Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold373
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: 3053563
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 20
Found at i:1976786 original size:54 final size:51
Alignment explanation
Indices: 1976674--1976796 Score: 158
Period size: 54 Copynumber: 2.4 Consensus size: 51
1976664 AATTCTCCGT
* * * * *
1976674 AATCGGGGATATTCCCACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACGCCGATTTTATTTCCAAAACACTAATTTTCTAC
1976725 AATCGGGGATACTCCAACGCCGATTTTATTTCCAAAAAAACACTAATTTT-TCAC
1 AATCGGGGATACTCCAACGCCGATTTTATTTCC---AAAACACTAATTTTCT-AC
1976779 AATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
1976797 CCCGTTAATC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 29 0.46
53 1 0.02
54 33 0.52
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32
Consensus pattern (51 bp):
AATCGGGGATACTCCAACGCCGATTTTATTTCCAAAACACTAATTTTCTAC
Found at i:1976850 original size:28 final size:27
Alignment explanation
Indices: 1976780--1976908 Score: 172
Period size: 27 Copynumber: 4.7 Consensus size: 27
1976770 ATTTTTCACA
1976780 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
1976807 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
1976833 TTCGAGGGGATACTCCAACCCCGTTAATC
1 ATC--GGGGATACTCCAACCCCGTTAATC
*
1976862 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
1976888 TTCGAGGGGATACTCCAACCC
1 ATC--GGGGATACTCCAACCC
1976909 ATGCTTTATT
Statistics
Matches: 91, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
26 8 0.09
27 43 0.47
28 36 0.40
29 4 0.04
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:1976859 original size:55 final size:55
Alignment explanation
Indices: 1976783--1976908 Score: 252
Period size: 55 Copynumber: 2.3 Consensus size: 55
1976773 TTTCACAATC
1976783 GGGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGA
1976838 GGGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGA
1976893 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
1976909 ATGCTTTATT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 71 1.00
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (55 bp):
GGGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGA
Found at i:1976967 original size:79 final size:79
Alignment explanation
Indices: 1976862--1977040 Score: 274
Period size: 79 Copynumber: 2.3 Consensus size: 79
1976852 CCCGTTAATC
* * *
1976862 ATCGGGGATACTCCAACCCCGTTATTT-TCGAGGGGATACTCCAAC-CCATGCTTTA-TTCTTAA
1 ATCGGGGATACTCCAACCCCGTTATTTCT-GAAGGGATACTCCAACTCC-GGCTTTATTTC-CAA
1976924 AATATTGATTTCTCATA
63 AATATTGATTTCTCATA
1976941 ATCGGGGATACTCCAACCCCGTTATTTCTGAAGGGATACTCCAACTCCGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCTGAAGGGATACTCCAACTCCGGCTTTATTTCCAAAAT
1977006 ATTGATTTCTCATA
66 ATTGATTTCTCATA
*
1977020 ATCGGGGATACTCCAGCCCCG
1 ATCGGGGATACTCCAACCCCG
1977041 GTTTTATTTT
Statistics
Matches: 93, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
79 87 0.94
80 6 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCTGAAGGGATACTCCAACTCCGGCTTTATTTCCAAAAT
ATTGATTTCTCATA
Found at i:1977034 original size:51 final size:51
Alignment explanation
Indices: 1976973--1977192 Score: 174
Period size: 51 Copynumber: 4.3 Consensus size: 51
1976963 TATTTCTGAA
* * * *
1976973 GGGATACTCCAACTCCGGCTTTATTTCCAAAATATTGA-TTTCTCATAATCG
1 GGGATACTCCAACCCCGGCTTTATTTCCAAAACATTAATTTTC-CACAATCG
* * **
1977024 GGGATACTCCAGCCCCGGTTTTATTTTTAAAACATTAATTTTCCACAATCG
1 GGGATACTCCAACCCCGGCTTTATTTCCAAAACATTAATTTTCCACAATCG
* ** ** **
1977075 GGGATACTCCAACCCC-GATATTATTTTTAAAACACCAATTTTCCTTTAATCG
1 GGGATACTCCAACCCCGGCT-TTATTTCCAAAACATTAATTTTCC-ACAATCG
* ** * ** *
1977127 GGGATACTCCAACTCCGATTTTATTTCTAAAAACACCAATTTTTCACAATCG
1 GGGATACTCCAACCCCGGCTTTATTTC-CAAAACATTAATTTTCCACAATCG
* *
1977179 AGGATACTCTAACC
1 GGGATACTCCAACC
1977193 TCATTATTTC
Statistics
Matches: 139, Mismatches: 25, Indels: 9
0.80 0.14 0.05
Matches are distributed among these distances:
50 2 0.01
51 75 0.54
52 46 0.33
53 16 0.12
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.34
Consensus pattern (51 bp):
GGGATACTCCAACCCCGGCTTTATTTCCAAAACATTAATTTTCCACAATCG
Found at i:1977145 original size:52 final size:51
Alignment explanation
Indices: 1977011--1977192 Score: 220
Period size: 52 Copynumber: 3.5 Consensus size: 51
1977001 AAAATATTGA
* * **
1977011 TTTCTCATAATCGGGGATACTCCAGCCCCGGTTTTATTTTTAAAACATTAAT
1 TTTC-CATAATCGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAAT
* *
1977063 TTTCCACAATCGGGGATACTCCAACCCCGATATTATTTTTAAAACACCAAT
1 TTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAAT
* * *
1977114 TTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACCAAT
1 TTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTT-TTAAAACACCAAT
* * * *
1977167 TTTTCACAATCGAGGATACTCTAACC
1 TTTCCATAATCGGGGATACTCCAACC
1977193 TCATTATTTC
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
51 46 0.41
52 49 0.44
53 16 0.14
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (51 bp):
TTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAAT
Found at i:1977226 original size:27 final size:28
Alignment explanation
Indices: 1977175--1977255 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
1977165 ATTTTTCACA
* * *
1977175 ATCGAGGATACTCTAACCTCATTATTTC-
1 ATCG-GGATACTCCAACCCCGTTATTTCG
1977203 ATCGGGATACTCCAACCCCGTTATCTTCG
1 ATCGGGATACTCCAACCCCGTTAT-TTCG
*
1977232 A-GGGGATACTCCAACCCCGTTATT
1 ATCGGGATACTCCAACCCCGTTATT
1977256 ATCTCCAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 18 0.38
28 28 0.60
29 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.30
Consensus pattern (28 bp):
ATCGGGATACTCCAACCCCGTTATTTCG
Found at i:1984969 original size:155 final size:156
Alignment explanation
Indices: 1984714--1985067 Score: 448
Period size: 155 Copynumber: 2.3 Consensus size: 156
1984704 GTTATCGGGT
*
1984714 ACTTTTACGTCGAAGGTAT-CCCT-TAAGGCATTTTTGTAATTTTTTAGAATCGAGTCTTAGGTT
1 ACTTTTACGTCGAAGGTATCCCCTATAAGGCATTTTGGTAATTTTTTAGAATCGAGTCTTAGGTT
* * * *
1984777 GTCATCGGGTCCGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCATCCCATCTAAAATCTT
66 GTCACCGGGTCCGCTTTTATGCCGAAGGTAGGTATTTAAGATAGGTTCATCCAATCTAAAATCAT
*
1984842 TTTTAAGTCCTTTAGAGGTATCAAGC
131 TTTTAAGTCCATTAGAGGTATCAAGC
* * *
1984868 ACTTCTACGTCGAAGATATCCCCTATAA-GCATTTTGGTAATTTTTTAGAATTGAGTCTTAGGTT
1 ACTTTTACGTCGAAGGTATCCCCTATAAGGCATTTTGGTAATTTTTTAGAATCGAGTCTTAGGTT
** ** * * *
1984932 GTCACCGGGTTTGCTTTTATGTTGAGGGT-GGATATTTAAGATAGGTTCATCCAATTTATAATCA
66 GTCACCGGGTCCGCTTTTATGCCGAAGGTAGG-TATTTAAGATAGGTTCATCCAATCTAAAATCA
* ** *
1984996 TTTTTAAGTCCATTAGGGGTATTGAGT
130 TTTTTAAGTCCATTAGAGGTATCAAGC
* * **
1985023 ACTTTTACGTCGAAGGTATCTCCTA-AGGGCATTTTTATAATTTTT
1 ACTTTTACGTCGAAGGTATCCCCTATAAGGCATTTTGGTAATTTTT
1985068 CTTGAACTTA
Statistics
Matches: 170, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
154 20 0.12
155 147 0.86
156 3 0.02
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (156 bp):
ACTTTTACGTCGAAGGTATCCCCTATAAGGCATTTTGGTAATTTTTTAGAATCGAGTCTTAGGTT
GTCACCGGGTCCGCTTTTATGCCGAAGGTAGGTATTTAAGATAGGTTCATCCAATCTAAAATCAT
TTTTAAGTCCATTAGAGGTATCAAGC
Found at i:1991607 original size:52 final size:52
Alignment explanation
Indices: 1991459--1991587 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1991449 CGAAATATGA
1991459 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
1991511 AAATTTGCCTGTATGTATCAATACATTTCATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1991563 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1991588 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1991614 original size:13 final size:13
Alignment explanation
Indices: 1991596--1991620 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1991586 CAAAGATCAG
1991596 TGTATCGATACAA
1 TGTATCGATACAA
1991609 TGTATCGATACA
1 TGTATCGATACA
1991621 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:1991701 original size:19 final size:19
Alignment explanation
Indices: 1991673--1991736 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
1991663 AGCGATACAT
*
1991673 TGTATTGATACAACACTTA
1 TGTATCGATACAACACTTA
1991692 TGTATCGAT---ACA-TT-
1 TGTATCGATACAACACTTA
1991706 T-TATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1991724 TGTATCGATACAA
1 TGTATCGATACAA
1991737 TTTCTGTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 7 0.18
14 1 0.03
15 2 0.05
16 6 0.16
17 2 0.05
18 1 0.03
19 19 0.50
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1991715 original size:32 final size:32
Alignment explanation
Indices: 1991665--1991735 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
1991655 AGCTTCATAG
*
1991665 CGATACATTGTATTGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
1991697 CGATACATTTTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
1991729 CGATACA
1 CGATACA
1991736 ATTTCTGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:1992813 original size:21 final size:21
Alignment explanation
Indices: 1992780--1992838 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
1992770 TCTACTTGAA
*
1992780 AAGAAAGTAAATGAATTAGAA-
1 AAGAAAAT-AATGAATTAGAAG
* *
1992801 AAGAAAACTAATGAGTTGGAAG
1 AAGAAAA-TAATGAATTAGAAG
*
1992823 AAGAAAATAAAGAATT
1 AAGAAAATAATGAATT
1992839 GACTAAGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 23 0.74
22 8 0.26
ACGTcount: A:0.59, C:0.02, G:0.20, T:0.19
Consensus pattern (21 bp):
AAGAAAATAATGAATTAGAAG
Found at i:1999374 original size:33 final size:33
Alignment explanation
Indices: 1999327--1999390 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
1999317 ACACCCAGAA
*
1999327 GTATCGATACAAATTGCTAAGTATCGATACATT
1 GTATCCATACAAATTGCTAAGTATCGATACATT
* **
1999360 GTATCCATATAAATTGCTTTGTATCGATACA
1 GTATCCATACAAATTGCTAAGTATCGATACA
1999391 CCGTGAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (33 bp):
GTATCCATACAAATTGCTAAGTATCGATACATT
Found at i:2001157 original size:33 final size:33
Alignment explanation
Indices: 2001094--2001157 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
2001084 TTACAAGCAA
*
2001094 TGTATCGATACAATTCATCATATATCGATACGT
1 TGTATCGATACAATTCACCATATATCGATACGT
* * *
2001127 TGTATTGATACAATGT-ACCATGTATTGATAC
1 TGTATCGATACAAT-TCACCATATATCGATAC
2001158 AAACAATGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 25 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAATTCACCATATATCGATACGT
Found at i:2001213 original size:20 final size:19
Alignment explanation
Indices: 2001187--2001260 Score: 85
Period size: 20 Copynumber: 3.8 Consensus size: 19
2001177 ACTGCCAGTT
* *
2001187 TCATGTATCGATATAATTA
1 TCATGTATCGATACAATGA
*
2001206 TCCATGTATTGATACAATGA
1 T-CATGTATCGATACAATGA
*
2001226 TCATGTATCGATACAAAGCA
1 TCATGTATCGATACAATG-A
*
2001246 TAATGTATCGATACA
1 TCATGTATCGATACA
2001261 TCTGGGTGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
19 16 0.34
20 31 0.66
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.34
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:2003312 original size:22 final size:20
Alignment explanation
Indices: 2003287--2003331 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
2003277 GCAGTGGGTG
*
2003287 TGGGAGCTGCCCAGTTGCGACC
1 TGGGAG-TGCCCA-TCGCGACC
*
2003309 TGGGAGTGCCGATCGCGACC
1 TGGGAGTGCCCATCGCGACC
2003329 TGG
1 TGG
2003332 AGATGGCTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 5 0.24
22 6 0.29
ACGTcount: A:0.13, C:0.29, G:0.40, T:0.18
Consensus pattern (20 bp):
TGGGAGTGCCCATCGCGACC
Found at i:2007558 original size:13 final size:13
Alignment explanation
Indices: 2007540--2007564 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2007530 CATGCTGCTT
2007540 TGTATCGATACAA
1 TGTATCGATACAA
2007553 TGTATCGATACA
1 TGTATCGATACA
2007565 TGTTCATTGT
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:2007561 original size:33 final size:32
Alignment explanation
Indices: 2007519--2007583 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
2007509 ACACACCCAG
*
2007519 ATGTATCGATACATGCTGCTTTGTATCGATACA
1 ATGTATCGATACATG-TGCATTGTATCGATACA
*
2007552 ATGTATCGATACATGTTCATTGTATCGATACA
1 ATGTATCGATACATGTGCATTGTATCGATACA
2007584 TGGCCAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (32 bp):
ATGTATCGATACATGTGCATTGTATCGATACA
Found at i:2007577 original size:19 final size:20
Alignment explanation
Indices: 2007553--2007606 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
2007543 ATCGATACAA
**
2007553 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGGCCAAT
2007572 TGTATCGATACATGGCCAAAT
1 TGTATCGATACATGGCC-AAT
2007593 TGTATCGATACATG
1 TGTATCGATACATG
2007607 AAACTAGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 15 0.48
21 16 0.52
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATGGCCAAT
Found at i:2007672 original size:13 final size:13
Alignment explanation
Indices: 2007651--2007681 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2007641 CGATACATGG
*
2007651 TACAATGTATCGA
1 TACATTGTATCGA
2007664 TACATTGTATCGA
1 TACATTGTATCGA
2007677 TACAT
1 TACAT
2007682 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:2007677 original size:33 final size:32
Alignment explanation
Indices: 2007635--2007701 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
2007625 CTATCACTAT
2007635 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
2007668 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
2007701 T
1 T
2007702 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:2013610 original size:20 final size:20
Alignment explanation
Indices: 2013585--2013636 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
2013575 AAAACCCAGA
2013585 TGTATCGATACAATATTCCT
1 TGTATCGATACAATATTCCT
2013605 TGTATCGATACAATATTCCT
1 TGTATCGATACAATATTCCT
2013625 TGTATCGATACA
1 TGTATCGATACA
2013637 TTGGGTACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAATATTCCT
Found at i:2016216 original size:13 final size:13
Alignment explanation
Indices: 2016195--2016225 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2016185 CGATACATGG
*
2016195 TACAATGTATCGA
1 TACATTGTATCGA
2016208 TACATTGTATCGA
1 TACATTGTATCGA
2016221 TACAT
1 TACAT
2016226 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:2016221 original size:33 final size:32
Alignment explanation
Indices: 2016179--2016245 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
2016169 CTATCACTAT
2016179 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
2016212 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
2016245 T
1 T
2016246 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:2017773 original size:19 final size:19
Alignment explanation
Indices: 2017749--2017811 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
2017739 AGCGATACAT
2017749 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
2017768 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
2017781 TGTACCGATACAACACTTA
1 TGTATCGATACAACACTTA
2017800 TGTATCGATACA
1 TGTATCGATACA
2017812 GTTACTGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 8 0.22
14 1 0.03
16 6 0.17
18 1 0.03
19 20 0.56
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:2017782 original size:32 final size:32
Alignment explanation
Indices: 2017736--2017811 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
2017726 GCAGTAGCTT
* *
2017736 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTACCGATACAACACTTA
2017768 TGTATCGATACATTGTACCGATACAACACTTA
1 TGTATCGATACATTGTACCGATACAACACTTA
2017800 TGTATCGATACA
1 TGTATCGATACA
2017812 GTTACTGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATTGTACCGATACAACACTTA
Found at i:2023233 original size:20 final size:20
Alignment explanation
Indices: 2023208--2023261 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
2023198 GTTACAAGCA
* *
2023208 ATGTATCGATGCAAT-TCATC
1 ATGTATCGATACAATGT-ACC
2023228 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
2023248 ATGTATCGATACAA
1 ATGTATCGATACAA
2023262 ACACTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:2023360 original size:13 final size:13
Alignment explanation
Indices: 2023342--2023368 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2023332 TACAATGATC
2023342 ATGTATCGATACA
1 ATGTATCGATACA
2023355 ATGTATCGATACA
1 ATGTATCGATACA
2023368 A
1 A
2023369 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2027841 original size:51 final size:52
Alignment explanation
Indices: 2027721--2027851 Score: 140
Period size: 51 Copynumber: 2.5 Consensus size: 52
2027711 TAACTAGATG
* * * ** * *
2027721 TATCAATACATTGAAGAATATATC-ACTACATTTGGGTCAAAAACTTAGAATG
1 TATCAATACAATAAAAAATATATCGA-TACATTTGGGTCAAAAACCCAAAATA
* *
2027773 TATCAATACAATGAAAAATATATCGATACATTTGGGT-TAAAACCCAAAATA
1 TATCAATACAATAAAAAATATATCGATACATTTGGGTCAAAAACCCAAAATA
* *
2027824 TATCGATACAATAAAAAATGTATCGATA
1 TATCAATACAATAAAAAATATATCGATA
2027852 TTTTTTTTAC
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 34 0.50
52 33 0.49
53 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (52 bp):
TATCAATACAATAAAAAATATATCGATACATTTGGGTCAAAAACCCAAAATA
Found at i:2027917 original size:20 final size:21
Alignment explanation
Indices: 2027892--2027943 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
2027882 ACAAGATCCA
2027892 GTATCGATACATTCACTT-AT
1 GTATCGATACATTCACTTGAT
* *
2027912 GTATCGATAAATTCACTTGTT
1 GTATCGATACATTCACTTGAT
2027933 GTATCGATACA
1 GTATCGATACA
2027944 AATTGTAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (21 bp):
GTATCGATACATTCACTTGAT
Found at i:2031031 original size:2 final size:2
Alignment explanation
Indices: 2031024--2031058 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2031014 AAGCCCAATG
2031024 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
2031059 ACATTGGCGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:2031683 original size:3 final size:3
Alignment explanation
Indices: 2031677--2031718 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
2031667 GTACAAGAAG
2031677 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2031719 GTTGTTGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2034708 original size:84 final size:83
Alignment explanation
Indices: 2034585--2034745 Score: 304
Period size: 84 Copynumber: 1.9 Consensus size: 83
2034575 TAATCTGTGG
*
2034585 TTTTTTTTTTTTTTTTGTTGGATATTTTAGTACAAAATATGTGGTTTTTCATGCATGTGTAATCA
1 TTTTTTTTTTTTTTTTGTTGGATATTTTAGTACAAAATATGTGGTTGTTCATGCATGTGTAATCA
2034650 CAGAAAACGTGCGTGGTT
66 CAGAAAACGTGCGTGGTT
2034668 TTTTTTTTTTTTTTTTGGTTGGATATTTTAGTACAAAATATGTGGTTGTTCATGCATGTGTAATC
1 TTTTTTTTTTTTTTTT-GTTGGATATTTTAGTACAAAATATGTGGTTGTTCATGCATGTGTAATC
2034733 ACAGAAAACGTGC
65 ACAGAAAACGTGC
2034746 AAAAGTTGTT
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
83 16 0.21
84 60 0.79
ACGTcount: A:0.24, C:0.09, G:0.19, T:0.48
Consensus pattern (83 bp):
TTTTTTTTTTTTTTTTGTTGGATATTTTAGTACAAAATATGTGGTTGTTCATGCATGTGTAATCA
CAGAAAACGTGCGTGGTT
Found at i:2037935 original size:2 final size:2
Alignment explanation
Indices: 2037928--2037963 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2037918 AGATGTTATG
2037928 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2037964 GTGTGTGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2038437 original size:16 final size:16
Alignment explanation
Indices: 2038416--2038453 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2038406 CATATAAATC
*
2038416 AAATAAA-AAATTATAA
1 AAATAAATAAAGT-TAA
2038432 AAATAAATAAAGTTAA
1 AAATAAATAAAGTTAA
2038448 AAATAA
1 AAATAA
2038454 TTTTACATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AAATAAATAAAGTTAA
Found at i:2040627 original size:23 final size:23
Alignment explanation
Indices: 2040599--2040661 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
2040589 AAAATATTTA
*
2040599 TTTATAAATATTAAACGAATATG
1 TTTATAAATATTAAACGAACATG
*
2040622 TTTATAAATATATAATCGAACATG
1 TTTATAAATAT-TAAACGAACATG
*
2040646 ATTATAAATAATTAAA
1 TTTATAAAT-ATTAAA
2040662 AATTGATCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 11 0.32
24 21 0.62
25 2 0.06
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (23 bp):
TTTATAAATATTAAACGAACATG
Found at i:2044559 original size:8 final size:8
Alignment explanation
Indices: 2044548--2044574 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
2044538 TTATTTTTTC
2044548 TTTTTTAT
1 TTTTTTAT
2044556 TTTTTTAT
1 TTTTTTAT
2044564 TTTTTTAT
1 TTTTTTAT
2044572 TTT
1 TTT
2044575 AGTGAAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:2044759 original size:16 final size:16
Alignment explanation
Indices: 2044735--2044784 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
2044725 AAAAAAGTTA
2044735 TTTTGAATATTAATTG
1 TTTTGAATATTAATTG
* * *
2044751 TTTTAAATA-AAAGTTA
1 TTTTGAATATTAA-TTG
2044767 TTTTGAATATTAATTG
1 TTTTGAATATTAATTG
2044783 TT
1 TT
2044785 CTAAGCAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
15 2 0.08
16 22 0.85
17 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (16 bp):
TTTTGAATATTAATTG
Found at i:2044764 original size:32 final size:31
Alignment explanation
Indices: 2044723--2044802 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 31
2044713 CATAAAACCA
*
2044723 TAAAAAAAGTTATTTTGAATATTAATTGTTT
1 TAAAAAAAGTTATTTTGAATATTAATTGTTC
2044754 TAAATAAAAGTTATTTTGAATATTAATTGTTC
1 TAAA-AAAAGTTATTTTGAATATTAATTGTTC
* *
2044786 TAAGCAAAAGCTATTTT
1 TAA-AAAAAGTTATTTT
2044803 TGAACAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
31 4 0.09
32 40 0.91
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (31 bp):
TAAAAAAAGTTATTTTGAATATTAATTGTTC
Found at i:2045694 original size:19 final size:19
Alignment explanation
Indices: 2045666--2045707 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
2045656 TAAAAGGGAG
* *
2045666 AAAAGCTAGCAAATATACT
1 AAAAGATAGCAAAAATACT
2045685 AAAAGATAGCAAAAATACT
1 AAAAGATAGCAAAAATACT
2045704 AAAA
1 AAAA
2045708 CTTTGTAAGA
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:0.62, C:0.12, G:0.10, T:0.17
Consensus pattern (19 bp):
AAAAGATAGCAAAAATACT
Found at i:2046318 original size:9 final size:9
Alignment explanation
Indices: 2046304--2046336 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
2046294 AATTAGATAT
2046304 TTAAATTTA
1 TTAAATTTA
*
2046313 TTAAATAT-
1 TTAAATTTA
2046321 TTAAATTTA
1 TTAAATTTA
2046330 TTAAATT
1 TTAAATT
2046337 ATTTTAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TTAAATTTA
Found at i:2046320 original size:17 final size:17
Alignment explanation
Indices: 2046295--2046340 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
2046285 TTAAAAAGTA
*
2046295 ATTAGATATTTAAATTT
1 ATTAAATATTTAAATTT
2046312 ATTAAATATTTAAATTT
1 ATTAAATATTTAAATTT
2046329 ATTAAATTATTT
1 ATTAAA-TATTT
2046341 TAACATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 22 0.81
18 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTAAATATTTAAATTT
Found at i:2046817 original size:2 final size:2
Alignment explanation
Indices: 2046810--2046834 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2046800 AATCTATAGT
2046810 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2046835 GTATGTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2046839 original size:4 final size:4
Alignment explanation
Indices: 2046832--2046858 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2046822 TATATATATA
2046832 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
2046859 ACACTATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:2047054 original size:16 final size:16
Alignment explanation
Indices: 2047020--2047096 Score: 73
Period size: 16 Copynumber: 4.8 Consensus size: 16
2047010 TTGAATTTAA
* * *
2047020 AAATAATTTGAGTTCG
1 AAATAATTTAAATTTG
*
2047036 AAATAACTTAAATTTG
1 AAATAATTTAAATTTG
* *
2047052 AAATGATTTGAATTTG
1 AAATAATTTAAATTTG
* *
2047068 AAATGATTTAAATTTA
1 AAATAATTTAAATTTG
*
2047084 AAATAATCTAAAT
1 AAATAATTTAAAT
2047097 AATTAACTCA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (16 bp):
AAATAATTTAAATTTG
Found at i:2047061 original size:32 final size:32
Alignment explanation
Indices: 2047013--2047090 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
2047003 TAACAATTTG
*
2047013 AATTTAAAAATAATTTGAGTTCGAAATAACTTA
1 AATTT-AAAATAATTTGAATTCGAAATAACTTA
* * * * *
2047046 AATTTGAAATGATTTGAATTTGAAATGATTTA
1 AATTTAAAATAATTTGAATTCGAAATAACTTA
2047078 AATTTAAAATAAT
1 AATTTAAAATAAT
2047091 CTAAATAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
32 32 0.86
33 5 0.14
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (32 bp):
AATTTAAAATAATTTGAATTCGAAATAACTTA
Found at i:2047971 original size:17 final size:16
Alignment explanation
Indices: 2047922--2047974 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 16
2047912 TCGATTGATC
2047922 TAAACTCAAAATAATT
1 TAAACTCAAAATAATT
*
2047938 CGAAACT-AAAATAATT
1 -TAAACTCAAAATAATT
2047954 TAAACTCAAAATTAATT
1 TAAACTCAAAA-TAATT
2047971 TAAA
1 TAAA
2047975 AATTTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 5 0.16
16 13 0.41
17 14 0.44
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (16 bp):
TAAACTCAAAATAATT
Found at i:2048769 original size:62 final size:62
Alignment explanation
Indices: 2048672--2048795 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
2048662 AAAAATGAAA
2048672 AAATAAAAATTTGCCACCCAATGGAACTTAATTAATCCAAGTATATATATTTCCTAATTATT
1 AAATAAAAATTTGCCACCCAATGGAACTTAATTAATCCAAGTATATATATTTCCTAATTATT
2048734 AAATAAAAATTTGCCACCCAATGGAACTTAATTAATCCAAGTATATATATTTCCTAATTATT
1 AAATAAAAATTTGCCACCCAATGGAACTTAATTAATCCAAGTATATATATTTCCTAATTATT
2048796 TTACAACTTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.35
Consensus pattern (62 bp):
AAATAAAAATTTGCCACCCAATGGAACTTAATTAATCCAAGTATATATATTTCCTAATTATT
Found at i:2050363 original size:2 final size:2
Alignment explanation
Indices: 2050358--2050382 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2050348 ACACACACAC
2050358 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2050383 CACACTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2050792 original size:20 final size:20
Alignment explanation
Indices: 2050767--2050804 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2050757 ACATTAATTC
* *
2050767 AAATATTTTTTTATATTAGT
1 AAATATATTTATATATTAGT
2050787 AAATATATTTATATATTA
1 AAATATATTTATATATTA
2050805 AAAAAATTAA
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
AAATATATTTATATATTAGT
Found at i:2051761 original size:15 final size:16
Alignment explanation
Indices: 2051741--2051771 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
2051731 AAGCAAACAG
2051741 AAAAGAAAAA-AAAAA
1 AAAAGAAAAAGAAAAA
2051756 AAAAGAAAAAGAAAAA
1 AAAAGAAAAAGAAAAA
2051772 TCCAAACAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAAAAA
Found at i:2052013 original size:12 final size:12
Alignment explanation
Indices: 2051981--2052024 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
2051971 TGACGGGAAT
2051981 ATAATATAAAAA
1 ATAATATAAAAA
2051993 ATAAT-TAAAAA
1 ATAATATAAAAA
* *
2052004 TTAATATAAAAT
1 ATAATATAAAAA
*
2052016 ATAAAATAA
1 ATAATATAA
2052025 TAATATAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATAATATAAAAA
Found at i:2052019 original size:30 final size:31
Alignment explanation
Indices: 2051983--2052046 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
2051973 ACGGGAATAT
2051983 AATATAAAA-AATAATTAAAAATTAATA-TAA
1 AATATAAAATAATAA-TAAAAATTAATATTAA
* *
2052013 AATATAAAATAATAATATAAATTTATATTAA
1 AATATAAAATAATAATAAAAATTAATATTAA
2052044 AAT
1 AAT
2052047 TTATATAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (31 bp):
AATATAAAATAATAATAAAAATTAATATTAA
Found at i:2052021 original size:28 final size:28
Alignment explanation
Indices: 2051978--2052060 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 28
2051968 ACATGACGGG
* *
2051978 AATATAATATAAAAAATAATTAAAAATT
1 AATATAAAATATAAAATAATTAAAAATT
*
2052006 AATATAAAATATAAAATAATAATATAAATT
1 AATATAAAATATAAAATAAT--TAAAAATT
* * *
2052036 TATATTAAAAT-TTATATAATTAAAA
1 AATA-TAAAATATAAAATAATTAAAA
2052061 TTATTAACAT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
28 22 0.49
30 17 0.38
31 6 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
AATATAAAATATAAAATAATTAAAAATT
Found at i:2052034 original size:12 final size:11
Alignment explanation
Indices: 2051981--2052033 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
2051971 TGACGGGAAT
2051981 ATAATATAAAAA
1 ATAATAT-AAAA
2051993 ATAAT-TAAAA
1 ATAATATAAAA
2052003 ATTAATAT-AAA
1 A-TAATATAAAA
2052014 AT-ATA-AAATA
1 ATAATATAAA-A
2052024 ATAATATAAA
1 ATAATATAAA
2052034 TTTATATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
9 5 0.14
10 9 0.26
11 12 0.34
12 9 0.26
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:2052499 original size:12 final size:12
Alignment explanation
Indices: 2052479--2052508 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2052469 AAAGCAAATG
*
2052479 AATACATAAGTA
1 AATAAATAAGTA
2052491 AATAAATAAGTA
1 AATAAATAAGTA
2052503 AATAAA
1 AATAAA
2052509 ATAAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (12 bp):
AATAAATAAGTA
Found at i:2053231 original size:36 final size:36
Alignment explanation
Indices: 2053159--2053232 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
2053149 TGGGAAACAA
* * *
2053159 ATGTATTGGTACTTCATGCATGAATACATTAGCATG
1 ATGTATTGATACTTCATGCATAAATACAGTAGCATG
2053195 ATGTATTGATACTTCATGCATAAATATCAGTA-CATG
1 ATGTATTGATACTTCATGCATAAATA-CAGTAGCATG
2053231 AT
1 AT
2053233 CAAGCTAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 30 0.88
37 4 0.12
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (36 bp):
ATGTATTGATACTTCATGCATAAATACAGTAGCATG
Found at i:2056795 original size:21 final size:20
Alignment explanation
Indices: 2056771--2056821 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
2056761 TTCAACAATT
* *
2056771 TGTATCGATACAATAGGGCAA
1 TGTATCGATAC-ATAAGGAAA
* *
2056792 TGTATCGGTACATAAGTAAA
1 TGTATCGATACATAAGGAAA
2056812 TGTATCGATA
1 TGTATCGATA
2056822 TATGTTTGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATAAGGAAA
Found at i:2056940 original size:51 final size:52
Alignment explanation
Indices: 2056879--2056993 Score: 169
Period size: 51 Copynumber: 2.2 Consensus size: 52
2056869 TTTTGGAAAG
*
2056879 AAAATGTATCGACACATTTTTCATTGTATCGATACATTTTGGG-TTTTGACC
1 AAAATGTATCGACACATTTTTCATTGTATCGATACATTCTGGGTTTTTGACC
* * * *
2056930 AAAATGTATCGATACATTTTTCATTTTATCGTTGCATTCTGGGTTTTTGACC
1 AAAATGTATCGACACATTTTTCATTGTATCGATACATTCTGGGTTTTTGACC
*
2056982 TAAATGTATCGA
1 AAAATGTATCGA
2056994 TATATACAGG
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
51 38 0.67
52 19 0.33
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.43
Consensus pattern (52 bp):
AAAATGTATCGACACATTTTTCATTGTATCGATACATTCTGGGTTTTTGACC
Found at i:2059400 original size:80 final size:79
Alignment explanation
Indices: 2059296--2059606 Score: 268
Period size: 81 Copynumber: 3.9 Consensus size: 79
2059286 TAAAATTCTC
* * * *
2059296 CTTCCAAAAGCTTCGAAATTTTCACCATTGGGGATATTCTAACCCCAGCATTTTCGAATGGATAT
1 CTTCCAAAA-CATC-AAATTTTCACCATTGGGGATATTCCAACCCCATCATTTTCGAAGGGATAT
*
2059361 TTCAATCTCGTTTTTA
64 TCCAATCTCGTTTTTA
* * * * *
2059377 CTTCCAAAATATCAAATTCTTCACCA-TCGGGATAGTCCAACCCCATCA-TTTCTGAGGGGATAC
1 CTTCCAAAACATCAAATT-TTCACCATTGGGGATATTCCAACCCCATCATTTTC-GAAGGGATAT
* * * *
2059440 TCCAACCCCTTTTTTT
64 TCCAATCTCGTTTTTA
* ** * * *
2059456 CTTCCAAAGGCATCAAATTTGTCACCATTGGTAATACTCCAACCCTATCATTTTCGAGGGGATAT
1 CTTCCAAA-ACATCAAATTT-TCACCATTGGGGATATTCCAACCCCATCATTTTCGAAGGGATAT
2059521 TCCAATCTCGTTTTTA
64 TCCAATCTCGTTTTTA
* * * * * * *
2059537 TTTTCTAAAACACCAAATTTTTCATC-TTAGGGGATATTCCAACCCCACCATTTCCGAAAGGATA
1 -CTTCCAAAACATCAAA-TTTTCACCATT-GGGGATATTCCAACCCCATCATTTTCGAAGGGATA
*
2059601 CTCCAA
63 TTCCAA
2059607 CTCTATTTTC
Statistics
Matches: 181, Mismatches: 40, Indels: 18
0.76 0.17 0.08
Matches are distributed among these distances:
78 4 0.02
79 50 0.28
80 25 0.14
81 89 0.49
82 13 0.07
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (79 bp):
CTTCCAAAACATCAAATTTTCACCATTGGGGATATTCCAACCCCATCATTTTCGAAGGGATATTC
CAATCTCGTTTTTA
Found at i:2059521 original size:160 final size:162
Alignment explanation
Indices: 2059296--2059607 Score: 378
Period size: 160 Copynumber: 1.9 Consensus size: 162
2059286 TAAAATTCTC
* * * * *
2059296 CTTCCAAAAGCTTCGAAATTTTCACCATTGGGGATATTCTAACCCCAGCATTTTCGAATGGATAT
1 CTTCCAAAAGCATCGAAATTTTCACCATTGGGAATACTCCAACCCCAGCATTTTCGAAGGGATAT
* * * *
2059361 TTCAATCTCGTTTTTA-CTTCCAAAATATCAAATTCTTCACCAT-CGGGATAGTCCAACCCCATC
66 TCCAATCTCGTTTTTATCTTCCAAAACACCAAATTCTTCACCATACGGGATAGTCCAACCCCACC
* **
2059424 ATTTCTGAGGGGATACTCCAACCCCTTTTTTT
131 ATTTCCGAAAGGATACTCCAACCCCTTTTTTT
* * * * *
2059456 CTTCCAAAGGCATC-AAATTTGTCACCATTGGTAATACTCCAACCCTATCATTTTCGAGGGGATA
1 CTTCCAAAAGCATCGAAATTT-TCACCATTGGGAATACTCCAACCCCAGCATTTTCGAAGGGATA
* * * * * * *
2059520 TTCCAATCTCGTTTTTATTTTCTAAAACACCAAATTTTTCATCTTAGGGGATATTCCAACCCCAC
65 TTCCAATCTCGTTTTTATCTTCCAAAACACCAAATTCTTCACCATACGGGATAGTCCAACCCCAC
2059585 CATTTCCGAAAGGATACTCCAAC
130 CATTTCCGAAAGGATACTCCAAC
2059608 TCTATTTTCA
Statistics
Matches: 125, Mismatches: 24, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
159 6 0.05
160 63 0.50
161 20 0.16
162 36 0.29
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (162 bp):
CTTCCAAAAGCATCGAAATTTTCACCATTGGGAATACTCCAACCCCAGCATTTTCGAAGGGATAT
TCCAATCTCGTTTTTATCTTCCAAAACACCAAATTCTTCACCATACGGGATAGTCCAACCCCACC
ATTTCCGAAAGGATACTCCAACCCCTTTTTTT
Found at i:2059626 original size:81 final size:80
Alignment explanation
Indices: 2059489--2059682 Score: 185
Period size: 80 Copynumber: 2.4 Consensus size: 80
2059479 ACCATTGGTA
* * * ** * *
2059489 ATACTCCAACCCTATCATTTTCGAGGGGATATTCCAATCTCGT-TTTT-ATTTTCTAAAACACCA
1 ATACTCCAACCCCACCATTTCCGAAAGGATACTCCAA-CTC-TATTTTCATTTCCTAAAA-ACCA
2059552 AATTTTTCATCTTAGGGG
63 AATTTTTCATCTTAGGGG
* *** *
2059570 ATATTCCAACCCCACCATTTCCGAAAGGATACTCCAACTCTATTTTCATTTCCTAAAATTGAATT
1 ATACTCCAACCCCACCATTTCCGAAAGGATACTCCAACTCTATTTTCATTTCCTAAAAACCAAAT
*
2059635 TTTTTATCTTAGGGG
66 TTTTCATCTTAGGGG
* ** * *
2059650 ATACTCCAACTCTGCCATTTTCGAAGGGATACT
1 ATACTCCAACCCCACCATTTCCGAAAGGATACT
2059683 TCAGCTTCAT
Statistics
Matches: 92, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
79 1 0.01
80 51 0.55
81 40 0.43
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.37
Consensus pattern (80 bp):
ATACTCCAACCCCACCATTTCCGAAAGGATACTCCAACTCTATTTTCATTTCCTAAAAACCAAAT
TTTTCATCTTAGGGG
Found at i:2061565 original size:57 final size:58
Alignment explanation
Indices: 2061492--2061601 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 58
2061482 CTTTGAAGTA
* * * *
2061492 GATGCCACGGATTTGTGAGC-TTGAAAATGGTGCCACTGACTTGTGGGTTTTGGAGAG
1 GATGCCACGGACTTGTGAACTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAGAG
* * *
2061549 GATGCCACTGACTTGTGAACTTTTAAAAGGGTTCCACTGACTTGTGGGCTTTG
1 GATGCCACGGACTTGTGAACTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
2061602 AAAGGTGCAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 17 0.38
58 28 0.62
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.32
Consensus pattern (58 bp):
GATGCCACGGACTTGTGAACTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAGAG
Found at i:2061600 original size:29 final size:30
Alignment explanation
Indices: 2061512--2061604 Score: 102
Period size: 29 Copynumber: 3.2 Consensus size: 30
2061502 ATTTGTGAGC
*
2061512 TTGAAAATGGTGCCACTGACTTGTGGG-TT
1 TTGAAAAGGGTGCCACTGACTTGTGGGCTT
* * * **
2061541 TTGGAGAGGATGCCACTGACTTGTGAACTT
1 TTGAAAAGGGTGCCACTGACTTGTGGGCTT
*
2061571 TT-AAAAGGGTTCCACTGACTTGTGGGC-T
1 TTGAAAAGGGTGCCACTGACTTGTGGGCTT
2061599 TTGAAA
1 TTGAAA
2061605 GGTGCAACTC
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
28 3 0.06
29 43 0.86
30 4 0.08
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (30 bp):
TTGAAAAGGGTGCCACTGACTTGTGGGCTT
Found at i:2061757 original size:29 final size:28
Alignment explanation
Indices: 2061701--2061757 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
2061691 AAACAAGTGC
* * *
2061701 ATGGGCTTTAAAAGGGTGCCATTGACTT
1 ATGGGCTTTAAAAGAGTGCCACTAACTT
*
2061729 ATGGGCTTTGAAGAGAGTGCCACTAACTT
1 ATGGGCTTT-AAAAGAGTGCCACTAACTT
2061758 GTGAGTTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (28 bp):
ATGGGCTTTAAAAGAGTGCCACTAACTT
Found at i:2061919 original size:37 final size:36
Alignment explanation
Indices: 2061836--2062008 Score: 165
Period size: 37 Copynumber: 4.8 Consensus size: 36
2061826 TTAACTAGGG
* * * * *
2061836 TGCCACCAACTCGTGTGGATTTTGAAAAGGATT-G-
1 TGCCACCGACTTGTGTGGACTTTGAAAAAGTTTGGT
*
2061870 TGCCACCAACTTGTGTGGACTTTGGAAAAAGTTTGGT
1 TGCCACCGACTTGTGTGGACTTT-GAAAAAGTTTGGT
*
2061907 TGCCACCGACTTGTGTGGACTTTGAACAAGGTTTGGT
1 TGCCACCGACTTGTGTGGACTTTGAA-AAAGTTTGGT
* * * *
2061944 TGCCACTGACTTGCGTGGAC-TTCAAAAATGATTTAGT
1 TGCCACCGACTTGTGTGGACTTTGAAAAA-G-TTTGGT
* *
2061981 TGCCATCGACTTGTGTAGACTTT-AAAAA
1 TGCCACCGACTTGTGTGGACTTTGAAAAA
2062009 TGATTTAGTT
Statistics
Matches: 117, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
34 21 0.18
35 10 0.09
36 9 0.08
37 75 0.64
38 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (36 bp):
TGCCACCGACTTGTGTGGACTTTGAAAAAGTTTGGT
Found at i:2061931 original size:71 final size:73
Alignment explanation
Indices: 2061836--2062013 Score: 184
Period size: 74 Copynumber: 2.5 Consensus size: 73
2061826 TTAACTAGGG
* * * * *
2061836 TGCCACCAACTCGTGTGGATTTTGAAAAGGATT-G-TGCCACCAACTTGTGTGGACTTTGGAAAA
1 TGCCACCGACTTGTGTGGACTTTGAAAAGGATTGGTTGCCACCAACTTGCGTGGAC-TT-CAAAA
*
2061899 A-G-TTTGGT
64 ATGATTTAGT
* **
2061907 TGCCACCGACTTGTGTGGACTTTGAACAAGGTTTGGTTGCCACTGACTTGCGTGGACTTCAAAAA
1 TGCCACCGACTTGTGTGGACTTTGAA-AAGGATTGGTTGCCACCAACTTGCGTGGACTTCAAAAA
2061972 TGATTTAGT
65 TGATTTAGT
* * * *
2061981 TGCCATCGACTTGTGTAGACTTTAAAAATGATT
1 TGCCACCGACTTGTGTGGACTTTGAAAAGGATT
2062014 TAGTTTGTGT
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
71 23 0.26
72 11 0.12
73 9 0.10
74 45 0.51
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (73 bp):
TGCCACCGACTTGTGTGGACTTTGAAAAGGATTGGTTGCCACCAACTTGCGTGGACTTCAAAAAT
GATTTAGT
Found at i:2062029 original size:37 final size:37
Alignment explanation
Indices: 2061942--2062018 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
2061932 ACAAGGTTTG
*
2061942 GTTGCCACT-GACTTGCGTGGACTTCAAAAATGATTTA
1 GTTGCCA-TAGACTTGCGTAGACTTCAAAAATGATTTA
* * *
2061979 GTTGCCATCGACTTGTGTAGACTTTAAAAATGATTTA
1 GTTGCCATAGACTTGCGTAGACTTCAAAAATGATTTA
2062016 GTT
1 GTT
2062019 TGTGTAGACT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 1 0.03
37 35 0.97
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (37 bp):
GTTGCCATAGACTTGCGTAGACTTCAAAAATGATTTA
Found at i:2062234 original size:55 final size:55
Alignment explanation
Indices: 2062170--2062277 Score: 146
Period size: 55 Copynumber: 2.0 Consensus size: 55
2062160 TTGACATGGG
* * *
2062170 TGTCGATGTGTTGATGCAAGGGT-AGCAACATTAGATTTAAAGATTTTGACAAAGA
1 TGTCAATGTGATGATGCAA-GGTCAGCAACATTAGACTTAAAGATTTTGACAAAGA
* * *
2062225 TGTCAATGTGATGATTCAAGGTCAGCGACATTGGACTTAAAGATTTTGACAAA
1 TGTCAATGTGATGATGCAAGGTCAGCAACATTAGACTTAAAGATTTTGACAAA
2062278 TTTTGACAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 3 0.07
55 43 0.93
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (55 bp):
TGTCAATGTGATGATGCAAGGTCAGCAACATTAGACTTAAAGATTTTGACAAAGA
Found at i:2064397 original size:34 final size:33
Alignment explanation
Indices: 2064347--2064411 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
2064337 CTCGCAACAC
2064347 TATCTTTTCAAAGGCTAAGATAGAACCTCTTCA
1 TATCTTTTCAAAGGCTAAGATAGAACCTCTTCA
* *
2064380 TATCTTTTATAAAGGCTAAGATAGGACCTCTT
1 TATCTTTT-CAAAGGCTAAGATAGAACCTCTT
2064412 AATCACTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 8 0.28
34 21 0.72
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (33 bp):
TATCTTTTCAAAGGCTAAGATAGAACCTCTTCA
Found at i:2064878 original size:63 final size:63
Alignment explanation
Indices: 2064778--2064938 Score: 259
Period size: 63 Copynumber: 2.6 Consensus size: 63
2064768 ATATGCTCCT
* * * *
2064778 ATGTATCGATAAAATTCACAATGTATCGATACAATGCATTTGAAATTCTAGCTGTTGGGCTCA
1 ATGTATCGATACAATTCACCATGTATCGATACAATGCATTTAAAATTATAGCTGTTGGGCTCA
* *
2064841 TTGTATCGATACAATTCACCATGCATCGATACAATGCATTTAAAATTATAGCTGTTGGGCTCA
1 ATGTATCGATACAATTCACCATGTATCGATACAATGCATTTAAAATTATAGCTGTTGGGCTCA
*
2064904 ATGTATCGATACAATTTACCATGTATCGATACAAT
1 ATGTATCGATACAATTCACCATGTATCGATACAAT
2064939 TCAATTATGA
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 89 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (63 bp):
ATGTATCGATACAATTCACCATGTATCGATACAATGCATTTAAAATTATAGCTGTTGGGCTCA
Found at i:2073065 original size:22 final size:22
Alignment explanation
Indices: 2073037--2073102 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
2073027 ACGTCCTCTC
2073037 TCCTTGCCAAGTGGTTGCCACA
1 TCCTTGCCAAGTGGTTGCCACA
*
2073059 TCCTTGCCAAGTGGTTACCACA
1 TCCTTGCCAAGTGGTTGCCACA
*
2073081 TCCTTGCCAAGCGGTTGCCACA
1 TCCTTGCCAAGTGGTTGCCACA
2073103 ATTCACTACT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.20, C:0.33, G:0.21, T:0.26
Consensus pattern (22 bp):
TCCTTGCCAAGTGGTTGCCACA
Found at i:2073685 original size:63 final size:63
Alignment explanation
Indices: 2073586--2073746 Score: 232
Period size: 63 Copynumber: 2.6 Consensus size: 63
2073576 ACATGCTCTT
** * * *
2073586 ATGTATCGATACAATTCATAATGTATCGATACAATGCATTTGAAATTCTAGCTGTTGGGCTTA
1 ATGTATCGATACAATTCACCATGTATCGATACAATGCATTTAAAATTATAGCCGTTGGGCTTA
* *
2073649 ATGTATCGATATAATTCACCATGCATCGATACAATGCATTTAAAATTATAGCCGTTGGGCTTA
1 ATGTATCGATACAATTCACCATGTATCGATACAATGCATTTAAAATTATAGCCGTTGGGCTTA
* * *
2073712 ATGTGTCAATACAATTAACCATGTATCGATACAAT
1 ATGTATCGATACAATTCACCATGTATCGATACAAT
2073747 TCAATTATGA
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 86 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (63 bp):
ATGTATCGATACAATTCACCATGTATCGATACAATGCATTTAAAATTATAGCCGTTGGGCTTA
Found at i:2078437 original size:19 final size:19
Alignment explanation
Indices: 2078391--2078443 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
2078381 CAGTTTCATG
*
2078391 TATCGATACAATTGTGTATG
1 TATCGATACAA-TGTGTATA
*
2078411 TCTCGATACAATGAT-TATA
1 TATCGATACAATG-TGTATA
2078430 TATCGATACAATGT
1 TATCGATACAATGT
2078444 ATCCATACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 1 0.03
19 17 0.59
20 11 0.38
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (19 bp):
TATCGATACAATGTGTATA
Found at i:2078797 original size:3 final size:3
Alignment explanation
Indices: 2078785--2078839 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
2078775 CTTAAACAAG
2078785 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2078832 TAA TAA TA
1 TAA TAA TA
2078840 GAGTATCACT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2082275 original size:33 final size:33
Alignment explanation
Indices: 2082220--2082284 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
2082210 TTTGAGGCAA
* *
2082220 TGTATCGATACAATTCTTCATGTATTGATACAT
1 TGTATCGATACAATTCTCCATGTATCGATACAT
*
2082253 TGTATCGATAC-ATTGTGCCATGTATCGATACA
1 TGTATCGATACAATTCT-CCATGTATCGATACA
2082285 AATAGTGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAATTCTCCATGTATCGATACAT
Found at i:2082337 original size:20 final size:19
Alignment explanation
Indices: 2082312--2082367 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
2082302 TACTGCCAGT
*
2082312 TTCATGTATCGATACATTTG
1 TTCATGTATCGATACA-ATG
2082332 TTCATGTATCGATACAATG
1 TTCATGTATCGATACAATG
**
2082351 AACATGTATCGATACAA
1 TTCATGTATCGATACAA
2082368 AGCATAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (19 bp):
TTCATGTATCGATACAATG
Found at i:2093006 original size:13 final size:13
Alignment explanation
Indices: 2092988--2093013 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2092978 ACAATATTCT
2092988 TTGTATCGATACA
1 TTGTATCGATACA
2093001 TTGTATCGATACA
1 TTGTATCGATACA
2093014 AAGGCTACTA
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):
TTGTATCGATACA
Found at i:2093146 original size:21 final size:21
Alignment explanation
Indices: 2093122--2093170 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
2093112 ATTAAATCTT
* *
2093122 CTTCAAATTTCTTATTTTTCA
1 CTTCAAAATACTTATTTTTCA
*
2093143 CTTCAAAATACTTCTTTTTCA
1 CTTCAAAATACTTATTTTTCA
2093164 --TCAAAAT
1 CTTCAAAAT
2093171 CATCAACAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.28
21 18 0.72
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (21 bp):
CTTCAAAATACTTATTTTTCA
Found at i:2095542 original size:33 final size:32
Alignment explanation
Indices: 2095498--2095562 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
2095488 ACACACCCAG
*
2095498 ATGTATCGATACAT-TATGCTTTGTATCGATACA
1 ATGTATCGATACATGT-T-CATTGTATCGATACA
*
2095531 ATGTATTGATACATGTTCATTGTATCGATACA
1 ATGTATCGATACATGTTCATTGTATCGATACA
2095563 TGGACAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (32 bp):
ATGTATCGATACATGTTCATTGTATCGATACA
Found at i:2095574 original size:20 final size:20
Alignment explanation
Indices: 2095528--2095584 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
2095518 TTGTATCGAT
* *
2095528 ACAA-TGTATTGATACATGT
1 ACAATTGTATCGATACATGG
*
2095547 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
2095566 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
2095585 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.47
20 16 0.50
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:2096697 original size:13 final size:13
Alignment explanation
Indices: 2096679--2096704 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2096669 CAATTTTTTG
2096679 TGTATCGATACAT
1 TGTATCGATACAT
2096692 TGTATCGATACAT
1 TGTATCGATACAT
2096705 ATTTTGTGTA
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
Found at i:2099274 original size:13 final size:13
Alignment explanation
Indices: 2099256--2099291 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
2099246 ATAATCCCCC
*
2099256 TGTATCGATACAG
1 TGTATCGATACAA
2099269 TGTATCGATACAA
1 TGTATCGATACAA
2099282 TGTATCGATA
1 TGTATCGATA
2099292 GAAAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2101385 original size:15 final size:15
Alignment explanation
Indices: 2101349--2101386 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
2101339 TTCATTAATT
* *
2101349 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
2101364 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
2101379 TCATTTTG
1 TCATTTTG
2101387 GATATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:2103061 original size:21 final size:21
Alignment explanation
Indices: 2103032--2103076 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2103022 AAGTTTTTAT
*
2103032 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2103052 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2103074 TTT
1 TTT
2103077 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2105304 original size:13 final size:13
Alignment explanation
Indices: 2105286--2105343 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
2105276 CAATTTTTTG
2105286 TGTATCGATACAT
1 TGTATCGATACAT
2105299 TGTATCGATACATATTTT
1 TGTATCGATAC--A---T
2105317 GTGTATCGATACAT
1 -TGTATCGATACAT
2105331 TGTATCGATACAT
1 TGTATCGATACAT
2105344 ATTTTGTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
14 1 0.03
15 1 0.03
17 1 0.03
18 1 0.03
19 11 0.28
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2105322 original size:32 final size:32
Alignment explanation
Indices: 2105266--2105361 Score: 174
Period size: 32 Copynumber: 3.0 Consensus size: 32
2105256 TACAAGCCAA
*
2105266 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATAC-ATATTTTGTGTATCGATACAT
2105299 TGTATCGATACATATTTTGTGTATCGATACAT
1 TGTATCGATACATATTTTGTGTATCGATACAT
2105331 TGTATCGATACATATTTTGTGTATCGATACA
1 TGTATCGATACATATTTTGTGTATCGATACA
2105362 AGTTTGGCTA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 51 0.82
33 11 0.18
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (32 bp):
TGTATCGATACATATTTTGTGTATCGATACAT
Found at i:2105323 original size:19 final size:19
Alignment explanation
Indices: 2105266--2105361 Score: 90
Period size: 19 Copynumber: 5.6 Consensus size: 19
2105256 TACAAGCCAA
*
2105266 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
2105286 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
2105299 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
2105318 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
2105331 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
2105350 TGTATCGATACA
1 TGTATCGATACA
2105362 AGTTTGGCTA
Statistics
Matches: 63, Mismatches: 1, Indels: 25
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.35
14 2 0.03
15 2 0.03
17 1 0.02
18 2 0.03
19 23 0.37
20 11 0.17
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:2105466 original size:20 final size:20
Alignment explanation
Indices: 2105413--2105468 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
2105403 ACATCTTTTT
*
2105413 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
2105433 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
2105452 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
2105469 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:2116895 original size:1 final size:1
Alignment explanation
Indices: 2116889--2116951 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
2116879 CCTTCGTACC
* * * * * * * *
2116889 AAAAAAAAAAGACAAAAAAAAAATAAAAAAACAAAAAAACAAAAAACAAACAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2116952 CGGTCCAGAT
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.87, C:0.08, G:0.02, T:0.03
Consensus pattern (1 bp):
A
Found at i:2116907 original size:11 final size:10
Alignment explanation
Indices: 2116891--2116949 Score: 61
Period size: 11 Copynumber: 5.9 Consensus size: 10
2116881 TTCGTACCAA
2116891 AAAAAAAAGAC
1 AAAAAAAA-AC
2116902 AAAAAAAAA-
1 AAAAAAAAAC
*
2116911 ATAAAAAAAC
1 AAAAAAAAAC
2116921 --AAAAAAAC
1 AAAAAAAAAC
2116929 AAAAAACAAAC
1 AAAAAA-AAAC
2116940 AAATAAAAAA
1 AAA-AAAAAA
2116950 AACGGTCCAG
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
8 8 0.19
9 8 0.19
10 5 0.12
11 18 0.43
12 3 0.07
ACGTcount: A:0.86, C:0.08, G:0.02, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:2116916 original size:8 final size:8
Alignment explanation
Indices: 2116888--2116950 Score: 60
Period size: 8 Copynumber: 8.0 Consensus size: 8
2116878 TCCTTCGTAC
2116888 CAAAAAAA
1 CAAAAAAA
2116896 -AAAGACAAA
1 CAAA-A-AAA
2116905 -AAAAAAA
1 CAAAAAAA
*
2116912 TAAAAAAA
1 CAAAAAAA
2116920 CAAAAAAA
1 CAAAAAAA
2116928 C-AAAAAA
1 CAAAAAAA
*
2116935 CAAACAAA
1 CAAAAAAA
*
2116943 TAAAAAAA
1 CAAAAAAA
2116951 ACGGTCCAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
7 13 0.28
8 28 0.60
9 6 0.13
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.03
Consensus pattern (8 bp):
CAAAAAAA
Found at i:2116916 original size:19 final size:17
Alignment explanation
Indices: 2116889--2116951 Score: 72
Period size: 19 Copynumber: 3.4 Consensus size: 17
2116879 CCTTCGTACC
*
2116889 AAAAAAAAAAGACAAAAA
1 AAAAAAAAAAAAC-AAAA
2116907 AAAAATAAAAAAACAAAA
1 AAAAA-AAAAAAACAAAA
2116925 AAACAAAAAACAAACAAATA
1 AAA-AAAAAA-AAACAAA-A
2116945 AAAAAAA
1 AAAAAAA
2116952 CGGTCCAGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 16 0.40
19 20 0.50
20 4 0.10
ACGTcount: A:0.87, C:0.08, G:0.02, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAAAACAAAA
Found at i:2116935 original size:15 final size:14
Alignment explanation
Indices: 2116889--2116951 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
2116879 CCTTCGTACC
*
2116889 AAAAAAAAAAGACA
1 AAAAAAAAAAAACA
*
2116903 AAAAAAAAATAA-A
1 AAAAAAAAAAAACA
*
2116916 AAAACAAAAAAACA
1 AAAAAAAAAAAACA
* *
2116930 AAAAACAAACAAATA
1 AAAAA-AAAAAAACA
2116945 AAAAAAA
1 AAAAAAA
2116952 CGGTCCAGAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 11 0.28
14 17 0.43
15 12 0.30
ACGTcount: A:0.87, C:0.08, G:0.02, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAAACA
Found at i:2120936 original size:52 final size:52
Alignment explanation
Indices: 2120866--2120986 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
2120856 GAAAATTTAT
*
2120866 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
2120918 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
2120970 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
2120987 AAGATCGGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:2120999 original size:52 final size:52
Alignment explanation
Indices: 2120866--2121006 Score: 187
Period size: 52 Copynumber: 2.7 Consensus size: 52
2120856 GAAAATTTAT
*
2120866 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
* *** *
2120918 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
2120970 CTGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
2121007 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:2121013 original size:13 final size:13
Alignment explanation
Indices: 2120995--2121019 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2120985 CAAAGATCGG
2120995 TGTATCGATACAA
1 TGTATCGATACAA
2121008 TGTATCGATACA
1 TGTATCGATACA
2121020 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:2121101 original size:13 final size:13
Alignment explanation
Indices: 2121083--2121107 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2121073 CAAAAAAATA
2121083 TGTATCGATACAT
1 TGTATCGATACAT
2121096 TGTATCGATACA
1 TGTATCGATACA
2121108 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:2121103 original size:33 final size:33
Alignment explanation
Indices: 2121061--2121127 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2121051 AGTAGCTTAA
2121061 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2121094 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2121127 A
1 A
2121128 AATCATTGAA
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:2121830 original size:28 final size:28
Alignment explanation
Indices: 2121806--2122159 Score: 361
Period size: 28 Copynumber: 12.2 Consensus size: 28
2121796 TTGGTTAGTA
*
2121806 GCACCCTTTCAAAGCCCACAAGTTAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
*
2121834 GCA-TCTTGTCAAAGCCCACAAGTCAGTG
1 GCACCCTT-TCAAAGCCCACAAGTCAGTG
* *
2121862 GCATCCTTTTTAAAGCCCACAAGTCAGTG
1 GCA-CCCTTTCAAAGCCCACAAGTCAGTG
* *
2121891 GCATCCTTTCAAAACCCACAAGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
* *
2121919 GAACCCTTTCAAAGTCCACAAAGTCAGTG
1 GCACCCTTTCAAAGCCCAC-AAGTCAGTG
* *
2121948 GCATCCTTTTAAAGCCCACAAGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
** *
2121976 GCATTCTTTCAAAGCCTACAAGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
* *
2122004 GCAACCTTTCAAAGCCCACAAGTCAGTA
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
2122032 GCACCCTTTTCAAAGCCCACAAG-CTAGTG
1 GCACCC-TTTCAAAGCCCACAAGTC-AGTG
* *
2122061 GTAACTCTTTTCAAAGCCCACAAGTCAGTG
1 G-CAC-CCTTTCAAAGCCCACAAGTCAGTG
* * *
2122091 GTAACTCTTTTCAAAGCCCACACAAGTCGGTG
1 G-CAC-CCTTTCAAAG-CC-CACAAGTCAGTG
* *
2122123 GCAACTCTTTTCAAAGCCCATACAAGTTAGTG
1 GC-AC-CCTTTCAAAGCCC--ACAAGTCAGTG
2122155 GCACC
1 GCACC
2122160 TTTTTTTAAA
Statistics
Matches: 280, Mismatches: 32, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
27 3 0.01
28 125 0.45
29 66 0.24
30 42 0.15
31 8 0.03
32 36 0.13
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (28 bp):
GCACCCTTTCAAAGCCCACAAGTCAGTG
Found at i:2121891 original size:57 final size:56
Alignment explanation
Indices: 2121812--2122163 Score: 370
Period size: 57 Copynumber: 6.1 Consensus size: 56
2121802 AGTAGCACCC
* *
2121812 TTTCAAAGCCCACAAGTTAGTGGCATCTTGTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCTT-TCAAAGCCCACAAGTCAGTGGCAACCT
* * *
2121869 TTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAACCCACAAGTCAGTGG-AACCC
1 TTTCAAAGCCCACAAGTCAGTGGCAT-CTTTCAAAGCCCACAAGTCAGTGGCAACCT
* * **
2121925 TTTCAAAGTCCACAAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATTC-
1 TTTCAAAGCCCAC-AAGTCAGTGGCAT-CTTTCAAAGCCCACAAGTCAGTGGCAACCT
* * * *
2121982 TTTCAAAGCCTACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTAGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGC-ATCTTTCAAAGCCCACAAGTCAGTGGCAACCT
* *
2122039 TTTCAAAGCCCACAAG-CTAGTGGTAACTCTTTTCAAAGCCCACAAGTCAGTGGTAACTCT
1 TTTCAAAGCCCACAAGTC-AGTGG-CA-TC-TTTCAAAGCCCACAAGTCAGTGGCAAC-CT
* *
2122099 TTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCATACAAGTTAGTGGC-ACCT
1 TTTCAAAG-CC-CACAAGTCAGTGGC-A-TC-TTTCAAAGCCC--ACAAGTCAGTGGCAACCT
2122161 TTT
1 TTT
2122164 TTTAAATGCC
Statistics
Matches: 251, Mismatches: 28, Indels: 27
0.82 0.09 0.09
Matches are distributed among these distances:
56 51 0.20
57 113 0.45
58 6 0.02
59 24 0.10
60 10 0.04
61 2 0.01
62 31 0.12
63 3 0.01
64 11 0.04
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCTTTCAAAGCCCACAAGTCAGTGGCAACCT
Found at i:2121931 original size:85 final size:85
Alignment explanation
Indices: 2121810--2122162 Score: 419
Period size: 85 Copynumber: 4.1 Consensus size: 85
2121800 TTAGTAGCAC
* * *
2121810 CCTTTCAAAGCCCACAAGTTAGTGGC-ATCTTGTCAAAGCCCACAAGTCAGTGGCATCCTTTTTA
1 CCTTTCAAAGCCCACAAGTCAGTGGCAACCTT-TCAAAGCCCACAAGTCAGTGGCATCCTTTTCA
2121874 AAGCCCACAAGTCAGTGGCAT
65 AAGCCCACAAGTCAGTGGCAT
* *
2121895 CCTTTCAAAACCCACAAGTCAGTGG-AACCCTTTCAAAGTCCACAAAGTCAGTGGCATCCTTTT-
1 CCTTTCAAAGCCCACAAGTCAGTGGCAA-CCTTTCAAAGCCCAC-AAGTCAGTGGCATCCTTTTC
2121958 AAAGCCCACAAGTCAGTGGCAT
64 AAAGCCCACAAGTCAGTGGCAT
* * * *
2121980 TCTTTCAAAGCCTACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTAGCACCCTTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAA
*
2122045 AGCCCACAAG-CTAGTGGTAACT
66 AGCCCACAAGTC-AGTGG-CA-T
* * * *
2122067 CTTTTCAAAGCCCACAAGTCAGTGGTAACTCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAAC-C-TTTCAAAG-CC-CACAAGTCAGTGGCATC-CTT
*
2122132 TTCAAAGCCCATACAAGTTAGTGGCA-
61 TTCAAAGCCC--ACAAGTCAGTGGCAT
2122158 CCTTT
1 CCTTT
2122163 TTTTAAATGC
Statistics
Matches: 231, Mismatches: 21, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
84 18 0.08
85 109 0.47
86 25 0.11
87 26 0.11
88 1 0.00
89 8 0.03
90 2 0.01
91 18 0.08
92 13 0.06
93 1 0.00
94 10 0.04
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (85 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAA
AGCCCACAAGTCAGTGGCAT
Found at i:2122189 original size:33 final size:32
Alignment explanation
Indices: 2121812--2122202 Score: 220
Period size: 28 Copynumber: 13.2 Consensus size: 32
2121802 AGTAGCACCC
**
2121812 TTTCAAAGCCC--ACAAGTTAGTGGC-A-TCT
1 TTTCAAAGCCCATACAAGTCGGTGGCAACTCT
* * *
2121840 TGTCAAAGCCC--ACAAGTCAGTGGCATC-CT
1 TTTCAAAGCCCATACAAGTCGGTGGCAACTCT
* * *
2121869 TTTTAAAGCCC--ACAAGTCAGTGGC-A-TCC
1 TTTCAAAGCCCATACAAGTCGGTGGCAACTCT
* * *
2121897 TTTCAAAACCC--ACAAGTCAGTGG-AAC-CC
1 TTTCAAAGCCCATACAAGTCGGTGGCAACTCT
* * * *
2121925 TTTCAAAGTCCACA-AAGTCAGTGGCATC-CT
1 TTTCAAAGCCCATACAAGTCGGTGGCAACTCT
* *
2121955 TTT-AAAGCCC--ACAAGTCAGTGGC-ATTC-
1 TTTCAAAGCCCATACAAGTCGGTGGCAACTCT
*
2121982 TTTCAAAG-CC-TACAAGTCAGTGGCAAC-C-
1 TTTCAAAGCCCATACAAGTCGGTGGCAACTCT
* * *
2122010 TTTCAAAGCCC--ACAAGTCAGTAGC-ACCCT
1 TTTCAAAGCCCATACAAGTCGGTGGCAACTCT
* *
2122039 TTTCAAAGCCC--ACAAG-CTAGTGGTAACTCT
1 TTTCAAAGCCCATACAAGTC-GGTGGCAACTCT
* *
2122069 TTTCAAAGCCC--ACAAGTCAGTGGTAACTCT
1 TTTCAAAGCCCATACAAGTCGGTGGCAACTCT
*
2122099 TTTCAAAGCCCACACAAGTCGGTGGCAACTCT
1 TTTCAAAGCCCATACAAGTCGGTGGCAACTCT
** * *
2122131 TTTCAAAGCCCATACAAGTTAGTGGCACCTTT
1 TTTCAAAGCCCATACAAGTCGGTGGCAACTCT
* ** *
2122163 TTTTAAATGCCCATGTAAGTCGGTGGCAACCCT
1 TTTCAAA-GCCCATACAAGTCGGTGGCAACTCT
2122196 TTTCAAA
1 TTTCAAA
2122203 TCACCACTTT
Statistics
Matches: 304, Mismatches: 37, Indels: 39
0.80 0.10 0.10
Matches are distributed among these distances:
27 8 0.03
28 108 0.36
29 63 0.21
30 50 0.16
31 1 0.00
32 50 0.16
33 24 0.08
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (32 bp):
TTTCAAAGCCCATACAAGTCGGTGGCAACTCT
Found at i:2122303 original size:45 final size:47
Alignment explanation
Indices: 2122233--2122337 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 47
2122223 AAGTTTGATA
* * *
2122233 TCGCTAGCATTGAATCAGCATATTGG-CACCTTT-ATTAGCCCAATG
1 TCGCTAGCCTTGAATCAACACATTGGCCACCTTTCATTAGCCCAATG
* * *
2122278 TCGCTAGCCTTGAATCAATACATTGGTCCACTTTTCCCTTAGCCCAATG
1 TCGCTAGCCTTGAATCAACACATTGG-CCACCTTT-CATTAGCCCAATG
2122327 TCGCTAGCCTT
1 TCGCTAGCCTT
2122338 AAATTGGCAC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
45 22 0.44
47 6 0.12
49 22 0.44
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (47 bp):
TCGCTAGCCTTGAATCAACACATTGGCCACCTTTCATTAGCCCAATG
Found at i:2123072 original size:20 final size:20
Alignment explanation
Indices: 2123047--2123173 Score: 78
Period size: 20 Copynumber: 5.8 Consensus size: 20
2123037 TTTTTACTAG
2123047 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
2123067 ATGTATCGATACATTCTATCTTTTTACCCA
1 ATGTATCGATACA---T-TC---TT---CA
*
2123097 GATGTATCGATA-ATTTTTCA
1 -ATGTATCGATACATTCTTCA
* * *
2123117 ATGTATCGATGCATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
*
2123137 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTTCA
*
2123157 ATGTATCGATGCATTCT
1 ATGTATCGATACATTCT
2123174 ATCTTTTTAC
Statistics
Matches: 84, Mismatches: 9, Indels: 28
0.69 0.07 0.23
Matches are distributed among these distances:
19 11 0.13
20 49 0.58
21 1 0.01
23 3 0.04
24 2 0.02
26 1 0.01
27 3 0.04
30 3 0.04
31 11 0.13
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:2123102 original size:51 final size:50
Alignment explanation
Indices: 2123037--2123218 Score: 206
Period size: 51 Copynumber: 3.8 Consensus size: 50
2123027 AAAAATCACA
*
2123037 TTTTTACTAGATGTATCGATACATTCTTCAATGTATCGATACATTCTATC
1 TTTTTACTAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
* * *
2123087 TTTTTACCCAGATGTATCGATA-ATTTTTCAATGTATCGATGCA-TGTA--
1 TTTTTA-CTAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
* *
2123134 ----T--GA-ATGTATCGATACATTTTTCAATGTATCGATGCATTCTATC
1 TTTTTACTAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
*
2123177 TTTTTACCTAGATGTATCGATACATTATTCAATGTATCGATA
1 TTTTTA-CTAGATGTATCGATACATTTTTCAATGTATCGATA
2123219 TATCTAGTTA
Statistics
Matches: 110, Mismatches: 9, Indels: 25
0.76 0.06 0.17
Matches are distributed among these distances:
39 11 0.10
40 22 0.20
41 3 0.03
43 1 0.01
47 1 0.01
49 3 0.03
50 26 0.24
51 43 0.39
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.43
Consensus pattern (50 bp):
TTTTTACTAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
Found at i:2126491 original size:13 final size:13
Alignment explanation
Indices: 2126473--2126497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2126463 GCCAGTTTCA
2126473 TGTATCGATACAT
1 TGTATCGATACAT
2126486 TGTATCGATACA
1 TGTATCGATACA
2126498 AAGCATAATG
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:2130358 original size:63 final size:62
Alignment explanation
Indices: 2130274--2130662 Score: 273
Period size: 63 Copynumber: 6.2 Consensus size: 62
2130264 CCTTAAGCAG
* * * * *
2130274 GAAAGATTGACCAAGGCGAAACCATAATAGTCAAAGAGATGACCAGGGTGAAACTTTCATTCA
1 GAAAGATTGACTAGGGCGAAACCATAATAGTCAAAGAGATGACCAAGGTGAACCTTT-AGTCA
* * * * * *
2130337 GAAAGATTAACTAGGGTGAAACCATAACAGTCGAAGAGTTGACCAAGGTAGAACCTTTAATCA
1 GAAAGATTGACTAGGGCGAAACCATAATAGTCAAAGAGATGACCAAGGT-GAACCTTTAGTCA
* * * *
2130400 AAAAGATTGATTAAGGCGAAACCATAATAGT-TAAGAGATGACCAAGGTAGAACCTTTAGTC-
1 GAAAGATTGACTAGGGCGAAACCATAATAGTCAAAGAGATGACCAAGGT-GAACCTTTAGTCA
* * * * * * * *
2130461 GAAAAAATTGACAAGGGTGAAACCATATTAGTTAAAGAAATGACCAAGATGAAACCTTTAGT-T
1 G-AAAGATTGACTAGGGCGAAACCATAATAGTCAAAGAGATGACCAAGGTG-AACCTTTAGTCA
* ** * * * * * *
2130524 GAAAAGATTGACTATGGAAAAATCATAATAGTCAAAAAGGT-AACTAGGCAGAACCTTTAGTCA
1 G-AAAGATTGACTAGGGCGAAACCATAATAGTCAAAGAGATGACCAAGG-TGAACCTTTAGTCA
* * * * * * * * * * * *
2130587 GAAAAATTAACCAGGGCAAAACCATAATAGTAAAATAGGTGACTATGGCGAAACTTTTAGTCC
1 GAAAGATTGACTAGGGCGAAACCATAATAGTCAAAGAGATGACCAAGGTG-AACCTTTAGTCA
*
2130650 GAAGGATTGACTA
1 GAAAGATTGACTA
2130663 AGGCAGAAGT
Statistics
Matches: 253, Mismatches: 64, Indels: 18
0.76 0.19 0.05
Matches are distributed among these distances:
62 98 0.39
63 148 0.58
64 7 0.03
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.22
Consensus pattern (62 bp):
GAAAGATTGACTAGGGCGAAACCATAATAGTCAAAGAGATGACCAAGGTGAACCTTTAGTCA
Found at i:2130508 original size:125 final size:126
Alignment explanation
Indices: 2130275--2130613 Score: 303
Period size: 125 Copynumber: 2.7 Consensus size: 126
2130265 CTTAAGCAGG
* *
2130275 AAAGATTGACCAAGGCGAAACCATAATAGTCAAAGAGATGACCAGGGTGAAACTTTCATTCAGAA
1 AAAGATTGACCAAGGCGAAACCATAATAGTCAAAGAGATGACCAAGGTGAAACTTTCAGTCAGAA
* * * ** *
2130340 AGATTAACTAGGGTGAAACCATAACAGTCGAAGAGTTGACCAAGGT-AGAACCTTTAATCAA
66 AAATTAACAAGGGTGAAACCATAACAGTCAAAGAAATGACCAAGATGA-AACCTTTAATCAA
** * *
2130401 AAAGATTGATTAAGGCGAAACCATAATAGT-TAAGAGATGACCAAGGTAGAACCTTT-AGTC-GA
1 AAAGATTGACCAAGGCGAAACCATAATAGTCAAAGAGATGACCAAGGT-GAAACTTTCAGTCAG-
* ** * * **
2130463 AAAAATTGACAAGGGTGAAACCATATTAGTTAAAGAAATGACCAAGATGAAACCTTTAGTTGA
64 AAAAATTAACAAGGGTGAAACCATAACAGTCAAAGAAATGACCAAGATGAAACCTTTAATCAA
* * ** * * * * * * *
2130526 AAAGATTGACTATGGAAAAATCATAATAGTCAAAAAGGT-AACTAGGCAGAACCTTT-AGTCAGA
1 AAAGATTGACCAAGGCGAAACCATAATAGTCAAAGAGATGACCAAGG-TGAAACTTTCAGTCAGA
* **
2130589 AAAATTAACCAGGGCAAAACCATAA
65 AAAATTAACAAGGGTGAAACCATAA
2130614 TAGTAAAATA
Statistics
Matches: 172, Mismatches: 35, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
124 1 0.01
125 129 0.75
126 42 0.24
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (126 bp):
AAAGATTGACCAAGGCGAAACCATAATAGTCAAAGAGATGACCAAGGTGAAACTTTCAGTCAGAA
AAATTAACAAGGGTGAAACCATAACAGTCAAAGAAATGACCAAGATGAAACCTTTAATCAA
Found at i:2130530 original size:32 final size:32
Alignment explanation
Indices: 2130432--2130530 Score: 91
Period size: 32 Copynumber: 3.1 Consensus size: 32
2130422 CATAATAGTT
* *
2130432 AAGAGATGACCAAGGT-AGAACCTTTAGTCGAA
1 AAGAAATGACCAAGGTGA-AACCTTTAGTTGAA
*
2130464 AA-AATTGA-CAAGGGTGAAACCATATTAGTT--A
1 AAGAAATGACCAA-GGTGAAACC-T-TTAGTTGAA
*
2130495 AAGAAATGACCAAGATGAAACCTTTAGTTGAA
1 AAGAAATGACCAAGGTGAAACCTTTAGTTGAA
2130527 AAGA
1 AAGA
2130531 TTGACTATGG
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
30 9 0.17
31 15 0.28
32 22 0.41
33 8 0.15
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.21
Consensus pattern (32 bp):
AAGAAATGACCAAGGTGAAACCTTTAGTTGAA
Found at i:2132588 original size:33 final size:33
Alignment explanation
Indices: 2132551--2132617 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2132541 AAATTTAATT
** *
2132551 TATATAGATTATATTTATGTGTTATAATCATCA
1 TATATAGATTATATTTACATGTTATAACCATCA
*
2132584 TATATAGATTATTTTTACATGTTATAACCATCA
1 TATATAGATTATATTTACATGTTATAACCATCA
2132617 T
1 T
2132618 TGGTAAATCA
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:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (33 bp):
TATATAGATTATATTTACATGTTATAACCATCA
Found at i:2136008 original size:21 final size:20
Alignment explanation
Indices: 2135955--2136008 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
2135945 ATAGTAAATT
2135955 AATGTATCGATACATAAGTA
1 AATGTATCGATACATAAGTA
* * ***
2135975 AATGTTTCAATACATGCTTGA
1 AATGTATCGATACATAAGT-A
2135996 AATGTATCGATAC
1 AATGTATCGATAC
2136009 TAGACCATGT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATAAGTA
Found at i:2144323 original size:12 final size:12
Alignment explanation
Indices: 2144306--2144330 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2144296 AGGGGGAGAA
2144306 ATGCTTTGATTT
1 ATGCTTTGATTT
2144318 ATGCTTTGATTT
1 ATGCTTTGATTT
2144330 A
1 A
2144331 CGGGGAGCAA
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:0.20, C:0.08, G:0.16, T:0.56
Consensus pattern (12 bp):
ATGCTTTGATTT
Found at i:2144956 original size:20 final size:19
Alignment explanation
Indices: 2144910--2144966 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
2144900 TTGTATCAAT
* *
2144910 ACATTATATCGATACATGT
1 ACATTGTATCGATACATGG
*
2144929 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
2144948 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
2144967 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:2145021 original size:20 final size:20
Alignment explanation
Indices: 2144996--2145048 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
2144986 TACCACTGTT
*
2144996 TGTATCGATACATGGT-ACAA
1 TGTATCGATACATGATGA-AA
* *
2145016 TGTATCAATACATGATGAAT
1 TGTATCGATACATGATGAAA
2145036 TGTATCGATACAT
1 TGTATCGATACAT
2145049 TGCTTGTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGATGAAA
Found at i:2145188 original size:39 final size:39
Alignment explanation
Indices: 2145134--2145208 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
2145124 TACGGGAAAA
*
2145134 CATTAAAACAAGCACTAAATAAGCTTGTAACGGCTAAAG
1 CATTAAAACAAGCACTAAACAAGCTTGTAACGGCTAAAG
2145173 CATTAAAACAAGCACTAAACAAGCTTGTAACGGCTA
1 CATTAAAACAAGCACTAAACAAGCTTGTAACGGCTA
2145209 GTAACTCAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (39 bp):
CATTAAAACAAGCACTAAACAAGCTTGTAACGGCTAAAG
Found at i:2147080 original size:34 final size:34
Alignment explanation
Indices: 2147037--2147106 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
2147027 CCATTATGTG
2147037 TGTGTCCATAATGGAAGTTAAAGTGTGGCAATTT
1 TGTGTCCATAATGGAAGTTAAAGTGTGGCAATTT
2147071 TGTGTCCATAATGGAAGTTAAAGTGTGGCAATTT
1 TGTGTCCATAATGGAAGTTAAAGTGTGGCAATTT
2147105 TG
1 TG
2147107 GTAGCAATGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.09, G:0.27, T:0.36
Consensus pattern (34 bp):
TGTGTCCATAATGGAAGTTAAAGTGTGGCAATTT
Found at i:2151021 original size:18 final size:19
Alignment explanation
Indices: 2150981--2151023 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
2150971 TATTCAATTA
* *
2150981 TTTATTATCTTTTATTTAG
1 TTTATTATCATTTATTAAG
*
2151000 TTTATTAT-ATTTATTAAT
1 TTTATTATCATTTATTAAG
2151018 TTTATT
1 TTTATT
2151024 TAATATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTATTATCATTTATTAAG
Found at i:2151125 original size:15 final size:15
Alignment explanation
Indices: 2151107--2151138 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2151097 ATATTTAATG
2151107 ATTATTTATTCAATT
1 ATTATTTATTCAATT
*
2151122 ATTATTTATTCATTT
1 ATTATTTATTCAATT
2151137 AT
1 AT
2151139 ATAATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTATTTATTCAATT
Done.