Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold55
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: 4293517
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.26
Warning! 910309 characters in sequence are not A, C, G, or T
File 10 of 21
Found at i:2437902 original size:9 final size:9
Alignment explanation
Indices: 2437878--2437917 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
2437868 TCATGCCACC
2437878 TTACATG-A
1 TTACATGCA
2437886 TT-CATGCA
1 TTACATGCA
2437894 TTACATGCA
1 TTACATGCA
2437903 TTACATG-A
1 TTACATGCA
2437911 TT-CATGC
1 TTACATGC
2437918 TTTAATTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 8 0.28
8 8 0.28
9 13 0.45
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (9 bp):
TTACATGCA
Found at i:2438628 original size:22 final size:22
Alignment explanation
Indices: 2438601--2438672 Score: 85
Period size: 22 Copynumber: 3.2 Consensus size: 22
2438591 AACTTTGCAG
2438601 CAAACAACAACAACAAGCAAAA
1 CAAACAACAACAACAAGCAAAA
* *
2438623 CAAACAACAACATCAAGCAAAG
1 CAAACAACAACAACAAGCAAAA
2438645 CAAA-AACGAA-ATAGCAAGCAAAA
1 CAAACAAC-AACA-A-CAAGCAAAA
2438668 CAAAC
1 CAAAC
2438673 GAAATAGCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
21 4 0.10
22 26 0.62
23 12 0.29
ACGTcount: A:0.64, C:0.25, G:0.08, T:0.03
Consensus pattern (22 bp):
CAAACAACAACAACAAGCAAAA
Found at i:2438674 original size:21 final size:21
Alignment explanation
Indices: 2438614--2438686 Score: 83
Period size: 21 Copynumber: 3.3 Consensus size: 21
2438604 ACAACAACAA
* * *
2438614 CAAGCAAAACAAACAACAACAT
1 CAAGCAAAACAAACGA-AATAG
*
2438636 CAAGCAAAGCAAAAACGAAATAG
1 CAAGCAAA--ACAAACGAAATAG
2438659 CAAGCAAAACAAACGAAATAG
1 CAAGCAAAACAAACGAAATAG
2438680 CAAGCAA
1 CAAGCAA
2438687 GGAAAGAAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
21 19 0.43
22 8 0.18
23 11 0.25
24 6 0.14
ACGTcount: A:0.62, C:0.22, G:0.12, T:0.04
Consensus pattern (21 bp):
CAAGCAAAACAAACGAAATAG
Found at i:2438685 original size:44 final size:44
Alignment explanation
Indices: 2438609--2438763 Score: 158
Period size: 44 Copynumber: 3.5 Consensus size: 44
2438599 AGCAAACAAC
* * *
2438609 AACAACAAGCAAAA-CAAACAACAACATCAAGCAAAGCAAA-AACGA
1 AACAGCAAGCAAAAGCAAACGA-AACAGCAAGCAAAG-AAAGAA-GA
* * *
2438654 AATAGCAAGCAAAA-CAAACGAAATAGCAAGCAAGGAAAGAAGA
1 AACAGCAAGCAAAAGCAAACGAAACAGCAAGCAAAGAAAGAAGA
* * *
2438697 AACAACAAG-AAAAGAAAGAAGAAACAGCAAGCAAAGAAAGAAGA
1 AACAGCAAGCAAAAGCAA-ACGAAACAGCAAGCAAAGAAAGAAGA
2438741 AACAGCAAGCAAAAGCAAA-GAAA
1 AACAGCAAGCAAAAGCAAACGAAA
2438764 GAAAAAAAGC
Statistics
Matches: 92, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
42 4 0.04
43 18 0.20
44 45 0.49
45 25 0.27
ACGTcount: A:0.65, C:0.17, G:0.17, T:0.02
Consensus pattern (44 bp):
AACAGCAAGCAAAAGCAAACGAAACAGCAAGCAAAGAAAGAAGA
Found at i:2438705 original size:22 final size:22
Alignment explanation
Indices: 2438631--2438767 Score: 136
Period size: 22 Copynumber: 6.1 Consensus size: 22
2438621 AACAAACAAC
*
2438631 AACATCAAGCAAAGCAAA-AACGA
1 AACAGCAAGCAAAG-AAAGAA-GA
* *
2438654 AATAGCAAGCAAA-ACAA-ACGA
1 AACAGCAAGCAAAGA-AAGAAGA
* *
2438675 AATAGCAAGCAAGGAAAGAAGA
1 AACAGCAAGCAAAGAAAGAAGA
* *
2438697 AACAACAAGAAAAGAAAGAAGA
1 AACAGCAAGCAAAGAAAGAAGA
2438719 AACAGCAAGCAAAGAAAGAAGA
1 AACAGCAAGCAAAGAAAGAAGA
2438741 AACAGCAAGCAAAAGCAAAGAAAGA
1 AACAGCAAGC-AAAG-AAAG-AAGA
2438766 AA
1 AA
2438768 AAAAGCTTAC
Statistics
Matches: 97, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
21 17 0.18
22 55 0.57
23 15 0.15
24 4 0.04
25 6 0.06
ACGTcount: A:0.64, C:0.15, G:0.19, T:0.02
Consensus pattern (22 bp):
AACAGCAAGCAAAGAAAGAAGA
Found at i:2441454 original size:89 final size:89
Alignment explanation
Indices: 2441230--2441556 Score: 482
Period size: 90 Copynumber: 3.7 Consensus size: 89
2441220 GTAATTGTGC
*
2441230 AGCCCACACATTCCCAATCATATCCCTTTCATCCAACCACTAGATAGTATTGATGCATCACTAAG
1 AGCCCACACATTCCCAATCATATCCCTTTCATCCAACCACTAGATGGTATTGATGCATCACTAAG
2441295 CCTGATTTCCTTTAGGGCAA-GTT
66 CCTGATTTCCTTTAGGGCAAGGTT
2441318 ACAGCCCACACATTCCCAATCATATCCCTTTCATCCAACCACTAGATGGTATTGATGCATCACTA
1 --AGCCCACACATTCCCAATCATATCCCTTTCATCCAACCACTAGATGGTATTGATGCATCACTA
2441383 AGCCTGATTTCCTTTAGGGCAAGGTT
64 AGCCTGATTTCCTTTAGGGCAAGGTT
** * * * *
2441409 AGCCCATGCATTCCTAATCATATCCCTTTCATCCAACCACTAGATGGTATTGATGTATTAGTAAG
1 AGCCCACACATTCCCAATCATATCCCTTTCATCCAACCACTAGATGGTATTGATGCATCACTAAG
*
2441474 CCTGA-TTCCTTT-GGGTAAGGTGT
66 CCTGATTTCCTTTAGGGCAAGGT-T
* * * *
2441497 AGCCCACACATTCCTAATCATATTCCC-TTCACCCAACCACTAGATGGTACTAATGCATCA
1 AGCCCACACATTCCCAATCATA-TCCCTTTCATCCAACCACTAGATGGTATTGATGCATCA
2441557 TAAAGCTCGA
Statistics
Matches: 219, Mismatches: 15, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
87 8 0.04
88 56 0.26
89 68 0.31
90 84 0.38
91 3 0.01
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.30
Consensus pattern (89 bp):
AGCCCACACATTCCCAATCATATCCCTTTCATCCAACCACTAGATGGTATTGATGCATCACTAAG
CCTGATTTCCTTTAGGGCAAGGTT
Found at i:2441876 original size:48 final size:48
Alignment explanation
Indices: 2441820--2442026 Score: 190
Period size: 48 Copynumber: 4.4 Consensus size: 48
2441810 CCAAACCTAA
*
2441820 GGCCTGGTCAAACTCTTTTCATCCTTCATTTGACAGTATTGGTGTTAG
1 GGCCTGGTCAAACTCTTTTCATCCCTCATTTGACAGTATTGGTGTTAG
** * * *
2441868 GGCCTGGTCAAAC-CTAAATCTTCCCTCGTTTGACTGTATTGGTGTTAG
1 GGCCTGGTCAAACTCT-TTTCATCCCTCATTTGACAGTATTGGTGTTAG
* * * *** * * *
2441916 GTCTTGGTCAAACCCAAATCTTCCCTCATTT---TGTATTAGTGTTAG
1 GGCCTGGTCAAACTCTTTTCATCCCTCATTTGACAGTATTGGTGTTAG
* * * *
2441961 GGCCTGGTCAAGCTCTTTTCATCCCTCGTTTAACTA-TATCGGTGTTAG
1 GGCCTGGTCAAACTCTTTTCATCCCTCATTTGAC-AGTATTGGTGTTAG
2442009 GGCCTGGTCAAACTCTTT
1 GGCCTGGTCAAACTCTTT
2442027 GCATTTCGGT
Statistics
Matches: 129, Mismatches: 24, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
45 35 0.27
47 2 0.02
48 91 0.71
49 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (48 bp):
GGCCTGGTCAAACTCTTTTCATCCCTCATTTGACAGTATTGGTGTTAG
Found at i:2442336 original size:42 final size:42
Alignment explanation
Indices: 2442223--2442322 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
2442213 CTATTTGATA
* * * *
2442223 TCTTTATCTTTTGTCTAC-CTGTCGGCTCA-ATCTCGAGAGACT
1 TCTTTATCCTTTGTCTACTC-GTCGACTTAGACCT-GAGAGACT
*
2442265 TCTTTATCCTTTGTCTACTCGTCGACTTAGACCTGAGAGATT
1 TCTTTATCCTTTGTCTACTCGTCGACTTAGACCTGAGAGACT
*
2442307 TTTTTATCCTTTGTCT
1 TCTTTATCCTTTGTCT
2442323 GCTTGTCAGC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
42 46 0.92
43 4 0.08
ACGTcount: A:0.16, C:0.24, G:0.15, T:0.45
Consensus pattern (42 bp):
TCTTTATCCTTTGTCTACTCGTCGACTTAGACCTGAGAGACT
Found at i:2442347 original size:42 final size:42
Alignment explanation
Indices: 2442257--2442352 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
2442247 GCTCAATCTC
* * *
2442257 GAGAGACTTCTTTATCCTTTGTCTACTCGTCGACTTAGACCT
1 GAGAGATTTTTTTATCCTTTGTCTACTCGTCGACTTAGACCA
* * *
2442299 GAGAGATTTTTTTATCCTTTGTCTGCTTGTC-AGCTTAGGCTCA
1 GAGAGATTTTTTTATCCTTTGTCTACTCGTCGA-CTTAGAC-CA
2442342 G-GAGATTTTTT
1 GAGAGATTTTTT
2442353 ATTTTTCGTC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.02
42 43 0.93
43 2 0.04
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.43
Consensus pattern (42 bp):
GAGAGATTTTTTTATCCTTTGTCTACTCGTCGACTTAGACCA
Found at i:2442577 original size:42 final size:42
Alignment explanation
Indices: 2442530--2442625 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
2442520 TCTCATGGTT
* * ***
2442530 TGCCCATCGGCTCAGACC-CGGGAGACTTTTTCATTTTTTGTC
1 TGCCCATCGACTCA-ACCTCGGGAGACTCTTTCACCCTTTGTC
* *
2442572 TGCCCATTGACTTAACCTCGGGAGACTCTTTCACCCTTTGTC
1 TGCCCATCGACTCAACCTCGGGAGACTCTTTCACCCTTTGTC
*
2442614 TGCCCGTCGACT
1 TGCCCATCGACT
2442626 TTGACTCAGA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 3 0.07
42 41 0.93
ACGTcount: A:0.15, C:0.32, G:0.20, T:0.33
Consensus pattern (42 bp):
TGCCCATCGACTCAACCTCGGGAGACTCTTTCACCCTTTGTC
Found at i:2442626 original size:42 final size:43
Alignment explanation
Indices: 2442544--2442782 Score: 152
Period size: 42 Copynumber: 5.7 Consensus size: 43
2442534 CATCGGCTCA
* *** * *
2442544 GACC-CGGGAGACTTTTTCATTTTTTGTCTGCCCATTGAC-TT
1 GACCTCGGGAGACTCTTTCACCCTTTGTCTGCCCGTCGACTTT
*
2442585 AACCTCGGGAGACTCTTTCACCCTTTGTCTGCCCGTCGACTTT
1 GACCTCGGGAGACTCTTTCACCCTTTGTCTGCCCGTCGACTTT
* * * **
2442628 GA-CTCAGAAGAGTCTTTTGCCCTTTGTCTGCCCGTC-AGCTTT
1 GACCTCGGGAGACTCTTTCACCCTTTGTCTGCCCGTCGA-CTTT
* * * ** *
2442670 GACC-CGAGAGACTCTTTCGCCCTTTGTCTACCTATCGGCTTT
1 GACCTCGGGAGACTCTTTCACCCTTTGTCTGCCCGTCGACTTT
* ** * * * **
2442712 GACCT-GAGAGACTCCTTT-GTCTTTTGTCTGTCTGTCGGTTTT
1 GACCTCGGGAGACT-CTTTCACCCTTTGTCTGCCCGTCGACTTT
* *
2442754 GA-CTCGAGAGACTATTTCACCCTTTGTCT
1 GACCTCGGGAGACTCTTTCACCCTTTGTCT
2442783 ACCTGTCAGC
Statistics
Matches: 157, Mismatches: 32, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
41 9 0.06
42 140 0.89
43 8 0.05
ACGTcount: A:0.14, C:0.28, G:0.20, T:0.37
Consensus pattern (43 bp):
GACCTCGGGAGACTCTTTCACCCTTTGTCTGCCCGTCGACTTT
Found at i:2442786 original size:84 final size:84
Alignment explanation
Indices: 2442588--2442786 Score: 229
Period size: 84 Copynumber: 2.4 Consensus size: 84
2442578 TTGACTTAAC
* * ** * *
2442588 CTCGGGAGACTCTTTCACCCTTTGTCTGCCCGTCGACTTTGACTCAGAAGAGTCTTTTGCCCTTT
1 CTCGAGAGACTCTTTCACCCTTTGTCTACCTATCGACTTTGACTCAGAAGACTCCTTTGCCCTTT
2442653 GTCTGCCCGTCAGCTTTGA
66 GTCTGCCCGTCAGCTTTGA
* * * * * *
2442672 CCCGAGAGACTCTTTCGCCCTTTGTCTACCTATCGGCTTTGAC-CTGAGAGACTCCTTTGTCTTT
1 CTCGAGAGACTCTTTCACCCTTTGTCTACCTATCGACTTTGACTCAGA-AGACTCCTTTGCCCTT
* * * *
2442736 TGTCTGTCTGTCGGTTTTGA
65 TGTCTGCCCGTCAGCTTTGA
*
2442756 CTCGAGAGACTATTTCACCCTTTGTCTACCT
1 CTCGAGAGACTCTTTCACCCTTTGTCTACCT
2442787 GTCAGCTTAA
Statistics
Matches: 95, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
83 3 0.03
84 92 0.97
ACGTcount: A:0.14, C:0.30, G:0.20, T:0.37
Consensus pattern (84 bp):
CTCGAGAGACTCTTTCACCCTTTGTCTACCTATCGACTTTGACTCAGAAGACTCCTTTGCCCTTT
GTCTGCCCGTCAGCTTTGA
Found at i:2442789 original size:42 final size:42
Alignment explanation
Indices: 2442588--2442812 Score: 197
Period size: 42 Copynumber: 5.4 Consensus size: 42
2442578 TTGACTTAAC
* * * *
2442588 CTCGGGAGACTCTTTCACCCTTTGTCTGCCCGTCGACTTTGA
1 CTCGAGAGACTCTTTCGCCCTTTGTCTGCCTGTCGGCTTTGA
* * * *
2442630 CTC-AGAAGAGTCTTTTGCCCTTTGTCTGCCCGTCAGCTTTGA
1 CTCGAG-AGACTCTTTCGCCCTTTGTCTGCCTGTCGGCTTTGA
* * *
2442672 CCCGAGAGACTCTTTCGCCCTTTGTCTACCTATCGGCTTTGA
1 CTCGAGAGACTCTTTCGCCCTTTGTCTGCCTGTCGGCTTTGA
* * * *
2442714 C-CTGAGAGACTCCTTT-GTCTTTTGTCTGTCTGTCGGTTTTGA
1 CTC-GAGAGACT-CTTTCGCCCTTTGTCTGCCTGTCGGCTTTGA
* * * * **
2442756 CTCGAGAGACTATTTCACCCTTTGTCTACCTGTCAGCTTAAA
1 CTCGAGAGACTCTTTCGCCCTTTGTCTGCCTGTCGGCTTTGA
*
2442798 CCCGAGAGACT-TTTC
1 CTCGAGAGACTCTTTC
2442813 ATCAATCGTA
Statistics
Matches: 147, Mismatches: 30, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
41 9 0.06
42 131 0.89
43 7 0.05
ACGTcount: A:0.15, C:0.29, G:0.20, T:0.36
Consensus pattern (42 bp):
CTCGAGAGACTCTTTCGCCCTTTGTCTGCCTGTCGGCTTTGA
Found at i:2442902 original size:43 final size:43
Alignment explanation
Indices: 2442848--2442948 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
2442838 ACTTGGGAAA
* * *
2442848 CTTCTTTATCTTTCGTCTGCCCGTCGGCTCAGTCTTAGGAGAC
1 CTTCTTTATCTTTCGTCTGCCCATCGGCTCAGACCTAGGAGAC
* * * *
2442891 TTTTTTTATCTTTTGTCTGCCCATCGGCTTAGACCTAGGAGAC
1 CTTCTTTATCTTTCGTCTGCCCATCGGCTCAGACCTAGGAGAC
2442934 CTTCTTTATCCTTTC
1 CTTCTTTAT-CTTTC
2442949 TTTGTTTGCC
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
43 43 0.91
44 4 0.09
ACGTcount: A:0.13, C:0.28, G:0.17, T:0.43
Consensus pattern (43 bp):
CTTCTTTATCTTTCGTCTGCCCATCGGCTCAGACCTAGGAGAC
Found at i:2443108 original size:41 final size:41
Alignment explanation
Indices: 2443018--2443274 Score: 173
Period size: 41 Copynumber: 6.2 Consensus size: 41
2443008 TTAGTCCCCA
* * **
2443018 GTAAACCCTTCAACCTTTGTTGACCTGTCAACTCAGTCTCC-G
1 GTAAA-CCTTCATCCTTTGTTTACCTGTCGGCTCAGTC-CCTG
* * *
2443060 ATCAACCTTCATCCTTTGTTTACTTGTCGGCTCCA-TCCCTG
1 GTAAACCTTCATCCTTTGTTTACCTGTCGGCT-CAGTCCCTG
* * *
2443101 GTAAACCTCTCAT-CTTTGTTGACCTGTCAGCTTAGTCTCC-G
1 GTAAACCT-TCATCCTTTGTTTACCTGTCGGCTCAGTC-CCTG
* * *
2443142 GTCAACCTTCATCCTTTGTTTTCCTGTCGGCTCAGTCCCTA
1 GTAAACCTTCATCCTTTGTTTACCTGTCGGCTCAGTCCCTG
* * * * * * * *
2443183 GTAAACCCTT-ATCCCCTTGGTGACCCGTCGGTTTAGCCCCTA
1 GTAAA-CCTTCAT-CCTTTGTTTACCTGTCGGCTCAGTCCCTG
* * * * *
2443225 GTCAACCCTTCATCCATTGTTTACTTGTCAGCTCAGTCTCTG
1 GT-AAACCTTCATCCTTTGTTTACCTGTCGGCTCAGTCCCTG
2443267 GTAAACCT
1 GTAAACCT
2443275 ATTACCCCTA
Statistics
Matches: 163, Mismatches: 41, Indels: 23
0.72 0.18 0.10
Matches are distributed among these distances:
40 9 0.06
41 88 0.54
42 62 0.38
43 4 0.02
ACGTcount: A:0.17, C:0.33, G:0.15, T:0.35
Consensus pattern (41 bp):
GTAAACCTTCATCCTTTGTTTACCTGTCGGCTCAGTCCCTG
Found at i:2443170 original size:82 final size:82
Alignment explanation
Indices: 2443005--2443189 Score: 248
Period size: 82 Copynumber: 2.2 Consensus size: 82
2442995 GCTGCTCGTT
* * *
2443005 GGCTTAGTCCCCAGTAAACC-CTTCAACCTTTGTTGACCTGTCAACTCAGTCTCCGATCAACCTT
1 GGCTCAGTCCCTAGTAAACCTC-TC-ATCTTTGTTGACCTGTCAACTCAGTCTCCGATCAACCTT
*
2443069 CATCCTTTGTTTACTTGTC
64 CATCCTTTGTTTACCTGTC
* * * *
2443088 GGCTCCA-TCCCTGGTAAACCTCTCATCTTTGTTGACCTGTCAGCTTAGTCTCCGGTCAACCTTC
1 GGCT-CAGTCCCTAGTAAACCTCTCATCTTTGTTGACCTGTCAACTCAGTCTCCGATCAACCTTC
*
2443152 ATCCTTTGTTTTCCTGTC
65 ATCCTTTGTTTACCTGTC
2443170 GGCTCAGTCCCTAGTAAACC
1 GGCTCAGTCCCTAGTAAACC
2443190 CTTATCCCCT
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
81 2 0.02
82 68 0.76
83 17 0.19
84 2 0.02
ACGTcount: A:0.17, C:0.33, G:0.15, T:0.35
Consensus pattern (82 bp):
GGCTCAGTCCCTAGTAAACCTCTCATCTTTGTTGACCTGTCAACTCAGTCTCCGATCAACCTTCA
TCCTTTGTTTACCTGTC
Found at i:2445682 original size:24 final size:25
Alignment explanation
Indices: 2445634--2445703 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 25
2445624 GCAATGCAAT
*
2445634 TGCTGCAATG--GAAGAGTAAATAGC
1 TGCTGCAATGAAGAA-AGTAAACAGC
2445658 TGCTGCAATGAAGAAAGT-AACAGC
1 TGCTGCAATGAAGAAAGTAAACAGC
* *
2445682 TGCAGCAAATTAAGAAAG-AAAC
1 TGCTGC-AATGAAGAAAGTAAAC
2445704 CGAAATAGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 20 0.51
25 16 0.41
26 3 0.08
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.17
Consensus pattern (25 bp):
TGCTGCAATGAAGAAAGTAAACAGC
Found at i:2448454 original size:155 final size:153
Alignment explanation
Indices: 2448101--2448444 Score: 399
Period size: 155 Copynumber: 2.2 Consensus size: 153
2448091 GATATTGAAC
* * * * *
2448101 ACTTGTACGTCGAAGGTAGCCCTTAGGGCCACTTTGGTAATTTTTTAAAACCAATTCCTAGGTCG
1 ACTTTTACATCGAAGGTATCCCTTAGGGGCA-TTTCGTAATTTTTTAAAACCAATTCCTAGGTCG
* * * *
2448166 TCACCGAGTTTGTTTTTATGCCGAAGGTGAGCATTTAAGATAGGTTCATCCCATCTCTAGTCTTT
65 TCACCGAGTCTGCTTTTATGCCGAAGGTGAGCATTTAAGATAGGTTCATCCCATCTATAATCTTT
* * *
2448231 TTAAGTCCTTTAAGGTTGCCGGGAT
130 TTAAGTACTTTAAGATT-CCAGGAT
* * *
2448256 ACTTTTACGTCGAAGGTATACCCGTAGGGGCATTTCGTAATTTTTTAGAACCAATTCCTAGGTCG
1 ACTTTTACATCGAAGGTAT-CCCTTAGGGGCATTTCGTAATTTTTTAAAACCAATTCCTAGGTCG
* * ** *
2448321 TCACCGAGTCTGCTTTTATGCTGAAGGT-AGGCATTTAGGATAGGTTCATCCTTTTTATAATCCT
65 TCACCGAGTCTGCTTTTATGCCGAAGGTGA-GCATTTAAGATAGGTTCATCCCATCTATAAT-CT
2448385 TTTTAAGTACTTTAGAGATAT-CAGG-T
128 TTTTAAGTACTTTA-AGAT-TCCAGGAT
*
2448411 A-TTTCTATATCGAAGGTATCCCTTAGGGGCATTT
1 ACTTT-TACATCGAAGGTATCCCTTAGGGGCATTT
2448445 TTATAATTTT
Statistics
Matches: 162, Mismatches: 21, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
154 18 0.11
155 112 0.69
156 28 0.17
157 3 0.02
158 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.37
Consensus pattern (153 bp):
ACTTTTACATCGAAGGTATCCCTTAGGGGCATTTCGTAATTTTTTAAAACCAATTCCTAGGTCGT
CACCGAGTCTGCTTTTATGCCGAAGGTGAGCATTTAAGATAGGTTCATCCCATCTATAATCTTTT
TAAGTACTTTAAGATTCCAGGAT
Found at i:2450240 original size:18 final size:18
Alignment explanation
Indices: 2450213--2450249 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2450203 GGCTACAAAC
*
2450213 ACAATCATTCAACCTTTA
1 ACAATCATTCAACATTTA
*
2450231 ACAATTATTCAACATTTA
1 ACAATCATTCAACATTTA
2450249 A
1 A
2450250 GCCTATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (18 bp):
ACAATCATTCAACATTTA
Found at i:2457012 original size:20 final size:20
Alignment explanation
Indices: 2456987--2457039 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
2456977 GTTACAAGCT
2456987 ATGTATCGATACATT-T-CTTC
1 ATGTATCGATACATTGTAC--C
2457007 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
2457027 ATGTATCGATACA
1 ATGTATCGATACA
2457040 AATAGTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:2457114 original size:19 final size:20
Alignment explanation
Indices: 2457069--2457122 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
2457059 CTGCCAGTTT
**
2457069 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA-TTGAA
2457090 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
*
2457109 CATGTATCGGTACA
1 CATGTATCGATACA
2457123 TTATATCGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 15 0.50
21 15 0.50
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2457156 original size:33 final size:32
Alignment explanation
Indices: 2457094--2457156 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
2457084 TTTGTCCATG
* **
2457094 TATCGATACAATGAACATGTATCGGTACATTA
1 TATCGATACAAAGAACATGTATCAATACATTA
2457126 TATCGATACAAAGCAACATGTATCAATACAT
1 TATCGATACAAAG-AACATGTATCAATACAT
2457157 CTGGATGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (32 bp):
TATCGATACAAAGAACATGTATCAATACATTA
Found at i:2459630 original size:13 final size:13
Alignment explanation
Indices: 2459612--2459640 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2459602 AAATAGTACC
2459612 CAATGTATCGATA
1 CAATGTATCGATA
2459625 CAATGTATCGATA
1 CAATGTATCGATA
2459638 CAA
1 CAA
2459641 GGAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2465843 original size:13 final size:13
Alignment explanation
Indices: 2465825--2465854 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2465815 CATTTCTTCA
2465825 TGTATCGATACAT
1 TGTATCGATACAT
2465838 TGTATCGATACAT
1 TGTATCGATACAT
2465851 TGTA
1 TGTA
2465855 CCATGTATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2465847 original size:33 final size:33
Alignment explanation
Indices: 2465805--2465869 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2465795 TTACAAGCTA
2465805 TGTATCGATACATT-T-CTTCATGTATCGATACAT
1 TGTATCGATACATTGTAC--CATGTATCGATACAT
2465838 TGTATCGATACATTGTACCATGTATCGATACA
1 TGTATCGATACATTGTACCATGTATCGATACA
2465870 AATAGTGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATTGTACCATGTATCGATACAT
Found at i:2465925 original size:21 final size:20
Alignment explanation
Indices: 2465899--2465954 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
2465889 CTGCCAGTTT
**
2465899 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA-TTGAA
*
2465920 CATGTATTGATACAA-TGAA
1 CATGTATCGATACAATTGAA
2465939 CATGTATCGATACAAT
1 CATGTATCGATACAAT
2465955 GTATCGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 16 0.53
21 14 0.47
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2465958 original size:13 final size:13
Alignment explanation
Indices: 2465940--2465966 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2465930 TACAATGAAC
2465940 ATGTATCGATACA
1 ATGTATCGATACA
2465953 ATGTATCGATACA
1 ATGTATCGATACA
2465966 A
1 A
2465967 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2465981 original size:33 final size:32
Alignment explanation
Indices: 2465921--2465985 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
2465911 CAATTTGTCC
* *
2465921 ATGTATTGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
2465953 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
2465986 TCCGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:2467111 original size:17 final size:17
Alignment explanation
Indices: 2467089--2467122 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2467079 CTAGATAACT
2467089 TTGAAAGAACGCTCATA
1 TTGAAAGAACGCTCATA
2467106 TTGAAAGAACGCTCATA
1 TTGAAAGAACGCTCATA
2467123 CTTGCATGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (17 bp):
TTGAAAGAACGCTCATA
Found at i:2470251 original size:19 final size:19
Alignment explanation
Indices: 2470207--2470262 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
2470197 CTGTCAGTTT
**
2470207 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
2470227 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
2470246 CATGTATCGATACAATG
1 CATGTATCGATACAATG
2470263 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2470265 original size:13 final size:13
Alignment explanation
Indices: 2470247--2470272 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2470237 TACAATGAAC
2470247 ATGTATCGATACA
1 ATGTATCGATACA
2470260 ATGTATCGATACA
1 ATGTATCGATACA
2470273 TACAAGGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2474832 original size:15 final size:14
Alignment explanation
Indices: 2474799--2474842 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
2474789 TGAAAAAGGC
2474799 TTTTAATAAAGACAA
1 TTTTAATAAA-ACAA
*
2474814 TTTTAATAAAACACT
1 TTTTAATAAAACA-A
*
2474829 TTTTATTAAAACAA
1 TTTTAATAAAACAA
2474843 AAGAAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 3 0.12
15 22 0.88
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (14 bp):
TTTTAATAAAACAA
Found at i:2476196 original size:20 final size:21
Alignment explanation
Indices: 2476171--2476210 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
2476161 AATTTCCCAA
2476171 AATGTATCGATACAT-TGAAT
1 AATGTATCGATACATCTGAAT
2476191 AATGTATCGATACATCTGAA
1 AATGTATCGATACATCTGAA
2476211 AAACCCAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATCTGAAT
Found at i:2477555 original size:21 final size:21
Alignment explanation
Indices: 2477529--2477572 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2477519 CTCTGAGTGC
*
2477529 ATAGATCAATGCTTCGACACA
1 ATAGATCAATGCTTAGACACA
* *
2477550 ATAGATCAGTGCTTAGATACA
1 ATAGATCAATGCTTAGACACA
2477571 AT
1 AT
2477573 GCGTCAACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (21 bp):
ATAGATCAATGCTTAGACACA
Found at i:2478088 original size:21 final size:22
Alignment explanation
Indices: 2478063--2478124 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 22
2478053 GAGAGCATTG
2478063 AATATTTTATTAAGGG-G-GAA
1 AATATTTTATTAAGGGAGAGAA
2478083 AGATATTTTATTAAGGGAGAGAA
1 A-ATATTTTATTAAGGGAGAGAA
2478106 AA-ATTTTATTCAGAGGGAG
1 AATATTTTATT-A-AGGGAG
2478125 TTATAAATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
20 1 0.03
21 23 0.62
22 3 0.08
23 10 0.27
ACGTcount: A:0.40, C:0.02, G:0.26, T:0.32
Consensus pattern (22 bp):
AATATTTTATTAAGGGAGAGAA
Found at i:2478795 original size:32 final size:33
Alignment explanation
Indices: 2478735--2478797 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
2478725 CACACCCAGA
*
2478735 TGTATCGATACATATTGCTTAGTATCGATACTT
1 TGTATCGATACATATTGCATAGTATCGATACTT
*
2478768 TGTATCGATACATGTT-CATAGTATCGATAC
1 TGTATCGATACATATTGCATAGTATCGATAC
2478798 ACATAGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATATTGCATAGTATCGATACTT
Found at i:2481322 original size:16 final size:16
Alignment explanation
Indices: 2481285--2481373 Score: 74
Period size: 16 Copynumber: 5.6 Consensus size: 16
2481275 TAGTTAGTCA
* *
2481285 AAATTCAAAATAATTC
1 AAATTTAAAATAATTT
2481301 AAATTTAAAATAATTT
1 AAATTTAAAATAATTT
* *
2481317 AAATTTAAAGTGATTT
1 AAATTTAAAATAATTT
*
2481333 -GATTTCAAAATAATTT
1 AAATTT-AAAATAATTT
* ***
2481349 AGACAAAAAAT-ATTT
1 AAATTTAAAATAATTT
2481364 AAATTTAAAA
1 AAATTTAAAA
2481374 GCTATTCAAT
Statistics
Matches: 57, Mismatches: 14, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
15 14 0.25
16 41 0.72
17 2 0.04
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (16 bp):
AAATTTAAAATAATTT
Found at i:2482167 original size:59 final size:58
Alignment explanation
Indices: 2482030--2482224 Score: 194
Period size: 59 Copynumber: 3.3 Consensus size: 58
2482020 TTCTAATTGA
* * * * ***
2482030 TTATGTGAAAGACCAGCAGAGTTGGCAGTTTAGTGTTTTTGTTAACTCTACTGTTGTCAA
1 TTATGTGAAAGACCAGTAGAGTTGGCAGTTTAGT-TTTCTGTTAACTC-ATTTTTGTTGG
* * * *
2482090 TTATGTCAAAAACTAGTAGAGTTGGCAGTTTAGTTTCCTGTTAAGCTCATTTTTGTTGG
1 TTATGTGAAAGACCAGTAGAGTTGGCAGTTTAGTTTTCTGTTAA-CTCATTTTTGTTGG
* * * *
2482149 TTATGTGAAAGACCAGTAGAGTTGGTAGTTTAGTTTTCAGTTAATTCATCTTCAT-TTGG
1 TTATGTGAAAGACCAGTAGAGTTGGCAGTTTAGTTTTCTGTTAACTCAT-TT-TTGTTGG
*
2482208 TTATGTGAAAGATCAGT
1 TTATGTGAAAGACCAGT
2482225 GAAGTAGACA
Statistics
Matches: 112, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
58 4 0.04
59 74 0.66
60 34 0.30
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.41
Consensus pattern (58 bp):
TTATGTGAAAGACCAGTAGAGTTGGCAGTTTAGTTTTCTGTTAACTCATTTTTGTTGG
Found at i:2485386 original size:23 final size:23
Alignment explanation
Indices: 2485351--2485404 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
2485341 GTGAGTCGGT
*
2485351 TTTTATAGGAATTTTAGTTTGCAG
1 TTTTAT-GGAATTTTAGTTTGCAA
2485375 TTTTATGGAATTTTAGTTTGCAA
1 TTTTATGGAATTTTAGTTTGCAA
2485398 TTTTATG
1 TTTTATG
2485405 TCGTTAGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.24, C:0.04, G:0.19, T:0.54
Consensus pattern (23 bp):
TTTTATGGAATTTTAGTTTGCAA
Found at i:2486077 original size:20 final size:20
Alignment explanation
Indices: 2486052--2486089 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2486042 GTATTAATAC
2486052 ATTGTATCAATACATGAAGA
1 ATTGTATCAATACATGAAGA
*
2486072 ATTGTATCGATACATGAA
1 ATTGTATCAATACATGAA
2486090 ATGGGCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (20 bp):
ATTGTATCAATACATGAAGA
Found at i:2490865 original size:13 final size:13
Alignment explanation
Indices: 2490847--2490903 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
2490837 CATAAAGTGT
2490847 TGTATCGATACAA
1 TGTATCGATACAA
2490860 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
2490875 GTGTTGTACCGATACAA
1 ----TGTATCGATACAA
2490892 TGTATCGATACA
1 TGTATCGATACA
2490904 TAAGCTTTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2490882 original size:32 final size:32
Alignment explanation
Indices: 2490827--2490930 Score: 165
Period size: 32 Copynumber: 3.2 Consensus size: 32
2490817 TTCAATGATT
2490827 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
2490860 TGTATCGATACATAAGTGTTGTACCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2490892 TGTATCGATACATAAGCT-TTGCATCGATACAA
1 TGTATCGATACATAAG-TGTTGTATCGATACAA
2490924 TGTATCG
1 TGTATCG
2490931 CAACAAAGCT
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
32 53 0.79
33 14 0.21
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2491052 original size:52 final size:52
Alignment explanation
Indices: 2491008--2491136 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
2490998 CACTGATCTT
*
2491008 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
2491060 TGTATCGACACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2491112 TGTATCGATTCATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2491137 TCATATTTCG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2498089 original size:11 final size:11
Alignment explanation
Indices: 2498070--2498100 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2498060 AGTAAACACA
*
2498070 CAAACAAAAGT
1 CAAAAAAAAGT
2498081 CAAAAAAAAGT
1 CAAAAAAAAGT
2498092 CAAAAAAAA
1 CAAAAAAAA
2498101 CAAAACACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.74, C:0.13, G:0.06, T:0.06
Consensus pattern (11 bp):
CAAAAAAAAGT
Found at i:2498112 original size:14 final size:13
Alignment explanation
Indices: 2498094--2498126 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
2498084 AAAAAAGTCA
2498094 AAAAAAACAAAAC
1 AAAAAAACAAAAC
2498107 ACAAAAAACAAAAC
1 A-AAAAAACAAAAC
2498121 AAAAAA
1 AAAAAA
2498127 GGTGCAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAAAC
Found at i:2499519 original size:33 final size:30
Alignment explanation
Indices: 2499415--2499560 Score: 170
Period size: 30 Copynumber: 4.8 Consensus size: 30
2499405 ATACCTTCTT
*
2499415 AAAGTCCACGACTTAGTGGCATCTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTGTCTC
* * *
2499445 AAAGTCCACAATTCAGTGGCATCTCTTTC-C
1 AAAGTCCACGACTCAGTGGCATCT-TGTCTC
*
2499475 AAAGTCCACGACTCAGTGGCAT-TTTTCCTTC
1 AAAGTCCACGACTCAGTGGCATCTTGT-C-TC
* *
2499506 TTAAAGTCTACGACTTAGTGGCATCTTGTCTC
1 --AAAGTCCACGACTCAGTGGCATCTTGTCTC
2499538 AAAGTCCACGACTCAGTGGCATC
1 AAAGTCCACGACTCAGTGGCATC
2499561 AAAGTCCACG
Statistics
Matches: 98, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
28 3 0.03
29 2 0.02
30 63 0.64
31 4 0.04
32 2 0.02
33 21 0.21
34 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTGTCTC
Found at i:2499594 original size:93 final size:88
Alignment explanation
Indices: 2499408--2499647 Score: 256
Period size: 93 Copynumber: 2.7 Consensus size: 88
2499398 TCTTCAAATA
*
2499408 CCTTCTTAAAGTCCACGACTTAGTGGCATCTTGTCTCAAAGTCCACAATTCAGTGGCATCTCTTT
1 CCTTCTTAAAGTCCACGACTTAGTGGCATCTTGTCTCAAAGTCCACAACTCAGTGGCA-----TT
2499473 CCAAAGTCCACGACTCAGTGGCATTTTT
61 CCAAAGTCCACGACTCAGTGGCATTTTT
* *
2499501 CCTTCTTAAAGTCTACGACTTAGTGGCATCTTGTCTCAAAGTCCACGACTCAGTGGCA-T-CAAA
1 CCTTCTTAAAGTCCACGACTTAGTGGCATCTTGTCTCAAAGTCCACAACTCAGTGGCATTCCAAA
2499564 GTCCACGACTCCA-TGGCACCTTTTT
66 GTCCACGACT-CAGTGGCA--TTTTT
* ** * * * * *
2499589 -CTT-TTCAAAGTCTACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCTGTGGCAT
1 CCTTCTT-AAAGTCCACGACTTAGTGGCATCTT-GTCTCAAAGTCCACAACTCAGTGGCAT
2499648 CTTTTTCCTT
Statistics
Matches: 130, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
86 21 0.16
87 28 0.22
88 26 0.20
93 55 0.42
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (88 bp):
CCTTCTTAAAGTCCACGACTTAGTGGCATCTTGTCTCAAAGTCCACAACTCAGTGGCATTCCAAA
GTCCACGACTCAGTGGCATTTTT
Found at i:2499606 original size:34 final size:35
Alignment explanation
Indices: 2499559--2499719 Score: 158
Period size: 34 Copynumber: 4.8 Consensus size: 35
2499549 CTCAGTGGCA
* * *
2499559 TCAAAGTCCACGACTCCATGGCACCTTTTT-CTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTT
* * *
2499593 TCAAAGTCTACGACTCCGTGGCACC---TT-CTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTT
* *
2499624 TCAAAGCCCACAACTCTGTGGCATCTTTTTCCTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTT
2499659 T-AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTTCCTTT
* * *
2499694 T--AAGTCCACAACTCTGTGGCATCTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTT
2499720 CTCCAAAGCC
Statistics
Matches: 110, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
31 26 0.24
33 4 0.04
34 63 0.57
35 17 0.15
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (35 bp):
TCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTT
Found at i:2499648 original size:88 final size:86
Alignment explanation
Indices: 2499474--2499648 Score: 212
Period size: 88 Copynumber: 2.0 Consensus size: 86
2499464 CATCTCTTTC
* *
2499474 CAAAGTCCACGACTCAGTGGCATTTTTCCTTCTTAAAGTCTACGACTTAGTGGCATCTTGTCTCA
1 CAAAGTCCACGACTCAGTGGCATTTTTCCTTCTTAAAGTCTACGACTCAGTGGCACCTTGTCTCA
* *
2499539 AAGTCCACGACTCAGTGGCAT
66 AAGCCCACAACTCAGTGGCAT
* *
2499560 CAAAGTCCACGACTCCA-TGGCACCTTTTT-CTT-TTCAAAGTCTACGACTCCGTGGCACCTTCT
1 CAAAGTCCACGACT-CAGTGGCA--TTTTTCCTTCTT-AAAGTCTACGACTCAGTGGCACCTT-G
* *
2499622 TTTCAAAGCCCACAACTCTGTGGCAT
61 TCTCAAAGCCCACAACTCAGTGGCAT
2499648 C
1 C
2499649 TTTTTCCTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
86 21 0.28
87 27 0.36
88 28 0.37
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (86 bp):
CAAAGTCCACGACTCAGTGGCATTTTTCCTTCTTAAAGTCTACGACTCAGTGGCACCTTGTCTCA
AAGCCCACAACTCAGTGGCAT
Found at i:2499674 original size:65 final size:67
Alignment explanation
Indices: 2499559--2499719 Score: 184
Period size: 65 Copynumber: 2.4 Consensus size: 67
2499549 CTCAGTGGCA
* ** * * * *
2499559 TCAAAGTCCACGACTCCATGGCACCTTTTTCTTTTCAAAGTCTACGACTCCGTGGCAC-CTTCTT
1 TCAAAGTCCACAACTCTGTGGCATCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTCTT
2499623 -T
66 CT
* *
2499624 TCAAAGCCCACAACTCTGTGGCATCTTTTTCCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTT
1 TCAAAGTCCACAACTCTGTGGCATCTTTTT-CTTTTCAAAGCCCACAACTCCGTGGCACTCTTCT
2499688 TCCT
65 T-CT
**
2499692 TTTAAGTCCACAACTCTGTGGCATCTTT
1 TCAAAGTCCACAACTCTGTGGCATCTTT
2499720 CTCCAAAGCC
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
65 44 0.55
66 10 0.12
68 26 0.32
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (67 bp):
TCAAAGTCCACAACTCTGTGGCATCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTCTT
CT
Found at i:2499736 original size:32 final size:33
Alignment explanation
Indices: 2499709--2499944 Score: 265
Period size: 32 Copynumber: 7.3 Consensus size: 33
2499699 CCACAACTCT
*
2499709 GTGGC-ATCTTTCTCCAAAGCCCACACAAGTTG
1 GTGGCAATCTTTCTCTAAAGCCCACACAAGTTG
**
2499741 GTGGCAATC-CCCTCTAAAGCCCACACAAGTCT-
1 GTGGCAATCTTTCTCTAAAGCCCACACAAGT-TG
* *
2499773 GTGGCAA-CCTTCTTCAAAAGCCCACACAAGTTG
1 GTGGCAATCTTTC-TCTAAAGCCCACACAAGTTG
* *
2499806 GTGGCAACCTTTCTC-AAAGCCCACACAAGTCG
1 GTGGCAATCTTTCTCTAAAGCCCACACAAGTTG
*
2499838 GTGGCAACCTTT-TCTAAAGCCCACACAAGTTG
1 GTGGCAATCTTTCTCTAAAGCCCACACAAGTTG
* *
2499870 GTGGCAATC-TCCTCTAAAGCCCACACAAGTCG
1 GTGGCAATCTTTCTCTAAAGCCCACACAAGTTG
* * *
2499902 GTGGCAA-CCTTCTTCAAAAGCCCATACAAGTTG
1 GTGGCAATCTTTC-TCTAAAGCCCACACAAGTTG
2499935 GTGGC-ATCTT
1 GTGGCAATCTT
2499945 CCTTTAAGTC
Statistics
Matches: 176, Mismatches: 17, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
31 5 0.03
32 113 0.64
33 54 0.31
34 4 0.02
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (33 bp):
GTGGCAATCTTTCTCTAAAGCCCACACAAGTTG
Found at i:2500003 original size:49 final size:49
Alignment explanation
Indices: 2499946--2500848 Score: 860
Period size: 49 Copynumber: 19.0 Consensus size: 49
2499936 TGGCATCTTC
* * * *
2499946 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTGT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* *
2499995 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----T
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * *
2500040 C--TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTGT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* *
2500087 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCGCATTGGCACC----T
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * *
2500132 C--CAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * * *
2500179 CTTTAAGTACAATGTAGCTGGCCTTGAATCAGCACATCGGCA-C-----
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * *
2500222 CTTTAAGTCTAATATCCCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * *
2500271 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATCGG---C---AT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* *
2500314 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACA-T--CAGC---AT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * *
2500357 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
*
2500406 CTTTAAGTCCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * *
2500456 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATCGGCA-C-----
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* *
2500499 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-AT
* * * *
2500551 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACGTTGGCACCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * *
2500600 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCGT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-AT
* *
2500652 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * * **
2500701 CTTTAAGTCTAGTATCGCTGGCCTTGAATCAGCATATTGGCGTCTTCGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT--T-AT
** * * * *
2500753 CTTTAAAACCCAATGTTGTTGGCCTTGAATCAGCGCATTGGCA--TTCT-T
1 CTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT-TAT
* * * * *
2500801 CTTTAAGTCTAATGA-CGCTGACCGTAAATCAGCACATTGACATCCTTT
1 CTTTAAGTCCAAT-ATCGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
2500849 TTCTCATCTT
Statistics
Matches: 709, Mismatches: 97, Indels: 96
0.79 0.11 0.11
Matches are distributed among these distances:
43 222 0.31
44 3 0.00
45 4 0.01
46 4 0.01
47 30 0.04
48 7 0.01
49 268 0.38
50 50 0.07
51 6 0.01
52 87 0.12
53 28 0.04
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
Found at i:2500107 original size:92 final size:92
Alignment explanation
Indices: 2499949--2500795 Score: 1013
Period size: 92 Copynumber: 9.0 Consensus size: 92
2499939 CATCTTCCTT
* * *
2499949 TAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
2500014 GGCCTTGAATCAGCACATTGGCACCTC
66 GGCCTTGAATCAGCACATTGGCACCTC
* * * *
2500041 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGTCCAATATTGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
*
2500106 GGCCTTGAATCAGCGCATTGGCACCTC
66 GGCCTTGAATCAGCACATTGGCACCTC
* * *
2500133 CAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTTATCTTTAAGTACAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* *
2500198 GGCCTTGAATCAGCACATCGGCACCTT
66 GGCCTTGAATCAGCACATTGGCACCTC
* *
2500225 TAAGTCTAATATCCCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* * *
2500290 GGCCTTGAATCAGCACATCGGCATCTT
66 GGCCTTGAATCAGCACATTGGCACCTC
* * * *
2500317 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACA-T--CAGC---ATCTTTAAGTCCAATGTCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
*
2500376 GGCCTTGAATCAACACATTGGCACCTTCATC
66 GGCCTTGAATCAGCACATTGGCA-C--C-TC
*
2500407 TTTAAGTCCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTT
1 --TAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
* *
2500472 GCTGGCCTTGAATCAGCACATCGGCACCTT
63 GCTGGCCTTGAATCAGCACATTGGCACCTC
* *
2500502 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAAGTCCAATGTA
* *
2500567 GCTAGCCTTGAATCAGCACGTTGGCACCTTCATC
63 GCTGGCCTTGAATCAGCACATTGGCA-C--C-TC
* *
2500601 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCGTCTTTAAGTCCAATG
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAAGTCCAATG
*
2500666 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
61 TAGCTGGCCTTGAATCAGCACATTGGCA-C--C-TC
* * ** **
2500702 TTTAAGTCTAGTATCGCTGGCCTTGAATCAGCATATTGGCGTCTTCGTCATCTTTAAAACCCAAT
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-ATCTTT-AAGTCCAAT
* * *
2500767 GTTGTTGGCCTTGAATCAGCGCATTGGCA
60 GTAGCTGGCCTTGAATCAGCACATTGGCA
2500796 TTCTTCTTTA
Statistics
Matches: 676, Mismatches: 55, Indels: 38
0.88 0.07 0.05
Matches are distributed among these distances:
86 41 0.06
89 4 0.01
90 1 0.00
91 1 0.00
92 325 0.48
93 33 0.05
94 2 0.00
95 41 0.06
96 5 0.01
98 2 0.00
99 42 0.06
100 2 0.00
101 144 0.21
102 33 0.05
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.32
Consensus pattern (92 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCTC
Found at i:2500577 original size:52 final size:52
Alignment explanation
Indices: 2500499--2500786 Score: 363
Period size: 52 Copynumber: 5.6 Consensus size: 52
2500489 ACATCGGCAC
2500499 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
* * ** *
2500551 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACGTTGGCACC--T-TCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
*
2500600 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCGT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
* * *
2500652 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
* * * *
2500701 CTTTAAGTCTAGTATCGCTGGCCTTGAATCAGCATATTGGCGTCTTCGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
** * * *
2500753 CTTTAAAACCCAATGTTGTTGGCCTTGAATCAGC
1 CTTT-AAGTCCAATATCGCTGGCCTTGAATCAGC
2500787 GCATTGGCAT
Statistics
Matches: 200, Mismatches: 29, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
49 84 0.42
50 2 0.01
51 1 0.00
52 91 0.46
53 22 0.11
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
Found at i:2500633 original size:101 final size:101
Alignment explanation
Indices: 2500354--2500809 Score: 664
Period size: 101 Copynumber: 4.6 Consensus size: 101
2500344 AGCACATCAG
*
2500354 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCATCTTTAAGTCCTAA
1 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC-AA
*
2500419 TATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T
65 TATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGT
* *
2500454 -ATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATCGGCA----C--CTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
2500512 ATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGT
66 ATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGT
* *
2500548 CATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACGTTGGCACCTTCATCTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
2500613 ATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGT
66 ATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGT
* * *
2500649 CGTCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAGT
1 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
* *
2500714 ATCGCTGGCCTTGAATCAGCATATTGGCGTCTTCGT
66 ATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGT
** * * * *
2500750 CATCTTTAAAACCCAATGTTGTTGGCCTTGAATCAGCGCATTGGCA--TTCTTCTTTAAGTC
1 CATCTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTC
2500810 TAATGACGCT
Statistics
Matches: 324, Mismatches: 22, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
92 33 0.10
93 12 0.04
94 1 0.00
95 41 0.13
99 42 0.13
100 13 0.04
101 149 0.46
102 33 0.10
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (101 bp):
CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
ATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGT
Found at i:2500876 original size:102 final size:101
Alignment explanation
Indices: 2500365--2500895 Score: 302
Period size: 101 Copynumber: 5.3 Consensus size: 101
2500355 ATCTTTAAGT
* * * * *
2500365 CCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCATCTTTAAGTCCTAATATCGCTGGCC
1 CCAATATCGTTGGCCTTGAATCAGCGCATTGGCA-CTTCATCTTTAAGT-CTAATATCGCTGACC
* * * * * **
2500430 TTGAATCAGCATATTGGCACCTT--T-ATCTTT-AAGT
64 GTAAATCAGCACATTGACATCTTCGTCATCTTTAAAAC
* * * * * * * *
2500464 CCAATGTTGCTGGCCTTGAATCAGCACATCGGCA---C--CTTTAAGTCCAATATCGCTGGCCTT
1 CCAATATCGTTGGCCTTGAATCAGCGCATTGGCACTTCATCTTTAAGTCTAATATCGCTGACCGT
* * * ** * **
2500524 GAATCAGCATATTGGCGCCTTTGTCATCTTT-AAGT
66 AAATCAGCACATTGACATCTTCGTCATCTTTAAAAC
* * * * * * * *
2500559 CCAATGTCGCTAGCCTTGAATCAGCACGTTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCT
1 CCAATATCGTTGGCCTTGAATCAGCGCATTGGCA-CTTCATCTTTAAGTCTAATATCGCTGACCG
* * * ** * * **
2500624 TGAATCAGCATATTGGCGCCTTTGTCGTCTTT-AAGT
65 TAAATCAGCACATTGACATCTTCGTCATCTTTAAAAC
* * * * * *
2500660 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAGTATCGCTGGCCT
1 CCAATATCGTTGGCCTTGAATCAGCGCATTGGCA-CTTCATCTTTAAGTCTAATATCGCTGACCG
* * * *
2500725 TGAATCAGCATATTGGCGTCTTCGTCATCTTTAAAAC
65 TAAATCAGCACATTGACATCTTCGTCATCTTTAAAAC
* * *
2500762 CCAATGTTGTTGGCCTTGAATCAGCGCATTGGCA-TTCTTCTTTAAGTCTAATGA-CGCTGACCG
1 CCAATATCGTTGGCCTTGAATCAGCGCATTGGCACTTCATCTTTAAGTCTAAT-ATCGCTGACCG
*
2500825 TAAATCAGCACATTGACATCCTTTTTC-TCATCTTT-AGAC
65 TAAATCAGCACATTGACAT-C---TTCGTCATCTTTAAAAC
* * *
2500864 CTAATATCGTTGG-CTGTGAATCAACGTATTGG
1 CCAATATCGTTGGCCT-TGAATCAGCGCATTGG
2500896 TCCTTTTATC
Statistics
Matches: 380, Mismatches: 36, Indels: 29
0.85 0.08 0.07
Matches are distributed among these distances:
92 36 0.09
93 8 0.02
94 1 0.00
95 41 0.11
99 32 0.08
100 38 0.10
101 153 0.40
102 60 0.16
103 8 0.02
104 3 0.01
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (101 bp):
CCAATATCGTTGGCCTTGAATCAGCGCATTGGCACTTCATCTTTAAGTCTAATATCGCTGACCGT
AAATCAGCACATTGACATCTTCGTCATCTTTAAAAC
Found at i:2501659 original size:13 final size:13
Alignment explanation
Indices: 2501641--2501665 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2501631 CATAAAGTGT
2501641 TGTATCGATACAA
1 TGTATCGATACAA
2501654 TGTATCGATACA
1 TGTATCGATACA
2501666 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2501681 original size:32 final size:33
Alignment explanation
Indices: 2501621--2501689 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
2501611 TTCAACGATT
2501621 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
2501654 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2501686 TGTA
1 TGTA
2501690 AGCTACTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2501803 original size:52 final size:52
Alignment explanation
Indices: 2501760--2501885 Score: 198
Period size: 52 Copynumber: 2.4 Consensus size: 52
2501750 CACTGATCTT
*
2501760 TGTATCGATACACGCAGGCAAATTGGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTGGCCCAGATGTATCGATACACTATAAAA
* * ** *
2501812 TGTATCTATACATGTAGGCAAATTTTCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTGGCCCAGATGTATCGATACACTATAAAA
2501864 TGTATCGATACATGCAGGCAAA
1 TGTATCGATACATGCAGGCAAA
2501886 ATTTCATATT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTGGCCCAGATGTATCGATACACTATAAAA
Found at i:2508064 original size:13 final size:13
Alignment explanation
Indices: 2508046--2508102 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
2508036 CATAAAGTGT
2508046 TGTATCGATACAA
1 TGTATCGATACAA
2508059 TGTATCGATACATAA
1 TGTATCGATAC--AA
2508074 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
2508091 TGTATCGATACA
1 TGTATCGATACA
2508103 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2508081 original size:32 final size:32
Alignment explanation
Indices: 2508026--2508126 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
2508016 TTCAACGATT
2508026 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
2508059 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
2508091 TGTATCGATACATAAGTTTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2508123 TGTA
1 TGTA
2508127 AGCTACTGCC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 53 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2508083 original size:19 final size:18
Alignment explanation
Indices: 2508024--2508121 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
2508014 ATTTCAACGA
2508024 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
2508043 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
2508059 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2508075 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
2508091 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
2508107 TTTTGTATTGATACA
1 -TTTGTATCGATACA
2508122 ATGTAAGCTA
Statistics
Matches: 65, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 23 0.35
20 12 0.18
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:2508182 original size:13 final size:13
Alignment explanation
Indices: 2508164--2508188 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2508154 ACTACCCAAA
2508164 TGTATCGATACAT
1 TGTATCGATACAT
2508177 TGTATCGATACA
1 TGTATCGATACA
2508189 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2508237 original size:52 final size:50
Alignment explanation
Indices: 2508177--2508325 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 50
2508167 ATCGATACAT
*
2508177 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
2508229 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
2508281 TGTATCGATACACTATTAAATGTATCGATACAAGCAGGCAAATTT
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAAATTT
2508326 TCATATTTCG
Statistics
Matches: 89, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:2513941 original size:29 final size:29
Alignment explanation
Indices: 2513898--2514221 Score: 149
Period size: 29 Copynumber: 10.8 Consensus size: 29
2513888 TTCCTCACCC
*
2513898 TTCAAAAGCCCACAAGTTAGTGGCATCTTT
1 TTCAAAA-CCCACAAGTCAGTGGCATCTTT
2513928 TTCAAAACCCACAAGTCAGTGGCATCTTT
1 TTCAAAACCCACAAGTCAGTGGCATCTTT
** * * *
2513957 TTCAAAGTCCATAAGTCAGTGGCAAC--C
1 TTCAAAACCCACAAGTCAGTGGCATCTTT
* * * *
2513984 TTCAAAGCCCATAAATCAGTGGCACCCTTT
1 TTCAAAACCCACAAGTCAGTGGCA-TCTTT
* * * *
2514014 TCCGAAGCCCACAAGTCGGTGGCATCTTT
1 TTCAAAACCCACAAGTCAGTGGCATCTTT
* * ** * *
2514043 TCCCAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAACCCACAAGTCAGTGGCA-TCTTT
* * * * * *
2514073 TTCTTTTGTAAGCTCACAACTCCGTAGCACTCTTT
1 TTC-----AAAACCCACAAGTCAGTGGCA-TCTTT
* * * * *
2514108 TTCCTTTTAAGCCCACAAGTTAGTGGCACCCTT
1 TT-C---AAAACCCACAAGTCAGTGGCATCTTT
* *
2514141 TTCAAAAGCCCACAAGTCAGTGGCAAC-CT
1 TTCAAAA-CCCACAAGTCAGTGGCATCTTT
2514170 TT-AAAAGCCCACAAGTCAGTGGCAATC--T
1 TTCAAAA-CCCACAAGTCAGTGGC-ATCTTT
2514198 TT-AAAAGCCCACAAGTCAGTGGCA
1 TTCAAAA-CCCACAAGTCAGTGGCA
2514222 ACCTTCAAAA
Statistics
Matches: 243, Mismatches: 39, Indels: 27
0.79 0.13 0.09
Matches are distributed among these distances:
27 23 0.09
28 46 0.19
29 74 0.30
30 50 0.21
32 1 0.00
33 5 0.02
34 18 0.07
35 25 0.10
36 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (29 bp):
TTCAAAACCCACAAGTCAGTGGCATCTTT
Found at i:2514014 original size:86 final size:86
Alignment explanation
Indices: 2513896--2514053 Score: 210
Period size: 86 Copynumber: 1.8 Consensus size: 86
2513886 CATTCCTCAC
* * * * *
2513896 CCTTCAAAAGCCCACAAGTTAGTGGCATCTTTTTCAAAACCCACAAGTCAGTGGCATCTTTTTCA
1 CCTTCAAAAGCCCACAAATCAGTGGCACCTTTTCCAAAACCCACAAGTCAGTGGCATCTTTTCCA
2513961 AAGTCCATAAGTCAGTGGCAA
66 AAGTCCATAAGTCAGTGGCAA
* * * *
2513982 CCTTC-AAAGCCCATAAATCAGTGGCACCCTTTTCCGAAGCCCACAAGTCGGTGGCATCTTTTCC
1 CCTTCAAAAGCCCACAAATCAGTGGCA-CCTTTTCCAAAACCCACAAGTCAGTGGCATCTTTTCC
*
2514046 CAAGTCCA
65 AAAGTCCA
2514054 CAACTCCGTG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
85 18 0.30
86 43 0.70
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.25
Consensus pattern (86 bp):
CCTTCAAAAGCCCACAAATCAGTGGCACCTTTTCCAAAACCCACAAGTCAGTGGCATCTTTTCCA
AAGTCCATAAGTCAGTGGCAA
Found at i:2514125 original size:34 final size:35
Alignment explanation
Indices: 2514051--2514125 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
2514041 TTTCCCAAGT
* *
2514051 CCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCCGTAGCACTCTTTTTCCTTTGTAAGC
*
2514086 TCACAACTCCGTAGCACTCTTTTTCCTTT-TAAGC
1 CCACAACTCCGTAGCACTCTTTTTCCTTTGTAAGC
2514120 CCACAA
1 CCACAA
2514126 GTTAGTGGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 10 0.28
35 26 0.72
ACGTcount: A:0.21, C:0.33, G:0.11, T:0.35
Consensus pattern (35 bp):
CCACAACTCCGTAGCACTCTTTTTCCTTTGTAAGC
Found at i:2514142 original size:34 final size:35
Alignment explanation
Indices: 2514051--2514142 Score: 105
Period size: 35 Copynumber: 2.7 Consensus size: 35
2514041 TTTCCCAAGT
* *
2514051 CCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCAGTGGCACTCTTTTTCCTTTGTAAGC
* * *
2514086 TCACAACTCCGTAGCACTCTTTTTCCTTT-TAAGC
1 CCACAACTCAGTGGCACTCTTTTTCCTTTGTAAGC
* * *
2514120 CCACAAGTTAGTGGCACCCTTTT
1 CCACAACTCAGTGGCACTCTTTT
2514143 CAAAAGCCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
34 22 0.46
35 26 0.54
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.36
Consensus pattern (35 bp):
CCACAACTCAGTGGCACTCTTTTTCCTTTGTAAGC
Found at i:2514184 original size:28 final size:28
Alignment explanation
Indices: 2514116--2514267 Score: 191
Period size: 28 Copynumber: 5.3 Consensus size: 28
2514106 TTTTCCTTTT
* *
2514116 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTT-AA
2514146 AAGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
*
2514174 AAGCCCACAAGTCAGTGGCAATCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
*
2514202 AAGCCCACAAGTCAGTGGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
2514230 AAGCACACAAGT-TGAT-GCAAACCTTTCAA
1 AAGCCCACAAGTCAG-TGGC-AACCTTT-AA
2514259 AAGCCCACA
1 AAGCCCACA
2514268 CAAGTTGGTG
Statistics
Matches: 110, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
27 3 0.03
28 73 0.66
29 13 0.12
30 21 0.19
ACGTcount: A:0.36, C:0.29, G:0.16, T:0.18
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTTAA
Found at i:2514211 original size:56 final size:58
Alignment explanation
Indices: 2513898--2514267 Score: 202
Period size: 56 Copynumber: 6.2 Consensus size: 58
2513888 TTCCTCACCC
* * * * *
2513898 TTCAAAAGCCCACAAGTTAGTGGCATCTTTTTCAAAA-CCCACAAGTCAGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC--CTTCAAAAGCCCACAAGTCAGTGGCAACCTT
* * * * *
2513957 TTC-AAAGTCCATAAGTCAGTGGCAACCTTC-AAAGCCCATAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTT
** * * * ** * * *
2514013 TTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCCAAGTCCACAACTCCGTGGC-ACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCAAC-C-TT
** * * * * ** * *
2514073 TTCTTTTGTAAGCTCACAACTCCGTAGC-ACTCTTTTTCCTTTTAAGCCCACAAGTTAGTGGCAC
1 TTC----AAAAGCCCACAAGTCAGTGGCAAC-C---TT-C--AAAAGCCCACAAGTCAGTGGCAA
2514137 CCTT
55 CCTT
* *
2514141 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAATC-T
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTT
* *
2514198 TT-AAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAGT-TGAT-GCAAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAG-TGGC-AACCTT
2514254 TTCAAAAGCCCACA
1 TTCAAAAGCCCACA
2514268 CAAGTTGGTG
Statistics
Matches: 238, Mismatches: 52, Indels: 44
0.71 0.16 0.13
Matches are distributed among these distances:
55 6 0.03
56 71 0.30
57 32 0.13
58 43 0.18
59 19 0.08
60 5 0.02
61 2 0.01
63 2 0.01
64 31 0.13
65 2 0.01
66 2 0.01
67 1 0.00
68 5 0.02
69 16 0.07
70 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (58 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTT
Found at i:2514409 original size:49 final size:49
Alignment explanation
Indices: 2514297--2514817 Score: 585
Period size: 48 Copynumber: 10.8 Consensus size: 49
2514287 TCTAAGTCTG
* * * * **
2514297 ATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTTAAACCCA
1 ATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC-TTTAAGTCCA
* *
2514347 ATATAGTTGGCCTTGAATCAGCACATTGGTACCTTCATCTTTAAGTCCA
1 ATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
* *
2514396 ATGTAGCCGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCA
1 ATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
* * * *
2514439 ATATAGCTGGCCTTGAATTAGCACATTGGCACATTCACCTTTAAGCCCA
1 ATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
* * * *
2514488 ATATAGTTGGCCTTGAATCAGCATATTAGCACCTT-GTCTTTAAGTCCA
1 ATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
* *
2514536 ATGTAGTTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCA
1 ATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
* * * * *
2514584 ATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGCACCTTTAAGTCTA
1 ATATAGCTGGCCTTGAATCAGCACATTGGCACC-TT--CATCTTTAAGTCCA
* *
2514636 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
1 ATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
* * * *
2514685 ATGTAGCTGGCCTTGAATCAGCACATTGGTACC-TCACCTTTAAGCCCA
1 ATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
* * * *
2514733 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCA
1 ATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
** * *
2514781 ACGTCGCTGGCCTTGAATCAGCACATTGTCACCTTCA
1 ATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCA
2514818 AGTCTAACTG
Statistics
Matches: 402, Mismatches: 56, Indels: 27
0.83 0.12 0.06
Matches are distributed among these distances:
43 39 0.10
45 1 0.00
47 4 0.01
48 159 0.40
49 118 0.29
50 35 0.09
51 2 0.00
52 44 0.11
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
ATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
Found at i:2514666 original size:197 final size:193
Alignment explanation
Indices: 2514297--2514808 Score: 631
Period size: 197 Copynumber: 2.6 Consensus size: 193
2514287 TCTAAGTCTG
* * *
2514297 ATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTTAAACCCAATATAGTTGGCCTTG
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTATC-TTTAAGCCCAATATAGTTGGCCTTG
* * *
2514362 AATCAGCACATTGGTACCTTCATCTTTAAGTCCAATGTAGCCGGCCTTGAATCAGC-A---CATT
64 AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCAATTGCATT
*
2514423 GGCACCTTTAAGTCCAATATAGCTGGCCTTGAATTAGCACATTGGCACATTCACCTTTAAGCCCA
129 GGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATTCACCTTTAAGCCCA
* * * * *
2514488 ATATAGTTGGCCTTGAATCAGCATATTAGCACCTTGTCTTTAAGTCCAATGTAGTTGGCCTTGAA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGCCCAATATAGTTGGCCTTGAA
*
2514553 TCAGCACATTGGCA-CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCC
66 TCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA-ATT---G-C
* * * * * * *
2514617 TTTGGCACCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
126 ATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATTCACCTTTAAGC
2514682 CCA
191 CCA
* * * * * * *
2514685 ATGTAGCTGGCCTTGAATCAGCACATTGGTACCTCACCTTTAAGCCCAATATCGCTGGCCTTGAA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGCCCAATATAGTTGGCCTTGAA
* * * *
2514750 TCAGCATATTGGCACCTT-GTCTTTAAGACCAACGTCGCTGGCCTTGAATCAGCACATTG
66 TCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA-ATTG
2514809 TCACCTTCAA
Statistics
Matches: 273, Mismatches: 38, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
188 36 0.13
189 37 0.14
190 5 0.02
191 29 0.11
194 1 0.00
197 162 0.59
198 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (193 bp):
ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGCCCAATATAGTTGGCCTTGAA
TCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCAATTGCATTGG
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATTCACCTTTAAGCCCA
Found at i:2515596 original size:19 final size:19
Alignment explanation
Indices: 2515557--2515640 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
2515547 TTTCAATGAT
2515557 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
2515577 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
2515596 TTGTATCAATAC--AA---
1 TTGTATCGATACATAAGTG
*
2515610 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
2515628 TTGTATCGATACA
1 TTGTATCGATACA
2515641 ATATAAGCTA
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
13 10 0.18
15 2 0.04
17 2 0.04
19 28 0.50
20 14 0.25
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2515619 original size:32 final size:32
Alignment explanation
Indices: 2515578--2515642 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
2515568 CATAAAGTGT
2515578 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
* *
2515610 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
2515642 T
1 T
2515643 ATAAGCTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCAATACAA
Found at i:2523639 original size:13 final size:13
Alignment explanation
Indices: 2523621--2523657 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
2523611 AAGGATCTTA
*
2523621 GTATCGATACATT
1 GTATCGATACACT
2523634 GTATCGATACACT
1 GTATCGATACACT
2523647 GTATCGATACA
1 GTATCGATACA
2523658 AGGGTACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (13 bp):
GTATCGATACACT
Found at i:2523819 original size:12 final size:12
Alignment explanation
Indices: 2523804--2523828 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2523794 TCTTTTCATT
2523804 TTTCATCAAAAA
1 TTTCATCAAAAA
2523816 TTTCATCAAAAA
1 TTTCATCAAAAA
2523828 T
1 T
2523829 AGATTTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (12 bp):
TTTCATCAAAAA
Found at i:2525531 original size:22 final size:23
Alignment explanation
Indices: 2525495--2525561 Score: 100
Period size: 22 Copynumber: 2.9 Consensus size: 23
2525485 TTGAAAATAA
*
2525495 ATTTGACAAAAGGGGGAGAAATT
1 ATTTAACAAAAGGGGGAGAAATT
2525518 ATTTAAC-AAAGGGGGAGAAATT
1 ATTTAACAAAAGGGGGAGAAATT
*
2525540 GTTTAACAAAAAGGGGGAGAAA
1 ATTTAAC-AAAAGGGGGAGAAA
2525562 ATCGTTTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
22 21 0.52
23 6 0.15
24 13 0.32
ACGTcount: A:0.46, C:0.04, G:0.30, T:0.19
Consensus pattern (23 bp):
ATTTAACAAAAGGGGGAGAAATT
Found at i:2525557 original size:24 final size:24
Alignment explanation
Indices: 2525502--2525576 Score: 100
Period size: 22 Copynumber: 3.1 Consensus size: 24
2525492 TAAATTTGAC
*
2525502 AAAAGGGGGAGAAATTATTTAAC-
1 AAAAGGGGGAGAAATTGTTTAACA
2525525 -AAAGGGGGAGAAATTGTTTAACA
1 AAAAGGGGGAGAAATTGTTTAACA
*
2525548 AAAAGGGGGAGAAAATCGTTTTAACA
1 AAAAGGGGGAG-AAATTG-TTTAACA
2525574 AAA
1 AAA
2525577 GAAAGCTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
22 21 0.46
24 10 0.22
25 5 0.11
26 10 0.22
ACGTcount: A:0.48, C:0.05, G:0.27, T:0.20
Consensus pattern (24 bp):
AAAAGGGGGAGAAATTGTTTAACA
Found at i:2526264 original size:20 final size:21
Alignment explanation
Indices: 2526234--2526272 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2526224 AGGTCAAAAC
2526234 CCTAGAAAGTATCGATACAGG
1 CCTAGAAAGTATCGATACAGG
*
2526255 CCTA-AAAGTATTGATACA
1 CCTAGAAAGTATCGATACA
2526273 TATTGCTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (21 bp):
CCTAGAAAGTATCGATACAGG
Found at i:2526301 original size:13 final size:13
Alignment explanation
Indices: 2526283--2526338 Score: 58
Period size: 13 Copynumber: 3.8 Consensus size: 13
2526273 TATTGCTTTG
2526283 TATCGATACATTA
1 TATCGATACATTA
2526296 TATCGATACATGCTCA
1 TATCGATACAT--T-A
2526312 TTGTATCGATACATTA
1 ---TATCGATACATTA
2526328 TATCGATACAT
1 TATCGATACAT
2526339 GCTCATTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 22 0.59
15 1 0.03
16 2 0.05
17 1 0.03
19 11 0.30
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.38
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:2526318 original size:19 final size:19
Alignment explanation
Indices: 2526291--2526378 Score: 89
Period size: 19 Copynumber: 4.9 Consensus size: 19
2526281 TGTATCGATA
*
2526291 CATTATATCGATACATGCT
1 CATTGTATCGATACATGCT
2526310 CATTGTATCGATACAT--T
1 CATTGTATCGATACATGCT
2526327 -A---TATCGATACATGCT
1 CATTGTATCGATACATGCT
**
2526342 CATTGTATCGATACATGAAG
1 CATTGTATCGATACATG-CT
*
2526362 AATTGTATCGATACATG
1 CATTGTATCGATACATG
2526379 AAACAAACAG
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
13 11 0.19
15 1 0.02
16 2 0.03
17 1 0.02
19 27 0.47
20 16 0.28
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:2526318 original size:32 final size:32
Alignment explanation
Indices: 2526280--2526357 Score: 156
Period size: 32 Copynumber: 2.4 Consensus size: 32
2526270 ACATATTGCT
2526280 TTGTATCGATACATTATATCGATACATGCTCA
1 TTGTATCGATACATTATATCGATACATGCTCA
2526312 TTGTATCGATACATTATATCGATACATGCTCA
1 TTGTATCGATACATTATATCGATACATGCTCA
2526344 TTGTATCGATACAT
1 TTGTATCGATACAT
2526358 GAAGAATTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACATTATATCGATACATGCTCA
Found at i:2526368 original size:20 final size:20
Alignment explanation
Indices: 2526343--2526380 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2526333 ATACATGCTC
2526343 ATTGTATCGATACATGAAGA
1 ATTGTATCGATACATGAAGA
2526363 ATTGTATCGATACATGAA
1 ATTGTATCGATACATGAA
2526381 ACAAACAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
ATTGTATCGATACATGAAGA
Found at i:2528176 original size:73 final size:75
Alignment explanation
Indices: 2528048--2528194 Score: 203
Period size: 73 Copynumber: 2.0 Consensus size: 75
2528038 TTATGTCTAT
* * *
2528048 TTATTATTAAATAAATTTCATTTACTCAAAATCTTTTAATAGAAATTAAATTTTTATTTATAAAT
1 TTATTATCAAATAAATTTCATTTACTCAAAATCTTTCAATAGAAATTAAACTTTTATTTATAAAT
2528113 GTGATAAATC
66 GTGATAAATC
* *
2528123 TTATTATCCAATAAA-TTCATTTAAC-C-AAATCTTTCAATA-TAATTAAAACTTTTATTTATAA
1 TTATTATCAAATAAATTTCATTT-ACTCAAAATCTTTCAATAGAAATT-AAACTTTTATTTATAA
2528184 ATGTGATAAAT
64 ATGTGATAAAT
2528195 GTTACTAATA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
72 4 0.06
73 38 0.58
74 8 0.12
75 15 0.23
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (75 bp):
TTATTATCAAATAAATTTCATTTACTCAAAATCTTTCAATAGAAATTAAACTTTTATTTATAAAT
GTGATAAATC
Found at i:2529369 original size:16 final size:17
Alignment explanation
Indices: 2529343--2529379 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
2529333 ATTTCTAATT
2529343 ATTTAAAATTTAAAATA
1 ATTTAAAATTTAAAATA
*
2529360 ATTT-AAATTTAAATTA
1 ATTTAAAATTTAAAATA
2529376 ATTT
1 ATTT
2529380 GATTTGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTAAAATTTAAAATA
Found at i:2532102 original size:2 final size:2
Alignment explanation
Indices: 2532095--2532123 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2532085 AGTTAATAAA
2532095 AT 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 AT A
2532124 AATTGTGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2537008 original size:18 final size:19
Alignment explanation
Indices: 2536967--2537008 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
2536957 TAAAAAATGT
* * *
2536967 ATTATTCTTTTTTTACTTG
1 ATTATGCTTTTTTTAATAG
2536986 ATTATGCTTTTTTTAATAG
1 ATTATGCTTTTTTTAATAG
2537005 -TTAT
1 ATTAT
2537009 TTTAAAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.64
Consensus pattern (19 bp):
ATTATGCTTTTTTTAATAG
Found at i:2542795 original size:14 final size:13
Alignment explanation
Indices: 2542744--2542794 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
2542734 TTAAATTTTA
2542744 TAAAATATATATT
1 TAAAATATATATT
2542757 TAAAA-AT-TATT
1 TAAAATATATATT
* * * *
2542768 TCAATTAAATTTT
1 TAAAATATATATT
2542781 TAAAATATATATT
1 TAAAATATATATT
2542794 T
1 T
2542795 TTTACAATTT
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
11 7 0.25
12 3 0.11
13 18 0.64
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (13 bp):
TAAAATATATATT
Found at i:2543176 original size:13 final size:13
Alignment explanation
Indices: 2543146--2543274 Score: 54
Period size: 13 Copynumber: 10.1 Consensus size: 13
2543136 TATAATACTA
*
2543146 AATATAATTACAT
1 AATATAATTAAAT
* *
2543159 GATATGATTAAAT
1 AATATAATTAAAT
*
2543172 AATATTAA--ATAT
1 AATA-TAATTAAAT
*
2543184 AATATAATTATAT
1 AATATAATTAAAT
** * *
2543197 GCTATGATTATAT
1 AATATAATTAAAT
2543210 AATAT-A-TAATAT
1 AATATAATTAA-AT
2543222 AA-ATAATTAAAAT
1 AATATAATT-AAAT
* *
2543235 ATTAT-ATAAAAT
1 AATATAATTAAAT
* *
2543247 ATTATAATATAAAA
1 AATATAAT-TAAAT
*
2543261 AATATAAATAAAT
1 AATATAATTAAAT
2543274 A
1 A
2543275 TAAATACATA
Statistics
Matches: 87, Mismatches: 19, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
11 7 0.08
12 22 0.25
13 43 0.49
14 15 0.17
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.39
Consensus pattern (13 bp):
AATATAATTAAAT
Found at i:2543203 original size:38 final size:38
Alignment explanation
Indices: 2543136--2543230 Score: 122
Period size: 38 Copynumber: 2.5 Consensus size: 38
2543126 CTGGTTACAT
2543136 TATAATACTAAATATAATTACATGATATGATTAAATAATA
1 TATAATA-T-AATATAATTACATGATATGATTAAATAATA
* * *
2543176 T-TAAATATAATATAATTATATGCTATGATTATATAATA
1 TAT-AATATAATATAATTACATGATATGATTAAATAATA
2543214 TATAATATAA-ATAATTA
1 TATAATATAATATAATTA
2543231 AAATATTATA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
37 7 0.14
38 35 0.70
39 3 0.06
40 5 0.10
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (38 bp):
TATAATATAATATAATTACATGATATGATTAAATAATA
Found at i:2543236 original size:27 final size:27
Alignment explanation
Indices: 2543206--2543286 Score: 78
Period size: 27 Copynumber: 2.9 Consensus size: 27
2543196 TGCTATGATT
*
2543206 ATATAATATATAATATAAATAAT-TAAA
1 ATATAATATA-AATATAAATAATAAAAA
*
2543233 ATATTATATAAAATATTATAAT-ATAAAAA
1 ATATAATAT-AAATA-TA-AATAATAAAAA
2543262 ATATAA-ATAAATATAAATACATAAA
1 ATATAATATAAATATAAATA-ATAAA
2543287 TATTTTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
25 3 0.07
26 2 0.04
27 22 0.49
28 7 0.16
29 11 0.24
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (27 bp):
ATATAATATAAATATAAATAATAAAAA
Found at i:2543250 original size:20 final size:20
Alignment explanation
Indices: 2543213--2543280 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 20
2543203 ATTATATAAT
2543213 ATATAATATAAATAATTAAA
1 ATATAATATAAATAATTAAA
* *
2543233 ATATTATATAAA-ATATTATA
1 ATATAATATAAATA-ATTAAA
2543253 ATATAA-A-AAAT-A-T-AA
1 ATATAATATAAATAATTAAA
2543268 ATA-AATATAAATA
1 ATATAATATAAATA
2543281 CATAAATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
14 2 0.05
15 5 0.13
16 5 0.13
17 1 0.03
18 3 0.08
19 2 0.05
20 21 0.54
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATATAATATAAATAATTAAA
Found at i:2543312 original size:49 final size:56
Alignment explanation
Indices: 2543206--2543322 Score: 133
Period size: 50 Copynumber: 2.2 Consensus size: 56
2543196 TGCTATGATT
*
2543206 ATATAATATATAATATAAATAATTAAAATATTATATAAAATATTATAATATAAAAA
1 ATATAATATATAATATAAATAATTAAAATATTATATAAAATATTAAAATATAAAAA
2543262 ATATAA-ATA-AATATAAATACA-T-AAATATT-T-T-AAA-ATTAAAATAATAAAAA
1 ATATAATATATAATATAAATA-ATTAAAATATTATATAAAATATTAAAAT-ATAAAAA
* *
2543312 TTATTATATAT
1 ATATAATATAT
2543323 TGAAATTTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
49 7 0.13
50 14 0.26
51 4 0.07
52 1 0.02
53 7 0.13
54 11 0.20
55 4 0.07
56 6 0.11
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.38
Consensus pattern (56 bp):
ATATAATATATAATATAAATAATTAAAATATTATATAAAATATTAAAATATAAAAA
Found at i:2543679 original size:28 final size:28
Alignment explanation
Indices: 2543641--2543728 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 28
2543631 TATTTATCTT
* *
2543641 TTATTACTTAATATAAATATACTTTTAA
1 TTATTATTTAATATAAATATAATTTTAA
* *
2543669 TTATTATTTAATATGAATATAATTTATATT
1 TTATTATTTAATATAAATATAATTT-TA-A
*
2543699 TTAATATTTAATATAAATATAATTTTAA
1 TTATTATTTAATATAAATATAATTTTAA
2543727 TT
1 TT
2543729 TTTAATTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
28 24 0.47
29 4 0.08
30 23 0.45
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (28 bp):
TTATTATTTAATATAAATATAATTTTAA
Found at i:2543709 original size:30 final size:29
Alignment explanation
Indices: 2543639--2543763 Score: 114
Period size: 30 Copynumber: 4.3 Consensus size: 29
2543629 TATATTTATC
* * *
2543639 TTTTATTACTTAATATAAATATACTTTTA
1 TTTTAATATTTAATATAAATATAATTTTA
* * *
2543668 -ATTATTATTTAATATGAATATAATTTATA
1 TTTTAATATTTAATATAAATATAATTT-TA
2543697 TTTTAATATTTAATATAAATATAATTTTAA
1 TTTTAATATTTAATATAAATATAATTTT-A
*
2543727 TTTTTAATTATTT-AT-TATATAT-ATTTTA
1 -TTTTAA-TATTTAATATAAATATAATTTTA
*
2543755 ATTTAATAT
1 TTTTAATAT
2543764 CTTTAATAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
26 3 0.04
27 5 0.06
28 23 0.28
29 8 0.10
30 30 0.37
31 8 0.10
32 5 0.06
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.57
Consensus pattern (29 bp):
TTTTAATATTTAATATAAATATAATTTTA
Found at i:2543718 original size:64 final size:65
Alignment explanation
Indices: 2543602--2543743 Score: 155
Period size: 64 Copynumber: 2.2 Consensus size: 65
2543592 TTATTTAATA
* * *
2543602 TAATTATTAATTAACATAAATATAATTTATATTTATCTTTTATTACTTAATATAAATAT-ACTTT
1 TAATTATTAATTAACATAAATATAATTTATATTTATCATTTAATACTAAATATAAATATAACTTT
* * * * * *
2543666 TAATTATTATTTAATATGAATATAATTTATATTTTAAT-ATTTAATA-TAAATATAATTTTAATT
1 TAATTATTAATTAACATAAATATAATTTATA-TTT-ATCATTTAATACTAAATATAAATATAACT
2543729 TT
64 TT
*
2543731 TAATTATTTATTA
1 TAATTATTAATTA
2543744 TATATATTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
64 38 0.59
65 24 0.38
66 2 0.03
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (65 bp):
TAATTATTAATTAACATAAATATAATTTATATTTATCATTTAATACTAAATATAAATATAACTTT
Found at i:2543723 original size:24 final size:24
Alignment explanation
Indices: 2543675--2543734 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
2543665 TTAATTATTA
* *
2543675 TTTAATA-TGAATATAATTTATAT
1 TTTAATATTTAATATAATATATAT
2543698 TTTAATATTTAATATAA-ATATAAT
1 TTTAATATTTAATATAATATAT-AT
*
2543722 TTTAATTTTTAAT
1 TTTAATATTTAAT
2543735 TATTTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.31
24 22 0.69
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTAATATTTAATATAATATATAT
Found at i:2543747 original size:58 final size:59
Alignment explanation
Indices: 2543598--2543763 Score: 164
Period size: 58 Copynumber: 2.9 Consensus size: 59
2543588 TTAATTATTT
* * * * *
2543598 AATATAATTATTAATTA--ACATAAATAT-AATTTATATTTATCTTTTATTACTTAATATA
1 AATATAATT-TTAATTATTA-ATTAATATGAATATATATTTATATTTTAATATTTAATATA
* *
2543656 AATATACTTTTAATTATTATTTAATATGAATATA-ATTTATATTTTAATATTTAATATA
1 AATATAATTTTAATTATTAATTAATATGAATATATATTTATATTTTAATATTTAATATA
* * * *
2543714 AATATAATTTTAATTTTTAATTATTTAT-TATATATATTT-TAATTTAATAT
1 AATATAATTTTAATTATTAATTA-ATATGAATATATATTTATATTTTAATAT
2543764 CTTTAATAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 10
0.80 0.12 0.09
Matches are distributed among these distances:
57 7 0.08
58 70 0.78
59 13 0.14
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (59 bp):
AATATAATTTTAATTATTAATTAATATGAATATATATTTATATTTTAATATTTAATATA
Found at i:2543768 original size:28 final size:27
Alignment explanation
Indices: 2543685--2543779 Score: 72
Period size: 28 Copynumber: 3.4 Consensus size: 27
2543675 TTTAATATGA
2543685 ATATAA-TTTATATTTTAA-TATTTAATAT
1 ATATAATTTTA-ATTTTAATTATTT-AT-T
2543713 AAATATAATTTTAATTTTTAATTATTTATT
1 --ATATAATTTTAA-TTTTAATTATTTATT
* *
2543743 ATATATATTTTAA-TTTAATATCTTTAAT
1 ATATA-ATTTTAATTTTAAT-TATTTATT
2543771 A-ATAATTTT
1 ATATAATTTT
2543780 TTTAATTATA
Statistics
Matches: 58, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
26 5 0.09
27 9 0.16
28 12 0.21
29 7 0.12
30 8 0.14
31 12 0.21
32 5 0.09
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (27 bp):
ATATAATTTTAATTTTAATTATTTATT
Found at i:2543792 original size:15 final size:15
Alignment explanation
Indices: 2543750--2543792 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2543740 ATTATATATA
*
2543750 TTTTAATT-TAATAT
1 TTTTAATTATAATTT
* *
2543764 CTTTAATAATAATTT
1 TTTTAATTATAATTT
2543779 TTTTAATTATAATT
1 TTTTAATTATAATT
2543793 CAGCTCAACG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTAATTATAATTT
Found at i:2544314 original size:19 final size:19
Alignment explanation
Indices: 2544287--2544326 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2544277 ATAGGGTATC
*
2544287 TAAAATTGTTATATGCATT
1 TAAAATTGTTATATGAATT
*
2544306 TAAAGTTGTTATATGAATT
1 TAAAATTGTTATATGAATT
2544325 TA
1 TA
2544327 TATAGATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (19 bp):
TAAAATTGTTATATGAATT
Found at i:2544497 original size:19 final size:20
Alignment explanation
Indices: 2544475--2544529 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
2544465 ATTTACTATT
2544475 AAAAGTTAAATTAAATTT-A
1 AAAAGTTAAATTAAATTTAA
2544494 AAAAGTTAAA--AAATTTTAA
1 AAAAGTTAAATTAAA-TTTAA
2544513 AAAAGTTAAATTAAATT
1 AAAAGTTAAATTAAATT
2544530 ATTTTAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 3 0.09
18 3 0.09
19 21 0.66
20 2 0.06
21 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
AAAAGTTAAATTAAATTTAA
Found at i:2544526 original size:24 final size:24
Alignment explanation
Indices: 2544499--2544545 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
2544489 ATTTAAAAAG
*
2544499 TTAAAAAATTTTAAAAAAGTTAAA
1 TTAAAAAATTTTAAAAAAATTAAA
**
2544523 TTAAATTATTTTAAAAAAATTAA
1 TTAAAAAATTTTAAAAAAATTAA
2544546 TTTCAGCTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
TTAAAAAATTTTAAAAAAATTAAA
Found at i:2544556 original size:24 final size:24
Alignment explanation
Indices: 2544506--2544561 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
2544496 AAGTTAAAAA
* *
2544506 ATTTTAAAAAAGTTAAATTAAATT
1 ATTTTAAAAAAATTAAATTAAACT
* * *
2544530 ATTTTAAAAAAATTAATTTCAGCT
1 ATTTTAAAAAAATTAAATTAAACT
2544554 ATTTTAAA
1 ATTTTAAA
2544562 TTCAAAACTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (24 bp):
ATTTTAAAAAAATTAAATTAAACT
Found at i:2544994 original size:2 final size:2
Alignment explanation
Indices: 2544987--2545014 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2544977 CTATATCCAA
2544987 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2545015 GTTTTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2547098 original size:19 final size:18
Alignment explanation
Indices: 2547044--2547098 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
2547034 ATTTTTTAAA
*
2547044 AATTATATAAATTAATAT
1 AATTATATAAATTAATAC
* * *
2547062 AATTATTTTTAATCAATAC
1 AATTA-TATAAATTAATAC
2547081 AATTATAATAAATTAATA
1 AATTAT-ATAAATTAATA
2547099 TTTATCAACA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTATATAAATTAATAC
Found at i:2556702 original size:21 final size:21
Alignment explanation
Indices: 2556678--2556718 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2556668 ATCAAATCTT
* *
2556678 TTTCAAATTTCTTCATTTTTA
1 TTTCAAAATACTTCATTTTTA
2556699 TTTCAAAATACTTCATTTTT
1 TTTCAAAATACTTCATTTTT
2556719 CATCAAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTCAAAATACTTCATTTTTA
Found at i:2556724 original size:20 final size:20
Alignment explanation
Indices: 2556688--2556727 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
2556678 TTTCAAATTT
2556688 CTTCATTTTTATTTCAAAATA
1 CTTCATTTTTA-TTCAAAATA
2556709 CTTCATTTTTCA-TCAAAAT
1 CTTCATTTTT-ATTCAAAAT
2556728 CACCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 10 0.56
22 1 0.06
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (20 bp):
CTTCATTTTTATTCAAAATA
Found at i:2559092 original size:13 final size:13
Alignment explanation
Indices: 2559074--2559100 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2559064 ACATTATGCT
2559074 TTGTATCGATACA
1 TTGTATCGATACA
2559087 TTGTATCGATACA
1 TTGTATCGATACA
2559100 T
1 T
2559101 GTTTATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2559130 original size:20 final size:20
Alignment explanation
Indices: 2559086--2559140 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
2559076 GTATCGATAC
***
2559086 ATTGTATCGATACAT-GTTT
1 ATTGTATCGATACATGGACA
2559105 ATTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
*
2559125 ATTGTATTGATACATG
1 ATTGTATCGATACATG
2559141 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:2562627 original size:22 final size:21
Alignment explanation
Indices: 2562577--2562633 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
2562567 AAATTTGCCT
2562577 GCATGTATCGATACAATGATA
1 GCATGTATCGATACAATGATA
*
2562598 -AATGTATCGATACAATTTGA-A
1 GCATGTATCGATACAA--TGATA
2562619 GCATGTATCGATACA
1 GCATGTATCGATACA
2562634 TTTATTAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 14 0.45
21 1 0.03
22 16 0.52
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (21 bp):
GCATGTATCGATACAATGATA
Found at i:2562654 original size:20 final size:20
Alignment explanation
Indices: 2562579--2562656 Score: 86
Period size: 20 Copynumber: 3.8 Consensus size: 20
2562569 ATTTGCCTGC
* *
2562579 ATGTATCGATACAATGATAA
1 ATGTATCGATACATTTATAA
*
2562599 ATGTATCGATACAATTTGA-AGC
1 ATGTATCGATAC-ATTT-ATA-A
*
2562621 ATGTATCGATACATTTATTA
1 ATGTATCGATACATTTATAA
2562641 ATGTATCGATACATTT
1 ATGTATCGATACATTT
2562657 CCTTGGCAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
20 29 0.59
21 7 0.14
22 13 0.27
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTTATAA
Found at i:2562705 original size:19 final size:18
Alignment explanation
Indices: 2562681--2562743 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
2562671 GTGGTAGTTT
2562681 TGTATCGATACAGAACTTA
1 TGTATCGATACA-AACTTA
2562700 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2562713 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
2562732 TGTATCGATACA
1 TGTATCGATACA
2562744 TTTACTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 2 0.05
19 22 0.58
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:2562718 original size:13 final size:13
Alignment explanation
Indices: 2562700--2562724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2562690 ACAGAACTTA
2562700 TGTATCGATACAT
1 TGTATCGATACAT
2562713 TGTATCGATACA
1 TGTATCGATACA
2562725 AAACTTATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2562721 original size:32 final size:32
Alignment explanation
Indices: 2562680--2562745 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
2562670 CGTGGTAGTT
*
2562680 TTGTATCGATACAGAACTTATGTATCGATACA
1 TTGTATCGATACAAAACTTATGTATCGATACA
2562712 TTGTATCGATACAAAACTTATGTATCGATACA
1 TTGTATCGATACAAAACTTATGTATCGATACA
2562744 TT
1 TT
2562746 TACTATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAAAACTTATGTATCGATACA
Found at i:2563524 original size:61 final size:61
Alignment explanation
Indices: 2563454--2563595 Score: 169
Period size: 61 Copynumber: 2.3 Consensus size: 61
2563444 AGTACCAAAG
* * *
2563454 TGCTGATTCAAGGTTAGCGACGTTGGACTT-AAGAATGCAAAGAATGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCTAGCGACATCGGACTTGAAG-ATGCAAAGAATGATAAAGGTGCCAATA
* * * * * * *
2563515 TGCTAATTCACGACCAGCAATATCGGGCTTGAAGATGCAAAGAATGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCTAGCGACATCGGACTTGAAGATGCAAAGAATGATAAAGGTGCCAATA
*
2563576 TGTTGATTCAAGGCTAGCGA
1 TGCTGATTCAAGGCTAGCGA
2563596 TATTGAGCTC
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
61 61 0.95
62 3 0.05
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.24
Consensus pattern (61 bp):
TGCTGATTCAAGGCTAGCGACATCGGACTTGAAGATGCAAAGAATGATAAAGGTGCCAATA
Found at i:2563611 original size:61 final size:61
Alignment explanation
Indices: 2563488--2563621 Score: 169
Period size: 61 Copynumber: 2.2 Consensus size: 61
2563478 GGACTTAAGA
* * **
2563488 ATGCAAAGAATGATAAAGGTGCCAATATGCTAATTCACGACCAGCAATATCGGGCTTGAAG
1 ATGCAAAGAATGATAAAGGTGCCAATATGCTAATTCAAGACCAGCAATATCGAGCTCAAAG
* * * * * *
2563549 ATGCAAAGAATGATAAAGGTGCCAATATGTTGATTCAAGGCTAGCGATATTGAGCTCAAAG
1 ATGCAAAGAATGATAAAGGTGCCAATATGCTAATTCAAGACCAGCAATATCGAGCTCAAAG
*
2563610 ATGCGAAGAATG
1 ATGCAAAGAATG
2563622 CCAATGTGTT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (61 bp):
ATGCAAAGAATGATAAAGGTGCCAATATGCTAATTCAAGACCAGCAATATCGAGCTCAAAG
Found at i:2563632 original size:52 final size:52
Alignment explanation
Indices: 2563568--2563708 Score: 158
Period size: 52 Copynumber: 2.7 Consensus size: 52
2563558 ATGATAAAGG
* * *
2563568 TGCCAATATGTTGATTCAAGGCTAGCGATATTGAGCTCAAAGATGCGAAGAA
1 TGCCAATGTGTTGATTCAAGGCTAGCGACATTGAGCTCAAAGATGAGAAGAA
* * **
2563620 TGCCAATGTGTTGATTCACGGCCAGCGACATT-AGACTTGAAGATGAGAAGAA
1 TGCCAATGTGTTGATTCAAGGCTAGCGACATTGAG-CTCAAAGATGAGAAGAA
* * * * *
2563672 TGCTAATGTGCTAATTTAAGGCTAACGACATTGAGCT
1 TGCCAATGTGTTGATTCAAGGCTAGCGACATTGAGCT
2563709 TAGGAGTGAT
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
51 2 0.03
52 69 0.95
53 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (52 bp):
TGCCAATGTGTTGATTCAAGGCTAGCGACATTGAGCTCAAAGATGAGAAGAA
Found at i:2563826 original size:52 final size:51
Alignment explanation
Indices: 2563619--2563838 Score: 194
Period size: 52 Copynumber: 4.3 Consensus size: 51
2563609 GATGCGAAGA
* * * * *
2563619 ATGCCAATGTGTTGATTCACGGCCAGCGACATTAGACTTGAAGATGAG-AAG
1 ATGCTAATGTGCTGATTCAAGGCCAACGACATTGGACTT-AAGATGAGAAAG
* * * * *
2563670 AATGCTAATGTGCTAATTTAAGGCTAACGACATT-GAGCTTAGGAGTGATAAAG
1 -ATGCTAATGTGCTGATTCAAGGCCAACGACATTGGA-CTTAAGA-TGAGAAAG
* * * * *
2563723 ATGC-AATATGCTGATTCAAGGCAAACGATATTGGACTTAAGAAAGAAAAAG
1 ATGCTAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAG-ATGAGAAAG
* *
2563774 GTGCTAATGTGCTGATTCAAGGCCAACGACATTGGACTTTAAGATGGGAAAG
1 ATGCTAATGTGCTGATTCAAGGCCAACGACATTGGAC-TTAAGATGAGAAAG
* *
2563826 GTGCTAATATGCT
1 ATGCTAATGTGCT
2563839 TGTCGCAACG
Statistics
Matches: 136, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
51 42 0.31
52 86 0.63
53 8 0.06
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (51 bp):
ATGCTAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAGATGAGAAAG
Found at i:2564876 original size:79 final size:79
Alignment explanation
Indices: 2564781--2564973 Score: 239
Period size: 79 Copynumber: 2.4 Consensus size: 79
2564771 TATTTTGGAG
* * *
2564781 ATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAATGAGG-TTGGAGTATCCCCGATTGTG-AAA
1 ATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAATG-GGATTGGAGTATCCCCGATTATGAAAA
*
2564844 AATTGATGTTTT-AGAA
65 AATAG-TGTTTTGA-AA
* * * * *
2564860 ATAAAACTGAGGTTAGAGTATTCCCGCAGAAATAATGGGATTGGAGTATCCTCGATTATGAAAAA
1 ATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAATGGGATTGGAGTATCCCCGATTATGAAAAA
2564925 ATAGTGTTTTGAAA
66 ATAGTGTTTTGAAA
* *
2564939 ATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAA
1 ATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAA
2564974 CGGGGTTAGA
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
78 2 0.02
79 86 0.90
80 8 0.08
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.27
Consensus pattern (79 bp):
ATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAATGGGATTGGAGTATCCCCGATTATGAAAAA
ATAGTGTTTTGAAA
Done.