Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008563.1 Hibiscus syriacus cultivar Beakdansim tig00111473_pilon, whole genome shotgun sequence
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: 653500
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
File 1 of 3
Found at i:3341 original size:59 final size:59
Alignment explanation
Indices: 3219--3341 Score: 131
Period size: 59 Copynumber: 2.1 Consensus size: 59
3209 TGCTAACCCG
* * * **
3219 AATATGACACATAAGGTCGTAACTACCATCTACACTAGTTATACTTTAGTGCAGTCATG
1 AATATGACACATAAGGTCGTAACCACCATATACACTAGTTATACTTTAGTGCAATCACA
** * * * *
3278 AATATGACACATAAGGTCGTGCCCACCATATGCACTA-TGTATCCTTTATTGCAATCCCA
1 AATATGACACATAAGGTCGTAACCACCATATACACTAGT-TATACTTTAGTGCAATCACA
3337 AATAT
1 AATAT
3342 TCAGCTTGTT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
58 1 0.02
59 51 0.98
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (59 bp):
AATATGACACATAAGGTCGTAACCACCATATACACTAGTTATACTTTAGTGCAATCACA
Found at i:13350 original size:25 final size:26
Alignment explanation
Indices: 13293--13350 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
13283 GTCTAATAAT
*
13293 ATATATAAAACATCATTTAACAACTA
1 ATATATAAAACAGCATTTAACAACTA
* * *
13319 ATGTATAAAATAGCATTT-ATAACTA
1 ATATATAAAACAGCATTTAACAACTA
*
13344 TTATATA
1 ATATATA
13351 GTAGTTTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.36
Consensus pattern (26 bp):
ATATATAAAACAGCATTTAACAACTA
Found at i:14729 original size:30 final size:30
Alignment explanation
Indices: 14672--14729 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
14662 ATTTACTCTA
* *
14672 TAACTTTTCAAAATTTTAAAATAGGTCCCC
1 TAACTTTTAAAAATTATAAAATAGGTCCCC
*
14702 TAACTTTTGAAAAATTATAGAAT-GGTCC
1 TAACTTTT-AAAAATTATAAAATAGGTCC
14730 TAATTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (30 bp):
TAACTTTTAAAAATTATAAAATAGGTCCCC
Found at i:16851 original size:59 final size:59
Alignment explanation
Indices: 16724--16843 Score: 170
Period size: 59 Copynumber: 2.0 Consensus size: 59
16714 GTAGATCTAA
* * * * *
16724 CCCAAATATGACACATGAGGTCGTGCTCACCCTATGCACTAGTTATACTTTAGTACAAT
1 CCCAAATATGACACATAAGGTCATGCCCACCATATGCACTAGGTATACTTTAGTACAAT
*
16783 CCCAAATATGACACATAAGGTCATGCCCACCATATGCACTAGGTAT-CTTTTAGTGCAAT
1 CCCAAATATGACACATAAGGTCATGCCCACCATATGCACTAGGTATAC-TTTAGTACAAT
16842 CC
1 CC
16844 TGAATATGTA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
58 1 0.02
59 53 0.98
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (59 bp):
CCCAAATATGACACATAAGGTCATGCCCACCATATGCACTAGGTATACTTTAGTACAAT
Found at i:22366 original size:27 final size:27
Alignment explanation
Indices: 22336--22401 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
22326 TATATCATTC
* *
22336 AAAATAACTTAAATTAAACATTTGTAT
1 AAAAAAACTTAAATCAAACATTTGTAT
*
22363 AAAAAAACTTAAATCAAATATTTGTAT
1 AAAAAAACTTAAATCAAACATTTGTAT
22390 AAAAAAACTTAA
1 AAAAAAACTTAA
22402 TACTTAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.32
Consensus pattern (27 bp):
AAAAAAACTTAAATCAAACATTTGTAT
Found at i:24129 original size:21 final size:21
Alignment explanation
Indices: 24084--24126 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
24074 AAAAGAAATC
*
24084 AAATAACATTTTTAAATCATT
1 AAATAACATATTTAAATCATT
24105 AAATAA-ATATTT-AATCATT
1 AAATAACATATTTAAATCATT
24124 AAA
1 AAA
24127 AATTTAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 5 0.24
21 6 0.29
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATAACATATTTAAATCATT
Found at i:28348 original size:24 final size:26
Alignment explanation
Indices: 28302--28352 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
28292 GCTTAAGTAT
*
28302 AAAGAAGAGGTAAGAAATGAAATGAAA
1 AAAGAAGAGGTAAAAAATGAAAT-AAA
28329 AAAGAA-A-GTAAAAAAT-AAATAAA
1 AAAGAAGAGGTAAAAAATGAAATAAA
28352 A
1 A
28353 GGGTGTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 4 0.17
24 4 0.17
25 8 0.35
26 1 0.04
27 6 0.26
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.12
Consensus pattern (26 bp):
AAAGAAGAGGTAAAAAATGAAATAAA
Found at i:35688 original size:42 final size:42
Alignment explanation
Indices: 35651--35891 Score: 241
Period size: 42 Copynumber: 5.7 Consensus size: 42
35641 TGTCCCGAAT
* * * *
35651 GACCTCATATATGTCCCGAAAGACCACATATATGTCCCGAAG
1 GACCACATATATGTCCCGAAGGACCACATATATGTTCCAAAG
* * * *
35693 GACCATATATAATTGTCCCTAAGGACCACAAATATGTTACAAAG
1 GACCACATAT-A-TGTCCCGAAGGACCACATATATGTTCCAAAG
* * * * *
35737 AACCAAATATATGTCCCGAATGACCTCATATATATTCCAAAG
1 GACCACATATATGTCCCGAAGGACCACATATATGTTCCAAAG
* * * * * *
35779 GATCACATAT-TGTCCTGAAGGATCGCAAATATGTTACAAAG
1 GACCACATATATGTCCCGAAGGACCACATATATGTTCCAAAG
* * * *
35820 GACCAAATATATGTCCCAAAGGACCTCATATATGTTCCAAAC
1 GACCACATATATGTCCCGAAGGACCACATATATGTTCCAAAG
*
35862 GATCACATATATGTCCCGAAGGACCACATA
1 GACCACATATATGTCCCGAAGGACCACATA
35892 GAACCTTAGA
Statistics
Matches: 157, Mismatches: 39, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
41 32 0.20
42 90 0.57
43 2 0.01
44 33 0.21
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.24
Consensus pattern (42 bp):
GACCACATATATGTCCCGAAGGACCACATATATGTTCCAAAG
Found at i:35716 original size:23 final size:21
Alignment explanation
Indices: 35641--35891 Score: 198
Period size: 21 Copynumber: 11.9 Consensus size: 21
35631 CATATAAATT
* *
35641 TGTCCCGAATGACCTCATATA
1 TGTCCCGAAGGACCACATATA
*
35662 TGTCCCGAAAGACCACATATA
1 TGTCCCGAAGGACCACATATA
*
35683 TGTCCCGAAGGACCATATATAA
1 TGTCCCGAAGGACCACATAT-A
* *
35705 TTGTCCCTAAGGACCACAAATA
1 -TGTCCCGAAGGACCACATATA
** * * *
35727 TGTTACAAAGAACCAAATATA
1 TGTCCCGAAGGACCACATATA
* *
35748 TGTCCCGAATGACCTCATATA
1 TGTCCCGAAGGACCACATATA
* * * *
35769 TATTCCAAAGGATCACATAT-
1 TGTCCCGAAGGACCACATATA
* * * *
35789 TGTCCTGAAGGATCGCAAATA
1 TGTCCCGAAGGACCACATATA
** * *
35810 TGTTACAAAGGACCAAATATA
1 TGTCCCGAAGGACCACATATA
* *
35831 TGTCCCAAAGGACCTCATATA
1 TGTCCCGAAGGACCACATATA
* * * *
35852 TGTTCCAAACGATCACATATA
1 TGTCCCGAAGGACCACATATA
35873 TGTCCCGAAGGACCACATA
1 TGTCCCGAAGGACCACATA
35892 GAACCTTAGA
Statistics
Matches: 175, Mismatches: 52, Indels: 6
0.75 0.22 0.03
Matches are distributed among these distances:
20 14 0.08
21 142 0.81
22 2 0.01
23 17 0.10
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATATA
Found at i:35817 original size:83 final size:83
Alignment explanation
Indices: 35657--35889 Score: 290
Period size: 83 Copynumber: 2.8 Consensus size: 83
35647 GAATGACCTC
* * * * *
35657 ATATATGTCCCGAAAGACCACATATATGTCCCGAAGGACCATATATAATTGTCCCT-AAGGACCA
1 ATATATGTCCCGAAAGACCTCATATATGTTCCAAAGGATC--ACAT-ATTGT-CCTGAAGGACCA
35721 CAAATATGTTACAAAGAACCAA
62 CAAATATGTTACAAAGAACCAA
* * * *
35743 ATATATGTCCCGAATGACCTCATATATATTCCAAAGGATCACATATTGTCCTGAAGGATCGCAAA
1 ATATATGTCCCGAAAGACCTCATATATGTTCCAAAGGATCACATATTGTCCTGAAGGACCACAAA
*
35808 TATGTTACAAAGGACCAA
66 TATGTTACAAAGAACCAA
* *
35826 ATATATGTCCC-AAAGGACCTCATATATGTTCCAAACGATCACATATATGTCCCGAAGGACCACA
1 ATATATGTCCCGAAA-GACCTCATATATGTTCCAAAGGATCACATAT-TGTCCTGAAGGACCACA
35890 TAGAACCTTA
Statistics
Matches: 128, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
82 5 0.04
83 72 0.56
84 17 0.13
86 34 0.27
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (83 bp):
ATATATGTCCCGAAAGACCTCATATATGTTCCAAAGGATCACATATTGTCCTGAAGGACCACAAA
TATGTTACAAAGAACCAA
Found at i:38624 original size:37 final size:37
Alignment explanation
Indices: 38487--38781 Score: 209
Period size: 37 Copynumber: 8.0 Consensus size: 37
38477 TCATATGTAT
** *
38487 ATATATATTGTATATAG-TTTGAAAACATTTTTAAAAAAA
1 ATATATATAATATATAGTTTTGAAAACATTTTT---GAAA
* * * *
38526 CACACATATAATATATAGTTTTGAAAATATGTTTGAAAA
1 -ATATATATAATATATAGTTTTGAAAACATTTTTG-AAA
* * *
38565 CATTTATATATTATATAGTTTTTAAAACATTTTTGAAA
1 -ATATATATAATATATAGTTTTGAAAACATTTTTGAAA
* * *
38603 ATAAATATAATATATATTTTTTAAAACATTTTTGAAA
1 ATATATATAATATATAGTTTTGAAAACATTTTTGAAA
*
38640 ATATATATATTATATA-TTTTGAAAACA-TTTTG---
1 ATATATATAATATATAGTTTTGAAAACATTTTTGAAA
** *
38672 -TA-A-AT-ATATATAGTTTAAAAAAAATATTTTGAAAA
1 ATATATATAATATATAGTTTTGAAAACAT-TTTTG-AAA
* * *
38707 CATATATATATTATATAATTTTGAAATCA-TTTTGAAA
1 -ATATATATAATATATAGTTTTGAAAACATTTTTGAAA
* * *
38744 A-ATTATATAGTATATAGTTTTAAAAATATTTTTGAAA
1 ATA-TATATAATATATAGTTTTGAAAACATTTTTGAAA
38781 A
1 A
38782 CATTTTTTAA
Statistics
Matches: 203, Mismatches: 36, Indels: 35
0.74 0.13 0.13
Matches are distributed among these distances:
28 6 0.03
29 10 0.05
30 1 0.00
31 7 0.03
35 6 0.03
36 31 0.15
37 61 0.30
38 9 0.04
39 33 0.16
40 26 0.13
41 13 0.06
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.44
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTGAAAACATTTTTGAAA
Found at i:38775 original size:47 final size:46
Alignment explanation
Indices: 38725--38815 Score: 119
Period size: 48 Copynumber: 1.9 Consensus size: 46
38715 TATTATATAA
* * *
38725 TTTTGAAATCATTTTGAAAAATTATATAGTATATAGTTTTAAAAATAT
1 TTTTGAAAACATTTTGAAAAA-TATATAATATATA-ATTTAAAAATAT
**
38773 TTTTGAAAACATTTTTTAAAATATATAATATATAATTTAAAAA
1 TTTTGAAAACATTTTGAAAAATATATAATATATAATTTAAAAA
38816 GAGAAAAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
46 8 0.21
47 12 0.32
48 18 0.47
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.45
Consensus pattern (46 bp):
TTTTGAAAACATTTTGAAAAATATATAATATATAATTTAAAAATAT
Found at i:38945 original size:20 final size:20
Alignment explanation
Indices: 38898--39190 Score: 175
Period size: 20 Copynumber: 14.3 Consensus size: 20
38888 AATGACCAAC
* *
38898 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
*
38917 AAAACCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
* * **
38937 AAAAGCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTTAG
* **
38957 AAGATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
* * *
38978 AAGAATCGCAATGCGATTCAT
1 AA-AATCGCAACGCGATTTAG
**
38999 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
39020 AAGAATCGCAACGCGATTCAG
1 AA-AATCGCAACGCGATTTAG
39041 AAAATCGCAACGCGATCTTCCAAG
1 AAAATCGCAACGCGAT-TT---AG
*
39065 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-TAG
* *
39085 AGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTTAG
* * *
39105 AAAATCGCAATGTGATTCCA-
1 AAAATCGCAACGCGATT-TAG
* *
39125 AGAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-TAG
* *
39145 AGAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-TAG
* *
39165 AGAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTTAG
39185 AAAATC
1 AAAATC
39191 AGTAAATTCA
Statistics
Matches: 221, Mismatches: 38, Indels: 29
0.77 0.13 0.10
Matches are distributed among these distances:
19 21 0.10
20 139 0.63
21 16 0.07
22 26 0.12
23 1 0.00
24 18 0.08
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:39007 original size:42 final size:42
Alignment explanation
Indices: 38960--39180 Score: 292
Period size: 40 Copynumber: 5.3 Consensus size: 42
38950 TGAAAAGAAG
* *
38960 ATCGCAACGCGATCTTCCAAGAATCGCAATGCGATT-CATAAA
1 ATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCCA-AGA
*
39002 ATCGCAACGCGATCTTCCAAGAATCGCAACGCGATT-CAGAAA
1 ATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCCA-AGA
39044 ATCGCAACGCGATCTTCCAAGAAAATCGCAACGCGATTCCAAGA
1 ATCGCAACGCGATCTTCCAAG--AATCGCAACGCGATTCCAAGA
*** * *
39088 ATCGCAACGCGAT-TAAGAA-AATCGCAATGTGATTCCAAGA
1 ATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCCAAGA
39128 ATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTCCAAGA
1 ATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCCAAGA
39168 ATCGCAACGCGAT
1 ATCGCAACGCGAT
39181 TCAGAAAATC
Statistics
Matches: 161, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
39 3 0.02
40 62 0.39
42 61 0.38
43 3 0.02
44 30 0.19
45 2 0.01
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.18
Consensus pattern (42 bp):
ATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCCAAGA
Found at i:39122 original size:40 final size:40
Alignment explanation
Indices: 38898--39190 Score: 231
Period size: 40 Copynumber: 7.2 Consensus size: 40
38888 AATGACCAAC
* *
38898 AAAATCGCAACGCGATAT-CAA-AACCGCAACGCGATTTAG
1 AAAATCGCAACGCGAT-TCCAAGAATCGCAACGCGATTAAG
* * **** ***
38937 AAAAGCGCAACGTTGAAAAGAAG-ATCGCAACGCGATCTTCC
1 AAAATCGCAACG-CGATTCCAAGAATCGCAACGCGAT-TAAG
* * ***
38978 AAGAATCGCAATGCGATT-CATAAAATCGCAACGCGATCTTCC
1 AA-AATCGCAACGCGATTCCA-AGAATCGCAACGCGAT-TAAG
*
39020 AAGAATCGCAACGCGATT-CAGAAAATCGCAACGCGATCTTCCAAG
1 AA-AATCGCAACGCGATTCCA-AGAATCGCAACGCGA--TT--AAG
39065 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG
* *
39105 AAAATCGCAATGTGATTCCAAGAATCGCAACGCGATTCCAAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATT--AAG
*
39147 --AATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG
39185 AAAATC
1 AAAATC
39191 AGTAAATTCA
Statistics
Matches: 212, Mismatches: 26, Indels: 31
0.79 0.10 0.12
Matches are distributed among these distances:
38 2 0.01
39 11 0.05
40 92 0.43
41 7 0.03
42 65 0.31
43 1 0.00
44 30 0.14
45 4 0.02
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.17
Consensus pattern (40 bp):
AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG
Found at i:39296 original size:6 final size:6
Alignment explanation
Indices: 39285--39362 Score: 135
Period size: 6 Copynumber: 13.5 Consensus size: 6
39275 GACACGTATT
39285 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
39333 ACCACG ACCACG ACC-CG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
39363 CGAGACGAGA
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 15 0.21
6 57 0.79
ACGTcount: A:0.31, C:0.53, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:39872 original size:6 final size:6
Alignment explanation
Indices: 39856--39935 Score: 153
Period size: 6 Copynumber: 13.5 Consensus size: 6
39846 TCTCGTCTCG
39856 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
39903 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
39936 AATACGTGTC
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 5 0.07
6 69 0.93
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:40063 original size:20 final size:20
Alignment explanation
Indices: 40038--40197 Score: 175
Period size: 20 Copynumber: 7.8 Consensus size: 20
40028 CTCATTTTCT
40038 GAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
40058 GAATCGCGTTGCGATTTTCTT-
1 GAATCGCGTTGCGA--TTCTTG
40079 -AATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
*
40098 GAATCGCGTTGCGATT-TTCT
1 GAATCGCGTTGCGATTCTT-G
*
40118 GAATCGCATTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
40138 GAAGATCGCGTTGCGATTCTCT-
1 G-A-ATCGCGTTGCGATTCT-TG
* *
40160 TAATCGCATTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
*
40180 GAATATCGCGCTGCGATT
1 G-A-ATCGCGTTGCGATT
40198 TTCTTTTGAC
Statistics
Matches: 119, Mismatches: 9, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.04
19 3 0.03
20 73 0.61
21 5 0.04
22 32 0.27
23 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (20 bp):
GAATCGCGTTGCGATTCTTG
Found at i:40216 original size:20 final size:20
Alignment explanation
Indices: 40191--40241 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
40181 AATATCGCGC
* *
40191 TGCGATTTTCTTTTGACCGT
1 TGCGATTTTCTTTTCAACGT
40211 TGCGATTTTCTTTTCAACGT
1 TGCGATTTTCTTTTCAACGT
40231 TGCGATTTTCT
1 TGCGATTTTCT
40242 AAATCGCGTT
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:0.12, C:0.20, G:0.18, T:0.51
Consensus pattern (20 bp):
TGCGATTTTCTTTTCAACGT
Found at i:40217 original size:42 final size:40
Alignment explanation
Indices: 40031--40202 Score: 254
Period size: 40 Copynumber: 4.2 Consensus size: 40
40021 GAATTTACTC
*
40031 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
40071 ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
* *
40111 ATTTTCTGAATCGCATTGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCG
* * *
40153 ATTCTCTTAATCGCATTGCGATTCTTGGAATATCGCGCTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCG
40195 ATTTTCTT
1 ATTTTCTT
40203 TTGACCGTTG
Statistics
Matches: 122, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 65 0.53
41 1 0.01
42 56 0.46
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (40 bp):
ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
Found at i:40392 original size:26 final size:26
Alignment explanation
Indices: 40352--40402 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
40342 ATTTAAAAAT
40352 ACTTTTGAAAATATATAT-TATATAG
1 ACTTTTGAAAATATATATATATATAG
*
40377 ACTTTTGGAAAGTATATATATATATA
1 ACTTTT-GAAAATATATATATATATA
40403 TATATTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.26
26 11 0.48
27 6 0.26
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (26 bp):
ACTTTTGAAAATATATATATATATAG
Found at i:46036 original size:43 final size:43
Alignment explanation
Indices: 45881--46036 Score: 118
Period size: 43 Copynumber: 3.4 Consensus size: 43
45871 TAGAGCCAAT
*
45881 TTCAACTTCAC-AGCGAAGGATATTGGACTCTAGACAACACAAG
1 TTCAACTTCACGA-CGAAGGATATTGGACTCCAGACAACACAAG
* ** * * * *
45924 TTCAACTTCACGACGAGGGGACCGTTGG-TTGCCAATAAACAATTTCCCAAT
1 TTCAACTTCACGACGA-AGGA-TATTGGACT-CC---AGACAA---CACAAG
* *
45975 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACACAAG
46018 TTCAACTTCACGACGAAGG
1 TTCAACTTCACGACGAAGG
46037 GACCGCTGGT
Statistics
Matches: 85, Mismatches: 17, Indels: 22
0.69 0.14 0.18
Matches are distributed among these distances:
43 36 0.42
44 5 0.06
45 5 0.06
46 5 0.06
48 5 0.06
49 6 0.07
50 4 0.05
51 19 0.22
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (43 bp):
TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACACAAG
Found at i:47065 original size:106 final size:105
Alignment explanation
Indices: 45970--47064 Score: 1609
Period size: 106 Copynumber: 10.3 Consensus size: 105
45960 AAACAATTTC
45970 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCAC-ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
46035 GGGACCGCTGGTTGTCAATAAACAATTTTCCAA-TTCTAGAG
65 GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTC-AGAG
* * * * * *
46076 TCGATTTCAACTTCACAGCAAATGATAGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACA-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
46141 GGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAG
65 GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAG
*
46182 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCAC-ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
46247 GGGACCGCTAGTTGTCAATAAACAATTTTCCAA-TTCTAGAG
65 GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTC-AGAG
* * *
46288 TCAATTTCAACTTCACAGCGAAGGATAGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACA-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
46353 GGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAG
65 GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAG
*
46394 CCAATTTCAACTTCACAAGGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCAC-ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
46459 GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAAAG
65 GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAG
* *
46500 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGTATGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACA-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
46565 GGGACCGCTGGTTCTCAACAAACAACTTCTCAATTTCAGAG
65 GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAG
46606 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCAC-ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
46671 GGGACTGCTGGTTGTCAATAAATAACTTCTCAATTTCAGAG
65 GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAG
* *
46712 CCAATTTCAACTTCACAACGAAAGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCAC-ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
46777 GGGACCGCTGGTTGTAAATAAACAATTTCCCAATTTCATAG
65 GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAG
*
46818 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACA-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
46883 GGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAG
65 GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAG
* * * *
46924 CCAATTTCAACCTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 CCAATTTCAACTTCACA-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * * * * ** *
46989 GGTACGGTTGGTTGTCAACAAACAATTTCCCGGTTCCAGAG
65 GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAG
* *
47030 CCACTTTCAACTTCACGACGGAGGATATTGGACTC
1 CCAATTTCAACTTCAC-ACGAAGGATATTGGACTC
47065 GGAACAATGC
Statistics
Matches: 901, Mismatches: 77, Indels: 22
0.90 0.08 0.02
Matches are distributed among these distances:
105 7 0.01
106 884 0.98
107 10 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
CCAATTTCAACTTCACACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
GGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAG
Found at i:47074 original size:212 final size:212
Alignment explanation
Indices: 45861--47064 Score: 1792
Period size: 212 Copynumber: 5.7 Consensus size: 212
45851 ACGAAGGGGC
*
45861 TTCCCAA-TTCTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCTAGACAACACAAGT
1 TTCCCAATTTC-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGT
* *
45925 TCAACTTCACGACGAGGGGACCGTTGGTTG-C--CAATA-AA-----CAATTTC----CCAATTT
65 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA-ACAACTTCTCAATTTCAGAGCCAATTT
45977 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
129 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
46042 CTGGTTGTCAATAAACAAT
194 CTGGTTGTCAATAAACAAT
* * * * * *
46061 TTTCCAA-TTCTAGAGTCGATTTCAACTTCACAGCAAATGATAGTGGACTCCAGACAACACAAGT
1 TTCCCAATTTC-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGT
*
46125 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTC
65 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTC
*
46190 AACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGC
130 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
*
46255 TAGTTGTCAATAAACAAT
195 TGGTTGTCAATAAACAAT
* * *
46273 TTTCCAA-TTCTAGAGTCAATTTCAACTTCACAGCGAAGGATAGTGGACTCCAGACAACACAAGT
1 TTCCCAATTTC-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGT
46337 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTC
65 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTC
*
46402 AACTTCACAAGGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
130 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
*
46467 TGGTTGTCAATAAACAAC
195 TGGTTGTCAATAAACAAT
* ** *
46485 TTCCCAATTTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGTATGTT
1 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTT
*
46550 CAACTTCACGACGAAGGGACCGCTGGTTCTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCA
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCA
*
46615 ACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCT
131 ACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
* *
46680 GGTTGTCAATAAATAAC
196 GGTTGTCAATAAACAAT
* * * * *
46697 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGAACTCCAGACAACGCAAGTT
1 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTT
* * * * *
46762 CAACTTCACGACGAAGGGACCGCTGGTTGTAAATAAACAATTTCCCAATTTCATAGCCAATTTCA
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCA
* *
46827 ACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCT
131 ACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
*
46892 GGTTGTCAACAAACAAT
196 GGTTGTCAATAAACAAT
* *
46909 TTCCCAATTTCAGAGCCAATTTCAACCTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTT
1 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTT
* * * * * * ** * *
46974 CAACTTCACAACGAAGGTACGGTTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCACTTTCA
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCA
* *
47039 ACTTCACGACGGAGGATATTGGACTC
131 ACTTCACAACGAAGGATATTGGACTC
47065 GGAACAATGC
Statistics
Matches: 919, Mismatches: 71, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
200 85 0.09
201 1 0.00
202 1 0.00
203 4 0.00
208 7 0.01
212 818 0.89
213 3 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (212 bp):
TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTT
CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCA
ACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
GGTTGTCAATAAACAAT
Found at i:47744 original size:35 final size:33
Alignment explanation
Indices: 47698--47887 Score: 142
Period size: 37 Copynumber: 5.7 Consensus size: 33
47688 TTGAAACATT
*
47698 TATATATTATATAGTTTTTAAAACA-TTTGAAAA
1 TATATAATATATA-TTTTTAAAACATTTTGAAAA
47731 TAAATATAATATATATTTTTAAAACATTTTTGAAAA
1 T--ATATAATATATATTTTTAAAACA-TTTTGAAAA
* *
47767 TATAT-ATATATATTTTTAAAACTTTTTG-TAA
1 TATATAATATATATTTTTAAAACATTTTGAAAA
* ** *
47798 -ATAT-ATA-GT-TTTAAAAAATATTTTGAAAACA
1 TATATAATATATATTTTTAAAACATTTTG-AAA-A
* *
47829 TATATATATATATAATTTTGAAATCATTTTGAAAAA
1 TATATA-ATATAT-ATTTTTAAAACATTTTG-AAAA
* *
47865 TTATATAGTATATAGTTTTAAAA
1 -TATATAATATATATTTTTAAAA
47888 ATATTTTTGA
Statistics
Matches: 125, Mismatches: 18, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
28 12 0.10
29 1 0.01
30 8 0.06
31 3 0.02
32 9 0.07
33 18 0.14
34 18 0.14
35 19 0.15
36 15 0.12
37 22 0.18
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (33 bp):
TATATAATATATATTTTTAAAACATTTTGAAAA
Found at i:47804 original size:34 final size:33
Alignment explanation
Indices: 47698--47804 Score: 130
Period size: 33 Copynumber: 3.2 Consensus size: 33
47688 TTGAAACATT
*
47698 TATATAT-TATATAGTTTTTAAAAC-ATTTGAAAA
1 TATATATATATATA-TTTTTAAAACTTTTTG-AAA
*
47731 TAAATATAATATATATTTTTAAAACATTTTTGAAA
1 TATATAT-ATATATATTTTTAAAAC-TTTTTGAAA
47766 -ATATATATATATATTTTTAAAACTTTTTGTAAA
1 TATATATATATATATTTTTAAAACTTTTTG-AAA
47799 TATATA
1 TATATA
47805 GTTTTAAAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
32 6 0.09
33 26 0.40
34 20 0.31
35 9 0.14
36 4 0.06
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (33 bp):
TATATATATATATATTTTTAAAACTTTTTGAAA
Found at i:47815 original size:28 final size:26
Alignment explanation
Indices: 47772--47833 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 26
47762 GAAAATATAT
* *
47772 ATATATATTTTTAAAACT-TTTTGTAA
1 ATATATA-TTTTAAAAATATTTTGAAA
47798 ATATATAGTTTTAAAAAATATTTTGAAA
1 ATATATA-TTTT-AAAAATATTTTGAAA
*
47826 ACATATAT
1 ATATATAT
47834 ATATATATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 11 0.37
27 6 0.20
28 13 0.43
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (26 bp):
ATATATATTTTAAAAATATTTTGAAA
Found at i:47834 original size:32 final size:30
Alignment explanation
Indices: 47739--47836 Score: 85
Period size: 32 Copynumber: 3.2 Consensus size: 30
47729 AATAAATATA
* *
47739 ATATATATTTTTAAAACATTTTTGAAAATAT
1 ATATATAATTTTAAAAAATTTTTGAAAA-AT
* * *
47770 ATATATATATTTTTAAAACTTTTTG--TAA-
1 ATATATA-ATTTTAAAAAATTTTTGAAAAAT
*
47798 ATATATAGTTTTAAAAAATATTTTGAAAACAT
1 ATATATAATTTTAAAAAAT-TTTTGAAAA-AT
47830 ATATATA
1 ATATATA
47837 TATATAATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
27 9 0.17
28 12 0.23
29 1 0.02
30 2 0.04
31 8 0.15
32 20 0.38
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (30 bp):
ATATATAATTTTAAAAAATTTTTGAAAAAT
Found at i:47894 original size:36 final size:37
Alignment explanation
Indices: 47798--47903 Score: 137
Period size: 37 Copynumber: 2.8 Consensus size: 37
47788 CTTTTTGTAA
47798 ATATATAGTTTTAAAAAATATTTTGAAAACATATATAT
1 ATATATAGTTTT-AAAAATATTTTGAAAACATATATAT
* *
47836 ATATATAATTTT-GAAATCATTTTGAAAA-AT-TATAT
1 ATATATAGTTTTAAAAAT-ATTTTGAAAACATATATAT
47871 AGTATATAGTTTTAAAAATATTTTTGAAAACAT
1 A-TATATAGTTTTAAAAATA-TTTTGAAAACAT
47904 TTTTTAAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
35 6 0.10
36 17 0.29
37 23 0.39
38 13 0.22
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (37 bp):
ATATATAGTTTTAAAAATATTTTGAAAACATATATAT
Found at i:47924 original size:47 final size:47
Alignment explanation
Indices: 47844--47936 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 47
47834 ATATATATAA
* * *
47844 TTTTGAAATCATTTTGAAAAATTATATAGTATATAGTTTTAAAAATAT
1 TTTTGAAAACATTTTGAAAAATTATATAATATATA-ATTTAAAAATAT
**
47892 TTTTGAAAACATTTTTTAAAA-TATATAATATATAATTTAAAAATA
1 TTTTGAAAACATTTTGAAAAATTATATAATATATAATTTAAAAATA
47937 CCCATCGACC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 10 0.25
47 12 0.30
48 18 0.45
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.45
Consensus pattern (47 bp):
TTTTGAAAACATTTTGAAAAATTATATAATATATAATTTAAAAATAT
Found at i:53194 original size:2 final size:2
Alignment explanation
Indices: 53187--53239 Score: 97
Period size: 2 Copynumber: 26.0 Consensus size: 2
53177 CGTAACAATG
53187 AT AT AT 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
53229 AT AT AT GAT AT
1 AT AT AT -AT AT
53240 GTTTGTTTTA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 48 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:60054 original size:24 final size:24
Alignment explanation
Indices: 59985--60042 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
59975 TAGAACTCTG
*
59985 ATCAATCAATACCAAAACACATTT
1 ATCATTCAATACCAAAACACATTT
60009 ATCATTCAATACCAAAACACATTT
1 ATCATTCAATACCAAAACACATTT
60033 ATCATTCAAT
1 ATCATTCAAT
60043 TGGAAAGTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (24 bp):
ATCATTCAATACCAAAACACATTT
Found at i:62023 original size:23 final size:22
Alignment explanation
Indices: 61980--62053 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 22
61970 AAATGCAATC
61980 ATAACCATCATATAACGATTCATCT
1 ATAA-CAT-ATATAAC-ATTCATCT
62005 ATAACATATATGAACATTCAT-T
1 ATAACATATAT-AACATTCATCT
62027 ATCAA-ATA-ATAACATGTCATCTT
1 AT-AACATATATAACAT-TCATC-T
62050 ATAA
1 ATAA
62054 GTAAGTAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
20 5 0.11
21 6 0.14
22 8 0.18
23 15 0.34
24 6 0.14
25 4 0.09
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.34
Consensus pattern (22 bp):
ATAACATATATAACATTCATCT
Found at i:62222 original size:21 final size:20
Alignment explanation
Indices: 62198--62355 Score: 118
Period size: 21 Copynumber: 7.5 Consensus size: 20
62188 TGTCCCGAAT
*
62198 GACCTCATATATGTCTAGAAG
1 GACCACATATATGTCTA-AAG
*
62219 GACCACATATATGTCCCAAAG
1 GACCACATATATGT-CTAAAG
*
62240 GACCACATATAATTGTCCTTAAG
1 GACCACATAT-A-TGT-CTAAAG
* * *
62263 GACCACGTATATGTTCCAAAA
1 GACCACATATATG-TCTAAAG
* **
62284 GACCAAATATATGTTCGGAAG
1 GACCACATATATG-TCTAAAG
* *
62305 GACCTCATATATGTTTCAAAG
1 GACCACATATATGTCT-AAAG
* *
62326 GATCACATATATGTCCTGAAG
1 GACCACATATATGT-CTAAAG
62347 GACCACATA
1 GACCACATA
62356 GAACCCTCGA
Statistics
Matches: 108, Mismatches: 23, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
20 1 0.01
21 84 0.78
22 6 0.06
23 17 0.16
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (20 bp):
GACCACATATATGTCTAAAG
Found at i:62274 original size:44 final size:42
Alignment explanation
Indices: 62198--62355 Score: 183
Period size: 42 Copynumber: 3.7 Consensus size: 42
62188 TGTCCCGAAT
* *
62198 GACCTCATATATGT-CTAGAAGGACCACATATATGTCCCAAAG
1 GACCACATATATGTCCT-GAAGGACCACATATATGTTCCAAAG
* * *
62240 GACCACATATAATTGTCCTTAAGGACCACGTATATGTTCCAAAA
1 GACCACATAT-A-TGTCCTGAAGGACCACATATATGTTCCAAAG
* * * * *
62284 GACCAAATATATGTTCGGAAGGACCTCATATATGTTTCAAAG
1 GACCACATATATGTCCTGAAGGACCACATATATGTTCCAAAG
*
62326 GATCACATATATGTCCTGAAGGACCACATA
1 GACCACATATATGTCCTGAAGGACCACATA
62356 GAACCCTCGA
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 58 0.61
43 2 0.02
44 33 0.35
45 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (42 bp):
GACCACATATATGTCCTGAAGGACCACATATATGTTCCAAAG
Found at i:74662 original size:39 final size:40
Alignment explanation
Indices: 74599--74684 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 40
74589 TTAACGCTTC
*
74599 AATCGATATTGTGTGGACTTTGCCAAAGCATTGGCACATA
1 AATCTATATTGTGTGGACTTTGCCAAAGCATTGGCACATA
*
74639 AATCTATA-TGTGTGGGCTTTGCCAAAGCATTGGCACATA
1 AATCTATATTGTGTGGACTTTGCCAAAGCATTGGCACATA
74678 AATCTAT
1 AATCTAT
74685 CTTGGTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
39 37 0.84
40 7 0.16
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (40 bp):
AATCTATATTGTGTGGACTTTGCCAAAGCATTGGCACATA
Found at i:82340 original size:214 final size:214
Alignment explanation
Indices: 81971--82404 Score: 661
Period size: 214 Copynumber: 2.0 Consensus size: 214
81961 ACTGAGCTAG
* * * * * *
81971 AAAAAAATTGAGTTTTATCATCAAAATGCCTCGTTGTAGGAGAAGAATTAGGACGGTCATGATTA
1 AAAAAAATGGAGTTTTATCATCAAAACGCCTCGTTGCAGGAGAAGAATTAGGACGGGCACGATCA
* ** *
82036 TCAGGCTGCCCTACTGGGTTTCCCCAGGATGTAGCTCTATCAGAACCTGAAAGATCGGCAGGCCT
66 TCAGGCCGCCCTACTGGGTTTCCCCAAAATGTAGCTCTATCAGAACCTGAAAGATCGACAGGCCT
* * * * *
82101 AACAGTCTTGCACTCATAAAATTTGATATTAAAAAATAGGGTTCCATTAGCAGATCCGAAGGTTA
131 AACAATCCTACACTCATAAAATTTGATATTAAAAAATAGGGTTCCACTAGAAGATCCGAAGGTTA
82166 AAAATTTTGGATTACACCC
196 AAAATTTTGGATTACACCC
82185 AAAAAAATGGAGTTTTATCATCAAAACGCCTCGTTGCAGGAGAAGAATTAGGACGGGCACGATCA
1 AAAAAAATGGAGTTTTATCATCAAAACGCCTCGTTGCAGGAGAAGAATTAGGACGGGCACGATCA
* * * * *
82250 TTAGGCCGCCCTACTGGGTTTCCCCAAAATGTAGGTCTATCAGAACCTGTACGATCGATAGGCCT
66 TCAGGCCGCCCTACTGGGTTTCCCCAAAATGTAGCTCTATCAGAACCTGAAAGATCGACAGGCCT
* * *
82315 AACAATCCTATACTCATAAAATTTGATATTAAAAAATAGGGTTCCACTAGAAGATCTGAAGGTTC
131 AACAATCCTACACTCATAAAATTTGATATTAAAAAATAGGGTTCCACTAGAAGATCCGAAGGTTA
82380 AAAATTTTGGATTACACCC
196 AAAATTTTGGATTACACCC
82399 AAAAAA
1 AAAAAA
82405 GAATACATCA
Statistics
Matches: 197, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
214 197 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (214 bp):
AAAAAAATGGAGTTTTATCATCAAAACGCCTCGTTGCAGGAGAAGAATTAGGACGGGCACGATCA
TCAGGCCGCCCTACTGGGTTTCCCCAAAATGTAGCTCTATCAGAACCTGAAAGATCGACAGGCCT
AACAATCCTACACTCATAAAATTTGATATTAAAAAATAGGGTTCCACTAGAAGATCCGAAGGTTA
AAAATTTTGGATTACACCC
Found at i:86106 original size:303 final size:303
Alignment explanation
Indices: 85558--86164 Score: 1180
Period size: 303 Copynumber: 2.0 Consensus size: 303
85548 AGGTTTTCAG
85558 ATATTACATTTTATTATTTTATTTGTATAATATTTAATATGTTAAATATTTTGGGATATTGGATT
1 ATATTACATTTTATTATTTTATTTGTATAATATTTAATATGTTAAATATTTTGGGATATTGGATT
85623 TAAACATTGCTTGGACTTTGGGACTTGAGCTTTGGAATTTATAAATGTTCATTTCATGTTTTTAA
66 TAAACATTGCTTGGACTTTGGGACTTGAGCTTTGGAATTTATAAATGTTCATTTCATGTTTTTAA
85688 TTATTGTAAATTTATTTTGGTTACATTAAGTATTTGATTACAATAAATGTGAGGGTAAATTTCAA
131 TTATTGTAAATTTATTTTGGTTACATTAAGTATTTGATTACAATAAATGTGAGGGTAAATTTCAA
*
85753 TGTATTTAAACTGATGTTTGGGTTCGTTTTGGGAAAACAAGATTATGGGATTCATGCATCCGACT
196 TGTATTTAAACTGATGTTTGGGTTCATTTTGGGAAAACAAGATTATGGGATTCATGCAT-CGACT
85818 TTTTCCCTTTAGGTCAGGTAAAAGGGGTTACACTAGGAACCACA
260 TTTTCCCTTTAGGTCAGGTAAAAGGGGTTACACTAGGAACCACA
85862 ATATTACATTTTATTATTTTATTTGTATAATATTTAATATGTTAAATA-TTTGGGATATTGGATT
1 ATATTACATTTTATTATTTTATTTGTATAATATTTAATATGTTAAATATTTTGGGATATTGGATT
85926 TAAACATTGCTTGGACTTTGGGACTTGAGCTTTGGAATTTATAAATGTTCATTTCATGTTTTTAA
66 TAAACATTGCTTGGACTTTGGGACTTGAGCTTTGGAATTTATAAATGTTCATTTCATGTTTTTAA
85991 TTATTGTAAATTTATTTTGGTTACATTAAGTATTTGATTACAATAAATGTGAGGGTAAATTTCAA
131 TTATTGTAAATTTATTTTGGTTACATTAAGTATTTGATTACAATAAATGTGAGGGTAAATTTCAA
86056 TGTATTTAAACTGATGTTTGGGTTCATTTTGGGAAAACAAGATTATGGGATTCATGCATCGACTT
196 TGTATTTAAACTGATGTTTGGGTTCATTTTGGGAAAACAAGATTATGGGATTCATGCATCGACTT
*
86121 TTTCCCTTTAGGTCAGGTAAAAGGGGTTATACTAGGAACCACA
261 TTTCCCTTTAGGTCAGGTAAAAGGGGTTACACTAGGAACCACA
86164 A
1 A
86165 AAATCTATGA
Statistics
Matches: 301, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
302 49 0.16
303 204 0.68
304 48 0.16
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (303 bp):
ATATTACATTTTATTATTTTATTTGTATAATATTTAATATGTTAAATATTTTGGGATATTGGATT
TAAACATTGCTTGGACTTTGGGACTTGAGCTTTGGAATTTATAAATGTTCATTTCATGTTTTTAA
TTATTGTAAATTTATTTTGGTTACATTAAGTATTTGATTACAATAAATGTGAGGGTAAATTTCAA
TGTATTTAAACTGATGTTTGGGTTCATTTTGGGAAAACAAGATTATGGGATTCATGCATCGACTT
TTTCCCTTTAGGTCAGGTAAAAGGGGTTACACTAGGAACCACA
Found at i:88016 original size:29 final size:29
Alignment explanation
Indices: 87979--88066 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
87969 AAATTTTGGC
* *
87979 TAGTCGCCAAAATATAAGCTTTAAAAA-TT
1 TAGTAGCCAAAATATAA-ATTTAAAAAGTT
*
88008 TAGTAGCCAAAGTATAAATTTGAAAAAGTT
1 TAGTAGCCAAAATATAAATTT-AAAAAGTT
* * *
88038 TAG-GGACCAAAATATAATTTTTAAAAGTT
1 TAGTAG-CCAAAATATAAATTTAAAAAGTT
88067 ATATATTTGG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
28 3 0.06
29 28 0.57
30 18 0.37
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (29 bp):
TAGTAGCCAAAATATAAATTTAAAAAGTT
Found at i:90395 original size:34 final size:34
Alignment explanation
Indices: 90313--90403 Score: 119
Period size: 34 Copynumber: 2.7 Consensus size: 34
90303 GTGCAATTAT
* ** *
90313 ATGAGGCACTTGGAGTGCATATTACTGTTTGTTG
1 ATGAGGCACTTGGAGTGCATATTACTGCTTACTA
*
90347 ATGATGCACTTGGAGTGCATATTACTGCTTACTA
1 ATGAGGCACTTGGAGTGCATATTACTGCTTACTA
* *
90381 ATGAGGCACCTGGAGTGTATATT
1 ATGAGGCACTTGGAGTGCATATT
90404 CTCCACACTC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.35
Consensus pattern (34 bp):
ATGAGGCACTTGGAGTGCATATTACTGCTTACTA
Found at i:98155 original size:59 final size:59
Alignment explanation
Indices: 98018--98155 Score: 165
Period size: 59 Copynumber: 2.3 Consensus size: 59
98008 ATATGCATTG
* * * * *
98018 TAGTGCTAA-CCCAAATATGACACATAAGGTCATGCCCATCATTTGTACTAGTTATACTT
1 TAGTGC-AATCCCAAATATGTCACATAAGGTCATGCCCACCATATGCACTAGTTACACTT
* *
98077 TAGTGCATTCCCAAATATGTCACATAA-GTCCATGCCCACCATATGCACTACG-TACCCTT
1 TAGTGCAATCCCAAATATGTCACATAAGGT-CATGCCCACCATATGCACTA-GTTACACTT
98136 TAGTGCAATCCCAAATATGT
1 TAGTGCAATCCCAAATATGT
98156 TTCATTATGC
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
58 3 0.04
59 64 0.94
60 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (59 bp):
TAGTGCAATCCCAAATATGTCACATAAGGTCATGCCCACCATATGCACTAGTTACACTT
Found at i:99015 original size:54 final size:54
Alignment explanation
Indices: 98944--99115 Score: 283
Period size: 54 Copynumber: 3.2 Consensus size: 54
98934 GTTGCACCTA
98944 AGTGCCGAAATGGTAATTCACAAACTCATTTTGAATTCCATGGGTTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTTTGAATTCCATGGGTTGCACACAT
*
98998 AGTGTCGAAATGGTAATTCACAAACTC-TTTATGAATTCCATGGGTTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTT-TGAATTCCATGGGTTGCACACAT
* * *
99052 AGCGCCGAAATGGTAATTCACATACTCATTATGAATTCCATGGGTTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTTTGAATTCCATGGGTTGCACACAT
*
99106 AGTGTCGAAA
1 AGTGCCGAAA
99116 GTACACATAG
Statistics
Matches: 109, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
53 3 0.03
54 104 0.95
55 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (54 bp):
AGTGCCGAAATGGTAATTCACAAACTCATTTTGAATTCCATGGGTTGCACACAT
Found at i:100036 original size:20 final size:21
Alignment explanation
Indices: 99993--100036 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
99983 AAGCTAACTT
** *
99993 ACATCCATAAATCTCCTTATA
1 ACATCCATAAATCTCCAAAGA
100014 ACATCCA-AAATCTCCAAAGA
1 ACATCCATAAATCTCCAAAGA
100034 ACA
1 ACA
100037 CTTGAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (21 bp):
ACATCCATAAATCTCCAAAGA
Found at i:106050 original size:54 final size:54
Alignment explanation
Indices: 105991--106209 Score: 339
Period size: 54 Copynumber: 4.1 Consensus size: 54
105981 CCTAAGTGTT
*
105991 GAAATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCATACATAGTGCC
1 GAAATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACATAGTGCC
* * * *
106045 GAAATGATAATTCACAAACTCATTATGAATTCTATGGGTTGCACATATAGTGCG
1 GAAATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACATAGTGCC
* * * **
106099 GAAATGGTAATTTACAAACTCATTATGAATTCCATGGGTTGCGCACATAATGTT
1 GAAATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACATAGTGCC
*
106153 GAAATGGTAATTCACAAACTCAATATGAATTCCATGGGTTGCACACATAGTGCC
1 GAAATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACATAGTGCC
106207 GAA
1 GAA
106210 GTACACATAT
Statistics
Matches: 146, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 146 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (54 bp):
GAAATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACATAGTGCC
Found at i:106918 original size:20 final size:20
Alignment explanation
Indices: 106895--106963 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
106885 TTCCTCTTGT
*
106895 TATCGATACCTACACCTCAG
1 TATCGTTACCTACACCTCAG
106915 TATCGTTACCTACACCTCAG
1 TATCGTTACCTACACCTCAG
*
106935 TATCGTTACCTACACCTCAT
1 TATCGTTACCTACACCTCAG
106955 TATCGTTAC
1 TATCGTTAC
106964 TTCTTTAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.26, C:0.33, G:0.09, T:0.32
Consensus pattern (20 bp):
TATCGTTACCTACACCTCAG
Found at i:114109 original size:88 final size:90
Alignment explanation
Indices: 113923--114095 Score: 307
Period size: 88 Copynumber: 2.0 Consensus size: 90
113913 TCCCAAATAT
*
113923 TTAATTTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTA
1 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTA
113987 GGGTAACTTGGATATAAAAGGATTA
66 GGGTAACTTGGATATAAAAGGATTA
114012 TTAAATTCTAATTAATTAAATATAGATTT-ATTAATTTGAAATAATAAAA-CCCTAATATGATTA
1 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTA
*
114075 GGGTAACTTGGCTATAAAAGG
66 GGGTAACTTGGATATAAAAGG
114096 GTGTGTTAGT
Statistics
Matches: 81, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
88 34 0.42
89 27 0.33
90 20 0.25
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.38
Consensus pattern (90 bp):
TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTA
GGGTAACTTGGATATAAAAGGATTA
Found at i:121158 original size:19 final size:19
Alignment explanation
Indices: 121129--121202 Score: 73
Period size: 19 Copynumber: 3.9 Consensus size: 19
121119 TTTTGAATAT
121129 ATATATATATAT-TATAAA
1 ATATATATATATGTATAAA
*
121147 ATATAGTATATATAT-TAAA
1 ATATA-TATATATGTATAAA
* *
121166 ATA-AGTATTATATGTTTAAT
1 ATATA-TA-TATATGTATAAA
121186 ATATATATATATGTATA
1 ATATATATATATGTATA
121203 TTATTTCATT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
18 9 0.19
19 29 0.60
20 9 0.19
21 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
ATATATATATATGTATAAA
Found at i:122849 original size:15 final size:15
Alignment explanation
Indices: 122825--122858 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
122815 CAAGAAAAAG
*
122825 AAAATGAAAAAGTTA
1 AAAATGAAAAAATTA
*
122840 AAAATTAAAAAATTA
1 AAAATGAAAAAATTA
122855 AAAA
1 AAAA
122859 AAAAATCCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (15 bp):
AAAATGAAAAAATTA
Found at i:128280 original size:16 final size:16
Alignment explanation
Indices: 128261--128339 Score: 62
Period size: 16 Copynumber: 5.2 Consensus size: 16
128251 TATAATATAG
128261 TATATATTATATA-T-
1 TATATATTATATATTA
128275 TATATATTA-ATATTA
1 TATATATTATATATTA
**
128290 TGGAGTATT-TATATTA
1 TATA-TATTATATATTA
* *
128306 TAAATAATATATTATTA
1 TATATATTATA-TATTA
128323 TAT-TATTATAT-TTA
1 TATATATTATATATTA
128337 TAT
1 TAT
128340 TATAGTATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
13 3 0.06
14 16 0.31
15 6 0.12
16 20 0.38
17 7 0.13
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (16 bp):
TATATATTATATATTA
Found at i:128287 original size:22 final size:21
Alignment explanation
Indices: 128240--128348 Score: 89
Period size: 22 Copynumber: 5.0 Consensus size: 21
128230 GATAGACATA
* * *
128240 ATATATTAGTTTATAATATAGT
1 ATATATTA-TATATTATATATT
128262 ATATATTATATATTATATATT
1 ATATATTATATATTATATATT
128283 A-ATATTATGGAGTATT-TATATT
1 ATATATTAT--A-TATTATATATT
* *
128305 ATAAATAATATATTATTATATT
1 ATATATTATATATTA-TATATT
128327 ATTATATT-TATATTATAGTATT
1 A-TATATTATATATTATA-TATT
128349 TATGTATTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
20 11 0.15
21 14 0.19
22 34 0.47
23 13 0.18
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (21 bp):
ATATATTATATATTATATATT
Found at i:128303 original size:36 final size:34
Alignment explanation
Indices: 128263--128373 Score: 107
Period size: 36 Copynumber: 3.1 Consensus size: 34
128253 TAATATAGTA
128263 TATATTATATATTATATATTAATATTATGGAGTATT
1 TATATTATATATTATATATTAATATTAT-GA-TATT
* * *
128299 TATATTATAAATAATATATTATTATATTATTATATT
1 TATATTATATATTATATATTA--ATATTATGATATT
* *
128335 TATATTATAGTATTTATGTATT-TTATTATGAATATT
1 TATATTATA-TA-TTATATATTAATATTATG-ATATT
128371 TAT
1 TAT
128374 TTAGTGTTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
35 6 0.10
36 40 0.65
37 2 0.03
38 14 0.23
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (34 bp):
TATATTATATATTATATATTAATATTATGATATT
Found at i:128343 original size:27 final size:26
Alignment explanation
Indices: 128256--128361 Score: 62
Period size: 27 Copynumber: 4.0 Consensus size: 26
128246 TAGTTTATAA
*
128256 TATAGTATATATTATA-TATTATATAT
1 TATATTATATATTATATTATTATAT-T
128282 TAATATTATGGAGTATT-TA-TATTATA--
1 T-ATATTAT--A-TATTATATTATTATATT
* *
128308 AATAATATATTATTATATTATTATATT
1 TATATTATA-TATTATATTATTATATT
*
128335 TATATTATAGTATT-TATGTATTTTATT
1 TATATTATA-TATTATAT-TATTATATT
128362 ATGAATATTT
Statistics
Matches: 63, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
23 5 0.08
24 2 0.03
25 13 0.21
26 4 0.06
27 25 0.40
29 10 0.16
30 4 0.06
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (26 bp):
TATATTATATATTATATTATTATATT
Found at i:128349 original size:14 final size:13
Alignment explanation
Indices: 128256--128351 Score: 74
Period size: 14 Copynumber: 7.2 Consensus size: 13
128246 TAGTTTATAA
*
128256 TATAGTATATATT
1 TATATTATATATT
128269 ATATATTATATATT
1 -TATATTATATATT
*
128283 AATATTATGGAGTATT
1 TATATTAT--A-TATT
*
128299 TATATTATA-AAT
1 TATATTATATATT
*
128311 AATA-TAT-TA-T
1 TATATTATATATT
128321 TATATTATTATATT
1 TATATTA-TATATT
128335 TATATTATAGTATT
1 TATATTATA-TATT
128349 TAT
1 TAT
128352 GTATTTTATT
Statistics
Matches: 67, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
10 4 0.06
11 6 0.09
12 6 0.09
13 11 0.16
14 28 0.42
15 1 0.01
16 11 0.16
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (13 bp):
TATATTATATATT
Found at i:128356 original size:22 final size:22
Alignment explanation
Indices: 128331--128396 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
128321 TATATTATTA
*
128331 TATTTATATTAT-AGTATTTATG
1 TATTT-TATTATGAATATTTATG
*
128353 TATTTTATTATGAATATTTATT
1 TATTTTATTATGAATATTTATG
*
128375 TAGTGTTTATTATTAATTATTT
1 TA-T-TTTATTATGAA-TATTT
128397 TTATTCTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 6 0.16
22 15 0.41
23 1 0.03
24 10 0.27
25 5 0.14
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (22 bp):
TATTTTATTATGAATATTTATG
Found at i:128371 original size:72 final size:72
Alignment explanation
Indices: 128237--128373 Score: 165
Period size: 72 Copynumber: 1.9 Consensus size: 72
128227 AACGATAGAC
*
128237 ATAATATATTAGTTTATAATATAGTATATATTATATATTATATATTAATATTATGGAGTATTTAT
1 ATAATATATTAGTTTATAATATAGTATATATTATATATTATATATTAATATTATGGAATATTTAT
128302 ATTATAA
66 ATTATAA
* * * *
128309 ATAATATATTA-TTATATTATTATA-TTTATATTATAGTATTTATGTATT-TTATTAT-GAATAT
1 ATAATATATTAGTT-TA-TAATATAGTATATATTATA-TA-TTATATATTAATATTATGGAATAT
128370 TTAT
62 TTAT
128374 TTAGTGTTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
71 2 0.04
72 32 0.57
73 14 0.25
74 8 0.14
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (72 bp):
ATAATATATTAGTTTATAATATAGTATATATTATATATTATATATTAATATTATGGAATATTTAT
ATTATAA
Found at i:132241 original size:27 final size:27
Alignment explanation
Indices: 132210--132264 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
132200 TAAATTGATG
*
132210 TAAGCAATGACATCATTACTTAAATGA
1 TAAGCAATGACATCATTAATTAAATGA
*
132237 TAAGCAATGACATCTTTAATTAAATGA
1 TAAGCAATGACATCATTAATTAAATGA
132264 T
1 T
132265 GTAAGTATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.33
Consensus pattern (27 bp):
TAAGCAATGACATCATTAATTAAATGA
Found at i:136719 original size:27 final size:28
Alignment explanation
Indices: 136653--136728 Score: 109
Period size: 27 Copynumber: 2.7 Consensus size: 28
136643 CTCACCTAAC
*
136653 TAAATTGATGTAAGCAATGACTCATTACT
1 TAAA-TGATGTAAGCAATGACTCATTAAT
*
136682 TAAATGATGTAAGCAATGAC-CTTTAAT
1 TAAATGATGTAAGCAATGACTCATTAAT
*
136709 TAAATGATGTAAGTAATGAC
1 TAAATGATGTAAGCAATGAC
136729 ATCAATTTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 24 0.55
28 16 0.36
29 4 0.09
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.33
Consensus pattern (28 bp):
TAAATGATGTAAGCAATGACTCATTAAT
Found at i:139736 original size:24 final size:24
Alignment explanation
Indices: 139704--139749 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
139694 CAATTGCTCC
139704 TGCTTCCTCATCTCTCTTCTTCGA
1 TGCTTCCTCATCTCTCTTCTTCGA
*
139728 TGCTTCCTCTTCTCTCTTCTTC
1 TGCTTCCTCATCTCTCTTCTTC
139750 TCCAACCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.04, C:0.39, G:0.07, T:0.50
Consensus pattern (24 bp):
TGCTTCCTCATCTCTCTTCTTCGA
Found at i:144837 original size:24 final size:24
Alignment explanation
Indices: 144805--144850 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
144795 CAATTGCTCC
144805 TGCTTCCTCATCTCTCTTCTTCGA
1 TGCTTCCTCATCTCTCTTCTTCGA
*
144829 TGCTTCCTCTTCTCTCTTCTTC
1 TGCTTCCTCATCTCTCTTCTTC
144851 TCCAACCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.04, C:0.39, G:0.07, T:0.50
Consensus pattern (24 bp):
TGCTTCCTCATCTCTCTTCTTCGA
Found at i:150285 original size:57 final size:57
Alignment explanation
Indices: 150222--150347 Score: 155
Period size: 57 Copynumber: 2.2 Consensus size: 57
150212 ACGACACAGG
* * * *
150222 AATGTGTGTCATCTT-TTTTAATGACATGTGCTTCAATGACACGCAATGTAAGTCATA
1 AATGTGTGTCATCTTCATTT-ATGACAGGGGCTTCAATGACACACAATGTAAGTCATA
* * * **
150279 AATGTGTGTCATCTTCATTTATGACGGGGGTTTCAATGACGCACAATGTGCGTCATA
1 AATGTGTGTCATCTTCATTTATGACAGGGGCTTCAATGACACACAATGTAAGTCATA
150336 AATGTGTGTCAT
1 AATGTGTGTCAT
150348 AAATGCGCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 56 0.95
58 3 0.05
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (57 bp):
AATGTGTGTCATCTTCATTTATGACAGGGGCTTCAATGACACACAATGTAAGTCATA
Found at i:150341 original size:13 final size:13
Alignment explanation
Indices: 150323--150352 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
150313 AATGACGCAC
150323 AATGTGCGTCATA
1 AATGTGCGTCATA
*
150336 AATGTGTGTCATA
1 AATGTGCGTCATA
150349 AATG
1 AATG
150353 CGCATCACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (13 bp):
AATGTGCGTCATA
Found at i:154192 original size:48 final size:48
Alignment explanation
Indices: 154140--154234 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
154130 TTTTTTAATC
*
154140 ACTAAAATTTTATAATTTGGAGACTCCAAGTACTAACTTTAATATGAT
1 ACTAAAATTTTATAATTCGGAGACTCCAAGTACTAACTTTAATATGAT
154188 ACTAAAATTTTATAATTCGGAGACTCCAAGTACTAACTTTAATATGA
1 ACTAAAATTTTATAATTCGGAGACTCCAAGTACTAACTTTAATATGA
154235 GATGTTTACT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.36
Consensus pattern (48 bp):
ACTAAAATTTTATAATTCGGAGACTCCAAGTACTAACTTTAATATGAT
Found at i:162470 original size:6 final size:6
Alignment explanation
Indices: 162416--162451 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
162406 ATGTTTCACG
162416 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
162452 AATTCGACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:171567 original size:30 final size:30
Alignment explanation
Indices: 171531--171591 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
171521 GATCAACATA
171531 TATATATCTGATGTAATAATTTTACATCCG
1 TATATATCTGATGTAATAATTTTACATCCG
*
171561 TATATATCTGATGTGATAATTTTACATCCG
1 TATATATCTGATGTAATAATTTTACATCCG
171591 T
1 T
171592 TTAATTGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (30 bp):
TATATATCTGATGTAATAATTTTACATCCG
Found at i:185389 original size:23 final size:23
Alignment explanation
Indices: 185358--185413 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
185348 CTCCCACGGA
*
185358 AAAGCTCTCTCCAGTCTCATGGT
1 AAAGCTCTCTCCAATCTCATGGT
*
185381 AAAGTTCTCTCCAATCTCATGGT
1 AAAGCTCTCTCCAATCTCATGGT
*
185404 AAAACTCTCT
1 AAAGCTCTCT
185414 GCAAAGCTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (23 bp):
AAAGCTCTCTCCAATCTCATGGT
Found at i:187788 original size:44 final size:44
Alignment explanation
Indices: 187731--187904 Score: 242
Period size: 44 Copynumber: 4.0 Consensus size: 44
187721 CCAAGAGTGA
**
187731 CACCTTTCGGCCAATAATGCACCATTATGCATTTTCATTTATGG
1 CACCTTTATGCCAATAATGCACCATTATGCATTTTCATTTATGG
* * * *
187775 AACCTTTATGCCAATAATGCATCGTTATACATTTTCATTTATGG
1 CACCTTTATGCCAATAATGCACCATTATGCATTTTCATTTATGG
* *
187819 CACCTTTCTGCCAATAATGCACCATTATGCATTTTTATTTATGG
1 CACCTTTATGCCAATAATGCACCATTATGCATTTTCATTTATGG
* *
187863 CACATTTCA-GCCAATAATGCACCGTTATGCATTTTCATTTAT
1 CACCTTT-ATGCCAATAATGCACCATTATGCATTTTCATTTAT
187905 TTCGGTAATA
Statistics
Matches: 113, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 113 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.39
Consensus pattern (44 bp):
CACCTTTATGCCAATAATGCACCATTATGCATTTTCATTTATGG
Found at i:187880 original size:88 final size:88
Alignment explanation
Indices: 187731--187904 Score: 278
Period size: 88 Copynumber: 2.0 Consensus size: 88
187721 CCAAGAGTGA
*
187731 CACCTTTCGGCCAATAATGCACCATTATGCATTTTCATTTATGGAACCTTTATGCCAATAATGCA
1 CACCTTTCGGCCAATAATGCACCATTATGCATTTTCATTTATGGAACATTTATGCCAATAATGCA
*
187796 TCGTTATACATTTTCATTTATGG
66 CCGTTATACATTTTCATTTATGG
* * *
187819 CACCTTTCTGCCAATAATGCACCATTATGCATTTTTATTTATGGCACATTTCA-GCCAATAATGC
1 CACCTTTCGGCCAATAATGCACCATTATGCATTTTCATTTATGGAACATTT-ATGCCAATAATGC
*
187883 ACCGTTATGCATTTTCATTTAT
65 ACCGTTATACATTTTCATTTAT
187905 TTCGGTAATA
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
88 78 0.99
89 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.39
Consensus pattern (88 bp):
CACCTTTCGGCCAATAATGCACCATTATGCATTTTCATTTATGGAACATTTATGCCAATAATGCA
CCGTTATACATTTTCATTTATGG
Found at i:191368 original size:8 final size:8
Alignment explanation
Indices: 191351--191386 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
191341 ACTTTAGTAC
*
191351 CTTCTTAA
1 CTTCTAAA
191359 CTTCTAAA
1 CTTCTAAA
191367 CTTCTAAA
1 CTTCTAAA
191375 CTTCTAAA
1 CTTCTAAA
191383 CTTC
1 CTTC
191387 ATCCATATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.42
Consensus pattern (8 bp):
CTTCTAAA
Found at i:193551 original size:29 final size:29
Alignment explanation
Indices: 193489--193600 Score: 106
Period size: 29 Copynumber: 3.9 Consensus size: 29
193479 GTAACATGAA
*
193489 GAGGATATAATCCCATGTAGAAAT-AGGATC
1 GAGGATATAATCCCATGCAG-AATCAGGA-C
*
193519 G-GGATATAATCCCATGCAGAATCATGAC
1 GAGGATATAATCCCATGCAGAATCAGGAC
** * *
193547 -AGGGAT-TATATCCCATTAATAACCAGGAC
1 GA-GGATATA-ATCCCATGCAGAATCAGGAC
193576 GAGGATATAATCCCATGCAGAATCA
1 GAGGATATAATCCCATGCAGAATCA
193601 AGATGATGAA
Statistics
Matches: 65, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
28 6 0.09
29 55 0.85
30 4 0.06
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (29 bp):
GAGGATATAATCCCATGCAGAATCAGGAC
Found at i:194093 original size:20 final size:21
Alignment explanation
Indices: 194042--194093 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
194032 AAGTCAATTG
194042 GTCAA-AGTCAACATGCCAAA
1 GTCAACAGTCAACATGCCAAA
* *
194062 GTCGAC-GATCAACA-GCCAGA
1 GTCAACAG-TCAACATGCCAAA
194082 GTCAACAGTCAA
1 GTCAACAGTCAA
194094 AGTAAATGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.40, C:0.27, G:0.19, T:0.13
Consensus pattern (21 bp):
GTCAACAGTCAACATGCCAAA
Found at i:198673 original size:21 final size:21
Alignment explanation
Indices: 198620--198673 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
198610 GCATCATTCT
* *
198620 TTAGCTTATGTATATCCATAC
1 TTAGCTTATATTTATCCATAC
198641 TTAGCTTATATTTATCCATAC
1 TTAGCTTATATTTATCCATAC
198662 TTAGCTTATATT
1 TTAGCTTATATT
198674 ATGTTTATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (21 bp):
TTAGCTTATATTTATCCATAC
Found at i:200759 original size:20 final size:19
Alignment explanation
Indices: 200734--200778 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
200724 TACTATGCAG
200734 GAAATTAAAGTTAGAATGTT
1 GAAATTAAAGTTAGAATG-T
* * *
200754 GAAATTGATGTTAGAGTGT
1 GAAATTAAAGTTAGAATGT
200773 GAAATT
1 GAAATT
200779 GGGCAACTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (19 bp):
GAAATTAAAGTTAGAATGT
Found at i:208094 original size:26 final size:26
Alignment explanation
Indices: 208057--208117 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
208047 AGTATTTGGT
* *
208057 ATAAATGACACCTTCAAGTGCAATTG
1 ATAAATGGCACCTTCAAGTACAATTG
**
208083 ATAAATGGCACCTTTGAGTACAATTG
1 ATAAATGGCACCTTCAAGTACAATTG
208109 ATAAATGGC
1 ATAAATGGC
208118 TCTTTTAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (26 bp):
ATAAATGGCACCTTCAAGTACAATTG
Found at i:208393 original size:117 final size:117
Alignment explanation
Indices: 208180--208407 Score: 314
Period size: 117 Copynumber: 1.9 Consensus size: 117
208170 TTGTACTATG
*
208180 GCACTTTGTGTGCAAGGACGGTATTCATAATGAATTACCACTCCGAAATTATTAGTATAATGTCG
1 GCACTTTGTCTGCAAGGACGGTATTCATAATGAATTACCACTCCGAAATTATTAGTATAATGTCG
* * ***
208245 TTGTACACTACAATGCCTATATGTCAATGTGGCACTTAGGTGCTTATTGGGT
66 TTGTACACCACAATACCTATACACCAATGTGGCACTTAGGTGCTTATTGGGT
* * * *
208297 GCACTTTTTCTGCAAGGATGGTATTCGTAATGAATTACCACTCC-AGAATTATTAGTATAGTGTC
1 GCACTTTGTCTGCAAGGACGGTATTCATAATGAATTACCACTCCGA-AATTATTAGTATAATGTC
** * *
208361 GTTGTGTACCACAATACCTATACACCATTGTGGCACTTATGTGCTTA
65 GTTGTACACCACAATACCTATACACCAATGTGGCACTTAGGTGCTTA
208408 CTGGTACCTT
Statistics
Matches: 96, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
116 1 0.01
117 95 0.99
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (117 bp):
GCACTTTGTCTGCAAGGACGGTATTCATAATGAATTACCACTCCGAAATTATTAGTATAATGTCG
TTGTACACCACAATACCTATACACCAATGTGGCACTTAGGTGCTTATTGGGT
Found at i:211734 original size:156 final size:157
Alignment explanation
Indices: 211503--211865 Score: 455
Period size: 157 Copynumber: 2.3 Consensus size: 157
211493 CATGTGGTTG
* * *
211503 AAATTTGGT-AAAAAGGAGACTTAAAATAAATCACAAATTGAAGGAAA-AAAAGATTATGAAAAA
1 AAATTTGGTAAAAAATG-GACTTAAAATAAATAACGAATTGAA-GAAATAAAAGATTATGAAAAA
* * *
211566 TTAAAGGTCTAAATTGAAAAATAAAA-AATTGTTACCAAAAAGAGGATTTGAAAGTACACATGTA
64 TTAAAGGACTAAATTAAAAAATAAAATAATTGTTACCAAAAAGAGGAATTGAAAGTACACATGTA
211630 TTCTACTATGACTTAGGAGCATGTGGCCC
129 TTCTACTATGACTTAGGAGCATGTGGCCC
* ** * *
211659 AAATTTGGTAAAAAATGGACTTAAAATAAATAATGAATTGAAGAAATAAGGGGTTATGAATAATT
1 AAATTTGGTAAAAAATGGACTTAAAATAAATAACGAATTGAAGAAATAAAAGATTATGAAAAATT
* * * *
211724 GAATGACTAAATTAAAAAATAAAATATTTGTTATCAAAAAGAGGAATTGAAAGTACACATGTATT
66 AAAGGACTAAATTAAAAAATAAAATAATTGTTACCAAAAAGAGGAATTGAAAGTACACATGTATT
** **
211789 CTACTATGGTTTAGGAGCATGTGGTTC
131 CTACTATGACTTAGGAGCATGTGGCCC
* * * *
211816 AAATTTGATAAAACAATGTACTTAAAATGAAA-GAGGAATTGAAGAAATAA
1 AAATTTGGTAAAA-AATGGACTTAAAAT-AAATAACGAATTGAAGAAATAA
211866 TGAAATTACG
Statistics
Matches: 179, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
155 4 0.02
156 65 0.36
157 78 0.44
158 29 0.16
159 3 0.02
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (157 bp):
AAATTTGGTAAAAAATGGACTTAAAATAAATAACGAATTGAAGAAATAAAAGATTATGAAAAATT
AAAGGACTAAATTAAAAAATAAAATAATTGTTACCAAAAAGAGGAATTGAAAGTACACATGTATT
CTACTATGACTTAGGAGCATGTGGCCC
Found at i:213618 original size:26 final size:26
Alignment explanation
Indices: 213582--213642 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
213572 AAAGTTCCAT
213582 TTATCAATTGCAATCGAATGTGCCAC
1 TTATCAATTGCAATCGAATGTGCCAC
213608 TTATCAATTGCAATCGAATGTGCCAC
1 TTATCAATTGCAATCGAATGTGCCAC
213634 TTATACAAT
1 TTAT-CAAT
213643 GGGATTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 30 0.88
27 4 0.12
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (26 bp):
TTATCAATTGCAATCGAATGTGCCAC
Found at i:214240 original size:25 final size:25
Alignment explanation
Indices: 214208--214257 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
214198 TCCTGGAAAT
214208 AAATATTAATTTTTTTATAAAAAAA
1 AAATATTAATTTTTTTATAAAAAAA
214233 AAATATTAATTTTTTTATAAAAAAA
1 AAATATTAATTTTTTTATAAAAAAA
214258 CTATACTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AAATATTAATTTTTTTATAAAAAAA
Found at i:214925 original size:19 final size:20
Alignment explanation
Indices: 214901--214946 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
214891 CAAAGTTGCC
214901 CAATTTC-ACACTCTAACAT
1 CAATTTCAACACTCTAACAT
* *
214920 CAATTTCAACATTCTAATAT
1 CAATTTCAACACTCTAACAT
*
214940 TAATTTC
1 CAATTTC
214947 TTGCATAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (20 bp):
CAATTTCAACACTCTAACAT
Found at i:237721 original size:18 final size:17
Alignment explanation
Indices: 237698--237738 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
237688 GTCAATGACT
*
237698 ATTTTGAAAGGATTTAAA
1 ATTTTG-AACGATTTAAA
*
237716 ATTTTGGACGATTTAAA
1 ATTTTGAACGATTTAAA
237733 ATTTTG
1 ATTTTG
237739 GAGGATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (17 bp):
ATTTTGAACGATTTAAA
Found at i:237730 original size:17 final size:17
Alignment explanation
Indices: 237708--237745 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
237698 ATTTTGAAAG
237708 GATTTAAAATTTTGGAC
1 GATTTAAAATTTTGGAC
*
237725 GATTTAAAATTTTGGAG
1 GATTTAAAATTTTGGAC
237742 GATT
1 GATT
237746 AAATTGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.42
Consensus pattern (17 bp):
GATTTAAAATTTTGGAC
Found at i:238398 original size:21 final size:21
Alignment explanation
Indices: 238372--238427 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
238362 TCTGATGAAA
*
238372 TATCGATATTGATGCAATTAG
1 TATCGATACTGATGCAATTAG
*
238393 TATCGATACTAATGCAATTAG
1 TATCGATACTGATGCAATTAG
238414 TATCGATACTGATG
1 TATCGATACTGATG
238428 TGGGTATTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (21 bp):
TATCGATACTGATGCAATTAG
Found at i:239023 original size:44 final size:43
Alignment explanation
Indices: 238973--239060 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 43
238963 TGTTATCGAA
* *
238973 ATAAATGAAAATGCATAACGGTGCATTATTGGTATAAAGGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTA-TGGCAGAAAGGTGTC
*
239017 ATAAATGAAAATGCATAATGGTGCATTATGGCAGAAAGGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATGGCAGAAAGGTGTC
239060 A
1 A
239061 CTCTGGTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 14 0.34
44 27 0.66
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (43 bp):
ATAAATGAAAATGCATAACGGTGCATTATGGCAGAAAGGTGTC
Found at i:241390 original size:23 final size:23
Alignment explanation
Indices: 241364--241420 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
241354 AGAACTTTGC
*
241364 AGAGAGTTTTACCATGAGATTGG
1 AGAGAGTTTTACCATGAGACTGG
**
241387 AGAGAACTTTACCATGAGACTGG
1 AGAGAGTTTTACCATGAGACTGG
241410 AGAGAGCTTTT
1 AGAGAG-TTTT
241421 CTGTGGGAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 25 0.89
24 3 0.11
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (23 bp):
AGAGAGTTTTACCATGAGACTGG
Found at i:248938 original size:17 final size:16
Alignment explanation
Indices: 248916--248949 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
248906 TAAAAATAGT
248916 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
248933 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
248949 A
1 A
248950 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:251990 original size:19 final size:20
Alignment explanation
Indices: 251963--252005 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
251953 GAGAAAATGT
*
251963 AAAAGTTAA-AATGAAAGAG
1 AAAAATTAATAATGAAAGAG
*
251982 AAAAATTAATAATGAAAGAT
1 AAAAATTAATAATGAAAGAG
252002 AAAA
1 AAAA
252006 GAAAAAGTTA
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:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (20 bp):
AAAAATTAATAATGAAAGAG
Found at i:258381 original size:17 final size:16
Alignment explanation
Indices: 258359--258392 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
258349 TAAAAACAGT
258359 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
258376 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
258392 A
1 A
258393 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:262478 original size:19 final size:20
Alignment explanation
Indices: 262432--262478 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
262422 TTGTTATCCG
262432 AAGAAATAATAAAATTTTAGA
1 AAGAAA-AATAAAATTTTAGA
* * *
262453 AACAAAAATAGATTTTTA-A
1 AAGAAAAATAAAATTTTAGA
262472 AAGAAAA
1 AAGAAAA
262479 TACTTATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 7 0.32
20 10 0.45
21 5 0.23
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.26
Consensus pattern (20 bp):
AAGAAAAATAAAATTTTAGA
Found at i:266487 original size:2 final size:2
Alignment explanation
Indices: 266480--266520 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
266470 ACGTACATTA
266480 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT A
266521 ATTCTCTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:272405 original size:28 final size:28
Alignment explanation
Indices: 272364--272418 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
272354 ATATAAGAAC
272364 GTTAAAATCATTGAACCTCAACTATGTA
1 GTTAAAATCATTGAACCTCAACTATGTA
**
272392 GTTAAAATTGTTGAACCTCAACTATGT
1 GTTAAAATCATTGAACCTCAACTATGT
272419 CACAACGGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (28 bp):
GTTAAAATCATTGAACCTCAACTATGTA
Found at i:275198 original size:15 final size:15
Alignment explanation
Indices: 275157--275201 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
275147 TACCATCTCT
*
275157 AATAACAACGACTCC
1 AATAACAATGACTCC
*
275172 ATTAACAATGACTCC
1 AATAACAATGACTCC
*
275187 AATAACAGTGACTCC
1 AATAACAATGACTCC
275202 GACAATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.42, C:0.29, G:0.09, T:0.20
Consensus pattern (15 bp):
AATAACAATGACTCC
Found at i:275897 original size:2 final size:2
Alignment explanation
Indices: 275890--275917 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
275880 TTCGAATGGT
275890 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
275918 CACTCTACGC
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):
TA
Found at i:279430 original size:18 final size:18
Alignment explanation
Indices: 279409--279451 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
279399 GTTGATTTTA
*
279409 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
279427 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
279445 AAATAAA
1 AAATAAA
279452 TAATTTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:282190 original size:22 final size:23
Alignment explanation
Indices: 282149--282197 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
282139 TTAATTTATG
*
282149 TTTGGGTGTTATTTATGTAAA-A
1 TTTGGGTGTTATTTAGGTAAATA
282171 TTTGGGTGTTAGTTT-GGTAAATA
1 TTTGGGTGTTA-TTTAGGTAAATA
282194 TTTG
1 TTTG
282198 TAGAATATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (23 bp):
TTTGGGTGTTATTTAGGTAAATA
Found at i:284725 original size:24 final size:24
Alignment explanation
Indices: 284698--284795 Score: 101
Period size: 24 Copynumber: 4.1 Consensus size: 24
284688 CTGATTTGAT
* *
284698 TTCTAATATAATACCTGACCTGGA
1 TTCTGATATAATACTTGACCTGGA
***
284722 TTCTGATCGGATACTTGACCTGGA
1 TTCTGATATAATACTTGACCTGGA
284746 TTCTGATCA-AATACTTGACCTGGA
1 TTCTGAT-ATAATACTTGACCTGGA
* *
284770 CTT-TGATCTGATACTTGACCTGGA
1 -TTCTGATATAATACTTGACCTGGA
284794 TT
1 TT
284796 ATGTTTTGAT
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.03
24 58 0.94
25 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (24 bp):
TTCTGATATAATACTTGACCTGGA
Found at i:284805 original size:24 final size:24
Alignment explanation
Indices: 284708--284795 Score: 124
Period size: 24 Copynumber: 3.7 Consensus size: 24
284698 TTCTAATATA
* *
284708 ATACCTGACCTGGATTCTGATCGG
1 ATACTTGACCTGGATTCTGATCTG
**
284732 ATACTTGACCTGGATTCTGATCAA
1 ATACTTGACCTGGATTCTGATCTG
284756 ATACTTGACCTGGACTT-TGATCTG
1 ATACTTGACCTGGA-TTCTGATCTG
284780 ATACTTGACCTGGATT
1 ATACTTGACCTGGATT
284796 ATGTTTTGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
23 2 0.03
24 54 0.93
25 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTGATCTG
Found at i:289460 original size:24 final size:25
Alignment explanation
Indices: 289433--289495 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 25
289423 TTTCTATTAT
*
289433 AATACCTGACCTGGATTGTGATC-G
1 AATACTTGACCTGGATTGTGATCTG
* *
289457 AATACTTGACCTGAATTTTGATCTG
1 AATACTTGACCTGGATTGTGATCTG
289482 -ATACTTGACCTGGA
1 AATACTTGACCTGGA
289496 ATATGTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 33 0.97
25 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
AATACTTGACCTGGATTGTGATCTG
Found at i:289709 original size:2 final size:2
Alignment explanation
Indices: 289702--289762 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
289692 ACGGATGGGG
289702 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
289744 TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA T
289763 TTGTTAAACT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:291394 original size:11 final size:11
Alignment explanation
Indices: 291380--291408 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
291370 GAAATTAAAC
291380 GAAAATAAAAT
1 GAAAATAAAAT
291391 G-AAATAAAAT
1 GAAAATAAAAT
291401 GAAAATAA
1 GAAAATAA
291409 CGAAATGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (11 bp):
GAAAATAAAAT
Found at i:297092 original size:14 final size:14
Alignment explanation
Indices: 297061--297099 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
297051 GTTGATTTTA
* *
297061 AAATAAAATATAAG
1 AAATTAAATAAAAG
297075 -AATTAAATAAAAG
1 AAATTAAATAAAAG
297088 AAATTAAATAAA
1 AAATTAAATAAA
297100 TAAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (14 bp):
AAATTAAATAAAAG
Found at i:298528 original size:21 final size:21
Alignment explanation
Indices: 298504--298681 Score: 147
Period size: 21 Copynumber: 8.6 Consensus size: 21
298494 ATTTCCAGAT
* *
298504 TCGCAATGCAAACTTTGACTA
1 TCGCAATGCGAACTTCGACTA
298525 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
* *
298546 TCGTAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
* ** *
298567 TCGCAATGTGAA-TATATA-AA
1 TCGCAATGCGAACT-TCGACTA
*
298587 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
298608 TCGCAATGCGAACTT-GAACTA
1 TCGCAATGCGAACTTCG-ACTA
*
298629 TCGCAATGCGAA-TAT-GTA-AA
1 TCGCAATGCGAACT-TCG-ACTA
*
298649 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
298670 TCGCAATGCGAA
1 TCGCAATGCGAA
298682 TATGTAAATC
Statistics
Matches: 129, Mismatches: 19, Indels: 19
0.77 0.11 0.11
Matches are distributed among these distances:
20 32 0.25
21 97 0.75
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:298605 original size:62 final size:62
Alignment explanation
Indices: 298524--298681 Score: 255
Period size: 62 Copynumber: 2.5 Consensus size: 62
298514 AACTTTGACT
* * * *
298524 ATCGCAATGCGA-ACTTCGACTATCGTAATGCGAACTTGGACTATCGCAATGTGAATATATAA
1 ATCGCAATGCGATA-GTCGACTATCGCAATGCGAACTTGAACTATCGCAATGCGAATATATAA
*
298586 ATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTGAACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTGAACTATCGCAATGCGAATATATAA
298648 ATCGCAATGCGATAGTCGACTATCGCAATGCGAA
1 ATCGCAATGCGATAGTCGACTATCGCAATGCGAA
298682 TATGTAAATC
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
62 89 0.99
63 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (62 bp):
ATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTGAACTATCGCAATGCGAATATATAA
Found at i:298720 original size:21 final size:21
Alignment explanation
Indices: 298690--298833 Score: 109
Period size: 21 Copynumber: 6.9 Consensus size: 21
298680 AATATGTAAA
* *
298690 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
*
298711 TCGCGTTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
298732 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
* * **
298752 ATCGTATTGCGAT-TTATATA-T
1 -TCGCATTGCGATAGTCCA-AGT
298773 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* * *
298794 TCGCGTTGCGATTTATTCCAAAT
1 TCGCATTGCGA--TAGTCCAAGT
298817 TCG--TTGCGATAGTCCAA
1 TCGCATTGCGATAGTCCAA
298834 AATCGCAACG
Statistics
Matches: 98, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
19 7 0.07
20 16 0.16
21 63 0.64
22 1 0.01
23 11 0.11
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:298721 original size:41 final size:41
Alignment explanation
Indices: 298607--298763 Score: 160
Period size: 41 Copynumber: 3.8 Consensus size: 41
298597 ATAGTCGACT
* * *
298607 ATCGCAATGCGA-ACTTGAACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGATAGTCG-ACTATCGCATTGCGAATATGTAA
*
298648 ATCGCAATGCGATAGTCGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGATAGTCGACTATCGCATTGCGAATATGTAA
* *
298689 ATCGCAATGCGATAGTCGAAGT-TCGCGTTGCG-ATA-GTCCAA
1 ATCGCAATGCGATAGTCG-ACTATCGCATTGCGAATATGT--AA
* * *
298730 GTTCGCATTGCGATAGTCGACTATCGTATTGCGA
1 -ATCGCAATGCGATAGTCGACTATCGCATTGCGA
298764 TTTATATATT
Statistics
Matches: 99, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
39 2 0.02
40 3 0.03
41 65 0.66
42 29 0.29
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (41 bp):
ATCGCAATGCGATAGTCGACTATCGCATTGCGAATATGTAA
Found at i:298726 original size:62 final size:61
Alignment explanation
Indices: 298524--298700 Score: 243
Period size: 62 Copynumber: 2.9 Consensus size: 61
298514 AACTTTGACT
* * * * *
298524 ATCGCAATGCGA-ACTTCGACTATCGTAATGCGAACTTGGACTATCGCAATGTGAATATATAA
1 ATCGCAATGCGATA-GTCGACTATCGCAATGCGAACTTGAAC-ATCGCAATGCGAATATGTAA
298586 ATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTGAACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTGAAC-ATCGCAATGCGAATATGTAA
298648 ATCGCAATGCGATAGTCGACTATCGCAATGCGAA-TATGTAA-ATCGCAATGCGA
1 ATCGCAATGCGATAGTCGACTATCGCAATGCGAACT-TG-AACATCGCAATGCGA
298701 TAGTCGAAGT
Statistics
Matches: 107, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
61 13 0.12
62 91 0.85
63 3 0.03
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (61 bp):
ATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTGAACATCGCAATGCGAATATGTAA
Found at i:298742 original size:83 final size:84
Alignment explanation
Indices: 298649--298830 Score: 228
Period size: 83 Copynumber: 2.2 Consensus size: 84
298639 AATATGTAAA
* * *
298649 TCGCAATGCGATAGTCGACTATCGCAATGCGA-ATATGTAAATCGCAATGCGATAGTCGAAGTTC
1 TCGCATTGCGATAGTCGACTATCGCAATGCGATATATAT-AATCGCAATGCGATAGTCCAAGTTC
*
298713 GCGTTGCGA-TAGTCCAAGT
65 GCGTTGCGATTAGTCCAAAT
* * * * *
298732 TCGCATTGCGATAGTCGACTATCGTATTGCGATTTATATATTCGCATTGCGATAGTCCAAGTTCG
1 TCGCATTGCGATAGTCGACTATCGCAATGCGATATATATAATCGCAATGCGATAGTCCAAGTTCG
*
298797 CGTTGCGATTTATTCCAAAT
66 CGTTGCGA-TTAGTCCAAAT
298817 TCG--TTGCGATAGTC
1 TCGCATTGCGATAGTC
298831 CAAAATCGCA
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
83 71 0.83
84 4 0.05
85 11 0.13
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (84 bp):
TCGCATTGCGATAGTCGACTATCGCAATGCGATATATATAATCGCAATGCGATAGTCCAAGTTCG
CGTTGCGATTAGTCCAAAT
Found at i:299609 original size:21 final size:21
Alignment explanation
Indices: 299585--299764 Score: 231
Period size: 21 Copynumber: 8.6 Consensus size: 21
299575 TTTGGAATAA
*
299585 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
299606 ATCGCAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
* *
299627 ATCGCAACGCGAACTTCGGCT
1 ATCGCAATGCGAACTTCGACT
*
299648 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
*
299669 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
** *
299690 ATCGCCTTGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
*
299711 ATCGCAATGCGAA-TAT-GTA-A
1 ATCGCAATGCGAACT-TCG-ACT
*
299731 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
299752 ATCGCAATGCGAA
1 ATCGCAATGCGAA
299765 TATGTAAATC
Statistics
Matches: 138, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.12
21 121 0.88
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:299631 original size:42 final size:42
Alignment explanation
Indices: 299560--299764 Score: 258
Period size: 42 Copynumber: 4.9 Consensus size: 42
299550 TGCAATTTTG
* *
299560 GACTATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAATGCGAACTTGGACT--ATCGCAACGCGAACTTC
*
299602 GACTATCGCAATGCGAACTTCGACTATCGCAACGCGAACTTC
1 GACTATCGCAATGCGAACTTGGACTATCGCAACGCGAACTTC
*
299644 GGCTATCGCAATGCGAACTTGGACTATCGCAACGCGAACTTC
1 GACTATCGCAATGCGAACTTGGACTATCGCAACGCGAACTTC
** *
299686 GACTATCGCCTTGCGAACTTGGACTATCGCAATGCGAA-TAT-
1 GACTATCGCAATGCGAACTTGGACTATCGCAACGCGAACT-TC
* *
299727 GTA-AATCGCAATGCGAACTTGGACTATCGCAATGCGAA
1 G-ACTATCGCAATGCGAACTTGGACTATCGCAACGCGAA
299765 TATGTAAATC
Statistics
Matches: 147, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
41 34 0.23
42 104 0.71
44 9 0.06
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (42 bp):
GACTATCGCAATGCGAACTTGGACTATCGCAACGCGAACTTC
Found at i:299660 original size:63 final size:62
Alignment explanation
Indices: 299560--299764 Score: 231
Period size: 63 Copynumber: 3.3 Consensus size: 62
299550 TGCAATTTTG
* * *
299560 GACTATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTC
1 GACTATCGCAATGCGAACTTGGACT--ATCGCAATGCGAACTT-GACTATCGCAATGCGAACTTC
* *
299623 GACTATCGCAACGCGAACTTCGG-CTATCGCAATGCGAACTTGGACTATCGCAACGCGAACTTC
1 GACTATCGCAATGCGAACTT-GGACTATCGCAATGCGAACTT-GACTATCGCAATGCGAACTTC
** * *
299686 GACTATCGCCTTGCGAACTTGGACTATCGCAATGCGAA-TATGTA-AATCGCAATGCGAACTTG
1 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACT-TG-ACTATCGCAATGCGAACTTC
299748 GACTATCGCAATGCGAA
1 GACTATCGCAATGCGAA
299765 TATGTAAATC
Statistics
Matches: 123, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
62 34 0.28
63 80 0.65
65 7 0.06
66 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (62 bp):
GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGACTATCGCAATGCGAACTTC
Found at i:299736 original size:20 final size:20
Alignment explanation
Indices: 299711--299783 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
299701 AACTTGGACT
299711 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
* *
299731 ATCGCAATGCGAACT-TGGACT
1 ATCGCAATGCGAA-TATGTA-A
299752 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
299772 ATCGCAATGCGA
1 ATCGCAATGCGA
299784 TAGTCGAAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
20 29 0.63
21 17 0.37
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:299819 original size:62 final size:61
Alignment explanation
Indices: 299753--299929 Score: 182
Period size: 62 Copynumber: 2.8 Consensus size: 61
299743 ACTTGGACTA
* *
299753 TCGCAATGCGAATATGT-AAATCGCAATGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAGT
1 TCGCATTGCG-ATA-GTCAAATCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAGT
* * * *
299815 TCGCATTGTGATAGTCGACTATCGCATTGCGAT-TTAC-ATA-TTCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTC-A-AATCGCATTGCGATAGT-CGA-AGTTCGCGTTGCGATAGTCCAAGT
* *
299877 TCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCGAAGTTCGTGTTGCGA
1 TCGCATTGCGATAGTC-AA-ATCGCATTGCGATAGTCGAAGTTCGCGTTGCGA
299930 ATCTGGAAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
60 2 0.02
61 3 0.03
62 63 0.67
63 26 0.28
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (61 bp):
TCGCATTGCGATAGTCAAATCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAGT
Found at i:299819 original size:83 final size:83
Alignment explanation
Indices: 299748--299915 Score: 234
Period size: 83 Copynumber: 2.0 Consensus size: 83
299738 TGCGAACTTG
* *
299748 GACTATCGCAATGCGAATATGTA-A-A-TCGCAATGCGATAGTCGAAGTTCGCGTTGCGATAGTC
1 GACTATCGCAATGCG-AT-T-TACATATTCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTC
*
299810 CAAGTTCGCATTGTGATAGTC
63 CAAGTTCGCATTGCGATAGTC
* * *
299831 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAA
1 GACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCCAA
299896 GTTCGCATTGCGATAGTC
66 GTTCGCATTGCGATAGTC
299914 GA
1 GA
299916 AGTTCGTGTT
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
80 2 0.03
81 2 0.03
82 3 0.04
83 69 0.91
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (83 bp):
GACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCCAA
GTTCGCATTGCGATAGTC
Found at i:299929 original size:21 final size:21
Alignment explanation
Indices: 299773--299921 Score: 180
Period size: 21 Copynumber: 7.1 Consensus size: 21
299763 AATATGTAAA
*
299773 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
* *
299794 TCGCGTTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGAAGT
* *
299815 TCGCATTGTGATAGTCG-ACT
1 TCGCATTGCGATAGTCGAAGT
*
299835 ATCGCATTGCGAT-TTAC-ATA-T
1 -TCGCATTGCGATAGT-CGA-AGT
*
299856 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGAAGT
299877 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
299898 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
299919 TCG
1 TCG
299922 TGTTGCGAAT
Statistics
Matches: 110, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
20 17 0.15
21 92 0.84
22 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:301799 original size:11 final size:10
Alignment explanation
Indices: 301756--301812 Score: 69
Period size: 10 Copynumber: 5.6 Consensus size: 10
301746 TACATTCTTT
301756 TTTTTATTGA
1 TTTTTATTGA
* *
301766 ATTTTATTCA
1 TTTTTATTGA
* *
301776 TTTTAATTCA
1 TTTTTATTGA
301786 TTTTTATTGTA
1 TTTTTATTG-A
301797 TTTTTATTGA
1 TTTTTATTGA
301807 TTTTTA
1 TTTTTA
301813 AAAAAAAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
10 30 0.75
11 10 0.25
ACGTcount: A:0.23, C:0.04, G:0.05, T:0.68
Consensus pattern (10 bp):
TTTTTATTGA
Found at i:301799 original size:21 final size:20
Alignment explanation
Indices: 301767--301812 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
301757 TTTTATTGAA
301767 TTTTATTCATTTTAATTCAT
1 TTTTATTCATTTTAATTCAT
* * *
301787 TTTTATTGTATTTTTATTGAT
1 TTTTATT-CATTTTAATTCAT
301808 TTTTA
1 TTTTA
301813 AAAAAAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (20 bp):
TTTTATTCATTTTAATTCAT
Found at i:312322 original size:12 final size:12
Alignment explanation
Indices: 312305--312329 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
312295 TTATATTATT
312305 TTCGTTAAAACA
1 TTCGTTAAAACA
312317 TTCGTTAAAACA
1 TTCGTTAAAACA
312329 T
1 T
312330 ACAAATTTTG
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TTCGTTAAAACA
Found at i:314330 original size:25 final size:23
Alignment explanation
Indices: 314292--314346 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
314282 TAAATAGATA
*
314292 ATTTTTTAAGATTACACATATTTTT
1 ATTTATTAAGATT--ACATATTTTT
*
314317 ATTTATTAATATTACATATTTTT
1 ATTTATTAAGATTACATATTTTT
314340 ATTTATT
1 ATTTATT
314347 GTATATAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 17 0.61
25 11 0.39
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (23 bp):
ATTTATTAAGATTACATATTTTT
Found at i:315603 original size:10 final size:10
Alignment explanation
Indices: 315590--315633 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
315580 AAAGTTAGTA
315590 AAAACAAAAT
1 AAAACAAAAT
*
315600 AAAAGCATAAT
1 AAAA-CAAAAT
*
315611 AAAATAAAAT
1 AAAACAAAAT
*
315621 AAAATAAAAT
1 AAAACAAAAT
315631 AAA
1 AAA
315634 TAAAGTCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (10 bp):
AAAACAAAAT
Found at i:315636 original size:4 final size:5
Alignment explanation
Indices: 315608--315637 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
315598 ATAAAAGCAT
315608 AATAA AATAA AATAA AATAA AAT-A AATAA A
1 AATAA AATAA AATAA AATAA AATAA AATAA A
315638 GTCCAAAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:316806 original size:3 final size:3
Alignment explanation
Indices: 316798--316843 Score: 83
Period size: 3 Copynumber: 15.0 Consensus size: 3
316788 GGCCTACAAA
316798 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
316844 GTTTTTGTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:320029 original size:201 final size:200
Alignment explanation
Indices: 319658--320138 Score: 651
Period size: 201 Copynumber: 2.4 Consensus size: 200
319648 TACTACGTGC
* * * *
319658 TTGATATGCCCTTGAGTTGAATGGAATCGAACTCGAAGGTTTTTTGTTGACAGATAGCCCTTCTC
1 TTGATATGCCCTTGAGCTGAATGGAATCGAACTCGAAAGTTTTTCGTTGACAAATAGCCCTTCTC
* * * * *
319723 GCCTTGAGCTATACTATAAATTTGACTGGGATATAGTTCCTTGTGGCTAAATTGTAGCAATCCCA
66 GCCTTGAGCTAT-GTTTAAATTCGACTGAGAGATAGTTCCTTGTGGCTAAATTGTAGCAATCCCA
* * * *
319788 GGTCTTCTTCTTGACTTAAAGACCTTAGTTTGAGCTTCAACCAAAAAGTAGTTCCTT-GCTGCTA
130 GGTCTTCTTCTTGACTTAAAGACCTCAATTTAAACTTCAACC-AAAAGTAG-TCCTTCGCTGCTA
*
319852 CAATGCAG
193 CAATACAG
* * *
319860 TTGATATGTCATTGAGCTAAATGGAATCGAACTCGAAAGTTTTTCGTTGACAAATAGCCCTTCTC
1 TTGATATGCCCTTGAGCTGAATGGAATCGAACTCGAAAGTTTTTCGTTGACAAATAGCCCTTCTC
* *
319925 GCCTTGAGCTATGTTTAAATTCGACTGAGAGATAGTTCCTTGTTGCTAAATTGTAGCAATCCCGG
66 GCCTTGAGCTATGTTTAAATTCGACTGAGAGATAGTTCCTTGTGGCTAAATTGTAGCAATCCCAG
* **
319990 GTCTTCTTCTTGACTTAAAGACCTCAATTTAAACTTCAACCAAAAGTAGTCTTTCGCTGCTACTG
131 GTCTTCTTCTTGACTTAAAGACCTCAATTTAAACTTCAACCAAAAGTAGTCCTTCGCTGCTACAA
320055 TACAG
196 TACAG
* * * * * * * *
320060 TTGATAAGCCCTCGAGCCGAATGAAATCAAACTCGAAAG-TTCTCGTTGACATATAGGCCTTCTC
1 TTGATATGCCCTTGAGCTGAATGGAATCGAACTCGAAAGTTTTTCGTTGACAAATAGCCCTTCTC
320124 GCCTTGAGCTATGTT
66 GCCTTGAGCTATGTT
320139 GCGAACAATT
Statistics
Matches: 245, Mismatches: 33, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
199 41 0.17
200 51 0.21
201 83 0.34
202 70 0.29
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (200 bp):
TTGATATGCCCTTGAGCTGAATGGAATCGAACTCGAAAGTTTTTCGTTGACAAATAGCCCTTCTC
GCCTTGAGCTATGTTTAAATTCGACTGAGAGATAGTTCCTTGTGGCTAAATTGTAGCAATCCCAG
GTCTTCTTCTTGACTTAAAGACCTCAATTTAAACTTCAACCAAAAGTAGTCCTTCGCTGCTACAA
TACAG
Done.