-GAAAAA-AGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
4501 TGTGGGCTTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGC-TTT-AAAA-GGAAAAAGAGTGCCACGGAGT
4539 TGT
1 TGT
4542 AGGTGCCACA
Statistics
Matches: 95, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
33 21 0.22
34 17 0.18
35 24 0.25
36 12 0.13
37 6 0.06
38 15 0.16
ACGTcount: A:0.33, C:0.11, G:0.34, T:0.21
Consensus pattern (35 bp):
TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
Found at i:4612 original size:34 final size:34
Alignment explanation
Indices: 4542--4701 Score: 272
Period size: 34 Copynumber: 4.8 Consensus size: 34
4532 ACGGAGTTGT
* *
4542 AGGTGCCACAGAGTTGTGGGCTTT-AAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
4575 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
4609 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
*
4643 AGGTGCCACGGAGTTGTGGGCTTT-AAAGGAA-A
1 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
4675 AGGTGCCACGGAGTTGTGGGCTTTGAA
1 AGGTGCCACGGAGTTGTGGGCTTTGAA
4702 GAAAAATGCC
Statistics
Matches: 122, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
32 25 0.20
33 31 0.25
34 66 0.54
ACGTcount: A:0.29, C:0.12, G:0.37, T:0.22
Consensus pattern (34 bp):
AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
Found at i:4657 original size:68 final size:66
Alignment explanation
Indices: 4542--4824 Score: 282
Period size: 62 Copynumber: 4.4 Consensus size: 66
4532 ACGGAGTTGT
*
4542 AGGTGCCACAGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGA
4606 AGA
65 A-A
* *
4609 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAA
1 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAA
4674 A
66 A
* * * * * *
4675 AGGTGCCACGGAGTTGTGGGCTTTG--AAGAAAAA--TGCCACTGAGTCGTGGACTTTGAGACAA
1 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAA
4736 A
66 A
** * * * * *
4737 A--TGCCATTGAGTCGTGGACTTT--AAAG-AAAAGGATGCCACTGAGTCGTGGACTTT-AAAGA
1 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGG-TGCCACGGAGTTGTGGGCTTTAAAAGA
4796 AA
65 AA
* * *
4798 AGGATGCCACTGAGTCGTGGACTTTGA
1 AGG-TGCCACGGAGTTGTGGGCTTTGA
4825 GCAGAGATTG
Statistics
Matches: 188, Mismatches: 18, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
59 4 0.02
60 20 0.11
61 6 0.03
62 44 0.23
64 27 0.14
66 26 0.14
67 29 0.15
68 32 0.17
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (66 bp):
AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAA
A
Found at i:4683 original size:32 final size:31
Alignment explanation
Indices: 4542--4822 Score: 271
Period size: 32 Copynumber: 8.8 Consensus size: 31
4532 ACGGAGTTGT
*
4542 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAG-AAA
4575 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTT--AAAGAA-A
4609 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTT--AAAGAA-A
4643 AGGTGCCACGGAGTTGTGGGCTTTAAAGGAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA-GAAA
*
4675 AGGTGCCACGGAGTTGTGGGCTTTGAAGAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAGAAA
* * * * *
4706 A-ATGCCACTGAGTCGTGGACTTT-GAGACAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAGA-AA
* ** * *
4736 A-ATGCCATTGAGTCGTGGACTTTAAAGAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAGAAA
* * *
4766 AGGATGCCACTGAGTCGTGGACTTTAAAGAAA
1 AGG-TGCCACGGAGTTGTGGGCTTTAAAGAAA
* * *
4798 AGGATGCCACTGAGTCGTGGACTTT
1 AGG-TGCCACGGAGTTGTGGGCTTT
4823 GAGCAGAGAT
Statistics
Matches: 230, Mismatches: 11, Indels: 15
0.90 0.04 0.06
Matches are distributed among these distances:
29 3 0.01
30 45 0.20
31 8 0.03
32 82 0.36
33 28 0.12
34 64 0.28
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (31 bp):
AGGTGCCACGGAGTTGTGGGCTTTAAAGAAA
Found at i:4840 original size:31 final size:30
Alignment explanation
Indices: 4671--4884 Score: 243
Period size: 31 Copynumber: 6.9 Consensus size: 30
4661 GGCTTTAAAG
* * * *
4671 GAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
1 GAAAAGATGCCACTGAGTCGTGGACTTTG-A
4702 GAAAA-ATGCCACTGAGTCGTGGACTTTGA
1 GAAAAGATGCCACTGAGTCGTGGACTTTGA
* *
4731 GACAAA-ATGCCATTGAGTCGTGGACTTTAAA
1 GA-AAAGATGCCACTGAGTCGTGGACTTT-GA
*
4762 GAAAAGGATGCCACTGAGTCGTGGACTTTAAA
1 GAAAA-GATGCCACTGAGTCGTGGACTTT-GA
4794 GAAAAGGATGCCACTGAGTCGTGGACTTTGA
1 GAAAA-GATGCCACTGAGTCGTGGACTTTGA
* *
4825 GCAGAGATTGCCACTGAGTCGTGGACTTTGA
1 GAAAAGA-TGCCACTGAGTCGTGGACTTTGA
* *
4856 GAAGAGATTGCCACTTAGTCGTGGACTTT
1 GAAAAGA-TGCCACTGAGTCGTGGACTTT
4885 AAAAAGGTAT
Statistics
Matches: 166, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
29 3 0.02
30 48 0.29
31 62 0.37
32 53 0.32
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (30 bp):
GAAAAGATGCCACTGAGTCGTGGACTTTGA
Found at i:4868 original size:94 final size:92
Alignment explanation
Indices: 4646--4887 Score: 294
Period size: 94 Copynumber: 2.6 Consensus size: 92
4636 AAGAAGAAGG
* * * * * * *
4646 TGCCACGGAGTTGTGGGCTTTAAAGGAAAAGG-TGCCACGGAGTTGTGGGCTTTGAAGAAAAATG
1 TGCCACTGAGTCGTGGACTTTAAA-GAAAAGGATGCCACTGAGTCGTGGACTTTAAAGAAAAATG
4710 CCACTGAGTCGTGGACTTTGAGACAAAA
65 CCACTGAGTCGTGGACTTTGAGACAAAA
*
4738 TGCCATTGAGTCGTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTTAAAGAAAAGGAT
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTTAAAGAAAA--AT
*
4803 GCCACTGAGTCGTGGACTTTGAG-CAGAGAT
64 GCCACTGAGTCGTGGACTTTGAGACA-A-AA
* * *
4833 TGCCACTGAGTCGTGGACTTT-GAGAAGA-GATTGCCACTTAGTCGTGGACTTTAAA
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAGGA-TGCCACTGAGTCGTGGACTTTAAA
4888 AAGGTATTTG
Statistics
Matches: 131, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
91 7 0.05
92 45 0.34
93 4 0.03
94 54 0.41
95 21 0.16
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (92 bp):
TGCCACTGAGTCGTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTTAAAGAAAAATGC
CACTGAGTCGTGGACTTTGAGACAAAA
Found at i:5839 original size:1 final size:1
Alignment explanation
Indices: 5833--5886 Score: 63
Period size: 1 Copynumber: 54.0 Consensus size: 1
5823 GGGGTTGTTC
* * * * *
5833 TTTTTTTTTCTTTTTTTTTGTTTTTTTTTTTCTTTTTTGTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5887 GGAAAAGAAC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.04, G:0.06, T:0.91
Consensus pattern (1 bp):
T
Found at i:5858 original size:19 final size:18
Alignment explanation
Indices: 5834--5886 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 18
5824 GGGTTGTTCT
5834 TTTTTTTTCTTTTTTTTTG
1 TTTTTTTT-TTTTTTTTTG
5853 TTTTTTTTTTTCTTTTTTG
1 TTTTTTTTTTT-TTTTTTG
5872 TTTTGTTTTTTTTTT
1 TTTT-TTTTTTTTTT
5887 GGAAAAGAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.09
19 22 0.69
20 7 0.22
ACGTcount: A:0.00, C:0.04, G:0.06, T:0.91
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTTTG
Found at i:5859 original size:23 final size:25
Alignment explanation
Indices: 5827--5886 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 25
5817 TGAAAAGGGG
*
5827 TTGTTCTTTTTTTTTC-TTTTT-TT
1 TTGTTTTTTTTTTTTCTTTTTTGTT
5850 TTG-TTTTTTTTTTTCTTTTTTGTT
1 TTGTTTTTTTTTTTTCTTTTTTGTT
5874 TTGTTTTTTTTTT
1 TTGTTTTTTTTTT
5887 GGAAAAGAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
22 11 0.33
23 8 0.24
24 5 0.15
25 9 0.27
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (25 bp):
TTGTTTTTTTTTTTTCTTTTTTGTT
Found at i:5870 original size:24 final size:22
Alignment explanation
Indices: 5827--5886 Score: 84
Period size: 24 Copynumber: 2.6 Consensus size: 22
5817 TGAAAAGGGG
*
5827 TTGTTCTTTTTTTTTCTTTTTTT
1 TTGTT-TTTTTTTTTCTTTTGTT
5850 TTGTTTTTTTTTTTCTTTTTTGTT
1 TTGTTTTTTTTTTTC--TTTTGTT
5874 TTGTTTTTTTTTT
1 TTGTTTTTTTTTT
5887 GGAAAAGAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 10 0.29
23 5 0.15
24 19 0.56
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (22 bp):
TTGTTTTTTTTTTTCTTTTGTT
Found at i:6144 original size:17 final size:17
Alignment explanation
Indices: 6124--6179 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 17
6114 GCCTTTGCAT
6124 TTTTTTTTGTTT-TTT-
1 TTTTTTTTGTTTGTTTG
* *
6139 TGTTTTTT-TTTGTGTG
1 TTTTTTTTGTTTGTTTG
6155 TTTTTTTTGTTTGTTTG
1 TTTTTTTTGTTTGTTTG
6172 TTTTTTTT
1 TTTTTTTT
6180 TTCATCACCT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
14 3 0.09
15 9 0.26
16 7 0.21
17 15 0.44
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (17 bp):
TTTTTTTTGTTTGTTTG
Found at i:13174 original size:52 final size:52
Alignment explanation
Indices: 13089--13213 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
13079 ATATGAAAAG
* *
13089 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
13141 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
13193 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
13214 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:18557 original size:168 final size:164
Alignment explanation
Indices: 18313--18618 Score: 379
Period size: 167 Copynumber: 1.8 Consensus size: 164
18303 TTAAATTAGT
* * * *
18313 TTTGAAAAATTTATTTATTTTCTTGAATTTTTCATTTTTCCTTAAAATTTTCCTATTTTCGGAAA
1 TTTGAAAAATTCATTTATTTTCATGAATTTTTCATTTTTCCTTAAAATTTCCCTATTTTCGAAAA
* * *
18378 ACAGAGTTTTCTACTT-CGTAAATGTTTTCTGGAGGAGATTTTTTTCCGTTCAAAA-TTTAATAT
66 ACAGAGTTTTCTA-TTCCATAAATGCTTTC--GAGGAGA-TTTTTTCCGTTCAAAATTTTAAAAT
18441 TCATCAAATATCATCATTTAATTTATTGTCTTTTAATG
127 TCATCAAATATCATCATTTAATTTATTGTCTTTTAATG
*
18479 TTTGAAAAAATTCATTTATTTTCATGAGTTTTTCAATTTTTCCTTAAAA-TTCCCTTATTCTT-G
1 TTTG-AAAAATTCATTTATTTTCATGAATTTTTC-ATTTTTCCTTAAAATTTCCC-TATT-TTCG
* * *
18542 AAAAACTA-AGTTTTCTATTCCATAAATGCTTTCGAGGGGATTTTTTCGGTTTAAAATTTTTAAA
62 AAAAAC-AGAGTTTTCTATTCCATAAATGCTTTCGAGGAGATTTTTTCCGTTCAAAA-TTTTAAA
*
18606 ATTCATCTAATAT
125 ATTCATCAAATAT
18619 TGTCATTAAA
Statistics
Matches: 120, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
165 14 0.12
166 10 0.08
167 49 0.41
168 44 0.37
169 3 0.03
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.49
Consensus pattern (164 bp):
TTTGAAAAATTCATTTATTTTCATGAATTTTTCATTTTTCCTTAAAATTTCCCTATTTTCGAAAA
ACAGAGTTTTCTATTCCATAAATGCTTTCGAGGAGATTTTTTCCGTTCAAAATTTTAAAATTCAT
CAAATATCATCATTTAATTTATTGTCTTTTAATG
Found at i:20636 original size:157 final size:155
Alignment explanation
Indices: 20426--20726 Score: 371
Period size: 157 Copynumber: 1.9 Consensus size: 155
20416 CTGTGTCCAC
*
20426 TTTTATGTCGAAAATGGGTATTTAGGATAGGTTCATCCCATATACAGTCATTTTTAAGTCCTTT-
1 TTTTATGTCGAAAATGGGTATTTAGGATAGGTTCATCCCATATACAATCATTTTTAAGTCCTTTA
* * *
20490 AGGGTTATCA-AAATTCCTTAATGTTGAAGGTA-TACCTATAGGGGCATTTTTGTAA-TTTTTTA
66 AGGG-TATCAGAAATT-C-T-ACGTCGAAAGTACT-CCT-TAGGGGCATTTTTGTAATTTTTTTA
20552 GAATCGAGTCTTAGGTTGTTATTGGGTCTGT
125 GAATCGAGTCTTAGGTTGTTATTGGGTCTGT
* * * *
20583 TTTTATGTC-AAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATGAAT-ATTTTTAAGTCTTT
1 TTTTATGTCGAAA-ATGGGTATTTAGGATAGGTTCATCCCATATA-CAATCATTTTTAAGTCCTT
* * * *
20646 TAAGGGTATCAGGTACTTCTACGTCGAAAGTACTCCTTATGGGTATTTTTGTAATTTTTTTAGAA
64 TAAGGGTATCA-GAAATTCTACGTCGAAAGTACTCCTTAGGGGCATTTTTGTAATTTTTTTAGAA
20711 TCGAGTCTTAGGTTGT
128 TCGAGTCTTAGGTTGT
20727 CACTCTTATG
Statistics
Matches: 125, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
155 15 0.12
156 41 0.33
157 59 0.47
158 7 0.06
159 3 0.02
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.43
Consensus pattern (155 bp):
TTTTATGTCGAAAATGGGTATTTAGGATAGGTTCATCCCATATACAATCATTTTTAAGTCCTTTA
AGGGTATCAGAAATTCTACGTCGAAAGTACTCCTTAGGGGCATTTTTGTAATTTTTTTAGAATCG
AGTCTTAGGTTGTTATTGGGTCTGT
Found at i:26582 original size:44 final size:45
Alignment explanation
Indices: 26465--26584 Score: 152
Period size: 45 Copynumber: 2.7 Consensus size: 45
26455 TTTATCTTTT
* * *
26465 GTTTGATGTGATGGTTATACCCTAGTCAAACCCCTTTCACTTTCA
1 GTTTGACGTGATGGTTCTGCCCTAGTCAAACCCCTTTCACTTTCA
* *
26510 GTTTGACGTGATGGTTCTGCCCTAGTCAAACCCCTTTCGCTTTTA
1 GTTTGACGTGATGGTTCTGCCCTAGTCAAACCCCTTTCACTTTCA
* * * *
26555 -TTTGACTTGATGGTTTTGCCTTGGTCAAAC
1 GTTTGACGTGATGGTTCTGCCCTAGTCAAAC
26585 TTGTAGACAC
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
44 26 0.39
45 40 0.61
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.39
Consensus pattern (45 bp):
GTTTGACGTGATGGTTCTGCCCTAGTCAAACCCCTTTCACTTTCA
Found at i:26870 original size:21 final size:21
Alignment explanation
Indices: 26844--26896 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
26834 TTCTATAATT
** *
26844 TGTATCGATACAATTTGTGGA
1 TGTATCGATACAATCAGTGAA
*
26865 TGTATCAATAC-ATCAGTGAA
1 TGTATCGATACAATCAGTGAA
26885 TGTATCGATACA
1 TGTATCGATACA
26897 TGTCCCAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (21 bp):
TGTATCGATACAATCAGTGAA
Found at i:26909 original size:21 final size:21
Alignment explanation
Indices: 26883--26938 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
26873 TACATCAGTG
*
26883 AATGTATCGATACATGTCCCA
1 AATGTATCGATACATATCCCA
*
26904 AATGTATCGATACATATCTCA
1 AATGTATCGATACATATCCCA
* *
26925 AATGCATTGATACA
1 AATGTATCGATACA
26939 GGACCATATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (21 bp):
AATGTATCGATACATATCCCA
Found at i:27078 original size:15 final size:15
Alignment explanation
Indices: 27058--27086 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27048 TTTGATCCAA
27058 ATGTATCGATACATT
1 ATGTATCGATACATT
27073 ATGTATCGATACAT
1 ATGTATCGATACAT
27087 GCAGGCCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (15 bp):
ATGTATCGATACATT
Found at i:30321 original size:44 final size:44
Alignment explanation
Indices: 30269--30382 Score: 129
Period size: 44 Copynumber: 2.6 Consensus size: 44
30259 GTCACTCCCC
* *
30269 TTTCGCTTTTGTTTGACGTGATGGTTCTTCCTTGATCAAACTCA
1 TTTCGCTTTTGTTTGACGTGATGGTTCTACCCTGATCAAACTCA
* ** * * *
30313 TTTTGCTTTCATTTGACGTGAGGGTTCTACCCTGGTCAAACTCC
1 TTTCGCTTTTGTTTGACGTGATGGTTCTACCCTGATCAAACTCA
** *
30357 TTTCATTTTTGTTTGACATGATGGTT
1 TTTCGCTTTTGTTTGACGTGATGGTT
30383 TAGCCTTGGT
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.46
Consensus pattern (44 bp):
TTTCGCTTTTGTTTGACGTGATGGTTCTACCCTGATCAAACTCA
Found at i:30393 original size:44 final size:44
Alignment explanation
Indices: 30269--30398 Score: 127
Period size: 44 Copynumber: 3.0 Consensus size: 44
30259 GTCACTCCCC
* * *
30269 TTTCGCTTTTGTTTGACGTGATGGTTCTTCCTTGATCAAACTCA
1 TTTCACTTTTGTTTGACGTGATGGTTCTACCTTGGTCAAACTCA
** ** * * *
30313 TTTTGCTTTCATTTGACGTGAGGGTTCTACCCTGGTCAAACTCC
1 TTTCACTTTTGTTTGACGTGATGGTTCTACCTTGGTCAAACTCA
* * *
30357 TTTCATTTTTGTTTGACATGATGGTT-TAGCCTTGGTCGAACT
1 TTTCACTTTTGTTTGACGTGATGGTTCTA-CCTTGGTCAAACT
30399 TGTTACGTTT
Statistics
Matches: 68, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
43 2 0.03
44 66 0.97
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.44
Consensus pattern (44 bp):
TTTCACTTTTGTTTGACGTGATGGTTCTACCTTGGTCAAACTCA
Found at i:43051 original size:27 final size:27
Alignment explanation
Indices: 43021--43263 Score: 202
Period size: 27 Copynumber: 8.1 Consensus size: 27
43011 ACACGGAATG
43021 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
*
43048 ATGGGCATGGAATAAAAAATTGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
*
43075 ATGGAGTGATGGGCATGGAATAAAAAATTGAAGGC
1 --------ATGGGCATGGAATAAAAAAATGAAGGC
*
43110 ATGGGCATGGAATAAAAAATTGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
43137 ATGGAGTGATGGGCATGGAAT-AAAAAATGAAGGC
1 --------ATGGGCATGGAATAAAAAAATGAAGGC
43171 ATGGGCATGGAATAAAAAAATTGAAGGC
1 ATGGGCATGGAATAAAAAAA-TGAAGGC
43199 ATGGGATGATGGGCATGGAATAAAAAAATGAAGGC
1 --------ATGGGCATGGAATAAAAAAATGAAGGC
* *
43234 ATGAGCATGGAAT-AAGAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
43260 ATGG
1 ATGG
43264 AATGATGGAA
Statistics
Matches: 185, Mismatches: 5, Indels: 53
0.76 0.02 0.22
Matches are distributed among these distances:
26 28 0.15
27 71 0.38
28 7 0.04
34 12 0.06
35 47 0.25
36 20 0.11
ACGTcount: A:0.44, C:0.07, G:0.32, T:0.18
Consensus pattern (27 bp):
ATGGGCATGGAATAAAAAAATGAAGGC
Found at i:43093 original size:62 final size:62
Alignment explanation
Indices: 43019--43271 Score: 431
Period size: 62 Copynumber: 4.1 Consensus size: 62
43009 AAACACGGAA
43019 TGATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATTGAAGGCATGGAG
1 TGATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATTGAAGGCATGGAG
*
43081 TGATGGGCATGGAATAAAAAATTGAAGGCATGGGCATGGAATAAAAAATTGAAGGCATGGAG
1 TGATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATTGAAGGCATGGAG
43143 TGATGGGCATGGAAT-AAAAAATGAAGGCATGGGCATGGAATAAAAAAATTGAAGGCATGG-G
1 TGATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAAT-AAAAAATTGAAGGCATGGAG
* * *
43204 ATGATGGGCATGGAATAAAAAAATGAAGGCATGAGCATGGAATAAGAAA-TGAAGGCATGGAA
1 -TGATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATTGAAGGCATGGAG
43266 TGATGG
1 TGATGG
43272 AAAAAGGAAA
Statistics
Matches: 182, Mismatches: 5, Indels: 9
0.93 0.03 0.05
Matches are distributed among these distances:
61 43 0.24
62 114 0.63
63 25 0.14
ACGTcount: A:0.43, C:0.06, G:0.32, T:0.18
Consensus pattern (62 bp):
TGATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATTGAAGGCATGGAG
Found at i:43094 original size:35 final size:34
Alignment explanation
Indices: 43048--43236 Score: 228
Period size: 35 Copynumber: 5.9 Consensus size: 34
43038 AAATGAAGGC
43048 ATGGGCATGGAATAAAAAATTGAAGGCATGGAGTG
1 ATGGGCATGGAATAAAAAATTGAAGGCATGG-GTG
43083 ATGGGCATGGAATAAAAAATTGAAGGC-------
1 ATGGGCATGGAATAAAAAATTGAAGGCATGGGTG
43110 ATGGGCATGGAATAAAAAATTGAAGGCATGGAGTG
1 ATGGGCATGGAATAAAAAATTGAAGGCATGG-GTG
43145 ATGGGCATGGAATAAAAAA-TGAAGGC-------
1 ATGGGCATGGAATAAAAAATTGAAGGCATGGGTG
43171 ATGGGCATGGAATAAAAAAATTGAAGGCATGGGATG
1 ATGGGCATGGAAT-AAAAAATTGAAGGCATGGG-TG
*
43207 ATGGGCATGGAATAAAAAAATGAAGGCATG
1 ATGGGCATGGAATAAAAAATTGAAGGCATG
43237 AGCATGGAAT
Statistics
Matches: 135, Mismatches: 1, Indels: 36
0.78 0.01 0.21
Matches are distributed among these distances:
26 13 0.10
27 33 0.24
28 7 0.05
34 7 0.05
35 62 0.46
36 13 0.10
ACGTcount: A:0.43, C:0.06, G:0.32, T:0.19
Consensus pattern (34 bp):
ATGGGCATGGAATAAAAAATTGAAGGCATGGGTG
Found at i:43174 original size:26 final size:26
Alignment explanation
Indices: 43145--43263 Score: 121
Period size: 26 Copynumber: 4.2 Consensus size: 26
43135 GCATGGAGTG
43145 ATGGGCATGGAATAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAATGAAGGC
43171 ATGGGCATGGAATAAAAAAATTGAAGGC
1 ATGGGCATGGAAT-AAAAAA-TGAAGGC
43199 ATGGGATGATGGGCATGGAATAAAAAAATGAAGGC
1 --------ATGGGCATGGAATAAA-AAATGAAGGC
* *
43234 ATGAGCATGGAATAAGAAATGAAGGC
1 ATGGGCATGGAATAAAAAATGAAGGC
43260 ATGG
1 ATGG
43264 AATGATGGAA
Statistics
Matches: 79, Mismatches: 3, Indels: 22
0.76 0.03 0.21
Matches are distributed among these distances:
26 26 0.33
27 20 0.25
28 7 0.09
35 10 0.13
36 16 0.20
ACGTcount: A:0.45, C:0.07, G:0.32, T:0.17
Consensus pattern (26 bp):
ATGGGCATGGAATAAAAAATGAAGGC
Found at i:44611 original size:79 final size:79
Alignment explanation
Indices: 44478--44776 Score: 499
Period size: 79 Copynumber: 3.8 Consensus size: 79
44468 GTTAAGTTTC
*
44478 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
44543 TTATTTCTAAAATA
66 TTATTTCTAAAACA
* *
44557 TTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCT
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
44622 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* ** *
44636 TCCATTTTTCGTAATCGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
44701 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * *
44715 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCG
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG
44777 TTATTTCCGA
Statistics
Matches: 205, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 205 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (79 bp):
TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
TTATTTCTAAAACA
Found at i:44771 original size:28 final size:28
Alignment explanation
Indices: 44731--44813 Score: 130
Period size: 28 Copynumber: 2.9 Consensus size: 28
44721 TTTCATAATC
*
44731 GGGGATACTCCAACCCCGTTATTTTCAA
1 GGGGATACTCCAACCCCGTTATTTCCAA
*
44759 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCAA
44787 GGGGATACTCCAACCCCGGTTTATTTC
1 GGGGATACTCCAACCCC-G-TTATTTC
44814 TAAAACACCA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
28 43 0.84
29 1 0.02
30 7 0.14
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCAA
Found at i:44855 original size:78 final size:79
Alignment explanation
Indices: 44759--44930 Score: 301
Period size: 78 Copynumber: 2.2 Consensus size: 79
44749 TTATTTTCAA
44759 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGG-TTTATTTCTAAAACACC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACC
44823 AAATTTTCATAATC
66 AAATTTTCATAATC
*
44837 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACC
* *
44902 AATTTTTCATAATT
66 AAATTTTCATAATC
*
44916 GGGGATACTCTAACC
1 GGGGATACTCCAACC
44931 TCGATTTTAT
Statistics
Matches: 89, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
78 47 0.53
79 42 0.47
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACC
AAATTTTCATAATC
Found at i:44868 original size:106 final size:107
Alignment explanation
Indices: 44652--44882 Score: 410
Period size: 106 Copynumber: 2.2 Consensus size: 107
44642 TTTCGTAATC
* *
44652 GGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACC
* *
44717 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCAA
66 AAATTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCAA
44759 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGG-TTTATTTCTAAAACACC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACC
*
44823 AAATTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGA
66 AAATTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCAA
44865 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
44883 GTTTTATTTC
Statistics
Matches: 119, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
106 73 0.61
107 46 0.39
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACC
AAATTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCAA
Found at i:44882 original size:185 final size:186
Alignment explanation
Indices: 44573--44930 Score: 648
Period size: 185 Copynumber: 1.9 Consensus size: 186
44563 TTTCACAATC
44573 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATC
* * *
44638 CATTTTTCGTAATCGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
66 CAATTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
44703 ATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCAA
131 ATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCAA
44759 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGG-TTTATTTCTAAAACA-C
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATC
44822 CAAATTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTT
66 C-AATTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTT
* *
44887 TATTTCTAAAACATCAATTTTTCATAATTGGGGATACTCTAACC
130 TATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
44931 TCGATTTTAT
Statistics
Matches: 166, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
184 2 0.01
185 117 0.70
186 47 0.28
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.30
Consensus pattern (186 bp):
GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATC
CAATTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
ATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCAA
Found at i:44941 original size:51 final size:52
Alignment explanation
Indices: 44865--45011 Score: 149
Period size: 52 Copynumber: 2.8 Consensus size: 52
44855 TTATTTCCGA
* *
44865 GGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACATCAATTTTT-CATAATT
1 GGGGATACTCTAACCCCGATTTTATTTTCTAAAACA-CAATTTTTCCATAATT
* * * **
44916 GGGGATACTCTAACCTCGATTTTATTTTTTAGAACACCTTTTTTCCATAATT
1 GGGGATACTCTAACCCCGATTTTATTTTCTAAAACACAATTTTTCCATAATT
* * *
44968 GGGGATACTCTAGCCCCG-TTGTTA-TCTCTAAAATACTAATTTTT
1 GGGGATACTCTAACCCCGATT-TTATTTTCTAAAACAC-AATTTTT
45012 TTTCTCGTCA
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
51 37 0.48
52 40 0.52
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (52 bp):
GGGGATACTCTAACCCCGATTTTATTTTCTAAAACACAATTTTTCCATAATT
Found at i:48837 original size:20 final size:20
Alignment explanation
Indices: 48812--48864 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
48802 GTTGGGCATA
* *
48812 ATGTATCAATACAAT-TCTTC
1 ATGTATCGATACAATGTC-CC
48832 ATGTATCGATACAATGTCCC
1 ATGTATCGATACAATGTCCC
48852 ATGTATCGATACA
1 ATGTATCGATACA
48865 TTTCACTCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATGTCCC
Found at i:48930 original size:12 final size:12
Alignment explanation
Indices: 48913--48937 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48903 TACAATTGAG
48913 CATGTATCGATA
1 CATGTATCGATA
48925 CATGTATCGATA
1 CATGTATCGATA
48937 C
1 C
48938 TAGGCATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:57342 original size:19 final size:19
Alignment explanation
Indices: 57288--57342 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
57278 ATTGGGCATA
* *
57288 ATGTATCGATGCAATTAAGC
1 ATGTATCGATACAA-TGAGC
* * *
57308 ATGTATCGAGATAATGAGT
1 ATGTATCGATACAATGAGC
57327 ATGTATCGATACAATG
1 ATGTATCGATACAATG
57343 TATCCATACT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATGAGC
Found at i:58392 original size:73 final size:72
Alignment explanation
Indices: 58129--58765 Score: 537
Period size: 73 Copynumber: 8.8 Consensus size: 72
58119 GCATTATCTT
* *
58129 TCTACCTT-AGTCTTCAAAGAGCATGACA--CTTTTTCTTACCT--T-AAAGCCCACACAATCTG
1 TCTACCTTCAGTCCTCAAAGAGCA-GA-ATGC-TTTTCTTACCTACTCAAAGCCCACACAAGCTG
58188 GTGGCACCTA
63 GTGGCACCTA
* * * * *
58198 TCTACCTCCA-TCCTCAAAGAGCAAAATACTTTTCCTACCTACTACAAAGCCCACATAAGCTGGT
1 TCTACCTTCAGTCCTCAAAGAGCAGAATGCTTTTCTTACCTACT-CAAAGCCCACACAAGCTGGT
*
58262 AGCACCTA
65 GGCACCTA
* * * * * **
58270 TCTACCTT-AGTCTTCAAAGAGCAAAATGCTTTTCATACCTACCTTAAAGCTCACACAAATTGGT
1 TCTACCTTCAGTCCTCAAAGAGCAGAATGCTTTTCTTACCTA-CTCAAAGCCCACACAAGCTGGT
* *
58334 TGCACTTA
65 GGCACCTA
* * *
58342 TCTACCTTCAGTCCTCAAAGAGTAGAATGCTTTTCTTATCTACTACAAAGCCCATACAAGCTGGT
1 TCTACCTTCAGTCCTCAAAGAGCAGAATGCTTTTCTTACCTACT-CAAAGCCCACACAAGCTGGT
58407 GGCACCTA
65 GGCACCTA
* * * * * ** * *
58415 TCTACCTTTAGTCCTCAAAGAGTAGAATGCTTTTCATACCTACCTTAAGGCTTACATAAGTTGGT
1 TCTACCTTCAGTCCTCAAAGAGCAGAATGCTTTTCTTACCTA-CTCAAAGCCCACACAAGCTGGT
*
58480 GACACCTA
65 GGCACCTA
* * *
58488 TCTACCTTTAGTCCTCAAATAGCAAGACA--CTTTTCTTACCTACCTTAAAGCCCACACAAGCTG
1 TCTACCTTCAGTCCTCAAAGAGC-AGA-ATGCTTTTCTTACCTA-CTCAAAGCCCACACAAGCTG
58551 GTGGCACCTA
63 GTGGCACCTA
* * * *
58561 TCTACCTCCAGTCCTTAAAGA--AGAATGCTTTTCTTACCTACTACAAAGCCCACACAAACTAGT
1 TCTACCTTCAGTCCTCAAAGAGCAGAATGCTTTTCTTACCTACT-CAAAGCCCACACAAGCTGGT
*
58624 GGCATCTA
65 GGCACCTA
* * * * * * *
58632 CCTATCTTC-GATCCTCAAAGAGCA-AGATGCTTTTCTTACCTACCTTAAAACCTACATAAGTTG
1 TCTACCTTCAG-TCCTCAAAGAGCAGA-ATGCTTTTCTTACCTA-CTCAAAGCCCACACAAGCTG
* *
58695 ATGGTACCTA
63 GTGGCACCTA
* * * * ** * * * *
58705 TTTATCTCCAATTTTCAAAGAGCAGAATGCTTTTCTGAACTACACAAAGCCCATACAAGCT
1 TCTACCTTCAGTCCTCAAAGAGCAGAATGCTTTTCTTACCTACTCAAAGCCCACACAAGCT
58766 TAAGCATCAC
Statistics
Matches: 457, Mismatches: 87, Indels: 45
0.78 0.15 0.08
Matches are distributed among these distances:
67 1 0.00
68 11 0.02
69 21 0.05
70 8 0.02
71 53 0.12
72 103 0.23
73 251 0.55
74 8 0.02
75 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (72 bp):
TCTACCTTCAGTCCTCAAAGAGCAGAATGCTTTTCTTACCTACTCAAAGCCCACACAAGCTGGTG
GCACCTA
Found at i:58675 original size:217 final size:216
Alignment explanation
Indices: 58171--58694 Score: 635
Period size: 217 Copynumber: 2.4 Consensus size: 216
58161 TTCTTACCTT
* * * * *
58171 AAAGCCCACACAATCTGGTGGCACCTATCTACCTCCATCCTCAAAGAGCAAAATACTTTTCCTAC
1 AAAGCCCACACAAACTGGTGGCACCTATCTACTTCCATCCTCAAAGAGCAAGATGCTTTTCATAC
* * * * **
58236 CTA-CTACAAAGCCCACATAAGCTGGTAGCACCTATCTACCTTAGTCTTCAAAGAGCAAAATGCT
66 CTACCT-TAAAGCCTACATAAGTTGGTAGCACCTATCTACCTTAGTCCTCAAAGAGCAAAACACT
* * * * *
58300 TTTCATACCTACCTTAAAGCTCACACAAATTGGTTGCACTTATCTACCTTCAGTCCTCAAAGAGT
130 TTTCATACCTACCTTAAAGCCCACACAAACTGGTGGCACCTATCTACCTCCAGTCCTCAAAGAG-
*
58365 AGAATGCTTTTCTTATCTACTAC
194 AGAATGCTTTTCTTACCTACTAC
* * * *
58388 AAAGCCCATACAAGCTGGTGGCACCTATCTACCTT-TAGTCCTCAAAGAG-TAGAATGCTTTTCA
1 AAAGCCCACACAAACTGGTGGCACCTATCTA-CTTCCA-TCCTCAAAGAGCAAG-ATGCTTTTCA
* * * *
58451 TACCTACCTTAAGGCTTACATAAGTTGGT-GACACCTATCTACCTTTAGTCCTCAAATAGCAAGA
63 TACCTACCTTAAAGCCTACATAAGTTGGTAG-CACCTATCTACC-TTAGTCCTCAAAGAGCAAAA
* * *
58515 CACTTTTCTTACCTACCTTAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTTAAA
126 CACTTTTCATACCTACCTTAAAGCCCACACAAACTGGTGGCACCTATCTACCTCCAGTCCTCAAA
58580 GA-AGAATGCTTTTCTTACCTACTAC
191 GAGAGAATGCTTTTCTTACCTACTAC
* * * * *
58605 AAAGCCCACACAAACTAGTGGCATCTACCTATCTTCGATCCTCAAAGAGCAAGATGCTTTTCTTA
1 AAAGCCCACACAAACTGGTGGCACCTATCTA-CTTCCATCCTCAAAGAGCAAGATGCTTTTCATA
*
58670 CCTACCTTAAAACCTACATAAGTTG
65 CCTACCTTAAAGCCTACATAAGTTG
58695 ATGGTACCTA
Statistics
Matches: 260, Mismatches: 39, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
217 127 0.49
218 57 0.22
219 76 0.29
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (216 bp):
AAAGCCCACACAAACTGGTGGCACCTATCTACTTCCATCCTCAAAGAGCAAGATGCTTTTCATAC
CTACCTTAAAGCCTACATAAGTTGGTAGCACCTATCTACCTTAGTCCTCAAAGAGCAAAACACTT
TTCATACCTACCTTAAAGCCCACACAAACTGGTGGCACCTATCTACCTCCAGTCCTCAAAGAGAG
AATGCTTTTCTTACCTACTAC
Found at i:58740 original size:217 final size:216
Alignment explanation
Indices: 58171--58765 Score: 632
Period size: 217 Copynumber: 2.7 Consensus size: 216
58161 TTCTTACCTT
* * * * *
58171 AAAGCCCACACAATCTGGTGGCACCTATCTACCTCCATCCTCAAAGAGCAAAATACTTTTCCTAC
1 AAAGCCCACACAAACTGGTGGCACCTATCTACTTCCATCCTCAAAGAGCAAGATGCTTTTCATAC
* * * *
58236 CTA-C-TACAAAGCCCACATAAGCTGGTAGCACCTATCTACCTTAGTCTTCAAAGAGCAAAATGC
66 CTACCTTA-AAA-CCTACATAAGTTGGTGGCACCTATCTACCTTAGTCTTCAAAGAGCAGAATGC
* * ** * * *
58299 TTTTCATACCTACCTTAAAGCTCACACAAATTGGTTGCACTTATCTACCTTCAGTCCTCAAAGAG
129 TTTTCTTACCTACCTTAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAGAG
*
58364 TAGAATGCTTTTCTTATCTACTAC
194 -AGAATGCTTTTCTTACCTACTAC
* * * *
58388 AAAGCCCATACAAGCTGGTGGCACCTATCTACCTT-TAGTCCTCAAAGAG-TAGAATGCTTTTCA
1 AAAGCCCACACAAACTGGTGGCACCTATCTA-CTTCCA-TCCTCAAAGAGCAAG-ATGCTTTTCA
** * * * *
58451 TACCTACCTTAAGGCTTACATAAGTTGGTGACACCTATCTACCTTTAGTCCTCAAATAGCAAGAC
63 TACCTACCTTAAAACCTACATAAGTTGGTGGCACCTATCTACC-TTAGTCTTCAAAGAGC-AGA-
*
58516 A--CTTTTCTTACCTACCTTAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTTAA
125 ATGCTTTTCTTACCTACCTTAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAA
58579 AGA-AGAATGCTTTTCTTACCTACTAC
190 AGAGAGAATGCTTTTCTTACCTACTAC
* * * * *
58605 AAAGCCCACACAAACTAGTGGCATCTACCTATCTTCGATCCTCAAAGAGCAAGATGCTTTTCTTA
1 AAAGCCCACACAAACTGGTGGCACCTATCTA-CTTCCATCCTCAAAGAGCAAGATGCTTTTCATA
* * * * * * *
58670 CCTACCTTAAAACCTACATAAGTTGATGGTACCTATTTATCTCCAATTTTCAAAGAGCAGAATGC
65 CCTACCTTAAAACCTACATAAGTTGGTGGCACCTATCTACCT-TAGTCTTCAAAGAGCAGAATGC
* * *
58735 TTTTCTGAACTACAC--AAAGCCCATACAAGCT
129 TTTTCTTACCTAC-CTTAAAGCCCACACAAGCT
58766 TAAGCATCAC
Statistics
Matches: 312, Mismatches: 52, Indels: 29
0.79 0.13 0.07
Matches are distributed among these distances:
215 1 0.00
216 19 0.06
217 159 0.51
218 55 0.18
219 73 0.23
220 4 0.01
221 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (216 bp):
AAAGCCCACACAAACTGGTGGCACCTATCTACTTCCATCCTCAAAGAGCAAGATGCTTTTCATAC
CTACCTTAAAACCTACATAAGTTGGTGGCACCTATCTACCTTAGTCTTCAAAGAGCAGAATGCTT
TTCTTACCTACCTTAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAGAGAG
AATGCTTTTCTTACCTACTAC
Found at i:58773 original size:144 final size:142
Alignment explanation
Indices: 58499--58781 Score: 329
Period size: 144 Copynumber: 2.0 Consensus size: 142
58489 CTACCTTTAG
* * *
58499 TCCTCAAATAGCAAGACACTTTTCTTACCTACCTTAAAGCCCACACAAGCTGGTGGCACCTATCT
1 TCCTCAAAGAGCAAGACACTTTTCTTACCTACCTTAAAACCCACACAAGCTGATGGCACCTATCT
* * * *
58564 ACCTCCAGTCCTTAAAGAAGAATGCTTTTCTTACCTACTACAAAGCCCACACAAACTAGTGGCAT
66 ACCTCCAATCCTTAAAGAAGAATGCTTTTCTGAACTACTACAAAGCCCACACAAACTAG-AGCAT
58629 CTACCTATCTTCGA
130 C-ACCTATCTTCGA
** * * * * *
58643 TCCTCAAAGAGCAAGATGCTTTTCTTACCTACCTTAAAACCTACATAAGTTGATGGTACCTATTT
1 TCCTCAAAGAGCAAGACACTTTTCTTACCTACCTTAAAACCCACACAAGCTGATGGCACCTATCT
* * * *
58708 ATCTCCAAT-TTTCAAAGAGCAGAATGCTTTTCTGAACTAC-ACAAAGCCCATACAAGCTTA-AG
66 ACCTCCAATCCTT-AAAGA--AGAATGCTTTTCTGAACTACTACAAAGCCCACACAAAC-TAGAG
58770 CATCACCTATCT
127 CATCACCTATCT
58782 ACCTCAACCC
Statistics
Matches: 117, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
143 10 0.09
144 72 0.62
145 15 0.13
146 20 0.17
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (142 bp):
TCCTCAAAGAGCAAGACACTTTTCTTACCTACCTTAAAACCCACACAAGCTGATGGCACCTATCT
ACCTCCAATCCTTAAAGAAGAATGCTTTTCTGAACTACTACAAAGCCCACACAAACTAGAGCATC
ACCTATCTTCGA
Found at i:59747 original size:26 final size:26
Alignment explanation
Indices: 59718--59778 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
59708 ATGCTTCAAA
* * *
59718 GTATCGATACTGAAAGCTTGTTCTTG
1 GTATCGATAATGAAAACTTGATCTTG
**
59744 GTATTAATAATGAAAACTTGATCTTG
1 GTATCGATAATGAAAACTTGATCTTG
59770 GTATCGATA
1 GTATCGATA
59779 TAGGCTTCTA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (26 bp):
GTATCGATAATGAAAACTTGATCTTG
Found at i:60493 original size:13 final size:13
Alignment explanation
Indices: 60475--60500 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60465 ACATAAGTTT
60475 TGTATCGATATAA
1 TGTATCGATATAA
60488 TGTATCGATATAA
1 TGTATCGATATAA
60501 AACTACCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATATAA
Found at i:62762 original size:51 final size:50
Alignment explanation
Indices: 62646--62781 Score: 148
Period size: 51 Copynumber: 2.6 Consensus size: 50
62636 AAAATTAGTA
* * * *
62646 TTTTAGAGATAACAACGGGGCTAGAGTATCCCCGATTATGGAAAAATGGTG
1 TTTTAGAAATAA-AACGGGGTTAGAGTATCCCCAATTATGGAAAAATGATG
* *
62697 TTCTAAAAAATAAAATCGGGGTTAGAGTATCCCCAATTAT-GAAAAATTGATG
1 TT-TTAGAAATAAAA-CGGGGTTAGAGTATCCCCAATTATGGAAAAA-TGATG
* *
62749 TTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
1 TTTTAGAAATAAAA-CGGGGTTAGAGTATCCCC
62782 TCAGAAAAAC
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
51 36 0.51
52 35 0.49
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (50 bp):
TTTTAGAAATAAAACGGGGTTAGAGTATCCCCAATTATGGAAAAATGATG
Found at i:62947 original size:79 final size:79
Alignment explanation
Indices: 62713--63218 Score: 748
Period size: 79 Copynumber: 6.4 Consensus size: 79
62703 AAAATAAAAT
* * *
62713 CGGGGTTAGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
62778 CCCCTC-AGAAA-AA
66 CCCCTCGA-AAATAA
* *
62791 CGGGGTTGGAGTATCCCCGATTATGAAAATTTGGTGTTTTAGAAAT-AAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
62855 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* * * * * *
62869 CGGGGTTGGAGTATTCCCGATTGTAAAAAATTAATATTTTAAAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
62934 CCCCTTGAAAATAA
66 CCCCTCGAAAATAA
*
62948 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
63013 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* * * * *
63027 CGAGGTTGGAGTATCCCCGATTACGAAAAATGGATGTTTTAGAAATAAAGCCAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
63092 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* * *
63106 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
63171 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* *
63185 CAGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
63219 GAAACTTAAC
Statistics
Matches: 383, Mismatches: 42, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
77 26 0.07
78 82 0.21
79 275 0.72
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:63154 original size:237 final size:235
Alignment explanation
Indices: 62713--63218 Score: 861
Period size: 237 Copynumber: 2.1 Consensus size: 235
62703 AAAATAAAAT
* *
62713 CGGGGTTAGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAT
* * * *
62778 CCCCTCAGAAAAACGGGGTTGGAGTATCCCCGATTATGAAAATTTGGTGTTTTAGAAATAAACCG
66 CCCCTCAGAAAAACGAGGTTGGAGTATCCCCGATTACGAAAATATGGTGTTTTAGAAATAAACCA
*
62843 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATTCCCGATTGTAAAAAATTAATATTT
131 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTAAAAAATTAATATTT
*
62908 TAAAAATAAAACCGGGGTTGGAGTATCCCCTTGAAAATAA
196 TAAAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAA
62948 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAT
*
63013 CCCCTCGGAAATAACGAGGTTGGAGTATCCCCGATTACGAAAA-ATGGATGTTTTAGAAATAAAG
66 CCCCTCAGAAA-AACGAGGTTGGAGTATCCCCGATTACGAAAATATGG-TGTTTTAGAAATAAA-
*
63077 CCAGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATA
128 CCAGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTAAAAAATTAATA
*
63142 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAA
193 TTTTAAAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAA
* *
63185 CAGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
63219 GAAACTTAAC
Statistics
Matches: 255, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
235 76 0.30
236 44 0.17
237 135 0.53
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (235 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAT
CCCCTCAGAAAAACGAGGTTGGAGTATCCCCGATTACGAAAATATGGTGTTTTAGAAATAAACCA
GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTAAAAAATTAATATTT
TAAAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAA
Found at i:63312 original size:35 final size:35
Alignment explanation
Indices: 63259--63382 Score: 176
Period size: 35 Copynumber: 3.8 Consensus size: 35
63249 CCTTGGTCCG
63259 TGCCTTC-ATTTTTTATTCCATGCCCATCACTCCA
1 TGCCTTCAATTTTTTATTCCATGCCCATCACTCCA
63293 TGCCTTCAATTTTTTATTCCATG-------C-CCA
1 TGCCTTCAATTTTTTATTCCATGCCCATCACTCCA
*
63320 TGCCTTCATTTTTTTATTCCATGCCCATCACTCCA
1 TGCCTTCAATTTTTTATTCCATGCCCATCACTCCA
63355 TGCCTTCAATTTTTTATTCCATGCCCAT
1 TGCCTTCAATTTTTTATTCCATGCCCAT
63383 GCCTTCATTT
Statistics
Matches: 79, Mismatches: 2, Indels: 17
0.81 0.02 0.17
Matches are distributed among these distances:
27 25 0.32
28 1 0.01
34 8 0.10
35 45 0.57
ACGTcount: A:0.18, C:0.32, G:0.06, T:0.44
Consensus pattern (35 bp):
TGCCTTCAATTTTTTATTCCATGCCCATCACTCCA
Found at i:63322 original size:27 final size:27
Alignment explanation
Indices: 63290--63409 Score: 150
Period size: 27 Copynumber: 4.1 Consensus size: 27
63280 GCCCATCACT
63290 CCATGCCTTCAATTTTTTATTCCATGC
1 CCATGCCTTCAATTTTTTATTCCATGC
*
63317 CCATGCCTTCATTTTTTTATTCCATGCCCATCAC
1 CCATGCCTTCAATTTTTTATTCCATG-------C
63351 TCCATGCCTTCAATTTTTTATTCCATGC
1 -CCATGCCTTCAATTTTTTATTCCATGC
*
63379 CCATGCCTTCATTTTTTTATTCCATGC
1 CCATGCCTTCAATTTTTTATTCCATGC
63406 CCAT
1 CCAT
63410 CATTCTGTGT
Statistics
Matches: 82, Mismatches: 3, Indels: 16
0.81 0.03 0.16
Matches are distributed among these distances:
27 55 0.67
28 1 0.01
34 1 0.01
35 25 0.30
ACGTcount: A:0.17, C:0.32, G:0.07, T:0.44
Consensus pattern (27 bp):
CCATGCCTTCAATTTTTTATTCCATGC
Found at i:63355 original size:62 final size:62
Alignment explanation
Indices: 63259--63411 Score: 299
Period size: 62 Copynumber: 2.5 Consensus size: 62
63249 CCTTGGTCCG
63259 TGCCTTCA-TTTTTTATTCCATGCCCATCACTCCATGCCTTCAATTTTTTATTCCATGCCCA
1 TGCCTTCATTTTTTTATTCCATGCCCATCACTCCATGCCTTCAATTTTTTATTCCATGCCCA
63320 TGCCTTCATTTTTTTATTCCATGCCCATCACTCCATGCCTTCAATTTTTTATTCCATGCCCA
1 TGCCTTCATTTTTTTATTCCATGCCCATCACTCCATGCCTTCAATTTTTTATTCCATGCCCA
63382 TGCCTTCATTTTTTTATTCCATGCCCATCA
1 TGCCTTCATTTTTTTATTCCATGCCCATCA
63412 TTCTGTGTTT
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
61 8 0.09
62 83 0.91
ACGTcount: A:0.18, C:0.32, G:0.07, T:0.44
Consensus pattern (62 bp):
TGCCTTCATTTTTTTATTCCATGCCCATCACTCCATGCCTTCAATTTTTTATTCCATGCCCA
Found at i:64283 original size:40 final size:41
Alignment explanation
Indices: 64194--64297 Score: 111
Period size: 40 Copynumber: 2.5 Consensus size: 41
64184 AAATACTTCA
* *
64194 TGCTCTCTAAGGACAAAAGAAAAAGGAAAATAAAGTGCATCC
1 TGCTCTTTAAGGACAAAAG-AGAAGGAAAATAAAGTGCATCC
* * * ** *
64236 TGTTCTTTAAGGACAAAAGAGAAGGGAAA-GAAGTGTGTCT
1 TGCTCTTTAAGGACAAAAGAGAAGGAAAATAAAGTGCATCC
*
64276 TGCTCTTTGAGGACAAAAGAGA
1 TGCTCTTTAAGGACAAAAGAGA
64298 GAAGAAGGGA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 27 0.52
41 8 0.15
42 17 0.33
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.21
Consensus pattern (41 bp):
TGCTCTTTAAGGACAAAAGAGAAGGAAAATAAAGTGCATCC
Found at i:64405 original size:61 final size:61
Alignment explanation
Indices: 64323--65667 Score: 2163
Period size: 61 Copynumber: 22.2 Consensus size: 61
64313 GTGTGCCCTA
* * * * *
64323 CTCTTTGAGGATTGAAAAGTGCCACTAACTAGTGTGGTCTTTGAAAA-G-AAAAGGCGTCCTG
1 CTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAAGGCGTCCTG
**
64384 CTCTTTGAGGACTGGAGAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAGGCGTCCTG
1 CTCTTTGAGGACTAAAG-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
* *
64445 CTCTTTGAGGACTAGAGGGTACCACCAACTTGTGTGGGCTTTAAAAGG-AAAAGGCGTCCTG
1 CTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
* * *
64506 CTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAAGGCATCCTG
1 CTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
*
64567 CTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAAAGGCGTCCTG
1 CTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
64628 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAAGGCGTCCTG
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
*
64688 CTCTTTGAGGACTAAAGGGTGCCACCACCTTGTGTGGGCTTTAAAAGGAAAAA-GCGTCCTG
1 CTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
* *
64749 CTCTTTGAGGACTAAAGGTGCCACCAATTTGTGTGGGCTTCAAAAGGAAAAAGGCGTCCTG
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
64810 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA-GCGTCCTG
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
64870 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
* *
64931 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAA-GCGTCCTA
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
*
64991 CTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAAGGCGTCCTG
1 CTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
65052 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA-GCGTCCTG
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
* * *
65112 CTCTTTGAGGACTAAAGGTGCCACCAACTAGTGTGAGCTTTGAAA-GAAAAAGGCGTCCTG
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
* *
65172 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAAGGCATCCTG
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
*
65232 CTCTTTGAGGACTAGAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAAGGCGTCCTG
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
*
65292 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCATG
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
*
65353 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAGGTGTCCTG
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
*
65413 CTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAAGGCGTCCTG
1 CTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
*
65474 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAAGGCGTCCTG
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
* * *
65534 CTCTTTGAGGACTAGAGGTGCCACCATCTTGTGTGGGCTTTAAAA-GAAAAAAGCGTCCTG
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
*
65594 CTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAGGTGTCCTG
1 CTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
65655 CTCTTTGAGGACT
1 CTCTTTGAGGACT
65668 GGAATGGCTA
Statistics
Matches: 1212, Mismatches: 52, Indels: 40
0.93 0.04 0.03
Matches are distributed among these distances:
59 7 0.01
60 572 0.47
61 624 0.51
62 9 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (61 bp):
CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
Found at i:64703 original size:121 final size:120
Alignment explanation
Indices: 64323--65667 Score: 2181
Period size: 121 Copynumber: 11.1 Consensus size: 120
64313 GTGTGCCCTA
* * * * *
64323 CTCTTTGAGGATTGAAAAGTGCCACTAACTAGTGTGGTCTTTGAAAA-GAAAAGGCGTCCTGCTC
1 CTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCCTGCTC
** *
64387 TTTGAGGACTGGAGAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
64 TTTGAGGACTAAAG-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTG
* *
64445 CTCTTTGAGGACTAGAGGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCT
1 CTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCT
* * *
64510 TTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCATCCTG
65 TTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTG
*
64567 CTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCT
1 CTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCT
64632 TTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTG
65 TTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTG
* *
64688 CTCTTTGAGGACTAAAGGGTGCCACCACCTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCT
1 CTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCT
* *
64753 TTGAGGACTAAAGGTGCCACCAATTTGTGTGGGCTTCAAAAGGAAAAAGGCGTCCTG
65 TTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAAGGCGTCCTG
*
64810 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTT
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTT
64875 TGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTG
66 TGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAAGGCGTCCTG
*
64931 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAA-GCGTCCTACTCT
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GGAAAAGGCGTCCTGCTCT
*
64995 TTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTG
65 TTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTG
*
65052 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTT
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTT
* * *
65117 TGAGGACTAAAGGTGCCACCAACTAGTGTGAGCTTTGAAAGAAAAAGGCGTCCTG
66 TGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTG
* * *
65172 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCATCCTGCTCTT
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTT
*
65237 TGAGGACTAGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTG
66 TGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTG
*
65292 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCATGCTCT
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAGGCGTCCTGCTCT
* *
65357 TTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTG
65 TTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTG
* *
65413 CTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCT
1 CTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCT
*
65478 TTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTG
65 TTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTG
* * * *
65534 CTCTTTGAGGACTAGAGGTGCCACCATCTTGTGTGGGCTTTAAAAGAAAAAAGCGTCCTGCTCTT
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTT
* *
65599 TGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTG
66 TGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTG
65655 CTCTTTGAGGACT
1 CTCTTTGAGGACT
65668 GGAATGGCTA
Statistics
Matches: 1152, Mismatches: 60, Indels: 23
0.93 0.05 0.02
Matches are distributed among these distances:
120 262 0.23
121 625 0.54
122 264 0.23
123 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (120 bp):
CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTT
TGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTG
Found at i:71864 original size:51 final size:50
Alignment explanation
Indices: 71748--71872 Score: 126
Period size: 52 Copynumber: 2.4 Consensus size: 50
71738 AAAATTAGTA
* * * * *
71748 TTTTAGAGATAACAACGGGGCTAGAGTATCCCCGATTATGGAAAAATGGTG
1 TTTTAGAAATAA-AACGGGGTTAGAATATCCCCAATTATGGAAAAATGATG
* * *
71799 TTCTAAAAAATAAAATCGGGGTTAGAATATCCCTAATTAT-GAAAAATTGATG
1 TT-TTAGAAATAAAA-CGGGGTTAGAATATCCCCAATTATGGAAAAA-TGATG
71851 TTTTAGAAATAAAACCGGGGTT
1 TTTTAGAAATAAAA-CGGGGTT
71873 GGAGTTTCCC
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
51 27 0.45
52 33 0.55
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (50 bp):
TTTTAGAAATAAAACGGGGTTAGAATATCCCCAATTATGGAAAAATGATG
Found at i:72050 original size:79 final size:79
Alignment explanation
Indices: 71815--72321 Score: 755
Period size: 79 Copynumber: 6.4 Consensus size: 79
71805 AAAATAAAAT
* * ** *
71815 CGGGGTTAGAATATCCCTAATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTTT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
71880 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * *
71894 CGAGGTTGGAGTATCCCCGATTATGAAAATTTGGTGTTTTAGAAAT-AAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
71958 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * * *
71972 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAAAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
72037 CCCCTTGAAAATAA
66 CCCCTCGAAAATAA
*
72051 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
72116 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* * * * *
72130 CGAGGTTGGAGTATCCCCGATTACGAAAAATGGATGTTTTAGAAATAAAGCCGGGATTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
72195 TCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* * * * *
72209 CGGGGTTTGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
72274 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
*
72288 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
72322 GAAACTTAAC
Statistics
Matches: 383, Mismatches: 44, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
78 70 0.18
79 313 0.82
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:72293 original size:237 final size:236
Alignment explanation
Indices: 71815--72321 Score: 836
Period size: 237 Copynumber: 2.1 Consensus size: 236
71805 AAAATAAAAT
* * ** * *
71815 CGGGGTTAGAATATCCCTAATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTTT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTAT
* *
71880 CCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAATTTGGTGTTTTAGAAATAAACC
66 CCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTACGAAAATATGGTGTTTTAGAAATAAACC
*
71945 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATT
131 GGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATT
*
72010 TTAAAAATAAAACCGGGGTTGGAGTATCCCCTTGAAAATAA
196 TTAAAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAA
72051 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTAT
*
72116 CCCCTCGGAAATAACGAGGTTGGAGTATCCCCGATTACGAAAA-ATGGATGTTTTAGAAATAAAG
66 CCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTACGAAAATATGG-TGTTTTAGAAATAAA-
* * *
72180 CCGGGATTGGAGTATTCCCTCGGAAATAACGGGGTTTGAGTATCCCCGATTGTGAAAAATTAATA
129 CCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATA
* *
72245 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAA
194 TTTTAAAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAA
*
72288 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
72322 GAAACTTAAC
Statistics
Matches: 252, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
235 3 0.01
236 115 0.46
237 134 0.53
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (236 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTAT
CCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTACGAAAATATGGTGTTTTAGAAATAAACC
GGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATT
TTAAAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAA
Found at i:72425 original size:27 final size:27
Alignment explanation
Indices: 72393--72477 Score: 152
Period size: 27 Copynumber: 3.1 Consensus size: 27
72383 GCCCATCACT
*
72393 CCATGCCTTCAATTTTGTATTCCATGC
1 CCATGCCTTCAATTTTTTATTCCATGC
72420 CCATGCCTTCAATTTTTTATTCCATGC
1 CCATGCCTTCAATTTTTTATTCCATGC
*
72447 CCATGCCTTCATTTTTTTATTCCATGC
1 CCATGCCTTCAATTTTTTATTCCATGC
72474 CCAT
1 CCAT
72478 CATTCCGTGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.18, C:0.31, G:0.08, T:0.44
Consensus pattern (27 bp):
CCATGCCTTCAATTTTTTATTCCATGC
Found at i:76345 original size:22 final size:22
Alignment explanation
Indices: 76302--76346 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
76292 TTGGCCCATC
**
76302 AAATAATTTTTTCAAATTTTTT
1 AAATAATTTTTTCAAAAATTTT
76324 AAAT-ATTTTTCTCAAAAATTTT
1 AAATAATTTTT-TCAAAAATTTT
76346 A
1 A
76347 CCAAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (22 bp):
AAATAATTTTTTCAAAAATTTT
Found at i:76982 original size:19 final size:20
Alignment explanation
Indices: 76954--77002 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
76944 CACATCCAGA
*
76954 TGTATCGATACATGCTC-AT
1 TGTATCGATACATACTCAAT
*
76973 TGTATTGATACATACTCAAT
1 TGTATCGATACATACTCAAT
76993 TGTATCGATA
1 TGTATCGATA
77003 TATGAAATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATACTCAAT
Found at i:81606 original size:91 final size:92
Alignment explanation
Indices: 81434--81634 Score: 214
Period size: 91 Copynumber: 2.2 Consensus size: 92
81424 TAATTTTTTA
* * * * * *
81434 GGAAACTCCATCCTTACTATTCTGAGGGGATACTCTAACCTCAATCTTTAACAAAAACTTAAACT
1 GGAAACTCCATCCCTACTATCCCGAAGGGATACTCTAACCCCAATCTTCAACAAAAACTTAAACT
* * * * **
81499 TTTCTTTCGTATAATTTTAT-CTTTGG
66 TTTCCTTCATACAATTTCATCCTCAGG
*
81525 GGAAACTCCATCTCCT-CTATCCCGAAGGGATACTCTAACCCCAATCTTCAA-AAAAATTTCAAA
1 GGAAACTCCATC-CCTACTATCCCGAAGGGATACTCTAACCCCAATCTTCAACAAAAACTT-AAA
81588 -TTTTCCCTTCATACAATTTCATCCTCAGG
64 CTTTT-CCTTCATACAATTTCATCCTCAGG
*
81617 GGAAACTCCAACCC-ACTA
1 GGAAACTCCATCCCTACTA
81635 CCCCAATGCG
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
90 11 0.12
91 63 0.69
92 17 0.19
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (92 bp):
GGAAACTCCATCCCTACTATCCCGAAGGGATACTCTAACCCCAATCTTCAACAAAAACTTAAACT
TTTCCTTCATACAATTTCATCCTCAGG
Found at i:83188 original size:50 final size:51
Alignment explanation
Indices: 83127--83236 Score: 168
Period size: 51 Copynumber: 2.2 Consensus size: 51
83117 TTTATGTAGT
83127 ATTTAATATA-TTTTTTATGCCTTACCAACACATTTCCTTTATTGGTGACA
1 ATTTAATATATTTTTTTATGCCTTACCAACACATTTCCTTTATTGGTGACA
* * * *
83177 ATTTAATATATTTTTTTATGCCTTACTAATATATTTCCTTTTTTGGTGACA
1 ATTTAATATATTTTTTTATGCCTTACCAACACATTTCCTTTATTGGTGACA
*
83228 ATTTTATAT
1 ATTTAATAT
83237 TCATATTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 10 0.19
51 44 0.81
ACGTcount: A:0.27, C:0.14, G:0.07, T:0.52
Consensus pattern (51 bp):
ATTTAATATATTTTTTTATGCCTTACCAACACATTTCCTTTATTGGTGACA
Found at i:84787 original size:23 final size:23
Alignment explanation
Indices: 84761--84828 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
84751 AATTGAAATG
84761 TAAAAATTATATATTTAAAATAA
1 TAAAAATTATATATTTAAAATAA
* *
84784 TAAAAATTATAAATATAAAGATAA
1 TAAAAATTATATATTTAAA-ATAA
*
84808 TAAAAATTATTTTATTTAAAA
1 TAAAAATTA-TATATTTAAAA
84829 GTAAATTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
23 17 0.45
24 14 0.37
25 7 0.18
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (23 bp):
TAAAAATTATATATTTAAAATAA
Found at i:85494 original size:17 final size:17
Alignment explanation
Indices: 85472--85508 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
85462 AAAAAATAGT
85472 CATTCAATTACTCACAG
1 CATTCAATTACTCACAG
85489 CATTCAATTACTCACAG
1 CATTCAATTACTCACAG
85506 CAT
1 CAT
85509 GATCTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (17 bp):
CATTCAATTACTCACAG
Found at i:86687 original size:24 final size:24
Alignment explanation
Indices: 86643--86688 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
86633 ATAACTTTTT
* *
86643 ATATAATATGATATTATTTTTTGC
1 ATATAATATAATATAATTTTTTGC
86667 ATATAAT-TAATATAATATTTTT
1 ATATAATATAATATAAT-TTTTT
86689 AATTCTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (24 bp):
ATATAATATAATATAATTTTTTGC
Found at i:86755 original size:16 final size:16
Alignment explanation
Indices: 86734--86764 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
86724 CACAAAAAGG
*
86734 ATATAAAATTAATTTT
1 ATATAAAATCAATTTT
86750 ATATAAAATCAATTT
1 ATATAAAATCAATTT
86765 GTTAAATAAT
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:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATAAAATCAATTTT
Found at i:86933 original size:55 final size:57
Alignment explanation
Indices: 86866--86980 Score: 164
Period size: 55 Copynumber: 2.1 Consensus size: 57
86856 TTATAGTTTT
* * *
86866 AATTATGTATACATATAAATATAATTGCACATATTGAA-AA-TAAATCAAAATAGA-A
1 AATTATGCATACATATAAATATAATTGCACACATT-AATAATTAAATAAAAATAGACA
*
86921 AATTATGCATACATATAAATATAATTGTACACATTAATAATTAAATAAAAATAGACA
1 AATTATGCATACATATAAATATAATTGCACACATTAATAATTAAATAAAAATAGACA
86978 AAT
1 AAT
86981 GGCTATATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
54 2 0.04
55 34 0.64
56 13 0.25
57 4 0.08
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (57 bp):
AATTATGCATACATATAAATATAATTGCACACATTAATAATTAAATAAAAATAGACA
Found at i:87837 original size:4 final size:4
Alignment explanation
Indices: 87822--87851 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
87812 TTATCAAAGG
*
87822 AAAT ATAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
87852 TATTTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:89049 original size:79 final size:79
Alignment explanation
Indices: 88953--89167 Score: 225
Period size: 79 Copynumber: 2.7 Consensus size: 79
88943 TGGAGTACAT
* * * **
88953 TCCCCAATGGTGAAAAATCGATGTTTTGGAAATAAAACTGGGGTTGGAGTATCCGTTC-GAAAAT
1 TCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTCAG-AAAT
89017 AACCGAGTTGGAGTA
65 AACCGAGTTGGAGTA
* * * * * *
89032 TCCCCGATTGTGGAAAATCGATGTTTTAAAAATAAAGCTGAGGCTGGAGCATCCCCTCAGAAATA
1 TCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTCAGAAATA
** *
89097 ATGGGGTTGGAGTA
66 ACCGAGTTGGAGTA
** * * * *
89111 TCTTCGATTGTGAAAAATTGGTGTTTTAGAAATAAAAATCGGGGTTTGAGTATCCCC
1 TCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAACT-GGGGTTGGAGTATCCCC
89168 GATTATGAAA
Statistics
Matches: 108, Mismatches: 26, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
79 94 0.87
80 14 0.13
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
TCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTCAGAAATA
ACCGAGTTGGAGTA
Found at i:89164 original size:52 final size:52
Alignment explanation
Indices: 89099--89199 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 52
89089 CAGAAATAAT
** * ** *
89099 GGGGTTGGAGTATCTTCGATTGTGAAAAATTGGTGTTTTAGAAATAAAAATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATCAGTGTTTTAAAAATAAAAATC
*
89151 GGGGTTTGAGTATCCCCGATTATGAAAAATCAGTGTTTTAAAAATAAAA
1 GGGGTTGGAGTATCCCCGATTATGAAAAATCAGTGTTTTAAAAATAAAA
89200 CTAGAGTTGG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.33
Consensus pattern (52 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATCAGTGTTTTAAAAATAAAAATC
Found at i:89245 original size:79 final size:79
Alignment explanation
Indices: 89158--89359 Score: 228
Period size: 79 Copynumber: 2.6 Consensus size: 79
89148 ATCGGGGTTT
89158 GAGTATCCCCGATTATGAAAAATCAGTGTTTTAAAAATAAAA-CTAGAGTTGGAGTATCTCC-TC
1 GAGTATCCCCGATTATGAAAAATCAGTGTTTTAAAAATAAAATC-AGAGTTGGAGTAT-TCCATC
*
89221 AAAAATAAAGGGGCTG
64 AAAAATAAAGGGGCTA
* * * * * *
89237 GAGTATCCCCGATTGTGAAAATTCAATATTTTAAAAATAAAATCAGGGTTGGAGTATTCCATCGA
1 GAGTATCCCCGATTATGAAAAATCAGTGTTTTAAAAATAAAATCAGAGTTGGAGTATTCCATCAA
* *
89302 AAATAATGGGGTTA
66 AAATAAAGGGGCTA
* ** * * **
89316 AAGTATCCTTGATTATGAAAAATCGGTGTTCTGCAAATAAAATC
1 GAGTATCCCCGATTATGAAAAATCAGTGTTTTAAAAATAAAATC
89360 GGGGTTAGAG
Statistics
Matches: 101, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
78 3 0.03
79 97 0.96
80 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (79 bp):
GAGTATCCCCGATTATGAAAAATCAGTGTTTTAAAAATAAAATCAGAGTTGGAGTATTCCATCAA
AAATAAAGGGGCTA
Found at i:89269 original size:131 final size:130
Alignment explanation
Indices: 89023--89293 Score: 332
Period size: 131 Copynumber: 2.1 Consensus size: 130
89013 AAATAACCGA
* * *
89023 GTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTAAAAATAAAGCTGAGGCTGGAGCATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAAAAATAAAACTGAGGCTGGAGCATCCCC
* * * ** ** * * *
89088 TCAGAAATAATGGGGTTGGAGTATCTTCGATTGTGAAAAATTGGTGTTTTAGAAATAAAAATCGG
66 TCAAAAATAAAGGGGCTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAAAAAT-AAAATCAG
89153 G
130 G
* * * *
89154 GTTTGAGTATCCCCGATTATGAAAAATC-AGTGTTTTAAAAATAAAACT-AGAGTTGGAGTATCT
1 GTTGGAGTATCCCCGATTATGAAAAATCGA-TGTTTTAAAAATAAAACTGAG-GCTGGAGCATCC
89217 CCTCAAAAATAAAGGGGCTGGAGTATCCCCGATTGTG-AAAATTCAATATTTTAAAAATAAAATC
64 CCTCAAAAATAAAGGGGCTGGAGTATCCCCGATTGTGAAAAATT-AATATTTTAAAAATAAAATC
89281 AGG
128 AGG
89284 GTTGGAGTAT
1 GTTGGAGTAT
89294 TCCATCGAAA
Statistics
Matches: 119, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
130 26 0.22
131 93 0.78
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (130 bp):
GTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAAAAATAAAACTGAGGCTGGAGCATCCCC
TCAAAAATAAAGGGGCTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAAAAATAAAATCAGG
Found at i:89452 original size:209 final size:209
Alignment explanation
Indices: 88953--89487 Score: 627
Period size: 210 Copynumber: 2.5 Consensus size: 209
88943 TGGAGTACAT
* *
88953 TCCCCAATGGTGAAAAATCGATGTTTTGGAAATAAAACTGGGGTTGGAGTATC-CGTTCGAAAAT
1 TCCCCAATGGTGAAAAATCGATGTTTTGAAAATAAAACTAGGGTTGGAGTATCTC-TTCGAAAAT
** * *
89017 AACCGAGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTAAAAAT-AAAGCTGAGGCTGGAG
65 AAGGGA-TTGGAGTATCCCCGATTGT-GAAAATCGATATTTTAAAAATAAAAGCAGAGGCTGGAG
* ** * * *
89081 CATCCCCTCAGAAATAATGGGGTTGGAGTATCTTCGATTGTGAAAAATTGGTGTTTTAGAAATAA
128 CATCCCATCAGAAATAATGGGGTTAAAGTATCTTCGATTATGAAAAATCGGTGTTCTAGAAATAA
*
89146 AAATCGGGGTTTGAGTA
193 AAATCGGGGTTAGAGTA
* ** * * * *
89163 TCCCCGATTATGAAAAATC-AGTGTTTTAAAAATAAAACTAGAGTTGGAGTATCTCCTCAAAAAT
1 TCCCCAATGGTGAAAAATCGA-TGTTTTGAAAATAAAACTAGGGTTGGAGTATCTCTTCGAAAAT
** * * *
89227 AAAGGGGCTGGAGTATCCCCGATTGTGAAAATTCAATATTTTAAAAATAAAATCAG-GGTTGGAG
65 -AAGGGATTGGAGTATCCCCGATTGTGAAAA-TCGATATTTTAAAAATAAAAGCAGAGGCTGGAG
* *
89291 TATTCCATC-GAAAATAATGGGGTTAAAGTATCCTT-GATTATGAAAAATCGGTGTTCT-GCAAA
128 CATCCCATCAG-AAATAATGGGGTTAAAGTAT-CTTCGATTATGAAAAATCGGTGTTCTAG-AAA
89353 T-AAAATCGGGGTTAGAGTA
190 TAAAAATCGGGGTTAGAGTA
*
89372 TCCCCAATGGTGAAAAATCGATGTTTTGAAAATAAAATTAGGGTTGGAGTATCTCTTCGAAAATA
1 TCCCCAATGGTGAAAAATCGATGTTTTGAAAATAAAACTAGGGTTGGAGTATCTCTTCGAAAATA
* * * *
89437 ATGGGATTAGAGTATCCCCGATGGTAAAAAATCGGTATTTTAAAAATAAAA
66 A-GGGATTGGAGTATCCCCGATTGT-GAAAATCGATATTTTAAAAATAAAA
89488 ACATGAATAA
Statistics
Matches: 272, Mismatches: 42, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
208 2 0.01
209 116 0.43
210 142 0.52
211 12 0.04
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (209 bp):
TCCCCAATGGTGAAAAATCGATGTTTTGAAAATAAAACTAGGGTTGGAGTATCTCTTCGAAAATA
AGGGATTGGAGTATCCCCGATTGTGAAAATCGATATTTTAAAAATAAAAGCAGAGGCTGGAGCAT
CCCATCAGAAATAATGGGGTTAAAGTATCTTCGATTATGAAAAATCGGTGTTCTAGAAATAAAAA
TCGGGGTTAGAGTA
Found at i:89470 original size:130 final size:130
Alignment explanation
Indices: 89237--89472 Score: 321
Period size: 130 Copynumber: 1.8 Consensus size: 130
89227 AAAGGGGCTG
* * *
89237 GAGTATCCCCGATTGTGAAAATTCAATATTTTAAAAATAAAATCAGGGTTGGAGTATTCCATCGA
1 GAGTATCCCCAATGGTGAAAAATCAATATTTTAAAAATAAAATCAGGGTTGGAGTATTCCATCGA
* ** * *
89302 AAATAATGGGGTTAAAGTATCCTTGATTATGAAAAATCGGTGTTCTGCAAATAAAATCGGGGTTA
66 AAATAATGGGATTAAAGTATCCCCGATGATAAAAAATCGGTGTTCTGCAAATAAAATCGGGGTTA
* * * * *
89367 GAGTATCCCCAATGGTGAAAAATCGATGTTTTGAAAATAAAATTAGGGTTGGAGTA-TCTCTTCG
1 GAGTATCCCCAATGGTGAAAAATCAATATTTTAAAAATAAAATCAGGGTTGGAGTATTC-CATCG
* *
89431 AAAATAATGGGATTAGAGTATCCCCGATGGTAAAAAATCGGT
65 AAAATAATGGGATTAAAGTATCCCCGATGATAAAAAATCGGT
89473 ATTTTAAAAA
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
129 2 0.02
130 88 0.98
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (130 bp):
GAGTATCCCCAATGGTGAAAAATCAATATTTTAAAAATAAAATCAGGGTTGGAGTATTCCATCGA
AAATAATGGGATTAAAGTATCCCCGATGATAAAAAATCGGTGTTCTGCAAATAAAATCGGGGTTA
Found at i:91410 original size:18 final size:17
Alignment explanation
Indices: 91383--91417 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
91373 GAGTATCAAG
91383 GGGATTTTTTTGCTGCT
1 GGGATTTTTTTGCTGCT
91400 GGGACTTTTTTTGCTGCT
1 GGGA-TTTTTTTGCTGCT
91418 AAAAGATCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.06, C:0.14, G:0.29, T:0.51
Consensus pattern (17 bp):
GGGATTTTTTTGCTGCT
Found at i:97065 original size:18 final size:19
Alignment explanation
Indices: 97028--97070 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
97018 TTTTAATACT
97028 TATTTAATATTAAAATTATA
1 TATTTAATATT-AAATTATA
*
97048 TATTTAATATT-TATTATA
1 TATTTAATATTAAATTATA
97066 TATTT
1 TATTT
97071 TAATTAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
20 11 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTAATATTAAATTATA
Found at i:97873 original size:19 final size:20
Alignment explanation
Indices: 97829--97880 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
97819 TTATAAGCCA
97829 ATGTATCGATACATTTGGTC
1 ATGTATCGATACATTTGGTC
97849 ATGTATCGATACATCTT-GT-
1 ATGTATCGATACAT-TTGGTC
97868 ATGTATCGATACA
1 ATGTATCGATACA
97881 AACAGTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.42
20 16 0.52
21 2 0.06
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTGGTC
Found at i:99976 original size:21 final size:22
Alignment explanation
Indices: 99952--99996 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
99942 GTGTGGAGGC
*
99952 TGCCCAGTCGCGACCTGG-GAG
1 TGCCCAGTCGCAACCTGGTGAG
*
99973 TG-CCGGTCGCAACCTGGTGAG
1 TGCCCAGTCGCAACCTGGTGAG
99994 TGC
1 TGC
99997 TGCCTAGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.13, C:0.31, G:0.38, T:0.18
Consensus pattern (22 bp):
TGCCCAGTCGCAACCTGGTGAG
Found at i:99987 original size:20 final size:21
Alignment explanation
Indices: 99958--99996 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
99948 AGGCTGCCCA
*
99958 GTCGCGACCTGG-GAGTGCCG
1 GTCGCAACCTGGTGAGTGCCG
99978 GTCGCAACCTGGTGAGTGC
1 GTCGCAACCTGGTGAGTGC
99997 TGCCTAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.13, C:0.28, G:0.41, T:0.18
Consensus pattern (21 bp):
GTCGCAACCTGGTGAGTGCCG
Found at i:104993 original size:3 final size:3
Alignment explanation
Indices: 104985--105015 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
104975 TCTGAGTCAC
*
104985 CAT CAT CAT CAT CAT CAT CAT CTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
105016 CTTGATGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:106613 original size:19 final size:19
Alignment explanation
Indices: 106591--106673 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
106581 TTACAAGCCA
106591 ATGTATCGATACAT-TTGGT
1 ATGTATCGATACATCTT-GT
106610 ATGTATCGATACA------
1 ATGTATCGATACATCTTGT
106623 ATGTATCGATACATCTTGT
1 ATGTATCGATACATCTTGT
*
106642 ATGTATCGATACATCTTAT
1 ATGTATCGATACATCTTGT
106661 ATGTATCGATACA
1 ATGTATCGATACA
106674 AACAATTAAG
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
13 13 0.23
19 44 0.77
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (19 bp):
ATGTATCGATACATCTTGT
Found at i:106628 original size:13 final size:13
Alignment explanation
Indices: 106610--106635 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106600 TACATTTGGT
106610 ATGTATCGATACA
1 ATGTATCGATACA
106623 ATGTATCGATACA
1 ATGTATCGATACA
106636 TCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:106630 original size:32 final size:32
Alignment explanation
Indices: 106589--106654 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
106579 CGTTACAAGC
106589 CAATGTATCGATACAT-TTGGTATGTATCGATA
1 CAATGTATCGATACATCTT-GTATGTATCGATA
106621 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
106653 CA
1 CA
106655 TCTTATATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 31 0.94
33 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:106761 original size:13 final size:13
Alignment explanation
Indices: 106743--106767 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106733 TATAGTGGTC
106743 ATGTATCGATACA
1 ATGTATCGATACA
106756 ATGTATCGATAC
1 ATGTATCGATAC
106768 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:107389 original size:32 final size:32
Alignment explanation
Indices: 107348--107440 Score: 143
Period size: 32 Copynumber: 2.9 Consensus size: 32
107338 TTTCAACAAT
*
107348 TTGTATCGATACAATGTATCGGTACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
* *
107380 TTGTATCGATACAATGTATCAATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
107412 TTGTATCGATACAATGTATCGCTAC-TAAG
1 TTGTATCGATACAATGTATCGATACATAAG
107441 CTACTGCCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 4 0.07
32 52 0.93
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:107494 original size:13 final size:13
Alignment explanation
Indices: 107476--107501 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107466 CATTATTCCA
107476 TGTATCGATACAT
1 TGTATCGATACAT
107489 TGTATCGATACAT
1 TGTATCGATACAT
107502 GGATTTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.