Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001715.1 Hibiscus syriacus cultivar Beakdansim tig00003473_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: 214585
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:21256 original size:6 final size:6
Alignment explanation
Indices: 21235--21281 Score: 69
Period size: 6 Copynumber: 7.7 Consensus size: 6
21225 TAGTATTAGA
21235 AAATATT AAA-AT AAATAT AAATAT AAATAT AAATAT AAATATT AAAT
1 AAATA-T AAATAT AAATAT AAATAT AAATAT AAATAT AAATA-T AAAT
21282 TGATCTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.11
6 26 0.68
7 8 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AAATAT
Found at i:21258 original size:18 final size:19
Alignment explanation
Indices: 21235--21281 Score: 80
Period size: 18 Copynumber: 2.6 Consensus size: 19
21225 TAGTATTAGA
21235 AAATATTAAA-ATAAATAT
1 AAATATTAAATATAAATAT
21253 AAATA-TAAATATAAATAT
1 AAATATTAAATATAAATAT
21271 AAATATTAAAT
1 AAATATTAAAT
21282 TGATCTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.15
18 18 0.67
19 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATATTAAATATAAATAT
Found at i:22835 original size:23 final size:23
Alignment explanation
Indices: 22808--22861 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
22798 AAAACTACCA
22808 AAAGACATAGAAAAACATGTCAC
1 AAAGACATAGAAAAACATGTCAC
* * **
22831 AAAGACAGAGATAAATGTGTCAC
1 AAAGACATAGAAAAACATGTCAC
*
22854 AAATACAT
1 AAAGACAT
22862 GATTATTCTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.17
Consensus pattern (23 bp):
AAAGACATAGAAAAACATGTCAC
Found at i:23581 original size:15 final size:16
Alignment explanation
Indices: 23545--23584 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
23535 GAAAATAATT
*
23545 CAAACTGAAATGAACC
1 CAAACTGAAATCAACC
23561 CAAACTGAAA-CAACC
1 CAAACTGAAATCAACC
*
23576 CGAACTGAA
1 CAAACTGAA
23585 TTTAACCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.50, C:0.28, G:0.12, T:0.10
Consensus pattern (16 bp):
CAAACTGAAATCAACC
Found at i:23631 original size:17 final size:17
Alignment explanation
Indices: 23547--23631 Score: 61
Period size: 17 Copynumber: 5.2 Consensus size: 17
23537 AAATAATTCA
* *
23547 AACTGAAATG-AACCCA
1 AACTGAAAAGCAACCCG
23563 AACTG-AAA-CAACCCG
1 AACTGAAAAGCAACCCG
*** *
23578 AACTG-AATTTAACCTG
1 AACTGAAAAGCAACCCG
* *
23594 AACCGAAAAGTAACCCG
1 AACTGAAAAGCAACCCG
*
23611 AACTGAAAAGCATCCCG
1 AACTGAAAAGCAACCCG
23628 AACT
1 AACT
23632 AAATTTAACT
Statistics
Matches: 54, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
15 14 0.26
16 14 0.26
17 26 0.48
ACGTcount: A:0.45, C:0.27, G:0.14, T:0.14
Consensus pattern (17 bp):
AACTGAAAAGCAACCCG
Found at i:27604 original size:15 final size:15
Alignment explanation
Indices: 27584--27617 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
27574 AAATAGAGAT
27584 AAAATAAAAGTAATA
1 AAAATAAAAGTAATA
27599 AAAATAAAAGTAATA
1 AAAATAAAAGTAATA
27614 AAAA
1 AAAA
27618 AATAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (15 bp):
AAAATAAAAGTAATA
Found at i:27628 original size:15 final size:15
Alignment explanation
Indices: 27584--27630 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
27574 AAATAGAGAT
*
27584 AAAAT-AAAAGTAATA
1 AAAATAAAAAATAA-A
27599 AAAATAAAAGTAATAAA
1 AAAATAAAA--AATAAA
27616 AAAATAAAAAATAAA
1 AAAATAAAAAATAAA
27631 GCAACTAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 11 0.39
16 3 0.11
17 10 0.36
18 4 0.14
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (15 bp):
AAAATAAAAAATAAA
Found at i:27639 original size:24 final size:25
Alignment explanation
Indices: 27598--27648 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
27588 TAAAAGTAAT
*
27598 AAAAATAAAAGTAATAAA-AAAATA
1 AAAAATAAAAGCAATAAACAAAATA
*
27622 AAAAAT-AAAGCAACTAAACAGAATA
1 AAAAATAAAAGCAA-TAAACAAAATA
27647 AA
1 AA
27649 GAAAATAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 6 0.26
24 10 0.43
25 7 0.30
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.14
Consensus pattern (25 bp):
AAAAATAAAAGCAATAAACAAAATA
Found at i:27856 original size:15 final size:14
Alignment explanation
Indices: 27836--27891 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 14
27826 CGATAACAAT
27836 AATAATAGTAATAAA
1 AATAATA-TAATAAA
*
27851 AATAATAATAATGAA
1 AATAAT-ATAATAAA
27866 AATAATA-AAT-AA
1 AATAATATAATAAA
27878 AA-AATA-AATAAA
1 AATAATATAATAAA
27890 AA
1 AA
27892 ATTAAAAAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
11 7 0.18
12 8 0.21
13 3 0.08
14 1 0.03
15 18 0.47
16 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (14 bp):
AATAATATAATAAA
Found at i:27885 original size:11 final size:11
Alignment explanation
Indices: 27864--27893 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
27854 AATAATAATG
27864 AAAATAATAAAT
1 AAAA-AATAAAT
27876 AAAAAATAAAT
1 AAAAAATAAAT
27887 AAAAAAT
1 AAAAAAT
27894 TAAAAAGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAAAATAAAT
Found at i:27888 original size:39 final size:39
Alignment explanation
Indices: 27767--27891 Score: 96
Period size: 39 Copynumber: 3.1 Consensus size: 39
27757 ATAGAATATA
* * *
27767 AAAAATAATAAATAAATGGTAAA-AATATATAAGAAAAAAAAT
1 AAAAATAAT-AAT-AAT-GAAAATAATAAATAA-AAAATAAAT
** * *
27809 AAAAATAATAGAT-ATGACGATAA-CAAT-AATAATAGTAAT
1 AAAAATAATA-ATAATGAAAATAATAAATAAAAAATA--AAT
27848 AAAAATAATAATAATGAAAATAATAAATAAAAAATAAAT
1 AAAAATAATAATAATGAAAATAATAAATAAAAAATAAAT
27887 AAAAA
1 AAAAA
27892 ATTAAAAAGG
Statistics
Matches: 65, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
37 4 0.06
38 3 0.05
39 33 0.51
40 7 0.11
41 7 0.11
42 11 0.17
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (39 bp):
AAAAATAATAATAATGAAAATAATAAATAAAAAATAAAT
Found at i:27931 original size:50 final size:49
Alignment explanation
Indices: 27873--27972 Score: 130
Period size: 48 Copynumber: 2.0 Consensus size: 49
27863 GAAAATAATA
* *
27873 AATAAAAAATAAATAAAAAATTAAAAAGGAATATATATATATAT-ATATAT
1 AATAAAAAATAAA-AAAAAA-GAAAAAAGAATATATATATATATAATATAT
* * *
27923 AATAAAAAATAGAAAAATAGAAAAAATAATATATATATATATAATATAT
1 AATAAAAAATAAAAAAAAAGAAAAAAGAATATATATATATATAATATAT
27972 A
1 A
27973 TGAAAGAAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
48 20 0.45
49 12 0.27
50 12 0.27
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (49 bp):
AATAAAAAATAAAAAAAAAGAAAAAAGAATATATATATATATAATATAT
Found at i:29099 original size:2 final size:2
Alignment explanation
Indices: 29094--29141 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
29084 ACACACACAC
* *
29094 AT AT AT AT AT AT A- AC AT AT AA AT -T AT AT AT A- 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
29133 AT AT AT AT A
1 AT AT AT AT A
29142 GTTATTTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
1 3 0.08
2 37 0.93
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:29121 original size:9 final size:11
Alignment explanation
Indices: 29094--29141 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
29084 ACACACACAC
29094 ATATATATAT-
1 ATATATATATA
*
29104 ATA-ACATATA
1 ATATATATATA
29114 A-ATTATATATA
1 ATA-TATATATA
29125 ATATATATAT-
1 ATATATATATA
29135 ATATATA
1 ATATATA
29142 GTTATTTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
9 6 0.19
10 11 0.34
11 14 0.44
12 1 0.03
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATATATATA
Found at i:29486 original size:15 final size:15
Alignment explanation
Indices: 29466--29501 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
29456 ACTTTACTTC
29466 CGTAGATCTAGACCT
1 CGTAGATCTAGACCT
29481 CGTAGATCTAGACCT
1 CGTAGATCTAGACCT
29496 C-TAGAT
1 CGTAGAT
29502 TGAGATTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (15 bp):
CGTAGATCTAGACCT
Found at i:29908 original size:101 final size:101
Alignment explanation
Indices: 29733--29927 Score: 363
Period size: 101 Copynumber: 1.9 Consensus size: 101
29723 TATACTCATG
* *
29733 AGGGTTTATTTTATGAAAAGTCCTTTGTATTTTGTAATTCCCTATTTTGGTCATGAAATGAAAGT
1 AGGGTTTATTCTACGAAAAGTCCTTTGTATTTTGTAATTCCCTATTTTGGTCATGAAATGAAAGT
29798 GGTTATTCACATGTTCAAACCTTCAAACGAAGTATA
66 GGTTATTCACATGTTCAAACCTTCAAACGAAGTATA
*
29834 AGGGTTTATTCTACGGAAAGTCCTTTGTATTTTGTAATTCCCTATTTTGGTCATGAAATGAAAGT
1 AGGGTTTATTCTACGAAAAGTCCTTTGTATTTTGTAATTCCCTATTTTGGTCATGAAATGAAAGT
29899 GGTTATTCACATGTTCAAACCTTCAAACG
66 GGTTATTCACATGTTCAAACCTTCAAACG
29928 TTTTCGTTTT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 91 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (101 bp):
AGGGTTTATTCTACGAAAAGTCCTTTGTATTTTGTAATTCCCTATTTTGGTCATGAAATGAAAGT
GGTTATTCACATGTTCAAACCTTCAAACGAAGTATA
Found at i:30288 original size:10 final size:10
Alignment explanation
Indices: 30259--30308 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
30249 TTTAAATGAT
**
30259 AAACGAACGT
1 AAACGAACAC
30269 AAACGAACAC
1 AAACGAACAC
30279 AAACGAACAC
1 AAACGAACAC
30289 AAA--AA-AC
1 AAACGAACAC
30296 AAAC-AACAC
1 AAACGAACAC
30305 AAAC
1 AAAC
30309 ACAAAAAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
7 5 0.14
8 4 0.11
9 6 0.17
10 21 0.58
ACGTcount: A:0.64, C:0.26, G:0.08, T:0.02
Consensus pattern (10 bp):
AAACGAACAC
Found at i:30579 original size:14 final size:14
Alignment explanation
Indices: 30560--30615 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
30550 GCTCTATGTT
30560 CGAACATAAATGAA
1 CGAACATAAATGAA
30574 CGAACATAAAT---
1 CGAACATAAATGAA
*
30585 -GAATATAAATGAA
1 CGAACATAAATGAA
30598 CGAACATATAATCGAA
1 CGAACATA-AAT-GAA
30614 CG
1 CG
30616 TTCACGAACG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
10 9 0.26
14 17 0.50
15 3 0.09
16 5 0.15
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.18
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:41609 original size:36 final size:36
Alignment explanation
Indices: 41562--41747 Score: 277
Period size: 36 Copynumber: 5.2 Consensus size: 36
41552 TCTGTTCTAG
*
41562 TTGAATCGGAAGTG-CGAATGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGTCG-ATGCTTCCTTCCGTTCGAC
*
41598 TTGAATCGGAAGTG-CATATGCTTCCTTCCGTTCGAC
1 TTGAATCGGAAGTGTC-GATGCTTCCTTCCGTTCGAC
*
41634 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCGAC
1 TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGAC
*
41670 TTGAATCGGAAGTGTCGATGCTTCCCTCCGTTCGAC
1 TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGAC
* * *
41706 TTGAATCGAAAGTGCCGATGCTTCCCTCCGTTCGAC
1 TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGAC
41742 TTGAAT
1 TTGAAT
41748 GGATGCAAAC
Statistics
Matches: 140, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
36 139 0.99
37 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.32
Consensus pattern (36 bp):
TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGAC
Found at i:62025 original size:23 final size:23
Alignment explanation
Indices: 61999--62046 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
61989 ATAAAGTACA
*
61999 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
62022 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
62045 AT
1 AT
62047 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:62798 original size:18 final size:18
Alignment explanation
Indices: 62775--62811 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
62765 CGAAATATAT
62775 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
62793 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
62811 A
1 A
62812 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:63068 original size:23 final size:23
Alignment explanation
Indices: 63015--63079 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
63005 ATGCGAGATA
63015 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
* **
63038 GATGCCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
63061 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
63080 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:63461 original size:21 final size:22
Alignment explanation
Indices: 63436--63487 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
63426 ACACTTTACA
*
63436 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
63459 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
63482 ATATAA
1 ATATAA
63488 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:63472 original size:23 final size:23
Alignment explanation
Indices: 63446--63508 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
63436 ATATAACCAC
63446 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
63469 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
63492 TACCTATTACATCATAT
1 TACCTATTACATTATAT
63509 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:63873 original size:424 final size:429
Alignment explanation
Indices: 63017--64031 Score: 1952
Period size: 424 Copynumber: 2.4 Consensus size: 429
63007 GCGAGATAGA
*
63017 TACCTATTACATTATATAAACGATGCCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
*
63082 TTACCTATTATATTGAAAGAGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
63147 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
63212 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTA
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTA
63277 ATTTAATAATATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
261 ATTTAATAATATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
63342 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
326 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
63407 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
391 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
63446 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
63511 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
63576 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCA-CTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
63640 ATTTCATTTGCAC-AAAAATTATTTGATTGTTTTTATATTTTAT-AAA-A-TATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAA-TTTT
63701 AATTTAATAATA-ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTA
260 AATTTAATAATATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTA
63765 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGA
325 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGA
63830 CACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
390 CACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
63870 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
*
63935 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
64000 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
64032 ACTGCGAATT
Statistics
Matches: 582, Mismatches: 3, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
424 327 0.56
425 17 0.03
426 3 0.01
427 30 0.05
428 32 0.05
429 173 0.30
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (429 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTA
ATTTAATAATATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
ACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
Found at i:63885 original size:21 final size:22
Alignment explanation
Indices: 63860--63911 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
63850 ACACTTTACA
*
63860 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
63883 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
63906 ATATAA
1 ATATAA
63912 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:63896 original size:23 final size:23
Alignment explanation
Indices: 63870--63932 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
63860 ATATAACCAC
63870 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
63893 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
63916 TACCTATTACATCATAT
1 TACCTATTACATTATAT
63933 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:66955 original size:184 final size:184
Alignment explanation
Indices: 66486--67156 Score: 1272
Period size: 184 Copynumber: 3.7 Consensus size: 184
66476 TTTTAAATGG
* *
66486 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
66551 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66616 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACA-TTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
66669 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
66734 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66799 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
*
66853 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
66918 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66983 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
67037 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
* **
67102 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
67157 ATGTTGAAAG
Statistics
Matches: 478, Mismatches: 9, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
183 169 0.35
184 309 0.65
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:68626 original size:3 final size:3
Alignment explanation
Indices: 68618--68704 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
68608 ACTTGTTTGG
* * * **
68618 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
68666 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
68705 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:68641 original size:18 final size:18
Alignment explanation
Indices: 68618--68719 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
68608 ACTTGTTTGG
68618 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
68636 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
68654 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
68672 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
68690 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
68708 AGCTTCATCTTC
1 ATCATCATCTTC
68720 TGCGACCGCT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:68685 original size:42 final size:42
Alignment explanation
Indices: 68626--68716 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
68616 GGATCATCAT
*
68626 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
68668 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
68710 CTTCATC
1 CTTCATC
68717 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:69848 original size:198 final size:198
Alignment explanation
Indices: 69225--70282 Score: 1953
Period size: 199 Copynumber: 5.4 Consensus size: 198
69215 GGTAGTGTAG
* *
69225 TTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATCGACACAAACTATATTAGTGT
1 TTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGT
*
69290 CGACACATTATTTAGACATATTCTCTCATAAAACCGGTATCATTGTACCGGTTAGATTGAAAAAT
66 CGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAAT
69355 TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGA
131 TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC-TTTTATATATGGATCGA
69420 CACT
195 CACT
*
69424 TTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATCGACACAAACTATATTAGTGT
1 TTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGT
69489 CGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAAT
66 CGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAAT
*
69554 TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAATTTTTATATATGGATCGA
131 TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGAC-ACTTTTATATATGGATCGA
69619 CACT
195 CACT
*
69623 TTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGT
1 TTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGT
* *
69688 CGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTAAAAAAT
66 CGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAAT
69753 TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGGATCGAC
131 TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGGATCGAC
69818 ACT
196 ACT
69821 TTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGT
1 TTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGT
69886 CGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAAT
66 CGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAAT
*
69951 TACAGATTACATTATACTTTTGGGTTCGATGA-TTTGGGATCGACACTTTT-TATATGGATCGAC
131 TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGGATCGAC
70014 ACT
196 ACT
*
70017 TTAT-GATGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGT
1 TTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGT
* *
70081 CGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTAAAAAAT
66 CGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAAT
70146 TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTT-TATATGGATCGAC
131 TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGGATCGAC
70210 ACT
196 ACT
*
70213 TTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTAT
1 TTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGT
70278 CGACA
66 CGACA
70283 TGACCCTTAA
Statistics
Matches: 838, Mismatches: 18, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
195 153 0.18
196 58 0.07
197 81 0.10
198 180 0.21
199 365 0.44
200 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (198 bp):
TTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGT
CGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAAT
TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGGATCGAC
ACT
Found at i:69969 original size:397 final size:394
Alignment explanation
Indices: 69225--70282 Score: 1985
Period size: 397 Copynumber: 2.7 Consensus size: 394
69215 GGTAGTGTAG
*
69225 TTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATCGACACAAACTATATTAGTGT
1 TTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGT
* * *
69290 CGACACATTATTTAGACATATTCTCTCATAAAACCGGTATCATTGTACCGGTTAGATTGAAAAAT
66 CGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTAAAAAAT
69355 TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGA
131 TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC-TTTTATATATGGATCGA
*
69420 CACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATCGACACAAACTATATTA
195 CACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTA
69485 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
260 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
* *
69550 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAATTTTTATATATGGA
325 AAATTACAGATTACATTATACTTTTGGGTTCGATGA-TTTGGGATCGAC-ACTTTT-TATATGGA
69615 TCGACACT
387 TCGACACT
69623 TTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGT
1 TTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGT
69688 CGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTAAAAAAT
66 CGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTAAAAAAT
69753 TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGGATCGAC
131 TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGGATCGAC
69818 ACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAG
196 ACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAG
69883 TGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAA
261 TGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAA
69948 AATTACAGATTACATTATACTTTTGGGTTCGATGATTTGGGATCGACACTTTTTATATGGATCGA
326 AATTACAGATTACATTATACTTTTGGGTTCGATGATTTGGGATCGACACTTTTTATATGGATCGA
70013 CACT
391 CACT
*
70017 TTA-TGATGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGT
1 TTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGT
70081 CGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTAAAAAAT
66 CGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTAAAAAAT
70146 TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTT-TATATGGATCGAC
131 TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGGATCGAC
70210 ACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAG
196 ACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAG
*
70275 TATCGACA
261 TGTCGACA
70283 TGACCCTTAA
Statistics
Matches: 651, Mismatches: 9, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
392 85 0.13
393 176 0.27
394 19 0.03
395 5 0.01
396 12 0.02
397 181 0.28
398 173 0.27
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (394 bp):
TTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGT
CGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTAAAAAAT
TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGGATCGAC
ACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAG
TGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAA
AATTACAGATTACATTATACTTTTGGGTTCGATGATTTGGGATCGACACTTTTTATATGGATCGA
CACT
Found at i:70390 original size:19 final size:19
Alignment explanation
Indices: 70363--70407 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
70353 TATTCACATA
*
70363 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
70382 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
70401 AAAATTA
1 AAAATTA
70408 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:72220 original size:33 final size:32
Alignment explanation
Indices: 72182--72246 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
72172 ACCATTAATA
*
72182 TCACCCCTTAACAC-CGAAACTTCTTTCACCACT
1 TCACCCCTCAACACTC--AACTTCTTTCACCACT
*
72215 TCACCCCTCAACACTCTACTTCTTTCACCACT
1 TCACCCCTCAACACTCAACTTCTTTCACCACT
72247 CCATCTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 15 0.52
33 13 0.45
34 1 0.03
ACGTcount: A:0.25, C:0.45, G:0.02, T:0.29
Consensus pattern (32 bp):
TCACCCCTCAACACTCAACTTCTTTCACCACT
Found at i:74380 original size:24 final size:24
Alignment explanation
Indices: 74343--74395 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
74333 TCGTTCTATC
74343 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
74367 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
74391 TATTT
1 TATTT
74396 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:74594 original size:20 final size:18
Alignment explanation
Indices: 74540--74585 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
74530 TCCGGTATCA
74540 TTTTACCGTTTTATCATT
1 TTTTACCGTTTTATCATT
*
74558 TTGATACCGGTTTTATCATAT
1 TT-TTACC-GTTTTATCAT-T
74579 TTTTACC
1 TTTTACC
74586 TGTTATATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.09
19 4 0.17
20 14 0.61
21 3 0.13
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (18 bp):
TTTTACCGTTTTATCATT
Found at i:74731 original size:19 final size:19
Alignment explanation
Indices: 74707--74764 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
74697 ACTTTTAAAT
74707 TTACCGGTTTATCATTTTG
1 TTACCGGTTTATCATTTTG
74726 TTACCGGTTTTATCATATTT-
1 TTACCGG-TTTATCAT-TTTG
* * *
74746 TTACTGGTATATCGTTTTG
1 TTACCGGTTTATCATTTTG
74765 GATCGATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.09
19 13 0.39
20 14 0.42
21 3 0.09
ACGTcount: A:0.17, C:0.14, G:0.16, T:0.53
Consensus pattern (19 bp):
TTACCGGTTTATCATTTTG
Found at i:81914 original size:19 final size:19
Alignment explanation
Indices: 81890--81930 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
81880 CGGAATTTTA
* *
81890 TAAATTCAAATTCACCCTC
1 TAAATTAAAATTCACACTC
*
81909 TAAATTAAAATTTACACTC
1 TAAATTAAAATTCACACTC
81928 TAA
1 TAA
81931 CATAAAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAATTAAAATTCACACTC
Found at i:82999 original size:46 final size:47
Alignment explanation
Indices: 82928--83027 Score: 132
Period size: 46 Copynumber: 2.1 Consensus size: 47
82918 GTTGGGCCGA
82928 TAAATATTAAAAAAAAATTATTATATATATAATATTAATAAATTAAAT
1 TAAA-ATTAAAAAAAAATTATTATATATATAATATTAATAAATTAAAT
* * *
82976 TAAAATT-AAAAAAAA-TATATATATATATAATATTTATATATTTAAT
1 TAAAATTAAAAAAAAATTAT-TATATATATAATATTAATAAATTAAAT
*
83022 TTAAAT
1 TAAAAT
83028 ATATATATAC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
45 3 0.06
46 37 0.79
47 3 0.06
48 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (47 bp):
TAAAATTAAAAAAAAATTATTATATATATAATATTAATAAATTAAAT
Found at i:83015 original size:17 final size:17
Alignment explanation
Indices: 82991--83036 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
82981 TTAAAAAAAA
82991 TATATATATATATAATAT
1 TATATATATATATAAT-T
83009 T-TATATAT-T-TAATT
1 TATATATATATATAATT
*
83023 TAAATATATATATA
1 TATATATATATATA
83037 CCCGGCCCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
14 2 0.08
15 10 0.42
16 2 0.08
17 9 0.38
18 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATATATATATAATT
Found at i:86466 original size:30 final size:31
Alignment explanation
Indices: 86420--86514 Score: 95
Period size: 32 Copynumber: 3.0 Consensus size: 31
86410 GTCTTTAGAA
* * *
86420 TTTTAAAAATTTATAAAATGATCA-TCAATTT
1 TTTTAATAA-TTATAAAATGATAATTAAATTT
86451 TTTTAATAATTATAAAAATGATAATTAAATTT
1 TTTTAATAATTAT-AAAATGATAATTAAATTT
* *
86483 TATTAAATTATTATAAAA-GAATAATTAAATTT
1 T-TTTAATAATTATAAAATG-ATAATTAAATTT
86515 AGAGATAATT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
30 4 0.07
31 18 0.33
32 23 0.42
33 10 0.18
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.45
Consensus pattern (31 bp):
TTTTAATAATTATAAAATGATAATTAAATTT
Found at i:86720 original size:59 final size:60
Alignment explanation
Indices: 86559--86720 Score: 206
Period size: 60 Copynumber: 2.7 Consensus size: 60
86549 CCCTCATTTC
* * *
86559 AAATTAGTCCTTAAACTTTTA-AACATTTCAATTTCATCCTAAAACTATAAATCCCATTCT
1 AAATTAGTCCTTAAACTTTTAGAACATTCCAATTTCATCC-CAAACTATAAATCCCAATCT
** * *
86619 AAATTAGTCCTTGGACTTTT-GAACATTCCAATTTCATCCCAAACTATGAATCTCAATCT
1 AAATTAGTCCTTAAACTTTTAGAACATTCCAATTTCATCCCAAACTATAAATCCCAATCT
*
86678 AAATTAGTCC-TAAACTTTTAGATC-TTCCAATTTCATCTCCAAA
1 AAATTAGTCCTTAAACTTTTAGAACATTCCAATTTCATC-CCAAA
86721 ATTCATCCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
58 20 0.22
59 34 0.38
60 35 0.39
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (60 bp):
AAATTAGTCCTTAAACTTTTAGAACATTCCAATTTCATCCCAAACTATAAATCCCAATCT
Found at i:86954 original size:60 final size:60
Alignment explanation
Indices: 86851--87042 Score: 187
Period size: 60 Copynumber: 3.2 Consensus size: 60
86841 ATACATATAA
* *
86851 TTTA-GGAT-AAAATTGAAATATTCAAAAAGT-TTAGAGACCAATTTAGAATGAAGATCATAG
1 TTTAGGGATGAAAA-TGAAATATTC-AAAAGTGTAAG-GACTAATTTAGAATGAAGATCATAG
* * *
86911 TTTAGGGATGAAAATGAAATGTTCAAAAGTGTGAGGATTAATTTAGAATGATA-ATCATAG
1 TTTAGGGATGAAAATGAAATATTCAAAAGTGTAAGGACTAATTTAGAATGA-AGATCATAG
** * * * * *
86971 TTTAATGATGAAATTGAAATATTTAAAAGTTTAATGACTAATTTAAAATG-AGAATCATAG
1 TTTAGGGATGAAAATGAAATATTCAAAAGTGTAAGGACTAATTTAGAATGAAG-ATCATAG
*
87031 ATTAGGGATGAA
1 TTTAGGGATGAA
87043 TGATGCATTT
Statistics
Matches: 109, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
58 1 0.01
60 87 0.80
61 17 0.16
62 4 0.04
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (60 bp):
TTTAGGGATGAAAATGAAATATTCAAAAGTGTAAGGACTAATTTAGAATGAAGATCATAG
Found at i:96614 original size:17 final size:17
Alignment explanation
Indices: 96594--96630 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
96584 AAGTTGCGGA
96594 TATTATCGAGGATAAAT
1 TATTATCGAGGATAAAT
**
96611 TATTATTTAGGATAAAT
1 TATTATCGAGGATAAAT
96628 TAT
1 TAT
96631 GCATTTAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.43
Consensus pattern (17 bp):
TATTATCGAGGATAAAT
Found at i:96638 original size:18 final size:17
Alignment explanation
Indices: 96602--96638 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
96592 GATATTATCG
*
96602 AGGATAAATTATTATTT
1 AGGATAAATTATCATTT
96619 AGGATAAATTATGCATTT
1 AGGATAAATTAT-CATTT
96637 AG
1 AG
96639 TAATTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.41
Consensus pattern (17 bp):
AGGATAAATTATCATTT
Found at i:96656 original size:20 final size:17
Alignment explanation
Indices: 96605--96652 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
96595 ATTATCGAGG
*
96605 ATAAATTATTATTTAGG
1 ATAAATTATTATTTAGA
*
96622 ATAAATTATGCATTTAGTA
1 ATAAATTAT-TATTTAG-A
96641 ATTAAATTATTA
1 A-TAAATTATTA
96653 ATTTTGATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 9 0.36
18 6 0.24
19 2 0.08
20 8 0.32
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (17 bp):
ATAAATTATTATTTAGA
Found at i:97718 original size:31 final size:30
Alignment explanation
Indices: 97668--97764 Score: 144
Period size: 31 Copynumber: 3.2 Consensus size: 30
97658 CGTTAAATAG
97668 ATTACATAAAATT-TGTTTTATGTAAAATGA
1 ATTACATAAAATTAT-TTTTATGTAAAATGA
*
97698 ATTACATGAAAATTATTTTTACGTAAAATGA
1 ATTACAT-AAAATTATTTTTATGTAAAATGA
*
97729 ATTACATAAAATTA-TTTTATGTAAAATAA
1 ATTACATAAAATTATTTTTATGTAAAATGA
97758 ATTACAT
1 ATTACAT
97765 TTTCTTGAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
29 20 0.32
30 14 0.23
31 27 0.44
32 1 0.02
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (30 bp):
ATTACATAAAATTATTTTTATGTAAAATGA
Found at i:98194 original size:25 final size:24
Alignment explanation
Indices: 98166--98249 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 24
98156 AATATAATAT
98166 TATATATTATTATAATATATCTAAA
1 TATATATTATTATAATATAT-TAAA
* *
98191 TATATATTAATATAATAT-TAAAAA
1 TATATATTATTATAATATAT-TAAA
* *
98215 TATAATATTATTAAAATTATATTATA
1 TAT-ATATTATTATAA-TATATTAAA
*
98241 TGTATATTA
1 TATATATTA
98250 AATATTTTCA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
24 7 0.15
25 33 0.69
26 7 0.15
27 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (24 bp):
TATATATTATTATAATATATTAAA
Found at i:98236 original size:39 final size:39
Alignment explanation
Indices: 98176--98251 Score: 95
Period size: 39 Copynumber: 1.9 Consensus size: 39
98166 TATATATTAT
98176 TATAATATATCTAAATATATATTAATAT-AATATTAAAAA
1 TATAATATATCTAAATATATATT-ATATGAATATTAAAAA
*
98215 TATAATATTAT-TAAA-ATTATATTATATGTATATTAAA
1 TATAATA-TATCTAAATA-TATATTATATGAATATTAAA
98252 TATTTTCATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
38 5 0.15
39 25 0.76
40 3 0.09
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (39 bp):
TATAATATATCTAAATATATATTATATGAATATTAAAAA
Found at i:98246 original size:28 final size:28
Alignment explanation
Indices: 98157--98246 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
98147 TAAATTAAAA
* *
98157 ATATAATATTATATATTATTATAATATAT
1 ATATAATATTAT-TAATATTATATTATAT
* * * *
98186 CTA-AATATATATTAATATAATATTAAAA
1 ATATAATAT-TATTAATATTATATTATAT
*
98214 ATATAATATTATTAAAATTATATTATAT
1 ATATAATATTATTAATATTATATTATAT
*
98242 GTATA
1 ATATA
98247 TTAAATATTT
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
28 37 0.79
29 10 0.21
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (28 bp):
ATATAATATTATTAATATTATATTATAT
Found at i:98298 original size:19 final size:18
Alignment explanation
Indices: 98274--98326 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
98264 TAATATTTTT
*
98274 TATTAAAATGATATTAAAA
1 TATTAAAATAATATT-AAA
**
98293 TATTAATTTAATATTAAA
1 TATTAAAATAATATTAAA
98311 TATATAAAATAATATT
1 TAT-TAAAATAATATT
98327 TTTTGAATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
TATTAAAATAATATTAAA
Found at i:98492 original size:42 final size:42
Alignment explanation
Indices: 98440--98519 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
98430 TTACATTGAG
* ** * *
98440 AAAATCAATTACATTTATCAAACACTGAATAATATTTTCCGT
1 AAAACCAATTACAACTATCAAACACTAAAAAATATTTTCCGT
*
98482 AAAACCAATTACAACTATCAAACATTAAAAAATATTTT
1 AAAACCAATTACAACTATCAAACACTAAAAAATATTTT
98520 TCGAAAAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.33
Consensus pattern (42 bp):
AAAACCAATTACAACTATCAAACACTAAAAAATATTTTCCGT
Found at i:98590 original size:37 final size:37
Alignment explanation
Indices: 98524--98623 Score: 148
Period size: 37 Copynumber: 2.7 Consensus size: 37
98514 TATTTTTCGA
* *
98524 AAAATATTTTTAA-TTATCAAACATAAAAAAAATAAAG
1 AAAATATTTCTAAGTTATCAAACA-CAAAAAAATAAAG
*
98561 AAAATATTTCTCAGTTATCAAACACAAAAAAATAAAG
1 AAAATATTTCTAAGTTATCAAACACAAAAAAATAAAG
*
98598 AAAATACTTCTAAGTTATCAAACACA
1 AAAATATTTCTAAGTTATCAAACACA
98624 CCCTTAATTA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
37 47 0.82
38 10 0.18
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.27
Consensus pattern (37 bp):
AAAATATTTCTAAGTTATCAAACACAAAAAAATAAAG
Found at i:104432 original size:15 final size:16
Alignment explanation
Indices: 104412--104442 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
104402 GAGCAGTGCT
104412 CCAGTTTTAG-CTCTC
1 CCAGTTTTAGCCTCTC
104427 CCAGTTTTAGCCTCTC
1 CCAGTTTTAGCCTCTC
104443 TATTTATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.13, C:0.35, G:0.13, T:0.39
Consensus pattern (16 bp):
CCAGTTTTAGCCTCTC
Found at i:104914 original size:16 final size:16
Alignment explanation
Indices: 104893--104923 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
104883 GAACCTTAAG
104893 ACTACAAATTCTTCAT
1 ACTACAAATTCTTCAT
104909 ACTACAAATTCTTCA
1 ACTACAAATTCTTCA
104924 GACATTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.26, G:0.00, T:0.35
Consensus pattern (16 bp):
ACTACAAATTCTTCAT
Found at i:107577 original size:29 final size:29
Alignment explanation
Indices: 107535--107616 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
107525 AAACTAAATT
*
107535 GATGTCATTGCTTACATCATTTAAGTAAA
1 GATGTCATTGCTTACATCATTTAAATAAA
*
107564 GATGTCATTGCTTACATCATTTAAATAAT
1 GATGTCATTGCTTACATCATTTAAATAAA
*
107593 GATGTCATTACTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
107617 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAATAAA
Found at i:112332 original size:29 final size:29
Alignment explanation
Indices: 112290--112371 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
112280 AAACTAAATT
112290 GATGTCATTGCTTACATCATTTAAGTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
112319 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
112348 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
112372 GTTAGGTGAG
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 46 0.90
30 5 0.10
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:113338 original size:64 final size:63
Alignment explanation
Indices: 113253--113413 Score: 191
Period size: 64 Copynumber: 2.5 Consensus size: 63
113243 TTGTTTAAGG
* * * *
113253 TGCATCGATGCACATGCAGTGCATCGATGCAT-TAATTTAAAAAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCAA-TTAAAAA-AAAACATCGAATAGGATTTA
* * *
113317 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT-CCAATTAAAAAAAAACATCGAATAGGATTTA
*
113381 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
113414 ACCTCCATTA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
63 1 0.01
64 62 0.73
65 21 0.25
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAAAAAAAACATCGAATAGGATTTA
Found at i:114099 original size:103 final size:103
Alignment explanation
Indices: 113874--114091 Score: 436
Period size: 103 Copynumber: 2.1 Consensus size: 103
113864 GTAGAGGGTC
113874 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
113939 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
113977 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
114042 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
114080 TATGTGGTCCTT
1 TATGTGGTCCTT
114092 ATGGACATTA
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 115 1.00
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:114141 original size:23 final size:23
Alignment explanation
Indices: 114108--114170 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
114098 ATTATTATAT
114108 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
114131 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
114154 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
114171 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 35 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:115681 original size:19 final size:19
Alignment explanation
Indices: 115657--115702 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
115647 GCCTGATAGA
115657 TTCATGCAATGGGTTGCTT
1 TTCATGCAATGGGTTGCTT
115676 TTCATGCAATGGGTTGCTT
1 TTCATGCAATGGGTTGCTT
*
115695 TGCATGCA
1 TTCATGCA
115703 TGATCCATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.39
Consensus pattern (19 bp):
TTCATGCAATGGGTTGCTT
Found at i:120372 original size:21 final size:21
Alignment explanation
Indices: 120348--120459 Score: 90
Period size: 21 Copynumber: 5.4 Consensus size: 21
120338 GTTTCCAGAT
*
120348 TCGCAACGCGAATTTCGACTA
1 TCGCAATGCGAATTTCGACTA
* *
120369 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAATTTCGACTA
* *
120390 TCGCAATGCGAATAT-GTA-AA
1 TCGCAATGCGAATTTCG-ACTA
* *
120410 TCGCAATGCGAATAT-GTA-AA
1 TCGCAATGCGAATTTCG-ACTA
*
120430 TCGCAATGCG-ATAGTCGACTA
1 TCGCAATGCGAAT-TTCGACTA
120451 TCGCAATGC
1 TCGCAATGC
120460 AAACTTGCGA
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.03
20 34 0.43
21 43 0.54
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAATTTCGACTA
Found at i:120414 original size:20 final size:20
Alignment explanation
Indices: 120389--120440 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
120379 AACTTGGACT
120389 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
120409 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
120429 ATCGCAATGCGA
1 ATCGCAATGCGA
120441 TAGTCGACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:130183 original size:21 final size:21
Alignment explanation
Indices: 130158--130201 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
130148 AATCTAGTTA
130158 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
130179 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
130200 AT
1 AT
130202 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:130211 original size:28 final size:30
Alignment explanation
Indices: 130178--130240 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
130168 TAGTATAAAT
*
130178 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
130206 TATTAGTTTATTAGTTTAAGTTATATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
130236 TATTA
1 TATTA
130241 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (30 bp):
TATTAGTTTATTAGTTTAAGTTATATATTA
Found at i:131076 original size:26 final size:25
Alignment explanation
Indices: 131047--131105 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
131037 AAATCATATT
*
131047 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
131073 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
131099 ATTATTA
1 ATTATTA
131106 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:134011 original size:26 final size:25
Alignment explanation
Indices: 133982--134239 Score: 184
Period size: 26 Copynumber: 10.4 Consensus size: 25
133972 TTTGATGATT
133982 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTT-ATAATAATCATTA
134008 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTT-ATAATAATCATTA
*
134034 TAATAATGATTTAGTAATAATCATTA
1 TAGTAATGATTTA-TAATAATCATTA
** *
134060 TAAAAATGA-TT-TAATAATGATT-
1 TAGTAATGATTTATAATAATCATTA
* * *
134082 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTT-AT-A-ATAATCATTA
134106 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTT-ATAATAATCATTA
134132 TAGTAATGATTTAGTAATAATCATTA
1 TAGTAATGATTTA-TAATAATCATTA
** *
134158 TAAAAATGA-TT-TAATAATGATT-
1 TAGTAATGATTTATAATAATCATTA
* * *
134180 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTT-AT-A-ATAATCATTA
134204 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTT-ATAATAATCATTA
*
134230 TAATAATGAT
1 TAGTAATGAT
134240 AAATAATTTG
Statistics
Matches: 193, Mismatches: 19, Indels: 40
0.77 0.08 0.16
Matches are distributed among these distances:
19 2 0.01
20 10 0.05
22 6 0.03
23 22 0.11
24 18 0.09
25 18 0.09
26 105 0.54
27 12 0.06
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (25 bp):
TAGTAATGATTTATAATAATCATTA
Found at i:134110 original size:98 final size:98
Alignment explanation
Indices: 134008--134239 Score: 455
Period size: 98 Copynumber: 2.4 Consensus size: 98
133998 ATAATCATTA
134008 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
134073 ATAATGATTTAAATATTTAATGATTTGATGATT
66 ATAATGATTTAAATATTTAATGATTTGATGATT
*
134106 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
134171 ATAATGATTTAAATATTTAATGATTTGATGATT
66 ATAATGATTTAAATATTTAATGATTTGATGATT
134204 TAGTAATGATTTGATAATAATCATTATAATAATGAT
1 TAGTAATGATTTGATAATAATCATTATAATAATGAT
134240 AAATAATTTG
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 132 1.00
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.44
Consensus pattern (98 bp):
TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
ATAATGATTTAAATATTTAATGATTTGATGATT
Found at i:134150 original size:124 final size:124
Alignment explanation
Indices: 133927--134175 Score: 464
Period size: 124 Copynumber: 2.0 Consensus size: 124
133917 ATGTATTTAT
133927 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
* *
133992 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAAAAATGATTTAATAA
134051 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
134116 TTGATAATAATCATTATAGTAATGATTT-AGTAATAATCATTATAAAAATGATTTAATAA
66 TTGATAATAATCATTATAGTAATGATTTGA-TAATAATCATTATAAAAATGATTTAATAA
134175 T
1 T
134176 GATTTAAATA
Statistics
Matches: 122, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
123 1 0.01
124 121 0.99
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.43
Consensus pattern (124 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAAAAATGATTTAATAA
Found at i:136683 original size:46 final size:48
Alignment explanation
Indices: 136601--136692 Score: 136
Period size: 46 Copynumber: 2.0 Consensus size: 48
136591 CAACAAACAA
136601 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTT
1 ATATAACTTAACTATTTAACTAACACAAACTAATT-AATAATTTTTTTT
* *
136650 ATATAAC-TAACTA-TTAAC-AATACAAACTAATTAATTATTTTTT
1 ATATAACTTAACTATTTAACTAACACAAACTAATTAATAATTTTTT
136693 AACTATATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 10 0.24
46 13 0.32
47 5 0.12
48 6 0.15
49 7 0.17
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (48 bp):
ATATAACTTAACTATTTAACTAACACAAACTAATTAATAATTTTTTTT
Found at i:136703 original size:47 final size:48
Alignment explanation
Indices: 136601--136705 Score: 135
Period size: 47 Copynumber: 2.2 Consensus size: 48
136591 CAACAAACAA
*
136601 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTT
1 ATATAAC-TAACTATTTAACTAACACAAACTAATTAAATAATTTTTTCT
* *
136650 ATATAACTAACTA-TTAAC-AATACAAACTAATT-AATTATTTTTTAACT
1 ATATAACTAACTATTTAACTAACACAAACTAATTAAATAATTTTTT--CT
136697 ATATAACTA
1 ATATAACTA
136706 TCAAACATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
45 10 0.20
46 13 0.25
47 15 0.29
48 6 0.12
49 7 0.14
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (48 bp):
ATATAACTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTCT
Found at i:136730 original size:45 final size:42
Alignment explanation
Indices: 136617--136733 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 42
136607 CTTAACTATT
*
136617 TAACTA-ACACAA-ACTAATTAAATAATTTTTTTTATATAAC
1 TAACTATAAACAATACTAATTAAATAATTTTTTTTATATAAC
* * * *
136657 TAACTATTAACAATACAAACTAATTAATTATTTTTTA-ACTATA-
1 TAACTATAAACAATACTAATTAAATAATT-TTTTTTATA-TA-AC
136700 TAACTATCAAACATATACTAATTAAATAATTTTT
1 TAACTAT-AAACA-ATACTAATTAAATAATTTTT
136734 AATTATGTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
40 6 0.10
41 4 0.07
42 13 0.21
43 16 0.26
44 8 0.13
45 14 0.23
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (42 bp):
TAACTATAAACAATACTAATTAAATAATTTTTTTTATATAAC
Found at i:136925 original size:21 final size:21
Alignment explanation
Indices: 136895--136953 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
136885 CCCTTTCTTC
136895 TTCTTACTTTCCTTTCTCCCT
1 TTCTTACTTTCCTTTCTCCCT
*
136916 TTCTTCCTTTCCTTTCTCCCT
1 TTCTTACTTTCCTTTCTCCCT
*
136937 TTCTTTCTTT-CTTTCTC
1 TTCTTACTTTCCTTTCTC
136954 GGCTGCAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 7 0.19
21 29 0.81
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (21 bp):
TTCTTACTTTCCTTTCTCCCT
Found at i:136986 original size:23 final size:23
Alignment explanation
Indices: 136956--137001 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
136946 TCTTTCTCGG
136956 CTGCAATCTCTTCTCCCTTTCTT
1 CTGCAATCTCTTCTCCCTTTCTT
136979 CTGCAATCTCTTCTCCCTTTCTT
1 CTGCAATCTCTTCTCCCTTTCTT
137002 TCTTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.39, G:0.04, T:0.48
Consensus pattern (23 bp):
CTGCAATCTCTTCTCCCTTTCTT
Found at i:137114 original size:18 final size:18
Alignment explanation
Indices: 137091--137125 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
137081 GTACCAATAA
137091 TCAAATGGTTCACATGCC
1 TCAAATGGTTCACATGCC
137109 TCAAATGGTTCACATGC
1 TCAAATGGTTCACATGC
137126 ATGCATTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (18 bp):
TCAAATGGTTCACATGCC
Found at i:137177 original size:36 final size:37
Alignment explanation
Indices: 137130--137203 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
137120 ACATGCATGC
137130 ATTGGGAGGTGTAGGC-ATGCAGCGGGGAGCACGTGA
1 ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
137166 ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
1 ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
137203 A
1 A
137204 GGAATCTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 16 0.43
37 21 0.57
ACGTcount: A:0.24, C:0.14, G:0.46, T:0.16
Consensus pattern (37 bp):
ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
Found at i:137286 original size:29 final size:29
Alignment explanation
Indices: 137253--137361 Score: 184
Period size: 29 Copynumber: 3.8 Consensus size: 29
137243 GATGGAATGG
137253 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
137282 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
137311 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
* *
137340 CGCCTAGG-CTGCATGGCGACCT
1 CGCC-GGGACTACATGGCGACCT
137362 CTCTATTCCT
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
29 75 0.97
30 2 0.03
ACGTcount: A:0.22, C:0.32, G:0.31, T:0.15
Consensus pattern (29 bp):
CGCCGGGACTACATGGCGACCTACAAGGT
Found at i:137444 original size:28 final size:28
Alignment explanation
Indices: 137404--137569 Score: 188
Period size: 28 Copynumber: 5.6 Consensus size: 28
137394 TATGGCTCGT
137404 TGCATGCTCCCCATTGGCTCTCTATTCC
1 TGCATGCTCCCCATTGGCTCTCTATTCC
* *
137432 TGCATGCTCCCCATTGGCTCGTATATGGCTCGT
1 TGCATGCTCCCCATTGGCTC-TCTAT---TC-C
137465 TGCATGCTCCCCATTGGCTCTCTATTCC
1 TGCATGCTCCCCATTGGCTCTCTATTCC
* * * *
137493 TGCATGCTCCCCGTGGGCTCGTATATGGCTCGT
1 TGCATGCTCCCCATTGGCTC-TCTAT---TC-C
137526 TGCATGCTCCCCATTGGCTCTCTATTCC
1 TGCATGCTCCCCATTGGCTCTCTATTCC
137554 TGCATGCTCCCCATTG
1 TGCATGCTCCCCATTG
137570 CCTCGTTGCA
Statistics
Matches: 116, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
28 54 0.47
29 12 0.10
32 12 0.10
33 38 0.33
ACGTcount: A:0.11, C:0.36, G:0.20, T:0.34
Consensus pattern (28 bp):
TGCATGCTCCCCATTGGCTCTCTATTCC
Found at i:137543 original size:22 final size:22
Alignment explanation
Indices: 137518--137597 Score: 79
Period size: 22 Copynumber: 3.4 Consensus size: 22
137508 GGCTCGTATA
137518 TGGCTCGTTGCATGCTCCCCAT
1 TGGCTCGTTGCATGCTCCCCAT
*
137540 TGGCTCTCTATTCCTGCATGCTCCCCAT
1 TGG--CTC--GT--TGCATGCTCCCCAT
* *
137568 TGCCTCGTTGCATCCTCCCCAT
1 TGGCTCGTTGCATGCTCCCCAT
137590 TGGCTCGT
1 TGGCTCGT
137598 ATGACTCGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
22 23 0.49
24 4 0.09
26 4 0.09
28 16 0.34
ACGTcount: A:0.09, C:0.39, G:0.19, T:0.34
Consensus pattern (22 bp):
TGGCTCGTTGCATGCTCCCCAT
Found at i:137575 original size:61 final size:61
Alignment explanation
Indices: 137360--137575 Score: 371
Period size: 61 Copynumber: 3.5 Consensus size: 61
137350 GCATGGCGAC
**
137360 CTCTCTATTCCTGCATGGCTCGGCA-TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGG
1 CTCTCTATTCCTGCAT-GCTCCCCATTGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGG
137421 CTCTCTATTCCTGCATGCTCCCCATTGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGG
1 CTCTCTATTCCTGCATGCTCCCCATTGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGG
* *
137482 CTCTCTATTCCTGCATGCTCCCCGTGGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGG
1 CTCTCTATTCCTGCATGCTCCCCATTGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGG
*
137543 CTCTCTATTCCTGCATGCTCCCCATTGCCTCGT
1 CTCTCTATTCCTGCATGCTCCCCATTGGCTCGT
137576 TGCATCCTCC
Statistics
Matches: 147, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
60 6 0.04
61 141 0.96
ACGTcount: A:0.11, C:0.35, G:0.21, T:0.34
Consensus pattern (61 bp):
CTCTCTATTCCTGCATGCTCCCCATTGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGG
Found at i:137616 original size:11 final size:11
Alignment explanation
Indices: 137597--137630 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
137587 CATTGGCTCG
*
137597 TATGACTCGTA
1 TATGGCTCGTA
137608 TATGGCTCGTA
1 TATGGCTCGTA
137619 TATGGCTCGTA
1 TATGGCTCGTA
137630 T
1 T
137631 GTCACCCTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.38
Consensus pattern (11 bp):
TATGGCTCGTA
Found at i:137656 original size:12 final size:13
Alignment explanation
Indices: 137624--137658 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
137614 TCGTATATGG
137624 CTCGTATGTCACC
1 CTCGTATGTCACC
137637 CTCGTATGTCACC
1 CTCGTATGTCACC
137650 C-CGTATGTC
1 CTCGTATGTC
137659 GCCAGGATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.14, C:0.37, G:0.17, T:0.31
Consensus pattern (13 bp):
CTCGTATGTCACC
Found at i:140686 original size:14 final size:14
Alignment explanation
Indices: 140669--140712 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
140659 CTTTAACTTA
140669 AAACCCTAAACTCT
1 AAACCCTAAACTCT
* *
140683 AAACACTAAACTTT
1 AAACCCTAAACTCT
* *
140697 AAACCATAAAATCT
1 AAACCCTAAACTCT
140711 AA
1 AA
140713 CTTAGAGTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (14 bp):
AAACCCTAAACTCT
Found at i:141309 original size:2 final size:2
Alignment explanation
Indices: 141302--141400 Score: 180
Period size: 2 Copynumber: 49.5 Consensus size: 2
141292 CTCTTCCTTC
141302 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
141344 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
* *
141386 TA TA TT TA CA TA TA T
1 TA TA TA TA TA TA TA T
141401 TTCAATTGAT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 93 1.00
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:154122 original size:15 final size:15
Alignment explanation
Indices: 154102--154142 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
154092 TCCTCCACCA
154102 CCACCACCACCATCC
1 CCACCACCACCATCC
* *
154117 CCACCACCAGCATGC
1 CCACCACCACCATCC
*
154132 CCTCCACCACC
1 CCACCACCACC
154143 TGCACTACCG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.63, G:0.05, T:0.07
Consensus pattern (15 bp):
CCACCACCACCATCC
Found at i:174714 original size:23 final size:23
Alignment explanation
Indices: 174684--174731 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
174674 TATTCAACAC
* *
174684 GTCCACACCTCTACTCACATTTG
1 GTCCACACCGCTACTCACACTTG
*
174707 GTCCACACCGCTGCTCACACTTG
1 GTCCACACCGCTACTCACACTTG
174730 GT
1 GT
174732 ATGACATGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.19, C:0.40, G:0.15, T:0.27
Consensus pattern (23 bp):
GTCCACACCGCTACTCACACTTG
Found at i:175231 original size:61 final size:61
Alignment explanation
Indices: 175136--175257 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
175126 TAGAGTTCAA
175136 GGCTCTTAACCTTGGGGTCGTAGGATCGAGTCTCACGGTGGGCAATTCATAATTCGGAGGT
1 GGCTCTTAACCTTGGGGTCGTAGGATCGAGTCTCACGGTGGGCAATTCATAATTCGGAGGT
*
175197 GGCTCTTAACCTTGGGGTCGTGGGATCGAGTCTCACGGTGGGCAATTCATAATTCGGAGGT
1 GGCTCTTAACCTTGGGGTCGTAGGATCGAGTCTCACGGTGGGCAATTCATAATTCGGAGGT
175258 CTTCCACGGA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.19, C:0.20, G:0.34, T:0.28
Consensus pattern (61 bp):
GGCTCTTAACCTTGGGGTCGTAGGATCGAGTCTCACGGTGGGCAATTCATAATTCGGAGGT
Found at i:177299 original size:2 final size:2
Alignment explanation
Indices: 177294--177329 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
177284 ACCCAAAAAA
177294 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
177330 TCAGCTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:178730 original size:26 final size:27
Alignment explanation
Indices: 178701--178752 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
178691 ATACGTGTCT
178701 AAATA-AATAATAATATA-ATT-ATTATG
1 AAATATAAT-ATAA-ATACATTAATTATG
178727 AAATATAATATAAATACATTAATTAT
1 AAATATAATATAAATACATTAATTAT
178753 TAAGAATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 3 0.13
26 12 0.52
27 8 0.35
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (27 bp):
AAATATAATATAAATACATTAATTATG
Found at i:180479 original size:3 final size:3
Alignment explanation
Indices: 180471--180512 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
180461 CTGAACTAAA
180471 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
180513 TCGAATACCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:187204 original size:42 final size:42
Alignment explanation
Indices: 187157--187276 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
187147 TTTCCCCGAA
* *
187157 TTCCCGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
187199 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
*
187241 TTCCAGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
187277 TGTAATTCAT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:187512 original size:20 final size:20
Alignment explanation
Indices: 187487--187525 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
187477 ATATTTATTA
187487 ATATTTATAATAATATATAT
1 ATATTTATAATAATATATAT
* *
187507 ATATTTTTAATATTATATA
1 ATATTTATAATAATATATA
187526 AAATAATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATTTATAATAATATATAT
Found at i:187607 original size:22 final size:23
Alignment explanation
Indices: 187494--187609 Score: 69
Period size: 22 Copynumber: 4.7 Consensus size: 23
187484 TTAATATTTA
*
187494 TAATAATATATATATATTTTTAATAT
1 TAATAATATATA-ATAATTTT-AT-T
*
187520 TATATAA-A-ATAATCAATTATATT
1 TA-ATAATATATAAT-AATTTTATT
*
187543 ATAATAATATAAGATATTATATTTTATT
1 -TAATAATAT---ATAATA-ATTTTATT
187571 TAATAATATATAATAATTTT-TT
1 TAATAATATATAATAATTTTATT
*
187593 T-ATATATATTTAATAAT
1 TAATA-ATATATAATAAT
187610 GAATATATTA
Statistics
Matches: 74, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
21 3 0.04
22 14 0.19
23 10 0.14
24 12 0.16
25 7 0.09
26 3 0.04
27 14 0.19
28 11 0.15
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (23 bp):
TAATAATATATAATAATTTTATT
Found at i:187881 original size:20 final size:20
Alignment explanation
Indices: 187803--187872 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
187793 TTTCCAGATG
187803 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
187823 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
187843 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
187863 TTTTCCAGAA
1 TTTTCCAGAA
187873 TTCAAATTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:187881 original size:40 final size:40
Alignment explanation
Indices: 187803--187881 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
187793 TTTCCAGATG
* **
187803 TTTTCCAGAAATGTAATTCATTTTCCAGAAATGTAATTCA
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
*
187843 TTTTACAGAAATGTAATTCATTTTCCAGAATTCAAATTC
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTC
187882 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (40 bp):
TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
Found at i:187891 original size:15 final size:15
Alignment explanation
Indices: 187855--187936 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
187845 TTACAGAAAT
**
187855 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
187870 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
187884 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
*
187899 ATAATTCAAATTCCA
1 GTAATTCAAATTCCA
187914 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
187929 GTAATTCA
1 GTAATTCA
187937 TTTTCTGAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
14 12 0.21
15 46 0.79
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.38
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:187928 original size:45 final size:44
Alignment explanation
Indices: 187856--187941 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 44
187846 TACAGAAATG
**
187856 TAATTCATTTTCCAGAATTCAAATTCCAGTAATTCATTTTCCAA
1 TAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCAA
187900 TAATTCAAATTCCAGTAATTCAAATTCCAGTAATTCATTTTC
1 TAATTCAAATTCCAG-AATTCAAATTCCAGTAATTCATTTTC
187942 TGAAAAACCA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 13 0.33
45 26 0.67
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.41
Consensus pattern (44 bp):
TAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCAA
Found at i:188076 original size:5 final size:5
Alignment explanation
Indices: 188066--188092 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
188056 ATATTATTTT
188066 AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AA
188093 AGGTACTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:189719 original size:21 final size:21
Alignment explanation
Indices: 189675--189719 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
189665 GATTTCTGGG
* * *
189675 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
189696 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
189717 CAA
1 CAA
189720 ACGAACATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:190287 original size:2 final size:2
Alignment explanation
Indices: 190280--190305 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
190270 TGAATACATG
190280 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
190306 ATACATGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:190497 original size:31 final size:30
Alignment explanation
Indices: 190458--190523 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
190448 GTCGAGGGTT
**
190458 TTACCTATG-TCTTTCGAGACATATGGACAG
1 TTACCTATGTTCTAACGA-ACATATGGACAG
*
190488 TATACCTATGTTCTAAGGAACATATGGACAG
1 T-TACCTATGTTCTAACGAACATATGGACAG
190519 TTACC
1 TTACC
190524 GAGGATCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 5 0.16
31 21 0.68
32 5 0.16
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (30 bp):
TTACCTATGTTCTAACGAACATATGGACAG
Found at i:190548 original size:30 final size:30
Alignment explanation
Indices: 190512--190664 Score: 272
Period size: 30 Copynumber: 5.1 Consensus size: 30
190502 AAGGAACATA
190512 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
190542 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
190572 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
190602 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * *
190632 TGGATAGTTACCG-GGGTCTTTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
190661 TGGA
1 TGGA
190665 TAGGTCCTTC
Statistics
Matches: 120, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
29 18 0.15
30 102 0.85
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:191973 original size:4 final size:4
Alignment explanation
Indices: 191957--191988 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
191947 ATGTAAAACC
*
191957 ACAT ACAT GCAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
191989 GAATGCGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:194092 original size:20 final size:19
Alignment explanation
Indices: 194054--194092 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
194044 TCGTCAGAAA
* *
194054 AAAAAAGTTGAAACCAAAG
1 AAAAAAGTCGAAACAAAAG
194073 AAAAAAGTCGAACACAAAAG
1 AAAAAAGTCGAA-ACAAAAG
194093 GAAGATGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.64, C:0.13, G:0.15, T:0.08
Consensus pattern (19 bp):
AAAAAAGTCGAAACAAAAG
Found at i:197883 original size:2 final size:2
Alignment explanation
Indices: 197876--197932 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
197866 GAATCCTAAC
197876 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
197918 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
197933 CTAGGATGGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:198657 original size:15 final size:16
Alignment explanation
Indices: 198637--198671 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
198627 TGAAAGATCA
*
198637 TTTTGGTATTTATT-T
1 TTTTGGTATGTATTAT
198652 TTTTGGTATGTATTAT
1 TTTTGGTATGTATTAT
198668 TTTT
1 TTTT
198672 ACACGTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (16 bp):
TTTTGGTATGTATTAT
Found at i:200161 original size:2 final size:2
Alignment explanation
Indices: 200109--200151 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
200099 ATAATTTCAT
200109 TA TA -A 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
200150 TA
1 TA
200152 AAGGATATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:207397 original size:88 final size:90
Alignment explanation
Indices: 207298--207477 Score: 229
Period size: 92 Copynumber: 2.0 Consensus size: 90
207288 CAATTATTAA
* * * *
207298 AAGTTACAAAATGATTATTTGATTATTTAGTACATTCT-AA-CATTAAAAGAAATTAAAGATCAT
1 AAGTTACAAAATAATCACTTGATTATTTAGTACATTCTAAATCATTAAAAAAAATTAAAGATCAT
*
207361 CTGAGTTGAATGTCAATATGTTTAT
66 CTAAGTTGAATGTCAATATGTTTAT
* ** * *
207386 AAGTTATAAAATAATCACTTGATTATTTAGTATGTTCTAAATTTTATTAAAAAAAATTAATGATC
1 AAGTTACAAAATAATCACTTGATTATTTAGTACATTCTAAA--TCATTAAAAAAAATTAAAGATC
*
207451 ATCTAAGTTGAATGTTAATATGTTTAT
64 ATCTAAGTTGAATGTCAATATGTTTAT
207478 TGAGATGTGA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
88 32 0.42
89 2 0.03
92 43 0.56
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (90 bp):
AAGTTACAAAATAATCACTTGATTATTTAGTACATTCTAAATCATTAAAAAAAATTAAAGATCAT
CTAAGTTGAATGTCAATATGTTTAT
Found at i:208273 original size:16 final size:18
Alignment explanation
Indices: 208237--208274 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
208227 ATTATTTATT
208237 TTTGAATTAATATGCTAAA
1 TTTGAATTAATAT-CTAAA
208256 TTTG-ATTAATAT-TAAA
1 TTTGAATTAATATCTAAA
208272 TTT
1 TTT
208275 TATAGATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
18 8 0.42
19 4 0.21
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (18 bp):
TTTGAATTAATATCTAAA
Done.