Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 43 of 141
Found at i:12928136 original size:21 final size:21
Alignment explanation
Indices: 12928103--12928206 Score: 163
Period size: 21 Copynumber: 5.0 Consensus size: 21
12928093 TGGGTGGATT
* *
12928103 AGCTCTTAAGAGCTTTTGTTC
1 AGCTCTTATGAGCTTCTGTTC
*
12928124 AGCTATTATGAGCTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
12928145 AGCTCTTATGAGCTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
*
12928166 AGCTCTTTTGAGCTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
*
12928187 AGCTCTTATGAGCTTTTGTT
1 AGCTCTTATGAGCTTCTGTT
12928207 GGCATGCTCG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 76 1.00
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.45
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTC
Found at i:12938021 original size:20 final size:19
Alignment explanation
Indices: 12937989--12938050 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 19
12937979 CACTATTTGT
12937989 ACTTCGGTACCCCTGATTGC
1 ACTTCGG-ACCCCTGATTGC
* ** * *
12938009 ACTTATGTTCCCCTGTTTGT
1 ACTT-CGGACCCCTGATTGC
12938029 ACTTCGGACCCCTGATTGC
1 ACTTCGGACCCCTGATTGC
12938048 ACT
1 ACT
12938051 CTCATGCCAT
Statistics
Matches: 31, Mismatches: 10, Indels: 3
0.70 0.23 0.07
Matches are distributed among these distances:
19 13 0.42
20 17 0.55
21 1 0.03
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.35
Consensus pattern (19 bp):
ACTTCGGACCCCTGATTGC
Found at i:12938090 original size:40 final size:40
Alignment explanation
Indices: 12937962--12938090 Score: 149
Period size: 40 Copynumber: 3.2 Consensus size: 40
12937952 AATTATTGAA
12937962 TGATTGCACTCTCATGCCACT-ATTTGTACTTCGGTACCCC
1 TGATTGCACTCTCATGCCACTGA-TTGTACTTCGGTACCCC
* *
12938002 TGATTGCACT-T-ATGTTCCCCTGTTTGTACTTCGG-ACCCC
1 TGATTGCACTCTCATG--CCACTGATTGTACTTCGGTACCCC
* * *
12938041 TGATTGCACTCTCATGCCATTGATTATACTTTGGTACCCC
1 TGATTGCACTCTCATGCCACTGATTGTACTTCGGTACCCC
*
12938081 TGATCGCACT
1 TGATTGCACT
12938091 TTCGTGCCCC
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
38 3 0.04
39 29 0.39
40 40 0.53
41 3 0.04
ACGTcount: A:0.17, C:0.30, G:0.16, T:0.36
Consensus pattern (40 bp):
TGATTGCACTCTCATGCCACTGATTGTACTTCGGTACCCC
Found at i:12938108 original size:40 final size:40
Alignment explanation
Indices: 12937962--12938110 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 40
12937952 AATTATTGAA
* * * *
12937962 TGATTGCACTCTCATGCCACT-ATTTGTACTTCGGTACCCC
1 TGATTGCACTTTCGTGCCCCTGA-TTATACTTCGGTACCCC
* * *
12938002 TGATTGCACTTAT-GTTCCCCTGTTTGTACTTCGG-ACCCC
1 TGATTGCACTT-TCGTGCCCCTGATTATACTTCGGTACCCC
* * ** *
12938041 TGATTGCACTCTCATGCCATTGATTATACTTTGGTACCCC
1 TGATTGCACTTTCGTGCCCCTGATTATACTTCGGTACCCC
*
12938081 TGATCGCACTTTCGTGCCCCT-AGTTATACT
1 TGATTGCACTTTCGTGCCCCTGA-TTATACT
12938111 CCAGTAAACC
Statistics
Matches: 86, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
38 1 0.01
39 30 0.35
40 54 0.63
41 1 0.01
ACGTcount: A:0.17, C:0.30, G:0.16, T:0.37
Consensus pattern (40 bp):
TGATTGCACTTTCGTGCCCCTGATTATACTTCGGTACCCC
Found at i:12938971 original size:32 final size:32
Alignment explanation
Indices: 12938930--12939003 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
12938920 CAGCTACCTT
*
12938930 TGTTCACACCCAATGGACCGTCCAACTCC-TGA
1 TGTTCACACCCAAGGGACCGTCCAACTCCAT-A
* *
12938962 TGTTCACACCCAAGGGACCGTTCAAGTCCATA
1 TGTTCACACCCAAGGGACCGTCCAACTCCATA
12938994 TGTTCACACC
1 TGTTCACACC
12939004 AAAGACTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 37 0.97
33 1 0.03
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (32 bp):
TGTTCACACCCAAGGGACCGTCCAACTCCATA
Found at i:12939858 original size:17 final size:17
Alignment explanation
Indices: 12939835--12939876 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
12939825 TGAAATCTAT
*
12939835 AAAAAAAATTTTG-GTG
1 AAAAAAAATTTTGAGTA
*
12939851 ACAAAAAATTTTGAGTA
1 AAAAAAAATTTTGAGTA
12939868 AAAAAAAAT
1 AAAAAAAAT
12939877 ATAAGTCTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.60, C:0.02, G:0.12, T:0.26
Consensus pattern (17 bp):
AAAAAAAATTTTGAGTA
Found at i:12942307 original size:15 final size:15
Alignment explanation
Indices: 12942287--12942315 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12942277 CTTGGTTTCA
12942287 CTAACCCATTTTTTG
1 CTAACCCATTTTTTG
12942302 CTAACCCATTTTTT
1 CTAACCCATTTTTT
12942316 AGGATGTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.28, G:0.03, T:0.48
Consensus pattern (15 bp):
CTAACCCATTTTTTG
Found at i:12946344 original size:15 final size:16
Alignment explanation
Indices: 12946318--12946348 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
12946308 AAATATATTG
12946318 TTTAATAAATATAAAT
1 TTTAATAAATATAAAT
12946334 TTTAA-AAATATAAAT
1 TTTAATAAATATAAAT
12946349 AACTAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAATAAATATAAAT
Found at i:12948014 original size:122 final size:121
Alignment explanation
Indices: 12947808--12948048 Score: 299
Period size: 122 Copynumber: 2.0 Consensus size: 121
12947798 AGTTATATCG
*
12947808 ATACCTTGAAGGCTTCTACCGAAACAAGCCAAAATAGTTGCCAAAGTTCAGTCCCTTCTACACTT
1 ATACCTTGAAGGCTTCTACCGAAACAAGCCAAAATAGTAGCCAAAGTTCAGTCCC-TCTACACTT
* ** * * * **
12947873 TTATTAATACTCTGCTGGGTTTTACCGATACCAGTTGAAA-CCTCTAGAGTTCTACTA
65 CTACCAATACTCTGATGGGTTCTACCAATACCAAATGAAACCCT-TAGAGTTCTACTA
* * *
12947930 ATACCTTG-AGGACTTCTACTGAAACAAGTCAAAATTGTAGCCAAAGTTCAGCCTCCC-CTACAC
1 ATACCTTGAAGG-CTTCTACCGAAACAAGCCAAAATAGTAGCCAAAGTTCAG--TCCCTCTACAC
*
12947993 TTCTACCAATACTCTGATGGGTTCTATCAATACCAAATGAAACCCTTAGAGTTCTA
63 TTCTACCAATACTCTGATGGGTTCTACCAATACCAAATGAAACCCTTAGAGTTCTA
12948049 TAAATATAGG
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
121 3 0.03
122 92 0.90
123 3 0.03
124 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (121 bp):
ATACCTTGAAGGCTTCTACCGAAACAAGCCAAAATAGTAGCCAAAGTTCAGTCCCTCTACACTTC
TACCAATACTCTGATGGGTTCTACCAATACCAAATGAAACCCTTAGAGTTCTACTA
Found at i:12952268 original size:27 final size:27
Alignment explanation
Indices: 12952238--12952308 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
12952228 TTTCAATTCC
*
12952238 TAGGGGTATAACAGTCATTCTACCCTG
1 TAGGGGTATAACAGTCATTCTACCCTA
** * * *
12952265 TAGGGGTATTTCGGTCATTTTATCCTA
1 TAGGGGTATAACAGTCATTCTACCCTA
12952292 TAGGGGTATAACAGTCA
1 TAGGGGTATAACAGTCA
12952309 CCTCGAGCGA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (27 bp):
TAGGGGTATAACAGTCATTCTACCCTA
Found at i:12961542 original size:34 final size:34
Alignment explanation
Indices: 12961499--12961570 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
12961489 AATTTAGCTT
12961499 GTAACAAGACACCACATTTAAACGAGTGAATGAG
1 GTAACAAGACACCACATTTAAACGAGTGAATGAG
12961533 GTAACAAGACACCACATTTAAACGAGTGAATGAG
1 GTAACAAGACACCACATTTAAACGAGTGAATGAG
12961567 GTAA
1 GTAA
12961571 GTATCTCTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (34 bp):
GTAACAAGACACCACATTTAAACGAGTGAATGAG
Found at i:12964286 original size:21 final size:22
Alignment explanation
Indices: 12964248--12964298 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
12964238 TTAGTTTTAA
* *
12964248 ATGTTATTTAGTCTTTAAAAC-C
1 ATGTT-TTTAGCCATTAAAACGC
*
12964270 ATGTTTTTAGCCATTAAATCGC
1 ATGTTTTTAGCCATTAAAACGC
12964292 ATGTTTT
1 ATGTTTT
12964299 GAATAAAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (22 bp):
ATGTTTTTAGCCATTAAAACGC
Found at i:12986758 original size:15 final size:15
Alignment explanation
Indices: 12986738--12986767 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12986728 GCTAACTGAT
*
12986738 AACATGGTGTTTGAA
1 AACATGGTGATTGAA
12986753 AACATGGTGATTGAA
1 AACATGGTGATTGAA
12986768 GAATGAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.30
Consensus pattern (15 bp):
AACATGGTGATTGAA
Found at i:12997888 original size:15 final size:15
Alignment explanation
Indices: 12997868--12997897 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12997858 GCTAAGTGAT
12997868 AACATGGTGATTGAA
1 AACATGGTGATTGAA
12997883 AACATGGTGATTGAA
1 AACATGGTGATTGAA
12997898 GCATGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
AACATGGTGATTGAA
Found at i:12998491 original size:20 final size:20
Alignment explanation
Indices: 12998466--12998504 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
12998456 TTTACATGAC
12998466 TTAACCAAATTCTATGTTAA
1 TTAACCAAATTCTATGTTAA
12998486 TTAACCAAATTCTATGTTA
1 TTAACCAAATTCTATGTTA
12998505 CATCTCATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.41
Consensus pattern (20 bp):
TTAACCAAATTCTATGTTAA
Found at i:12999901 original size:18 final size:17
Alignment explanation
Indices: 12999848--12999910 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
12999838 CATAGTTTGG
12999848 CAAATTAATACAGTTCAC
1 CAAA-TAATACAGTTCAC
* **
12999866 CATACTAATACAAATCAC
1 CA-AATAATACAGTTCAC
*
12999884 TAAATAAATACAGTTCAC
1 CAAAT-AATACAGTTCAC
12999902 CAGAATAAT
1 CA-AATAAT
12999911 GTAATTCACC
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
17 2 0.06
18 28 0.82
19 4 0.12
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.25
Consensus pattern (17 bp):
CAAATAATACAGTTCAC
Found at i:13000320 original size:29 final size:28
Alignment explanation
Indices: 13000288--13000353 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 28
13000278 TTTATAAATG
*
13000288 CATATATATTATCTATAAG-AAAACCTACA
1 CATATATATTATATAT-AGCAAAACC-ACA
*
13000317 CATACATATTATATATAGCAAAACCACA
1 CATATATATTATATATAGCAAAACCACA
13000345 CATATATAT
1 CATATATAT
13000354 GTACTATGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 13 0.39
29 20 0.61
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.30
Consensus pattern (28 bp):
CATATATATTATATATAGCAAAACCACA
Found at i:13003522 original size:40 final size:39
Alignment explanation
Indices: 13003491--13003700 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
13003481 GGACTAAGAT
* *
13003491 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
13003531 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
13003571 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
13003611 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
13003651 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
13003690 CCGAAGGCATT
1 CCGAAGGCATT
13003701 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:13003654 original size:120 final size:120
Alignment explanation
Indices: 13003438--13003700 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
13003428 TTGAATGCTG
* *
13003438 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
13003502 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
13003558 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
13003621 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
13003677 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
13003701 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:13003720 original size:79 final size:80
Alignment explanation
Indices: 13003491--13003735 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
13003481 GGACTAAGAT
* * * * * * * ** *
13003491 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
13003554 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
13003571 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
13003636 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
13003651 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
13003715 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
13003729 CCGAAGG
1 CCGAAGG
13003736 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:13011470 original size:40 final size:40
Alignment explanation
Indices: 13011440--13011729 Score: 456
Period size: 40 Copynumber: 7.3 Consensus size: 40
13011430 GGACTAAGAT
* * * **
13011440 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
*
13011480 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
13011520 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
13011560 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
13011600 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
*
13011640 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
13011680 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
13011719 CCGAAGGCATT
1 CCGAAGGCATT
13011730 TGAACGAGGA
Statistics
Matches: 239, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
39 34 0.14
40 205 0.86
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:13011524 original size:80 final size:80
Alignment explanation
Indices: 13011387--13011729 Score: 449
Period size: 80 Copynumber: 4.3 Consensus size: 80
13011377 TTGAATGCTG
* * * * * * ** *
13011387 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* *
13011450 TTGTGCGAGATACTAAA
64 TCGTGCGAGTTACTAAA
13011467 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
**
13011532 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
*
13011547 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
**
13011612 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* *
13011627 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
13011691 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* * *
13011706 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
13011730 TGAACGAGGA
Statistics
Matches: 240, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
79 34 0.14
80 200 0.83
81 6 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:13014529 original size:27 final size:27
Alignment explanation
Indices: 13014464--13014529 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
13014454 CCCCCAATTT
13014464 GTAAAATTACCGAAATACCCCTATAGG
1 GTAAAATTACCGAAATACCCCTATAGG
** *
13014491 GTAGGATTACCGAAATACCCTTATAGG
1 GTAAAATTACCGAAATACCCCTATAGG
*
13014518 GTAAAATGACCG
1 GTAAAATTACCG
13014530 TTTTGCCCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCCTATAGG
Found at i:13014763 original size:27 final size:27
Alignment explanation
Indices: 13014723--13014787 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
13014713 ATGAAGGAAG
*
13014723 TACTGTTACAGGTGGCTCTGCCACATA
1 TACTGTTACTGGTGGCTCTGCCACATA
*
13014750 TACTGTTACTGGTGGCTTTGCCACATA
1 TACTGTTACTGGTGGCTCTGCCACATA
13014777 TACTG-TACTGG
1 TACTGTTACTGG
13014788 CAGCTTTGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 6 0.17
27 30 0.83
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTCTGCCACATA
Found at i:13014793 original size:26 final size:27
Alignment explanation
Indices: 13014723--13014796 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
13014713 ATGAAGGAAG
* ** *
13014723 TACTGTTACAGGTGGCTCTGCCACATA
1 TACTGTTACTGGCAGCTTTGCCACATA
**
13014750 TACTGTTACTGGTGGCTTTGCCACATA
1 TACTGTTACTGGCAGCTTTGCCACATA
13014777 TACTG-TACTGGCAGCTTTGC
1 TACTGTTACTGGCAGCTTTGC
13014797 TGCGTTATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 13 0.30
27 30 0.70
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
TACTGTTACTGGCAGCTTTGCCACATA
Found at i:13014978 original size:28 final size:28
Alignment explanation
Indices: 13014946--13015014 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
13014936 TACTGCATAC
* *
13014946 TGTTTCTGTATTGGGCTAAGGCCCACCT
1 TGTTTCTGTATTGGGCTAAAGCCCACAT
* *
13014974 TGTTTCTATAGTGGGCTAAAGCCCACAT
1 TGTTTCTGTATTGGGCTAAAGCCCACAT
13015002 TG-TTCTGTTATTG
1 TGTTTCTG-TATTG
13015015 ATTTGGGCTG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 4 0.12
28 30 0.88
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.39
Consensus pattern (28 bp):
TGTTTCTGTATTGGGCTAAAGCCCACAT
Found at i:13017914 original size:16 final size:16
Alignment explanation
Indices: 13017895--13017940 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
13017885 GTTAGAAATG
13017895 TGAAGAGACTTGAATA
1 TGAAGAGACTTGAATA
*
13017911 TGAAGAGTTAC-T-AATG
1 TGAAGAG--ACTTGAATA
13017927 TGAAGAGACTTGAA
1 TGAAGAGACTTGAA
13017941 GATAAAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
14 2 0.08
15 1 0.04
16 19 0.76
17 1 0.04
18 2 0.08
ACGTcount: A:0.41, C:0.07, G:0.26, T:0.26
Consensus pattern (16 bp):
TGAAGAGACTTGAATA
Found at i:13017920 original size:32 final size:32
Alignment explanation
Indices: 13017877--13017954 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
13017867 CAAAATAAAT
*
13017877 TATGAAAAGTTAGAAATGTGAAGAGACTTGAA
1 TATGAAAAGTTACAAATGTGAAGAGACTTGAA
* *
13017909 TATGAAGAGTTACTAATGTGAAGAGACTTGAA
1 TATGAAAAGTTACAAATGTGAAGAGACTTGAA
* *
13017941 GATAAAAAGTTACA
1 TATGAAAAGTTACA
13017955 CTCATGCATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.46, C:0.05, G:0.23, T:0.26
Consensus pattern (32 bp):
TATGAAAAGTTACAAATGTGAAGAGACTTGAA
Found at i:13018046 original size:38 final size:39
Alignment explanation
Indices: 13017962--13018050 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 39
13017952 ACACTCATGC
*
13017962 ATGAATAGTCACAACTCCTATAGCATTTAAGTTATGTAA
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTGATGTAA
*
13018001 ATGAATAGTCACAACTCCTATAGCATTT-AGTGATGTAG
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTGATGTAA
13018039 ATGAATAGTCAC
1 ATGAATAGTCAC
13018051 TTACAACTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 20 0.42
39 28 0.58
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (39 bp):
ATGAATAGTCACAACTCCTATAGCATTTAAGTGATGTAA
Found at i:13024497 original size:23 final size:23
Alignment explanation
Indices: 13024465--13024513 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
13024455 TGTGTAACTT
*
13024465 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
13024488 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
13024511 TTC
1 TTC
13024514 TAACTTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.18, C:0.33, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:13029001 original size:23 final size:23
Alignment explanation
Indices: 13028969--13029017 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
13028959 TGTGTAACTT
*
13028969 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
13028992 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
13029015 TTC
1 TTC
13029018 TAACTTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.18, C:0.33, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:13032639 original size:43 final size:43
Alignment explanation
Indices: 13032592--13032673 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
13032582 ATCAGATAAA
* * *
13032592 CTGAAGGAAACATATTGGCACACACAGTGCACCATCGAACAAG
1 CTGAAGCAAACATACTGGCACACAAAGTGCACCATCGAACAAG
** *
13032635 CTGAAGCAATTATACTGGCACACAAAGTGCATCATCGAA
1 CTGAAGCAAACATACTGGCACACAAAGTGCACCATCGAA
13032674 TAAACCAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (43 bp):
CTGAAGCAAACATACTGGCACACAAAGTGCACCATCGAACAAG
Found at i:13035077 original size:24 final size:23
Alignment explanation
Indices: 13035050--13035099 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
13035040 CGATAACAAT
*
13035050 ATGCAGAAAATTCTGACAGTAAAA
1 ATGCAGAAAA-GCTGACAGTAAAA
* *
13035074 ATGCAGACAAGCTGCCAGTAAAA
1 ATGCAGAAAAGCTGACAGTAAAA
13035097 ATG
1 ATG
13035100 GGATAAATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (23 bp):
ATGCAGAAAAGCTGACAGTAAAA
Found at i:13037762 original size:51 final size:51
Alignment explanation
Indices: 13037706--13037804 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
13037696 AAAACATTTG
* * * *
13037706 TTCATATAAAATAACAGTTCTTACCAAATGAGAGCTCATGCAAAATAATAA
1 TTCATATAAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAATAA
* * *
13037757 TTCATATGAAATATCAGTTCATACCAAATAACAATTCATGCAAAATAA
1 TTCATATAAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAA
13037805 CAGTTCATGC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.28
Consensus pattern (51 bp):
TTCATATAAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAATAA
Found at i:13037814 original size:17 final size:17
Alignment explanation
Indices: 13037705--13037812 Score: 81
Period size: 17 Copynumber: 6.4 Consensus size: 17
13037695 TAAAACATTT
*
13037705 GTTCATATAAAATAACA
1 GTTCATACAAAATAACA
* * * *
13037722 GTTCTTACCAAATGAGA
1 GTTCATACAAAATAACA
* * *
13037739 GCTCATGCAAAATAATA
1 GTTCATACAAAATAACA
* ** *
13037756 ATTCATATGAAATATCA
1 GTTCATACAAAATAACA
*
13037773 GTTCATACCAAATAACA
1 GTTCATACAAAATAACA
* *
13037790 ATTCATGCAAAATAACA
1 GTTCATACAAAATAACA
13037807 GTTCAT
1 GTTCAT
13037813 GCTCTATCAT
Statistics
Matches: 65, Mismatches: 26, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 65 1.00
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (17 bp):
GTTCATACAAAATAACA
Found at i:13039410 original size:25 final size:25
Alignment explanation
Indices: 13039382--13039466 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
13039372 CAGCTCATAT
* *
13039382 GAGCTTACTGCTATTCAGCTTGGAG
1 GAGCTTACCGCTATTCAGCTCGGAG
*
13039407 GAGCTTACCGTTATTCAGCTCGGAG
1 GAGCTTACCGCTATTCAGCTCGGAG
* ** * * *
13039432 GAGCTTATCATTATTTAGCTCAGAA
1 GAGCTTACCGCTATTCAGCTCGGAG
13039457 GAGCTTACCG
1 GAGCTTACCG
13039467 TTTACAACTA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (25 bp):
GAGCTTACCGCTATTCAGCTCGGAG
Found at i:13041450 original size:18 final size:18
Alignment explanation
Indices: 13041427--13041466 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13041417 CTCACAATAC
*
13041427 ACAGTTTGGCAAATTAAT
1 ACAGTTTGCCAAATTAAT
* *
13041445 ACAGTTTGCCATATTAGT
1 ACAGTTTGCCAAATTAAT
13041463 ACAG
1 ACAG
13041467 ATCACCAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (18 bp):
ACAGTTTGCCAAATTAAT
Found at i:13041876 original size:33 final size:33
Alignment explanation
Indices: 13041839--13041922 Score: 93
Period size: 33 Copynumber: 2.6 Consensus size: 33
13041829 TAGATAATAC
* * *
13041839 AAAACCTATAAACGTATATATATTATATATAAT
1 AAAACCCACAAACATATATATATTATATATAAT
* **
13041872 AAAACCCACAAATATATATATATTATATATAGC
1 AAAACCCACAAACATATATATATTATATATAAT
13041905 AAAA-CCAC--ACATATATAT
1 AAAACCCACAAACATATATAT
13041923 TATACATATA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
30 9 0.20
32 4 0.09
33 31 0.70
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.31
Consensus pattern (33 bp):
AAAACCCACAAACATATATATATTATATATAAT
Found at i:13042979 original size:269 final size:269
Alignment explanation
Indices: 13042494--13043207 Score: 1356
Period size: 269 Copynumber: 2.7 Consensus size: 269
13042484 ATATCTCTTT
*
13042494 TACATTAACATTTTAAATTCATACTTTTGACTCATTAAAATCGCACAGAATGTATACGCAACACT
1 TACATGAACATTTTAAATTCATACTTTTGACTCATTAAAATCGCACAGAATGTATACGCAACACT
13042559 CAACAAAATTGTACTAGTTTGCACTAGGAGAAATCAAGGTTAAAATATTAATTAAGTAGGGGTTC
66 CAACAAAATTGTACTAGTTTGCACTAGGAGAAATCAAGGTTAAAATATTAATTAAGTAGGGGTTC
13042624 GCATATGTTATCTTAGCCTTTGTATTAGGAACAATATGCATGATTAGATGCACACAATAATTAGA
131 GCATATGTTATCTTAGCCTTTGTATTAGGAACAATATGCATGATTAGATGCACACAATAATTAGA
13042689 TGCACAATTCACACACACTTATCACGTCAACTACATGGTTTACAGCTACGACCTACCTATTTTAT
196 TGCACAATTCACACACACTTATCACGTCAACTACATGGTTTACAGCTACGACCTACCTATTTTAT
13042754 TCTTATAAC
261 TCTTATAAC
** * * *
13042763 TACATGAACATTTTAAATTTGTACTTTTGACTCATTAAAATCGAATAGAATGTATACACAACACT
1 TACATGAACATTTTAAATTCATACTTTTGACTCATTAAAATCGCACAGAATGTATACGCAACACT
13042828 CAACAAAATTGTACTAGTTTGCACTAGGAGAAATCAAGGTTAAAATATTAATTAAGTAGGGGTTC
66 CAACAAAATTGTACTAGTTTGCACTAGGAGAAATCAAGGTTAAAATATTAATTAAGTAGGGGTTC
13042893 GCATATGTTATCTTAGCCTTTGTATTAGGAACAATATGCATGATTAGATGCACACAATAATTAGA
131 GCATATGTTATCTTAGCCTTTGTATTAGGAACAATATGCATGATTAGATGCACACAATAATTAGA
13042958 TGCACAATTCACACACACTTATCACGTCAACTACATGGTTTACAGCTACGACCTACCTATTTTAT
196 TGCACAATTCACACACACTTATCACGTCAACTACATGGTTTACAGCTACGACCTACCTATTTTAT
13043023 TCTTATAAC
261 TCTTATAAC
13043032 TACATGAACATTTTAAATTCATACTTTTGACTCATTAAAATCGCACAGAATGTATACGCAACACT
1 TACATGAACATTTTAAATTCATACTTTTGACTCATTAAAATCGCACAGAATGTATACGCAACACT
13043097 CAACAAAATTGTACTAGTTTGCACTAGGAGAAATCAAGGTTAAAATATTAATTAAGTAGGGGTTC
66 CAACAAAATTGTACTAGTTTGCACTAGGAGAAATCAAGGTTAAAATATTAATTAAGTAGGGGTTC
* *
13043162 ACATATGTTATCTTAGCCTGTGTATTAGGAACAATATGCATGATTA
131 GCATATGTTATCTTAGCCTTTGTATTAGGAACAATATGCATGATTA
13043208 TGATTGGTTC
Statistics
Matches: 432, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
269 432 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (269 bp):
TACATGAACATTTTAAATTCATACTTTTGACTCATTAAAATCGCACAGAATGTATACGCAACACT
CAACAAAATTGTACTAGTTTGCACTAGGAGAAATCAAGGTTAAAATATTAATTAAGTAGGGGTTC
GCATATGTTATCTTAGCCTTTGTATTAGGAACAATATGCATGATTAGATGCACACAATAATTAGA
TGCACAATTCACACACACTTATCACGTCAACTACATGGTTTACAGCTACGACCTACCTATTTTAT
TCTTATAAC
Found at i:13044082 original size:27 final size:28
Alignment explanation
Indices: 13044046--13044112 Score: 109
Period size: 27 Copynumber: 2.4 Consensus size: 28
13044036 CTATAAACGT
*
13044046 ATATATATTATATATAATAAAACC-CAC
1 ATATATATTATATATAACAAAACCACAC
*
13044073 ATATATATTATATATAGCAAAACCACAC
1 ATATATATTATATATAACAAAACCACAC
13044101 ATATATATTATA
1 ATATATATTATA
13044113 CAAATAACAC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
27 22 0.59
28 15 0.41
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.34
Consensus pattern (28 bp):
ATATATATTATATATAACAAAACCACAC
Found at i:13044731 original size:269 final size:269
Alignment explanation
Indices: 13044242--13045044 Score: 1534
Period size: 269 Copynumber: 3.0 Consensus size: 269
13044232 TATATATATA
* * *
13044242 CACACAGTAATTAGATGCACAATTCACACACACTTATCACGTCAACTACATGGTTTATAGCTACG
1 CACACAATAATTAGATGCACAATTCACACACACTTATCACGTCAACTACATGGTTTACAACTACG
*
13044307 ACCTACCTATTTTATTATTATAACTACATGAACATTTTAAATTCATACTTTTGACTCATTAAAAT
66 ACCTACCTATTTTATTCTTATAACTACATGAACATTTTAAATTCATACTTTTGACTCATTAAAAT
13044372 CGAACAGAATGTATACGCAACACTCAACAAAATTGTACTAGTTTGCACTAGGAGAAATCAAGGTT
131 CGAACAGAATGTATACGCAACACTCAACAAAATTGTACTAGTTTGCACTAGGAGAAATCAAGGTT
*
13044437 AAAATACTAATTAAGTAGGGGTTCGCATATGTTATCTTAGCCTGTGTATTAGGAACAATATGCAT
196 AAAATATTAATTAAGTAGGGGTTCGCATATGTTATCTTAGCCTGTGTATTAGGAACAATATGCAT
13044502 GATTAGATG
261 GATTAGATG
*
13044511 CACACAATATTTAGATGCACAATTCACACACACTTATCACGTCAACTACATGGTTTACAACTACG
1 CACACAATAATTAGATGCACAATTCACACACACTTATCACGTCAACTACATGGTTTACAACTACG
13044576 ACCTACCTATTTTATTCTTATAACTACATGAACATTTTAAATTCATACTTTTGACTCATTAAAAT
66 ACCTACCTATTTTATTCTTATAACTACATGAACATTTTAAATTCATACTTTTGACTCATTAAAAT
*
13044641 CGCACAGAATGTATACGCAACACTCAACAAAATTGTACTAGTTTGCACTAGGAGAAATCAAGGTT
131 CGAACAGAATGTATACGCAACACTCAACAAAATTGTACTAGTTTGCACTAGGAGAAATCAAGGTT
13044706 AAAATATTAATTAAGTAGGGGTTCGCATATGTTATCTTAGCCTGTGTATTAGGAACAATATGCAT
196 AAAATATTAATTAAGTAGGGGTTCGCATATGTTATCTTAGCCTGTGTATTAGGAACAATATGCAT
13044771 GATTAGATG
261 GATTAGATG
13044780 CACACAATAATTAGATGCACAATTCACACACACTTATCACGTCAACTACATGGTTTACAACTACG
1 CACACAATAATTAGATGCACAATTCACACACACTTATCACGTCAACTACATGGTTTACAACTACG
13044845 ACCTACCTATTTTATTCTTATAACTACATGAACATTTTAAATTCATACTTTTGACTCATTAAAAT
66 ACCTACCTATTTTATTCTTATAACTACATGAACATTTTAAATTCATACTTTTGACTCATTAAAAT
13044910 CGAACAGAATGTATACGCAACACTCAACAAAATTGTACTAGTTTGCACTAGGAGAAATCAAGGTT
131 CGAACAGAATGTATACGCAACACTCAACAAAATTGTACTAGTTTGCACTAGGAGAAATCAAGGTT
*
13044975 AAAATATTAATTAAGTAGGGGTTCACATATGTTATCTTAGCCTGTGTATTAGGAACAATATGCAT
196 AAAATATTAATTAAGTAGGGGTTCGCATATGTTATCTTAGCCTGTGTATTAGGAACAATATGCAT
13045040 GATTA
261 GATTA
13045045 TGATTGGTTC
Statistics
Matches: 524, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
269 524 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (269 bp):
CACACAATAATTAGATGCACAATTCACACACACTTATCACGTCAACTACATGGTTTACAACTACG
ACCTACCTATTTTATTCTTATAACTACATGAACATTTTAAATTCATACTTTTGACTCATTAAAAT
CGAACAGAATGTATACGCAACACTCAACAAAATTGTACTAGTTTGCACTAGGAGAAATCAAGGTT
AAAATATTAATTAAGTAGGGGTTCGCATATGTTATCTTAGCCTGTGTATTAGGAACAATATGCAT
GATTAGATG
Found at i:13045921 original size:27 final size:28
Alignment explanation
Indices: 13045885--13045960 Score: 109
Period size: 27 Copynumber: 2.7 Consensus size: 28
13045875 CTATAAACGT
*
13045885 ATATATATTATATATAATAAAACC-CAC
1 ATATATATTATATATAACAAAACCACAC
*
13045912 ATATATATTATATATAGCAAAACCACAC
1 ATATATATTATATATAACAAAACCACAC
13045940 ATATATATTATACATATAACA
1 ATATATATTAT--ATATAACA
13045961 CCTATGCACG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 22 0.51
28 14 0.33
30 7 0.16
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.33
Consensus pattern (28 bp):
ATATATATTATATATAACAAAACCACAC
Found at i:13046198 original size:21 final size:21
Alignment explanation
Indices: 13046172--13046212 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
13046162 TCTTATAACT
13046172 ACATGAACATTTTAAATTCAC
1 ACATGAACATTTTAAATTCAC
*
13046193 ACATGAACATTTTATATTCA
1 ACATGAACATTTTAAATTCA
13046213 TACTTTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (21 bp):
ACATGAACATTTTAAATTCAC
Found at i:13046488 original size:21 final size:21
Alignment explanation
Indices: 13046462--13046502 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
13046452 TCTTATAACT
13046462 ACATGAACATTTTAAATTCAC
1 ACATGAACATTTTAAATTCAC
*
13046483 ACATGAACATTTTATATTCA
1 ACATGAACATTTTAAATTCA
13046503 TACTTTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (21 bp):
ACATGAACATTTTAAATTCAC
Found at i:13046602 original size:290 final size:290
Alignment explanation
Indices: 13046082--13046635 Score: 1099
Period size: 290 Copynumber: 1.9 Consensus size: 290
13046072 TATATATATA
13046082 CACACAATAATTAGATGCACAATTCACACACACTTATCACGTCAACTACATGGTTTACAGCTACG
1 CACACAATAATTAGATGCACAATTCACACACACTTATCACGTCAACTACATGGTTTACAGCTACG
13046147 ACCTACCTATTTTATTCTTATAACTACATGAACATTTTAAATTCACACATGAACATTTTATATTC
66 ACCTACCTATTTTATTCTTATAACTACATGAACATTTTAAATTCACACATGAACATTTTATATTC
13046212 ATACTTTTGACTCATTAAAATCGCACAGAATGTATACGCAACACTCAACAAAATTGTACTAGTTT
131 ATACTTTTGACTCATTAAAATCGCACAGAATGTATACGCAACACTCAACAAAATTGTACTAGTTT
*
13046277 GCACTAGGAGAAATCAAGGTTAAAATATTAATTAAGTAGGGGTTCGCATATGTTATCTTAGCCTT
196 GCACTAGGAGAAATCAAGGTTAAAATATTAATTAAGTAGGGGTTCGCATATGTTATCTTAGCCTG
13046342 TGTATTAGGAACAATATGCATGATTAGATG
261 TGTATTAGGAACAATATGCATGATTAGATG
13046372 CACACAATAATTAGATGCACAATTCACACACACTTATCACGTCAACTACATGGTTTACAGCTACG
1 CACACAATAATTAGATGCACAATTCACACACACTTATCACGTCAACTACATGGTTTACAGCTACG
13046437 ACCTACCTATTTTATTCTTATAACTACATGAACATTTTAAATTCACACATGAACATTTTATATTC
66 ACCTACCTATTTTATTCTTATAACTACATGAACATTTTAAATTCACACATGAACATTTTATATTC
13046502 ATACTTTTGACTCATTAAAATCGCACAGAATGTATACGCAACACTCAACAAAATTGTACTAGTTT
131 ATACTTTTGACTCATTAAAATCGCACAGAATGTATACGCAACACTCAACAAAATTGTACTAGTTT
13046567 GCACTAGGAGAAATCAAGGTTAAAATATTAATTAAGTAGGGGTTCGCATATGTTATCTTAGCCTG
196 GCACTAGGAGAAATCAAGGTTAAAATATTAATTAAGTAGGGGTTCGCATATGTTATCTTAGCCTG
13046632 TGTA
261 TGTA
13046636 CTGGAGTTTA
Statistics
Matches: 263, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
290 263 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.32
Consensus pattern (290 bp):
CACACAATAATTAGATGCACAATTCACACACACTTATCACGTCAACTACATGGTTTACAGCTACG
ACCTACCTATTTTATTCTTATAACTACATGAACATTTTAAATTCACACATGAACATTTTATATTC
ATACTTTTGACTCATTAAAATCGCACAGAATGTATACGCAACACTCAACAAAATTGTACTAGTTT
GCACTAGGAGAAATCAAGGTTAAAATATTAATTAAGTAGGGGTTCGCATATGTTATCTTAGCCTG
TGTATTAGGAACAATATGCATGATTAGATG
Found at i:13050805 original size:39 final size:39
Alignment explanation
Indices: 13050691--13050926 Score: 256
Period size: 39 Copynumber: 6.1 Consensus size: 39
13050681 CATATTCACT
* * * *
13050691 TTTAAGCATATATCATAGTACTCATATAATCACCTAACA
1 TTTAAGCATATATCACAATACTCGTATAATCACATAACA
** ** **
13050730 TACAAGCATATATCACAATGTTCAAATAATCACATAACA
1 TTTAAGCATATATCACAATACTCGTATAATCACATAACA
* * *
13050769 TTTAAGCATATATCACAATACTTGTAGAATCTCATAACA
1 TTTAAGCATATATCACAATACTCGTATAATCACATAACA
* * ** *
13050808 TTCAAGCATATAACACAATACTTATATAATCACATAACT
1 TTTAAGCATATATCACAATACTCGTATAATCACATAACA
* *
13050847 TTTAAGAATATATTACAATACTCGTATAATCACATAACA
1 TTTAAGCATATATCACAATACTCGTATAATCACATAACA
* * **
13050886 TTAAAGCATAAATTGCAATACTCGTATAATCACATAACA
1 TTTAAGCATATATCACAATACTCGTATAATCACATAACA
13050925 TT
1 TT
13050927 CATAATTTAA
Statistics
Matches: 163, Mismatches: 34, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 163 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCGTATAATCACATAACA
Found at i:13053288 original size:17 final size:18
Alignment explanation
Indices: 13053261--13053312 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
13053251 TGGGTCACAC
*
13053261 GAGCGTGTGGGCCACATA
1 GAGCATGTGGGCCACATA
*
13053279 G-GCATTTGGGCCAACAT-
1 GAGCATGTGGGCC-ACATA
13053296 GAGCATGTGGG-CACATA
1 GAGCATGTGGGCCACATA
13053313 ATTCTAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 4 0.14
17 11 0.39
18 13 0.46
ACGTcount: A:0.25, C:0.21, G:0.35, T:0.19
Consensus pattern (18 bp):
GAGCATGTGGGCCACATA
Found at i:13058556 original size:15 final size:16
Alignment explanation
Indices: 13058530--13058560 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
13058520 AAATATATTG
13058530 TTTAATAAATATAAAT
1 TTTAATAAATATAAAT
13058546 TTTAA-AAATATAAAT
1 TTTAATAAATATAAAT
13058561 AACTAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAATAAATATAAAT
Found at i:13059060 original size:16 final size:16
Alignment explanation
Indices: 13059036--13059070 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13059026 ACTCTTGTTT
*
13059036 AGAATAGTTGTTGCTC
1 AGAACAGTTGTTGCTC
*
13059052 AGAACAGTTGTTGTTC
1 AGAACAGTTGTTGCTC
13059068 AGA
1 AGA
13059071 GAACAACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (16 bp):
AGAACAGTTGTTGCTC
Found at i:13059201 original size:16 final size:16
Alignment explanation
Indices: 13059147--13059191 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
13059137 TTGTTGTTAT
* * *
13059147 TTTAGAATAACTTATG
1 TTTAGAACAACTAAAG
*
13059163 TTAAGAACAACTAAAG
1 TTTAGAACAACTAAAG
13059179 TTTAGAACAACTA
1 TTTAGAACAACTA
13059192 TTATTTAGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (16 bp):
TTTAGAACAACTAAAG
Found at i:13064951 original size:26 final size:26
Alignment explanation
Indices: 13064911--13064960 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
13064901 TCTGATATGC
13064911 TATACGTTCTAAAAATATGAAAATGA
1 TATACGTTCTAAAAATATGAAAATGA
* *
13064937 TATATGTTCTGAAAATATGAAAAT
1 TATACGTTCTAAAAATATGAAAAT
13064961 TTTGATCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.34
Consensus pattern (26 bp):
TATACGTTCTAAAAATATGAAAATGA
Found at i:13084904 original size:166 final size:166
Alignment explanation
Indices: 13084630--13085119 Score: 863
Period size: 166 Copynumber: 3.0 Consensus size: 166
13084620 ACTGAGCGTA
*
13084630 TTATGACAGACCTTAACTGTACTCCTACTCAAAAATTGAGGGGTGTTGTGTCCCTACTCCAGAAC
1 TTATGACAGACCTTAACTGTACTCCTACTCAGAAATTGAGGGGTGTTGTGTCCCTACTCCAGAAC
* *
13084695 GAAGCTTGTCAGTAGTGGTTAACTGTTGAGCAAGGTGCTCAACCTGAACAAGTGAACTGGGACTA
66 GAAGCTTATCAGTGGTGGTTAACTGTTGAGCAAGGTGCTCAACCTGAACAAGTGAACTGGGACTA
*
13084760 TTTCAATAACGCCTTCCAGGGTAAATATGCGGGGTG
131 TTTCAAAAACGCCTTCCAGGGTAAATATGCGGGGTG
* *
13084796 TTATGACAGACCTTAACTGTACTCCTACTCAGAAATTGAGGGGTGTTGTGTCCCTACTCTAAAAC
1 TTATGACAGACCTTAACTGTACTCCTACTCAGAAATTGAGGGGTGTTGTGTCCCTACTCCAGAAC
13084861 GAAGCTTATCAGTGGTGGTTAACTGTTGAGCAAGGTGCTCAACCTGAACAAGTGAACTGGGACTA
66 GAAGCTTATCAGTGGTGGTTAACTGTTGAGCAAGGTGCTCAACCTGAACAAGTGAACTGGGACTA
13084926 TTTCAAAAACGCCTTCCAGGGTAAATATGCGGGGTG
131 TTTCAAAAACGCCTTCCAGGGTAAATATGCGGGGTG
* *
13084962 TTATGACAGACCTTAACTGTACTCCTACTCAGAAATTGAGGGGTGTTGTGTCCCCACTCCAGAGC
1 TTATGACAGACCTTAACTGTACTCCTACTCAGAAATTGAGGGGTGTTGTGTCCCTACTCCAGAAC
* * *
13085027 GAAGCTTATCAATGGTGGTTAACTGTTGGGCAAGGTGCTCAACCTGAACAAGTGATCTGGGACTA
66 GAAGCTTATCAGTGGTGGTTAACTGTTGAGCAAGGTGCTCAACCTGAACAAGTGAACTGGGACTA
* *
13085092 TTTCAAGAATGCCTTCCAGGGTAAATAT
131 TTTCAAAAACGCCTTCCAGGGTAAATAT
13085120 ATGGGGGTGA
Statistics
Matches: 309, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
166 309 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (166 bp):
TTATGACAGACCTTAACTGTACTCCTACTCAGAAATTGAGGGGTGTTGTGTCCCTACTCCAGAAC
GAAGCTTATCAGTGGTGGTTAACTGTTGAGCAAGGTGCTCAACCTGAACAAGTGAACTGGGACTA
TTTCAAAAACGCCTTCCAGGGTAAATATGCGGGGTG
Found at i:13089193 original size:41 final size:41
Alignment explanation
Indices: 13089148--13089228 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
13089138 GAAGGGGTGA
13089148 TGGTTAATTTAAAACCTTCAAAGGAAATGTTATCTTTCTTC
1 TGGTTAATTTAAAACCTTCAAAGGAAATGTTATCTTTCTTC
13089189 TGGTTAATTTAAAACCTTCAAAGGAAATGTTATCTTTCTT
1 TGGTTAATTTAAAACCTTCAAAGGAAATGTTATCTTTCTT
13089229 TTCTTTTCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (41 bp):
TGGTTAATTTAAAACCTTCAAAGGAAATGTTATCTTTCTTC
Found at i:13089276 original size:20 final size:19
Alignment explanation
Indices: 13089251--13089293 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
13089241 AACTTTTAAG
* *
13089251 TTCTTTTTTTTTTGTTCTT
1 TTCTTTTTATTTTCTTCTT
13089270 CTTCTTTTTATTTTCTTCTT
1 -TTCTTTTTATTTTCTTCTT
13089290 TTCT
1 TTCT
13089294 ACTATTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (19 bp):
TTCTTTTTATTTTCTTCTT
Found at i:13095377 original size:23 final size:22
Alignment explanation
Indices: 13095350--13095394 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
13095340 AACTTAAATC
13095350 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
13095373 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
13095395 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:13096060 original size:131 final size:131
Alignment explanation
Indices: 13095861--13096244 Score: 565
Period size: 131 Copynumber: 2.9 Consensus size: 131
13095851 AACTTCAGGA
* *
13095861 AGATAAGG-CTGGTGGCTTAAATTTGCTTCCCTACTACCTC-AGGAAGATAAGACTCGCCGTCTT
1 AGAT-AGGACTGGTGGCTTAAATCTGCTT-CCTACTACCTCGA-GAAGATAAGATTCGCCGTCTT
* * *
13095924 TGATCTGCTCCACTACTACTTAGGGAGACAGGATATACAATCTTCAACCTACTCCACTACTGCTA
63 TGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTACTCCACTACTGCTA
13095989 AGGG
128 AGGG
* * * * *
13095993 AGATAGGACTGGTAGCTTAAATCTGCTTCCTACTATCTCGAGAAGATCAGATTCACCGTCTTCGA
1 AGATAGGACTGGTGGCTTAAATCTGCTTCCTACTACCTCGAGAAGATAAGATTCGCCGTCTTTGA
* *
13096058 TCTGCTCTACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTACTCCACTACTGCTCAGG
66 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTACTCCACTACTGCTAAGG
13096123 G
131 G
** * *
13096124 AGATAGGACTGGTGGCTTAAATCTGCGCCCTTACTACCTTGGGAAGATAAGATTCGCCGTCTTTG
1 AGATAGGACTGGTGGCTTAAATCTGCTTCC-TACTACCTCGAGAAGATAAGATTCGCCGTCTTTG
*
13096189 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTACTACACT
65 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTACTCCACT
13096245 GCAAACTCAG
Statistics
Matches: 226, Mismatches: 23, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
131 121 0.54
132 105 0.46
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (131 bp):
AGATAGGACTGGTGGCTTAAATCTGCTTCCTACTACCTCGAGAAGATAAGATTCGCCGTCTTTGA
TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTACTCCACTACTGCTAAGG
G
Found at i:13096369 original size:89 final size:89
Alignment explanation
Indices: 13096241--13096525 Score: 331
Period size: 89 Copynumber: 3.2 Consensus size: 89
13096231 CAACCTACTA
* * *
13096241 CACTGCAAACTCAGAGAGGCAAGGCTGGTGT-TTTCGATCTGTTTCACTGCCAATACAGGAAGAC
1 CACTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTT-GATCTGCTTCACTGCCAATACAGGAAGAC
* *
13096305 AAGATCTGCTATTTTCAGTCTACTC
65 AAGATCTGCTATCTTCAGTCTACCC
* * ** * * *
13096330 TACTGCAAACTTAGGGAGGCAAGATTTGTGTCTTTGATCTGCTTCACTGCCAGTACAGAAAGACA
1 CACTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCACTGCCAATACAGGAAGACA
13096395 AGATCTGCTATCTTCAGTCTACCC
66 AGATCTGCTATCTTCAGTCTACCC
* * * * * *
13096419 CACTACAAACTCAAGGAGCCAAGGCTAGTGTCTTCGATCTGCTTCGCTGCCAATATAGGAAGACA
1 CACTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCACTGCCAATACAGGAAGACA
* * * *
13096484 AGATCTGCTGTCGTCAGTCTGCTC
66 AGATCTGCTATCTTCAGTCTACCC
*
13096508 CACTG-TAACTTCAGGGAG
1 CACTGCAAAC-TCAGGGAG
13096526 ATAAGACTTG
Statistics
Matches: 163, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
88 3 0.02
89 157 0.96
90 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (89 bp):
CACTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCACTGCCAATACAGGAAGACA
AGATCTGCTATCTTCAGTCTACCC
Found at i:13096837 original size:181 final size:181
Alignment explanation
Indices: 13096598--13096989 Score: 511
Period size: 181 Copynumber: 2.2 Consensus size: 181
13096588 TTTTAATCCG
* * * *
13096598 CTCCACTGTAACTTCAGGGAGATAGGA-TTAGTAGCTTCAATCCGCTCCACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTA-CAGCTTCAATCCGCTCCACTGCAACTTCAAGGA
* ** * **
13096662 GATAAGGTTTGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTATGATTTATAGTT
65 GATAAGATTTGACATGATCTACTCTACTGCAACTTCAGAGAGATAAGATC-TATGATTTATAACT
* * * * * **
13096727 TTGATCTATTCCACTGTAATCTTCAGGGAAACAAGATTTGCTATCTTCAGTCTA
129 TTAATATATTCCACTGT-AGCTTCAAGAAAACAAGATTCACTATCTTCAGTCTA
*
13096781 CTCCACTGCAACTTCAGGGAGATAAGACTT-CA-CTTCAATCCGCTCCATTGCAACTTCAAGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTACAGCTTCAATCCGCTCCACTGCAACTTCAAGGAG
**
13096844 ATAAGATTTTCCATGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTATAACTTT
66 ATAAGATTTGACATGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTATAACTTT
* * *
13096909 AATATGTTCCACTGTAGCTTCAAGAAAATAAGATTCACTATCTTCAGTCTG
131 AATATATTCCACTGTAGCTTCAAGAAAACAAGATTCACTATCTTCAGTCTA
* *
13096960 CCCCACTGCAACTTCAGGGGGATAAGACTT
1 CTCCACTGCAACTTCAGGGAGATAAGACTT
13096990 GCTTTCTTCA
Statistics
Matches: 183, Mismatches: 25, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
179 57 0.31
180 26 0.14
181 72 0.39
182 1 0.01
183 25 0.14
184 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (181 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTACAGCTTCAATCCGCTCCACTGCAACTTCAAGGAG
ATAAGATTTGACATGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTATAACTTT
AATATATTCCACTGTAGCTTCAAGAAAACAAGATTCACTATCTTCAGTCTA
Found at i:13097055 original size:44 final size:44
Alignment explanation
Indices: 13097000--13097454 Score: 330
Period size: 44 Copynumber: 10.2 Consensus size: 44
13096990 GCTTTCTTCA
* * *
13097000 ATAAGACTTGTAACTTTAATCCGCTCCACAT-CAACTTCAAGGAG
1 ATAAGATTTGTAACTTTAATCTGCTCCAC-TGCAACTTCAGGGAG
* * *
13097044 ATAAGATTTGTAACTTTAATCTGCTCCACTACAATTTCAAGGAG
1 ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * ** * * *
13097088 ATAGGATTTTTGTCTTTAATTTGCTCCATTGCAACTTTAGGGAG
1 ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * * *
13097132 ATAAGATTTGCCATCTTCAGTCTGC-CCTACTGCAACTTCAGGGGG
1 ATAAGATTTG-TAACTTTAATCTGCTCC-ACTGCAACTTCAGGGAG
* ** * * *
13097177 ATAAGACTTGCTTTCTTCAGTCTGCTCCACTACAACTTCAGGGAG
1 ATAAGATTTG-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * *
13097222 ATAAGACTTT-TAACTTTAATCCGCTCCACTGCAACTTCAAGAAG
1 ATAAGA-TTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* **
13097266 ATAGGATTAT-TGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
1 ATAAGATT-TGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* ** *
13097310 ATAGGATTAT-TGGCTTTAAT-TAGCTCCACTACAACTTCAGGGAG
1 ATAAGATT-TGTAACTTTAATCT-GCTCCACTGCAACTTCAGGGAG
* * * * * * *
13097354 ATAAGATTTGCCATCTTCAGTTTGCCCCACTGCAACTTCAGGGGG
1 ATAAGATTTG-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* ** * * *
13097399 ATAAGACTTGTTTTCTTCAGTCTGCTCCACTGTAACCTT-AGGGAG
1 ATAAGATTTG-TAACTTTAATCTGCTCCACTGCAA-CTTCAGGGAG
*
13097444 ATAGGATTTGT
1 ATAAGATTTGT
13097455 GGTTTCACCG
Statistics
Matches: 337, Mismatches: 63, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
43 5 0.01
44 193 0.57
45 131 0.39
46 8 0.02
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (44 bp):
ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
Found at i:13097388 original size:222 final size:222
Alignment explanation
Indices: 13097000--13097446 Score: 675
Period size: 222 Copynumber: 2.0 Consensus size: 222
13096990 GCTTTCTTCA
*
13097000 ATAAGACTTGTAACTTTAATCCGCTCCACATCAACTTCAAGGAGATAAGATTTGTAACTTTAATC
1 ATAAGACTTGTAACTTTAATCCGCTCCACATCAACTTCAAGAAGATAAGATTTGTAACTTTAATC
* * * * * * *
13097065 TGCTCCACTACAATTTCAAGGAGATAGGATTTTTGTCTTTAATTTGCTCCATTGCAACTTTAGGG
66 TGCTCCACTACAACTTCAAGGAGATAGGATTATTGGCTTTAATTAGCTCCACTACAACTTCAGGG
*
13097130 AGATAAGATTTGCCATCTTCAGTCTGCCCTACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTC
131 AGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTC
13097195 AGTCTGCTCCACTACAA-CTTCAGGGAG
196 AGTCTGCTCCACTACAACCTT-AGGGAG
* * **
13097222 ATAAGACTTTTAACTTTAATCCGCTCCAC-TGCAACTTCAAGAAGATAGGATTAT-TGGCTTTAA
1 ATAAGACTTGTAACTTTAATCCGCTCCACAT-CAACTTCAAGAAGATAAGATT-TGTAACTTTAA
* *
13097285 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATTAGCTCCACTACAACTTCAG
64 TCTGCTCCACTACAACTTCAAGGAGATAGGATTATTGGCTTTAATTAGCTCCACTACAACTTCAG
* *
13097350 GGAGATAAGATTTGCCATCTTCAGTTTGCCCCACTGCAACTTCAGGGGGATAAGACTTGTTTTCT
129 GGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCT
**
13097415 TCAGTCTGCTCCACTGTAACCTTAGGGAG
194 TCAGTCTGCTCCACTACAACCTTAGGGAG
13097444 ATA
1 ATA
13097447 GGATTTGTGG
Statistics
Matches: 203, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
221 1 0.00
222 198 0.98
223 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (222 bp):
ATAAGACTTGTAACTTTAATCCGCTCCACATCAACTTCAAGAAGATAAGATTTGTAACTTTAATC
TGCTCCACTACAACTTCAAGGAGATAGGATTATTGGCTTTAATTAGCTCCACTACAACTTCAGGG
AGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTC
AGTCTGCTCCACTACAACCTTAGGGAG
Found at i:13097763 original size:24 final size:24
Alignment explanation
Indices: 13097731--13097786 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
13097721 CAGATTGTCC
13097731 CCACAGTAATCTTCAAGGTTCAAT
1 CCACAGTAATCTTCAAGGTTCAAT
*
13097755 CCACTGTAATCTTCAAGGTTCAAT
1 CCACAGTAATCTTCAAGGTTCAAT
13097779 CCACAGTA
1 CCACAGTA
13097787 CTTTTGAGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (24 bp):
CCACAGTAATCTTCAAGGTTCAAT
Found at i:13098718 original size:9 final size:9
Alignment explanation
Indices: 13098704--13098728 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13098694 TTTCTTCTCT
13098704 TTTTTTTGA
1 TTTTTTTGA
13098713 TTTTTTTGA
1 TTTTTTTGA
13098722 TTTTTTT
1 TTTTTTT
13098729 TGTCTCAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:13103239 original size:19 final size:18
Alignment explanation
Indices: 13103215--13103256 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13103205 CAATATATAT
*
13103215 AATTTCAAAAAATTATTAA
1 AATTTC-AAAAACTATTAA
*
13103234 AATTTCAATAACTATTAA
1 AATTTCAAAAACTATTAA
13103252 AATTT
1 AATTT
13103257 TATAAAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTTCAAAAACTATTAA
Found at i:13113892 original size:28 final size:28
Alignment explanation
Indices: 13113852--13113910 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
13113842 AATTAAATAT
13113852 GTTAATGTATGGAACTATGGATATTTTG
1 GTTAATGTATGGAACTATGGATATTTTG
13113880 GTTAATGTATGGAACTATGGATATTTTG
1 GTTAATGTATGGAACTATGGATATTTTG
13113908 GTT
1 GTT
13113911 GGTTGATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.25, T:0.44
Consensus pattern (28 bp):
GTTAATGTATGGAACTATGGATATTTTG
Found at i:13120276 original size:24 final size:24
Alignment explanation
Indices: 13120246--13120293 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
13120236 CCATAGTCAC
13120246 CCTCGACAGAATGTGTATGATACA
1 CCTCGACAGAATGTGTATGATACA
13120270 CCTCGACAGAATGTGTATGATACA
1 CCTCGACAGAATGTGTATGATACA
13120294 TTCTATCATC
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:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (24 bp):
CCTCGACAGAATGTGTATGATACA
Found at i:13121044 original size:18 final size:21
Alignment explanation
Indices: 13121006--13121059 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
13120996 GCTGTTGAGA
13121006 AAGAAGTTGTTGGTGTAGAAG
1 AAGAAGTTGTTGGTGTAGAAG
* *
13121027 AGGAAGTTGTTGGTGAAGAAG
1 AAGAAGTTGTTGGTGTAGAAG
*
13121048 AAGAAGTAGTTG
1 AAGAAGTTGTTG
13121060 AAAATGAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.26
Consensus pattern (21 bp):
AAGAAGTTGTTGGTGTAGAAG
Found at i:13121512 original size:17 final size:17
Alignment explanation
Indices: 13121486--13121519 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13121476 GATAAGTATA
13121486 TATTGCCATTACATTTT
1 TATTGCCATTACATTTT
*
13121503 TATTGTCATTACATTTT
1 TATTGCCATTACATTTT
13121520 CATGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.56
Consensus pattern (17 bp):
TATTGCCATTACATTTT
Found at i:13128920 original size:25 final size:24
Alignment explanation
Indices: 13128855--13128950 Score: 79
Period size: 25 Copynumber: 3.9 Consensus size: 24
13128845 ATTCTTTACA
* *
13128855 TGTATGCTCATACGAGCTGTGAAT
1 TGTAAGCTCATACGAGCTGTAAAT
* *
13128879 TGATATGCTC-TCTCGAGCTGTAAAT
1 TG-TAAGCTCAT-ACGAGCTGTAAAT
*
13128904 CTGTAAGCTCATACGAGCT-AAGAAT
1 -TGTAAGCTCATACGAGCTGTA-AAT
*
13128929 TGGTAAGCTCGTACGAGCTGTA
1 T-GTAAGCTCATACGAGCTGTA
13128951 GGGCAGTATG
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
24 5 0.09
25 49 0.84
26 4 0.07
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (24 bp):
TGTAAGCTCATACGAGCTGTAAAT
Found at i:13128946 original size:50 final size:50
Alignment explanation
Indices: 13128855--13128950 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
13128845 ATTCTTTACA
* ** * *
13128855 TGTATGCTCATACGAGCTGTGAATTGATATGCTCTCTCGAGCTGTAAATC
1 TGTAAGCTCATACGAGCTAAGAATTGATAAGCTCTCACGAGCTGTAAATC
*
13128905 TGTAAGCTCATACGAGCTAAGAATTGGTAAGCTCGT-ACGAGCTGTA
1 TGTAAGCTCATACGAGCTAAGAATTGATAAGCTC-TCACGAGCTGTA
13128951 GGGCAGTATG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 38 0.97
51 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (50 bp):
TGTAAGCTCATACGAGCTAAGAATTGATAAGCTCTCACGAGCTGTAAATC
Found at i:13135363 original size:39 final size:41
Alignment explanation
Indices: 13135294--13135382 Score: 139
Period size: 39 Copynumber: 2.2 Consensus size: 41
13135284 TAAAAAGTAT
*
13135294 TTATATT-AAAAACACTACTATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
13135334 TTATATTAAAAAACAC-A-AATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
*
13135373 TTGTATTAAA
1 TTATATTAAA
13135383 TATAATTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
39 30 0.65
40 8 0.17
41 8 0.17
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (41 bp):
TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
Found at i:13135503 original size:20 final size:21
Alignment explanation
Indices: 13135473--13135517 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
13135463 TAATTATTAG
*
13135473 ATTATTGATTTAATATATATA
1 ATTATTGATTTAACATATATA
13135494 ATTATT-ATTTAACATATATA
1 ATTATTGATTTAACATATATA
13135514 ATTA
1 ATTA
13135518 ATATAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTATTGATTTAACATATATA
Found at i:13146787 original size:34 final size:34
Alignment explanation
Indices: 13146744--13146811 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
13146734 TGATATTTTA
13146744 CATGTCATTCGTTATTTTTACTTTTGTCTTAATT
1 CATGTCATTCGTTATTTTTACTTTTGTCTTAATT
*
13146778 CATGTCATTCGTTATTTTTGCTTTTGTCTTAATT
1 CATGTCATTCGTTATTTTTACTTTTGTCTTAATT
13146812 TAGTTTGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.16, C:0.15, G:0.10, T:0.59
Consensus pattern (34 bp):
CATGTCATTCGTTATTTTTACTTTTGTCTTAATT
Found at i:13150622 original size:24 final size:24
Alignment explanation
Indices: 13150595--13150640 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
13150585 AGAACAATCC
* *
13150595 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
13150619 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
13150641 AAAAGATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:13156667 original size:13 final size:13
Alignment explanation
Indices: 13156649--13156673 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13156639 TTTTCCGTGA
13156649 CCTTTCTCCATGG
1 CCTTTCTCCATGG
13156662 CCTTTCTCCATG
1 CCTTTCTCCATG
13156674 TGGGGTATGG
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:0.08, C:0.40, G:0.12, T:0.40
Consensus pattern (13 bp):
CCTTTCTCCATGG
Found at i:13158734 original size:44 final size:45
Alignment explanation
Indices: 13158684--13158983 Score: 177
Period size: 45 Copynumber: 6.9 Consensus size: 45
13158674 TAACAGATCG
13158684 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAGGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAT-GGCA
13158728 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAAGATGGCA
* * * * ** *
13158773 AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCGGTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATGGCA
* * * * * **
13158818 A-TCCTATCTCGCTGAAATTGCAGT-GAGCGGATTAAA-ACT--TT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGA-TGGCA
* * * * *
13158859 AGATCTTATCTCTCTGCAGTTGCAG-AGAGCAGA-T--CGCAT--CT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-ATGGCA
*
13158900 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCA-AGCTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-CTAAAGATGGCA
* * * *
13158945 AATCTTATCTCCCTGAAGTTGTAGTGGATCAGATTAAAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
13158984 CCGATAATCC
Statistics
Matches: 200, Mismatches: 32, Indels: 47
0.72 0.11 0.17
Matches are distributed among these distances:
39 1 0.00
40 21 0.10
41 9 0.05
42 3 0.01
43 39 0.19
44 50 0.25
45 69 0.34
46 8 0.04
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATGGCA
Found at i:13158811 original size:45 final size:45
Alignment explanation
Indices: 13158686--13158842 Score: 162
Period size: 44 Copynumber: 3.5 Consensus size: 45
13158676 ACAGATCGAG
*
13158686 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAGGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGTAGGCAAA
13158730 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAAAG-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAAGTA-GGCAAA
* * * ** *
13158775 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCGG-TAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGTAGGCAAA
* * *
13158819 TCCTATCTCGCTGAAATTGCAGTG
1 TCTTATCTCCCTGAAGTTGCAGTG
13158843 AGCGGATTAA
Statistics
Matches: 96, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
43 3 0.03
44 51 0.53
45 39 0.41
46 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGTAGGCAAA
Found at i:13158833 original size:89 final size:88
Alignment explanation
Indices: 13158686--13159009 Score: 295
Period size: 89 Copynumber: 3.7 Consensus size: 88
13158676 ACAGATCGAG
* * * *
13158686 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCAGGTAA-TCCTATCCTCCTGAAGTTGCA
13158751 GTGAGGCAGACTAAAGATGGCAAA
65 GTGAGGCAGACTAAAGATGGCAAA
* * * *
13158775 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCGGTAATCCTAT-CTCGCTGAAATTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGCAGGTAATCCTATCCTC-CTGAAGTTGC
* * ** *
13158839 AGTGA-GCGGATTAAA-ACT-TTAGA
64 AGTGAGGCAGACTAAAGA-TGGCAAA
* * * * ** * *
13158862 TCTTATCTCTCTGCAGTTGCAG-AGAGCAGA-T-CGCATCTAGTCTTATCCTCCTGAAGTTGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCAGGTAATCCTATCCTCCTGAAGTTGCAG
*
13158924 TGAGGCA-AGCTGAAGATGGCAAA
66 TGAGGCAGA-CTAAAGATGGCAAA
* * * * *
13158947 TCTTATCTCCCTGAAGTTGTAGTGGATCAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGCAGGTAATCCTATCCTCCTGAAGTTG
13159010 TAAGTGGAGT
Statistics
Matches: 180, Mismatches: 43, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
83 24 0.13
84 9 0.05
85 23 0.13
86 12 0.07
87 23 0.13
88 12 0.07
89 70 0.39
90 7 0.04
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCAGGTAATCCTATCCTCCTGAAGTTGCAG
TGAGGCAGACTAAAGATGGCAAA
Found at i:13158981 original size:172 final size:174
Alignment explanation
Indices: 13158728--13159155 Score: 541
Period size: 172 Copynumber: 2.5 Consensus size: 174
13158718 TAAGTAGGCA
13158728 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTAAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTAAAGTT
* *
13158793 GCAGTGGAGTAGATTAAAGCCGGTAATCCTATC-TCGCTGAAATTG-CAGT-GAGCGGATTAAAA
66 GCAGTGGAGTAGATTAAAGCCGATAATCCTATCTTC-CTGAAATTGTAAGTGGAGCGGATTAAAA
* * *
13158855 CTTTAGATCTTATCTCTCTGCAGTTGCAGAGAGCAGATCGCATCT
130 CCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCGCATCT
* *
13158900 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCA-AGCTGAAGATGGCAAATCTTATCTCCCTGAAGT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGA-CTAAAGATGGCAAATCTTATCTCCCTAAAGT
* * *
13158964 TGTAGTGGA-TCAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTGTAAGTGGAGTGGATTAAA
65 TGCAGTGGAGT-AGATTAAAGCCGATAATCCTATCTTCCTGAAATTGTAAGTGGAGCGGATTAAA
* * * *
13159028 ACCTTGGATCTTATCTCTTTGAAGTTGCAGAGAGCAAATCGTATTT
129 ACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCGCATCT
* * * ** * *
13159074 AGTCTTAT-CTCCCTGAAGTTGTAGTG-GATCAGATTAAAG-CCG-ATAATCCTATCTTCCTAAA
1 AGTCTTATCCT-CCTGAAGTTGCAGTGAG-GCAGACTAAAGATGGCA-AATCTTATCTCCCTAAA
*
13159135 GTTGCAGTGGAGTGGATTAAA
63 GTTGCAGTGGAGTAGATTAAA
13159156 ACCTTGGATC
Statistics
Matches: 221, Mismatches: 25, Indels: 19
0.83 0.09 0.07
Matches are distributed among these distances:
171 2 0.01
172 99 0.45
173 40 0.18
174 79 0.36
175 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (174 bp):
AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTAAAGTT
GCAGTGGAGTAGATTAAAGCCGATAATCCTATCTTCCTGAAATTGTAAGTGGAGCGGATTAAAAC
CTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCGCATCT
Found at i:13159004 original size:44 final size:44
Alignment explanation
Indices: 13158945--13159145 Score: 128
Period size: 44 Copynumber: 4.6 Consensus size: 44
13158935 GAAGATGGCA
*
13158945 AATCTTATCTCCCTGAAGTTGTAGTGGATCAGATTAAAGCCGAT
1 AATCTTATCTTCCTGAAGTTGTAGTGGATCAGATTAAAGCCGAT
* * * *
13158989 AATCCTATCTTCCTGAAGTTGTAAGTGGAGT-GGATTAAAACC-TT
1 AATCTTATCTTCCTGAAGTTGT-AGTGGA-TCAGATTAAAGCCGAT
* * * * * ** ****
13159033 GGATCTTATC-TCTTTGAAGTTGCAG-AGAGCA-A--ATCGTATTT
1 -AATCTTATCTTC-CTGAAGTTGTAGTGGATCAGATTAAAGCCGAT
* *
13159074 AGTCTTATCTCCCTGAAGTTGTAGTGGATCAGATTAAAGCCGAT
1 AATCTTATCTTCCTGAAGTTGTAGTGGATCAGATTAAAGCCGAT
* * *
13159118 AATCCTATCTTCCTAAAGTTGCAGTGGA
1 AATCTTATCTTCCTGAAGTTGTAGTGGA
13159146 GTGGATTAAA
Statistics
Matches: 111, Mismatches: 35, Indels: 22
0.66 0.21 0.13
Matches are distributed among these distances:
40 18 0.16
41 7 0.06
42 2 0.02
43 2 0.02
44 51 0.46
45 30 0.27
46 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (44 bp):
AATCTTATCTTCCTGAAGTTGTAGTGGATCAGATTAAAGCCGAT
Found at i:13159201 original size:128 final size:129
Alignment explanation
Indices: 13158947--13159242 Score: 515
Period size: 129 Copynumber: 2.3 Consensus size: 129
13158937 AGATGGCAAA
*
13158947 TCTTATCTCCCTGAAGTTGTAGTGGATCAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTGTA
1 TCTTATCTCCCTGAAGTTGTAGTGGATCAGATTAAAGCCGATAATCCTATCTTCCTAAAGTTGTA
13159012 AGTGGAGTGGATTAAAACCTTGGATCTTATCTCTTTGAAGTTGCAGAGAGCAAATCGTATTTAG
66 AGTGGAGTGGATTAAAACCTTGGATCTTATCTCTTTGAAGTTGCAGAGAGCAAATCGTATTTAG
*
13159076 TCTTATCTCCCTGAAGTTGTAGTGGATCAGATTAAAGCCGATAATCCTATCTTCCTAAAGTTG-C
1 TCTTATCTCCCTGAAGTTGTAGTGGATCAGATTAAAGCCGATAATCCTATCTTCCTAAAGTTGTA
13159140 AGTGGAGTGGATTAAAACCTTGGATCTTATCTCTTTGAAGTTGCAGAGAGCAAATCGTATTTAG
66 AGTGGAGTGGATTAAAACCTTGGATCTTATCTCTTTGAAGTTGCAGAGAGCAAATCGTATTTAG
* **
13159204 TCTTATCTCCTTGAAAGTTACAGTGGAGT-AGATTAAAGC
1 TCTTATCTCCCTG-AAGTTGTAGTGGA-TCAGATTAAAGC
13159243 ACTAGTTTCC
Statistics
Matches: 160, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
128 76 0.47
129 83 0.52
130 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTGTAGTGGATCAGATTAAAGCCGATAATCCTATCTTCCTAAAGTTGTA
AGTGGAGTGGATTAAAACCTTGGATCTTATCTCTTTGAAGTTGCAGAGAGCAAATCGTATTTAG
Found at i:13166151 original size:20 final size:22
Alignment explanation
Indices: 13166128--13166175 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 22
13166118 TTTTTTGCGC
*
13166128 TTTTTTGCTTTTTGCTCT-T-T
1 TTTTTTGCTTTTTACTCTCTCT
**
13166148 TTTTGCGCTTTTTACTCTCTCT
1 TTTTTTGCTTTTTACTCTCTCT
13166170 TTTTTT
1 TTTTTT
13166176 TTGCGCTTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 15 0.71
21 1 0.05
22 5 0.24
ACGTcount: A:0.02, C:0.19, G:0.08, T:0.71
Consensus pattern (22 bp):
TTTTTTGCTTTTTACTCTCTCT
Found at i:13166159 original size:26 final size:26
Alignment explanation
Indices: 13166117--13166186 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 26
13166107 GGCAACTTTT
* * *
13166117 TTTTTTTGCGCTTTTTTGCTTTTTGCTC
1 TTTTTTTGCGC-TTTTTACTCTCT-CTC
*
13166145 TTTTTTTGCGCTTTTTACTCTCTCTT
1 TTTTTTTGCGCTTTTTACTCTCTCTC
13166171 TTTTTTTGCGCTTTTT
1 TTTTTTTGCGCTTTTT
13166187 TTTCTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 18 0.47
27 9 0.24
28 11 0.29
ACGTcount: A:0.01, C:0.19, G:0.11, T:0.69
Consensus pattern (26 bp):
TTTTTTTGCGCTTTTTACTCTCTCTC
Found at i:13166205 original size:56 final size:55
Alignment explanation
Indices: 13166115--13166233 Score: 161
Period size: 56 Copynumber: 2.1 Consensus size: 55
13166105 TAGGCAACTT
13166115 TTTTTTTTTGCGCTTTTTTGCTTTTTGCTCTTTTTTTGCGCTTTTTACTCTCT-C
1 TTTTTTTTTGCGCTTTTTTGCTTTTTGCTCTTTTTTTGCGCTTTTTACTCTCTAC
* * * *
13166169 TTTTTTTTTGCGCTTTTTTTTCTTTTTTTG-TTTTTTTTTGCGCTTTTTACTTTTTAC
1 TTTTTTTTTGCGC-TTTTTTGC--TTTTTGCTCTTTTTTTGCGCTTTTTACTCTCTAC
13166226 TTTTTTTT
1 TTTTTTTT
13166234 GCTTTTATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
54 13 0.23
55 7 0.12
56 22 0.39
57 15 0.26
ACGTcount: A:0.03, C:0.15, G:0.09, T:0.73
Consensus pattern (55 bp):
TTTTTTTTTGCGCTTTTTTGCTTTTTGCTCTTTTTTTGCGCTTTTTACTCTCTAC
Found at i:13166843 original size:31 final size:32
Alignment explanation
Indices: 13166784--13166848 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
13166774 GGCAAATTAC
13166784 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
13166816 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
13166847 AA
1 AA
13166849 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:13168028 original size:24 final size:24
Alignment explanation
Indices: 13167994--13168040 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
13167984 ATAAAAACTA
13167994 AACCCTAAAAACCTAAAAACAAAG
1 AACCCTAAAAACCTAAAAACAAAG
* * *
13168018 AACCCTCAAAACGTAAACACAAA
1 AACCCTAAAAACCTAAAAACAAA
13168041 ATTCTCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.60, C:0.28, G:0.04, T:0.09
Consensus pattern (24 bp):
AACCCTAAAAACCTAAAAACAAAG
Found at i:13172836 original size:39 final size:37
Alignment explanation
Indices: 13172773--13172891 Score: 132
Period size: 39 Copynumber: 3.1 Consensus size: 37
13172763 TTTGGCCCAT
13172773 ATTT-GATTAAAAATAAAAAAATATATTTAATATATA
1 ATTTGGATTAAAAATAAAAAAATATATTTAATATATA
* * * *
13172809 ATTTGGATTAAAAGTCCAATAAAATATATTTAATAAAAA
1 ATTTGGATTAAAAAT--AAAAAAATATATTTAATATATA
*
13172848 GTATGTTTGATTAAAAATAAAAAATATATATTTAATATATA
1 --AT-TTGGATTAAAAATAAAAAA-ATATATTTAATATATA
13172889 ATT
1 ATT
13172892 CGAGTCGGGT
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
36 4 0.06
37 9 0.13
38 1 0.01
39 21 0.31
40 5 0.07
41 16 0.24
42 11 0.16
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.39
Consensus pattern (37 bp):
ATTTGGATTAAAAATAAAAAAATATATTTAATATATA
Found at i:13178019 original size:16 final size:17
Alignment explanation
Indices: 13177998--13178032 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
13177988 ATAACTCATC
*
13177998 ATTAATATTTTG-ATAT
1 ATTAATAATTTGAATAT
13178014 ATTAATAATTTGAATAT
1 ATTAATAATTTGAATAT
13178031 AT
1 AT
13178033 AATGTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (17 bp):
ATTAATAATTTGAATAT
Found at i:13179233 original size:21 final size:21
Alignment explanation
Indices: 13179204--13179247 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
13179194 ACACCAAAAC
* *
13179204 AGGCTTTTAGCGGCGTTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
13179225 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
13179246 AG
1 AG
13179248 CGCCCCAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.11, C:0.18, G:0.30, T:0.41
Consensus pattern (21 bp):
AGGCCTTTAGCGGCGCTTTTT
Found at i:13179460 original size:43 final size:43
Alignment explanation
Indices: 13179413--13179809 Score: 493
Period size: 43 Copynumber: 9.2 Consensus size: 43
13179403 GACTAATACA
*
13179413 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTC
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGTC
*
13179456 TTTAGTGGCGTTTTTGCGCT--AAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTTTG-G-TAAAAGCGCCGCTATAGATCAGGGTC
*
13179499 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTC
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGTC
* *
13179542 TTTAGTGGCATTTTTGCGCT--AAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTTTG-G-TAAAAGCGCCGCTATAGATCAGGGTC
*
13179585 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTC
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGTC
* *
13179628 TTTAGTGGCATTTTTGCGCT--AAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTTTG-G-TAAAAGCGCCGCTATAGATCAGGGTC
*
13179671 TTTAGCGGCGTTTTTGGTAAAAGTGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGTC
* *
13179714 TTTAGTGGCGTTTTTGCG-CAAAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTTTG-GTAAAAGCGCCGCTATAGATCAGGGTC
* * ** * * * * *
13179757 TTTATCGGCGCTTTTACTAAAAACGCCGCAATAGACCATGATC
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGTC
*
13179800 TATAGCGGCG
1 TTTAGCGGCG
13179810 CTTCGGTCAC
Statistics
Matches: 308, Mismatches: 32, Indels: 28
0.84 0.09 0.08
Matches are distributed among these distances:
41 3 0.01
42 3 0.01
43 295 0.96
44 4 0.01
45 3 0.01
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGTC
Found at i:13179503 original size:86 final size:86
Alignment explanation
Indices: 13179413--13179791 Score: 659
Period size: 86 Copynumber: 4.4 Consensus size: 86
13179403 GACTAATACA
*
13179413 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCGTTTTTGCGCTAA
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCATTTTTGCGCTAA
13179478 GCGCCGCTATAGATCAGGGTC
66 GCGCCGCTATAGATCAGGGTC
13179499 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCATTTTTGCGCTAA
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCATTTTTGCGCTAA
13179564 GCGCCGCTATAGATCAGGGTC
66 GCGCCGCTATAGATCAGGGTC
13179585 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCATTTTTGCGCTAA
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCATTTTTGCGCTAA
13179650 GCGCCGCTATAGATCAGGGTC
66 GCGCCGCTATAGATCAGGGTC
* * * *
13179671 TTTAGCGGCGTTTTTGGTAAAAGTGCCGCTATAGATCAGGGTCTTTAGTGGCGTTTTTGCGCAAA
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCATTTTTGCGCTAA
13179736 GCGCCGCTATAGATCAGGGTC
66 GCGCCGCTATAGATCAGGGTC
* * ** * *
13179757 TTTATCGGCGCTTTTACTAAAAACGCCGCAATAGA
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGA
13179792 CCATGATCTA
Statistics
Matches: 281, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 281 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (86 bp):
TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCATTTTTGCGCTAA
GCGCCGCTATAGATCAGGGTC
Found at i:13179810 original size:43 final size:42
Alignment explanation
Indices: 13179762--13179881 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 42
13179752 GGGTCTTTAT
13179762 CGGCGCTTTTACTAAAAACGCCGC-AATAGACCATGATCTATAG
1 CGGCGCTTTTAC-AAAAACGCCGCTAA-AGACCATGATCTATAG
* * * *
13179805 CGGCGCTTCGGT-CACAAACGCCACTAAAGACCCTGATCTATAG
1 CGGCGCTT--TTACAAAAACGCCGCTAAAGACCATGATCTATAG
13179848 CGGCGCTTTTTACCAAAAACGCCGCTAAAGACCA
1 CGGCGC-TTTTA-CAAAAACGCCGCTAAAGACCA
13179882 ACACCTTTAG
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.02
43 38 0.60
44 23 0.37
45 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (42 bp):
CGGCGCTTTTACAAAAACGCCGCTAAAGACCATGATCTATAG
Found at i:13180066 original size:10 final size:9
Alignment explanation
Indices: 13180035--13180064 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
13180025 TTAAACAAAT
13180035 AATATAATA
1 AATATAATA
13180044 AATATCAATA
1 AATAT-AATA
13180054 AATATAATA
1 AATATAATA
13180063 AA
1 AA
13180065 ATTCGTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (9 bp):
AATATAATA
Found at i:13180259 original size:21 final size:21
Alignment explanation
Indices: 13180228--13180329 Score: 96
Period size: 21 Copynumber: 4.9 Consensus size: 21
13180218 TTTGACGCTG
*
13180228 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
* **
13180249 CTTTACTTCCCTCGCTTTAGC
1 CTCTACTTCCCTCGCTGCAGC
* *
13180270 CTCTGCTTCCCTCGCTGTAGC
1 CTCTACTTCCCTCGCTGCAGC
* * *
13180291 CTGTACTTCTCTCGCTGCCGC
1 CTCTACTTCCCTCGCTGCAGC
* * *
13180312 CTCTGCTTCTCTTGCTGC
1 CTCTACTTCCCTCGCTGC
13180330 CGCATTTGCT
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.05, C:0.42, G:0.17, T:0.36
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:13180275 original size:42 final size:42
Alignment explanation
Indices: 13180228--13180329 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
13180218 TTTGACGCTG
* **
13180228 CTCTGCTTCCCTCGCTGCAGCCTTTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGCCTGTACTTCCCTCGCTGCAGC
* * *
13180270 CTCTGCTTCCCTCGCTGTAGCCTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGCCTGTACTTCCCTCGCTGCAGC
* *
13180312 CTCTGCTTCTCTTGCTGC
1 CTCTGCTTCCCTCGCTGC
13180330 CGCATTTGCT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.05, C:0.42, G:0.17, T:0.36
Consensus pattern (42 bp):
CTCTGCTTCCCTCGCTGCAGCCTGTACTTCCCTCGCTGCAGC
Found at i:13180339 original size:21 final size:21
Alignment explanation
Indices: 13180296--13180340 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
13180286 GTAGCCTGTA
*
13180296 CTTCTCTCGCTGCCGCCTCTG
1 CTTCTCTCGCTGCCGCATCTG
* *
13180317 CTTCTCTTGCTGCCGCATTTG
1 CTTCTCTCGCTGCCGCATCTG
13180338 CTT
1 CTT
13180341 TAAGCTGCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.40, G:0.18, T:0.40
Consensus pattern (21 bp):
CTTCTCTCGCTGCCGCATCTG
Found at i:13180422 original size:66 final size:65
Alignment explanation
Indices: 13180311--13180481 Score: 218
Period size: 66 Copynumber: 2.6 Consensus size: 65
13180301 CTCGCTGCCG
* * * * *
13180311 CCTCTGCTTCTCTTGCTGCCGCATTTGCTTTAAGCTGCTGCTGGAGTTCTTCATA-CTTTCGTTG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTG-TGCTGGAGTTCTTCATATCTTT-GTTG
13180375 AA
64 AA
*
13180377 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGT-GCTGGAGTTCTTCATATCTTTGTTGA
13180442 A
65 A
* * * *
13180443 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGTG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTG
13180482 TAATTTGCTC
Statistics
Matches: 93, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
65 2 0.02
66 87 0.94
67 4 0.04
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.41
Consensus pattern (65 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTGCTGGAGTTCTTCATATCTTTGTTGAA
Found at i:13184986 original size:87 final size:87
Alignment explanation
Indices: 13184838--13185012 Score: 278
Period size: 87 Copynumber: 2.0 Consensus size: 87
13184828 CAAATGATTT
* *
13184838 CCAAGCTAAAGAATCTGCCGGATGCCTTAATAATCCATCATCGATTCATCCATCATGGTGCCACG
1 CCAAGCTAAAGAATCTGCCGGATGCCTTAAAAATCCATCATCGATTCATCCATCATAGTGCCACG
13184903 TCATTGACTCCGCTGTCTTCGA
66 TCATTGACTCCGCTGTCTTCGA
* * ** *
13184925 CCAAGCTAAAGAATCTGCCGGATGCCTTAAAAATCCATCATCGGTTCTTCTTTCATAGTGCCATG
1 CCAAGCTAAAGAATCTGCCGGATGCCTTAAAAATCCATCATCGATTCATCCATCATAGTGCCACG
*
13184990 TCATTGACTTCGCTGTCTTCGA
66 TCATTGACTCCGCTGTCTTCGA
13185012 C
1 C
13185013 GACATGAAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.30
Consensus pattern (87 bp):
CCAAGCTAAAGAATCTGCCGGATGCCTTAAAAATCCATCATCGATTCATCCATCATAGTGCCACG
TCATTGACTCCGCTGTCTTCGA
Found at i:13186003 original size:9 final size:9
Alignment explanation
Indices: 13185986--13186098 Score: 57
Period size: 9 Copynumber: 13.7 Consensus size: 9
13185976 TAAGTATAGT
*
13185986 TAAGCTATG
1 TAAGTTATG
13185995 TAAGTTATG
1 TAAGTTATG
13186004 T-A-TTATG
1 TAAGTTATG
13186011 TAAGTTAT-
1 TAAGTTATG
* **
13186019 TTA-TTACC
1 TAAGTTATG
*
13186027 CAAGTTATG
1 TAAGTTATG
*
13186036 TAAGTTGTG
1 TAAGTTATG
13186045 T-A-TTATG
1 TAAGTTATG
*
13186052 -AA--AAT-
1 TAAGTTATG
* *
13186057 TATGCTATG
1 TAAGTTATG
13186066 TAAGTTATG
1 TAAGTTATG
* *
13186075 TAAGTCATA
1 TAAGTTATG
13186084 TAAGTTATG
1 TAAGTTATG
13186093 TAAGTT
1 TAAGTT
13186099 NNNNNNNNNN
Statistics
Matches: 76, Mismatches: 19, Indels: 18
0.67 0.17 0.16
Matches are distributed among these distances:
6 3 0.04
7 14 0.18
8 8 0.11
9 51 0.67
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (9 bp):
TAAGTTATG
Found at i:13186012 original size:16 final size:16
Alignment explanation
Indices: 13185991--13186024 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
13185981 ATAGTTAAGC
13185991 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
13186007 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
13186023 TA
1 TA
13186025 CCCAAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:13189606 original size:11 final size:11
Alignment explanation
Indices: 13189590--13189629 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
13189580 GATGATAATA
13189590 CATTAGTTACC
1 CATTAGTTACC
13189601 CATTAGTTACC
1 CATTAGTTACC
*
13189612 CACTAGTTACC
1 CATTAGTTACC
13189623 CA-TAGTT
1 CATTAGTT
13189630 TGAGATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (11 bp):
CATTAGTTACC
Found at i:13190175 original size:14 final size:14
Alignment explanation
Indices: 13190156--13190185 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13190146 CACGAACAGC
13190156 AAGATGATTAACTA
1 AAGATGATTAACTA
13190170 AAGATGATTAACTA
1 AAGATGATTAACTA
13190184 AA
1 AA
13190186 AACCTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (14 bp):
AAGATGATTAACTA
Found at i:13191531 original size:27 final size:27
Alignment explanation
Indices: 13191499--13191550 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
13191489 TCTTACTTTT
* *
13191499 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
*
13191526 AAATAAATAATTACTAACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
13191551 TTTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:13192929 original size:84 final size:82
Alignment explanation
Indices: 13192788--13192985 Score: 308
Period size: 84 Copynumber: 2.4 Consensus size: 82
13192778 AACACGAACT
* *
13192788 TTAGCGGCGCTTAG-CAAAAAATGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACG
1 TTAGCGGCGCTTAGAC-AAAAACGCCGCTAAAGAACAGAGAATTAGTGGCACTCAGATAAAAACG
13192852 CCACTAATGTGATACGAGCA
65 CCACTAA--TGATACGAGCA
* *
13192872 TTAGCGGCGCTTCGACAAAAACGCTGCTAAAGAACAGAGAATTAGTGGCACTCAGATAAAAACGC
1 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCACTCAGATAAAAACGC
13192937 CACTAATGATACGAGCA
66 CACTAATGATACGAGCA
* *
13192954 TTAGCGACGTTTAGACAAAAACGCCGCTAAAG
1 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
13192986 GTTTAAAAAA
Statistics
Matches: 105, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
82 39 0.37
84 65 0.62
85 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (82 bp):
TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCACTCAGATAAAAACGC
CACTAATGATACGAGCA
Found at i:13192933 original size:41 final size:41
Alignment explanation
Indices: 13192804--13192985 Score: 154
Period size: 41 Copynumber: 4.4 Consensus size: 41
13192794 GCGCTTAGCA
*
13192804 AAAAATGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGAT
1 AAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGAT
* * * * *
13192845 AAAAACGCCACTAATGTGATAC-GAGCATTAGCGGCGCTTC-GAC
1 AAAAACGCCGCTAA--AGA-ACAGAGAATTAGTGGCGC-TCAGAT
* *
13192888 AAAAACGCTGCTAAAGAACAGAGAATTAGTGGCACTCAGAT
1 AAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGAT
* * * * * * * *
13192929 AAAAACGCCACTAATGATAC-GAGCATTAGCGACGTTTAGAC
1 AAAAACGCCGCTAAAGA-ACAGAGAATTAGTGGCGCTCAGAT
13192970 AAAAACGCCGCTAAAG
1 AAAAACGCCGCTAAAG
13192986 GTTTAAAAAA
Statistics
Matches: 109, Mismatches: 25, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
40 4 0.04
41 70 0.64
42 2 0.02
43 29 0.27
44 4 0.04
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGAT
Found at i:13196903 original size:16 final size:17
Alignment explanation
Indices: 13196870--13196903 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
13196860 AAGGGTGAGA
13196870 AGTAAAAGTTTAAGGGG
1 AGTAAAAGTTTAAGGGG
*
13196887 AGTAAAA-TTTTAGGGG
1 AGTAAAAGTTTAAGGGG
13196903 A
1 A
13196904 AAGTAAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.32, T:0.26
Consensus pattern (17 bp):
AGTAAAAGTTTAAGGGG
Found at i:13203384 original size:12 final size:13
Alignment explanation
Indices: 13203360--13203388 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
13203350 GGGCTATAAC
13203360 TATTGCATTTATT
1 TATTGCATTTATT
13203373 TATTGC-TTTATT
1 TATTGCATTTATT
13203385 TATT
1 TATT
13203389 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:13207327 original size:72 final size:72
Alignment explanation
Indices: 13207210--13207355 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 72
13207200 AGTACTGAAA
*
13207210 TGGTTCAGTATGGAAGAATCTAAGAGAGGATTCCTACCTATGAGACATGGTATTTCACTCTCGAA
1 TGGTTCAGTATGGAAGAATCTAAAAGAGGATTCCTACCTATGAGACATGGTATTTCACTCTCGAA
13207275 GGAAATG
66 GGAAATG
*
13207282 TGGTTCAGTATGGAAGAATCTAAAAGAGGATTCCTACCTATGAGACATGGTATTTTACTCTCGAA
1 TGGTTCAGTATGGAAGAATCTAAAAGAGGATTCCTACCTATGAGACATGGTATTTCACTCTCGAA
13207347 GGAAATG
66 GGAAATG
13207354 TG
1 TG
13207356 TCCTTCAACT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (72 bp):
TGGTTCAGTATGGAAGAATCTAAAAGAGGATTCCTACCTATGAGACATGGTATTTCACTCTCGAA
GGAAATG
Found at i:13210617 original size:18 final size:19
Alignment explanation
Indices: 13210593--13210636 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
13210583 TATTAACCTA
13210593 AATCAATAATAAATAAAAT
1 AATCAATAATAAATAAAAT
* *
13210612 -ATCAAT-CTAAATAATAT
1 AATCAATAATAAATAAAAT
13210629 AATCAATA
1 AATCAATA
13210637 GCTTAAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (19 bp):
AATCAATAATAAATAAAAT
Found at i:13210624 original size:17 final size:18
Alignment explanation
Indices: 13210602--13210635 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13210592 AAATCAATAA
13210602 TAAATAAAAT-ATCAATC
1 TAAATAAAATAATCAATC
*
13210619 TAAATAATATAATCAAT
1 TAAATAAAATAATCAAT
13210636 AGCTTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAATAAAATAATCAATC
Found at i:13213393 original size:22 final size:22
Alignment explanation
Indices: 13213333--13213390 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
13213323 AATCTTCAAG
13213333 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
13213352 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
13213374 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
13213391 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:13220665 original size:11 final size:10
Alignment explanation
Indices: 13220651--13220761 Score: 54
Period size: 11 Copynumber: 10.6 Consensus size: 10
13220641 TAGGGATTTA
13220651 AGAGAAATTTG
1 AGAGAAA-TTG
13220662 AGAGAAATTG
1 AGAGAAATTG
13220672 AGAGCAAATTG
1 AGAG-AAATTG
*
13220683 AGATTAAA-T-
1 AGA-GAAATTG
*
13220692 ATG-G-ATTTG
1 A-GAGAAATTG
13220701 AGAGAAATTTG
1 AGAGAAA-TTG
13220712 -GAAGGAAATTG
1 AG-A-GAAATTG
*
13220723 AGAACAAATTG
1 AG-AGAAATTG
13220734 AGAGGAAATT-
1 AGA-GAAATTG
13220744 AGGAGGAAATTG
1 A-GA-GAAATTG
13220756 AGAGAA
1 AGAGAA
13220762 TAATTAAGAA
Statistics
Matches: 80, Mismatches: 6, Indels: 29
0.70 0.05 0.25
Matches are distributed among these distances:
7 1 0.01
8 2 0.03
9 3 0.04
10 16 0.20
11 50 0.62
12 8 0.10
ACGTcount: A:0.47, C:0.02, G:0.29, T:0.23
Consensus pattern (10 bp):
AGAGAAATTG
Found at i:13222407 original size:19 final size:19
Alignment explanation
Indices: 13222383--13222427 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
13222373 TCTTTATTTT
*
13222383 TGCATT-CATTCCATGCATC
1 TGCATTACATTCCAT-CATA
*
13222402 TGCATTACATTGCATCATA
1 TGCATTACATTCCATCATA
13222421 TGCATTA
1 TGCATTA
13222428 GATTTTCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (19 bp):
TGCATTACATTCCATCATA
Found at i:13225745 original size:10 final size:9
Alignment explanation
Indices: 13225720--13225744 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13225710 GCGCCTTGAG
13225720 AAAAAAATC
1 AAAAAAATC
13225729 AAAAAAATC
1 AAAAAAATC
13225738 AAAAAAA
1 AAAAAAA
13225745 AAAGAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATC
Found at i:13227099 original size:45 final size:45
Alignment explanation
Indices: 13226999--13227233 Score: 293
Period size: 45 Copynumber: 5.4 Consensus size: 45
13226989 TCAATAATCA
* * *
13226999 TATCTCCTTGAAGTTGCAGTGGAGCGGATTGAAG-T-G-AAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCT
* *
13227041 TATCTCCCTGAAGTTGCAGTGGAGAAGACTGAAGAAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCT
* * * * *
13227086 TATCCCCCTGAAGTTGCAGCGGGGCAGACTGAAGATGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCT
* *
13227131 TATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAG-T-G-AAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCT
* *
13227173 TATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCT
*
13227218 TATTTCCCTGAAGTTG
1 TATCTCCCTGAAGTTG
13227234 TTGTGGAACA
Statistics
Matches: 163, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
42 66 0.40
43 2 0.01
44 3 0.02
45 92 0.56
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCT
Found at i:13227153 original size:132 final size:132
Alignment explanation
Indices: 13226994--13227233 Score: 408
Period size: 132 Copynumber: 1.8 Consensus size: 132
13226984 TAAAGTCAAT
*
13226994 AATCATATCTCCTTGAAGTTGCAGTGGAGCGGATTGAAGTGAAGTCTTATCTCCCTGAAGTTGCA
1 AATCATATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTGAAGTCTTATCTCCCTGAAGTTGCA
*
13227059 GTGGAGAAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGCGGGGCAGACTGAAGATGG
66 GTGGAGAAGACTGAAGAAAGCAAATCTTATCCCCCTGAAGTTGCAGCGGGGCAGACTGAAGATGG
13227124 CA
131 CA
* *
13227126 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTGAAGTCTTATCTTCCTGAAGTTGCA
1 AATCATATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTGAAGTCTTATCTCCCTGAAGTTGCA
* * **
13227191 GTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTG
66 GTGGAGAAGACTGAAGAAAGCAAATCTTATCCCCCTGAAGTTG
13227234 TTGTGGAACA
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 100 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (132 bp):
AATCATATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTGAAGTCTTATCTCCCTGAAGTTGCA
GTGGAGAAGACTGAAGAAAGCAAATCTTATCCCCCTGAAGTTGCAGCGGGGCAGACTGAAGATGG
CA
Found at i:13227184 original size:87 final size:86
Alignment explanation
Indices: 13226940--13227247 Score: 316
Period size: 87 Copynumber: 3.5 Consensus size: 86
13226930 ATGGATTGAA
* * * * * * * *
13226940 GAAGATGGCGAATCTTATCTCCCTAAACTTGCAGTGGAGCAAATTAAAGTCAATAATCATATCTC
1 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-GA-AGTCTTATCTC
* *
13227005 CTTGAAGTTGCAGTGGAGCGGATT
64 C-TGAAGTTGCAGTGGAGCAGACT
* * * *
13227029 GAAG-T-G-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTGAAGAAAGCAAGTCTTATCC
1 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--TG-AAGTCTTAT-C
* * *
13227091 CCCTGAAGTTGCAGCGGGGCAGACT
62 TCCTGAAGTTGCAGTGGAGCAGACT
*
13227116 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTGAAGTCTTATCTTCC
1 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGAAGTCTTATC-TCC
13227181 TGAAGTTGCAGTGGAGCAGACT
65 TGAAGTTGCAGTGGAGCAGACT
* * ** *
13227203 GAAGATAGCAAATCTTATTTCCCTGAAGTTGTTGTGGAACAGATT
1 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
13227248 AAAGCTATAA
Statistics
Matches: 180, Mismatches: 31, Indels: 18
0.79 0.14 0.08
Matches are distributed among these distances:
86 33 0.18
87 99 0.55
88 7 0.04
89 5 0.03
90 36 0.20
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (86 bp):
GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGAAGTCTTATCTCCT
GAAGTTGCAGTGGAGCAGACT
Found at i:13227240 original size:45 final size:45
Alignment explanation
Indices: 13226940--13227233 Score: 291
Period size: 45 Copynumber: 6.7 Consensus size: 45
13226930 ATGGATTGAA
* * * * * *
13226940 GAAGATGGCGAATCTTATCTCCCTAAACTTGCAGTGGAGCAAATT
1 GAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* * * * *
13226985 AAAG-T--CAATAATCATATCTCCTTGAAGTTGCAGTGGAGCGGATT
1 GAAGATAGC-A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* *
13227029 GAAG-T-G-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGAAGACT
1 GAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* * * * *
13227071 GAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGCGGGGCAGACT
1 GAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* * *
13227116 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATT
1 GAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* *
13227161 GAAG-T-G-AAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACT
1 GAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
*
13227203 GAAGATAGCAAATCTTATTTCCCTGAAGTTG
1 GAAGATAGCAAATCTTATCTCCCTGAAGTTG
13227234 TTGTGGAACA
Statistics
Matches: 205, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
42 70 0.34
43 3 0.01
44 37 0.18
45 95 0.46
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (45 bp):
GAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
Found at i:13232886 original size:24 final size:24
Alignment explanation
Indices: 13232859--13232923 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
13232849 AAATGCATCA
*
13232859 TCCACCAC-CAATTTATCACCCACC
1 TCCACCACTC-ATGTATCACCCACC
* *
13232883 TCCACCTCTCATGTATCACCCATC
1 TCCACCACTCATGTATCACCCACC
*
13232907 TCCACCTCTCATGTATC
1 TCCACCACTCATGTATC
13232924 CTCCTCCTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 36 0.97
25 1 0.03
ACGTcount: A:0.23, C:0.46, G:0.03, T:0.28
Consensus pattern (24 bp):
TCCACCACTCATGTATCACCCACC
Found at i:13241094 original size:19 final size:17
Alignment explanation
Indices: 13241060--13241094 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
13241050 TTTAAATAGT
13241060 AGCAAAATTAACAATAA
1 AGCAAAATTAACAATAA
13241077 AGCAACAATTATACAATA
1 AGCAA-AATTA-ACAATA
13241095 TCCAAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.60, C:0.14, G:0.06, T:0.20
Consensus pattern (17 bp):
AGCAAAATTAACAATAA
Found at i:13260296 original size:26 final size:26
Alignment explanation
Indices: 13260266--13260322 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
13260256 GACTACTGGA
13260266 AATGTCTAAATCAATGTGAATATTAT
1 AATGTCTAAATCAATGTGAATATTAT
13260292 AATGTCTAAATCAATGTGAATATTAT
1 AATGTCTAAATCAATGTGAATATTAT
13260318 AATGT
1 AATGT
13260323 GAATACCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (26 bp):
AATGTCTAAATCAATGTGAATATTAT
Done.