Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 39 of 161
Found at i:11964248 original size:12 final size:12
Alignment explanation
Indices: 11964231--11964257 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11964221 TCAGATATCA
11964231 TTGGACTTCATC
1 TTGGACTTCATC
11964243 TTGGACTTCATC
1 TTGGACTTCATC
11964255 TTG
1 TTG
11964258 TACGTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (12 bp):
TTGGACTTCATC
Found at i:11967404 original size:32 final size:32
Alignment explanation
Indices: 11967363--11967437 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
11967353 CAGCATGAAT
*
11967363 ATTTAATATTTG-AAA-ATTATTAAATATCATTC
1 ATTTGATATTTGTAAATATT-TT-AATATCATTC
*
11967395 ATTTGATATTTGTAAATATTTTTATATCATTC
1 ATTTGATATTTGTAAATATTTTAATATCATTC
* *
11967427 ATCTGAAATTT
1 ATTTGATATTT
11967438 ATTTGTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 29 0.78
33 5 0.14
34 3 0.08
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (32 bp):
ATTTGATATTTGTAAATATTTTAATATCATTC
Found at i:11975912 original size:3 final size:3
Alignment explanation
Indices: 11975904--11975936 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
11975894 ACCATAACTC
11975904 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11975937 GGAATATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11976378 original size:23 final size:23
Alignment explanation
Indices: 11976304--11976413 Score: 142
Period size: 23 Copynumber: 5.0 Consensus size: 23
11976294 ACCTAATCAG
11976304 TATACGACACAT-AAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
**
11976326 -A-ACGACACA-CGAGTTGCCTG-
1 TATACGACACATAAAG-TGCCTGA
11976346 -ATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
*
11976368 TATACGGCACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
11976391 TATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
11976414 CCGGCAAAGC
Statistics
Matches: 77, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
20 11 0.14
21 21 0.27
22 2 0.03
23 43 0.56
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (23 bp):
TATACGACACATAAAGTGCCTGA
Found at i:11977645 original size:15 final size:15
Alignment explanation
Indices: 11977625--11977657 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
11977615 ATTCCATAAT
11977625 ATAATAATAAA-AATA
1 ATAAT-ATAAACAATA
11977640 ATAATATAAACAATA
1 ATAATATAAACAATA
11977655 ATA
1 ATA
11977658 GTATTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
ATAATATAAACAATA
Found at i:11977851 original size:24 final size:24
Alignment explanation
Indices: 11977800--11977848 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
11977790 AAAAATCTTA
*
11977800 TAATATAATTATTTTAAATTAATT
1 TAATATAATTATTCTAAATTAATT
11977824 TAATATAATTTATATCTAAA-TAATT
1 TAATATAA-TTAT-TCTAAATTAATT
11977849 AATTTTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
25 9 0.41
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATATAATTATTCTAAATTAATT
Found at i:11977863 original size:20 final size:20
Alignment explanation
Indices: 11977804--11977863 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
11977794 ATCTTATAAT
11977804 ATAATT-ATTTTA-AATTAA
1 ATAATTAATTTTATAATTAA
*
11977822 TTTAATATAA-TTTAT-ATCTAA
1 -ATAAT-TAATTTTATAAT-TAA
11977843 ATAATTAATTTTATAATTAA
1 ATAATTAATTTTATAATTAA
11977863 A
1 A
11977864 ATATAACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
19 7 0.21
20 20 0.61
21 6 0.18
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAATTAATTTTATAATTAA
Found at i:11986520 original size:49 final size:49
Alignment explanation
Indices: 11986464--11986560 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
11986454 GAAAGCATCG
11986464 CTTTGAACGAGACCTATGCCACGGTTAGCATCTTAAGGGAGGTTCAAGT
1 CTTTGAACGAGACCTATGCCACGGTTAGCATCTTAAGGGAGGTTCAAGT
* * *
11986513 CTTTGAACGAGACCTGTGCCATGGTTAGCGTCTTAAGGGAGGTTCAAG
1 CTTTGAACGAGACCTATGCCACGGTTAGCATCTTAAGGGAGGTTCAAG
11986561 CAGTCACACT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.27
Consensus pattern (49 bp):
CTTTGAACGAGACCTATGCCACGGTTAGCATCTTAAGGGAGGTTCAAGT
Found at i:11995755 original size:27 final size:27
Alignment explanation
Indices: 11995725--11996129 Score: 358
Period size: 27 Copynumber: 15.0 Consensus size: 27
11995715 TACAATGATC
* * * *
11995725 GAAATACTCTCAAAAGGTAAAATAACT
1 GAAATACCCCCAAAGGGTAAAATGACT
* *
11995752 GAAATACCCCCAAAGGGTAAAATAATT
1 GAAATACCCCCAAAGGGTAAAATGACT
**
11995779 GAAATACCCCTGAAGGGTAAAATGA-T
1 GAAATACCCCCAAAGGGTAAAATGACT
* *
11995805 CGAAATACCCTCGAAGGGTAAAATGACT
1 -GAAATACCCCCAAAGGGTAAAATGACT
11995833 GAAATACCCCCAAAGGGTAAAATGA-T
1 GAAATACCCCCAAAGGGTAAAATGACT
* *
11995859 CGAAATACCCTCAAAGGGTAAAATGACC
1 -GAAATACCCCCAAAGGGTAAAATGACT
* *
11995887 GAAATA-CCCCGAAGGGTAAAATGACC
1 GAAATACCCCCAAAGGGTAAAATGACT
* ** *
11995913 AAAATACCCCTTGAAGGGCAAAATGA-T
1 GAAATACCCC-CAAAGGGTAAAATGACT
* * *
11995940 CAAAATACCCTCAAAGGGTAAAATGACC
1 -GAAATACCCCCAAAGGGTAAAATGACT
* *
11995968 GAAATA-CCCCGAAGGGTAAAATGACC
1 GAAATACCCCCAAAGGGTAAAATGACT
* ** *
11995994 AAAATACCCCTTGAAGGGCAAAATGA-T
1 GAAATACCCC-CAAAGGGTAAAATGACT
* * *
11996021 CAAAATACCCTCAAAGGGTAAAATGACC
1 -GAAATACCCCCAAAGGGTAAAATGACT
* *
11996049 GAAATACCCTCGAAGGGT-AAATGACT
1 GAAATACCCCCAAAGGGTAAAATGACT
* *
11996075 GAAATACCCTCGAAGGGTAAAATGA-T
1 GAAATACCCCCAAAGGGTAAAATGACT
**
11996101 CGAAATACCCCCCATCGGGTAAAATGACT
1 -GAAATA-CCCCCAAAGGGTAAAATGACT
11996130 TTTATACTCC
Statistics
Matches: 319, Mismatches: 43, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
26 74 0.23
27 184 0.58
28 60 0.19
29 1 0.00
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (27 bp):
GAAATACCCCCAAAGGGTAAAATGACT
Found at i:11995798 original size:54 final size:54
Alignment explanation
Indices: 11995740--11996129 Score: 418
Period size: 54 Copynumber: 7.2 Consensus size: 54
11995730 ACTCTCAAAA
* * * * **
11995740 GGTAAAATAACTGAAATACCCCCAAAGGGTAAAATAATTGAAATACCCCTGAAG
1 GGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTGAAG
* **
11995794 GGTAAAATGA-TCGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCCCAAAG
1 GGTAAAATGACT-GAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTGAAG
*
11995848 GGTAAAATGA-TCGAAATACCCTCAAAGGGTAAAATGACCGAAATACCCC-GAAG
1 GGTAAAATGACT-GAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTGAAG
** * * * * *
11995901 GGTAAAATGACCAAAATACCCCTTGAAGGGCAAAATGATCAAAATA-CCCTCAAAG
1 GGTAAAATGACTGAAATA-CCCTCGAAGGGTAAAATGACCGAAATACCCCT-GAAG
* *
11995956 GGTAAAATGACCGAAATACCC-CGAAGGGTAAAATGACCAAAATACCCCTTGAAG
1 GGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCC-TGAAG
* * *
11996010 GGCAAAATGA-TCAAAATACCCTCAAAGGGTAAAATGACCGAAATA-CCCTCGAAG
1 GGTAAAATGACT-GAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCT-GAAG
* ** *
11996064 GGT-AAATGACTGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCCCATCG
1 GGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTGA-AG
11996118 GGTAAAATGACT
1 GGTAAAATGACT
11996130 TTTATACTCC
Statistics
Matches: 287, Mismatches: 35, Indels: 27
0.82 0.10 0.08
Matches are distributed among these distances:
53 80 0.28
54 157 0.55
55 50 0.17
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (54 bp):
GGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTGAAG
Found at i:11995827 original size:81 final size:81
Alignment explanation
Indices: 11995718--11996128 Score: 533
Period size: 81 Copynumber: 5.1 Consensus size: 81
11995708 CGAAGAGTAC
* * * * * * * *
11995718 AATGATCGAAATACTCTCAAAAGGTAAAATAACTGAAATACCCCCAAAGGGTAAAATAATTGAAA
1 AATGACCGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGATCGAAA
*
11995783 TACCC-CTGAAGGGTAA
66 TACCCTC-AAAGGGTAA
* *
11995799 AATGATCGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCCCAAAGGGTAAAATGATCGAAA
1 AATGACCGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGATCGAAA
11995864 TACCCTCAAAGGGTAA
66 TACCCTCAAAGGGTAA
** * * *
11995880 AATGACCGAAATACCC-CGAAGGGTAAAATGACCAAAATACCCCTTGAAGGGCAAAATGATCAAA
1 AATGACCGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCC-CGAAGGGTAAAATGATCGAA
11995944 ATACCCTCAAAGGGTAA
65 ATACCCTCAAAGGGTAA
** * * *
11995961 AATGACCGAAATACCC-CGAAGGGTAAAATGACCAAAATACCCCTTGAAGGGCAAAATGATCAAA
1 AATGACCGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCC-CGAAGGGTAAAATGATCGAA
11996025 ATACCCTCAAAGGGTAA
65 ATACCCTCAAAGGGTAA
*
11996042 AATGACCGAAATACCCTCGAAGGGT-AAATGACTGAAATACCCTCGAAGGGTAAAATGATCGAAA
1 AATGACCGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGATCGAAA
* **
11996106 TACCCCCCATCGGGTAA
66 TA-CCCTCAAAGGGTAA
11996123 AATGAC
1 AATGAC
11996129 TTTTATACTC
Statistics
Matches: 303, Mismatches: 23, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
80 45 0.15
81 249 0.82
82 9 0.03
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.17
Consensus pattern (81 bp):
AATGACCGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGATCGAAA
TACCCTCAAAGGGTAA
Found at i:11996383 original size:30 final size:31
Alignment explanation
Indices: 11996342--11996402 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
11996332 ACTGCATTGT
*
11996342 ACTGATTACTGTATTGGGCTAAGGCCCACAC
1 ACTGATTACTGTAATGGGCTAAGGCCCACAC
11996373 ACTG-TTACTGTAATGGGCTAAGGCCCACAC
1 ACTGATTACTGTAATGGGCTAAGGCCCACAC
11996403 TGTACTGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (31 bp):
ACTGATTACTGTAATGGGCTAAGGCCCACAC
Found at i:11999723 original size:8 final size:8
Alignment explanation
Indices: 11999668--11999741 Score: 66
Period size: 8 Copynumber: 9.4 Consensus size: 8
11999658 TACATTTACT
11999668 TATTATAA
1 TATTATAA
11999676 TA-TATAA
1 TATTATAA
*
11999683 TATAAT-A
1 TATTATAA
11999690 TATATACTTAA
1 TAT-TA--TAA
*
11999701 TAAT-TAA
1 TATTATAA
*
11999708 GA-TATAA
1 TATTATAA
11999715 TATTATAA
1 TATTATAA
11999723 TATTATAA
1 TATTATAA
11999731 TATTATAA
1 TATTATAA
11999739 TAT
1 TAT
11999742 ATATTTTAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
6 1 0.02
7 19 0.35
8 29 0.54
10 2 0.04
11 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (8 bp):
TATTATAA
Found at i:11999730 original size:27 final size:26
Alignment explanation
Indices: 11999668--11999742 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 26
11999658 TACATTTACT
11999668 TATTATAATATATAATATAATATATA
1 TATTATAATATATAATATAATATATA
11999694 TACTTAATAAT-TA-AGATATAATATTATAA
1 TA-TT-ATAATATATA-ATATAATA-TAT-A
11999723 TATTATAATATTATAATATA
1 TATTATAATA-TATAATATA
11999743 TATTTTAACT
Statistics
Matches: 41, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
26 3 0.07
27 17 0.41
28 10 0.24
29 10 0.24
30 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (26 bp):
TATTATAATATATAATATAATATATA
Found at i:12000069 original size:18 final size:18
Alignment explanation
Indices: 12000046--12000081 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
12000036 ACCCACGCTT
12000046 GTGTCTCATGCCGTGTGG
1 GTGTCTCATGCCGTGTGG
12000064 GTGTCTCATGCCGTGTGG
1 GTGTCTCATGCCGTGTGG
12000082 ACCTAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.06, C:0.22, G:0.39, T:0.33
Consensus pattern (18 bp):
GTGTCTCATGCCGTGTGG
Found at i:12005082 original size:25 final size:24
Alignment explanation
Indices: 12005054--12005105 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
12005044 ATATGGAAAG
12005054 AAATAAAAAAGATATTTATACTAAT
1 AAATAAAAAAGATA-TTATACTAAT
*** *
12005079 AAATGCTAAATATATTATACTAAT
1 AAATAAAAAAGATATTATACTAAT
12005103 AAA
1 AAA
12005106 AAACCAAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAAAAAGATATTATACTAAT
Found at i:12005114 original size:25 final size:23
Alignment explanation
Indices: 12005065--12005114 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
12005055 AATAAAAAAG
** *
12005065 ATATTTATACTAATAAATGCTAA
1 ATATTTATACTAATAAAAACCAA
12005088 ATATATTATACTAATAAAAAACCAA
1 ATAT-TTATACTAAT-AAAAACCAA
12005113 AT
1 AT
12005115 CTTCTAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 4 0.18
24 10 0.45
25 8 0.36
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (23 bp):
ATATTTATACTAATAAAAACCAA
Found at i:12018063 original size:72 final size:72
Alignment explanation
Indices: 12017984--12018133 Score: 185
Period size: 72 Copynumber: 2.1 Consensus size: 72
12017974 CCCAATGACA
* ** * *
12017984 CCGTTTCCG-AGGTTTTGGGGATTTACCGACGTTTTTAATTAAGCGCCACTAATAATCCTAAGCC
1 CCGTTTCCGTA-GTTTTGGGGATTTACCGACGCTTTTAAGGAAGCGCCACTAAAAACCCTAAGCC
12018048 AAACGGTG
65 AAACGGTG
* * * **
12018056 CCGTTTCCGTAGTTTTTGGGATTTAGCGGCGCTTTTGGGGAAGCGCCACTAAAAACCCTAAGCCA
1 CCGTTTCCGTAGTTTTGGGGATTTACCGACGCTTTTAAGGAAGCGCCACTAAAAACCCTAAGCCA
12018121 AACGGTG
66 AACGGTG
*
12018128 TCGTTT
1 CCGTTT
12018134 TCTCAGCTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
72 65 0.98
73 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (72 bp):
CCGTTTCCGTAGTTTTGGGGATTTACCGACGCTTTTAAGGAAGCGCCACTAAAAACCCTAAGCCA
AACGGTG
Found at i:12018777 original size:22 final size:22
Alignment explanation
Indices: 12018749--12018790 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12018739 GGTGTTATGC
**
12018749 TTTAGGGGTTAGGGTTAGGGGA
1 TTTAGGGGTTACAGTTAGGGGA
12018771 TTTAGGGGTTACAGTTAGGG
1 TTTAGGGGTTACAGTTAGGG
12018791 TTTCAATGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.02, G:0.45, T:0.33
Consensus pattern (22 bp):
TTTAGGGGTTACAGTTAGGGGA
Found at i:12018964 original size:20 final size:21
Alignment explanation
Indices: 12018941--12018988 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
12018931 GTGTTAGAGA
12018941 TTGAGTTTAGGG-TTTAAGGT
1 TTGAGTTTAGGGTTTTAAGGT
* *
12018961 TTGAGTTTTGGGTTTTAGGGT
1 TTGAGTTTAGGGTTTTAAGGT
12018982 TT-AGTTT
1 TTGAGTTT
12018989 GGAAATTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (21 bp):
TTGAGTTTAGGGTTTTAAGGT
Found at i:12019145 original size:14 final size:13
Alignment explanation
Indices: 12019120--12019194 Score: 71
Period size: 14 Copynumber: 5.5 Consensus size: 13
12019110 CAGAAAATAT
12019120 GGTTTA-GGTTTA
1 GGTTTAGGGTTTA
12019132 CGGTTTAGGGTTTA
1 -GGTTTAGGGTTTA
* *
12019146 CGATTTAGAGTTTA
1 -GGTTTAGGGTTTA
*
12019160 GAGTTTAGAGTTTTA
1 G-GTTTAG-GGTTTA
12019175 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
12019188 GGATTTA
1 GG-TTTA
12019195 TGATTTAAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
13 14 0.27
14 33 0.63
15 5 0.10
ACGTcount: A:0.21, C:0.03, G:0.31, T:0.45
Consensus pattern (13 bp):
GGTTTAGGGTTTA
Found at i:12019158 original size:21 final size:19
Alignment explanation
Indices: 12019120--12019194 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 19
12019110 CAGAAAATAT
*
12019120 GGTTTAGGTTTACGGTTTAG
1 GGTTTAGATTTA-GGTTTAG
12019140 GGTTTACGATTTAGAGTTTAG
1 GGTTTA-GATTTAG-GTTTAG
*
12019161 AGTTTAGAGTTTTAGGTTTAG
1 GGTTTAGA--TTTAGGTTTAG
12019182 GGTTTAGGATTTA
1 GGTTTA-GATTTA
12019195 TGATTTAAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 13 0.28
21 27 0.57
22 7 0.15
ACGTcount: A:0.21, C:0.03, G:0.31, T:0.45
Consensus pattern (19 bp):
GGTTTAGATTTAGGTTTAG
Found at i:12019189 original size:7 final size:7
Alignment explanation
Indices: 12019120--12019194 Score: 64
Period size: 7 Copynumber: 10.9 Consensus size: 7
12019110 CAGAAAATAT
12019120 GGTTTA-
1 GGTTTAG
*
12019126 GGTTTAC
1 GGTTTAG
12019133 GGTTTAG
1 GGTTTAG
*
12019140 GGTTTAC
1 GGTTTAG
*
12019147 GATTTAG
1 GGTTTAG
*
12019154 AGTTTAG
1 GGTTTAG
*
12019161 AGTTTAG
1 GGTTTAG
*
12019168 AGTTTTA-
1 -GGTTTAG
12019175 GGTTTAG
1 GGTTTAG
12019182 GGTTTAG
1 GGTTTAG
*
12019189 GATTTA
1 GGTTTA
12019195 TGATTTAAGA
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
6 11 0.20
7 41 0.73
8 4 0.07
ACGTcount: A:0.21, C:0.03, G:0.31, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:12019790 original size:115 final size:114
Alignment explanation
Indices: 12019662--12019899 Score: 361
Period size: 115 Copynumber: 2.1 Consensus size: 114
12019652 CGCTTCATAA
* * * *
12019662 AAAAATGCCGCTAAAGGTGATATATTATCGGCGTTTT-CTGAAGAAACGCCGCAAATTTCCTTTA
1 AAAAACGCCGCTAAAAGTGATATATTACCGGCGTTTTAC-GAAGAAACGCCACAAATTTCCTTTA
*
12019726 ATTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCCTTTAGTGGCGCATTT
65 ACTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCCTTTAGTGGCGCATTT
*
12019776 GAAAAACGCCGCTAAAAGTGATATTTTACCGGCGTTTTACGAAGAAACGCCACAAATTTCCTTTA
1 -AAAAACGCCGCTAAAAGTGATATATTACCGGCGTTTTACGAAGAAACGCCACAAATTTCCTTTA
* * * *
12019841 ACTGTAATAAAGATGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGTATTT
65 ACTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCCTTTAGTGGCGCATTT
12019891 AAAAACGCC
1 AAAAACGCC
12019900 ACAAATATTT
Statistics
Matches: 112, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
114 9 0.08
115 102 0.91
116 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (114 bp):
AAAAACGCCGCTAAAAGTGATATATTACCGGCGTTTTACGAAGAAACGCCACAAATTTCCTTTAA
CTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCCTTTAGTGGCGCATTT
Found at i:12020215 original size:261 final size:260
Alignment explanation
Indices: 12019762--12020291 Score: 907
Period size: 261 Copynumber: 2.0 Consensus size: 260
12019752 TTGTTTTCCT
* *
12019762 TTAGTGGCGCATTTGAAAAACGCCGCTAAAAGTGATATTTTACCGGCGTTTTACGAAGAAACGCC
1 TTAGTGGCGCATATGAAAAACGCCGCTAAAAGTGATATATTACCGGCGTTTTACGAAGAAACGCC
* *
12019827 ACAAATTTCCTTTAACTGTAATAAAGATGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGTATTTA
66 ACAAATTTCCTTTAACTGTAATAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTA
*
12019892 AAAACGCCACAAATATTTATTACGAGCTGAGGAAACGACGTCGTTTCCTATTTTTATTAGTGGCG
131 AAAACGCCACAAATATTTATTACGAGCTGAGGAAACGACGCCGTTTCCTATTTTTATTAGTGGCG
* * * *
12019957 CTTTAGCTAAAGTGCCGCAAAAATGTTTAATGTTATCTTATAACGGTGCCATTTTGTCCTTGTTA
196 CTTTAGATAAAGCGCCGCAAAAATGTTTAATGTTATCTTATAACGATGCCATTTTGTCCGTGTTA
* *
12020022 TTAGTGGCGCATATGAAAAACGCCGCTAAAGGTGATATATTATCGGCGTTTTACGAAGAAACGCC
1 TTAGTGGCGCATATGAAAAACGCCGCTAAAAGTGATATATTACCGGCGTTTTACGAAGAAACGCC
* *
12020087 ACAAATTTCCTTTAACTGTAATGAAGACGGTGCTGTTTTGTTGTTTTCTTTTAGTGGCGCAGTTT
66 ACAAATTTCCTTTAACTGTAATAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCA-TTT
*
12020152 AAAAATGCCACAAATATTTATTACGAGCTGAGGAAACGACGCCGTTTCCTATTTTTATTAGTGGC
130 AAAAACGCCACAAATATTTATTACGAGCTGAGGAAACGACGCCGTTTCCTATTTTTATTAGTGGC
* *
12020217 GCTTTAGATAAAGCGCCGCAAAAATGTTTAATGTTATCTTATGACGATGCCGTTTTGTCCGTGTT
195 GCTTTAGATAAAGCGCCGCAAAAATGTTTAATGTTATCTTATAACGATGCCATTTTGTCCGTGTT
12020282 A
260 A
12020283 TTAGTGGCG
1 TTAGTGGCG
12020292 TTTTTACTCT
Statistics
Matches: 253, Mismatches: 16, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
260 118 0.47
261 135 0.53
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (260 bp):
TTAGTGGCGCATATGAAAAACGCCGCTAAAAGTGATATATTACCGGCGTTTTACGAAGAAACGCC
ACAAATTTCCTTTAACTGTAATAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTA
AAAACGCCACAAATATTTATTACGAGCTGAGGAAACGACGCCGTTTCCTATTTTTATTAGTGGCG
CTTTAGATAAAGCGCCGCAAAAATGTTTAATGTTATCTTATAACGATGCCATTTTGTCCGTGTTA
Found at i:12023435 original size:9 final size:9
Alignment explanation
Indices: 12022824--12023433 Score: 629
Period size: 9 Copynumber: 68.2 Consensus size: 9
12022814 CACAAATTAA
12022824 ATAACTTAC
1 ATAACTTAC
12022833 ATTAA-TTAC
1 A-TAACTTAC
12022842 ATAACTTAC
1 ATAACTTAC
* * *
12022851 AAAAATTAA
1 ATAACTTAC
12022860 ATAACTTAC
1 ATAACTTAC
12022869 ATAACTTAC
1 ATAACTTAC
12022878 ATAACTTAC
1 ATAACTTAC
* *
12022887 ATAAATTAA
1 ATAACTTAC
12022896 ATAACTTAC
1 ATAACTTAC
12022905 ATAACTTAC
1 ATAACTTAC
* *
12022914 ATAAATTAA
1 ATAACTTAC
*
12022923 ATATCTTAC
1 ATAACTTAC
*
12022932 ATTACTTAC
1 ATAACTTAC
*
12022941 ATAAATTA-
1 ATAACTTAC
* *
12022949 AGTAAATTAA
1 A-TAACTTAC
12022959 ATAACTTAC
1 ATAACTTAC
12022968 ATAACTTAC
1 ATAACTTAC
12022977 ATAACTTAC
1 ATAACTTAC
* *
12022986 ATAAATTAA
1 ATAACTTAC
*
12022995 ATATCTTAC
1 ATAACTTAC
12023004 ATAACTTAC
1 ATAACTTAC
*
12023013 ATAAATTA-
1 ATAACTTAC
* *
12023021 AGTAAATTAA
1 A-TAACTTAC
12023031 ATAACTTAC
1 ATAACTTAC
12023040 ATAACTTAC
1 ATAACTTAC
* *
12023049 ATAAATTAA
1 ATAACTTAC
12023058 ATAACTTAC
1 ATAACTTAC
12023067 ATAACTTAC
1 ATAACTTAC
*
12023076 ATAACTTAA
1 ATAACTTAC
12023085 ATAACTTAC
1 ATAACTTAC
12023094 ATAACTTAC
1 ATAACTTAC
*
12023103 ATAAATTA-
1 ATAACTTAC
* *
12023111 AGTAAATTAA
1 A-TAACTTAC
12023121 ATAACTTAC
1 ATAACTTAC
12023130 ATAACTTAC
1 ATAACTTAC
* *
12023139 ATAAATTAA
1 ATAACTTAC
12023148 ATAACTTAC
1 ATAACTTAC
12023157 ATAA-TTAAC
1 ATAACTT-AC
12023166 ATAACTTAC
1 ATAACTTAC
12023175 ATAACTTAC
1 ATAACTTAC
* *
12023184 ATAAATTAA
1 ATAACTTAC
12023193 ATAACTTAC
1 ATAACTTAC
12023202 ATAACTTAC
1 ATAACTTAC
*
12023211 ATAAATTA-
1 ATAACTTAC
12023219 AGTAACTTAC
1 A-TAACTTAC
12023229 ATAACTTAC
1 ATAACTTAC
*
12023238 ATTAA-TTAA
1 A-TAACTTAC
*
12023247 ATATCTTAC
1 ATAACTTAC
12023256 ATAACTTAC
1 ATAACTTAC
*
12023265 ATAAATTA-
1 ATAACTTAC
*
12023273 AGTTAA-TTAA
1 A--TAACTTAC
12023283 ATAACTTAC
1 ATAACTTAC
12023292 ATAACTTAC
1 ATAACTTAC
12023301 ATAACTTAC
1 ATAACTTAC
*
12023310 ATAAATTAC
1 ATAACTTAC
*
12023319 ATAGCTTAC
1 ATAACTTAC
* *
12023328 ATAAATTAA
1 ATAACTTAC
12023337 ATAACTTAC
1 ATAACTTAC
12023346 ATAACTTAC
1 ATAACTTAC
*
12023355 ATAAATTA-
1 ATAACTTAC
12023363 AGTAACTTAC
1 A-TAACTTAC
*
12023373 ATTA--TAC
1 ATAACTTAC
12023380 ATAACCTT-C
1 ATAA-CTTAC
*
12023389 TTAACTTAC
1 ATAACTTAC
12023398 ATAA--TAC
1 ATAACTTAC
*
12023405 ATTACTTAC
1 ATAACTTAC
*
12023414 ATAGCTTAC
1 ATAACTTAC
*
12023423 ATTACTTAC
1 ATAACTTAC
12023432 AT
1 AT
12023434 TATACATAAC
Statistics
Matches: 501, Mismatches: 74, Indels: 52
0.80 0.12 0.08
Matches are distributed among these distances:
7 12 0.02
8 19 0.04
9 452 0.90
10 18 0.04
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (9 bp):
ATAACTTAC
Found at i:12029094 original size:21 final size:20
Alignment explanation
Indices: 12029068--12029138 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 20
12029058 CTACAACTTA
12029068 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGC-GAAGCGAGGG
* *
12029089 AAGCAGCA-GCTGCAGCAAGGG
1 AAGCAG-AGGC-GAAGCGAGGG
* * *
12029110 AAGCGGAGGCTACAGCGAGAG
1 AAGCAGAGGCGA-AGCGAGGG
12029131 AAGCAGAG
1 AAGCAGAG
12029139 CAGAGCAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
20 1 0.03
21 36 0.95
22 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.44, T:0.03
Consensus pattern (20 bp):
AAGCAGAGGCGAAGCGAGGG
Found at i:12029546 original size:26 final size:26
Alignment explanation
Indices: 12029510--12029559 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
12029500 AAAGACGCCG
12029510 CTAAAGACCATGTTCTTTAACGGCAC
1 CTAAAGACCATGTTCTTTAACGGCAC
*
12029536 CTAAAGACCATGTTCTTTAGCGGC
1 CTAAAGACCATGTTCTTTAACGGC
12029560 GCATAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (26 bp):
CTAAAGACCATGTTCTTTAACGGCAC
Found at i:12029597 original size:43 final size:43
Alignment explanation
Indices: 12029536--12029687 Score: 200
Period size: 42 Copynumber: 3.6 Consensus size: 43
12029526 TTAACGGCAC
* * *
12029536 CTAAAGACCATGTTCTTTAGCGGCGCATAGAAAAAAAATGCCG
1 CTAAAGAACATGTTCTTTAGAGGCGCATAGAAAAAAAACGCCG
* *
12029579 CTAAAGAACATGCTCTTTAGAGGCGCTTAG-AAAAAAACGCCG
1 CTAAAGAACATGTTCTTTAGAGGCGCATAGAAAAAAAACGCCG
* *
12029621 CTAAAGAACATGTTCTTTAGAGGCGCACA-AACAAAAACGCCG
1 CTAAAGAACATGTTCTTTAGAGGCGCATAGAAAAAAAACGCCG
* * *
12029663 CTAAAGAATATGGTCTTTAGCGGCG
1 CTAAAGAACATGTTCTTTAGAGGCG
12029688 TTTTTGTTTG
Statistics
Matches: 96, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
42 70 0.73
43 26 0.27
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (43 bp):
CTAAAGAACATGTTCTTTAGAGGCGCATAGAAAAAAAACGCCG
Found at i:12030938 original size:23 final size:23
Alignment explanation
Indices: 12030912--12030996 Score: 88
Period size: 23 Copynumber: 3.9 Consensus size: 23
12030902 AGTAAATTAA
12030912 TGAAGAGACTTGAATATGAAGAG
1 TGAAGAGACTTGAATATGAAGAG
* *
12030935 TGAAGAGACTTGAAGATGAAAAG
1 TGAAGAGACTTGAATATGAAGAG
* * * *
12030958 T-TACACAC---ATTATGAAGAG
1 TGAAGAGACTTGAATATGAAGAG
12030977 TGAAGAGACTTGAATATGAA
1 TGAAGAGACTTGAATATGAA
12030997 AAGTTATACA
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
19 9 0.20
20 4 0.09
22 4 0.09
23 29 0.63
ACGTcount: A:0.45, C:0.07, G:0.26, T:0.22
Consensus pattern (23 bp):
TGAAGAGACTTGAATATGAAGAG
Found at i:12030973 original size:42 final size:42
Alignment explanation
Indices: 12030926--12031009 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
12030916 GAGACTTGAA
12030926 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
* *
12030968 TATGAAGAGTGAAGAGACTTGAATATGAAAAGTTATACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
12031010 GCATGGATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.24
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:12031209 original size:21 final size:20
Alignment explanation
Indices: 12031176--12031224 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
12031166 TATTATAAGG
*
12031176 AATTTTATTTC-TTTCATATA
1 AATTTTTTTTCTTTTCAT-TA
12031196 AATTTTTTTCTCTTTTCATTA
1 AATTTTTTT-TCTTTTCATTA
*
12031217 TATTTTTT
1 AATTTTTT
12031225 ATCATTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.32
21 11 0.44
22 6 0.24
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.67
Consensus pattern (20 bp):
AATTTTTTTTCTTTTCATTA
Found at i:12031224 original size:20 final size:20
Alignment explanation
Indices: 12031197--12031248 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
12031187 TTTCATATAA
12031197 ATTTTTTTCTC-TTTTCATT
1 ATTTTTTTCTCATTTTCATT
* *
12031216 ATATTTTTTATCATTTTCTTT
1 AT-TTTTTTCTCATTTTCATT
12031237 ATTTTATTTCTC
1 ATTTT-TTTCTC
12031249 CAAATATTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.07
20 11 0.41
21 14 0.52
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTTTTCTCATTTTCATT
Found at i:12031232 original size:21 final size:18
Alignment explanation
Indices: 12031199--12031241 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 18
12031189 TCATATAAAT
*
12031199 TTTTTTCTCTTTTCATTATA
1 TTTTTTATCTTTTC-TT-TA
12031219 TTTTTTATCATTTTCTTTA
1 TTTTTTATC-TTTTCTTTA
12031238 TTTT
1 TTTT
12031242 ATTTCTCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 10 0.48
21 5 0.24
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTATCTTTTCTTTA
Found at i:12035416 original size:23 final size:23
Alignment explanation
Indices: 12035390--12035479 Score: 98
Period size: 23 Copynumber: 4.1 Consensus size: 23
12035380 GAAAAGTTAA
12035390 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
*
12035413 AAGAGTGAAGAGACTTGAAGATG
1 AAGAGTGAAGAGACTTGAATATG
* * * * *
12035436 AAAAGT-TACACAC---ATTATG
1 AAGAGTGAAGAGACTTGAATATG
12035455 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
12035478 AA
1 AA
12035480 AAGTTATACA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 34 0.67
ACGTcount: A:0.46, C:0.07, G:0.27, T:0.21
Consensus pattern (23 bp):
AAGAGTGAAGAGACTTGAATATG
Found at i:12035468 original size:42 final size:42
Alignment explanation
Indices: 12035409--12035492 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
12035399 GAGACTTGAA
12035409 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
* *
12035451 TATGAAGAGTGAAGAGACTTGAATATGAAAAGTTATACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
12035493 GCATGGATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.24
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:12045700 original size:32 final size:32
Alignment explanation
Indices: 12045659--12045733 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
12045649 CAGTATGAAT
*
12045659 ATTTAATATTTG-AAA-ATTATTAAATATCATTC
1 ATTTGATATTTGTAAATATT-TT-AATATCATTC
*
12045691 ATTTGATATTTGTAAATATTTTTATATCATTC
1 ATTTGATATTTGTAAATATTTTAATATCATTC
* *
12045723 ATCTGAAATTT
1 ATTTGATATTT
12045734 ATTTGTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 29 0.78
33 5 0.14
34 3 0.08
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (32 bp):
ATTTGATATTTGTAAATATTTTAATATCATTC
Found at i:12048198 original size:12 final size:12
Alignment explanation
Indices: 12048182--12048211 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
12048172 TAACAAACAT
12048182 AAAAATAATAAAG
1 AAAAA-AATAAAG
12048195 AAAAAAATAAAG
1 AAAAAAATAAAG
12048207 AAAAA
1 AAAAA
12048212 GGGACTAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (12 bp):
AAAAAAATAAAG
Found at i:12066765 original size:11 final size:11
Alignment explanation
Indices: 12066749--12066773 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12066739 AAAGAGGGAC
12066749 AAGCTATCAGA
1 AAGCTATCAGA
12066760 AAGCTATCAGA
1 AAGCTATCAGA
12066771 AAG
1 AAG
12066774 GGCTCAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (11 bp):
AAGCTATCAGA
Found at i:12072514 original size:40 final size:40
Alignment explanation
Indices: 12072470--12072731 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
12072460 GCTCCTCGTT
* *
12072470 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
12072510 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
12072550 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
12072589 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
12072628 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
12072667 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
12072708 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
12072732 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:12080283 original size:20 final size:20
Alignment explanation
Indices: 12080260--12080298 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
12080250 TGCCATTACC
12080260 GTGATCGAGATGAACAACCT
1 GTGATCGAGATGAACAACCT
*
12080280 GTGATCTAGATGAACAACC
1 GTGATCGAGATGAACAACC
12080299 GGTAATTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (20 bp):
GTGATCGAGATGAACAACCT
Found at i:12089879 original size:22 final size:22
Alignment explanation
Indices: 12089828--12089871 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
12089818 ATGAATGATG
* *
12089828 AGAATGAATAAGGGATCCTTGA
1 AGAATGATTGAGGGATCCTTGA
*
12089850 AGAATGATTGAGGGATTCTTGA
1 AGAATGATTGAGGGATCCTTGA
12089872 GGGATGATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.30, T:0.27
Consensus pattern (22 bp):
AGAATGATTGAGGGATCCTTGA
Found at i:12098542 original size:102 final size:102
Alignment explanation
Indices: 12098421--12098621 Score: 321
Period size: 102 Copynumber: 2.0 Consensus size: 102
12098411 CCAGTGATTC
* * * * * *
12098421 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATATGGTGGGATCAACACTTAGCAACCA
1 GGGGAATCAGCACTGAGCAACCCCCTTCACATATAAAATACGGTGGAATCAACACTTAGCAACCA
12098486 CCAATGAGTCGGAGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAGTCGGAGAATCAGCACTTAGCAACCCCTTG
*
12098523 GGGGAATCAGCACTGAGCAACCCCCTTCACATATAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTGAGCAACCCCCTTCACATATAAAATACGGTGGAATCAACACTTAGCAACCA
* *
12098588 CCAATGATTCGGGGAATCAGCACTTAGCAACCCC
66 CCAATGAGTCGGAGAATCAGCACTTAGCAACCCC
12098622 CTTTATATTC
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 90 1.00
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.19
Consensus pattern (102 bp):
GGGGAATCAGCACTGAGCAACCCCCTTCACATATAAAATACGGTGGAATCAACACTTAGCAACCA
CCAATGAGTCGGAGAATCAGCACTTAGCAACCCCTTG
Found at i:12128523 original size:203 final size:203
Alignment explanation
Indices: 12128166--12128570 Score: 657
Period size: 203 Copynumber: 2.0 Consensus size: 203
12128156 CTATCCCTAC
* *
12128166 ATATTTCCATGCCAAGGATCTTCTTAGCTTCACCTAGATCTTTCATCTCAAACTCAAGGTTGAGT
1 ATATTTCCATGCCAAGAATCTTCTTAGCTTCACCTAGATCTTTCATCTCAAACTCAAGATTGAGT
*
12128231 TGAGTCTTCAATCTCTCAATTTCAACTTTACTCTTAGATGCTATCAACATATCATCAACATATAA
66 TGAGTCTTCAATCTCTCAATCTCAACTTTACTCTTAGATGCTATCAACATATCATCAACATATAA
*
12128296 GAGCAAGTATACGAAAAATCCTTCTTGTAGCTTCTGAAAATACATGCAATGATCAAATTTACTTC
131 GAGCAAGTATACGAAAAATCCTTCTTGTAGCTTCTGAAAATACACGCAATGATCAAATTTACTTC
12128361 TTATGTAT
196 TTATGTAT
* * * *
12128369 ATATTTCCATGCCGAGAATCTTTTTAGCTTCTCCTAGATCTTTCATCTCAAACTCGAGATTGAGT
1 ATATTTCCATGCCAAGAATCTTCTTAGCTTCACCTAGATCTTTCATCTCAAACTCAAGATTGAGT
* * * *
12128434 TGAGTCTTCAATCTTTCAATCTCAACTTTGCTCTTAGATGCTATTAGCATATCATCAACATATAA
66 TGAGTCTTCAATCTCTCAATCTCAACTTTACTCTTAGATGCTATCAACATATCATCAACATATAA
* ** *
12128499 GAGCAAGTATATGAAAGTTCCTTCTTGTAGCTTCTGAAAATATACGCAATGATCAAATTTACTTC
131 GAGCAAGTATACGAAAAATCCTTCTTGTAGCTTCTGAAAATACACGCAATGATCAAATTTACTTC
*
12128564 TTGTGTA
196 TTATGTA
12128571 CCTTTGCCCT
Statistics
Matches: 185, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
203 185 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (203 bp):
ATATTTCCATGCCAAGAATCTTCTTAGCTTCACCTAGATCTTTCATCTCAAACTCAAGATTGAGT
TGAGTCTTCAATCTCTCAATCTCAACTTTACTCTTAGATGCTATCAACATATCATCAACATATAA
GAGCAAGTATACGAAAAATCCTTCTTGTAGCTTCTGAAAATACACGCAATGATCAAATTTACTTC
TTATGTAT
Found at i:12133684 original size:3 final size:3
Alignment explanation
Indices: 12133596--12133668 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
12133586 TGAATGTTTC
12133596 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12133644 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
12133669 CCACTTTGTA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:12137536 original size:41 final size:41
Alignment explanation
Indices: 12137486--12137572 Score: 138
Period size: 41 Copynumber: 2.1 Consensus size: 41
12137476 AATTCATCAT
* *
12137486 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
12137527 ATTCAGATCACCGGCACTTAGCTTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
12137568 ATTCA
1 ATTCA
12137573 ATTCACGAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:12137821 original size:19 final size:19
Alignment explanation
Indices: 12137797--12137833 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
12137787 TTGTTCGATC
*
12137797 CACACATATATATATATTA
1 CACACATATACATATATTA
12137816 CACACATATACATATATT
1 CACACATATACATATATT
12137834 CGCACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
CACACATATACATATATTA
Found at i:12141263 original size:6 final size:6
Alignment explanation
Indices: 12141252--12141341 Score: 54
Period size: 6 Copynumber: 14.7 Consensus size: 6
12141242 TTCAGAAAAA
* ** ** **
12141252 AAAATC AAAATC AAAATC AAAAAC AAAAAGA AGAAAAG AAAAGA AAAATC
1 AAAATC AAAATC AAAATC AAAATC -AAAATC A-AAATC AAAATC AAAATC
* * * * *
12141302 AAAATC AAAGTC AAAATG AAAATG AAAATG AAAATG AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
12141342 AAGAGAGAAG
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
6 62 0.89
7 8 0.11
ACGTcount: A:0.71, C:0.08, G:0.10, T:0.11
Consensus pattern (6 bp):
AAAATC
Found at i:12142708 original size:50 final size:50
Alignment explanation
Indices: 12142654--12143235 Score: 414
Period size: 50 Copynumber: 11.6 Consensus size: 50
12142644 GTAGTGGAAC
*** *
12142654 AGATTAAAGCCACATTGGTGAATCTTGCTTCCTCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGTGAATCTTACTTCCTCGACATTGCAGTTAAAA
* * * * ** ** *
12142704 AGATTAAAGCTACCACAGCGAATCTTACTT-CTCAAGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAACAGTGAATCTTACTTCCTCGA-CATTGCAGTTAAAA
* * * *
12142754 AGATTAATGCCACAA-AGCCGAACCTTGCTTCCTCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAG-TGAATCTTACTTCCTCGACATTGCAGTTAAAA
* ** *
12142804 AGATTAAAGCTACAACAGTGAATCTTACTT-CTC-A-AGTGGTGCAGTGGAAC
1 AGATTAAAGCCACAACAGTGAATCTTACTTCCTCGACA-T--TGCAGTTAAAA
* *
12142854 AGATTAACGCCACAACAGTGAATCTTGCTTTCC-CGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGTGAATCTTAC-TTCCTCGACATTGCAGTTAAAA
* * * * ** *
12142904 AGATTAAAGCTACAACAGCGAATCTTAC-TCCCCAGGCGA-TGCAGTGGAAC
1 AGATTAAAGCCACAACAGTGAATCTTACTTCCTC-GAC-ATTGCAGTTAAAA
* * *
12142954 AGATTAAAGCCACATCGGTGAATTCTT-CTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGTGAA-TCTTACTTCCTCGACATTGCAGTTAAAA
* * * * ** ** *
12143004 AGATTAAAGCTACAACAGTGAATCTTACTCCCTAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAACAGTGAATCTTACTTCCTCGACATTGCAGTTAAAA
* * * * *
12143054 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGATATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGTGAATCTTACTTCCTCGACATTGCAGTTAAAA
* * * * * * **
12143104 ATATTAAAGCTACAACAGCGAATCTTAC-TCCCCAGGCGA-TGCA-TTGGACT
1 AGATTAAAGCCACAACAGTGAATCTTACTTCCTC-GAC-ATTGCAGTT-AAAA
* * * * *
12143154 AGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGATATTGCAGTCAAAA
1 AGATTAAAGCCACAACAGTGAATCTTACTTCCTCGACATTGCAGTTAAAA
* *
12143204 AGATTAAAGCTACAACAGCGAATCTTACTTCC
1 AGATTAAAGCCACAACAGTGAATCTTACTTCC
12143236 CTGGCGGTGC
Statistics
Matches: 399, Mismatches: 109, Indels: 48
0.72 0.20 0.09
Matches are distributed among these distances:
47 1 0.00
48 5 0.01
49 23 0.06
50 341 0.85
51 25 0.06
52 3 0.01
53 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (50 bp):
AGATTAAAGCCACAACAGTGAATCTTACTTCCTCGACATTGCAGTTAAAA
Found at i:12142801 original size:100 final size:100
Alignment explanation
Indices: 12142628--12143293 Score: 944
Period size: 100 Copynumber: 6.7 Consensus size: 100
12142618 AATACAAATT
* * *
12142628 TTACTTCCCAGGCAGTGTAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCTCGACAT
1 TTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACAT
*
12142693 TGCAGTTAAAAAGATTAAAGCTACCACAGCGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * * ** ** *
12142728 TTACTTCTCAAGCGGTGCAGTGGAACAGATTAATGCCACAAAGCCGAACCTTGCTTCCTCGACAT
1 TTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACAT
*
12142793 TGCAGTTAAAAAGATTAAAGCTACAACAGTGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * * * * *
12142828 TTACTTCTCAAGTGGTGCAGTGGAACAGATTAACGCCACAACAGTGAATCTTGCTTTCC-CGACA
1 TTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGC-TTCCTCGACA
12142892 TTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
65 TTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * *
12142928 TTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATTCTT-CTTCCCCGACA
1 TTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAA-TCTTGCTTCCTCGACA
*
12142992 TTGCAGTTAAAAAGATTAAAGCTACAACAGTGAATC
65 TTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* *
12143028 TTAC-TCCCTAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGATA
1 TTACTTCCC-AGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACA
*
12143092 TTGCAGTTAAAAATATTAAAGCTACAACAGCGAATC
65 TTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * * *
12143128 TTACTCCCCAGGCGATGCATTGG-ACTAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGATA
1 TTACTTCCCAGGCGGTGCAGTGGAAC-AGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACA
*
12143192 TTGCAGTCAAAAAGATTAAAGCTACAACAGCGAATC
65 TTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * * * *
12143228 TTACTTCCCTGGCGGTGCAATGGAATAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCGACAT
1 TTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACAT
12143293 T
66 T
12143294 AAAGCTACAA
Statistics
Matches: 510, Mismatches: 48, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
99 13 0.03
100 485 0.95
101 12 0.02
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (100 bp):
TTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACAT
TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
Found at i:12142993 original size:200 final size:199
Alignment explanation
Indices: 12142628--12143897 Score: 1541
Period size: 200 Copynumber: 6.4 Consensus size: 199
12142618 AATACAAATT
* * * **
12142628 TTACTTCCCAGGCAGTGTAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCTCGACAT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCC-CGACAT
* *
12142693 TGCAGTTAAAAAGATTAAAGCTACCACAGCGAATCTTACTTCTCAAGCGGTGCAGTGGAACAGAT
65 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGATGCAGTGGAACAGAT
* * * * *
12142758 TAATGCCACAAAGCCGAACCTTGCTTCCTCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
130 TAAAGCCACAACGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
12142823 GAATC
195 GAATC
* * * *
12142828 TTACTTCTCAAGTGGTGCAGTGGAACAGATTAACGCCACAACAGTGAATCTTGCTTTCCCGACAT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACAT
* * *
12142893 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGAT
65 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGATGCAGTGGAACAGAT
* * *
12142958 TAAAGCCACATCGGTGAATTCTT-CTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAG
130 TAAAGCCACAACGGCGAA-CCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAG
*
12143022 TGAATC
194 CGAATC
* * *
12143028 TTAC-TCCCTAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGATA
1 TTACTTCCC-AAGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTT-CCCGACA
* * * * *
12143092 TTGCAGTTAAAAATATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGATGCATTGG-ACTAG
64 TTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGATGCAGTGGAAC-AG
* * * * * *
12143156 ATTAAAGCCACATCGGTGAATCTTGCTTCCTCGATATTGCAGTCAAAAAGATTAAAGCTACAACA
128 ATTAAAGCCACAACGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACA
12143221 GCGAATC
193 GCGAATC
** * * **
12143228 TTACTTCCCTGGCGGTGCAATGGAATAGATTAAAGCCACATTGGTGAATCTTGCTT-CC--C---
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCGACATT
* *
12143287 -C-G------ACATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGATGCAGTGTAACAGATT
66 GCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGATGCAGTGGAACAGATT
* * * *
12143344 AACGCCACAACTGCGAACCTTGCTTCCCCGACATTGCAATTAAAAAGATTAAAGCTACCACAGCG
131 AAAGCCACAACGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
*
12143409 AATT
196 AATC
** * * * *
12143413 TTACTTTTCAAGCGGTGCAATGGAACAGATTAACGCCACAACGGCGAACCTTGCTTCGCCGACAT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTC-CCGACAT
* *
12143478 TGCAGTTAAAAAGATTAAAGCTACCACAGCGAATCTTACTTCTCAAGC-AGTGTAGTGGAACAGA
65 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGA-TGCAGTGGAACAGA
* * *
12143542 TTAACGCCACAACGGCGAACCTTGCTTCGCCGACATTGCAGTTAAAAAGATTAAAGCTACCACAG
129 TTAAAGCCACAACGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAG
12143607 CGAATC
194 CGAATC
* * * * ** *
12143613 TTACTTCTCAAGCAGTGTAGTGGAACAGATTAACGCCACAACGACGAACCTTGCTTCCCCGACAT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTT-CCCGACAT
* * *
12143678 TGCAGTCAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTGTAGTGGAACAGAT
65 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGATGCAGTGGAACAGAT
* * * *
12143743 TAATGCCACAACGGCGAATCTTGCTTCCCCGAAATTGCAGTTATAAAGATTAAAGCTACAACAGC
130 TAAAGCCACAACGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
12143808 GAATC
195 GAATC
* * * * * * **
12143813 TTACTTCCCAGGCGGTGTAGTGGAACAAATTGAAGCTACAACAGCAAATCTTGCTTCCTCGACAT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCC-CGACAT
*** *
12143878 CATAGTTAAACAGATTAAAG
65 TGCAGTTAAAAAGATTAAAG
12143898 TTACGAGTAA
Statistics
Matches: 939, Mismatches: 104, Indels: 54
0.86 0.09 0.05
Matches are distributed among these distances:
185 150 0.16
186 2 0.00
187 2 0.00
189 1 0.00
191 1 0.00
192 1 0.00
193 1 0.00
194 1 0.00
198 2 0.00
199 14 0.01
200 752 0.80
201 12 0.01
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (199 bp):
TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCGACATT
GCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGATGCAGTGGAACAGATT
AAAGCCACAACGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
AATC
Found at i:12143258 original size:50 final size:50
Alignment explanation
Indices: 12142628--12143286 Score: 398
Period size: 50 Copynumber: 13.2 Consensus size: 50
12142618 AATACAAATT
* * * ***
12142628 TTACTTCCCAGGCAG-TGTAGTGGAACAGATTAAAGCCACATTGGTGAATC
1 TTACTTCCCAGGC-GTTGCAGTGGAAAAGATTAAAGCTACAACAGTGAATC
* * * ** * *
12142678 TTGCTTCCTC-GACATTGCAGTTAAAAAGATTAAAGCTACCACAGCGAATC
1 TTACTTCC-CAGGCGTTGCAGTGGAAAAGATTAAAGCTACAACAGTGAATC
* * * * * * * *
12142728 TTACTTCTCAAGCGGTGCAGTGGAACAGATTAATGCCACAA-AGCCGAACC
1 TTACTTCCCAGGCGTTGCAGTGGAAAAGATTAAAGCTACAACAG-TGAATC
* * * **
12142778 TTGCTTCCTC-GACATTGCAGTTAAAAAGATTAAAGCTACAACAGTGAATC
1 TTACTTCC-CAGGCGTTGCAGTGGAAAAGATTAAAGCTACAACAGTGAATC
* * * * * * *
12142828 TTACTTCTCAAGTGGTGCAGTGGAACAGATTAACGCCACAACAGTGAATC
1 TTACTTCCCAGGCGTTGCAGTGGAAAAGATTAAAGCTACAACAGTGAATC
* * * ** *
12142878 TTGCTTTCCC-GACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
1 TTAC-TTCCCAGGCGTTGCAGTGGAAAAGATTAAAGCTACAACAGTGAATC
* * * * * *
12142928 TTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATTC
1 TTACTTCCCAGGCGTTGCAGTGGAAAAGATTAAAGCTACAACAGTGAA-TC
* * * **
12142979 TT-CTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGTGAATC
1 TTACTTCCCAGGCGTTGCAGTGGAAAAGATTAAAGCTACAACAGTGAATC
* * * * *
12143028 TTAC-TCCCTAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATC
1 TTACTTCCC-AGGCGTTGCAGTGGAAAAGATTAAAGCTACAACAGTGAATC
* * *** ** * *
12143078 TTGCTTCCCCGATATTGCAGTTAAAAATATTAAAGCTACAACAGCGAATC
1 TTACTTCCCAGGCGTTGCAGTGGAAAAGATTAAAGCTACAACAGTGAATC
* * * ** * * *
12143128 TTACTCCCCAGGCGATGCATTGGACTAGATTAAAGCCACATCGGTGAATC
1 TTACTTCCCAGGCGTTGCAGTGGAAAAGATTAAAGCTACAACAGTGAATC
* *** ** *
12143178 TTGCTTCCTC-GATATTGCAGTCAAAAAGATTAAAGCTACAACAGCGAATC
1 TTACTTCC-CAGGCGTTGCAGTGGAAAAGATTAAAGCTACAACAGTGAATC
* * * * * ***
12143228 TTACTTCCCTGGCGGTGCAATGGAATAGATTAAAGCCACATTGGTGAATC
1 TTACTTCCCAGGCGTTGCAGTGGAAAAGATTAAAGCTACAACAGTGAATC
*
12143278 TTGCTTCCC
1 TTACTTCCC
12143287 CGACATTAAA
Statistics
Matches: 436, Mismatches: 158, Indels: 30
0.70 0.25 0.05
Matches are distributed among these distances:
49 17 0.04
50 402 0.92
51 17 0.04
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (50 bp):
TTACTTCCCAGGCGTTGCAGTGGAAAAGATTAAAGCTACAACAGTGAATC
Found at i:12143351 original size:85 final size:85
Alignment explanation
Indices: 12143206--12143378 Score: 231
Period size: 85 Copynumber: 2.0 Consensus size: 85
12143196 AGTCAAAAAG
** * * *
12143206 ATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAATGGAATAGATTAAAGCCAC-ATT
1 ATTAAAGCTACAACAGCGAATCTTACTTCCCAAGCGATGCAATGGAACAGATTAAAGCCACAACT
* *
12143270 GGTGAATCTTGCTTCCCCGAC
66 -GCGAACCTTGCTTCCCCGAC
* * * *
12143291 ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGATGCAGTGTAACAGATTAACGCCACAACT
1 ATTAAAGCTACAACAGCGAATCTTACTTCCCAAGCGATGCAATGGAACAGATTAAAGCCACAACT
12143356 GCGAACCTTGCTTCCCCGAC
66 GCGAACCTTGCTTCCCCGAC
12143376 ATT
1 ATT
12143379 GCAATTAAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
85 74 0.97
86 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (85 bp):
ATTAAAGCTACAACAGCGAATCTTACTTCCCAAGCGATGCAATGGAACAGATTAAAGCCACAACT
GCGAACCTTGCTTCCCCGAC
Found at i:12143393 original size:50 final size:50
Alignment explanation
Indices: 12143291--12143821 Score: 329
Period size: 50 Copynumber: 10.6 Consensus size: 50
12143281 CTTCCCCGAC
* * * * *
12143291 ATTAAAGCTACAACAGCGAATCTTACTT-CTCAAGCGA-TGCAGTGTAACAG
1 ATTAAAGCCACAACAGCGAATCTTACTTCCCCGA-C-ATTGCAGTGAAAAAG
* * * * * *
12143341 ATTAACGCCACAACTGCGAACCTTGCTTCCCCGACATTGCAATTAAAAAG
1 ATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAAAAG
* * * ** * ** * * *
12143391 ATTAAAGCTACCACAGCGAATTTTACTT-TTCAAGCGGTGCAATGGAACAG
1 ATTAAAGCCACAACAGCGAATCTTACTTCCCCGA-CATTGCAGTGAAAAAG
* * * * * *
12143441 ATTAACGCCACAACGGCGAACCTTGCTTCGCCGACATTGCAGTTAAAAAG
1 ATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAAAAG
* * * * * * * *
12143491 ATTAAAGCTACCACAGCGAATCTTACTT-CTCAAGCAGTGTAGTGGAACAG
1 ATTAAAGCCACAACAGCGAATCTTACTTCCCCGA-CATTGCAGTGAAAAAG
* * * * * *
12143541 ATTAACGCCACAACGGCGAACCTTGCTTCGCCGACATTGCAGTTAAAAAG
1 ATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAAAAG
* * * * * * * *
12143591 ATTAAAGCTACCACAGCGAATCTTACTT-CTCAAGCAGTGTAGTGGAACAG
1 ATTAAAGCCACAACAGCGAATCTTACTTCCCCGA-CATTGCAGTGAAAAAG
* * * *
12143641 ATTAACGCCACAAC-GACGAACCTTGCTTCCCCGACATTGCAGTCAAAAAG
1 ATTAAAGCCACAACAG-CGAATCTTACTTCCCCGACATTGCAGTGAAAAAG
* * * ** * * *
12143691 ATTAAAGCTACAACAGCGAATCTTACTT-CTCAAGCGGTGTAGTGGAACAG
1 ATTAAAGCCACAACAGCGAATCTTACTTCCCCGA-CATTGCAGTGAAAAAG
* * * * * *
12143741 ATTAATGCCACAACGGCGAATCTTGCTTCCCCGAAATTGCAGTTATAAAG
1 ATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAAAAG
*
12143791 ATTAAAGCTACAACAGCGAATCTTACTTCCC
1 ATTAAAGCCACAACAGCGAATCTTACTTCCC
12143822 AGGCGGTGTA
Statistics
Matches: 343, Mismatches: 126, Indels: 24
0.70 0.26 0.05
Matches are distributed among these distances:
49 11 0.03
50 318 0.93
51 14 0.04
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (50 bp):
ATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAAAAG
Found at i:12143464 original size:100 final size:100
Alignment explanation
Indices: 12143291--12143897 Score: 892
Period size: 100 Copynumber: 6.1 Consensus size: 100
12143281 CTTCCCCGAC
* * * *
12143291 ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGATGCAGTGTAACAGATTAACGCCACAACT
1 ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTGTAGTGGAACAGATTAACGCCACAACG
*
12143356 GCGAACCTTGCTTCCCCGACATTGCAATTAAAAAG
66 GCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAG
* * * * *
12143391 ATTAAAGCTACCACAGCGAATTTTACTTTTCAAGCGGTGCAATGGAACAGATTAACGCCACAACG
1 ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTGTAGTGGAACAGATTAACGCCACAACG
*
12143456 GCGAACCTTGCTTCGCCGACATTGCAGTTAAAAAG
66 GCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAG
* *
12143491 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGCAGTGTAGTGGAACAGATTAACGCCACAACG
1 ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTGTAGTGGAACAGATTAACGCCACAACG
*
12143556 GCGAACCTTGCTTCGCCGACATTGCAGTTAAAAAG
66 GCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAG
* *
12143591 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGCAGTGTAGTGGAACAGATTAACGCCACAACG
1 ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTGTAGTGGAACAGATTAACGCCACAACG
* *
12143656 ACGAACCTTGCTTCCCCGACATTGCAGTCAAAAAG
66 GCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAG
*
12143691 ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTGTAGTGGAACAGATTAATGCCACAACG
1 ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTGTAGTGGAACAGATTAACGCCACAACG
* * *
12143756 GCGAATCTTGCTTCCCCGAAATTGCAGTTATAAAG
66 GCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAG
* * * *
12143791 ATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGGTGTAGTGGAACAAATTGAA-GCTACAAC
1 ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTGTAGTGGAACAGATT-AACGCCACAAC
* * * * *** *
12143855 AGCAAATCTTGCTTCCTCGACATCATAGTTAAACAG
65 GGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAG
12143891 ATTAAAG
1 ATTAAAG
12143898 TTACGAGTAA
Statistics
Matches: 468, Mismatches: 38, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
100 466 1.00
101 2 0.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (100 bp):
ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTGTAGTGGAACAGATTAACGCCACAACG
GCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAG
Found at i:12143849 original size:50 final size:49
Alignment explanation
Indices: 12143495--12143870 Score: 215
Period size: 50 Copynumber: 7.5 Consensus size: 49
12143485 AAAAAGATTA
* * * *
12143495 AAGCTACCACAGCGAATCTTACTTCTCAAGCAGTGTAGTGGAACAGATT
1 AAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGTAGTGGAACAAATT
* * * * * * * * *
12143544 AACGCCACAACGGCGAACCTTGCTTCGCC-GACATTGCAGT-TAAAAAGATT
1 AA-GCTACAACAGCGAATCTTACTTC-CCAGGCAGTGTAGTGGAACAA-ATT
* * * *
12143594 AAAGCTACCACAGCGAATCTTACTTCTCAAGCAGTGTAGTGGAACAGATT
1 -AAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGTAGTGGAACAAATT
* * * * * * * * *
12143644 AACGCCACAAC-GACGAACCTTGCTTCCCCGACATTGCAGT-CAAAAAGATT
1 AA-GCTACAACAG-CGAATCTTACTTCCCAGGCAGTGTAGTGGAACAA-ATT
* * * *
12143694 AAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTGTAGTGGAACAGATT
1 -AAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGTAGTGGAACAAATT
* * * * ** * * *
12143744 AATGCCACAACGGCGAATCTTGCTTCCCCGAAATTGCAGT-TATA-AAGATT
1 AA-GCTACAACAGCGAATCTTACTTCCCAGGCAGTGTAGTGGA-ACAA-ATT
*
12143794 AAAGCTACAACAGCGAATCTTACTTCCCAGGCGGTGTAGTGGAACAAATT
1 -AAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGTAGTGGAACAAATT
* *
12143844 GAAGCTACAACAGCAAATCTTGCTTCC
1 -AAGCTACAACAGCGAATCTTACTTCC
12143871 TCGACATCAT
Statistics
Matches: 231, Mismatches: 78, Indels: 35
0.67 0.23 0.10
Matches are distributed among these distances:
49 16 0.07
50 198 0.86
51 17 0.07
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (49 bp):
AAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGTAGTGGAACAAATT
Found at i:12147796 original size:2 final size:2
Alignment explanation
Indices: 12147789--12147815 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12147779 TAGTGTAAAG
12147789 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
12147816 AGCATGAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12147876 original size:9 final size:8
Alignment explanation
Indices: 12147853--12147877 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
12147843 AATTTATTTT
12147853 TTTAAAAA
1 TTTAAAAA
12147861 TTTAAAAA
1 TTTAAAAA
12147869 TTTAAAAA
1 TTTAAAAA
12147877 T
1 T
12147878 AACAAAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TTTAAAAA
Found at i:12148909 original size:16 final size:16
Alignment explanation
Indices: 12148885--12148915 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12148875 GGTGGCCGGA
*
12148885 TTCTTTTTTCTTTTTT
1 TTCTCTTTTCTTTTTT
12148901 TTCTCTTTTCTTTTT
1 TTCTCTTTTCTTTTT
12148916 AGGCTTTTGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTCTCTTTTCTTTTTT
Found at i:12153965 original size:9 final size:9
Alignment explanation
Indices: 12153951--12153983 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
12153941 CCTCTTTTTT
12153951 TTGCATTCA
1 TTGCATTCA
12153960 TTGCATTCA
1 TTGCATTCA
*
12153969 TTACATTCA
1 TTGCATTCA
12153978 -TGCATT
1 TTGCATT
12153984 AGCATTGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 5 0.23
9 17 0.77
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.45
Consensus pattern (9 bp):
TTGCATTCA
Found at i:12157730 original size:143 final size:143
Alignment explanation
Indices: 12157467--12157951 Score: 745
Period size: 143 Copynumber: 3.4 Consensus size: 143
12157457 AGTCATCCTG
* * * *
12157467 GCGAATCTTATTTCCCTGGCGTTGCAATGAAACAGATTAAAGCTACAAATTATGGCAGATCTTAT
1 GCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTAT
* * *
12157532 CTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTACAGCGGAG
66 CTTCCTGAAGTTACAGTGGAGAAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAG
12157597 CAAACTGAAGACA
131 CAAACTGAAGACA
* * *
12157610 ACGAATCTTATTTCCCTAGCATTGCAGTGGAACAGATTAAAGCTAAAAATTATGGCGGATCTTAT
1 GCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTAT
* * * *
12157675 CTTCCTGAAGTTACAATGGAGTAGAATGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAG
66 CTTCCTGAAGTTACAGTGGAGAAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAG
*
12157740 CAAACTGAAGATA
131 CAAACTGAAGACA
* *
12157753 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGTGGATCTTAT
1 GCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTAT
* * *
12157818 CTTTCTGAAGTTACAGTGGAGAAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCAGAG
66 CTTCCTGAAGTTACAGTGGAGAAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAG
* * *
12157883 TAGAGTGAAGACA
131 CAAACTGAAGACA
* *
12157896 GCAAATCTTATTTCCCTAGCGTTGCAGTGGAACAGATTAAAACTACAAATTATGGC
1 GCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGC
12157952 AGATTGCAGT
Statistics
Matches: 308, Mismatches: 34, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
143 308 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (143 bp):
GCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTAT
CTTCCTGAAGTTACAGTGGAGAAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAG
CAAACTGAAGACA
Found at i:12160095 original size:33 final size:33
Alignment explanation
Indices: 12160053--12160118 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
12160043 CAAGGCAATA
12160053 TTCCGTGTTTAGAGCTTCGAGAAATTGTACCCT
1 TTCCGTGTTTAGAGCTTCGAGAAATTGTACCCT
12160086 TTCCGTGTTTAGAGCTTCGAGAAATTGTACCCT
1 TTCCGTGTTTAGAGCTTCGAGAAATTGTACCCT
12160119 AACTCACGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (33 bp):
TTCCGTGTTTAGAGCTTCGAGAAATTGTACCCT
Found at i:12161543 original size:25 final size:25
Alignment explanation
Indices: 12161514--12161572 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
12161504 ATAAATATAT
12161514 ATATTTTTATTTTTTAAATTTTAAA
1 ATATTTTTATTTTTTAAATTTTAAA
12161539 ATATTTTTATTTTTTAAATTTTAAA
1 ATATTTTTATTTTTTAAATTTTAAA
12161564 ATATTTTTA
1 ATATTTTTA
12161573 AAATACTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
ATATTTTTATTTTTTAAATTTTAAA
Found at i:12161585 original size:13 final size:11
Alignment explanation
Indices: 12161557--12161596 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
12161547 ATTTTTTAAA
12161557 TTTTAAAATAT
1 TTTTAAAATAT
12161568 TTTTAAAATACTT
1 TTTTAAAATA--T
*
12161581 TTTTAAAATTT
1 TTTTAAAATAT
12161592 TTTTA
1 TTTTA
12161597 TTTTTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:12186100 original size:17 final size:17
Alignment explanation
Indices: 12186078--12186111 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12186068 TTCAACTATG
12186078 ATTAAACTAAATATTAA
1 ATTAAACTAAATATTAA
* *
12186095 ATTAAATTTAATATTAA
1 ATTAAACTAAATATTAA
12186112 GATAATCACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAAACTAAATATTAA
Found at i:12186137 original size:20 final size:18
Alignment explanation
Indices: 12186087--12186186 Score: 57
Period size: 17 Copynumber: 5.5 Consensus size: 18
12186077 GATTAAACTA
12186087 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
12186104 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
* *
12186124 AGTATTAAATTAATA-AT
1 AATATTAAATTAATATTT
* *
12186141 ACTATTAAGA-TAAGTATTA
1 AATATTAA-ATTAA-TATTT
* *
12186160 AAT-TTAATTTAATATTA
1 AATATTAAATTAATATTT
12186177 AACTATTAAA
1 AA-TATTAAA
12186187 ATACTATTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
17 29 0.45
18 12 0.19
19 9 0.14
20 14 0.22
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:12190457 original size:16 final size:16
Alignment explanation
Indices: 12190438--12190475 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
12190428 AAAACGACAT
12190438 AAATAGAAAA-AAATAA
1 AAATAGAAAATAAAT-A
12190454 AAATA-AAAATAAATA
1 AAATAGAAAATAAATA
12190469 AAATAGA
1 AAATAGA
12190476 CTCAATGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (16 bp):
AAATAGAAAATAAATA
Found at i:12202345 original size:32 final size:32
Alignment explanation
Indices: 12202309--12202369 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
12202299 AAATAAAAAC
12202309 ATAATTATTCATTT-AATA-TTATAACTATTCAA
1 ATAA-TATT-ATTTAAATAGTTATAACTATTCAA
*
12202341 ATAATATTATTTAAATAGTTATAATTATT
1 ATAATATTATTTAAATAGTTATAACTATT
12202370 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 14 0.54
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAACTATTCAA
Found at i:12205616 original size:10 final size:10
Alignment explanation
Indices: 12205597--12205625 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
12205587 ATTTTTAGGA
12205597 ATTTAT-TTT
1 ATTTATCTTT
12205606 ATTTATCTTT
1 ATTTATCTTT
12205616 ATTTATCTTT
1 ATTTATCTTT
12205626 TAGGAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:12209171 original size:35 final size:35
Alignment explanation
Indices: 12209122--12209189 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
12209112 TTCTATTTCT
* * * *
12209122 TAACTCATTGTTATATAATATTGTATTTAACATTA
1 TAACTCAATATTATACAATATTGCATTTAACATTA
12209157 TAACTCAATATTATACAATATTGCATTTAACAT
1 TAACTCAATATTATACAATATTGCATTTAACAT
12209190 GGCATATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (35 bp):
TAACTCAATATTATACAATATTGCATTTAACATTA
Found at i:12210184 original size:22 final size:22
Alignment explanation
Indices: 12210140--12210190 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
12210130 TTGTAAATGC
* *
12210140 TTATGTTTAAGTTTGAGTTTTA
1 TTATGTTTAAGTTTGAATATTA
* *
12210162 TTATGTTTAGGTTTTAATATTA
1 TTATGTTTAAGTTTGAATATTA
12210184 TATATGT
1 T-TATGT
12210191 GAGTCATCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.25, C:0.00, G:0.16, T:0.59
Consensus pattern (22 bp):
TTATGTTTAAGTTTGAATATTA
Found at i:12210255 original size:21 final size:21
Alignment explanation
Indices: 12210230--12210282 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
12210220 TCTATTTATG
* *
12210230 TTTTGTATTTATTTGATTTTA
1 TTTTGTATTTATTTGAATATA
*
12210251 TTTTGTAATTATTTGAATATA
1 TTTTGTATTTATTTGAATATA
12210272 TATTTGTATTT
1 T-TTTGTATTT
12210283 TTAAATTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (21 bp):
TTTTGTATTTATTTGAATATA
Found at i:12213448 original size:3 final size:3
Alignment explanation
Indices: 12213435--12213470 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
12213425 AATAAAGATC
12213435 TTA TGTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12213471 TATGCCATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:12216547 original size:18 final size:17
Alignment explanation
Indices: 12216524--12216561 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
12216514 CGCCACCACC
12216524 TTTTTTT-AAAATATTTA
1 TTTTTTTAAAAATA-TTA
12216541 TTTTTTTAAAAATATTA
1 TTTTTTTAAAAATATTA
12216558 TTTT
1 TTTT
12216562 ACTAGTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTTTAAAAATATTA
Found at i:12225307 original size:46 final size:46
Alignment explanation
Indices: 12225249--12225433 Score: 277
Period size: 46 Copynumber: 4.0 Consensus size: 46
12225239 CATGGCTAAG
*
12225249 TGTGAAACGTAGGTATGGTATTCTAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTCTAGTGAAGAAAACCATACTGAGT
* *
12225295 TGTGAAAAGTAGGTATGGTATT-TCAATGAAGAAAATCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTCT-AGTGAAGAAAACCATACTGAGT
* *
12225341 TGTGAAAAGTAGGTATGGTAATTC-GGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGT-ATTCTAGTGAAGAAAACCATACTGAGT
12225387 TGTGAAAAGTAGGTATGGTATTTCT-GTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTA-TTCTAGTGAAGAAAACCATACTGAGT
12225433 T
1 T
12225434 ATAGCGTTGT
Statistics
Matches: 126, Mismatches: 8, Indels: 10
0.88 0.06 0.07
Matches are distributed among these distances:
45 2 0.02
46 121 0.96
47 3 0.02
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTCTAGTGAAGAAAACCATACTGAGT
Found at i:12227176 original size:77 final size:75
Alignment explanation
Indices: 12227021--12227183 Score: 202
Period size: 77 Copynumber: 2.1 Consensus size: 75
12227011 TTACGTAAAT
* * * *
12227021 AATACAAAGTTTATTATTTAAATTACAAAAAACCCCTAAAAAGAATAACTGAAATCGCAAAAAAG
1 AATACAAAGTTGACTATTTAAATTACAAAAAAACCCTAAAAAGAATAACTGAAATCGAAAAAAAG
12227086 TCATTACACA
66 TCATTACACA
* ** *
12227096 AATACAAAGTTGACTATTTAAATTGCAAAAGAAAACCCTAAAATTAATAACT-AGAATGGAAAAA
1 AATACAAAGTTGACTATTTAAATTAC-AAA-AAAACCCTAAAAAGAATAACTGA-AATCGAAAAA
*
12227160 AAGTCATTACATA
63 AAGTCATTACACA
*
12227173 AATATAAAGTT
1 AATACAAAGTT
12227184 ATTTAAATTA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
75 23 0.31
76 4 0.05
77 48 0.64
ACGTcount: A:0.53, C:0.13, G:0.09, T:0.25
Consensus pattern (75 bp):
AATACAAAGTTGACTATTTAAATTACAAAAAAACCCTAAAAAGAATAACTGAAATCGAAAAAAAG
TCATTACACA
Found at i:12229501 original size:22 final size:24
Alignment explanation
Indices: 12229458--12229503 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12229448 TATATAAATA
12229458 TTTTTAAAATAAAATAATAATATT
1 TTTTTAAAATAAAATAATAATATT
*
12229482 TTTTTAAAGTAAAA-AA-AATATT
1 TTTTTAAAATAAAATAATAATATT
12229504 ATAGGAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.29
23 2 0.10
24 13 0.62
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TTTTTAAAATAAAATAATAATATT
Found at i:12238483 original size:26 final size:26
Alignment explanation
Indices: 12238427--12238477 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
12238417 TTGGCATTTA
12238427 TTTTTGTCATTGATATTAGCTGCAGG
1 TTTTTGTCATTGATATTAGCTGCAGG
*
12238453 TTTTTGTCATTGGTATTAGCTGCAG
1 TTTTTGTCATTGATATTAGCTGCAG
12238478 TATTTTACGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.47
Consensus pattern (26 bp):
TTTTTGTCATTGATATTAGCTGCAGG
Found at i:12240767 original size:18 final size:17
Alignment explanation
Indices: 12240739--12240773 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12240729 ATTATTAAGA
*
12240739 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
12240756 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
12240774 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:12240787 original size:120 final size:120
Alignment explanation
Indices: 12240648--12241150 Score: 916
Period size: 120 Copynumber: 4.2 Consensus size: 120
12240638 TTTTCAAGTT
*
12240648 ATATATTTAATAATTATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
12240713 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
12240768 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
12240833 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
* *
12240888 ATTTATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
12240953 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
12241008 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCCTATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
** *
12241073 TAATATAAGAATATTAACAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
12241128 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
12241151 TAAATATGAT
Statistics
Matches: 370, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 370 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:12241007 original size:18 final size:17
Alignment explanation
Indices: 12240979--12241013 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12240969 ATTATTAAGA
*
12240979 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
12240996 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
12241014 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:12241403 original size:17 final size:16
Alignment explanation
Indices: 12241369--12241437 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
12241359 GATTAGCTAT
*
12241369 TACACATCTAATCCAA
1 TACACCTCTAATCCAA
12241385 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
12241402 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
12241418 TACGCCTTTAATCCAA
1 TACACCTCTAATCCAA
12241434 TACA
1 TACA
12241438 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
16 32 0.67
17 16 0.33
ACGTcount: A:0.38, C:0.35, G:0.01, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:12241412 original size:33 final size:32
Alignment explanation
Indices: 12241369--12241437 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
12241359 GATTAGCTAT
12241369 TACACATCTAATCCAATACACCTCTAATCCCAA
1 TACACATCTAATCCAATACACCTCTAAT-CCAA
* * *
12241402 TACACCTCTAATCCAATACGCCTTTAATCCAA
1 TACACATCTAATCCAATACACCTCTAATCCAA
12241434 TACA
1 TACA
12241438 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 8 0.24
33 25 0.76
ACGTcount: A:0.38, C:0.35, G:0.01, T:0.26
Consensus pattern (32 bp):
TACACATCTAATCCAATACACCTCTAATCCAA
Found at i:12241545 original size:25 final size:26
Alignment explanation
Indices: 12241510--12241559 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
12241500 TAACTATTAT
12241510 TTAAGAATAATTCTTG-TTGAAAATAG
1 TTAAGAATAATTCTTGATT-AAAATAG
12241536 TTAA-AATAATTCTTGATTAAAATA
1 TTAAGAATAATTCTTGATTAAAATA
12241560 ATAATATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (26 bp):
TTAAGAATAATTCTTGATTAAAATAG
Found at i:12241591 original size:15 final size:16
Alignment explanation
Indices: 12241552--12241593 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
12241542 TAATTCTTGA
12241552 TTAA-AATAATAATAT
1 TTAAGAATAATAATAT
*
12241567 TTCAAGAATAATTATAT
1 TT-AAGAATAATAATAT
12241584 TT-AGAATAAT
1 TTAAGAATAAT
12241594 CATTATTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 10 0.42
16 2 0.08
17 12 0.50
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (16 bp):
TTAAGAATAATAATAT
Found at i:12243330 original size:26 final size:26
Alignment explanation
Indices: 12243301--12243365 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
12243291 GATATACGGT
12243301 TCTTCGTGAGCTTCCCAATTAAAGGC
1 TCTTCGTGAGCTTCCCAATTAAAGGC
* * ** *
12243327 TCTTTGTGAGATTCCTGATTAATGGC
1 TCTTCGTGAGCTTCCCAATTAAAGGC
12243353 TCTTCG-GAGCTTC
1 TCTTCGTGAGCTTC
12243366 TTGATATGGC
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 6 0.19
26 26 0.81
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
TCTTCGTGAGCTTCCCAATTAAAGGC
Found at i:12245423 original size:13 final size:13
Alignment explanation
Indices: 12245405--12245429 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12245395 TAAGTTATAT
12245405 GTGTGAAAATTTC
1 GTGTGAAAATTTC
12245418 GTGTGAAAATTT
1 GTGTGAAAATTT
12245430 GATCGTTTGA
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:12246799 original size:75 final size:75
Alignment explanation
Indices: 12246704--12246980 Score: 220
Period size: 75 Copynumber: 3.6 Consensus size: 75
12246694 TATATTTACA
* * * * * *
12246704 TGTATATGTTCTTGTATTGAGTTTGGGTATGATTTTTATGTAAGTTTATATGAAATTTGGAAATG
1 TGTATATGTTATTGTATTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAAATTCGGAAATA
12246769 CAAATATAAT
66 CAAATATAAT
* **
12246779 TGTATATGTTATTGTTTTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAGGTTCGGAAATA
1 TGTATATGTTATTGTATTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAAATTCGGAAATA
* *
12246844 TAAATATATT
66 CAAATATAAT
* * ** * * * * * * * *
12246854 TGAATATGTTCTTGCGTTAAATTTAGGTATGACTATTATAAAAGTGTGTATGAGACTT-GAAGAT
1 TGTATATGTTATTGTATTGAGTTTAGGTATGACTTTTATATAAGTTTATATGA-AATTCG--GAA
12246918 ATACAAACT-TATAT
63 ATACAAA-TATA-AT
* * *
12246932 ATGTACATGTT-TATGTATTGAATTTAGGTATGA-TAATTATATAAGTTTA
1 -TGTATATGTTAT-TGTATTGAGTTTAGGTATGACT-TTTATATAAGTTTA
12246981 AGTGAGATTC
Statistics
Matches: 160, Mismatches: 34, Indels: 12
0.78 0.17 0.06
Matches are distributed among these distances:
75 108 0.68
76 2 0.01
77 10 0.06
78 4 0.03
79 36 0.22
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (75 bp):
TGTATATGTTATTGTATTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAAATTCGGAAATA
CAAATATAAT
Found at i:12248472 original size:23 final size:24
Alignment explanation
Indices: 12248420--12248469 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
12248410 AGAAAAACTA
12248420 AAACATTTCCTAAAAATAATAACG
1 AAACATTTCCTAAAAATAATAACG
*
12248444 AAACATTTCCTAAAAGTAATAACG
1 AAACATTTCCTAAAAATAATAACG
12248468 AA
1 AA
12248470 CATATGAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.16, G:0.06, T:0.24
Consensus pattern (24 bp):
AAACATTTCCTAAAAATAATAACG
Found at i:12248638 original size:16 final size:16
Alignment explanation
Indices: 12248614--12248649 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12248604 ACGCTTAAAA
* *
12248614 AAATGTATGTATATAT
1 AAATATATGTATACAT
12248630 AAATATATGTATACAT
1 AAATATATGTATACAT
12248646 AAAT
1 AAAT
12248650 TATAGAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (16 bp):
AAATATATGTATACAT
Found at i:12248958 original size:21 final size:20
Alignment explanation
Indices: 12248895--12248961 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 20
12248885 AGAATAAAAC
12248895 TAATAATAAAAAATAGTAATAA
1 TAATAAT-AAAAAT-GTAATAA
* *
12248917 TAGTAATAAAAA--TAACAA
1 TAATAATAAAAATGTAATAA
*
12248935 TAATAATAATAAATGTAATGA
1 TAATAATAA-AAATGTAATAA
12248956 TAATAA
1 TAATAA
12248962 CATTCAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 13 0.35
19 3 0.08
21 15 0.41
22 6 0.16
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.28
Consensus pattern (20 bp):
TAATAATAAAAATGTAATAA
Found at i:12248961 original size:3 final size:3
Alignment explanation
Indices: 12248895--12248946 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
12248885 AGAATAAAAC
* * * *
12248895 TAA TAA TAA -AA -AA TAG TAA TAA TAG TAA TAA AAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12248941 TAA TAA
1 TAA TAA
12248947 ATGTAATGAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:12250406 original size:44 final size:44
Alignment explanation
Indices: 12250339--12250443 Score: 138
Period size: 44 Copynumber: 2.4 Consensus size: 44
12250329 AATTTGCCCC
* * * *
12250339 ACTGCAACTTCAGGGGGATAAGGTTAGTGACTTCAACCTGCTCT
1 ACTGCAACTTCAGAGAGACAAGGTTAGTGACTTCAACCTACTCT
* * *
12250383 ACTGCAACTTCAGAGAGACAAGGTTTGTTATTTCAACCTACTCT
1 ACTGCAACTTCAGAGAGACAAGGTTAGTGACTTCAACCTACTCT
*
12250427 ACTACAACTTCAGAGAG
1 ACTGCAACTTCAGAGAG
12250444 GTAAGGTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGACAAGGTTAGTGACTTCAACCTACTCT
Found at i:12250450 original size:44 final size:44
Alignment explanation
Indices: 12250343--12250459 Score: 137
Period size: 44 Copynumber: 2.7 Consensus size: 44
12250333 TGCCCCACTG
* * * * * *
12250343 CAACTTCAG-GGGGATAAGGTTAGTGACTTCAACCTGCTCTACTG
1 CAACTTCAGAGAGG-TAAGGTTTGTAATTTCAACCTACTCTACTA
** *
12250387 CAACTTCAGAGAGACAAGGTTTGTTATTTCAACCTACTCTACTA
1 CAACTTCAGAGAGGTAAGGTTTGTAATTTCAACCTACTCTACTA
12250431 CAACTTCAGAGAGGTAAGGTTTGTAATTT
1 CAACTTCAGAGAGGTAAGGTTTGTAATTT
12250460 ATAGCTTCCA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 59 0.97
45 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (44 bp):
CAACTTCAGAGAGGTAAGGTTTGTAATTTCAACCTACTCTACTA
Found at i:12250575 original size:44 final size:45
Alignment explanation
Indices: 12250469--12250621 Score: 154
Period size: 44 Copynumber: 3.5 Consensus size: 45
12250459 TATAGCTTCC
*
12250469 ATAAGACTTGCTATCTTCGACTTGCCCCACTGCAACTTCAGGGAG
1 ATAAGACTTGCTATCTTCAACTTGCCCCACTGCAACTTCAGGGAG
* ** * * *
12250514 ATAGGAC-TAATAACTTCAA-TCTGCTCTACTGCAACTTCAGGGAG
1 ATAAGACTTGCTATCTTCAACT-TGCCCCACTGCAACTTCAGGGAG
* *
12250558 ATAAGACTTG-TATCTTCAACTTGCCCCATTGCAACTTCATAGG-G
1 ATAAGACTTGCTATCTTCAACTTGCCCCACTGCAACTTCA-GGGAG
**
12250602 ATAAGGTTTGCTAT-TTCAAC
1 ATAAGACTTGCTATCTTCAAC
12250622 CCGCTCTACT
Statistics
Matches: 87, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 73 0.84
45 13 0.15
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (45 bp):
ATAAGACTTGCTATCTTCAACTTGCCCCACTGCAACTTCAGGGAG
Found at i:12250816 original size:46 final size:46
Alignment explanation
Indices: 12250743--12251056 Score: 457
Period size: 46 Copynumber: 6.8 Consensus size: 46
12250733 CAGGCTTGTG
* * * ** * *
12250743 TCTTCGATCTGCTTCGCTACCGGATACAGGAAGACAATATCTGTTA
1 TCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTA
*
12250789 TCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTA
* * * *
12250835 TCTTCGATCTACTCCACTGCCAGATACAGGAAGACAAGATCTACTA
1 TCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTA
* *
12250881 TCTTTGATCTCTTCCGCTGCCAAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTA
* *
12250927 TCTTTGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTACTA
1 TCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTA
*
12250973 TATTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTA
* *
12251019 TCTTCGATCTCCTCTGCTGCCAAATACAGAAAGACAAG
1 TCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAG
12251057 TTTGGGCCAT
Statistics
Matches: 244, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 244 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (46 bp):
TCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTA
Found at i:12260875 original size:75 final size:75
Alignment explanation
Indices: 12260737--12260875 Score: 197
Period size: 75 Copynumber: 1.9 Consensus size: 75
12260727 TAGATTTACA
* * * * **
12260737 TGTATATGTTCTTGTATTGAGTTTGGGTATGATTTTTATATAAGTTTATATGAAATTTGGAAATG
1 TGTATATGTTATTATATTGAGTTTAGGTATGAATTTTATATAAGTTTATATGAAATTCAGAAATG
12260802 CAAATACAAT
66 CAAATACAAT
* **
12260812 TGTATATGTTATTATTTTGAGTTTAGGTATGAATTTTATATAAGTTTATATGAGGTTCAGAAAT
1 TGTATATGTTATTATATTGAGTTTAGGTATGAATTTTATATAAGTTTATATGAAATTCAGAAAT
12260876 ATAAATAGAT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 55 1.00
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.47
Consensus pattern (75 bp):
TGTATATGTTATTATATTGAGTTTAGGTATGAATTTTATATAAGTTTATATGAAATTCAGAAATG
CAAATACAAT
Found at i:12260896 original size:75 final size:75
Alignment explanation
Indices: 12260753--12260896 Score: 180
Period size: 75 Copynumber: 1.9 Consensus size: 75
12260743 TGTTCTTGTA
* * ** * * *
12260753 TTGAGTTTGGGTATGATTTTTATATAAGTTTATATGAAATTTGGAAATGCAAATACAATTGTATA
1 TTGAGTTTAGGTATGAATTTTATATAAGTTTATATGAAATTCAGAAATACAAATACAATTGAAAA
12260818 TGTTATTATT
66 TGTTATTATT
** * * *
12260828 TTGAGTTTAGGTATGAATTTTATATAAGTTTATATGAGGTTCAGAAATATAAATAGATTTGAAAA
1 TTGAGTTTAGGTATGAATTTTATATAAGTTTATATGAAATTCAGAAATACAAATACAATTGAAAA
12260893 TGTT
66 TGTT
12260897 CTTGCGTTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
75 57 1.00
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.44
Consensus pattern (75 bp):
TTGAGTTTAGGTATGAATTTTATATAAGTTTATATGAAATTCAGAAATACAAATACAATTGAAAA
TGTTATTATT
Found at i:12261680 original size:22 final size:22
Alignment explanation
Indices: 12261638--12261680 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
12261628 TTTCAATCTT
* *
12261638 TCGTTTTTCTTTATTTTTTTTA
1 TCGTTGTTCTTTATTTATTTTA
12261660 TCGTTGTT-TTTATTTAATTTT
1 TCGTTGTTCTTTATTT-ATTTT
12261681 TAACGAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.74
Consensus pattern (22 bp):
TCGTTGTTCTTTATTTATTTTA
Found at i:12264749 original size:19 final size:20
Alignment explanation
Indices: 12264709--12264752 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
12264699 ATCTCTTTAG
* *
12264709 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
12264728 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
12264747 GCATTA
1 GCATTA
12264753 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:12266816 original size:10 final size:9
Alignment explanation
Indices: 12266802--12266867 Score: 95
Period size: 9 Copynumber: 7.7 Consensus size: 9
12266792 TTCAGACTAA
12266802 AAAAAAATC
1 AAAAAAATC
12266811 AAAAAAATC
1 AAAAAAATC
12266820 AAAAAAAATC
1 -AAAAAAATC
12266830 -AAAAAATC
1 AAAAAAATC
12266838 AAAAAAATC
1 AAAAAAATC
12266847 -AAAAAATC
1 AAAAAAATC
12266855 --AAAAATC
1 AAAAAAATC
12266862 AAAAAA
1 AAAAAA
12266868 TAAAAGTCAA
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.13
8 16 0.30
9 21 0.40
10 9 0.17
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAATC
Found at i:12266823 original size:7 final size:8
Alignment explanation
Indices: 12266803--12266872 Score: 90
Period size: 8 Copynumber: 8.5 Consensus size: 8
12266793 TCAGACTAAA
12266803 AAAAAATC
1 AAAAAATC
12266811 AAAAAAATC
1 -AAAAAATC
12266820 AAAAAAAATC
1 --AAAAAATC
12266830 AAAAAATC
1 AAAAAATC
12266838 AAAAAAATC
1 -AAAAAATC
12266847 AAAAAATC
1 AAAAAATC
12266855 -AAAAATC
1 AAAAAATC
12266862 AAAAAAT-
1 AAAAAATC
12266869 AAAA
1 AAAA
12266873 GTCAAAATAG
Statistics
Matches: 58, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
7 11 0.19
8 22 0.38
9 16 0.28
10 9 0.16
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATC
Found at i:12266825 original size:17 final size:17
Alignment explanation
Indices: 12266802--12266872 Score: 103
Period size: 17 Copynumber: 4.2 Consensus size: 17
12266792 TTCAGACTAA
12266802 AAAAAAATCAAAAAAATC
1 AAAAAAATC-AAAAAATC
12266820 AAAAAAAATCAAAAAATC
1 -AAAAAAATCAAAAAATC
12266838 AAAAAAATCAAAAAATC
1 AAAAAAATCAAAAAATC
12266855 --AAAAATCAAAAAAT-
1 AAAAAAATCAAAAAATC
12266869 AAAA
1 AAAA
12266873 GTCAAAATAG
Statistics
Matches: 50, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
15 14 0.28
16 2 0.04
17 17 0.34
18 8 0.16
19 9 0.18
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAAAAATCAAAAAATC
Found at i:12266865 original size:6 final size:7
Alignment explanation
Indices: 12266823--12266879 Score: 53
Period size: 8 Copynumber: 7.6 Consensus size: 7
12266813 AAAAATCAAA
12266823 AAAAATC
1 AAAAATC
12266830 AAAAAATC
1 -AAAAATC
12266838 AAAAAAATC
1 --AAAAATC
12266847 AAAAAATC
1 -AAAAATC
12266855 AAAAATC
1 AAAAATC
12266862 AAAAAAT-
1 -AAAAATC
*
12266869 AAAAGTC
1 AAAAATC
12266876 AAAA
1 AAAA
12266880 TAGGAAAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
6 5 0.11
7 11 0.24
8 21 0.47
9 8 0.18
ACGTcount: A:0.75, C:0.11, G:0.02, T:0.12
Consensus pattern (7 bp):
AAAAATC
Found at i:12266903 original size:17 final size:17
Alignment explanation
Indices: 12266883--12266932 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
12266873 GTCAAAATAG
12266883 GAAAAAAAGAAAAGGAA
1 GAAAAAAAGAAAAGGAA
* *
12266900 GAAAAGAAGAAAAAGAA
1 GAAAAAAAGAAAAGGAA
* *
12266917 AAAGAAAAAGGAAAGG
1 GAA-AAAAAGAAAAGG
12266933 TCAAGGCGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
GAAAAAAAGAAAAGGAA
Found at i:12268044 original size:41 final size:41
Alignment explanation
Indices: 12267981--12268183 Score: 124
Period size: 41 Copynumber: 4.8 Consensus size: 41
12267971 TAAAAGAAAT
* *
12267981 GATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCGTGTCA
1 GATCTTATCTCCCT-AAGATTACAGTGGAGTAGATCGTGTCA
* * * *
12268022 GATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGTTA
1 GATCTTATCTCCCTAAGATTACAGTGGAGTAGATCG-TGTCA
* * * ** *
12268064 GTAATCCTATCTCCCTAAGATTACAGTGGAATGGATTAAAATG-AA
1 G--ATCTTATCTCCCTAAGATTACAGTGGAGTAGA-T--CGTGTCA
** ** *
12268109 GGATCTTATCTCTTTAA-AGTTACAGCAGAGTAGATCGCGTCA
1 -GATCTTATCTCCCTAAGA-TTACAGTGGAGTAGATCGTGTCA
* * *
12268151 GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGA
1 GATCTTATCTCCCTAAGATTACAGTGGAGTAGA
12268184 CCGAAGACTT
Statistics
Matches: 119, Mismatches: 32, Indels: 22
0.69 0.18 0.13
Matches are distributed among these distances:
40 3 0.03
41 54 0.45
42 5 0.04
43 2 0.02
44 51 0.43
45 2 0.02
46 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (41 bp):
GATCTTATCTCCCTAAGATTACAGTGGAGTAGATCGTGTCA
Found at i:12268077 original size:44 final size:44
Alignment explanation
Indices: 12267933--12268093 Score: 143
Period size: 44 Copynumber: 3.7 Consensus size: 44
12267923 GAACTGGTTG
* * *
12267933 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAG-
1 TAGTAATCCTATCTCCCTAAGATTACAGTGGAGCAGATT-GAAGT
* * * * * * * * *
12267977 AAATGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCG-TGT
1 TAGTAATCCTATCTCCCT-AAGATTACAGTGGAGCAGATTGAAGT
* *
12268020 CAG--ATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGT
1 TAGTAATCCTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGT
12268062 TAGTAATCCTATCTCCCTAAGATTACAGTGGA
1 TAGTAATCCTATCTCCCTAAGATTACAGTGGA
12268094 ATGGATTAAA
Statistics
Matches: 90, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
40 3 0.03
41 27 0.30
42 5 0.06
43 1 0.01
44 52 0.58
45 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (44 bp):
TAGTAATCCTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGT
Found at i:12268119 original size:44 final size:44
Alignment explanation
Indices: 12268022--12268120 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 44
12268012 GATCGTGTCA
* * * *
12268022 GATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGTTAGT
1 GATCTTATCTCCCTAAGATTACAGTGGAACAGATTAAAATAAGT
* * **
12268066 AATCCTATCTCCCTAAGATTACAGTGGAATGGATTAAAATGAAG-
1 GATCTTATCTCCCTAAGATTACAGTGGAACAGATTAAAAT-AAGT
12268110 GATCTTATCTC
1 GATCTTATCTC
12268121 TTTAAAGTTA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
44 42 0.95
45 2 0.05
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Consensus pattern (44 bp):
GATCTTATCTCCCTAAGATTACAGTGGAACAGATTAAAATAAGT
Found at i:12268163 original size:129 final size:129
Alignment explanation
Indices: 12267933--12268179 Score: 379
Period size: 129 Copynumber: 1.9 Consensus size: 129
12267923 GAACTGGTTG
* * * *
12267933 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAGAAATGATCTTATCTCTCTGAA
1 TAGTAATCCTATCTCCCTAAGATTACAGTGGAACGGATTAAAAGAAAGGATCTTATCTCTCTAAA
* *
12267998 GTTACAGTAGAGTAGATCGTGTCAGATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGT
66 GTTACAGCAGAGTAGATCGCGTCAGATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGT
* *
12268062 TAGTAATCCTATCTCCCTAAGATTACAGTGGAATGGATTAAAATG-AAGGATCTTATCTCTTTAA
1 TAGTAATCCTATCTCCCTAAGATTACAGTGGAACGGATTAAAA-GAAAGGATCTTATCTCTCTAA
* * *
12268126 AGTTACAGCAGAGTAGATCGCGTCAGGTCTTATCTCCCTGAGGTTACAGTGGAG
65 AGTTACAGCAGAGTAGATCGCGTCAGATCTTATCTCCCTAAGATTACAGTGGAG
12268180 TAGACCGAAG
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
129 105 0.99
130 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (129 bp):
TAGTAATCCTATCTCCCTAAGATTACAGTGGAACGGATTAAAAGAAAGGATCTTATCTCTCTAAA
GTTACAGCAGAGTAGATCGCGTCAGATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGT
Found at i:12268220 original size:46 final size:46
Alignment explanation
Indices: 12268148--12268237 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
12268138 GTAGATCGCG
* * *
12268148 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTT
1 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGACTT
*
12268194 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAC
1 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGAC
12268238 AGGANNNNNN
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (46 bp):
TCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGACTT
Found at i:12268459 original size:44 final size:44
Alignment explanation
Indices: 12268396--12268703 Score: 163
Period size: 44 Copynumber: 7.1 Consensus size: 44
12268386 NTAGTAATCC
**
12268396 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATGAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGAAGGATCT
* * * **** *
12268440 TATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGTGTCAA--ATCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATGAAGGATCT
* * * * *
12268481 TATCTCCCTGAGATTATAGCGGAGCAGATT-GAA-GATAGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGA-AG-GATCT
* *
12268525 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGAAGGATCT
* * * *** *
12268569 TATCTCTCTGA-AGTTACAGTAGAGAAGA-TCGTAT-CAGG-TCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATGAAGGATCT
* * * * * *
12268610 TATCTTCCTGAGATTACAGCGGAGCAGATT-GAA-GCTAGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATG-AAG-GATCT
* * ** *
12268654 TATTTCCCTGAGATTACAGTGGAGCGGATTAAAACAAATGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGAAGGATCT
12268698 TATCTC
1 TATCTC
12268704 ACAGAAGTTA
Statistics
Matches: 194, Mismatches: 52, Indels: 36
0.69 0.18 0.13
Matches are distributed among these distances:
40 1 0.01
41 53 0.27
42 9 0.05
43 9 0.05
44 114 0.59
45 7 0.04
46 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGAAGGATCT
Found at i:12268620 original size:129 final size:129
Alignment explanation
Indices: 12268387--12268793 Score: 598
Period size: 129 Copynumber: 3.2 Consensus size: 129
12268377 NNNNNNNNNN
* *
12268387 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAA
1 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
* ** * * *
12268452 GTTACAGTAGAGTAGATCGTGTCAAATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGA
66 GTTACAGTAGAGTAGATCGTATCAGGTCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGC
12268516 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
1 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
*
12268581 GTTACAGTAGAGAAGATCGTATCAGGTCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGC
66 GTTACAGTAGAGTAGATCGTATCAGGTCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGC
* * * * *
12268645 TAGTAATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAACAAATGATCTTATCTCACAGAA
1 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
* * * * * * *
12268710 GTTACAGTAGAGTAGATCGCATCAGGTTTTACCTTCCTGAGGTTACAGTGGAGTACATTGAAGC
66 GTTACAGTAGAGTAGATCGTATCAGGTCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGC
* * *
12268774 CAGTAATTCTATCTCTCTGA
1 TAGTAATCCTATCTCCCTGA
12268794 CGTTGCGGAG
Statistics
Matches: 252, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 252 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (129 bp):
TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
GTTACAGTAGAGTAGATCGTATCAGGTCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGC
Found at i:12278281 original size:25 final size:25
Alignment explanation
Indices: 12278250--12278313 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
12278240 TTAGCCCTCT
*
12278250 CGAGCTTCTCGTTATATTATTCTTG
1 CGAGCTTCCCGTTATATTATTCTTG
* *
12278275 TGAGCTTCCCGTTATATTGTTCTTG
1 CGAGCTTCCCGTTATATTATTCTTG
*
12278300 CGAGCTTCCTGTTA
1 CGAGCTTCCCGTTA
12278314 ATAGCTCTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATTATTCTTG
Found at i:12278550 original size:24 final size:24
Alignment explanation
Indices: 12278506--12278592 Score: 95
Period size: 24 Copynumber: 3.6 Consensus size: 24
12278496 TGGCTATTCG
* * *
12278506 GAGCTTCTCGATTAATGGCTCTTCT
1 GAGCTTCCCG-TTATTGGCTCTTAT
* * *
12278531 CAGCTACCCGTTATTGGCTCGTAT
1 GAGCTTCCCGTTATTGGCTCTTAT
12278555 GAGCTTCCCGATTA-TGGCTCTTAT
1 GAGCTTCCCG-TTATTGGCTCTTAT
12278579 GAGCTTCCCGTTAT
1 GAGCTTCCCGTTAT
12278593 ACAGCCCAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
23 3 0.06
24 38 0.75
25 10 0.20
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.37
Consensus pattern (24 bp):
GAGCTTCCCGTTATTGGCTCTTAT
Found at i:12278633 original size:25 final size:25
Alignment explanation
Indices: 12278577--12278643 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
12278567 TATGGCTCTT
*
12278577 ATGAGCTTCCCGTTATACAGCCCAA
1 ATGAGCTTCCCGTTATACAACCCAA
* * * *
12278602 ATAAGCTTCCCGTTATGCAACTCAC
1 ATGAGCTTCCCGTTATACAACCCAA
*
12278627 ATGAGCTTCCCATTATA
1 ATGAGCTTCCCGTTATA
12278644 TGGCTCGAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATACAACCCAA
Found at i:12279033 original size:24 final size:24
Alignment explanation
Indices: 12278989--12279075 Score: 95
Period size: 24 Copynumber: 3.6 Consensus size: 24
12278979 TGGCTATTCG
* * *
12278989 GAGCTTCTCGATTAATGGCTCTTCT
1 GAGCTTCCCG-TTATTGGCTCTTAT
* * *
12279014 CAGCTACCCGTTATTGGCTCGTAT
1 GAGCTTCCCGTTATTGGCTCTTAT
12279038 GAGCTTCCCGATTA-TGGCTCTTAT
1 GAGCTTCCCG-TTATTGGCTCTTAT
12279062 GAGCTTCCCGTTAT
1 GAGCTTCCCGTTAT
12279076 ACAGCCCAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
23 3 0.06
24 38 0.75
25 10 0.20
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.37
Consensus pattern (24 bp):
GAGCTTCCCGTTATTGGCTCTTAT
Found at i:12279116 original size:25 final size:25
Alignment explanation
Indices: 12279060--12279126 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
12279050 TATGGCTCTT
*
12279060 ATGAGCTTCCCGTTATACAGCCCAA
1 ATGAGCTTCCCGTTATACAACCCAA
* * * *
12279085 ATAAGCTTCCCGTTATGCAACTCAC
1 ATGAGCTTCCCGTTATACAACCCAA
*
12279110 ATGAGCTTCCCATTATA
1 ATGAGCTTCCCGTTATA
12279127 TGGCTCGAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATACAACCCAA
Found at i:12279360 original size:483 final size:483
Alignment explanation
Indices: 12278454--12279421 Score: 1900
Period size: 483 Copynumber: 2.0 Consensus size: 483
12278444 ATAATGGCAC
12278454 TTCGGAGCTTCATAATATGGCTCGCTTGAACTTCCTGATAGATGGCTATTCGGAGCTTCTCGATT
1 TTCGGAGCTTCATAATATGGCTCGCTTGAACTTCCTGATAGATGGCTATTCGGAGCTTCTCGATT
12278519 AATGGCTCTTCTCAGCTACCCGTTATTGGCTCGTATGAGCTTCCCGATTATGGCTCTTATGAGCT
66 AATGGCTCTTCTCAGCTACCCGTTATTGGCTCGTATGAGCTTCCCGATTATGGCTCTTATGAGCT
12278584 TCCCGTTATACAGCCCAAATAAGCTTCCCGTTATGCAACTCACATGAGCTTCCCATTATATGGCT
131 TCCCGTTATACAGCCCAAATAAGCTTCCCGTTATGCAACTCACATGAGCTTCCCATTATATGGCT
*
12278649 CGAGAGAGTGCTTCCCATTTATATGCTTGTATGAGCACTCCCAAAAATGAATTGACAGATTAAAG
196 CGAGAGAGTGCTTCCCATTTATATGCTTGTATGAGCACTCCCAAAAATGAATTGACAAATTAAAG
12278714 TTTTGTACACTTCGTGTGTACTACCTATGCATCTATCAGAATTTCAAATAAATTCAATAGGCAAA
261 TTTTGTACACTTCGTGTGTACTACCTATGCATCTATCAGAATTTCAAATAAATTCAATAGGCAAA
*
12278779 GTTCCGACATGAGATAATCTGAACTTGGGATGAATTATTATGGAAACGTATTTGAAATTCATGTA
326 GTTCCGACATGAGATAATCTGAACTTGGGATGAATTATTATGGAAACATATTTGAAATTCATGTA
12278844 TATGATTTGTAACATGATGAGATCATCCTTGTTTCTTAGAATTCATGTGAATTACATAACTAACA
391 TATGATTTGTAACATGATGAGATCATCCTTGTTTCTTAGAATTCATGTGAATTACATAACTAACA
12278909 AGTTTGATGAGAATATGTGTTTAGGCTA
456 AGTTTGATGAGAATATGTGTTTAGGCTA
12278937 TTCGGAGCTTCATAATATGGCTCGCTTGAACTTCCTGATAGATGGCTATTCGGAGCTTCTCGATT
1 TTCGGAGCTTCATAATATGGCTCGCTTGAACTTCCTGATAGATGGCTATTCGGAGCTTCTCGATT
12279002 AATGGCTCTTCTCAGCTACCCGTTATTGGCTCGTATGAGCTTCCCGATTATGGCTCTTATGAGCT
66 AATGGCTCTTCTCAGCTACCCGTTATTGGCTCGTATGAGCTTCCCGATTATGGCTCTTATGAGCT
12279067 TCCCGTTATACAGCCCAAATAAGCTTCCCGTTATGCAACTCACATGAGCTTCCCATTATATGGCT
131 TCCCGTTATACAGCCCAAATAAGCTTCCCGTTATGCAACTCACATGAGCTTCCCATTATATGGCT
*
12279132 CGAGAGAGTGCTTCCCGTTTATATGCTTGTATGAGCACTCCCAAAAATGAATTGACAAATTAAAG
196 CGAGAGAGTGCTTCCCATTTATATGCTTGTATGAGCACTCCCAAAAATGAATTGACAAATTAAAG
12279197 TTTTGTACACTTCGTGTGTACTACCTATGCATCTATCAGAATTTCAAATAAATTCAATAGGCAAA
261 TTTTGTACACTTCGTGTGTACTACCTATGCATCTATCAGAATTTCAAATAAATTCAATAGGCAAA
12279262 GTTCCGACATGAGATAATCTGAACTTGGGATGAATTATTATGGAAACATATTTGAAATTCATGTA
326 GTTCCGACATGAGATAATCTGAACTTGGGATGAATTATTATGGAAACATATTTGAAATTCATGTA
*
12279327 TATGATTTGTAACATGATGAGATCATCCTTGTTTCTTAGAATTCATGTGAATTACATGACTAACA
391 TATGATTTGTAACATGATGAGATCATCCTTGTTTCTTAGAATTCATGTGAATTACATAACTAACA
12279392 AGTTTGATGAGAATATGTGTTTAGGCTA
456 AGTTTGATGAGAATATGTGTTTAGGCTA
12279420 TT
1 TT
12279422 GGCTAAATTG
Statistics
Matches: 481, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
483 481 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (483 bp):
TTCGGAGCTTCATAATATGGCTCGCTTGAACTTCCTGATAGATGGCTATTCGGAGCTTCTCGATT
AATGGCTCTTCTCAGCTACCCGTTATTGGCTCGTATGAGCTTCCCGATTATGGCTCTTATGAGCT
TCCCGTTATACAGCCCAAATAAGCTTCCCGTTATGCAACTCACATGAGCTTCCCATTATATGGCT
CGAGAGAGTGCTTCCCATTTATATGCTTGTATGAGCACTCCCAAAAATGAATTGACAAATTAAAG
TTTTGTACACTTCGTGTGTACTACCTATGCATCTATCAGAATTTCAAATAAATTCAATAGGCAAA
GTTCCGACATGAGATAATCTGAACTTGGGATGAATTATTATGGAAACATATTTGAAATTCATGTA
TATGATTTGTAACATGATGAGATCATCCTTGTTTCTTAGAATTCATGTGAATTACATAACTAACA
AGTTTGATGAGAATATGTGTTTAGGCTA
Found at i:12282154 original size:51 final size:49
Alignment explanation
Indices: 12282089--12282258 Score: 137
Period size: 51 Copynumber: 3.3 Consensus size: 49
12282079 GCACGGATTG
* * *
12282089 TGTGTAGGCCACTATGTAAAAGTGAAAGTGATGGTCATGTGTGTAGTACTA
1 TGTGCAGGCTACTATGTAAAAG-GATAGT-ATGGTCATGTGTGTAGTACTA
* ** * * *
12282140 TGTGTAGGCTACTATGCGTACCA-GATAGTTTCGATCACGTGTGTAGTACTA
1 TGTGCAGGCTACTAT--GTAAAAGGATAGTAT-GGTCATGTGTGTAGTACTA
** * *
12282191 TGTGCAGGCTACTACGTGT-ATCGGATGGTAATGGTCATATGTGTAGTACTA
1 TGTGCAGGCTACTA--TGTAAAAGGATAGT-ATGGTCATGTGTGTAGTACTA
12282242 TGTGCAGGCTACTATGT
1 TGTGCAGGCTACTATGT
12282259 GAACCAAACA
Statistics
Matches: 96, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
49 3 0.03
50 1 0.01
51 86 0.90
52 1 0.01
53 5 0.05
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (49 bp):
TGTGCAGGCTACTATGTAAAAGGATAGTATGGTCATGTGTGTAGTACTA
Found at i:12282258 original size:26 final size:26
Alignment explanation
Indices: 12282179--12282259 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
12282169 TTCGATCACG
12282179 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
12282205 CGTGTA-T-CGGATG-GTAATGG-T-CATA
1 TGTGTAGTAC-TATGTG-CA-GGCTAC-TA
12282230 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
12282256 TGTG
1 TGTG
12282260 AACCAAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 3 0.08
25 15 0.38
26 19 0.47
27 3 0.08
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Done.