Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006963.1 Hibiscus syriacus cultivar Beakdansim tig00017920_pilon, whole genome shotgun sequence
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: 174981
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:982 original size:21 final size:21
Alignment explanation
Indices: 915--1134 Score: 139
Period size: 21 Copynumber: 10.8 Consensus size: 21
905 CGCGTTGCAT
* *
915 TTCGCGTTGCGATAATTGAAA
1 TTCGCGTTGCGATAGTTCAAA
* * * *
936 ATCGCATTGCGAT--TTCCAT
1 TTCGCGTTGCGATAGTTCAAA
*
955 TTCGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGATAGTTCAAA
* * * * *
976 ATCGCGTTACGAT-TTTCCAT
1 TTCGCGTTGCGATAGTTCAAA
*
996 TTCGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGATAGTTCAAA
* * * *
1017 ATCGCGTTGCGAT-TTTCCAT
1 TTCGCGTTGCGATAGTTCAAA
*
1037 TTCGCGTTGCGATAG-TCTACA
1 TTCGCGTTGCGATAGTTC-AAA
* * * *
1058 GTCGCGTTGCGAT-TTTCCAT
1 TTCGCGTTGCGATAGTTCAAA
*
1078 TTCGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGATAGTTCAAA
* * * *
1099 TTCGCGTTGCGGT-TTTCCAT
1 TTCGCGTTGCGATAGTTCAAA
1119 TTCGCGTTGCGATAGT
1 TTCGCGTTGCGATAGT
1135 CTACAGTGGG
Statistics
Matches: 142, Mismatches: 49, Indels: 16
0.69 0.24 0.08
Matches are distributed among these distances:
19 14 0.10
20 58 0.41
21 70 0.49
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTTCAAA
Found at i:1002 original size:20 final size:20
Alignment explanation
Indices: 937--1131 Score: 151
Period size: 20 Copynumber: 9.6 Consensus size: 20
927 TAATTGAAAA
*
937 TCGCATTGCGA-TTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
956 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
977 TCGCGTTACGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
997 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
1018 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * *
1038 TCGCGTTGCGATAGTCTACA-G
1 TCGCGTTGCGAT--TTTCCATT
1059 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** *
1079 TCGCGTTGCGATAGTTGAAAT
1 TCGCGTTGCGAT-TTTCCATT
*
1100 TCGCGTTGCGGTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
1120 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1132 AGTCTACAGT
Statistics
Matches: 130, Mismatches: 39, Indels: 13
0.71 0.21 0.07
Matches are distributed among these distances:
19 14 0.11
20 56 0.43
21 56 0.43
22 4 0.03
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:1005 original size:41 final size:41
Alignment explanation
Indices: 912--1134 Score: 360
Period size: 41 Copynumber: 5.5 Consensus size: 41
902 ATTCGCGTTG
* *
912 CATTTCGCGTTGCGATAATTGAAAATCGCATTGCGA-TTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
952 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTACGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
993 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
1034 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
* *
1075 CATTTCGCGTTGCGATAGTTGAAATTCGCGTTGCGGTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1116 CATTTCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
1135 CTACAGTGGG
Statistics
Matches: 171, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
40 34 0.20
41 136 0.80
42 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:1723 original size:20 final size:20
Alignment explanation
Indices: 1700--1800 Score: 60
Period size: 20 Copynumber: 5.0 Consensus size: 20
1690 AGATCGCGTT
1700 GCGATTTCAACTATCGCAAC
1 GCGATTTCAACTATCGCAAC
* ** *
1720 GCGAAATGGAA-AATCGCAAC
1 GCG-ATTTCAACTATCGCAAC
* *
1740 GCGATCTCCAACTAACGCAAC
1 GCGAT-TTCAACTATCGCAAC
** * ** *
1761 GCGAAATGAAAAAACGCAAC
1 GCGATTTCAACTATCGCAAC
1781 GCGATTTTCAACTATCGCAA
1 GCGA-TTTCAACTATCGCAA
1801 TACGAAATGC
Statistics
Matches: 56, Mismatches: 21, Indels: 7
0.67 0.25 0.08
Matches are distributed among these distances:
19 1 0.02
20 31 0.55
21 24 0.43
ACGTcount: A:0.39, C:0.27, G:0.18, T:0.17
Consensus pattern (20 bp):
GCGATTTCAACTATCGCAAC
Found at i:1759 original size:41 final size:41
Alignment explanation
Indices: 1707--1809 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
1697 GTTGCGATTT
* *
1707 CAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTC
1 CAACTATCGCAACGCGAAATGAAAAAACGCAACGCGATCTC
* * *
1748 CAACTAACGCAACGCGAAATGAAAAAACGCAACGCGATTTT
1 CAACTATCGCAACGCGAAATGAAAAAACGCAACGCGATCTC
**
1789 CAACTATCGCAATACGAAATG
1 CAACTATCGCAACGCGAAATG
1810 CATCGTGAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.41, C:0.26, G:0.17, T:0.16
Consensus pattern (41 bp):
CAACTATCGCAACGCGAAATGAAAAAACGCAACGCGATCTC
Found at i:10650 original size:23 final size:23
Alignment explanation
Indices: 10621--10676 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
10611 CAGCTCGTAT
* *
10621 AAATGCATCGAAGTGCCACGTAG
1 AAATGCATCGAAGTACCACATAG
* *
10644 AATTGCACCGAAGTACCACATAG
1 AAATGCATCGAAGTACCACATAG
10667 AAATGCATCG
1 AAATGCATCG
10677 TAGTTTCATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (23 bp):
AAATGCATCGAAGTACCACATAG
Found at i:15351 original size:31 final size:31
Alignment explanation
Indices: 15313--15387 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
15303 AAATTGAAAA
* *
15313 TTTAGGTACTAAAACGAATTATAACTGATAG
1 TTTAGGTACTAAAACGAATCATAACTAATAG
*
15344 TTTAGGTACTAAAACGGATCATAACTAATAG
1 TTTAGGTACTAAAACGAATCATAACTAATAG
*
15375 TTTAGATACTAAA
1 TTTAGGTACTAAA
15388 CGCGTTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.32
Consensus pattern (31 bp):
TTTAGGTACTAAAACGAATCATAACTAATAG
Found at i:16279 original size:21 final size:21
Alignment explanation
Indices: 16263--16330 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
16253 GCGTTGCATT
16263 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
16284 TCGCGTTGCGA-ATTTCG-AAA
1 TCGCGTTGCGATAGTT-GAAAA
*
16304 T-TCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
16324 TCGCGTT
1 TCGCGTT
16331 ACGAATTTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 9 0.23
20 14 0.36
21 16 0.41
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:16310 original size:40 final size:40
Alignment explanation
Indices: 16266--16357 Score: 175
Period size: 40 Copynumber: 2.3 Consensus size: 40
16256 TTGCATTTCG
*
16266 CGTTGCGATAGTTGAAAATCGCGTTGCGAATTTCGAAATT
1 CGTTGCGATAGTTGAAAATCGCGTTACGAATTTCGAAATT
16306 CGTTGCGATAGTTGAAAATCGCGTTACGAATTTCGAAATT
1 CGTTGCGATAGTTGAAAATCGCGTTACGAATTTCGAAATT
16346 CGTTGCGATAGT
1 CGTTGCGATAGT
16358 CTACAGTTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (40 bp):
CGTTGCGATAGTTGAAAATCGCGTTACGAATTTCGAAATT
Found at i:16311 original size:19 final size:19
Alignment explanation
Indices: 16287--16353 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 19
16277 TTGAAAATCG
16287 CGTTGCGAATTTCGAAATT
1 CGTTGCGAATTTCGAAATT
* *
16306 CGTTGCGATAGTT-GAAAATCG
1 CGTTGCGA-ATTTCG-AAAT-T
*
16327 CGTTACGAATTTCGAAATT
1 CGTTGCGAATTTCGAAATT
16346 CGTTGCGA
1 CGTTGCGA
16354 TAGTCTACAG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 16 0.42
20 14 0.37
21 8 0.21
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (19 bp):
CGTTGCGAATTTCGAAATT
Found at i:16343 original size:21 final size:21
Alignment explanation
Indices: 16263--16343 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
16253 GCGTTGCATT
*
16263 TCGCGTTGCGATAGTT-GAAAA
1 TCGCGTTGCGA-ATTTCGAAAA
16284 TCGCGTTGCGAATTTCG-AAA
1 TCGCGTTGCGAATTTCGAAAA
* *
16304 T-TCGTTGCGATAGTT-GAAAA
1 TCGCGTTGCGA-ATTTCGAAAA
*
16324 TCGCGTTACGAATTTCGAAA
1 TCGCGTTGCGAATTTCGAAA
16344 TTCGTTGCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
19 9 0.18
20 17 0.35
21 23 0.47
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (21 bp):
TCGCGTTGCGAATTTCGAAAA
Found at i:16416 original size:6 final size:6
Alignment explanation
Indices: 16405--16440 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
16395 AAATTCGGTG
16405 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
16441 CGAGACGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:16741 original size:20 final size:20
Alignment explanation
Indices: 16716--16808 Score: 114
Period size: 20 Copynumber: 4.6 Consensus size: 20
16706 ATTTTCAACT
16716 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* ** ** *
16736 ATCGCAATGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
16757 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
16777 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
16797 ATAGCAACGCGA
1 ATCGCAACGCGA
16809 TTTTCAACTA
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
20 45 0.76
21 14 0.24
ACGTcount: A:0.41, C:0.22, G:0.23, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:16742 original size:41 final size:41
Alignment explanation
Indices: 16680--16788 Score: 191
Period size: 41 Copynumber: 2.7 Consensus size: 41
16670 ATCGCAACGA
* *
16680 AACGTGAAATGGAAAAGCGCAACGCGATTTTCAACTATCGC
1 AACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGC
*
16721 AACGCGAAATGGAAAATCGCAATGCGATTTTCAACTATCGC
1 AACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGC
16762 AACGCGAAATGGAAAATCGCAACGCGA
1 AACGCGAAATGGAAAATCGCAACGCGA
16789 AATGGAAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (41 bp):
AACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGC
Found at i:16786 original size:61 final size:61
Alignment explanation
Indices: 16716--16833 Score: 218
Period size: 61 Copynumber: 1.9 Consensus size: 61
16706 ATTTTCAACT
* *
16716 ATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAAATAGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
16777 ATCGCAACGCGAAATGGAAAATAGCAACGCGATTTTCAACTATCGCAACGCGAAATG
1 ATCGCAACGCGAAATGGAAAATAGCAACGCGATTTTCAACTATCGCAACGCGAAATG
16834 CAACGCGAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (61 bp):
ATCGCAACGCGAAATGGAAAATAGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
Found at i:17942 original size:14 final size:13
Alignment explanation
Indices: 17920--17965 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
17910 CCTCGCAAAG
*
17920 CTCGCTCGGATAGC
1 CTCGGTCGGAT-GC
17934 CTCGGTCGGATGCC
1 CTCGGTCGGATG-C
17948 CTCGGTCGGATGGC
1 CTCGGTCGGAT-GC
17962 CTCG
1 CTCG
17966 AATGCCCAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 1 0.03
14 27 0.93
15 1 0.03
ACGTcount: A:0.09, C:0.35, G:0.35, T:0.22
Consensus pattern (13 bp):
CTCGGTCGGATGC
Found at i:33940 original size:21 final size:20
Alignment explanation
Indices: 33834--34030 Score: 89
Period size: 20 Copynumber: 9.8 Consensus size: 20
33824 AAATGACCAA
**
33834 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* **
33853 AAAAATCGCAACGCGA-TCC
1 CAAAATCGCAACGCGATTTT
* *
33872 CTAGAATCGCAACGCGATCCTT
1 C-AAAATCGCAACGCGAT-TTT
* ** *
33894 -AGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
33913 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
33934 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
33955 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
33975 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
* * *
33996 GAAAATCGCAACGCGA-ATA
1 CAAAATCGCAACGCGATTTT
34015 CATAAATCGCAACGCG
1 CA-AAATCGCAACGCG
34031 TATCCGTAAA
Statistics
Matches: 132, Mismatches: 36, Indels: 19
0.71 0.19 0.10
Matches are distributed among these distances:
19 18 0.14
20 68 0.52
21 46 0.35
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:34194 original size:20 final size:20
Alignment explanation
Indices: 33979--34207 Score: 233
Period size: 20 Copynumber: 11.4 Consensus size: 20
33969 GATTTTCAAG
** *
33979 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGTA
* *
33999 AATCGCAACGCGAATACATA
1 AATCGCAACGCGAATCCGTA
*
34019 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* * *
34039 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
34059 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* * *
34079 AATCGCAATGTGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
34099 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
**
34119 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
34139 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGTA
**
34159 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
34179 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGTA
*
34199 AATCACAAC
1 AATCGCAAC
34208 ACTGAAATTT
Statistics
Matches: 181, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 181 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:34939 original size:24 final size:24
Alignment explanation
Indices: 34900--34946 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
34890 AAATTTGGTC
34900 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
34924 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
34947 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:37479 original size:33 final size:33
Alignment explanation
Indices: 37428--37599 Score: 159
Period size: 33 Copynumber: 5.0 Consensus size: 33
37418 CGGAAATTAC
* *
37428 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACAAGAAAATCGCAATGCGAAATGAA
*
37461 AATCCCAACAAGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACAAGAAAATCGCAATGC-GAAATGAA
* * *
37495 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--C--AA-GAAAATCGCAATGCGA-AAT-GAA
* *
37534 AATGCGGAA-ATGAAAATCGCAATGCGAAATGAA
1 AAT-CGCAACAAGAAAATCGCAATGCGAAATGAA
* *
37567 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACAAGAAAATCGCAATGCGAAATGAA
37600 TTGCGATTTT
Statistics
Matches: 112, Mismatches: 16, Indels: 22
0.75 0.11 0.15
Matches are distributed among these distances:
32 5 0.04
33 49 0.44
34 29 0.26
35 1 0.01
36 1 0.01
38 4 0.04
39 18 0.16
40 5 0.04
ACGTcount: A:0.47, C:0.18, G:0.23, T:0.13
Consensus pattern (33 bp):
AATCGCAACAAGAAAATCGCAATGCGAAATGAA
Found at i:37495 original size:20 final size:19
Alignment explanation
Indices: 37442--37599 Score: 166
Period size: 19 Copynumber: 9.0 Consensus size: 19
37432 GCAACGAGAG
37442 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
37461 AATCCCAA--C--AA-GAA
1 AATCGCAATGCGAAATGAA
37475 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
37495 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
37514 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
37528 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
37548 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
37567 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
37581 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
37600 TTGCGATTTT
Statistics
Matches: 116, Mismatches: 6, Indels: 34
0.74 0.04 0.22
Matches are distributed among these distances:
14 30 0.26
15 4 0.03
16 4 0.03
17 6 0.05
18 1 0.01
19 44 0.38
20 27 0.23
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:37505 original size:53 final size:53
Alignment explanation
Indices: 37442--37599 Score: 282
Period size: 53 Copynumber: 3.0 Consensus size: 53
37432 GCAACGAGAG
* * *
37442 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
37495 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
37548 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
37600 TTGCGATTTT
Statistics
Matches: 102, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 8 0.08
53 94 0.92
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
Found at i:37585 original size:86 final size:84
Alignment explanation
Indices: 37428--37599 Score: 226
Period size: 86 Copynumber: 2.0 Consensus size: 84
37418 CGGAAATTAC
37428 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATG
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAA-GCGG-AATG
37493 AAAATCGCAATGCGAAATGAA
64 AAAATCGCAATGCGAAATGAA
*
37514 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-C-G
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAA--C--AA-GAAAATCGCAAGCGG
*
37577 -A-GAGAATCGCAATGCGAAATGAA
60 AATGAAAATCGCAATGCGAAATGAA
37600 TTGCGATTTT
Statistics
Matches: 78, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
86 46 0.59
87 16 0.21
89 2 0.03
90 1 0.01
91 2 0.03
92 11 0.14
ACGTcount: A:0.47, C:0.18, G:0.23, T:0.13
Consensus pattern (84 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAAGCGGAATGAA
AATCGCAATGCGAAATGAA
Found at i:37637 original size:19 final size:19
Alignment explanation
Indices: 37599--37687 Score: 125
Period size: 19 Copynumber: 4.9 Consensus size: 19
37589 TGCGAAATGA
37599 ATTGCGATTTTCATTTTCGC
1 ATTGCGATTTTCA-TTTCGC
37619 ATTGCGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGC
*
37638 ATTGCGA--TTC-TCTCG-
1 ATTGCGATTTTCATTTCGC
37653 -TTGCGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGC
37671 ATTGCGATTTTCATTTC
1 ATTGCGATTTTCATTTC
37688 AACATAATGC
Statistics
Matches: 62, Mismatches: 2, Indels: 11
0.83 0.03 0.15
Matches are distributed among these distances:
14 6 0.10
16 7 0.11
17 7 0.11
19 29 0.47
20 13 0.21
ACGTcount: A:0.15, C:0.21, G:0.16, T:0.48
Consensus pattern (19 bp):
ATTGCGATTTTCATTTCGC
Found at i:37797 original size:14 final size:14
Alignment explanation
Indices: 37778--37814 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
37768 CATCAATTAC
37778 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
37792 ACAAATCATCTTTT
1 ACAAATCAACTTTT
37806 ACAAATCAA
1 ACAAATCAA
37815 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:39814 original size:14 final size:14
Alignment explanation
Indices: 39795--39851 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
39785 GCGAAATGAA
*
39795 AATCGCAACGACAG
1 AATCGCAACGAAAG
39809 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
39826 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
39842 AATCGCAACG
1 AATCGCAACG
39852 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:39822 original size:33 final size:33
Alignment explanation
Indices: 39776--39868 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
39766 GCGAAACCAA
39776 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
39809 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
39842 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
39869 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:39833 original size:19 final size:19
Alignment explanation
Indices: 39739--39873 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
39729 TAGTTTACTT
* *
39739 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
39759 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
39778 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
39797 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
39811 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
39830 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
39844 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
39863 TCGCAATGCGA
1 TCGCAACGCGA
39874 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 18 0.19
15 1 0.01
16 7 0.07
17 7 0.07
18 1 0.01
19 49 0.52
20 12 0.13
ACGTcount: A:0.45, C:0.24, G:0.20, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:39865 original size:52 final size:51
Alignment explanation
Indices: 39739--39873 Score: 130
Period size: 52 Copynumber: 2.6 Consensus size: 51
39729 TAGTTTACTT
* * *
39739 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAA-TGAAAATCGCAATGCGAAACCAAAATCGCAACGAGAAA
* * * **
39791 T-G-AAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAACA-CGAAATGA-A-AATCGCAATGCGAAACCAAAATCGCAACGAGA-AA
*
39844 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAACACGAAATGAAAATCGCAATGCGA
39874 TTTTGGTTTC
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
50 4 0.06
51 6 0.09
52 42 0.65
53 4 0.06
54 7 0.11
55 2 0.03
ACGTcount: A:0.45, C:0.24, G:0.20, T:0.11
Consensus pattern (51 bp):
TCGCAACACGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAGAAA
Found at i:39904 original size:14 final size:14
Alignment explanation
Indices: 39885--39943 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
39875 TTTGGTTTCG
39885 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
39899 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
39916 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
*
39932 CGTTGTGATTTT
1 CGTTGCGATTTT
39944 CATTTCGCGT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 22 0.59
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.30
ACGTcount: A:0.07, C:0.15, G:0.29, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:39911 original size:33 final size:33
Alignment explanation
Indices: 39869--39992 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
39859 AAAATCGCAA
*
39869 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
39902 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* ** *
39935 TGTGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
39968 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
39993 AAGTAAACTA
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 69 0.85
34 12 0.15
ACGTcount: A:0.09, C:0.17, G:0.27, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:39923 original size:19 final size:19
Alignment explanation
Indices: 39869--39927 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 19
39859 AAAATCGCAA
39869 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
39888 TGCGATTTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
39902 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
39921 TGCGATT
1 TGCGATT
39928 CTGTCGTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 12 0.34
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 19 0.54
ACGTcount: A:0.07, C:0.15, G:0.31, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:39960 original size:19 final size:18
Alignment explanation
Indices: 39869--39960 Score: 56
Period size: 19 Copynumber: 5.4 Consensus size: 18
39859 AAAATCGCAA
*
39869 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-CTTTCGCGT
*
39888 TGCGA-TTT-TGT--CGT
1 TGCGATTTTCTTTCGCGT
*
39902 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-CTTTCGCGT
*
39921 TGCGA--TTCTGT--CGT
1 TGCGATTTTCTTTCGCGT
*
39935 TGTGATTTTCATTTCGCGT
1 TGCGATTTTC-TTTCGCGT
39954 TGCGATT
1 TGCGATT
39961 CTCTCGTTGC
Statistics
Matches: 56, Mismatches: 7, Indels: 20
0.67 0.08 0.24
Matches are distributed among these distances:
14 15 0.27
15 3 0.05
16 7 0.12
17 6 0.11
18 3 0.05
19 22 0.39
ACGTcount: A:0.08, C:0.16, G:0.28, T:0.48
Consensus pattern (18 bp):
TGCGATTTTCTTTCGCGT
Found at i:40156 original size:83 final size:87
Alignment explanation
Indices: 40040--40312 Score: 324
Period size: 93 Copynumber: 3.1 Consensus size: 87
40030 ATGGATTGCA
* **
40040 TTAC-TTCAACCAATAGACAAAACAAAGACAAATACTGACTT-CAG-G-G-TA-TTAGTTTAGCA
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACT-ACTTACAGTGAGATACACAGTTTAGCA
40099 GAATTGGCAGCAACCGAACAAAT
65 GAATTGGCAGCAACCGAACAAAT
*
40122 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTT-ACAGTG----AG-ATACACAGTT
40187 TAGCAGAATTGGCAGCAACCGAACAAAT
60 TAGCAGAATTGGCAGCAACCGAACAAAT
*
40215 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTT-ACAGTG----AG-ATACACAGTT
* *
40280 TAGCAGAATTGACAGCAACCGAATAAAT
60 TAGCAGAATTGGCAGCAACCGAACAAAT
40308 TTACT
1 TTACT
40313 AAGCAATCTA
Statistics
Matches: 173, Mismatches: 6, Indels: 13
0.90 0.03 0.07
Matches are distributed among these distances:
82 7 0.04
83 31 0.18
84 3 0.02
85 1 0.01
90 1 0.01
92 2 0.01
93 128 0.74
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (87 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTTACAGTGAGATACACAGTTTAGCAG
AATTGGCAGCAACCGAACAAAT
Found at i:40249 original size:93 final size:93
Alignment explanation
Indices: 40090--40312 Score: 428
Period size: 93 Copynumber: 2.4 Consensus size: 93
40080 TCAGGGTATT
40090 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
40155 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
40183 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
40248 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
* *
40276 AGTTTAGCAGAATTGACAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
40313 AAGCAATCTA
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 128 1.00
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:42030 original size:20 final size:20
Alignment explanation
Indices: 41999--42081 Score: 114
Period size: 20 Copynumber: 4.2 Consensus size: 20
41989 TTTTGGTTGA
41999 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
42019 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
42039 AAATGAAAATCGCAACGCGA-
1 -AATGAAAATCGCAACGAGAG
42059 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
42079 AAT
1 AAT
42082 CGCGCGAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
19 18 0.34
20 20 0.38
21 15 0.28
ACGTcount: A:0.47, C:0.17, G:0.24, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:42074 original size:40 final size:41
Alignment explanation
Indices: 41997--42080 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
41987 TCTTTTGGTT
***
41997 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGAGA
*
42038 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGAGA
42078 GAA
1 GAA
42081 TCGCGCGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 19 0.49
41 20 0.51
ACGTcount: A:0.48, C:0.17, G:0.25, T:0.11
Consensus pattern (41 bp):
GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGAGA
Found at i:42131 original size:29 final size:31
Alignment explanation
Indices: 42098--42161 Score: 87
Period size: 33 Copynumber: 2.1 Consensus size: 31
42088 AAATTCGCGA
42098 TTCGCATTGCGA-T-TCGTTGCGATTTTCAT
1 TTCGCATTGCGATTCTCGTTGCGATTTTCAT
*
42127 TTCGCGTTGCGATTCTCTCGTTGCGATTTTCAT
1 TTCGCATTGCGA-T-TCTCGTTGCGATTTTCAT
42160 TT
1 TT
42162 TTCTCGTTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 11 0.37
32 1 0.03
33 18 0.60
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (31 bp):
TTCGCATTGCGATTCTCGTTGCGATTTTCAT
Found at i:42167 original size:21 final size:21
Alignment explanation
Indices: 42142--42215 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
42132 GTTGCGATTC
42142 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
42163 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
42184 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
42205 TCTCGTTGCGA
1 TCTCGTTGCGA
42216 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:42337 original size:32 final size:32
Alignment explanation
Indices: 42298--42366 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
42288 ACTAACTTGA
42298 AAATCGCAACGAGAGAATAGCAACGCGAAATG
1 AAATCGCAACGAGAGAATAGCAACGCGAAATG
* *
42330 AAATCGCAACGAGAGAATCGTAACGCGAAATG
1 AAATCGCAACGAGAGAATAGCAACGCGAAATG
42362 AAATC
1 AAATC
42367 TAAGTGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (32 bp):
AAATCGCAACGAGAGAATAGCAACGCGAAATG
Found at i:42340 original size:18 final size:18
Alignment explanation
Indices: 42317--42366 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 18
42307 CGAGAGAATA
42317 GCAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
*
42335 GCAA--CGAGA-G-AATC
1 GCAACGCGAAATGAAATC
*
42349 GTAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
42367 TAAGTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
14 7 0.28
15 1 0.04
16 8 0.32
17 1 0.04
18 8 0.32
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (18 bp):
GCAACGCGAAATGAAATC
Found at i:42769 original size:20 final size:20
Alignment explanation
Indices: 42744--42878 Score: 200
Period size: 20 Copynumber: 6.7 Consensus size: 20
42734 CTTTAAAAAT
42744 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
42764 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
42784 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
42805 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
42825 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
42845 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
42865 CGCGTTGCGATTTA
1 CGCGTTGCGATTTA
42879 TGTGTTCGCA
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
20 85 0.83
21 17 0.17
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:42911 original size:60 final size:60
Alignment explanation
Indices: 42744--42916 Score: 224
Period size: 60 Copynumber: 2.9 Consensus size: 60
42734 CTTTAAAAAT
*
42744 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATT-GTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTT-CGTATTCG-CGTTGCGATTTACGGATA
* * * * *
42805 CGCGTTGCGATATACGGATACGCATTGCGATTTACGGATACACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTTCGTATTCGCGTTGCGATTTACGGATA
* * *
42865 CGCGTTGCGATTTATGTG-TTCGCATTGCGATTTTCATATTCGCGTTGCGATT
1 CGCGTTGCGATTTACG-GATACGCATTGCGATTTTCGTATTCGCGTTGCGATT
42917 CTGGAAAATC
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
60 64 0.67
61 32 0.33
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCATTGCGATTTTCGTATTCGCGTTGCGATTTACGGATA
Found at i:44638 original size:59 final size:60
Alignment explanation
Indices: 44514--44646 Score: 153
Period size: 59 Copynumber: 2.2 Consensus size: 60
44504 ATAGTCCGAT
* * * * * *
44514 GACCATTTTTGTAACTTTTAATAGTCGATGGACTCGATAAAGAAATTTCCTATAGTTAAAT
1 GACCA-TTTTGTAACTCTTAATAGTCGATGGACTCGATAAAGAAATATCATATACTCAAAG
**
44575 GACCATTTTGTAACTCTTAATAGTC-ATGGACTCAGA-AAAGAAATATCATATACTCAGGG
1 GACCATTTTGTAACTCTTAATAGTCGATGGACTC-GATAAAGAAATATCATATACTCAAAG
44634 GACCATTTGTGTA
1 GACCATTT-TGTA
44647 CTTTACCCAA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
59 32 0.52
60 25 0.40
61 5 0.08
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (60 bp):
GACCATTTTGTAACTCTTAATAGTCGATGGACTCGATAAAGAAATATCATATACTCAAAG
Found at i:61465 original size:2 final size:2
Alignment explanation
Indices: 61458--61493 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
61448 TCTAACGATA
61458 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61494 TCTTTCATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62009 original size:158 final size:156
Alignment explanation
Indices: 61772--62158 Score: 429
Period size: 158 Copynumber: 2.5 Consensus size: 156
61762 GTGGTATATT
** * * * * * * *
61772 AGCATGTGATTCAAATTTGG-TAAAAAATGACTTAAAATAAATCACAAATTGAAGGAACAAGGAG
1 AGCATGTGGCTCAAATTTGGAAAAAAAAAGACTTAAAA-AAATGACGAATTGAAGAAATAATGAG
* * *
61836 CTTATGAAAAATTGAAGGATTAAATTGAAAAAT-ATAATATTTGTTATCAAAA-AAAGAATTGAA
65 ATTATGAAAAATTGAAGGACTAAATTGAAAAATAAT-ATATTT-TTATCAAAATAAAGAATTAAA
* *
61899 ATTACACATGTATTCTACTATGGTTTAGG
128 AGTACACATGTATTCTACTATGGTTTAAG
*
61928 AGCATTTGGCTCAAATTTGGCAAAAAAAAAGGACTTAAAAAAATGACGAATTGAAGAAATAATGA
1 AGCATGTGGCTCAAATTTGG-AAAAAAAAA-GACTTAAAAAAATGACGAATTGAAGAAATAATGA
* * * *
61993 GATTATGAAAATTTGAAGGACTAAATTGAAAAATAATTTATTTTTATCAAAATGAGGAATTAAAA
64 GATTATGAAAAATTGAAGGACTAAATTGAAAAATAATATATTTTTATCAAAATAAAGAATTAAAA
*
62058 GTACACATGTATTCTACTATGTTTTAAG
129 GTACACATGTATTCTACTATGGTTTAAG
* * * * ** * * *
62086 AGCATGTGGTTCAAATTTGGTAAAATATAGACTTAAAGTGAAGGAGGAATTGAAGAAATAATGAA
1 AGCATGTGGCTCAAATTTGGAAAAAAAAAGACTTAAA-AAAATGACGAATTGAAGAAATAATGAG
*
62151 ATCATGAA
65 ATTATGAA
62159 CTAAATCATA
Statistics
Matches: 194, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
156 25 0.13
157 44 0.23
158 114 0.59
159 11 0.06
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.29
Consensus pattern (156 bp):
AGCATGTGGCTCAAATTTGGAAAAAAAAAGACTTAAAAAAATGACGAATTGAAGAAATAATGAGA
TTATGAAAAATTGAAGGACTAAATTGAAAAATAATATATTTTTATCAAAATAAAGAATTAAAAGT
ACACATGTATTCTACTATGGTTTAAG
Found at i:62279 original size:14 final size:14
Alignment explanation
Indices: 62260--62296 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
62250 AACCGAATTT
* *
62260 ATAACTCGAGTTGA
1 ATAACTCGACTCGA
62274 ATAACTCGACTCGA
1 ATAACTCGACTCGA
62288 ATAACTCGA
1 ATAACTCGA
62297 AATTGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (14 bp):
ATAACTCGACTCGA
Found at i:63736 original size:14 final size:13
Alignment explanation
Indices: 63716--63747 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
63706 TAGGGGGACC
63716 AAAAAAAATAAAA
1 AAAAAAAATAAAA
63729 ATAAAAAAATAAAA
1 A-AAAAAAATAAAA
63743 AAAAA
1 AAAAA
63748 TAGAATTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (13 bp):
AAAAAAAATAAAA
Found at i:65001 original size:18 final size:18
Alignment explanation
Indices: 64978--65016 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
64968 ACCATAAACA
*
64978 GAATAAA-TGAAATTAAAT
1 GAATAAAGTG-AATAAAAT
64996 GAATAAAGTGAATAAAAT
1 GAATAAAGTGAATAAAAT
65014 GAA
1 GAA
65017 AAGAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (18 bp):
GAATAAAGTGAATAAAAT
Found at i:65147 original size:35 final size:34
Alignment explanation
Indices: 65092--65282 Score: 99
Period size: 35 Copynumber: 5.5 Consensus size: 34
65082 ATTATATTTA
* *
65092 AAAATG-TTTTCAAAACTATATACCATATAGTTTTC
1 AAAATGATTTT-AAAAATATATA-CATATAATTTTC
* *
65127 AAAATGATTTTAAAAATATAT--AT-GAGTTTTCC
1 AAAATGATTTTAAAAATATATACATATAATTTT-C
* *
65159 AAAAT-ATTTTAAAACTATATATTATATAAAATTTTC
1 AAAATGATTTTAAAA--ATATA-TACATATAATTTTC
* * *
65195 AAAAATGTTTTTATTTTAAA-CTATACAT-TATATTTTC
1 -AAAATGATTTTA---AAAATATATACATATA-ATTTTC
* **
65232 AAAATGATTTCAAAAATATATGTTATATAATTTTC
1 AAAATGATTTTAAAAATATAT-ACATATAATTTTC
* *
65267 AAAATGTTTTTTAAAA
1 AAAATGATTTTAAAAA
65283 CTTATATATT
Statistics
Matches: 121, Mismatches: 18, Indels: 34
0.70 0.10 0.20
Matches are distributed among these distances:
31 15 0.12
32 8 0.07
33 8 0.07
34 4 0.03
35 36 0.30
36 20 0.17
37 20 0.17
38 7 0.06
39 1 0.01
41 2 0.02
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (34 bp):
AAAATGATTTTAAAAATATATACATATAATTTTC
Found at i:65168 original size:31 final size:30
Alignment explanation
Indices: 65116--65180 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 30
65106 ACTATATACC
65116 ATATAGTTTTCAAAATGATTTTAAAAATAT
1 ATATAGTTTTCAAAATGATTTTAAAAATAT
*
65146 ATATGAGTTTTCCAAAAT-ATTTTAAAACTAT
1 ATAT-AGTTTT-CAAAATGATTTTAAAAATAT
65177 ATAT
1 ATAT
65181 TATATAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 4 0.12
31 22 0.69
32 6 0.19
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (30 bp):
ATATAGTTTTCAAAATGATTTTAAAAATAT
Found at i:65300 original size:39 final size:42
Alignment explanation
Indices: 65247--65324 Score: 101
Period size: 39 Copynumber: 1.9 Consensus size: 42
65237 GATTTCAAAA
*
65247 ATATATGTTATATAA-TTTTCA-AAATG-TTTTTTAAAACTT
1 ATATATGTTATATAAGTTTTCAGAAACGTTTTTTTAAAACTT
*
65286 ATATAT-TGTATATAAGTTTTTAGAAACGTTTTTTTAAAA
1 ATATATGT-TATATAAGTTTTCAGAAACGTTTTTTTAAAA
65325 AAAACTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
38 1 0.03
39 13 0.39
40 5 0.15
41 4 0.12
42 10 0.30
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (42 bp):
ATATATGTTATATAAGTTTTCAGAAACGTTTTTTTAAAACTT
Found at i:66215 original size:106 final size:106
Alignment explanation
Indices: 66087--67071 Score: 1625
Period size: 106 Copynumber: 9.3 Consensus size: 106
66077 TATTGTTTCA
* * * * * * *
66087 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTTTGGAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
* * *
66152 CAGTC-GTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTCG
66 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
* * *
66193 AGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
* * *
66258 CAACGGTCCCTTCATCCTGAAGTTGAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
*
66299 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
66364 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
* *
66405 AGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
66470 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
*
66511 AGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
66576 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
*
66617 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
66682 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
* *
66723 AGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
66788 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
*
66829 AGTCCAATATCATTCGTTGTGAAGTCT-AAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGT-TGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
66893 CCGGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
* * * *
66935 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
* *
67000 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
* * *
67041 AGT-CAAGATCCTTCGTTGAGAAGTTAAAATT
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATT
67072 TACTCTCGAG
Statistics
Matches: 834, Mismatches: 42, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
105 26 0.03
106 808 0.97
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
Found at i:69013 original size:26 final size:25
Alignment explanation
Indices: 68959--69015 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
68949 GAGACATGTG
*
68959 AATGCAATGAAAAAAAAGGAATCAT
1 AATGCAATGAAAAAAAAGGAATCAA
* *
68984 AATGCGAATGTAAAGAAAAGTAA-CAA
1 AATGC-AATG-AAAAAAAAGGAATCAA
69010 AATGCA
1 AATGCA
69016 CAATATGTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 6 0.22
26 11 0.41
27 10 0.37
ACGTcount: A:0.58, C:0.09, G:0.18, T:0.16
Consensus pattern (25 bp):
AATGCAATGAAAAAAAAGGAATCAA
Found at i:72206 original size:18 final size:18
Alignment explanation
Indices: 72183--72221 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
72173 ACCATAAACA
*
72183 GAATAAA-TGAAATTAAAT
1 GAATAAAGTG-AATAAAAT
72201 GAATAAAGTGAATAAAAT
1 GAATAAAGTGAATAAAAT
72219 GAA
1 GAA
72222 AAGAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (18 bp):
GAATAAAGTGAATAAAAT
Found at i:72368 original size:33 final size:31
Alignment explanation
Indices: 72270--72392 Score: 90
Period size: 33 Copynumber: 3.8 Consensus size: 31
72260 ATATATCCCA
* *
72270 AAAAATATTTTTTAAACTATATATA-TATTT-
1 AAAAATATTTTTAAAAATATATATAGT-TTTC
* *
72300 AAAAATGTTTTCAAAACTATATACCATATAGTTTTC
1 AAAAATATTTTTAAAA--ATAT---ATATAGTTTTC
72336 AAAAATGA-TTTTAAAAATATTATATGAGTTTTC
1 AAAAAT-ATTTTTAAAAATA-TATAT-AGTTTTC
* *
72369 CAAAATATTTTTAAAACTATATAT
1 AAAAATATTTTTAAAAATATATAT
72393 TATATAAAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 20
0.73 0.08 0.20
Matches are distributed among these distances:
30 13 0.18
32 13 0.18
33 22 0.30
34 3 0.04
35 9 0.12
36 14 0.19
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (31 bp):
AAAAATATTTTTAAAAATATATATAGTTTTC
Found at i:72794 original size:2 final size:2
Alignment explanation
Indices: 72687--72775 Score: 178
Period size: 2 Copynumber: 44.5 Consensus size: 2
72677 GTGTCTACAC
72687 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
72729 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
72771 TA TA T
1 TA TA T
72776 GTGGATAAGT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 87 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:82191 original size:23 final size:23
Alignment explanation
Indices: 82164--82208 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
82154 AGTCATCCCG
82164 CCAAGTCTACT-AAGTCAACTCAC
1 CCAAGTC-ACTCAAGTCAACTCAC
*
82187 CCAAGTCACTCAAGTTAACTCA
1 CCAAGTCACTCAAGTCAACTCA
82209 GACCGAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.36, C:0.33, G:0.09, T:0.22
Consensus pattern (23 bp):
CCAAGTCACTCAAGTCAACTCAC
Found at i:82309 original size:17 final size:17
Alignment explanation
Indices: 82287--82326 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
82277 AGCGTTGACT
82287 TTGACTAGCATTGACCG
1 TTGACTAGCATTGACCG
82304 TTGACTAGCATTGACCG
1 TTGACTAGCATTGACCG
82321 TTGACT
1 TTGACT
82327 TTGACTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.33
Consensus pattern (17 bp):
TTGACTAGCATTGACCG
Found at i:82309 original size:23 final size:23
Alignment explanation
Indices: 82279--82332 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 23
82269 TTGATCGAAG
82279 CGTTGACTTTGACTAGCATTGAC
1 CGTTGACTTTGACTAGCATTGAC
82302 C---G---TTGACTAGCATTGAC
1 CGTTGACTTTGACTAGCATTGAC
82319 CGTTGACTTTGACT
1 CGTTGACTTTGACT
82333 CAAAAAGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
17 16 0.64
20 2 0.08
23 7 0.28
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (23 bp):
CGTTGACTTTGACTAGCATTGAC
Found at i:82455 original size:13 final size:13
Alignment explanation
Indices: 82433--82464 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
82423 CATATGTAAT
82433 TTAAGT-ATTTAA
1 TTAAGTGATTTAA
82445 TTAAGTGATTTAA
1 TTAAGTGATTTAA
82458 TTAAGTG
1 TTAAGTG
82465 CATCTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.47
Consensus pattern (13 bp):
TTAAGTGATTTAA
Found at i:82711 original size:23 final size:24
Alignment explanation
Indices: 82685--82729 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
82675 TCAAGTCTAC
*
82685 CAAGTCAACTCA-CCCGAGTCACT
1 CAAGTCAACTCAGACCGAGTCACT
82708 CAAGTCAACTCAGACCGAGTCA
1 CAAGTCAACTCAGACCGAGTCA
82730 ACCTATTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.33, C:0.36, G:0.16, T:0.16
Consensus pattern (24 bp):
CAAGTCAACTCAGACCGAGTCACT
Found at i:83676 original size:26 final size:26
Alignment explanation
Indices: 83647--83707 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
83637 ATCTAATTGT
*
83647 ACCAACAAAGTTAAATACCTAATTAC
1 ACCAAAAAAGTTAAATACCTAATTAC
* * *
83673 ACCAAAAAAGTTATATACTTGATTAC
1 ACCAAAAAAGTTAAATACCTAATTAC
*
83699 ACTAAAAAA
1 ACCAAAAAA
83708 AGGTACCACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.52, C:0.18, G:0.05, T:0.25
Consensus pattern (26 bp):
ACCAAAAAAGTTAAATACCTAATTAC
Found at i:85303 original size:25 final size:25
Alignment explanation
Indices: 85269--85318 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
85259 AATTTATCAT
85269 ATTTACTAAATCTATCAACTTACAA
1 ATTTACTAAATCTATCAACTTACAA
85294 ATTTACTAAATCTATCAACTTACAA
1 ATTTACTAAATCTATCAACTTACAA
85319 GTACTAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (25 bp):
ATTTACTAAATCTATCAACTTACAA
Found at i:91967 original size:16 final size:16
Alignment explanation
Indices: 91942--91972 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
91932 TATTATTTTC
*
91942 AAAATCATAGCTAATG
1 AAAATAATAGCTAATG
91958 AAAATAATAGCTAAT
1 AAAATAATAGCTAAT
91973 CTTACATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.26
Consensus pattern (16 bp):
AAAATAATAGCTAATG
Found at i:94034 original size:19 final size:19
Alignment explanation
Indices: 93997--94032 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
93987 TACATAATTA
93997 CATTAAAATGTATATAAAT
1 CATTAAAATGTATATAAAT
94016 CATTAAAAT-TATATAAA
1 CATTAAAATGTATATAAA
94033 ATAAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.36
Consensus pattern (19 bp):
CATTAAAATGTATATAAAT
Found at i:96248 original size:2 final size:2
Alignment explanation
Indices: 96241--96276 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
96231 TAAGATTAAG
96241 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96277 TAGGAGTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99035 original size:18 final size:18
Alignment explanation
Indices: 99008--99045 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
98998 ATTAAAACTC
*
99008 GTCAGTTAGAGGTGATGA
1 GTCAGCTAGAGGTGATGA
99026 GTCAGCTAGAGGTGATGA
1 GTCAGCTAGAGGTGATGA
99044 GT
1 GT
99046 TTAGATTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.08, G:0.39, T:0.26
Consensus pattern (18 bp):
GTCAGCTAGAGGTGATGA
Found at i:101476 original size:11 final size:11
Alignment explanation
Indices: 101460--101493 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
101450 TATTTATAAG
101460 AAAATATTAAA
1 AAAATATTAAA
101471 AAAATATTAAA
1 AAAATATTAAA
101482 AAAATATTAAA
1 AAAATATTAAA
101493 A
1 A
101494 TTTTAAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAATATTAAA
Found at i:103027 original size:16 final size:16
Alignment explanation
Indices: 103006--103037 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
102996 TTTATGAACT
103006 ATTTGACAAGAAATTC
1 ATTTGACAAGAAATTC
103022 ATTTGACAAGAAATTC
1 ATTTGACAAGAAATTC
103038 GTTTATGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (16 bp):
ATTTGACAAGAAATTC
Found at i:103447 original size:24 final size:24
Alignment explanation
Indices: 103420--103473 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
103410 CATTACGTTT
103420 GTTTATGTTCATT-TGTTTGTGTTC
1 GTTTATGTTC-TTCTGTTTGTGTTC
*
103444 GTTTACGTTCTTCTGTTTGTGTTC
1 GTTTATGTTCTTCTGTTTGTGTTC
*
103468 ATTTAT
1 GTTTAT
103474 TATTTTAACG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.09, C:0.11, G:0.19, T:0.61
Consensus pattern (24 bp):
GTTTATGTTCTTCTGTTTGTGTTC
Found at i:105365 original size:4 final size:4
Alignment explanation
Indices: 105356--105382 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
105346 CAATGCATGT
105356 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
105383 CATACATAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:125834 original size:15 final size:14
Alignment explanation
Indices: 125814--125843 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
125804 AATCAAAGAA
125814 CATAATAGTAAGTAG
1 CATAATAGT-AGTAG
125829 CATAATAGTAGTAG
1 CATAATAGTAGTAG
125843 C
1 C
125844 TCCTGCTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (14 bp):
CATAATAGTAGTAG
Found at i:130456 original size:6 final size:6
Alignment explanation
Indices: 130445--130474 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
130435 TTTTATTTTC
130445 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG
1 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG
130475 AATCAAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:143777 original size:30 final size:31
Alignment explanation
Indices: 143743--143823 Score: 74
Period size: 35 Copynumber: 2.5 Consensus size: 31
143733 AACCTTTTTT
*
143743 ATATTTTTAATTTTGTAAA-AAATTATATAA
1 ATATTTTTAATTTTGTAAAGAAAATATATAA
*
143773 ATATTATGAATTTAATTTTTTAAAGAAAATATATAA
1 ATA-T-T---TTTAATTTTGTAAAGAAAATATATAA
*
143809 TTATTTTATAATTTT
1 ATATTTT-TAATTTT
143824 TAATATTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
30 3 0.07
31 3 0.07
32 8 0.20
34 1 0.02
35 14 0.34
36 12 0.29
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (31 bp):
ATATTTTTAATTTTGTAAAGAAAATATATAA
Found at i:144425 original size:59 final size:56
Alignment explanation
Indices: 144323--144500 Score: 187
Period size: 59 Copynumber: 3.0 Consensus size: 56
144313 GTTGTCCCTA
144323 AACTATAACTCTTATTTTAAATTGGTCCTTAAACTTTGGAATATTCTAATTTCATCCC
1 AACTATAAC-CTTATTTTAAATTGGTCCTTAAACTTT-GAATATTCTAATTTCATCCC
* *
144381 AAGCTATGAACCTTATTTTAAATTAGTCCTTAAACTATTGAATATTTTAATTTC-TGCCC
1 AA-CTAT-AACCTTATTTTAAATTGGTCCTTAAACT-TTGAATATTCTAATTTCAT-CCC
* * ** * * *
144440 AACTATAACTTTCATTCTAAATTGGTCCCCAAACTTTTTAAACATTCCAATTTCATCCC
1 AACTATAACCTT-ATTTTAAATTGGTCCTTAAAC--TTTGAATATTCTAATTTCATCCC
144499 AA
1 AA
144501 ATCCATCCAA
Statistics
Matches: 101, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
57 5 0.05
58 24 0.24
59 65 0.64
60 7 0.07
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (56 bp):
AACTATAACCTTATTTTAAATTGGTCCTTAAACTTTGAATATTCTAATTTCATCCC
Found at i:145705 original size:27 final size:28
Alignment explanation
Indices: 145659--145714 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
145649 CCGGTTTCGA
*
145659 TTTGTAAAAAAACCGATTTTTTATCCGG
1 TTTGTAAAAAAACCGATTTTTAATCCGG
* *
145687 TTTG-AAAAAAATCGGTTTTTAATCCGG
1 TTTGTAAAAAAACCGATTTTTAATCCGG
145714 T
1 T
145715 AAAAAAACCG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (28 bp):
TTTGTAAAAAAACCGATTTTTAATCCGG
Found at i:145726 original size:24 final size:24
Alignment explanation
Indices: 145662--145726 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 24
145652 GTTTCGATTT
* *
145662 GTAAAAAAACCGATTTTTTATCCG
1 GTAAAAAAACCGGTTTTTAATCCG
*
145686 GTTTGAAAAAAATCGGTTTTTAATCCG
1 G--T-AAAAAAACCGGTTTTTAATCCG
145713 GTAAAAAAACCGGT
1 GTAAAAAAACCGGT
145727 CATTCAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 12 0.35
25 1 0.03
26 1 0.03
27 20 0.59
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (24 bp):
GTAAAAAAACCGGTTTTTAATCCG
Found at i:146213 original size:15 final size:15
Alignment explanation
Indices: 146195--146250 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
146185 TAACCGGTTT
146195 CGGTTTTAAAAAAAC
1 CGGTTTTAAAAAAAC
*
146210 CGGTTTTTTTAAAAAAC
1 CGG--TTTTAAAAAAAC
*
146227 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
146242 CGATTTTAA
1 CGGTTTTAA
146251 TATTCCAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 20 0.59
17 14 0.41
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:146223 original size:17 final size:17
Alignment explanation
Indices: 146198--146248 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
146188 CCGGTTTCGG
146198 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
*
146215 TTTTTAAAAAACCGG--
1 TTTTAAAAAAACCGGTT
* *
146230 TTATAAAAAAACCGATT
1 TTTTAAAAAAACCGGTT
146247 TT
1 TT
146249 AATATTCCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.43
17 16 0.57
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:146484 original size:13 final size:13
Alignment explanation
Indices: 146463--146517 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
146453 ACGCTTGATA
*
146463 AATTTAAATACTT
1 AATTGAAATACTT
146476 AATTGAAATACTT
1 AATTGAAATACTT
* *
146489 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
146503 AATTGAAATACTT
1 AATTGAAATACTT
146516 AA
1 AA
146518 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:146599 original size:32 final size:33
Alignment explanation
Indices: 146503--146601 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
146493 AACTCAACAT
* * *
146503 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
146536 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
146569 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
146601 A
1 A
146602 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:146620 original size:21 final size:21
Alignment explanation
Indices: 146596--146635 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
146586 ACTTCAAGTT
146596 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
146617 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
146636 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:149057 original size:19 final size:20
Alignment explanation
Indices: 149028--149066 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
149018 GTTAAAATAA
*
149028 CCGGTTTAAAAAAATCCGAT
1 CCGGTTTAAAAAAAACCGAT
149048 CCGG-TTAAAAAAAACCGAT
1 CCGGTTTAAAAAAAACCGAT
149067 TTTTCCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (20 bp):
CCGGTTTAAAAAAAACCGAT
Found at i:152639 original size:51 final size:51
Alignment explanation
Indices: 152542--152664 Score: 124
Period size: 51 Copynumber: 2.4 Consensus size: 51
152532 TCGATGTGAG
* * *
152542 GAGTTTCAATAAAAAATATTTTTATATTTAAATTTTTTATAGCGAAATGAC
1 GAGTCTCAATAAAAAATATTTTTATATTTAAATTTTTCACAGCGAAATGAC
* * * *
152593 GAGTCTCAATAAAATATACTTTTT-TA-TTAAATTTTATCACATCGAAATAAA
1 GAGTCTCAATAAAAAATA-TTTTTATATTTAAATTTT-TCACAGCGAAATGAC
* * *
152644 AAGTTTAAATAAAAAATATTT
1 GAGTCTCAATAAAAAATATTT
152665 GATATTAGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
50 12 0.20
51 42 0.71
52 5 0.08
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (51 bp):
GAGTCTCAATAAAAAATATTTTTATATTTAAATTTTTCACAGCGAAATGAC
Found at i:159214 original size:15 final size:15
Alignment explanation
Indices: 159194--159228 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
159184 TGAGTGTTGA
159194 GAAGCAAGCAGACGG
1 GAAGCAAGCAGACGG
159209 GAAGCAAGCAGACGG
1 GAAGCAAGCAGACGG
159224 GAAGC
1 GAAGC
159229 TTAGCGGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (15 bp):
GAAGCAAGCAGACGG
Found at i:159917 original size:2 final size:2
Alignment explanation
Indices: 159910--159937 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
159900 TTTATGTATG
159910 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
159938 ATGATTTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:160356 original size:30 final size:30
Alignment explanation
Indices: 160320--160379 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
160310 ATTTAACCCT
160320 CGAAGTTATTTATGGGCATAATCATAGCCC
1 CGAAGTTATTTATGGGCATAATCATAGCCC
160350 CGAAGTTATTTATGGGCATAATCATAGCCC
1 CGAAGTTATTTATGGGCATAATCATAGCCC
160380 TCCAATAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (30 bp):
CGAAGTTATTTATGGGCATAATCATAGCCC
Found at i:166496 original size:587 final size:587
Alignment explanation
Indices: 165437--166757 Score: 2161
Period size: 587 Copynumber: 2.3 Consensus size: 587
165427 GTTATAAATC
165437 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTTAAATTTATCAAAAA
1 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATA-TTTTAAATTTAT-AAAAA
* *
165502 TAATCACTATTGTATGATTATGATAGTTTAATGAATCATTTACAACTTGGTGAAAATTATATGGC
64 TAA-CACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGGC
165567 AAGTTAAATGTTGATGATAGGTATATTAAAATAAATTATCATAATCATACCTAATTACACGGTTT
128 AAGTTAAATGTTGATGATAGGTATATT-AAATAAATTATCATAATCATACCTAATTACACGGTTT
165632 TGCTAAATCTTTACGTATCCAACTATAACTTTAAATCAATATAATAATTATGCATTTTATTGATC
192 TGCTAAATCTTTACGTATCCAACTATAACTTTAAATCAATATAATAATTATGCATTTTATTGATC
*
165697 TTATCTTAATTTAAAATAAATTAATAAATTTGAACTTGGTATTATACTTTTCAAATAAAATGGTC
257 TTATCTTAATCTAAAATAAATTAATAAATTTGAACTTGGTATTATACTTTTCAAATAAAATGGTC
165762 ATTAAATTTATTAAAATATTTGTAAACTTATAAAAAATAATCACAATCTTATGATTATGATAGTT
322 ATTAAATTTATTAAAATATTTGTAAACTTATAAAAAATAATCACAATCTTATGATTATGATAGTT
* *
165827 TAATGATTCATTTACAGCTTAGTGAAAATTATATGGCAAGTTAAATGTTGATGATAGGTATATTA
387 TAATGAATCATTTACAACTTAGTGAAAATTATATGGCAAGTTAAATGTTGATGATAGGTATATTA
165892 AATAAATTATAATCATATCTAATTTACATGGTTTTGCTAAATCTTTACGTATCCAATTATATCTT
452 AATAAATTATAATCATATCTAATTTACATGGTTTTGCTAAATCTTTACGTATCCAATTATATCTT
165957 TAAATCAATATAATAATTATG-AATTTA-TGATCTTATCTTAATTT-AAATAAATTAATAAATTT
517 TAAATCAATATAATAATTATGCAATTTATTGATCTTATCTTAATTTAAAATAAATTAATAAATTT
166019 GAACTT
582 GAACTT
166025 GGTATTATACTTTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTAAATTTATAAAAAA
1 GGTATTATAC-TTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTAAATTTAT-AAAAA
*
166090 TAAACACTATTTTATGATTATGATAGTTTAATGAATCATTTACATCTTAGTGAAAATTATATGGC
64 T-AACACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGGC
* *
166155 AAGTTAAATGTTGATGATAGGTATATTATAT-AATTATCATAATCATACCTAATTTACATGGTTT
128 AAGTTAAATGTTGATGATAGGTATATTAAATAAATTATCATAATCATACCTAA-TTACACGGTTT
* * *
166219 TGCTAAATCTTTACGTATCCAATTATATCTTTAAATTAATATAATAATTATGCATTTTATTGATC
192 TGCTAAATCTTTACGTATCCAACTATAACTTTAAATCAATATAATAATTATGCATTTTATTGATC
* * *
166284 TTATCTTAATCTAAATTAAATTAATAAATTTGAACTTGGTATTATACTTTTCAATTAAAATGGTT
257 TTATCTTAATCTAAAATAAATTAATAAATTTGAACTTGGTATTATACTTTTCAAATAAAATGGTC
* * * * *
166349 ATTAAATTTATTAAAAT-TATT-TAAATTTATCAAAAATAATCACTATTTTGTGATTATGATAGT
322 ATTAAATTTATTAAAATAT-TTGTAAACTTATAAAAAATAATCACAATCTTATGATTATGATAGT
166412 TTAATGAATCATTTACAACTTAGTGAAAATTATATGGCAAGTTAAATGTTGATGATAGGTATATT
386 TTAATGAATCATTTACAACTTAGTGAAAATTATATGGCAAGTTAAATGTTGATGATAGGTATATT
166477 AAAATAAATTATAATCATATCTAATTTACATGGTTTTGCTAAATCTTTACGTATCCAATTATATC
451 -AAATAAATTATAATCATATCTAATTTACATGGTTTTGCTAAATCTTTACGTATCCAATTATATC
*
166542 TTTAAATCAATATAATAATTATGCATTTTATTGATCTTATCTTAATTTAAAATAAATTAATAAAT
515 TTTAAATCAATATAATAATTATGCAATTTATTGATCTTATCTTAATTTAAAATAAATTAATAAAT
166607 TTGAACTT
580 TTGAACTT
* *
166615 GGTGTTATACTCTTCAAATAAAATGGTCATT-AA---ATT----TA---TAAA---AT---AAT-
1 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTAAATTTATAAAAATA
*
166662 -CACTATTTTATGATTATGATAGTTTAATGAATCATTTACAGCTTAGTGAAAATTATATGGCAAG
66 ACACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGGCAAG
166726 TTAAATGTTGATGATAGGTATATTAAAATAAA
131 TTAAATGTTGATGATAGGTATATT-AAATAAA
166758 AAAATTAGCT
Statistics
Matches: 698, Mismatches: 25, Indels: 38
0.92 0.03 0.05
Matches are distributed among these distances:
568 87 0.12
569 3 0.00
570 2 0.00
571 3 0.00
575 2 0.00
578 4 0.01
581 2 0.00
585 3 0.00
586 122 0.17
587 242 0.35
588 120 0.17
589 75 0.11
590 33 0.05
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (587 bp):
GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTAAATTTATAAAAATA
ACACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGGCAAG
TTAAATGTTGATGATAGGTATATTAAATAAATTATCATAATCATACCTAATTACACGGTTTTGCT
AAATCTTTACGTATCCAACTATAACTTTAAATCAATATAATAATTATGCATTTTATTGATCTTAT
CTTAATCTAAAATAAATTAATAAATTTGAACTTGGTATTATACTTTTCAAATAAAATGGTCATTA
AATTTATTAAAATATTTGTAAACTTATAAAAAATAATCACAATCTTATGATTATGATAGTTTAAT
GAATCATTTACAACTTAGTGAAAATTATATGGCAAGTTAAATGTTGATGATAGGTATATTAAATA
AATTATAATCATATCTAATTTACATGGTTTTGCTAAATCTTTACGTATCCAATTATATCTTTAAA
TCAATATAATAATTATGCAATTTATTGATCTTATCTTAATTTAAAATAAATTAATAAATTTGAAC
TT
Found at i:166639 original size:294 final size:294
Alignment explanation
Indices: 165437--166757 Score: 2088
Period size: 294 Copynumber: 4.6 Consensus size: 294
165427 GTTATAAATC
* *
165437 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTTAAATTTATCAAAAA
1 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAAT-TATTTAAATTTATAAAAAA
* *
165502 TAATCACTATTGTATGATTATGATAGTTTAATGAATCATTTACAACTTGGTGAAAATTATATGGC
65 TAATCACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGGC
*
165567 AAGTTAAATGTTGATGATAGGTATATTAAAATAAATTATCATAATCATACCTAA-TTACACGGTT
130 AAGTTAAATGTTGATGATAGGTATATTAAAATAAA-T-T-ATAATCATACCTAATTTACATGGTT
* *
165631 TTGCTAAATCTTTACGTATCCAACTATAACTTTAAATCAATATAATAATTATGCATTTTATTGAT
192 TTGCTAAATCTTTACGTATCCAATTATATCTTTAAATCAATATAATAATTATGCATTTTATTGAT
165696 CTTATCTTAATTTAAAATAAATTAATAAATTTGAACTT
257 CTTATCTTAATTTAAAATAAATTAATAAATTTGAACTT
*
165734 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAA-TATTTGTAAACTTATAAAAA
1 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATTA-TT-TAAATTTATAAAAA
* * * *
165798 ATAATCACAATCTTATGATTATGATAGTTTAATGATTCATTTACAGCTTAGTGAAAATTATATGG
64 ATAATCACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGG
*
165863 CAAGTTAAATGTTGATGATAGGTATATT-AAATAAATTATAATCATATCTAATTTACATGGTTTT
129 CAAGTTAAATGTTGATGATAGGTATATTAAAATAAATTATAATCATACCTAATTTACATGGTTTT
*
165927 GCTAAATCTTTACGTATCCAATTATATCTTTAAATCAATATAATAATTATG-AATTTA-TGATCT
194 GCTAAATCTTTACGTATCCAATTATATCTTTAAATCAATATAATAATTATGCATTTTATTGATCT
165990 TATCTTAATTT-AAATAAATTAATAAATTTGAACTT
259 TATCTTAATTTAAAATAAATTAATAAATTTGAACTT
166025 GGTATTATACTTTTTCAAATAAAATGGTCATTAAATTTATTAAAA-TATTTTAAATTTATAAAAA
1 GGTATTATAC-TTTTCAAATAAAATGGTCATTAAATTTATTAAAATTA-TTTAAATTTATAAAAA
* *
166089 ATAAACACTATTTTATGATTATGATAGTTTAATGAATCATTTACATCTTAGTGAAAATTATATGG
64 ATAATCACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGG
* *
166154 CAAGTTAAATGTTGATGATAGGTATATTATATAAT-TATCATAATCATACCTAATTTACATGGTT
129 CAAGTTAAATGTTGATGATAGGTATATTA-A-AATAAATTATAATCATACCTAATTTACATGGTT
*
166218 TTGCTAAATCTTTACGTATCCAATTATATCTTTAAATTAATATAATAATTATGCATTTTATTGAT
192 TTGCTAAATCTTTACGTATCCAATTATATCTTTAAATCAATATAATAATTATGCATTTTATTGAT
* *
166283 CTTATCTTAATCTAAATTAAATTAATAAATTTGAACTT
257 CTTATCTTAATTTAAAATAAATTAATAAATTTGAACTT
* * *
166321 GGTATTATACTTTTCAATTAAAATGGTTATTAAATTTATTAAAATTATTTAAATTTATCAAAAAT
1 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATTATTTAAATTTATAAAAAAT
*
166386 AATCACTATTTTGTGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGGCA
66 AATCACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGGCA
*
166451 AGTTAAATGTTGATGATAGGTATATTAAAATAAATTATAATCATATCTAATTTACATGGTTTTGC
131 AGTTAAATGTTGATGATAGGTATATTAAAATAAATTATAATCATACCTAATTTACATGGTTTTGC
166516 TAAATCTTTACGTATCCAATTATATCTTTAAATCAATATAATAATTATGCATTTTATTGATCTTA
196 TAAATCTTTACGTATCCAATTATATCTTTAAATCAATATAATAATTATGCATTTTATTGATCTTA
166581 TCTTAATTTAAAATAAATTAATAAATTTGAACTT
261 TCTTAATTTAAAATAAATTAATAAATTTGAACTT
* *
166615 GGTGTTATACTCTTCAAATAAAATGGTC------------------A-TTAAATTTAT--AAAAT
1 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATTATTTAAATTTATAAAAAAT
*
166659 AATCACTATTTTATGATTATGATAGTTTAATGAATCATTTACAGCTTAGTGAAAATTATATGGCA
66 AATCACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGGCA
166724 AGTTAAATGTTGATGATAGGTATATTAAAATAAA
131 AGTTAAATGTTGATGATAGGTATATTAAAATAAA
166758 AAAATTAGCT
Statistics
Matches: 967, Mismatches: 45, Indels: 48
0.91 0.04 0.05
Matches are distributed among these distances:
273 102 0.11
275 10 0.01
276 1 0.00
291 135 0.14
292 56 0.06
293 100 0.10
294 220 0.23
295 156 0.16
296 44 0.05
297 143 0.15
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (294 bp):
GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATTATTTAAATTTATAAAAAAT
AATCACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGGCA
AGTTAAATGTTGATGATAGGTATATTAAAATAAATTATAATCATACCTAATTTACATGGTTTTGC
TAAATCTTTACGTATCCAATTATATCTTTAAATCAATATAATAATTATGCATTTTATTGATCTTA
TCTTAATTTAAAATAAATTAATAAATTTGAACTT
Found at i:169423 original size:18 final size:18
Alignment explanation
Indices: 169383--169424 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
169373 AATTATTAAC
169383 AAAATTTATATAAAAAATT
1 AAAA-TTATATAAAAAATT
*
169402 -AAATTATATAAAAATTT
1 AAAATTATATAAAAAATT
169419 AAAATT
1 AAAATT
169425 TTCAAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATTATATAAAAAATT
Done.