Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 65 of 226
Found at i:21060258 original size:120 final size:119
Alignment explanation
Indices: 21060084--21060382 Score: 457
Period size: 119 Copynumber: 2.5 Consensus size: 119
21060074 TTAGTTATAA
* *
21060084 TAATTTT-A-AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATATTAATTAT-TTG
1 TAATTTTAAGAATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTT-
* * *
21060144 AAATTT-TCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTT
64 -AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATAT
*
21060200 TATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
1 TAATT-TTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
*
21060265 ATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
65 ATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATAT
21060320 TAATTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 TAATTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
21060383 TAAATATGAT
Statistics
Matches: 168, Mismatches: 8, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
116 4 0.02
117 2 0.01
118 1 0.01
119 81 0.48
120 75 0.45
121 5 0.03
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (119 bp):
TAATTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAA
TTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATAT
Found at i:21060365 original size:16 final size:16
Alignment explanation
Indices: 21060344--21060385 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
21060334 TTATTAAATT
*
21060344 ATATATTTTAATTATA
1 ATATATTTTAATAATA
21060360 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
21060375 AT-TATGTTTAA
1 ATATAT-TTTAA
21060386 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:21060370 original size:15 final size:15
Alignment explanation
Indices: 21060335--21060376 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21060325 TTAAGAATTT
*
21060335 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21060349 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21060363 TATTTAATAATAAT
1 TATTTAATTATAAT
21060377 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21060496 original size:154 final size:156
Alignment explanation
Indices: 21060320--21060633 Score: 553
Period size: 154 Copynumber: 2.0 Consensus size: 156
21060310 ATAAGAATAT
*
21060320 TAATTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 TAATTTTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
21060385 AATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAA-TTTAAATAACAATAACAAT
66 AATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTTAAATAACAATAACAAT
21060447 AATAATTTACCAAAACAAATTTATGC
131 AATAATTTACCAAAACAAATTTATGC
21060473 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATT-TTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
21060538 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTTAAATAACAATAACA
65 AAATATGATTAAATTATTTATTATTGATAAT-ATAATCTTATTAAAATTTTAAATAACAATAACA
* * *
21060603 ATAATCATTTACCAAAATAAATTTCTGC
129 ATAATAATTTACCAAAACAAATTTATGC
21060631 TAA
1 TAA
21060634 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 4, Indels: 5
0.94 0.02 0.03
Matches are distributed among these distances:
153 5 0.03
154 86 0.57
155 2 0.01
157 14 0.09
158 45 0.30
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (156 bp):
TAATTTTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTTAAATAACAATAACAAT
AATAATTTACCAAAACAAATTTATGC
Found at i:21060513 original size:18 final size:17
Alignment explanation
Indices: 21060485--21060519 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21060475 ATTATTAAGA
*
21060485 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21060502 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21060520 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21060774 original size:16 final size:16
Alignment explanation
Indices: 21060753--21060791 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
21060743 TTGATTTGCT
*
21060753 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
21060769 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
21060785 ATTACAC
1 ATTACAC
21060792 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:21060792 original size:16 final size:16
Alignment explanation
Indices: 21060766--21060822 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
21060756 ACACAGCTTT
* *
21060766 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
21060782 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
21060798 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
21060814 TCCAATACA
1 TCCAATACA
21060823 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:21070570 original size:3 final size:3
Alignment explanation
Indices: 21070562--21070611 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
21070552 CTACTTCTTG
21070562 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21070610 AT
1 AT
21070612 ACTCTTCAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:21084836 original size:3 final size:3
Alignment explanation
Indices: 21084830--21084858 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
21084820 TAACATGCAA
21084830 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
21084859 ATTATTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:21084863 original size:3 final size:3
Alignment explanation
Indices: 21084857--21084887 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
21084847 GTTGTTGTTG
*
21084857 TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
21084888 ATATGTGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:21098105 original size:43 final size:43
Alignment explanation
Indices: 21098040--21098155 Score: 178
Period size: 43 Copynumber: 2.7 Consensus size: 43
21098030 TGTGATTTCA
* * *
21098040 TGTAAGACCATATCTGGAACATTGACATCGAAGCGAGATAACG
1 TGTAAGACCATGTCTGGAACATTGGCATCGAAGCGAGATAACC
* * *
21098083 TTTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGATAACC
1 TGTAAGACCATGTCTGGAACATTGGCATCGAAGCGAGATAACC
21098126 TGTAAGACCATGTCTGGAACATTGGCATCG
1 TGTAAGACCATGTCTGGAACATTGGCATCG
21098156 TATATGAGTC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGAACATTGGCATCGAAGCGAGATAACC
Found at i:21098214 original size:84 final size:85
Alignment explanation
Indices: 21098038--21098226 Score: 213
Period size: 84 Copynumber: 2.2 Consensus size: 85
21098028 TATGTGATTT
*
21098038 CATGTAAGACCATATCTGGAACATTGACATCGAAGCGAGATAACGTTTAAGACCATGTCTGGGAC
1 CATGTAAGACCATATCTGGAACATTGACATCGAAGCGAGAT-ACGTATAAGACCATGTCTGGGAC
** *
21098103 ATTGGCATCGAAGTGAGATAA
65 AGCGGCATCGAAATGAGATAA
* * * * *
21098124 CCTGTAAGACCATGTCTGGAACATTGGCATCGTATA-TGAG-T-CGTATAAGACCCTGTCTGGGA
1 CATGTAAGACCATATCTGGAACATTGACATCG-A-AGCGAGATACGTATAAGACCATGTCTGGGA
* * * *
21098186 TAGCGGCATCGAAATGTGTTGA
64 CAGCGGCATCGAAATGAGATAA
21098208 CATGTAAGACCATATCTGG
1 CATGTAAGACCATATCTGG
21098227 GATATGGCAT
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
84 51 0.59
86 30 0.35
87 4 0.05
88 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (85 bp):
CATGTAAGACCATATCTGGAACATTGACATCGAAGCGAGATACGTATAAGACCATGTCTGGGACA
GCGGCATCGAAATGAGATAA
Found at i:21098590 original size:29 final size:27
Alignment explanation
Indices: 21098528--21098583 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
21098518 TTTCAAAGCT
21098528 TACTTTGTGTGTCTTTTCATTGTTTTA
1 TACTTTGTGTGTCTTTTCATTGTTTTA
21098555 TACTTTGTGTGTCTTTTCATTGTTTTA
1 TACTTTGTGTGTCTTTTCATTGTTTTA
21098582 TA
1 TA
21098584 GATTTTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.12, C:0.11, G:0.14, T:0.62
Consensus pattern (27 bp):
TACTTTGTGTGTCTTTTCATTGTTTTA
Found at i:21102651 original size:41 final size:41
Alignment explanation
Indices: 21102601--21102879 Score: 348
Period size: 41 Copynumber: 6.8 Consensus size: 41
21102591 TTAATTTAAA
* *
21102601 CAGATTCACCAGCACTTAGCCTGTTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* *
21102643 CAGATCACCGACACTTAGCCTACTAGGCTTATAA-CCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA-AAGCCTGATT
* *
21102684 TAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* *
21102725 CAGATCACCGACACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* *
21102766 CAAATCACCGGCACTTAGCCTGCTAGGCTTATAA-CCTGGTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA-AAGCCTGATT
* *
21102807 CAGATCACCGGCACTTAGCCTGCTAGGTTTTAAAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGG-CTTAAAGCCTGATT
* ** *
21102849 CAG-TACACCGACTTTTAGCCTGCTAGACTTA
1 CAGAT-CACCGGCACTTAGCCTGCTAGGCTTA
21102880 TAGTCCGAAA
Statistics
Matches: 209, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
40 1 0.00
41 171 0.82
42 37 0.18
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
Found at i:21102743 original size:82 final size:82
Alignment explanation
Indices: 21102601--21102882 Score: 386
Period size: 82 Copynumber: 3.4 Consensus size: 82
21102591 TTAATTTAAA
* * * *
21102601 CAGATTCACCAGCACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTAC
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGACACTTAGCCTGC
21102666 TAGGCTTATAACCTGATT
65 TAGGCTTATAACCTGATT
*
21102684 TAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGACACTTAGCCTGCT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGACACTTAGCCTGCT
*
21102749 AGGCTTATAGCCTGATT
66 AGGCTTATAACCTGATT
* * * *
21102766 CAAATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTTCAGATCACCGGCACTTAGCCTGCT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGACACTTAGCCTGCT
* *
21102831 AGGTTTTAAAACCTGATT
66 AGG-CTTATAACCTGATT
* ** *
21102849 CAG-TACACCGACTTTTAGCCTGCTAGACTTATAG
1 CAGAT-CACCGGCACTTAGCCTGCTAGGCTTATAG
21102883 TCCGAAATGT
Statistics
Matches: 177, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
82 137 0.77
83 40 0.23
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (82 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGACACTTAGCCTGCT
AGGCTTATAACCTGATT
Found at i:21102825 original size:123 final size:124
Alignment explanation
Indices: 21102613--21102882 Score: 400
Period size: 123 Copynumber: 2.2 Consensus size: 124
21102603 GATTCACCAG
* * *
21102613 CACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTACTAGGCTTATAAC
1 CACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGACACTTAGCCTACTAGGCTTATAAC
* * *
21102678 CTGATTTAGATCACCGGCACTTAGCCTGCTAGG-CTTATAGCCTGATTCAG-ATCACCGA
66 CTGATTCAGATCACCGGCACTTAGCCTGCTAGGTCTTAAAACCTGATTCAGTA-CACCGA
* *
21102736 CACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGGCTTATAAC
1 CACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGACACTTAGCCTACTAGGCTTATAAC
* *
21102801 CTGGTTCAGATCACCGGCACTTAGCCTGCTAGGTTTTAAAACCTGATTCAGTACACCGA
66 CTGATTCAGATCACCGGCACTTAGCCTGCTAGGTCTTAAAACCTGATTCAGTACACCGA
** *
21102860 CTTTTAGCCTGCTAGACTTATAG
1 CACTTAGCCTGCTAGGCTTATAG
21102883 TCCGAAATGT
Statistics
Matches: 132, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
123 91 0.69
124 40 0.30
125 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (124 bp):
CACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGACACTTAGCCTACTAGGCTTATAAC
CTGATTCAGATCACCGGCACTTAGCCTGCTAGGTCTTAAAACCTGATTCAGTACACCGA
Found at i:21103355 original size:78 final size:77
Alignment explanation
Indices: 21103200--21103409 Score: 214
Period size: 78 Copynumber: 2.8 Consensus size: 77
21103190 AACTTATAAC
* * **
21103200 ATACTATGTACAT-T-TA-ACATTCGAATCTTACATATACCTATATAATTTCATAC-CCCATTTC
1 ATAC-ATGTACATATATACACATTCGAATCTAACATATACATATATAATTTCATACTTACATTTC
21103261 AATACAAAAACTT
65 AATACAAAAACTT
*
21103274 ATACATGTACATATATACACATTCGAATCTAACATATATACATATATAATTTTATACTTACATTT
1 ATACATGTACATATATACACATTCGAATCTAAC--ATATACATATATAATTTCATACTTACATTT
* **
21103339 GAA-ACAAGTACTT
64 CAATACAAAAACTT
* * * * ** * *
21103352 ATACTTGTATACACATACATTTTCGAATTTAACATATACATATATAGTTTCATACTTA
1 ATACATGTACATATATACACATTCGAATCTAACATATACATATATAATTTCATACTTA
21103410 TACTCAATAT
Statistics
Matches: 113, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
73 8 0.07
74 5 0.04
75 2 0.02
76 37 0.33
78 54 0.48
79 7 0.06
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (77 bp):
ATACATGTACATATATACACATTCGAATCTAACATATACATATATAATTTCATACTTACATTTCA
ATACAAAAACTT
Found at i:21103716 original size:19 final size:21
Alignment explanation
Indices: 21103692--21103742 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
21103682 ATGTATATAC
*
21103692 ATATATATATCCGAATTTTAT
1 ATATATATATCCGAATCTTAT
21103713 ATATATAAATATCCGAA-CTT-T
1 ATATAT--ATATCCGAATCTTAT
21103734 ATATATATA
1 ATATATATA
21103743 AATATAACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 3 0.11
21 13 0.48
22 2 0.07
23 9 0.33
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (21 bp):
ATATATATATCCGAATCTTAT
Found at i:21103718 original size:23 final size:23
Alignment explanation
Indices: 21103687--21103747 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
21103677 TATTCATGTA
* * *
21103687 TATACATATATATATCCGAATTT
1 TATATATATAAATATCCGAACTT
21103710 TATATATATAAATATCCGAACTT
1 TATATATATAAATATCCGAACTT
21103733 TATATATATAAATAT
1 TATATATATAAATAT
21103748 AACATACATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (23 bp):
TATATATATAAATATCCGAACTT
Found at i:21103745 original size:78 final size:74
Alignment explanation
Indices: 21103581--21103724 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 74
21103571 ACATTCAACA
*
21103581 TTAACTAAATTCAAAACTTATTCATGTATATACACATATATCCGAACTTTATATATATAAATATA
1 TTAAATAAATTCAAAACTTATTCATGTATATACACATATATCCGAACTTTATATATATAAATAT-
21103646 ACATACATACTT
65 AC--ACATACTT
* * * *
21103658 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATATCCGAATTTTATATATATAAAT
1 TTAAATAAATTCAA-AACTTATTCATGTATATAC--ACATATATCCGAACTTTATATATATAAAT
21103723 AT
63 AT
21103725 CCGAACTTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
77 14 0.23
78 18 0.30
80 29 0.48
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.40
Consensus pattern (74 bp):
TTAAATAAATTCAAAACTTATTCATGTATATACACATATATCCGAACTTTATATATATAAATATA
CACATACTT
Found at i:21103792 original size:78 final size:78
Alignment explanation
Indices: 21103710--21103956 Score: 426
Period size: 78 Copynumber: 3.2 Consensus size: 78
21103700 ATCCGAATTT
* *
21103710 TATATATATAAATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAA
1 TATATACATATATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAA
21103775 GAATTTATTCATG
66 GAATTTATTCATG
* *
21103788 TATATACATATATATCCGAATTTTATATATATAAATATAACATGCATACTTTTAACTAAATTCAA
1 TATATACATATATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAA
21103853 GAATTTATTCATG
66 GAATTTATTCATG
21103866 TATATACATATATATCCGAACTTTATATATAT--ATATAACATACATACTTTTAACTAAATTCAA
1 TATATACATATATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAA
* *
21103929 GAACTTATACATG
66 GAATTTATTCATG
21103942 TATATACATATATAT
1 TATATACATATATAT
21103957 AACATACATA
Statistics
Matches: 161, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
76 56 0.35
78 105 0.65
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (78 bp):
TATATACATATATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAA
GAATTTATTCATG
Found at i:21103848 original size:103 final size:102
Alignment explanation
Indices: 21103618--21103825 Score: 400
Period size: 103 Copynumber: 2.0 Consensus size: 102
21103608 ATATACACAT
21103618 ATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCA
1 ATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCA
21103683 TGTATATACATATATATATCCGAATTTTATATATATAA
66 TGTATATACA-ATATATATCCGAATTTTATATATATAA
21103721 ATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCA
1 ATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCA
21103786 TGTATATAC-ATATATATCCGAATTTTATATATATAA
66 TGTATATACAATATATATCCGAATTTTATATATATAA
21103822 ATAT
1 ATAT
21103826 AACATGCATA
Statistics
Matches: 105, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
101 31 0.30
103 74 0.70
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.41
Consensus pattern (102 bp):
ATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCA
TGTATATACAATATATATCCGAATTTTATATATATAA
Found at i:21103956 original size:59 final size:60
Alignment explanation
Indices: 21103889--21104074 Score: 329
Period size: 61 Copynumber: 3.1 Consensus size: 60
21103879 ATCCGAACTT
*
21103889 TATATATATATATAACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
1 TATATATATACAT-ACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
21103950 TATATATA-ACATACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
1 TATATATATACATACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
*
21104009 TATATATATAACATACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATGTACA
1 TATATATAT-ACATACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
21104070 TATAT
1 TATAT
21104075 TATCCACTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
59 55 0.45
60 3 0.02
61 63 0.52
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (60 bp):
TATATATATACATACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
Found at i:21106467 original size:18 final size:17
Alignment explanation
Indices: 21106444--21106495 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
21106434 CTATCATATG
21106444 ATAATATGATAAGTAACA
1 ATAATAT-ATAAGTAACA
21106462 AT-A-ATATAAGTAACA
1 ATAATATATAAGTAACA
*
21106477 ATAATA-AT-AGTAATA
1 ATAATATATAAGTAACA
21106492 ATAA
1 ATAA
21106496 ATAATAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 22 0.71
16 5 0.16
17 2 0.06
18 2 0.06
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.29
Consensus pattern (17 bp):
ATAATATATAAGTAACA
Found at i:21106470 original size:15 final size:15
Alignment explanation
Indices: 21106452--21106499 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
21106442 TGATAATATG
21106452 ATAAGTAACAATAAT
1 ATAAGTAACAATAAT
21106467 ATAAGTAACAATAAT
1 ATAAGTAACAATAAT
*
21106482 A-ATAGTAATAATAA-
1 ATA-AGTAACAATAAT
21106496 ATAA
1 ATAA
21106500 TAAATAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.10
15 27 0.90
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (15 bp):
ATAAGTAACAATAAT
Found at i:21106482 original size:3 final size:3
Alignment explanation
Indices: 21106461--21106516 Score: 51
Period size: 3 Copynumber: 17.7 Consensus size: 3
21106451 GATAAGTAAC
* *
21106461 AAT AAT -AT AAGT AAC AAT AAT AAT AGT AAT AAT AAAT AAT AAAT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT AAT
21106508 AAAT AAT AA
1 -AAT AAT AA
21106517 AAGATGATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
2 2 0.05
3 30 0.68
4 12 0.27
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:21106490 original size:6 final size:6
Alignment explanation
Indices: 21106461--21106516 Score: 51
Period size: 7 Copynumber: 8.8 Consensus size: 6
21106451 GATAAGTAAC
* *
21106461 AATAAT -ATAAGT AACAAT AATAAT AGTAAT AATAAAT AATAAAT AATAAAT
1 AATAAT AATAA-T AATAAT AATAAT AATAAT AAT-AAT AAT-AAT AAT-AAT
21106512 AATAA
1 AATAA
21106517 AAGATGATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
5 4 0.09
6 16 0.37
7 23 0.53
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (6 bp):
AATAAT
Found at i:21106500 original size:7 final size:7
Alignment explanation
Indices: 21106476--21106517 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
21106466 TATAAGTAAC
21106476 AATAAT-
1 AATAATA
*
21106482 AATAGT-
1 AATAATA
21106488 AATAATA
1 AATAATA
21106495 AATAATA
1 AATAATA
21106502 AATAATA
1 AATAATA
21106509 AATAATA
1 AATAATA
21106516 AA
1 AA
21106518 AGATGATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
6 10 0.30
7 23 0.70
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:21108250 original size:44 final size:43
Alignment explanation
Indices: 21108178--21108429 Score: 174
Period size: 44 Copynumber: 5.8 Consensus size: 43
21108168 ACCTGATACG
* * * *
21108178 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTTTATTTCA
* * * *
21108222 ATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-TTA-TTTCA
* * * * * *
21108266 ATCTGCTCCGCTGTAATCTTAGGGAGATAAGA-CCTGA-TACG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTTTATTTCA
* * * *
21108307 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCTTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATC-TTTATTTCA
* * * * *
21108351 ACCTGCTCCATTGTAATTTCAGGGAGATAGGAT-TACTATCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-TTAT-TTCA
*
21108395 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
21108430 AAAATTCTTT
Statistics
Matches: 155, Mismatches: 41, Indels: 23
0.71 0.19 0.11
Matches are distributed among these distances:
40 1 0.01
41 27 0.17
42 3 0.02
43 8 0.05
44 114 0.74
45 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (43 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTTTATTTCA
Found at i:21108346 original size:129 final size:129
Alignment explanation
Indices: 21108113--21108426 Score: 477
Period size: 129 Copynumber: 2.4 Consensus size: 129
21108103 ACTGCTGCCT
* * * * * * * * * *
21108113 AGGGATATAGAATTGCTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAACCTGATACG
1 AGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACG
21108178 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC-GCTCCACTGTAATCTC
66 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA-CCTGCTCCACTGTAATCTC
*
21108242 AGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGACCTGATACG
1 AGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACG
* * *
21108307 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAACCTGCTCCATTGTAATTTC
66 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAACCTGCTCCACTGTAATCTC
*
21108371 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
1 AGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
21108427 TCTAAAATTC
Statistics
Matches: 168, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
128 2 0.01
129 166 0.99
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (129 bp):
AGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACG
ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAACCTGCTCCACTGTAATCTC
Found at i:21118472 original size:46 final size:45
Alignment explanation
Indices: 21118401--21118972 Score: 554
Period size: 46 Copynumber: 13.6 Consensus size: 45
21118391 TTTGAGTACT
* *
21118401 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
21118447 TCTAATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
21118483 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAACTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
21118529 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
21118575 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
21118621 TTTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
21118657 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * * *
21118693 TCTGATCAAGAGACAAATTGATAAGTGGTAGCTTTAGCTACATTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
21118739 TCTGATCAAGTGAAAAAGTGATAA---GT-G-TTA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
21118775 TCTAATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
21118811 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
21118857 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
21118903 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
21118948 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
21118973 ATCATACGTA
Statistics
Matches: 459, Mismatches: 31, Indels: 75
0.81 0.05 0.13
Matches are distributed among these distances:
33 1 0.00
34 2 0.00
35 1 0.00
36 139 0.30
37 3 0.01
38 2 0.00
39 1 0.00
40 8 0.02
41 1 0.00
42 9 0.02
43 17 0.04
44 3 0.01
45 23 0.05
46 249 0.54
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:21118478 original size:36 final size:36
Alignment explanation
Indices: 21118437--21118837 Score: 298
Period size: 36 Copynumber: 10.0 Consensus size: 36
21118427 GGTAGCTTTA
*
21118437 GCTACACTTATCTAATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
21118473 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA---GT
* *
21118512 AGCTTTAACTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 -G------CTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
*
21118564 AGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
*
21118610 AGCTACACTTATTTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
21118647 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
21118683 GCTACACTTATCTGATCAAGAGACAAATTGATAAGTGGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA---GT
21118722 AGCTTTAGCTACATTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GC--TA-C-AC--TTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
21118765 GTTATACTTATCTAATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
21118801 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
21118837 G
1 G
21118838 TTAGCCTTAG
Statistics
Matches: 315, Mismatches: 21, Indels: 58
0.80 0.05 0.15
Matches are distributed among these distances:
36 157 0.50
37 1 0.00
38 2 0.01
39 4 0.01
40 7 0.02
42 3 0.01
43 3 0.01
44 2 0.01
45 1 0.00
46 129 0.41
47 1 0.00
49 1 0.00
52 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:21118538 original size:82 final size:81
Alignment explanation
Indices: 21118401--21118972 Score: 509
Period size: 82 Copynumber: 6.9 Consensus size: 81
21118391 TTTGAGTACT
* * *
21118401 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
21118466 GATAAGTGCTACACTTA
65 GATAAGTGCTACACTTA
* * * *
21118483 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
21118548 GATAAGTGGTAGCTTTAGCTACACTTA
65 GAT-A-----AG---T-GCTACACTTA
*
21118575 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
21118640 GATAAGTGCTATACTTA
65 GATAAGTGCTACACTTA
* * * *
21118657 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTATCTGATCAAGAGACAAATTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
21118713 ATAAGTGGTAGCTTTAGCTACATTTA
66 ATAA---GT-GC--TA-C-AC--TTA
* *
21118739 TCTGATCAAGTGAAAAAGTGATAA---GT-G-TTA--T--ACTTATCTAATCAAGTGAAAAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
*
21118795 ATAAGTGCTATACTTA
66 ATAAGTGCTACACTTA
* *
21118811 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGTGAAAAAGT
21118876 GATAAGTGGTAGCCTTAGCTACACTTA
65 GAT-A-----AG---T-GCTACACTTA
* * *
21118903 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AG-GGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
21118966 ATAAGTG
66 ATAAGTG
21118973 ATCATACGTA
Statistics
Matches: 413, Mismatches: 32, Indels: 93
0.77 0.06 0.17
Matches are distributed among these distances:
72 56 0.14
73 1 0.00
74 2 0.00
75 3 0.01
76 7 0.02
78 7 0.02
79 3 0.01
80 4 0.01
81 1 0.00
82 168 0.41
83 6 0.01
84 2 0.00
85 1 0.00
86 2 0.00
88 5 0.01
89 8 0.02
90 2 0.00
91 23 0.06
92 112 0.27
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (81 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGCTACACTTA
Found at i:21118773 original size:118 final size:118
Alignment explanation
Indices: 21118565--21118883 Score: 548
Period size: 118 Copynumber: 2.7 Consensus size: 118
21118555 GGTAGCTTTA
*
21118565 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
*
21118630 GTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GTGAAAAAGTGATAAGTGCTATACTTATCTAATCAAGTGAAAAAGTGATAAGT
* * *
21118683 GCTACACTTATCTGATCAAGAGACAAATTGATAAGTGGTAGCTTTAGCTACATTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
*
21118748 GTGAAAAAGTGATAAGTGTTATACTTATCTAATCAAGTGAAAAAGTGATAAGT
66 GTGAAAAAGTGATAAGTGCTATACTTATCTAATCAAGTGAAAAAGTGATAAGT
* * *
21118801 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
*
21118866 GTGAGAAAGTGATAAGTG
66 GTGAAAAAGTGATAAGTG
21118884 GTAGCCTTAG
Statistics
Matches: 188, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 188 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (118 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
GTGAAAAAGTGATAAGTGCTATACTTATCTAATCAAGTGAAAAAGTGATAAGT
Found at i:21119604 original size:76 final size:76
Alignment explanation
Indices: 21119478--21119627 Score: 264
Period size: 76 Copynumber: 2.0 Consensus size: 76
21119468 CGGTTAAATA
* * *
21119478 CGTTTACAAGTGCATGTCTTTTGGTAATGTCTCGTACCCTATTCCTGTATTGAATATGGGTAAGG
1 CGTTTACAAGTGCATGTCTTTTGGTAATGCCTCGTACCCTATTCCAGTATTGAATACGGGTAAGG
21119543 GGTGTTACATG
66 GGTGTTACATG
*
21119554 CGTTTACAAGTGCATGTGTTTTGGTAATGCCTCGTACCCTATTCCAGTATTGAATACGGGTAAGG
1 CGTTTACAAGTGCATGTCTTTTGGTAATGCCTCGTACCCTATTCCAGTATTGAATACGGGTAAGG
21119619 GGTGTTACA
66 GGTGTTACA
21119628 CCAAATCTCT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (76 bp):
CGTTTACAAGTGCATGTCTTTTGGTAATGCCTCGTACCCTATTCCAGTATTGAATACGGGTAAGG
GGTGTTACATG
Found at i:21122666 original size:316 final size:316
Alignment explanation
Indices: 21122093--21122724 Score: 1228
Period size: 316 Copynumber: 2.0 Consensus size: 316
21122083 ATGCTTTAGG
*
21122093 GAAGACCACTAGTCCGTAGATACTTAAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGT
1 GAAGACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGT
* *
21122158 ACTAGCACGAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGCTGGATTCG
66 ACTAGCACCAAATCTCGCAAGCTTTTCCAAGAAACGCATTTACTGTCGCCTTTCTGCTGGATTCG
*
21122223 GGCAGCAACCTACTGCTCGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCAC
131 GGCAGCAACCCACTGCTCGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCAC
21122288 CAGCAGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCGAAGCAAGGTCGTATACTCC
196 CAGCAGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCGAAGCAAGGTCGTATACTCC
21122353 TCCACAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGAT
261 TCCACAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGAT
21122409 GAAGACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGT
1 GAAGACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGT
21122474 ACTAGCACCAAATCTCGCAAGCTTTTCCAAGAAACGCATTTACTGTCGCCTTTCTGCTGGATTCG
66 ACTAGCACCAAATCTCGCAAGCTTTTCCAAGAAACGCATTTACTGTCGCCTTTCTGCTGGATTCG
21122539 GGCAGCAACCCACTGCTCGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCAC
131 GGCAGCAACCCACTGCTCGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCAC
21122604 CAGCAGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCGAAGCAAGGTCGTATACTCC
196 CAGCAGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCGAAGCAAGGTCGTATACTCC
21122669 TCCACAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGAT
261 TCCACAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGAT
21122725 TCCAAAATTG
Statistics
Matches: 312, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
316 312 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (316 bp):
GAAGACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGT
ACTAGCACCAAATCTCGCAAGCTTTTCCAAGAAACGCATTTACTGTCGCCTTTCTGCTGGATTCG
GGCAGCAACCCACTGCTCGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCAC
CAGCAGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCGAAGCAAGGTCGTATACTCC
TCCACAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGAT
Found at i:21124554 original size:14 final size:14
Alignment explanation
Indices: 21124511--21124557 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
21124501 CGCAAATACG
21124511 TATAAATAT-TATA
1 TATAAATATATATA
* * *
21124524 TAAAAAAATATAAA
1 TATAAATATATATA
21124538 TATAAATATATATA
1 TATAAATATATATA
21124552 TATAAA
1 TATAAA
21124558 AATGTACATG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 7 0.26
14 20 0.74
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TATAAATATATATA
Found at i:21124638 original size:37 final size:37
Alignment explanation
Indices: 21124570--21124643 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
21124560 TGTACATGTG
* *
21124570 AGATATAAAAAAAGCAAAATAAGATAAATATATATAT
1 AGATATAAAAAAAGCAAAATAAAATAAATATAAATAT
* * *
21124607 AGATATAAAAGAAA-CCATATAAAATATATATAAATAT
1 AGATATAAAA-AAAGCAAAATAAAATAAATATAAATAT
21124644 GTATACATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.26
Consensus pattern (37 bp):
AGATATAAAAAAAGCAAAATAAAATAAATATAAATAT
Found at i:21124789 original size:3 final size:3
Alignment explanation
Indices: 21124781--21124855 Score: 64
Period size: 3 Copynumber: 24.3 Consensus size: 3
21124771 AAACTATCAT
* * *
21124781 ATA ATA AT- ATG ATA AGTA ACA ATA AT- ATA AGTA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
*
21124826 ATA ATA GTA ATA ATAA ATA ATAA ATA ATA A
1 ATA ATA ATA ATA AT-A ATA AT-A ATA ATA A
21124856 AAGATGATAA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
2 4 0.07
3 43 0.73
4 12 0.20
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:21124795 original size:8 final size:8
Alignment explanation
Indices: 21124779--21124854 Score: 52
Period size: 7 Copynumber: 9.4 Consensus size: 8
21124769 TTAAACTATC
21124779 ATATAATA
1 ATATAATA
*
21124787 ATATGATA
1 ATATAATA
*
21124795 AGTAACAATA
1 A-T-ATAATA
21124805 ATATAAGT-
1 ATATAA-TA
*
21124813 A-ACAATA
1 ATATAATA
21124820 ATAATAATA
1 AT-ATAATA
21124829 ATAGTAATA
1 ATA-TAATA
21124838 ATA-AATA
1 ATATAATA
21124845 ATA-AATA
1 ATATAATA
21124852 ATA
1 ATA
21124855 AAAGATGATA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
6 1 0.02
7 18 0.33
8 13 0.24
9 18 0.33
10 5 0.09
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (8 bp):
ATATAATA
Found at i:21132048 original size:38 final size:38
Alignment explanation
Indices: 21132006--21132080 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
21131996 GATAACTCCA
* * *
21132006 CAATCCCATATTTTCTTTCTAAAGTCACTCCAACACTT
1 CAATCCCATATTTTCCTCCTAAAATCACTCCAACACTT
*
21132044 CAATCCCATATTTTCCTCCTAAAATCACTCTAACACT
1 CAATCCCATATTTTCCTCCTAAAATCACTCCAACACT
21132081 CCCCCACCAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.31, C:0.33, G:0.01, T:0.35
Consensus pattern (38 bp):
CAATCCCATATTTTCCTCCTAAAATCACTCCAACACTT
Found at i:21133703 original size:22 final size:20
Alignment explanation
Indices: 21133663--21133703 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
21133653 TATAGCATTA
*
21133663 AAAATTTTATATAATATTCT
1 AAAATTTTATATAAAATTCT
21133683 AAAATTTTCAATATAAAATTC
1 AAAATTTT--ATATAAAATTC
21133704 CATAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATTTTATATAAAATTCT
Found at i:21148705 original size:34 final size:35
Alignment explanation
Indices: 21148640--21148705 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 35
21148630 AGCCTCACGA
** * *
21148640 TACATCAATATTCAGTTACGAAATACCTCATCATT
1 TACATCAATATTCAGCCACAAAATACATCATCATT
*
21148675 TACA-CAATATTCAGCCACAAAATTCATCATC
1 TACATCAATATTCAGCCACAAAATACATCATC
21148706 TTAGGACAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
34 22 0.85
35 4 0.15
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.30
Consensus pattern (35 bp):
TACATCAATATTCAGCCACAAAATACATCATCATT
Found at i:21158065 original size:33 final size:33
Alignment explanation
Indices: 21158017--21158096 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
21158007 CATCTCCCAC
* * * *
21158017 GTCCACAACTCGCCATCCCCCTATTCGCTTGAT
1 GTCCACAGCTTGCCATCCCCCTATCCGCCTGAT
*
21158050 GTCCACAGCTTGCCATCCCCCTGTCCGCCTGAT
1 GTCCACAGCTTGCCATCCCCCTATCCGCCTGAT
21158083 GTCCACAGCTTGCC
1 GTCCACAGCTTGCC
21158097 TTCTCTTGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.15, C:0.44, G:0.16, T:0.25
Consensus pattern (33 bp):
GTCCACAGCTTGCCATCCCCCTATCCGCCTGAT
Found at i:21165117 original size:21 final size:21
Alignment explanation
Indices: 21165059--21165117 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
21165049 GCTTCAGTTT
* *
21165059 AACCCCTATGGGTTTCCGTTC
1 AACCCTTATGGGTTTCCATTC
* ** * *
21165080 AGCTTTTATGAGCTTCCATTC
1 AACCCTTATGGGTTTCCATTC
21165101 AACCCTTATGGGTTTCC
1 AACCCTTATGGGTTTCC
21165118 GTTTAGCACT
Statistics
Matches: 26, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCATTC
Found at i:21165117 original size:42 final size:42
Alignment explanation
Indices: 21165035--21165120 Score: 122
Period size: 42 Copynumber: 2.0 Consensus size: 42
21165025 TAGGTTTCAA
*
21165035 TTCAGCTCTTTTGAGCTTCAGTTTAACCCCTATGGGTTTCCG
1 TTCAGCTCTTTTGAGCTTCAGTTCAACCCCTATGGGTTTCCG
*
21165077 TTCAGCT-TTTATGAGCTTCCA-TTCAACCCTTATGGGTTTCCG
1 TTCAGCTCTTT-TGAGCTT-CAGTTCAACCCCTATGGGTTTCCG
21165119 TT
1 TT
21165121 TAGCACTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
41 3 0.08
42 35 0.88
43 2 0.05
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.42
Consensus pattern (42 bp):
TTCAGCTCTTTTGAGCTTCAGTTCAACCCCTATGGGTTTCCG
Found at i:21167633 original size:3 final size:3
Alignment explanation
Indices: 21167613--21167665 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
21167603 TGTAGCATTT
* * *
21167613 TTA TTA TT- TTG TTCA TTA TTA TTA TTA TTA TTA TTTA TTT TTA TTT
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
21167659 TTA TTA T
1 TTA TTA T
21167666 CATCGTATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
2 2 0.05
3 35 0.83
4 5 0.12
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:21167656 original size:19 final size:19
Alignment explanation
Indices: 21167628--21167665 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
21167618 ATTTTGTTCA
21167628 TTATTATTATTATTATTAT
1 TTATTATTATTATTATTAT
* *
21167647 TTATTTTTATTTTTATTAT
1 TTATTATTATTATTATTAT
21167666 CATCGTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTATTATTATTATTATTAT
Found at i:21168042 original size:28 final size:28
Alignment explanation
Indices: 21167978--21168047 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
21167968 GATTCATAAA
* * **
21167978 TATACCTACATATATACTTTTTATATTT
1 TATACATATATATATACTTTTTATATAG
*
21168006 TATATATATATATATACTTTTTATGATAG
1 TATACATATATATATACTTTTTAT-ATAG
*
21168035 T-TACATATGTATA
1 TATACATATATATA
21168048 GATGTACATG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 31 0.91
29 3 0.09
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (28 bp):
TATACATATATATATACTTTTTATATAG
Found at i:21168597 original size:109 final size:110
Alignment explanation
Indices: 21168400--21168700 Score: 532
Period size: 109 Copynumber: 2.7 Consensus size: 110
21168390 TCAAAAAAGG
21168400 AAAATATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAT-TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
21168465 GGGTGTCGATTTTTCTCGTTCAACCAAAGGGCTTAATATCCTTTT-
65 GGGTGTCGATTTTTCTCGTTCAACCAAAGGGCTTAATATCCTTTTA
21168510 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
21168575 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTA
66 GGTGTCGATTTTTCTCGTTCAACCAAAGGGCTTAATATCCTTTTA
*** * *
21168620 AAAAAAATCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGTCCTAAGGTGCTG
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
21168685 GGTGTCGATTTTTCTC
66 GGTGTCGATTTTTCTC
21168701 ATTTAAACAA
Statistics
Matches: 184, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
109 103 0.56
110 81 0.44
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (110 bp):
AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAAGGGCTTAATATCCTTTTA
Found at i:21170063 original size:61 final size:61
Alignment explanation
Indices: 21169939--21170211 Score: 287
Period size: 61 Copynumber: 4.5 Consensus size: 61
21169929 TTGTCATAAG
* * * * * *
21169939 GGCTTACCTTTCTAGAGTTTTGCCACAAAGGC-ATCCCTTACATCTAGTACTCGCCACAGA
1 GGCTTTCCTGTCTAGAGTTATGCCACAAAGGCTATCCTTTACATCCAGTACTCGCCACAAA
* * * * *
21169999 GGCTTTCCTGTCTAGAGTTGTGCCACAATGGCTGTCCTTTACATCCAATACTCGTCACAAA
1 GGCTTTCCTGTCTAGAGTTATGCCACAAAGGCTATCCTTTACATCCAGTACTCGCCACAAA
* * * * *
21170060 GGCTTTCCTGTCTAGAGATATGCCACAAAGGTTATCCTTTACATCTAGTACTCACCTCAAA
1 GGCTTTCCTGTCTAGAGTTATGCCACAAAGGCTATCCTTTACATCCAGTACTCGCCACAAA
* * * * * * * *
21170121 GGCTATCCTATCTCGAGTTATGCCACAAAGGTTGTCATTTACATCCACTGCTCGCCACAAA
1 GGCTTTCCTGTCTAGAGTTATGCCACAAAGGCTATCCTTTACATCCAGTACTCGCCACAAA
* * * *
21170182 GGCTTTCTTGTCCAAAGTTATGTCACAAAG
1 GGCTTTCCTGTCTAGAGTTATGCCACAAAG
21170212 ACGTCCTTTA
Statistics
Matches: 174, Mismatches: 38, Indels: 1
0.82 0.18 0.00
Matches are distributed among these distances:
60 28 0.16
61 146 0.84
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (61 bp):
GGCTTTCCTGTCTAGAGTTATGCCACAAAGGCTATCCTTTACATCCAGTACTCGCCACAAA
Found at i:21170087 original size:29 final size:29
Alignment explanation
Indices: 21169991--21170090 Score: 76
Period size: 29 Copynumber: 3.3 Consensus size: 29
21169981 TCTAGTACTC
* * *
21169991 GCCACAGAGGCTTTCCTGTCTAGAGTTGT
1 GCCACAAAGGCTTTCCTGTCTAGAGATAT
* * * **
21170020 GCCACAATGGCTGTCCTTTACATCCA-ATACT
1 GCCACAAAGGCTTTCCTGT-C-TAGAGATA-T
*
21170051 CGTCACAAAGGCTTTCCTGTCTAGAGATAT
1 -GCCACAAAGGCTTTCCTGTCTAGAGATAT
21170081 GCCACAAAGG
1 GCCACAAAGG
21170091 TTATCCTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 10
0.67 0.20 0.13
Matches are distributed among these distances:
29 24 0.47
30 5 0.10
31 7 0.14
32 15 0.29
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (29 bp):
GCCACAAAGGCTTTCCTGTCTAGAGATAT
Found at i:21170162 original size:122 final size:121
Alignment explanation
Indices: 21169939--21170211 Score: 330
Period size: 122 Copynumber: 2.2 Consensus size: 121
21169929 TTGTCATAAG
* * * * * *
21169939 GGCTTACCTTTCTAGAGTTTTGCCACAAAGGCATCCCTTACATCTAGTACTCGCCACAGAGGCTT
1 GGCTTTCCTGTCTAGAGTTATGCCACAAAGGCATCCCTTACATCTAGTACTCACCACAAAGGCTA
* * * * *
21170004 TCCTGTCTAGAGTTGTGCCACAATGGCTGTCCTTTACATCCAATACTCGTCACAAA
66 TCCTATCTAGAGTTATGCCACAAAGGCTGTCATTTACATCCAATACTCGCCACAAA
* * * *
21170060 GGCTTTCCTGTCTAGAGATATGCCACAAAGGTTATCCTTTACATCTAGTACTCACCTCAAAGGCT
1 GGCTTTCCTGTCTAGAGTTATGCCACAAAGG-CATCCCTTACATCTAGTACTCACCACAAAGGCT
* * * *
21170125 ATCCTATCTCGAGTTATGCCACAAAGGTTGTCATTTACATCCACTGCTCGCCACAAA
65 ATCCTATCTAGAGTTATGCCACAAAGGCTGTCATTTACATCCAATACTCGCCACAAA
* * * *
21170182 GGCTTTCTTGTCCAAAGTTATGTCACAAAG
1 GGCTTTCCTGTCTAGAGTTATGCCACAAAG
21170212 ACGTCCTTTA
Statistics
Matches: 127, Mismatches: 24, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
121 27 0.21
122 100 0.79
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (121 bp):
GGCTTTCCTGTCTAGAGTTATGCCACAAAGGCATCCCTTACATCTAGTACTCACCACAAAGGCTA
TCCTATCTAGAGTTATGCCACAAAGGCTGTCATTTACATCCAATACTCGCCACAAA
Found at i:21170485 original size:53 final size:53
Alignment explanation
Indices: 21170336--21170488 Score: 225
Period size: 53 Copynumber: 2.9 Consensus size: 53
21170326 TTGTTATTTT
*
21170336 CCATATGATGTCATAACCCACCAGTTACGGTCTTACACAATATAGTCTTATTC
1 CCATATGATGTCATAACCCACCAGTTACGGTCTTACACAATATGGTCTTATTC
* * * * * *
21170389 CCACATGATGCCATAACCCACCAGTTATGATCTTACACTATATGGTCTTCTTC
1 CCATATGATGTCATAACCCACCAGTTACGGTCTTACACAATATGGTCTTATTC
* *
21170442 CCATATGAAGTCATAACCCACCAGTTACGGTCTTACACGATATGGTC
1 CCATATGATGTCATAACCCACCAGTTACGGTCTTACACAATATGGTC
21170489 ATTTAATGCC
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 87 1.00
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (53 bp):
CCATATGATGTCATAACCCACCAGTTACGGTCTTACACAATATGGTCTTATTC
Found at i:21175517 original size:18 final size:18
Alignment explanation
Indices: 21175494--21175537 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
21175484 GCACATTTTT
*
21175494 TAGTTTTACTTATGCATG
1 TAGTTTTACTTATGCAAG
* *
21175512 TAGTTTTTCTTTTGCAAG
1 TAGTTTTACTTATGCAAG
*
21175530 TAATTTTA
1 TAGTTTTA
21175538 GGGAAGATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.55
Consensus pattern (18 bp):
TAGTTTTACTTATGCAAG
Found at i:21176104 original size:9 final size:9
Alignment explanation
Indices: 21176092--21176119 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
21176082 ATAATAAATA
21176092 TTTTAATTT
1 TTTTAATTT
21176101 TTTTAATTT
1 TTTTAATTT
21176110 TTTTAATTT
1 TTTTAATTT
21176119 T
1 T
21176120 AAAATACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTAATTT
Found at i:21176150 original size:10 final size:10
Alignment explanation
Indices: 21176137--21176229 Score: 79
Period size: 11 Copynumber: 9.5 Consensus size: 10
21176127 TTTAAAATAC
21176137 TTTTTTTAAA
1 TTTTTTTAAA
21176147 -TTTTTTAAA
1 TTTTTTTAAA
21176156 --TTTTTAAA
1 TTTTTTTAAA
21176164 TTTTTTTAAAA
1 TTTTTTT-AAA
**
21176175 TACTTTTAAA
1 TTTTTTTAAA
21176185 TTTTTTTAAA
1 TTTTTTTAAA
*
21176195 --TTTTAAAA
1 TTTTTTTAAA
*
21176203 TATTTTTAAAA
1 T-TTTTTTAAA
*
21176214 TATTTTTTTAA
1 T-TTTTTTAAA
21176225 TTTTT
1 TTTTT
21176230 GTTTTTATTT
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
8 15 0.21
9 9 0.13
10 20 0.29
11 26 0.37
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:21176152 original size:39 final size:40
Alignment explanation
Indices: 21176098--21176229 Score: 159
Period size: 39 Copynumber: 3.4 Consensus size: 40
21176088 AATATTTTAA
* *
21176098 TTTTTTT-AATTTTTTTAATTTTAAAATACTTTAAAATAC
1 TTTTTTTAAATTTTTTAAATTTTAAAATATTTTAAAATAC
* *
21176137 TTTTTTTAAATTTTTTAAATTTTTAAATTTTTTTAAAATAC
1 TTTTTTTAAATTTTTTAAA-TTTTAAAATATTTTAAAATAC
21176178 ---TTTTAAATTTTTTTAAATTTTAAAATATTTTTAAAATA-
1 TTTTTTTAAA-TTTTTTAAATTTTAAAATA-TTTTAAAATAC
21176216 TTTTTTT-AATTTTT
1 TTTTTTTAAATTTTT
21176230 GTTTTTATTT
Statistics
Matches: 80, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
38 15 0.19
39 31 0.39
40 12 0.15
41 22 0.28
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (40 bp):
TTTTTTTAAATTTTTTAAATTTTAAAATATTTTAAAATAC
Found at i:21176198 original size:8 final size:8
Alignment explanation
Indices: 21176139--21176168 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
21176129 TAAAATACTT
21176139 TTTTTAAA
1 TTTTTAAA
21176147 TTTTTTAAA
1 -TTTTTAAA
21176156 TTTTTAAA
1 TTTTTAAA
21176164 TTTTT
1 TTTTT
21176169 TTAAAATACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTTTAAA
Found at i:21176224 original size:13 final size:11
Alignment explanation
Indices: 21176116--21176220 Score: 70
Period size: 10 Copynumber: 10.4 Consensus size: 11
21176106 ATTTTTTTAA
21176116 TTTTAAAATA-
1 TTTTAAAATAT
*
21176126 CTTTAAAATACTT
1 TTTTAAAATA--T
*
21176139 TTTTTAAAT-T
1 TTTTAAAATAT
21176149 TTTT--AA-AT
1 TTTTAAAATAT
*
21176157 TTTT-AAATTT
1 TTTTAAAATAT
*
21176167 TTTTAAAATAC
1 TTTTAAAATAT
21176178 TTTT-AAAT-T
1 TTTTAAAATAT
*
21176187 TTTT-TAA-A-
1 TTTTAAAATAT
21176195 TTTTAAAATAT
1 TTTTAAAATAT
21176206 TTTTAAAATAT
1 TTTTAAAATAT
21176217 TTTT
1 TTTT
21176221 TTAATTTTTG
Statistics
Matches: 75, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
8 11 0.15
9 10 0.13
10 24 0.32
11 23 0.31
13 7 0.09
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:21176684 original size:24 final size:24
Alignment explanation
Indices: 21176638--21176693 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
21176628 CCAAATTTAA
*
21176638 ATTAAAA-TTTTAAAAATATATTT
1 ATTAAAATTTTTAAAAATAAATTT
* **
21176661 TTTAAAATTTTTAATTATAAATTT
1 ATTAAAATTTTTAAAAATAAATTT
*
21176685 ATGAAAATT
1 ATTAAAATT
21176694 AATATAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTAAAATTTTTAAAAATAAATTT
Found at i:21176798 original size:27 final size:26
Alignment explanation
Indices: 21176739--21176798 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
21176729 TAAATATATA
*
21176739 AATATT-TTTATTATTTTAATAAAAT
1 AATATTATTTATTATTTTAAAAAAAT
*
21176764 TATA-TATTTATTATTTTATAAAAAAT
1 AATATTATTTATTATTTTA-AAAAAAT
21176790 AATATTATT
1 AATATTATT
21176799 AACATATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 1 0.03
25 15 0.52
26 9 0.31
27 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AATATTATTTATTATTTTAAAAAAAT
Found at i:21179471 original size:9 final size:9
Alignment explanation
Indices: 21179453--21179489 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
21179443 TATAGTTTGA
21179453 TATTCGAAT
1 TATTCGAAT
*
21179462 TATTCAAAT
1 TATTCGAAT
*
21179471 TATTCGAGT
1 TATTCGAAT
21179480 TATTCGAAT
1 TATTCGAAT
21179489 T
1 T
21179490 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:21184178 original size:13 final size:13
Alignment explanation
Indices: 21184163--21184210 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
21184153 TCTTTATTGT
*
21184163 TTTTGAGAAGTGT
1 TTTTGAGAAGTGC
*
21184176 TTTTGAAAAGTGC
1 TTTTGAGAAGTGC
* *
21184189 TTTTGGGAAGTAC
1 TTTTGAGAAGTGC
21184202 TTTTGAGAA
1 TTTTGAGAA
21184211 ATTTGTGTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.27, C:0.04, G:0.27, T:0.42
Consensus pattern (13 bp):
TTTTGAGAAGTGC
Found at i:21184867 original size:12 final size:12
Alignment explanation
Indices: 21184829--21184861 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
21184819 TTGATTCAGT
21184829 GTCATCATCACC
1 GTCATCATCACC
21184841 GTCATCATCACC
1 GTCATCATCACC
21184853 GTCATCATC
1 GTCATCATC
21184862 GTCGTCGTCA
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:0.24, C:0.39, G:0.09, T:0.27
Consensus pattern (12 bp):
GTCATCATCACC
Found at i:21186504 original size:72 final size:72
Alignment explanation
Indices: 21186241--21186478 Score: 363
Period size: 72 Copynumber: 3.3 Consensus size: 72
21186231 AAATCATATT
* ** * *
21186241 TAAACAACTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAACATAAAATCAATATCCAAAG
1 TAAACAACTATTAATAAAACTAGA-TTACACATAAATAAATAGAACATAAATTCAATATCCAAAG
21186304 ACCAAACA
65 ACCAAACA
*
21186312 TAAACAACTATTAATAAAACTAGATTACACATAAATAAATAGAATATAAATTCAATATCCAAAGA
1 TAAACAACTATTAATAAAACTAGATTACACATAAATAAATAGAACATAAATTCAATATCCAAAGA
21186377 CCAAACA
66 CCAAACA
*
21186384 TAAACAACTATTAATAAAACTAGATTACACATAAATAAATAGAACATAAATTCAATATCCAAAAA
1 TAAACAACTATTAATAAAACTAGATTACACATAAATAAATAGAACATAAATTCAATATCCAAAGA
21186449 CCAAACA
66 CCAAACA
* * *
21186456 TAAATAAATATTGATAAAACTAG
1 TAAACAACTATTAATAAAACTAG
21186479 TTTAACGTTG
Statistics
Matches: 154, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
71 24 0.16
72 130 0.84
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (72 bp):
TAAACAACTATTAATAAAACTAGATTACACATAAATAAATAGAACATAAATTCAATATCCAAAGA
CCAAACA
Found at i:21187666 original size:20 final size:20
Alignment explanation
Indices: 21187641--21187684 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
21187631 GTTTACATGT
21187641 ATATGAAAATACATATTCTA
1 ATATGAAAATACATATTCTA
21187661 ATATGAAAATACATATTCTA
1 ATATGAAAATACATATTCTA
21187681 ATAT
1 ATAT
21187685 TAATTTTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (20 bp):
ATATGAAAATACATATTCTA
Found at i:21189116 original size:19 final size:19
Alignment explanation
Indices: 21189070--21189118 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
21189060 AACAGCTTCA
*
21189070 AAATATTAAACAGAAGAAG
1 AAATATAAAACAGAAGAAG
* *
21189089 AACTAATAAAACAGAAGAAT
1 AAAT-ATAAAACAGAAGAAG
21189109 AAATATAAAA
1 AAATATAAAA
21189119 GAAACTCTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.67, C:0.06, G:0.10, T:0.16
Consensus pattern (19 bp):
AAATATAAAACAGAAGAAG
Found at i:21194066 original size:56 final size:56
Alignment explanation
Indices: 21194000--21194124 Score: 171
Period size: 56 Copynumber: 2.2 Consensus size: 56
21193990 TATGTAAAAC
* * ** * *
21194000 TATGTAAAATTATTAAGCCCGATAACTTTTGTTAATGGTTAGTAA-ATTTTTCAAAT
1 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGA-TTATCAAAT
21194056 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
1 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
*
21194112 TAGGTAAAATTAT
1 TATGTAAAATTAT
21194125 GTTATGGTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 60 0.98
57 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (56 bp):
TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
Found at i:21194144 original size:23 final size:23
Alignment explanation
Indices: 21194118--21194225 Score: 180
Period size: 23 Copynumber: 4.7 Consensus size: 23
21194108 AAATTAGGTA
* *
21194118 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
21194141 AAATTAGGTTAGGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
21194164 AAATTAGGTTAGGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
*
21194187 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAAAT
*
21194210 AAATTAGGGTAGGGTT
1 AAATTAGGTTAGGGTT
21194226 AAGGTTTTTA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 81 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (23 bp):
AAATTAGGTTAGGGTTTTTAAAT
Found at i:21194226 original size:29 final size:29
Alignment explanation
Indices: 21194193--21195500 Score: 1690
Period size: 29 Copynumber: 46.4 Consensus size: 29
21194183 AAATAAATTA
*
21194193 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21194222 GGTTAAGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21194251 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* * *
21194280 GGTTAGAGTTTTTAAATAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21194309 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21194338 GGTTAGGG-TTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*** *
21194366 GGTTAGGG--TTGGGTTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21194393 GGTTAGGGTTTTTAATTAAATTAGGGTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21194422 GGTTAGGATTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21194451 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21194480 GGTTAGGG-TTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
**** * *
21194508 GGTTAGGG-TTAGGGTTAAATTAGGCTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21194536 GGTTAGGGTTTTTAATTAAATTAGGGTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21194565 GGTTAGGGTTTTTAATTAAATTAGGATAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21194594 GGTTAGGGTTTTAAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21194623 GGTTAGAG-TTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21194651 GGTTAGGG-------TTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21194673 GGTTAGGGTTTTTAAATAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21194702 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21194731 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21194760 GGTTAGGGTTTTTAAATAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21194789 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21194818 GGTTAGGG-TTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
** *
21194846 GGTTAGGGTTAGT-GTTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* * *
21194874 GGTTAGAGTTTTTAATTAAATTAGGGTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21194903 GGTTAGGGTTTTTAATTAAATTAGGATAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21194932 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21194961 GGTTAAGG-TTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21194989 GGTTAGGG-------TTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21195011 GGTTAGGGTTTTTAAATAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21195040 GGTTAGAGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21195069 GGTTAGGGTTTTTAATT-AA--A--TTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* ** * *
21195092 GGTTAGGG-TTTAAATTAGGGTAAGATTAG
1 GGTTAGGGTTTTTAATTA-AATTAGGTTAG
* * *
21195121 GGTT---TTTAATTAAATT--AG--GG-TAG
1 GGTTAGGGTT--TTTAATTAAATTAGGTTAG
*
21195144 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21195173 GGTTAGGG-TTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* ****
21195201 GGTTAAGG-TTAGGGTTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21195229 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21195258 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21195287 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21195316 GGTTAGGGTTTTTAATTAAATTAGATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21195345 GGTTAGGGTTTTTAAATAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21195374 GGTTAGGGTTTTTAATTAAATTAGAG-TAG
1 GGTTAGGGTTTTTAATTAAATTAG-GTTAG
*
21195403 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21195432 GGTTAGGGTTTTTAAATAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21195461 GGTTAGGATTTTTAAATAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21195490 GGTTAGGGTTT
1 GGTTAGGGTTT
21195501 GAAATAAATT
Statistics
Matches: 1129, Mismatches: 110, Indels: 80
0.86 0.08 0.06
Matches are distributed among these distances:
22 51 0.05
23 15 0.01
24 9 0.01
26 5 0.00
27 24 0.02
28 235 0.21
29 789 0.70
30 1 0.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:21194252 original size:23 final size:23
Alignment explanation
Indices: 21194118--21194369 Score: 153
Period size: 29 Copynumber: 9.7 Consensus size: 23
21194108 AAATTAGGTA
* * *
21194118 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAAGGTTTTTAATT
* *
21194141 AAATTAGGTTAGGGTTTTTAAAT
1 AAATTAGGTTAAGGTTTTTAATT
* *
21194164 AAATTAGGTTAGGGTTTTTAAAT
1 AAATTAGGTTAAGGTTTTTAATT
*
21194187 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAAGGTTTTTAATT
21194210 AAATTAGGGTAGGGTTAAGGTTTTTAATT
1 AAA-T----TA-GGTTAAGGTTTTTAATT
21194239 AAATTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTT-A----A-GGTTTTTAATT
*
21194268 AAATTAGGTTAGGGTTAGAGTTTTTAAAT
1 AAATTAGGTTA-----AG-GTTTTTAATT
21194297 AAATTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTT-A----A-GGTTTTTAATT
21194326 AAATTAGGTTAAGGTTAGGGTTTTAATT
1 AAATTAGGTTAAGG-T----TTTTAATT
*
21194354 AAATTAGGTTAGGGTT
1 AAATTAGGTTAAGGTT
21194370 AGGGTTGGGT
Statistics
Matches: 201, Mismatches: 7, Indels: 42
0.80 0.03 0.17
Matches are distributed among these distances:
23 76 0.38
24 6 0.03
27 1 0.00
28 28 0.14
29 88 0.44
30 2 0.01
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (23 bp):
AAATTAGGTTAAGGTTTTTAATT
Found at i:21194588 original size:143 final size:143
Alignment explanation
Indices: 21194170--21195511 Score: 1769
Period size: 143 Copynumber: 9.6 Consensus size: 143
21194160 AAATAAATTA
* * *
21194170 GGTTAGGGTTTTTAAATAAATTAGGTT-A-G---GGTTTTTAATTAAATTAGGGTAGGGTTAAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTT-AGG
* * * *
21194230 TTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTAA
65 GTTTGAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAA
* * *
21194295 ATAAATTAGGTTAA
130 TTAAATTAGGGTAG
21194309 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGGG
** * *
21194374 -TTGGGTTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAAGGTTAGGATTTTTAAT
66 TTTGAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAAT
21194438 TAAATTAGGGTAG
131 TAAATTAGGGTAG
21194451 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGGG
* ** * *
21194516 TTAGGGTTAAATTAGGCTAAGGTTAGGGTTTTTAATTAAATTAGGGTAAGGTTAGGGTTTTTAAT
66 TTTGAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAAT
*
21194581 TAAATTAGGATAG
131 TAAATTAGGGTAG
* * *
21194594 GGTTAGGGTTTTAAATTAAATTAGGTTAGGGTTAGAGTTTTAATTAAATTAGGTTAGGGTTA-GG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGGG
* * * *
21194658 ---G--TTAAATTAGGTTAGGGTTAGGGTTTTTAAATAAATTAGGTTAAGGTTAGGGTTTTTAAT
66 TTTGAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAAT
21194718 TAAATTAGGGTAG
131 TAAATTAGGGTAG
* *
21194731 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAATAAATTAGGTTAGGGTTAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTAGG
* * * **
21194796 GTTTTTAATTAAATTAGGTTAGGGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTAGGGTTAGT-
65 G-TTTGAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTA
* *
21194859 GTTAAATTAGGTTAG
129 ATTAAATTAGGGTAG
* * *
21194874 GGTTAGAGTTTTTAATTAAATTAGGGTAAGGTTAGGGTTTTTAATTAAATTAGGATAGGGTTAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTAGG
* * *
21194939 GTTTTTAATTAAATTAGGTTAAGGTTAAGG-TTTTAATTAAATTAGGTTAGGGTTAGGG------
65 G-TTTGAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTA
*
21194997 -TTAAATTAGGTTAG
129 ATTAAATTAGGGTAG
* * *
21195011 GGTTAGGGTTTTTAAATAAATTAGGTTAAGGTTAGAGTTTTTAATTAAATTAGGGTAGGGTTAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAG-GGTTTTAATTAAATTAGGTTAGGGTTAGG
** * *
21195076 GTTT---TT-AATTAAATT-AGGTTAGGG----T--TTAAATTAGGGTAAGATTAGGGTTTTTAA
65 GTTTGAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAA
21195130 TTAAATTAGGGTAG
130 TTAAATTAGGGTAG
* *
21195144 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAAGTTAGGGTTAAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGGG
* ** *
21195209 TTAGGGTTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAAT
66 TTTGAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAAT
21195274 TAAATTAGGGTAG
131 TAAATTAGGGTAG
* *
21195287 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTAGG
* * * *
21195352 GTTTTTAAATAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGAGTAGGGTTAGGGTTTTTA
65 G-TTTGAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTA
21195417 ATTAAATTAGGGTAG
129 ATTAAATTAGGGTAG
* * * *
21195432 GGTTAGGGTTTTTAAATAAATTAGGTTAGGGTTAGGATTTTTAAATAAATTAGGTTAGGGTTAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGG-GTTTTAATTAAATTAGGTTAGGGTTAGG
*
21195497 GTTTGAAATAAATTA
65 GTTTGAATTAAATTA
21195512 CGATTTTTAT
Statistics
Matches: 1086, Mismatches: 81, Indels: 67
0.88 0.07 0.05
Matches are distributed among these distances:
126 19 0.02
128 1 0.00
131 8 0.01
132 35 0.03
133 49 0.05
135 2 0.00
136 10 0.01
137 183 0.17
138 25 0.02
139 29 0.03
140 1 0.00
141 2 0.00
142 134 0.12
143 341 0.31
144 92 0.08
145 155 0.14
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (143 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGGG
TTTGAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAAT
TAAATTAGGGTAG
Found at i:21194662 original size:22 final size:22
Alignment explanation
Indices: 21194637--21194682 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
21194627 AGAGTTTTAA
21194637 TTAAATTAGGTTAGGGTTAGGG
1 TTAAATTAGGTTAGGGTTAGGG
21194659 TTAAATTAGGTTAGGGTTAGGG
1 TTAAATTAGGTTAGGGTTAGGG
21194681 TT
1 TT
21194683 TTTAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.39
Consensus pattern (22 bp):
TTAAATTAGGTTAGGGTTAGGG
Found at i:21194987 original size:22 final size:22
Alignment explanation
Indices: 21194960--21195043 Score: 60
Period size: 22 Copynumber: 3.5 Consensus size: 22
21194950 AATTAGGTTA
21194960 AGGTTAAGGTTTTAATTAAATT
1 AGGTTAAGGTTTTAATTAAATT
* **
21194982 AGGTTAGGGTTAGGGTTAAATTAGGTT
1 AGGTTAAGGTT----TT-AATTAAATT
* *
21195009 AGGGTTAGGGTTTTTAAATAAATT
1 A-GGTTAAGG-TTTTAATTAAATT
21195033 AGGTTAAGGTT
1 AGGTTAAGGTT
21195044 AGAGTTTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
22 12 0.25
23 7 0.15
24 7 0.15
25 2 0.04
26 2 0.04
27 8 0.17
28 8 0.17
29 2 0.04
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (22 bp):
AGGTTAAGGTTTTAATTAAATT
Found at i:21195223 original size:11 final size:11
Alignment explanation
Indices: 21195192--21195238 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
21195182 TTTAATTAAA
21195192 TTAAGTTAGGG
1 TTAAGTTAGGG
21195203 TTAAGGTTAGGG
1 TTAA-GTTAGGG
*
21195215 TTAAATTA-GG
1 TTAAGTTAGGG
*
21195225 TTAGGGTTAGGG
1 TTA-AGTTAGGG
21195237 TT
1 TT
21195239 TTTAATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 5 0.17
11 10 0.33
12 15 0.50
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (11 bp):
TTAAGTTAGGG
Found at i:21195225 original size:16 final size:16
Alignment explanation
Indices: 21195187--21195233 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
21195177 AGGGTTTTAA
*
21195187 TTAAATTAAGTTAGGG
1 TTAAATTAGGTTAGGG
21195203 TT--A--AGGTTAGGG
1 TTAAATTAGGTTAGGG
21195215 TTAAATTAGGTTAGGG
1 TTAAATTAGGTTAGGG
21195231 TTA
1 TTA
21195234 GGGTTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
12 10 0.38
14 2 0.08
16 14 0.54
ACGTcount: A:0.32, C:0.00, G:0.30, T:0.38
Consensus pattern (16 bp):
TTAAATTAGGTTAGGG
Found at i:21195238 original size:22 final size:23
Alignment explanation
Indices: 21195192--21195238 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
21195182 TTTAATTAAA
*
21195192 TTAAGTTAGGGTTAAGGTTAGGG
1 TTAAATTAGGGTTAAGGTTAGGG
*
21195215 TTAAATTA-GGTTAGGGTTAGGG
1 TTAAATTAGGGTTAAGGTTAGGG
21195237 TT
1 TT
21195239 TTTAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (23 bp):
TTAAATTAGGGTTAAGGTTAGGG
Found at i:21197696 original size:26 final size:26
Alignment explanation
Indices: 21197667--21197717 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
21197657 GTCTTCAGAC
*
21197667 TTTTATAACAAATA-ATAAATTAATAA
1 TTTTATAA-AAATACATAAATAAATAA
*
21197693 TTTTCTAAAAATACATAAATAAATA
1 TTTTATAAAAATACATAAATAAATA
21197718 TCTCTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (26 bp):
TTTTATAAAAATACATAAATAAATAA
Found at i:21197866 original size:30 final size:31
Alignment explanation
Indices: 21197822--21197879 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
21197812 GCCATTGATG
21197822 AAAATATAAAAAAATTTTAAAATTATTTTTA
1 AAAATATAAAAAAATTTTAAAATTATTTTTA
*
21197853 AAAATAT-AAAAAATTTTGAAATTATTT
1 AAAATATAAAAAAATTTTAAAATTATTT
21197880 AAAAAATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (31 bp):
AAAATATAAAAAAATTTTAAAATTATTTTTA
Found at i:21197945 original size:22 final size:22
Alignment explanation
Indices: 21197920--21197967 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
21197910 TAATATGGAT
*
21197920 TTGAGA-GATTTTTGGAATGAAA
1 TTGAGAGGA-TTTTGGAAGGAAA
21197942 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGAGGATTTTGGAAGGAAA
21197964 TTGA
1 TTGA
21197968 AAGTTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.33
Consensus pattern (22 bp):
TTGAGAGGATTTTGGAAGGAAA
Found at i:21198005 original size:22 final size:22
Alignment explanation
Indices: 21197975--21198020 Score: 51
Period size: 21 Copynumber: 2.1 Consensus size: 22
21197965 TGAAAGTTTA
*
21197975 AGAGAATTTTGGAAGGAAATTG
1 AGAGATTTTTGGAAGGAAATTG
*
21197997 AGAGGA--TTTGGAATGAAATTG
1 AGA-GATTTTTGGAAGGAAATTG
21198018 AGA
1 AGA
21198021 TAAGATTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 17 0.77
22 3 0.14
23 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.26
Consensus pattern (22 bp):
AGAGATTTTTGGAAGGAAATTG
Found at i:21200142 original size:13 final size:14
Alignment explanation
Indices: 21200124--21200180 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 14
21200114 TATGCATAAG
21200124 TTATAAA-TTTAAT
1 TTATAAATTTTAAT
21200137 TTATAAATTTTAATTT
1 TTATAAATTTTAA--T
**
21200153 TTATACTTTTTAAAT
1 TTATAAATTTT-AAT
21200168 TTA-AAATTTTAAT
1 TTATAAATTTTAAT
21200181 CTCGAAGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 10 0.28
14 10 0.28
15 4 0.11
16 10 0.28
17 2 0.06
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATAAATTTTAAT
Found at i:21206259 original size:3 final size:3
Alignment explanation
Indices: 21206251--21206302 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
21206241 ACGCACACAA
21206251 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
21206299 AAG A
1 AAG A
21206303 CGAATGAGCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:21207302 original size:22 final size:22
Alignment explanation
Indices: 21207277--21207319 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
21207267 AAACCACACA
21207277 TTTTTATTTTTAAGAATTTAATT
1 TTTTTATTTTTAA-AATTTAATT
*
21207300 TTTTTATTTTTTAAATTTAA
1 TTTTTATTTTTAAAATTTAA
21207320 AAATTCAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTTATTTTTAAAATTTAATT
Found at i:21213059 original size:2 final size:2
Alignment explanation
Indices: 21213052--21213076 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21213042 GACTGCTTTA
21213052 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
21213077 AGGTACCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21220526 original size:22 final size:20
Alignment explanation
Indices: 21220500--21220543 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
21220490 ATTTTTAAAA
*
21220500 TTTTAAAAATTCAAAAAATTAT
1 TTTTAAAAA-T-AAAAAATCAT
*
21220522 TTTTACAAATAAAAAATCAT
1 TTTTAAAAATAAAAAATCAT
21220542 TT
1 TT
21220544 CAATTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 1 0.05
22 8 0.40
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTTAAAAATAAAAAATCAT
Found at i:21220718 original size:17 final size:18
Alignment explanation
Indices: 21220691--21220724 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
21220681 ATACAAATTC
21220691 AAAAATATAAATAAAAAG
1 AAAAATATAAATAAAAAG
21220709 AAAAAT-TAAATAAAAA
1 AAAAATATAAATAAAAA
21220725 ACTAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAAATATAAATAAAAAG
Found at i:21226296 original size:19 final size:20
Alignment explanation
Indices: 21226268--21226313 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
21226258 TGAATACCCG
21226268 TTAAAATA-TTTTTCACCTA
1 TTAAAATATTTTTTCACCTA
*
21226287 TTAAATTATTTTTTTCACCTA
1 TTAAAATA-TTTTTTCACCTA
21226308 TTAAAA
1 TTAAAA
21226314 CAATTTCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
21 16 0.70
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAAATATTTTTTCACCTA
Found at i:21226319 original size:22 final size:21
Alignment explanation
Indices: 21226276--21226319 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
21226266 CGTTAAAATA
**
21226276 TTTTTCACCTATTAAATTATT
1 TTTTTCACCTATTAAACAATT
21226297 TTTTTCACCTATTAAAACAATT
1 TTTTTCACCTATT-AAACAATT
21226319 T
1 T
21226320 CAACTTGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTTCACCTATTAAACAATT
Found at i:21232259 original size:42 final size:42
Alignment explanation
Indices: 21232191--21232319 Score: 136
Period size: 42 Copynumber: 3.1 Consensus size: 42
21232181 AAGACTAAAA
* * * *
21232191 GAAGCACATAAGTA-CTAAACAAAAACCCGTAAGGGTTGAACG
1 GAAGCACATAAG-AGCTGAACGAAAACCCATAAGGGTTAAACG
* * *
21232233 GAAGCACATAAGAGCTGAACGGAAACCCATAGGGGTTAAACA
1 GAAGCACATAAGAGCTGAACGAAAACCCATAAGGGTTAAACG
* * *
21232275 AAAGCTCA-AAGGAGCTGAACGAAAACCCATTAGGGTTAAACG
1 GAAGCACATAA-GAGCTGAACGAAAACCCATAAGGGTTAAACG
21232317 GAA
1 GAA
21232320 ACTCATATGA
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
41 3 0.04
42 68 0.96
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (42 bp):
GAAGCACATAAGAGCTGAACGAAAACCCATAAGGGTTAAACG
Found at i:21232263 original size:21 final size:21
Alignment explanation
Indices: 21232213--21232263 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
21232203 TACTAAACAA
* * *
21232213 AAACCCGTAAGGGTTGAACGG
1 AAACCCATAAGAGCTGAACGG
* *
21232234 AAGCACATAAGAGCTGAACGG
1 AAACCCATAAGAGCTGAACGG
21232255 AAACCCATA
1 AAACCCATA
21232264 GGGGTTAAAC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.22, G:0.25, T:0.12
Consensus pattern (21 bp):
AAACCCATAAGAGCTGAACGG
Found at i:21234794 original size:25 final size:25
Alignment explanation
Indices: 21234766--21234842 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
21234756 TGCTCATACA
*
21234766 AGCTATGAATCGATATGCTCTCACG
1 AGCTATGAATCGATAAGCTCTCACG
* *
21234791 AGCTGTGAATCGGTAAGCTCAT-ACG
1 AGCTATGAATCGATAAGCTC-TCACG
21234816 AGCTGA-GAATC-AGTAAGCTCTCACG
1 AGCT-ATGAATCGA-TAAGCTCTCACG
21234841 AG
1 AG
21234843 TTGCAAATCA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
24 1 0.02
25 41 0.95
26 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (25 bp):
AGCTATGAATCGATAAGCTCTCACG
Found at i:21234836 original size:50 final size:51
Alignment explanation
Indices: 21234757--21234870 Score: 135
Period size: 50 Copynumber: 2.3 Consensus size: 51
21234747 ATACATGTAT
* * ** *
21234757 GCTCATACAAGCT-ATGAATCGATATGCTCTCACGAGCTGTGAATCGGTAA
1 GCTCATACGAGCTGATGAATCGATAAGCTCTCACGAGCTGCAAATCAGTAA
*
21234807 GCTCATACGAGCTGA-GAATC-AGTAAGCTCTCACGAGTTGCAAATCAGTAA
1 GCTCATACGAGCTGATGAATCGA-TAAGCTCTCACGAGCTGCAAATCAGTAA
*
21234857 GATCATACGAGCTG
1 GCTCATACGAGCTG
21234871 TAGTGTGTCC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 1 0.02
50 53 0.96
51 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (51 bp):
GCTCATACGAGCTGATGAATCGATAAGCTCTCACGAGCTGCAAATCAGTAA
Found at i:21234851 original size:25 final size:24
Alignment explanation
Indices: 21234782--21234870 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 24
21234772 GAATCGATAT
* *
21234782 GCTCTCACGAGCTGTGAATCGGTAA
1 GCTCTCACGAGCTG-AAATCAGTAA
21234807 GCTCAT-ACGAGCTGAGAATCAGTAA
1 GCTC-TCACGAGCTGA-AATCAGTAA
*
21234832 GCTCTCACGAGTTGCAAATCAGTAA
1 GCTCTCACGAGCTG-AAATCAGTAA
*
21234857 GATCAT-ACGAGCTG
1 GCTC-TCACGAGCTG
21234871 TAGTGTGTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
24 1 0.02
25 50 0.93
26 3 0.06
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (24 bp):
GCTCTCACGAGCTGAAATCAGTAA
Found at i:21237958 original size:81 final size:81
Alignment explanation
Indices: 21237863--21238023 Score: 277
Period size: 81 Copynumber: 2.0 Consensus size: 81
21237853 AGGTTAGATC
* *
21237863 TTAGTGTGATAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCT
1 TTAGTGTGACAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCA
*
21237928 TATCCTTTAATGGATA
66 TATCCTTCAATGGATA
*
21237944 TTAGTGTGGCAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCA
1 TTAGTGTGACAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCA
*
21238009 TATGCTTCAATGGAT
66 TATCCTTCAATGGAT
21238024 CTTCATGAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.40
Consensus pattern (81 bp):
TTAGTGTGACAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCA
TATCCTTCAATGGATA
Found at i:21240812 original size:23 final size:23
Alignment explanation
Indices: 21240780--21240823 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
21240770 ACTACCATTT
21240780 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
21240803 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
21240824 ATAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:21240816 original size:13 final size:11
Alignment explanation
Indices: 21240784--21240826 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
21240774 CCATTTTCTA
*
21240784 AATAAAATAAT
1 AATAAAATATT
21240795 AAT-AAATATCT
1 AATAAAATAT-T
21240806 AAGTAAAATATT
1 AA-TAAAATATT
21240818 AATAAAATA
1 AATAAAATA
21240827 ATTTTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:21243874 original size:31 final size:31
Alignment explanation
Indices: 21243799--21243874 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
21243789 TTACGGTTTG
* *
21243799 GTCATTAGATTATTTGAAAGTTTTCATTTAA
1 GTCATTAGACTATTTAAAAGTTTTCATTTAA
* * *
21243830 ATCACT-GAACTATTTAAAAGTTTTTATTTAA
1 GTCATTAG-ACTATTTAAAAGTTTTCATTTAA
*
21243861 GTCATTAGGCTATT
1 GTCATTAGACTATT
21243875 AAGTTTTCTT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
30 1 0.03
31 33 0.94
32 1 0.03
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (31 bp):
GTCATTAGACTATTTAAAAGTTTTCATTTAA
Found at i:21254300 original size:15 final size:16
Alignment explanation
Indices: 21254274--21254303 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21254264 ATATTATTTT
21254274 AATAATTAATTTTAAC
1 AATAATTAATTTTAAC
21254290 AATAA-TAATTTTAA
1 AATAATTAATTTTAA
21254304 ATTTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
AATAATTAATTTTAAC
Found at i:21254353 original size:12 final size:14
Alignment explanation
Indices: 21254336--21254367 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
21254326 TATTATTGAA
21254336 AAATATTT-AT-AT
1 AAATATTTAATAAT
21254348 AAATATTTAATAAT
1 AAATATTTAATAAT
21254362 AAATAT
1 AAATAT
21254368 ATATTACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 2 0.11
14 8 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATATTTAATAAT
Found at i:21258005 original size:21 final size:22
Alignment explanation
Indices: 21257976--21258022 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
21257966 CAGAATGAGT
*
21257976 GAGTAGTACTTCGCAGCAGATG
1 GAGTAGTACTCCGCAGCAGATG
*
21257998 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGATG
21258019 GAGT
1 GAGT
21258023 TTGAGTAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGATG
Found at i:21260676 original size:37 final size:39
Alignment explanation
Indices: 21260615--21260690 Score: 111
Period size: 37 Copynumber: 2.0 Consensus size: 39
21260605 TTTTAAGATT
* *
21260615 CTGAGTTCTTTATTATTTGTTATTTGTTCTTTGAATGTG
1 CTGAATTCTTTATTATTTGTTATTTGTTCTTCGAATGTG
*
21260654 CTGAATTCTTT-TT-TTTTTTATTTGTTCTTCGAATGTG
1 CTGAATTCTTTATTATTTGTTATTTGTTCTTCGAATGTG
21260691 ATGGGTTCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 22 0.65
38 2 0.06
39 10 0.29
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.61
Consensus pattern (39 bp):
CTGAATTCTTTATTATTTGTTATTTGTTCTTCGAATGTG
Found at i:21260997 original size:41 final size:42
Alignment explanation
Indices: 21260933--21261012 Score: 126
Period size: 41 Copynumber: 1.9 Consensus size: 42
21260923 GGTGACAGGA
*
21260933 ATAATTTTTAAAGAAAAAATGAAAGGAGAAATAATTAAAAGG
1 ATAATTTTTAAAGAAAAAATGAAAGGAAAAATAATTAAAAGG
* *
21260975 ATAATTTTTCAAG-GAAAATGAAAGGAAAAATAATTAAA
1 ATAATTTTTAAAGAAAAAATGAAAGGAAAAATAATTAAA
21261013 GGGGTCTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 23 0.66
42 12 0.34
ACGTcount: A:0.59, C:0.01, G:0.15, T:0.25
Consensus pattern (42 bp):
ATAATTTTTAAAGAAAAAATGAAAGGAAAAATAATTAAAAGG
Found at i:21261321 original size:28 final size:28
Alignment explanation
Indices: 21261290--21261351 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
21261280 TCAATCATTA
*
21261290 TTAATTATTTATTCTTTCTTGTGCTTAT
1 TTAATTATTTATTCTCTCTTGTGCTTAT
21261318 TTAATTATTTATTCTCTCTTGTGCTTAT
1 TTAATTATTTATTCTCTCTTGTGCTTAT
21261346 TTAATT
1 TTAATT
21261352 TGATTGCCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.19, C:0.11, G:0.06, T:0.63
Consensus pattern (28 bp):
TTAATTATTTATTCTCTCTTGTGCTTAT
Found at i:21265907 original size:18 final size:18
Alignment explanation
Indices: 21265884--21265931 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
21265874 AAAATATGAG
*
21265884 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
*
21265902 AAATGATATTCACATTTC
1 AAATGATGTTCACATTTC
*
21265920 AAATTATGTTCA
1 AAATGATGTTCA
21265932 AATTGATGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:21266455 original size:72 final size:71
Alignment explanation
Indices: 21266355--21266526 Score: 254
Period size: 72 Copynumber: 2.4 Consensus size: 71
21266345 AACAACAATG
* * * *
21266355 CTAAACTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGACATTGAATTTATGTTCTACTTA
1 CTAAATTAGTTTTATCAATAGTTGTTTATGTTTAGTCTTTGGACATTGAATTTATGTTCTACTTA
*
21266420 TTTATGT
66 TTTAT-A
* * * *
21266427 GTAATTTAGTTTTATTAATAGTTGTTTATGTTTAGTCTTTGGATATTGAATTTATGTTCTACTTA
1 CTAAATTAGTTTTATCAATAGTTGTTTATGTTTAGTCTTTGGACATTGAATTTATGTTCTACTTA
21266492 TTTATA
66 TTTATA
21266498 CTAAATTAGTTTTATCAATAGTTGTTTAT
1 CTAAATTAGTTTTATCAATAGTTGTTTAT
21266527 TTATGATTTT
Statistics
Matches: 88, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
71 26 0.30
72 62 0.70
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.54
Consensus pattern (71 bp):
CTAAATTAGTTTTATCAATAGTTGTTTATGTTTAGTCTTTGGACATTGAATTTATGTTCTACTTA
TTTATA
Found at i:21268591 original size:13 final size:13
Alignment explanation
Indices: 21268570--21268607 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
21268560 ACACTCAAAT
21268570 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
21268583 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
*
21268596 TTTTCAAAAGCA
1 TTCTCAAAAGCA
21268608 ATAAAGAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:21268660 original size:20 final size:20
Alignment explanation
Indices: 21268624--21268670 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
21268614 AACTGGCCCT
*
21268624 AAGAAAG-GAAAAGAAATTG
1 AAGAAAGTGAAAAGAAATAG
21268643 AA-AAAGTGAAATAGAAATAG
1 AAGAAAGTGAAA-AGAAATAG
21268663 AAGAAAGT
1 AAGAAAGT
21268671 TAAGAAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 4 0.17
19 6 0.25
20 9 0.38
21 5 0.21
ACGTcount: A:0.64, C:0.00, G:0.23, T:0.13
Consensus pattern (20 bp):
AAGAAAGTGAAAAGAAATAG
Found at i:21268789 original size:15 final size:14
Alignment explanation
Indices: 21268765--21268795 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
21268755 AAGGAAAATG
21268765 AATTGATTTTTTAT
1 AATTGATTTTTTAT
21268779 AATTAGATTTTTTAT
1 AATT-GATTTTTTAT
21268794 AA
1 AA
21268796 AATAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (14 bp):
AATTGATTTTTTAT
Found at i:21269953 original size:19 final size:19
Alignment explanation
Indices: 21269929--21270003 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
21269919 AATCTTCGAG
21269929 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
21269948 GATATGCATTCTTAGATAT
1 GATATGCAATCTTAGATAT
21269967 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
21269988 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
21270004 AGACATGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:21269975 original size:21 final size:21
Alignment explanation
Indices: 21269930--21269992 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
21269920 ATCTTCGAGG
21269930 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
*
21269949 ATATGCATTCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
21269970 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
21269991 AT
1 AT
21269993 GTAATCTTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 18 0.45
21 22 0.55
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:21270693 original size:8 final size:8
Alignment explanation
Indices: 21270639--21270702 Score: 51
Period size: 8 Copynumber: 7.9 Consensus size: 8
21270629 AATTATTTCT
21270639 TTTATTT-
1 TTTATTTA
*
21270646 TTTAATTA
1 TTTATTTA
*
21270654 GTT-TTTA
1 TTTATTTA
21270661 TTTATATATA
1 TTTAT-T-TA
* *
21270671 TTTGTTGTT
1 TTTATT-TA
21270680 TTTATTTA
1 TTTATTTA
21270688 TTTATTTA
1 TTTATTTA
21270696 TTTATTT
1 TTTATTT
21270703 TAAAACAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
7 11 0.25
8 19 0.43
9 8 0.18
10 6 0.14
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (8 bp):
TTTATTTA
Found at i:21270704 original size:17 final size:17
Alignment explanation
Indices: 21270631--21270702 Score: 51
Period size: 16 Copynumber: 4.1 Consensus size: 17
21270621 CATAATGTAA
*
21270631 TTATTTCTTTTATTT-T
1 TTATTTATTTTATTTAT
*
21270647 TTAATTAGTTTTTATTTAT
1 TTATTTA--TTTTATTTAT
*
21270666 ATATATTTGTTGTT-TTTAT
1 -T-TATTTATT-TTATTTAT
21270685 TTATTTA-TTTATTTAT
1 TTATTTATTTTATTTAT
21270701 TT
1 TT
21270703 TAAAACAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
15 2 0.05
16 13 0.30
17 5 0.11
18 9 0.20
19 8 0.18
20 3 0.07
21 4 0.09
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.74
Consensus pattern (17 bp):
TTATTTATTTTATTTAT
Found at i:21283749 original size:21 final size:22
Alignment explanation
Indices: 21283723--21283769 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
21283713 CAAATTATAA
*
21283723 AAAAAGAGA-AAAAAGAAGAAG
1 AAAAAGAGATAAAAAGAAAAAG
*
21283744 AAAAAGTGATAAAAAGAAAAAG
1 AAAAAGAGATAAAAAGAAAAAG
21283766 AAAA
1 AAAA
21283770 GGAAAATGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (22 bp):
AAAAAGAGATAAAAAGAAAAAG
Found at i:21285104 original size:44 final size:44
Alignment explanation
Indices: 21285039--21285393 Score: 140
Period size: 44 Copynumber: 8.1 Consensus size: 44
21285029 CTAAGCCTTG
* * * * *
21285039 TCTCCCTGAGCAACAGCGGAGTAGGTTGAGGATCGTAAATCTTA
1 TCTCCCTAAGCAATAGTGGAGTAGATTGAAGATCGTAAATCTTA
* * *
21285083 TCTCCCTAAGCAATAGTGGAGTAGATCGAGGA-CGGCAAATCTTA
1 TCTCCCTAAGCAATAGTGGAGTAGATTGAAGATC-GTAAATCTTA
* * * * ** *
21285127 TCTTTCC-AAG--ATAGTGGGAAGCAGATTTAAGCTAC-TAAGCCTTG
1 TC-TCCCTAAGCAATAGT-GG-AGTAGATTGAAGAT-CGTAAATCTTA
* ** * * * *
21285171 TCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAATAGTGGAGTAGATTGAAGATCGTAAATCTTA
* *
21285215 TCTCCCTAAGCAGTAGTGGAGAAGATTGAAGA-CGATAAATCTTA
1 TCTCCCTAAGCAATAGTGGAGTAGATTGAAGATCG-TAAATCTTA
* * * * ** *
21285259 TCTTTCC-AAG--ATAGTGAGAAGCAGATTTAAGCCA-C-CAAGCCTTG
1 TC-TCCCTAAGCAATAGTG-G-AGTAGATTGAAG--ATCGTAAATCTTA
* ** * * * * *
21285303 TCTCCCTGAGCAGCAGCGGAATAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAATAGTGGAGTAGATTGAAGATCGTAAATCTTA
* * *
21285347 TCTCCCTAAGCAGTAGTGGAGAAGATTGAAGA-CGACAAATCTTA
1 TCTCCCTAAGCAATAGTGGAGTAGATTGAAGATCG-TAAATCTTA
21285391 TCT
1 TCT
21285394 TTTCAAGATA
Statistics
Matches: 220, Mismatches: 69, Indels: 44
0.66 0.21 0.13
Matches are distributed among these distances:
42 11 0.05
43 12 0.05
44 180 0.82
45 9 0.04
46 8 0.04
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
TCTCCCTAAGCAATAGTGGAGTAGATTGAAGATCGTAAATCTTA
Found at i:21285265 original size:132 final size:132
Alignment explanation
Indices: 21285031--21285575 Score: 874
Period size: 132 Copynumber: 4.1 Consensus size: 132
21285021 GTAAAACACT
* * * * *
21285031 AAGCCTTGTCTCCCTGAGCAACAGCGGAGTAGGTTGAGGATCGTAAATCTTATCTCCCTAAGCAA
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * *
21285096 TAGTGGAGTAGATCGAGGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCTA
66 TAGTGGAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
21285161 CT
131 CC
21285163 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * *
21285228 TAGTGGAGAAGATTGAAGACGATAAATCTTATCTTTCCAAGATAGTGAGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
21285293 CC
131 CC
*
21285295 AAGCCTTGTCTCCCTGAGCAGCAGCGGAATAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* *
21285360 TAGTGGAGAAGATTGAAGACGACAAATCTTATCTTTTCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
21285425 CC
131 CC
* *
21285427 AAGCATTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * *
21285492 TAGTGGAGCAGATCGAAAACGACAAATCATATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
21285557 CC
131 CC
* *
21285559 AAGTCTTGTCTCTCTGA
1 AAGCCTTGTCTCCCTGA
21285576 AGTTGCAGTG
Statistics
Matches: 384, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 384 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CC
Found at i:21285757 original size:44 final size:43
Alignment explanation
Indices: 21285689--21285980 Score: 180
Period size: 44 Copynumber: 6.7 Consensus size: 43
21285679 GAAGATGGCA
*
21285689 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTAAAGCCGAT
1 AATCTTATCTTCCTGAAGTTGCAGTAGAGCAGGTTAAAGCC-AT
* * * * *
21285733 AATCCTATCTTCCTGAAGTTGCAGTGGAG-TGGATTAAAACCTT
1 AATCTTATCTTCCTGAAGTTGCAGTAGAGCAGG-TTAAAGCCAT
*
21285776 GAATCTTATC-TCTCTGAAGTTGCAG-AGAGC-----AAATCGCAT
1 -AATCTTATCTTC-CTGAAGTTGCAGTAGAGCAGGTTAAAGC-CAT
* * * *
21285815 CAAGTCTTATCTTCTTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-
1 -AA-TCTTATCTTCCTGAAGTTGCAGTAGA-GCAG-GTTAA-A-GCCAT
*
21285862 AATCTTATC-TCCTTGAAGTTGCAGTGGAGCAGGTTAAAGCCGAT
1 AATCTTATCTTCC-TGAAGTTGCAGTAGAGCAGGTTAAAGCC-AT
* * * * * *
21285906 AATCCTATCTTCTTGAAGTTGCAGTGGAG-TGGATTAAAACCTT
1 AATCTTATCTTCCTGAAGTTGCAGTAGAGCAGG-TTAAAGCCAT
21285949 AGATCTTATC-TCTCTGAAGTTGCAG-AGAGCAG
1 A-ATCTTATCTTC-CTGAAGTTGCAGTAGAGCAG
21285981 ATCGCATCTA
Statistics
Matches: 195, Mismatches: 27, Indels: 52
0.71 0.10 0.19
Matches are distributed among these distances:
38 4 0.02
39 4 0.02
40 20 0.10
41 4 0.02
42 2 0.01
43 19 0.10
44 108 0.55
45 25 0.13
46 4 0.02
47 2 0.01
48 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (43 bp):
AATCTTATCTTCCTGAAGTTGCAGTAGAGCAGGTTAAAGCCAT
Found at i:21285861 original size:173 final size:173
Alignment explanation
Indices: 21285572--21286024 Score: 730
Period size: 173 Copynumber: 2.6 Consensus size: 173
21285562 TCTTGTCTCT
*** * * *
21285572 CTGAAGTTGCAGTGGAGCATATTAAAACTTTGGATCTTATCTCTCTGAAGTTGCAGAGAGTAGAT
1 CTGAAGTTGCAGTGGAGTGGATTAAAACCTTGAATCTTATCTCTCTGAAGTTGCAGAGAGCAGAT
* *
21285637 CGTATCTAGTTTTATCTCCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCC
66 CGCATCTAGTATTATCTCCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCC
21285702 TGAAGTTGCAGTAGAGCAGGTTAAAGCCGATAATCCTATCTTC
131 TGAAGTTGCAGTAGAGCAGGTTAAAGCCGATAATCCTATCTTC
*
21285745 CTGAAGTTGCAGTGGAGTGGATTAAAACCTTGAATCTTATCTCTCTGAAGTTGCAGAGAGCAAAT
1 CTGAAGTTGCAGTGGAGTGGATTAAAACCTTGAATCTTATCTCTCTGAAGTTGCAGAGAGCAGAT
* * * * *
21285810 CGCATCAAGTCTTATCTTCTTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCT
66 CGCATCTAGTATTATCTCCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCC
*
21285875 TGAAGTTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTC
131 TGAAGTTGCAGTAGAGCAGGTTAAAGCCGATAATCCTATCTTC
*
21285918 TTGAAGTTGCAGTGGAGTGGATTAAAACCTT-AGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
1 CTGAAGTTGCAGTGGAGTGGATTAAAACCTTGA-ATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
21285982 TCGCATCTAGTATTATCTCCCTGAAGTTGCAGTG-GAGCAGACT
65 TCGCATCTAGTATTATCTCCCTGAAGTTGCAGTGAG-GCAGACT
21286025 AAGTAATCAA
Statistics
Matches: 258, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
172 2 0.01
173 256 0.99
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (173 bp):
CTGAAGTTGCAGTGGAGTGGATTAAAACCTTGAATCTTATCTCTCTGAAGTTGCAGAGAGCAGAT
CGCATCTAGTATTATCTCCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCC
TGAAGTTGCAGTAGAGCAGGTTAAAGCCGATAATCCTATCTTC
Found at i:21286098 original size:173 final size:170
Alignment explanation
Indices: 21285567--21286105 Score: 669
Period size: 173 Copynumber: 3.1 Consensus size: 170
21285557 CCAAGTCTTG
* *** *
21285567 TCTCTCTGAAGTTGCAGTGGAGCATATTAAAACTTTGGATCTTATCTCTCTGAAGTTGCAGAGAG
1 TCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTT-GATCTTATCTCTCTGAAGTTGCAGAGAG
* * *
21285632 TAGATCGTATCTAGTTTTATCTCCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTAT
65 CAGATCGCATCTAGTATTATCTCCCTGAAGTTGCAGTGAGGCAGACTGAAGAT-GCAAATCTTAT
21285697 CTCCCTGAAGTTGCAGT-AGAGCAGGTTAAAGCCGATAATCCTA
129 CT-CCTGAAGTTGCAGTGAGAGCAGGTTAAAGCCGA-AATCCTA
*
21285740 TCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGAATCTTATCTCTCTGAAGTTGCAGAGAG
1 TCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTG-ATCTTATCTCTCTGAAGTTGCAGAGAG
* * * * *
21285805 CAAATCGCATCAAGTCTTATCTTCTTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTAT
65 CAGATCGCATCTAGTATTATCTCCCTGAAGTTGCAGTGAGGCAGACTGAAGAT-GCAAATCTTAT
21285870 CTCCTTGAAGTTGCAGTG-GAGCAGGTTAAAGCCGATAATCCTA
129 CTCC-TGAAGTTGCAGTGAGAGCAGGTTAAAGCCGA-AATCCTA
* *
21285913 TCTTCTTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAG
1 TCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTT-GATCTTATCTCTCTGAAGTTGCAGAGAG
* *
21285978 CAGATCGCATCTAGTATTATCTCCCTGAAGTTGCAGTG-GAGCAGACT-AAGTAAT-CAAGTTTT
65 CAGATCGCATCTAGTATTATCTCCCTGAAGTTGCAGTGAG-GCAGACTGAAG--ATGCAAATCTT
* * * * *
21286040 ATCCTCCTGAAGTTGTAGTGAG-GCAGACTGAAGATGGCG-AATCTTA
127 AT-CTCCTGAAGTTGCAGTGAGAGCAG-GTTAA-A-GCCGAAATCCTA
*
21286086 TCTCCCTGAAGTTGTAGTGG
1 TCTCCCTGAAGTTGCAGTGG
21286106 GGCATACTAA
Statistics
Matches: 325, Mismatches: 29, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
172 31 0.10
173 287 0.88
174 4 0.01
175 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (170 bp):
TCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGATCTTATCTCTCTGAAGTTGCAGAGAGC
AGATCGCATCTAGTATTATCTCCCTGAAGTTGCAGTGAGGCAGACTGAAGATGCAAATCTTATCT
CCTGAAGTTGCAGTGAGAGCAGGTTAAAGCCGAAATCCTA
Done.