Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005075.1 Hibiscus syriacus cultivar Beakdansim tig00011397_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: 69362
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:7938 original size:3 final size:3
Alignment explanation
Indices: 7891--7923 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
7881 GGGTTAAAAA
*
7891 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7924 GATATTGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 1 0.04
3 26 0.96
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:13213 original size:22 final size:22
Alignment explanation
Indices: 13187--13236 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
13177 TCTACATTTC
*
13187 ATTTTAATTTAAAAAGACTCCT
1 ATTTTAAGTTAAAAAGACTCCT
* *
13209 ATTTTAGGTTAAAAAGACTCTT
1 ATTTTAAGTTAAAAAGACTCCT
13231 ATTTTA
1 ATTTTA
13237 TAGTATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (22 bp):
ATTTTAAGTTAAAAAGACTCCT
Found at i:14169 original size:54 final size:54
Alignment explanation
Indices: 14077--14184 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
14067 GAGATCCCAT
* *
14077 GCCATTTTAGTCATATCATCTATCACTTTGATCCCTTTGTGAAATATATATGTG
1 GCCAGTTTAGTCATATCATCTATCACTTTGATCACTTTGTGAAATATATATGTG
*
14131 GCCAGTTTGGTCATATCATCTATCACTTTGATCACTTTGTGAAATATATATGTG
1 GCCAGTTTAGTCATATCATCTATCACTTTGATCACTTTGTGAAATATATATGTG
14185 AGGATTATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.42
Consensus pattern (54 bp):
GCCAGTTTAGTCATATCATCTATCACTTTGATCACTTTGTGAAATATATATGTG
Found at i:15098 original size:25 final size:24
Alignment explanation
Indices: 15039--15098 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
15029 TTATTTAATT
*
15039 TATTTTTAATATAATATAATATAA
1 TATTTTTAATTTAATATAATATAA
*
15063 TATTTTT-ATTTAATATTAACTTTAA
1 TATTTTTAATTTAATA-TAA-TATAA
15088 T-TTTTTAATTT
1 TATTTTTAATTT
15099 TTATTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 7 0.23
24 15 0.48
25 9 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TATTTTTAATTTAATATAATATAA
Found at i:16575 original size:182 final size:182
Alignment explanation
Indices: 16368--17742 Score: 2177
Period size: 182 Copynumber: 7.6 Consensus size: 182
16358 TACAAATGAA
* * * * * *
16368 AAATGTATCGATCCATAGCAATATAACATGTAAAAATATGATAAAACCGGTGTC-ATTATGATAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGA-AATGATAA
** *
16432 AACCGGTAAACCGCTACCGGATATATTGAAAGTGTTGATAAATTAATATAAGTATCGACACTTTT
65 AACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTT
*
16497 GTAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATAC
130 GTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* * *
16550 AAATGTATTGATCCATAGCAATATAACAGGTAATAATATGACAAAATC-GGTGTC-ATTATGATA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAA-CAGGTCTCGA-AATGATA
** *
16613 AAACCGGTAAACCGCTATCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTT
64 AAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTT
16678 TGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
129 TGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
*
16732 AAATGTATCAATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
* *
16797 ACCGGTAAAAAACTATCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
16862 -ATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
131 TA-ATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* *
16914 AAATGTATCGATCCATATCAATATAACAGGTAATAATATGACAAAACAAGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
* *
16979 ACCAGTAAAAAGATACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
*
17044 TAATTTAAAATAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
131 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
17096 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
* *
17161 ATCGGTAAAAAGATACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
*
17226 TAATTTAAAAGAGAAGAAGTTATAGAGCCTAAAAAGTGTCGATACTTTATAC
131 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
*
17278 AAATATATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
* * * *
17343 ACTGGTAAAAAGCTACCAGATATATTGAAAGTGTCGATAAATTAATATAATTATCGACTCTTTT-
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
*
17407 TATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATATTTTATAC
131 TA-ATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* *
17460 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACATAACAAGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
* * **
17525 ATCGGTAAAAAGCTACCGAATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTCA
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
* *
17590 TAATTTAAAAGAGAAGAAATTATAGCGCCTAAAAAGTATCGATACTTTATGA-
131 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTAT-AC
* * * * * *
17642 AAATGTATCGATCCATAACAATATAATAGGTAAAAATATGACAAAACCGGTATCGAAATGACAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
* ** * * *
17707 ACCGATAAAGCGCTACCAGTTATGTTGAAAGTGTCG
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCG
17743 GTACTTTAAT
Statistics
Matches: 1119, Mismatches: 66, Indels: 16
0.93 0.05 0.01
Matches are distributed among these distances:
181 4 0.00
182 1109 0.99
183 6 0.01
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (182 bp):
AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
Found at i:19892 original size:9 final size:9
Alignment explanation
Indices: 19880--19913 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
19870 TCAAGGACGT
19880 AGAGGAGGC
1 AGAGGAGGC
*
19889 AGAGAAGGC
1 AGAGGAGGC
19898 AGAGGAGGC
1 AGAGGAGGC
19907 AGAGGAG
1 AGAGGAG
19914 AGGGAAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.38, C:0.09, G:0.53, T:0.00
Consensus pattern (9 bp):
AGAGGAGGC
Found at i:20348 original size:18 final size:18
Alignment explanation
Indices: 20325--20359 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
20315 GAGAAAATTT
20325 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
20343 GAAGAAGAAAAGATGGA
1 GAAGAAGAAAAGATGGA
20360 AGAAATGAGG
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:0.57, C:0.00, G:0.37, T:0.06
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:20360 original size:15 final size:16
Alignment explanation
Indices: 20325--20363 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
20315 GAGAAAATTT
20325 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGAT-G-G
20343 GAAGAAGAAAAGAT-G
1 GAAGAAGAAAAGATGG
20358 GAAGAA
1 GAAGAA
20364 ATGAGGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.33
18 14 0.67
ACGTcount: A:0.59, C:0.00, G:0.36, T:0.05
Consensus pattern (16 bp):
GAAGAAGAAAAGATGG
Found at i:20687 original size:17 final size:17
Alignment explanation
Indices: 20665--20700 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
20655 TTTAAATATT
20665 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
20682 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
20699 TC
1 TC
20701 CTAATGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (17 bp):
TCATGAAAAGATATTAA
Found at i:24671 original size:198 final size:198
Alignment explanation
Indices: 24164--24680 Score: 539
Period size: 198 Copynumber: 2.6 Consensus size: 198
24154 TTTTGTGTAA
* *
24164 ATACATTTATAACAAGTATCGATCC-C-AAA-ATCAAAGAGACCGATAATTATAATGTAATAGGT
1 ATACATTTATAAAAAGTATCGATCCTCGAAACATC-AA-A-ACCGATAATCATAATGTAATAGGT
* * * *
24226 AAATTTCCAATGTAACC-GATAGAAATATACCGGGTTCATGAGAGAATAGGTCAACATAAAATAT
63 AAATTTACAATGTAACCGGTTA-AAATATACC-GGTTAATGAGAAAATAGGTCAACATAAAATAT
* * * * * * * * *
24290 GGACACTTTTTTAATTTGTGTCGATACATTTTTCCAAAATGAATGGCAACCGATATGTACGTATA
126 CGACACTATTTAAATATGTGTCGATACATTTTTCCAAAATGAAAGACAAACGATATGCACGCATA
24355 AAGTGTCG
191 AAGTGTCG
* * * *
24363 ATACATTTATAAAAAGTATCGATCCTCGAAACATCAAAATCGATAATTATTATGTAACAGGTAAA
1 ATACATTTATAAAAAGTATCGATCCTCGAAACATCAAAACCGATAATCATAATGTAATAGGTAAA
* * * * * **
24428 TTTACAATGTAACTGGTTAAAATATACCGGTTAATTAGCAAATAGGTCTACATTATGTATCGACA
66 TTTACAATGTAACCGGTTAAAATATACCGGTTAATGAGAAAATAGGTCAACATAAAATATCGACA
*
24493 CTATTTAAATATGTGTCGATACTTTTTTCCAAAAT-AAAGCACAAACGAGT-TGCACGCATAAAG
131 CTATTTAAATATGTGTCGATACATTTTTCCAAAATGAAAG-ACAAACGA-TATGCACGCATAAAG
*
24556 TGTTG
194 TGTCG
** * * *
24561 ATACATTTA-AAATTGTATCGATCC-CGAAAATATCGAAACCGAT-ATACATAATGTAATAGGTC
1 ATACATTTATAAAAAGTATCGATCCTCG-AAACATCAAAACCGATAAT-CATAATGTAATAGGTA
* * * * *
24623 AATTTATAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCAATATAA
64 AATTTACAATGTAACCGGTTAAAATATACCGG-TTAATGAGAAAATAGGTCAACATAA
24681 GTGCTACCTA
Statistics
Matches: 264, Mismatches: 45, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
196 4 0.02
197 69 0.26
198 108 0.41
199 70 0.27
200 5 0.02
201 5 0.02
202 3 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (198 bp):
ATACATTTATAAAAAGTATCGATCCTCGAAACATCAAAACCGATAATCATAATGTAATAGGTAAA
TTTACAATGTAACCGGTTAAAATATACCGGTTAATGAGAAAATAGGTCAACATAAAATATCGACA
CTATTTAAATATGTGTCGATACATTTTTCCAAAATGAAAGACAAACGATATGCACGCATAAAGTG
TCG
Found at i:24745 original size:23 final size:23
Alignment explanation
Indices: 24675--24736 Score: 115
Period size: 23 Copynumber: 2.7 Consensus size: 23
24665 AAATAGGTCA
*
24675 ATATAAGTGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
24698 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
24721 ATATAAGCGCTACCTA
1 ATATAAGCGCTACCTA
24737 ATTTATTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:24844 original size:85 final size:87
Alignment explanation
Indices: 24695--24858 Score: 278
Period size: 85 Copynumber: 1.9 Consensus size: 87
24685 TACCTATTAC
* *
24695 ATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATTTATTATTGTACTTGATAATA
1 ATTATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATA
24760 TTTCCGGTTAAATGCCTATTTT
66 TTTCCGGTTAAATGCCTATTTT
* *
24782 ATTATATAAGCGCTACATATTACA-T-TATAAGCGCTACCTAATATGTTATTGTGCTTGATAATA
1 ATTATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATA
24845 TTTCCGGTTAAATG
66 TTTCCGGTTAAATG
24859 ATATAATATA
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
85 49 0.67
86 1 0.01
87 23 0.32
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (87 bp):
ATTATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATA
TTTCCGGTTAAATGCCTATTTT
Found at i:27151 original size:23 final size:24
Alignment explanation
Indices: 27114--27160 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
27104 ACAAAATACC
27114 TCAAAACTCATAAAAC-CATAATTT
1 TCAAAACTCATAAAACAC-TAATTT
*
27138 TCAAATCTC-TAAAACACTAATTT
1 TCAAAACTCATAAAACACTAATTT
27161 CCTACCTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (24 bp):
TCAAAACTCATAAAACACTAATTT
Found at i:28483 original size:22 final size:20
Alignment explanation
Indices: 28455--28508 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
28445 CTATTTTGTT
28455 TTATTTTAATTTAG-TCACTG
1 TTATTTTAATTTAGCT-ACTG
*
28475 TTAGTTTTTGATTTAGCTACTG
1 TTA--TTTTAATTTAGCTACTG
28497 TTATTTTAATTT
1 TTATTTTAATTT
28509 TTTAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 11 0.38
22 17 0.59
23 1 0.03
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (20 bp):
TTATTTTAATTTAGCTACTG
Found at i:30502 original size:83 final size:83
Alignment explanation
Indices: 30392--30558 Score: 334
Period size: 83 Copynumber: 2.0 Consensus size: 83
30382 CAACCACATG
30392 TAAAGAATTTAGTAGACCTACCCGCTAGAGCCATGTGGATAACCTAGGAGAACTAGAACACATGC
1 TAAAGAATTTAGTAGACCTACCCGCTAGAGCCATGTGGATAACCTAGGAGAACTAGAACACATGC
30457 AGTTAGGACTGTCAATTT
66 AGTTAGGACTGTCAATTT
30475 TAAAGAATTTAGTAGACCTACCCGCTAGAGCCATGTGGATAACCTAGGAGAACTAGAACACATGC
1 TAAAGAATTTAGTAGACCTACCCGCTAGAGCCATGTGGATAACCTAGGAGAACTAGAACACATGC
30540 AGTTAGGACTGTCAATTT
66 AGTTAGGACTGTCAATTT
30558 T
1 T
30559 CTTTGAATGC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (83 bp):
TAAAGAATTTAGTAGACCTACCCGCTAGAGCCATGTGGATAACCTAGGAGAACTAGAACACATGC
AGTTAGGACTGTCAATTT
Found at i:31136 original size:149 final size:149
Alignment explanation
Indices: 30862--31154 Score: 401
Period size: 149 Copynumber: 2.0 Consensus size: 149
30852 CGTCAATGGA
* **
30862 GAGTCTATCTACCAAGGAGACGAGCCAATCATCTTCCTGCTGAGGTAACAAGTTGGACTCGAGAC
1 GAGTCTACCTACCAAGGAGACGAGCCAATCATCTGACTGCTGAGGTAACAAGTTGGACTCGAGAC
* * * **
30927 GATTCGATGCTGAAGCTAACAGTTGAAGATCACGAATCAACTTAAAAGATTTCTGGAAGTAGGAG
66 GATTCGATGCTGAAGCCAACAGTTGAAGATCACGAACCAACTCAAAAGATTTCTAAAAGTAGGAG
30992 ATGAAGTAGAAGCTAGAGG
131 ATGAAGTAGAAGCTAGAGG
* * * *
31011 GAGTCTACCTACCAAGGAGACGAGCTAGA-CATCTGATTG-TCGAGGTAACAAGTTGGTCTTGAG
1 GAGTCTACCTACCAAGGAGACGAGCCA-ATCATCTGACTGCT-GAGGTAACAAGTTGGACTCGAG
* * * * *
31074 ACGATTTGATGTTGAAGCCAATAGTTGAAGATCACGAACCAGCTCGAAAGATTTCTAAAAGTAGG
64 ACGATTCGATGCTGAAGCCAACAGTTGAAGATCACGAACCAACTCAAAAGATTTCTAAAAGTAGG
31139 AGATGAAGTAGAAGCT
129 AGATGAAGTAGAAGCT
31155 TTGAAGACAA
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
148 1 0.01
149 123 0.98
150 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (149 bp):
GAGTCTACCTACCAAGGAGACGAGCCAATCATCTGACTGCTGAGGTAACAAGTTGGACTCGAGAC
GATTCGATGCTGAAGCCAACAGTTGAAGATCACGAACCAACTCAAAAGATTTCTAAAAGTAGGAG
ATGAAGTAGAAGCTAGAGG
Found at i:32701 original size:16 final size:16
Alignment explanation
Indices: 32660--32762 Score: 59
Period size: 18 Copynumber: 5.9 Consensus size: 16
32650 TTGACAACAC
32660 ATAAAAAAAAGAAGAGA
1 ATAAAAAAAAGAA-AGA
32677 TATAGAAAAAAAGAAAGA
1 -ATA-AAAAAAAGAAAGA
32695 ATAAAAAGAACAAGAAAAGA
1 AT-AAAA-AA-AAG-AAAGA
32715 A-AAAAAGGAAA-AAAGA
1 ATAAAAA--AAAGAAAGA
32731 A-AAAAAGGGAAAGAAAGA
1 ATAAAAA---AAAGAAAGA
**
32749 AGGAAAAAAAGAAA
1 ATAAAAAAAAGAAA
32763 AAGAAGAAGA
Statistics
Matches: 74, Mismatches: 1, Indels: 22
0.76 0.01 0.23
Matches are distributed among these distances:
16 18 0.24
17 11 0.15
18 21 0.28
19 18 0.24
20 6 0.08
ACGTcount: A:0.76, C:0.01, G:0.19, T:0.04
Consensus pattern (16 bp):
ATAAAAAAAAGAAAGA
Found at i:32704 original size:9 final size:8
Alignment explanation
Indices: 32680--32793 Score: 74
Period size: 8 Copynumber: 13.9 Consensus size: 8
32670 GAAGAGATAT
32680 AGAAAAAA
1 AGAAAAAA
*
32688 AGAAAGAAT
1 AGAAA-AAA
*
32697 A-AAAAGA
1 AGAAAAAA
* *
32704 ACAAGAAA
1 AGAAAAAA
32712 AGAAAAAA
1 AGAAAAAA
*
32720 AGGAAAAA
1 AGAAAAAA
32728 AGAAAAAA
1 AGAAAAAA
*
32736 AGGGAAAGAA
1 A--GAAAAAA
32746 AGAAGGAAAA
1 AGAA--AAAA
32756 A-AAGAAAA
1 AGAA-AAAA
*
32764 AG--AAGA
1 AGAAAAAA
32770 AGAAAAAA
1 AGAAAAAA
32778 AGCAAAAAA
1 AG-AAAAAA
32787 AGAAAAA
1 AGAAAAA
32794 TGTGAAAGAA
Statistics
Matches: 83, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
6 5 0.06
7 2 0.02
8 52 0.63
9 13 0.16
10 11 0.13
ACGTcount: A:0.78, C:0.02, G:0.19, T:0.01
Consensus pattern (8 bp):
AGAAAAAA
Found at i:32709 original size:15 final size:12
Alignment explanation
Indices: 32680--32779 Score: 71
Period size: 12 Copynumber: 7.8 Consensus size: 12
32670 GAAGAGATAT
32680 AGAAAAAAAGAA
1 AGAAAAAAAGAA
32692 AGAATAAAAAGAACA
1 AGAA-AAAAAG-A-A
*
32707 AGAAAAGAAAAAA
1 AGAAAA-AAAGAA
*
32720 AGGAAAAAAGAA
1 AGAAAAAAAGAA
32732 A-AAAAGGGAAAGAA
1 AGAAAA---AAAGAA
*
32746 AGAAGGAAAA-AA
1 AGAA-AAAAAGAA
32758 AGAAAAAGAAG-A
1 AGAAAAA-AAGAA
32770 AGAAAAAAAG
1 AGAAAAAAAG
32780 CAAAAAAAGA
Statistics
Matches: 71, Mismatches: 6, Indels: 23
0.71 0.06 0.23
Matches are distributed among these distances:
11 8 0.11
12 26 0.37
13 15 0.21
14 11 0.15
15 10 0.14
16 1 0.01
ACGTcount: A:0.77, C:0.01, G:0.21, T:0.01
Consensus pattern (12 bp):
AGAAAAAAAGAA
Found at i:32711 original size:27 final size:27
Alignment explanation
Indices: 32680--32790 Score: 98
Period size: 28 Copynumber: 3.9 Consensus size: 27
32670 GAAGAGATAT
*
32680 AGAAAA-AAAGAAAGAATAAAAAGAACA
1 AGAAAAGAAAAAAAGAA-AAAAAGAACA
* *
32707 AGAAAAGAAAAAAAGGAAAAAAGAAAAAA
1 AGAAAAGAAAAAAA-GAAAAAA-AGAACA
* * * *
32736 AGGGAAAGAAAGAAGGAAAAAAAGAAAA
1 A-GAAAAGAAAAAAAGAAAAAAAGAACA
32764 AGAAGAAGAAAAAAAGCAAAAAAAGAA
1 AGAA-AAGAAAAAAAG-AAAAAAAGAA
32791 AAATGTGAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
27 8 0.12
28 25 0.37
29 25 0.37
30 10 0.15
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.01
Consensus pattern (27 bp):
AGAAAAGAAAAAAAGAAAAAAAGAACA
Found at i:32743 original size:22 final size:22
Alignment explanation
Indices: 32722--32779 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
32712 AGAAAAAAAG
32722 GAAA-AAAGAAAAAAAGGGAAA
1 GAAAGAAAGAAAAAAAGGGAAA
* **
32743 GAAAGAAGGAAAAAAAGAAAAA
1 GAAAGAAAGAAAAAAAGGGAAA
32765 G-AAG-AAGAAAAAAAG
1 GAAAGAAAGAAAAAAAG
32780 CAAAAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 10 0.31
21 7 0.22
22 15 0.47
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (22 bp):
GAAAGAAAGAAAAAAAGGGAAA
Found at i:32773 original size:58 final size:56
Alignment explanation
Indices: 32681--32815 Score: 164
Period size: 58 Copynumber: 2.3 Consensus size: 56
32671 AAGAGATATA
* * * *
32681 GAAAAAAAGAAAGAATAAAAAGAACAAGAAAAGAAAAAAAG-GAAAAAAGAAAAAAAGG
1 GAAAGAAAG-AAGAAAAAAA-GAAAAAGAAAAGAAAAAAAGCAAAAAAAG-AAAAAAGG
* *
32739 GAAAGAAAGAAGGAAAAAAAGAAAAAGAAGAAGAAAAAAAGCAAAAAAAGAAAAATGT
1 GAAAGAAAGAA-GAAAAAAAGAAAAAGAA-AAGAAAAAAAGCAAAAAAAGAAAAAAGG
32797 GAAAGAAAGAAGAAAAAAA
1 GAAAGAAAGAAGAAAAAAA
32816 CAGATCCAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
57 18 0.26
58 43 0.63
59 7 0.10
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.02
Consensus pattern (56 bp):
GAAAGAAAGAAGAAAAAAAGAAAAAGAAAAGAAAAAAAGCAAAAAAAGAAAAAAGG
Found at i:32792 original size:37 final size:38
Alignment explanation
Indices: 32684--32815 Score: 105
Period size: 36 Copynumber: 3.5 Consensus size: 38
32674 AGATATAGAA
* *
32684 AAAAAGAAAGAATAAAAAGAA-CAAGAAAAGAAAAAAAGG
1 AAAAAGAAAGAAGAAAAA-AAGCAAAAAAAGAAAAAAA-G
** * *
32723 AAAAAAGAAA-AA-AAGGGAAAG-AAAGAAGGAAAAAAAG
1 -AAAAAGAAAGAAGAA-AAAAAGCAAAAAAAGAAAAAAAG
*
32760 AAAAAG-AAGAAGAAAAAAAGCAAAAAAAG-AAAAATG
1 AAAAAGAAAGAAGAAAAAAAGCAAAAAAAGAAAAAAAG
**
32796 TGAAAGAAAGAAGAAAAAAA
1 AAAAAGAAAGAAGAAAAAAA
32816 CAGATCCAAT
Statistics
Matches: 74, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
35 2 0.03
36 22 0.30
37 22 0.30
38 16 0.22
39 3 0.04
40 9 0.12
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.02
Consensus pattern (38 bp):
AAAAAGAAAGAAGAAAAAAAGCAAAAAAAGAAAAAAAG
Found at i:32813 original size:29 final size:27
Alignment explanation
Indices: 32681--32815 Score: 101
Period size: 29 Copynumber: 4.7 Consensus size: 27
32671 AAGAGATATA
* * *
32681 GAAAAAAAGAAAGAATAAAAAGAACAAG
1 GAAAGAAAG-AAGAAAAAAAAGAAAAAG
* *
32709 AAAAGAAAAAAAGGAAAAAAGAA-AAAAAGG
1 GAAAG-AAAGAA-GAAAAAA-AAGAAAAA-G
*
32739 GAAAGAAAGAAGGAAAAAAAGAAAAAG
1 GAAAGAAAGAAGAAAAAAAAGAAAAAG
* * *
32766 AAGAAGAAAAAAAGCAAAAAAAGAAAAATG
1 GA-AAG-AAAGAAGAAAAAAAAGAAAAA-G
32796 TGAAAGAAAGAAGAAAAAAA
1 -GAAAGAAAGAAGAAAAAAA
32816 CAGATCCAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
27 4 0.05
28 19 0.23
29 49 0.58
30 11 0.13
31 1 0.01
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.02
Consensus pattern (27 bp):
GAAAGAAAGAAGAAAAAAAAGAAAAAG
Found at i:33480 original size:28 final size:28
Alignment explanation
Indices: 33440--33493 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
33430 TGCAAGAAGA
*
33440 TAACCTGAAACACATTATCTGCCCAAAT
1 TAACCTGAAACACATTACCTGCCCAAAT
* *
33468 TAACTTGAAACACATTACCTTCCCAA
1 TAACCTGAAACACATTACCTGCCCAA
33494 GGCATCCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.39, C:0.30, G:0.06, T:0.26
Consensus pattern (28 bp):
TAACCTGAAACACATTACCTGCCCAAAT
Found at i:34371 original size:76 final size:76
Alignment explanation
Indices: 34156--34423 Score: 337
Period size: 75 Copynumber: 3.5 Consensus size: 76
34146 ATCTCACTTG
* * *
34156 AGATTGTCTTTCTTTAAAACCAGATTTGTCTCGCTTGAGACAATTTTTATTCGAAAGAAGAAATT
1 AGATTGTTTTTC-TTAAAACCAGATTTGTCTCGCTTGAGACAATTTTTAATCGAAAGAAGACATT
34221 TCATTTCACTCA
65 TCATTTCACTCA
* * *
34233 AGATAT-TTTTTCTTAAAA-TAGATTTGTCTCGCTTGAGACAGTTTTTAATCGAAAGAATACATT
1 AGAT-TGTTTTTCTTAAAACCAGATTTGTCTCGCTTGAGACAATTTTTAATCGAAAGAAGACATT
34296 TCATTTCACTCA
65 TCATTTCACTCA
* * * *
34308 AGATTGTTTTTCTTAAAA-CATACTTTGTCTCGCTTGAGACAATTTTTACTCAAAACAAGACATT
1 AGATTGTTTTTCTTAAAACCAGA-TTTGTCTCGCTTGAGACAATTTTTAATCGAAAGAAGACATT
34372 TCATTTCACT-A
65 TCATTTCACTCA
* * * *
34383 TAAATTATTTTTCTTAAAACCATATTTTATCTCGCTTGAGA
1 -AGATTGTTTTTCTTAAAACCAGA-TTTGTCTCGCTTGAGA
34424 TAGTTTCACT
Statistics
Matches: 169, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
74 1 0.01
75 71 0.42
76 68 0.40
77 28 0.17
78 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (76 bp):
AGATTGTTTTTCTTAAAACCAGATTTGTCTCGCTTGAGACAATTTTTAATCGAAAGAAGACATTT
CATTTCACTCA
Found at i:34440 original size:76 final size:75
Alignment explanation
Indices: 34164--34440 Score: 292
Period size: 76 Copynumber: 3.6 Consensus size: 75
34154 TGAGATTGTC
* * * *
34164 TTTCTTTAAAACCAGATTTGTCTCGCTTGAGACAATTTTTATTCGAAAGAAGAAATTTCATTTCA
1 TTTC-TTAAAA-CAGATTTGTCTCGCTTGAGACAAGTTTTACTCGAAACAAGACATTTCATTTCA
34229 CTCAAGA-TATTT
64 CTCAAGATTA-TT
* * * *
34241 TTTCTTAAAATAGATTTGTCTCGCTTGAGAC-AGTTTTTAATCGAAAGAATACATTTCATTTCAC
1 TTTCTTAAAACAGATTTGTCTCGCTTGAGACAAG-TTTTACTCGAAACAAGACATTTCATTTCAC
*
34305 TCAAGATTGTT
65 TCAAGATTATT
* * *
34316 TTTCTTAAAACATACTTTGTCTCGCTTGAGACAATTTTTACTCAAAACAAGACATTTCATTTCAC
1 TTTCTTAAAACAGA-TTTGTCTCGCTTGAGACAAGTTTTACTCGAAACAAGACATTTCATTTCAC
*
34381 T-ATAAATTATT
65 TCA-AGATTATT
* * * * *
34392 TTTCTTAAAACCATATTTTATCTCGCTTGAGA-TAGTTTCACTTGAAACA
1 TTTCTTAAAA-CAGA-TTTGTCTCGCTTGAGACAAGTTTTACTCGAAACA
34441 GAATATTTTG
Statistics
Matches: 172, Mismatches: 22, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
74 1 0.01
75 68 0.40
76 79 0.46
77 24 0.14
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (75 bp):
TTTCTTAAAACAGATTTGTCTCGCTTGAGACAAGTTTTACTCGAAACAAGACATTTCATTTCACT
CAAGATTATT
Found at i:34464 original size:39 final size:39
Alignment explanation
Indices: 34406--34978 Score: 634
Period size: 39 Copynumber: 14.6 Consensus size: 39
34396 TTAAAACCAT
* *
34406 ATTTTATCTCGCTTGAGATAGTTTCACTTGAAACAGAAT
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * * * *
34445 ATTTTGTCTAGCTTCAGATAGTTTCCCTCAAAACAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * *
34484 ATTTTATCTTGCTTGAGATAGTTTCCCTCGAAATAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * * * *
34523 ATTTTATCTTGCCTAAGATAGTTTCCCTCAAAACAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
*
34562 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* *
34601 ATTTTATCTCGCTTGAGATAGTTTCCCTCG-AACATAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * * *
34639 ATTTTGTCTTGCTTGAGATAATTTCCCTCGAAACAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * * *
34678 ATTTTGTCTTGCTTGAGATAATTTCCCTCGATTCCCTCAAACAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCG--------AAACAGAAG
* * *
34725 ATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAGATG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * *
34764 ATTTTATCTCGCTTGGGATAGTTTCACT-AAAACAAAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * *
34802 ATTTTTTCTCTCTTGAGATAGTTTCACTTGAAACAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* *
34841 ATTTTATTTTGCTTGAGATAGTTTCACTCGAAACAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * *
34880 ATTTTATCTCACTTGAGATAGTTTCACTCTAAACAAAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * *
34919 ATTTTTTCTCGCTTGAGATAGTTTCA--CAAAACAAAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* *
34956 A-TTTATCTCACTTGAGATTGTTT
1 ATTTTATCTCGCTTGAGATAGTTT
34979 TTATTAAAAC
Statistics
Matches: 469, Mismatches: 55, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
36 19 0.04
37 11 0.02
38 66 0.14
39 336 0.72
47 37 0.08
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (39 bp):
ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
Found at i:34731 original size:47 final size:48
Alignment explanation
Indices: 34661--34755 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 48
34651 TTGAGATAAT
*
34661 TTCCCTCGAAACAGAAGATTTTGTCTTGCTTGAGATAATTTCCCTCGA
1 TTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAATTTCCCTCGA
*
34709 TTCCCTC-AAACAGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGA
1 TTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAATTTCCCTCGA
34756 AACAGATGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 38 0.84
48 7 0.16
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (48 bp):
TTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAATTTCCCTCGA
Found at i:35128 original size:60 final size:60
Alignment explanation
Indices: 34997--35138 Score: 180
Period size: 60 Copynumber: 2.4 Consensus size: 60
34987 ACAAACCACA
* *
34997 CCTCACTTGAGGGATCAACA-TTTACTTTGCTCGGTTCACAACACTTCGAATCAGCAACG
1 CCTCACTCGAGGGATCAACATTTTACTTTGCTCGATTCACAACACTTCGAATCAGCAACG
* * * * **
35056 CCCCAC-CAGAGGGGTTAACATTTTTCTTTGCTCGATTCACAACACTTCGAATCAGTGACG
1 CCTCACTC-GAGGGATCAACATTTTACTTTGCTCGATTCACAACACTTCGAATCAGCAACG
*
35116 CCTCACTCGAGGGATGAACATTT
1 CCTCACTCGAGGGATCAACATTT
35139 ATAGTAGAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
59 15 0.22
60 53 0.77
61 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (60 bp):
CCTCACTCGAGGGATCAACATTTTACTTTGCTCGATTCACAACACTTCGAATCAGCAACG
Found at i:36470 original size:68 final size:68
Alignment explanation
Indices: 36387--36523 Score: 274
Period size: 68 Copynumber: 2.0 Consensus size: 68
36377 ATACATAAAT
36387 TAATTAAATAAAACAAATGATTATTTAACTCATGAAAATTACCATGACATTCTAATACAAAAATT
1 TAATTAAATAAAACAAATGATTATTTAACTCATGAAAATTACCATGACATTCTAATACAAAAATT
36452 ATA
66 ATA
36455 TAATTAAATAAAACAAATGATTATTTAACTCATGAAAATTACCATGACATTCTAATACAAAAATT
1 TAATTAAATAAAACAAATGATTATTTAACTCATGAAAATTACCATGACATTCTAATACAAAAATT
36520 ATA
66 ATA
36523 T
1 T
36524 GCATTTATTT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (68 bp):
TAATTAAATAAAACAAATGATTATTTAACTCATGAAAATTACCATGACATTCTAATACAAAAATT
ATA
Found at i:36874 original size:2 final size:2
Alignment explanation
Indices: 36869--36906 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
36859 CAATAATTTA
36869 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
36907 CCAACTAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38186 original size:24 final size:27
Alignment explanation
Indices: 38134--38184 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
38124 AGTAATAATC
38134 ATAATAATAATAATACTATAGTTTATA
1 ATAATAATAATAATACTATAGTTTATA
*
38161 ATAATAA-ATATAATA-TATATTTTA
1 ATAATAATA-ATAATACTATAGTTTA
38185 ATCCCAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (27 bp):
ATAATAATAATAATACTATAGTTTATA
Found at i:39576 original size:112 final size:110
Alignment explanation
Indices: 39370--39576 Score: 290
Period size: 112 Copynumber: 1.9 Consensus size: 110
39360 GTGATAGGTC
39370 GAACAAGCTCTTCTCATTATGAACTTCTTCTCTCTCGTGGATGAGTTCTTCTCATTATGAACTCT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCTCTCGTGGATGAGTTCTTCTCATTATGAACTCT
* * *
39435 TCACTAAAAATGTTGATCCATCTCTTTCTGTGATGGACTTGAAAG
66 CCACTAAAAATGTTGATCCACCTCCTTCTGTGATGGACTTGAAAG
* *
39480 GAACAAGTTCTTCTCATTATGAACTTCTTCTC-CTTCTGTTGGATGAGTTCTTTTCATTATGAAC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCTC-TC-G-TGGATGAGTTCTTCTCATTATGAAC
* ** * *
39544 TCTCCATTGGAAATGTTGGTTCACCTCCTTCTG
63 TCTCCACTAAAAATGTTGATCCACCTCCTTCTG
39577 CGGTGAATCT
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
109 1 0.01
110 33 0.39
111 1 0.01
112 49 0.58
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.40
Consensus pattern (110 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCTCTCGTGGATGAGTTCTTCTCATTATGAACTCT
CCACTAAAAATGTTGATCCACCTCCTTCTGTGATGGACTTGAAAG
Found at i:40447 original size:30 final size:30
Alignment explanation
Indices: 40392--40466 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 30
40382 TCTCAAACCC
*
40392 TCATTTTTCTCTCTTCAATTTTTCATTTTTTT
1 TCATTTTT-TATCTTCAATTTTTCA-TTTTTT
40424 TCATTTTTT-TCTTC-ATTTCTTCATTTTTT
1 TCATTTTTTATCTTCAATTT-TTCATTTTTT
40453 TCATTTTTTATCTT
1 TCATTTTTTATCTT
40467 TTTATTTGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
29 19 0.46
30 13 0.32
31 1 0.02
32 8 0.20
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (30 bp):
TCATTTTTTATCTTCAATTTTTCATTTTTT
Found at i:40466 original size:22 final size:21
Alignment explanation
Indices: 40392--40466 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 21
40382 TCTCAAACCC
*
40392 TCATTTTTCTCTCTTCA-ATTTT
1 TCATTTTT-T-TCTTCATTTTTT
40414 TCA-TTTTTT-TTCATTTTTT
1 TCATTTTTTTCTTCATTTTTT
**
40433 TC-TTCATTTCTTCATTTTTT
1 TCATTTTTTTCTTCATTTTTT
40453 TCATTTTTTATCTT
1 TCATTTTTT-TCTT
40467 TTTATTTGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
18 4 0.09
19 11 0.26
20 13 0.30
21 8 0.19
22 7 0.16
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (21 bp):
TCATTTTTTTCTTCATTTTTT
Found at i:40469 original size:9 final size:9
Alignment explanation
Indices: 40410--40461 Score: 61
Period size: 9 Copynumber: 5.4 Consensus size: 9
40400 CTCTCTTCAA
40410 TTTTTCATTT
1 TTTTTCA-TT
40420 TTTTTCATT
1 TTTTTCATT
40429 TTTTTC-TT
1 TTTTTCATT
40437 CATTTCTTCATT
1 --TTT-TTCATT
40449 TTTTTCATT
1 TTTTTCATT
40458 TTTT
1 TTTT
40462 ATCTTTTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
8 2 0.05
9 18 0.47
10 13 0.34
11 3 0.08
12 2 0.05
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTCATT
Found at i:52106 original size:2 final size:2
Alignment explanation
Indices: 52101--52126 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
52091 CAATAATTTA
52101 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
52127 CCAACTAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52165 original size:2 final size:2
Alignment explanation
Indices: 52158--52209 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
52148 CAATAAAATA
52158 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
52200 AT AT AT AT AT
1 AT AT AT AT AT
52210 CTAACTAAGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53510 original size:3 final size:3
Alignment explanation
Indices: 53502--53576 Score: 116
Period size: 3 Copynumber: 25.0 Consensus size: 3
53492 ATGATATTAG
53502 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
53550 TAA TAA TAC T-A TAG TATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA
53577 ATATAATATA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
2 1 0.02
3 63 0.95
4 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:53652 original size:2 final size:2
Alignment explanation
Indices: 53645--53690 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
53635 GCAAGCATAC
53645 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
53687 AT AT
1 AT AT
53691 TTTATTTACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54490 original size:12 final size:13
Alignment explanation
Indices: 54473--54518 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
54463 TGTACTTATG
54473 TTATTTTAT-TTT
1 TTATTTTATGTTT
54485 TTATTTTATGTTGT
1 TTATTTTATGTT-T
54499 TT-TTTTACTGTTT
1 TTATTTTA-TGTTT
54512 TTATTTT
1 TTATTTT
54519 TTATATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 9 0.30
13 10 0.33
14 11 0.37
ACGTcount: A:0.13, C:0.02, G:0.07, T:0.78
Consensus pattern (13 bp):
TTATTTTATGTTT
Found at i:54493 original size:17 final size:17
Alignment explanation
Indices: 54468--54522 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
54458 GTCCTTGTAC
*
54468 TTATGTTATTTTATTTT
1 TTATTTTATTTTATTTT
54485 TTATTTTATGTTGT-TTTT
1 TTATTTTAT-TT-TATTTT
* *
54503 TTACTGT-TTTTATTTT
1 TTATTTTATTTTATTTT
54519 TTAT
1 TTAT
54523 ATATTTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
15 1 0.03
16 9 0.29
17 9 0.29
18 11 0.35
19 1 0.03
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (17 bp):
TTATTTTATTTTATTTT
Found at i:56176 original size:23 final size:22
Alignment explanation
Indices: 56131--56172 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
56121 ATTTTAGAGA
* * *
56131 AATTTTGTTTTTTTTAAACATT
1 AATTTTATTTTTTTAAAAAATT
56153 AATTTTATTTTTTTAAAAAA
1 AATTTTATTTTTTTAAAAAA
56173 ATTATAAACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
AATTTTATTTTTTTAAAAAATT
Found at i:56437 original size:16 final size:16
Alignment explanation
Indices: 56416--56446 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56406 AATATTGTAT
56416 TTTTAATAAAATACAA
1 TTTTAATAAAATACAA
*
56432 TTTTAATAAATTACA
1 TTTTAATAAAATACA
56447 TAATTGGCCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTTAATAAAATACAA
Found at i:58447 original size:24 final size:25
Alignment explanation
Indices: 58420--58468 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
58410 AAACTTAATT
*
58420 AAATAATTAAAATAACAA-ATAAAA
1 AAATAATTAAAAAAACAACATAAAA
*
58444 AAATTATTAAAAAAACAACATAAAA
1 AAATAATTAAAAAAACAACATAAAA
58469 TAAAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.20
Consensus pattern (25 bp):
AAATAATTAAAAAAACAACATAAAA
Found at i:58491 original size:6 final size:6
Alignment explanation
Indices: 58460--58492 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
58450 TTAAAAAAAC
*
58460 AACATA AA-ATA AAAATA AACATA AACATA AACA
1 AACATA AACATA AACATA AACATA AACATA AACA
58493 CAAGGACCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (6 bp):
AACATA
Found at i:59720 original size:15 final size:15
Alignment explanation
Indices: 59700--59731 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
59690 ATCTGAGTCG
59700 GGTTTTGGGTAGCTA
1 GGTTTTGGGTAGCTA
*
59715 GGTTTTGGGTAGTTA
1 GGTTTTGGGTAGCTA
59730 GG
1 GG
59732 CTTCGGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.03, G:0.44, T:0.41
Consensus pattern (15 bp):
GGTTTTGGGTAGCTA
Found at i:60480 original size:59 final size:61
Alignment explanation
Indices: 60353--60485 Score: 153
Period size: 59 Copynumber: 2.2 Consensus size: 61
60343 AGCTGAATTG
* * **
60353 AAGTGTTGTGAATCGAGCCATAGGAAATGTTGAACCCCTATGGTGGGGTGTTACTGATTCA
1 AAGTGTTGTGAATCGAGCCAAAGGAAATGTTGAACCCCTATGGTAGGGCATTACTGATTCA
* * * * * *
60414 AAGTGTTGTGAATCGAG-CAAATGAATTG-TGAACCCCTCTGGTATGGCATTGCTGATTCG
1 AAGTGTTGTGAATCGAGCCAAAGGAAATGTTGAACCCCTATGGTAGGGCATTACTGATTCA
*
60473 AATTGTTGTGAAT
1 AAGTGTTGTGAAT
60486 AAAGTAAAGA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 36 0.59
60 8 0.13
61 17 0.28
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (61 bp):
AAGTGTTGTGAATCGAGCCAAAGGAAATGTTGAACCCCTATGGTAGGGCATTACTGATTCA
Found at i:60753 original size:59 final size:60
Alignment explanation
Indices: 60633--60779 Score: 206
Period size: 59 Copynumber: 2.5 Consensus size: 60
60623 AGGACTTAAG
* * *
60633 CTGATTCGAAGTGTTGTGAATCGAGCCATAGAAAATGTTAACCCCTCTGGTGGGGCATTA
1 CTGATTCGAAGTGTTGTGAATCGAGCAAAAGAAAATATTAACCCCTCTGGTGGGGCATTA
* * * *
60693 CTGATTCGAAGTCTTTTGAATCGAG-AAAAGGAAATATTAACCCCTCTGGTGGGGCGTTA
1 CTGATTCGAAGTGTTGTGAATCGAGCAAAAGAAAATATTAACCCCTCTGGTGGGGCATTA
* *
60752 CTGATTTGAAGTGTTGTGAATTGAGCAA
1 CTGATTCGAAGTGTTGTGAATCGAGCAA
60780 CGAAATACTT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
59 50 0.67
60 25 0.33
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (60 bp):
CTGATTCGAAGTGTTGTGAATCGAGCAAAAGAAAATATTAACCCCTCTGGTGGGGCATTA
Found at i:60839 original size:287 final size:287
Alignment explanation
Indices: 60118--60918 Score: 1052
Period size: 288 Copynumber: 2.8 Consensus size: 287
60108 TGATACGTTG
* * * *
60118 CTGATTCAAAGTGTTATGAATCGAGTAAAGGAAATGTGAACCCCTATGGTAGGACGTTGTTGATT
1 CTGATTCAAAGTGTTATGAATCGAGAAAAGGAAATGTGAACCCCTCTGGTAGGGCGTTGCTGATT
* *
60183 CGAAGTGTTGTGAATCGAGCAAAGGAAAT-GTTGAAAACACCCTGCCTGAAGGTCTTATGGATGG
66 CGAAGTGTTGTGAATAGAGCAAA-GAAATAGTTGAAAACA-CCTGCCCGAAGGTCTTATGGATGG
* * * *
60247 CCAGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCATCAGCCT
129 CCCGAAGGACTTATTATCTTACTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCATCAGGCT
*
60312 TGAAAGACTTACTGATGACTCAAAGGACTTAAGCTGAATTGAAGTGTTGTGAATCGAGCCATAGG
194 TGAAAGACTTACTGATGACTCAAAGGACTTAAGCTGAATTGAAGTGTTGTGAATCGAGCCATAGA
**
60377 AAATGTTGAACCCCTATGGTGGGGTGTTA
259 AAATGTTGAACCCCTATGGTGGGGCATTA
* * * * * *
60406 CTGATTCAAAGTGTTGTGAATCGAGCAAATGAATTGTGAACCCCTCTGGTATGGCATTGCTGATT
1 CTGATTCAAAGTGTTATGAATCGAGAAAAGGAAATGTGAACCCCTCTGGTAGGGCGTTGCTGATT
* * * * * *
60471 CGAATTGTTGTGAATAAAGTAAAGAAA-ATGTTGAAAATACCTTGCTCGAAGGTCTTATGGATAG
66 CGAAGTGTTGTGAATAGAGCAAAGAAATA-GTTGAAAACACC-TGCCCGAAGGTCTTATGGATGG
* * * *
60535 CCCGAAGGACCTATTATCTTTCTCGAAAGACTTATAGATGACCCGAAGAATTTAAACATCAGGCT
129 CCCGAAGGACTTATTATCTTACTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCATCAGGCT
* *
60600 TGAAAGACTTACTGATGGCTCGAAGGACTTAAGCTG-ATTCGAAGTGTTGTGAATCGAGCCATAG
194 TGAAAGACTTACTGATGACTCAAAGGACTTAAGCTGAATT-GAAGTGTTGTGAATCGAGCCATAG
*
60664 AAAATGTT-AACCCCTCTGGTGGGGCATTA
258 AAAATGTTGAACCCCTATGGTGGGGCATTA
* * * * * * *
60693 CTGATTCGAAGTCTTTTGAATCGAGAAAAGGAAATATTAACCCCTCTGGTGGGGCGTTACTGATT
1 CTGATTCAAAGTGTTATGAATCGAGAAAAGGAAATGTGAACCCCTCTGGTAGGGCGTTGCTGATT
* * * *
60758 TGAAGTGTTGTGAATTGAGCAACGAAATACTTGAAAACATCCTGCCCGAAGGTCTTATGGATGGC
66 CGAAGTGTTGTGAATAGAGCAAAGAAATAGTTGAAAACA-CCTGCCCGAAGGTCTTATGGATGGC
* * * *
60823 CCGAAGGACTTATTATCTTACTTGAAAAACTTTATAGATGACTCGAAGGATTTAAGCATCATGCT
130 CCGAAGGACTTATTATCTTACTCGAAAGAC-TTATAGATGACCCGAAGGATTTAAGCATCAGGCT
* * * *
60888 CGAAAGACATACTGATGTCCCAAAGGACTTA
194 TGAAAGACTTACTGATGACTCAAAGGACTTA
60919 CTCATTAAGA
Statistics
Matches: 441, Mismatches: 65, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
287 156 0.35
288 285 0.65
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (287 bp):
CTGATTCAAAGTGTTATGAATCGAGAAAAGGAAATGTGAACCCCTCTGGTAGGGCGTTGCTGATT
CGAAGTGTTGTGAATAGAGCAAAGAAATAGTTGAAAACACCTGCCCGAAGGTCTTATGGATGGCC
CGAAGGACTTATTATCTTACTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCATCAGGCTTG
AAAGACTTACTGATGACTCAAAGGACTTAAGCTGAATTGAAGTGTTGTGAATCGAGCCATAGAAA
ATGTTGAACCCCTATGGTGGGGCATTA
Found at i:61063 original size:58 final size:57
Alignment explanation
Indices: 60991--61184 Score: 175
Period size: 58 Copynumber: 3.5 Consensus size: 57
60981 ATTAAAAAAA
* *
60991 CCCTTAAAATTAGGCTTAGCTTCTTTTAAAAATTCTTTGGAAATAATCATCAAGAAAT
1 CCCTAAAAATTAGGCTTAGCTTCTTTTAAAAATTCTTT-GAAATAATCATCAAGAAAC
* * * * *
61049 CCCTGAAAACTAGGCTTAG--T-TTCTAACAACTCATTTG-AA-AAT-ATCAAGAAAC
1 CCCTAAAAATTAGGCTTAGCTTCTTTTAAAAATTC-TTTGAAATAATCATCAAGAAAC
* * * *
61101 CCCTAAAAATTAGGCTTAGCTTCTTTTAGAAATTCTCTAGAAATCATCATCAAGAAGC
1 CCCTAAAAATTAGGCTTAGCTTCTTTTAAAAATTCT-TTGAAATAATCATCAAGAAAC
* * * * *
61159 CCTTGAAAATCATGCTTAGTTTCTTT
1 CCCTAAAAATTAGGCTTAGCTTCTTT
61185 AAATTCTTTT
Statistics
Matches: 108, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
52 26 0.24
53 3 0.03
54 4 0.04
55 20 0.19
56 6 0.06
57 2 0.02
58 47 0.44
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (57 bp):
CCCTAAAAATTAGGCTTAGCTTCTTTTAAAAATTCTTTGAAATAATCATCAAGAAAC
Found at i:63166 original size:20 final size:20
Alignment explanation
Indices: 63141--63185 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
63131 TGTTGGATTT
63141 GTTTTTTTCTTATTTCT-TTC
1 GTTTTTTT-TTATTTCTCTTC
*
63161 GTTTTTTTTTCTTTCTCTTC
1 GTTTTTTTTTATTTCTCTTC
63181 -TTTTT
1 GTTTTT
63186 GTGTTTTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (20 bp):
GTTTTTTTTTATTTCTCTTC
Found at i:63474 original size:2 final size:2
Alignment explanation
Indices: 63467--63494 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
63457 ACATAAATAC
63467 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
63495 GAAAGGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65482 original size:24 final size:24
Alignment explanation
Indices: 65448--65520 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
65438 ATACATTACC
* *
65448 TGAATTATGTTCTGATTTCTGATA
1 TGAATTCTGTTATGATTTCTGATA
* * *
65472 TGGATTCTGTTATGATATCTGATT
1 TGAATTCTGTTATGATTTCTGATA
* *
65496 TGAATTCTGTTTTAATTTCTGATA
1 TGAATTCTGTTATGATTTCTGATA
65520 T
1 T
65521 CTCCATTTAC
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.23, C:0.08, G:0.16, T:0.52
Consensus pattern (24 bp):
TGAATTCTGTTATGATTTCTGATA
Found at i:65572 original size:30 final size:32
Alignment explanation
Indices: 65536--65600 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
65526 TTTACTGACA
65536 GAGAAATG-TTT-TATGGAGGGTTTATTGTTG
1 GAGAAATGTTTTATATGGAGGGTTTATTGTTG
65566 GAGAAATGTTTTATATGGAGGGTTTATTGTTG
1 GAGAAATGTTTTATATGGAGGGTTTATTGTTG
65598 GAG
1 GAG
65601 GAAGTATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 8 0.24
31 3 0.09
32 22 0.67
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.42
Consensus pattern (32 bp):
GAGAAATGTTTTATATGGAGGGTTTATTGTTG
Found at i:65720 original size:2 final size:2
Alignment explanation
Indices: 65708--65750 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
65698 GATGGGGGTG
65708 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA T- 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
65748 TA T
1 TA T
65751 GTTTTAAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Done.