Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 52 of 210
Found at i:15926698 original size:41 final size:41
Alignment explanation
Indices: 15926616--15926737 Score: 217
Period size: 41 Copynumber: 3.0 Consensus size: 41
15926606 TTTTTGAAGG
15926616 CCCGAGCATTAGCGGCGCTTTCTCAAAAAACACCGCTAAAGC
1 CCCGAGCATTAGCGGCGCTTTCTC-AAAAACACCGCTAAAGC
15926658 CCCGAGCATTAGCGGCGCTTTCTCAAAAACACCGCTAAAGC
1 CCCGAGCATTAGCGGCGCTTTCTCAAAAACACCGCTAAAGC
* *
15926699 CCCGAGCATTAGCAGCGCTTTCTCAAAAACGCCGCTAAA
1 CCCGAGCATTAGCGGCGCTTTCTCAAAAACACCGCTAAA
15926738 TGCCTCAAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
41 54 0.69
42 24 0.31
ACGTcount: A:0.30, C:0.34, G:0.19, T:0.17
Consensus pattern (41 bp):
CCCGAGCATTAGCGGCGCTTTCTCAAAAACACCGCTAAAGC
Found at i:15926706 original size:110 final size:109
Alignment explanation
Indices: 15926514--15926711 Score: 315
Period size: 110 Copynumber: 1.8 Consensus size: 109
15926504 AGATTTTATT
** * * *
15926514 ATTAGCGACGCTTTTTTAAAAACGCCGCTAAAGGCACGAGCATAAGCGGCGCTTTCTCAAAAACG
1 ATTAGCGACGCTTTTCAAAAAACACCGCTAAAGCCACGAGCATAAGCGGCGCTTTCTCAAAAACA
15926579 CCGCTAAAGCCCCGAGCATTAGCGGCGTTTTTGAAGGCCCGAGC
66 CCGCTAAAGCCCCGAGCATTAGCGGCGTTTTTGAAGGCCCGAGC
* * *
15926623 ATTAGCGGCGCTTTCTCAAAAAACACCGCTAAAGCCCCGAGCATTAGCGGCGCTTTCTCAAAAAC
1 ATTAGCGACGCTTT-TCAAAAAACACCGCTAAAGCCACGAGCATAAGCGGCGCTTTCTCAAAAAC
15926688 ACCGCTAAAGCCCCGAGCATTAGC
65 ACCGCTAAAGCCCCGAGCATTAGC
15926712 AGCGCTTTCT
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
109 13 0.16
110 67 0.84
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (109 bp):
ATTAGCGACGCTTTTCAAAAAACACCGCTAAAGCCACGAGCATAAGCGGCGCTTTCTCAAAAACA
CCGCTAAAGCCCCGAGCATTAGCGGCGTTTTTGAAGGCCCGAGC
Found at i:15926871 original size:38 final size:41
Alignment explanation
Indices: 15926801--15926892 Score: 111
Period size: 38 Copynumber: 2.3 Consensus size: 41
15926791 TCTTGGAAAA
* * * *
15926801 CGCCGCTAATACT-TATGTTTAGCGGCGTTTTTA-G-AATG
1 CGCCGCTAATGCTCGATCTTTAGCGGCGTTTTTACGTAAAG
15926839 CGCCGCTAATGCTCGATCTTTAGCGGCG-TTTTACGTAAAG
1 CGCCGCTAATGCTCGATCTTTAGCGGCGTTTTTACGTAAAG
*
15926879 GGCCGCTAATGCTC
1 CGCCGCTAATGCTC
15926893 AATTTCTAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 17 0.37
39 13 0.28
40 16 0.35
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.32
Consensus pattern (41 bp):
CGCCGCTAATGCTCGATCTTTAGCGGCGTTTTTACGTAAAG
Found at i:15929782 original size:14 final size:15
Alignment explanation
Indices: 15929763--15929799 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
15929753 AGCTCAATCA
15929763 ATTTTTTTAT-TTTC
1 ATTTTTTTATCTTTC
15929777 ATTTTTTT-TCTTTC
1 ATTTTTTTATCTTTC
*
15929791 TTTTTTTTA
1 ATTTTTTTA
15929800 GAACAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 19 0.95
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (15 bp):
ATTTTTTTATCTTTC
Found at i:15932417 original size:11 final size:11
Alignment explanation
Indices: 15932331--15932429 Score: 55
Period size: 11 Copynumber: 9.2 Consensus size: 11
15932321 CTTTAAAGCT
*
15932331 AATAACAATAA
1 AATAATAATAA
*
15932342 AGTAATAACT-A
1 AATAATAA-TAA
*
15932353 AAT-CTAATAGA
1 AATAATAATA-A
* *
15932364 AATACTAAGAA
1 AATAATAATAA
15932375 AATAA-AATAA
1 AATAATAATAA
* *
15932385 TATCAATAAGAA
1 AAT-AATAATAA
*
15932397 AACAAT--TAA
1 AATAATAATAA
15932406 AATAATAATAA
1 AATAATAATAA
*
15932417 AATAATAACAA
1 AATAATAATAA
15932428 AA
1 AA
15932430 GAAAAGAAAA
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
9 8 0.12
10 9 0.14
11 38 0.58
12 11 0.17
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (11 bp):
AATAATAATAA
Found at i:15944601 original size:18 final size:17
Alignment explanation
Indices: 15944580--15944614 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15944570 TTATTATTAA
*
15944580 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15944598 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15944615 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15944751 original size:156 final size:157
Alignment explanation
Indices: 15944467--15944782 Score: 562
Period size: 156 Copynumber: 2.0 Consensus size: 157
15944457 TAGAATACCC
* *
15944467 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* * * *
15944532 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
15944597 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
15944623 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
15944688 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
15944753 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
15944780 TTA
1 TTA
15944783 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
156 145 0.95
157 7 0.05
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:15944753 original size:16 final size:16
Alignment explanation
Indices: 15944716--15944757 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
15944706 TTAATCATAT
*
15944716 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
15944732 TT-AAATATATTATAA
1 TTAAAATATATTATAA
15944747 TTAAAATATAT
1 TTAAAATATAT
15944758 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:15944764 original size:14 final size:15
Alignment explanation
Indices: 15944725--15944766 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15944715 TTTAAACATA
*
15944725 ATTATTATTAAATAT
1 ATTATAATTAAATAT
15944740 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
15944754 A-TATAATTTAATA
1 ATTATAATTAAATA
15944767 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:15944816 original size:61 final size:60
Alignment explanation
Indices: 15944751--15944938 Score: 181
Period size: 61 Copynumber: 3.1 Consensus size: 60
15944741 TTATAATTAA
15944751 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATT-TTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
15944812 AATATATGATACT-GTAAAA-TAT-A-AATTAACATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTTTAATAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCAT
15944871 AATATATAATTTAATAAAATTTTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAA-TTTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
15944932 AATATAT
1 AATATAT
15944939 GATACTATAA
Statistics
Matches: 95, Mismatches: 20, Indels: 24
0.68 0.14 0.17
Matches are distributed among these distances:
57 4 0.04
58 5 0.05
59 27 0.28
60 15 0.16
61 35 0.37
62 5 0.05
63 4 0.04
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:15944884 original size:14 final size:15
Alignment explanation
Indices: 15944835--15944886 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
15944825 GTAAAATATA
15944835 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
15944850 TATTAAATATATTAT
1 AATTAAATATATTAT
15944865 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
15944878 AATTTAATA
1 AATTAAATA
15944887 AAATTTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:15945012 original size:120 final size:120
Alignment explanation
Indices: 15944719--15945022 Score: 504
Period size: 120 Copynumber: 2.5 Consensus size: 120
15944709 ATCATATTTA
*
15944719 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATAATTAA
* *
15944784 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
15944839 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATAATTAA
15944904 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAA-TT
* * * **
15944959 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAAATAATTA
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATAATTA
15945023 TAACTAATAA
Statistics
Matches: 174, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 3 0.02
120 169 0.97
121 2 0.01
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
Found at i:15947489 original size:6 final size:6
Alignment explanation
Indices: 15947480--15947514 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
15947470 TTGATGTTAG
*
15947480 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA AAGGG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGG
15947515 TGGGGTAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:15954309 original size:37 final size:37
Alignment explanation
Indices: 15954268--15954344 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
15954258 TATAAAATAT
* * *
15954268 AAATTTATAAAAATATGTAAGTATATAAAAGTACTAA
1 AAATTTATAAAAATATATAAATATATAAAAGAACTAA
** *
15954305 AAATTTATAAATTTATATAAATATGTAAAAGAACTAA
1 AAATTTATAAAAATATATAAATATATAAAAGAACTAA
15954342 AAA
1 AAA
15954345 GCGTATCAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (37 bp):
AAATTTATAAAAATATATAAATATATAAAAGAACTAA
Found at i:15955613 original size:38 final size:38
Alignment explanation
Indices: 15955561--15955740 Score: 252
Period size: 38 Copynumber: 4.7 Consensus size: 38
15955551 AACCAACCGA
* *
15955561 AACATGCTAGTTTGCTCATAAGAGCTATTCCATCCAAT
1 AACATGCCAATTTGCTCATAAGAGCTATTCCATCCAAT
15955599 AACATGCCAATTTGCTCATAAGAGCTATTCCATCCAAT
1 AACATGCCAATTTGCTCATAAGAGCTATTCCATCCAAT
* * * *
15955637 AACATGCTAGTTTGATCATAAGAGCTATTCCATCCGAT
1 AACATGCCAATTTGCTCATAAGAGCTATTCCATCCAAT
* **
15955675 AACATGCCAATTTGCTCATAAGAGTTATTCCATCCGTT
1 AACATGCCAATTTGCTCATAAGAGCTATTCCATCCAAT
* * *
15955713 AACACGTCAATTTGCTTATAAGAGCTAT
1 AACATGCCAATTTGCTCATAAGAGCTAT
15955741 AATTGAAAAT
Statistics
Matches: 127, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 127 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (38 bp):
AACATGCCAATTTGCTCATAAGAGCTATTCCATCCAAT
Found at i:15955638 original size:19 final size:18
Alignment explanation
Indices: 15955615--15955676 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
15955605 CCAATTTGCT
15955615 CATAAGAGCTATTCCATC
1 CATAAGAGCTATTCCATC
* **
15955633 CAATAACATGCTAGTTTGAT-
1 C-ATAAGA-GCTA-TTCCATC
15955653 CATAAGAGCTATTCCATC
1 CATAAGAGCTATTCCATC
15955671 CGATAA
1 C-ATAA
15955677 CATGCCAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
17 4 0.12
18 6 0.18
19 14 0.42
20 5 0.15
21 4 0.12
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (18 bp):
CATAAGAGCTATTCCATC
Found at i:15959857 original size:28 final size:27
Alignment explanation
Indices: 15959826--15959885 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
15959816 AATTTTTTAT
*
15959826 TAAAATCATAAAAAAATATTTAAAAATA
1 TAAAATCAT-AAAAAACATTTAAAAATA
**
15959854 TAAAAATTGTAAAAAACATTTAAAAATA
1 T-AAAATCATAAAAAACATTTAAAAATA
15959882 TAAA
1 TAAA
15959886 TTATTGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 3 0.11
28 19 0.68
29 6 0.21
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (27 bp):
TAAAATCATAAAAAACATTTAAAAATA
Found at i:15960740 original size:6 final size:6
Alignment explanation
Indices: 15960729--15960762 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
15960719 ATAGTCACGC
15960729 CCAATA CCAATA CCAATA CCAATA CCAATA CCAA
1 CCAATA CCAATA CCAATA CCAATA CCAATA CCAA
15960763 ATCCATTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (6 bp):
CCAATA
Found at i:15965222 original size:4 final size:4
Alignment explanation
Indices: 15965213--15965237 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
15965203 AATTGAAAAT
15965213 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
15965238 ATGCTGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:15968103 original size:16 final size:14
Alignment explanation
Indices: 15968068--15968105 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
15968058 TGGACAGAGA
15968068 TGGTGTGTAGAGGC
1 TGGTGTGTAGAGGC
15968082 TGGTGTGTAGAGGC
1 TGGTGTGTAGAGGC
15968096 TGGTGTGTAG
1 TGGTGTGTAG
15968106 GATTCTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.13, C:0.05, G:0.50, T:0.32
Consensus pattern (14 bp):
TGGTGTGTAGAGGC
Found at i:15971146 original size:19 final size:19
Alignment explanation
Indices: 15971122--15971232 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
15971112 AATTTTTGAG
*
15971122 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
*
15971141 GATATGCAATCGTAGATAT
1 GATATGCAATCTTAGATAT
15971160 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15971179 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* ** *
15971198 GATGTATAATCTTTGATAT
1 GATATGCAATCTTAGATAT
15971217 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
15971233 AGATATGATT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 81 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:15972390 original size:98 final size:98
Alignment explanation
Indices: 15972267--15972461 Score: 318
Period size: 98 Copynumber: 2.0 Consensus size: 98
15972257 AAAAATCATG
* * *
15972267 AAGGAAATATTTCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGCGTGATTTCTT
*
15972332 AAATCTTGGATAAGTGGATGTTCTTTTGAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* * *
15972365 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAATGTATTGGGCGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGCGTGATTTCTT
*
15972430 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
15972462 TTTATTGTAT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.27, C:0.10, G:0.26, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGCGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:15977498 original size:23 final size:25
Alignment explanation
Indices: 15977466--15977522 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
15977456 TACATCTTTG
*
15977466 CATTCATTTTGAACCAA-TATATTTT
1 CATTC-TTTTGAAACAATTATATTTT
* *
15977491 -ATTCTTTTTAAATAATTATATTTT
1 CATTCTTTTGAAACAATTATATTTT
15977515 CATTCTTT
1 CATTCTTT
15977523 CAGATCTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 8 0.30
24 12 0.44
25 7 0.26
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (25 bp):
CATTCTTTTGAAACAATTATATTTT
Found at i:15978256 original size:6 final size:6
Alignment explanation
Indices: 15978234--15978290 Score: 84
Period size: 6 Copynumber: 10.0 Consensus size: 6
15978224 AGCTCAGATT
*
15978234 CAAAAA -AAAAA C-GAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
1 CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
15978280 -AAAAA CAAAAA
1 CAAAAA CAAAAA
15978291 ATGAAAGTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
5 14 0.30
6 32 0.70
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:15978291 original size:18 final size:18
Alignment explanation
Indices: 15978234--15978290 Score: 84
Period size: 17 Copynumber: 3.3 Consensus size: 18
15978224 AGCTCAGATT
*
15978234 CAAAAA-AAAAAC-GAAA
1 CAAAAACAAAAACAAAAA
15978250 CAAAAACAAAAACAAAAA
1 CAAAAACAAAAACAAAAA
15978268 CAAAAACAAAAA-AAAAA
1 CAAAAACAAAAACAAAAA
15978285 CAAAAA
1 CAAAAA
15978291 ATGAAAGTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
16 6 0.16
17 17 0.45
18 15 0.39
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (18 bp):
CAAAAACAAAAACAAAAA
Found at i:15979804 original size:44 final size:44
Alignment explanation
Indices: 15979729--15980351 Score: 171
Period size: 44 Copynumber: 14.2 Consensus size: 44
15979719 CCAAGCCTTG
* * * * * *
15979729 TCTCCCTGAGCAGCAGTGCAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAGATCTTA
* **
15979773 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGGCGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAG-ATCTTA
* * * ** * *
15979817 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAA-ACCACCA-AGCCTCA
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGATC-GTAGA-TCTTA
* * * * * **
15979861 TCTCCCTGAGCAGCAGTGGAGAAAATTGAAAATTATAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAGATCTTA
* * **
15979905 TATCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGGCGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAG-ATCTTA
* * * * * *
15979949 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-C-CAAACCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ATCGTAGATCTTA
* * * * *
15979993 TCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAGATCTTA
* * *
15980037 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGGCAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATC-GTAGATCTTA
* * ** * *
15980081 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-CCAAG-CCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ATCGTAGATCTTA
* * * * * * *
15980125 TCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAAATATTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAGATCTTA
* * **
15980169 TCTCCCTAAGCAGTAGTGGAGCATATCGAAGA-CGGCGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAG-ATCTTA
* * ** * *
15980213 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-CCAAG-CCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ATCGTAGATCTTA
* * * * * *
15980257 TCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGAT-TTCAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGT-AGATCTTA
* * * *
15980301 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAGATCTTA
*
15980345 CCTCCCT
1 TCTCCCT
15980352 GTAGTTCTAC
Statistics
Matches: 402, Mismatches: 130, Indels: 94
0.64 0.21 0.15
Matches are distributed among these distances:
42 19 0.05
43 33 0.08
44 305 0.76
45 27 0.07
46 18 0.04
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCGTAGATCTTA
Found at i:15979900 original size:132 final size:132
Alignment explanation
Indices: 15979655--15980332 Score: 1178
Period size: 132 Copynumber: 5.1 Consensus size: 132
15979645 CTGCATTGAC
* *
15979655 AGTGGAGCAGATCGAAAACGGAGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
15979720 CAAGCCTTGTCTCCCTGAGCAGCAGTGCAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
15979785 GT
131 GT
*
15979787 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAACCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
** ** * * *
15979852 CAAGCCTCATCTCCCTGAGCAGCAGTGGAGAAAATTGAAAATTATAGATCTTATATCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
15979917 GT
131 GT
15979919 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
15979984 CAAACCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
15980049 GT
131 GT
*
15980051 AGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
15980116 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAAATATTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
15980181 GT
131 GT
*
15980183 AGTGGAGCATATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
15980248 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATT-TCAGATCTTATCTCCCTAAGC
66 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGT-AGATCTTATCTCCCTAAGC
15980312 AGT
130 AGT
15980315 AGTGGAGCAGATCGAAGA
1 AGTGGAGCAGATCGAAGA
15980333 TGGCAGATTT
Statistics
Matches: 514, Mismatches: 31, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
131 1 0.00
132 513 1.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GT
Found at i:15980593 original size:132 final size:132
Alignment explanation
Indices: 15980356--15981013 Score: 1147
Period size: 132 Copynumber: 5.0 Consensus size: 132
15980346 CTCCCTGTAG
*
15980356 TTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGTAG
1 TTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
* *
15980421 TGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGT
66 TGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
15980486 AA
131 AA
*
15980488 TTCTACTTCCCTGGACAACAGCGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
1 TTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
*
15980553 TGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGT
66 TGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
15980618 AA
131 AA
*
15980620 TTCTACTTCCCTGGACAACAGTGGAATAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
1 TTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
* * *
15980685 TGGAGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGGTACAGTAGAGTACATTGAAGCCAGT
66 TGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
15980750 AA
131 AA
15980752 TTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
1 TTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
* *
15980817 TGGAGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGGTACAGTGGAGTACATTGAAGCCAGT
66 TGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
15980882 AA
131 AA
** * *
15980884 TTCTACTTCCCTGGGTAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCAAAGCAGTAG
1 TTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
* * *
15980949 TGGAGTAGATCGAAGATGGTGAATTTTACCT-CCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
66 TGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
15981013 A
131 A
15981014 GTCTTATCTC
Statistics
Matches: 506, Mismatches: 20, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
131 32 0.06
132 474 0.94
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (132 bp):
TTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
AA
Found at i:15981038 original size:44 final size:45
Alignment explanation
Indices: 15981003--15981311 Score: 229
Period size: 44 Copynumber: 7.1 Consensus size: 45
15980993 TGGAGTACAT
*
15981003 TGAAGCCAG-TAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
1 TGAAGCCAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
** *
15981047 T-AAGTAAGCAAGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGAC
1 TGAAGCCAGCAAGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGAC
***
15981091 TGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-
1 TGAAGCCAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * * * *
15981135 TAAAAGCC-G-ATAATCCTATCTCCCTGAAGTTGCAGTGAAGCGGAT
1 T-GAAGCCAGCA-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * *
15981180 TAAAACCTTAG--A-TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-
1 TGAAGCC--AGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * *
15981222 T--CG-CATCTAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGAC
1 TGAAGCCAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* *
15981264 T-AAACAAGCAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGAC
1 TGAAGCCAGCAAGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGAC
15981308 TGAA
1 TGAA
15981312 AATGGCACTA
Statistics
Matches: 212, Mismatches: 33, Indels: 39
0.75 0.12 0.14
Matches are distributed among these distances:
37 1 0.00
39 2 0.01
40 21 0.10
41 6 0.03
42 2 0.01
43 14 0.07
44 121 0.57
45 43 0.20
46 1 0.00
47 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (45 bp):
TGAAGCCAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
Found at i:15981196 original size:133 final size:128
Alignment explanation
Indices: 15981018--15981308 Score: 292
Period size: 128 Copynumber: 2.2 Consensus size: 128
15981008 CCAGTAGTCT
* *
15981018 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGAAGCAGACTAAG-AACCAAGTCTTATCTCT-CTGAAGTTGCAG-
* * * *
15981082 GGGGCAGA-CTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAAGCCGA
63 AGAGCAGATC-G--CAT--CAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAAGCCGA
15981145 TAATCC
123 TAATCC
* * *
15981151 TATCTCCCTGAAGTTGCAGTGAAGCGGATTAA-AACCTTAGATCTTATCTCTCTGAAGTTGCAGA
1 TATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGAACC-AAG-TCTTATCTCTCTGAAGTTGCAGA
* *
15981215 GAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAACAAG-C-A-AGT
64 GAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACT-AA-AAGCCGATAAT
*
15981277 CT
127 CC
*
15981279 TATC-CTCCTGAAGTTGCAGTGAGGCAGACT
1 TATCTC-CCTGAAGTTGCAGTGAAGCAGACT
15981309 GAAAATGGCA
Statistics
Matches: 135, Mismatches: 15, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
127 1 0.01
128 61 0.45
129 2 0.01
130 5 0.04
131 6 0.04
132 9 0.07
133 49 0.36
134 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (128 bp):
TATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGAACCAAGTCTTATCTCTCTGAAGTTGCAGAGA
GCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAAGCCGATAATCC
Found at i:15981224 original size:396 final size:396
Alignment explanation
Indices: 15980358--15981162 Score: 975
Period size: 396 Copynumber: 2.0 Consensus size: 396
15980348 CCCTGTAGTT
* * * *
15980358 CTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGTAGTG
1 CTACTTCCCTGAACAACAGTGGAACAGATTGAAAACTTCAGATCTTATCTCCCTAAGTAGTAGTG
* *
15980423 GAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAA
66 GAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGGTACAGTGGAGTACATTGAAGCCAGTAA
*
15980488 TTCTACTTCCCTGGACAACAGCGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
131 TTCTACTTCCCTGGACAACAGCGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGCAGTAG
* *
15980553 TGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGT
196 TGGAGCAGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
* * ** ** *
15980618 AATTCTACTTCCCTGGACAACAGTGGAATAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
261 AATTCTACTTCCCTGAACAACAGTGGAACAGACTGAAGATAGCAGATCTTATCTCCCTAAGCAGC
* * * ** * **
15980683 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGGTACAGTAGAGTACATTGAAGCCA
326 AGTGGAGCAGATCGAAGATGGCAGATCTTACCTCCCTGAAGGTACAGTAGAGCACATAAAAGCCA
*
15980748 GTAATT
391 GTAATC
* * * * *
15980754 CTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTG
1 CTACTTCCCTGAACAACAGTGGAACAGATTGAAAACTTCAGATCTTATCTCCCTAAGTAGTAGTG
* *
15980819 GAGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGGTACAGTGGAGTACATTGAAGCCAGTAA
66 GAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGGTACAGTGGAGTACATTGAAGCCAGTAA
** * *
15980884 TTCTACTTCCCTGGGTAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCAAAGCAGTAG
131 TTCTACTTCCCTGGACAACAGCGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGCAGTAG
* *
15980949 TGGAGTAGATCGAAGATGGTGAATTTTACCT-CCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
196 TGGAGCAGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
* *** *
15981013 -AGTCTTA-TCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCA-AGTCTTATC-CTCCTG
261 AATTC-TACT-TCCCTGAA-CAACAGTGGAACAGACTGAAGAT-AGCAGA-TCTTATCTC-CCT-
** * * * * * *
15981072 AAGTTGCAGTGGGGCAGA-CTGAAGATGGCA-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
319 AAGCAGCAGTGGAGCAGATC-GAAGATGGCAGA-TCTTACCTCCCTGAAGGTACAGTAGAGCACA
15981135 TAAAAGCC-GATAATC
382 TAAAAGCCAG-TAATC
15981150 CTA-TCTCCCTGAA
1 CTACT-TCCCTGAA
15981163 GTTGCAGTGA
Statistics
Matches: 354, Mismatches: 44, Indels: 22
0.84 0.10 0.05
Matches are distributed among these distances:
394 7 0.02
395 60 0.17
396 287 0.81
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (396 bp):
CTACTTCCCTGAACAACAGTGGAACAGATTGAAAACTTCAGATCTTATCTCCCTAAGTAGTAGTG
GAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGGTACAGTGGAGTACATTGAAGCCAGTAA
TTCTACTTCCCTGGACAACAGCGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGCAGTAG
TGGAGCAGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
AATTCTACTTCCCTGAACAACAGTGGAACAGACTGAAGATAGCAGATCTTATCTCCCTAAGCAGC
AGTGGAGCAGATCGAAGATGGCAGATCTTACCTCCCTGAAGGTACAGTAGAGCACATAAAAGCCA
GTAATC
Found at i:15981280 original size:84 final size:84
Alignment explanation
Indices: 15981013--15981306 Score: 238
Period size: 89 Copynumber: 3.4 Consensus size: 84
15981003 TGAAGCCAGT
* * *
15981013 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-AGTCTTATC-CTCCTGAAGT
1 AGTCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TAAG-CAG-ATAGTCTTATCTC-CCTGAAGT
** **
15981076 TGCAGTGGGGCAGACTGAAGATGGCA
61 TGCAGTGAAGCAGACT-AA-AAAGCA
* * * * *
15981102 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAAGCCGATAATCCTATCTCCCTGAAGTTG
1 AGTCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT--AAGCAGATAGTCTTATCTCCCTGAAGTTG
* * * *
15981167 CAGTGAAGCGGA-TTAAAACCTT
63 CAGTGAAGCAGACTAAAAAGC-A
* **
15981189 AGATCTTATCTCTCTGAAGTTGCAGAGAGCAGAT-CGCATCTAGTCTTATCTCCCTGAAGTTGCA
1 AG-TCTTATCTCTCTGAAGTTGCAGAGAGCAGATAAGCAGATAGTCTTATCTCCCTGAAGTTGCA
15981253 GTGAAGCAGACTAAACAAGCA
65 GTGAAGCAGACTAAA-AAGCA
*
15981274 AGTCTTATC-CTCCTGAAGTTGCAGTGAGGCAGA
1 AGTCTTATCTCT-CTGAAGTTGCAGAGA-GCAGA
15981307 CTGAAAATGG
Statistics
Matches: 170, Mismatches: 25, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
83 2 0.01
84 54 0.32
85 10 0.06
86 5 0.03
87 11 0.06
88 24 0.14
89 60 0.35
90 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (84 bp):
AGTCTTATCTCTCTGAAGTTGCAGAGAGCAGATAAGCAGATAGTCTTATCTCCCTGAAGTTGCAG
TGAAGCAGACTAAAAAGCA
Found at i:15981508 original size:19 final size:19
Alignment explanation
Indices: 15981484--15981594 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
15981474 AATTTTTGAG
*
15981484 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
*
15981503 GATATGCAATCGTAGATAT
1 GATATGCAATCTTAGATAT
15981522 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15981541 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* ** *
15981560 GATGTATAATCTTTGATAT
1 GATATGCAATCTTAGATAT
15981579 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
15981595 AGATATGATT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 81 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:15982755 original size:3 final size:3
Alignment explanation
Indices: 15982749--15982788 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
15982739 GATGATGTAT
*
15982749 TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15982789 AGCATTTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:15983159 original size:98 final size:98
Alignment explanation
Indices: 15983036--15983230 Score: 311
Period size: 98 Copynumber: 2.0 Consensus size: 98
15983026 AAAAATCATG
* * *
15983036 AAGGAAATATTCTGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGCGTGATTTCTT
*
15983101 AAATCTTGGAT-AAGTGGATGTTCTTTTGAAGTA
66 AAATCTTGGATGAA-TGGATGTTCTTTTAAAGTA
* * *
15983134 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAATGTATTGGGCGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGCGTGATTTCTT
15983199 AAATCTTGGATGAATGGATGTTCTTTTAAAGT
66 AAATCTTGGATGAATGGATGTTCTTTTAAAGT
15983231 TTTATTGTAT
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
98 87 0.98
99 2 0.02
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGCGTGATTTCTT
AAATCTTGGATGAATGGATGTTCTTTTAAAGTA
Found at i:15990302 original size:63 final size:63
Alignment explanation
Indices: 15990232--15990350 Score: 213
Period size: 63 Copynumber: 1.9 Consensus size: 63
15990222 CCCTGTGTAC
*
15990232 GAACCCCTATTGCT-AACCCATATGCAAAATCATATAGGATTCATTATGTGAACCCTCTCATAT
1 GAACCCCTATTG-TGAACCCATATGCAAAATCATATAGGATTCATTATGCGAACCCTCTCATAT
15990295 GAACCCCTATTGTGAACCCATATGCAAAATCATATAGGATTCATTATGCGAACCCT
1 GAACCCCTATTGTGAACCCATATGCAAAATCATATAGGATTCATTATGCGAACCCT
15990351 ATCTATTTAA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
62 1 0.02
63 53 0.98
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.29
Consensus pattern (63 bp):
GAACCCCTATTGTGAACCCATATGCAAAATCATATAGGATTCATTATGCGAACCCTCTCATAT
Found at i:15990415 original size:21 final size:21
Alignment explanation
Indices: 15990372--15990415 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
15990362 CATGTGAACC
* *
15990372 CCCTATGTTATCACACGTGAA
1 CCCTAGGTTATCACACGTAAA
* *
15990393 CCCTAGGTTATGACATGTAAA
1 CCCTAGGTTATCACACGTAAA
15990414 CC
1 CC
15990416 TCCTATGTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (21 bp):
CCCTAGGTTATCACACGTAAA
Found at i:15990504 original size:21 final size:21
Alignment explanation
Indices: 15990480--15990531 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 21
15990470 ATTACATGTG
*
15990480 AACCCTATATTGCGACATGCA
1 AACCCTATATTACGACATGCA
* *
15990501 AACCCTATCTGTTACTACATGCA
1 AACCCTA--TATTACGACATGCA
15990524 AACCCTAT
1 AACCCTAT
15990532 TTGTTAATGC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 8 0.31
23 18 0.69
ACGTcount: A:0.33, C:0.31, G:0.10, T:0.27
Consensus pattern (21 bp):
AACCCTATATTACGACATGCA
Found at i:15990524 original size:23 final size:23
Alignment explanation
Indices: 15990494--15990537 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
15990484 CTATATTGCG
15990494 ACATGCAAACCCTATCTGTTACT
1 ACATGCAAACCCTATCTGTTACT
*
15990517 ACATGCAAACCCTATTTGTTA
1 ACATGCAAACCCTATCTGTTA
15990538 ATGCACCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (23 bp):
ACATGCAAACCCTATCTGTTACT
Found at i:15994799 original size:30 final size:30
Alignment explanation
Indices: 15994752--15994808 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15994742 GGGTAACCTC
15994752 AATATAATATCCACTTGTGTGAACAACCCT
1 AATATAATATCCACTTGTGTGAACAACCCT
* *
15994782 AATATACTAT-CAGCTTGTGTGAGCAAC
1 AATATAATATCCA-CTTGTGTGAACAAC
15994809 TTATTACCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (30 bp):
AATATAATATCCACTTGTGTGAACAACCCT
Found at i:15996270 original size:3 final size:3
Alignment explanation
Indices: 15996262--15996296 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
15996252 AATATAAAAT
*
15996262 ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
15996297 GATACAAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:15996297 original size:12 final size:12
Alignment explanation
Indices: 15996262--15996300 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
15996252 AATATAAAAT
*
15996262 ATAATAATAATA
1 ATAATAATAATG
15996274 ATAATAATAATG
1 ATAATAATAATG
15996286 ATAATAATAATG
1 ATAATAATAATG
15996298 ATA
1 ATA
15996301 CAAGATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (12 bp):
ATAATAATAATG
Found at i:15996870 original size:23 final size:22
Alignment explanation
Indices: 15996844--15996944 Score: 67
Period size: 19 Copynumber: 5.0 Consensus size: 22
15996834 AATTAATTTC
15996844 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
15996867 TCTAAGATTGCATATCATA---
1 TCTAAGATTACAAATCATATCT
* *
15996886 TCTAAGCTTACATATCATA---
1 TCTAAGATTACAAATCATATCT
* *
15996905 TCTAAGATTGCATATCATA---
1 TCTAAGATTACAAATCATATCT
*
15996924 TCTAAGATTACATATCATATC
1 TCTAAGATTACAAATCATATC
15996945 AAAGATTGCT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
19 52 0.75
22 7 0.10
23 10 0.14
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.37
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:15996891 original size:19 final size:19
Alignment explanation
Indices: 15996867--15996958 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
15996857 AATCATATCT
15996867 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
15996886 TCTAAGCTTACATATCATA
1 TCTAAGATTGCATATCATA
15996905 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
15996924 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
* *
15996943 TCAAAGATTGCTTATC
1 TCTAAGATTGCATATC
15996959 CTTGAAGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 65 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:15996915 original size:38 final size:38
Alignment explanation
Indices: 15996844--15996958 Score: 158
Period size: 38 Copynumber: 2.9 Consensus size: 38
15996834 AATTAATTTC
*
15996844 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
*
15996886 TCTAAGCTTACATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
15996924 TCTAAGATTACATATCATATCAAAGATTGCTTATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
15996959 CTTGAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
38 51 0.75
41 7 0.10
42 10 0.15
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:15997563 original size:45 final size:45
Alignment explanation
Indices: 15997470--15997973 Score: 236
Period size: 44 Copynumber: 11.6 Consensus size: 45
15997460 TTCTAATCCA
* * * * * * *
15997470 CTCCACTACAACTTTAGGGAGATGAGATTTG-TTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
* * *
15997514 CTCCACTGCAATTTCAGGGGGATAAGACTTGATTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
* * * * *
15997559 CTCCACTGGAACTTCAGGGAGATAAGACTCGCTTTTTTGGGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
* * *
15997604 CTCCACTACAACTTCAGGGAGATAAGACCCGA-TGC--GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
* * * * **
15997645 CT-CTCTGCAACTTCAGAGAGATAAGA-TCTGTAATT-TT-AATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGACTC-G-ATTTCTTGAGTCTG
* * * * * * *
15997688 CTCCACTACAACTTCAGAGAGATAGGA-T-TATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATT-TCTTGAGTCTG
* * *
15997732 CTCCACTGTAACTTCAGGGAGATAAGATTCTCCA--TCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTCGATTTCTTGAGTCTG
* * * * *
15997777 C-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-AGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTCGATTTCTTGAGTCTG
* * * * *
15997821 CTTCACTGCAACTTTAGGGAGATAAGACTAGA-TGC--GA-TATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
* * * * *
15997862 CT---CTACAACTTCAGAGAGATAAGATCTGTGA-TT-TT-AATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-CGATTTCTTGAGTCTG
* * * * *
15997903 CTCCACTGCAACTTCAGGGAGATAGGA-T-TATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATT-TCTTGAGTCTG
15997947 CTCCACTGCAACTTCAGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
15997974 TTCACCATCT
Statistics
Matches: 350, Mismatches: 76, Indels: 68
0.71 0.15 0.14
Matches are distributed among these distances:
38 19 0.05
39 3 0.01
40 27 0.08
41 18 0.05
42 5 0.01
43 12 0.03
44 156 0.45
45 108 0.31
47 1 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
Found at i:15998389 original size:44 final size:44
Alignment explanation
Indices: 15998339--15998439 Score: 143
Period size: 44 Copynumber: 2.3 Consensus size: 44
15998329 ATCTGCTATT
*
15998339 TTCAACCTACTCCACTGTTG-CTCAGGGAGATAGGA-TTCACAATC
1 TTCAACCTACTCCACTGCTGAC-CAGGGAGATAGGACTT-ACAATC
*
15998383 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
1 TTCAACCTACTCCACTGCTGACCAGGGAGATAGGACTTACAATC
*
15998427 TTCAACCTGCTCC
1 TTCAACCTACTCC
15998440 GCTACAACCC
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
44 48 0.94
45 3 0.06
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (44 bp):
TTCAACCTACTCCACTGCTGACCAGGGAGATAGGACTTACAATC
Found at i:15998452 original size:44 final size:44
Alignment explanation
Indices: 15998339--15998455 Score: 114
Period size: 44 Copynumber: 2.7 Consensus size: 44
15998329 ATCTGCTATT
* **
15998339 TTCAACCTACTCCACT-GTTGCTCAGGGAGATAGGATTCACAATC
1 TTCAACCTACTCCACTACTAAC-CAGGGAGATAGGATTCACAATC
* * *
15998383 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTT-ACAATC
1 TTCAACCTACTCCACTACTAACCAGGGAGATAGGA-TTCACAATC
* *
15998427 TTCAACCTGCTCCGCTAC-AACCCAGGGAG
1 TTCAACCTACTCCACTACTAA-CCAGGGAG
15998456 GCAAGGCTAG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
43 1 0.02
44 56 0.92
45 4 0.07
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (44 bp):
TTCAACCTACTCCACTACTAACCAGGGAGATAGGATTCACAATC
Found at i:15998533 original size:88 final size:88
Alignment explanation
Indices: 15998430--15998597 Score: 291
Period size: 88 Copynumber: 1.9 Consensus size: 88
15998420 TACAATCTTC
*
15998430 AACCTGCTCCGCTACAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGGTGCA
1 AACCTGCTCCGCTACAACCCAGGGAAGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGGTGCA
15998495 GGAAGGCAAGATCTGCTATTTTT
66 GGAAGGCAAGATCTGCTATTTTT
* * * *
15998518 AACCTGCTCCGCTACAACCCAGGGAAGCAATGTTAGTGTCTTCGATCTGCTTCGCTGTCTGTGCA
1 AACCTGCTCCGCTACAACCCAGGGAAGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGGTGCA
15998583 GGAAGGCAAGATCTG
66 GGAAGGCAAGATCTG
15998598 TTATCTTCAC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (88 bp):
AACCTGCTCCGCTACAACCCAGGGAAGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGGTGCA
GGAAGGCAAGATCTGCTATTTTT
Found at i:15999952 original size:14 final size:15
Alignment explanation
Indices: 15999929--15999961 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
15999919 ATCGACGCTT
15999929 TTCCAAATAAGG-CC
1 TTCCAAATAAGGTCC
*
15999943 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
15999958 TTCC
1 TTCC
15999962 CAGCTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:16000797 original size:25 final size:26
Alignment explanation
Indices: 16000746--16000806 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
16000736 AAGAATATCC
* **
16000746 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
16000772 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
16000797 AAAATGAATG
1 AAAA-GAATG
16000807 CAAATATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:16005401 original size:87 final size:86
Alignment explanation
Indices: 16005120--16005406 Score: 296
Period size: 87 Copynumber: 3.3 Consensus size: 86
16005110 TTTCAAAGTG
* **
16005120 AATAAAATTTGGTTT-GGGATTTATTACCGGCGTTCAACGGATTTTATTCCAATTTTAATTTTAT
1 AATAAAATTT-GTTTAAGGATTTATT-CCACCGTTCAACGGATTTTATTCC-ATTTTAATTTTAT
*
16005184 TTCCAAAACGAG-TATTAAAATTAA
63 TTCCAAAACGAGAAATTAAAATT-A
* * * * *
16005208 AATAAAATCTAT-TTTGA-GATTTATTTCCATCGTTCAACGGATTTTATTCCTTTTTTATATTAT
1 AATAAAAT-T-TGTTTAAGGATTTA-TTCCACCGTTCAACGGATTTTATTCCATTTTAATTTTAT
* *
16005271 TTCC-AAATGAGAAATTAAAGTTA
63 TTCCAAAACGAGAAATTAAAATTA
* * * * * * *
16005294 AATAAAATTTGTTTAGGGATTTATTCCAACCGTTCAACTGATTTTATTACACTTTGATTTTGTTG
1 AATAAAATTTGTTTAAGGATTTATTCC-ACCGTTCAACGGATTTTATTCCATTTTAATTTTATTT
16005359 CCAAAACGAGAAATTAAAATTA
65 CCAAAACGAGAAATTAAAATTA
*
16005381 AATAAAATTTGTCTAAGGATTTATTC
1 AATAAAATTTGTTTAAGGATTTATTC
16005407 TCGTCATTTA
Statistics
Matches: 166, Mismatches: 24, Indels: 19
0.79 0.11 0.09
Matches are distributed among these distances:
84 1 0.01
85 8 0.05
86 51 0.31
87 63 0.38
88 39 0.23
89 3 0.02
90 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (86 bp):
AATAAAATTTGTTTAAGGATTTATTCCACCGTTCAACGGATTTTATTCCATTTTAATTTTATTTC
CAAAACGAGAAATTAAAATTA
Found at i:16005427 original size:174 final size:169
Alignment explanation
Indices: 16005120--16005514 Score: 368
Period size: 174 Copynumber: 2.3 Consensus size: 169
16005110 TTTCAAAGTG
** * *
16005120 AATAAAATTTGGTTTGGGATTTATTACCGGCGTTCAACGGATTTTATTCCAATTTTAATTTTATT
1 AATAAAATTT-GTTTGGGATTTATT-CCACCGTTCAACGGATTTTATTACAACTTTAATTTTATT
* * * * * **
16005185 TCCAAAACGAGTATTAAAATTAAAATAAAATCTATTTTGAGATTTATTTCCATCGTTCAACGGAT
64 GCCAAAACGAGAATTAAAATTAAAATAAAATCTATTCTAAGATTTATTTCCATC-TTAAAAAGAT
* *
16005250 TTTATTCCTTTTTTATATTATTTCCAAATGAGAAATTAAAGTTA
128 TTTATTCCATTTTAATATTATTTCCAAATGAG-AATTAAA-TTA
* * *
16005294 AATAAAATTTGTTTAGGGATTTATTCCAACCGTTCAACTGATTTTATTAC-ACTTTGATTTTGTT
1 AATAAAATTTGTTT-GGGATTTATTCC-ACCGTTCAACGGATTTTATTACAACTTTAATTTTATT
16005358 GCCAAAACGAGAAATTAAAATT-AAATAAAAT-T-TGTCTAAGGATTTATTCTCGTCAT-TTAAA
64 GCCAAAACGAG-AATTAAAATTAAAATAAAATCTAT-TCTAA-GATTTATT-TC--CATCTTAAA
* * * * *
16005419 AAGATTTTATTCGATTTTAATTTTGTTTCTAAATTAGAATTAAATTA
123 AAGATTTTATTCCATTTTAATATTATTTCCAAATGAGAATTAAATTA
* * * * * *
16005466 AATGAAATCTATTTCGGGATTTATTCTCGCCGTTTAACAAGATTTTATT
1 AATAAAATTTGTTT-GGGATTTATTC-CACCGTTCAAC-GGATTTTATT
16005515 CGATATTGAT
Statistics
Matches: 183, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
171 1 0.01
172 37 0.20
173 61 0.33
174 81 0.44
176 3 0.02
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (169 bp):
AATAAAATTTGTTTGGGATTTATTCCACCGTTCAACGGATTTTATTACAACTTTAATTTTATTGC
CAAAACGAGAATTAAAATTAAAATAAAATCTATTCTAAGATTTATTTCCATCTTAAAAAGATTTT
ATTCCATTTTAATATTATTTCCAAATGAGAATTAAATTA
Found at i:16005585 original size:83 final size:85
Alignment explanation
Indices: 16005397--16005585 Score: 206
Period size: 85 Copynumber: 2.2 Consensus size: 85
16005387 ATTTGTCTAA
* * **
16005397 GGATTTATTCTCG-TCATTTAAAAAGATTTTATTCGATTTTAATTTTGTTTCTAAATTAGAATTA
1 GGATTTATTCTCGCT-ATTTAAAAAGATTTTATTCGATATTAATTTTGTTTCCAAAGAAGAATTA
* *
16005461 AATTAAATGAAATCTATTTCG
65 AATCAAATGAAATATATTTCG
** * * *
16005482 GGATTTATTCTCGCCGTTTAACAAGATTTTATTCGATATTGA-TTTGTTTCCAAACGAAGACTT-
1 GGATTTATTCTCGCTATTTAAAAAGATTTTATTCGATATTAATTTTGTTTCCAAA-GAAGAATTA
* *
16005545 AATCAAAT-AATTATGTTTCG
65 AATCAAATGAAATATATTTCG
*
16005565 GGATTTATTCCCGCTATTTAA
1 GGATTTATTCTCGCTATTTAA
16005586 TAGACTTTAT
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
83 27 0.31
84 18 0.21
85 41 0.48
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (85 bp):
GGATTTATTCTCGCTATTTAAAAAGATTTTATTCGATATTAATTTTGTTTCCAAAGAAGAATTAA
ATCAAATGAAATATATTTCG
Found at i:16013833 original size:30 final size:30
Alignment explanation
Indices: 16013792--16013904 Score: 172
Period size: 30 Copynumber: 3.8 Consensus size: 30
16013782 AAGCCACTCT
*
16013792 TATCCCCACTAACTCCCATTACACCACCCA
1 TATCCCCACTAACTCCCATTAAACCACCCA
* *
16013822 TATCACCACTAACTCCTATTAAACCACCCA
1 TATCCCCACTAACTCCCATTAAACCACCCA
* *
16013852 CATCCCCACTAACTCCCATTAAACCACCTA
1 TATCCCCACTAACTCCCATTAAACCACCCA
*
16013882 TATCCCCACTAACTCCCACTAAA
1 TATCCCCACTAACTCCCATTAAA
16013905 TCTGATTAGT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 74 1.00
ACGTcount: A:0.34, C:0.45, G:0.00, T:0.21
Consensus pattern (30 bp):
TATCCCCACTAACTCCCATTAAACCACCCA
Found at i:16016222 original size:78 final size:78
Alignment explanation
Indices: 16016079--16016231 Score: 198
Period size: 78 Copynumber: 2.0 Consensus size: 78
16016069 GATCTCAAAC
* * * * *
16016079 ATCACTAAATAATGATTTGATGCTGCTCACTCAAGCTGTTGAGATTCCACAACTTGTGTTAGATC
1 ATCACTAAATAATAATTCGATGCTGCTCACTCAAGCTGTCGAGAATCCACAACTTATGTTAGATC
16016144 TCAACCATCGCAA
66 TCAACCATCGCAA
* * * ** * *
16016157 ATCACTAACTAATAATTCGATGTTGTTCACTCAAGCTGTCGAGAATCTGCAATTTATGTTGGATC
1 ATCACTAAATAATAATTCGATGCTGCTCACTCAAGCTGTCGAGAATCCACAACTTATGTTAGATC
16016222 TCAACCATCG
66 TCAACCATCG
16016232 AGTAAATATC
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 63 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (78 bp):
ATCACTAAATAATAATTCGATGCTGCTCACTCAAGCTGTCGAGAATCCACAACTTATGTTAGATC
TCAACCATCGCAA
Found at i:16030095 original size:85 final size:85
Alignment explanation
Indices: 16029950--16030113 Score: 224
Period size: 85 Copynumber: 1.9 Consensus size: 85
16029940 CGCATACTTA
** *
16029950 TGTTGTTGTAGGTATGTCATAGGATCATCTGAAATTAGTTGATGGCCTTGTCTCTAACATTGTCT
1 TGTTGTTGTAGGTATGTCATAGGATCATCTGAAATTAGTTGATAACCTTATCTCTAACATTGTCT
*
16030015 TACTTATAGTGAAATAATTG
66 TACTAATAGTGAAATAATTG
* * *
16030035 TGTTGTTGTAGGTATGTCATAGGATCAT-TCGAAATTAGATT-CTAACTTTATCTCTGACATTGT
1 TGTTGTTGTAGGTATGTCATAGGATCATCT-GAAATTAG-TTGATAACCTTATCTCTAACATTGT
*
16030098 CTTACTAATGGTGAAA
64 CTTACTAATAGTGAAA
16030114 GCGAATCCTA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
84 1 0.01
85 66 0.96
86 2 0.03
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (85 bp):
TGTTGTTGTAGGTATGTCATAGGATCATCTGAAATTAGTTGATAACCTTATCTCTAACATTGTCT
TACTAATAGTGAAATAATTG
Found at i:16031973 original size:16 final size:16
Alignment explanation
Indices: 16031954--16031984 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
16031944 TGGTTTTTCC
16031954 AGTGAAAGGTTGTGAT
1 AGTGAAAGGTTGTGAT
16031970 AGTGAAAGGTTGTGA
1 AGTGAAAGGTTGTGA
16031985 CCTAGTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.39, T:0.29
Consensus pattern (16 bp):
AGTGAAAGGTTGTGAT
Found at i:16034487 original size:22 final size:22
Alignment explanation
Indices: 16034425--16034495 Score: 115
Period size: 22 Copynumber: 3.2 Consensus size: 22
16034415 ATTGTTCAAA
* **
16034425 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
16034447 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
16034469 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
16034491 CATGA
1 CATGA
16034496 TAGGGATTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:16035529 original size:16 final size:17
Alignment explanation
Indices: 16035505--16035537 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16035495 TAGGAAGGGG
16035505 GAAAG-AAAAAAGGGAA
1 GAAAGAAAAAAAGGGAA
*
16035521 GAAATAAAAAAAGGGAA
1 GAAAGAAAAAAAGGGAA
16035538 TTTTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (17 bp):
GAAAGAAAAAAAGGGAA
Found at i:16037533 original size:20 final size:22
Alignment explanation
Indices: 16037502--16037542 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
16037492 TTTTGGTTTG
16037502 TAATGCGAATAA-CAAAATTTC
1 TAATGCGAATAATCAAAATTTC
16037523 TAATG-GAATAATCAAAATTT
1 TAATGCGAATAATCAAAATTT
16037543 TAAGAACGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.32
Consensus pattern (22 bp):
TAATGCGAATAATCAAAATTTC
Found at i:16038593 original size:50 final size:50
Alignment explanation
Indices: 16038519--16038613 Score: 181
Period size: 50 Copynumber: 1.9 Consensus size: 50
16038509 AGTAAGCATT
*
16038519 TTTTTTTATTTTCAAAATGTCGCTCCAACGAGTTTAAAAGAAAATAAGTA
1 TTTTTTTATTTTCAAAATGTCGCTCCAACGAGTTTAAAAAAAAATAAGTA
16038569 TTTTTTTATTTTCAAAATGTCGCTCCAACGAGTTTAAAAAAAAAT
1 TTTTTTTATTTTCAAAATGTCGCTCCAACGAGTTTAAAAAAAAAT
16038614 TTAATGGTGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (50 bp):
TTTTTTTATTTTCAAAATGTCGCTCCAACGAGTTTAAAAAAAAATAAGTA
Found at i:16043399 original size:49 final size:48
Alignment explanation
Indices: 16043346--16043464 Score: 193
Period size: 49 Copynumber: 2.5 Consensus size: 48
16043336 CTTCAGGCAT
16043346 GGCACTTGGTGCCCAGGTGTGTTTCAGAGGGATGTTAGCCTACGGGGTA
1 GGCACTTGGTGCCCAGGTGTGTTTCAGAGGGATGTTAGCCTA-GGGGTA
* *
16043395 GGCACTTGGTGCCCAGGTATGTTTTAGAGGGATGTTAGCCTAGGGGTA
1 GGCACTTGGTGCCCAGGTGTGTTTCAGAGGGATGTTAGCCTAGGGGTA
* *
16043443 GGCACTTAGTGCCTAGGTGTGT
1 GGCACTTGGTGCCCAGGTGTGT
16043465 GCTCGGTTGG
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
48 25 0.38
49 40 0.62
ACGTcount: A:0.17, C:0.17, G:0.38, T:0.29
Consensus pattern (48 bp):
GGCACTTGGTGCCCAGGTGTGTTTCAGAGGGATGTTAGCCTAGGGGTA
Found at i:16044325 original size:21 final size:21
Alignment explanation
Indices: 16044301--16044342 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16044291 GTTTTTGGCA
*
16044301 TGTTTCGAGCTGGTTTAATTT
1 TGTTTCGAGCAGGTTTAATTT
*
16044322 TGTTTTGAGCAGGTTTAATTT
1 TGTTTCGAGCAGGTTTAATTT
16044343 CTGGTAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.07, G:0.24, T:0.52
Consensus pattern (21 bp):
TGTTTCGAGCAGGTTTAATTT
Found at i:16044696 original size:8 final size:9
Alignment explanation
Indices: 16044667--16044699 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
16044657 TGTGACCTCT
16044667 ATTTTCAAA
1 ATTTTCAAA
16044676 ATTTTCAAA
1 ATTTTCAAA
16044685 ATTTTCAAA
1 ATTTTCAAA
*
16044694 TTTTTC
1 ATTTTC
16044700 TATAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (9 bp):
ATTTTCAAA
Found at i:16047196 original size:15 final size:15
Alignment explanation
Indices: 16047176--16047206 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16047166 GTTATGTAAG
16047176 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
16047191 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
16047206 T
1 T
16047207 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:16049626 original size:14 final size:15
Alignment explanation
Indices: 16049601--16049630 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
16049591 GTTATGTAAG
16049601 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
16049616 TGAAA-GTCAAGAGT
1 TGAAAGGTCAAGAGT
16049630 T
1 T
16049631 ATGTTGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:16050279 original size:43 final size:43
Alignment explanation
Indices: 16050228--16050543 Score: 429
Period size: 43 Copynumber: 7.3 Consensus size: 43
16050218 GTTTTTAGAA
*
16050228 ACAAACGCCGCTAAAGACCAAGACCATTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* *
16050271 ACAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCCTTTT-CC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCG-CTTTTCCC
* *
16050314 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGTTTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* *
16050357 ACAAACGCCGCTAAAGACCAAGACCATTAGCGGCGCTTTTCCA
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* * *
16050400 ACAAACGCCGCTAAAGACCAAGACCATTAGCGACGCTTTTCCA
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* * * * *
16050443 ACAAACGCCACTAAAGACAAAAACCTTTAGCGGTGCTTTCCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* * *
16050486 ACAAACACCGCTAAAGACCATA-ACCTTTAGCGGCGCTTCTCGC
1 ACAAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTTTCCC
*
16050529 AAAAACGCCGCTAAA
1 ACAAACGCCGCTAAA
16050544 AACATAACCT
Statistics
Matches: 243, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.02
43 233 0.96
44 6 0.02
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.18
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
Found at i:16050910 original size:43 final size:42
Alignment explanation
Indices: 16050847--16050934 Score: 115
Period size: 43 Copynumber: 2.1 Consensus size: 42
16050837 TATGCAAGGC
* *
16050847 AATAAAACATACAATGCATTT-TCTTAATCAAGTAAATCTTGGT
1 AATAAAACATACAATACATTTAT-TTAATCAAGGAAATCTT-GT
* *
16050890 AATAAAATATATAATACATTTATTTAATCAAGGAAATCTTGT
1 AATAAAACATACAATACATTTATTTAATCAAGGAAATCTTGT
16050932 AAT
1 AAT
16050935 GAACTCAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
42 5 0.12
43 34 0.85
44 1 0.03
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.36
Consensus pattern (42 bp):
AATAAAACATACAATACATTTATTTAATCAAGGAAATCTTGT
Found at i:16054488 original size:15 final size:15
Alignment explanation
Indices: 16054468--16054497 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16054458 ATAATTTAAA
16054468 CTATCTCCTAAACCC
1 CTATCTCCTAAACCC
16054483 CTATCTCCTAAACCC
1 CTATCTCCTAAACCC
16054498 TAAATCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.47, G:0.00, T:0.27
Consensus pattern (15 bp):
CTATCTCCTAAACCC
Found at i:16055009 original size:43 final size:43
Alignment explanation
Indices: 16054957--16055313 Score: 459
Period size: 43 Copynumber: 8.3 Consensus size: 43
16054947 TTTTTTCTAG
16054957 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
* *
16055000 AAACGCCGCTAAAGATCACGACCTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
* *
16055043 AAACGCCGCTAAAGACCACGACCTTTAACGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
* * *
16055086 AAATGTCGCTAAAGACAAAGACCTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
*
16055129 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTAT-TTCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCT-TCTCCCAC
* * * **
16055172 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
* * * *
16055215 AAACGCCGTTATAA-ACCATGACCTTTAGCGGCGCTTTTTCTCAC
1 AAACGCCGCTA-AAGACCAAGACCTTTAGCGGCGC-TTCTCCCAC
* * ** *
16055259 AAACGCCGCTAAAGAACAA-ACCTTTAACGGCGCTTCTAGCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
*
16055301 AAACGGCGCTAAA
1 AAACGCCGCTAAA
16055314 AACATAATCT
Statistics
Matches: 280, Mismatches: 29, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
42 18 0.06
43 239 0.85
44 23 0.08
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
Found at i:16055585 original size:47 final size:47
Alignment explanation
Indices: 16055462--16055559 Score: 196
Period size: 47 Copynumber: 2.1 Consensus size: 47
16055452 CTATGAAAAT
16055462 TTTAACTTTAAAACTAAATATAAAAATTAATGAATTTAGTTTTAGAA
1 TTTAACTTTAAAACTAAATATAAAAATTAATGAATTTAGTTTTAGAA
16055509 TTTAACTTTAAAACTAAATATAAAAATTAATGAATTTAGTTTTAGAA
1 TTTAACTTTAAAACTAAATATAAAAATTAATGAATTTAGTTTTAGAA
16055556 TTTA
1 TTTA
16055560 GGGTTGTAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (47 bp):
TTTAACTTTAAAACTAAATATAAAAATTAATGAATTTAGTTTTAGAA
Found at i:16056788 original size:3 final size:3
Alignment explanation
Indices: 16056780--16056825 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
16056770 TACATCAATA
16056780 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
16056826 GTAGAACGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ACT
Found at i:16059965 original size:7 final size:7
Alignment explanation
Indices: 16059955--16060036 Score: 92
Period size: 7 Copynumber: 11.6 Consensus size: 7
16059945 CCCCAGCCTT
16059955 TAAACCA
1 TAAACCA
16059962 TAAACCA
1 TAAACCA
16059969 TAAACCA
1 TAAACCA
16059976 TAAACCA
1 TAAACCA
*
16059983 TAAACCG
1 TAAACCA
16059990 TAAACCA
1 TAAACCA
*
16059997 TAAACTA
1 TAAACCA
* *
16060004 TAACCCC
1 TAAACCA
16060011 TAAACCCA
1 TAAA-CCA
*
16060019 TAATCCA
1 TAAACCA
* *
16060026 CAAACCT
1 TAAACCA
16060033 TAAA
1 TAAA
16060037 ATGGTAACAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
7 56 0.92
8 5 0.08
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.17
Consensus pattern (7 bp):
TAAACCA
Found at i:16060380 original size:41 final size:40
Alignment explanation
Indices: 16060289--16060696 Score: 564
Period size: 41 Copynumber: 10.0 Consensus size: 40
16060279 GCTAAAAATA
* ** * * *
16060289 GAGCATTCGCGGCGCTTTATCAAAAATGCAGCTAAAAGCACT
1 GAGCATTAGCGGCGC-TTCCCAAAAACGCCGCT-AAAGCCCT
16060331 GAGCATTAGCGGCGCTATCCCAAAAACGCCGCTAAAGCCCT
1 GAGCATTAGCGGCGCT-TCCCAAAAACGCCGCTAAAGCCCT
*
16060372 GAGCATTAGCGGCGCTATCCCAAAAATGCCGCTAAAGCCCT
1 GAGCATTAGCGGCGCT-TCCCAAAAACGCCGCTAAAGCCCT
* * *
16060413 GAGCATTAGCGGCACTTCCCCAAAACCGCCGCTAAAGCCTT
1 GAGCATTAGCGGCGCTT-CCCAAAAACGCCGCTAAAGCCCT
16060454 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCT
1 GAGCATTAGCGGCGC-TTCCCAAAAACGCCGCTAAAGCCCT
* * *
16060495 GAGCATTAGCGACGCTTCCCCAAAACGCCGCTAAAGCACT
1 GAGCATTAGCGGCGCTTCCCAAAAACGCCGCTAAAGCCCT
* * *
16060535 GAGCATTAGCGACGCTTCCCCAAAACGCCGCTAAAGCACT
1 GAGCATTAGCGGCGCTTCCCAAAAACGCCGCTAAAGCCCT
16060575 GAGCATTAGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCCT
1 GAGCATTAGCGGCGCTT-CCCAAAAACGCCGCTAAAGCCCT
*
16060616 GAGCATTAGCGGCACTTACCCAAAAACGCCGCTAAAGCCCT
1 GAGCATTAGCGGCGCTT-CCCAAAAACGCCGCTAAAGCCCT
* *
16060657 GAACATTAGCGACGCTTCCCCAAAAACGCCGCTAAAGCCC
1 GAGCATTAGCGGCGCTT-CCCAAAAACGCCGCTAAAGCCC
16060697 AGAAAGCTCA
Statistics
Matches: 336, Mismatches: 26, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
40 80 0.24
41 228 0.68
42 28 0.08
ACGTcount: A:0.30, C:0.34, G:0.21, T:0.16
Consensus pattern (40 bp):
GAGCATTAGCGGCGCTTCCCAAAAACGCCGCTAAAGCCCT
Found at i:16060599 original size:203 final size:204
Alignment explanation
Indices: 16060323--16060696 Score: 635
Period size: 203 Copynumber: 1.8 Consensus size: 204
16060313 AATGCAGCTA
* *
16060323 AAAGCACTGAGCATTAGCGGCGCTATCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCT
1 AAAGCACTGAGCATTAGCGACGCTATCCCAAAAACGCCGCTAAAGCACTGAGCATTAGCGGCGCT
* * * *
16060388 ATCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCACTTCCCCAAAACCGCCGCTAAAGCCT
66 ATCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTACCCAAAAACGCCGCTAAAGCCC
* * *
16060453 TGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCCCCAA
131 TGAACATTAGCGACGCTTCCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCCCCAA
16060518 AACGCCGCT
196 AACGCCGCT
*
16060527 AAAGCACTGAGCATTAGCGACGCT-TCCCCAAAACGCCGCTAAAGCACTGAGCATTAGCGGCGCT
1 AAAGCACTGAGCATTAGCGACGCTATCCCAAAAACGCCGCTAAAGCACTGAGCATTAGCGGCGCT
16060591 -TCCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTACCCAAAAACGCCGCTAAAGCC
66 AT-CCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTACCCAAAAACGCCGCTAAAGCC
16060655 CTGAACATTAGCGACGCTTCCCCAAAAACGCCGCTAAAGCCC
130 CTGAACATTAGCGACGCTTCCCCAAAAACGCCGCTAAAGCCC
16060697 AGAAAGCTCA
Statistics
Matches: 159, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
202 1 0.01
203 135 0.85
204 23 0.14
ACGTcount: A:0.30, C:0.35, G:0.20, T:0.15
Consensus pattern (204 bp):
AAAGCACTGAGCATTAGCGACGCTATCCCAAAAACGCCGCTAAAGCACTGAGCATTAGCGGCGCT
ATCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTACCCAAAAACGCCGCTAAAGCCC
TGAACATTAGCGACGCTTCCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCCCCAA
AACGCCGCT
Found at i:16060800 original size:39 final size:40
Alignment explanation
Indices: 16060757--16060866 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 40
16060747 CTGGAAAACA
* * **
16060757 CCACTAATGCTTG-TTTTTAGCGGCGTTTTTCTTAAAGCG
1 CCACTAATGCTCGATCTTTAGCGGCGTTTTTCAAAAAGCG
* * ** *
16060796 CCACTAATACTCGATCTTTAGCAGTATTTTCCAAAAAGCG
1 CCACTAATGCTCGATCTTTAGCGGCGTTTTTCAAAAAGCG
*
16060836 CCGCTAATGCTCGATCTTTAGCGGCGTTTTT
1 CCACTAATGCTCGATCTTTAGCGGCGTTTTT
16060867 TATCCAAACG
Statistics
Matches: 55, Mismatches: 15, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
39 11 0.20
40 44 0.80
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (40 bp):
CCACTAATGCTCGATCTTTAGCGGCGTTTTTCAAAAAGCG
Found at i:16061373 original size:41 final size:41
Alignment explanation
Indices: 16061316--16061679 Score: 421
Period size: 41 Copynumber: 8.9 Consensus size: 41
16061306 CAGATAAAAT
16061316 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
* *
16061357 GCATTAGTGGCGCTTTTTCAAAAAAGCCGCTAAAAGTCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
*
16061398 GCATTAGCGACGCTTTTTCAAAAACGCCGCTAAAAG-CATGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTC-TGA
* * * *
16061439 GCATTAGCGCCGCTTCTTCAAAAACGCCGCTAGAAGCCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
* * * *
16061480 GCATTAGCGGTGCTTCTTCAAAAACGCCGCTAAAAGCCTAA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
* * * * **
16061521 ACATTAGCAGCGC-TTTTCTAGAAACGCAGCT-AAAGCTCCAA
1 GCATTAGCGGCGCTTTTTC-AAAAACGCCGCTAAAAG-TCTGA
* *
16061562 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAAGCCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
* * * * *
16061603 ACATTGGCGGCCCTTTTTTAAAAACGCCGCT-AAAGCTCCGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAG-TCTGA
* * *
16061644 GCATTAGCGACGCTTTCTCAAAAATGCCGCTAAAAG
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAG
16061680 CCCCGAAAGG
Statistics
Matches: 273, Mismatches: 42, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
40 13 0.05
41 247 0.90
42 13 0.05
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (41 bp):
GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
Found at i:16061847 original size:40 final size:40
Alignment explanation
Indices: 16061745--16061847 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 40
16061735 AAAAAATGCT
* * *
16061745 GCTAATGCTC-ATTTTTGGCGGCGCTTTCCTGAAAGCGCC
1 GCTAATACTCGATTTTTAGCGGCGCTTTCATGAAAGCGCC
* * * * *
16061784 GCTAATGCTCGGTCTTTAACGGCGCTTT-ATGTAGAGCGCC
1 GCTAATACTCGATTTTTAGCGGCGCTTTCATG-AAAGCGCC
*
16061824 GCTAATACTTGATTTTTAGCGGCG
1 GCTAATACTCGATTTTTAGCGGCG
16061848 TTTTTTGTCC
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
39 12 0.24
40 39 0.76
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.32
Consensus pattern (40 bp):
GCTAATACTCGATTTTTAGCGGCGCTTTCATGAAAGCGCC
Found at i:16073007 original size:27 final size:28
Alignment explanation
Indices: 16072955--16073010 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
16072945 CTCCAAGGGG
*
16072955 ACTTGTGGATACCGCCTTGTCTTTATAT
1 ACTTGTGGATACCACCTTGTCTTTATAT
16072983 ACTTGTGGATA-CACCTTGTCTTTATAT
1 ACTTGTGGATACCACCTTGTCTTTATAT
16073010 A
1 A
16073011 TTTTATTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 16 0.59
28 11 0.41
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.43
Consensus pattern (28 bp):
ACTTGTGGATACCACCTTGTCTTTATAT
Found at i:16075165 original size:27 final size:27
Alignment explanation
Indices: 16075123--16075270 Score: 176
Period size: 27 Copynumber: 5.5 Consensus size: 27
16075113 TGCGATTTGT
16075123 GGGTAAAATGACTGAAATACCCCAGAA
1 GGGTAAAATGACTGAAATACCCCAGAA
*
16075150 GGGTAAAATGATTGAAATACCCTCAG-A
1 GGGTAAAATGACTGAAATACCC-CAGAA
* * **
16075177 GGGTAAAATGGCCGAAATACCCCTTAA
1 GGGTAAAATGACTGAAATACCCCAGAA
* *
16075204 GGGTAAAATGACCGAAATACCTTCA-AA
1 GGGTAAAATGACTGAAATACC-CCAGAA
**
16075231 GGGTAAAATGACTGAAATACCCC-TTA
1 GGGTAAAATGACTGAAATACCCCAGAA
16075257 GGGTAAAATGACTG
1 GGGTAAAATGACTG
16075271 TTATACCACT
Statistics
Matches: 105, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.16
27 84 0.80
28 4 0.04
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.20
Consensus pattern (27 bp):
GGGTAAAATGACTGAAATACCCCAGAA
Found at i:16075194 original size:54 final size:53
Alignment explanation
Indices: 16075123--16075268 Score: 202
Period size: 54 Copynumber: 2.7 Consensus size: 53
16075113 TGCGATTTGT
* ** *
16075123 GGGTAAAATGACTGAAATACCCCAGAAGGGTAAAATGATTGAAATACCCTCAGA
1 GGGTAAAATGACTGAAATACCCC-TAAGGGTAAAATGACCGAAATACCCTCAAA
* * *
16075177 GGGTAAAATGGCCGAAATACCCCTTAAGGGTAAAATGACCGAAATACCTTCAAA
1 GGGTAAAATGACTGAAATACCCC-TAAGGGTAAAATGACCGAAATACCCTCAAA
*
16075231 GGGTAAAATGACTGAAATACCCCTTAGGGTAAAATGAC
1 GGGTAAAATGACTGAAATACCCCTAAGGGTAAAATGAC
16075269 TGTTATACCA
Statistics
Matches: 81, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 14 0.17
54 67 0.83
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (53 bp):
GGGTAAAATGACTGAAATACCCCTAAGGGTAAAATGACCGAAATACCCTCAAA
Found at i:16084378 original size:17 final size:18
Alignment explanation
Indices: 16084344--16084379 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
16084334 AAAATGGCTT
16084344 ATTTTATATTAATTTAAGC
1 ATTTTATATT-ATTTAAGC
16084363 ATTTTATATT-TTTAAGC
1 ATTTTATATTATTTAAGC
16084380 TATGAAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
19 10 0.59
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (18 bp):
ATTTTATATTATTTAAGC
Found at i:16085016 original size:28 final size:28
Alignment explanation
Indices: 16084970--16085065 Score: 149
Period size: 28 Copynumber: 3.4 Consensus size: 28
16084960 GAGCCCTATA
16084970 CAATAACAGT-ACAGTGTGGGCCTTAGCC
1 CAAT-ACAGTAACAGTGTGGGCCTTAGCC
* *
16084998 CAAAATAGTAACAGTGTGGGCCTTAGCC
1 CAATACAGTAACAGTGTGGGCCTTAGCC
*
16085026 CAATACAGTAATAGTGTGGGCCTTAGCC
1 CAATACAGTAACAGTGTGGGCCTTAGCC
16085054 CAATACAGTAAC
1 CAATACAGTAAC
16085066 TAGTACAGTG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 4 0.07
28 57 0.93
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (28 bp):
CAATACAGTAACAGTGTGGGCCTTAGCC
Found at i:16085424 original size:27 final size:26
Alignment explanation
Indices: 16085391--16085639 Score: 284
Period size: 27 Copynumber: 9.3 Consensus size: 26
16085381 GGTTATAACA
16085391 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCT-TGAGGGTATTTCG
* *
16085418 GTTATTTTACCCTTTGGGGGTATTTCG
1 GTCATTTTACCC-TTGAGGGTATTTCG
*
16085445 GTTATTTTACCCTTCG-GGGTATTTCG
1 GTCATTTTACCCTT-GAGGGTATTTCG
* * *
16085471 ATCATTTTACCCTTTGGGGGTATTTTG
1 GTCATTTTACCC-TTGAGGGTATTTCG
* *
16085498 GTCGTTTTACCCTTCGAGGGTATTTTG
1 GTCATTTTACCCTT-GAGGGTATTTCG
* *
16085525 GTCATTTTACCCTTTGAAGGTATTTCA
1 GTCATTTTACCC-TTGAGGGTATTTCG
*
16085552 ATCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTT-GAGGGTATTTCG
* * *
16085579 ATCATTTTACCCTTTAGGGGTATTTTG
1 GTCATTTTACCCTTGA-GGGTATTTCG
16085606 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTT-GAGGGTATTTCG
16085633 GTCATTT
1 GTCATTT
16085640 GCCCATGAAT
Statistics
Matches: 193, Mismatches: 20, Indels: 18
0.84 0.09 0.08
Matches are distributed among these distances:
26 28 0.15
27 161 0.83
28 4 0.02
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (26 bp):
GTCATTTTACCCTTGAGGGTATTTCG
Found at i:16085547 original size:54 final size:54
Alignment explanation
Indices: 16085391--16085639 Score: 342
Period size: 54 Copynumber: 4.6 Consensus size: 54
16085381 GGTTATAACA
* *
16085391 GTCATTTTACCCTAT-GAGGGTATTTCGGTTATTTTACCCTTTGGGGGTATTTCG
1 GTCATTTTACCCT-TCGAGGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCG
* * * *
16085445 GTTATTTTACCCTTCG-GGGTATTTCGATCATTTTACCCTTTGGGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCG
* * * *
16085498 GTCGTTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCTTTGAAGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCG
* * *
16085552 ATCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTT-AGGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGA-GGGTATTTCG
16085606 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTT
1 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTT
16085640 GCCCATGAAT
Statistics
Matches: 171, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
53 50 0.29
54 121 0.71
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (54 bp):
GTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCG
Found at i:16085638 original size:81 final size:80
Alignment explanation
Indices: 16085392--16085639 Score: 329
Period size: 81 Copynumber: 3.1 Consensus size: 80
16085382 GTTATAACAG
* * * *
16085392 TCATTTTACCCTATGAGGGTATTTCGGTTATTTTACCCTTTGGGGGTATTTCGGTTATTTTACCC
1 TCATTTTACCCT-TGAGGGTATTTCGGTCATTTTACCCTTTAGGGGTATTTTGGTCATTTTACCC
16085457 TTCG-GGGTATTTCGA
65 TTCGAGGGTATTTCGA
* * * *
16085472 TCATTTTACCCTTTGGGGGTATTTTGGTCGTTTTACCC-TTCGAGGGTATTTTGGTCATTTTACC
1 TCATTTTACCC-TTGAGGGTATTTCGGTCATTTTACCCTTTAG-GGGTATTTTGGTCATTTTACC
* * *
16085536 CTTTGAAGGTATTTCAA
64 CTTCGAGGGTATTTCGA
*
16085553 TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTTAGGGGTATTTTGGTCATTTTACCC
1 TCATTTTACCCTT-GAGGGTATTTCGGTCATTTTACCCTTTAGGGGTATTTTGGTCATTTTACCC
*
16085618 TTCGAGGGTATTTCGG
65 TTCGAGGGTATTTCGA
16085634 TCATTT
1 TCATTT
16085640 GCCCATGAAT
Statistics
Matches: 144, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.02
80 57 0.40
81 81 0.56
82 3 0.02
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (80 bp):
TCATTTTACCCTTGAGGGTATTTCGGTCATTTTACCCTTTAGGGGTATTTTGGTCATTTTACCCT
TCGAGGGTATTTCGA
Found at i:16087683 original size:16 final size:15
Alignment explanation
Indices: 16087656--16087695 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
16087646 CACTCTTCAA
16087656 TCATCC-CTCATCCC
1 TCATCCTCTCATCCC
*
16087670 TCATTCCTCTCATCTC
1 TCA-TCCTCTCATCCC
16087686 TCATCCTCTC
1 TCATCCTCTC
16087696 TCTCAACTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.12, C:0.50, G:0.00, T:0.38
Consensus pattern (15 bp):
TCATCCTCTCATCCC
Found at i:16090341 original size:50 final size:50
Alignment explanation
Indices: 16090266--16090368 Score: 206
Period size: 50 Copynumber: 2.1 Consensus size: 50
16090256 GGGCAATACT
16090266 AAGAATCCAAGGAATTTGGGTAAAGAACATATCAAGTTAATGGCATTGCG
1 AAGAATCCAAGGAATTTGGGTAAAGAACATATCAAGTTAATGGCATTGCG
16090316 AAGAATCCAAGGAATTTGGGTAAAGAACATATCAAGTTAATGGCATTGCG
1 AAGAATCCAAGGAATTTGGGTAAAGAACATATCAAGTTAATGGCATTGCG
16090366 AAG
1 AAG
16090369 TGGTAAGACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (50 bp):
AAGAATCCAAGGAATTTGGGTAAAGAACATATCAAGTTAATGGCATTGCG
Found at i:16098538 original size:16 final size:15
Alignment explanation
Indices: 16098511--16098550 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
16098501 CACTCTTCAA
16098511 TCATCC-CTCATCCC
1 TCATCCTCTCATCCC
*
16098525 TCATTCCTCTCATCTC
1 TCA-TCCTCTCATCCC
16098541 TCATCCTCTC
1 TCATCCTCTC
16098551 TCTCAACTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.12, C:0.50, G:0.00, T:0.38
Consensus pattern (15 bp):
TCATCCTCTCATCCC
Found at i:16105550 original size:12 final size:13
Alignment explanation
Indices: 16105527--16105555 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
16105517 ACAAAGTTAG
16105527 TTTTAGGTTTTTA
1 TTTTAGGTTTTTA
16105540 TTTTA-GTTTTTA
1 TTTTAGGTTTTTA
16105552 TTTT
1 TTTT
16105556 CTTTCAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (13 bp):
TTTTAGGTTTTTA
Found at i:16107284 original size:26 final size:25
Alignment explanation
Indices: 16107255--16107313 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
16107245 ACACTCATTT
16107255 CATATGCAT-AACACATAAGACACAAG
1 CATATGCATCAAC-CAT-AGACACAAG
*
16107281 CATAT-CATCAACCATAGCCACAAG
1 CATATGCATCAACCATAGACACAAG
16107305 C-TAGTGCAT
1 CATA-TGCAT
16107314 TTAAACATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.07
24 10 0.34
25 9 0.31
26 8 0.28
ACGTcount: A:0.42, C:0.27, G:0.12, T:0.19
Consensus pattern (25 bp):
CATATGCATCAACCATAGACACAAG
Found at i:16122525 original size:29 final size:29
Alignment explanation
Indices: 16122458--16122531 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
16122448 TAAAGTAGAT
*
16122458 GCCTTGGTGGCTGATTTTGTCATATGAGA
1 GCCTTAGTGGCTGATTTTGTCATATGAGA
*
16122487 GCCCTAGTGGCTGATTTTGTCATATGAGA
1 GCCTTAGTGGCTGATTTTGTCATATGAGA
* *
16122516 GCCTTTGTGGTTGATT
1 GCCTTAGTGGCTGATT
16122532 CTATTAAATG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.16, C:0.15, G:0.30, T:0.39
Consensus pattern (29 bp):
GCCTTAGTGGCTGATTTTGTCATATGAGA
Found at i:16124680 original size:18 final size:17
Alignment explanation
Indices: 16124646--16124687 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
16124636 TGATTTACAG
16124646 TCTTTTTTTCTTGGTTT
1 TCTTTTTTTCTTGGTTT
16124663 TCTTTCTTTTCTCT-GTTT
1 TCTTT-TTTTCT-TGGTTT
16124681 T-TTTTTT
1 TCTTTTTT
16124688 CATTTCTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 11 0.48
19 1 0.04
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (17 bp):
TCTTTTTTTCTTGGTTT
Found at i:16124683 original size:20 final size:19
Alignment explanation
Indices: 16124660--16124703 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
16124650 TTTTTCTTGG
*
16124660 TTTTCTTTCTTTTCTCTGTT
1 TTTTCTTTCATTTCTCT-TT
* *
16124680 TTTTTTTTCATTTCTGTTT
1 TTTTCTTTCATTTCTCTTT
16124699 TTTTC
1 TTTTC
16124704 CTTATATGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.77
Consensus pattern (19 bp):
TTTTCTTTCATTTCTCTTT
Found at i:16125311 original size:16 final size:16
Alignment explanation
Indices: 16125281--16125318 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16125271 AATTAATTGG
*
16125281 TTTATT-GTTATTATT
1 TTTATTAGTCATTATT
16125296 TTTATTAGTCATTATT
1 TTTATTAGTCATTATT
*
16125312 ATTATTA
1 TTTATTA
16125319 TTATTAGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (16 bp):
TTTATTAGTCATTATT
Found at i:16125312 original size:3 final size:3
Alignment explanation
Indices: 16125282--16125345 Score: 51
Period size: 3 Copynumber: 21.7 Consensus size: 3
16125272 ATTAATTGGT
* * * * *
16125282 TTA TTG TTA TTA TTT TTA TTA GTCA TTA TTA TTA TTA TTA TTA GTC
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
*
16125328 TTT TTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TT
16125346 TTTCCTCTTA
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
2 4 0.09
3 41 0.87
4 2 0.04
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:16125316 original size:22 final size:21
Alignment explanation
Indices: 16125288--16125345 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
16125278 TGGTTTATTG
16125288 TTATTATTTTTATTAGTCATTA
1 TTATTATTTTTATTAGTC-TTA
* *
16125310 TTATTATTATTATTAGTCTTT
1 TTATTATTTTTATTAGTCTTA
*
16125331 TTATTTTATTTTATT
1 TTATTAT-TTTTATT
16125346 TTTCCTCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 8 0.26
22 23 0.74
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.69
Consensus pattern (21 bp):
TTATTATTTTTATTAGTCTTA
Found at i:16125703 original size:2 final size:2
Alignment explanation
Indices: 16125696--16125726 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16125686 TATTTTGACT
16125696 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16125727 TACTACTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16125912 original size:5 final size:5
Alignment explanation
Indices: 16125902--16125943 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
16125892 CTTCATATTA
16125902 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
16125944 GTAATCAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:16131499 original size:14 final size:14
Alignment explanation
Indices: 16131482--16131526 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
16131472 AAAAAAAAGA
16131482 GGAAAAATGAAAAT
1 GGAAAAATGAAAAT
*
16131496 GG-AAAATGAAAAA
1 GGAAAAATGAAAAT
*
16131509 GGAAAAAGTAAAAAT
1 GGAAAAA-TGAAAAT
16131524 GGA
1 GGA
16131527 GAGGCTAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 12 0.46
14 6 0.23
15 8 0.31
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.11
Consensus pattern (14 bp):
GGAAAAATGAAAAT
Found at i:16132913 original size:88 final size:88
Alignment explanation
Indices: 16132764--16133746 Score: 1310
Period size: 88 Copynumber: 11.2 Consensus size: 88
16132754 AGATCAGTGA
* * * * * *
16132764 AGATCGAAGATACCAGCCTTGCCTCCCTCGATTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTA
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* * *
16132829 CCTTCTTGCGCTGAAAGCGAAGC
66 CCTTCCTGCACTGACAGCGAAGC
* * * * * * *
16132852 AGATCGAAGATACCATCCTTACCTCCCTCGGTTGTAGTGGATCAGGTTAAATATAGCAGATCTTG
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
*
16132917 CCTTCCTGCACTGAGAGCGAAGC
66 CCTTCCTGCACTGACAGCGAAGC
*
16132940 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGACCAGGTTGAAGATAGCAGATCTTG
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
*
16133005 CCTTCCTACA-TCGACAGCGAAGC
66 CCTTCCTGCACT-GACAGCGAAGC
*
16133028 AGATCGAAGACACAAGCCTTGCCTCCCTCAGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* *
16133093 CCTTCCTGTACTGACGGCGAAGC
66 CCTTCCTGCACTGACAGCGAAGC
* * * *
16133116 AGATCGAAGACACAAGCCTTGCCTCCCTCGATTGCAGTGGAGAAGGTTGAAGATAGTAGATCTTG
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* * *
16133181 CCTTCCTACGCTGACAGTGAAGC
66 CCTTCCTGCACTGACAGCGAAGC
* * * * *
16133204 AGATCGAAGATACAAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTAAAGATAACAGATCTTA
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* * * * *
16133269 CCTTCCTGTACTAACGGTGAAGT
66 CCTTCCTGCACTGACAGCGAAGC
* * * *
16133292 AGATCAAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTAGAGCATGTTGAAGATAGTAGATCTTG
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
16133357 CCTTCCTGCA-TCGACAGCGAAGC
66 CCTTCCTGCACT-GACAGCGAAGC
* * * *
16133380 AGATCGAAGACACAAGCCTTGCCTCCCTTGGTTATAGTGGAGCAGGTTGAAGATAGTAGATCTTA
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* * * *
16133445 CCTTCCTGTACTGACGGTGAAAC
66 CCTTCCTGCACTGACAGCGAAGC
* * *
16133468 AGATCAAAGACACAAGCCTTGCCTCTCTCAGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
*
16133533 CCTTCCTGCA-TCGACAGTGAAGC
66 CCTTCCTGCACT-GACAGCGAAGC
*
16133556 AGATTGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
16133621 CCTTCCTGCA-TCGACAGCGAAGC
66 CCTTCCTGCACT-GACAGCGAAGC
* * * * * *
16133644 AGATTGAAAACA-AAGCCTTGCCTCCCTCTGTTGCAGTGGAGCAGGTTAAAGATAACAGATCTTG
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* *
16133708 CCTTCCTGCATTGATAGCGAAGC
66 CCTTCCTGCACTGACAGCGAAGC
*
16133731 AGATCGAAGATACAAG
1 AGATCGAAGACACAAG
16133747 TCCTATCTCC
Statistics
Matches: 791, Mismatches: 97, Indels: 14
0.88 0.11 0.02
Matches are distributed among these distances:
87 80 0.10
88 709 0.90
89 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (88 bp):
AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
CCTTCCTGCACTGACAGCGAAGC
Found at i:16133005 original size:44 final size:43
Alignment explanation
Indices: 16132781--16133710 Score: 242
Period size: 44 Copynumber: 21.2 Consensus size: 43
16132771 AGATACCAGC
* *
16132781 CTTGCCTCCCTCGATTGCAGTGGAGTAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCG-TTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * * * *
16132825 CTTACCTTCTTGCGCTGAAAGCGAAGCAGATCGAAGATA-C-CAT
1 CTTGCCTCCCT-CGTTG-TAGTGGAGCAGGTTGAAGATAGCAGAT
* * * *
16132868 CCTTACCTCCCTCGGTTGTAGTGGATCAGGTTAAATATAGCAGAT
1 -CTTGCCTCCCTC-GTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* ** * * * * *
16132913 CTTGCCTTCCTGCACTG-AGAGCGAAGCAGATCGAAGACA-CA-AGC
1 CTTGCCTCCCT-CGTTGTAGTG-G-AGCAGGTTGAAGATAGCAGA-T
*
16132957 CTTGCCTCCCTCGGTTGTAGTGGACCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTC-GTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * * * *
16133001 CTTGCCTTCCTACATCGACAGCGAAGCAGATCGAAGACA-CA-AGC
1 CTTGCCTCCCT-CGTTG-TAGTGGAGCAGGTTGAAGATAGCAGA-T
16133045 CTTGCCTCCCTCAGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTC-GTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * *
16133089 CTTGCCTTCCT-GTACTG-ACG-GCGAAGCAGATCGAAGACA-CA-AGC
1 CTTGCCTCCCTCGT--TGTA-GTG-G-AGCAGGTTGAAGATAGCAGA-T
* * *
16133133 CTTGCCTCCCTCGATTGCAGTGGAGAAGGTTGAAGATAGTAGAT
1 CTTGCCTCCCTCG-TTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * *
16133177 CTTGCCTTCCTACGCTGACAGTGAAGCAGATCGAAGATA-CA-AGC
1 CTTGCCTCCCT-CGTTG-TAGTGGAGCAGGTTGAAGATAGCAGA-T
* * *
16133221 CTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTAAAGATAACAGAT
1 CTTGCCTCCCTC-GTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * ** * * * ** * *
16133265 CTTACCTTCCT-GTACTAACGGTGAAGTAGATCAAAGACA-CA-AGC
1 CTTGCCTCCCTCGTTGT-A--GTGGAGCAGGTTGAAGATAGCAGA-T
* * *
16133309 CTTGCCTCCCTCGGTTGTAGTAGAGCATGTTGAAGATAGTAGAT
1 CTTGCCTCCCTC-GTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * * * *
16133353 CTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACA-CA-AGC
1 CTTGCCTCCCT-CGTTG-TAGTGGAGCAGGTTGAAGATAGCAGA-T
* * *
16133397 CTTGCCTCCCTTGGTTATAGTGGAGCAGGTTGAAGATAGTAGAT
1 CTTGCCTCCC-TCGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * ** * *
16133441 CTTACCTTCCT-GTACTG-ACGGTGAAACAGATCAAAGACA-CA-AGC
1 CTTGCCTCCCTCGT--TGTA--GTGGAGCAGGTTGAAGATAGCAGA-T
*
16133485 CTTGCCTCTCTCAGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTC-GTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * *
16133529 CTTGCCTTCCTGCATCGACAGTGAAGCAGATTGAAGACA-CA-AGC
1 CTTGCCTCCCT-CGTTG-TAGTGGAGCAGGTTGAAGATAGCAGA-T
16133573 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTC-GTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * * *
16133617 CTTGCCTTCCTGCATCGACAGCGAAGCAGATTGAA-A-A-CAAAGC
1 CTTGCCTCCCT-CGTTG-TAGTGGAGCAGGTTGAAGATAGCAGA-T
* * *
16133660 CTTGCCTCCCTCTGTTGCAGTGGAGCAGGTTAAAGATAACAGAT
1 CTTGCCTCCCTC-GTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
16133704 CTTGCCT
1 CTTGCCT
16133711 TCCTGCATTG
Statistics
Matches: 612, Mismatches: 199, Indels: 150
0.64 0.21 0.16
Matches are distributed among these distances:
42 23 0.04
43 160 0.26
44 255 0.42
45 168 0.27
46 6 0.01
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (43 bp):
CTTGCCTCCCTCGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
Found at i:16134734 original size:18 final size:17
Alignment explanation
Indices: 16134706--16134747 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
16134696 TGATTTACAG
*
16134706 TCTTTTTTTCTTTGTTT
1 TCTTTTTTTCTCTGTTT
16134723 TCTTTCTTTTCTCTGTTT
1 TCTTT-TTTTCTCTGTTT
16134741 T-TTTTTT
1 TCTTTTTT
16134748 CATTTATGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (17 bp):
TCTTTTTTTCTCTGTTT
Found at i:16135357 original size:9 final size:9
Alignment explanation
Indices: 16135339--16135408 Score: 54
Period size: 9 Copynumber: 7.8 Consensus size: 9
16135329 ATTAATTGGT
*
16135339 TTATTGTTA
1 TTATTTTTA
16135348 TTATTTTTA
1 TTATTTTTA
**
16135357 TTAGTCATTA
1 TTA-TTTTTA
*
16135367 TTATTATTA
1 TTATTTTTA
*
16135376 TTATTATTA
1 TTATTTTTA
*
16135385 TTAGTCTTT-
1 TTA-TTTTTA
16135394 TTATTTTT-
1 TTATTTTTA
16135402 TTATTTT
1 TTATTTT
16135409 ATTTTTCCTC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
8 11 0.21
9 31 0.60
10 10 0.19
ACGTcount: A:0.23, C:0.03, G:0.04, T:0.70
Consensus pattern (9 bp):
TTATTTTTA
Found at i:16135368 original size:16 final size:16
Alignment explanation
Indices: 16135338--16135375 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16135328 AATTAATTGG
*
16135338 TTTATT-GTTATTATT
1 TTTATTAGTCATTATT
16135353 TTTATTAGTCATTATT
1 TTTATTAGTCATTATT
*
16135369 ATTATTA
1 TTTATTA
16135376 TTATTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (16 bp):
TTTATTAGTCATTATT
Found at i:16135369 original size:3 final size:3
Alignment explanation
Indices: 16135339--16135387 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
16135329 ATTAATTGGT
* * *
16135339 TTA TTG TTA TTA TTT TTA TTA GTCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
16135385 TTA
1 TTA
16135388 GTCTTTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 37 0.95
4 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:16166178 original size:232 final size:232
Alignment explanation
Indices: 16165772--16166234 Score: 836
Period size: 232 Copynumber: 2.0 Consensus size: 232
16165762 CAGGGGGTAG
*
16165772 GGGTTGAGCCAATGTGATAGCATCGAAAATACACAGCATGACACTTCACCATATACCATATTTTT
1 GGGTTGAGCCAATGTGATAGCATCGAAAATACACAACATGACACTTCACCATATACCATATTTTT
16165837 GTTAAAAGGGGTTTATGCTTTTGGGGGCTATTTTCTTTATTTTATTTTGGATTACCATGACTATC
66 GTTAAAAGGGGTTTATGCTTTTGGGGGCTATTTTCTTTATTTTATTTTGGATTACCATGACTATC
* *
16165902 TTTAACTTATGTGTTGTTTTATAATCTTAAAAATTAAATGCTGAAAACTAACTACTAAAGAGATA
131 TTTAACTTATGTGTTGTTTTATAATCTTAAAAATTAAATGCTGAAAACTAAATACTAAAGAGACA
** *
16165967 ATTACTGAATTTGAATTATCAACATTGTTTAGTATAA
196 AGCACTGAATTTAAATTATCAACATTGTTTAGTATAA
*
16166004 GGGTTGAGCCAATGTGATTGCATCGAAAATACACAACATGACACTTCACCATATACCATATTTTT
1 GGGTTGAGCCAATGTGATAGCATCGAAAATACACAACATGACACTTCACCATATACCATATTTTT
16166069 GTTAAAAGGGGTTTATGCTTTTGGGGGCTATTTTCTTTATTTTATTTTGGATTACCATGACTATC
66 GTTAAAAGGGGTTTATGCTTTTGGGGGCTATTTTCTTTATTTTATTTTGGATTACCATGACTATC
* * *
16166134 TTTAACTTTTGTGTTGTTTTATAATCTTAAAAATTAAATGCTGAAAACTAAATACTAAATATACA
131 TTTAACTTATGTGTTGTTTTATAATCTTAAAAATTAAATGCTGAAAACTAAATACTAAAGAGACA
16166199 AGCACTGAATTTAAATTATCAACATTGTTTAGTATA
196 AGCACTGAATTTAAATTATCAACATTGTTTAGTATA
16166235 TTACTAAAAC
Statistics
Matches: 221, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
232 221 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (232 bp):
GGGTTGAGCCAATGTGATAGCATCGAAAATACACAACATGACACTTCACCATATACCATATTTTT
GTTAAAAGGGGTTTATGCTTTTGGGGGCTATTTTCTTTATTTTATTTTGGATTACCATGACTATC
TTTAACTTATGTGTTGTTTTATAATCTTAAAAATTAAATGCTGAAAACTAAATACTAAAGAGACA
AGCACTGAATTTAAATTATCAACATTGTTTAGTATAA
Found at i:16170276 original size:1 final size:1
Alignment explanation
Indices: 16170270--16170299 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
16170260 CAAAGTTCCC
16170270 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16170300 GAGTTTGCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:16174345 original size:16 final size:17
Alignment explanation
Indices: 16174324--16174356 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16174314 TTGGCCTCGG
16174324 GGCAAAA-AATTAATTT
1 GGCAAAATAATTAATTT
*
16174340 GGCAAAATCATTAATTT
1 GGCAAAATAATTAATTT
16174357 ATTTTGGCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (17 bp):
GGCAAAATAATTAATTT
Found at i:16177315 original size:17 final size:17
Alignment explanation
Indices: 16177280--16177329 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
16177270 AATTGTAATA
** *
16177280 TAAATTTTTAAAATATT
1 TAAATTTTTAATTTTTT
16177297 TAAATTTTTAATTTTTT
1 TAAATTTTTAATTTTTT
*
16177314 TAATTTTTTATATTTT
1 TAAATTTTTA-ATTTT
16177330 ATATAATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 23 0.82
18 5 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TAAATTTTTAATTTTTT
Found at i:16177329 original size:16 final size:16
Alignment explanation
Indices: 16177282--16177329 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
16177272 TTGTAATATA
* *
16177282 AATTTTTAAAATATTTA
1 AATTTTTAATAT-TTTT
*
16177299 AATTTTTAATTTTTTT
1 AATTTTTAATATTTTT
*
16177315 AATTTTTTATATTTT
1 AATTTTTAATATTTT
16177330 ATATAATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 16 0.62
17 10 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
AATTTTTAATATTTTT
Found at i:16184649 original size:54 final size:54
Alignment explanation
Indices: 16184504--16184632 Score: 213
Period size: 54 Copynumber: 2.4 Consensus size: 54
16184494 ATCGTGACCT
*
16184504 CTTATGAGATTTTCAAAATCTCGCGGTTTGTCGATTTTTGATCACAACCTCCTA
1 CTTATGAGATTTTCAAAATCTCGCGGTTTGTCGATTTATGATCACAACCTCCTA
* *
16184558 CTTATGAGATTTTCAGAATCTCGCGGTTTGTCGATTTATGATCACAACCTTCTA
1 CTTATGAGATTTTCAAAATCTCGCGGTTTGTCGATTTATGATCACAACCTCCTA
* *
16184612 CTTATGAAATTTTTAAAATCT
1 CTTATGAGATTTTCAAAATCT
16184633 TTCAGTTTGC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (54 bp):
CTTATGAGATTTTCAAAATCTCGCGGTTTGTCGATTTATGATCACAACCTCCTA
Found at i:16184660 original size:54 final size:54
Alignment explanation
Indices: 16184504--16184661 Score: 163
Period size: 54 Copynumber: 2.9 Consensus size: 54
16184494 ATCGTGACCT
* * * ***
16184504 CTTATGAGATTTTCAAAATCTCGCGGTTTGTCGATTTTTGATCACAACCTCCTA
1 CTTATGAAATTTTCAAAATCTCGCAGTTTGCCGATTTACAATCACAACCTCCTA
* * * * ** *
16184558 CTTATGAGATTTTCAGAATCTCGCGGTTTGTCGATTTATGATCACAACCTTCTA
1 CTTATGAAATTTTCAAAATCTCGCAGTTTGCCGATTTACAATCACAACCTCCTA
* ** *
16184612 CTTATGAAATTTTTAAAATCTTTCAGTTTGCCGATTTACAATCGCAACCT
1 CTTATGAAATTTTCAAAATCTCGCAGTTTGCCGATTTACAATCACAACCT
16184662 ACTGCTTACA
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (54 bp):
CTTATGAAATTTTCAAAATCTCGCAGTTTGCCGATTTACAATCACAACCTCCTA
Found at i:16185105 original size:24 final size:24
Alignment explanation
Indices: 16185076--16185122 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
16185066 TAAATTTTTT
*
16185076 TGCATAGCTAGTATAATTTTCTAA
1 TGCATAGCTAGCATAATTTTCTAA
* *
16185100 TGCATAGTTCGCATAATTTTCTA
1 TGCATAGCTAGCATAATTTTCTA
16185123 CTACTAGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (24 bp):
TGCATAGCTAGCATAATTTTCTAA
Found at i:16186272 original size:125 final size:125
Alignment explanation
Indices: 16185935--16186252 Score: 564
Period size: 125 Copynumber: 2.5 Consensus size: 125
16185925 CGTGTCTAGT
* *
16185935 CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
* *
16186000 TGGACACGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTCTGGTTTTTCTGAG
66 TGGACACGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTCTGATGTTTCTGAG
*
16186060 CAAATAGTATAAAATCGTTTCTATGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
* *
16186125 TGAACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTCTGATGTTTCTGAG
66 TGGACACGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTCTGATGTTTCTGAG
*
16186185 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGTGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
16186250 TGG
66 TGG
16186253 GCACAAATTA
Statistics
Matches: 183, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 183 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (125 bp):
CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
TGGACACGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTCTGATGTTTCTGAG
Found at i:16189394 original size:10 final size:10
Alignment explanation
Indices: 16189379--16189403 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16189369 CAGATCTAAC
16189379 ATTATGTAAA
1 ATTATGTAAA
16189389 ATTATGTAAA
1 ATTATGTAAA
16189399 ATTAT
1 ATTAT
16189404 TAAGCTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:16189528 original size:56 final size:57
Alignment explanation
Indices: 16189386--16189529 Score: 152
Period size: 56 Copynumber: 2.5 Consensus size: 57
16189376 AACATTATGT
* * * *
16189386 AAAATTATGTAAAATTATTAAGCTAAAAAACTTTTCTTAATGGTTAGTAAAATTTATC
1 AAAA-TATGTAAAATTATTAAGCCAAAAAAATTGTCTTAATGGTTAGTAAAATGTATC
* * * * *
16189444 -AAATAATCTCAAATTATTAAGTCC--AAAAATTGTGTTAATGGTTATTAAAGTGT-TC
1 AAAAT-ATGTAAAATTATTAAG-CCAAAAAAATTGTCTTAATGGTTAGTAAAATGTATC
16189499 AAAATATGTAAAATTATTAAGCCAAAAAAAT
1 AAAATATGTAAAATTATTAAGCCAAAAAAAT
16189530 ATGTAAAATT
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
54 2 0.03
55 16 0.23
56 34 0.49
57 17 0.24
58 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.36
Consensus pattern (57 bp):
AAAATATGTAAAATTATTAAGCCAAAAAAATTGTCTTAATGGTTAGTAAAATGTATC
Found at i:16189532 original size:26 final size:26
Alignment explanation
Indices: 16189499--16189555 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
16189489 TAAAGTGTTC
16189499 AAAATATGTAAAATTATTAAGCCAAA
1 AAAATATGTAAAATTATTAAGCCAAA
16189525 AAAATATGTAAAATTATTAAGCCAAA
1 AAAATATGTAAAATTATTAAGCCAAA
16189551 AAAAT
1 AAAAT
16189556 TTAGGTTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (26 bp):
AAAATATGTAAAATTATTAAGCCAAA
Found at i:16189611 original size:29 final size:29
Alignment explanation
Indices: 16189553--16189816 Score: 376
Period size: 29 Copynumber: 9.3 Consensus size: 29
16189543 AAGCCAAAAA
16189553 AATTTAGGTTA-GTTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
16189581 AATTTAGGTTAGGGTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
16189610 AATTTAGGTTAGCTTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
16189639 AATTTAGGTTA-GATTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
16189667 AATTTATGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
16189696 AATTTAGGTTA-GATTAGGGTTTTAAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
16189724 AATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* * *
16189753 AATTTAGATTA-GATT-GGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
16189780 AATTTAGGTTAGGTTTAGGGTTTTTAATC
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
16189809 AAATTAGG
1 AATTTAGG
16189817 GTTTTTATTT
Statistics
Matches: 207, Mismatches: 24, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
27 21 0.10
28 67 0.32
29 119 0.57
ACGTcount: A:0.26, C:0.01, G:0.23, T:0.50
Consensus pattern (29 bp):
AATTTAGGTTAGGTTTAGGGTTTTTAATT
Done.