Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 259 of 311
Found at i:86209256 original size:40 final size:41
Alignment explanation
Indices: 86208988--86209243 Score: 399
Period size: 41 Copynumber: 6.3 Consensus size: 41
86208978 CGTTTTTGGT
*
86208988 AAAACGCCGCTATTGCTTTGTTTTTTAGCGGCGCTTTGCCA
1 AAAACGCCGCTATTGCTCTGTTTTTTAGCGGCGCTTTGCCA
* *
86209029 AAAACGCCGCTATTGCTCTGTTTTTTAGCGGTGCTTTGACA
1 AAAACGCCGCTATTGCTCTGTTTTTTAGCGGCGCTTTGCCA
86209070 AAAACGCCGCTATTGCTCTGTTTTTTAGCGGCGCTTTGCCA
1 AAAACGCCGCTATTGCTCTGTTTTTTAGCGGCGCTTTGCCA
** * *
86209111 AAAATACCGCTATTGCTCT-ATTTTTAGCGGAGCTTTGCCA
1 AAAACGCCGCTATTGCTCTGTTTTTTAGCGGCGCTTTGCCA
*
86209151 AAAACGCCGCTATTGCTCTATTTTTTAGCGGCGCTTTGCCA
1 AAAACGCCGCTATTGCTCTGTTTTTTAGCGGCGCTTTGCCA
* * *
86209192 AAAATGCCGCTATTGCTCT-ATTTTTAGCGGCGTTTTGCCA
1 AAAACGCCGCTATTGCTCTGTTTTTTAGCGGCGCTTTGCCA
86209232 AAAACGCCGCTA
1 AAAACGCCGCTA
86209244 ATGTATAATT
Statistics
Matches: 197, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
40 66 0.34
41 131 0.66
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (41 bp):
AAAACGCCGCTATTGCTCTGTTTTTTAGCGGCGCTTTGCCA
Found at i:86213077 original size:20 final size:20
Alignment explanation
Indices: 86213036--86213080 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
86213026 TCTTTAAAAA
* **
86213036 AATAC-ATAATTATTCATTT
1 AATACTATAACTATTCAAAT
86213055 AATACTATAACTATTCAAAT
1 AATACTATAACTATTCAAAT
86213075 AATACT
1 AATACT
86213081 GTTTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (20 bp):
AATACTATAACTATTCAAAT
Found at i:86217993 original size:21 final size:21
Alignment explanation
Indices: 86217968--86218007 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
86217958 TGTACTAAAA
86217968 ATAATAAACAACATTATATAT
1 ATAATAAACAACATTATATAT
* * *
86217989 ATAATCAACATCTTTATAT
1 ATAATAAACAACATTATAT
86218008 TGCTTATAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAATAAACAACATTATATAT
Found at i:86219638 original size:7 final size:7
Alignment explanation
Indices: 86219626--86219688 Score: 58
Period size: 7 Copynumber: 8.9 Consensus size: 7
86219616 ACCTTATTTT
86219626 TATATTA
1 TATATTA
86219633 TATATTA
1 TATATTA
86219640 TA-ATTA
1 TATATTA
*
86219646 TTTTATTA
1 -TATATTA
86219654 TATATTA
1 TATATTA
86219661 TTTATATTA
1 --TATATTA
86219670 T-TATTA
1 TATATTA
* *
86219676 TCTATTG
1 TATATTA
86219683 TATATT
1 TATATT
86219689 GTTTTTCACA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
6 10 0.21
7 26 0.55
8 4 0.09
9 7 0.15
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (7 bp):
TATATTA
Found at i:86219657 original size:16 final size:16
Alignment explanation
Indices: 86219628--86219676 Score: 68
Period size: 15 Copynumber: 3.2 Consensus size: 16
86219618 CTTATTTTTA
86219628 TATTATATATTATA-AT
1 TATT-TATATTATATAT
86219644 TATTT-TATTATATAT
1 TATTTATATTATATAT
86219659 TATTTATATTAT-TAT
1 TATTTATATTATATAT
86219674 TAT
1 TAT
86219677 CTATTGTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.23
15 14 0.45
16 10 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTATATTATATAT
Found at i:86219681 original size:19 final size:18
Alignment explanation
Indices: 86219619--86219688 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 18
86219609 TTTTTTAACC
86219619 TTATT-TTTATATTATATA
1 TTATTATTTATATTAT-TA
* *
86219637 TTA-TAATTATTTTATTA
1 TTATTATTTATATTATTA
86219654 TATATTATTTATATTATTA
1 T-TATTATTTATATTATTA
86219673 TTATCTATTGTATATT
1 TTAT-TATT-TATATT
86219689 GTTTTTCACA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 4 0.09
18 16 0.37
19 17 0.40
20 6 0.14
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:86219786 original size:20 final size:20
Alignment explanation
Indices: 86219721--86219788 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 20
86219711 ACATTATTAC
86219721 TTATATATTATTATGTTTTTACT
1 TTATATA-TATTATG-TTTTA-T
*
86219744 TGTATTATATATTTAT-TAATTAT
1 T-TA-TATATA-TTATGT-TTTAT
86219767 TTATATATATTATGTTTTAT
1 TTATATATATTATGTTTTAT
86219787 TT
1 TT
86219789 TTTTGCATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
20 10 0.26
21 7 0.18
22 2 0.05
23 4 0.11
24 7 0.18
25 8 0.21
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (20 bp):
TTATATATATTATGTTTTAT
Found at i:86220149 original size:17 final size:18
Alignment explanation
Indices: 86220129--86220188 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
86220119 TTAAAAACCA
86220129 ATATATTTTTATT-TTTT
1 ATATATTTTTATTCTTTT
*
86220146 ATATAATTATTATTCTTTT
1 ATAT-ATTTTTATTCTTTT
* *
86220165 GTA-ATTTTT-TTGTTATT
1 ATATATTTTTATTCTT-TT
86220182 ATATATT
1 ATATATT
86220189 GTATATTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
16 4 0.12
17 13 0.38
18 11 0.32
19 6 0.18
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (18 bp):
ATATATTTTTATTCTTTT
Found at i:86223478 original size:28 final size:28
Alignment explanation
Indices: 86223425--86223508 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
86223415 CACTTTGTGC
86223425 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
86223454 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
86223482 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
86223509 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:86223520 original size:23 final size:24
Alignment explanation
Indices: 86223429--86223522 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 24
86223419 TTGTGCTATT
86223429 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
86223456 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
86223486 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
86223509 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
86223523 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
23 17 0.29
24 1 0.02
25 2 0.03
28 18 0.31
29 14 0.24
30 5 0.08
31 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:86223743 original size:23 final size:23
Alignment explanation
Indices: 86223713--86223799 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 23
86223703 GCTTTACTGA
*
86223713 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
* * *
86223736 TCAGGCACCTTGTGTGTCGCA-G
1 TCAGGCACCTTATGTGTCGTATT
**
86223758 T-AGGCACCTCGTGTGTCG--TT
1 TCAGGCACCTTATGTGTCGTATT
86223778 TCAGGCA-CTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
86223800 CTGATCAGGT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 10 0.19
21 21 0.40
22 3 0.06
23 18 0.35
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:86236292 original size:16 final size:16
Alignment explanation
Indices: 86236261--86236320 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 16
86236251 ACCTTACTTT
86236261 TATATTA-TT-TATTA
1 TATATTATTTATATTA
86236275 TA-ATTATTT-TATTA
1 TATATTATTTATATTA
86236289 TATATTATTTATATTA
1 TATATTATTTATATTA
86236305 T-TATCTATTGTATATT
1 TATAT-TATT-TATATT
86236321 GTTTTTCACA
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.10
14 11 0.27
15 10 0.24
16 10 0.24
17 6 0.15
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (16 bp):
TATATTATTTATATTA
Found at i:86236305 original size:19 final size:19
Alignment explanation
Indices: 86236259--86236313 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
86236249 TAACCTTACT
86236259 TTTATATTATT-TAT-TATA
1 TTTATATTATTATATAT-TA
* *
86236277 ATTATTTTATTATATATTA
1 TTTATATTATTATATATTA
*
86236296 TTTATATTATTATCTATT
1 TTTATATTATTATATATT
86236314 GTATATTGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 9 0.30
19 20 0.67
20 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTATATTATTATATATTA
Found at i:86236722 original size:19 final size:20
Alignment explanation
Indices: 86236695--86236732 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
86236685 TATATATATA
86236695 TATTATATA-ATTATTTTAT
1 TATTATATACATTATTTTAT
* *
86236714 TATTTTATACATTCTTTTA
1 TATTATATACATTATTTTA
86236733 CATACTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTATATACATTATTTTAT
Found at i:86236722 original size:28 final size:27
Alignment explanation
Indices: 86236691--86236756 Score: 62
Period size: 28 Copynumber: 2.4 Consensus size: 27
86236681 TTTATATATA
*
86236691 TATATATTATATA-ATTATTTTATTATTT
1 TATATATTATATACA-TACTTT-TTATTT
* * *
86236719 TATACATTCTTTTACATACTTTTTATTT
1 TATATATT-ATATACATACTTTTTATTT
86236747 TATATATTAT
1 TATATATTAT
86236757 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
27 1 0.03
28 20 0.67
29 8 0.27
30 1 0.03
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (27 bp):
TATATATTATATACATACTTTTTATTT
Found at i:86241630 original size:38 final size:38
Alignment explanation
Indices: 86241574--86241653 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
86241564 GATGTGTATT
* * *
86241574 CGGGTTAAATCCTGCAGGCTTCA-TGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCAT-AGTGCTGGTATTATATC
*
86241612 CGGGATAAATCCCGCAGGCATAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCATAGTGCTGGTATTATATC
86241650 CGGG
1 CGGG
86241654 CCTTCGTGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCATAGTGCTGGTATTATATC
Found at i:86241770 original size:43 final size:43
Alignment explanation
Indices: 86241625--86241757 Score: 216
Period size: 43 Copynumber: 3.1 Consensus size: 43
86241615 GATAAATCCC
* * *
86241625 GCAGGCATAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
86241666 GCAGGCTTAGTGCCGGTGATGTGTATTCAGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
86241709 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
86241752 GCAGGC
1 GCAGGC
86241758 GTAATGCAGG
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
41 15 0.18
42 2 0.02
43 68 0.80
ACGTcount: A:0.14, C:0.23, G:0.33, T:0.29
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:86242162 original size:45 final size:44
Alignment explanation
Indices: 86242087--86242213 Score: 127
Period size: 45 Copynumber: 2.9 Consensus size: 44
86242077 TTGACTTGAT
* * **
86242087 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCTGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAGA-AC
* *
86242132 TATTCGGGCCTTCGAGCCTAGCAGGTTATAATGCCGGT--GAAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAGAAC
* *
86242174 TGATATCGGGCC-TCGAGCCTAACAGGCGA-AATGCTGGTGA
1 T-AT-TCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGA
86242214 TTTGAGAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
42 11 0.16
43 18 0.26
44 7 0.10
45 32 0.47
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (44 bp):
TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAGAAC
Found at i:86243313 original size:30 final size:30
Alignment explanation
Indices: 86243277--86243336 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
86243267 TATTTTATTA
*
86243277 TTAATTTTTTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
86243307 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
86243337 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.12, T:0.60
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:86250742 original size:45 final size:44
Alignment explanation
Indices: 86250676--86250789 Score: 165
Period size: 45 Copynumber: 2.5 Consensus size: 44
86250666 TATACGCTTA
* *
86250676 AAATGAGTAAGACTATAGCTGAAAGGTGCTATGACATCATGATT
1 AAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGATT
86250720 AAGATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGATAT
1 AA-ATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGAT-T
* * *
86250766 AAATGAGTAAAATCATGGCTGAAA
1 AAATGAGTAAGACCATAGCTGAAA
86250790 AACGGTTTGA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
44 2 0.03
45 58 0.92
46 3 0.05
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (44 bp):
AAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGATT
Found at i:86250801 original size:45 final size:45
Alignment explanation
Indices: 86250673--86250803 Score: 129
Period size: 45 Copynumber: 2.9 Consensus size: 45
86250663 GGCTATACGC
* * * ***
86250673 TTAAAATGAGTAAGACTATAGCTGAAAGGTGCTATGACATCATGA
1 TTAAGATGAGTAAAACCATAGCTGAAAAACGCTATGACATCATGA
* * *
86250718 TTAAGATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGA
1 TTAAGATGAGTAAAACCATAGCTGAAAAACGCTATGACATCATGA
* * * *
86250763 TATAA-ATGAGTAAAATCATGGCTGAAAAACGGTTTGACATC
1 T-TAAGATGAGTAAAACCATAGCTGAAAAACGCTATGACATC
86250804 CTAGTAATTC
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
45 72 0.96
46 3 0.04
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.26
Consensus pattern (45 bp):
TTAAGATGAGTAAAACCATAGCTGAAAAACGCTATGACATCATGA
Found at i:86250906 original size:27 final size:27
Alignment explanation
Indices: 86250876--86250988 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 27
86250866 TTATCATAGA
* * *
86250876 TAGTCTGATAGGACGTTAAACAGGAAG
1 TAGTCCGATAGGACGTTAAACACGAGG
* *
86250903 TAGTCCGA-CGAGACGTTAAACATGAGG
1 TAGTCCGATAG-GACGTTAAACACGAGG
* * *
86250930 TAGTCTGATATGATGTTAAACACGAGG
1 TAGTCCGATAGGACGTTAAACACGAGG
* * *
86250957 TAGTCCAACAGGACGTTAAACACGAGA
1 TAGTCCGATAGGACGTTAAACACGAGG
86250984 TAGTC
1 TAGTC
86250989 TAACGAGACA
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
26 1 0.01
27 68 0.99
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (27 bp):
TAGTCCGATAGGACGTTAAACACGAGG
Found at i:86250939 original size:54 final size:54
Alignment explanation
Indices: 86250873--86250989 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 54
86250863 ATGTTATCAT
* * *
86250873 AGATAGTCTGATAGGACGTTAAACAGGAAGTAGTCCGAC-GAGACGTTAAACATG
1 AGATAGTCTGATAGGACGTTAAACACGAAGTAGTCCAACAG-GACGTTAAACACG
* * * *
86250927 AGGTAGTCTGATATGATGTTAAACACGAGGTAGTCCAACAGGACGTTAAACACG
1 AGATAGTCTGATAGGACGTTAAACACGAAGTAGTCCAACAGGACGTTAAACACG
86250981 AGATAGTCT
1 AGATAGTCT
86250990 AACGAGACAT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
54 53 0.98
55 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.22
Consensus pattern (54 bp):
AGATAGTCTGATAGGACGTTAAACACGAAGTAGTCCAACAGGACGTTAAACACG
Found at i:86251002 original size:27 final size:27
Alignment explanation
Indices: 86250945--86251005 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
86250935 TGATATGATG
* *
86250945 TTAAACACGAGGTAGTCCAACAGGACG
1 TTAAACACGAGATAGTCCAACAGGACA
*
86250972 TTAAACACGAGATAGTCTAAC-GAGACA
1 TTAAACACGAGATAGTCCAACAG-GACA
86250999 TTAAACA
1 TTAAACA
86251006 AGGAATAGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.18
Consensus pattern (27 bp):
TTAAACACGAGATAGTCCAACAGGACA
Found at i:86252900 original size:68 final size:66
Alignment explanation
Indices: 86252828--86252977 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 66
86252818 CATCATGTGT
* * * *
86252828 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
86252891 TGTAG
62 TGTAG
** * *
86252896 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
86252961 AG
65 AG
86252963 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
86252978 GATAAACTTG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:86252933 original size:64 final size:64
Alignment explanation
Indices: 86252852--86253035 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
86252842 AGACATTATG
* * *
86252852 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
86252916 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
86252981 AA
63 AA
* * * *
86252983 ACT-T-GCTAGGCCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
86253036 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 20 0.20
67 32 0.33
68 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:86262023 original size:26 final size:26
Alignment explanation
Indices: 86261976--86262025 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
86261966 AAATAGTAAA
* *
86261976 TAAATAATATTTATCACAATGATAAT
1 TAAATAATAGTTATCAAAATGATAAT
86262002 TAAATAATAGTTAT-AAATATGATA
1 TAAATAATAGTTATCAAA-ATGATA
86262026 CTATTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (26 bp):
TAAATAATAGTTATCAAAATGATAAT
Found at i:86264183 original size:49 final size:49
Alignment explanation
Indices: 86264090--86264188 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
86264080 TATTCATTTA
86264090 TTTACTTATTTATTATTCATTCACTTTTTTTAATATTTAAAATTGGTTT
1 TTTACTTATTTATTATTCATTCACTTTTTTTAATATTTAAAATTGGTTT
86264139 TTTACTTATTTATTATTCATTCACTTTTTTTAATATTTAAAATTGGTTT
1 TTTACTTATTTATTATTCATTCACTTTTTTTAATATTTAAAATTGGTTT
86264188 T
1 T
86264189 CTATTTTCTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.26, C:0.08, G:0.04, T:0.62
Consensus pattern (49 bp):
TTTACTTATTTATTATTCATTCACTTTTTTTAATATTTAAAATTGGTTT
Found at i:86272576 original size:102 final size:102
Alignment explanation
Indices: 86272456--86272674 Score: 422
Period size: 102 Copynumber: 2.2 Consensus size: 102
86272446 CGCTAAAACT
86272456 CTTT-GCGGCGCTTTTACAAGCGCCACAAAAAAGGCCGCTATAGACGGCGCCACAAAAGTTTGCG
1 CTTTAGCGGCGCTTTTACAAGCGCCACAAAAAAGGCCGCTATAGACGGCGCCACAAAAGTTTGCG
86272520 GCGTTTATTTAAAAAAAACACCGCTAAAGGCCATGAC
66 GCGTTTATTTAAAAAAAACACCGCTAAAGGCCATGAC
86272557 CTTTAGCGGCGCTTTTACAAGCGCCACAAAAAAGGCCGCTATAGACGGCGCCACAAAAGTTTGCG
1 CTTTAGCGGCGCTTTTACAAGCGCCACAAAAAAGGCCGCTATAGACGGCGCCACAAAAGTTTGCG
*
86272622 GCGTTTATTTAAAAAAAACGCCGCTAAAGGCCATGAC
66 GCGTTTATTTAAAAAAAACACCGCTAAAGGCCATGAC
86272659 CTTTAGCGGCGCTTTT
1 CTTTAGCGGCGCTTTT
86272675 CCCACAAACG
Statistics
Matches: 116, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
101 4 0.03
102 112 0.97
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (102 bp):
CTTTAGCGGCGCTTTTACAAGCGCCACAAAAAAGGCCGCTATAGACGGCGCCACAAAAGTTTGCG
GCGTTTATTTAAAAAAAACACCGCTAAAGGCCATGAC
Found at i:86272645 original size:50 final size:50
Alignment explanation
Indices: 86272482--86272647 Score: 121
Period size: 50 Copynumber: 3.3 Consensus size: 50
86272472 CAAGCGCCAC
*
86272482 AAAAAAGGCCGCTATAGACGGCGCCACAAAAGTTTGCGGCGTTTATTTAA
1 AAAAAACGCCGCTATAGACGGCGCCACAAAAGTTTGCGGCGTTTATTTAA
* ** ** **
86272532 AAAAAACACCGCTA-A-A--G-GCCA-TGACCTTTAGCGGCGCTTT-TACAAGCGCCA
1 AAAAAACGCCGCTATAGACGGCGCCACAAAAGTTT-GCGGCG-TTTAT-TTA-----A
*
86272583 CAAAAAAGGCCGCTATAGACGGCGCCACAAAAGTTTGCGGCGTTTATTTAA
1 -AAAAAACGCCGCTATAGACGGCGCCACAAAAGTTTGCGGCGTTTATTTAA
86272634 AAAAAACGCCGCTA
1 AAAAAACGCCGCTA
86272648 AAGGCCATGA
Statistics
Matches: 83, Mismatches: 17, Indels: 32
0.63 0.13 0.24
Matches are distributed among these distances:
44 4 0.05
45 11 0.13
46 5 0.06
48 1 0.01
49 1 0.01
50 25 0.30
51 2 0.02
52 12 0.14
53 1 0.01
54 1 0.01
56 5 0.06
57 11 0.13
58 4 0.05
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (50 bp):
AAAAAACGCCGCTATAGACGGCGCCACAAAAGTTTGCGGCGTTTATTTAA
Found at i:86272690 original size:43 final size:43
Alignment explanation
Indices: 86272637--86272872 Score: 274
Period size: 43 Copynumber: 5.5 Consensus size: 43
86272627 TATTTAAAAA
86272637 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTTCCCAC
* * * * * *
86272680 AAACGTCGCTAAAGGTCGTGACCTTTAACAGCACTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTTCCCAC
* ** * * * *
86272723 AAACGCCGTTAAAGATCATGGCCTTTAGCGGTGCTTTTTCCAA
1 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTTCCCAC
* * **
86272766 AAACGCTGCTAAAAGCCGCGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTTCCCAC
* ** *
86272809 AAACGCCGCTAAAAGCCGCGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTTCCCAC
*
86272852 AAACGCCGCTAAAGGTCATGA
1 AAACGCCGCTAAAGGCCATGA
86272873 AATTTTAAAA
Statistics
Matches: 159, Mismatches: 34, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 159 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:86272865 original size:129 final size:129
Alignment explanation
Indices: 86272635--86272871 Score: 366
Period size: 129 Copynumber: 1.8 Consensus size: 129
86272625 TTTATTTAAA
* * * * * *
86272635 AAAAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTTCCCACAAACGTCGCTAAAGGTCGTG
1 AAAAACGCCGCTAAAAGCCACGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCGCG
*
86272700 ACCTTTAACAGCACTTTTCCCACAAACGCCGTTAAAGATCATGGCCTTTAGCGGTGCTTTTTCC
66 ACCTTTAACAGCACTTTTCCCACAAACGCCGCTAAAGATCATGGCCTTTAGCGGTGCTTTTTCC
* *
86272764 AAAAACGCTGCTAAAAGCCGCGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCGCG
1 AAAAACGCCGCTAAAAGCCACGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCGCG
* * *
86272829 ACCTTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGGTCATG
66 ACCTTTAACAGCACTTTTCCCACAAACGCCGCTAAAGATCATG
86272872 AAATTTTAAA
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
129 96 1.00
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (129 bp):
AAAAACGCCGCTAAAAGCCACGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCGCG
ACCTTTAACAGCACTTTTCCCACAAACGCCGCTAAAGATCATGGCCTTTAGCGGTGCTTTTTCC
Found at i:86273177 original size:19 final size:19
Alignment explanation
Indices: 86273132--86273178 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
86273122 TAAATATTAA
*
86273132 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
86273151 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
86273170 AATAAAAAT
1 AATAAAAAT
86273179 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:86277322 original size:21 final size:21
Alignment explanation
Indices: 86277296--86277379 Score: 69
Period size: 21 Copynumber: 3.7 Consensus size: 21
86277286 CTCCTAAACT
* *
86277296 TTAAACCCTAAACCGTACATC
1 TTAAACCATAAACCATACATC
86277317 TTAAACCATAGTTAACTCATAAACATGC
1 TTAAACCATA---AAC-CAT--ACAT-C
* *
86277345 TTAAACCCTAAACCATATATC
1 TTAAACCATAAACCATACATC
86277366 TTAAACCATAAACC
1 TTAAACCATAAACC
86277380 TTAAACTATA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
21 23 0.45
22 3 0.06
24 6 0.12
25 5 0.10
27 4 0.08
28 10 0.20
ACGTcount: A:0.43, C:0.27, G:0.04, T:0.26
Consensus pattern (21 bp):
TTAAACCATAAACCATACATC
Found at i:86277367 original size:49 final size:46
Alignment explanation
Indices: 86277279--86277375 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 46
86277269 CTTCAAATAC
* *
86277279 TAGTTAACTCCTAAACTTTAAACCCTAAACCGTACATCTTAAACCA
1 TAGTTAACTCATAAACTTTAAACCCTAAACCATACATCTTAAACCA
*
86277325 TAGTTAACTCATAAACATGCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAAC-T--TTAAACCCTAAACCATACATCTTAAACCA
86277374 TA
1 TA
86277376 AACCTTAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
46 15 0.33
47 1 0.02
49 29 0.64
ACGTcount: A:0.41, C:0.26, G:0.04, T:0.29
Consensus pattern (46 bp):
TAGTTAACTCATAAACTTTAAACCCTAAACCATACATCTTAAACCA
Found at i:86277372 original size:14 final size:14
Alignment explanation
Indices: 86277346--86277390 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
86277336 TAAACATGCT
*
86277346 TAAACCCTAAACCA
1 TAAACCTTAAACCA
* *
86277360 TATATCTTAAACCA
1 TAAACCTTAAACCA
*
86277374 TAAACCTTAAACTA
1 TAAACCTTAAACCA
86277388 TAA
1 TAA
86277391 TGATAATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:86278998 original size:32 final size:32
Alignment explanation
Indices: 86278962--86279072 Score: 93
Period size: 32 Copynumber: 3.3 Consensus size: 32
86278952 TAATCAAATC
86278962 ATAAGAATAACAAATAAATAAGGTAACTTGAA
1 ATAAGAATAACAAATAAATAAGGTAACTTGAA
* * * *
86278994 ATAAGAATAA-AATAGAAAATGCATGATCAAC--AAA
1 ATAAGAATAACAA-A-TAAAT--AAGGT-AACTTGAA
86279028 TAGTTAAGAATAACAAATAAATAAGGTAACTTGAA
1 -A--TAAGAATAACAAATAAATAAGGTAACTTGAA
86279063 ATAAGAATAA
1 ATAAGAATAA
86279073 AATAGAAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
31 2 0.03
32 20 0.33
33 7 0.12
34 6 0.10
35 6 0.10
36 7 0.12
37 10 0.17
38 2 0.03
ACGTcount: A:0.59, C:0.06, G:0.13, T:0.22
Consensus pattern (32 bp):
ATAAGAATAACAAATAAATAAGGTAACTTGAA
Found at i:86279038 original size:37 final size:37
Alignment explanation
Indices: 86278995--86279100 Score: 93
Period size: 32 Copynumber: 3.0 Consensus size: 37
86278985 TAACTTGAAA
86278995 TAAGAATAAAATAGAAAATGCATGATCAACAAATAGT
1 TAAGAATAAAATAGAAAATGCATGATCAACAAATAGT
* * * *
86279032 TAAGAATAACAA-A-TAAAT--AAGGT-AACTTGAA-A--
1 TAAGAATAA-AATAGAAAATGCATGATCAAC--AAATAGT
86279064 TAAGAATAAAATAGAAAATGCATGATCAACAAATAGT
1 TAAGAATAAAATAGAAAATGCATGATCAACAAATAGT
86279101 CGACATGAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 22
0.62 0.10 0.28
Matches are distributed among these distances:
31 2 0.04
32 10 0.20
33 7 0.14
34 6 0.12
35 6 0.12
36 7 0.14
37 10 0.20
38 2 0.04
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.22
Consensus pattern (37 bp):
TAAGAATAAAATAGAAAATGCATGATCAACAAATAGT
Found at i:86279041 original size:69 final size:69
Alignment explanation
Indices: 86278963--86279100 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
86278953 AATCAAATCA
86278963 TAAGAATAACAAATAAATAAGGTAACTTGAAATAAGAATAAAATAGAAAATGCATGATCAACAAA
1 TAAGAATAACAAATAAATAAGGTAACTTGAAATAAGAATAAAATAGAAAATGCATGATCAACAAA
86279028 TAGT
66 TAGT
86279032 TAAGAATAACAAATAAATAAGGTAACTTGAAATAAGAATAAAATAGAAAATGCATGATCAACAAA
1 TAAGAATAACAAATAAATAAGGTAACTTGAAATAAGAATAAAATAGAAAATGCATGATCAACAAA
86279097 TAGT
66 TAGT
86279101 CGACATGAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.58, C:0.07, G:0.13, T:0.22
Consensus pattern (69 bp):
TAAGAATAACAAATAAATAAGGTAACTTGAAATAAGAATAAAATAGAAAATGCATGATCAACAAA
TAGT
Found at i:86279264 original size:3 final size:3
Alignment explanation
Indices: 86279256--86279306 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
86279246 AGGAAAAATA
* * * *
86279256 AAT AAT AAT GAT AAT AAT AAT ACT AAT AAT AAT AAC AAT GAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
86279303 AAT A
1 AAT A
86279307 TAAAAGTACA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:86279397 original size:12 final size:12
Alignment explanation
Indices: 86279366--86279403 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
86279356 AAGGTTGAAG
86279366 AAATAATAAAT-
1 AAATAATAAATA
*
86279377 AGATAAATAAATA
1 AAAT-AATAAATA
86279390 AAATAATAAATA
1 AAATAATAAATA
86279402 AA
1 AA
86279404 CCAGTTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 3 0.13
12 17 0.74
13 3 0.13
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (12 bp):
AAATAATAAATA
Found at i:86281004 original size:45 final size:45
Alignment explanation
Indices: 86280897--86281019 Score: 117
Period size: 45 Copynumber: 2.8 Consensus size: 45
86280887 TAAGATTTGT
* * **
86280897 AATTTG-TAGCTTTAATCTGTTCTACTATAACTTTTAGGGAAATAA
1 AATTTGCTATCTTTAATCTGTTCTACTGTAAC-TTTAAAGAAATAA
* *
86280942 GATTT-CTAGT-TTTAATCTGTTCTACTGTAACTTTAAAGAGATAA
1 AATTTGCTA-TCTTTAATCTGTTCTACTGTAACTTTAAAGAAATAA
* * * *
86280986 AATTTGCTATCTTCAATCTGCTCCACTGCAACTT
1 AATTTGCTATCTTTAATCTGTTCTACTGTAACTT
86281020 CAGGGAGATA
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
44 15 0.24
45 48 0.76
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (45 bp):
AATTTGCTATCTTTAATCTGTTCTACTGTAACTTTAAAGAAATAA
Found at i:86281057 original size:44 final size:45
Alignment explanation
Indices: 86280965--86281078 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 45
86280955 AATCTGTTCT
* * * * *
86280965 ACTGTAACTTTAAAGAGATAAAATTTGCTATCTTCAATCTGCTCC
1 ACTGCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTACTCC
*
86281010 ACTGCAACTTCAGGGAGATAAGATTTG-TGA-CTTCAATCTACTCC
1 ACTGCAACTTCAAGGAGATAAGATTTGCT-ATCTTCAATCTACTCC
**
86281054 ACTGTGACTTCAAGGAGATAAGATT
1 ACTGCAACTTCAAGGAGATAAGATT
86281079 CACCACAGTG
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
44 36 0.61
45 23 0.39
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (45 bp):
ACTGCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTACTCC
Found at i:86282517 original size:45 final size:46
Alignment explanation
Indices: 86282463--86282573 Score: 197
Period size: 46 Copynumber: 2.4 Consensus size: 46
86282453 ATCACTTGTC
*
86282463 CTTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTACCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
*
86282508 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTATCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
86282554 CTTGATCAGATAAGTGTAGC
1 CTTGATCAGATAAGTGTAGC
86282574 CACTTATCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 21 0.33
46 42 0.67
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (46 bp):
CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
Found at i:86282556 original size:46 final size:45
Alignment explanation
Indices: 86282450--86282719 Score: 207
Period size: 37 Copynumber: 6.6 Consensus size: 45
86282440 CATATGACCT
* *
86282450 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
86282493 CTTATCACTTTACCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
86282539 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* **
86282576 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* **
86282613 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* ** *
86282650 CTTATCACTTTGTTTCTT-ATCAGATAAGTGTAGCTAAAACTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
86282695 CTTATCACTTTGTCACTTGATCAGA
1 CTTATCACTTTATCACTTGATCAGA
86282720 AGTACTCAAA
Statistics
Matches: 204, Mismatches: 9, Indels: 25
0.86 0.04 0.11
Matches are distributed among these distances:
36 9 0.04
37 91 0.45
38 2 0.01
39 1 0.00
40 3 0.01
42 2 0.01
43 9 0.04
44 5 0.02
45 41 0.20
46 41 0.20
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:86282577 original size:37 final size:37
Alignment explanation
Indices: 86282535--86282681 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
86282525 AGCTGAAGCT
* **
86282535 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
86282572 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
86282609 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
86282646 ACCACTTATCACTTTGTTTCTT-ATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
86282682 GCTAAAACTA
Statistics
Matches: 105, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
36 14 0.13
37 91 0.87
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:86290193 original size:45 final size:46
Alignment explanation
Indices: 86290139--86290249 Score: 197
Period size: 46 Copynumber: 2.4 Consensus size: 46
86290129 ATCACTTGTC
*
86290139 CTTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTACCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
*
86290184 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTATCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
86290230 CTTGATCAGATAAGTGTAGC
1 CTTGATCAGATAAGTGTAGC
86290250 CACTTATCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 21 0.33
46 42 0.67
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (46 bp):
CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
Found at i:86290232 original size:46 final size:45
Alignment explanation
Indices: 86290126--86290395 Score: 207
Period size: 37 Copynumber: 6.6 Consensus size: 45
86290116 CATATGACCT
* *
86290126 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
86290169 CTTATCACTTTACCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
86290215 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* **
86290252 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* **
86290289 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* ** *
86290326 CTTATCACTTTGTTTCTT-ATCAGATAAGTGTAGCTAAAACTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
86290371 CTTATCACTTTGTCACTTGATCAGA
1 CTTATCACTTTATCACTTGATCAGA
86290396 AGTACTCAAA
Statistics
Matches: 204, Mismatches: 9, Indels: 25
0.86 0.04 0.11
Matches are distributed among these distances:
36 9 0.04
37 91 0.45
38 2 0.01
39 1 0.00
40 3 0.01
42 2 0.01
43 9 0.04
44 5 0.02
45 41 0.20
46 41 0.20
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:86290253 original size:37 final size:37
Alignment explanation
Indices: 86290211--86290357 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
86290201 AGCTGAAGCT
* **
86290211 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
86290248 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
86290285 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
86290322 ACCACTTATCACTTTGTTTCTT-ATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
86290358 GCTAAAACTA
Statistics
Matches: 105, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
36 14 0.13
37 91 0.87
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:86298703 original size:19 final size:19
Alignment explanation
Indices: 86298679--86298719 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
86298669 GCTTTTAGAG
*
86298679 TGTTTACGAAAAGTATTGT
1 TGTTTACGAAAAGCATTGT
*
86298698 TGTTTATGAAAAGCATTGT
1 TGTTTACGAAAAGCATTGT
86298717 TGT
1 TGT
86298720 CTCCTTCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.44
Consensus pattern (19 bp):
TGTTTACGAAAAGCATTGT
Found at i:86303597 original size:3 final size:3
Alignment explanation
Indices: 86303591--86303647 Score: 71
Period size: 3 Copynumber: 19.3 Consensus size: 3
86303581 AGGAAAAATA
* * * *
86303591 AAT AAT AAT GAT AAT AAT AAT ACT AAT AAT AAT AAT AAT AAC AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
86303639 AAT AA- AAT A
1 AAT AAT AAT A
86303648 TAAAAGTACA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:86303767 original size:27 final size:29
Alignment explanation
Indices: 86303735--86303788 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
86303725 TCGTTTAAAA
*
86303735 AAATTGAAGTTA-AAT-AAATCAAGGATC
1 AAATTGAAATTAGAATGAAATCAAGGATC
*
86303762 AAATTGAAATTAGAATGAAATTAAGGA
1 AAATTGAAATTAGAATGAAATCAAGGA
86303789 GTATAAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 11 0.48
28 3 0.13
29 9 0.39
ACGTcount: A:0.54, C:0.04, G:0.17, T:0.26
Consensus pattern (29 bp):
AAATTGAAATTAGAATGAAATCAAGGATC
Found at i:86305339 original size:24 final size:24
Alignment explanation
Indices: 86305312--86305361 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
86305302 TAAACTACAT
*
86305312 AGCATTAATATACAAGATCCAAAG
1 AGCATTAATAGACAAGATCCAAAG
86305336 AGCATTAATAGACAAGATCCAAAG
1 AGCATTAATAGACAAGATCCAAAG
86305360 AG
1 AG
86305362 AAGCTCAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (24 bp):
AGCATTAATAGACAAGATCCAAAG
Found at i:86308251 original size:3 final size:3
Alignment explanation
Indices: 86308237--86308267 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
86308227 GTGAGAATAG
*
86308237 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
86308268 GTTGATGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:86312368 original size:18 final size:19
Alignment explanation
Indices: 86312345--86312380 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
86312335 TTTCCTTTTC
86312345 TAATTTAAAAT-TTTAAAA
1 TAATTTAAAATATTTAAAA
86312363 TAATTTAAAATATTTAAA
1 TAATTTAAAATATTTAAA
86312381 TAGTAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAATTTAAAATATTTAAAA
Found at i:86312382 original size:8 final size:9
Alignment explanation
Indices: 86312347--86312380 Score: 52
Period size: 8 Copynumber: 3.8 Consensus size: 9
86312337 TCCTTTTCTA
86312347 ATTTAAAAT
1 ATTTAAAAT
86312356 -TTTAAAAT
1 ATTTAAAAT
86312364 AATTTAAAAT
1 -ATTTAAAAT
86312374 ATTTAAA
1 ATTTAAA
86312381 TAGTAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.35
9 7 0.30
10 8 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTTAAAAT
Found at i:86323050 original size:28 final size:28
Alignment explanation
Indices: 86322987--86323043 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
86322977 TCCCTGTGAC
*
86322987 ATGATTCTGTTCGCGTATTCATAACACT
1 ATGATTCTGTTCGCATATTCATAACACT
*
86323015 ATGATTCTGTTTGCATATTCATAACACT
1 ATGATTCTGTTCGCATATTCATAACACT
86323043 A
1 A
86323044 CTTTTCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (28 bp):
ATGATTCTGTTCGCATATTCATAACACT
Found at i:86323791 original size:33 final size:33
Alignment explanation
Indices: 86323753--86323820 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
86323743 ATGGAAAAGA
86323753 ATGTATATGGCTAAACCTCAATGCTCAAAAACC
1 ATGTATATGGCTAAACCTCAATGCTCAAAAACC
86323786 ATGTATATGGCTAAACCTCAATGCTCAAAAACC
1 ATGTATATGGCTAAACCTCAATGCTCAAAAACC
86323819 AT
1 AT
86323821 CTTGGCACGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.25
Consensus pattern (33 bp):
ATGTATATGGCTAAACCTCAATGCTCAAAAACC
Found at i:86337523 original size:12 final size:12
Alignment explanation
Indices: 86337502--86337539 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
86337492 AAGATAAGTA
86337502 TTAA-ATTAAAT
1 TTAATATTAAAT
86337513 TTAATATTAAAT
1 TTAATATTAAAT
86337525 TTAATATTAAAT
1 TTAATATTAAAT
86337537 TTA
1 TTA
86337540 TTAAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.15
12 22 0.85
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAATATTAAAT
Found at i:86339070 original size:20 final size:19
Alignment explanation
Indices: 86339047--86339088 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
86339037 AGATTATATA
86339047 TATTAT-ATTATATAATTGAT
1 TATTATAATTAT-TAATTG-T
86339067 TATTATAATTATTAATTGT
1 TATTATAATTATTAATTGT
86339086 TAT
1 TAT
86339089 GGTTTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 12 0.57
21 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATTATAATTATTAATTGT
Found at i:86340722 original size:45 final size:45
Alignment explanation
Indices: 86340645--86340757 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 45
86340635 CGGCTACTAT
* * **
86340645 TACTGTTACCGTTACTGTTACCGATTTGACACTTTGTGTGTCAAA
1 TACTGTTACTGTTACTGTTACTGATTAAACACTTTGTGTGTCAAA
* * **
86340690 TACTATTACTGTTACCGTTACTGATTAAACACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACTGATTAAACACTTTGTGTGTCAAA
*
86340735 TACTGTTACTATTACTGTTACTG
1 TACTGTTACTGTTACTGTTACTG
86340758 CTACCGTTAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACTGATTAAACACTTTGTGTGTCAAA
Found at i:86340749 original size:6 final size:6
Alignment explanation
Indices: 86340735--86340778 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
86340725 GTGTGTTGAA
* * *
86340735 TACTGT TACTAT TACTGT TACTGC TACCGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
86340779 TAGGTACTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:86342494 original size:91 final size:92
Alignment explanation
Indices: 86342338--86342519 Score: 271
Period size: 91 Copynumber: 2.0 Consensus size: 92
86342328 TTTCTAAAAC
* * *
86342338 CCCAGGATAATTTTTCAAACATCCTGAGAATCTCGAGATAATTTTAGATTCGTCTGTTACATCTT
1 CCCAGGATAATTTTTCAAACATCCTGAGAATCCCGAGATAATTTCAGATTCGTCAGTTACATCTT
*
86342403 TTTTTTTTT-AATTCTTGCCCACCCAT
66 TTTTTTTTTCAATTATTGCCCACCCAT
* *
86342429 CCCAGGATAAGTTTTT-AGACAT-CTCGAGAATCCCGAGATAATTTCAGATTCGTCAGTTACCTC
1 CCCAGGATAA-TTTTTCAAACATCCT-GAGAATCCCGAGATAATTTCAGATTCGTCAGTTACATC
86342492 TTTTTTTTTTTCAATTATTGCCCACCCA
64 TTTTTTTTTTTCAATTATTGCCCACCCA
86342520 ATTGCCTATA
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
90 2 0.02
91 60 0.73
92 20 0.24
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (92 bp):
CCCAGGATAATTTTTCAAACATCCTGAGAATCCCGAGATAATTTCAGATTCGTCAGTTACATCTT
TTTTTTTTTCAATTATTGCCCACCCAT
Found at i:86344086 original size:44 final size:43
Alignment explanation
Indices: 86343898--86344183 Score: 219
Period size: 43 Copynumber: 6.7 Consensus size: 43
86343888 TGTGTTTTCG
* * * *
86343898 TGTAAAACCACGTCTGGGACGTTGGCTTCGACTTATGATTTATA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGA-TTATGATTTACA
* * * * *
86343942 TGTAAGATCATGTCTGAGACATCGGCATCGTATT-TGATTT-CG
1 TGTAAGACCATGTCTGGGACGTTGGCATCG-ATTATGATTTACA
* * *
86343984 TGTAAGACCCTGTCTGGGATAG-TGGCATCGATATTTGA-TTACA
1 TGTAAGACCATGTCTGGGA-CGTTGGCATCGAT-TATGATTTACA
* * *
86344027 TGTAAGACCACGTCTGGGACGTTGGCTTCGACTTATGATTTATA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGA-TTATGATTTACA
* * * * *
86344071 TGTAAGATCATGTCTGAGACATCGGCATCGTATT-TGATTT-CG
1 TGTAAGACCATGTCTGGGACGTTGGCATCG-ATTATGATTTACA
* * * *
86344113 TGTAAGACCCTGTCTGGGATAG-TAGCATCGATATTTGA-TTACA
1 TGTAAGACCATGTCTGGGA-CGTTGGCATCGAT-TATGATTTACA
*
86344156 TGTAAGACCATGTCTGGGATGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
86344184 TGTACAATCC
Statistics
Matches: 187, Mismatches: 41, Indels: 29
0.73 0.16 0.11
Matches are distributed among these distances:
41 4 0.02
42 53 0.28
43 72 0.39
44 56 0.30
45 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATTATGATTTACA
Found at i:86344114 original size:129 final size:129
Alignment explanation
Indices: 86343898--86344181 Score: 532
Period size: 129 Copynumber: 2.2 Consensus size: 129
86343888 TGTGTTTTCG
*
86343898 TGTAAAACCACGTCTGGGACGTTGGCTTCGACTTATGATTTATATGTAAGATCATGTCTGAGACA
1 TGTAAGACCACGTCTGGGACGTTGGCTTCGACTTATGATTTATATGTAAGATCATGTCTGAGACA
*
86343963 TCGGCATCGTATTTGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGATTACA
66 TCGGCATCGTATTTGATTTCGTGTAAGACCCTGTCTGGGATAGTAGCATCGATATTTGATTACA
86344027 TGTAAGACCACGTCTGGGACGTTGGCTTCGACTTATGATTTATATGTAAGATCATGTCTGAGACA
1 TGTAAGACCACGTCTGGGACGTTGGCTTCGACTTATGATTTATATGTAAGATCATGTCTGAGACA
86344092 TCGGCATCGTATTTGATTTCGTGTAAGACCCTGTCTGGGATAGTAGCATCGATATTTGATTACA
66 TCGGCATCGTATTTGATTTCGTGTAAGACCCTGTCTGGGATAGTAGCATCGATATTTGATTACA
* *
86344156 TGTAAGACCATGTCTGGGATGTTGGC
1 TGTAAGACCACGTCTGGGACGTTGGC
86344182 ATTGTACAAT
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 151 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (129 bp):
TGTAAGACCACGTCTGGGACGTTGGCTTCGACTTATGATTTATATGTAAGATCATGTCTGAGACA
TCGGCATCGTATTTGATTTCGTGTAAGACCCTGTCTGGGATAGTAGCATCGATATTTGATTACA
Found at i:86346981 original size:310 final size:310
Alignment explanation
Indices: 86346402--86346987 Score: 711
Period size: 311 Copynumber: 1.9 Consensus size: 310
86346392 AGGGCTTCGT
* *
86346402 TAGAAATTTCACATAAATGATTGTAAAAAAAAAAAAAAAGTTTATTCTTCATTCATTCTTAAAAA
1 TAGAAATTTCACATAAATGATTGT-AAAAAAAAAAAAAAGTTTATTCTTAACTCATTCTTAAAAA
* * * * * * *
86346467 TTCAAACTTGGAAGTAAGGATGTGAAGTTTGGACATGTAGACTGATGTATTCCTTTAGTGTTGAT
65 TTCAAACTTGAAAGTAAAGATCTGAAGTTTAGACATATAGACTGATGCATTCCTTCAGTGTTGAT
** *
86346532 TTTAAAGAATTGTCCGGCATCTTTAGTGAATTCACACATAGAAAAGATTTTGAATTATTCAATGA
130 TTTAAAGAATTGTCCAACATCTTTAGTGAATTCACACATAGAAAAGATTTCGAATTATTCAATGA
86346597 CAACATAACTGCATATTACATTAAGAGCTTTTCAATTCCAAATTGGCAACCCTTTCTTCCACAAT
195 CAACATAACTGCATATTACATTAAGAGCTTTTCAATTCCAAATTGGCAACCCTTTCTTCCACAAT
86346662 ATCGTAGTTG-TTTTTCTGTCTTAGAACTCACAATGTTGTAGCTACTTCAA
260 ATCGTAGTTGCTTTTTCTGTCTTAGAACTCACAATGTTGTAGCTACTTCAA
** * * *
86346712 TAGAAATTTCACATAAATGAACTT-T-AAAACCAAAAATAGTTTCTTCTTAACTCATTCTTAAAT
1 TAGAAATTTCACATAAATG-A-TTGTAAAAAAAAAAAAAAGTTTATTCTTAACTCATTCTTAAAA
* * *
86346775 TTTCAAATTTGAAAGTAAAGATCT-AGAGTTTAGACATATAGATTGATTGCATTCCCTTCA-TGT
64 ATTCAAACTTGAAAGTAAAGATCTGA-AGTTTAGACATATAGACTGA-TGCATT-CCTTCAGTGT
* * * * * * * *
86346838 TGATTTTAGAGATTTGTCCAAATATCTTT-GATGGATTCACATATGGAAATGATTTCGAATTGTT
126 TGATTTTAAAGAATTGTCC-AACATCTTTAG-TGAATTCACACATAGAAAAGATTTCGAATTATT
* * * * * *
86346902 CAATGTCAACATCATTGCATATTGCATTAAGAGCTTTTGAA-TCC-AATTTGCAACCCTTTTCTT
189 CAATGACAACATAACTGCATATTACATTAAGAGCTTTTCAATTCCAAATTGGCAACCC-TTTCTT
* *
86346965 CCTCAATATTGTAGTTGCTTTTT
253 CCACAATATCGTAGTTGCTTTTT
86346988 TTTTCTTGTC
Statistics
Matches: 231, Mismatches: 36, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
308 1 0.00
309 78 0.34
310 69 0.30
311 81 0.35
312 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (310 bp):
TAGAAATTTCACATAAATGATTGTAAAAAAAAAAAAAAGTTTATTCTTAACTCATTCTTAAAAAT
TCAAACTTGAAAGTAAAGATCTGAAGTTTAGACATATAGACTGATGCATTCCTTCAGTGTTGATT
TTAAAGAATTGTCCAACATCTTTAGTGAATTCACACATAGAAAAGATTTCGAATTATTCAATGAC
AACATAACTGCATATTACATTAAGAGCTTTTCAATTCCAAATTGGCAACCCTTTCTTCCACAATA
TCGTAGTTGCTTTTTCTGTCTTAGAACTCACAATGTTGTAGCTACTTCAA
Found at i:86350490 original size:17 final size:17
Alignment explanation
Indices: 86350468--86350502 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
86350458 AAAACATCAA
86350468 ACGAAAAGTATTGAGAG
1 ACGAAAAGTATTGAGAG
86350485 ACGAAAAGTATTGAGAG
1 ACGAAAAGTATTGAGAG
86350502 A
1 A
86350503 TAAATCGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.29, T:0.17
Consensus pattern (17 bp):
ACGAAAAGTATTGAGAG
Found at i:86352661 original size:46 final size:46
Alignment explanation
Indices: 86352609--86352702 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
86352599 CGTTACCTAA
86352609 AGTAAAACTGAAAAATATTGCCTAAGATAAGAAAAAAGAAAAACCC
1 AGTAAAACTGAAAAATATTGCCTAAGATAAGAAAAAAGAAAAACCC
86352655 AGTAAAACTGAAAAATATTGCCTAAGATAAGAAAAAAGAAAAACCC
1 AGTAAAACTGAAAAATATTGCCTAAGATAAGAAAAAAGAAAAACCC
86352701 AG
1 AG
86352703 CCTTATGAGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.59, C:0.13, G:0.14, T:0.15
Consensus pattern (46 bp):
AGTAAAACTGAAAAATATTGCCTAAGATAAGAAAAAAGAAAAACCC
Found at i:86360004 original size:22 final size:22
Alignment explanation
Indices: 86359979--86360022 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
86359969 TAGTCATATA
86359979 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
86360001 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
86360023 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:86360058 original size:13 final size:14
Alignment explanation
Indices: 86360042--86360083 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
86360032 TTTCAATTTT
86360042 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
86360055 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
86360070 ATTTTAAATAATAT
1 ATTTT-AATAATAT
86360084 TATTAACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:86360068 original size:16 final size:16
Alignment explanation
Indices: 86360046--86360082 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
86360036 AATTTTATTT
86360046 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
86360063 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
86360078 TAATA
1 TAATA
86360083 TTATTAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:86360135 original size:15 final size:15
Alignment explanation
Indices: 86360101--86360171 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
86360091 ATATTATTGA
86360101 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
86360114 CAATATTTTAATAAT
1 AAATATTTTAATAAT
*
86360129 AAATATTTATTACAATTAT
1 AAATA-TT-TT--AATAAT
*
86360148 AAATATATTAATAAT
1 AAATATTTTAATAAT
*
86360163 AAATGTTTT
1 AAATATTTT
86360172 GTAATATAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 18 0.40
16 2 0.04
17 4 0.09
18 1 0.02
19 10 0.22
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:86372301 original size:20 final size:20
Alignment explanation
Indices: 86372278--86372315 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
86372268 ACTTTTAAAT
*
86372278 AATTTAATAATTATTTTATA
1 AATTTAATAATGATTTTATA
*
86372298 AATTTACTAATGATTTTA
1 AATTTAATAATGATTTTA
86372316 CTCCTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
AATTTAATAATGATTTTATA
Found at i:86376858 original size:24 final size:24
Alignment explanation
Indices: 86376798--86376845 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
86376788 ATACAAACCG
86376798 AGTGTTGAATTTGTAAGATACCTC
1 AGTGTTGAATTTGTAAGATACCTC
86376822 AGTGTTGAATTTGTAAGATACCTC
1 AGTGTTGAATTTGTAAGATACCTC
86376846 TTTTTGAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (24 bp):
AGTGTTGAATTTGTAAGATACCTC
Found at i:86385584 original size:19 final size:20
Alignment explanation
Indices: 86385560--86385610 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
86385550 TATCAATGTC
86385560 ATTTTTATATTATCTAAAT-
1 ATTTTTATATTATCTAAATA
* *
86385579 ATTTTTA-ATTTTTTAAATA
1 ATTTTTATATTATCTAAATA
*
86385598 ATTATTATATTAT
1 ATTTTTATATTAT
86385611 TATATTAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 9 0.35
19 13 0.50
20 4 0.15
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTTATATTATCTAAATA
Found at i:86391523 original size:27 final size:26
Alignment explanation
Indices: 86391486--86391539 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
86391476 TGAATCATTA
86391486 TTTTTAAATTTTAATTTA-TTTTATT
1 TTTTTAAATTTTAATTTATTTTTATT
*
86391511 TTTTTGAACATTTTATTTTATTTTTATT
1 TTTTT-AA-ATTTTAATTTATTTTTATT
86391539 T
1 T
86391540 AATCACTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 5 0.20
26 2 0.08
27 10 0.40
28 8 0.32
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (26 bp):
TTTTTAAATTTTAATTTATTTTTATT
Found at i:86392377 original size:31 final size:33
Alignment explanation
Indices: 86392319--86392379 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
86392309 AATTAAACTT
* *
86392319 TTATATAATTAAGTTTAATACACATTTTATCCC
1 TTATAAAATTAAGTTTAATACAAATTTTATCCC
*
86392352 TTATAAAATTAGGTTT-ATA-AAATTTTAT
1 TTATAAAATTAAGTTTAATACAAATTTTAT
86392380 AAAACTAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 8 0.32
32 3 0.12
33 14 0.56
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (33 bp):
TTATAAAATTAAGTTTAATACAAATTTTATCCC
Found at i:86392550 original size:8 final size:8
Alignment explanation
Indices: 86392528--86392595 Score: 64
Period size: 8 Copynumber: 7.9 Consensus size: 8
86392518 CAATAAATTA
*
86392528 TAAAAAAA
1 TAAAAAAT
*
86392536 TATAAAAT
1 TAAAAAAT
86392544 TAAAAAAT
1 TAAAAAAT
86392552 TAAAAAAT
1 TAAAAAAT
86392560 AATATAAAAAT
1 --TA-AAAAAT
86392571 ATAAAAAAT
1 -TAAAAAAT
*
86392580 TACTAAAAT
1 TA-AAAAAT
86392589 TAAAAAA
1 TAAAAAA
86392596 AAAACACATT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
8 27 0.53
9 13 0.25
10 5 0.10
11 6 0.12
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.25
Consensus pattern (8 bp):
TAAAAAAT
Found at i:86392566 original size:36 final size:37
Alignment explanation
Indices: 86392526--86392595 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 37
86392516 TACAATAAAT
*
86392526 TATAAAAAAATATAAAATTA-AAAAATTAAAAAATAA
1 TATAAAAAAATAAAAAATTACAAAAATTAAAAAATAA
* *
86392562 TATAAAAATATAAAAAATTACTAAAATTAAAAAA
1 TATAAAAAAATAAAAAATTACAAAAATTAAAAAA
86392596 AAAACACATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 18 0.60
37 12 0.40
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.26
Consensus pattern (37 bp):
TATAAAAAAATAAAAAATTACAAAAATTAAAAAATAA
Found at i:86392570 original size:19 final size:18
Alignment explanation
Indices: 86392512--86392595 Score: 61
Period size: 18 Copynumber: 4.6 Consensus size: 18
86392502 AAATGAAAAG
86392512 AAATTACAATAAATTA-TAAA
1 AAATTA-AA-AAATTACT-AA
* *
86392532 AAAATATAAAATTA--AA
1 AAATTAAAAAATTACTAA
86392548 AAATTAAAAAATAATA-TAA
1 AAATTAAAAAAT--TACTAA
86392567 AAATATAAAAAATTACT-A
1 AAAT-TAAAAAATTACTAA
86392585 AAATTAAAAAA
1 AAATTAAAAAA
86392596 AAAACACATT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
16 12 0.22
17 7 0.13
18 15 0.27
19 8 0.15
20 13 0.24
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATTAAAAAATTACTAA
Found at i:86392596 original size:28 final size:27
Alignment explanation
Indices: 86392507--86392599 Score: 73
Period size: 28 Copynumber: 3.3 Consensus size: 27
86392497 CTTTAAAATG
86392507 AAAAGAAATTACAATAAATTATAAAAA-AAT
1 AAAA-AAATTA-AA-AAATTA-AAAAATAAT
*
86392537 -ATAAAATTAAAAAATTAAAAAATAAT
1 AAAAAAATTAAAAAATTAAAAAATAAT
* * *
86392563 ATAAAAATATAAAAAATTACTAAAATTAAA
1 AAAAAAAT-TAAAAAATTA--AAAAATAAT
86392593 AAAAAAA
1 AAAAAAA
86392600 CACATTTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
25 5 0.10
26 9 0.17
27 7 0.13
28 16 0.31
29 2 0.04
30 13 0.25
ACGTcount: A:0.73, C:0.02, G:0.01, T:0.24
Consensus pattern (27 bp):
AAAAAAATTAAAAAATTAAAAAATAAT
Found at i:86392811 original size:19 final size:19
Alignment explanation
Indices: 86392787--86392826 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
86392777 TCAAATCAAT
*
86392787 AATATTTTTAATTATTTCA
1 AATATTTTTAACTATTTCA
*
86392806 AATATTTTTTACTATTTCA
1 AATATTTTTAACTATTTCA
86392825 AA
1 AA
86392827 ATAAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (19 bp):
AATATTTTTAACTATTTCA
Found at i:86393260 original size:39 final size:40
Alignment explanation
Indices: 86393200--86393304 Score: 117
Period size: 39 Copynumber: 2.7 Consensus size: 40
86393190 AAAATTTTAA
* * * *
86393200 ATAATTATTTATAATATTTTACGATTTCTAAT-CATTTTT
1 ATAATTTTTTACAATAGTTTACAATTTCTAATACATTTTT
*
86393239 ATAATTTTTTACAATAGTTTACAATTTCTAATACCTTTTT
1 ATAATTTTTTACAATAGTTTACAATTTCTAATACATTTTT
* *
86393279 A-AATTTATTTATAAT-TTTTACAATTT
1 ATAATTT-TTTACAATAGTTTACAATTT
86393305 TTAAAAAATG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 43 0.75
40 14 0.25
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (40 bp):
ATAATTTTTTACAATAGTTTACAATTTCTAATACATTTTT
Found at i:86393303 original size:20 final size:19
Alignment explanation
Indices: 86393202--86393306 Score: 68
Period size: 20 Copynumber: 5.4 Consensus size: 19
86393192 AATTTTAAAT
*
86393202 AATTATTTATAATATTTTAC
1 AATTTTTTATAAT-TTTTAC
* * * * *
86393222 GATTTCTAATCATTTTTAT
1 AATTTTTTATAATTTTTAC
* *
86393241 AATTTTTTACAATAGTTTAC
1 AATTTTTTATAAT-TTTTAC
* * *
86393261 AATTTCTAATACCTTTTTA-
1 AATTTTTTATA-ATTTTTAC
86393280 AATTTATTTATAATTTTTAC
1 AATTT-TTTATAATTTTTAC
86393300 AATTTTT
1 AATTTTT
86393307 AAAAAATGCT
Statistics
Matches: 60, Mismatches: 21, Indels: 9
0.67 0.23 0.10
Matches are distributed among these distances:
19 26 0.43
20 33 0.55
21 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (19 bp):
AATTTTTTATAATTTTTAC
Found at i:86395952 original size:18 final size:16
Alignment explanation
Indices: 86395921--86395960 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
86395911 TTTTATGTGT
86395921 TATAAAATACATAATA
1 TATAAAATACATAATA
86395937 TATACAAATAACATAATA
1 TATA-AAAT-ACATAATA
86395955 TA-AAAA
1 TATAAAA
86395961 CTTTAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.32
17 5 0.23
18 10 0.45
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (16 bp):
TATAAAATACATAATA
Found at i:86396704 original size:27 final size:26
Alignment explanation
Indices: 86396668--86396719 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
86396658 TTTCTCAAAT
*
86396668 TGGTATCTAAACCT-TTTCTGTCATTAG
1 TGGTACCTAAA-CTATTTCT-TCATTAG
86396695 TGGTACCTAAACTATTTCTTCATTA
1 TGGTACCTAAACTATTTCTTCATTA
86396720 CCATTTGTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (26 bp):
TGGTACCTAAACTATTTCTTCATTAG
Found at i:86397322 original size:17 final size:17
Alignment explanation
Indices: 86397300--86397332 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
86397290 ATTGGTTCTC
86397300 TATTTTA-AAATATTTTT
1 TATTTTATAAA-ATTTTT
86397317 TATTTTATAAAATTTT
1 TATTTTATAAAATTTT
86397333 AATAATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTTTATAAAATTTTT
Found at i:86398753 original size:21 final size:23
Alignment explanation
Indices: 86398706--86398759 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
86398696 CATTCAAGAT
**
86398706 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
86398729 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
86398750 AAAAT-ATATA
1 AAAATAATATA
86398760 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:86399568 original size:5 final size:5
Alignment explanation
Indices: 86399558--86399595 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
86399548 AAAATAGCCT
86399558 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA
86399596 ATTATATCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:86402461 original size:25 final size:24
Alignment explanation
Indices: 86402393--86402541 Score: 74
Period size: 24 Copynumber: 6.1 Consensus size: 24
86402383 AAACTCTTTA
*
86402393 AATATATAAACA-ATTCAAAATATAT
1 AATATATAAA-ATATT-AAAATAAAT
* * *
86402418 AATGTGTAAAAAAGTTTAAAATAAAT
1 AATATATAAAATA--TTAAAATAAAT
*
86402444 AATATATGAAAATATTAAAGTAAAT
1 AATATAT-AAAATATTAAAATAAAT
* * *
86402469 AATGTATAAAA-ATTTGAAATGAAT
1 AATATATAAAATA-TTAAAATAAAT
** *
86402493 GTTATATAAAA-ACTTAAAATAGAT
1 AATATATAAAATA-TTAAAATAAAT
* *
86402517 AATA-ACAAAAAATGTAAAA-AAAT
1 AATATATAAAATAT-TAAAATAAAT
86402540 AA
1 AA
86402542 AAAGAATAGA
Statistics
Matches: 95, Mismatches: 22, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
23 12 0.13
24 38 0.40
25 25 0.26
26 13 0.14
27 7 0.07
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (24 bp):
AATATATAAAATATTAAAATAAAT
Found at i:86402646 original size:15 final size:15
Alignment explanation
Indices: 86402622--86402653 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
86402612 ATATAAATAC
*
86402622 AAATATAAATATAAT
1 AAATAAAAATATAAT
86402637 AAATAAAAATATAAT
1 AAATAAAAATATAAT
86402652 AA
1 AA
86402654 TAGTTGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATAAAAATATAAT
Found at i:86403291 original size:16 final size:16
Alignment explanation
Indices: 86403270--86403316 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
86403260 ATTTAATAAT
86403270 AAAATAAAATAAAACA
1 AAAATAAAATAAAACA
*
86403286 AAAAT-AATTAAAAACA
1 AAAATAAAAT-AAAACA
86403302 AAAATAAAAATAAAA
1 AAAAT-AAAATAAAA
86403317 ATAATATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.12
16 16 0.62
17 4 0.15
18 3 0.12
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAATAAAATAAAACA
Found at i:86403316 original size:5 final size:6
Alignment explanation
Indices: 86403270--86403320 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
86403260 ATTTAATAAT
* *
86403270 AAAAT- AAAATA AAACAAA AATAATTA AAAACA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAA-ATA AA-AA-TA AAAATA AAAATA AAAATA AAAATA
86403320 A
1 A
86403321 TATCTTCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
5 5 0.13
6 22 0.58
7 7 0.18
8 4 0.11
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:86408473 original size:22 final size:21
Alignment explanation
Indices: 86408435--86408475 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
86408425 AAAAGAAATG
86408435 GAGAAGGGAGGAAAATAGAGA
1 GAGAAGGGAGGAAAATAGAGA
*
86408456 GAGAAGGAGAGGAGAATAGA
1 GAGAAGG-GAGGAAAATAGA
86408476 AAATAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.51, C:0.00, G:0.44, T:0.05
Consensus pattern (21 bp):
GAGAAGGGAGGAAAATAGAGA
Found at i:86411424 original size:43 final size:43
Alignment explanation
Indices: 86411357--86411542 Score: 214
Period size: 43 Copynumber: 4.3 Consensus size: 43
86411347 GCGCCGCAAA
* * * **
86411357 AAACGCCGCTAAAGAGCATGACCTTTAGTGGCTCTTTAGCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
*
86411400 AAACGCCGCTAAAGAACATAACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* * **
86411443 AAACGCCGCTAAAGAACATGATCTTTAACGG-TATTTCTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTT-TCCCAC
* *
86411486 AAACGCCGCTAAAGAACATGGCCTTTAGTGGCGC-TTTCTCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTC-CCAC
* *
86411529 AAACGTCACTAAAG
1 AAACGCCGCTAAAG
86411543 GTCATGAAAT
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
42 5 0.04
43 116 0.96
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:86412934 original size:23 final size:22
Alignment explanation
Indices: 86412899--86412950 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
86412889 ATTCGAATAT
*
86412899 CATAAATCACAAC-TTTCAGACAC
1 CATAAATTACAACATTT-A-ACAC
*
86412922 CATAAATTGCAACATTTAACAC
1 CATAAATTACAACATTTAACAC
86412944 C-TAAATT
1 CATAAATT
86412951 TTCAGCTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 6 0.23
22 5 0.19
23 12 0.46
24 3 0.12
ACGTcount: A:0.44, C:0.25, G:0.04, T:0.27
Consensus pattern (22 bp):
CATAAATTACAACATTTAACAC
Found at i:86414073 original size:22 final size:22
Alignment explanation
Indices: 86414048--86414100 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
86414038 ATGCCAGATG
86414048 CAAAGCATTCACAGTACCTGAC
1 CAAAGCATTCACAGTACCTGAC
86414070 CAAAGCATTCACAGTACCTGAC
1 CAAAGCATTCACAGTACCTGAC
*
86414092 CAAGGCATT
1 CAAAGCATT
86414101 GCAATAGTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.30, G:0.15, T:0.19
Consensus pattern (22 bp):
CAAAGCATTCACAGTACCTGAC
Found at i:86415934 original size:17 final size:18
Alignment explanation
Indices: 86415901--86415934 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
86415891 TATCTCTTAA
86415901 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
86415919 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
86415935 AAAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:86416162 original size:20 final size:20
Alignment explanation
Indices: 86416110--86416168 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
86416100 TTTCTAGCAA
86416110 TAAACCCTAAATCCTAAACTT
1 TAAACCCTAAA-CCTAAACTT
*
86416131 TAAACCCCAAACCATAAAC-T
1 TAAACCCTAAACC-TAAACTT
*
86416151 TACACCCTAAACCCTAAA
1 TAAACCCTAAA-CCTAAA
86416169 TATATATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAACCCTAAACCTAAACTT
Found at i:86416353 original size:14 final size:14
Alignment explanation
Indices: 86416336--86416387 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
86416326 ATAAAACAGA
*
86416336 AAACCACAAACTCT
1 AAACCAAAAACTCT
* *
86416350 AAACCATAAACCCT
1 AAACCAAAAACTCT
**
86416364 AAATTAAAAACTCT
1 AAACCAAAAACTCT
86416378 AAACCTAAAA
1 AAACC-AAAA
86416388 TAATAAACAT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 25 0.86
15 4 0.14
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.17
Consensus pattern (14 bp):
AAACCAAAAACTCT
Found at i:86416374 original size:21 final size:21
Alignment explanation
Indices: 86416356--86416395 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
86416346 CTCTAAACCA
*
86416356 TAAACCCTAAATTAA-AAACTC
1 TAAA-CCTAAAATAATAAACTC
86416377 TAAACCTAAAATAATAAAC
1 TAAACCTAAAATAATAAAC
86416396 ATTATACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCTAAAATAATAAACTC
Found at i:86416465 original size:28 final size:28
Alignment explanation
Indices: 86416343--86416473 Score: 77
Period size: 28 Copynumber: 4.6 Consensus size: 28
86416333 AGAAAACCAC
* * * * *
86416343 AAACTCTAAACCATAAACCCTAAATTAA
1 AAACCCTAAACCTTAAATCTTAAATTAT
* * * *
86416371 AAACTCTAAACCTAAAATAATAAACATTAT
1 AAACCCTAAACCTTAAAT-CTTAA-ATTAT
* **
86416401 --ACCATAAACCTTAAACTCTTAAAACAT
1 AAACCCTAAACCTTAAA-TCTTAAATTAT
* **
86416428 AGACATTAAACCTTAAATCTTAAATTAT
1 AAACCCTAAACCTTAAATCTTAAATTAT
*
86416456 AAACCCTAAACCCTAAAT
1 AAACCCTAAACCTTAAAT
86416474 AATCCCTTAA
Statistics
Matches: 76, Mismatches: 22, Indels: 10
0.70 0.20 0.09
Matches are distributed among these distances:
27 3 0.04
28 53 0.70
29 16 0.21
30 4 0.05
ACGTcount: A:0.51, C:0.22, G:0.01, T:0.26
Consensus pattern (28 bp):
AAACCCTAAACCTTAAATCTTAAATTAT
Found at i:86416472 original size:21 final size:21
Alignment explanation
Indices: 86416434--86416473 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
86416424 ACATAGACAT
* * *
86416434 TAAACCTTAAATCTTAAATTA
1 TAAACCCTAAACCCTAAATTA
86416455 TAAACCCTAAACCCTAAAT
1 TAAACCCTAAACCCTAAAT
86416474 AATCCCTTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAACCCTAAACCCTAAATTA
Found at i:86416947 original size:7 final size:7
Alignment explanation
Indices: 86416930--86416971 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
86416920 TATTCACATT
86416930 TAAACCCC
1 TAAA-CCC
86416938 TAAACCC
1 TAAACCC
86416945 TAAACCC
1 TAAACCC
*
86416952 TAAACAC
1 TAAACCC
86416959 TAAACCC
1 TAAACCC
86416966 TAAACC
1 TAAACC
86416972 ATAAGGCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 28 0.88
8 4 0.12
ACGTcount: A:0.45, C:0.40, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAACCC
Found at i:86418905 original size:39 final size:39
Alignment explanation
Indices: 86418846--86418946 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
86418836 ATCGTGATCT
* * * *
86418846 GAAGCCCGAAGTCTAGCTGAAGCACACAAGTGTTAAAAG
1 GAAGCCCGAAGGCTAACTGAAGCAAACAAGTGCTAAAAG
* *
86418885 GAAGCCCGAAGGCTAACTGAAACAAACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCAAACAAGTGCTAAAAG
86418924 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
86418947 TCATCAGAGG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCAAACAAGTGCTAAAAG
Found at i:86420375 original size:40 final size:40
Alignment explanation
Indices: 86420331--86420477 Score: 177
Period size: 40 Copynumber: 3.7 Consensus size: 40
86420321 AAAGCGCTAT
* * *
86420331 TAATGGTCAACCTATAGCGGCGTTTTTCAAAAAGCACCGC
1 TAATGCTCAATCTATAGCGGCGTTTTTCAAAAAGCGCCGC
* *
86420371 TAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCCC
1 TAATGCTCAATCTATAGCGGCGTTTTTCAAAAAGCGCCGC
* ** * * *
86420411 TGATGCTTGATTTATAACGGCATTTTTCAAAAAGCGCCGC
1 TAATGCTCAATCTATAGCGGCGTTTTTCAAAAAGCGCCGC
* *
86420451 TAATGCTTAATCTATAGTGGCGTTTTT
1 TAATGCTCAATCTATAGCGGCGTTTTT
86420478 GGTCCTAGCG
Statistics
Matches: 90, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (40 bp):
TAATGCTCAATCTATAGCGGCGTTTTTCAAAAAGCGCCGC
Found at i:86421930 original size:42 final size:43
Alignment explanation
Indices: 86421883--86421974 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 43
86421873 TTATTATGTG
86421883 ATATTATCT-TCTAAAAATTTGATT-TCTAAT-GGATATTAAATA
1 ATATTATCTCT-TAAAAATTTGATTCT-TAATAGGATATTAAATA
** * *
86421925 ATATTATCTCTTAGCAATTTGATTCTTAATAGGATATTATATG
1 ATATTATCTCTTAAAAATTTGATTCTTAATAGGATATTAAATA
86421968 ATATTAT
1 ATATTAT
86421975 TATGGAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
42 24 0.56
43 19 0.44
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.47
Consensus pattern (43 bp):
ATATTATCTCTTAAAAATTTGATTCTTAATAGGATATTAAATA
Found at i:86428097 original size:30 final size:30
Alignment explanation
Indices: 86428061--86428123 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
86428051 GATTTTTACT
86428061 TATTTTTAAATTACTTTGAGGGGATTAGGA
1 TATTTTTAAATTACTTTGAGGGGATTAGGA
* *
86428091 TATTTTTAAATTACTTTGCGGGGTTTAGGA
1 TATTTTTAAATTACTTTGAGGGGATTAGGA
86428121 TAT
1 TAT
86428124 GCATTTAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (30 bp):
TATTTTTAAATTACTTTGAGGGGATTAGGA
Found at i:86428977 original size:13 final size:13
Alignment explanation
Indices: 86428961--86428995 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
86428951 TCTTTTAGAG
86428961 TTTCTTTTTTCTT
1 TTTCTTTTTTCTT
*
86428974 TTTCTTTTTTGTT
1 TTTCTTTTTTCTT
86428987 TTT-TTTTTT
1 TTTCTTTTTT
86428996 GGGGAGGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (13 bp):
TTTCTTTTTTCTT
Found at i:86430357 original size:2 final size:2
Alignment explanation
Indices: 86430350--86430375 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
86430340 TGTACGTGTG
86430350 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
86430376 TATCATTTCG
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:86446073 original size:14 final size:14
Alignment explanation
Indices: 86446043--86446084 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
86446033 ACTACCTTCT
86446043 AAAT-AATCA-TG-
1 AAATAAATCACTGA
86446054 AAATAAATCACTGA
1 AAATAAATCACTGA
*
86446068 AAATAAACCACTGA
1 AAATAAATCACTGA
86446082 AAA
1 AAA
86446085 AGTATCAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 2 0.07
14 16 0.59
ACGTcount: A:0.60, C:0.14, G:0.07, T:0.19
Consensus pattern (14 bp):
AAATAAATCACTGA
Found at i:86447877 original size:7 final size:7
Alignment explanation
Indices: 86447865--86447889 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
86447855 AATAAAAATT
86447865 ATTTTAA
1 ATTTTAA
86447872 ATTTTAA
1 ATTTTAA
86447879 ATTTTAA
1 ATTTTAA
86447886 ATTT
1 ATTT
86447890 AATTAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTTAA
Found at i:86449655 original size:20 final size:22
Alignment explanation
Indices: 86449618--86449659 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
86449608 GTTGTATTTT
86449618 TATTTTTATATTGAAATTTTGTA
1 TATTTTTATATT-AAATTTTGTA
86449641 TATTTTTA-ATT-AATTTTGT
1 TATTTTTATATTAAATTTTGT
86449660 TGAGTTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
22 3 0.16
23 8 0.42
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
TATTTTTATATTAAATTTTGTA
Found at i:86449784 original size:3 final size:3
Alignment explanation
Indices: 86449778--86449809 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
86449768 TTCGGTTATT
86449778 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
86449810 TGTTATTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:86450201 original size:56 final size:56
Alignment explanation
Indices: 86450115--86450227 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
86450105 AAAATATTGG
86450115 CGTAAGAGTAAGTAATCTTACATTGTTTAAGAACAAGTTGTAAATAGATTATGAGT
1 CGTAAGAGTAAGTAATCTTACATTGTTTAAGAACAAGTTGTAAATAGATTATGAGT
86450171 CGTAAGAGTAAGTAATCTTACATTGTTTAAGAACAAGTTGTAAATAGATTATGAGT
1 CGTAAGAGTAAGTAATCTTACATTGTTTAAGAACAAGTTGTAAATAGATTATGAGT
86450227 C
1 C
86450228 TATATATATT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (56 bp):
CGTAAGAGTAAGTAATCTTACATTGTTTAAGAACAAGTTGTAAATAGATTATGAGT
Found at i:86472055 original size:16 final size:15
Alignment explanation
Indices: 86472007--86472061 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
86471997 TCGTTACATA
*
86472007 TTAAATTTATAATATTT
1 TTAAATTT-T-ATTTTT
*
86472024 TTATAATATTAGTTTTT
1 TTA-AATTTTA-TTTTT
86472041 TTAAATTTTATTTTT
1 TTAAATTTTATTTTT
86472056 TTAAAT
1 TTAAAT
86472062 CATTAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 11 0.33
16 7 0.21
17 11 0.33
18 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
TTAAATTTTATTTTT
Found at i:86477804 original size:46 final size:44
Alignment explanation
Indices: 86477711--86477804 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
86477701 ATTACAACAT
* **
86477711 CATTCCATTTAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAACTCTATTC
***
86477755 CATTCCATTCAACCAAACAGTTGAATTACTTATTACAACTCTATTC
1 CATTCCATTCAACCAAACACAAGAA-TAC-TATTACAACTCTATTC
86477801 CATT
1 CATT
86477805 ACAGCTCTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 21 0.50
45 3 0.07
46 18 0.43
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAACTCTATTC
Found at i:86477807 original size:16 final size:16
Alignment explanation
Indices: 86477786--86477822 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
86477776 TGAATTACTT
86477786 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
* *
86477802 ATTACAGCTCTATTCT
1 ATTACAACTCTATTCC
86477818 ATTAC
1 ATTAC
86477823 TATAACGACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:86478583 original size:21 final size:21
Alignment explanation
Indices: 86478542--86478583 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
86478532 CACTACAATA
* *
86478542 TTTCCTATCACTTCCTTTTAT
1 TTTCCTATCACTTCATATTAT
86478563 TTTCCT-TCACTATCATATTAT
1 TTTCCTATCACT-TCATATTAT
86478584 GTACATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTCCTATCACTTCATATTAT
Found at i:86479450 original size:40 final size:39
Alignment explanation
Indices: 86479406--86479524 Score: 136
Period size: 40 Copynumber: 3.0 Consensus size: 39
86479396 TGAGTTACCA
* *
86479406 TAGTGAATCAGGAACAAATCCTATCAACTTTATATATT-TC-
1 TAGTGAATCAGGAATAAATCCTATC-A-TTT-TAAATTCTCT
86479446 TAGTGAATCAGGAATAAATCCTATTCATTTTAAATTCTCT
1 TAGTGAATCAGGAATAAATCCTA-TCATTTTAAATTCTCT
*
86479486 TAATGAATCAGGAATAAATCCTATTCACTTTT-AATTCTC
1 TAGTGAATCAGGAATAAATCCTA-TCA-TTTTAAATTCTC
86479525 GAGAAGGCTT
Statistics
Matches: 72, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
38 5 0.07
39 5 0.07
40 56 0.78
41 6 0.08
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (39 bp):
TAGTGAATCAGGAATAAATCCTATCATTTTAAATTCTCT
Done.