Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold490
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: 190694
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
File 1 of 2
Found at i:6153 original size:2 final size:2
Alignment explanation
Indices: 6146--6171 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6136 CTTATTGTTA
6146 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
6172 GGAAGATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6398 original size:23 final size:22
Alignment explanation
Indices: 6366--6408 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6356 ATATTTTTAT
* *
6366 TTAATTTTAATTATAAGAATATA
1 TTAATATTAA-TATAAAAATATA
6389 TTAATATTAATATAAAAATA
1 TTAATATTAATATAAAAATA
6409 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TTAATATTAATATAAAAATATA
Found at i:7843 original size:43 final size:43
Alignment explanation
Indices: 7759--7843 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
7749 AAATCACTTC
* * *
7759 AGTTTTTGAATAATTTTTAATTTAAGTTATTTTAAATTCAAAT
1 AGTTTTTGAATAATTTTCAATTTAAGTTATATTAAACTCAAAT
* *
7802 AGTTTTTGAATCATTTTCAATTTAAGTTATATTGAACTCAAA
1 AGTTTTTGAATAATTTTCAATTTAAGTTATATTAAACTCAAA
7844 CTATTTTGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.49
Consensus pattern (43 bp):
AGTTTTTGAATAATTTTCAATTTAAGTTATATTAAACTCAAAT
Found at i:9809 original size:20 final size:20
Alignment explanation
Indices: 9786--9911 Score: 108
Period size: 20 Copynumber: 5.8 Consensus size: 20
9776 AAAGAACCCA
9786 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * *
9806 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTTTC
* *
9826 AATATATCGATACATTCTTC
1 AATGTATCGATACATTTTTC
9846 AATGTATCGATACATTCTATCTTTTTACCC
1 AATGTATCGAT--A--C-A--TTTTT---C
9876 AAATGTATCGATACATTTTTC
1 -AATGTATCGATACATTTTTC
9897 AATGTATCGATACAT
1 AATGTATCGATACAT
9912 CTAAATAAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 22
0.73 0.09 0.19
Matches are distributed among these distances:
20 57 0.67
21 1 0.01
22 1 0.01
24 6 0.07
25 1 0.01
26 1 0.01
27 5 0.06
29 1 0.01
30 1 0.01
31 11 0.13
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:21886 original size:22 final size:22
Alignment explanation
Indices: 21858--21903 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
21848 AACACATCTA
21858 ATCTAAATCTAAGATTATTGTT
1 ATCTAAATCTAAGATTATTGTT
21880 ATCTAAATCTAAGATTATTGTT
1 ATCTAAATCTAAGATTATTGTT
21902 AT
1 AT
21904 GTTAGCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (22 bp):
ATCTAAATCTAAGATTATTGTT
Found at i:22049 original size:2 final size:2
Alignment explanation
Indices: 22042--22070 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22032 TTTAAAGTGT
22042 TA TA 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 TA TA T
22071 TGAAAATGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22372 original size:12 final size:12
Alignment explanation
Indices: 22350--22388 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
22340 GATAAATACG
22350 ATTTCTAAACTCA
1 ATTT-TAAACTCA
22363 ATTTTAAACTCA
1 ATTTTAAACTCA
*
22375 ATATTTAAATTCA
1 AT-TTTAAACTCA
22388 A
1 A
22389 ACTTTAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (12 bp):
ATTTTAAACTCA
Found at i:22395 original size:13 final size:13
Alignment explanation
Indices: 22355--22388 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
22345 ATACGATTTC
22355 TAAACTCAAT-TT
1 TAAACTCAATATT
22367 TAAACTCAATATT
1 TAAACTCAATATT
*
22380 TAAATTCAA
1 TAAACTCAA
22389 ACTTTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAACTCAATATT
Found at i:26106 original size:24 final size:24
Alignment explanation
Indices: 26079--26143 Score: 72
Period size: 17 Copynumber: 3.0 Consensus size: 24
26069 GTGGCATCAG
26079 ATTATATTTAAATATGTTATATTA
1 ATTATATTTAAATATGTTATATTA
*
26103 ATTATA--T---T-TG-AATATTA
1 ATTATATTTAAATATGTTATATTA
26120 ATTATATTTAAATATGTTATATTA
1 ATTATATTTAAATATGTTATATTA
26144 TATTTATCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
17 12 0.38
18 2 0.06
19 2 0.06
22 2 0.06
23 2 0.06
24 12 0.38
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (24 bp):
ATTATATTTAAATATGTTATATTA
Found at i:26119 original size:17 final size:17
Alignment explanation
Indices: 26097--26149 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 17
26087 TAAATATGTT
*
26097 ATATTAATTATATTTGA
1 ATATTAATTATATTTAA
26114 ATATTAATTATATTTAA
1 ATATTAATTATATTTAA
26131 ATATGTTATATTATATTTA
1 ATA--TTA-ATTATATTTA
26150 TCAAACACAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 19 0.59
19 3 0.09
20 10 0.31
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (17 bp):
ATATTAATTATATTTAA
Found at i:30213 original size:43 final size:43
Alignment explanation
Indices: 30152--30238 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
30142 TGAGGATGAA
*
30152 AAAGAACTGGTACTTAAAACAATTACATGCATTTTGAAAGCTT
1 AAAGAACTGGTACTTAAAACAATTACATGCATTTTAAAAGCTT
*
30195 AAAGAATTGGTACTTAAAACAATTACATGCATTTTAAAAGCTT
1 AAAGAACTGGTACTTAAAACAATTACATGCATTTTAAAAGCTT
30238 A
1 A
30239 CTTTAATGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (43 bp):
AAAGAACTGGTACTTAAAACAATTACATGCATTTTAAAAGCTT
Found at i:32275 original size:136 final size:136
Alignment explanation
Indices: 32027--32292 Score: 388
Period size: 136 Copynumber: 2.0 Consensus size: 136
32017 TCTTTATTAA
* * * * *
32027 GTTCAGTAGGCTCGACAGTAGTGGGTGGATCAAAGTCACACTCGAGAACTGAAGGGTTAGTACAG
1 GTTCAATAGGCTCGACAGCAGTGGATGGATCAAAGTCACACTCGAGAACTAAAGAGTTAGTACAG
**
32092 GATTCATCTATTATATGTCCGTGATCAATAAGAGTTTGTGATTGAGGTGGATTGAAAAATAGACC
66 GATTCATCTATTATATGTCCGTGATCAATAAGAGTTTGTGAGCGAGGTGGATTGAAAAATAGACC
32157 TGGTCG
131 TGGTCG
* * *
32163 GTTCAATAGGCTCGATAGCAGTGGATGGATCAAAGTCACACTTGAGAATTAAAGAGTTAGTACAG
1 GTTCAATAGGCTCGACAGCAGTGGATGGATCAAAGTCACACTCGAGAACTAAAGAGTTAGTACAG
* * * ** *
32228 GATTCATCTGTTGTATGTCTGTGATCAATGGGAGTTTGTGAGCGAGGTGGATTGAAAGATAGACC
66 GATTCATCTATTATATGTCCGTGATCAATAAGAGTTTGTGAGCGAGGTGGATTGAAAAATAGACC
32293 CGGCATGGAA
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
136 114 1.00
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.28
Consensus pattern (136 bp):
GTTCAATAGGCTCGACAGCAGTGGATGGATCAAAGTCACACTCGAGAACTAAAGAGTTAGTACAG
GATTCATCTATTATATGTCCGTGATCAATAAGAGTTTGTGAGCGAGGTGGATTGAAAAATAGACC
TGGTCG
Found at i:35830 original size:7 final size:7
Alignment explanation
Indices: 35818--35844 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
35808 TTACTCATAG
35818 AATTTAA
1 AATTTAA
35825 AATTTAA
1 AATTTAA
35832 AATTTAA
1 AATTTAA
35839 AATTTA
1 AATTTA
35845 TTTTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:38040 original size:23 final size:22
Alignment explanation
Indices: 38014--38056 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
38004 ATATTTTTAT
*
38014 TTAATTTTAATTATAAAAATATA
1 TTAATATTAA-TATAAAAATATA
*
38037 TTAATATTAATGTAAAAATA
1 TTAATATTAATATAAAAATA
38057 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TTAATATTAATATAAAAATATA
Found at i:39257 original size:16 final size:16
Alignment explanation
Indices: 39213--39265 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
39203 TTTTTGAATC
39213 ATTTTGAATTCAAATT
1 ATTTTGAATTCAAATT
* **
39229 ATTTCGAGCTCAAATT
1 ATTTTGAATTCAAATT
* *
39245 ATTTTGATTTCAAATC
1 ATTTTGAATTCAAATT
39261 ATTTT
1 ATTTT
39266 AGGTTGGAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (16 bp):
ATTTTGAATTCAAATT
Found at i:41774 original size:22 final size:23
Alignment explanation
Indices: 41728--41783 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
41718 TAAACATGTT
*
41728 AAAAATGCATGAAATATAATAAA
1 AAAAATGCATGAAACATAATAAA
*
41751 AAAAATGCATGAAACATAA-CAA
1 AAAAATGCATGAAACATAATAAA
41773 AAAAATGCATG
1 AAAAATGCATG
41784 GTCAAAGGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 13 0.42
23 18 0.58
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:42743 original size:20 final size:20
Alignment explanation
Indices: 42696--42770 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
42686 AAAAAGACAT
*
42696 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
42715 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
42736 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
42756 AATGTATCGATACAT
1 AATGTATCGATACAT
42771 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:42764 original size:40 final size:39
Alignment explanation
Indices: 42693--42770 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
42683 GGTAAAAAGA
* *
42693 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
42732 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
42771 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:48005 original size:2 final size:2
Alignment explanation
Indices: 47998--48026 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
47988 GTCTTATTAT
47998 TA TA 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 TA TA T
48027 CAATGGAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48187 original size:10 final size:10
Alignment explanation
Indices: 48172--48204 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
48162 TTAATTTTTA
48172 TGATTCAATT
1 TGATTCAATT
48182 TGATTCAATT
1 TGATTCAATT
*
48192 TGATTTAATT
1 TGATTCAATT
48202 TGA
1 TGA
48205 ATAATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (10 bp):
TGATTCAATT
Found at i:49607 original size:38 final size:38
Alignment explanation
Indices: 49560--49633 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
49550 AGCTCAAGTT
* *
49560 AATCGAATTTAACATTCAAGTTAATTAAATTTAATATC
1 AATCAAATTTAACATTCAAGTTAATCAAATTTAATATC
* * * *
49598 AATCAAATTTATCATTTAAGTTTATCAAGTTTAATA
1 AATCAAATTTAACATTCAAGTTAATCAAATTTAATA
49634 ATTTTAAACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.42
Consensus pattern (38 bp):
AATCAAATTTAACATTCAAGTTAATCAAATTTAATATC
Found at i:50774 original size:17 final size:17
Alignment explanation
Indices: 50748--50817 Score: 70
Period size: 17 Copynumber: 4.1 Consensus size: 17
50738 AAATTGTTAA
* *
50748 ATTAATTATATTTGAAT
1 ATTAAATATATTTAAAT
50765 ATTAAATATATTTAAAT
1 ATTAAATATATTTAAAT
* * *
50782 A-TATTATGTAATTAAAT
1 ATTA-AATATATTTAAAT
*
50799 ATTAATTATATTTAAAT
1 ATTAAATATATTTAAAT
50816 AT
1 AT
50818 GTTATATTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
16 2 0.05
17 38 0.90
18 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTAAATATATTTAAAT
Found at i:50784 original size:27 final size:27
Alignment explanation
Indices: 50749--50800 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
50739 AATTGTTAAA
*
50749 TTAATTATATT-TGAATATTAAATATAT
1 TTAAATATATTATGAA-ATTAAATATAT
*
50776 TTAAATATATTATGTAATTAAATAT
1 TTAAATATATTATGAAATTAAATAT
50801 TAATTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (27 bp):
TTAAATATATTATGAAATTAAATATAT
Found at i:50824 original size:15 final size:15
Alignment explanation
Indices: 50752--50825 Score: 58
Period size: 17 Copynumber: 4.5 Consensus size: 15
50742 TGTTAAATTA
*
50752 ATTATATTTGAATATT
1 ATTATATTTAAATA-T
*
50768 AAATATATTTAAATAT
1 -ATTATATTTAAATAT
*
50784 ATTATGTAATTAAATATT
1 ATTA--TATTTAAATA-T
50802 AATTATATTTAAATAT
1 -ATTATATTTAAATAT
*
50818 GTTATATT
1 ATTATATT
50826 ATATTTATCA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
15 10 0.21
16 2 0.04
17 30 0.64
18 1 0.02
19 4 0.09
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (15 bp):
ATTATATTTAAATAT
Found at i:51105 original size:31 final size:29
Alignment explanation
Indices: 51071--51141 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 29
51061 AACACATGTT
51071 TTTTTAAATAATTACTGAAATAGAAATATA
1 TTTTT-AATAATTACTGAAATAGAAATATA
*
51101 TTTTT--TAATTATTGAAATAGAAATATAA
1 TTTTTAATAATTACTGAAATAGAAATAT-A
51129 TTTTTAATTAATT
1 TTTTTAA-TAATT
51142 TATTTATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
27 20 0.56
28 6 0.17
30 5 0.14
31 5 0.14
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (29 bp):
TTTTTAATAATTACTGAAATAGAAATATA
Found at i:51110 original size:27 final size:27
Alignment explanation
Indices: 51079--51138 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
51069 TTTTTTTAAA
*
51079 TAATTACTGAAATAGAAATATATTTTT
1 TAATTACTGAAATAGAAATATAATTTT
*
51106 TAATTATTGAAATAGAAATATAATTTT
1 TAATTACTGAAATAGAAATATAATTTT
51133 TAATTA
1 TAATTA
51139 ATTTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.45
Consensus pattern (27 bp):
TAATTACTGAAATAGAAATATAATTTT
Found at i:62347 original size:52 final size:52
Alignment explanation
Indices: 62198--62326 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
62188 CAAAATATAA
*
62198 AAATTTGCCTACATATATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
62250 AAATTTGCCTATATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
62302 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTACATGTATCGATACA
62327 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:62423 original size:19 final size:19
Alignment explanation
Indices: 62399--62463 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
62389 AGTGATACAT
62399 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
62418 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
62431 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
62450 TGTATCGATACAAA
1 TGTATCGATACAAA
62464 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:62433 original size:32 final size:32
Alignment explanation
Indices: 62392--62461 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
62382 GCTTCGTAGT
62392 GATACATTGTATCGATACAAAACTTATGTATC
1 GATACATTGTATCGATACAAAACTTATGTATC
*
62424 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAAAACTTATGTATC
62456 GATACA
1 GATACA
62462 AATCGTTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (32 bp):
GATACATTGTATCGATACAAAACTTATGTATC
Found at i:62436 original size:13 final size:13
Alignment explanation
Indices: 62418--62442 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62408 ACAAAACTTA
62418 TGTATCGATACAT
1 TGTATCGATACAT
62431 TGTATCGATACA
1 TGTATCGATACA
62443 ACACTTATGT
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:65306 original size:40 final size:40
Alignment explanation
Indices: 65248--65327 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
65238 ACTAAAATTT
*
65248 GGATGATTTTGTGATCTTATTGTTAATATATATATATATA
1 GGATGATTTTGTGATCTTATTATTAATATATATATATATA
*
65288 GGATGATTTTGTGGTCTTATTATTAATATATATATATATA
1 GGATGATTTTGTGATCTTATTATTAATATATATATATATA
65328 TCAATGGAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.50
Consensus pattern (40 bp):
GGATGATTTTGTGATCTTATTATTAATATATATATATATA
Found at i:65513 original size:20 final size:19
Alignment explanation
Indices: 65479--65521 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
65469 TTTTATGATT
* *
65479 TAATTTTATTTAATCTAAA
1 TAATTATATTTAATCAAAA
65498 TAATTATATATTAATCAAAA
1 TAATTATAT-TTAATCAAAA
65518 TAAT
1 TAAT
65522 ATTTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATTATATTTAATCAAAA
Found at i:70871 original size:27 final size:27
Alignment explanation
Indices: 70831--70919 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
70821 GTTTATTTAA
* *
70831 TTAATTATTGAAATAAAAATTTAATTT
1 TTAATTATTGAAATAGAAATATAATTT
* *
70858 TTAATTACTAAAATAGAAATATAATTTTT
1 TTAATTATTGAAATAGAAATATAA--TTT
*
70887 TTAACTATTGAAATAGAAATATAATTT
1 TTAATTATTGAAATAGAAATATAATTT
70914 TTAATT
1 TTAATT
70920 TATTTATTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
27 28 0.54
29 24 0.46
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.46
Consensus pattern (27 bp):
TTAATTATTGAAATAGAAATATAATTT
Found at i:70900 original size:29 final size:29
Alignment explanation
Indices: 70831--70915 Score: 111
Period size: 29 Copynumber: 3.0 Consensus size: 29
70821 GTTTATTTAA
* *
70831 TTAATTATTGAAATAAAAATTTAA--TTT
1 TTAATTATTGAAATAGAAATATAATTTTT
* *
70858 TTAATTACTAAAATAGAAATATAATTTTT
1 TTAATTATTGAAATAGAAATATAATTTTT
*
70887 TTAACTATTGAAATAGAAATATAATTTTT
1 TTAATTATTGAAATAGAAATATAATTTTT
70916 AATTTATTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
27 20 0.41
29 29 0.59
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (29 bp):
TTAATTATTGAAATAGAAATATAATTTTT
Found at i:79071 original size:14 final size:14
Alignment explanation
Indices: 79052--79097 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
79042 ACATAAAAAG
79052 AAAATAAATACTTC
1 AAAATAAATACTTC
*
79066 AAAATAAA-A---G
1 AAAATAAATACTTC
79076 AAAATAAATACTTC
1 AAAATAAATACTTC
79090 AAAATAAA
1 AAAATAAA
79098 ATGTCAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
10 8 0.31
11 1 0.04
13 1 0.04
14 16 0.62
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.22
Consensus pattern (14 bp):
AAAATAAATACTTC
Found at i:79076 original size:24 final size:24
Alignment explanation
Indices: 79047--79098 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
79037 TTAAAACATA
79047 AAAAGAAAATAAATACTTCAAAAT
1 AAAAGAAAATAAATACTTCAAAAT
79071 AAAAGAAAATAAATACTTCAAAAT
1 AAAAGAAAATAAATACTTCAAAAT
79095 AAAA
1 AAAA
79099 TGTCAAATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.69, C:0.08, G:0.04, T:0.19
Consensus pattern (24 bp):
AAAAGAAAATAAATACTTCAAAAT
Found at i:80767 original size:23 final size:22
Alignment explanation
Indices: 80735--80777 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
80725 ATATTTTTAT
* *
80735 TTAATTTTAATTATAAGAATATA
1 TTAATATTAA-TATAAAAATATA
80758 TTAATATTAATATAAAAATA
1 TTAATATTAATATAAAAATA
80778 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TTAATATTAATATAAAAATATA
Found at i:82167 original size:43 final size:43
Alignment explanation
Indices: 82102--82187 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
82092 AAATCACTTC
* * *
82102 AGTTTTTGAATCATTTTTAATTTAAGTTATTTTGAATTCAAAT
1 AGTTTTTGAATCATTTTCAATTTAAGTTATATTGAACTCAAAT
82145 AGTTTTTGAATCATTTTCAATTTAAGTTATATTGAACTCAAAT
1 AGTTTTTGAATCATTTTCAATTTAAGTTATATTGAACTCAAAT
82188 TATTTTGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (43 bp):
AGTTTTTGAATCATTTTCAATTTAAGTTATATTGAACTCAAAT
Found at i:84137 original size:20 final size:20
Alignment explanation
Indices: 84114--84188 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
84104 AAGTACCCAG
*
84114 ATGTATCGAGACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
84134 ATGTATCAACACATGTATGA
1 ATGTATCGATACATTTTTCA
*
84154 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
84174 ATGTATCGATACATT
1 ATGTATCGATACATT
84189 CTATCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:89833 original size:18 final size:18
Alignment explanation
Indices: 89812--89858 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
89802 CTCATCACTT
*
89812 TCATCATCTTCATGATCA
1 TCATCATCTTCATAATCA
*
89830 TCATCTTCTTCATAATCA
1 TCATCATCTTCATAATCA
89848 T-ATTCATCTTC
1 TCA-TCATCTTC
89859 TTTGTCACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.26, C:0.28, G:0.02, T:0.45
Consensus pattern (18 bp):
TCATCATCTTCATAATCA
Found at i:94213 original size:26 final size:27
Alignment explanation
Indices: 94184--94234 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
94174 TTTCTTGATT
94184 GAAA-AACGGGGTTGGAGTATCCCCTC
1 GAAAGAACGGGGTTGGAGTATCCCCTC
*
94210 GAAAGAATGGGGTTGGAGTATCCCC
1 GAAAGAACGGGGTTGGAGTATCCCC
94235 GATGATGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.27, C:0.20, G:0.33, T:0.20
Consensus pattern (27 bp):
GAAAGAACGGGGTTGGAGTATCCCCTC
Found at i:96521 original size:20 final size:19
Alignment explanation
Indices: 96496--96565 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
96486 AGACATAATG
96496 TATCGATACATTGCAGAATA
1 TATCGATACATTGCA-AATA
*
96516 TATCGATACATT-CATACATG
1 TATCGATACATTGCA-A-ATA
* *
96536 TATCGATATATTG-AAAAA
1 TATCGATACATTGCAAATA
96554 TGATCGATACAT
1 T-ATCGATACAT
96566 CTGGGTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
18 2 0.05
19 13 0.32
20 26 0.63
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (19 bp):
TATCGATACATTGCAAATA
Found at i:99335 original size:16 final size:16
Alignment explanation
Indices: 99298--99340 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
99288 CTGCTTCTAA
*
99298 TAATTAATACTTTTTATG
1 TAATT-ATA-TTTTTAAG
99316 -AATTATATTTTTAAG
1 TAATTATATTTTTAAG
99331 TAATTATATT
1 TAATTATATT
99341 AAATATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 7 0.30
16 12 0.52
17 4 0.17
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (16 bp):
TAATTATATTTTTAAG
Found at i:99659 original size:13 final size:13
Alignment explanation
Indices: 99638--99668 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
99628 TTTTTTCGTT
*
99638 AATAATATATATA
1 AATATTATATATA
99651 AATATTATATATA
1 AATATTATATATA
99664 AATAT
1 AATAT
99669 GCATATGTAA
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AATATTATATATA
Found at i:99830 original size:15 final size:16
Alignment explanation
Indices: 99804--99836 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
99794 TACTATTTAT
99804 ATTTTGTTTTGTATTA
1 ATTTTGTTTTGTATTA
*
99820 ATTTT-TTTTGTTTTA
1 ATTTTGTTTTGTATTA
99835 AT
1 AT
99837 CATATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (16 bp):
ATTTTGTTTTGTATTA
Found at i:100475 original size:16 final size:16
Alignment explanation
Indices: 100456--100493 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
100446 ATCATTTTAG
100456 ATTCAAACTATTTTGA
1 ATTCAAACTATTTTGA
*
100472 ATTCAAATTATTTTGA
1 ATTCAAACTATTTTGA
*
100488 TTTCAA
1 ATTCAA
100494 GTCATTTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (16 bp):
ATTCAAACTATTTTGA
Found at i:100500 original size:16 final size:16
Alignment explanation
Indices: 100445--100500 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
100435 TCAATTTTCG
100445 AATCATTTT-AGATTCA
1 AATCATTTTGA-ATTCA
100461 AA-CTATTTTGAATTCA
1 AATC-ATTTTGAATTCA
* *
100477 AATTATTTTGATTTCA
1 AATCATTTTGAATTCA
*
100493 AGTCATTT
1 AATCATTT
100501 CAAATTTGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 1 0.03
16 31 0.94
17 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (16 bp):
AATCATTTTGAATTCA
Found at i:100631 original size:26 final size:24
Alignment explanation
Indices: 100602--100672 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 24
100592 AATATTTAAA
100602 TTAATTGAGTTTAAAATCAATCAAAT
1 TTAATT-A-TTTAAAATCAATCAAAT
* * *
100628 TTAA-TACTT-AAATAAATCATAT
1 TTAATTATTTAAAATCAATCAAAT
100650 TTAATTATTTTAAATATCAATCA
1 TTAATTA-TTTAAA-ATCAATCA
100673 TTTAGGTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
22 15 0.42
23 4 0.11
24 3 0.08
25 3 0.08
26 11 0.31
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.42
Consensus pattern (24 bp):
TTAATTATTTAAAATCAATCAAAT
Found at i:103880 original size:24 final size:24
Alignment explanation
Indices: 103853--103917 Score: 72
Period size: 17 Copynumber: 3.0 Consensus size: 24
103843 GTGGCATCAG
103853 ATTATATTTAAATATGTTATATTA
1 ATTATATTTAAATATGTTATATTA
*
103877 ATTATA--T---T-TG-AATATTA
1 ATTATATTTAAATATGTTATATTA
103894 ATTATATTTAAATATGTTATATTA
1 ATTATATTTAAATATGTTATATTA
103918 TATTTATCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
17 12 0.38
18 2 0.06
19 2 0.06
22 2 0.06
23 2 0.06
24 12 0.38
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (24 bp):
ATTATATTTAAATATGTTATATTA
Found at i:103893 original size:17 final size:17
Alignment explanation
Indices: 103871--103923 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 17
103861 TAAATATGTT
*
103871 ATATTAATTATATTTGA
1 ATATTAATTATATTTAA
103888 ATATTAATTATATTTAA
1 ATATTAATTATATTTAA
103905 ATATGTTATATTATATTTA
1 ATA--TTA-ATTATATTTA
103924 TCAAACACAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 19 0.59
19 3 0.09
20 10 0.31
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (17 bp):
ATATTAATTATATTTAA
Found at i:110054 original size:136 final size:136
Alignment explanation
Indices: 109806--110075 Score: 405
Period size: 136 Copynumber: 2.0 Consensus size: 136
109796 GTATTAACCG
* * * * *
109806 GTTCAGTAGGCTCGACAGTAATGGGTGGATCAAAGTCACACTCGAGAATTGAAGGGTTAATACAG
1 GTTCAGTAGGCTCGACAGCAATGGGTGGATCAAAGTCACACTCGAGAACTAAAGAGTTAATACAA
*
109871 GATTCATCTGTTATATGTCCGTGATCAATAAGAGTTTGTGATTGAGGTGGATTGAAAAATAGACC
66 GATTCATCTGTTATATGTCCGTGATCAATAAGAGTTTGTGATAGAGGTGGATTGAAAAATAGACC
109936 TGGCCA
131 TGGCCA
* * * *
109942 GTTCAGTAGGCTCGATAGCAGTGGGTGGATCAAAGTCACACTTGAGAACTAAAGAGTTAGTACAA
1 GTTCAGTAGGCTCGACAGCAATGGGTGGATCAAAGTCACACTCGAGAACTAAAGAGTTAATACAA
* * ** *
110007 GATTCATCTGTTGTATGTCTGTGATCAATGGGAGTTTGTGATAGAGGTGGATTGAAAGATAGACC
66 GATTCATCTGTTATATGTCCGTGATCAATAAGAGTTTGTGATAGAGGTGGATTGAAAAATAGACC
110072 TGGC
131 TGGC
110076 ATGGAACATC
Statistics
Matches: 119, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
136 119 1.00
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.28
Consensus pattern (136 bp):
GTTCAGTAGGCTCGACAGCAATGGGTGGATCAAAGTCACACTCGAGAACTAAAGAGTTAATACAA
GATTCATCTGTTATATGTCCGTGATCAATAAGAGTTTGTGATAGAGGTGGATTGAAAAATAGACC
TGGCCA
Found at i:113600 original size:7 final size:7
Alignment explanation
Indices: 113588--113614 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
113578 TTACTCATAG
113588 AATTTAA
1 AATTTAA
113595 AATTTAA
1 AATTTAA
113602 AATTTAA
1 AATTTAA
113609 AATTTA
1 AATTTA
113615 TTTTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:115764 original size:20 final size:19
Alignment explanation
Indices: 115730--115772 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
115720 TTTTATGATT
* *
115730 TAATTTTATTTAATCTAAA
1 TAATTATATTTAATCAAAA
115749 TAATTATATATTAATCAAAA
1 TAATTATAT-TTAATCAAAA
115769 TAAT
1 TAAT
115773 ATTTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATTATATTTAATCAAAA
Found at i:118238 original size:14 final size:14
Alignment explanation
Indices: 118219--118245 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
118209 AAATAATTGA
118219 TTTTATTAATATTT
1 TTTTATTAATATTT
118233 TTTTATTAATATT
1 TTTTATTAATATT
118246 ACTTGATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTATTAATATTT
Found at i:119765 original size:2 final size:2
Alignment explanation
Indices: 119758--119785 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
119748 CTTATTGTTA
119758 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
119786 GGAAGATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120006 original size:23 final size:22
Alignment explanation
Indices: 119980--120022 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
119970 ATATTTTTAT
*
119980 TTAATTTTAATTATAAAAATATA
1 TTAATATTAA-TATAAAAATATA
*
120003 TTAATATTAATGTAAAAATA
1 TTAATATTAATATAAAAATA
120023 ATTTTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TTAATATTAATATAAAAATATA
Found at i:120563 original size:2 final size:2
Alignment explanation
Indices: 120556--120584 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
120546 ATTAAAGTGT
120556 TA TA 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 TA TA T
120585 TGAAAACGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:121232 original size:16 final size:16
Alignment explanation
Indices: 121188--121240 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
121178 TTTTTGAATC
121188 ATTTTGAATTCAAATT
1 ATTTTGAATTCAAATT
* **
121204 ATTTCGAGCTCAAATT
1 ATTTTGAATTCAAATT
* *
121220 ATTTTGATTTCAAATC
1 ATTTTGAATTCAAATT
121236 ATTTT
1 ATTTT
121241 AGGTTTGAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (16 bp):
ATTTTGAATTCAAATT
Found at i:126805 original size:22 final size:22
Alignment explanation
Indices: 126780--126881 Score: 64
Period size: 22 Copynumber: 4.5 Consensus size: 22
126770 ATTTGAGTTG
126780 ATTAAATTTAATAATCAAATTA
1 ATTAAATTTAATAATCAAATTA
* **
126802 ATTAAATTT--GAATCACTTTAA
1 ATTAAATTTAATAATCAAATT-A
* * *
126823 ATTCAAGTTATAACAAATTTAAATTA
1 ATT-AAATT-TAA-TAA-TCAAATTA
* * *
126849 ATCAAATTTAATATTTAAATTA
1 ATTAAATTTAATAATCAAATTA
126871 ATTAAATTTAA
1 ATTAAATTTAA
126882 AATTAATAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
20 7 0.12
21 4 0.07
22 31 0.52
23 2 0.03
24 3 0.05
25 4 0.07
26 5 0.08
27 4 0.07
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTAAATTTAATAATCAAATTA
Found at i:126828 original size:69 final size:69
Alignment explanation
Indices: 126749--126879 Score: 165
Period size: 69 Copynumber: 1.9 Consensus size: 69
126739 TCTAAGTTAT
* * * * *
126749 TTTAATTTCAAATCACT-ACAAATTTGAGTTGATTAAATTTAATAATCAAATTAATTAAATTTGA
1 TTTAAATTCAAATCA-TAACAAATTTAAATTAATCAAATTTAATAATCAAATTAATTAAATTTGA
126813 ATCAC
65 ATCAC
* * * *
126818 TTTAAATTCAAGTTATAACAAATTTAAATTAATCAAATTTAATATTTAAATTAATTAAATTT
1 TTTAAATTCAAATCATAACAAATTTAAATTAATCAAATTTAATAATCAAATTAATTAAATTT
126880 AAAATTAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
68 1 0.02
69 51 0.98
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.43
Consensus pattern (69 bp):
TTTAAATTCAAATCATAACAAATTTAAATTAATCAAATTTAATAATCAAATTAATTAAATTTGAA
TCAC
Found at i:126884 original size:16 final size:16
Alignment explanation
Indices: 126856--126897 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
126846 TTAATCAAAT
126856 TTAATATTT-AAATTAA
1 TTAA-ATTTAAAATTAA
126872 TTAAATTTAAAATTAA
1 TTAAATTTAAAATTAA
*
126888 TAAAATTTAA
1 TTAAATTTAA
126898 CATTTCAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAATTTAAAATTAA
Found at i:126894 original size:38 final size:38
Alignment explanation
Indices: 126837--126919 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
126827 AAGTTATAAC
* *
126837 AAATTT-AAATTAATCAAATTTAATATTTAAATTAATT
1 AAATTTAAAATTAATAAAATTTAACATTTAAATTAATT
* *
126874 AAATTTAAAATTAATAAAATTTAACATTTCAATTTATT
1 AAATTTAAAATTAATAAAATTTAACATTTAAATTAATT
126912 AAATTTAA
1 AAATTTAA
126920 TTATTTTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
37 6 0.15
38 35 0.85
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (38 bp):
AAATTTAAAATTAATAAAATTTAACATTTAAATTAATT
Found at i:126897 original size:22 final size:22
Alignment explanation
Indices: 126872--126919 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
126862 TTTAAATTAA
126872 TTAA-ATTTAAAATTAATAAAAT
1 TTAACATTT-AAATTAATAAAAT
* * *
126894 TTAACATTTCAATTTATTAAAT
1 TTAACATTTAAATTAATAAAAT
126916 TTAA
1 TTAA
126920 TTATTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (22 bp):
TTAACATTTAAATTAATAAAAT
Found at i:136575 original size:13 final size:13
Alignment explanation
Indices: 136557--136582 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
136547 AAGTGATTCC
136557 TCCTTTTTTTTTT
1 TCCTTTTTTTTTT
136570 TCCTTTTTTTTTT
1 TCCTTTTTTTTTT
136583 AATTTCTCGA
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TCCTTTTTTTTTT
Found at i:136876 original size:20 final size:20
Alignment explanation
Indices: 136851--136901 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
136841 ATAATATTAA
*
136851 AAATTTTAATTATTTTATAT
1 AAATTTAAATTATTTTATAT
*
136871 AAATTTAAATTATTTTATGT
1 AAATTTAAATTATTTTATAT
136891 AAATTTAAATT
1 AAATTTAAATT
136902 TAATTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
AAATTTAAATTATTTTATAT
Found at i:136908 original size:10 final size:10
Alignment explanation
Indices: 136895--136924 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
136885 TTATGTAAAT
136895 TTAAATTTAA
1 TTAAATTTAA
136905 TTAAATTTAA
1 TTAAATTTAA
*
136915 TTTAATTTAA
1 TTAAATTTAA
136925 AATTTTAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTAAATTTAA
Found at i:137030 original size:26 final size:28
Alignment explanation
Indices: 136962--137032 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 28
136952 GTATTTTTAT
136962 ATTAAAT--TTTATATATTTTATAATTAA
1 ATTAAATAATTTATAT-TTTTATAATTAA
** *
136989 ATTTAAATAAAATATATTTTTATTATTAA
1 A-TTAAATAATTTATATTTTTATAATTAA
137018 A-T-AATAATTTATATT
1 ATTAAATAATTTATATT
137033 AAATCTAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
26 11 0.31
27 2 0.06
28 6 0.17
29 12 0.33
30 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
ATTAAATAATTTATATTTTTATAATTAA
Found at i:137041 original size:23 final size:22
Alignment explanation
Indices: 136957--137042 Score: 61
Period size: 23 Copynumber: 3.8 Consensus size: 22
136947 AAAAAGTATT
** *
136957 TTTATATTAAATTTTAT-ATAT
1 TTTATATTAAATTAAATAATAA
136978 TTTATAATTAAATTTAAATAAAATATA
1 TTTAT-ATTAAA-TTAAAT--AATA-A
*
137005 TTTTTATT--ATTAAATAATAA
1 TTTATATTAAATTAAATAATAA
137025 TTTATATTAAATCTAAAT
1 TTTATATTAAAT-TAAAT
137043 TAAAAAAATC
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
20 8 0.16
21 9 0.18
22 8 0.16
23 15 0.29
24 1 0.02
26 6 0.12
27 4 0.08
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTATATTAAATTAAATAATAA
Found at i:137057 original size:51 final size:50
Alignment explanation
Indices: 136953--137057 Score: 117
Period size: 51 Copynumber: 2.1 Consensus size: 50
136943 TATTAAAAAG
* * *
136953 TATTTTTATATTAAATTTTATATATTTTATAATTAAATTTAAATAAAATA
1 TATTTTTATATTAAATATAATATATATTATAATTAAATTTAAATAAAATA
*
137003 TATTTTTATTATTAAATAATAATTTATATTA-AATCTAAA-TTAAA-AAAATCA
1 TATTTTTA-TATTAAAT-ATAATATATATTATAAT-TAAATTTAAATAAAAT-A
137054 TATT
1 TATT
137058 AAAAGCTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
50 13 0.28
51 21 0.45
52 13 0.28
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (50 bp):
TATTTTTATATTAAATATAATATATATTATAATTAAATTTAAATAAAATA
Found at i:137590 original size:17 final size:17
Alignment explanation
Indices: 137570--137619 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
137560 GAATTCGCAT
*
137570 ATTTATTGAATATTTAA
1 ATTTATTAAATATTTAA
137587 ATTTATTAAATATTTAA
1 ATTTATTAAATATTTAA
*
137604 ATTTATTAAAAATTTA
1 ATTTATTAAATATTTA
137620 TTAAATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTTATTAAATATTTAA
Found at i:137668 original size:13 final size:12
Alignment explanation
Indices: 137640--137679 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
137630 TTTTAAAATG
137640 ATATAAAATTAA
1 ATATAAAATTAA
*
137652 ATA-ATAATTAA
1 ATATAAAATTAA
137663 ATATAAAATTTAA
1 ATATAAAA-TTAA
137676 ATAT
1 ATAT
137680 GTATATTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 10 0.42
12 6 0.25
13 8 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATATAAAATTAA
Found at i:138009 original size:20 final size:19
Alignment explanation
Indices: 137971--138010 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
137961 TTCAAATAAT
*
137971 TATTTAAAATATATTAAAA
1 TATTAAAAATATATTAAAA
*
137990 TATTAAAAATTATTTTAAAA
1 TATTAAAAA-TATATTAAAA
138010 T
1 T
138011 TTATATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TATTAAAAATATATTAAAA
Found at i:138049 original size:25 final size:25
Alignment explanation
Indices: 138021--138088 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 25
138011 TTATATATTT
138021 TTATTATTAAATTAAAATAAAA-ATA
1 TTATT-TTAAATTAAAATAAAATATA
*
138046 TTATTTTTATAATTAAATTAAAATATA
1 TTA-TTTTA-AATTAAAATAAAATATA
*
138073 TT-TTTAAAATTAAAAT
1 TTATTTTAAATTAAAAT
138089 TTTGACAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
24 8 0.22
25 10 0.27
26 14 0.38
27 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TTATTTTAAATTAAAATAAAATATA
Found at i:138089 original size:25 final size:26
Alignment explanation
Indices: 138021--138089 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 26
138011 TTATATATTT
* *
138021 TTATTATT-AAATTAAAATAAAAATA
1 TTATTTTTAAAATTAAAATTAAAATA
*
138046 TTATTTTTATAATT-AAATTAAAATA
1 TTATTTTTAAAATTAAAATTAAAATA
138071 -TATTTTTAAAATTAAAATT
1 TTATTTTTAAAATTAAAATT
138090 TTGACAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.32
25 22 0.58
26 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TTATTTTTAAAATTAAAATTAAAATA
Found at i:138545 original size:18 final size:19
Alignment explanation
Indices: 138507--138597 Score: 59
Period size: 19 Copynumber: 4.9 Consensus size: 19
138497 ACCTAATATG
*
138507 AATTACTATTTAATAATAA
1 AATTAATATTTAATAATAA
*
138526 AATTAATATTTTAT-ATAA
1 AATTAATATTTAATAATAA
*
138544 AATT--TAATT-ATAA-AA
1 AATTAATATTTAATAATAA
* *
138559 ATTTATAAATATTAAT-ATAA
1 AATTA-ATAT-TTAATAATAA
*
138579 AAATAATATTTTAATAATA
1 AATTAATA-TTTAATAATA
138598 TAATAAACAC
Statistics
Matches: 54, Mismatches: 9, Indels: 17
0.68 0.11 0.21
Matches are distributed among these distances:
15 7 0.13
16 5 0.09
18 9 0.17
19 22 0.41
20 11 0.20
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTAATATTTAATAATAA
Found at i:139037 original size:12 final size:12
Alignment explanation
Indices: 138995--139046 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
138985 TTATATGATT
*
138995 ATATAATGTAAA
1 ATATAATATAAA
139007 A-ATAAT-TAAA
1 ATATAATATAAA
* *
139017 TTATTATATAAA
1 ATATAATATAAA
139029 ATATAATATAAA
1 ATATAATATAAA
*
139041 AAATAA
1 ATATAA
139047 AATTATTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
10 4 0.12
11 9 0.27
12 20 0.61
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (12 bp):
ATATAATATAAA
Found at i:139043 original size:35 final size:34
Alignment explanation
Indices: 138983--139070 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 34
138973 TCAAATATTA
* * *
138983 TATTATATGATTATATAATGTAAAAATAATTAA-AT
1 TATTATATAAATATATAATATAAAAATAA--AATAT
139018 TATTATATAAA-ATATAATATAAAAAATAAAATTAT
1 TATTATATAAATATATAATAT-AAAAATAAAA-TAT
139053 TATTATATAAATATATAA
1 TATTATATAAATATATAA
139071 ATTTATTAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
33 2 0.04
34 8 0.17
35 30 0.65
36 6 0.13
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (34 bp):
TATTATATAAATATATAATATAAAAATAAAATAT
Found at i:139050 original size:32 final size:36
Alignment explanation
Indices: 138995--139067 Score: 100
Period size: 34 Copynumber: 2.1 Consensus size: 36
138985 TTATATGATT
* *
138995 ATATAATGTAAAAATAATTAAATTATTA-TATA-AA
1 ATATAATATAAAAATAATAAAATTATTATTATATAA
139029 ATATAATAT-AAAA-AATAAAATTATTATTATATAA
1 ATATAATATAAAAATAATAAAATTATTATTATATAA
139063 ATATA
1 ATATA
139068 TAAATTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 12 0.34
33 8 0.23
34 15 0.43
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (36 bp):
ATATAATATAAAAATAATAAAATTATTATTATATAA
Found at i:139062 original size:23 final size:24
Alignment explanation
Indices: 139034--139078 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
139024 ATAAAATATA
139034 ATATAAA-AAATAAAATTATTATT
1 ATATAAATAAATAAAATTATTATT
* *
139057 ATATAAATATATAAATTTATTA
1 ATATAAATAAATAAAATTATTA
139079 AAATTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATATAAATAAATAAAATTATTATT
Found at i:139185 original size:18 final size:18
Alignment explanation
Indices: 139162--139223 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
139152 AGTAATTTAA
139162 ATTTATAATTAATTATAT
1 ATTTATAATTAATTATAT
* *
139180 ATTTATATTTAATAATAT
1 ATTTATAATTAATTATAT
*
139198 ATTAAATAAATATAA-TATAT
1 ATT-TAT-AAT-TAATTATAT
139218 ATTTAT
1 ATTTAT
139224 TTTTTTTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 19 0.54
19 4 0.11
20 9 0.26
21 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTATAATTAATTATAT
Found at i:139698 original size:11 final size:11
Alignment explanation
Indices: 139682--139748 Score: 59
Period size: 11 Copynumber: 6.0 Consensus size: 11
139672 AACTGAATTA
139682 ATATTTAAAAT
1 ATATTTAAAAT
139693 ATATTTAATAA-
1 ATATTTAA-AAT
*
139704 A-ATAT-AAAT
1 ATATTTAAAAT
139713 ATATTTAAAAT
1 ATATTTAAAAT
*
139724 ACATTTAATAAAAT
1 ATA-TT--TAAAAT
139738 ATATTTAAAAT
1 ATATTTAAAAT
139749 TAAAAAAACT
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
8 2 0.04
9 2 0.04
10 6 0.13
11 21 0.47
12 4 0.09
13 2 0.04
14 8 0.18
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (11 bp):
ATATTTAAAAT
Found at i:139706 original size:14 final size:14
Alignment explanation
Indices: 139687--139745 Score: 64
Period size: 14 Copynumber: 4.0 Consensus size: 14
139677 AATTAATATT
139687 TAAAATATATTTAA
1 TAAAATATATTTAA
* *
139701 TAAAATATAAATATATT
1 TAAAATAT--ATTTA-A
*
139718 TAAAATACATTTAA
1 TAAAATATATTTAA
139732 TAAAATATATTTAA
1 TAAAATATATTTAA
139746 AATTAAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
14 21 0.58
15 4 0.11
16 4 0.11
17 7 0.19
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATATATTTAA
Found at i:139718 original size:31 final size:31
Alignment explanation
Indices: 139682--139740 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
139672 AACTGAATTA
*
139682 ATATTTAAAATATATTTAATAAAATATAAAT
1 ATATTTAAAATACATTTAATAAAATATAAAT
139713 ATATTTAAAATACATTTAATAAAATATA
1 ATATTTAAAATACATTTAATAAAATATA
139741 TTTAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (31 bp):
ATATTTAAAATACATTTAATAAAATATAAAT
Found at i:139751 original size:20 final size:21
Alignment explanation
Indices: 139687--139756 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 21
139677 AATTAATATT
139687 TAAAATATATTTAATAA--AA
1 TAAAATATATTTAATAATTAA
139706 TATAAATATATTTAAAATACATTTAA
1 TA-AAATATATTT--AATA-A-TTAA
139732 TAAAATATATTTAA-AATTAA
1 TAAAATATATTTAATAATTAA
*
139752 AAAAA
1 TAAAA
139757 CTAATCAAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
19 2 0.05
20 18 0.42
21 1 0.02
22 5 0.12
23 3 0.07
25 10 0.23
26 4 0.09
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAATATATTTAATAATTAA
Found at i:139752 original size:31 final size:31
Alignment explanation
Indices: 139686--139753 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
139676 GAATTAATAT
* * *
139686 TTAAAATATATTTAATAAAATATAAATATAT
1 TTAAAATACATTTAATAAAATATAAATAAAA
**
139717 TTAAAATACATTTAATAAAATATATTTAAAA
1 TTAAAATACATTTAATAAAATATAAATAAAA
139748 TTAAAA
1 TTAAAA
139754 AAACTAATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (31 bp):
TTAAAATACATTTAATAAAATATAAATAAAA
Found at i:139935 original size:6 final size:6
Alignment explanation
Indices: 139915--140040 Score: 59
Period size: 6 Copynumber: 20.5 Consensus size: 6
139905 CAAAAAATTA
* *
139915 AAATAT -AATAT -AATAT AAATATAT AAATAT ATATTTT AAATTTAT ATAATAT
1 AAATAT AAATAT AAATAT -AA-ATAT AAATAT A-AATAT AAA--TAT A-AATAT
* * * *
139967 AATTTATT AATATATT AAA-AT TAATAT AAATAT AAA-AT -ATTTT AAATAT
1 AA-ATA-T AA-ATA-T AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
140016 -AATAT -AATAT AAATAT AAATAT AAA
1 AAATAT AAATAT AAATAT AAATAT AAA
140041 ATTTATCACG
Statistics
Matches: 95, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
4 1 0.01
5 26 0.27
6 35 0.37
7 14 0.15
8 17 0.18
9 2 0.02
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (6 bp):
AAATAT
Found at i:140427 original size:20 final size:20
Alignment explanation
Indices: 140389--140426 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
140379 AACGTTATTT
*
140389 TTTAATTTGAATCAATTTTG
1 TTTAATTTAAATCAATTTTG
140409 TTTAATTTAAAT-AATTTT
1 TTTAATTTAAATCAATTTT
140427 TTAATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTAATTTAAATCAATTTTG
Found at i:140528 original size:26 final size:26
Alignment explanation
Indices: 140476--140529 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
140466 AATATATAAA
* * **
140476 TATTAATATAAATATTTTTTATTTTT
1 TATTAATATAAATATATTTAAACTTT
*
140502 TATTAATATTAATATATTTAAACTTT
1 TATTAATATAAATATATTTAAACTTT
140528 TA
1 TA
140530 AGTCGAGTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
TATTAATATAAATATATTTAAACTTT
Found at i:140871 original size:26 final size:28
Alignment explanation
Indices: 140819--140877 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 28
140809 CAAAAGAAGG
** *
140819 AACTTCTAATAACAAAAATGGATGC-TT
1 AACTTCTAATAACAAAAACAGAAGCTTT
*
140846 AACTT-TAGTAACAAAAACAGAAGCTTT
1 AACTTCTAATAACAAAAACAGAAGCTTT
140873 AACTT
1 AACTT
140878 AACGGATAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (28 bp):
AACTTCTAATAACAAAAACAGAAGCTTT
Found at i:141065 original size:28 final size:28
Alignment explanation
Indices: 141027--141083 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
141017 TCAAAAATGA
*
141027 TTTTATTTTAAAACTTTTAGAGATGATT
1 TTTTATCTTAAAACTTTTAGAGATGATT
* *
141055 TTTTATCTTAAAATTTTTAGGGATGATT
1 TTTTATCTTAAAACTTTTAGAGATGATT
141083 T
1 T
141084 CTTTTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (28 bp):
TTTTATCTTAAAACTTTTAGAGATGATT
Found at i:142340 original size:48 final size:49
Alignment explanation
Indices: 142277--142376 Score: 148
Period size: 48 Copynumber: 2.1 Consensus size: 49
142267 AAAATTAAAG
* *
142277 AAATTCACATAAAAAAATGATTAACAATAACTAAACCTAAAATAAACAA
1 AAATCCACATAAAAAAATGATTAACAACAACTAAACCTAAAATAAACAA
* * *
142326 AAATCCACAT-AAAAAATGATTAACAACAACTAAACTTAGAATAAATAA
1 AAATCCACATAAAAAAATGATTAACAACAACTAAACCTAAAATAAACAA
142374 AAA
1 AAA
142377 GGCAACAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 37 0.80
49 9 0.20
ACGTcount: A:0.63, C:0.14, G:0.03, T:0.20
Consensus pattern (49 bp):
AAATCCACATAAAAAAATGATTAACAACAACTAAACCTAAAATAAACAA
Found at i:143990 original size:2 final size:2
Alignment explanation
Indices: 143985--144009 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
143975 ATTTTTTAAA
143985 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
144010 ACTTTTGTTT
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:145566 original size:78 final size:78
Alignment explanation
Indices: 145469--145651 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 78
145459 GTGTTCCTTT
* * * ** * *
145469 GAAAATAACAGGGCTGGAGTATCCTCGGTTGTGAGAAATCGATGA-TTAGAAAAAAAATCGGGAT
1 GAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTAGAAAAAAAATCGGGAT
145533 TAGAGTATCCCCTC
65 TAGAGTATCCCCTC
* * * * * *
145547 GAAAATAACGGGGTTGGAGTCTCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGTCGGGGT
1 GAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-TTTAGAAAAAAAATCGGGAT
*
145612 TGGAGTATCCCCTC
65 TAGAGTATCCCCTC
*
145626 -AGAAGTAACGGGGTTGGAGTATCCCC
1 GA-AAATAACGGGGTTGGAGTATCCCC
145652 GATGAAATAA
Statistics
Matches: 86, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
77 1 0.01
78 36 0.42
79 49 0.57
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.24
Consensus pattern (78 bp):
GAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAAAAAAAATCGGGATT
AGAGTATCCCCTC
Found at i:145640 original size:28 final size:28
Alignment explanation
Indices: 145606--145679 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
145596 GGAATAAAGT
*
145606 CGGGGTTGGAGTATCCCCTCA-GAAGTAA
1 CGGGGTTGGAGTATCCCC-CATGAAATAA
*
145634 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCCATGAAATAA
* *
145662 CGAGATTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
145680 GATTGTGAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCATGAAATAA
Found at i:145733 original size:54 final size:51
Alignment explanation
Indices: 145667--145796 Score: 181
Period size: 51 Copynumber: 2.5 Consensus size: 51
145657 AATAACGAGA
*
145667 TTGGAGTATCCCCGATTGTGAAGAAATTAGTGTTTTTTGGAAATAAAATCGGAG
1 TTGGAGTATCCCCGATTGTG-AGAAATTAGTG--TTTTGAAAATAAAATCGGAG
*
145721 TTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGAG
1 TTGGAGTATCCCCGATTGTGAG-AAATTAGTGTTTTGAAAATAAAATCGGAG
*
145772 TTGGAATATCCCCGATTGTGGAGAA
1 TTGGAGTATCCCCGATTGT-GAGAA
145797 TTGAGAAACT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
51 36 0.52
52 4 0.06
53 11 0.16
54 18 0.26
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.32
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTGTGAGAAATTAGTGTTTTGAAAATAAAATCGGAG
Found at i:146677 original size:13 final size:13
Alignment explanation
Indices: 146659--146684 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
146649 TCACCAACAA
146659 GGCTTTTAGACTC
1 GGCTTTTAGACTC
146672 GGCTTTTAGACTC
1 GGCTTTTAGACTC
146685 TAGACCAAGG
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:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (13 bp):
GGCTTTTAGACTC
Found at i:148187 original size:13 final size:13
Alignment explanation
Indices: 148169--148194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
148159 CAAAGAATAG
148169 ATGTATCGATACA
1 ATGTATCGATACA
148182 ATGTATCGATACA
1 ATGTATCGATACA
148195 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:148191 original size:34 final size:33
Alignment explanation
Indices: 148148--148214 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
148138 AACTTCCTAG
*
148148 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
*
148182 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
148215 TTCCCTTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 14 0.45
34 17 0.55
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.25
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:150510 original size:2 final size:2
Alignment explanation
Indices: 150500--150532 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
150490 GTAATGTGTG
*
150500 TA TA CA TA 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 TA TA TA TA T
150533 CGGATAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:152481 original size:2 final size:2
Alignment explanation
Indices: 152474--152502 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
152464 CATACATCTT
152474 TA TA 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 TA TA T
152503 TTCATTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:155344 original size:17 final size:17
Alignment explanation
Indices: 155324--155359 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
155314 AAGGAAGATG
* *
155324 AAGAAGAAAGAAAGAAA
1 AAGAAAAAAAAAAGAAA
155341 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
155358 AA
1 AA
155360 ATATGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Found at i:161812 original size:30 final size:32
Alignment explanation
Indices: 161778--161856 Score: 78
Period size: 36 Copynumber: 2.5 Consensus size: 32
161768 AAGTTCCCTT
161778 CAAAATGACAAAAAAAA-AAAAAGT-CAAAAG
1 CAAAATGACAAAAAAAAGAAAAAGTGCAAAAG
161808 CAAAA-GCACAAAAAATGAAAAGAAAAAGTGCAAAAG
1 CAAAATG-AC--AAAA--AAAAGAAAAAGTGCAAAAG
161844 CAAAAT-A-AAAAAA
1 CAAAATGACAAAAAA
161857 GGGAACAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
29 1 0.02
30 9 0.22
32 8 0.20
34 4 0.10
35 8 0.20
36 11 0.27
ACGTcount: A:0.72, C:0.10, G:0.11, T:0.06
Consensus pattern (32 bp):
CAAAATGACAAAAAAAAGAAAAAGTGCAAAAG
Found at i:161870 original size:36 final size:35
Alignment explanation
Indices: 161790--161870 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 35
161780 AAATGACAAA
* *
161790 AAAAAAAAAAGTCAAAAGCAAAAGCACAAAAAATG
1 AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
* *
161825 AAAAGAAAAAGTGCAAAAGCAAAA-TA-AAAAAAGGG
1 AAAACAAAAAGT-CAAAAGCAAAAGCACAAAAAA-GG
161860 AACAACAAAAA
1 AA-AACAAAAA
161871 TAAAAAAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
34 6 0.15
35 15 0.38
36 18 0.46
ACGTcount: A:0.72, C:0.10, G:0.14, T:0.05
Consensus pattern (35 bp):
AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
Found at i:163245 original size:27 final size:27
Alignment explanation
Indices: 163203--164075 Score: 1300
Period size: 27 Copynumber: 31.9 Consensus size: 27
163193 TGGCATTTTA
* *
163203 TTTTAAAGTCCACAACTCTGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
163231 TTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
163258 TTTTAAAGTCCACAACTCCGTGGTACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
163286 TTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
163313 TTTTAAAATCCACAACTCCGTGGTACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* *
163341 TTTTTAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
163368 TTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
163395 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
163422 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
** *
163449 TTTTAAGTCCACAACTCTATGGCATTCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
163477 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
163504 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
163531 TTTTAAGTCCACAACTCTGTGGCATTCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
163559 TTTTAA-TACCACAACTCCGTGGCACCC
1 TTTTAAGT-CCACAACTCCGTGGCACCC
163586 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
163613 TTTTAAGTCCACAACTCTGTGGCATTCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
163641 TTTTAA-TACCACAACTCCGTGGCACCC
1 TTTTAAGT-CCACAACTCCGTGGCACCC
163668 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
163695 TTTTAAGTCCACAACTCCGTGGCACTC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
163722 TTTTAAGTCCATAACTCCATGGCATCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
163750 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
163777 TTTTAAGACCACAACTCCGTAGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
163804 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * **
163831 TTTTAAGTCCATAACTCTGTGGCATCTT
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
*
163859 TTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
163886 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* *
163914 TTTTTAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
163941 TTTTAAGTCCACAACTCCGTGGCATCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
163969 TTTTAAGTCCACAACTCCGTGGCATCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
*
163997 TTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
164024 TTTTAAGTCCACAACTCCGTGGCATCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
* * * *
164052 TTTTAAATTCACAAATCGGTGGCA
1 TTTTAAGTCCACAACTCCGTGGCA
164076 ACCCATTCCA
Statistics
Matches: 775, Mismatches: 56, Indels: 28
0.90 0.07 0.03
Matches are distributed among these distances:
27 499 0.64
28 276 0.36
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:163271 original size:55 final size:54
Alignment explanation
Indices: 163203--164075 Score: 1300
Period size: 55 Copynumber: 15.9 Consensus size: 54
163193 TGGCATTTTA
* * *
163203 TTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* *
163258 TTTTAAAGTCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTCTGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * *
163313 TTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTCCACAACTCTGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
*
163368 TTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
** *
163422 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCATTCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCC
163477 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* *
163531 TTTTAAGTCCACAACTCTGTGGCATTCCTTTTAA-TACCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT-CCACAACTCCGTGGCACCC
* *
163586 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATTCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCC
163641 TTTTAA-TACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGT-CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * *
163695 TTTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCCATAACTCCATGGCATCCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCC
* *
163750 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTAGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * **
163804 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCATCTT
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCC
*
163859 TTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
* *
163914 TTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCC
*
163969 TTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * *
164024 TTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAATTCACAAATCGGTGGCA
1 TTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCA
164076 ACCCATTCCA
Statistics
Matches: 754, Mismatches: 52, Indels: 24
0.91 0.06 0.03
Matches are distributed among these distances:
54 261 0.35
55 449 0.60
56 44 0.06
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (54 bp):
TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
Found at i:163302 original size:82 final size:81
Alignment explanation
Indices: 163203--164075 Score: 1320
Period size: 82 Copynumber: 10.6 Consensus size: 81
163193 TGGCATTTTA
*
163203 TTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTC
1 TTTT-AAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTC
*
163268 CACAACTCCGTGGTACCC
64 CACAACTCCGTGGCACCC
* * * *
163286 TTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTCC
1 TTTTAAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
163351 ACAACTCTGTGGCACCC
65 ACAACTCCGTGGCACCC
*
163368 TTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 TTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
163433 CAACTCCGTGGCACCC
66 CAACTCCGTGGCACCC
*
163449 TTTTAAGTCCACAACTCTATGGCATTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 TTTTAAGTCCACAACTCTGTGGCA-TCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
163514 ACAACTCCGTGGCACCC
65 ACAACTCCGTGGCACCC
163531 TTTTAAGTCCACAACTCTGTGGCATTCCTTTTAA-TACCACAACTCCGTGGCACCCTTTTAAGTC
1 TTTTAAGTCCACAACTCTGTGGCA-TCCTTTTAAGT-CCACAACTCCGTGGCACCCTTTTAAGTC
163595 CACAACTCCGTGGCACCC
64 CACAACTCCGTGGCACCC
163613 TTTTAAGTCCACAACTCTGTGGCATTCCTTTTAA-TACCACAACTCCGTGGCACCCTTTTAAGTC
1 TTTTAAGTCCACAACTCTGTGGCA-TCCTTTTAAGT-CCACAACTCCGTGGCACCCTTTTAAGTC
163677 CACAACTCCGTGGCACCC
64 CACAACTCCGTGGCACCC
* * *
163695 TTTTAAGTCCACAACTCCGTGGCA-CTCTTTTAAGTCCATAACTCCATGGCATCCCTTTTAAGTC
1 TTTTAAGTCCACAACTCTGTGGCATC-CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
163759 CACAACTCCGTGGCACCC
64 CACAACTCCGTGGCACCC
* * * *
163777 TTTTAAGACCACAACTCCGTAGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 TTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
* * **
163842 TAACTCTGTGGCATCTT
66 CAACTCCGTGGCA-CCC
* *
163859 TTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCC
1 TTTTAAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
163924 ACAACTCTGTGGCACCC
65 ACAACTCCGTGGCACCC
*
163941 TTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1 TTTTAAGTCCACAACTCTGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
164006 CACAACTCTGTGGCACCC
64 CACAACTCCGTGGCACCC
* * * * *
164024 TTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAATTCACAAATCGGTGGCA
1 TTTTAAGTCCACAACTCTGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGCA
164076 ACCCATTCCA
Statistics
Matches: 740, Mismatches: 39, Indels: 22
0.92 0.05 0.03
Matches are distributed among these distances:
80 1 0.00
81 116 0.16
82 466 0.63
83 157 0.21
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (81 bp):
TTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
CAACTCCGTGGCACCC
Found at i:164103 original size:32 final size:32
Alignment explanation
Indices: 164061--164503 Score: 708
Period size: 32 Copynumber: 13.8 Consensus size: 32
164051 CTTTTAAATT
* *
164061 CACAAATCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
164093 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
164125 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
164157 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
164189 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
164221 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
164253 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
164285 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
164317 CACAAGTCGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
* * *
164349 CACAAGTAGGTGGCAACTCATTTCAAAGTCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** *
164381 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
164413 CACAAGTTGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
164445 CGCAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
164477 CGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
164504 TCACCATTTT
Statistics
Matches: 388, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
31 3 0.01
32 382 0.98
33 3 0.01
ACGTcount: A:0.31, C:0.34, G:0.19, T:0.16
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:165771 original size:17 final size:17
Alignment explanation
Indices: 165751--165786 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
165741 AAGGAAGATG
* *
165751 AAGAAGAAAGAAAGAAA
1 AAGAAAAAAAAAAGAAA
165768 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
165785 AA
1 AA
165787 ATATGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Found at i:166164 original size:2 final size:2
Alignment explanation
Indices: 166151--166185 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
166141 TTATTTTATT
*
166151 TA TA TG TA TA 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 TA TA TA TA TA T
166186 TTTGAAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:168542 original size:38 final size:38
Alignment explanation
Indices: 168508--168608 Score: 159
Period size: 38 Copynumber: 2.7 Consensus size: 38
168498 ACCAGCCACT
* *
168508 AGCCAA-TTCTAAATTGAATTATCTAGTCGTCAGCCGCC
1 AGCCAATTTC-AAATTGAATTCTCTAGCCGTCAGCCGCC
*
168546 AGTCAATTTCAAATTGAATTCTCTAGCCGTCAGCCGCC
1 AGCCAATTTCAAATTGAATTCTCTAGCCGTCAGCCGCC
168584 AGCCAATTTCAAATTGAATTCTCTA
1 AGCCAATTTCAAATTGAATTCTCTA
168609 ACCATCAACT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
38 55 0.95
39 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (38 bp):
AGCCAATTTCAAATTGAATTCTCTAGCCGTCAGCCGCC
Found at i:175468 original size:16 final size:16
Alignment explanation
Indices: 175421--175484 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
175411 TCCTCCAAGT
175421 TTTTTGAAAATATTTTTA
1 TTTTT-AAAAT-TTTTTA
** * *
175439 TTTTTTTCACTTTTTTG
1 -TTTTTAAAATTTTTTA
*
175456 TTTTTCAAATTTTTTA
1 TTTTTAAAATTTTTTA
175472 TTTTTAAAATTTT
1 TTTTTAAAATTTT
175485 AATTATTTAA
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
16 24 0.67
17 5 0.14
18 2 0.06
19 5 0.14
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTTTAAAATTTTTTA
Found at i:175539 original size:5 final size:5
Alignment explanation
Indices: 175497--175556 Score: 56
Period size: 5 Copynumber: 12.4 Consensus size: 5
175487 TTATTTAAAT
* *
175497 AATAA TAAT-A AAT-A AAT-A ATTAA AA-AA TAATAA AATAA CATAA AATAA
1 AATAA -AATAA AATAA AATAA AATAA AATAA -AATAA AATAA AATAA AATAA
175545 AATAA AATAA AA
1 AATAA AATAA AA
175557 ATTAACATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
4 12 0.26
5 30 0.64
6 5 0.11
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:175545 original size:25 final size:25
Alignment explanation
Indices: 175493--175571 Score: 74
Period size: 26 Copynumber: 3.0 Consensus size: 25
175483 TTAATTATTT
175493 AAATAATAATAATAA-ATAAATAATTAAA
1 AAATAATAA-AATAACAT-AA-AA-TAAA
175521 AAATAATAAAATAACATAAAATAAA
1 AAATAATAAAATAACATAAAATAAA
175546 ATAA-AATAAAAATTAACAT-AAATAAA
1 A-AATAAT-AAAA-TAACATAAAATAAA
175572 TATCCAAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
25 8 0.17
26 15 0.32
27 13 0.28
28 11 0.23
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (25 bp):
AAATAATAAAATAACATAAAATAAA
Found at i:182975 original size:21 final size:20
Alignment explanation
Indices: 182945--182986 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
182935 AATTTAAAAA
* *
182945 ATATTTTTATATTAATATTT
1 ATATTTTTATAATAAAATTT
182965 ATATATTTTATAATAAAATTT
1 ATAT-TTTTATAATAAAATTT
182986 A
1 A
182987 AATAAAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTTTTATAATAAAATTT
Found at i:182986 original size:46 final size:43
Alignment explanation
Indices: 182917--183004 Score: 108
Period size: 46 Copynumber: 2.0 Consensus size: 43
182907 TTGTATTTAT
182917 TATTTATAATTAATAAAAAATTTAAA-AAATA-TTTTTATATTAA
1 TATTTATAATTAATAAAAAATTTAAATAAA-AGTTTTT-TATTAA
*
182960 TATTTATATATTTTATAATAAAATTTAAATAAAAGTTTTTTATTA
1 TATTTATA-A-TTAATAA-AAAATTTAAATAAAAGTTTTTTATTA
183005 TTAAATAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
43 8 0.21
44 1 0.03
45 6 0.15
46 16 0.41
47 8 0.21
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (43 bp):
TATTTATAATTAATAAAAAATTTAAATAAAAGTTTTTTATTAA
Found at i:183164 original size:22 final size:23
Alignment explanation
Indices: 183139--183181 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
183129 ATTATTATTT
183139 AAATATAATTATAAAA-ATATAA
1 AAATATAATTATAAAATATATAA
*
183161 AAATATTATTATAAAATATAT
1 AAATATAATTATAAAATATAT
183182 TTTTAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATATAATTATAAAATATATAA
Found at i:183176 original size:14 final size:14
Alignment explanation
Indices: 183121--183160 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
183111 TATTTATATA
*
183121 ATAAAAATATTATT
1 ATAAAAATATAATT
**
183135 ATTTAAATATAATT
1 ATAAAAATATAATT
183149 ATAAAAATATAA
1 ATAAAAATATAA
183161 AAATATTATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAAAAATATAATT
Found at i:183818 original size:22 final size:22
Alignment explanation
Indices: 183779--183830 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
183769 ATATTAAAAT
183779 ATATATAAAATAAATTAT-TAA
1 ATATATAAAATAAATTATATAA
*
183800 CATAT-TAAATTAAATTTATATAA
1 -ATATATAAAATAAA-TTATATAA
183823 ATATATAA
1 ATATATAA
183831 TAATTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 8 0.31
22 12 0.46
23 6 0.23
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATATAAAATAAATTATATAA
Found at i:184111 original size:19 final size:19
Alignment explanation
Indices: 184087--184125 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
184077 AACTTGTCTC
184087 TATAAATGTCAACTACACA
1 TATAAATGTCAACTACACA
184106 TATAAATGTCAACTACACA
1 TATAAATGTCAACTACACA
184125 T
1 T
184126 GATGTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.21, G:0.05, T:0.28
Consensus pattern (19 bp):
TATAAATGTCAACTACACA
Found at i:185008 original size:44 final size:44
Alignment explanation
Indices: 184925--185008 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
184915 TATATAATCA
* **
184925 ATTATATTTATATATTTTTTAATAATATTAAAATTTTAATATAT
1 ATTATATTTATATATTTTTAAATAATATTAAAAAGTTAATATAT
*
184969 ATTAT-TTTATATATTTATCTAAAT-ATTTTAAAAAGTTAAT
1 ATTATATTTATATATTT-T-TAAATAATATTAAAAAGTTAAT
185009 TAACTATTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
43 11 0.32
44 19 0.56
45 4 0.12
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (44 bp):
ATTATATTTATATATTTTTAAATAATATTAAAAAGTTAATATAT
Done.