Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2101
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: 301709
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 2
Found at i:3191 original size:21 final size:20
Alignment explanation
Indices: 3166--3211 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
3156 TTTAATAATT
*
3166 TGTATAAATACAATAAGTTAA
1 TGTATAAATAC-ATAAGTGAA
**
3187 TGTATCGATACATAAGTGAA
1 TGTATAAATACATAAGTGAA
3207 TGTAT
1 TGTAT
3212 CGATACATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (20 bp):
TGTATAAATACATAAGTGAA
Found at i:3236 original size:20 final size:20
Alignment explanation
Indices: 3173--3219 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
3163 ATTTGTATAA
*
3173 ATACAATAAGTTAATGTATCG
1 ATAC-ATAAGTGAATGTATCG
3194 ATACATAAGTGAATGTATCG
1 ATACATAAGTGAATGTATCG
3214 ATACAT
1 ATACAT
3220 CTTGAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.32
Consensus pattern (20 bp):
ATACATAAGTGAATGTATCG
Found at i:5869 original size:97 final size:97
Alignment explanation
Indices: 5734--5944 Score: 298
Period size: 97 Copynumber: 2.2 Consensus size: 97
5724 TCATCCATAG
* * * * * *
5734 GGATACTCCAACTCTA-TCTTCCGAGGAGATACTTCAATCCCGCTTTTAATCTCCTCAAGATTTA
1 GGATACTCCAACCCCATTATTCCGAGGAGATACTCCAATCACGCTTTTAATCTCCTCAAAATTTA
5798 AATTTTAATTTTGCTCAAATTATCATCGTCGA
66 AATTTTAATTTTGCTCAAATTATCATCGTCGA
* * * *
5830 GGATACTCCAACCCCATTATTCCGAGGGGATACTCCAATCACTCTTTTAATTTCGTCAAAATTTA
1 GGATACTCCAACCCCATTATTCCGAGGAGATACTCCAATCACGCTTTTAATCTCCTCAAAATTTA
* *
5895 AATTTTATTTTTGCTCAAATTATCATCGTCGG
66 AATTTTAATTTTGCTCAAATTATCATCGTCGA
*
5927 GGATATTCCAACCCCATT
1 GGATACTCCAACCCCATT
5945 TTTCAACCAA
Statistics
Matches: 101, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
96 14 0.14
97 87 0.86
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (97 bp):
GGATACTCCAACCCCATTATTCCGAGGAGATACTCCAATCACGCTTTTAATCTCCTCAAAATTTA
AATTTTAATTTTGCTCAAATTATCATCGTCGA
Found at i:7245 original size:20 final size:21
Alignment explanation
Indices: 7185--7258 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
7175 TTCTACAATT
* *
7185 TGTATCGATACAATAAAT-TAA
1 TGTATCGATAC-ATAAGTGAAA
7206 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAAGTGAAA
***
7226 TGTATCGATACATGTTTGAAA
1 TGTATCGATACATAAGTGAAA
*
7247 TGTATCAATACA
1 TGTATCGATACA
7259 AAACCATGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 22 0.48
21 24 0.52
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATAAGTGAAA
Found at i:7252 original size:21 final size:20
Alignment explanation
Indices: 7185--7238 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
7175 TTCTACAATT
* *
7185 TGTATCGATACAATAAATTAA
1 TGTATCGATAC-ATAAGTGAA
7206 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
7226 TGTATCGATACAT
1 TGTATCGATACAT
7239 GTTTGAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:10130 original size:10 final size:10
Alignment explanation
Indices: 10111--10141 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10101 TCTCATTTTT
10111 TCACTGTTCA
1 TCACTGTTCA
*
10121 TCACTATTCA
1 TCACTGTTCA
10131 TCACTGTTCA
1 TCACTGTTCA
10141 T
1 T
10142 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:10157 original size:22 final size:22
Alignment explanation
Indices: 10129--10184 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
10119 CATCACTATT
10129 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
10151 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
10173 CATCACTGTTCA
1 CATCACTGTTCA
10185 CACTATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:10688 original size:34 final size:35
Alignment explanation
Indices: 10625--10691 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
10615 CTAAGTGATT
10625 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
10661 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
10692 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:11811 original size:21 final size:21
Alignment explanation
Indices: 11785--11826 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11775 AATCAACCGT
* *
11785 TCAAGATGATGATGAAGATGA
1 TCAAGAGGATGATGAAAATGA
*
11806 TCAAGAGGTTGATGAAAATGA
1 TCAAGAGGATGATGAAAATGA
11827 AGAAATAGAT
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:0.43, C:0.05, G:0.29, T:0.24
Consensus pattern (21 bp):
TCAAGAGGATGATGAAAATGA
Found at i:16875 original size:13 final size:13
Alignment explanation
Indices: 16857--16881 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16847 CAAAGATCAG
16857 TGTATCGATACAA
1 TGTATCGATACAA
16870 TGTATCGATACA
1 TGTATCGATACA
16882 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:16948 original size:19 final size:18
Alignment explanation
Indices: 16924--17021 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
16914 TAGCTTACAT
16924 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
16943 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
16956 TGTATCGACACAACACTTA
1 TGTATCGATACAA-ACTTA
16975 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
16988 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
17008 TGTATCGATACAAA
1 TGTATCGATACAAA
17022 TCATTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 23 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:16960 original size:32 final size:32
Alignment explanation
Indices: 16919--17019 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
16909 GGTTGTAGCT
*
16919 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
16951 TACATTGTATCGACACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
16983 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
17016 TACA
1 TACA
17020 AATCATTGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 50 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.34
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:16961 original size:13 final size:13
Alignment explanation
Indices: 16943--16999 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
16933 ACAAAACTTA
16943 TGTATCGATACAT
1 TGTATCGATACAT
*
16956 TGTATCGACACAACACTT
1 TGTATCG--A-TACA--T
16974 ATGTATCGATACAT
1 -TGTATCGATACAT
16988 TGTATCGATACA
1 TGTATCGATACA
17000 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 19 0.53
14 1 0.03
15 1 0.03
16 6 0.17
17 1 0.03
18 1 0.03
19 7 0.19
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:17083 original size:21 final size:21
Alignment explanation
Indices: 17057--17098 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
17047 GTTGGGACCT
17057 TGTATCGATACATTTGAACAA
1 TGTATCGATACATTTGAACAA
*
17078 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
17099 AAATGTGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:18192 original size:70 final size:70
Alignment explanation
Indices: 18079--18218 Score: 262
Period size: 70 Copynumber: 2.0 Consensus size: 70
18069 TTTATCAAAC
* *
18079 TTAGCTTATAACAAAAAGGGGAAGAGATTATTGTTTATTGGTTTAAGGGTGACAACGTATTAAGG
1 TTAGCTTATAACAAAAAGGGGAAGAGATTATTATTTATTGGTTTAAGGGTGACAACGTATTAAAG
18144 GGGAG
66 GGGAG
18149 TTAGCTTATAACAAAAAGGGGAAGAGATTATTATTTATTGGTTTAAGGGTGACAACGTATTAAAG
1 TTAGCTTATAACAAAAAGGGGAAGAGATTATTATTTATTGGTTTAAGGGTGACAACGTATTAAAG
18214 GGGAG
66 GGGAG
18219 AGTTTGTATA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.36, C:0.06, G:0.29, T:0.30
Consensus pattern (70 bp):
TTAGCTTATAACAAAAAGGGGAAGAGATTATTATTTATTGGTTTAAGGGTGACAACGTATTAAAG
GGGAG
Found at i:19210 original size:10 final size:10
Alignment explanation
Indices: 19191--19221 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19181 CTCATTTTTT
19191 TCACTGTTCA
1 TCACTGTTCA
*
19201 TCACTATTCA
1 TCACTGTTCA
19211 TCACTGTTCA
1 TCACTGTTCA
19221 T
1 T
19222 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:19318 original size:22 final size:22
Alignment explanation
Indices: 19290--19332 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
19280 GTTCATCACA
19290 GTATCGATACATCACTGTTCAT
1 GTATCGATACATCACTGTTCAT
19312 GTATCGATACATCACTGTTCA
1 GTATCGATACATCACTGTTCA
19333 CACTATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (22 bp):
GTATCGATACATCACTGTTCAT
Found at i:19836 original size:34 final size:35
Alignment explanation
Indices: 19773--19839 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
19763 CTAAGTGATT
19773 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
19809 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
19840 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:26429 original size:19 final size:20
Alignment explanation
Indices: 26405--26457 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
26395 TAGCTTACAT
26405 TGTATCGATACAAAAC-TTA
1 TGTATCGATACAAAACTTTA
*
26424 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAACTTTA
26444 TGTATCGATACAAA
1 TGTATCGATACAAA
26458 TCGTTGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (20 bp):
TGTATCGATACAAAACTTTA
Found at i:30786 original size:52 final size:52
Alignment explanation
Indices: 30638--30764 Score: 236
Period size: 52 Copynumber: 2.4 Consensus size: 52
30628 CGAAATATGA
30638 AAATTTACCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
30690 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
30742 AAATTTACCTGCATGTATCGATA
1 AAATTTACCTGCATGTATCGATA
30765 TAAAGATCAG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTACCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:30793 original size:13 final size:13
Alignment explanation
Indices: 30775--30799 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30765 TAAAGATCAG
30775 TGTATCGATACAA
1 TGTATCGATACAA
30788 TGTATCGATACA
1 TGTATCGATACA
30800 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:31925 original size:47 final size:47
Alignment explanation
Indices: 31872--31961 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
31862 TAAAAAGACG
*
31872 TTAACCTATCTCAAAAATCATATAAACATTAGTATAGATTAAGAGCT
1 TTAACCTATCTCAAAAATCATATAAACATTAGTATACATTAAGAGCT
*
31919 TTAACCTATCTCAAAAATCATTTAAACATTAGTATACATTAAG
1 TTAACCTATCTCAAAAATCATATAAACATTAGTATACATTAAG
31962 CGCATACATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (47 bp):
TTAACCTATCTCAAAAATCATATAAACATTAGTATACATTAAGAGCT
Found at i:32176 original size:22 final size:23
Alignment explanation
Indices: 32139--32181 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
32129 ACAATATTTA
32139 ATTAAGAGACACAACCCTTTAAT
1 ATTAAGAGACACAACCCTTTAAT
* *
32162 ATTAA-AGACATAACCTTTTA
1 ATTAAGAGACACAACCCTTTA
32182 CTTATCACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (23 bp):
ATTAAGAGACACAACCCTTTAAT
Found at i:34501 original size:20 final size:20
Alignment explanation
Indices: 34473--34511 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
34463 CTACACAATT
*
34473 AGTGTATGTATCGATACATA
1 AGTGAATGTATCGATACATA
34493 AGTGAATGTATCGATACAT
1 AGTGAATGTATCGATACAT
34512 GTCTTAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (20 bp):
AGTGAATGTATCGATACATA
Found at i:34600 original size:20 final size:20
Alignment explanation
Indices: 34577--34614 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
34567 ATACATAAGT
34577 AAATGCATCGATACATTTCC
1 AAATGCATCGATACATTTCC
*
34597 AAATGTATCGATACATTT
1 AAATGCATCGATACATTT
34615 ATCGATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (20 bp):
AAATGCATCGATACATTTCC
Found at i:34689 original size:20 final size:20
Alignment explanation
Indices: 34664--34716 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
34654 TTGATCCAAA
34664 TGTATCGATACATTCTTTAT
1 TGTATCGATACATTCTTTAT
34684 TGTATCGATACATTCTTTAT
1 TGTATCGATACATTCTTTAT
34704 TGTATCGATACAT
1 TGTATCGATACAT
34717 GCAAGTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.47
Consensus pattern (20 bp):
TGTATCGATACATTCTTTAT
Found at i:38184 original size:27 final size:28
Alignment explanation
Indices: 38143--38209 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
38133 AATATAAAAT
* *
38143 AATTTAAATCAAAAATA-TT-TGAACTCA
1 AATTCAAATCTAAAATAGTTATGAACT-A
* *
38170 AATTCGAATCTAAAATAGTTATGACCTA
1 AATTCAAATCTAAAATAGTTATGAACTA
38198 AATTCAAATCTA
1 AATTCAAATCTA
38210 TTGAAACTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 14 0.42
28 14 0.42
29 5 0.15
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (28 bp):
AATTCAAATCTAAAATAGTTATGAACTA
Found at i:39786 original size:24 final size:24
Alignment explanation
Indices: 39735--39784 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
39725 ATATAATATG
*
39735 AATTTATATATAATATATTAATAA
1 AATTTATATATAATATATCAATAA
39759 AATTTATAT-TATATATTATCAATAA
1 AATTTATATATA-ATA-TATCAATAA
39784 A
1 A
39785 TTAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 2 0.09
24 12 0.52
25 9 0.39
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
AATTTATATATAATATATCAATAA
Found at i:39817 original size:17 final size:17
Alignment explanation
Indices: 39784--39817 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
39774 TTATCAATAA
* *
39784 ATTAAAAATATATTCAC
1 ATTAAAAATAAAATCAC
39801 ATTAAAAATAAAATCAC
1 ATTAAAAATAAAATCAC
39818 CAATAAATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTAAAAATAAAATCAC
Found at i:41108 original size:20 final size:20
Alignment explanation
Indices: 41072--41110 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
41062 ATAACTCTAA
*
41072 TTAATTTAACTACAATAATT
1 TTAATTTAAATACAATAATT
41092 TTAATATTAAATA-AATAAT
1 TTAAT-TTAAATACAATAAT
41111 AAATATATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAATTTAAATACAATAATT
Found at i:43421 original size:12 final size:13
Alignment explanation
Indices: 43390--43418 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
43380 AATATGAGTG
43390 AAAATATTTTTTA
1 AAAATATTTTTTA
43403 AAAATATTTTTTA
1 AAAATATTTTTTA
43416 AAA
1 AAA
43419 TATAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAATATTTTTTA
Found at i:45296 original size:31 final size:29
Alignment explanation
Indices: 45261--45325 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 29
45251 TTAACTAATT
* *
45261 TAATTTAATTTATTATTTATTTATAAAATAA
1 TAATTTAATTTA-AATTTAATTATAAAA-AA
*
45292 TAATTTTTATTTAAATTTAATTATAAAAAA
1 TAA-TTTAATTTAAATTTAATTATAAAAAA
45322 TAAT
1 TAAT
45326 AATATTAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 1 0.03
30 5 0.17
31 16 0.53
32 8 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TAATTTAATTTAAATTTAATTATAAAAAA
Found at i:52576 original size:12 final size:12
Alignment explanation
Indices: 52559--52583 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52549 AATAATCATC
52559 ATAATGACAAGT
1 ATAATGACAAGT
52571 ATAATGACAAGT
1 ATAATGACAAGT
52583 A
1 A
52584 AAAGAAAATT
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:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
ATAATGACAAGT
Found at i:54216 original size:22 final size:23
Alignment explanation
Indices: 54188--54243 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
54178 TGGACATGTT
54188 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
54210 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
54233 AAAAATGCATG
1 AAAAATGCATG
54244 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:55198 original size:20 final size:20
Alignment explanation
Indices: 55151--55225 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
55141 AAAAAGACAT
*
55151 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
55170 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
55191 CATGTATCGATATATTAAAA
1 AATGTATCGATACATTCATA
*
55211 AATGTATTGATACAT
1 AATGTATCGATACAT
55226 CAGGGTATGA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:55223 original size:40 final size:39
Alignment explanation
Indices: 55148--55225 Score: 93
Period size: 40 Copynumber: 2.0 Consensus size: 39
55138 GGTAAAAAGA
** *
55148 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTAAAAAATATATCGATACATT
* * *
55187 CATACATGTATCGATATATTAAAAAATGTATTGATACAT
1 CATA-ATGTATCGATACATTAAAAAATATATCGATACAT
55226 CAGGGTATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 4 0.12
40 28 0.88
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (39 bp):
CATAATGTATCGATACATTAAAAAATATATCGATACATT
Found at i:55801 original size:32 final size:32
Alignment explanation
Indices: 55760--56577 Score: 1422
Period size: 32 Copynumber: 25.6 Consensus size: 32
55750 GATTTGAAAA
* ** **
55760 GGGTTGCCACTGACTTGCATGGGCTTTTAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
* *
55792 GGGTTGCCACTGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
55824 GAGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
55856 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
55888 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
55920 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
55952 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
55984 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
56016 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
56048 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
56080 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
56112 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
56144 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
* * *
56176 AGGTTGCCACCAACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
56208 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
56240 GAGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
56272 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
56304 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
56336 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
56368 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
56400 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
56432 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
56464 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
56496 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
* *
56528 GGGTTGCCACTGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
* *
56560 GGG-TGCCACGGAGTTGTG
1 GGGTTGCCACCGACTTGTG
56578 GATTTAAAAG
Statistics
Matches: 763, Mismatches: 23, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
31 13 0.02
32 750 0.98
ACGTcount: A:0.14, C:0.18, G:0.36, T:0.31
Consensus pattern (32 bp):
GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
Found at i:56594 original size:27 final size:27
Alignment explanation
Indices: 56560--57053 Score: 765
Period size: 27 Copynumber: 18.0 Consensus size: 27
56550 GCTTTGAAAT
*
56560 GGGTGCCACGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
56587 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
56614 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
56641 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
56668 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
56696 GGGATGCCACAGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
56724 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
56751 GGGTGCCACGGAGTTGTGGACTTAAAGA
1 GGGTGCCACGGAGTTGTGGACTTAAA-A
56779 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
56807 GAGCGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
56834 GGGTGCCACGGAGTTGTGGACTTTGAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
56862 -GGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
56888 GGGTGCCACGGAGCTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* **
56916 GAGTGCCACGGAGTTGTGGACTTTGAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
56943 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
56970 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
56998 GGGTGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
57026 GGATGCCACGGAGTTGTGGACTTCAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
57054 AGAAATGCCA
Statistics
Matches: 431, Mismatches: 28, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
26 5 0.01
27 241 0.56
28 180 0.42
29 5 0.01
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:56695 original size:82 final size:81
Alignment explanation
Indices: 56560--57053 Score: 765
Period size: 82 Copynumber: 6.0 Consensus size: 81
56550 GCTTTGAAAT
* *
56560 GGGTGCCACGGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
56625 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
*
56641 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGATGCCAC
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCAC
*
56706 AGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
56724 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGGTGCCACG
56789 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
* * * * *
56807 GAGCGCTACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTGAAA-GGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
56871 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * **
56888 GGGTGCCACGGAGCTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTTGAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
56953 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
56970 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGATGCCAC
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCAC
57035 GGAGTTGTGGACTTCAAAA
64 GGAGTTGTGGACTT-AAAA
57054 AGAAATGCCA
Statistics
Matches: 379, Mismatches: 25, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
81 54 0.14
82 183 0.48
83 134 0.35
84 8 0.02
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.23
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:56717 original size:110 final size:110
Alignment explanation
Indices: 56560--57053 Score: 786
Period size: 110 Copynumber: 4.5 Consensus size: 110
56550 GCTTTGAAAT
56560 GGGTGCCACGGAGTTGTGGA-TTTAAAA-GGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
1 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
*
56623 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAA
66 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
56668 GGGATGCCACGGAGTTGTGGAC-TTAAAAGGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCA
1 GGG-TGCCACGGAGTTGTGGACTTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
56732 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGA
65 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-A
* * *
56779 GGGTGCCACGGAGTTGTGGACTTTAAAAGAG-CGCTACGGAGTTGTGGACTTAAAAGGGTGCCAC
1 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
* *
56843 GGAGTTGTGGACTTTGAAA-GGTGCCACAGAGTTGTGGACTTAAAA
66 GGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * **
56888 GGGTGCCACGGAGCTGTGGACTTTAAAAGAG-TGCCACGGAGTTGTGGACTTTGAAGGGTGCCAC
1 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
56952 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
66 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
*
56998 GGGTGCCACAGAGTTGTGGACTTTAAAA-GGATGCCACGGAGTTGTGGACTTCAAAA
1 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGATGCCACGGAGTTGTGGACTT-AAAA
57054 AGAAATGCCA
Statistics
Matches: 356, Mismatches: 20, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
108 8 0.02
109 115 0.32
110 214 0.60
111 19 0.05
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.23
Consensus pattern (110 bp):
GGGTGCCACGGAGTTGTGGACTTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:62951 original size:12 final size:12
Alignment explanation
Indices: 62934--62958 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62924 AATAATCATC
62934 ATAATGACAAGT
1 ATAATGACAAGT
62946 ATAATGACAAGT
1 ATAATGACAAGT
62958 A
1 A
62959 AAAGAAAATT
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:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
ATAATGACAAGT
Found at i:64591 original size:22 final size:23
Alignment explanation
Indices: 64563--64618 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
64553 TGGACATGTT
64563 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
64585 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
64608 AAAAATGCATG
1 AAAAATGCATG
64619 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:65575 original size:20 final size:20
Alignment explanation
Indices: 65528--65602 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
65518 AAAAAGACAT
*
65528 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
65547 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
65568 CATGTATCGATATATTAAAA
1 AATGTATCGATACATTCATA
*
65588 AATGTATTGATACAT
1 AATGTATCGATACAT
65603 CAGGGTATGA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:65600 original size:40 final size:39
Alignment explanation
Indices: 65525--65602 Score: 93
Period size: 40 Copynumber: 2.0 Consensus size: 39
65515 GGTAAAAAGA
** *
65525 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTAAAAAATATATCGATACATT
* * *
65564 CATACATGTATCGATATATTAAAAAATGTATTGATACAT
1 CATA-ATGTATCGATACATTAAAAAATATATCGATACAT
65603 CAGGGTATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 4 0.12
40 28 0.88
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (39 bp):
CATAATGTATCGATACATTAAAAAATATATCGATACATT
Found at i:68150 original size:15 final size:15
Alignment explanation
Indices: 68120--68149 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
68110 CCTGAAAACC
68120 ATATAAAATTGTAAA
1 ATATAAAATTGTAAA
68135 ATATAAAA-TGTAAA
1 ATATAAAATTGTAAA
68149 A
1 A
68150 AGAGTAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATATAAAATTGTAAA
Found at i:69010 original size:16 final size:17
Alignment explanation
Indices: 68981--69018 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
68971 TTAAATGTAA
*
68981 TTAAAAATGAAAATTAG
1 TTAAAAATGAAAATAAG
*
68998 TTAAAAAT-CAAATAAG
1 TTAAAAATGAAAATAAG
69014 TTAAA
1 TTAAA
69019 TTAAATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (17 bp):
TTAAAAATGAAAATAAG
Found at i:70017 original size:2 final size:2
Alignment explanation
Indices: 70005--70053 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
69995 TAACAACCTC
70005 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70046 AT AT AT AT
1 AT AT AT AT
70054 TTGAGAGACA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:70328 original size:22 final size:23
Alignment explanation
Indices: 70303--70352 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
70293 TAAAAAATCT
*
70303 TTTAATAAATTTAA-AATTTTTA
1 TTTAATAAATTTAATAAGTTTTA
70325 TTT-ATAAATTTAATAAGTTTTA
1 TTTAATAAATTTAATAAGTTTTA
70347 -TTAATA
1 TTTAATA
70353 TTTATATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
TTTAATAAATTTAATAAGTTTTA
Found at i:70331 original size:21 final size:22
Alignment explanation
Indices: 70307--70348 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
70297 AAATCTTTTA
*
70307 ATAAATTTAA-AATTTTTATTT
1 ATAAATTTAATAAGTTTTATTT
70328 ATAAATTTAATAAGTTTTATT
1 ATAAATTTAATAAGTTTTATT
70349 AATATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATAAATTTAATAAGTTTTATTT
Found at i:76498 original size:3 final size:3
Alignment explanation
Indices: 76490--76541 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
76480 CGGTAAGGTT
*
76490 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC GTC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
76538 ATC A
1 ATC A
76542 CAAAACTCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.33, C:0.33, G:0.02, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:77201 original size:28 final size:29
Alignment explanation
Indices: 77140--77198 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
77130 AGGTTATATT
* * *
77140 AATTTTTATTTTTATAATATTGAATAAAA
1 AATTATTATTTTTAAAATATCGAATAAAA
77169 AATTATTATTTTTAAAATTATCG-ATAAAA
1 AATTATTATTTTTAAAA-TATCGAATAAAA
77198 A
1 A
77199 TTAAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (29 bp):
AATTATTATTTTTAAAATATCGAATAAAA
Found at i:77526 original size:90 final size:91
Alignment explanation
Indices: 77413--77596 Score: 291
Period size: 90 Copynumber: 2.0 Consensus size: 91
77403 AAATCATGAA
**
77413 TATTAATATAACTTAAATGAATTAAATTTTGATATCATCTTAATTTTTTAA-CATATCAAATTTG
1 TATTAATATAACTTAAATGAATTAAATTTTGATATCATCTTAATTTTTTAATCA-ATCAAATTAA
*
77477 TATATTCGTATTATATTTATGTT-TTT
65 TATATTAGTATTATATTTATGTTCTTT
* * *
77503 TATTAATATAATTTAGATGAATTAAATTTTGATATCATCTTAATTTTTTAATGAATCAAATTAAT
1 TATTAATATAACTTAAATGAATTAAATTTTGATATCATCTTAATTTTTTAATCAATCAAATTAAT
77568 ATATTAGTATTATATTTATGTTCTTT
66 ATATTAGTATTATATTTATGTTCTTT
77594 TAT
1 TAT
77597 ATCTATACAT
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
90 79 0.92
91 7 0.08
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.52
Consensus pattern (91 bp):
TATTAATATAACTTAAATGAATTAAATTTTGATATCATCTTAATTTTTTAATCAATCAAATTAAT
ATATTAGTATTATATTTATGTTCTTT
Found at i:77940 original size:9 final size:10
Alignment explanation
Indices: 77924--77948 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
77914 TTTCTAACTC
77924 ATTTTTTTTA
1 ATTTTTTTTA
77934 ATTTTTTTTA
1 ATTTTTTTTA
77944 ATTTT
1 ATTTT
77949 GATCTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (10 bp):
ATTTTTTTTA
Found at i:79379 original size:33 final size:32
Alignment explanation
Indices: 79342--79407 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 32
79332 GTAAAATCTT
* *
79342 AATAAAATATTTTTTATTTTTTAAAAATAGAAA
1 AATAAAATATGTTTTATTTTTGAAAAAT-GAAA
79375 AATAAAATATGTTTTATTTTTGAAAAATGAAA
1 AATAAAATATGTTTTATTTTTGAAAAATGAAA
79407 A
1 A
79408 CGTTTAGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 5 0.16
33 26 0.84
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (32 bp):
AATAAAATATGTTTTATTTTTGAAAAATGAAA
Found at i:80641 original size:85 final size:85
Alignment explanation
Indices: 80448--80696 Score: 281
Period size: 85 Copynumber: 2.9 Consensus size: 85
80438 GTAATGCATG
* * * * * *
80448 GATTGTAAATGTCAGACT-AAAGGATTAGAGTAATGCATGGATTGTACT-TAAGAATTAGATTCC
1 GATTATAAATGTCAAACTGCAAGGATTAGACTAATGCATGAATTGTA-TATAAGAATTAGATTCT
* *
80511 TTTTGAT-AAAAAAGTTGATT
65 TTTTGGTAAAAAAAATTGATT
* * * * *
80531 AATTACAAATGTCAAACTGCAAGGATTGGACTAATACATGAATTGTATATGAGAATTAGATTCTT
1 GATTATAAATGTCAAACTGCAAGGATTAGACTAATGCATGAATTGTATATAAGAATTAGATTCTT
80596 TTTGGTAAAAAAAATTGATT
66 TTTGGTAAAAAAAATTGATT
* * * *
80616 GATTTTAAATGTCAAACTGCAAGGATTAGACTGATGCATAAAATGTATATAAGAATT-GAATTCT
1 GATTATAAATGTCAAACTGCAAGGATTAGACTAATGCATGAATTGTATATAAGAATTAG-ATTCT
80680 TTTTGGTAGGAAAAAAA
65 TTTTGGTA--AAAAAAA
80697 GAAAAGAAAA
Statistics
Matches: 138, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
83 15 0.11
84 43 0.31
85 73 0.53
87 7 0.05
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (85 bp):
GATTATAAATGTCAAACTGCAAGGATTAGACTAATGCATGAATTGTATATAAGAATTAGATTCTT
TTTGGTAAAAAAAATTGATT
Found at i:81137 original size:22 final size:22
Alignment explanation
Indices: 81107--81150 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
81097 ATTTATATTC
81107 AATAATTATTTGTTATAATTTG
1 AATAATTATTTGTTATAATTTG
* *
81129 AATACTTATTTTTTATAATTTG
1 AATAATTATTTGTTATAATTTG
81151 GATGATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (22 bp):
AATAATTATTTGTTATAATTTG
Found at i:85835 original size:52 final size:52
Alignment explanation
Indices: 85765--85885 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
85755 GAAAATTTAT
*
85765 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
85817 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
85869 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
85886 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:85898 original size:52 final size:51
Alignment explanation
Indices: 85765--85905 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
85755 GAAAATTTAT
85765 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
85817 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
85869 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
85906 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:85912 original size:13 final size:13
Alignment explanation
Indices: 85894--85918 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85884 CAAAGATCAG
85894 TGTATCGATACAA
1 TGTATCGATACAA
85907 TGTATCGATACA
1 TGTATCGATACA
85919 TGTGAGTAAT
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:86002 original size:13 final size:13
Alignment explanation
Indices: 85984--86008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85974 CAAAAAAATA
85984 TGTATCGATACAT
1 TGTATCGATACAT
85997 TGTATCGATACA
1 TGTATCGATACA
86009 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:86004 original size:33 final size:33
Alignment explanation
Indices: 85962--86028 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
85952 AGTAGCTTAA
85962 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
85995 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
86028 A
1 A
86029 GATCGTTGAA
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:88198 original size:21 final size:20
Alignment explanation
Indices: 88150--88207 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
88140 TTGTTGGGCC
88150 AAATGTATCGATACAATTTA
1 AAATGTATCGATACAATTTA
* *
88170 TAATGTATCAATACAATTTA
1 AAATGTATCGATACAATTTA
88190 AACATGTATCGATACAAT
1 AA-ATGTATCGATACAAT
88208 CAGAGGGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (20 bp):
AAATGTATCGATACAATTTA
Found at i:89433 original size:25 final size:26
Alignment explanation
Indices: 89377--89433 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
89367 AATCACAATT
* *
89377 CAATCAAAAACATTTATAAACATTAA
1 CAATTAAAAACAATTATAAACATTAA
*
89403 -ATTTAAAAACAATTAT-AACATTAA
1 CAATTAAAAACAATTATAAACATTAA
89427 CAATTAA
1 CAATTAA
89434 CACCAAACAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (26 bp):
CAATTAAAAACAATTATAAACATTAA
Found at i:89788 original size:20 final size:21
Alignment explanation
Indices: 89745--89788 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
89735 GATGCAATAT
89745 ATCTACAAATTCGAGTATTAC
1 ATCTACAAATTCGAGTATTAC
89766 ATCTACAAATTCGAGTA-TAC
1 ATCTACAAATTCGAGTATTAC
89786 ATC
1 ATC
89789 ATCTTTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (21 bp):
ATCTACAAATTCGAGTATTAC
Found at i:94725 original size:21 final size:20
Alignment explanation
Indices: 94677--94738 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
94667 CCATTGGGCC
94677 AAATGTATCGATACAATTCA
1 AAATGTATCGATACAATTCA
* * *
94697 GAATGTATTGATACAATTTA
1 AAATGTATCGATACAATTCA
94717 AACATGTATCGATACAA-TCA
1 AA-ATGTATCGATACAATTCA
94737 AA
1 AA
94739 GGGTTGTATC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 22 0.63
21 13 0.37
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (20 bp):
AAATGTATCGATACAATTCA
Found at i:94749 original size:22 final size:22
Alignment explanation
Indices: 94721--94762 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
94711 AATTTAAACA
94721 TGTATCGATACAATCAAAGGGT
1 TGTATCGATACAATCAAAGGGT
*
94743 TGTATCGATATAATCAAAGG
1 TGTATCGATACAATCAAAGG
94763 TTAGCTACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (22 bp):
TGTATCGATACAATCAAAGGGT
Found at i:95694 original size:24 final size:23
Alignment explanation
Indices: 95662--95712 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
95652 ATCAAATAAA
*
95662 AAATAAATTTAATAAAGATAAATT
1 AAATAAATTTAATAAAGA-AAAAT
* *
95686 AAATTAATTTTATAAAGAAAAAT
1 AAATAAATTTAATAAAGAAAAAT
95709 AAAT
1 AAAT
95713 CATACCTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
AAATAAATTTAATAAAGAAAAAT
Found at i:96920 original size:18 final size:17
Alignment explanation
Indices: 96888--96926 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
96878 ATTAAACTTA
*
96888 ATAATTTTAAACATAAT
1 ATAATTATAAACATAAT
96905 ATAATTATACAACATAAT
1 ATAATTATA-AACATAAT
96923 ATAA
1 ATAA
96927 AAAGTAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAATTATAAACATAAT
Found at i:101810 original size:19 final size:18
Alignment explanation
Indices: 101786--101848 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
101776 AAACCGTAAC
101786 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
101805 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
101818 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
101837 TGTATCGATACA
1 TGTATCGATACA
101849 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:101823 original size:13 final size:13
Alignment explanation
Indices: 101805--101829 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101795 ACATAAGTGT
101805 TGTATCGATACAA
1 TGTATCGATACAA
101818 TGTATCGATACA
1 TGTATCGATACA
101830 TAAGTTTTGT
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:101827 original size:32 final size:32
Alignment explanation
Indices: 101786--101856 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
101776 AAACCGTAAC
101786 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
101818 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
101850 TGTATCG
1 TGTATCG
101857 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:107675 original size:13 final size:13
Alignment explanation
Indices: 107657--107682 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107647 TACACTCCTA
107657 TGTATCGATACAT
1 TGTATCGATACAT
107670 TGTATCGATACAT
1 TGTATCGATACAT
107683 GCATTTGAAA
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:108611 original size:21 final size:20
Alignment explanation
Indices: 108577--108642 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
108567 TACTTCTCCC
*
108577 TTTTAATGACTTCTCCCCCT
1 TTTTAAAGACTTCTCCCCCT
108597 TTTTAAAGTACTTCT--CCC-
1 TTTTAAAG-ACTTCTCCCCCT
*
108615 TTTTAACA-ACTTATCCCCCT
1 TTTTAA-AGACTTCTCCCCCT
108635 TTTTAAAG
1 TTTTAAAG
108643 CTCTAAAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
17 5 0.13
18 6 0.16
19 8 0.21
20 13 0.34
21 6 0.16
ACGTcount: A:0.23, C:0.29, G:0.05, T:0.44
Consensus pattern (20 bp):
TTTTAAAGACTTCTCCCCCT
Found at i:108613 original size:38 final size:38
Alignment explanation
Indices: 108567--108642 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
108557 TAAAAATTCA
** *
108567 TACTTCTCCCTTTTAATGACTTCTCCCCCTTTTTAAAG
1 TACTTCTCCCTTTTAACAACTTATCCCCCTTTTTAAAG
108605 TACTTCTCCCTTTTAACAACTTATCCCCCTTTTTAAAG
1 TACTTCTCCCTTTTAACAACTTATCCCCCTTTTTAAAG
108643 CTCTAAAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.21, C:0.32, G:0.04, T:0.43
Consensus pattern (38 bp):
TACTTCTCCCTTTTAACAACTTATCCCCCTTTTTAAAG
Found at i:108786 original size:24 final size:25
Alignment explanation
Indices: 108745--108794 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
108735 TAATATCATG
*
108745 GCAAACATTAATTGCATTCATGAAA
1 GCAAACATTAATTGCATTCATCAAA
*
108770 GCAAACA-TAATTTCATTCATCAAA
1 GCAAACATTAATTGCATTCATCAAA
108794 G
1 G
108795 AAATTCAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (25 bp):
GCAAACATTAATTGCATTCATCAAA
Found at i:116754 original size:43 final size:43
Alignment explanation
Indices: 116689--116799 Score: 113
Period size: 42 Copynumber: 2.6 Consensus size: 43
116679 AATACTCTCT
* * *
116689 CTTAACAAATTATCCCTTTTTTATAAAA-ACA-ACTTTTCTCCCC
1 CTTAATAAATTCTCCCTCTTTTATAAAACACATAC--TTCTCCCC
* *
116732 CTTAATAAATTCTCCCCCTTTTA-AAAACTCATACTTCTCCCC
1 CTTAATAAATTCTCCCTCTTTTATAAAACACATACTTCTCCCC
* *
116774 TTTAATAACTTCTCCCTCTTTT-TAAA
1 CTTAATAAATTCTCCCTCTTTTATAAA
116800 GCTCTAAAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
42 34 0.60
43 21 0.37
44 2 0.04
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (43 bp):
CTTAATAAATTCTCCCTCTTTTATAAAACACATACTTCTCCCC
Found at i:117571 original size:61 final size:61
Alignment explanation
Indices: 117375--117966 Score: 478
Period size: 61 Copynumber: 9.4 Consensus size: 61
117365 AACCTTTTAT
* * * *
117375 CCTTTCAGTCCTTAATGAGCAGGACGCCTTTTCCTTTTAAAACCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
117436 CCTTTTAGTCCT-AGAAGAGCAAGACACTCTTTTTCTGTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCA-AAGAGCAGGACAC-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * ** * *
117498 CCTTTAAGTCCTCAAAAAGCAGGACGCCTTTTCCTTTTAAAGCCCACATGAGTTTGTCGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
117559 CTTTTCAATCCTCAAAGAGTAGGATATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
117620 CCTTTCAGTCCTCAAAGAGCATGACACATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *** * *
117681 CCTTTCAGTCCTCAAA-ATGTAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTAGTA
1 CCTTTCAGTCCTCAAAGA-GCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** *
117742 -CTTTCTAGTCCCCAAAGAGCAAAACA-ATTTT--TTTAAAAAAAATAAGTCAAGCCCACACAAG
1 CCTTTC-AGTCCTCAAAGAGCAGGACACCTTTTCCTTT--------T-A---AAGCCCACACAAG
* *
117803 CTAGTGGCA
53 TTGGTGGCA
* * *
117812 CC-TTCTAGTCCTCAAAGAGCATGATGCCTCTCACATTTTCCTTTTAAAGCCCACACAAGTTGCT
1 CCTTTC-AGTCCTCAAAGAGCA-G--G----ACACCTTTTCCTTTTAAAGCCCACACAAGTTGGT
*
117876 GACA
58 GGCA
* * * * * ** * *
117880 CCTTTTAATCTTCAAAAAGCAAGACGTCTTTTCCTTTCAAAGGCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
117941 CCTTTTAGTCCCCAAAGAGCAGGACA
1 CCTTTCAGTCCTCAAAGAGCAGGACA
117967 TTTTTTTTAA
Statistics
Matches: 419, Mismatches: 82, Indels: 60
0.75 0.15 0.11
Matches are distributed among these distances:
58 3 0.01
60 11 0.03
61 265 0.63
62 53 0.13
63 1 0.00
65 1 0.00
66 1 0.00
67 1 0.00
68 32 0.08
69 2 0.00
70 36 0.09
71 2 0.00
72 1 0.00
77 2 0.00
78 5 0.01
80 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (61 bp):
CCTTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:117931 original size:199 final size:197
Alignment explanation
Indices: 117596--118080 Score: 594
Period size: 199 Copynumber: 2.5 Consensus size: 197
117586 CTTTTCCTTT
*
117596 TAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCATGA-------CACATTTTC
1 TAAAGCCCACACAAGCTGGTGGCACCTTCT-AGTCCTCAAAGAGCATGATGCCTCTCACATTTTC
* * * * *
117653 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAATGTAGGATGTCTTTTCCTTT
65 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAAAGCAAGACGTCTTTTCCTTT
* *
117718 TAAAGCCCACACAAGTTGGTAGTA-CTTTCTAGTCCCCAAAGAGCAAAACAATTTTTTTAAAAAA
130 CAAAGCCCACACAAGTTGGTAGCACCTTT-TAGTCCCCAAAGAGCAAAAC-ATTTTTTTAAAAAA
117782 AATAAG
193 AA-AAG
* *
117788 TCAAGCCCACACAAGCTAGTGGCACCTTCTAGTCCTCAAAGAGCATGATGCCTCTCACATTTTCC
1 TAAAGCCCACACAAGCTGGTGGCACCTTCTAGTCCTCAAAGAGCATGATGCCTCTCACATTTTCC
* * * *
117853 TTTTAAAGCCCACACAAGTTGCTGACACCTTTTAATCTTCAAAAAGCAAGACGTCTTTTCCTTTC
66 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAAAGCAAGACGTCTTTTCCTTTC
* * ** * *
117918 AAAGGCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGACATTTTTTTTAAGAAAAA
131 AAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCCCAAAGAGCAAAACATTTTTTTAAAAAAAAA
117983 AG
196 AG
* * ** * * *
117985 TAAAGCCTACATAAGCTGGTGG-ACCCTTCTAGTCCTCAAAGAATAGGATGCCTCTCTCCTTTTC
1 TAAAGCCCACACAAGCTGGTGGCA-CCTTCTAGTCCTCAAAGAGCATGATGCCTCTCACATTTTC
*
118049 CATCTTAAAGCCCACACAAGTTGGTGGCACCT
65 C-TTTTAAAGCCCACACAAGTTGGTGGCACCT
118081 ATCTCTTCAA
Statistics
Matches: 250, Mismatches: 32, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
192 43 0.17
193 1 0.00
196 1 0.00
197 57 0.23
198 41 0.16
199 103 0.41
200 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (197 bp):
TAAAGCCCACACAAGCTGGTGGCACCTTCTAGTCCTCAAAGAGCATGATGCCTCTCACATTTTCC
TTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAAAGCAAGACGTCTTTTCCTTTC
AAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCCCAAAGAGCAAAACATTTTTTTAAAAAAAAA
AG
Found at i:119081 original size:16 final size:17
Alignment explanation
Indices: 119050--119081 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
119040 GGATCTTTTG
119050 GCAGTAAAAAAGTCCCA
1 GCAGTAAAAAAGTCCCA
119067 GCAGTAAAAAA-TCCC
1 GCAGTAAAAAAGTCCC
119082 CTTGACACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.47, C:0.25, G:0.16, T:0.12
Consensus pattern (17 bp):
GCAGTAAAAAAGTCCCA
Found at i:121027 original size:51 final size:50
Alignment explanation
Indices: 120971--121120 Score: 140
Period size: 51 Copynumber: 3.0 Consensus size: 50
120961 TCATTCATGT
* *
120971 TTTTATTTCTAAAATACCAATTTTCTACCATTAGGGATACTCCAACCCTG
1 TTTTATTTCTAAAACACCAATTTTCTACCATTAGGGATACTCCAACCCAG
* * * ** *
121021 ATTTTATTTCTAAAGCACAAATTTTCAACCATCGGGGATACTCTAACTCCAG
1 -TTTTATTTCTAAAACACCAATTTTCTACCATTAGGGATACTCCAAC-CCAG
** * * * *
121073 TAATATTTCCAAAACATCGATTTTCTACCA-TCGAGGATACTCCAACCC
1 TTTTATTTCTAAAACACCAATTTTCTACCATTAG-GGATACTCCAACCC
121121 GTTATTTCTG
Statistics
Matches: 78, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
50 3 0.04
51 72 0.92
52 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.33
Consensus pattern (50 bp):
TTTTATTTCTAAAACACCAATTTTCTACCATTAGGGATACTCCAACCCAG
Found at i:121238 original size:128 final size:130
Alignment explanation
Indices: 121003--121329 Score: 346
Period size: 129 Copynumber: 2.5 Consensus size: 130
120993 TTCTACCATT
* * * * *
121003 AGGGATACTCCAACCCTGATTTTATTTCTAA-AGCA-CAAATTTTCAACCATCGGGGATACTCTA
1 AGGGATACTCTAACCCCGATTTTATTTCCAACA-CATC-GATTTTCCACCATCGGGGATACTCTA
* * * *
121066 ACTCC-AGTAATATTTCCAAAACATCGATTTTCTACCATCGAGGATACTCCAA-CCCGTTATTTC
64 ACCCCGAGTAATATTTCCAAAACATCAATTTTCTA-CATCAAGGATACTCCAACCCCATTATTTC
121129 TGA
128 TGA
* *
121132 AGGGATACTCTAACCCCGGTTTTATTTCCCAA-ACATCGA-TTTCCACCATCAGGGATACTCTAA
1 AGGGATACTCTAACCCCGATTTTATTT-CCAACACATCGATTTTCCACCATCGGGGATACTCTAA
** *
121195 CCCCGA-TTTTATTTTCAAAACATCAATTTTTCATA-ATCAAGGATACTCCAACCCCATTATTTC
65 CCCCGAGTAATATTTCCAAAACATCAA-TTTTC-TACATCAAGGATACTCCAACCCCATTATTTC
121258 TGA
128 TGA
* * * * * ** *
121261 GGGGATATTCTAACCTCGATTTTATTTCCAACGCATCGATTTTTCATAATCGGGGATACTCCAAC
1 AGGGATACTCTAACCCCGATTTTATTTCCAACACATCGATTTTCCACCATCGGGGATACTCTAAC
121326 CCCG
66 CCCG
121330 TTATTTCTGA
Statistics
Matches: 166, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
128 60 0.36
129 75 0.45
130 31 0.19
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (130 bp):
AGGGATACTCTAACCCCGATTTTATTTCCAACACATCGATTTTCCACCATCGGGGATACTCTAAC
CCCGAGTAATATTTCCAAAACATCAATTTTCTACATCAAGGATACTCCAACCCCATTATTTCTGA
Found at i:121281 original size:79 final size:79
Alignment explanation
Indices: 121183--121600 Score: 405
Period size: 79 Copynumber: 5.3 Consensus size: 79
121173 TCCACCATCA
* *
121183 GGGATACTCTAACCCCGATTTTATTT-TCAAAACATCAATTTTTCATAATCAAGGATACTCCAAC
1 GGGATACTCCAACCCCGATTTTATTTCT-AAAACATCAATTTTTCATAATCGAGGATACTCCAAC
*
121247 CCCATTATTTCTGAG
65 CCCGTTATTTCTGAG
* * * * ** * *
121262 GGGATATTCTAACCTCGATTTTATTTCCAACGCATCGATTTTTCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAACC
121327 CCGTTATTTCTGAG
66 CCGTTATTTCTGAG
* * ** *
121341 GGGATACTCCAACCCCAATTTTCATTTCTAAAACGTTGATTTTTCATAATCGGGGATACTCC-AC
1 GGGATACTCCAACCCCGATTTT-ATTTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAAC
* * *
121405 CCTGTTATTT-TCAAA
65 CCCGTTATTTCT-GAG
**
121420 GGGATACTCCAACCCCTG-TTTTATTTCTAAAACATCAATTTTTCATAATCGAGGATACTTTAA-
1 GGGATACTCCAACCCC-GATTTTATTTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAAC
* * *
121483 CCCGGTATTTTTGAA
65 CCCGTTATTTCTGAG
* * * * * * * * * ** *
121498 GAGATACTTCAACTCCAATTTTGTTTCCAAAACATCGATTCTCCACCATCGAGGATACTTCAACC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAACC
* *
121563 CTGTTATTTTTGAG
66 CCGTTATTTCTGAG
* *
121577 GGGATCCTCCAACCCCGTTTTTAT
1 GGGATACTCCAACCCCGATTTTAT
121601 CTCCAAAATA
Statistics
Matches: 278, Mismatches: 53, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
78 94 0.34
79 150 0.54
80 34 0.12
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (79 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAACC
CCGTTATTTCTGAG
Found at i:127369 original size:122 final size:122
Alignment explanation
Indices: 127095--127691 Score: 500
Period size: 122 Copynumber: 4.7 Consensus size: 122
127085 AACTTTTTAT
*** * *
127095 CCTTTCAGTCCTCAAAGAGCAAGACGTTTTTTCCTTCTAAAGCCCACACAAGTTGCTGGCACCTT
1 CCTTTCAGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * * * *
127160 TTAGTCCTCGAAGAGCAGGACACTTTTTTTCTATTAAAGCTCACACAAGTTGGTGGCA
66 TTAGTCTTCAAAGAGCAGGACA-TCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * **
127218 ACTTTCAATCCTTAAAGAGCAGGATACCTTTTCCTTTTAAAGCCCACATGAGTTGGTGGCACCTT
1 CCTTTCAGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
*
127283 TT-GATCTTCAAAGAGCAAGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
66 TTAG-TCTTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
127340 CCTTTCAGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGACACCTT
1 CCTTTCAGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * **
127405 TCAGTCTTCAAAGAGCAGGACGTCTTTTCCTTTCAAAG-CCACACAAACTGGTGGCA
66 TTAGTCTTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * **
127461 TC-TTCTAGT-CTCTAAAGAGCAGGACACTTCTTTTTTTTAAAAAAAAAGGTAAGTAAAGCCCAC
1 CCTTTC-AGTCCTC-AAAGAGCAAGACAC--CTTTTCCTT-----------T---TAAAGCCCAC
* * * * * *
127524 ACAAGCTGGTGACACCTTCTAGTCCTCAGAGAGCAGGACGCCTCTCACCTTTTCCTTTTAAAGCC
48 ACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAGGA-------CATCTTTTCCTTTTAAAGCC
*
127589 CACATAAGTTGGTAGGCA
106 CACACAAGTTGGT-GGCA
* * * ** * * *
127607 CCTTTCAATCCTCAAAGAGTAGGACGTCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGGACTTT
1 CCTTTCAGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
**
127672 TTAGTCCCCAAAGAGCAGGA
66 TTAGTCTTCAAAGAGCAGGA
127692 TATTTTTTTT
Statistics
Matches: 380, Mismatches: 63, Indels: 55
0.76 0.13 0.11
Matches are distributed among these distances:
120 6 0.02
121 33 0.09
122 121 0.32
123 78 0.21
130 40 0.11
133 1 0.00
134 1 0.00
137 43 0.11
144 22 0.06
145 11 0.03
146 18 0.05
147 6 0.02
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (122 bp):
CCTTTCAGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
TTAGTCTTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:127478 original size:60 final size:62
Alignment explanation
Indices: 127095--127486 Score: 426
Period size: 61 Copynumber: 6.4 Consensus size: 62
127085 AACTTTTTAT
* * * *
127095 CCTTTCAGTC-CTCAAAGAGCAAGACGTTTTTTCCTTCTAAAGCCCACACAAGTTGCTGGCA
1 CCTTTCAGTCTCTCAAAGAGCAAGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
127156 CCTTTTAGTC-CTCGAAGAGCAGGACACTTTTTTTCTATTAAAGCTCACACAAGTTGGTGGCA
1 CCTTTCAGTCTCTCAAAGAGCAAGACA-TCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * **
127218 ACTTTCAATC-CTTAAAGAGCAGGATACCTTTTCCTTTTAAAGCCCACATGAGTTGGTGGCA
1 CCTTTCAGTCTCTCAAAGAGCAAGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
127279 CCTTT-TGATCT-TCAAAGAGCAAGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAG-TCTCTCAAAGAGCAAGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
127340 CCTTTCAGTC-CTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGACA
1 CCTTTCAGTCTCTCAAAGAGCAAGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * **
127401 CCTTTCAGTCT-TCAAAGAGCAGGACGTCTTTTCCTTTCAAAG-CCACACAAACTGGTGGCA
1 CCTTTCAGTCTCTCAAAGAGCAAGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
127461 TC-TTCTAGTCTCT-AAAGAGCAGGACA
1 CCTTTC-AGTCTCTCAAAGAGCAAGACA
127487 CTTCTTTTTT
Statistics
Matches: 280, Mismatches: 43, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
59 3 0.01
60 33 0.12
61 193 0.69
62 51 0.18
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (62 bp):
CCTTTCAGTCTCTCAAAGAGCAAGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:127774 original size:197 final size:199
Alignment explanation
Indices: 127364--127806 Score: 572
Period size: 197 Copynumber: 2.2 Consensus size: 199
127354 AAGAGCAAGA
* * *
127364 CACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGACACCTTTCAGTCTTCAAAGAGCAGGACGTC
1 CACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAGGACGTC
* * *
127429 TTTTCCTTTCAAAGCCACACAAACTGGTGGCATCTTCTAGTCTCTAAAGAGCAGGACACTTCTTT
66 TTTTCCTTTCAAAGCCACACAAACTGGTGGCATCTTCTAGTCCCCAAAGAGCAGGA-AC-TATTT
* * * *
127494 TTTTTAAAAAAAAAGGTAAGTAAAGCCCACACAAGCTGGTGACACCTTCTAGTCCTCAGAGAGCA
129 TTTTT--AAAAAAA-G-AAGTAAAGCCCACACAAGCTAGTGACACCCTCTAGTCCTCAAAGAACA
127559 GGACGCCTCT
190 GGACGCCTCT
* *
127569 CACCTTTTCCTTTTAAAGCCCACATAAGTTGGTAGGCACCTTTCAATCCTCAAAGAGTAGGACGT
1 CACCTTTTCCTTTTAAAGCCCACACAAGTTGGT-GGCACCTTTCAATCCTCAAAGAGCAGGACGT
** * *
127634 CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGGA-CTTTTTAGTCCCCAAAGAGCAGG-A-TATT
65 CTTTTCCTTTCAAAG-CCACACAAACTGGTGGCATC-TTCTAGTCCCCAAAGAGCAGGAACTATT
* *
127696 TTTTTT-AAAAAA-AAGTAAAGCCCTCACAAGCTAGTGGCACCCTCTAGTCCTCAAAGAACAGGA
128 TTTTTTAAAAAAAGAAGTAAAGCCCACACAAGCTAGTGACACCCTCTAGTCCTCAAAGAACAGGA
*
127759 TGCCTCT
193 CGCCTCT
* *
127766 CTCCTTTTCCATCTTAAAGCCCACACAAGTTGGTGGCACCT
1 CACCTTTTCC-TTTTAAAGCCCACACAAGTTGGTGGCACCT
127807 ATCTACTCCA
Statistics
Matches: 212, Mismatches: 22, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
197 67 0.32
198 21 0.10
200 6 0.03
203 9 0.04
205 33 0.16
206 43 0.20
207 33 0.16
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (199 bp):
CACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAGGACGTC
TTTTCCTTTCAAAGCCACACAAACTGGTGGCATCTTCTAGTCCCCAAAGAGCAGGAACTATTTTT
TTTAAAAAAAGAAGTAAAGCCCACACAAGCTAGTGACACCCTCTAGTCCTCAAAGAACAGGACGC
CTCT
Found at i:130862 original size:79 final size:79
Alignment explanation
Indices: 130733--131427 Score: 655
Period size: 79 Copynumber: 8.8 Consensus size: 79
130723 TCATTCATGT
** * * *
130733 TTTTATTTCTAAAATGTCGATTTTCCACCATC-GGGATACTCAAACCCTGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGA
*
130797 TACTCCAACCCTGG
66 TACTCCAACCCCGG
* * * *
130811 TTTTATTTCTAAAACA-CTGATTTTTCACCACCGGGGATACTACAACCCTGTTATTTCCGAAGGG
1 TTTTATTTCTAAAACATC-GATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTCGAGGGG
*
130875 ATACTCCAACCCCAG
65 ATACTCCAACCCCGG
* * * * * *
130890 TTTTATTTCCAAAACATCGATTTTCCCCCATCAGGGATACTCCAACCCTGTTATTTCCAAGGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGA
**
130955 TACTCCAACCCCAA
66 TACTCCAACCCCGG
* * * * * * * *
130969 TTTTATTTCTCAAACACCAATTTTTCACCATTGAGGATACTTCAACCCCGTTATTTTCGAGAGGA
1 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGA
* *
131034 TACTCCAACCTCGA
66 TACTCCAACCCCGG
* * * *
131048 TTTTATTT-TCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGG
1 TTTTATTTCT-AAAACATCGATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTCGAGGGG
131112 ATACTCCAACCCCGG
65 ATACTCCAACCCCGG
* * ** * * *
131127 TTTTATTTCCAAAGCA-CTGATTTTTCATAATCAGAGATACTCCAA-CCTCGTTATTTTCGAGGA
1 TTTTATTTCTAAAACATC-GATTTTTCACCATCGGGGATACTCCAACCCT-GTTATTTTCGAGGG
***
131190 GATACTCCAACCCTAAT
64 GATACTCCAACCC-CGG
* * ** * * * *
131207 TTTTAGTTCTAAAACA-CTAATTTTTCATAATCGAGGATACTTCAACCCTGTTATTTTTGAAGGG
1 TTTTATTTCTAAAACATC-GATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTCGAGGGG
*
131271 ATACTCTAACCCCGG
65 ATACTCCAACCCCGG
* * * ** ** * ** * *
131286 CTTTATTTCTAAAACATCAATTTTTTATAATTAGGGATACTCTAACCCCATTATTTTTGAGGAGA
1 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGA
* *
131351 TACTCTAACCCCGA
66 TACTCCAACCCCGG
* * * * *
131365 TTTTATTTCCAAAACATCGATTCTCCACCATCGGGGATACTCCAACCCTATTATCTTCGAGGG
1 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTCGAGGG
131428 AATAATTTAA
Statistics
Matches: 506, Mismatches: 101, Indels: 19
0.81 0.16 0.03
Matches are distributed among these distances:
77 1 0.00
78 30 0.06
79 410 0.81
80 62 0.12
81 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGA
TACTCCAACCCCGG
Found at i:131182 original size:237 final size:237
Alignment explanation
Indices: 130752--131418 Score: 783
Period size: 238 Copynumber: 2.8 Consensus size: 237
130742 TAAAATGTCG
* *
130752 ATTTTCCACCATCG-GGATAC-TCAAACCCTGTTATTTTTGAGGGGATACTCCAACCCTGGTTTT
1 ATTTTTCACCATCGAGGATACTTC-AACCCTGTTATTTTTGAGAGGATACTCCAACCC-GGTTTT
* * * * * ** *
130815 ATTTCTAAAACA-CTGATTTTTCACCACCGGGGATACTACAACCCTGTTATTTCCGAAGGGATAC
64 ATTTCTAAAACATC-AATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATAC
* * * *
130879 TCCAACCCCAGTTTTATTTCCAAAACATCGATTTTCCCCCATCAGGGATACTCCAACCCTGTTAT
128 TCCAACCCCGGTTTTATTTCCAAAACATCGATTTTCCACAATCAGAGATACTCCAACCCTGTTAT
* * *
130944 TTCCAAGGGGATACTCCAACCCCAA-TTTTATTTCTCAAACACCA
193 TTCCAAGGAGATACTCCAACCCCAATTTTTAGTTCTAAAACACCA
* * * *
130988 ATTTTTCACCATTGAGGATACTTCAACCCCGTTATTTTCGAGAGGATACTCCAACCTCGATTTTA
1 ATTTTTCACCATCGAGGATACTTCAACCCTGTTATTTTTGAGAGGATACTCCAACC-CGGTTTTA
131053 TTT-TCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACT
65 TTTCT-AAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACT
* * *
131117 CCAACCCCGGTTTTATTTCCAAAGCA-CTGATTTTTCATAATCAGAGATACTCCAA-CCTCGTTA
129 CCAACCCCGGTTTTATTTCCAAAACATC-GATTTTCCACAATCAGAGATACTCCAACCCT-GTTA
* * * *
131180 TTTTCGAGGAGATACTCCAACCCTAATTTTTAGTTCTAAAACACTA
192 TTTCCAAGGAGATACTCCAACCCCAATTTTTAGTTCTAAAACACCA
** * *
131226 ATTTTTCATAATCGAGGATACTTCAACCCTGTTATTTTTGA-AGGGATACTCTAACCCCGGCTTT
1 ATTTTTCACCATCGAGGATACTTCAACCCTGTTATTTTTGAGA-GGATACTCCAA-CCCGGTTTT
* * ** * * *
131290 ATTTCTAAAACATCAATTTTTTATAATTAGGGATACTCTAACCCCATTATTTTTGAGGAGATACT
64 ATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACT
* * * * * * *
131355 CTAACCCCGATTTTATTTCCAAAACATCGATTCTCCACCATCGGGGATACTCCAACCCTATTAT
129 CCAACCCCGGTTTTATTTCCAAAACATCGATTTTCCACAATCAGAGATACTCCAACCCTGTTAT
131419 CTTCGAGGGA
Statistics
Matches: 365, Mismatches: 53, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
236 17 0.05
237 166 0.45
238 175 0.48
239 7 0.02
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (237 bp):
ATTTTTCACCATCGAGGATACTTCAACCCTGTTATTTTTGAGAGGATACTCCAACCCGGTTTTAT
TTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCC
AACCCCGGTTTTATTTCCAAAACATCGATTTTCCACAATCAGAGATACTCCAACCCTGTTATTTC
CAAGGAGATACTCCAACCCCAATTTTTAGTTCTAAAACACCA
Found at i:132647 original size:18 final size:18
Alignment explanation
Indices: 132626--132665 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
132616 TCCCTCATGT
*
132626 TCATCGTCTCGTTGAGGC
1 TCATCATCTCGTTGAGGC
132644 TCATCATCTCGTTGAGGC
1 TCATCATCTCGTTGAGGC
132662 TCAT
1 TCAT
132666 TCACTTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.28, G:0.23, T:0.35
Consensus pattern (18 bp):
TCATCATCTCGTTGAGGC
Found at i:133072 original size:20 final size:19
Alignment explanation
Indices: 133049--133120 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
133039 CTCCTAGATA
* *
133049 TATCGATACATTATGCTTTG
1 TATCGATACATGAT-CATTG
*
133069 TATCGATACATGCTCATTG
1 TATCGATACATGATCATTG
133088 TATCGATACATAGA-CAATTG
1 TATCGATACAT-GATC-ATTG
133108 TATCGATACATGA
1 TATCGATACATGA
133121 GATTAGCAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 18 0.39
20 28 0.61
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (19 bp):
TATCGATACATGATCATTG
Found at i:133090 original size:19 final size:19
Alignment explanation
Indices: 133066--133120 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
133056 ACATTATGCT
*
133066 TTGTATCGATACATG-CTCA
1 TTGTATCGATACATGAC-AA
133085 TTGTATCGATACATAGACAA
1 TTGTATCGATACAT-GACAA
133105 TTGTATCGATACATGA
1 TTGTATCGATACATGA
133121 GATTAGCAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 16 0.48
20 16 0.48
21 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGACAA
Found at i:137112 original size:3 final size:3
Alignment explanation
Indices: 137104--137137 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
137094 TCAACCATCA
*
137104 ATG ATG ATG AAG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
137138 AGTTGACTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:141703 original size:21 final size:20
Alignment explanation
Indices: 141660--141703 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
141650 AATTTCAATC
* *
141660 TTCAAATTCATCAAATCCTT
1 TTCAAATTCATCAAATACAT
141680 TTCAAACTTCATCAAATACAT
1 TTCAAA-TTCATCAAATACAT
141701 TTC
1 TTC
141704 TTTTCCCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (20 bp):
TTCAAATTCATCAAATACAT
Found at i:144918 original size:30 final size:30
Alignment explanation
Indices: 144879--144944 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
144869 TAAAACAATT
* *
144879 AGAATTGAAGAGGTTGTGAATAAGGAAATA
1 AGAAGTGAAGAGGTTGTAAATAAGGAAATA
* * * *
144909 AGAAGTGAAGATGTTGTAAATGAGGTACTA
1 AGAAGTGAAGAGGTTGTAAATAAGGAAATA
144939 AGAAGT
1 AGAAGT
144945 AAAAAGGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (30 bp):
AGAAGTGAAGAGGTTGTAAATAAGGAAATA
Found at i:150350 original size:38 final size:38
Alignment explanation
Indices: 150306--150395 Score: 117
Period size: 38 Copynumber: 2.3 Consensus size: 38
150296 ACAATAATGG
* *
150306 AAATAAAAGTAAAGGAATTTGCATGAATGTAAATAACA
1 AAATAAAAGTAAAGGAAATGGCATGAATGTAAATAACA
* * * *
150344 AAATAAAAATAAAGTAAATGGTATGAATTTAAATAACA
1 AAATAAAAGTAAAGGAAATGGCATGAATGTAAATAACA
150382 AGAATAAAAGTAAA
1 A-AATAAAAGTAAA
150396 TGACATGAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 33 0.75
39 11 0.25
ACGTcount: A:0.60, C:0.03, G:0.13, T:0.23
Consensus pattern (38 bp):
AAATAAAAGTAAAGGAAATGGCATGAATGTAAATAACA
Found at i:150397 original size:34 final size:34
Alignment explanation
Indices: 150354--150429 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
150344 AAATAAAAAT
** * *
150354 AAAGTAAATGGTATGAATTTAAATAACAAGAATA
1 AAAGTAAATGACATGAACTAAAATAACAAGAATA
*
150388 AAAGTAAATGACATGAACTAAAATAACAATAATA
1 AAAGTAAATGACATGAACTAAAATAACAAGAATA
150422 AAAGTAAA
1 AAAGTAAA
150430 GGTGAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.61, C:0.05, G:0.12, T:0.22
Consensus pattern (34 bp):
AAAGTAAATGACATGAACTAAAATAACAAGAATA
Found at i:151193 original size:14 final size:13
Alignment explanation
Indices: 151173--151219 Score: 53
Period size: 12 Copynumber: 3.6 Consensus size: 13
151163 AGTTTCTTTT
151173 ATTTTTCTCTCTT-
1 ATTTTT-TCTCTTC
151186 ATTTTTTCT-TTC
1 ATTTTTTCTCTTC
*
151198 ATTTTTTCTCTTA
1 ATTTTTTCTCTTC
151211 AGTTTTTTC
1 A-TTTTTTC
151220 AATTATTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 2 0.07
12 12 0.40
13 9 0.30
14 7 0.23
ACGTcount: A:0.11, C:0.17, G:0.02, T:0.70
Consensus pattern (13 bp):
ATTTTTTCTCTTC
Found at i:151207 original size:24 final size:27
Alignment explanation
Indices: 151165--151219 Score: 80
Period size: 25 Copynumber: 2.1 Consensus size: 27
151155 TATAATAAAG
*
151165 TTTCTTTTATTTTTCTCTCTT-A-TTT
1 TTTCTTTCATTTTTCTCTCTTAAGTTT
151190 TTTCTTTCATTTTT-TCTCTTAAGTTT
1 TTTCTTTCATTTTTCTCTCTTAAGTTT
151216 TTTC
1 TTTC
151220 AATTATTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 6 0.22
25 14 0.52
26 7 0.26
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.73
Consensus pattern (27 bp):
TTTCTTTCATTTTTCTCTCTTAAGTTT
Found at i:151785 original size:16 final size:16
Alignment explanation
Indices: 151764--151794 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
151754 TTAATTGTTC
*
151764 AAATCATTTTGGGTTT
1 AAATCATTTTAGGTTT
151780 AAATCATTTTAGGTT
1 AAATCATTTTAGGTT
151795 ATTTTAGGTT
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:0.29, C:0.06, G:0.16, T:0.48
Consensus pattern (16 bp):
AAATCATTTTAGGTTT
Found at i:155189 original size:21 final size:21
Alignment explanation
Indices: 155165--155204 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
155155 TATTTTAAAC
155165 CTTTAATTGA-ATCGATACAAA
1 CTTT-ATTGATATCGATACAAA
*
155186 CTTTATTTATATCGATACA
1 CTTTATTGATATCGATACA
155205 TTACGGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (21 bp):
CTTTATTGATATCGATACAAA
Found at i:156940 original size:140 final size:140
Alignment explanation
Indices: 156734--156991 Score: 392
Period size: 140 Copynumber: 1.8 Consensus size: 140
156724 TATAAATAAA
* * * * * *
156734 TTTTATACGCTTTCATATTTCTTTATATGATTTATATTTATTTAATTTGACTGTTATATTTTATA
1 TTTTATACGCTTTCATAATTATTTATATGATTTATATTTATTTAATTCGACTATCATATTTCATA
156799 TTCTATTTACATAAAACATACACGTCAAATATTAAATAAATTAAAAATATCTAACACTAGTGTAA
66 TTCTATTTACATAAAACATACACG-CAAATATTAAATAAATTAAAAATATCTAACACTAGTGTAA
156864 AACTAAATTAG
130 AACTAAATTAG
*
156875 TTTTATATGCTTTCATAATTATTTATAT-ATTTATATTTATTTAATTCGACTATCATATTTCATA
1 TTTTATACGCTTTCATAATTATTTATATGATTTATATTTATTTAATTCGACTATCATATTTCATA
* * * * *
156939 TTTTATTTACATAAATCATACATGCCAATTTTAAATAAATTAAAAATATCTAA
66 TTCTATTTACATAAAACATACACGCAAATATTAAATAAATTAAAAATATCTAA
156992 TTATTTGTTT
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
139 27 0.26
140 53 0.50
141 25 0.24
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (140 bp):
TTTTATACGCTTTCATAATTATTTATATGATTTATATTTATTTAATTCGACTATCATATTTCATA
TTCTATTTACATAAAACATACACGCAAATATTAAATAAATTAAAAATATCTAACACTAGTGTAAA
ACTAAATTAG
Found at i:157663 original size:1 final size:1
Alignment explanation
Indices: 157657--157709 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
157647 GTTTTCCTAA
* * * ** *
157657 TTTTTTTTTTTCTCTCTTTTTCCTTTTTTTTCTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
157710 GCAGCCAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:158025 original size:13 final size:13
Alignment explanation
Indices: 158007--158031 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
157997 AGTTGAAAAA
158007 AAATAAATTAAAT
1 AAATAAATTAAAT
158020 AAATAAATTAAA
1 AAATAAATTAAA
158032 ATTTTTAAAA
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATAAATTAAAT
Found at i:158188 original size:19 final size:19
Alignment explanation
Indices: 158154--158211 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 19
158144 TTTCAGTGTA
*
158154 AAATATATAAAA-AAATTT
1 AAATTTATAAAATAAATTT
158172 AAATTTATAAAATAAA-TT
1 AAATTTATAAAATAAATTT
* *
158190 AAATTTTTTAAAATTAATTT
1 AAA-TTTATAAAATAAATTT
158210 AA
1 AA
158212 TGAGAGTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 16 0.47
19 14 0.41
20 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATTTATAAAATAAATTT
Found at i:158415 original size:16 final size:16
Alignment explanation
Indices: 158394--158424 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
158384 ATAATATTTG
*
158394 ATAAATTTTAAAAATT
1 ATAAATTTAAAAAATT
158410 ATAAATTTAAAAAAT
1 ATAAATTTAAAAAAT
158425 CTCCCTGAAA
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAAATTTAAAAAATT
Found at i:160013 original size:37 final size:37
Alignment explanation
Indices: 159972--160047 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
159962 AAATTACTAT
159972 ACATTTAAATGAAAAACAAAGCATTTACTTTAAAGTA
1 ACATTTAAATGAAAAACAAAGCATTTACTTTAAAGTA
*
160009 ACATTTAAATTAAAAACAAAGCATTTACTTTAAAGTA
1 ACATTTAAATGAAAAACAAAGCATTTACTTTAAAGTA
160046 AC
1 AC
160048 GTGTATAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (37 bp):
ACATTTAAATGAAAAACAAAGCATTTACTTTAAAGTA
Found at i:163921 original size:167 final size:163
Alignment explanation
Indices: 163671--164270 Score: 638
Period size: 167 Copynumber: 3.6 Consensus size: 163
163661 AAATTTCAAC
* * * *
163671 AAAAAAATATAAAATTCATGAAAATAAATTAATTTTTTAAAAATAAATTAATAT-AAATCAAATA
1 AAAAAATTA-AAAACTCATGAAAATAAA-TAAATTTTTAAAAATAAATTAATATGAAAT-AAATG
* * * * *
163735 ATTATGTTTGATGAATTTTAAAAATTAAAAA-TCCAGAAAAATTCTCCTGAAATAATTTACGGAA
63 ATAATATTTGATGAATTTTAAAAATTAAAAACT-AAGAAAAA-TCTCCTGAAA-AATTTAAGGAG
163799 TAAAAAATATCATATTTTAAAAAAAGAAAAATTTTAAGG
125 TAAAAAATATCATATTTTAAAAAAAGAAAAATTTTAAGG
* * * * *
163838 AAAAAATTCAAAAA-TGAATGCAAATGAATGAATTTTTGAAAATAAAATTAATATGAAATAAATG
1 AAAAAATT-AAAAACT-CATGAAAATAAATAAATTTTTAAAAAT-AAATTAATATGAAATAAATG
* * * *
163902 ATAATATTTGATAAATTTTAAAAATTAAAAACTAAAAAAAAACCTCTTGAAAAAATTTAAGGAGT
63 ATAATATTTGATGAATTTTAAAAATTAAAAACT-AAGAAAAATCTCCTG-AAAAATTTAAGGAGT
*
163967 AAAAAATATCATATTTCAAAAAAAAGAAAAA-TTT-A--
126 AAAAAATATCATATTT-TAAAAAAAGAAAAATTTTAAGG
*** *
164002 AAAAAATTAAAAACTCATGAAAATAAATAAATTTTTTAAAACGGAATTAATATGAAATAAATGAC
1 AAAAAATTAAAAACTCATGAAAATAAATAAA-TTTTTAAAAATAAATTAATATGAAATAAATGAT
* * * ** * *
164067 AATATTTAATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCCTCAAAACAAATATGGAGTAGA
65 AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCTCCTGAAAA-ATTTAAGGAGTAAA
** * * * *
164132 AAATATTGTACTTTAGAAAAAGTAAAATTTCAAGG
129 AAATATCATATTTTAAAAAAAGAAAAATTTTAAGG
* * *
164167 AAAAATTTAAAAACTCATGAAAATAAATAAATTTTTAAAAATTGAATTAATATAAAATAAATGAT
1 AAAAAATTAAAAACTCATGAAAATAAATAAATTTTTAAAAA-TAAATTAATATGAAATAAATGAT
* * *
164232 AATATTAGATGAATTTAAAAAATTAAAAATTAAGAAAAA
65 AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAA
164271 CCTTTCTCAA
Statistics
Matches: 363, Mismatches: 55, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
161 15 0.04
162 32 0.09
163 67 0.18
164 26 0.07
165 85 0.23
166 14 0.04
167 96 0.26
168 28 0.08
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (163 bp):
AAAAAATTAAAAACTCATGAAAATAAATAAATTTTTAAAAATAAATTAATATGAAATAAATGATA
ATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCTCCTGAAAAATTTAAGGAGTAAAAA
ATATCATATTTTAAAAAAAGAAAAATTTTAAGG
Found at i:172023 original size:22 final size:23
Alignment explanation
Indices: 171982--172025 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
171972 GTTTTAAAAT
* *
171982 TTTTAAATTTTTTTATATTTTTA
1 TTTTAAATATTTTTAAATTTTTA
172005 TTTT-AATATTTTTAAATTTTT
1 TTTTAAATATTTTTAAATTTTT
172026 TTCATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTAAATATTTTTAAATTTTTA
Found at i:174592 original size:18 final size:18
Alignment explanation
Indices: 174563--174598 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
174553 ATATTATTTT
174563 TTTAATAATTTTAGTTAAA
1 TTTAATAATTTTA-TTAAA
174582 TTTAA-AATTTTATTAAA
1 TTTAATAATTTTATTAAA
174599 AATCAGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 7 0.41
19 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTAATAATTTTATTAAA
Found at i:179750 original size:27 final size:27
Alignment explanation
Indices: 179718--179780 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
179708 TAATAAAAAA
179718 ACATATAAACAAATATCACATTAAATT
1 ACATATAAACAAATATCACATTAAATT
* *
179745 ACATATAAACAAATATCACTTTACATT
1 ACATATAAACAAATATCACATTAAATT
*
179772 ACATTTAAA
1 ACATATAAA
179781 ATGATTTATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (27 bp):
ACATATAAACAAATATCACATTAAATT
Found at i:186275 original size:19 final size:19
Alignment explanation
Indices: 186250--186306 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
186240 TTGCATCGAT
* *
186250 ACATTGTATCGATACTTGT
1 ACATTGTATCGATACATGC
* *
186269 TCATTGTATTGATACATGC
1 ACATTGTATCGATACATGC
186288 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
186307 AAACTGGTAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:195595 original size:79 final size:79
Alignment explanation
Indices: 195408--195595 Score: 225
Period size: 79 Copynumber: 2.4 Consensus size: 79
195398 AGATAACAAT
* * * * * *
195408 GGGGCTGGAGTATCCCCGATTATGGAAAATCTGTGTTCTGGAAATAAAACCGGGGTTGGAGTATC
1 GGGGATGGAGTATCCCCGATTATGAAAAATCGGTATTCTGAAAATAAAACCGAGGTTGGAGTATC
195473 CCCTCGAAAATAAA
66 CCCTCGAAAATAAA
* * ** * *
195487 AGGGATGAAGTATCCCTAATTAT-AGAAAATCGGTATTTTGAAAATAAAATCGAGGTTGGAGTAT
1 GGGGATGGAGTATCCCCGATTATGA-AAAATCGGTATTCTGAAAATAAAACCGAGGTTGGAGTAT
* *
195551 CCCTTCGAAAATAAC
65 CCCCTCGAAAATAAA
*
195566 GGGGTTGGAGTATCCCCGATTATGAAAAAT
1 GGGGATGGAGTATCCCCGATTATGAAAAAT
195596 TAATGATTTA
Statistics
Matches: 88, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
79 87 0.99
80 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (79 bp):
GGGGATGGAGTATCCCCGATTATGAAAAATCGGTATTCTGAAAATAAAACCGAGGTTGGAGTATC
CCCTCGAAAATAAA
Found at i:195632 original size:51 final size:50
Alignment explanation
Indices: 195567--195684 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 50
195557 GAAAATAACG
* *
195567 GGGTTGGAGTATCCCCGATTATGAAAAATTAATGA-TTTAGAAATAAGGCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATCAAT-ACTTTAGAAATAAAGCC
* *
195617 AGGGTTGAAGTATCCCCGATTATGAGAAATCAATACTTTAGAAATAAAGCC
1 -GGGTTGGAGTATCCCCGATTATGAAAAATCAATACTTTAGAAATAAAGCC
195668 GAGGTTGGAGTATCCCC
1 G-GGTTGGAGTATCCCC
195685 TCGAAAATAA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 2 0.03
51 58 0.97
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATCAATACTTTAGAAATAAAGCC
Found at i:195702 original size:158 final size:157
Alignment explanation
Indices: 195540--195870 Score: 418
Period size: 158 Copynumber: 2.1 Consensus size: 157
195530 ATAAAATCGA
*
195540 GGTTGGAGTATCCCTTCG-AAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGATT
1 GGTTGGAGTATCCC--CGAAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAATG-TT
** * *
195604 T-AGAAATAAGGCCAGGGTTGAAGTATCCCCGATTAT-GAGAAATCAATACTTTAGAAATAAAGC
63 TGAGAAATAAAACCAGGGTTGAAGTATCCCCAATTATGGA-AAATCAATACTTTAGAAATAAAAC
*
195667 CGAGGTTGGAGTATCCCCTC-GAAAATAATGG
127 CGAGGTTGGAGTATCCCCTCAG-AAATAACGG
* *
195698 GGTTGGAGTATCCCCGATAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTG
1 GGTTGGAGTATCCCCGA-AAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTG
* * * * * * ** *
195763 GGAAATAAAATCGGGGTTGGAGTATCCCCAATTATGGAAAATTAGTGTTTTAGAAATAAAACCGG
65 AGAAATAAAACCAGGGTTGAAGTATCCCCAATTATGGAAAATCAATACTTTAGAAATAAAACCGA
*
195828 GGTTGGAGTATCCCCTCAGAAATGACGG
130 GGTTGGAGTATCCCCTCAGAAATAACGG
195856 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
195871 AATTGTGAAA
Statistics
Matches: 150, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
156 2 0.01
157 3 0.02
158 142 0.95
159 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (157 bp):
GGTTGGAGTATCCCCGAAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTGA
GAAATAAAACCAGGGTTGAAGTATCCCCAATTATGGAAAATCAATACTTTAGAAATAAAACCGAG
GTTGGAGTATCCCCTCAGAAATAACGG
Found at i:195743 original size:28 final size:28
Alignment explanation
Indices: 195667--195743 Score: 109
Period size: 28 Copynumber: 2.8 Consensus size: 28
195657 GAAATAAAGC
***
195667 CGAGGTTGGAGTATCCCCTCGAAAATAA
1 CGAGGTTGGAGTATCCCCGATAAAATAA
* *
195695 TGGGGTTGGAGTATCCCCGATAAAATAA
1 CGAGGTTGGAGTATCCCCGATAAAATAA
195723 CGAGGTTGGAGTATCCCCGAT
1 CGAGGTTGGAGTATCCCCGAT
195744 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (28 bp):
CGAGGTTGGAGTATCCCCGATAAAATAA
Found at i:195804 original size:51 final size:51
Alignment explanation
Indices: 195726--195842 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
195716 AAAATAACGA
* * * *
195726 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTGGGAAATAAAATCGG
1 GGTTGGAGTATCCCCAATTATGAAAAATTAGTGTTTGAGAAATAAAACCGG
* *
195777 GGTTGGAGTATCCCCAATTATGGAAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCAATTATGAAAAATTAGTGTTTGAGAAATAAAACCGG
195828 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
195843 TCAGAAATGA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCAATTATGAAAAATTAGTGTTTGAGAAATAAAACCGG
Found at i:195857 original size:79 final size:77
Alignment explanation
Indices: 195774--195999 Score: 292
Period size: 79 Copynumber: 2.9 Consensus size: 77
195764 GAAATAAAAT
* *
195774 CGGGGTTGGAGTATCCCCAATTATGGAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATT-GTGTTTTGGAAATAAAACCGGGGTTGGAGTAT
*
195839 CCCCTCAGAAATGA
65 CCCCT-AGAAATAA
* * * *
195853 CGGGGTTGGAGTATCCCCAATTGTGAAAAACTGGTGTTTTGGGAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAA-TTGTGTTTTGGAAATAAAACCGGGGTTGGAGTAT
* *
195918 CCCCTTGGAATAA
65 CCCCTAGAAATAA
* * *
195931 CGGGATTGGAGTATCTCCGATTATGAAAAATTGATGTTTTGGAAAT-AAACTCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATTG-TGTTTTGGAAATAAAAC-CGGGGTTGGAGTA
195995 TCCCC
64 TCCCC
196000 GAGATGAAAA
Statistics
Matches: 128, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
77 5 0.04
78 60 0.47
79 62 0.48
80 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (77 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATTGTGTTTTGGAAATAAAACCGGGGTTGGAGTATC
CCCTAGAAATAA
Found at i:195971 original size:78 final size:79
Alignment explanation
Indices: 195774--195999 Score: 303
Period size: 78 Copynumber: 2.9 Consensus size: 79
195764 GAAATAAAAT
* * *
195774 CGGGGTTGGAGTATCCCCAATTATGGAAAATT-AGTGTTTTAGAAATAAAACCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATTGA-TGTTTTGGAAATAAAATCGGGGTTGGAGTA
*
195838 TCCCCTCAGAAATGA
65 TCCCCTCAGAAATAA
* * * *
195853 CGGGGTTGGAGTATCCCCAATTGTGAAAAACTGGTGTTTTGGGAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTAT
* *
195918 CCCCT-TGGAATAA
66 CCCCTCAGAAATAA
* * * *
195931 CGGGATTGGAGTATCTCCGATTATGAAAAATTGATGTTTTGGAAATAAACTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTAT
195996 CCCC
66 CCCC
196000 GAGATGAAAA
Statistics
Matches: 128, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
78 66 0.52
79 62 0.48
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTAT
CCCCTCAGAAATAA
Found at i:198366 original size:20 final size:20
Alignment explanation
Indices: 198318--198373 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
198308 AACATTGTAA
*
198318 AATGTATCAATACAATGAGC
1 AATGTATCGATACAATGAGC
198338 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
*
198358 AATGTATCGTTACAAT
1 AATGTATCGATACAAT
198374 TTGTGAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATGAGC
Found at i:201498 original size:84 final size:84
Alignment explanation
Indices: 201333--201498 Score: 208
Period size: 84 Copynumber: 2.0 Consensus size: 84
201323 ACAAAGATCC
* * *
201333 ATGTATTATTCTGGCTAAGAAAAATAAGTTCTTCTTTCATAGTTAATTTTCACTTAAAGCCTTTT
1 ATGTATTATTCTGGCTAAGAAAAATAAGTTCTTCTCTCATAGCTAATCTTCACTTAAAGCCTTTT
** *
201398 AGTGCACTCTTAATAGTCT
66 AGTAAACTATTAATAGTCT
* * **
201417 ATGTATTATTTTGGCTAAGAAAAGTAAGTTCTTC-CTCTATAGCTAATCTTCACTTAAAGTTTTT
1 ATGTATTATTCTGGCTAAGAAAAATAAGTTCTTCTCTC-ATAGCTAATCTTCACTTAAAGCCTTT
* *
201481 TAGTAAATTATTGATAGT
65 TAGTAAACTATTAATAGT
201499 TTTTGGTGCT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
83 2 0.03
84 67 0.97
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (84 bp):
ATGTATTATTCTGGCTAAGAAAAATAAGTTCTTCTCTCATAGCTAATCTTCACTTAAAGCCTTTT
AGTAAACTATTAATAGTCT
Found at i:205059 original size:17 final size:17
Alignment explanation
Indices: 205037--205092 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
205027 ATTTCATATT
205037 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTTTTTTTTC
* *
205054 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTTTTTTTTC
** * *
205071 TTCATCTTCTTTCTTTC
1 TTTTTCTTTTTTTTTTC
205088 TTTTT
1 TTTTT
205093 TACCTAACTT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTTC
Done.