Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 88 of 335
Found at i:28890116 original size:18 final size:18
Alignment explanation
Indices: 28890078--28890205 Score: 121
Period size: 18 Copynumber: 6.8 Consensus size: 18
28890068 ATGTATTAGT
28890078 TAAATTATGTAAGTTGTTATG
1 TAAATTATGTAA---GTTATG
* *
28890099 TACATTATGTGAGTTATG
1 TAAATTATGTAAGTTATG
28890117 TAAATTATGTAAGTTATG
1 TAAATTATGTAAGTTATG
* *
28890135 TGAGTTATGTAAGTTGTTATG
1 TAAATTATGTAA---GTTATG
*
28890156 TAAATTATGTAAGTTATA
1 TAAATTATGTAAGTTATG
* *
28890174 TGAGTTATGTAAGTTATG
1 TAAATTATGTAAGTTATG
* *
28890192 TAATTTATTTAAGT
1 TAAATTATGTAAGT
28890206 AATGATTAAT
Statistics
Matches: 89, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
18 63 0.71
21 26 0.29
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.47
Consensus pattern (18 bp):
TAAATTATGTAAGTTATG
Found at i:28890125 original size:39 final size:38
Alignment explanation
Indices: 28890078--28890205 Score: 122
Period size: 39 Copynumber: 3.4 Consensus size: 38
28890068 ATGTATTAGT
*
28890078 TAAATTATGTAAGTTGTTATGTACATTATGTGAGTTATG
1 TAAATTATGTAAGTTGTTATGTA-GTTATGTGAGTTATG
*
28890117 TAAATTATGTAA---GTTATGTGAGTTATGTAAGTTGTTATG
1 TAAATTATGTAAGTTGTTATGT-AGTTATGT--G-AGTTATG
* *
28890156 TAAATTATGTAAGTT-ATATG-AGTTATGTAAGTTATG
1 TAAATTATGTAAGTTGTTATGTAGTTATGTGAGTTATG
* *
28890192 TAATTTATTTAAGT
1 TAAATTATGTAAGT
28890206 AATGATTAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
36 31 0.41
37 1 0.01
38 1 0.01
39 38 0.51
41 4 0.05
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.47
Consensus pattern (38 bp):
TAAATTATGTAAGTTGTTATGTAGTTATGTGAGTTATG
Found at i:28890199 original size:9 final size:9
Alignment explanation
Indices: 28890093--28890205 Score: 111
Period size: 9 Copynumber: 12.2 Consensus size: 9
28890083 TATGTAAGTT
28890093 GTTATGTACA
1 GTTATGTA-A
*
28890103 -TTATGTGA
1 GTTATGTAA
28890111 GTTATGTAA
1 GTTATGTAA
*
28890120 ATTATGTAA
1 GTTATGTAA
*
28890129 GTTATGTGA
1 GTTATGTAA
28890138 GTTATGTAA
1 GTTATGTAA
28890147 GTTGTTATGTAA
1 ---GTTATGTAA
*
28890159 ATTATGTAA
1 GTTATGTAA
* *
28890168 GTTATATGA
1 GTTATGTAA
28890177 GTTATGTAA
1 GTTATGTAA
28890186 GTTATGTAA
1 GTTATGTAA
* *
28890195 TTTATTTAA
1 GTTATGTAA
28890204 GT
1 GT
28890206 AATGATTAAT
Statistics
Matches: 84, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
8 1 0.01
9 74 0.88
12 9 0.11
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
GTTATGTAA
Found at i:28890205 original size:57 final size:57
Alignment explanation
Indices: 28890082--28890205 Score: 176
Period size: 57 Copynumber: 2.2 Consensus size: 57
28890072 ATTAGTTAAA
* * * *
28890082 TTATGTAAGTTGTTATGTACATTATGTGAGTTATGTAAATTATGTAAGTTATGTGAG
1 TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTAAG
* * *
28890139 TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATGTAAT
1 TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTAAG
*
28890196 TTATTTAAGT
1 TTATGTAAGT
28890206 AATGATTAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (57 bp):
TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTAAG
Found at i:28890909 original size:10 final size:10
Alignment explanation
Indices: 28890894--28890922 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
28890884 AATAAAATTA
28890894 ATTCATACTT
1 ATTCATACTT
28890904 ATTCATACTT
1 ATTCATACTT
28890914 ATTCATACT
1 ATTCATACT
28890923 CCACTCTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (10 bp):
ATTCATACTT
Found at i:28891419 original size:183 final size:183
Alignment explanation
Indices: 28891111--28891442 Score: 637
Period size: 183 Copynumber: 1.8 Consensus size: 183
28891101 CCTAGAACAG
28891111 ATGTAAGATTAAAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTAAAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
*
28891176 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAATTGAACCAATAGTTGCAGGAGG
28891241 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
*
28891294 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTAAAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
*
28891359 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAATTGAACTAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAATTGAACCAATAGTTGCAGGAGG
28891424 AGCAGGAAGCAGTAACTGA
131 AGCAGGAAGCAGTAACTGA
28891443 TGCTGAATCT
Statistics
Matches: 146, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 146 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTAAAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAATTGAACCAATAGTTGCAGGAGG
AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
Found at i:28892720 original size:148 final size:148
Alignment explanation
Indices: 28892452--28892748 Score: 558
Period size: 148 Copynumber: 2.0 Consensus size: 148
28892442 CCTTAATCAT
28892452 AAGCTTGTGAAAGTTTAAAGTAGCTTATTCCAAACATAGCAGCAACTAGCTGTTATCGACTTAAA
1 AAGCTTGTGAAAGTTTAAAGTAGCTTATTCCAAACATAGCAGCAACTAGCTGTTATCGACTTAAA
28892517 AGGATATGCCAAAAAGCTGCAATTAGATACCAATATTTTACCCTTGAGTGCATATAAATCTCCTT
66 AGGATATGCCAAAAAGCTGCAATTAGATACCAATATTTTACCCTTGAGTGCATATAAATCTCCTT
28892582 TTTACAATTTATTGCATA
131 TTTACAATTTATTGCATA
* *
28892600 AAGCTTGTGGAAGTTTAAAGTAGCTTATTCCAAACATAGTAGCAACTAGCTGTTATCGACTTAAA
1 AAGCTTGTGAAAGTTTAAAGTAGCTTATTCCAAACATAGCAGCAACTAGCTGTTATCGACTTAAA
* *
28892665 AGGATATGCCAAAAAGCTGCAATTAGATACTAATATTTTACCCTTGAGTGTATATAAATCTCCTT
66 AGGATATGCCAAAAAGCTGCAATTAGATACCAATATTTTACCCTTGAGTGCATATAAATCTCCTT
28892730 TTTACAATTTATTGCATA
131 TTTACAATTTATTGCATA
28892748 A
1 A
28892749 CATTTCCGAG
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
148 145 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (148 bp):
AAGCTTGTGAAAGTTTAAAGTAGCTTATTCCAAACATAGCAGCAACTAGCTGTTATCGACTTAAA
AGGATATGCCAAAAAGCTGCAATTAGATACCAATATTTTACCCTTGAGTGCATATAAATCTCCTT
TTTACAATTTATTGCATA
Found at i:28894916 original size:86 final size:86
Alignment explanation
Indices: 28894767--28894924 Score: 210
Period size: 86 Copynumber: 1.8 Consensus size: 86
28894757 AGTACTATGT
* * * ** * *
28894767 TTTTTGCGTCGTTTTTAAAAAAAATGCCGCTAATCCCCTAAATCTTCATATAAAACGATGCCGTT
1 TTTTTGCGGCGTTTTTAAAAAAAACGCCGATAATCCCCTAAAAATCCATATAAAACGACGCCGTT
28894832 TACGTTATACTTTTTTTTTGC
66 TACGTTATACTTTTTTTTTGC
* *
28894853 TTTTTGTGGCGTTTTTAAAAAAAACGCCGATACTCCCCTAAAAATCCA-ATTAAAACGACGCCGT
1 TTTTTGCGGCGTTTTTAAAAAAAACGCCGATAATCCCCTAAAAATCCATA-TAAAACGACGCCGT
*
28894917 TTTCGTTA
65 TTACGTTA
28894925 AATTGCTATT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
85 1 0.02
86 60 0.98
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (86 bp):
TTTTTGCGGCGTTTTTAAAAAAAACGCCGATAATCCCCTAAAAATCCATATAAAACGACGCCGTT
TACGTTATACTTTTTTTTTGC
Found at i:28895826 original size:27 final size:28
Alignment explanation
Indices: 28895796--28895852 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
28895786 CTTAACCCCA
* *
28895796 AACCCTTACACCTTAAACTC-TAA-CCCT
1 AACCCCTAAACCTTAAA-TCATAATCCCT
28895823 AACCCCTAAACCTTAAATCATAATCCCT
1 AACCCCTAAACCTTAAATCATAATCCCT
28895851 AA
1 AA
28895853 ACCCATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 2 0.08
27 18 0.69
28 6 0.23
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.25
Consensus pattern (28 bp):
AACCCCTAAACCTTAAATCATAATCCCT
Found at i:28895963 original size:15 final size:15
Alignment explanation
Indices: 28895938--28895980 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
28895928 AGAGTTAACT
28895938 CATAAACCTTAAACC
1 CATAAACCTTAAACC
* *
28895953 CATATATCTTAAA-C
1 CATAAACCTTAAACC
28895967 CATAAACCTTAAAC
1 CATAAACCTTAAAC
28895981 TATAATGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.26
Consensus pattern (15 bp):
CATAAACCTTAAACC
Found at i:28895977 original size:14 final size:14
Alignment explanation
Indices: 28895938--28895985 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
28895928 AGAGTTAACT
28895938 CATAAACCTTAAACC
1 CATAAACCTTAAA-C
* *
28895953 CATATATCTTAAAC
1 CATAAACCTTAAAC
28895967 CATAAACCTTAAAC
1 CATAAACCTTAAAC
*
28895981 TATAA
1 CATAA
28895986 TGATAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (14 bp):
CATAAACCTTAAAC
Found at i:28896200 original size:41 final size:41
Alignment explanation
Indices: 28896143--28896326 Score: 239
Period size: 41 Copynumber: 4.5 Consensus size: 41
28896133 TTATATGACT
* *
28896143 TTTAGCGGCGTTTTACCAAAAGCGCCACTAATACTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
28896184 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* * * *
28896225 TTTAGCGGTGATTTACCAAAAGCGCCGCTAATGCTCT-ATT
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* * * *
28896265 TTTAGCGGCGTTTTTTACTAAAA-CGCCGCTATTGCT-TTGTT
1 TTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCTGGTC
28896306 TTTAGCGGCGTTTTACCAAAA
1 TTTAGCGGCGTTTTACCAAAA
28896327 ATGCCCCATT
Statistics
Matches: 128, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
39 10 0.08
40 11 0.09
41 98 0.77
42 9 0.07
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
Found at i:28896347 original size:41 final size:42
Alignment explanation
Indices: 28896142--28896348 Score: 223
Period size: 41 Copynumber: 5.1 Consensus size: 42
28896132 GTTATATGAC
* *
28896142 TTTTAGCGGCGTTTTACCAAAAGCGCCACTAATACTCTG-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTGT
*
28896183 CTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTG-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTGT
* * * *
28896224 CTTTAGCGGTGATTTACCAAAAGCGCCGCTAATGCTC--TAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTGT
* *
28896264 TTTTAGCGGCGTTTTTTACTAAAA-CGCCGCTATTGCT-T-TGT
1 TTTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCTGTGT
** * *
28896305 TTTTAGCGGCGTTTTACCAAAAATGCC-CCATTGCTCTGTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTGT
28896346 TTT
1 TTT
28896349 ACAATTTTTG
Statistics
Matches: 144, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
39 17 0.12
40 14 0.10
41 104 0.72
42 9 0.06
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (42 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTGT
Found at i:28904507 original size:2 final size:2
Alignment explanation
Indices: 28904500--28904540 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
28904490 AACTATAAAT
28904500 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
28904541 GTGTGTGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:28908998 original size:7 final size:7
Alignment explanation
Indices: 28908988--28909026 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
28908978 GAGTTCGGGG
*
28908988 TTTAAGG
1 TTTAAGA
28908995 TTTAAGA
1 TTTAAGA
*
28909002 TTTAGAGT
1 TTTA-AGA
28909010 TTTAAGA
1 TTTAAGA
28909017 TTTAAGA
1 TTTAAGA
28909024 TTT
1 TTT
28909027 GTGATTTGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (7 bp):
TTTAAGA
Found at i:28911564 original size:26 final size:26
Alignment explanation
Indices: 28911504--28911564 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
28911494 TAAGAAATTT
*
28911504 TAAAATATTATTTTGTTTTACTTTCA
1 TAAAATATTATTTTGTTTTACTTTAA
* *
28911530 GAAAATATTATTTTATTTTTA-TTTAA
1 TAAAATATTATTTT-GTTTTACTTTAA
*
28911556 TAAATTATT
1 TAAAATATT
28911565 CTGATCAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.57
Consensus pattern (26 bp):
TAAAATATTATTTTGTTTTACTTTAA
Found at i:28911853 original size:16 final size:16
Alignment explanation
Indices: 28911832--28911875 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
28911822 GATATAGTAA
28911832 AAATAAAAATAAAAAT
1 AAATAAAAATAAAAAT
* * *
28911848 ATATAAATATATAAAT
1 AAATAAAAATAAAAAT
*
28911864 AAATAAACATAA
1 AAATAAAAATAA
28911876 TTACTTATTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATAAAAATAAAAAT
Found at i:28911854 original size:22 final size:23
Alignment explanation
Indices: 28911823--28911866 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
28911813 GTTTGATAAG
28911823 ATATAGTAAAAATAAAAATAAAA
1 ATATAGTAAAAATAAAAATAAAA
* *
28911846 ATATA-TAAATATATAAATAAA
1 ATATAGTAAAAATAAAAATAAA
28911867 TAAACATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
ATATAGTAAAAATAAAAATAAAA
Found at i:28924787 original size:25 final size:24
Alignment explanation
Indices: 28924734--28924792 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
28924724 CTTTTTTTAT
* * *
28924734 TAAATAAAAAAATTTAAAATATAA
1 TAAATAAATACATTTAAAACATAA
28924758 TAAATCAAATACATTTAAAAACATAA
1 TAAAT-AAATACATTT-AAAACATAA
28924784 -AAATAAATA
1 TAAATAAATA
28924793 TTAAAACAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.33
25 12 0.40
26 8 0.27
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (24 bp):
TAAATAAATACATTTAAAACATAA
Found at i:28925902 original size:31 final size:30
Alignment explanation
Indices: 28925862--28925941 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 30
28925852 TTTCAAATAT
*
28925862 TTGTTATTTTTGTCACTCCAGTTAGATAAG
1 TTGTAATTTTTGTCACTCCAGTTAGATAAG
* *
28925892 TTGTCAATTTTAGTCACTCCCGTTAGATAAG
1 TTGT-AATTTTTGTCACTCCAGTTAGATAAG
*
28925923 TTGTTATTTTTAGTCACTC
1 TTGTAATTTTT-GTCACTC
28925942 TACCGTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 9 0.21
31 34 0.79
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.46
Consensus pattern (30 bp):
TTGTAATTTTTGTCACTCCAGTTAGATAAG
Found at i:28930466 original size:12 final size:12
Alignment explanation
Indices: 28930449--28930478 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
28930439 ATCAGGAACG
28930449 ACGCCAATGCCA
1 ACGCCAATGCCA
*
28930461 ACGCCAATGCCT
1 ACGCCAATGCCA
28930473 ACGCCA
1 ACGCCA
28930479 TATTTCCCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.43, G:0.17, T:0.10
Consensus pattern (12 bp):
ACGCCAATGCCA
Found at i:28932711 original size:27 final size:26
Alignment explanation
Indices: 28932670--28932725 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
28932660 CCCGAAACGG
*
28932670 GTCGAGCCTGTCAGGTAGGCACGACTA
1 GTCGAGCCTGACAGGTAGGCACGA-TA
* *
28932697 GTCGTGCCTGACAGGTAGGCGCGATA
1 GTCGAGCCTGACAGGTAGGCACGATA
28932723 GTC
1 GTC
28932726 CCACCTACTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.20, C:0.25, G:0.36, T:0.20
Consensus pattern (26 bp):
GTCGAGCCTGACAGGTAGGCACGATA
Found at i:28932772 original size:27 final size:27
Alignment explanation
Indices: 28932734--28932794 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
28932724 TCCCACCTAC
28932734 TGCTGCTGCTACCGCTCCACCTGCTGA
1 TGCTGCTGCTACCGCTCCACCTGCTGA
*
28932761 TGCTGCTGCTACCGTTCCACCTGCTGA
1 TGCTGCTGCTACCGCTCCACCTGCTGA
28932788 TGCTGCT
1 TGCTGCT
28932795 ACCGTTGCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.10, C:0.38, G:0.23, T:0.30
Consensus pattern (27 bp):
TGCTGCTGCTACCGCTCCACCTGCTGA
Found at i:28932810 original size:24 final size:24
Alignment explanation
Indices: 28932726--28932800 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 24
28932716 CGCGATAGTC
* * *
28932726 CCACCTACTGCTGCTGCTACCGCT
1 CCACCTGCTGATGCTGCTACCGTT
28932750 CCACCTGCTGATGCTGCTGCTACCGTT
1 CCACCTGCTGA---TGCTGCTACCGTT
28932777 CCACCTGCTGATGCTGCTACCGTT
1 CCACCTGCTGATGCTGCTACCGTT
28932801 GCTTTTGCTG
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
24 22 0.49
27 23 0.51
ACGTcount: A:0.12, C:0.40, G:0.20, T:0.28
Consensus pattern (24 bp):
CCACCTGCTGATGCTGCTACCGTT
Found at i:28932961 original size:3 final size:3
Alignment explanation
Indices: 28932953--28932990 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
28932943 AAGGAGAAAG
*
28932953 AGA AGA AGA AGGA AGA AGA AGA AGA AGA ATA AGA AGA A
1 AGA AGA AGA A-GA AGA AGA AGA AGA AGA AGA AGA AGA A
28932991 AAAAGGGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:28932969 original size:19 final size:18
Alignment explanation
Indices: 28932943--28932981 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
28932933 AAAGGAGAGA
28932943 AAGGAGAA-AGAGAAGAAG
1 AAGGAGAAGA-AGAAGAAG
28932961 AAGGAAGAAGAAGAAGAAG
1 AAGG-AGAAGAAGAAGAAG
28932980 AA
1 AA
28932982 TAAGAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 14 0.74
20 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (18 bp):
AAGGAGAAGAAGAAGAAG
Found at i:28933157 original size:18 final size:19
Alignment explanation
Indices: 28933122--28933158 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
28933112 TATAAATTAT
*
28933122 TAGTTTTTTGTATTTGTTA
1 TAGTTATTTGTATTTGTTA
28933141 TAGTTATTTGT-TTTGTTA
1 TAGTTATTTGTATTTGTTA
28933159 ATAATTTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (19 bp):
TAGTTATTTGTATTTGTTA
Found at i:28934505 original size:14 final size:14
Alignment explanation
Indices: 28934486--28934515 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
28934476 TAAAAATTAT
28934486 AAATAATAATAGTA
1 AAATAATAATAGTA
*
28934500 AAATAATAGTAGTA
1 AAATAATAATAGTA
28934514 AA
1 AA
28934516 CGGTAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (14 bp):
AAATAATAATAGTA
Found at i:28934568 original size:14 final size:14
Alignment explanation
Indices: 28934521--28934560 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
28934511 GTAAACGGTA
*
28934521 AAAAAATAATAAAT
1 AAAATATAATAAAT
*
28934535 AAAATATGATAAAT
1 AAAATATAATAAAT
28934549 AAAATATAATAA
1 AAAATATAATAA
28934561 GTATAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (14 bp):
AAAATATAATAAAT
Found at i:28934871 original size:16 final size:16
Alignment explanation
Indices: 28934850--28934899 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 16
28934840 TGAAAATGAT
28934850 ATAATAAGTATAATAA
1 ATAATAAGTATAATAA
*
28934866 ATAAT-AGTGTAA-AA
1 ATAATAAGTATAATAA
28934880 A-AATAA-TATAATAA
1 ATAATAAGTATAATAA
28934894 ATAATA
1 ATAATA
28934900 GGAAAATAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
13 7 0.24
14 7 0.24
15 10 0.34
16 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
ATAATAAGTATAATAA
Found at i:28936332 original size:135 final size:134
Alignment explanation
Indices: 28936123--28936610 Score: 730
Period size: 135 Copynumber: 3.6 Consensus size: 134
28936113 GATCTGCTGT
* ** * *
28936123 AATTTGATCTGCTTTACTCCTGCTCAGTAAATATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCC
* ** *
28936188 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
66 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
28936253 ATCAA
131 A-CAA
**
28936258 AATTTGATCTGCTTTGCTCCTGCTCAGCGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCC
* * * *
28936323 TGCTTAGTGAAGATAAGACTGGTGGCTGAAATCTGCTCTATTGCCAATACATGGAGATAAGATTC
66 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
28936388 ACCAA
131 A-CAA
* *
28936393 AATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTATA--TAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCC
28936456 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTT
66 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGA-TT
28936521 GC-CAA
130 -CACAA
* ** *
28936526 AATTTGATCTGCTTCATTCCTGCTCAATGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCC
28936591 TGCTCAGTGAAGATAAGGCT
66 TGCTCAGTGAAGATAAGGCT
28936611 AATAATATCT
Statistics
Matches: 321, Mismatches: 28, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
133 118 0.37
134 2 0.01
135 201 0.63
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (134 bp):
AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCC
TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
ACAA
Found at i:28936602 original size:268 final size:268
Alignment explanation
Indices: 28936123--28936607 Score: 758
Period size: 268 Copynumber: 1.8 Consensus size: 268
28936113 GATCTGCTGT
** * * * *
28936123 AATTTGATCTGCTTTACTCCTGCTCAGTAAATATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTCCACTCCTGCTCAGCAAAGATAAGATCTAGTA-GTATAGCCTGCTCCACTCC
* *
28936188 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
65 TGCTCAGTGAAGATAAGGCTGATGACTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
** *
28936253 ATCAAAATTTGATCTGCTTTGCTCCTGCTCAGCGAAGATAAGATCTGGTATATTTAGCCTGCTCC
130 A-CAAAATTTGATCTGCTTCACTCCTGCTCAACGAAGATAAGATCTGGTATATTTAGCCTGCTCC
*
28936318 ACTCCTGCTTAGTGAAGATAAGACTGGTGGCTGAAATCTGCTCTATTGCCAATACATGGAGATAA
194 ACTCCTGCTCAGTGAAGATAAGACTGGTGGCTGAAATCTGCTCTATTGCCAATACATGGAGATAA
28936383 GATTCACCAA
259 GATTCACCAA
*
28936393 AATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTA-TATAGCCTGCTCCACTCCT
1 AATTTGATCTGCTCCACTCCTGCTCAGCAAAGATAAGATCTAGTAGTATAGCCTGCTCCACTCCT
* *
28936457 GCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTG
66 GCTCAGTGAAGATAAGGCTGATGACTGAAATCTGCTCCATTGCCGATACATGGAGATAAGA-TT-
* * *
28936522 C-CAAAATTTGATCTGCTTCATTCCTGCTCAATGAAGATAAGATCTGGTATGTTTAGCCTGCTCC
129 CACAAAATTTGATCTGCTTCACTCCTGCTCAACGAAGATAAGATCTGGTATATTTAGCCTGCTCC
28936586 ACTCCTGCTCAGTGAAGATAAG
194 ACTCCTGCTCAGTGAAGATAAG
28936608 GCTAATAATA
Statistics
Matches: 195, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
268 153 0.78
269 2 0.01
270 40 0.21
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (268 bp):
AATTTGATCTGCTCCACTCCTGCTCAGCAAAGATAAGATCTAGTAGTATAGCCTGCTCCACTCCT
GCTCAGTGAAGATAAGGCTGATGACTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCA
CAAAATTTGATCTGCTTCACTCCTGCTCAACGAAGATAAGATCTGGTATATTTAGCCTGCTCCAC
TCCTGCTCAGTGAAGATAAGACTGGTGGCTGAAATCTGCTCTATTGCCAATACATGGAGATAAGA
TTCACCAA
Found at i:28939725 original size:33 final size:33
Alignment explanation
Indices: 28939688--28939766 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
28939678 TCCACCCATG
* *
28939688 TACTCAACTCCTCCAGAGC-CGTATCCACCGCCA
1 TACTCTACTCCTCCAG-GCTCATATCCACCGCCA
* *
28939721 TACTCTACTCCTCCCGGCTCATATCCATCGCCA
1 TACTCTACTCCTCCAGGCTCATATCCACCGCCA
*
28939754 TATTCTACTCCTC
1 TACTCTACTCCTC
28939767 TCGACTCAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 2 0.05
33 38 0.95
ACGTcount: A:0.20, C:0.44, G:0.09, T:0.27
Consensus pattern (33 bp):
TACTCTACTCCTCCAGGCTCATATCCACCGCCA
Found at i:28941307 original size:18 final size:18
Alignment explanation
Indices: 28941284--28941369 Score: 73
Period size: 18 Copynumber: 4.7 Consensus size: 18
28941274 GAACGATTAT
* *
28941284 TTATTCGGTAACAGTCAG
1 TTATTCGGTAACAATCAA
28941302 TTATTCGGTAACAATCAA
1 TTATTCGGTAACAATCAA
** * *
28941320 TTATTCAATAATAATCAG
1 TTATTCGGTAACAATCAA
** *
28941338 TTATTTAGTAACAATTAAA
1 TTATTCGGTAACAA-TCAA
*
28941357 TTATTCAGTAACA
1 TTATTCGGTAACA
28941370 GTCGATTTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
18 41 0.75
19 14 0.25
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (18 bp):
TTATTCGGTAACAATCAA
Found at i:28941324 original size:36 final size:37
Alignment explanation
Indices: 28941284--28941372 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 37
28941274 GAACGATTAT
* * *
28941284 TTATTCGGTAACAGTCAGTTATTCGGTAACAA-TCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
* * * *
28941320 TTATTCAATAATAATCAGTTATTTAGTAACAATTAAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
28941357 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
28941373 GATTTTTCCA
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
36 26 0.62
37 16 0.38
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.37
Consensus pattern (37 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
Found at i:28941553 original size:47 final size:47
Alignment explanation
Indices: 28941491--28941597 Score: 160
Period size: 47 Copynumber: 2.3 Consensus size: 47
28941481 CCGAAACAGT
* * *
28941491 AACAGTAGCAATACGGTACACAGAGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
* **
28941538 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAATAAATTTGA
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
28941585 AACAGTAACAGTA
1 AACAGTAACAGTA
28941598 ACAGTAACAA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (47 bp):
AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
Found at i:28941598 original size:53 final size:51
Alignment explanation
Indices: 28941483--28941603 Score: 151
Period size: 47 Copynumber: 2.4 Consensus size: 51
28941473 GGCTGAAGCC
* *
28941483 GAAACAGTAACAGTAGCAATACGGTACACAGAGTACCTCATCGGAACAAAT
1 GAAACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAAT
* * *
28941534 ----CCGGAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAATAAATTT
1 GAAACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAA--T
28941583 GAAACAGTAACAGTAACAGTA
1 GAAACAGTAACAGTAACAGTA
28941604 ACAATATCTG
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
47 41 0.72
49 1 0.02
53 15 0.26
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.17
Consensus pattern (51 bp):
GAAACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAAT
Found at i:28941810 original size:20 final size:20
Alignment explanation
Indices: 28941773--28941809 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
28941763 TTTTCAGTTT
28941773 TTAATTAATTCATATTTTAA
1 TTAATTAATTCATATTTTAA
28941793 TTAATTAATT-ATATTTT
1 TTAATTAATTCATATTTT
28941810 TTTCAATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAATTAATTCATATTTTAA
Found at i:28942328 original size:2 final size:2
Alignment explanation
Indices: 28942321--28942354 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
28942311 TGTTTTACTT
28942321 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
28942355 GTTAACTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:28942381 original size:15 final size:17
Alignment explanation
Indices: 28942350--28942381 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
28942340 ATATATATAT
28942350 AATATGTTAACTTAATA
1 AATATGTTAACTTAATA
28942367 AATAT-TTAA-TTAATA
1 AATATGTTAACTTAATA
28942382 TCAAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (17 bp):
AATATGTTAACTTAATA
Found at i:28946476 original size:14 final size:14
Alignment explanation
Indices: 28946451--28946499 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
28946441 TAGTGTTTAA
28946451 AGTTTAAGGTTTAGG
1 AGTTTAA-GTTTAGG
*
28946466 ATTTTAAGTTTA-G
1 AGTTTAAGTTTAGG
28946479 AGTTTAAGCTTTAGG
1 AGTTTAAG-TTTAGG
28946494 -GTTTAA
1 AGTTTAA
28946500 TTAGGATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 8 0.27
14 15 0.50
15 7 0.23
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (14 bp):
AGTTTAAGTTTAGG
Found at i:28951086 original size:241 final size:241
Alignment explanation
Indices: 28950663--28951149 Score: 893
Period size: 241 Copynumber: 2.0 Consensus size: 241
28950653 ATGAATTAAT
28950663 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATACCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATACCTGACCTTCTCTCCAACCTT
* * *
28950728 ATTTTAAATATTTTAAAGATTCAAAGTATATGGGTTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGCAAACCTGACGGGTTGCCTTATATCGAG
28950793 CTGTAAGATATAATAGATCCTCCCTAGGTGTAACAACGCCACGTACGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATAGATCCTCCCTAGGTGTAACAACGCCACGTACGATGAATCTTAAAAAATTC
*
28950858 AAAAAGACTTGGAAAAAGTTCTATCGATCTCATTTACTATTGAATA
196 AAAAAGACTTGGAAAAAGTTCTATCAATCTCATTTACTATTGAATA
* * *
28950904 TTTATTACCATTTAGCTTGCTTGTTCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATACCTGACCTTCTCTCCAACCTT
28950969 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGCAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGCAAACCTGACGGGTTGCCTTATATCGAG
* *
28951034 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATAGATCCTCCCTAGGTGTAACAACGCCACGTACGATGAATCTTAAAAAATTC
28951099 AAAAAGACTTGGAAAAAGTTCTATCAATCTCATTTACTATTGAATA
196 AAAAAGACTTGGAAAAAGTTCTATCAATCTCATTTACTATTGAATA
28951145 TTTAT
1 TTTAT
28951150 ATAACCTTAA
Statistics
Matches: 237, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
241 237 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATACCTGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGCAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATAGATCCTCCCTAGGTGTAACAACGCCACGTACGATGAATCTTAAAAAATTC
AAAAAGACTTGGAAAAAGTTCTATCAATCTCATTTACTATTGAATA
Found at i:28951353 original size:9 final size:9
Alignment explanation
Indices: 28951330--28951496 Score: 145
Period size: 9 Copynumber: 17.6 Consensus size: 9
28951320 ATTGATCATT
*
28951330 ACTTAAATA
1 ACTTACATA
*
28951339 AATTACATA
1 ACTTACATA
28951348 ACTTACATA
1 ACTTACATA
* *
28951357 ACTCATATA
1 ACTTACATA
28951366 ACTTACATA
1 ACTTACATA
*
28951375 ATTTACATAACA
1 ACTTACAT---A
28951387 ACTTACATA
1 ACTTACATA
*
28951396 ACTCACATA
1 ACTTACATA
28951405 ACTTACATA
1 ACTTACATA
*
28951414 ATTTACATAACA
1 ACTTACAT---A
28951426 ACTTACATA
1 ACTTACATA
**
28951435 ACTCGCATA
1 ACTTACATA
28951444 ACTTACATA
1 ACTTACATA
*
28951453 ATTTACATA
1 ACTTACATA
*
28951462 ACTCACATA
1 ACTTACATA
*
28951471 ACGTACATAACA
1 ACTTACAT---A
28951483 ACTTACATA
1 ACTTACATA
28951492 ACTTA
1 ACTTA
28951497 ACTAATACAT
Statistics
Matches: 126, Mismatches: 23, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
9 102 0.81
12 24 0.19
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:28951399 original size:39 final size:39
Alignment explanation
Indices: 28951347--28951463 Score: 216
Period size: 39 Copynumber: 3.0 Consensus size: 39
28951337 TAAATTACAT
*
28951347 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
28951386 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
*
28951425 AACTTACATAACTCGCATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
28951464 TCACATAACG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:28951447 original size:57 final size:57
Alignment explanation
Indices: 28951386--28951494 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 57
28951376 TTTACATAAC
* **
28951386 AACTTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAACTCGCAT
1 AACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTCGCAT
* *
28951443 AACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 AACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
28951495 TAACTAATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.29
Consensus pattern (57 bp):
AACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTCGCAT
Found at i:28951492 original size:39 final size:37
Alignment explanation
Indices: 28951330--28951481 Score: 193
Period size: 39 Copynumber: 4.1 Consensus size: 37
28951320 ATTGATCATT
* * *
28951330 ACTTAAATAAATTACAT-AACTTACATAACTCATATA
1 ACTTACATAATTTACATAAACTTACATAACTCACATA
28951366 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
*
28951405 ACTTACATAATTTACATAACAACTTACATAACTCGCATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
*
28951444 ACTTACATAATTTACAT-AACTCACATAACGT-ACATA
1 ACTTACATAATTTACATAAACTTACATAAC-TCACATA
28951480 AC
1 AC
28951482 AACTTACATA
Statistics
Matches: 106, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
36 32 0.30
37 1 0.01
39 73 0.69
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (37 bp):
ACTTACATAATTTACATAAACTTACATAACTCACATA
Found at i:28951495 original size:48 final size:47
Alignment explanation
Indices: 28951341--28951496 Score: 177
Period size: 48 Copynumber: 3.3 Consensus size: 47
28951331 CTTAAATAAA
* * *
28951341 TTACATAACTTACATAACTCATATAACTTACATAATTTACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAA-CTACATAACAAC
* * * * *
28951389 TTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACTACATA-ACAAC
** * *
28951437 TCGCATAACTTACATAATTTACATAACTCACATAACGTACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAAC-TACATAACAAC
28951485 TTACATAACTTA
1 TTACATAACTTA
28951497 ACTAATACAT
Statistics
Matches: 87, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
47 4 0.05
48 79 0.91
49 4 0.05
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.31
Consensus pattern (47 bp):
TTACATAACTTACATAACTTACATAACTTACATAACTACATAACAAC
Found at i:28957401 original size:43 final size:42
Alignment explanation
Indices: 28957338--28957626 Score: 255
Period size: 43 Copynumber: 6.8 Consensus size: 42
28957328 ACTGGGCAAA
* * * *
28957338 TTAGCGGCATTTTTTAAAAAAGCGCTGCTAAAGACCAGGACTT
1 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGTCCAGGTC-T
* * **** *
28957381 TTAGCGGCGCTTTTTTAAAAAA--ACCACTAAAAAATAGGACTT
1 TTAGCGGCG-TTTTTTAAAAAAGCGCCGCTAAAGTCCAGGTC-T
* * *
28957423 TTAGCGGAGTTTTTTAAAAAAGCGCTGCTAAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTAAAAAAGCGCCGCT-AAAGTCCAGGTCT
* * * * *
28957466 TTAACGGCGTTTTTTATATAAGCGTCGCTATAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTA-AAGTCCAGGTCT
*
28957509 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCTA-GTCA
1 TTAGCGGCGTTTTTTAAAAAAGCGCCGCT-AAAGTCC-AGGTCT
* *
28957552 TTAGCGGCGTTTTTT-AAAAAGTGCCGCTAAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTAAAAAAGCGCCGCT-AAAGTCCAGGTCT
28957594 TTAGCGGCGTTTTTTCAACAAAA-CGCCGCTAAA
1 TTAGCGGCGTTTTTT-AA-AAAAGCGCCGCTAAA
28957627 ATACATATAG
Statistics
Matches: 202, Mismatches: 33, Indels: 22
0.79 0.13 0.09
Matches are distributed among these distances:
41 12 0.06
42 61 0.30
43 99 0.49
44 26 0.13
45 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGTCCAGGTCT
Found at i:28957608 original size:85 final size:86
Alignment explanation
Indices: 28957422--28957627 Score: 299
Period size: 86 Copynumber: 2.4 Consensus size: 86
28957412 AAATAGGACT
* * * * *
28957422 TTTAGCGGAGTTTTTTAAAAAAGCGCTGCTAAAAGTCCTGGTCTTTAACGGCGTTTTTTATATAA
1 TTTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCTAGTCATTAACGGCGTTTTTTATAAAA
* *
28957487 GCGTCGCTATAAGTCCTGGTC
66 GCGCCGCTAAAAGTCCTGGTC
*
28957508 TTTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCTAGTCATTAGCGGCGTTTTTTA-AAAA
1 TTTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCTAGTCATTAACGGCGTTTTTTATAAAA
*
28957572 GTGCCGCTAAAAGTCCTGGTC
66 GCGCCGCTAAAAGTCCTGGTC
28957593 TTTAGCGGCGTTTTTTCAACAAAA-CGCCGCTAAAA
1 TTTAGCGGCGTTTTTT-AA-AAAAGCGCCGCTAAAA
28957628 TACATATAGT
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
85 37 0.34
86 68 0.62
87 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (86 bp):
TTTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCTAGTCATTAACGGCGTTTTTTATAAAA
GCGCCGCTAAAAGTCCTGGTC
Found at i:28958575 original size:27 final size:27
Alignment explanation
Indices: 28958545--28958602 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
28958535 CCTACCAAGA
*
28958545 AGGCACAACTAGTCGTGCCTGTCAGAT
1 AGGCACAACTAGTCGAGCCTGTCAGAT
* *
28958572 AGGCTCAACTAGTTGAGCCTGTCAGAT
1 AGGCACAACTAGTCGAGCCTGTCAGAT
28958599 AGGC
1 AGGC
28958603 GCAAAATGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (27 bp):
AGGCACAACTAGTCGAGCCTGTCAGAT
Found at i:28966386 original size:35 final size:35
Alignment explanation
Indices: 28966359--28966449 Score: 173
Period size: 35 Copynumber: 2.6 Consensus size: 35
28966349 CATGGCAAAG
*
28966359 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
28966394 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
28966429 TGTGAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
28966450 TATCAAATCC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 55 1.00
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:28966449 original size:40 final size:39
Alignment explanation
Indices: 28966370--28966486 Score: 129
Period size: 40 Copynumber: 3.1 Consensus size: 39
28966360 GTGAAATGTA
28966370 GGTATGGTATCATCCATACTGAGTTGTGAAA-T--GTA-
1 GGTATGGTATCATCCATACTGAGTTGTGAAATTAGGTAT
*
28966405 GGTATGGTATCATCCATACTGAGCTGTGAAATGTAGGTAT
1 GGTATGGTATCATCCATACTGAGTTGTGAAAT-TAGGTAT
**
28966445 GGTAT--TATCAAATCCATACTGAGTTAAGAAATATAGGTAT
1 GGTATGGTATC--ATCCATACTGAGTTGTGAAAT-TAGGTAT
28966485 GG
1 GG
28966487 CATTTCCCAG
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
35 30 0.43
37 1 0.01
38 4 0.06
39 3 0.04
40 32 0.46
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (39 bp):
GGTATGGTATCATCCATACTGAGTTGTGAAATTAGGTAT
Found at i:28966482 original size:75 final size:75
Alignment explanation
Indices: 28966359--28966529 Score: 194
Period size: 75 Copynumber: 2.4 Consensus size: 75
28966349 CATGGCAAAG
** * *
28966359 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATCAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATATAGGTATGGCAT-ATC
* *
28966418 CCATACTGAGC
65 CCAGACCGAGC
*
28966429 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATATAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATATAGGTATGGCATATCC
*
28966494 CAGACCGAGT
66 CAGACCGAGC
**
28966504 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
28966530 CGAGGAAAAC
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 58 0.68
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATATAGGTATGGCATATCC
CAGACCGAGC
Found at i:28970555 original size:25 final size:25
Alignment explanation
Indices: 28970517--28970575 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
28970507 CTTATCCCAG
* *
28970517 TTAAACTTTGTTTTTACTTTC-CTAC
1 TTAAACTCTATTTTTACTTTCAC-AC
*
28970542 TTAAACTCTATTTTTAGTTTCACAC
1 TTAAACTCTATTTTTACTTTCACAC
28970567 TTAAACTCT
1 TTAAACTCT
28970576 GATTAGTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 29 0.97
26 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.03, T:0.51
Consensus pattern (25 bp):
TTAAACTCTATTTTTACTTTCACAC
Found at i:28973103 original size:46 final size:46
Alignment explanation
Indices: 28973052--28973504 Score: 593
Period size: 46 Copynumber: 9.8 Consensus size: 46
28973042 GTGTGCTCTC
* * *
28973052 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
28973098 TGATATAAAATGTGTAAGACCATGGTTGAAACATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
28973144 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
28973190 TGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
28973237 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
28973283 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* **
28973329 TGACATGAAATGAGTAAGACTTTGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
28973375 TGACAGGAAAATGAATAAGACCATGGTTGAAAGAAACCATGGCAACA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** *
28973422 TGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
28973469 TGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
28973505 TATGACATCA
Statistics
Matches: 367, Mismatches: 38, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
46 242 0.66
47 125 0.34
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:28973316 original size:139 final size:138
Alignment explanation
Indices: 28973060--28973504 Score: 640
Period size: 139 Copynumber: 3.2 Consensus size: 138
28973050 TCTGATATGG
* * *
28973060 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTT
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTT
* * *
28973125 GAAACATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
66 GAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
28973190 TGACGGGAA
131 TGAC-AGAA
* *
28973199 AATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGTGTAAGACCATGGTT
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTT
*
28973264 GAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
66 GAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
28973329 TGACATG-A
131 TGACA-GAA
** * * **
28973337 AATGAGTAAGACTTTGGTTGAAAGATACCATGGCAACATGACAGGAAAATGAATAAGACCATGGT
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGTGTAAGACCATGGT
* ***
28973402 TGAAAGAAACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
65 TGAAAGATACCATGGCAACATGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
28973467 CATGACAGAA
129 CATGACAGAA
* * *
28973477 AACGAGTAAAACCATAGTTGAAAGATAC
1 AATGAGTAAGACCATGGTTGAAAGATAC
28973505 TATGACATCA
Statistics
Matches: 275, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
138 40 0.15
139 168 0.61
140 67 0.24
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (138 bp):
AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTT
GAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
TGACAGAA
Found at i:28973364 original size:185 final size:185
Alignment explanation
Indices: 28973052--28973504 Score: 692
Period size: 185 Copynumber: 2.4 Consensus size: 185
28973042 GTGTGCTCTC
* * * *
28973052 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAAGA
* *
28973117 CCATGGTTGAAACATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCA
66 CCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCA
* * *
28973182 TGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
131 TGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGAAACCATGGCAACA
*
28973237 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAAGA
**
28973302 CCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACTTTGGTTGAAAGATACCA
66 CCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCA
28973367 TGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGAAACCATGGCAACA
131 TGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGAAACCATGGCAACA
*** ** * *
28973422 TGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAACGAGTAA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGAGTAA
* *
28973486 AACCATAGTTGAAAGATAC
64 GACCATGGTTGAAAGATAC
28973505 TATGACATCA
Statistics
Matches: 244, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
185 178 0.73
186 66 0.27
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (185 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAAGA
CCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCA
TGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGAAACCATGGCAACA
Found at i:28978794 original size:24 final size:23
Alignment explanation
Indices: 28978751--28978796 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
28978741 AGAAATTTTA
**
28978751 ATCAGGAAGCTCACGTAGAGCCT
1 ATCAGGAAGCTCACAAAGAGCCT
28978774 ATCAGGAATGCTCACAAAGAGCC
1 ATCAGGAA-GCTCACAAAGAGCC
28978797 ATGTAACAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (23 bp):
ATCAGGAAGCTCACAAAGAGCCT
Found at i:28980259 original size:11 final size:10
Alignment explanation
Indices: 28980243--28980277 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
28980233 TTTACATACG
28980243 AAAATAATAA
1 AAAATAATAA
28980253 TAAAATAATAA
1 -AAAATAATAA
28980264 AATAATAATAA
1 AA-AATAATAA
28980275 AAA
1 AAA
28980278 CATACCTCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.13
11 20 0.87
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AAAATAATAA
Found at i:28981317 original size:15 final size:15
Alignment explanation
Indices: 28981275--28981318 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 15
28981265 TTTTACATGA
28981275 TATTTTAAATTAC--
1 TATTTTAAATTACTT
*
28981288 T-TTTTAAGTTA-TT
1 TATTTTAAATTACTT
28981301 TATTTTAAATTACTT
1 TATTTTAAATTACTT
28981316 TAT
1 TAT
28981319 ATATTCTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 9 0.36
13 2 0.08
14 9 0.36
15 5 0.20
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTTTAAATTACTT
Found at i:28981607 original size:33 final size:32
Alignment explanation
Indices: 28981546--28981608 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
28981536 TAAGATTCTT
*
28981546 TATATTATTTATTTCACACTTTTATATATACA
1 TATATTATTTATTTAACACTTTTATATATACA
* *
28981578 TATATTATTTATTTTAATATTTTTATATATA
1 TATATTATTTA-TTTAACACTTTTATATATA
28981609 ATCCTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (32 bp):
TATATTATTTATTTAACACTTTTATATATACA
Found at i:28986815 original size:2 final size:2
Alignment explanation
Indices: 28986808--28986837 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
28986798 ATTTGTTTTA
28986808 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
28986838 TTTAAACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28990501 original size:33 final size:33
Alignment explanation
Indices: 28990464--28990539 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
28990454 AATGTATAAA
*
28990464 ATATTAT-TTATTATTTTATATTAA-TATTAATAT
1 ATATTATATTA-TAATTTATA-TAATTATTAATAT
*
28990497 ATATTATATTATAATTTATATAATTTTTAATAT
1 ATATTATATTATAATTTATATAATTATTAATAT
*
28990530 GTATTATATT
1 ATATTATATT
28990540 TCGATATATG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 3 0.08
33 32 0.84
34 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (33 bp):
ATATTATATTATAATTTATATAATTATTAATAT
Found at i:28990517 original size:21 final size:21
Alignment explanation
Indices: 28990468--28990539 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
28990458 TATAAAATAT
*
28990468 TATTTAT-TATTTTATATTAA
1 TATTTATATATATTATATTAA
*
28990488 TATTAATATATATTATATT-A
1 TATTTATATATATTATATTAA
28990508 TAATTTATATA-ATT-T-TTAA
1 T-ATTTATATATATTATATTAA
*
28990527 TATGTAT-TATATT
1 TATTTATATATATT
28990540 TCGATATATG
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.05
18 10 0.23
19 3 0.07
20 11 0.25
21 18 0.41
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (21 bp):
TATTTATATATATTATATTAA
Found at i:28991235 original size:9 final size:9
Alignment explanation
Indices: 28991223--28991349 Score: 71
Period size: 9 Copynumber: 13.7 Consensus size: 9
28991213 ATAAAAATGC
28991223 AAAAATTAT
1 AAAAATTAT
28991232 AAAAA-TAT
1 AAAAATTAT
* * * *
28991240 TATAATGAC
1 AAAAATTAT
28991249 AAAAATTTAT
1 AAAAA-TTAT
*
28991259 ATAAATTAT
1 AAAAATTAT
*
28991268 AAAATTTATT
1 AAAAATTA-T
28991278 AAAAA-TAT
1 AAAAATTAT
* *
28991286 ATAAATTACA
1 AAAAATTA-T
28991296 AAAATATTTAT
1 AAAA-A-TTAT
* *
28991307 ATAATTTAT
1 AAAAATTAT
28991316 GAAAAATTAT
1 -AAAAATTAT
28991326 AAAAA-TAT
1 AAAAATTAT
*
28991334 AAGAATTAT
1 AAAAATTAT
28991343 GAAAAAT
1 -AAAAAT
28991350 ATTTTATAAT
Statistics
Matches: 86, Mismatches: 22, Indels: 19
0.68 0.17 0.15
Matches are distributed among these distances:
8 18 0.21
9 35 0.41
10 26 0.30
11 4 0.05
12 3 0.03
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:28991239 original size:25 final size:28
Alignment explanation
Indices: 28991210--28991271 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 28
28991200 TAAAAAAATT
28991210 AATATAAAAATG-CAAAAA-TTATA-AA
1 AATATAAAAATGACAAAAATTTATATAA
* *
28991235 AATATTATAATGACAAAAATTTATATAA
1 AATATAAAAATGACAAAAATTTATATAA
*
28991263 ATTATAAAA
1 AATATAAAA
28991272 TTTATTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 10 0.34
26 6 0.21
27 5 0.17
28 8 0.28
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (28 bp):
AATATAAAAATGACAAAAATTTATATAA
Found at i:28991263 original size:46 final size:47
Alignment explanation
Indices: 28991202--28991333 Score: 146
Period size: 46 Copynumber: 2.8 Consensus size: 47
28991192 AATTTTTTTA
* *
28991202 AAAAAATTAATATAAAAATGCAAAAATTATAAAAATATTAT-AATGAC
1 AAAAAATTTATATAAATATG-AAAAATTATAAAAATATTATAAATGAC
* *
28991249 -AAAAATTTATATAAATTAT-AAAATTTATTAAAAATA-TATAAATTAC
1 AAAAAATTTATATAAA-TATGAAAAATTA-TAAAAATATTATAAATGAC
*
28991295 AAAAATATTTATATAATTTATGAAAAATTATAAAAATAT
1 AAAAA-ATTTATATAA-ATATGAAAAATTATAAAAATAT
28991334 AAGAATTATG
Statistics
Matches: 71, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
45 10 0.14
46 27 0.38
47 6 0.08
48 21 0.30
49 7 0.10
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (47 bp):
AAAAAATTTATATAAATATGAAAAATTATAAAAATATTATAAATGAC
Found at i:28991334 original size:48 final size:48
Alignment explanation
Indices: 28991223--28991359 Score: 160
Period size: 48 Copynumber: 2.9 Consensus size: 48
28991213 ATAAAAATGC
* * *
28991223 AAAAATTATAAAAATAT-TATAATGAC-AAAA-ATTTATATAAATTAT
1 AAAAATTATAAAAATATATAGAATTACAAAAATATTTATATAATTTAT
*
28991268 AAAATTTATTAAAAATATATA-AATTACAAAAATATTTATATAATTTAT
1 AAAAATTA-TAAAAATATATAGAATTACAAAAATATTTATATAATTTAT
*
28991316 GAAAAATTATAAAAATATA-AGAATTATGAAAAATATTT-TATAAT
1 -AAAAATTATAAAAATATATAGAATTA-CAAAAATATTTATATAAT
28991360 ACAGAAAATT
Statistics
Matches: 80, Mismatches: 5, Indels: 11
0.83 0.05 0.11
Matches are distributed among these distances:
45 7 0.09
46 14 0.17
47 7 0.09
48 35 0.44
49 17 0.21
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.37
Consensus pattern (48 bp):
AAAAATTATAAAAATATATAGAATTACAAAAATATTTATATAATTTAT
Found at i:28991401 original size:25 final size:26
Alignment explanation
Indices: 28991364--28991413 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
28991354 TATAATACAG
*
28991364 AAAATTAATAAAACATTT-TAAAAAT
1 AAAATTAACAAAACATTTATAAAAAT
* *
28991389 AAAATTTACAAAATATTTATAAAAA
1 AAAATTAACAAAACATTTATAAAAA
28991414 GCACAAAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (26 bp):
AAAATTAACAAAACATTTATAAAAAT
Found at i:28991955 original size:16 final size:16
Alignment explanation
Indices: 28991930--28991960 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28991920 TTTGTGCACT
28991930 TTTTTATATTTTTTAA
1 TTTTTATATTTTTTAA
*
28991946 TTTTTCTATTTTTTA
1 TTTTTATATTTTTTA
28991961 TAATCTCTAT
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:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTATATTTTTTAA
Found at i:28994191 original size:25 final size:25
Alignment explanation
Indices: 28994160--28994211 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
28994150 CTAATTTATC
* *
28994160 CTTTCTTTCTT-TCCCTTTTTCTTTT
1 CTTTCTTT-TTCTCCCTGTTTCGTTT
28994185 CTTTCTTTTTCTCCCTGTTTCGTTT
1 CTTTCTTTTTCTCCCTGTTTCGTTT
28994210 CT
1 CT
28994212 ATTATATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.00, C:0.29, G:0.04, T:0.67
Consensus pattern (25 bp):
CTTTCTTTTTCTCCCTGTTTCGTTT
Found at i:28999136 original size:29 final size:30
Alignment explanation
Indices: 28999071--28999137 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
28999061 TTTTAATTTT
* *
28999071 ATTTGATTCATTTTAATAGTATAATAACTA
1 ATTTGATCCATTTTAATAGTAGAATAACTA
** *
28999101 AAGTGATCCA-TTTAATAGTAGAATGACTA
1 ATTTGATCCATTTTAATAGTAGAATAACTA
28999130 ATTTGATC
1 ATTTGATC
28999138 AGGTCCATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (30 bp):
ATTTGATCCATTTTAATAGTAGAATAACTA
Found at i:29000018 original size:30 final size:30
Alignment explanation
Indices: 28999976--29000050 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
28999966 TATACTTTTG
*
28999976 TTATATCCAAATAAGCCCTTACTC-TTTAA
1 TTATATCCAAATAAGCCCTTAATCTTTTAA
*
29000005 TTGATATTCAAATAAGCCCTTAATCTTTTAA
1 TT-ATATCCAAATAAGCCCTTAATCTTTTAA
*
29000036 TTATATCCAATTAAG
1 TTATATCCAAATAAG
29000051 TTATTATGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.05
30 31 0.77
31 7 0.17
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (30 bp):
TTATATCCAAATAAGCCCTTAATCTTTTAA
Found at i:29001350 original size:16 final size:16
Alignment explanation
Indices: 29001331--29001362 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29001321 TATTATGATC
*
29001331 CCATGTTATTGAGTCA
1 CCATGATATTGAGTCA
29001347 CCATGATATTGAGTCA
1 CCATGATATTGAGTCA
29001363 TTCATCCGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (16 bp):
CCATGATATTGAGTCA
Found at i:29019486 original size:2 final size:2
Alignment explanation
Indices: 29019479--29019505 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
29019469 TGTAATCTTT
29019479 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
29019506 TTGTGTATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29022308 original size:18 final size:17
Alignment explanation
Indices: 29022275--29022311 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
29022265 TTAAAAAATG
*
29022275 TAATTATTCAATTACTA
1 TAATTATTAAATTACTA
29022292 TAATTATTAATATTACTA
1 TAATTATTAA-ATTACTA
29022310 TA
1 TA
29022312 CAGAGGCGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATTATTAAATTACTA
Found at i:29022394 original size:10 final size:9
Alignment explanation
Indices: 29022359--29022401 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
29022349 CCTTAAAATG
29022359 TAAAATTTT
1 TAAAATTTT
29022368 TATTTAAATTTT
1 TA---AAATTTT
29022380 TAAAATTTT
1 TAAAATTTT
*
29022389 TAAAAATTT
1 TAAAATTTT
29022398 TAAA
1 TAAA
29022402 TTAATAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 21 0.70
12 9 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TAAAATTTT
Found at i:29035471 original size:15 final size:15
Alignment explanation
Indices: 29035451--29035483 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
29035441 CTCGAGGAGA
*
29035451 AACAGAGACTTGCTG
1 AACAGAAACTTGCTG
29035466 AACAGAAACTTGCTG
1 AACAGAAACTTGCTG
29035481 AAC
1 AAC
29035484 CTGAAATGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (15 bp):
AACAGAAACTTGCTG
Found at i:29037966 original size:17 final size:17
Alignment explanation
Indices: 29037946--29037984 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
29037936 TTGGGTAGAT
29037946 TGGGGGGTTGGGAGGGG
1 TGGGGGGTTGGGAGGGG
29037963 TGGGGGGTTGGGAGGGG
1 TGGGGGGTTGGGAGGGG
*
29037980 AGGGG
1 TGGGG
29037985 AGTAAAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.08, C:0.00, G:0.77, T:0.15
Consensus pattern (17 bp):
TGGGGGGTTGGGAGGGG
Found at i:29047657 original size:23 final size:22
Alignment explanation
Indices: 29047622--29047665 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
29047612 ATCCCTTAAA
* *
29047622 TGTAATAATTTTAATTATATTTC
1 TGTAATAAATTT-ATTAGATTTC
*
29047645 TGTAGTAAATTTATTAGATTT
1 TGTAATAAATTTATTAGATTT
29047666 AAAAAGCTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (22 bp):
TGTAATAAATTTATTAGATTTC
Found at i:29048801 original size:28 final size:28
Alignment explanation
Indices: 29048761--29048816 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
29048751 CTTGTTTAGA
29048761 GAATTTAGTTTGTAAACAATGTAAAGTT
1 GAATTTAGTTTGTAAACAATGTAAAGTT
29048789 GAATTTAGTTTGTAAACAATGTAAAGTT
1 GAATTTAGTTTGTAAACAATGTAAAGTT
29048817 ATTCTTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (28 bp):
GAATTTAGTTTGTAAACAATGTAAAGTT
Found at i:29050518 original size:13 final size:13
Alignment explanation
Indices: 29050500--29050546 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
29050490 TGCGAATCGA
29050500 TTTTCTTTCTTTT-
1 TTTTCTTT-TTTTC
29050513 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
29050526 TTTTC-TTTTTTC
1 TTTTCTTTTTTTC
*
29050538 TTTCCTTTT
1 TTTTCTTTT
29050547 CCTATTCGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 15 0.48
13 16 0.52
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:29050545 original size:17 final size:16
Alignment explanation
Indices: 29050500--29050547 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
29050490 TGCGAATCGA
*
29050500 TTTTCTTTCTTTTTTT
1 TTTTCTTTCTTTTCTT
*
29050516 TCTTTTTTTCTTTTCTT
1 T-TTTCTTTCTTTTCTT
29050533 TTTTCTTTCCTTTTC
1 TTTTCTTT-CTTTTC
29050548 CTATTCGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 7 0.26
17 20 0.74
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTCTTTCTTTTCTT
Found at i:29050742 original size:20 final size:19
Alignment explanation
Indices: 29050690--29050744 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
29050680 CAGTCCCCCA
29050690 CTCTCCTTTC-CTCTCTTC
1 CTCTCCTTTCTCTCTCTTC
* *
29050708 CTCCTCCCTCCTCTCTCTTC
1 CT-CTCCTTTCTCTCTCTTC
29050728 CTCTCCTTTCT-TCTCTT
1 CTCTCCTTTCTCTCTCTT
29050745 TTTTTTCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 8 0.26
19 13 0.42
20 10 0.32
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (19 bp):
CTCTCCTTTCTCTCTCTTC
Found at i:29051283 original size:12 final size:12
Alignment explanation
Indices: 29051266--29051296 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
29051256 TAATATTTAT
29051266 ATTATTACTATC
1 ATTATTACTATC
*
29051278 ATTATTATTATC
1 ATTATTACTATC
29051290 ATTATTA
1 ATTATTA
29051297 GTATAGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATTACTATC
Found at i:29051455 original size:14 final size:14
Alignment explanation
Indices: 29051438--29051468 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
29051428 CAATATTGTA
29051438 TTTTATATATATAT
1 TTTTATATATATAT
*
29051452 TTTTATGTATATAT
1 TTTTATATATATAT
29051466 TTT
1 TTT
29051469 AACACTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (14 bp):
TTTTATATATATAT
Found at i:29051526 original size:19 final size:19
Alignment explanation
Indices: 29051504--29051540 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29051494 ATACTATTTA
* *
29051504 TATATTTTTAATATCATTG
1 TATATTTCTAACATCATTG
29051523 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
29051541 ATTATTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.54
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:29052132 original size:25 final size:25
Alignment explanation
Indices: 29052104--29052152 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
29052094 TATTTTTTTT
* *
29052104 TATGTACATATTTTTAATACTATTC
1 TATGTACACACTTTTAATACTATTC
* *
29052129 TATGTATACACTTTTAATATTATT
1 TATGTACACACTTTTAATACTATT
29052153 ATATATTTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (25 bp):
TATGTACACACTTTTAATACTATTC
Found at i:29052157 original size:21 final size:22
Alignment explanation
Indices: 29052133--29052181 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
29052123 CTATTCTATG
29052133 TATA-CACTTTTAATATTATTA
1 TATATCACTTTTAATATTATTA
*
29052154 TATATTTACTTTTAATATTATTA
1 TATA-TCACTTTTAATATTATTA
29052177 TATAT
1 TATAT
29052182 ACACGTCATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 4 0.16
22 1 0.04
23 20 0.80
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (22 bp):
TATATCACTTTTAATATTATTA
Found at i:29052168 original size:23 final size:23
Alignment explanation
Indices: 29052138--29052181 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
29052128 CTATGTATAC
29052138 ACTTTTAATATTATTATATATTT
1 ACTTTTAATATTATTATATATTT
29052161 ACTTTTAATATTATTATATAT
1 ACTTTTAATATTATTATATAT
29052182 ACACGTCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (23 bp):
ACTTTTAATATTATTATATATTT
Found at i:29052303 original size:24 final size:24
Alignment explanation
Indices: 29052261--29052306 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
29052251 TTTTTTTTAC
*
29052261 TACATTATACATGTATTTTAATGT
1 TACATTATACATATATTTTAATGT
* *
29052285 TACATTATATATATTTTTTAAT
1 TACATTATACATATATTTTAAT
29052307 ATAGGTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (24 bp):
TACATTATACATATATTTTAATGT
Found at i:29052392 original size:3 final size:3
Alignment explanation
Indices: 29052384--29052418 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
29052374 TATCATTGGT
*
29052384 TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
29052419 CTCGCTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:29058297 original size:13 final size:13
Alignment explanation
Indices: 29058261--29058317 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 13
29058251 TTATCGTTAC
*
29058261 TATTTTTATTACTT
1 TATTATTATTA-TT
29058275 TATTATTATTATT
1 TATTATTATTATT
29058288 TA-TATATATTA-T
1 TATTAT-TATTATT
*
29058300 TATTATTACTATT
1 TATTATTATTATT
29058313 GTATT
1 -TATT
29058318 TCACTGTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 10 0.27
13 13 0.35
14 14 0.38
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (13 bp):
TATTATTATTATT
Found at i:29060868 original size:67 final size:67
Alignment explanation
Indices: 29060760--29060955 Score: 311
Period size: 67 Copynumber: 2.9 Consensus size: 67
29060750 ATTTGAGAAA
29060760 GAAACTATATTGCTTCGTGTAGGAATAGCAATTTCGGAATCGGAGTAATTTGCTTCATTATCAAA
1 GAAACTATATTGCTTCGTGTAGGAATAGCAATTTCGGAATCGGAGTAATTTGCTTCATTATCAAA
29060825 CG
66 CG
*
29060827 GAAACTATATTGCTTCGTGTATGAATAGCAATTTCGGAATCGGAGTAATTTGCTTCATTATCAAA
1 GAAACTATATTGCTTCGTGTAGGAATAGCAATTTCGGAATCGGAGTAATTTGCTTCATTATCAAA
29060892 CG
66 CG
* * * * * * * *
29060894 GAAACTATATTGCTTTGTGTAGGAATAGCAGTTCCAGAATCTGAATCATTTGCTTCACTATC
1 GAAACTATATTGCTTCGTGTAGGAATAGCAATTTCGGAATCGGAGTAATTTGCTTCATTATC
29060956 TCTCTACATC
Statistics
Matches: 119, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 119 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (67 bp):
GAAACTATATTGCTTCGTGTAGGAATAGCAATTTCGGAATCGGAGTAATTTGCTTCATTATCAAA
CG
Found at i:29065386 original size:15 final size:14
Alignment explanation
Indices: 29065368--29065397 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
29065358 TTTTTAATAT
29065368 AAATTTTATAATAAA
1 AAATTTTA-AATAAA
29065383 AAATTTTAAATAAA
1 AAATTTTAAATAAA
29065397 A
1 A
29065398 TAAATAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATTTTAAATAAA
Found at i:29065568 original size:22 final size:21
Alignment explanation
Indices: 29065522--29065572 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
29065512 TATCTTTCTT
*
29065522 TTAAAATTATCTAAAATAATA
1 TTAAAATTATATAAAATAATA
*
29065543 -TAAAATTTTATAACAATAATA
1 TTAAAATTATATAA-AATAATA
29065564 TTAAAATTA
1 TTAAAATTA
29065573 AAATATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 11 0.44
21 7 0.28
22 7 0.28
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAATTATATAAAATAATA
Found at i:29067069 original size:13 final size:13
Alignment explanation
Indices: 29067030--29067077 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
29067020 TATTTAAGAT
29067030 TTTAATATATTTTA
1 TTTAAT-TATTTTA
* * *
29067044 TTTTATAAATTTA
1 TTTAATTATTTTA
29067057 TTTAATTATTTTA
1 TTTAATTATTTTA
*
29067070 ATTAATTA
1 TTTAATTA
29067078 ACTAATTATA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 22 0.81
14 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTAATTATTTTA
Found at i:29068531 original size:20 final size:19
Alignment explanation
Indices: 29068499--29068551 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
29068489 TTTAATATTT
* *
29068499 AAAATTTAAAAAAAATTATT
1 AAAATTTTAAAAAAA-TATA
*
29068519 AACATTATTAAAAAAATATA
1 AAAATT-TTAAAAAAATATA
29068539 AAAATTTTAAAAA
1 AAAATTTTAAAAA
29068552 TTTAAAGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 7 0.25
20 13 0.46
21 8 0.29
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATTTTAAAAAAATATA
Found at i:29069113 original size:7 final size:7
Alignment explanation
Indices: 29069101--29069130 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
29069091 TGCAATACTC
29069101 AAATTTA
1 AAATTTA
29069108 AAATTTA
1 AAATTTA
29069115 AAATTTA
1 AAATTTA
29069122 AAATATTA
1 AAAT-TTA
29069130 A
1 A
29069131 TTTTTTATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATTTA
Found at i:29072133 original size:33 final size:33
Alignment explanation
Indices: 29072096--29072236 Score: 178
Period size: 33 Copynumber: 4.3 Consensus size: 33
29072086 CTTTACTTTT
* *
29072096 CTCACCTGCCTTTTTAATGGATTCACC-TTCTCC
1 CTCACCTGCATTTTCAATGGATTCACCTTTC-CC
* *
29072129 CTCACCTGGATTTTCAATGGATTCACCCTTCCC
1 CTCACCTGCATTTTCAATGGATTCACCTTTCCC
* * *
29072162 CTCACCTGC-TTTTGCAGTGGATTTACGTTTCCC
1 CTCACCTGCATTTT-CAATGGATTCACCTTTCCC
*
29072195 CTCACCTGGATTTTCAATGGATTCACCTTTCCC
1 CTCACCTGCATTTTCAATGGATTCACCTTTCCC
29072228 CTCACCTGC
1 CTCACCTGC
29072237 TGCTACAGGT
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
32 4 0.04
33 81 0.88
34 7 0.08
ACGTcount: A:0.16, C:0.35, G:0.13, T:0.36
Consensus pattern (33 bp):
CTCACCTGCATTTTCAATGGATTCACCTTTCCC
Found at i:29078957 original size:3 final size:3
Alignment explanation
Indices: 29078949--29078988 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
29078939 TTTTTTACCC
29078949 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
29078989 CCAAAATGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:29080474 original size:12 final size:12
Alignment explanation
Indices: 29080457--29080489 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
29080447 AAACTTGTTT
29080457 AATCAAATTTTC
1 AATCAAATTTTC
29080469 AATCAAATTTTC
1 AATCAAATTTTC
29080481 AATCAAATT
1 AATCAAATT
29080490 CATTCAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.39
Consensus pattern (12 bp):
AATCAAATTTTC
Found at i:29081312 original size:13 final size:13
Alignment explanation
Indices: 29081294--29081318 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29081284 TATAAACACC
29081294 AAAAATATTTTTG
1 AAAAATATTTTTG
29081307 AAAAATATTTTT
1 AAAAATATTTTT
29081319 CTAACTCGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
AAAAATATTTTTG
Found at i:29081513 original size:21 final size:21
Alignment explanation
Indices: 29081488--29081535 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
29081478 GGTTTTAAGG
29081488 TTAGGGTTTTACTAAAATAAT
1 TTAGGGTTTTACTAAAATAAT
* **
29081509 TTAGGTTTTTGTTAAAATAAT
1 TTAGGGTTTTACTAAAATAAT
29081530 TTAGGG
1 TTAGGG
29081536 CTAAGAGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (21 bp):
TTAGGGTTTTACTAAAATAAT
Found at i:29082256 original size:127 final size:128
Alignment explanation
Indices: 29082069--29082388 Score: 385
Period size: 128 Copynumber: 2.5 Consensus size: 128
29082059 AACGGATAAC
* * * * * * ** *
29082069 CGAAACCCAGCATGGTAGAGCACGATTCCTCAAACTTCCAAACATTGAACATTGCCTTGTTTTAG
1 CGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATAAAACATCGCCTTGTTTTAG
* * * * *
29082134 AATTTA-AAGAATACGAATGAAATTCTAAAGGAATATTTGATTATTTTGAACAAA-TGAGAAAT
66 AATTTAGAAAAATACGAATAAAATTCTAAAGGAAGATTCGATTATTTTGAACAAACAG-GAAAT
* * *
29082196 CGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAGCATCAAACATCGCTTTGTTTTAG
1 CGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATAAAACATCGCCTTGTTTTAG
* * *
29082261 AATTTAGAAAAATACGAGTAAAATTCTAAAGGAAGGTTCGATTATTTTGAGCAAACAGGAAAT
66 AATTTAGAAAAATACGAATAAAATTCTAAAGGAAGATTCGATTATTTTGAACAAACAGGAAAT
* * *
29082324 CGAAACCCAGCACGGTTA-GGCACGATTTCCCGAATTTCCAAACATAAAACATTGCCTTCGTTTT
1 CGAAACCCAGCAC-GATAGGGCACGATTCCCCGAATTTCCAAACATAAAACATCGCCTT-GTTTT
29082388 A
64 A
29082389 AGGAATTTTT
Statistics
Matches: 164, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
127 60 0.37
128 94 0.57
129 10 0.06
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (128 bp):
CGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATAAAACATCGCCTTGTTTTAG
AATTTAGAAAAATACGAATAAAATTCTAAAGGAAGATTCGATTATTTTGAACAAACAGGAAAT
Found at i:29087891 original size:14 final size:14
Alignment explanation
Indices: 29087868--29087897 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
29087858 TTGAAAATAT
29087868 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
29087882 GTTGATTTGGATTG
1 GTTGAATTGGATTG
29087896 GT
1 GT
29087898 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:29088793 original size:21 final size:21
Alignment explanation
Indices: 29088753--29088799 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
29088743 AACTCTTAAC
*
29088753 CTTAAATTATTTTAATAAAAA
1 CTTAAATTATTTTAACAAAAA
* *
29088774 CTTAAATTATTTTAGCAAAAT
1 CTTAAATTATTTTAACAAAAA
29088795 CTTAA
1 CTTAA
29088800 CCCTATAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.43
Consensus pattern (21 bp):
CTTAAATTATTTTAACAAAAA
Found at i:29092539 original size:92 final size:91
Alignment explanation
Indices: 29092336--29092531 Score: 268
Period size: 91 Copynumber: 2.2 Consensus size: 91
29092326 ACTCTTTGTA
* * * *
29092336 TAAGGATTGGGAGATGCATGCCTAAAGCAACTCTTAAATAAGAGTTGCCTTTGTGTAGTCCTAAG
1 TAAGGGTTGGGATATGTATGCCTAAAGCAACGCTTAAATAAGAGTTGCCTTTGTGTAGTCCTAAG
* **
29092401 ACGACACTTTTGTGGTGACATTTTCC
66 ACAACACTTTTGTGACGACATTTTCC
* * **
29092427 TAAGGGTTGGTATATGTATGCCTAAAGCAACGCTTGAATAAGAGTTGGTTTTTGTGTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAAGCAACGCTTAAATAAGAGTT-GCCTTTGTGTAGTCCTAA
29092492 GACAACACTTTTGTGACGACA-TTTCC
65 GACAACACTTTTGTGACGACATTTTCC
*
29092518 TAAGTGTTGGGATA
1 TAAGGGTTGGGATA
29092532 GACTATGCTT
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
91 57 0.63
92 34 0.37
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (91 bp):
TAAGGGTTGGGATATGTATGCCTAAAGCAACGCTTAAATAAGAGTTGCCTTTGTGTAGTCCTAAG
ACAACACTTTTGTGACGACATTTTCC
Found at i:29092710 original size:132 final size:132
Alignment explanation
Indices: 29092427--29093045 Score: 901
Period size: 132 Copynumber: 4.8 Consensus size: 132
29092417 GACATTTTCC
* * *
29092427 TAAGGGTTGGTATATGTATGCCTAAAGCAACGCTTGAATAAGAGTTGGTTTTTGTGTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTAGTCCTAA
*
29092492 GACA-ACACTTTTGTGACGACA-TTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTT
66 GA-AGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTT
29092555 GTA
130 GTA
* *
29092558 TAAGGGTTAGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTCTGTGTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTAGTCCTAA
* *
29092623 GAAGACACTTTTGTGGTGACACTTCCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
66 GAAGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
29092688 TA
131 TA
* * *
29092690 TAAGGGTTGGGATATGTATGCCTAAGGCAATGCTTGAATAAGAGTTGGCTTTTGTGTTGTCTTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTAGTCCTAA
* *
29092755 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGTATAGACTATGCTTTGGCCAACTCTTTG
66 GAAGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
29092820 TA
131 TA
* *
29092822 TAAGGGTTGGGATATGTATGCCTAAGGCAATGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCT--
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTAGTCCTAA
* * *
29092885 ----A-A-------GGCGACACTTTTCTAAGTGTTGGGATAGACTACGTTTTGGCCAACTCTTTG
66 GAAGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
29092938 TA
131 TA
* *
29092940 TAAGGGTTGGGATATGTATGCCTAAGACAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTAGTCCTAA
* * * *
29093005 GACGACAGTTTTGGGGCGACGCTTTCCTAAGTGTTGGGATA
66 GAAGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATA
29093046 CACTTGTCAG
Statistics
Matches: 444, Mismatches: 28, Indels: 31
0.88 0.06 0.06
Matches are distributed among these distances:
118 110 0.25
124 1 0.00
125 2 0.00
126 1 0.00
130 1 0.00
131 77 0.17
132 252 0.57
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (132 bp):
TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTAGTCCTAA
GAAGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
TA
Found at i:29092977 original size:118 final size:118
Alignment explanation
Indices: 29092769--29093016 Score: 424
Period size: 118 Copynumber: 2.1 Consensus size: 118
29092759 ACACTTTTGT
* * *
29092769 GGCGACACTTTCCTAAGTGTTGGTATAGACTATGCTTTGGCCAACTCTTTGTATAAGGGTTGGGA
1 GGCGACACTTTTCTAAGTGTTGGGATAGACTACGCTTTGGCCAACTCTTTGTATAAGGGTTGGGA
* *
29092834 TATGTATGCCTAAGGCAATGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
66 TATGTATGCCTAAGACAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
*
29092887 GGCGACACTTTTCTAAGTGTTGGGATAGACTACGTTTTGGCCAACTCTTTGTATAAGGGTTGGGA
1 GGCGACACTTTTCTAAGTGTTGGGATAGACTACGCTTTGGCCAACTCTTTGTATAAGGGTTGGGA
29092952 TATGTATGCCTAAGACAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
66 TATGTATGCCTAAGACAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
* *
29093005 GACGACAGTTTT
1 GGCGACACTTTT
29093017 GGGGCGACGC
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 122 1.00
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.34
Consensus pattern (118 bp):
GGCGACACTTTTCTAAGTGTTGGGATAGACTACGCTTTGGCCAACTCTTTGTATAAGGGTTGGGA
TATGTATGCCTAAGACAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
Found at i:29093369 original size:22 final size:24
Alignment explanation
Indices: 29093335--29093401 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 24
29093325 AGGGATTATA
29093335 GTTTAT-ATAGTTTAAGGTTTTAGG
1 GTTTATGAT-GTTTAAGGTTTTAGG
* * *
29093359 GTTT-TG-TGTTTATGGGTTTGGG
1 GTTTATGATGTTTAAGGTTTTAGG
*
29093381 GTTTATGAT-TTTAGGGTTTTA
1 GTTTATGATGTTTAAGGTTTTA
29093402 TGATTATGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
22 16 0.47
23 13 0.38
24 5 0.15
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.54
Consensus pattern (24 bp):
GTTTATGATGTTTAAGGTTTTAGG
Found at i:29093385 original size:37 final size:37
Alignment explanation
Indices: 29093344--29093421 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
29093334 AGTTTATATA
* * * **
29093344 GTTTAAGGTTTTAGGGTTTTGTGTTTATGGGTTTGGG
1 GTTTAAGATTTTAGGGTTTTATGATTATGAATTTGGG
*
29093381 GTTTATGATTTTAGGGTTTTATGATTATGAATTTGGG
1 GTTTAAGATTTTAGGGTTTTATGATTATGAATTTGGG
29093418 GTTT
1 GTTT
29093422 TGTGATTATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (37 bp):
GTTTAAGATTTTAGGGTTTTATGATTATGAATTTGGG
Found at i:29093435 original size:37 final size:37
Alignment explanation
Indices: 29093355--29093436 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
29093345 TTTAAGGTTT
* * ** *
29093355 TAGGGTTTTGTGTTTATGGGTTTGGGGTTTATGATTT
1 TAGGGTTTTATGATTATGAATTTGGGGTTTATGATTA
*
29093392 TAGGGTTTTATGATTATGAATTTGGGGTTTTGTGATTA
1 TAGGGTTTTATGATTATGAATTTGGGG-TTTATGATTA
29093430 T-GGGTTT
1 TAGGGTTT
29093437 GCGATTAATC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 29 0.76
38 9 0.24
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (37 bp):
TAGGGTTTTATGATTATGAATTTGGGGTTTATGATTA
Found at i:29093437 original size:22 final size:22
Alignment explanation
Indices: 29093383--29093431 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
29093373 GGTTTGGGGT
* *
29093383 TTATGATTTTAGGGTTTTATGA
1 TTATGAATTTGGGGTTTTATGA
*
29093405 TTATGAATTTGGGGTTTTGTGA
1 TTATGAATTTGGGGTTTTATGA
29093427 TTATG
1 TTATG
29093432 GGTTTGCGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (22 bp):
TTATGAATTTGGGGTTTTATGA
Found at i:29093599 original size:22 final size:22
Alignment explanation
Indices: 29093544--29093602 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
29093534 GGGTTTTATG
*
29093544 GTTTAGGAGTTTAAGGTCTGTA
1 GTTTAAGAGTTTAAGGTCTGTA
* *
29093566 GTTTAGGAGTTTAAGGTCTATTA
1 GTTTAAGAGTTTAAGGTCT-GTA
*
29093589 TTTTAAG-GTTTAAG
1 GTTTAAGAGTTTAAG
29093603 ATTTTATGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 26 0.79
23 7 0.21
ACGTcount: A:0.25, C:0.03, G:0.27, T:0.44
Consensus pattern (22 bp):
GTTTAAGAGTTTAAGGTCTGTA
Found at i:29093637 original size:14 final size:15
Alignment explanation
Indices: 29093605--29093637 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
29093595 GGTTTAAGAT
29093605 TTTATGGTCTTGAGG
1 TTTATGGTCTTGAGG
*
29093620 TTTATGGT-TTGTGG
1 TTTATGGTCTTGAGG
29093634 TTTA
1 TTTA
29093638 AGGCTTATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.12, C:0.03, G:0.30, T:0.55
Consensus pattern (15 bp):
TTTATGGTCTTGAGG
Found at i:29096939 original size:7 final size:6
Alignment explanation
Indices: 29096904--29096947 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
29096894 TTCAATCTTT
*
29096904 ATTTTA ATTTTA ATTTTA ATTTTGT ATTTTAA ATTTTAA ATTTT
1 ATTTTA ATTTTA ATTTTA ATTTT-A ATTTT-A ATTTT-A ATTTT
29096948 TTTAGTTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
6 17 0.50
7 17 0.50
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (6 bp):
ATTTTA
Found at i:29097109 original size:39 final size:37
Alignment explanation
Indices: 29097055--29097381 Score: 152
Period size: 37 Copynumber: 8.9 Consensus size: 37
29097045 ATTATACGTG
* * *
29097055 TCTATCCCAATCTTTTTTTACAGGTTGTTTTAAATAATA
1 TCTATCCCAACCTTTTTTTA-AGGTTGCTTTAAA-AAGA
* *
29097094 TCTATCCCAACC--TTTTTAAGGTTGCTTTAAACAGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAAAAGA
* * * * * *
29097129 TCTATCCCAACCTTTTTTAAAAGTTACCTTAAACATGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAA-AAGA
* * *
29097167 TCTATCCCAACC--TTTTTAAGATTGCCTT-AAACGA
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAAAAGA
* * * * * *
29097201 GTCTATTCCAACCTTTTTTAAAGGTTGCCTTAGACATGG
1 -TCTATCCCAACCTTTTTTTAAGGTTGCTTTA-AAAAGA
* * ** * * * *
29097240 TCTCTCCTAACC--TGCTTAAGGTTGCCTTAGACAGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAAAAGA
* * *
29097275 TCTATCCCAACATTTTTTTATAGGTTGTTTTAGAGAATG-
1 TCTATCCCAACCTTTTTTTA-AGGTTGCTTTA-A-AAAGA
* * ** *
29097314 TCGATCCCAACC--TTTTTAAGGTTGCTTTAGACGGC
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAAAAGA
* * * *
29097349 TCTATCCCAACCGTTTTTAAAAGTTGCCTTAAA
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAA
29097382 CAGGAACTAT
Statistics
Matches: 218, Mismatches: 54, Indels: 34
0.71 0.18 0.11
Matches are distributed among these distances:
34 4 0.02
35 48 0.22
36 48 0.22
37 60 0.28
38 32 0.15
39 24 0.11
40 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (37 bp):
TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAAAAGA
Found at i:29097123 original size:36 final size:35
Alignment explanation
Indices: 29097053--29097479 Score: 250
Period size: 36 Copynumber: 11.6 Consensus size: 35
29097043 ATATTATACG
* ** *
29097053 TGTCTATCCCAATCTTTTTTTACAGGTTGTTTTAAATAA
1 TGTCTATCCCAA-C-CTTTTTA-AGGTTGCCTTAAA-CA
* *
29097092 TATCTATCCCAACCTTTTTAAGGTTGCTTTAAACA
1 TGTCTATCCCAACCTTTTTAAGGTTGCCTTAAACA
* * *
29097127 GGTCTATCCCAACCTTTTTTAAAAGTTACCTTAAACA
1 TGTCTATCCCAACC-TTTTT-AAGGTTGCCTTAAACA
*
29097164 TGGTCTATCCCAACCTTTTTAAGATTGCCTTAAACGA
1 T-GTCTATCCCAACCTTTTTAAGGTTGCCTTAAAC-A
* *
29097201 -GTCTATTCCAACCTTTTTTAAAGGTTGCCTTAGACA
1 TGTCTATCCCAACC-TTTTT-AAGGTTGCCTTAAACA
* * ** *
29097237 TGGTCTCTCCTAACCTGCTTAAGGTTGCCTTAGACA
1 T-GTCTATCCCAACCTTTTTAAGGTTGCCTTAAACA
* * **
29097273 GGTCTATCCCAACATTTTTTTATAGGTTGTTTTAGAGA-A
1 TGTCTATCCCAAC--CTTTTTA-AGGTTGCCTTA-A-ACA
* * *
29097312 TGTCGATCCCAACCTTTTTAAGGTTGCTTTAGAC-
1 TGTCTATCCCAACCTTTTTAAGGTTGCCTTAAACA
* *
29097346 GGCTCTATCCCAACCGTTTTTAAAAGTTGCCTTAAACA
1 TG-TCTATCCCAACC-TTTTT-AAGGTTGCCTTAAACA
* * ** * * *
29097384 GGAACTATATCGACCTTTTTAAGGTTGTCTTAGACA
1 TG-TCTATCCCAACCTTTTTAAGGTTGCCTTAAACA
* * * *
29097420 GGTTTATCACAACCTTTTTCAAAGGTTGGTCTT-AACTA
1 TGTCTATCCCAACCTTTTT--AAGGTT-GCCTTAAAC-A
* *
29097458 GGTCTATCCTAACCCTTTTTAA
1 TGTCTATCCCAA-CCTTTTTAA
29097480 AGGTCGGCAT
Statistics
Matches: 308, Mismatches: 57, Indels: 48
0.75 0.14 0.12
Matches are distributed among these distances:
34 2 0.01
35 58 0.19
36 81 0.26
37 78 0.25
38 58 0.19
39 30 0.10
40 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (35 bp):
TGTCTATCCCAACCTTTTTAAGGTTGCCTTAAACA
Found at i:29097174 original size:73 final size:73
Alignment explanation
Indices: 29097094--29097479 Score: 356
Period size: 73 Copynumber: 5.3 Consensus size: 73
29097084 TTAAATAATA
* *
29097094 TCTATCCCAACCTTTTTAAGGTTGCTTTAAACAGGTCTATCCCAACCTTTTTTAAAAGTTACCTT
1 TCTATCCCAACCTTTTTAAGGTTGCTTTAGACAGGTCTATCCCAACCTTTTTTAAAAGTTGCCTT
29097159 AAACATGG
66 AAACATGG
* * * * *
29097167 TCTATCCCAACCTTTTTAAGATTGCCTTAAAC-GAGTCTATTCCAACCTTTTTTAAAGGTTGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCTTTAGACAG-GTCTATCCCAACCTTTTTTAAAAGTTGCCT
*
29097231 TAGACATGG
65 TAAACATGG
* * ** * * * * **
29097240 TCTCTCCTAACCTGCTTAAGGTTGCCTTAGACAGGTCTATCCCAACATTTTTTTATAGGTTGTTT
1 TCTATCCCAACCTTTTTAAGGTTGCTTTAGACAGGTCTATCCCAAC-CTTTTTTAAAAGTTGCCT
29097305 TAGAGA-AT-G
65 TA-A-ACATGG
* *
29097314 TCGATCCCAACCTTTTTAAGGTTGCTTTAGAC-GGCTCTATCCCAACCGTTTTTAAAAGTTGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCTTTAGACAGG-TCTATCCCAACCTTTTTTAAAAGTTGCCT
29097378 TAAACA-GG
65 TAAACATGG
* ** * * * * * *
29097386 AACTATATCGACCTTTTTAAGGTTG-TCTTAGACAGGTTTATCACAACCTTTTTCAAAGGTTGGT
1 -TCTATCCCAACCTTTTTAAGGTTGCT-TTAGACAGGTCTATCCCAACCTTTTTTAAAAGTT-GC
29097450 CTT-AAC-TAGG
63 CTTAAACAT-GG
*
29097460 TCTATCCTAACCCTTTTTAA
1 TCTATCCCAA-CCTTTTTAA
29097480 AGGTCGGCAT
Statistics
Matches: 252, Mismatches: 46, Indels: 29
0.77 0.14 0.09
Matches are distributed among these distances:
71 1 0.00
72 5 0.02
73 171 0.68
74 72 0.29
75 2 0.01
76 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (73 bp):
TCTATCCCAACCTTTTTAAGGTTGCTTTAGACAGGTCTATCCCAACCTTTTTTAAAAGTTGCCTT
AAACATGG
Done.