Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 46 of 204
Found at i:15434684 original size:23 final size:24
Alignment explanation
Indices: 15434653--15434727 Score: 89
Period size: 25 Copynumber: 3.1 Consensus size: 24
15434643 CGCTTGAACT
* **
15434653 TTCCGATTACA-GCTCTTATGAGC
1 TTCCCATTACACGCTCACATGAGC
15434676 TTCCCATTACACGGCTCACATGAGC
1 TTCCCATTACAC-GCTCACATGAGC
*
15434701 TTCCCATTACATGGCTCACATGAGC
1 TTCCCATTACA-CGCTCACATGAGC
15434726 TT
1 TT
15434728 TCCGTGATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.22
25 35 0.78
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.31
Consensus pattern (24 bp):
TTCCCATTACACGCTCACATGAGC
Found at i:15434698 original size:25 final size:25
Alignment explanation
Indices: 15434670--15434727 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
15434660 TACAGCTCTT
15434670 ATGAGCTTCCCATTACACGGCTCAC
1 ATGAGCTTCCCATTACACGGCTCAC
*
15434695 ATGAGCTTCCCATTACATGGCTCAC
1 ATGAGCTTCCCATTACACGGCTCAC
15434720 ATGAGCTT
1 ATGAGCTT
15434728 TCCGTGATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (25 bp):
ATGAGCTTCCCATTACACGGCTCAC
Found at i:15434739 original size:25 final size:25
Alignment explanation
Indices: 15434670--15434741 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
15434660 TACAGCTCTT
* *
15434670 ATGAGCTTCCCATTACACGGCTCAC
1 ATGAGCTTCCCATGACATGGCTCAC
*
15434695 ATGAGCTTCCCATTACATGGCTCAC
1 ATGAGCTTCCCATGACATGGCTCAC
* * *
15434720 ATGAGCTTTCCGTGATATGGCT
1 ATGAGCTTCCCATGACATGGCT
15434742 TGAGAGAGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (25 bp):
ATGAGCTTCCCATGACATGGCTCAC
Found at i:15434740 original size:99 final size:99
Alignment explanation
Indices: 15434563--15434741 Score: 211
Period size: 99 Copynumber: 1.8 Consensus size: 99
15434553 GGACACACCG
* * * * *
15434563 CAGCTCTTATGAGCGTCCCGCTATATGGCTCTACGGAGCTTCCCAATTAATGGCTCTCCGGAGCT
1 CAGCTCTTATGAGCGTCCCACTACACGGCTCTACGGAGCTTCCCAATTAATGGCTCACAGGAGCT
*
15434628 TCCCGATTAATGGCTCGCTTGAACTTTCCGATTA
66 TCCCGATGAATGGCTCGCTTGAACTTTCCGATTA
* * * *
15434662 CAGCTCTTATGAGCTTCCCATTACACGGCTC-ACATGAGCTTCCC-ATTACATGGCTCACATGAG
1 CAGCTCTTATGAGCGTCCCACTACACGGCTCTAC-GGAGCTTCCCAATTA-ATGGCTCACAGGAG
*
15434725 CTTTCCG-TGATATGGCT
64 CTTCCCGATGA-ATGGCT
15434742 TGAGAGAGAG
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
98 8 0.12
99 58 0.88
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (99 bp):
CAGCTCTTATGAGCGTCCCACTACACGGCTCTACGGAGCTTCCCAATTAATGGCTCACAGGAGCT
TCCCGATGAATGGCTCGCTTGAACTTTCCGATTA
Found at i:15438597 original size:130 final size:130
Alignment explanation
Indices: 15438456--15438718 Score: 454
Period size: 130 Copynumber: 2.0 Consensus size: 130
15438446 TAAAATATTA
* * *
15438456 TTATTTTATAAAATAAATTATATTATTTTGAGAGTGTTATATTTTTTAAGCAAAAAATATAAAAA
1 TTATTTTATAAAATAAATTATATTATTTTGAGAGTGTTATAATTTTTAAACAAAAAATAAAAAAA
* * *
15438521 TAATAAGATTTAAATTTAAAACACCGTATTTTGATGATTTGTACTTTACCATTTCAACTAGATTC
66 TAATAAGATTTAAATTTAAAACACCGTATTTTGAAGATATGTACCTTACCATTTCAACTAGATTC
15438586 TTATTTTATAAAATAAATTATATTATTTTGAGAGTGTTATAATTTTTAAACAAAAAATAAAAAAA
1 TTATTTTATAAAATAAATTATATTATTTTGAGAGTGTTATAATTTTTAAACAAAAAATAAAAAAA
* *
15438651 TAATAAGATTTAAATTTAAAACACTGTATTTTGAAGATATGTACCTTACCCTTTCAACTAGATTC
66 TAATAAGATTTAAATTTAAAACACCGTATTTTGAAGATATGTACCTTACCATTTCAACTAGATTC
15438716 TTA
1 TTA
15438719 CTTATTTTTA
Statistics
Matches: 125, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 125 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (130 bp):
TTATTTTATAAAATAAATTATATTATTTTGAGAGTGTTATAATTTTTAAACAAAAAATAAAAAAA
TAATAAGATTTAAATTTAAAACACCGTATTTTGAAGATATGTACCTTACCATTTCAACTAGATTC
Found at i:15457818 original size:22 final size:22
Alignment explanation
Indices: 15457793--15457844 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
15457783 AAATAATAGC
15457793 ATATTAGA-AATTATATAATCTT
1 ATATTA-ATAATTATATAATCTT
* *
15457815 ATATTAATATTTATATAATTTT
1 ATATTAATAATTATATAATCTT
15457837 A-ATTAATA
1 ATATTAATA
15457845 TTTGAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
ATATTAATAATTATATAATCTT
Found at i:15457853 original size:21 final size:22
Alignment explanation
Indices: 15457803--15457847 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
15457793 ATATTAGAAA
15457803 TTATATAATCTTATATTAATAT
1 TTATATAATCTTATATTAATAT
*
15457825 TTATATAATTTTA-ATTAATAT
1 TTATATAATCTTATATTAATAT
15457846 TT
1 TT
15457848 GAATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATATAATCTTATATTAATAT
Found at i:15460537 original size:182 final size:183
Alignment explanation
Indices: 15460221--15460591 Score: 726
Period size: 182 Copynumber: 2.0 Consensus size: 183
15460211 AAAATCTTTT
15460221 GATATAATTACCTATAGAATTATTGTCCGACAGATTGAAAATATTGATAACAACATCGAAAAAGA
1 GATATAATTACCTATAGAATTATTGTCCGACAGATTGAAAATATTGATAACAACATCGAAAAAGA
15460286 TAAAAGTTAACTTAATTAACTTCCACAAAACATTAATTAATAATAACCACGGTACCATTAAAGTA
66 TAAAAGTTAACTTAATTAACTTCCACAAAACATTAATTAATAATAACCACGGTACCATTAAAGTA
15460351 ACTAATTTTCTTCAGAAAATACAATTTTCCATTGTTATGGTGGTAATTAAAAA
131 ACTAATTTTCTTCAGAAAATACAATTTTCCATTGTTATGGTGGTAATTAAAAA
*
15460404 GATATAATTACCTATAGAATTATTGTCCGACAGATTGAAAATATTGATAACAACATTGAAAAAGA
1 GATATAATTACCTATAGAATTATTGTCCGACAGATTGAAAATATTGATAACAACATCGAAAAAGA
15460469 T-AAAGTTAACTTAATTAACTTCCACAAAACATTAATTAATAATAACCACGGTACCATTAAAGTA
66 TAAAAGTTAACTTAATTAACTTCCACAAAACATTAATTAATAATAACCACGGTACCATTAAAGTA
15460533 ACTAATTTTCTTCAGAAAATACAATTTTCCATTGTTATGGTGGTAATTAAAAA
131 ACTAATTTTCTTCAGAAAATACAATTTTCCATTGTTATGGTGGTAATTAAAAA
15460586 GATATA
1 GATATA
15460592 GGGTTAGGTA
Statistics
Matches: 187, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
182 122 0.65
183 65 0.35
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (183 bp):
GATATAATTACCTATAGAATTATTGTCCGACAGATTGAAAATATTGATAACAACATCGAAAAAGA
TAAAAGTTAACTTAATTAACTTCCACAAAACATTAATTAATAATAACCACGGTACCATTAAAGTA
ACTAATTTTCTTCAGAAAATACAATTTTCCATTGTTATGGTGGTAATTAAAAA
Found at i:15462816 original size:3 final size:3
Alignment explanation
Indices: 15462803--15462883 Score: 60
Period size: 3 Copynumber: 26.3 Consensus size: 3
15462793 TTTAGTCCTG
* *
15462803 TTA TT- TTA TTA TTA TTA TTA -AA TTAA TTA GCTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA -TTA TTA TTA TTA TTA
* *
15462847 ATA CTA TTA TTA TTA TTA TTA TTGCA TTTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TT--A -TTA TTA TTA T
15462884 GATCATTTAC
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
2 5 0.08
3 50 0.78
4 6 0.09
5 1 0.02
6 2 0.03
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:15462878 original size:24 final size:23
Alignment explanation
Indices: 15462803--15462883 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 23
15462793 TTTAGTCCTG
15462803 TTATT-TTATTATTATTATTAAAT
1 TTATTATTATTATTATTATT-AAT
* *
15462826 TAATTAGCTA-TATTATTATTAAT
1 TTATTA-TTATTATTATTATTAAT
* *
15462849 ACTATTATTATTATTATTATTGCAT
1 -TTATTATTATTATTATTATT-AAT
15462874 TTATTATTAT
1 TTATTATTAT
15462884 GATCATTTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
23 9 0.20
24 33 0.72
25 4 0.09
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (23 bp):
TTATTATTATTATTATTATTAAT
Found at i:15467351 original size:46 final size:46
Alignment explanation
Indices: 15467291--15467380 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
15467281 TGAGCTCAAA
15467291 AAAATCAAAATCAAAATAAAAAACAAAAAGAAGA-AAAAGAAAAATT
1 AAAATCAAAATCAAAATAAAAAACAAAAA-AAGAGAAAAGAAAAATT
** * ** *
15467337 AAAATCAAGGTCAAAATGAAAATGAAAAAAAGAGAGAAGAAAAA
1 AAAATCAAAATCAAAATAAAAAACAAAAAAAGAGAAAAGAAAAA
15467381 GAAGAGAGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
45 4 0.11
46 33 0.89
ACGTcount: A:0.72, C:0.06, G:0.12, T:0.10
Consensus pattern (46 bp):
AAAATCAAAATCAAAATAAAAAACAAAAAAAGAGAAAAGAAAAATT
Found at i:15469941 original size:128 final size:128
Alignment explanation
Indices: 15469561--15469922 Score: 559
Period size: 127 Copynumber: 2.8 Consensus size: 128
15469551 CTCCCTGACT
*
15469561 AGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATAGAA-
1 AGCAGTGGAATAGGTT-GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAG
*
15469625 AGCGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTC
65 A-CGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTC
* * * *
15469690 AGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTTCCTAAGCAAT-TCGGAGCAGATCAAAGA
1 AGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGA
* *
15469754 TGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGGTC
66 CGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTC
* * * *
15469817 AGTAGTGGAATAGGTTGGAAATTACAAATATTGTCTCCCTAAACAGTAGCGGAGCAGATCGAAGA
1 AGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGA
*
15469882 CGGCGAATCTTATCTTCAAGTGTAAGG-AGTCAGATTGAAGC
66 CGGCGAATCTTATCTTCAAGTGTAAGGAAG-CAGATTTAAGC
15469923 TGATAATCCT
Statistics
Matches: 212, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
127 115 0.54
128 81 0.38
129 16 0.08
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (128 bp):
AGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGA
CGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTC
Found at i:15470076 original size:45 final size:44
Alignment explanation
Indices: 15470014--15470134 Score: 134
Period size: 45 Copynumber: 2.7 Consensus size: 44
15470004 TCGCATTAGC
* * * * *
15470014 TCTTATCCCCCTAAAGTTGTAGCGGGGCAGATCGAAGATGACAAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATCGAAGACGA-AAA
** * * *
15470059 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGATAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATCGAAGACGAAAA
*
15470103 TCCTATCTCCCTGAAGTTGTAGTGGAGCAGAT
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT
15470135 TAAAGTAATA
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
44 31 0.49
45 32 0.51
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATCGAAGACGAAAA
Found at i:15470116 original size:44 final size:43
Alignment explanation
Indices: 15470057--15470169 Score: 145
Period size: 44 Copynumber: 2.6 Consensus size: 43
15470047 GAAGATGACA
* *
15470057 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGAT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAG-CAAT
* ** *
15470101 AATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAAT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCAAT
*
15470144 AGATCTTATCTCTCTGAAGTTACAGT
1 A-ATCTTATCTCCCTGAAGTTACAGT
15470170 AGAATGGATC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 3 0.05
44 55 0.95
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCAAT
Found at i:15470313 original size:174 final size:174
Alignment explanation
Indices: 15469907--15470313 Score: 414
Period size: 174 Copynumber: 2.3 Consensus size: 174
15469897 TCAAGTGTAA
* * * * * *
15469907 GGAGTCAGATTGAAGCTGATAATCCTATCTCCCTGAAGTTGTAGTGGAGC-GAATTAAAGTAATA
1 GGAG-CAGATCGAAGCAGATAATCCTATCTCCCAGAAGGTGCAGTGGAACAG-ATTAAAGTAATA
* * * *
15469971 GATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGCTCTTATCCCCCTAAAGTTGTAG
64 GATCTTATCTCTCTGAAGTTACAGTAGAATGGATCGCATCAGCTCTTATCCCCCTAAAGTTGCAG
* * *
15470036 CGGGGCAGATCGAAGATGACAAATCTTATCTCCCTGAAGTTACAGT
129 CGGAGCAGATAGAAGATGACAAATCTTATCCCCCTGAAGTTACAGT
* * * * * *
15470082 GGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGA
1 GGAGCAGATCGAAGCAGATAATCCTATCTCCCAGAAGGTGCAGTGGAACAGATTAAAGTAATAGA
* * *
15470147 TCTTATCTCTCTGAAGTTACAGTAGAATGGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCG
66 TCTTATCTCTCTGAAGTTACAGTAGAATGGATCGCATCAGCTCTTATCCCCCTAAAGTTGCAGCG
* * *
15470212 GAGTAGACTGAGTAAG-T-A-AGA-CTTATCCCCCTGAAGTTGCAGT
131 GAGCAGA-T-AG-AAGATGACAAATCTTATCCCCCTGAAGTTACAGT
* * * ** *
15470255 -GAGGCAGATCGAAG-ATAGTGAATCTTATTTCCCAGGCGGTGCAGTGGAACATATTAAAG
1 GGA-GCAGATCGAAGCAGA-T-AATCCTATCTCCCAGAAGGTGCAGTGGAACAGATTAAAG
15470314 CCACAACGAC
Statistics
Matches: 199, Mismatches: 26, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
172 3 0.02
173 31 0.16
174 153 0.77
175 7 0.04
176 2 0.01
177 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (174 bp):
GGAGCAGATCGAAGCAGATAATCCTATCTCCCAGAAGGTGCAGTGGAACAGATTAAAGTAATAGA
TCTTATCTCTCTGAAGTTACAGTAGAATGGATCGCATCAGCTCTTATCCCCCTAAAGTTGCAGCG
GAGCAGATAGAAGATGACAAATCTTATCCCCCTGAAGTTACAGT
Found at i:15471800 original size:3 final size:3
Alignment explanation
Indices: 15471787--15471867 Score: 69
Period size: 3 Copynumber: 26.3 Consensus size: 3
15471777 TTTAGTCCCG
* *
15471787 TTA TT- TTA TTA TTA TTA TTA -AA TTAA TTA GCTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA -TTA TTA TTA TTA TTA
*
15471831 TTA CTA TTA TTA TTA TTA TTA TTGCA TTTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TT--A -TTA TTA TTA T
15471868 GATCATTTAC
Statistics
Matches: 65, Mismatches: 5, Indels: 16
0.76 0.06 0.19
Matches are distributed among these distances:
2 5 0.08
3 51 0.78
4 6 0.09
5 1 0.02
6 2 0.03
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:15473111 original size:8 final size:8
Alignment explanation
Indices: 15473092--15473128 Score: 51
Period size: 7 Copynumber: 4.9 Consensus size: 8
15473082 ATATTAATAC
15473092 TTTTTTAA
1 TTTTTTAA
15473100 -TTTTTAA
1 TTTTTTAA
15473107 TTTTTT-A
1 TTTTTTAA
*
15473114 TATTTTAA
1 TTTTTTAA
15473122 TTTTTTA
1 TTTTTTA
15473129 TAACTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
7 13 0.52
8 12 0.48
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTAA
Found at i:15473129 original size:15 final size:16
Alignment explanation
Indices: 15473092--15473130 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
15473082 ATATTAATAC
15473092 TTTTTTA-ATTTTTAA
1 TTTTTTATATTTTTAA
15473107 TTTTTTATA-TTTTAA
1 TTTTTTATATTTTTAA
15473122 TTTTTTATA
1 TTTTTTATA
15473131 ACTTTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 22 0.96
16 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTATATTTTTAA
Found at i:15474672 original size:12 final size:12
Alignment explanation
Indices: 15474657--15474702 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
15474647 TAGCAACAAT
15474657 AACAGCAAAAAC
1 AACAGCAAAAAC
* *
15474669 AACAACAAAATC
1 AACAGCAAAAAC
*
15474681 AATAGCAAAAAC
1 AACAGCAAAAAC
*
15474693 AACACCAAAA
1 AACAGCAAAA
15474703 TATCAGGAAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.67, C:0.24, G:0.04, T:0.04
Consensus pattern (12 bp):
AACAGCAAAAAC
Found at i:15474687 original size:36 final size:36
Alignment explanation
Indices: 15474633--15474702 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
15474623 AAAAAACCCA
* * * * *
15474633 AACAACAAAAAGAGTAGCAACAATAACAGCAAAAAC
1 AACAACAAAAACAATAGCAAAAACAACACCAAAAAC
*
15474669 AACAACAAAATCAATAGCAAAAACAACACCAAAA
1 AACAACAAAAACAATAGCAAAAACAACACCAAAA
15474703 TATCAGGAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.66, C:0.21, G:0.07, T:0.06
Consensus pattern (36 bp):
AACAACAAAAACAATAGCAAAAACAACACCAAAAAC
Found at i:15475028 original size:14 final size:14
Alignment explanation
Indices: 15474986--15475028 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
15474976 AGTAGTAAAA
*
15474986 ATAAATATATTATTT
1 ATAAA-ATATTATAT
*
15475001 ATAAAATGTTATAT
1 ATAAAATATTATAT
*
15475015 ATAAAATATCATAT
1 ATAAAATATTATAT
15475029 CACTTATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (14 bp):
ATAAAATATTATAT
Found at i:15477789 original size:16 final size:16
Alignment explanation
Indices: 15477754--15477793 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
15477744 TTAATAAAAT
* **
15477754 TAAAACTAATTGTTCT
1 TAAAATTAATTGTTAG
15477770 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
15477786 TAAAATTA
1 TAAAATTA
15477794 TCAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:15477894 original size:59 final size:59
Alignment explanation
Indices: 15477782--15477934 Score: 274
Period size: 59 Copynumber: 2.6 Consensus size: 59
15477772 AAATTAATTG
*
15477782 TTAGTAAAATTATCAAATTATTAATTG--TTAATTGTTGTAATAAAATCTAACATTTGA
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGA
15477839 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGA
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGA
*
15477898 TTAGTAAATTTATCAAATCATTAATTGTATTAATTGT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGT
15477935 ATTAATTGTT
Statistics
Matches: 92, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
57 26 0.28
59 66 0.72
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (59 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGA
Found at i:15477929 original size:9 final size:9
Alignment explanation
Indices: 15477917--15477943 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
15477907 TTATCAAATC
15477917 ATTAATTGT
1 ATTAATTGT
15477926 ATTAATTGT
1 ATTAATTGT
15477935 ATTAATTGT
1 ATTAATTGT
15477944 TGTAACAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (9 bp):
ATTAATTGT
Found at i:15479031 original size:25 final size:26
Alignment explanation
Indices: 15478984--15479036 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
15478974 TTAGGTTTTC
*
15478984 TTTTCCTTTCATTTTTAGATTAGGTT
1 TTTTCCTTTCATTTTTAGATTAGATT
*
15479010 TTTTCTTTTC-TTTTTA-AGTTAGATT
1 TTTTCCTTTCATTTTTAGA-TTAGATT
15479035 TT
1 TT
15479037 AGTTTTGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.04
25 14 0.58
26 9 0.38
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.66
Consensus pattern (26 bp):
TTTTCCTTTCATTTTTAGATTAGATT
Found at i:15488262 original size:12 final size:12
Alignment explanation
Indices: 15488245--15488270 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15488235 GACTAAATAG
15488245 AAATAGTGGTTA
1 AAATAGTGGTTA
15488257 AAATAGTGGTTA
1 AAATAGTGGTTA
15488269 AA
1 AA
15488271 TGTGTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (12 bp):
AAATAGTGGTTA
Found at i:15490397 original size:166 final size:166
Alignment explanation
Indices: 15490123--15490453 Score: 572
Period size: 166 Copynumber: 2.0 Consensus size: 166
15490113 TTCTCCCAAC
15490123 AGCAAACAATTTTAGCTTTTCGCCGAATCTCATTTTCTGCGTTTCAGATACACACCTGGTTTTGT
1 AGCAAACAATTTTAGCTTTTCGCCGAATCTCATTTTCTGCGTTTCAGATACACACCTGGTTTTGT
*
15490188 TTGATGCTAAAACAGTCCCCAAGCACTCCAAAGCCTATAATTGAACAAATAACACTAATTTAATC
66 TTGATGCTAAAACAATCCCCAAGCACTCCAAAGCCTATAATTGAACAAATAACACTAATTTAATC
* *
15490253 TCACATAATGTGATCCCAAATCGAACTCATATCAAT
131 TCACATAACGTGATCCCAAACCGAACTCATATCAAT
* *
15490289 AGCAAACAATTTTAGCTTTTCGTCGAATCTCATTTTCTGCGTTTCGGATACACACCTGGTTTTGT
1 AGCAAACAATTTTAGCTTTTCGCCGAATCTCATTTTCTGCGTTTCAGATACACACCTGGTTTTGT
*** *
15490354 TTGATGCTAAAACAATCCTTGAGCACTCCAAAGCGTATAATTGAACAAATAACACTAATTTAATC
66 TTGATGCTAAAACAATCCCCAAGCACTCCAAAGCCTATAATTGAACAAATAACACTAATTTAATC
*
15490419 TCACATAACGTGATCCCAAACCGAACTCGTATCAA
131 TCACATAACGTGATCCCAAACCGAACTCATATCAA
15490454 AGTTTTAACC
Statistics
Matches: 155, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
166 155 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (166 bp):
AGCAAACAATTTTAGCTTTTCGCCGAATCTCATTTTCTGCGTTTCAGATACACACCTGGTTTTGT
TTGATGCTAAAACAATCCCCAAGCACTCCAAAGCCTATAATTGAACAAATAACACTAATTTAATC
TCACATAACGTGATCCCAAACCGAACTCATATCAAT
Found at i:15491727 original size:15 final size:15
Alignment explanation
Indices: 15491700--15491741 Score: 75
Period size: 15 Copynumber: 2.7 Consensus size: 15
15491690 GAATTAAATA
15491700 AAGTAAAATTGTGCCT
1 AAGTAAAA-TGTGCCT
15491716 AAGTAAAATGTGCCT
1 AAGTAAAATGTGCCT
15491731 AAGTAAAATGT
1 AAGTAAAATGT
15491742 CAAAAACAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 18 0.69
16 8 0.31
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (15 bp):
AAGTAAAATGTGCCT
Found at i:15495440 original size:17 final size:17
Alignment explanation
Indices: 15495418--15495457 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
15495408 AAAGTCGGGA
15495418 ATACGACGTTTGAGACC
1 ATACGACGTTTGAGACC
15495435 ATACGACGTTTGAGACC
1 ATACGACGTTTGAGACC
15495452 ATACGA
1 ATACGA
15495458 GCGTGTGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.23
Consensus pattern (17 bp):
ATACGACGTTTGAGACC
Found at i:15495857 original size:27 final size:26
Alignment explanation
Indices: 15495826--15496048 Score: 214
Period size: 27 Copynumber: 8.3 Consensus size: 26
15495816 CTAAAATAAA
*
15495826 TAAAATAACCAAAATAACCCCATAGAG
1 TAAAATAACCAAAAT-ACCCCATAGGG
* *
15495853 TAAAATGACCGAAATACCCCATAGGG
1 TAAAATAACCAAAATACCCCATAGGG
*
15495879 TAAAATAACCAAAATACCCCCGTAGGG
1 TAAAATAACCAAAATA-CCCCATAGGG
* *
15495906 TAAAATAA-CAGAAATACTCTCACAGGG
1 TAAAATAACCA-AAATAC-CCCATAGGG
* * *
15495933 TAAAATGATCGAAATACCCCTATAGGG
1 TAAAATAACCAAAATACCCC-ATAGGG
** * *
15495960 TAAAATAACTGAAATGCCCTATAGGG
1 TAAAATAACCAAAATACCCCATAGGG
* * *
15495986 TAAAATGACCAAAATACCCCCATAAGA
1 TAAAATAACCAAAATA-CCCCATAGGG
* *
15496013 TAAAATGACCGAAATACCCCCATAGGG
1 TAAAATAACCAAAATA-CCCCATAGGG
15496040 TAAAATAAC
1 TAAAATAAC
15496049 TGTTATGCCT
Statistics
Matches: 161, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
26 47 0.29
27 113 0.70
28 1 0.01
ACGTcount: A:0.47, C:0.22, G:0.14, T:0.17
Consensus pattern (26 bp):
TAAAATAACCAAAATACCCCATAGGG
Found at i:15495909 original size:53 final size:53
Alignment explanation
Indices: 15495826--15496048 Score: 266
Period size: 53 Copynumber: 4.2 Consensus size: 53
15495816 CTAAAATAAA
* * *
15495826 TAAAATAACCAAAATAACCCCATAGAGTAAAATGACCGAAATACCCCATAGGG
1 TAAAATAACCAAAATACCCCCATAGGGTAAAATAACCGAAATACCCCATAGGG
* * * *
15495879 TAAAATAACCAAAATACCCCCGTAGGGTAAAATAACAGAAATACTCTCACAGGG
1 TAAAATAACCAAAATACCCCCATAGGGTAAAATAACCGAAATAC-CCCATAGGG
* * * * * * *
15495933 TAAAATGATCGAAATACCCCTATAGGGTAAAATAACTGAAATGCCCTATAGGG
1 TAAAATAACCAAAATACCCCCATAGGGTAAAATAACCGAAATACCCCATAGGG
* * * *
15495986 TAAAATGACCAAAATACCCCCATAAGATAAAATGACCGAAATACCCCCATAGGG
1 TAAAATAACCAAAATACCCCCATAGGGTAAAATAACCGAAATA-CCCCATAGGG
15496040 TAAAATAAC
1 TAAAATAAC
15496049 TGTTATGCCT
Statistics
Matches: 141, Mismatches: 27, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
53 80 0.57
54 61 0.43
ACGTcount: A:0.47, C:0.22, G:0.14, T:0.17
Consensus pattern (53 bp):
TAAAATAACCAAAATACCCCCATAGGGTAAAATAACCGAAATACCCCATAGGG
Found at i:15496017 original size:107 final size:107
Alignment explanation
Indices: 15495837--15496045 Score: 276
Period size: 107 Copynumber: 2.0 Consensus size: 107
15495827 AAAATAACCA
* *
15495837 AAATAACCCCATAGAGTAAAATGACCGAAATACCCCATAGGGTAAAATAACCAAAATACCCCCGT
1 AAATAACCCCATAGAGTAAAATAACCGAAATACCCCATAGGGTAAAATAACCAAAATACCCCCAT
* * * *
15495902 AGGGTAAAATAACAGAAATACTCTCACAGGGTAAAATGATCG
66 AAGATAAAATAACAGAAATACCCCCACAGGGTAAAATGATCG
* * * * *
15495944 AAAT-ACCCCTATAGGGTAAAATAACTGAAATGCCCTATAGGGTAAAATGACCAAAATACCCCCA
1 AAATAACCCC-ATAGAGTAAAATAACCGAAATACCCCATAGGGTAAAATAACCAAAATACCCCCA
* * *
15496008 TAAGATAAAATGACCGAAATACCCCCATAGGGTAAAAT
65 TAAGATAAAATAACAGAAATACCCCCACAGGGTAAAAT
15496046 AACTGTTATG
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
106 5 0.06
107 82 0.94
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (107 bp):
AAATAACCCCATAGAGTAAAATAACCGAAATACCCCATAGGGTAAAATAACCAAAATACCCCCAT
AAGATAAAATAACAGAAATACCCCCACAGGGTAAAATGATCG
Found at i:15496057 original size:80 final size:80
Alignment explanation
Indices: 15495826--15496050 Score: 267
Period size: 80 Copynumber: 2.8 Consensus size: 80
15495816 CTAAAATAAA
* * *
15495826 TAAAATAACCAAAATAACCCCAT-AGAGTAAAATGACCGAAATA-CCCCATAGGGTAAAATAACC
1 TAAAATGACCAAAATACCCCCATAAGA-TAAAATGACCGAAATACCCCCATAGGGTAAAATAACT
* * **
15495889 AAAATACCCCCGTAGGG
65 GAAAT-GCCCTATAGGG
* * * * * * * *
15495906 TAAAAT-AACAGAAATACTCTCACAGGGTAAAATGATCGAAATACCCCTATAGGGTAAAATAACT
1 TAAAATGACCA-AAATACCCCCATAAGATAAAATGACCGAAATACCCCCATAGGGTAAAATAACT
15495970 GAAATGCCCTATAGGG
65 GAAATGCCCTATAGGG
15495986 TAAAATGACCAAAATACCCCCATAAGATAAAATGACCGAAATACCCCCATAGGGTAAAATAACTG
1 TAAAATGACCAAAATACCCCCATAAGATAAAATGACCGAAATACCCCCATAGGGTAAAATAACTG
15496051 TTATGCCTCT
Statistics
Matches: 119, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
79 3 0.03
80 90 0.76
81 26 0.22
ACGTcount: A:0.46, C:0.21, G:0.15, T:0.18
Consensus pattern (80 bp):
TAAAATGACCAAAATACCCCCATAAGATAAAATGACCGAAATACCCCCATAGGGTAAAATAACTG
AAATGCCCTATAGGG
Found at i:15504997 original size:25 final size:27
Alignment explanation
Indices: 15504957--15505028 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
15504947 AAGTTCAAGC
* *
15504957 GAGCCAAT-ATCGGGAAGCTC-TG-GA
1 GAGCCATTAATCGGGAAGCTCATGAAA
15504981 GAGCCATTAATCGGGAAGCTCATGAAA
1 GAGCCATTAATCGGGAAGCTCATGAAA
* * *
15505008 TAGCCTTTAATTGGGAAGCTC
1 GAGCCATTAATCGGGAAGCTC
15505029 CAAAGAGCCA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
24 7 0.17
25 12 0.30
26 2 0.05
27 19 0.47
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (27 bp):
GAGCCATTAATCGGGAAGCTCATGAAA
Found at i:15505403 original size:21 final size:22
Alignment explanation
Indices: 15505363--15505404 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
15505353 TATATAATTC
*
15505363 ACATATACAACATTCAATTTAA
1 ACATATACAACATACAATTTAA
*
15505385 ACATATA-AATATACAATTTA
1 ACATATACAACATACAATTTA
15505405 GTTACACGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
ACATATACAACATACAATTTAA
Found at i:15506598 original size:112 final size:108
Alignment explanation
Indices: 15506333--15506644 Score: 416
Period size: 112 Copynumber: 2.9 Consensus size: 108
15506323 ATTTTTGGCA
* * * * *
15506333 ATTTGGTTAAACGAGAAATTGAA-ACCCAGCACCTTAGGGCACG-TTCCTCGAATTTTCAAACGC
1 ATTTGGTTGAACGAGAAA-TCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGC
*
15506396 AAAACATTGCCTTATTTT-AAAATTTTTGAAGGGATACTTAGCT
65 AAAACATTGCCTTATTTTGAAAATTTTTGAAAGGATACTTAGCT
*
15506439 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAG--AAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* **
15506504 CAAAACATTGCCATATTTTGAATTTTTTTTTGAAAAGGATA-TTAAGCT
64 CAAAACATTGCCTTATTTTGAA--AATTTTTG-AAAGGATACTT-AGCT
15506552 ATTTGGTTGAACGAGTAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGC
1 ATTTGGTTGAACGAG-AAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGC
* *
15506617 AAAATATTGCCTTACTTTGAAAATTTTT
65 AAAACATTGCCTTATTTTGAAAATTTTT
15506645 CTTTTTTGAA
Statistics
Matches: 180, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
106 14 0.08
107 2 0.01
108 22 0.12
109 35 0.19
110 7 0.04
112 74 0.41
113 26 0.14
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (108 bp):
ATTTGGTTGAACGAGAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCA
AAACATTGCCTTATTTTGAAAATTTTTGAAAGGATACTTAGCT
Found at i:15506875 original size:18 final size:17
Alignment explanation
Indices: 15506854--15506906 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
15506844 CAATAACAAC
*
15506854 AAATAATGAAAATAAATA
1 AAATAATAAAAATAAA-A
* *
15506872 AAATTATCAAAATAAAA
1 AAATAATAAAAATAAAA
*
15506889 ATAAAAATAAAAATAAAA
1 A-AATAATAAAAATAAAA
15506907 TTTATGTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 2 0.07
18 27 0.93
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (17 bp):
AAATAATAAAAATAAAA
Found at i:15506891 original size:6 final size:6
Alignment explanation
Indices: 15506880--15506906 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
15506870 TAAAATTATC
15506880 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
15506907 TTTATGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:15507147 original size:2 final size:2
Alignment explanation
Indices: 15507140--15507165 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15507130 ACTATAAGAA
15507140 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
15507166 GCGTATGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15508075 original size:39 final size:39
Alignment explanation
Indices: 15508021--15508109 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 39
15508011 ACAAAGAGAA
*
15508021 AAGAGCCCCCCAAAATCTCGTAAAAAAATACAGAAAAATC
1 AAGA-CCCCCTAAAATCTCGTAAAAAAATACAGAAAAATC
* *
15508061 AAGACCCCCTAAAATCTCGTATAAAAATACAGAAAAATT
1 AAGACCCCCTAAAATCTCGTAAAAAAATACAGAAAAATC
*
15508100 GAGACCCCCT
1 AAGACCCCCT
15508110 TTTACAATGC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 41 0.91
40 4 0.09
ACGTcount: A:0.48, C:0.26, G:0.10, T:0.16
Consensus pattern (39 bp):
AAGACCCCCTAAAATCTCGTAAAAAAATACAGAAAAATC
Found at i:15509553 original size:307 final size:307
Alignment explanation
Indices: 15508973--15509573 Score: 822
Period size: 307 Copynumber: 2.0 Consensus size: 307
15508963 GTATTTTTCG
* *
15508973 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTC
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAACCTC
* * * *
15509038 AGGGAGATAAGACCTTATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTGTGGTTTTA
66 AGGGAGATAAGACCTGATGCCATCTACTCCGCTGTAACTTCAGAGAGATAAGATCTGTGATTTTA
* * * *
15509103 ATCCGCTCTACTGCAACTTCAGAGAGATAGGATTGATTTCTTTCGTCTGCTCCACTGTAACTTCA
131 ATCCACTCCACTGCAACTTCAGAGAGATAGGATAGATGTCTTTCGTCTGCTCCACTGTAACTTCA
* * ** * *
15509168 GGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTGTAACTTCAGGAAGATAAGATCTCTGTCTT
196 GGGAGATAAGATTCATGGCTTTCATCTGCTCCACTGTAACCTCAGGAAGATAAGATCTCTGTCTT
* * *
15509233 CAATTTGCTCCACTATAATCTCAGGGAGATAAGATCTCTGGCTTCAA
261 CAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTGGCTTCAA
*
15509280 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAACCTC
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAACCTC
*
15509345 AGGGAGATAAGACCTGATGCCATCTACTCCGCTGTAACTTCAGAGAGATAAGATCAT-TTATTTT
66 AGGGAGATAAGACCTGATGCCATCTACTCCGCTGTAACTTCAGAGAGATAAGATC-TGTGATTTT
* * *
15509409 AATCCACTCCACTGTAACTTCAGGGAGATAGGATAG-TGTC-TTCGATCTGCTCCGCTGTAA-TC
130 AATCCACTCCACTGCAACTTCAGAGAGATAGGATAGATGTCTTTCG-TCTGCTCCACTGTAACT-
*
15509471 TCAGGGAGATAAGA-TCATGGC-TTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-T-TG
193 TCAGGGAGATAAGATTCATGGCTTTC-ATCTGCTCCACTGTAACCTCAGGAAGATAAGATCTCTG
** *
15509532 AAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA
257 ----TCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGA
15509574 CCTGATACGA
Statistics
Matches: 258, Mismatches: 28, Indels: 16
0.85 0.09 0.05
Matches are distributed among these distances:
303 2 0.01
304 4 0.02
305 39 0.15
306 30 0.12
307 182 0.71
308 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (307 bp):
TCTGCTCCACTGCAACCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAACCTC
AGGGAGATAAGACCTGATGCCATCTACTCCGCTGTAACTTCAGAGAGATAAGATCTGTGATTTTA
ATCCACTCCACTGCAACTTCAGAGAGATAGGATAGATGTCTTTCGTCTGCTCCACTGTAACTTCA
GGGAGATAAGATTCATGGCTTTCATCTGCTCCACTGTAACCTCAGGAAGATAAGATCTCTGTCTT
CAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTGGCTTCAA
Found at i:15509683 original size:87 final size:86
Alignment explanation
Indices: 15508969--15509920 Score: 462
Period size: 87 Copynumber: 10.9 Consensus size: 86
15508959 ATTGGTATTT
* * ** *
15508969 TTCG-TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAAATT-CTTCGGTCTACTCCACTGT
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCT----TTACTTCAATCTGCTCCACTGT
* * *
15509032 AACCTCAGGGAGATAAGA-CCT-TA
62 AACTTCAGGGAGATAAGATACTGTC
* ** * *** * * * *
15509055 TGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCTACTGCAAC
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCT-TTACTTCAATCTGCTCCACTGTAAC
* * *
15509120 TTCAGAGAGATAGGATTGA-TTTC
65 TTCAGGGAGATAAGA-T-ACTGTC
* * * *
15509143 TTTCG-TCTGCTCCACTGTAACTTCAGGGAGATAGGAT-TGATTTCTTTC-GTCTGCTCCACTGT
1 -TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCT--TTAC-TTCAATCTGCTCCACTGT
* *
15509205 AACTTCAGGAAGATAAGATCTCTGTC
62 AACTTCAGGGAGATAAGAT-ACTGTC
* * * * **
15509231 TTCAATTTGCTCCACTATAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAA
1 TTCGATCTACTCCACTGTAACT-TCAGGGAGATAAGATCT-TTACTTCAATCTGCTCCACTGTAA
*
15509295 CCTCAGGGAGATAAGAT-CTGAAATTC
64 CTTCAGGGAGATAAGATACTG----TC
* * * * * * *
15509321 TTC-AGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTGA-TGCCATCTACTCCGCTGTAAC
1 TTCGA-TCTACTCCACTGTAACTTCAGGGAGATAAGATCTTTACTTCAATCTGCTCCACTGTAAC
* * *
15509383 TTCAGAGAGATAAGAT-CATTTAT
65 TTCAGGGAGATAAGATAC-TGT-C
** * * * * * *
15509406 TTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGT-CTTCGATCTGCTCCGCTGTAA-
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGAT-CTTTACTTCAATCTGCTCCACTGTAAC
*
15509469 TCTCAGGGAGATAAGAT-CATGGC
65 T-TCAGGGAGATAAGATAC-TGTC
* * * * ** *
15509492 TTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-TTGAAATTCTTCGGTCTACTCCACTGT
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCTT----TACTTCAATCTGCTCCACTGT
* * *
15509556 AACCTCAGGGAGATAAGA-CCTG-A
62 AACTTCAGGGAGATAAGATACTGTC
* ** * * * *
15509579 TACGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAAC
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGAT-CTTTACTTCAATCTGCTCCACTGTAAC
* *
15509644 TTCAGGGAGATAGGATAGTGTC
65 TTCAGGGAGATAAGATACTGTC
* * *
15509666 TTCGATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAA
1 TTCGATCTACTCCACTGTAACT-TCAGGGAGATAAGATCTTTA-CTTCAATCTGCTCCACTGTAA
*
15509730 CCTCAGGGAGATAAGAT-CTGAAATTC
64 CTTCAGGGAGATAAGATACTG----TC
* * * * * * * ** *
15509756 TTCGGTCTACTCCACTATAACCTCAGGGAGATAAGA-CTTGA-TACGATCTACTCTGCTATAACT
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCTTTACTTCAATCTGCTCCACTGTAACT
* * * * *
15509819 TTAGAGAGATAAGATCCTTTAT
66 TCAGGGAGATAAGATACTGT-C
** ** * * * * * *
15509841 TTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGT-CTTCGATTTGCTCCGCTGTAA-
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGAT-CTTTACTTCAATCTGCTCCACTGTAAC
15509904 TCTCAGGGAGATAAGAT
65 T-TCAGGGAGATAAGAT
15509921 CTCTGGCTTC
Statistics
Matches: 657, Mismatches: 158, Indels: 101
0.72 0.17 0.11
Matches are distributed among these distances:
84 4 0.01
85 114 0.17
86 50 0.08
87 256 0.39
88 124 0.19
89 46 0.07
90 63 0.10
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (86 bp):
TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCTTTACTTCAATCTGCTCCACTGTAACT
TCAGGGAGATAAGATACTGTC
Found at i:15509828 original size:218 final size:218
Alignment explanation
Indices: 15509195--15509936 Score: 1270
Period size: 218 Copynumber: 3.4 Consensus size: 218
15509185 TCTTTCGTCT
* * ** * * * *
15509195 GCTCCACTGTAACTTCAGGAAGATAAGATCTCTGTCTTCAATTTGCTCCACTATAATCTCAGGGA
1 GCTCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGA
*
15509260 GATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCA
65 GATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCG
* * *
15509325 GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCCATCTACTCCGCTGTAACTTCAGAG
130 GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATACGATCTACTCTGCTGTAACTTCAGAG
*
15509390 AGATAAGATCATTTATTTTAATCC
195 AGATAAGATCCTTTATTTTAATCC
*
15509414 ACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
1 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
* *
15509479 ATAAGATC-ATGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTCTTCGG
66 ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
15509543 TCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATACGATCTACTCTGCTGTAACTTCAGAGA
131 TCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATACGATCTACTCTGCTGTAACTTCAGAGA
15509608 GATAAGATCCTTTATTTTAATCC
196 GATAAGATCCTTTATTTTAATCC
15509631 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
1 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
*
15509696 ATAAGATCTCTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
66 ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
* * * *
15509761 TCTACTCCACTATAACCTCAGGGAGATAAGACTTGATACGATCTACTCTGCTATAACTTTAGAGA
131 TCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATACGATCTACTCTGCTGTAACTTCAGAGA
15509826 GATAAGATCCTTTATTTTAATCC
196 GATAAGATCCTTTATTTTAATCC
*
15509849 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATTTGCTCCGCTGTAATCTCAGGGAG
1 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
15509914 ATAAGATCTCTGGCTTCAATCTG
66 ATAAGATCTCTGGCTTCAATCTG
15509937 ATGTGATCTA
Statistics
Matches: 496, Mismatches: 26, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
217 209 0.42
218 261 0.53
219 26 0.05
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (218 bp):
GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
TCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATACGATCTACTCTGCTGTAACTTCAGAGA
GATAAGATCCTTTATTTTAATCC
Found at i:15509872 original size:44 final size:43
Alignment explanation
Indices: 15508973--15509936 Score: 491
Period size: 44 Copynumber: 22.1 Consensus size: 43
15508963 GTATTTTTCG
* **
15508973 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAAATT-CTTCGG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT----TTACTTCAA
* * * * *
15509019 TCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTTA-TGCGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTACTTCAA
* ** * *** *
15509060 TCTACTCTGCTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT-TTACTTCAA
* * * * * * *
15509104 TCCGCTCTACTGCAACTTCAGAGAGATAGGAT-TGATTTCTTTC-G
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT--TTAC-TTCAA
* * *
15509148 TCTGCTCCACTGTAACTTCAGGGAGATAGGAT-TGATTTCTTTC-G
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT--TTAC-TTCAA
*
15509192 TCTGCTCCACTGTAACTTCAGGAAGATAAGATCTCTGT-CTTCAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT-T-TACTTCAA
* * **
15509236 TTTGCTCCACTATAA-TCTCAGGGAGATAAGATCTCTGGCTTCAA
1 TCTGCTCCACTGTAACT-TCAGGGAGATAAGATCT-TTACTTCAA
* *
15509280 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT-CTTCAG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT----TTACTTCAA
* * * * * *
15509326 TCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTGA-TGCCA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTACTTCAA
* * * * *
15509367 TCTACTCCGCTGTAACTTCAGAGAGATAAGATCATTTATTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATC-TTTACTTCAA
** * * * *
15509411 TCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGT-CTTCGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGAT-CTTTACTTCAA
* * **
15509454 TCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCATGGCTTCAA
1 TCTGCTCCACTGTAACT-TCAGGGAGATAAGATCTTTACTTCAA
* * **
15509497 TCTGCTCCACTGTAACCTCAGGGAGATAAGAT-TTGAAATTCTTCGG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTT----TACTTCAA
* * * * * *
15509543 TCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTGA-TACGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTACTTCAA
* ** * * *
15509584 TCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGAT-CTTTACTTCAA
* * * * *
15509628 TCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGT-CTTCGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGAT-CTTTACTTCAA
* *
15509671 TCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTAGCTTCAA
1 TCTGCTCCACTGTAACT-TCAGGGAGATAAGATCTTTA-CTTCAA
* **
15509715 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT-CTTCGG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT----TTACTTCAA
* * * * * *
15509761 TCTACTCCACTATAACCTCAGGGAGATAAGA-CTTGA-TACGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTACTTCAA
* ** * * * * *
15509802 TCTACTCTGCTATAACTTTAGAGAGATAAGATCCTTTATTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGAT-CTTTACTTCAA
* * * * *
15509846 TCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGT-CTTCGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGAT-CTTTACTTCAA
* * **
15509889 TTTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAA
1 TCTGCTCCACTGTAACT-TCAGGGAGATAAGATCT-TTACTTCAA
15509933 TCTG
1 TCTG
15509937 ATGTGATCTA
Statistics
Matches: 713, Mismatches: 159, Indels: 94
0.74 0.16 0.10
Matches are distributed among these distances:
41 123 0.17
42 9 0.01
43 137 0.19
44 303 0.42
45 8 0.01
46 131 0.18
47 1 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTACTTCAA
Found at i:15510041 original size:44 final size:44
Alignment explanation
Indices: 15509954--15510078 Score: 115
Period size: 44 Copynumber: 2.8 Consensus size: 44
15509944 CTACTCTACG
* * * * * * **
15509954 ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGTACCTTCA
15509998 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGTACCTTCA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGTACCTTCA
* * * * * *
15510042 ATTTGCCCCACTGCATCTTCAGGGGGATAAGACTTTG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGA-TTTG
15510079 GTTCTTCGAT
Statistics
Matches: 66, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
44 62 0.94
45 4 0.06
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGTACCTTCA
Found at i:15510366 original size:125 final size:125
Alignment explanation
Indices: 15510156--15510768 Score: 1012
Period size: 125 Copynumber: 4.9 Consensus size: 125
15510146 GATTCGCCAT
15510156 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
* *
15510221 TTCCACTGTATCGTTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
* * *
15510281 TGTGGCTTTAATCTTTTTAACTGCAATGTCGAAGAAACAAGATTCACCAATTTGACTTTAATCCA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
*
15510346 TTCCACTACATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
* *
15510406 TGTGGCTTTAATCTTTTTAACTGTAATGTCGAAGAAACAAGATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
* *
15510471 TTCCACTGCATTGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAACCAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
15510531 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
*
15510596 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCAA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
* * * * * *
15510656 TGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGGTTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
* * * * *
15510721 TTCCACTGCACCACCTGGGAG-GTAAAATTCGCTGCTGTAGCTTTAATC
66 TTCCACTGCATCGCTTGGG-GCGTAAGATTCGCTGTTGTAGCTTTAATC
15510769 TTTTTAATCG
Statistics
Matches: 459, Mismatches: 28, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
125 458 1.00
126 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (125 bp):
TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
Found at i:15510709 original size:50 final size:49
Alignment explanation
Indices: 15510643--15510824 Score: 170
Period size: 50 Copynumber: 3.7 Consensus size: 49
15510633 TAGCTTTAAT
*
15510643 CAAGATTCACCAATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTA-GGGAAG
* * ** ** *
15510693 CAAGATTCACCGATGTGGTTTTAATCTATTCCACTGCACCACCT-GGGAGG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCA--ATGTAGGGAAG
* * * * * *
15510743 TAAAATTCGCTGCTGTAGCTTTAATCTTTTTAA-TCGCAATGTCAGGGAAG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACT-GCAATGT-AGGGAAG
*
15510793 CAAGATTCACCGTTGTGGCTTTAATCTTTTTA
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTA
15510825 CTACATCGTC
Statistics
Matches: 100, Mismatches: 27, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
48 2 0.02
49 1 0.01
50 95 0.95
52 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (49 bp):
CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGAAG
Found at i:15510869 original size:29 final size:29
Alignment explanation
Indices: 15510823--15510885 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
15510813 TTAATCTTTT
* * *
15510823 TACTACATCGTCTGGGAGATAAGATTCGC
1 TACTGCATCGCCTAGGAGATAAGATTCGC
15510852 TACTGCATCGCCTAGGAGATAAGATTCGC
1 TACTGCATCGCCTAGGAGATAAGATTCGC
15510881 TACTG
1 TACTG
15510886 TAGCTTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (29 bp):
TACTGCATCGCCTAGGAGATAAGATTCGC
Found at i:15510953 original size:128 final size:128
Alignment explanation
Indices: 15510738--15510976 Score: 381
Period size: 128 Copynumber: 1.9 Consensus size: 128
15510728 GCACCACCTG
* * * *
15510738 GGAGGTAAAATTCGCTGCTGTAGCTTTAATCTTTTTAATCGCAATGTCAGGGAAGCAAGATTCAC
1 GGAGATAAAATTCGCTACTGTAGCTTTAATCTTTTTAACCGCAATGTCAGAGAAGCAAGATTCAC
*
15510803 CGTTGTGGCTTTAATCTTTTTACTACA-TCGTCTGGGAGATAAGATTCGCTACTGCATCGCCTA
66 CGTTGTGGCTTTAATCTTTTTACTACACT-GCCTGGGAGATAAGATTCGCTACTGCATCGCCTA
* * *
15510866 GGAGATAAGATTCGCTACTGTAGCTTTAATCTTTTTAACCGCAATGTTAGAGAGGCAAGATTCAC
1 GGAGATAAAATTCGCTACTGTAGCTTTAATCTTTTTAACCGCAATGTCAGAGAAGCAAGATTCAC
*
15510931 CGTTGTGGCTTTAATCTTTTTACTGCACTGCCTGGGAGATAAGATT
66 CGTTGTGGCTTTAATCTTTTTACTACACTGCCTGGGAGATAAGATT
15510977 TGCTGATGTA
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
128 100 0.99
129 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (128 bp):
GGAGATAAAATTCGCTACTGTAGCTTTAATCTTTTTAACCGCAATGTCAGAGAAGCAAGATTCAC
CGTTGTGGCTTTAATCTTTTTACTACACTGCCTGGGAGATAAGATTCGCTACTGCATCGCCTA
Found at i:15511069 original size:51 final size:49
Alignment explanation
Indices: 15510920--15511069 Score: 131
Period size: 51 Copynumber: 3.0 Consensus size: 49
15510910 TGTTAGAGAG
* *
15510920 GCAAGATTCACCGTTGTGGCTTTAATCTTTTTACTGCACTGCCTGGGAGA
1 GCAAGATTCACCGTTGTGGCTTTAATC-TCTTACTGCACTGCCTGGGAAA
* ** * * * * * * *
15510970 -TAAGATTTGCTGATGTAGCTTTAATCTTCTTAACCGCAATGTCAGGGAAA
1 GCAAGATTCACCGTTGTGGCTTTAATC-TCTT-ACTGCACTGCCTGGGAAA
*
15511020 GCAAGATTCACCGTTGTGGCTTTAATCTGCTCTACTGCACTACCTGGGAA
1 GCAAGATTCACCGTTGTGGCTTTAATCT-CT-TACTGCACTGCCTGGGAA
15511070 GTAAGGCTTT
Statistics
Matches: 73, Mismatches: 23, Indels: 7
0.71 0.22 0.07
Matches are distributed among these distances:
49 24 0.33
50 14 0.19
51 34 0.47
52 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (49 bp):
GCAAGATTCACCGTTGTGGCTTTAATCTCTTACTGCACTGCCTGGGAAA
Found at i:15512345 original size:7 final size:7
Alignment explanation
Indices: 15512333--15512386 Score: 85
Period size: 7 Copynumber: 8.0 Consensus size: 7
15512323 TTAGCCTCTC
15512333 CATTTTT
1 CATTTTT
15512340 CATTTTT
1 CATTTTT
15512347 CA-TTTT
1 CATTTTT
15512353 CATTTTT
1 CATTTTT
15512360 CATTTTT
1 CATTTTT
*
15512367 CA-TTCT
1 CATTTTT
15512373 CATTTTT
1 CATTTTT
15512380 CATTTTT
1 CATTTTT
15512387 TTGACTCAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 11 0.26
7 32 0.74
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:15512354 original size:13 final size:14
Alignment explanation
Indices: 15512333--15512386 Score: 85
Period size: 13 Copynumber: 4.0 Consensus size: 14
15512323 TTAGCCTCTC
15512333 CATTTTTCATTTTT
1 CATTTTTCATTTTT
15512347 CA-TTTTCATTTTT
1 CATTTTTCATTTTT
*
15512360 CATTTTTCA-TTCT
1 CATTTTTCATTTTT
15512373 CATTTTTCATTTTT
1 CATTTTTCATTTTT
15512387 TTGACTCAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
13 25 0.69
14 11 0.31
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (14 bp):
CATTTTTCATTTTT
Found at i:15512356 original size:20 final size:20
Alignment explanation
Indices: 15512333--15512386 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
15512323 TTAGCCTCTC
*
15512333 CATTTTTCATTTTTCATTTT
1 CATTTTTCATTTTTCATTCT
15512353 CATTTTTCATTTTTCATTCT
1 CATTTTTCATTTTTCATTCT
15512373 CATTTTTCATTTTT
1 CATTTTTCATTTTT
15512387 TTGACTCAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (20 bp):
CATTTTTCATTTTTCATTCT
Found at i:15513376 original size:6 final size:6
Alignment explanation
Indices: 15513367--15513406 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
15513357 TTTTTGTTTT
* * *
15513367 TTTTTA TTTTCA TTTTGA CTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
15513407 TCTTTTTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.15, C:0.05, G:0.10, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:15513412 original size:18 final size:18
Alignment explanation
Indices: 15513367--15513412 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
15513357 TTTTTGTTTT
15513367 TTTTTATTTTCATTTTGA
1 TTTTTATTTTCATTTTGA
* * *
15513385 CTTTGATTTTGATTTTGA
1 TTTTTATTTTCATTTTGA
*
15513403 TTTTTCTTTT
1 TTTTTATTTT
15513413 TCTTCCCTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.13, C:0.07, G:0.09, T:0.72
Consensus pattern (18 bp):
TTTTTATTTTCATTTTGA
Found at i:15513424 original size:57 final size:57
Alignment explanation
Indices: 15513315--15513424 Score: 127
Period size: 57 Copynumber: 1.9 Consensus size: 57
15513305 TCTTTTTCTC
* ***
15513315 ATTTTCATTTTGATCTTGATTTTTATTTTTTCTTCTTTCTTCTTTTTGTTTTTTTTT
1 ATTTTCATTTTGATCTTGATTTTGATTTTTTCTTCTTTCTTCTTTCCCTTTTTTTTT
*
15513372 ATTTTCATTTTGA-CTTTGATTTTGATTTTGATTTTTCTTT-TTC-TTCCCTTTTT
1 ATTTTCATTTTGATC-TTGATTTTGATTTT--TTCTTCTTTCTTCTTTCCCTTTTT
15513425 GATCTGAGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
56 1 0.02
57 33 0.73
58 3 0.07
59 8 0.18
ACGTcount: A:0.10, C:0.12, G:0.06, T:0.72
Consensus pattern (57 bp):
ATTTTCATTTTGATCTTGATTTTGATTTTTTCTTCTTTCTTCTTTCCCTTTTTTTTT
Found at i:15517347 original size:6 final size:6
Alignment explanation
Indices: 15517336--15517362 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
15517326 TAAAATTATC
15517336 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
15517363 TTTATGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:15517598 original size:37 final size:37
Alignment explanation
Indices: 15517538--15517627 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 37
15517528 TAAAAAATAG
15517538 AAAATATATATATGGACATGTATGTAAATTACAAACTATA
1 AAAATATATATAT-GACA-GTATGTAAATT-CAAACTATA
* * **
15517578 AGAAATATATATATG-C-GTATGTATATTTAAGTTATA
1 A-AAATATATATATGACAGTATGTAAATTCAAACTATA
15517614 AAAATATATATATG
1 AAAATATATATATG
15517628 TACATATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
35 13 0.29
36 7 0.16
37 10 0.22
39 1 0.02
40 2 0.04
41 12 0.27
ACGTcount: A:0.48, C:0.04, G:0.11, T:0.37
Consensus pattern (37 bp):
AAAATATATATATGACAGTATGTAAATTCAAACTATA
Found at i:15518474 original size:39 final size:39
Alignment explanation
Indices: 15518424--15518507 Score: 150
Period size: 39 Copynumber: 2.2 Consensus size: 39
15518414 GAGAAAAGAG
*
15518424 CCCCCCAAAATCTCGTAGAAAAATACAGAAAAATCGAGA
1 CCCCCTAAAATCTCGTAGAAAAATACAGAAAAATCGAGA
*
15518463 CTCCCTAAAATCTCGTAGAAAAATACAGAAAAATCGAGA
1 CCCCCTAAAATCTCGTAGAAAAATACAGAAAAATCGAGA
15518502 CCCCCT
1 CCCCCT
15518508 TTTACAATGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.45, C:0.27, G:0.12, T:0.15
Consensus pattern (39 bp):
CCCCCTAAAATCTCGTAGAAAAATACAGAAAAATCGAGA
Found at i:15523762 original size:23 final size:23
Alignment explanation
Indices: 15523735--15523810 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
15523725 AATGTTATTG
15523735 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
15523758 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
15523781 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
15523804 ATCAGTG
1 ATCAGTG
15523811 TGGCACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:15533533 original size:158 final size:158
Alignment explanation
Indices: 15533245--15533546 Score: 568
Period size: 158 Copynumber: 1.9 Consensus size: 158
15533235 ACGTTTCATC
15533245 AAATCACTCAAGATTCATAGTTCATATTCGGTTATAACCATTTTTGAAAGTGTTATTTAATTCAT
1 AAATCACTCAAGATTCATAGTTCATATTCGGTTATAACCATTTTTGAAAGTGTTATTTAATTCAT
* *
15533310 TTATTTACCAAAACATAATTTAAAGTGGACGTCTTAAAACCGTTATATTTTAGAAATCTAGTTCG
66 TTATTTACCAAAACATAATTTAAAGCGGACGTCTTAAAACCATTATATTTTAGAAATCTAGTTCG
15533375 TGTTTTCAAAAAAGCCTTTGTTTTCGTA
131 TGTTTTCAAAAAAGCCTTTGTTTTCGTA
*
15533403 AAATCACTCAAGATTCATAGTTCATATTTGGTTATAACCATTTTTGAAAGTGTTATTTAATTCAT
1 AAATCACTCAAGATTCATAGTTCATATTCGGTTATAACCATTTTTGAAAGTGTTATTTAATTCAT
15533468 TTATTTACCAAAACATAATTTAAAGCGGACGTCTTAAAACCATTATATTTTAGAAATCTAGTTCG
66 TTATTTACCAAAACATAATTTAAAGCGGACGTCTTAAAACCATTATATTTTAGAAATCTAGTTCG
*
15533533 TGTTTTCAAGAAAG
131 TGTTTTCAAAAAAG
15533547 TCAAAAACCA
Statistics
Matches: 140, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
158 140 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (158 bp):
AAATCACTCAAGATTCATAGTTCATATTCGGTTATAACCATTTTTGAAAGTGTTATTTAATTCAT
TTATTTACCAAAACATAATTTAAAGCGGACGTCTTAAAACCATTATATTTTAGAAATCTAGTTCG
TGTTTTCAAAAAAGCCTTTGTTTTCGTA
Found at i:15533872 original size:54 final size:54
Alignment explanation
Indices: 15533790--15533900 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
15533780 AACAGAAATA
15533790 GACATTCAATACATATAGTAAACTCATACATAGTCAGACAAAGATTCAGATTCG
1 GACATTCAATACATATAGTAAACTCATACATAGTCAGACAAAGATTCAGATTCG
*
15533844 GACATTTAATACATATAGTAAACTCATACATAGTCAGACAAAGATTCAGATTCG
1 GACATTCAATACATATAGTAAACTCATACATAGTCAGACAAAGATTCAGATTCG
15533898 GAC
1 GAC
15533901 CTAAGCCTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (54 bp):
GACATTCAATACATATAGTAAACTCATACATAGTCAGACAAAGATTCAGATTCG
Found at i:15537972 original size:3 final size:3
Alignment explanation
Indices: 15537960--15537988 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
15537950 TTTAAAACAC
15537960 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15537989 TGAAGTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:15545934 original size:63 final size:63
Alignment explanation
Indices: 15545686--15545947 Score: 204
Period size: 63 Copynumber: 4.2 Consensus size: 63
15545676 ATAGCAAACA
* * * * * * *** *
15545686 CAATCATTCCCTATATCAACACATA-CAACACCAGTTTATTTTACACAAGGACCACCTCACGCA
1 CAATCATTCCCTACACCGACACA-ACCATCACCAGTTTATTTTACACAAGCACTATAACACGCG
* * * * * * * ** *
15545749 CAATCATTTCCTACAACAACACAACAACCACTAGTTTATTTTACACAAGCACCATTGCACACG
1 CAATCATTCCCTACACCGACACAACCATCACCAGTTTATTTTACACAAGCACTATAACACGCG
* * ** * ** *
15545812 CAATCATTCCTTGCACCGACACATTCATCACCAATTTATTTCCCACAAGCA-TCACAACACGCG
1 CAATCATTCCCTACACCGACACAACCATCACCAGTTTATTTTACACAAGCACT-ATAACACGCG
* * * *
15545875 TAATCATTCCCTACACTGACACAACCATCACCGGTTTATTTTTCACAAGCACTATAACACGCG
1 CAATCATTCCCTACACCGACACAACCATCACCAGTTTATTTTACACAAGCACTATAACACGCG
15545938 CAATCATTCC
1 CAATCATTCC
15545948 ATGTACGGAA
Statistics
Matches: 154, Mismatches: 42, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
62 1 0.01
63 152 0.99
64 1 0.01
ACGTcount: A:0.34, C:0.34, G:0.07, T:0.25
Consensus pattern (63 bp):
CAATCATTCCCTACACCGACACAACCATCACCAGTTTATTTTACACAAGCACTATAACACGCG
Found at i:15547547 original size:23 final size:22
Alignment explanation
Indices: 15547508--15547550 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
15547498 GAAGAGAATG
* *
15547508 AGAAGAAAGAAGGAAAGAAAGT
1 AGAAGAAAAAAGCAAAGAAAGT
15547530 AGAAGAAAAAAAGCAAAGAAA
1 AGAAG-AAAAAAGCAAAGAAA
15547551 AGAAAGAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.70, C:0.02, G:0.26, T:0.02
Consensus pattern (22 bp):
AGAAGAAAAAAGCAAAGAAAGT
Found at i:15549559 original size:32 final size:32
Alignment explanation
Indices: 15549518--15549581 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
15549508 TGCCATTGTG
15549518 GATAAGGAGAACATGGAATCATGAGAATTCTT
1 GATAAGGAGAACATGGAATCATGAGAATTCTT
15549550 GATAAGGAGAACATGGAATCATGAGAATTCTT
1 GATAAGGAGAACATGGAATCATGAGAATTCTT
15549582 TCTTACGAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.09, G:0.25, T:0.25
Consensus pattern (32 bp):
GATAAGGAGAACATGGAATCATGAGAATTCTT
Found at i:15550848 original size:36 final size:33
Alignment explanation
Indices: 15550772--15550853 Score: 96
Period size: 33 Copynumber: 2.4 Consensus size: 33
15550762 ATTTTGTTCC
*
15550772 AAGTTTGTTGTAATAAATCTAATTTAAATTACA
1 AAGTTTGTTCTAATAAATCTAATTTAAATTACA
15550805 ACA-TTTGTTCTAATAAATCTCAA-TTAAATAAATACA
1 A-AGTTTGTTCTAATAAATCT-AATTTAAAT---TACA
15550841 AAGTTTGTTCTAA
1 AAGTTTGTTCTAA
15550854 GTTTGTTCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
33 23 0.55
34 3 0.07
35 1 0.02
36 15 0.36
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (33 bp):
AAGTTTGTTCTAATAAATCTAATTTAAATTACA
Found at i:15551851 original size:22 final size:22
Alignment explanation
Indices: 15551826--15551898 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
15551816 CTACGTGAAA
15551826 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
15551848 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
* * * **
15551870 CATGAGGGTTTAGTTCGTTAAA
1 CATGAGAGCTTAGTACGTTAGC
15551892 CATGAGA
1 CATGAGA
15551899 CACTATTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:15552226 original size:21 final size:22
Alignment explanation
Indices: 15552202--15552244 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
15552192 CATTAATATT
*
15552202 ATATAGTA-AATAATACAATAA
1 ATATAGTACAATAATAAAATAA
15552223 ATATAGTACAATAATAAAATAA
1 ATATAGTACAATAATAAAATAA
15552245 TTACAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (22 bp):
ATATAGTACAATAATAAAATAA
Found at i:15552240 original size:17 final size:18
Alignment explanation
Indices: 15552218--15552258 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
15552208 TAAATAATAC
15552218 AATAAATAT-AGTACAAT
1 AATAAATATAAGTACAAT
*
15552235 AATAAA-ATAATTACAAT
1 AATAAATATAAGTACAAT
*
15552252 AAAAAAT
1 AATAAAT
15552259 CTCATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (18 bp):
AATAAATATAAGTACAAT
Found at i:15552833 original size:53 final size:53
Alignment explanation
Indices: 15552774--15552879 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
15552764 TTTAAAAAAG
15552774 AAAGAAAGAAAAATACCTTATCCTTCTCTTTTTTCTTCCCCTTCTCTTCTTCT
1 AAAGAAAGAAAAATACCTTATCCTTCTCTTTTTTCTTCCCCTTCTCTTCTTCT
15552827 AAAGAAAGAAAAATACCTTATCCTTCTCTTTTTTCTTCCCCTTCTCTTCTTCT
1 AAAGAAAGAAAAATACCTTATCCTTCTCTTTTTTCTTCCCCTTCTCTTCTTCT
15552880 CCACTATTGC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.25, C:0.28, G:0.04, T:0.43
Consensus pattern (53 bp):
AAAGAAAGAAAAATACCTTATCCTTCTCTTTTTTCTTCCCCTTCTCTTCTTCT
Found at i:15556243 original size:97 final size:97
Alignment explanation
Indices: 15556077--15556272 Score: 392
Period size: 97 Copynumber: 2.0 Consensus size: 97
15556067 TTTAGGGACT
15556077 GTCTCAAAGTTTGGCATGTTACTTTAAAATAACTAGGTTGCCCACCAGAACTGTCATATAGAGAG
1 GTCTCAAAGTTTGGCATGTTACTTTAAAATAACTAGGTTGCCCACCAGAACTGTCATATAGAGAG
15556142 AAAAATTGTAGATTGGAGAAGAGATCACTTGG
66 AAAAATTGTAGATTGGAGAAGAGATCACTTGG
15556174 GTCTCAAAGTTTGGCATGTTACTTTAAAATAACTAGGTTGCCCACCAGAACTGTCATATAGAGAG
1 GTCTCAAAGTTTGGCATGTTACTTTAAAATAACTAGGTTGCCCACCAGAACTGTCATATAGAGAG
15556239 AAAAATTGTAGATTGGAGAAGAGATCACTTGG
66 AAAAATTGTAGATTGGAGAAGAGATCACTTGG
15556271 GT
1 GT
15556273 TTCTTGCTAA
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 99 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (97 bp):
GTCTCAAAGTTTGGCATGTTACTTTAAAATAACTAGGTTGCCCACCAGAACTGTCATATAGAGAG
AAAAATTGTAGATTGGAGAAGAGATCACTTGG
Found at i:15559344 original size:29 final size:28
Alignment explanation
Indices: 15559303--15559358 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
15559293 GACAATAGCT
*
15559303 TTTTTCCATCA-TTTAATTGCCTTAATGG
1 TTTTTCCATCATTTTAA-TACCTTAATGG
15559331 TTTTTCCATGCATTTTAATACCTTAATG
1 TTTTTCCAT-CATTTTAATACCTTAATG
15559359 TCTGTCCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 11 0.44
30 5 0.20
ACGTcount: A:0.23, C:0.18, G:0.09, T:0.50
Consensus pattern (28 bp):
TTTTTCCATCATTTTAATACCTTAATGG
Found at i:15565612 original size:17 final size:17
Alignment explanation
Indices: 15565589--15565630 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
15565579 TAAGTAAAAT
*
15565589 AAAATAAATTAAAGTAA
1 AAAATAAATTAAAGAAA
*
15565606 TAAATAAATTAAAGAAA
1 AAAATAAATTAAAGAAA
15565623 AAAATAAA
1 AAAATAAA
15565631 AAAATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAATAAATTAAAGAAA
Found at i:15572066 original size:10 final size:10
Alignment explanation
Indices: 15572017--15572064 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
15572007 TAAATTCCTA
15572017 AAAGATAAAT
1 AAAGATAAAT
** *
15572027 AAATTTAATT
1 AAAGATAAAT
*
15572037 GAAGATAAAT
1 AAAGATAAAT
15572047 AAAGATAAAT
1 AAAGATAAAT
15572057 AAA-ATAAA
1 AAAGATAAA
15572065 ATCCTAAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:15574574 original size:22 final size:19
Alignment explanation
Indices: 15574540--15574586 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 19
15574530 TCTTTTTATA
15574540 ATTTTTTGAATATTGTATACAT
1 ATTTTTTGAATATT-T-TA-AT
15574562 ATTTTTT-ATATATTTTAAT
1 ATTTTTTGA-ATATTTTAAT
15574581 ATTTTT
1 ATTTTT
15574587 AAATTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 8 0.33
20 2 0.08
21 2 0.08
22 12 0.50
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (19 bp):
ATTTTTTGAATATTTTAAT
Found at i:15578127 original size:13 final size:14
Alignment explanation
Indices: 15578104--15578132 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15578094 CTAATTTTAA
15578104 TATTATTAATATTT
1 TATTATTAATATTT
15578118 TATT-TTAATATTT
1 TATTATTAATATTT
15578131 TA
1 TA
15578133 AAAATACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTAATATTT
Found at i:15587390 original size:46 final size:46
Alignment explanation
Indices: 15587340--15587428 Score: 178
Period size: 46 Copynumber: 1.9 Consensus size: 46
15587330 CATAGAATGA
15587340 GTTTGGCATAGAGAGAGACTCAAACCTAAGATCTAAGAGTTGAGAG
1 GTTTGGCATAGAGAGAGACTCAAACCTAAGATCTAAGAGTTGAGAG
15587386 GTTTGGCATAGAGAGAGACTCAAACCTAAGATCTAAGAGTTGA
1 GTTTGGCATAGAGAGAGACTCAAACCTAAGATCTAAGAGTTGA
15587429 CTGACCTCTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.22
Consensus pattern (46 bp):
GTTTGGCATAGAGAGAGACTCAAACCTAAGATCTAAGAGTTGAGAG
Found at i:15591609 original size:21 final size:22
Alignment explanation
Indices: 15591583--15591623 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
15591573 ACTATTTTTA
15591583 TTAAAAA-TTAATTTTAATCCC
1 TTAAAAATTTAATTTTAATCCC
15591604 TTAAAAATTTAATTTTAATC
1 TTAAAAATTTAATTTTAATC
15591624 TCACATTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (22 bp):
TTAAAAATTTAATTTTAATCCC
Found at i:15591884 original size:70 final size:70
Alignment explanation
Indices: 15591766--15591937 Score: 210
Period size: 70 Copynumber: 2.5 Consensus size: 70
15591756 TATAAATATT
* *
15591766 TTTTTCCCTATTTTCA-TAAAAAATTTAATTTTAATCCCACATTAACTAGAGAATACTCAT-ATA
1 TTTTTCACTATTTTCATTAAAAAAATTAATTTTAATCCCACATTAACTAGAGAATACTC-TCATA
15591829 GCTCAC
65 GCTCAC
* * * *
15591835 TTTTTCACTATTTTTATTGAAAAAAATT-ATTTTAATCTCTCATTGACTAGAGAATACTCTCATA
1 TTTTTCACTATTTTCATT-AAAAAAATTAATTTTAATCCCACATTAACTAGAGAATACTCTCATA
*
15591899 GTTCAC
65 GCTCAC
* *
15591905 TTCTTCACTAATTTCATT--AAAAATTAATTTTAA
1 TTTTTCACTATTTTCATTAAAAAAATTAATTTTAA
15591938 CTAGAGAATA
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
67 7 0.08
68 7 0.08
69 15 0.17
70 52 0.58
71 8 0.09
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.43
Consensus pattern (70 bp):
TTTTTCACTATTTTCATTAAAAAAATTAATTTTAATCCCACATTAACTAGAGAATACTCTCATAG
CTCAC
Found at i:15594506 original size:2 final size:2
Alignment explanation
Indices: 15594499--15594525 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15594489 ATAACCATAA
15594499 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
15594526 AATTATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15594830 original size:2 final size:2
Alignment explanation
Indices: 15594823--15594850 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15594813 ATCGTTTGTG
15594823 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15594851 CTCATTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15595382 original size:41 final size:41
Alignment explanation
Indices: 15595293--15595395 Score: 125
Period size: 41 Copynumber: 2.5 Consensus size: 41
15595283 TGATTCGATA
* * * *
15595293 CACCGGCTTTTAGCCTGCTAGACCTATAGTCCGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
* * * * *
15595334 CATCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
15595375 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
15595396 GCACATAGCC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
Found at i:15596068 original size:2 final size:2
Alignment explanation
Indices: 15596061--15596092 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15596051 ATAGATTTCC
15596061 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15596093 TCTAGTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15597054 original size:13 final size:13
Alignment explanation
Indices: 15597036--15597060 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15597026 TCAAGCTATC
15597036 AAATTTTCACACG
1 AAATTTTCACACG
15597049 AAATTTTCACAC
1 AAATTTTCACAC
15597061 ATATAACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:15597703 original size:66 final size:67
Alignment explanation
Indices: 15597619--15597799 Score: 185
Period size: 67 Copynumber: 2.7 Consensus size: 67
15597609 TCTTCACCGT
* * * * *
15597619 TTTTC-TTAAAAAAGTTAATTTTAATCT-CATATTGACTAGATAATACTCTTATATCTCA-CTTC
1 TTTTCATTAAAAAA-TTAATTTTAATCTCCACACTGACTAGAGAATACTC-GATAACTCATCTTC
15597681 ACTA
64 ACTA
*
15597685 TTTTCATTAAAAAATTAATTTTAAT-TCCACACTGATTAGAGAATACTCGATAACTCACTTCTTC
1 TTTTCATTAAAAAATTAATTTTAATCTCCACACTGACTAGAGAATACTCGATAACTCA--TCTTC
15597749 ACTA
64 ACTA
* * * * *
15597753 GTTTCATTAAAAAA-TAATTTTAATC-CCTCATTGGCTAGAGAACACTC
1 TTTTCATTAAAAAATTAATTTTAATCTCCACACTGACTAGAGAATACTC
15597800 TCATGCTCCA
Statistics
Matches: 97, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
65 8 0.08
66 33 0.34
67 35 0.36
68 21 0.22
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (67 bp):
TTTTCATTAAAAAATTAATTTTAATCTCCACACTGACTAGAGAATACTCGATAACTCATCTTCAC
TA
Found at i:15598816 original size:30 final size:30
Alignment explanation
Indices: 15598782--15598844 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
15598772 GATTAGGGGG
* *
15598782 TTGGGAGGAGAG-GGGAGGGGAGTAAAAGTT
1 TTGGGAGGAAAGTGGGA-AGGAGTAAAAGTT
* *
15598812 TTGGGGGGAAAGTGGGAATGAGTAAAAGTT
1 TTGGGAGGAAAGTGGGAAGGAGTAAAAGTT
15598842 TTG
1 TTG
15598845 AGGGAAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.30, C:0.00, G:0.48, T:0.22
Consensus pattern (30 bp):
TTGGGAGGAAAGTGGGAAGGAGTAAAAGTT
Found at i:15598917 original size:9 final size:9
Alignment explanation
Indices: 15598903--15598939 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
15598893 TATAGTTTGA
15598903 TATTCGAAT
1 TATTCGAAT
15598912 TATTCGAAT
1 TATTCGAAT
*
15598921 TATTCGAGT
1 TATTCGAAT
15598930 TATTCGAAT
1 TATTCGAAT
15598939 T
1 T
15598940 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:15599017 original size:9 final size:9
Alignment explanation
Indices: 15598993--15599022 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15598983 TCGAGTTGAT
15598993 TCGAATAAC
1 TCGAATAAC
15599002 TCG-ATAAC
1 TCGAATAAC
15599010 TCGAATAAC
1 TCGAATAAC
15599019 TCGA
1 TCGA
15599023 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (9 bp):
TCGAATAAC
Found at i:15601171 original size:18 final size:19
Alignment explanation
Indices: 15601150--15601189 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
15601140 AATAATAAAT
15601150 TTTAATATAAGAT-ATTTA
1 TTTAATATAAGATAATTTA
* *
15601168 TTTAATATTATATAATTTA
1 TTTAATATAAGATAATTTA
15601187 TTT
1 TTT
15601190 TTATTATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTAATATAAGATAATTTA
Found at i:15606167 original size:35 final size:35
Alignment explanation
Indices: 15606118--15606188 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
15606108 GTCAATCTAG
*
15606118 AGGTAAAGATAGATGCCGAGACAAATGGCGGAGAT
1 AGGTAAAGACAGATGCCGAGACAAATGGCGGAGAT
*
15606153 AGGTAAAGACAGATGCCGAGACAAATGGTGGAGAT
1 AGGTAAAGACAGATGCCGAGACAAATGGCGGAGAT
15606188 A
1 A
15606189 CCGACCTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.41, C:0.11, G:0.34, T:0.14
Consensus pattern (35 bp):
AGGTAAAGACAGATGCCGAGACAAATGGCGGAGAT
Found at i:15608136 original size:21 final size:21
Alignment explanation
Indices: 15608104--15608144 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
15608094 AGGCTCGAGG
15608104 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
15608125 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
15608145 CCATATGCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:15610463 original size:50 final size:50
Alignment explanation
Indices: 15610348--15610596 Score: 291
Period size: 50 Copynumber: 4.8 Consensus size: 50
15610338 GATAATAACA
* * ** * *
15610348 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
15610399 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
15610449 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
15610499 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTC---TCATC-T-CGG
* *
15610554 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
15610597 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
50 92 0.54
51 33 0.19
53 4 0.02
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:15610534 original size:100 final size:104
Alignment explanation
Indices: 15610347--15610596 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 104
15610337 TGATAATAAC
** * *
15610347 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
15610412 TCCCAGACATGGTCTTATAGGGGACCTC-TCATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
* *
15610449 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
*
15610513 CCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACCTC-T-TCATCTTAAGG
* *
15610554 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
15610597 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
100 48 0.37
101 36 0.27
103 4 0.03
104 1 0.01
105 2 0.02
106 40 0.31
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
Found at i:15610712 original size:13 final size:13
Alignment explanation
Indices: 15610691--15610722 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15610681 GCTTGGATCA
*
15610691 TCATCAAATAAAT
1 TCATAAAATAAAT
15610704 TCATAAAATAAAT
1 TCATAAAATAAAT
15610717 TCATAA
1 TCATAA
15610723 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:15610938 original size:33 final size:33
Alignment explanation
Indices: 15610896--15610959 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
15610886 AATTTAACTT
*
15610896 ATTTAATACTCACATTCATCAAAACAGCCCTCG
1 ATTTAATACTCACATTCAACAAAACAGCCCTCG
15610929 ATTTAATACTCACATTCAACAAAACAGCCCT
1 ATTTAATACTCACATTCAACAAAACAGCCCT
15610960 TGACTCTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.39, C:0.30, G:0.05, T:0.27
Consensus pattern (33 bp):
ATTTAATACTCACATTCAACAAAACAGCCCTCG
Found at i:15617891 original size:50 final size:50
Alignment explanation
Indices: 15617776--15618024 Score: 291
Period size: 50 Copynumber: 4.8 Consensus size: 50
15617766 GATAATAACA
* * ** * *
15617776 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
15617827 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
15617877 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
15617927 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTC---TCATC-T-CGG
* *
15617982 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
15618025 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
50 92 0.54
51 33 0.19
53 4 0.02
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:15617962 original size:100 final size:104
Alignment explanation
Indices: 15617775--15618024 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 104
15617765 TGATAATAAC
** * *
15617775 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
15617840 TCCCAGACATGGTCTTATAGGGGACCTC-TCATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
* *
15617877 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
*
15617941 CCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACCTC-T-TCATCTTAAGG
* *
15617982 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
15618025 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
100 48 0.37
101 36 0.27
103 4 0.03
104 1 0.01
105 2 0.02
106 40 0.31
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
Found at i:15623034 original size:25 final size:24
Alignment explanation
Indices: 15622982--15623033 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
15622972 TTGAATATTA
*
15622982 TTTAATATTTTTTATTTTATGTAAT
1 TTTAATAATTTTTATTTTA-GTAAT
15623007 TTTAATTAATTTTTATTTTA-TAAT
1 TTTAA-TAATTTTTATTTTAGTAAT
15623031 TTT
1 TTT
15623034 TTATAACAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 5 0.20
26 13 0.52
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTAATAATTTTTATTTTAGTAAT
Found at i:15623035 original size:26 final size:26
Alignment explanation
Indices: 15622959--15623036 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 26
15622949 ACGGTATGGG
*
15622959 TTAATTTTAATTTT-TGAATATTATTTAA
1 TTAATTTTTATTTTAT-AAT-TT-TTTAA
*
15622987 -TATTTTTTATTTTATGTAA--TTTTAA
1 TTAATTTTTATTTTA--TAATTTTTTAA
15623012 TTAATTTTTATTTTATAATTTTTTA
1 TTAATTTTTATTTTATAATTTTTTA
15623037 TAACAGTCTG
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
24 3 0.07
25 5 0.12
26 19 0.46
27 11 0.27
29 2 0.05
30 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (26 bp):
TTAATTTTTATTTTATAATTTTTTAA
Found at i:15624585 original size:18 final size:18
Alignment explanation
Indices: 15624562--15624596 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15624552 GTCAGGTGCG
*
15624562 TATCCTAGCCCTTATATA
1 TATCCTAACCCTTATATA
*
15624580 TATCCTAACCTTTATAT
1 TATCCTAACCCTTATAT
15624597 GTTTCTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:15628191 original size:126 final size:126
Alignment explanation
Indices: 15627960--15628483 Score: 825
Period size: 126 Copynumber: 4.2 Consensus size: 126
15627950 TAACGCCAAA
* ** * *
15627960 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGTTGTCAGTGC
1 CAGGAACTACTGTAGAAAAAGAACGTCCACGAAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
* ** * * *
15628025 ATCTTGCTTGAAATGTTTTTGGCTCTATTTGTTTAGAACCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * *
15628086 CAGGAACTACTGTAGAAAAAGAATGTCCACGAATGAGCTTTTTTTATCAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAACGTCCACGAAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
* *
15628151 ATCCTGCTTGAAGCGTTTTTGACACCATTTGTTCAAAACCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
*
15628212 CAGGAACTACTGTAGAAAAAGAGCGTCCAC-ATAGGAGCTTTTTTCATCAATTTTGCTGACAGTG
1 CAGGAACTACTGTAGAAAAAGAACGTCCACGA-AGGAGCTTTTTTCATCAATTTTGCTGACAGTG
*
15628276 CATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTTTTCTCAAAATTATTTTTT
65 CATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * *
15628338 CAGGAACTACTGTAGAAAAAGAACATCCACGTAGGAGTTTTTTTCATCAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAACGTCCACGAAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
* *
15628403 ATCCTGCTTGAAGCGTTTTTGATACTATTTGTTCAGAACCATCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
15628464 CAGGAACTACTGTAGAAAAA
1 CAGGAACTACTGTAGAAAAA
15628484 AAAATCCTTA
Statistics
Matches: 366, Mismatches: 30, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
125 1 0.00
126 365 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAGAACGTCCACGAAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:15628633 original size:38 final size:38
Alignment explanation
Indices: 15628541--15628646 Score: 123
Period size: 34 Copynumber: 2.9 Consensus size: 38
15628531 ACAAAGTTAT
*
15628541 TTTAAAAATCCTAAACCCTAATTTAATTAATTTTCTTA
1 TTTAAAACTCCTAAACCCTAATTTAATTAATTTTCTTA
* * *
15628579 ---AAAACT-CTACACCCTAATTTTATTTATTTAT-TTA
1 TTTAAAACTCCTAAACCCTAATTTAATTAATTT-TCTTA
*
15628613 TTTAAAACTCCTAAAACCTAATTTAATTAATTTT
1 TTTAAAACTCCTAAACCCTAATTTAATTAATTTT
15628647 AAAAAAACAC
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
34 23 0.42
35 6 0.11
37 7 0.13
38 19 0.35
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (38 bp):
TTTAAAACTCCTAAACCCTAATTTAATTAATTTTCTTA
Found at i:15640456 original size:13 final size:13
Alignment explanation
Indices: 15640438--15640481 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
15640428 ACACACACAC
15640438 ATATATATATATT
1 ATATATATATATT
*
15640451 ATATATATATTTT
1 ATATATATATATT
15640464 ATATATATATA-T
1 ATATATATATATT
15640476 ATATAT
1 ATATAT
15640482 CGCAGCGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 7 0.24
13 22 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATATATATATT
Found at i:15640497 original size:2 final size:2
Alignment explanation
Indices: 15640438--15640481 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
15640428 ACACACACAC
*
15640438 AT AT AT AT AT AT -T AT AT AT AT AT -T TT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15640478 AT AT
1 AT AT
15640482 CGCAGCGCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:15640533 original size:2 final size:2
Alignment explanation
Indices: 15640528--15640609 Score: 164
Period size: 2 Copynumber: 41.0 Consensus size: 2
15640518 ACTTTTTTCC
15640528 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15640570 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15640610 ACTTGATAAG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 80 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15641516 original size:14 final size:15
Alignment explanation
Indices: 15641497--15641529 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15641487 GGGGCAAAGC
*
15641497 TAAAAAT-CTTGAAT
1 TAAAAATGCTTAAAT
15641511 TAAAAATGCTTAAAT
1 TAAAAATGCTTAAAT
15641526 TAAA
1 TAAA
15641530 TTATTAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (15 bp):
TAAAAATGCTTAAAT
Found at i:15642392 original size:196 final size:196
Alignment explanation
Indices: 15642058--15642421 Score: 649
Period size: 196 Copynumber: 1.9 Consensus size: 196
15642048 TAGAATATAG
* * *
15642058 AATTTAAATCCATTTTCGAACTTTAATTATTTAATTAAATAATAATTCAAAAAACTTAAATTAAT
1 AATTTAAATCCATTTTCGAACTTCAATTATTAAATTAAATAATAATTCAAAAAAATTAAATTAAT
*
15642123 TCTCAGGTCATTTCTATACTAAGTGAGAAACCACATTCATTTCCGAATGTAACCCATTTCTCTAA
66 TCTCAGGTCATTTCCATACTAAGTGAGAAACCACATTCATTTCCGAATGTAACCCATTTCTCTAA
15642188 CTTTATCATTTCTATCCATTTTTGTTCATTTGATTCATCATTCAACAGATTTCATAATGACCAAT
131 CTTTATCATTTCTATCCATTTTTGTTCATTTGATTCATCATTCAACAGATTTCATAATGACCAAT
15642253 T
196 T
*
15642254 AATTTAATTCCATTTTCGAACTTCAATTATTAAATTAAATAATAATT-AAAAAAATGTAAATTAA
1 AATTTAAATCCATTTTCGAACTTCAATTATTAAATTAAATAATAATTCAAAAAAAT-TAAATTAA
* *
15642318 TTCTTAGGTCATTTCCATAGTAAGTGAGAAACCACATTCATTTCCGAATGTAACCCATTTCTCTA
65 TTCTCAGGTCATTTCCATACTAAGTGAGAAACCACATTCATTTCCGAATGTAACCCATTTCTCTA
15642383 ACTTTATCATTTCTATCCATTTTTGTTCATTTGATTCAT
130 ACTTTATCATTTCTATCCATTTTTGTTCATTTGATTCAT
15642422 TATGCAATTC
Statistics
Matches: 160, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
195 7 0.04
196 153 0.96
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (196 bp):
AATTTAAATCCATTTTCGAACTTCAATTATTAAATTAAATAATAATTCAAAAAAATTAAATTAAT
TCTCAGGTCATTTCCATACTAAGTGAGAAACCACATTCATTTCCGAATGTAACCCATTTCTCTAA
CTTTATCATTTCTATCCATTTTTGTTCATTTGATTCATCATTCAACAGATTTCATAATGACCAAT
T
Found at i:15645444 original size:22 final size:22
Alignment explanation
Indices: 15645417--15645460 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
15645407 ATAACTCTAT
15645417 ACATGTCATTTATAACCTTTTC
1 ACATGTCATTTATAACCTTTTC
15645439 ACATGTCATTTATAACCTTTTC
1 ACATGTCATTTATAACCTTTTC
15645461 CATATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.05, T:0.45
Consensus pattern (22 bp):
ACATGTCATTTATAACCTTTTC
Found at i:15647523 original size:41 final size:41
Alignment explanation
Indices: 15647450--15647609 Score: 135
Period size: 41 Copynumber: 3.9 Consensus size: 41
15647440 CAATGAGATA
*
15647450 ATTCAGACTTTACGTCTAGCAGGCT-TGATGCCGGTGAAATG
1 ATTCAGACTTTACGTCTAGCAGGCTAAG-TGCCGGTGAAATG
* **
15647491 TTTCAGACTTTACGTCTAGCAGGCTAAGTGCCGGTGATCTG
1 ATTCAGACTTTACGTCTAGCAGGCTAAGTGCCGGTGAAATG
* * * * * * *
15647532 AATCAGGCTATAAGCCTAGTAGGCTAAGTGCCGGTGATATG
1 ATTCAGACTTTACGTCTAGCAGGCTAAGTGCCGGTGAAATG
* * *** *
15647573 AATCAG-GTTATAAACCTAGCAGGCTAAGTGCTGGTGA
1 ATTCAGACTT-TACGTCTAGCAGGCTAAGTGCCGGTGA
15647610 TCTGAAGATG
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
40 1 0.01
41 98 0.98
42 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (41 bp):
ATTCAGACTTTACGTCTAGCAGGCTAAGTGCCGGTGAAATG
Found at i:15647610 original size:41 final size:41
Alignment explanation
Indices: 15647506--15647615 Score: 175
Period size: 41 Copynumber: 2.7 Consensus size: 41
15647496 GACTTTACGT
*
15647506 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
* * *
15647547 CTAGTAGGCTAAGTGCCGGTGATATGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
*
15647588 CTAGCAGGCTAAGTGCTGGTGATCTGAA
1 CTAGCAGGCTAAGTGCCGGTGATCTGAA
15647616 GATGTTAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:15649223 original size:91 final size:90
Alignment explanation
Indices: 15649068--15649556 Score: 611
Period size: 91 Copynumber: 5.4 Consensus size: 90
15649058 TAATGATTGA
* * * * * *
15649068 AGGATGCCAGAGTGTCTTTCGACCATAGTTTTATTCAATTTTCGATATGATGTCATAGTATCTTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTC-ATTTTCGATATGATGCCATAGTGTCTTT
*
15649133 CAACCATGGTCTTTTTCATTTTCAAT
65 CAACCATGGTCTTATTCATTTTCAAT
* * *
15649159 AGGATGCCACAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAGGATTGCCATAATGTCTTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATATGA-TGCCATAGTGTCTTT
*
15649224 CAACCATGGTCTTATTCATTTTCGAT
65 CAACCATGGTCTTATTCATTTTCAAT
* * * *
15649250 AGGATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTCCGATATGATGTCATAGTGTCTTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCA-TTTTCGATATGATGCCATAGTGTCTTT
*
15649315 CAACCATGGTTTTATTCATTTTCTAAT
65 CAACCATGGTCTTATTCATTTTC-AAT
* *
15649342 ATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCAATATGATGCCATAGTGTCTTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT-CGATATGATGCCATAGTGTCTTT
*
15649407 CAACCATGGTCTTATTCATTTTCCGAT
65 CAACCATGGTCTTATTCATTTT-CAAT
* * * * *
15649434 ATGATGCCATAATATCTTTCAACCATGGTCTTATTCATTTTCGATAGGATGCCATAGTGTTTTTC
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATATGATGCCATAGTGTCTTTC
* * * *
15649499 AACTATGGTCTTACTCA-TCTGAAT
66 AACCATGGTCTTATTCATTTTCAAT
* ** * *
15649523 CATGATGCCATAACGTCTTTCAGCTATGGTCTTA
1 -AGGATGCCATAGTGTCTTTCAACCATGGTCTTA
15649557 CTCGTTTGAA
Statistics
Matches: 351, Mismatches: 41, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
89 2 0.01
90 43 0.12
91 176 0.50
92 129 0.37
93 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (90 bp):
AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATATGATGCCATAGTGTCTTTC
AACCATGGTCTTATTCATTTTCAAT
Found at i:15649230 original size:46 final size:45
Alignment explanation
Indices: 15649070--15649556 Score: 609
Period size: 46 Copynumber: 10.7 Consensus size: 45
15649060 ATGATTGAAG
* * * *
15649070 GATGCCAGAGTGTCTTTCGACCATAGTTTTATTCAATTTTCGATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTC-ATTTTCGATAT
* * * * *
15649116 GATGTCATAGTATCTTTCAACCATGGTCTTTTTCATTTTCAATAG
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
* *
15649161 GATGCCACAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAG
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
* *
15649206 GATTGCCATAATGTCTTTCAACCATGGTCTTATTCATTTTCGATAG
1 GA-TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
* * *
15649252 GATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTCCGATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCA-TTTTCGATAT
* * *
15649298 GATGTCATAGTGTCTTTCAACCATGGTTTTATTCATTTTCTAATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTC-GATAT
*
15649344 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCAATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT-CGATAT
15649390 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT-CGATAT
* * *
15649436 GATGCCATAATATCTTTCAACCATGGTCTTATTCATTTTCGATAG
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
* * * *
15649481 GATGCCATAGTGTTTTTCAACTATGGTCTTACTCA-TCT-GAATCAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCG-AT-AT
** * *
15649526 GATGCCATAACGTCTTTCAGCTATGGTCTTA
1 GATGCCATAGTGTCTTTCAACCATGGTCTTA
15649557 CTCGTTTGAA
Statistics
Matches: 391, Mismatches: 44, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
43 1 0.00
44 4 0.01
45 148 0.38
46 237 0.61
47 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (45 bp):
GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
Found at i:15654667 original size:68 final size:69
Alignment explanation
Indices: 15654537--15654671 Score: 191
Period size: 68 Copynumber: 2.0 Consensus size: 69
15654527 TGATTAAACT
* * * *
15654537 TAATCACTATAATATTAAATTAGTATAATATTTATAAAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTATAATATTAAATTAATAAAATATCTATAAAGATAAATATTAAATTAAATTTAATATT
15654602 AAGA
66 AAGA
* * * *
15654606 TAATCACTTTAATATTAAATTAATAAAATA-CTATTAAGATAAGTATTAAATTTAATTTAATATT
1 TAATCACTATAATATTAAATTAATAAAATATCTATAAAGATAAATATTAAATTAAATTTAATATT
15654670 AA
66 AA
15654672 ACTATTAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 31 0.53
69 27 0.47
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (69 bp):
TAATCACTATAATATTAAATTAATAAAATATCTATAAAGATAAATATTAAATTAAATTTAATATT
AAGA
Found at i:15655453 original size:15 final size:15
Alignment explanation
Indices: 15655433--15655465 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
15655423 TCAATCATGG
15655433 AGTCAGTCTACAAGA
1 AGTCAGTCTACAAGA
15655448 AGTCAGTCTACAAGA
1 AGTCAGTCTACAAGA
15655463 AGT
1 AGT
15655466 ACAATGATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (15 bp):
AGTCAGTCTACAAGA
Found at i:15663115 original size:28 final size:28
Alignment explanation
Indices: 15663080--15663145 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
15663070 TAAAAAAATA
***
15663080 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAAAAATTTTTTATTT
15663108 ACCAAAATATTATAAAAATTTTTTATTT
1 ACCAAAATATTATAAAAATTTTTTATTT
15663136 ACCAAAATAT
1 ACCAAAATAT
15663146 ACCAAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.45
Consensus pattern (28 bp):
ACCAAAATATTATAAAAATTTTTTATTT
Found at i:15663152 original size:28 final size:28
Alignment explanation
Indices: 15663080--15663153 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
15663070 TAAAAAAATA
* ***
15663080 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTACAAAAATTTTTTATTT
*
15663108 ACCAAAATATTATAAAAATTTTTTATTT
1 ACCAAAATATTACAAAAATTTTTTATTT
15663136 ACCAAAATA-TACCAAAAA
1 ACCAAAATATTA-CAAAAA
15663154 AATAGAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 2 0.05
28 39 0.95
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (28 bp):
ACCAAAATATTACAAAAATTTTTTATTT
Found at i:15663232 original size:27 final size:27
Alignment explanation
Indices: 15663200--15663272 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
15663190 AATCACATTG
*
15663200 GAGGCACCAAAGGTGCCAATGAGATTA
1 GAGGCACCAATGGTGCCAATGAGATTA
* *
15663227 GTGGCACCAATGGTGCCAATGAGATTG
1 GAGGCACCAATGGTGCCAATGAGATTA
*
15663254 GAGGCACCAATTGTGCCAA
1 GAGGCACCAATGGTGCCAA
15663273 AGGACTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.32, C:0.21, G:0.30, T:0.18
Consensus pattern (27 bp):
GAGGCACCAATGGTGCCAATGAGATTA
Found at i:15664441 original size:27 final size:27
Alignment explanation
Indices: 15664402--15664460 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
15664392 TTTTAGTCCT
15664402 TTGGCACCATTGGTGCCGCCAATCTCA
1 TTGGCACCATTGGTGCCGCCAATCTCA
* * * *
15664429 TTGGCACCTTTGGTGCCTCCAATGTGA
1 TTGGCACCATTGGTGCCGCCAATCTCA
15664456 TTGGC
1 TTGGC
15664461 CTGATCAGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.29, G:0.25, T:0.31
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCTCA
Found at i:15664526 original size:28 final size:27
Alignment explanation
Indices: 15664503--15664564 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
15664493 TTTTTTTGGT
15664503 ATATTTTGATAAATAAAAAATTTTATA
1 ATATTTTGATAAATAAAAAATTTTATA
**
15664530 ATATTTTGATAAATAAAAAAAGTTATA
1 ATATTTTGATAAATAAAAAATTTTATA
15664557 ATATTTTG
1 ATATTTTG
15664565 GTTATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (27 bp):
ATATTTTGATAAATAAAAAATTTTATA
Done.