Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 122 of 279
Found at i:38653966 original size:52 final size:52
Alignment explanation
Indices: 38653909--38654009 Score: 202
Period size: 52 Copynumber: 1.9 Consensus size: 52
38653899 TTGGAGAATG
38653909 TTTTTTGTTTTGCTTATAAGATTCAATTAAAGACTTTCTTTTATATTTTATA
1 TTTTTTGTTTTGCTTATAAGATTCAATTAAAGACTTTCTTTTATATTTTATA
38653961 TTTTTTGTTTTGCTTATAAGATTCAATTAAAGACTTTCTTTTATATTTT
1 TTTTTTGTTTTGCTTATAAGATTCAATTAAAGACTTTCTTTTATATTTT
38654010 TTTATGATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.58
Consensus pattern (52 bp):
TTTTTTGTTTTGCTTATAAGATTCAATTAAAGACTTTCTTTTATATTTTATA
Found at i:38657694 original size:17 final size:18
Alignment explanation
Indices: 38657659--38657693 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
38657649 GATTCTTTCA
38657659 TGCTCATCTTTTTGTTTT
1 TGCTCATCTTTTTGTTTT
38657677 TGCTC-TCTTTTT-TTTT
1 TGCTCATCTTTTTGTTTT
38657693 T
1 T
38657694 TATTTGTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 7 0.41
18 5 0.29
ACGTcount: A:0.03, C:0.17, G:0.09, T:0.71
Consensus pattern (18 bp):
TGCTCATCTTTTTGTTTT
Found at i:38662422 original size:11 final size:11
Alignment explanation
Indices: 38662408--38662432 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38662398 AATTTTTAAA
38662408 AAATATATTTT
1 AAATATATTTT
38662419 AAATATATTTT
1 AAATATATTTT
38662430 AAA
1 AAA
38662433 AAATTGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAATATATTTT
Found at i:38673733 original size:222 final size:222
Alignment explanation
Indices: 38673346--38673784 Score: 851
Period size: 222 Copynumber: 2.0 Consensus size: 222
38673336 TTTTGCTAAT
38673346 CGATAGAAGGTACTAGCTTATCACTCGAAAGCTAGTTACCTTGTTTTAGGATTAGATGAATTCAG
1 CGATAGAAGGTACTAGCTTATCACTCGAAAGCTAGTTACCTTGTTTTAGGATTAGATGAATTCAG
38673411 TTTCTAAGCGATTAATCGAATATAAATTTATAAATATTTAGGTTCATGAGTGCTCGGAGTTCAGA
66 TTTCTAAGCGATTAATCGAATATAAATTTATAAATATTTAGGTTCATGAGTGCTCGGAGTTCAGA
*
38673476 TTAGCTTCTAACAATTCCAGGTGTGTACCCGAAAACACAGAAAACGAGAATCGGTGAAAGCTGAA
131 TTAGCTTCTAACAATTCCAGGTGTGTACCCGAAAACACAGAAAACGAGAATCGGTGAAAGCTAAA
38673541 AAATGAATATGTCGACACCACAGAAAG
196 AAATGAATATGTCGACACCACAGAAAG
*
38673568 CGATAGAAGGTACTAGCTTATCACTCGAAAGCTAGTTACCTTGTTTTGGGATTAGATGAATTCAG
1 CGATAGAAGGTACTAGCTTATCACTCGAAAGCTAGTTACCTTGTTTTAGGATTAGATGAATTCAG
38673633 TTTCTAAGCGATTAATCGAATATAAATTTATAAATATTTAGGTTCATGAGTGCTCGGAGTTCAGA
66 TTTCTAAGCGATTAATCGAATATAAATTTATAAATATTTAGGTTCATGAGTGCTCGGAGTTCAGA
*
38673698 TTAGCTTCTAACAATTCCAGGTGTGTACTCGAAAACACAGAAAACGAGAATCGGTGAAAGCTAAA
131 TTAGCTTCTAACAATTCCAGGTGTGTACCCGAAAACACAGAAAACGAGAATCGGTGAAAGCTAAA
38673763 AAATGAATATGTCGACACCACA
196 AAATGAATATGTCGACACCACA
38673785 CGGGCGTATG
Statistics
Matches: 214, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
222 214 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (222 bp):
CGATAGAAGGTACTAGCTTATCACTCGAAAGCTAGTTACCTTGTTTTAGGATTAGATGAATTCAG
TTTCTAAGCGATTAATCGAATATAAATTTATAAATATTTAGGTTCATGAGTGCTCGGAGTTCAGA
TTAGCTTCTAACAATTCCAGGTGTGTACCCGAAAACACAGAAAACGAGAATCGGTGAAAGCTAAA
AAATGAATATGTCGACACCACAGAAAG
Found at i:38678112 original size:222 final size:222
Alignment explanation
Indices: 38677725--38678163 Score: 851
Period size: 222 Copynumber: 2.0 Consensus size: 222
38677715 TTTTGCTAAT
38677725 CGATAGAAGGTACTAGCTTATCACTCGAAAGCTAGTTACCTTGTTTTAGGATTAGATGAATTCAG
1 CGATAGAAGGTACTAGCTTATCACTCGAAAGCTAGTTACCTTGTTTTAGGATTAGATGAATTCAG
38677790 TTTCTAAGCGATTAATCGAATATAAATTTATAAATATTTAGGTTCATGAGTGCTCGGAGTTCAGA
66 TTTCTAAGCGATTAATCGAATATAAATTTATAAATATTTAGGTTCATGAGTGCTCGGAGTTCAGA
*
38677855 TTAGCTTCTAACAATTCCAGGTGTGTACCCGAAAACACAGAAAACGAGAATCGGTGAAAGCTGAA
131 TTAGCTTCTAACAATTCCAGGTGTGTACCCGAAAACACAGAAAACGAGAATCGGTGAAAGCTAAA
38677920 AAATGAATATGTCGACACCACAGAAAG
196 AAATGAATATGTCGACACCACAGAAAG
*
38677947 CGATAGAAGGTACTAGCTTATCACTCGAAAGCTAGTTACCTTGTTTTGGGATTAGATGAATTCAG
1 CGATAGAAGGTACTAGCTTATCACTCGAAAGCTAGTTACCTTGTTTTAGGATTAGATGAATTCAG
38678012 TTTCTAAGCGATTAATCGAATATAAATTTATAAATATTTAGGTTCATGAGTGCTCGGAGTTCAGA
66 TTTCTAAGCGATTAATCGAATATAAATTTATAAATATTTAGGTTCATGAGTGCTCGGAGTTCAGA
*
38678077 TTAGCTTCTAACAATTCCAGGTGTGTACTCGAAAACACAGAAAACGAGAATCGGTGAAAGCTAAA
131 TTAGCTTCTAACAATTCCAGGTGTGTACCCGAAAACACAGAAAACGAGAATCGGTGAAAGCTAAA
38678142 AAATGAATATGTCGACACCACA
196 AAATGAATATGTCGACACCACA
38678164 CGGGCGTATG
Statistics
Matches: 214, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
222 214 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (222 bp):
CGATAGAAGGTACTAGCTTATCACTCGAAAGCTAGTTACCTTGTTTTAGGATTAGATGAATTCAG
TTTCTAAGCGATTAATCGAATATAAATTTATAAATATTTAGGTTCATGAGTGCTCGGAGTTCAGA
TTAGCTTCTAACAATTCCAGGTGTGTACCCGAAAACACAGAAAACGAGAATCGGTGAAAGCTAAA
AAATGAATATGTCGACACCACAGAAAG
Found at i:38680201 original size:13 final size:13
Alignment explanation
Indices: 38680183--38680220 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
38680173 AATAGGGAGG
38680183 AAAAGAAAGGAAA
1 AAAAGAAAGGAAA
*
38680196 AAAAGAAAAGAAAA
1 AAAAG-AAAGGAAA
38680210 AAAAGAAAGGA
1 AAAAGAAAGGA
38680221 GAAACTAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGGAAA
Found at i:38702132 original size:51 final size:51
Alignment explanation
Indices: 38702055--38702153 Score: 180
Period size: 51 Copynumber: 1.9 Consensus size: 51
38702045 TATTCCCGAC
*
38702055 TGAAATTTATATATATTTTAGGATGCATTCTAACATTTGAATTCACATGAT
1 TGAAATTTATATATATTTTAGAATGCATTCTAACATTTGAATTCACATGAT
*
38702106 TGAAATTTATATATATTTTAGAATGCATTCTAATATTTGAATTCACAT
1 TGAAATTTATATATATTTTAGAATGCATTCTAACATTTGAATTCACAT
38702154 AATTTTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.44
Consensus pattern (51 bp):
TGAAATTTATATATATTTTAGAATGCATTCTAACATTTGAATTCACATGAT
Found at i:38711446 original size:5 final size:5
Alignment explanation
Indices: 38711415--38711443 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
38711405 TATTGAAAGC
38711415 GAAAA GAAAA GAAAA GAAAA GAAAA -AAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
38711444 AAACAGGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:38712585 original size:44 final size:44
Alignment explanation
Indices: 38712522--38712606 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
38712512 TCAAACATAT
38712522 ATATATATTTGTGTGTGTACATGTATATATAAATGCATAAAAAA
1 ATATATATTTGTGTGTGTACATGTATATATAAATGCATAAAAAA
*
38712566 ATATATATTTGTGTGTGTACATGTATATCTAAATGCATAAA
1 ATATATATTTGTGTGTGTACATGTATATATAAATGCATAAA
38712607 CACTAGAGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (44 bp):
ATATATATTTGTGTGTGTACATGTATATATAAATGCATAAAAAA
Found at i:38717545 original size:22 final size:19
Alignment explanation
Indices: 38717515--38717554 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 19
38717505 ATAATTTTTG
38717515 AAAAATAATTTATTTTTTTAA
1 AAAAATAA--TATTTTTTTAA
38717536 AAAAATTAATATTTTTTTA
1 AAAAA-TAATATTTTTTTA
38717555 TGTTTAGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.56
21 5 0.28
22 3 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AAAAATAATATTTTTTTAA
Found at i:38717548 original size:20 final size:21
Alignment explanation
Indices: 38717504--38717554 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
38717494 CTTCACTAAA
* *
38717504 AATAATTTTTGAAAAATAATT
1 AATATTTTTTTAAAAATAATT
38717525 --TATTTTTTTAAAAA-AATT
1 AATATTTTTTTAAAAATAATT
38717543 AATATTTTTTTA
1 AATATTTTTTTA
38717555 TGTTTAGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.15
19 12 0.46
20 10 0.38
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
AATATTTTTTTAAAAATAATT
Found at i:38718126 original size:16 final size:16
Alignment explanation
Indices: 38718102--38718148 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
38718092 ATATGATGAA
38718102 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
* *
38718118 TATTTTTTAAATTTAT
1 TATTATTTAAAATTAT
**
38718134 TATTAAATAAAATTA
1 TATTATTTAAAATTA
38718149 AAATATTTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:38718176 original size:22 final size:22
Alignment explanation
Indices: 38718151--38718196 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
38718141 TAAAATTAAA
*
38718151 ATATTTATTAAAATAATAAATT
1 ATATTAATTAAAATAATAAATT
* * *
38718173 ATATTAATTATATTAATAATTT
1 ATATTAATTAAAATAATAAATT
38718195 AT
1 AT
38718197 TATATGATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTAATTAAAATAATAAATT
Found at i:38720101 original size:3 final size:3
Alignment explanation
Indices: 38720093--38720130 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
38720083 TTTGTTCTCT
38720093 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
38720131 TTATTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:38720252 original size:37 final size:39
Alignment explanation
Indices: 38720183--38720271 Score: 96
Period size: 37 Copynumber: 2.3 Consensus size: 39
38720173 ATAAATATGT
*
38720183 ATTTAAAAATAATATATAATAAATAATAAAATATAT-CG
1 ATTTAAAATTAATATATAATAAATAATAAAATATATACG
* *
38720221 -TTTAAAATTAAT-TAATAATAACAT-ATGAAATATTTACG
1 ATTTAAAATTAATAT-ATAATAA-ATAATAAAATATATACG
38720259 ATATTAAAATTAA
1 AT-TTAAAATTAA
38720272 AAGAATAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
36 1 0.02
37 27 0.63
38 4 0.09
39 1 0.02
40 10 0.23
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (39 bp):
ATTTAAAATTAATATATAATAAATAATAAAATATATACG
Found at i:38723427 original size:46 final size:48
Alignment explanation
Indices: 38723246--38723464 Score: 190
Period size: 46 Copynumber: 4.7 Consensus size: 48
38723236 GGGTGTAATA
* * * * *
38723246 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCATCCAT-TAAGT-
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-GAT-TTACATCTACGTG
* * * *
38723294 -TGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCACGTCTCCGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-GATTT-ACATCTACGTG
* * *
38723343 CCGATGTCACGTCCCAAACATGGTCTTACACTGA--TACATCT-CGTTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGATTTACATCTACG-TG
*
38723389 CCGATG-CATGTCCCAGACAT-GTCTTACACTGATTTACAT-TACGACG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGATTTACATCTACG-TG
38723435 CCGATG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
38723465 AGCACACAAA
Statistics
Matches: 146, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
44 12 0.08
45 15 0.10
46 52 0.36
47 36 0.25
48 3 0.02
49 1 0.01
50 27 0.18
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGATTTACATCTACGTG
Found at i:38730861 original size:26 final size:27
Alignment explanation
Indices: 38730832--38730887 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
38730822 TTTCCATATG
*
38730832 ACCAATTCTTGTA-AA-CATTTCATACA
1 ACCAATT-TTGTACAACCAATTCATACA
*
38730858 ACC-ATTTTGTACAACCAATTCATATA
1 ACCAATTTTGTACAACCAATTCATACA
38730884 ACCA
1 ACCA
38730888 TTCATCATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 5 0.20
25 5 0.20
26 15 0.60
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.32
Consensus pattern (27 bp):
ACCAATTTTGTACAACCAATTCATACA
Found at i:38731037 original size:46 final size:46
Alignment explanation
Indices: 38730977--38731096 Score: 134
Period size: 46 Copynumber: 2.6 Consensus size: 46
38730967 TTCAACATGA
* * * * *
38730977 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATT-TTCTGTCGTGT
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTCCT-TGTCATAT
* * *
38731023 TGCCATGGTATCTTTCAACCATAGTCTTATTCATTCCTTGTCATAT
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTCCTTGTCATAT
* *
38731069 TGTCATTGTATCTTTCAACCATGGTCTT
1 TGCCATAGTATCTTTCAACCATGGTCTT
38731097 TCACATTTGA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
46 61 0.98
47 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.45
Consensus pattern (46 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACTCATTCCTTGTCATAT
Found at i:38731153 original size:45 final size:45
Alignment explanation
Indices: 38731104--38731190 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
38731094 CTTTCACATT
* *
38731104 TGAATCGCAACGCCATAGCGTCTTTCAGCTATGGTCTTACTCGCC
1 TGAATCACAACGCCATAACGTCTTTCAGCTATGGTCTTACTCGCC
** * *
38731149 TGAATCATGATGCCATAACGTCTTTTAGCTATGGTCTTACTC
1 TGAATCACAACGCCATAACGTCTTTCAGCTATGGTCTTACTC
38731191 ATTTCTGGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.33
Consensus pattern (45 bp):
TGAATCACAACGCCATAACGTCTTTCAGCTATGGTCTTACTCGCC
Found at i:38731282 original size:33 final size:33
Alignment explanation
Indices: 38731219--38731282 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
38731209 TGGTCCAACT
* *
38731219 ATGGTCTTACACGTGTATTGCCATGGCCCAGCC
1 ATGGTCTTACACGTGTAGTGCCATAGCCCAGCC
* *
38731252 ATGGTCTTACAC-TCGTGGTGCCATATCCCAG
1 ATGGTCTTACACGT-GTAGTGCCATAGCCCAG
38731283 ATATAGTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 1 0.04
33 25 0.96
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (33 bp):
ATGGTCTTACACGTGTAGTGCCATAGCCCAGCC
Found at i:38734072 original size:23 final size:23
Alignment explanation
Indices: 38734039--38734092 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
38734029 CCTAGCATGT
* *
38734039 TATGTGTCGGTGATTATTCAGGC
1 TATGTGCCGGTAATTATTCAGGC
*
38734062 TGTGTGCCGGTAATTATTCAGGC
1 TATGTGCCGGTAATTATTCAGGC
38734085 TATGTGCC
1 TATGTGCC
38734093 TAGCAGGCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.17, C:0.17, G:0.30, T:0.37
Consensus pattern (23 bp):
TATGTGCCGGTAATTATTCAGGC
Found at i:38734129 original size:38 final size:39
Alignment explanation
Indices: 38734057--38734143 Score: 113
Period size: 38 Copynumber: 2.3 Consensus size: 39
38734047 GGTGATTATT
* *
38734057 CAGGCTGTGTGCCGGTAATTATTCAGGCTATGTGCCTAG
1 CAGGCTTTGTGCCGGTAATTATTCAGGCTATGTGCCTAA
* * *
38734096 CAGGCTTTGTGCCGGTGA-TATTCGGGCTTTGTGCCTAA
1 CAGGCTTTGTGCCGGTAATTATTCAGGCTATGTGCCTAA
*
38734134 CAGGCATTGT
1 CAGGCTTTGT
38734144 ACTGGTGTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 26 0.62
39 16 0.38
ACGTcount: A:0.16, C:0.21, G:0.31, T:0.32
Consensus pattern (39 bp):
CAGGCTTTGTGCCGGTAATTATTCAGGCTATGTGCCTAA
Found at i:38734593 original size:28 final size:28
Alignment explanation
Indices: 38734547--38734608 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
38734537 TGAATATTTC
*
38734547 AAGTATGTTATGTGAATTAGTTTGGTTAT
1 AAGTATGTTATGTGAATTAATTT-GTTAT
*
38734576 AAGTA-GTTATGATG-ATTAATTTTTTAT
1 AAGTATGTTATG-TGAATTAATTTGTTAT
38734603 AAGTAT
1 AAGTAT
38734609 TTGGCATGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 9 0.31
28 13 0.45
29 7 0.24
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (28 bp):
AAGTATGTTATGTGAATTAATTTGTTAT
Found at i:38737264 original size:44 final size:45
Alignment explanation
Indices: 38737158--38737289 Score: 131
Period size: 44 Copynumber: 2.9 Consensus size: 45
38737148 ACAGGACAGA
* * * *
38737158 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTAGAG
* * *
38737204 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTAGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTAGAG
* ** * *
38737248 ATAGGAATAATTCATGTAAGTCCATGTTAAAGACATGGCATT
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATT
38737290 GGCAGGATAT
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 35 0.49
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTAGAG
Found at i:38739396 original size:18 final size:18
Alignment explanation
Indices: 38739373--38739409 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
38739363 ATTGTCAGTG
38739373 GGTGTCCTAGAAATAAAA
1 GGTGTCCTAGAAATAAAA
*
38739391 GGTGTCTTAGAAATAAAA
1 GGTGTCCTAGAAATAAAA
38739409 G
1 G
38739410 AGTTCGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.08, G:0.24, T:0.24
Consensus pattern (18 bp):
GGTGTCCTAGAAATAAAA
Found at i:38744618 original size:46 final size:44
Alignment explanation
Indices: 38744559--38744673 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
38744549 ACAGGACAGA
* *
38744559 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
38744605 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
38744649 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
38744674 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:38744654 original size:44 final size:45
Alignment explanation
Indices: 38744559--38744692 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
38744549 ACAGGACAGA
* *
38744559 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
38744605 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
38744649 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
38744693 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:38748615 original size:46 final size:46
Alignment explanation
Indices: 38748568--38748795 Score: 296
Period size: 46 Copynumber: 5.0 Consensus size: 46
38748558 GCTCTCTGAT
* * *
38748568 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
38748614 ATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
38748660 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
38748706 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
38748752 A-GAAAATGAGTAAGACCATAATTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
38748796 TTAAAGATAA
Statistics
Matches: 161, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.01
46 160 0.99
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:38749097 original size:16 final size:17
Alignment explanation
Indices: 38749076--38749108 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38749066 ATGATGGTGC
38749076 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
38749092 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
38749109 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:38750894 original size:5 final size:5
Alignment explanation
Indices: 38750884--38750908 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
38750874 TTTTGACGCA
38750884 ACCCG ACCCG ACCCG ACCCG ACCCG
1 ACCCG ACCCG ACCCG ACCCG ACCCG
38750909 CTACAGGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.60, G:0.20, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:38753126 original size:13 final size:13
Alignment explanation
Indices: 38753108--38753141 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
38753098 TATTTATTTA
38753108 ATATTTTAATAAG
1 ATATTTTAATAAG
38753121 ATATTTTAATAAG
1 ATATTTTAATAAG
38753134 ATATTTTA
1 ATATTTTA
38753142 TTATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (13 bp):
ATATTTTAATAAG
Found at i:38762994 original size:52 final size:48
Alignment explanation
Indices: 38762975--38763177 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
38762965 TGACAAGTGG
* *
38762975 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
38763021 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
38763073 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
38763119 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
38763165 AAAGTGATAAGTG
1 AAAGTGATAAGTG
38763178 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:38763029 original size:98 final size:98
Alignment explanation
Indices: 38762909--38763177 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
38762899 TTTGAGTACT
*
38762909 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
38762974 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
38763007 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
38763072 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
38763105 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
38763170 GATAAGTG
65 GAAAAGTG
38763178 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:38763185 original size:37 final size:37
Alignment explanation
Indices: 38763141--38763286 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
38763131 GATAGCTTTA
*
38763141 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
38763178 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
38763215 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
38763252 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
38763287 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:38771220 original size:21 final size:21
Alignment explanation
Indices: 38771194--38771234 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
38771184 AGACGAGCAA
* *
38771194 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
38771215 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
38771235 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:38776259 original size:5 final size:5
Alignment explanation
Indices: 38776249--38776290 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
38776239 TTCAAGTCGA
38776249 AAAAC AAAAC AAAAC -AAAC GAAAAAC AAAAC AAAAC AAAAC A
1 AAAAC AAAAC AAAAC AAAAC --AAAAC AAAAC AAAAC AAAAC A
38776291 GTTGCCAGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 4 0.12
5 26 0.76
7 4 0.12
ACGTcount: A:0.79, C:0.19, G:0.02, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:38776271 original size:21 final size:21
Alignment explanation
Indices: 38776246--38776287 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
38776236 AGGTTCAAGT
38776246 CGAAAAACAAAACAAAACAAA
1 CGAAAAACAAAACAAAACAAA
38776267 CGAAAAACAAAACAAAACAAA
1 CGAAAAACAAAACAAAACAAA
38776288 ACAGTTGCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.76, C:0.19, G:0.05, T:0.00
Consensus pattern (21 bp):
CGAAAAACAAAACAAAACAAA
Found at i:38785050 original size:14 final size:14
Alignment explanation
Indices: 38785031--38785062 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
38785021 TTGTGAAATC
38785031 AAACACAGCTAGGA
1 AAACACAGCTAGGA
38785045 AAACACAGCTAGGA
1 AAACACAGCTAGGA
38785059 AAAC
1 AAAC
38785063 TTGCCAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.22, G:0.19, T:0.06
Consensus pattern (14 bp):
AAACACAGCTAGGA
Found at i:38787447 original size:47 final size:46
Alignment explanation
Indices: 38787332--38787521 Score: 166
Period size: 47 Copynumber: 3.9 Consensus size: 46
38787322 TGCACATAGT
* * ** *
38787332 CACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTATACGGAT
1 CACATATCAC--ACCGATGCCATATCCCAGATATGGTCTTATACGGAG
* * *
38787380 CACATATCACACTGATGCCATATCCCAGATATGGTTTTATACAGTAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATAC-GGAG
*
38787427 CACATATCACACCGATGCCATATCCC-GTATATGGTCTTATACGAAAG
1 CACATATCACACCGATGCCATATCCCAG-ATATGGTCTTATACG-GAG
* * * *
38787474 CACAAATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACG
1 CACATATCACA-----CCGATGCCATATCCCAGATATGGTCTTATACG
38787522 AAAATCACAT
Statistics
Matches: 118, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
46 28 0.24
47 52 0.44
48 10 0.08
52 27 0.23
53 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (46 bp):
CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGGAG
Found at i:38792648 original size:37 final size:37
Alignment explanation
Indices: 38792607--38792683 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
38792597 TGAACTACCG
38792607 ATAGTGAGAATCAAGTGAATTCTATGCTGACTCATGC
1 ATAGTGAGAATCAAGTGAATTCTATGCTGACTCATGC
* *
38792644 ATAGTGAGAATCAAGTGAGTTCTATGCTGACTCCTGC
1 ATAGTGAGAATCAAGTGAATTCTATGCTGACTCATGC
38792681 ATA
1 ATA
38792684 TATACTATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (37 bp):
ATAGTGAGAATCAAGTGAATTCTATGCTGACTCATGC
Found at i:38795662 original size:19 final size:19
Alignment explanation
Indices: 38795640--38795697 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
38795630 AATTTAAGTA
38795640 ATATAATGTTATTTATATG
1 ATATAATGTTATTTATATG
* *
38795659 ATATGATG--A-TTATTATC
1 ATATAATGTTATTTA-TATG
38795676 AT-TAATGTTATTTATATG
1 ATATAATGTTATTTATATG
38795694 ATAT
1 ATAT
38795698 GAAGATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 7 0.23
17 6 0.20
18 6 0.20
19 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (19 bp):
ATATAATGTTATTTATATG
Found at i:38795689 original size:35 final size:35
Alignment explanation
Indices: 38795643--38795712 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
38795633 TTAAGTAATA
*
38795643 TAATGTTATTTATATGATATGATGATTATTATCAT
1 TAATGTTATTTATATGATATGAAGATTATTATCAT
38795678 TAATGTTATTTATATGATATGAAGATTATTATCAT
1 TAATGTTATTTATATGATATGAAGATTATTATCAT
38795713 GACATATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.03, G:0.11, T:0.50
Consensus pattern (35 bp):
TAATGTTATTTATATGATATGAAGATTATTATCAT
Found at i:38798774 original size:6 final size:6
Alignment explanation
Indices: 38798765--38798795 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
38798755 AAGTAAATGT
38798765 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG A
38798796 GCGTATAGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:38801390 original size:26 final size:28
Alignment explanation
Indices: 38801361--38801421 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
38801351 AAATTCGATT
*
38801361 AATTTAATTAACTAACC-AATTAA-TTA
1 AATTTAATCAACTAACCGAATTAATTTA
* * *
38801387 AATTTGATCAATTAACCGAGTTAATTTA
1 AATTTAATCAACTAACCGAATTAATTTA
38801415 AATTTAA
1 AATTTAA
38801422 CCGAAAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 14 0.50
27 5 0.18
28 9 0.32
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (28 bp):
AATTTAATCAACTAACCGAATTAATTTA
Found at i:38804729 original size:23 final size:23
Alignment explanation
Indices: 38804702--38804746 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
38804692 CGAGAAATAA
*
38804702 ACTTTTAAATCATATTTTTTAAT
1 ACTTTTAAATCATAATTTTTAAT
* *
38804725 ACTTTTAATTTATAATTTTTAA
1 ACTTTTAAATCATAATTTTTAA
38804747 GAAGTAAGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (23 bp):
ACTTTTAAATCATAATTTTTAAT
Found at i:38804808 original size:42 final size:42
Alignment explanation
Indices: 38804749--38804832 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
38804739 ATTTTTAAGA
*
38804749 AGTAAGACTAAATTGATAAAATATATAAAGTTGAGGCTAATT
1 AGTAAGACTAAATTGATAAAATATATAAAGTTAAGGCTAATT
* *
38804791 AGTAAGACTAAATTGATAAAATGTGTAAAGTTAAGGCTAATT
1 AGTAAGACTAAATTGATAAAATATATAAAGTTAAGGCTAATT
38804833 TTGTTTACCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.46, C:0.05, G:0.18, T:0.31
Consensus pattern (42 bp):
AGTAAGACTAAATTGATAAAATATATAAAGTTAAGGCTAATT
Found at i:38807802 original size:14 final size:14
Alignment explanation
Indices: 38807785--38807837 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
38807775 TATTTTTCGG
38807785 AAAATAATTTCTGA
1 AAAATAATTTCTGA
38807799 AAAATAATTTCTTGA
1 AAAATAATTTC-TGA
* *
38807814 AAAATGATTTCTGG
1 AAAATAATTTCTGA
*
38807828 AAAATGATTT
1 AAAATAATTT
38807838 ACTTTTCTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
14 23 0.64
15 13 0.36
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (14 bp):
AAAATAATTTCTGA
Found at i:38807816 original size:15 final size:15
Alignment explanation
Indices: 38807785--38807831 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
38807775 TATTTTTCGG
38807785 AAAATAATTTC-TGA
1 AAAATAATTTCTTGA
38807799 AAAATAATTTCTTGA
1 AAAATAATTTCTTGA
* *
38807814 AAAATGATTTCTGGA
1 AAAATAATTTCTTGA
38807829 AAA
1 AAA
38807832 TGATTTACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (15 bp):
AAAATAATTTCTTGA
Found at i:38808273 original size:22 final size:22
Alignment explanation
Indices: 38808248--38808336 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 22
38808238 ATCCAAGTGC
*
38808248 ATAACTAATATTACACCATATG
1 ATAACTAATATTACACCACATG
38808270 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
* **
38808292 ATAACAACAATATT-GTCCA-AGTG
1 ATAAC--TAATATTACACCACA-TG
38808315 CATAACTAATATTACACCACAT
1 -ATAACTAATATTACACCACAT
38808337 TAAAAGTATC
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
22 33 0.61
23 9 0.17
24 12 0.22
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.28
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:38809333 original size:32 final size:32
Alignment explanation
Indices: 38809287--38809347 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
38809277 TGTCAATCAT
38809287 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
38809319 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
38809348 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:38809354 original size:27 final size:30
Alignment explanation
Indices: 38809287--38809360 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
38809277 TGTCAATCAT
*
38809287 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
38809319 TTCAATATCTAACAAGCTTGAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
38809347 -TCAATATCTAACAA
1 TTCAATATCTAACAA
38809361 AATCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.35
28 2 0.05
29 2 0.05
32 22 0.55
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:38809573 original size:18 final size:18
Alignment explanation
Indices: 38809546--38809587 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
38809536 TGCAATTTCG
* *
38809546 TCTCTCTTAGTAGACCAT
1 TCTCTTTTAGCAGACCAT
38809564 TCTCTTTTAGCAGACCAT
1 TCTCTTTTAGCAGACCAT
38809582 TCTCTT
1 TCTCTT
38809588 GTTTCTTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.29, G:0.10, T:0.43
Consensus pattern (18 bp):
TCTCTTTTAGCAGACCAT
Found at i:38811536 original size:46 final size:44
Alignment explanation
Indices: 38811432--38811539 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
38811422 TGTCTTTGAC
** * * *
38811432 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
38811476 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
38811522 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
38811540 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:38812291 original size:26 final size:26
Alignment explanation
Indices: 38812253--38812303 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
38812243 TTAAAAAACG
*
38812253 TAAAGATCATTAAAAACGGGGCTTGT
1 TAAAGATCATTAAAAACGGAGCTTGT
*
38812279 TAAAGATCGTTAAAAACGGAGCTTG
1 TAAAGATCATTAAAAACGGAGCTTG
38812304 GAATCACTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (26 bp):
TAAAGATCATTAAAAACGGAGCTTGT
Found at i:38815089 original size:64 final size:64
Alignment explanation
Indices: 38815007--38815134 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
38814997 TGAGATGATT
*
38815007 GAGAAAAAAGTGATAGAAGCCAAACAAGTTTGTAAAGGAGATGAGACATCTGATGAATGCAAAG
1 GAGAAAAAAGTGACAGAAGCCAAACAAGTTTGTAAAGGAGATGAGACATCTGATGAATGCAAAG
* * *
38815071 GAGAAGAAAGTGACAGAAGCCAAGCAAGTTTGTGAAGGAGATGAGACATCTGATGAATGCAAAG
1 GAGAAAAAAGTGACAGAAGCCAAACAAGTTTGTAAAGGAGATGAGACATCTGATGAATGCAAAG
38815135 TAGCTTGGGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.45, C:0.10, G:0.29, T:0.16
Consensus pattern (64 bp):
GAGAAAAAAGTGACAGAAGCCAAACAAGTTTGTAAAGGAGATGAGACATCTGATGAATGCAAAG
Found at i:38818199 original size:17 final size:17
Alignment explanation
Indices: 38818158--38818192 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
38818148 CCACCTCTCC
*
38818158 TGAGTTTTTTAACCTTG
1 TGAGTTTTTTAACCTCG
38818175 TGAGTTTTTTAACCTCG
1 TGAGTTTTTTAACCTCG
38818192 T
1 T
38818193 ATGTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.14, G:0.17, T:0.51
Consensus pattern (17 bp):
TGAGTTTTTTAACCTCG
Found at i:38821031 original size:23 final size:24
Alignment explanation
Indices: 38820980--38821054 Score: 57
Period size: 26 Copynumber: 3.1 Consensus size: 24
38820970 ATATATTTGA
*
38820980 ATTTAAATTTCATGTAAAATAATC
1 ATTTAAATTTCATGTAAAAAAATC
*
38821004 A-TTAAA-TT-ATTTAAAAAAATTC
1 ATTTAAATTTCATGTAAAAAAA-TC
* * *
38821026 ATTTAAGTTGTTAGGTAAATAAAATC
1 ATTTAAATT-TCATGTAAA-AAAATC
38821052 ATT
1 ATT
38821055 ATTGTTCTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
21 9 0.22
22 5 0.12
23 9 0.22
24 2 0.05
25 1 0.03
26 10 0.25
27 4 0.10
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (24 bp):
ATTTAAATTTCATGTAAAAAAATC
Found at i:38823561 original size:13 final size:15
Alignment explanation
Indices: 38823543--38823575 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
38823533 TAATGCTATA
38823543 TTTTTCTT-T-CTTT
1 TTTTTCTTCTCCTTT
38823556 TTTTTCTTCTCCTTT
1 TTTTTCTTCTCCTTT
38823571 TTTTT
1 TTTTT
38823576 ATCTACTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 1 0.06
15 9 0.50
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTCTTCTCCTTT
Found at i:38830865 original size:14 final size:14
Alignment explanation
Indices: 38830846--38830884 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
38830836 TTGTTTCACT
*
38830846 GAAAATAATTTCTG
1 GAAAATAATTTCTA
*
38830860 GAAAATGATTTCTA
1 GAAAATAATTTCTA
38830874 GAAAATAATTT
1 GAAAATAATTT
38830885 ATTTTTCTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (14 bp):
GAAAATAATTTCTA
Found at i:38831367 original size:15 final size:15
Alignment explanation
Indices: 38831347--38831412 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 15
38831337 ATTATAAAAC
38831347 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
38831362 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
38831381 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
*
38831396 A-TTACTATTAA-AT
1 ATTTATTATTAATAT
38831409 ATTT
1 ATTT
38831413 TCAATAATCG
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.07
14 11 0.26
15 10 0.24
16 1 0.02
17 7 0.17
18 1 0.02
19 9 0.21
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:38831455 original size:15 final size:16
Alignment explanation
Indices: 38831435--38831465 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
38831425 AATAATGTTA
38831435 TTTAAAAT-TATTATT
1 TTTAAAATCTATTATT
38831450 TTTAAAATCTATTATT
1 TTTAAAATCTATTATT
38831466 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTAAAATCTATTATT
Found at i:38831507 original size:20 final size:22
Alignment explanation
Indices: 38831478--38831528 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
38831468 AATAAAAATG
*
38831478 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
38831498 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* *
38831520 TATTAATAA
1 AAATAATAA
38831529 TTTACTCTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 9 0.35
21 2 0.08
22 15 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:38831518 original size:22 final size:20
Alignment explanation
Indices: 38831478--38831519 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
38831468 AATAAAAATG
*
38831478 AAATATTAAATAATTTATTA
1 AAATAATAAATAATTTATTA
38831498 AAATAATAAATTATATTTATTA
1 AAATAATAAA-TA-ATTTATTA
38831520 TATTAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATAATAAATAATTTATTA
Found at i:38832407 original size:29 final size:28
Alignment explanation
Indices: 38832321--38832407 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 28
38832311 TAATGAGTCC
*
38832321 AAAAAAAAT-TTAACTTTTAA--AAGTA
1 AAAAAAAATATTAACTTTTAAGGAACTA
* *
38832346 AAAAAAAATACTAACTTTTAAAGGATCTA
1 AAAAAAAATATTAACTTTT-AAGGAACTA
*
38832375 AAAAAAAATATTCAACTTTTAAGGAACTT
1 AAAAAAAATATT-AACTTTTAAGGAACTA
38832404 AAAA
1 AAAA
38832408 TACCATTTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
25 9 0.18
26 8 0.16
27 2 0.04
29 25 0.49
30 7 0.14
ACGTcount: A:0.57, C:0.08, G:0.06, T:0.29
Consensus pattern (28 bp):
AAAAAAAATATTAACTTTTAAGGAACTA
Found at i:38833046 original size:17 final size:18
Alignment explanation
Indices: 38833014--38833048 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
38833004 TGTATTAAAT
38833014 AAAAATTATTACAATTTTA
1 AAAAATTATTA-AATTTTA
38833033 AAAAATTATT-AATTTT
1 AAAAATTATTAAATTTT
38833049 TTTATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAAATTATTAAATTTTA
Found at i:38834945 original size:5 final size:5
Alignment explanation
Indices: 38834935--38834960 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
38834925 TAAATCTTAC
38834935 AATAT AATAT AATAT AATAT AATAT A
1 AATAT AATAT AATAT AATAT AATAT A
38834961 TTTGAATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:38835409 original size:23 final size:23
Alignment explanation
Indices: 38835375--38835426 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
38835365 AAATTTGATT
38835375 TTTAA-ATTATTTAGTGATAATA
1 TTTAAGATTATTTAGTGATAATA
*
38835397 TTTAAGATTATTTTGTGATAATA
1 TTTAAGATTATTTAGTGATAATA
38835420 TTTAAGA
1 TTTAAGA
38835427 AAAATTTAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (23 bp):
TTTAAGATTATTTAGTGATAATA
Found at i:38843201 original size:21 final size:21
Alignment explanation
Indices: 38843177--38843244 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
38843167 GATTTTGAAT
38843177 GAAATCGAGAGAAGAAACAAA
1 GAAATCGAGAGAAGAAACAAA
***** *
38843198 GAAAAT-GAGAGAATCTTGAAT
1 G-AAATCGAGAGAAGAAACAAA
*
38843219 GAAATCGAGAAAAGAAACAAA
1 GAAATCGAGAGAAGAAACAAA
38843240 GAAAT
1 GAAAT
38843245 GAAAGAAAAA
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 4 0.12
21 24 0.75
22 4 0.12
ACGTcount: A:0.59, C:0.07, G:0.22, T:0.12
Consensus pattern (21 bp):
GAAATCGAGAGAAGAAACAAA
Found at i:38843217 original size:42 final size:42
Alignment explanation
Indices: 38843155--38843251 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
38843145 AGATTATGAG
* * *
38843155 AGAAAATGAGAGGATTTTGAATGAAATCGAGAGAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
38843197 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
*
38843239 AG-AAATGAAAGAA
1 AGAAAATGAGAGAA
38843252 AAAGAAAAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 10 0.20
42 41 0.80
ACGTcount: A:0.57, C:0.05, G:0.24, T:0.14
Consensus pattern (42 bp):
AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
Found at i:38843278 original size:18 final size:18
Alignment explanation
Indices: 38843255--38843304 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
38843245 GAAAGAAAAA
*
38843255 GAAAAAGAGATTGAGAGT
1 GAAAAAGAGAATGAGAGT
* *
38843273 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGAGT
38843291 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
38843305 AAAAGAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (18 bp):
GAAAAAGAGAATGAGAGT
Found at i:38843281 original size:24 final size:24
Alignment explanation
Indices: 38843248--38843329 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
38843238 AAGAAATGAA
38843248 AGAAAAAGAAAAAGAGATTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
* * * *
38843272 TGAAAAAGAAAATGAGATTGAAAA
1 AGAAAAAGAAAAAGAGATTGAGAG
* * *
38843296 AGAGAATGAAAAAGAGTTTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
38843320 AGAAAAAGAA
1 AGAAAAAGAA
38843330 TGTGAACAAG
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.12
Consensus pattern (24 bp):
AGAAAAAGAAAAAGAGATTGAGAG
Found at i:38843358 original size:18 final size:19
Alignment explanation
Indices: 38843322--38843360 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
38843312 TTTGAGAGAG
*
38843322 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
38843341 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
38843359 AA
1 AA
38843361 TTAAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:38849300 original size:51 final size:51
Alignment explanation
Indices: 38849239--38849341 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
38849229 CCCATATATG
38849239 TATGGTTGTTTTGGTAAGTTTGAATAATTGAACATATGAGTTGATATGTCA
1 TATGGTTGTTTTGGTAAGTTTGAATAATTGAACATATGAGTTGATATGTCA
38849290 TATGGTTGTTTTGGTAAGTTTGAATAATTGAACATATGAGTTGATATGTCA
1 TATGGTTGTTTTGGTAAGTTTGAATAATTGAACATATGAGTTGATATGTCA
38849341 T
1 T
38849342 GTATAAGATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.44
Consensus pattern (51 bp):
TATGGTTGTTTTGGTAAGTTTGAATAATTGAACATATGAGTTGATATGTCA
Found at i:38857218 original size:9 final size:9
Alignment explanation
Indices: 38857183--38857266 Score: 50
Period size: 9 Copynumber: 9.2 Consensus size: 9
38857173 ATTTTTCCCA
38857183 TAAAAATAT
1 TAAAAATAT
38857192 TAGAAAATTAT
1 TA-AAAA-TAT
38857203 TAAAAAAATAT
1 T--AAAAATAT
*
38857214 TAAAATTAT
1 TAAAAATAT
*
38857223 T--GAATAT
1 TAAAAATAT
38857230 TAAAAATA-
1 TAAAAATAT
*
38857238 TAAAAATTAA
1 TAAAAA-TAT
*
38857248 TAAAAA-CT
1 TAAAAATAT
*
38857256 TATAAATAT
1 TAAAAATAT
38857265 TA
1 TA
38857267 TAATAAATGT
Statistics
Matches: 58, Mismatches: 8, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
7 5 0.09
8 11 0.19
9 19 0.33
10 10 0.17
11 8 0.14
12 4 0.07
13 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (9 bp):
TAAAAATAT
Found at i:38857218 original size:20 final size:21
Alignment explanation
Indices: 38857184--38857223 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
38857174 TTTTTCCCAT
38857184 AAAAATATTAGAAAATTATTAA
1 AAAAATATTA-AAAATTATTAA
38857206 AAAAATATT-AAAATTATT
1 AAAAATATTAAAAATTATT
38857224 GAATATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAAATATTAAAAATTATTAA
Found at i:38857267 original size:9 final size:9
Alignment explanation
Indices: 38857230--38857379 Score: 72
Period size: 9 Copynumber: 15.7 Consensus size: 9
38857220 TATTGAATAT
38857230 TAAAAA-TA
1 TAAAAATTA
38857238 TAAAAATTAA
1 TAAAAATT-A
38857248 TAAAAACTTA
1 TAAAAA-TTA
*
38857258 TAAATATTA
1 TAAAAATTA
38857267 TAATAAATGTA
1 TAA-AAAT-TA
*
38857278 -ATAAATTA
1 TAAAAATTA
***
38857286 TAATTTTTTA
1 TAA-AAATTA
*
38857296 TAAAAATAA
1 TAAAAATTA
*
38857305 TAAAACATATT
1 TAAAA-AT-TA
38857316 TAAAATATT-
1 TAAAA-ATTA
*
38857325 TAAAATTTTA
1 TAAAA-ATTA
38857335 TAAAAATGTA
1 TAAAAAT-TA
*
38857345 TTAAAAATCTG
1 -TAAAAAT-TA
*
38857356 TAAAAATCA
1 TAAAAATTA
*
38857365 TAAAAACTA
1 TAAAAATTA
38857374 TAAAAA
1 TAAAAA
38857380 AAATTATTAA
Statistics
Matches: 108, Mismatches: 22, Indels: 23
0.71 0.14 0.15
Matches are distributed among these distances:
8 8 0.07
9 41 0.38
10 40 0.37
11 19 0.18
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.35
Consensus pattern (9 bp):
TAAAAATTA
Found at i:38857735 original size:19 final size:18
Alignment explanation
Indices: 38857689--38857736 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
38857679 CATGTGCTAA
*
38857689 TAGTTAGATAATGAATTT
1 TAGTTTGATAATGAATTT
*
38857707 T-TTTTGGATAATGAAATTT
1 TAGTTT-GATAATG-AATTT
38857726 TAGTTTGATAA
1 TAGTTTGATAA
38857737 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 2 0.08
18 8 0.33
19 11 0.46
20 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (18 bp):
TAGTTTGATAATGAATTT
Found at i:38857924 original size:19 final size:19
Alignment explanation
Indices: 38857888--38857993 Score: 58
Period size: 19 Copynumber: 5.4 Consensus size: 19
38857878 ATTTCAGTTT
38857888 TAATATTTTAAATTTATTTTTA
1 TAAT-TTTTAAA--TATTTTTA
38857910 TAATTTTTAAATATTTTTA
1 TAATTTTTAAATATTTTTA
* *
38857929 -AGAATTCT-AATATATTTT-
1 TA-ATTTTTAAATAT-TTTTA
* * *
38857947 TAATTTTAAACAAATTTTTT
1 TAATTTTTAA-ATATTTTTA
*
38857967 TATATTTCTATAATA-TTTTA
1 TA-ATTTTTA-AATATTTTTA
38857987 TAATTTT
1 TAATTTT
38857994 AATAAAATTT
Statistics
Matches: 65, Mismatches: 11, Indels: 19
0.68 0.12 0.20
Matches are distributed among these distances:
18 9 0.14
19 26 0.40
20 11 0.17
21 14 0.22
22 5 0.08
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (19 bp):
TAATTTTTAAATATTTTTA
Found at i:38857966 original size:39 final size:40
Alignment explanation
Indices: 38857905--38858003 Score: 102
Period size: 40 Copynumber: 2.5 Consensus size: 40
38857895 TTAAATTTAT
38857905 TTTTATAATTTT--T-AAATATTTTTAAGAATTCTA-ATATA
1 TTTTATAATTTTAATAAAAT-TTTTTAAGAATTCTATA-ATA
* * *
38857943 TTTT-TAATTTTAA-ACAAATTTTTTTATATTTCTATAATA
1 TTTTATAATTTTAATA-AAATTTTTTAAGAATTCTATAATA
38857982 TTTTATAATTTTAATAAAATTT
1 TTTTATAATTTTAATAAAATTT
38858004 AATAATTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
37 7 0.14
38 4 0.08
39 19 0.37
40 20 0.39
41 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (40 bp):
TTTTATAATTTTAATAAAATTTTTTAAGAATTCTATAATA
Found at i:38857998 original size:19 final size:19
Alignment explanation
Indices: 38857905--38858012 Score: 64
Period size: 19 Copynumber: 5.6 Consensus size: 19
38857895 TTAAATTTAT
*
38857905 TTTTATAATTTTTA-AATA
1 TTTTATAATTTTAATAATA
* *
38857923 TTTTTAAGAATTCTAAT-ATA
1 -TTTT-ATAATTTTAATAATA
*
38857943 TTTT-TAATTTTAA-ACAAA
1 TTTTATAATTTTAATA-ATA
*
38857961 TTTTTTTATATTTCT-ATAATA
1 -TTTTATA-ATTT-TAATAATA
*
38857982 TTTTATAATTTTAATAAAA
1 TTTTATAATTTTAATAATA
*
38858001 TTTAATAATTTT
1 TTTTATAATTTT
38858013 TTTTCTAATT
Statistics
Matches: 69, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
17 7 0.10
18 3 0.04
19 32 0.46
20 18 0.26
21 7 0.10
22 2 0.03
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (19 bp):
TTTTATAATTTTAATAATA
Found at i:38868424 original size:19 final size:19
Alignment explanation
Indices: 38868400--38868436 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
38868390 ACATAATTTT
38868400 AAATGAAT-TTTTATAAAAA
1 AAATGAATATTTTA-AAAAA
38868419 AAATGAATATTTTAAAAA
1 AAATGAATATTTTAAAAA
38868437 TATTAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
AAATGAATATTTTAAAAAA
Found at i:38872280 original size:28 final size:28
Alignment explanation
Indices: 38872240--38872297 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
38872230 CTTTTTCGTT
38872240 TTCTTATACTTCATTCAAGGAATTGGTA
1 TTCTTATACTTCATTCAAGGAATTGGTA
38872268 TTCTTATACTTCATTCAAGGAATTGGTA
1 TTCTTATACTTCATTCAAGGAATTGGTA
38872296 TT
1 TT
38872298 GTTCCAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (28 bp):
TTCTTATACTTCATTCAAGGAATTGGTA
Found at i:38874901 original size:31 final size:30
Alignment explanation
Indices: 38874866--38874925 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
38874856 AAGTAAAATT
*
38874866 TTTATGGGATAATATAATATTAAATATAAAG
1 TTTATAGGATAATATAATATTAAA-ATAAAG
*
38874897 TTTATAGGATAATATATTATTAAAATAAA
1 TTTATAGGATAATATAATATTAAAATAAA
38874926 TAAAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (30 bp):
TTTATAGGATAATATAATATTAAAATAAAG
Found at i:38876771 original size:10 final size:9
Alignment explanation
Indices: 38876758--38876835 Score: 50
Period size: 9 Copynumber: 8.2 Consensus size: 9
38876748 AACTTTTGTC
38876758 TTTTTCTTTA
1 TTTTT-TTTA
*
38876768 TTTTTTTTTC
1 -TTTTTTTTA
38876778 TTTTTTTTA
1 TTTTTTTTA
** *
38876787 AGTTTTATA
1 TTTTTTTTA
38876796 TTTTTTCTTA
1 TTTTTT-TTA
38876806 TTTTATTTT-
1 TTTT-TTTTA
* *
38876815 GTTTATTTA
1 TTTTTTTTA
38876824 TTTTTTGTTA
1 TTTTTT-TTA
38876834 TT
1 TT
38876836 AATTTTAAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
8 3 0.06
9 25 0.49
10 16 0.31
11 7 0.14
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:38876782 original size:38 final size:38
Alignment explanation
Indices: 38876740--38876814 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
38876730 TTTTTTCACT
* * *
38876740 TTTTTTTTAACTTTTGT-CTTTTTCTTTATTTTTTTTTC
1 TTTTTTTTAACTTTTATATTTTTTC-TTATTTTATTTTC
*
38876778 TTTTTTTTAAGTTTTATATTTTTTCTTATTTTATTTT
1 TTTTTTTTAACTTTTATATTTTTTCTTATTTTATTTT
38876815 GTTTATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 26 0.81
39 6 0.19
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.79
Consensus pattern (38 bp):
TTTTTTTTAACTTTTATATTTTTTCTTATTTTATTTTC
Found at i:38876792 original size:19 final size:18
Alignment explanation
Indices: 38876740--38876792 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
38876730 TTTTTTCACT
*
38876740 TTTTTTTTAACTTTTGTC
1 TTTTTTTTAATTTTTGTC
* *
38876758 TTTTTCTTTATTTTTTTTTC
1 TTTTT-TTTA-ATTTTTGTC
*
38876778 TTTTTTTTAAGTTTT
1 TTTTTTTTAATTTTT
38876793 ATATTTTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 11 0.39
ACGTcount: A:0.09, C:0.08, G:0.04, T:0.79
Consensus pattern (18 bp):
TTTTTTTTAATTTTTGTC
Found at i:38876809 original size:28 final size:28
Alignment explanation
Indices: 38876771--38876835 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
38876761 TTCTTTATTT
**
38876771 TTTTTTCTT-TTTT-TTAAGTTT-TATA
1 TTTTTTCTTATTTTATTTTGTTTATATA
*
38876796 TTTTTTCTTATTTTATTTTGTTTATTTA
1 TTTTTTCTTATTTTATTTTGTTTATATA
*
38876824 TTTTTTGTTATT
1 TTTTTTCTTATT
38876836 AATTTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 9 0.27
26 4 0.12
27 6 0.18
28 14 0.42
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (28 bp):
TTTTTTCTTATTTTATTTTGTTTATATA
Found at i:38876834 original size:14 final size:14
Alignment explanation
Indices: 38876764--38876841 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 14
38876754 TGTCTTTTTC
* *
38876764 TTTATTTTTTTTTC
1 TTTATTTTTTGTTA
*
38876778 TTT-TTTTTAAGTT-
1 TTTATTTTT-TGTTA
*
38876791 TTATATTTTTTCTTA
1 TT-TATTTTTTGTTA
*
38876806 TTT-TATTTTGTTTA
1 TTTATTTTTTG-TTA
38876820 TTTATTTTTTGTTA
1 TTTATTTTTTGTTA
*
38876834 TTAATTTT
1 TTTATTTT
38876842 AAAATATTTG
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
13 12 0.24
14 25 0.50
15 13 0.26
ACGTcount: A:0.15, C:0.03, G:0.04, T:0.78
Consensus pattern (14 bp):
TTTATTTTTTGTTA
Found at i:38876915 original size:20 final size:21
Alignment explanation
Indices: 38876892--38876933 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
38876882 TTTAAATATT
*
38876892 ATTTTTAA-ACTATTTTTTAA
1 ATTTTGAACACTATTTTTTAA
*
38876912 ATTTTGAACATTATTTTTTAA
1 ATTTTGAACACTATTTTTTAA
38876933 A
1 A
38876934 ATTATGTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTTGAACACTATTTTTTAA
Found at i:38876966 original size:36 final size:32
Alignment explanation
Indices: 38876873--38876991 Score: 105
Period size: 36 Copynumber: 3.5 Consensus size: 32
38876863 AATATATATT
* *
38876873 TTTTA-AAATTTTAAATATTATTTTTAAACTA
1 TTTTATAAATTTTAAAAATTATTTTTAAATTA
* * *
38876904 TTTTTTAAATTTTGAACATTATTTTTTAAAATTA
1 TTTTATAAATTTTAAAAATTA-TTTTT-AAATTA
38876938 TGTCTTATAAATTTTAAAAATATATTTTTGAAATTAA
1 T-T-TTATAAATTTTAAAAAT-TATTTTT-AAATT-A
*
38876975 TTTTTCTAAATTTTAAA
1 -TTTTATAAATTTTAAA
38876992 TTTTAAATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
31 4 0.06
32 13 0.18
33 5 0.07
34 6 0.08
35 1 0.01
36 37 0.52
37 4 0.06
38 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (32 bp):
TTTTATAAATTTTAAAAATTATTTTTAAATTA
Found at i:38876993 original size:7 final size:7
Alignment explanation
Indices: 38876981--38877029 Score: 62
Period size: 7 Copynumber: 6.6 Consensus size: 7
38876971 TTAATTTTTC
38876981 TAAATTT
1 TAAATTT
38876988 TAAATTT
1 TAAATTT
38876995 TAAATATAT
1 TAAAT-T-T
*
38877004 TATATTT
1 TAAATTT
38877011 CTAAATTT
1 -TAAATTT
38877019 TAAATTT
1 TAAATTT
38877026 TAAA
1 TAAA
38877030 AATATATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
7 24 0.65
8 8 0.22
9 5 0.14
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (7 bp):
TAAATTT
Found at i:38877013 original size:31 final size:32
Alignment explanation
Indices: 38876977--38877052 Score: 127
Period size: 33 Copynumber: 2.4 Consensus size: 32
38876967 GAAATTAATT
38876977 TTTCTAAATTTTAAATTTT-AAATATATTATA
1 TTTCTAAATTTTAAATTTTAAAATATATTATA
*
38877008 TTTCTAAATTTTAAATTTTAAAAATATATTATT
1 TTTCTAAATTTTAAATTTT-AAAATATATTATA
38877041 TTTCTAAATTTT
1 TTTCTAAATTTT
38877053 TGAAATTATG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
31 19 0.45
33 23 0.55
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (32 bp):
TTTCTAAATTTTAAATTTTAAAATATATTATA
Found at i:38877058 original size:26 final size:25
Alignment explanation
Indices: 38877019--38877068 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
38877009 TTCTAAATTT
*
38877019 TAAATTTTAAAAATATATTATTTTTC
1 TAAATTTTAAAAAT-TATGATTTTTC
**
38877045 TAAATTTTTGAAATTATGATTTTT
1 TAAATTTTAAAAATTATGATTTTT
38877069 AATTATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (25 bp):
TAAATTTTAAAAATTATGATTTTTC
Found at i:38877174 original size:20 final size:20
Alignment explanation
Indices: 38877151--38877201 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
38877141 TTAAATATTA
38877151 TTAAAAATAATATTTAAAAT
1 TTAAAAATAATATTTAAAAT
38877171 TTAAAAATAATATTTAAAAT
1 TTAAAAATAATATTTAAAAT
*
38877191 TAAAAAATAAT
1 TTAAAAATAAT
38877202 TTCAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TTAAAAATAATATTTAAAAT
Found at i:38877208 original size:13 final size:13
Alignment explanation
Indices: 38877192--38877234 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
38877182 ATTTAAAATT
38877192 AAAAAATAATTTC
1 AAAAAATAATTTC
*
38877205 AAAAAAAAATTT-
1 AAAAAATAATTTC
38877217 ATAAGAAATAATTTC
1 A-AA-AAATAATTTC
38877232 AAA
1 AAA
38877235 TATATATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 1 0.04
13 13 0.52
14 10 0.40
15 1 0.04
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (13 bp):
AAAAAATAATTTC
Found at i:38877211 original size:14 final size:14
Alignment explanation
Indices: 38877192--38877234 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
38877182 ATTTAAAATT
38877192 AAAAAATAATTTCA
1 AAAAAATAATTTCA
38877206 AAAAAA-AATTT-A
1 AAAAAATAATTTCA
*
38877218 TAAGAAATAATTTCA
1 -AAAAAATAATTTCA
38877233 AA
1 AA
38877235 TATATATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
12 1 0.04
13 10 0.40
14 13 0.52
15 1 0.04
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (14 bp):
AAAAAATAATTTCA
Found at i:38877254 original size:19 final size:19
Alignment explanation
Indices: 38877155--38877262 Score: 78
Period size: 20 Copynumber: 5.6 Consensus size: 19
38877145 ATATTATTAA
38877155 AAATA-ATATTTAAAATTT
1 AAATATATATTTAAAATTT
* *
38877173 AAAAATAATATTTAAAATTA
1 AAATAT-ATATTTAAAATTT
* **
38877193 AAAAATA-ATTTCAAAA-AA
1 AAATATATATTT-AAAATTT
* ***
38877211 AAATTTATAAGAAATAATTT
1 AAATATATATTTAA-AATTT
38877231 CAAATATATATTTAAAATTT
1 -AAATATATATTTAAAATTT
38877251 AAATATATATTT
1 AAATATATATTT
38877263 TTGAAATTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 13
0.72 0.15 0.14
Matches are distributed among these distances:
18 16 0.23
19 20 0.29
20 23 0.33
21 10 0.14
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (19 bp):
AAATATATATTTAAAATTT
Found at i:38877301 original size:14 final size:14
Alignment explanation
Indices: 38877282--38877357 Score: 59
Period size: 14 Copynumber: 5.5 Consensus size: 14
38877272 TTTTATTTTG
38877282 TTTAAAAATATATT
1 TTTAAAAATATATT
38877296 TTTAAAAATATA--
1 TTTAAAAATATATT
* *
38877308 TTTAAAATTTAAAATT
1 TTTAAAA-AT-ATATT
** *
38877324 TAGAAAAAT-TAAT
1 TTTAAAAATATATT
*
38877337 TTCAAAAATATATT
1 TTTAAAAATATATT
38877351 TTTAAAA
1 TTTAAAA
38877358 TTTATAAGAC
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
12 7 0.15
13 10 0.22
14 23 0.50
15 1 0.02
16 5 0.11
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (14 bp):
TTTAAAAATATATT
Found at i:38877373 original size:36 final size:32
Alignment explanation
Indices: 38877314--38877433 Score: 118
Period size: 36 Copynumber: 3.5 Consensus size: 32
38877304 TATATTTAAA
38877314 ATTTAAAATTTAGAAAAATTAATTTCAAAAATATAT
1 ATTTAAAATTT--AAAAA-TAATTT-AAAAATATAT
*
38877350 TTTTAAAATTTATAAGACATAATTTTAAAAA-ATAAT
1 ATTTAAAATTTA-AA-A-ATAA-TTTAAAAATAT-AT
*
38877386 ATTCAAAATTTAAAAATAATTTAAAAATA-AT
1 ATTTAAAATTTAAAAATAATTTAAAAATATAT
38877417 ATTTAAAATTTTAAAAA
1 ATTTAAAA-TTTAAAAA
38877434 ATATATATTA
Statistics
Matches: 73, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
31 9 0.12
32 16 0.22
33 5 0.07
34 2 0.03
35 6 0.08
36 31 0.42
37 4 0.05
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.39
Consensus pattern (32 bp):
ATTTAAAATTTAAAAATAATTTAAAAATATAT
Found at i:38877422 original size:13 final size:11
Alignment explanation
Indices: 38877392--38877433 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
38877382 TAATATTCAA
38877392 AATTTAAAAAT
1 AATTTAAAAAT
38877403 AATTTAAAAAT
1 AATTTAAAAAT
*
38877414 AATATTTAAAAT
1 AAT-TTAAAAAT
38877426 --TTTAAAAA
1 AATTTAAAAA
38877434 ATATATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 6 0.21
10 1 0.04
11 14 0.50
12 7 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AATTTAAAAAT
Found at i:38877422 original size:24 final size:24
Alignment explanation
Indices: 38877393--38877453 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 24
38877383 AATATTCAAA
38877393 ATTTAAAAATAATTT-AAAAATA-AT
1 ATTTAAAAAT--TTTAAAAAATATAT
38877417 ATTT-AAAATTTTAAAAAATATAT
1 ATTTAAAAATTTTAAAAAATATAT
38877440 ATTATAAAACATTT
1 ATT-TAAAA-ATTT
38877454 CAAATTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
21 3 0.09
22 7 0.22
23 10 0.31
24 5 0.16
25 3 0.09
26 4 0.12
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTTAAAAATTTTAAAAAATATAT
Found at i:38877492 original size:9 final size:9
Alignment explanation
Indices: 38877478--38877511 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
38877468 TTAATAACAA
38877478 AAAATAAAT
1 AAAATAAAT
38877487 AAAATAAAT
1 AAAATAAAT
38877496 AAACA-AAAT
1 AAA-ATAAAT
38877505 AAAATAA
1 AAAATAA
38877512 GAAAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:38877495 original size:13 final size:13
Alignment explanation
Indices: 38877465--38877507 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
38877455 AAATTTTTTA
* *
38877465 AAATTAATAACAAA
1 AAATAAATAA-AAT
38877479 AAATAAATAAAAT
1 AAATAAATAAAAT
*
38877492 AAATAAACAAAAT
1 AAATAAATAAAAT
38877505 AAA
1 AAA
38877508 ATAAGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:38877509 original size:23 final size:24
Alignment explanation
Indices: 38877463--38877520 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
38877453 TCAAATTTTT
*
38877463 TAAAATTAAT-AACAAAAAATAAA
1 TAAAATAAATAAACAAAAAATAAA
*
38877486 TAAAATAAATAAACAAAATA-AAA
1 TAAAATAAATAAACAAAAAATAAA
*
38877509 TAAGAAAAAATA
1 TAA-AATAAATA
38877521 TAAAACTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.50
24 15 0.50
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (24 bp):
TAAAATAAATAAACAAAAAATAAA
Found at i:38877525 original size:8 final size:8
Alignment explanation
Indices: 38877478--38877594 Score: 58
Period size: 8 Copynumber: 13.9 Consensus size: 8
38877468 TTAATAACAA
38877478 AAAATAAAT
1 AAAA-AAAT
38877487 AAAATAAAT
1 AAAA-AAAT
38877496 AAACAAAAT
1 AAA-AAAAT
*
38877505 AAAATAA-
1 AAAAAAAT
*
38877512 GAAAAAAT
1 AAAAAAAT
**
38877520 ATAAAACTT
1 A-AAAAAAT
*
38877529 AAAAAAAG
1 AAAAAAAT
38877537 AAAAAAAT
1 AAAAAAAT
*
38877545 AAAGAAAT
1 AAAAAAAT
38877553 AGACAAAAAT
1 A-A-AAAAAT
* *
38877563 TAATAAA-
1 AAAAAAAT
**
38877570 AAAGTAAT
1 AAAAAAAT
38877578 AAAAAAAGT
1 AAAAAAA-T
38877587 GAAAAAAA
1 -AAAAAAA
38877595 GGTGTCAGGT
Statistics
Matches: 81, Mismatches: 19, Indels: 15
0.70 0.17 0.13
Matches are distributed among these distances:
7 9 0.11
8 31 0.38
9 28 0.35
10 13 0.16
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (8 bp):
AAAAAAAT
Found at i:38877594 original size:12 final size:12
Alignment explanation
Indices: 38877528--38877586 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 12
38877518 ATATAAAACT
38877528 TAAAAAAAG-AA
1 TAAAAAAAGTAA
* *
38877539 AAAAATAAAGAAA
1 TAAAA-AAAGTAA
*
38877552 TAGACAAAAATTAA
1 TA-A-AAAAAGTAA
38877566 T-AAAAAAGTAA
1 TAAAAAAAGTAA
38877577 TAAAAAAAGT
1 TAAAAAAAGT
38877587 GAAAAAAAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
11 13 0.34
12 13 0.34
13 3 0.08
14 7 0.18
15 2 0.05
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (12 bp):
TAAAAAAAGTAA
Found at i:38883520 original size:82 final size:82
Alignment explanation
Indices: 38883434--38883600 Score: 316
Period size: 82 Copynumber: 2.0 Consensus size: 82
38883424 AATATGAAAA
*
38883434 GGGGGGAAAGAATGAATGAATTATAAAGAATATAAAAACATGAATTTTAAAAGAACTCAATGGAA
1 GGGGGGAAAGAATGAATGAATTATAAAAAATATAAAAACATGAATTTTAAAAGAACTCAATGGAA
38883499 ATAAAAACAAAATTAAG
66 ATAAAAACAAAATTAAG
38883516 GGGGGGAAAGAATGAATGAATTATAAAAAATATAAAAACATGAATTTTAAAAGAACTCAATGGAA
1 GGGGGGAAAGAATGAATGAATTATAAAAAATATAAAAACATGAATTTTAAAAGAACTCAATGGAA
*
38883581 ATAAAAACAAAATTTAG
66 ATAAAAACAAAATTAAG
38883598 GGG
1 GGG
38883601 ATAATTTGTA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.55, C:0.05, G:0.19, T:0.21
Consensus pattern (82 bp):
GGGGGGAAAGAATGAATGAATTATAAAAAATATAAAAACATGAATTTTAAAAGAACTCAATGGAA
ATAAAAACAAAATTAAG
Found at i:38883954 original size:17 final size:17
Alignment explanation
Indices: 38883932--38883967 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
38883922 TTAGTGGAAG
38883932 GTAGGGTGATGGAGTTA
1 GTAGGGTGATGGAGTTA
38883949 GTAGGGTGATGGAGTTA
1 GTAGGGTGATGGAGTTA
38883966 GT
1 GT
38883968 GGTCGGTTTA
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:0.22, C:0.00, G:0.47, T:0.31
Consensus pattern (17 bp):
GTAGGGTGATGGAGTTA
Found at i:38884520 original size:45 final size:44
Alignment explanation
Indices: 38884419--38884593 Score: 162
Period size: 45 Copynumber: 3.9 Consensus size: 44
38884409 AAGATCTGTA
* *
38884419 ATTTTTAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGCT
1 ATTTTTAGTCTGCTCCCTGCAACTTCAGGAAGATAAGACTTGTT
* *
38884463 GTCTTTAGTCTGCTCCACTGCAACTTCAAGG-AGATAAGACTTGTT
1 ATTTTTAGTCTGCTCC-CTGCAACTTC-AGGAAGATAAGACTTGTT
* * *
38884508 ATTTTCTA-TCTGCTCCATAGCCAA-TACATGG-AGATAAGA-TCTGTAA
1 ATTTT-TAGTCTGCTCCCT-G-CAACTTCA-GGAAGATAAGACT-TGT-T
* *
38884554 ATTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACT
1 ATTTTTAGTCTGCTCCCTGCAACTTCAGGAAGATAAGACT
38884594 AGTGGCTAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
44 21 0.20
45 63 0.59
46 22 0.21
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (44 bp):
ATTTTTAGTCTGCTCCCTGCAACTTCAGGAAGATAAGACTTGTT
Found at i:38884655 original size:134 final size:133
Alignment explanation
Indices: 38884253--38884889 Score: 541
Period size: 134 Copynumber: 4.9 Consensus size: 133
38884243 GGCTAAAATT
* * * *
38884253 TGCTCCATAGACGATACATGGAGATAAGATCTGTACTTTTCAGTCTGCTTCTTGCAACTTCAGGA
1 TGCTCCATAGCCAATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAGGA
** ** * * * *** * * ***
38884318 AGATAAGACCTA-TATCTTCAACCTGCTCTC-TTGCTACCT-CAAACAGATAAGGCTGGT-GGCT
66 AGATAAGA-CTAGTGGCTAAAATCTGCTC-CACTGC-AACTACATGGAGATAAGACTTGTCATTT
**
38884379 AAAATC
128 CTAATC
* * *
38884385 TACTTCATAGCCAATACATGGAG-TAAGATCTGTAATTTTTAGTCTGCTTCCTGCAACTTCAGGA
1 TGCTCCATAGCCAATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAGGA
* * ** * * * *
38884449 AGATAAGACTTGCTGTCTTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTTATTTTC
66 AGATAAGACTAG-TGGCTAAAATCTGCTCCACTGCAACTACATGGAGATAAGACTTGTCA-TTTC
38884514 T-ATC
129 TAATC
38884518 TGCTCCATAGCCAATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAACTTCAGG
1 TGCTCCATAGCCAATACATGGAGATAAGATCTGT-AATTTTCAGTCTGCTTCCTGCAACTTCAGG
* * *
38884583 AAGATAAGACTAGTGGCTAAAATCTGCTCCA-TAGCCGA-TAGATGGAGATAAGACTCGTCATTT
65 AAGATAAGACTAGTGGCTAAAATCTGCTCCACT-G-CAACTACATGGAGATAAGACTTGTCATTT
38884646 CTAATC
128 CTAATC
* * *
38884652 TGCTCCATAGCCGATACATGGAAATAAGATCTGTAACTTTCAGTCTGCTTCCT---A--T----A
1 TGCTCCATAGCCAATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAGGA
* ** * * *
38884708 AGACT-TG-CTA-T--CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATTT-T
66 AGA-TAAGACTAGTGGCTAAAATCTGCTCCACTGCAACTACATGGAGATAAGACTTGTCATTTCT
38884767 CAATC
130 -AATC
* * * *
38884772 TGCTCCATAGCCGATACATGGAGATAAGACCTGTAAATCTTCAGTCTGCTTACTGCAACTTCAGG
1 TGCTCCATAGCCAATACATGGAGATAAGATCTGT-AATTTTCAGTCTGCTTCCTGCAACTTCAGG
*
38884837 AAGATAAGACTAGTGGCTAAAATCTGCTCCA-TAGCCGA-TACATGGAGATAAGA
65 AAGATAAGACTAGTGGCTAAAATCTGCTCCACT-G-CAACTACATGGAGATAAGA
38884890 TCTGTAATTT
Statistics
Matches: 412, Mismatches: 61, Indels: 62
0.77 0.11 0.12
Matches are distributed among these distances:
119 3 0.01
120 70 0.17
121 17 0.04
122 1 0.00
123 3 0.01
124 6 0.01
125 1 0.00
126 1 0.00
128 1 0.00
129 1 0.00
130 8 0.02
131 53 0.13
132 49 0.12
133 49 0.12
134 104 0.25
135 45 0.11
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (133 bp):
TGCTCCATAGCCAATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAGGA
AGATAAGACTAGTGGCTAAAATCTGCTCCACTGCAACTACATGGAGATAAGACTTGTCATTTCTA
ATC
Found at i:38884699 original size:45 final size:45
Alignment explanation
Indices: 38884496--38884700 Score: 120
Period size: 45 Copynumber: 4.6 Consensus size: 45
38884486 CTTCAAGGAG
* * * * *
38884496 ATAAGACTTGTTATTTTCTATCTGCTCCATAGCCAATACATGGAG
1 ATAAGACTAGTAACTTTCAATCTGCTCCATAGCCAATACATGGAA
* * *
38884541 ATAAGATCT-GTAAATTTTCAGTCTGCTTCC-T-G-CAACTTCA-GGAA
1 ATAAGA-CTAGT-AACTTTCAATCTGC-TCCATAGCCAA-TACATGGAA
** ** * * *
38884585 GATAAGACTAGTGGC-TAAAATCTGCTCCATAGCCGATAGATGGAG
1 -ATAAGACTAGTAACTTTCAATCTGCTCCATAGCCAATACATGGAA
* * *
38884630 ATAAGACTCGTCA-TTTCTAATCTGCTCCATAGCCGATACATGGAA
1 ATAAGACTAGTAACTTTC-AATCTGCTCCATAGCCAATACATGGAA
*
38884675 ATAAGATCT-GTAACTTTCAGTCTGCT
1 ATAAGA-CTAGTAACTTTCAATCTGCT
38884701 TCCTATAAGA
Statistics
Matches: 122, Mismatches: 24, Indels: 28
0.70 0.14 0.16
Matches are distributed among these distances:
42 3 0.02
43 8 0.07
44 22 0.18
45 66 0.54
46 20 0.16
47 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (45 bp):
ATAAGACTAGTAACTTTCAATCTGCTCCATAGCCAATACATGGAA
Found at i:38884774 original size:45 final size:45
Alignment explanation
Indices: 38884705--38885023 Score: 190
Period size: 45 Copynumber: 7.1 Consensus size: 45
38884695 TCTGCTTCCT
*
38884705 ATAAGACTTG-CTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
1 ATAAGACTTGTC-ATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * * *
38884750 ATAAGACTTGTCATTTTCAATCTGCTCCA-TAGCCGA-TACATGGAG
1 ATAAGACTTGTCATCTTCAATCTGCTCCACT-G-CAACTTCAGGGAG
* * * * *
38884795 ATAAGACCTGTAAATCTTCAGTCTGCT-TACTGCAACTTCAGGAAG
1 ATAAGACTTGT-CATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* ** ** * * *
38884840 ATAAGACTAGT-GGCTAAAATCTGCTCCA-TAGCCGA-TACATGGAG
1 ATAAGACTTGTCATCTTCAATCTGCTCCACT-G-CAACTTCAGGGAG
* * * * * * * *
38884884 ATAAGA-TCTGTAATTTTCAGTCTACTTC-TTGCAACTTCAAGAAG
1 ATAAGACT-TGTCATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
*
38884928 ATAAGACTTG-CTATCTTCAATCTGCTCCATTGCAACTTCAGGGAG
1 ATAAGACTTGTC-ATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * *** * *
38884973 ATAAGACTTGTCATTTTCGATCAATTCCGCTGCAACTTTAGGGAG
1 ATAAGACTTGTCATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
38885018 ATAAGA
1 ATAAGA
38885024 TTTAACTTTA
Statistics
Matches: 203, Mismatches: 54, Indels: 34
0.70 0.19 0.12
Matches are distributed among these distances:
43 13 0.06
44 46 0.23
45 127 0.63
46 17 0.08
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (45 bp):
ATAAGACTTGTCATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
Found at i:38884977 original size:89 final size:89
Alignment explanation
Indices: 38884717--38884957 Score: 315
Period size: 89 Copynumber: 2.7 Consensus size: 89
38884707 AAGACTTGCT
* * * *
38884717 ATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATTTTCAATCTGCTCCATAG
1 ATCTTCAGTCTACT-TACTGCAACTTCAGGAAGATAAGACTTGT-ATCTTCAATCTGCTCCATAG
38884782 CCGATACATGGAGATAAGACCTGTAA
64 CCGATACATGGAGATAAGACCTGTAA
* * ** **
38884808 ATCTTCAGTCTGCTTACTGCAACTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCC
1 ATCTTCAGTCTACTTACTGCAACTTCAGGAAGATAAGACTTGTATCTTCAATCTGCTCCATAGCC
*
38884873 GATACATGGAGATAAGATCTGT-A
66 GATACATGGAGATAAGACCTGTAA
* *
38884896 ATTTTCAGTCTACTT-CTTGCAACTTCAAGAAGATAAGACTTGCTATCTTCAATCTGCTCCAT
1 ATCTTCAGTCTACTTAC-TGCAACTTCAGGAAGATAAGACTTG-TATCTTCAATCTGCTCCAT
38884958 TGCAACTTCA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
87 1 0.01
88 37 0.28
89 53 0.40
90 26 0.20
91 14 0.11
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (89 bp):
ATCTTCAGTCTACTTACTGCAACTTCAGGAAGATAAGACTTGTATCTTCAATCTGCTCCATAGCC
GATACATGGAGATAAGACCTGTAA
Found at i:38885192 original size:64 final size:64
Alignment explanation
Indices: 38885091--38885218 Score: 184
Period size: 64 Copynumber: 2.0 Consensus size: 64
38885081 TCATGTATCT
* *
38885091 ATGCTTATGCCAAATAATTAAGATACTATGATCGAAATAAACCAAATGCTCCTAACTAAATGTG
1 ATGCTTATACCAAATAATTAAGATACTATGATCGAAATAAACCAAATACTCCTAACTAAATGTG
* * * * * *
38885155 ATGCTTATATCAAATAATTAGGATGCTATGATCGAAATGAATCAAATACTCCTAACTAGATGTG
1 ATGCTTATACCAAATAATTAAGATACTATGATCGAAATAAACCAAATACTCCTAACTAAATGTG
38885219 TTATGAATGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (64 bp):
ATGCTTATACCAAATAATTAAGATACTATGATCGAAATAAACCAAATACTCCTAACTAAATGTG
Found at i:38889557 original size:19 final size:19
Alignment explanation
Indices: 38889517--38889561 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
38889507 GTGAAGTTTG
*
38889517 ATGCACATGATGCAATGCA
1 ATGCAAATGATGCAATGCA
*
38889536 ATGCAAATGCATGGAATG-A
1 ATGCAAATG-ATGCAATGCA
38889555 ATGCAAA
1 ATGCAAA
38889562 AGAAAGTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (19 bp):
ATGCAAATGATGCAATGCA
Found at i:38892007 original size:14 final size:15
Alignment explanation
Indices: 38891979--38892007 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38891969 AGCTTAATAT
38891979 AAATAATATATACAA
1 AAATAATATATACAA
38891994 AAATAATA-ATACAA
1 AAATAATATATACAA
38892008 TATTTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAATATATACAA
Found at i:38892048 original size:10 final size:10
Alignment explanation
Indices: 38892033--38892069 Score: 65
Period size: 10 Copynumber: 3.6 Consensus size: 10
38892023 CATAAAAAAG
38892033 AAAATAGAAT
1 AAAATAGAAT
38892043 AAAATAGAAT
1 AAAATAGAAT
38892053 AAAATAGAAT
1 AAAATAGAAT
38892063 GAAAATA
1 -AAAATA
38892070 TACAAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 20 0.77
11 6 0.23
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (10 bp):
AAAATAGAAT
Found at i:38892582 original size:17 final size:17
Alignment explanation
Indices: 38892560--38892595 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
38892550 TTAGTGGAAG
38892560 GTAGGGTGATGAAGTTA
1 GTAGGGTGATGAAGTTA
*
38892577 GTAGGGTGATGGAGTTA
1 GTAGGGTGATGAAGTTA
38892594 GT
1 GT
38892596 GGTCGGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.44, T:0.31
Consensus pattern (17 bp):
GTAGGGTGATGAAGTTA
Found at i:38897677 original size:19 final size:17
Alignment explanation
Indices: 38897647--38897688 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
38897637 TGCGCGACCC
38897647 ATTTTTTTAATAATATA
1 ATTTTTTTAATAATATA
*
38897664 ATTTTTTTAA-AATATT
1 ATTTTTTTAATAATATA
*
38897680 ATTATTTTA
1 ATTTTTTTA
38897689 TTATATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTTTTAATAATATA
Found at i:38898034 original size:20 final size:20
Alignment explanation
Indices: 38898003--38898044 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
38897993 AAGTTGAACG
*
38898003 GAAAAAAGAAGATAGGAAGAA
1 GAAAAAAGAAGAAAGG-AGAA
38898024 GAAAAAA-AAGAAAGGAGAA
1 GAAAAAAGAAGAAAGGAGAA
38898043 GA
1 GA
38898045 CCCTGCACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 7 0.35
21 7 0.35
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (20 bp):
GAAAAAAGAAGAAAGGAGAA
Done.