Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 279 of 335
Found at i:84480135 original size:7 final size:7
Alignment explanation
Indices: 84480118--84480224 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
84480108 AAATTTGTAA
84480118 ATTAT-T
1 ATTATAT
84480124 ATTATAT
1 ATTATAT
84480131 ATTATAT
1 ATTATAT
84480138 -TT-TA-
1 ATTATAT
84480142 ACTTATAT
1 A-TTATAT
84480150 ATCTTATAT
1 A--TTATAT
*
84480159 ATTTATTT
1 A-TTATAT
84480167 ATT-TAT
1 ATTATAT
*
84480173 ATTATAC
1 ATTATAT
84480180 ATTAT-T
1 ATTATAT
* *
84480186 -TTAAAA
1 ATTATAT
*
84480192 ACTTACAT
1 A-TTATAT
*
84480200 -TTTTAT
1 ATTATAT
84480206 ATTATAT
1 ATTATAT
*
84480213 ATTATAA
1 ATTATAT
84480220 ATTAT
1 ATTAT
84480225 TTCATTTATT
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 35 0.45
8 11 0.14
9 8 0.10
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTATAT
Found at i:84480569 original size:3 final size:3
Alignment explanation
Indices: 84480561--84480597 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
84480551 TATGTTACTA
84480561 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT ATAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T
84480598 GTATTTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:84486096 original size:12 final size:12
Alignment explanation
Indices: 84486079--84486119 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
84486069 TTCTATTTCA
84486079 AAAAAAAAAGAG
1 AAAAAAAAAGAG
84486091 AAAAAAAAAGA-
1 AAAAAAAAAGAG
*
84486102 AAAGAAAAAGAG
1 AAAAAAAAAGAG
84486114 AAAAAA
1 AAAAAA
84486120 GAAAAAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:84486098 original size:15 final size:15
Alignment explanation
Indices: 84486078--84486127 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
84486068 CTTCTATTTC
84486078 AAAAAAAAAAGAGAA
1 AAAAAAAAAAGAGAA
84486093 AAAAAAAGAAA-AGAA
1 AAAAAAA-AAAGAGAA
84486108 AAAGAGAAAAAAGA-AA
1 AAA-A-AAAAAAGAGAA
84486124 AAAA
1 AAAA
84486128 TGGAGAGGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 15 0.48
16 12 0.39
17 4 0.13
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAGAGAA
Found at i:84486104 original size:23 final size:22
Alignment explanation
Indices: 84486078--84486127 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
84486068 CTTCTATTTC
84486078 AAAAAAAAAAGAGAAAAAAAAA
1 AAAAAAAAAAGAGAAAAAAAAA
* *
84486100 GAAAAGAAAAAGAGAAAAAAGAA
1 -AAAAAAAAAAGAGAAAAAAAAA
84486123 AAAAA
1 AAAAA
84486128 TGGAGAGGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAGAGAAAAAAAAA
Found at i:84487141 original size:42 final size:44
Alignment explanation
Indices: 84487000--84487177 Score: 170
Period size: 44 Copynumber: 4.1 Consensus size: 44
84486990 CAAAGAAACA
* *
84487000 AGATTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * * * **
84487044 AGATCTGACATTCCTGTGCTCTCT-GTGAAGCAGATTGAAGATTTC
1 AGATTTGGCATCCCTGTG-TTTATAGGGAA-CAGATCGAAGATAGC
*
84487089 AGCA--TGGCAT-CCTGTGTTTATAGGGAACA-AGT-TAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
84487130 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
84487174 AGAT
1 AGAT
84487178 CTAACCTTCA
Statistics
Matches: 105, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
40 1 0.01
41 9 0.09
42 12 0.11
43 30 0.29
44 36 0.34
45 16 0.15
46 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:84487377 original size:119 final size:119
Alignment explanation
Indices: 84487169--84487762 Score: 1026
Period size: 119 Copynumber: 5.0 Consensus size: 119
84487159 CAGATCGAAG
84487169 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
84487234 TTACAAGGAACAAATCGAGGACATAGAAGATTTGACTCTCAGACGTTCTCAAAG
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
*
84487288 ATAGCATATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
*
84487353 TTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * *
84487407 ATAACAGATCTAACCTTCAGATGTTTATACTTAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
*
84487472 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* *
84487526 ATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
*
84487591 TTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * *
84487645 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * * *
84487710 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
84487763 CAGACTCAAG
Statistics
Matches: 453, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 453 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (119 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
Found at i:84487791 original size:83 final size:83
Alignment explanation
Indices: 84487686--84488121 Score: 782
Period size: 83 Copynumber: 5.2 Consensus size: 83
84487676 GAAGCAGATC
84487686 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
84487751 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
84487769 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
84487834 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
84487852 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
84487917 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* *
84487935 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
84488000 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * * *
84488018 CAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGACCTTGCAGATATTATTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTC
*
84488083 AAATGTTCTCAAACAGAAT
65 AAATGTTCTCAAACAGACT
* *
84488102 CAAGATGATTTGACATCCTT
1 CAAGATGGTTTGGCATCCTT
84488122 ACAAATCGAA
Statistics
Matches: 343, Mismatches: 9, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
83 266 0.78
84 77 0.22
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:84488521 original size:14 final size:15
Alignment explanation
Indices: 84488502--84488557 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
84488492 AATCTTCAAT
84488502 GATATG-CAATCTTA
1 GATATGACAATCTTA
84488516 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
84488533 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
84488551 GATATGA
1 GATATGA
84488558 TATACAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:84488528 original size:17 final size:17
Alignment explanation
Indices: 84488508--84488571 Score: 92
Period size: 17 Copynumber: 3.6 Consensus size: 17
84488498 CAATGATATG
84488508 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
84488525 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
84488543 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
84488562 CAATCTTAGA
1 CAATCTTAGA
84488572 AGATATGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.36
18 15 0.36
19 11 0.26
20 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:84488546 original size:35 final size:37
Alignment explanation
Indices: 84488500--84488578 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
84488490 ATAATCTTCA
84488500 ATGATATGCAATCTTAGATATG-ATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGAATACAATCTTAGAT
84488536 ATGAT-TGCAATCTTAGATATGATATACAATCTTAGA-
1 ATGATATGCAATCTTAGATATGA-ATACAATCTTAGAT
84488572 A-GATATG
1 ATGATATG
84488579 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 19 0.47
36 8 0.20
37 13 0.32
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGAATACAATCTTAGAT
Found at i:84488890 original size:12 final size:11
Alignment explanation
Indices: 84488875--84488908 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
84488865 TATTTTTAAT
84488875 TTATTATATATA
1 TTATT-TATATA
84488887 TTATTTATTATA
1 TTATTTA-TATA
84488899 TTATTTATAT
1 TTATTTATAT
84488909 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTATATA
Found at i:84488900 original size:21 final size:21
Alignment explanation
Indices: 84488876--84488984 Score: 61
Period size: 21 Copynumber: 5.3 Consensus size: 21
84488866 ATTTTTAATT
84488876 TATTATATATATTATTTATTA
1 TATTATATATATTATTTATTA
* *
84488897 TATTATTTATATT-TTCA--A
1 TATTATATATATTATTTATTA
* * *
84488915 AATT-TGTAAATTA-TTATTA
1 TATTATATATATTATTTATTA
* *
84488934 TA-TATTATATTTTAACTTATATA
1 TATTA-TATATATT-ATTTAT-TA
*
84488957 TCTTATATAT-TTATTTATTTA
1 TATTATATATATTATTTA-TTA
84488978 TATTATA
1 TATTATA
84488985 CATTATTTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 20
0.66 0.13 0.20
Matches are distributed among these distances:
17 8 0.12
18 5 0.08
19 2 0.03
20 8 0.12
21 25 0.38
22 7 0.11
23 8 0.12
24 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.60
Consensus pattern (21 bp):
TATTATATATATTATTTATTA
Found at i:84488906 original size:16 final size:16
Alignment explanation
Indices: 84488873--84488903 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
84488863 CTTATTTTTA
84488873 ATTTATTATATATATT
1 ATTTATTATATATATT
84488889 ATTTATTATAT-TATT
1 ATTTATTATATATATT
84488904 TATATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATTATATATATT
Found at i:84488941 original size:7 final size:7
Alignment explanation
Indices: 84488924--84489030 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
84488914 AAATTTGTAA
84488924 ATTAT-T
1 ATTATAT
84488930 ATTATAT
1 ATTATAT
84488937 ATTATAT
1 ATTATAT
84488944 -TT-TA-
1 ATTATAT
84488948 ACTTATAT
1 A-TTATAT
84488956 ATCTTATAT
1 A--TTATAT
*
84488965 ATTTATTT
1 A-TTATAT
84488973 ATT-TAT
1 ATTATAT
*
84488979 ATTATAC
1 ATTATAT
84488986 ATTAT-T
1 ATTATAT
* *
84488992 -TTAAAA
1 ATTATAT
*
84488998 ACTTACAT
1 A-TTATAT
*
84489006 -TTTTAT
1 ATTATAT
84489012 ATTATAT
1 ATTATAT
*
84489019 ATTATAA
1 ATTATAT
84489026 ATTAT
1 ATTAT
84489031 TTCATTTATT
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 35 0.45
8 11 0.14
9 8 0.10
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTATAT
Found at i:84489372 original size:3 final size:3
Alignment explanation
Indices: 84489364--84489400 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
84489354 TATGTTACTA
84489364 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT ATAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T
84489401 GTATTTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:84490863 original size:42 final size:41
Alignment explanation
Indices: 84490750--84490864 Score: 140
Period size: 42 Copynumber: 2.7 Consensus size: 41
84490740 TTACATGGCA
* * *
84490750 TGGACACACACTCATGTCCTTGCCCGTATAGCTCACACAGCC
1 TGGACACACGCCCATGTCCTTG-CCGTATGGCTCACACAGCC
* *
84490792 TGGACACACGCCCATGTCCTTGCTCGTATGGCTCACACGGCT
1 TGGACACACGCCCATGTCCTTGC-CGTATGGCTCACACAGCC
* *
84490834 TGGGCACATGCCCATGTCCCTTGCCGTATGG
1 TGGACACACGCCCATGT-CCTTGCCGTATGG
84490865 TTCTAAAGAG
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
41 1 0.02
42 57 0.89
43 6 0.09
ACGTcount: A:0.18, C:0.36, G:0.23, T:0.23
Consensus pattern (41 bp):
TGGACACACGCCCATGTCCTTGCCGTATGGCTCACACAGCC
Found at i:84493832 original size:18 final size:19
Alignment explanation
Indices: 84493811--84493855 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
84493801 AAAAAAAAAG
84493811 AAAAAGAAAACCT-A-CCCC
1 AAAAA-AAAACCTAACCCCC
84493829 -AAAAAAAACCTAACCCCC
1 AAAAAAAAACCTAACCCCC
84493847 AAAAAAAAA
1 AAAAAAAAA
84493856 GAAGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 7 0.29
17 5 0.21
18 4 0.17
19 8 0.33
ACGTcount: A:0.64, C:0.29, G:0.02, T:0.04
Consensus pattern (19 bp):
AAAAAAAAACCTAACCCCC
Found at i:84493836 original size:16 final size:18
Alignment explanation
Indices: 84493812--84493854 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
84493802 AAAAAAAAGA
84493812 AAAAGAAAACCT-A-CCCC
1 AAAA-AAAACCTAACCCCC
84493829 AAAAAAAACCTAACCCCC
1 AAAAAAAACCTAACCCCC
84493847 AAAAAAAA
1 AAAAAAAA
84493855 AGAAGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.29
17 5 0.21
18 12 0.50
ACGTcount: A:0.63, C:0.30, G:0.02, T:0.05
Consensus pattern (18 bp):
AAAAAAAACCTAACCCCC
Found at i:84494430 original size:2 final size:2
Alignment explanation
Indices: 84494425--84494459 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
84494415 TAAATACTAT
*
84494425 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
84494460 TTAAATACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:84494733 original size:19 final size:19
Alignment explanation
Indices: 84494665--84494737 Score: 69
Period size: 19 Copynumber: 3.7 Consensus size: 19
84494655 TTGTAGATAT
84494665 TATTATTATTATTAT-TACA
1 TATTATTATT-TTATGTACA
* * *
84494684 TACTT-TTATTATATGCATA
1 TA-TTATTATTTTATGTACA
84494703 TATATATGTATTTTATGTACA
1 TAT-TAT-TATTTTATGTACA
84494724 TATTATTATTTTAT
1 TATTATTATTTTAT
84494738 ATTATTATAC
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
18 4 0.09
19 20 0.47
20 6 0.14
21 13 0.30
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (19 bp):
TATTATTATTTTATGTACA
Found at i:84496439 original size:12 final size:12
Alignment explanation
Indices: 84496419--84496454 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
84496409 ATTCATTTAA
84496419 CATTCATGCATT
1 CATTCATGCATT
*
84496431 CATTTATGCATT
1 CATTCATGCATT
*
84496443 CATTCATTCATT
1 CATTCATGCATT
84496455 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:84497964 original size:93 final size:89
Alignment explanation
Indices: 84497807--84497982 Score: 216
Period size: 91 Copynumber: 1.9 Consensus size: 89
84497797 TTGACAACAG
* **
84497807 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTGATTTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATACAAGTGA-TTTTTT
84497872 TTGA-AAGGCAGAAATTGAAAAACGAA
65 TTGACAA--CAGAAATTGAAAAACGAA
*
84497898 AAATTGAAAATACCTC-GACGTGTGACCTGAGGCTCAACTCGCCTCT-AGCAATACAAGTTGA-T
1 AAATTGAAAATACCTCAG-CGTGT--CCTGAGGCTCAACTCACCTCTCA-CAATACAAG-TGATT
84497960 TTTTTTGACAACAGAAATTGAAA
61 TTTTTTGACAACAGAAATTGAAA
84497983 TTACCTCAGC
Statistics
Matches: 75, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
90 1 0.01
91 32 0.43
92 10 0.13
93 29 0.39
94 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (89 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATACAAGTGATTTTTTT
TGACAACAGAAATTGAAAAACGAA
Found at i:84498076 original size:60 final size:59
Alignment explanation
Indices: 84497984--84498096 Score: 199
Period size: 60 Copynumber: 1.9 Consensus size: 59
84497974 AAATTGAAAT
* *
84497984 TACCTCAGCTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTAAAA
1 TACCTCAGCCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAA
84498043 TACCTCAGCACGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 TACCTCAGC-CGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
84498097 GAAACATACG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
59 9 0.18
60 42 0.82
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.34
Consensus pattern (59 bp):
TACCTCAGCCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAA
Found at i:84508051 original size:2 final size:2
Alignment explanation
Indices: 84508044--84508069 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
84508034 AATAAAATAC
84508044 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
84508070 GCATATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84508205 original size:2 final size:2
Alignment explanation
Indices: 84508198--84508227 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
84508188 ATATGTACAA
*
84508198 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84508228 GTACATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:84508421 original size:39 final size:39
Alignment explanation
Indices: 84508320--84508426 Score: 108
Period size: 39 Copynumber: 2.7 Consensus size: 39
84508310 TATGGTATTT
* * * * *
84508320 AAAATATATATATATATATATGTATATATAATAGTATTTA
1 AAAATATATACATA-ATATATATATAAATAATAGCATTAA
* * * * *
84508360 AGAATATATACATAAGAAATATATAACTAATGGCATTAA
1 AAAATATATACATAATATATATATAAATAATAGCATTAA
84508399 AAAATATATACATAATATATATA-AAATA
1 AAAATATATACATAATATATATATAAATA
84508427 CCTAAAAAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
38 4 0.08
39 37 0.70
40 12 0.23
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.36
Consensus pattern (39 bp):
AAAATATATACATAATATATATATAAATAATAGCATTAA
Found at i:84514648 original size:7 final size:7
Alignment explanation
Indices: 84514636--84514664 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
84514626 TATGCGTGCC
84514636 TTATTTT
1 TTATTTT
84514643 TTATTTT
1 TTATTTT
84514650 TTA-TTT
1 TTATTTT
84514656 TTATTTT
1 TTATTTT
84514663 TT
1 TT
84514665 GGGCTAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTATTTT
Found at i:84514658 original size:13 final size:13
Alignment explanation
Indices: 84514640--84514664 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84514630 CGTGCCTTAT
84514640 TTTTTATTTTTTA
1 TTTTTATTTTTTA
84514653 TTTTTATTTTTT
1 TTTTTATTTTTT
84514665 GGGCTAGTAT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:84519867 original size:27 final size:27
Alignment explanation
Indices: 84519822--84519876 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
84519812 TAATTATATA
* *
84519822 TAATTTAAAAATTTTACAT-AAACTAT
1 TAATATAAAAATTTCACATCAAACTAT
84519848 TAATATAAATAATTTCACATCAAACTAT
1 TAATATAAA-AATTTCACATCAAACTAT
84519876 T
1 T
84519877 CAAGTAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.32
27 9 0.36
28 8 0.32
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (27 bp):
TAATATAAAAATTTCACATCAAACTAT
Found at i:84521359 original size:24 final size:23
Alignment explanation
Indices: 84521324--84521369 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
84521314 GAAGAGAATG
* *
84521324 GAAAAAAGAAGAAGAAAGTTAAAA
1 GAAAAAAAAAGAA-AAAATTAAAA
84521348 GAAAAAAAAAGAAAAAATTAAA
1 GAAAAAAAAAGAAAAAATTAAA
84521370 TTGCTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (23 bp):
GAAAAAAAAAGAAAAAATTAAAA
Found at i:84522538 original size:57 final size:57
Alignment explanation
Indices: 84522465--84522578 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
84522455 AACACCAATG
84522465 AAAAGAGGGAAACACAATTTCACATCTCACACATCTAATATCAAATTTTATTGATAT
1 AAAAGAGGGAAACACAATTTCACATCTCACACATCTAATATCAAATTTTATTGATAT
84522522 AAAAGAGGGAAACACAATTTCACATCTCACACATCTAATATCAAATTTTATTGATAT
1 AAAAGAGGGAAACACAATTTCACATCTCACACATCTAATATCAAATTTTATTGATAT
84522579 TAAATTAGAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.30
Consensus pattern (57 bp):
AAAAGAGGGAAACACAATTTCACATCTCACACATCTAATATCAAATTTTATTGATAT
Found at i:84528416 original size:17 final size:18
Alignment explanation
Indices: 84528396--84528430 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
84528386 AAGTGAATTG
84528396 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
84528413 AAATTGCAGAAATTAAAT
1 AAATTGCAGAAATTAAAT
84528431 GAGGAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.29
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:84529156 original size:10 final size:10
Alignment explanation
Indices: 84529137--84529196 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
84529127 TAAAATTCTA
84529137 AAAGATAAAT
1 AAAGATAAAT
84529147 ACAA-ATAAAT
1 A-AAGATAAAT
*
84529157 AAAGATAATT
1 AAAGATAAAT
84529167 AAAGATAAAT
1 AAAGATAAAT
84529177 AAAGATAAAT
1 AAAGATAAAT
84529187 GAAA-ATAAAT
1 -AAAGATAAAT
84529197 CCTAGAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:84530014 original size:96 final size:97
Alignment explanation
Indices: 84529852--84530035 Score: 298
Period size: 96 Copynumber: 1.9 Consensus size: 97
84529842 ATTTTATTTA
* * * ** *
84529852 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACTTGAAGAGAGATGACAGCCAAGCACTCCA
1 TTTATTTTTACTTAAGAACATATTAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
84529917 CCCCGGTTACTCAGCCCAACATACTCCTAATT
66 CCCCGGTTACTCAGCCCAACATACTCCTAATT
84529949 TTTATTTTT-CTTAAGAACATATTAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
1 TTTATTTTTACTTAAGAACATATTAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
*
84530013 CCCCGGTTACTTAGCCCAACATA
66 CCCCGGTTACTCAGCCCAACATA
84530036 TTCTTAGATA
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
96 71 0.89
97 9 0.11
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATTAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
CCCCGGTTACTCAGCCCAACATACTCCTAATT
Found at i:84532548 original size:8 final size:8
Alignment explanation
Indices: 84532535--84532602 Score: 70
Period size: 8 Copynumber: 8.4 Consensus size: 8
84532525 ATGAATTAGT
84532535 AAATAATA
1 AAATAATA
84532543 AAATAATA
1 AAATAATA
*
84532551 TAATAAAATA
1 -AA-ATAATA
84532561 AAATAA-A
1 AAATAATA
84532568 TAAATAATA
1 -AAATAATA
84532577 ATAATAATA
1 A-AATAATA
84532586 AAATAA-A
1 AAATAATA
84532593 AAA-AATA
1 AAATAATA
84532600 AAA
1 AAA
84532603 ATTGGGTTGC
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
6 2 0.04
7 9 0.17
8 23 0.44
9 13 0.25
10 5 0.10
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:84532550 original size:3 final size:3
Alignment explanation
Indices: 84532536--84532591 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
84532526 TGAATTAGTA
84532536 AAT AAT AA- AAT AAT -AT AAT AA- AAT AA- AAT AAAT AAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT
84532579 AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AA
84532592 AAAAAATAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
2 10 0.21
3 30 0.64
4 7 0.15
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:84532555 original size:13 final size:13
Alignment explanation
Indices: 84532537--84532591 Score: 65
Period size: 13 Copynumber: 3.9 Consensus size: 13
84532527 GAATTAGTAA
84532537 ATAATAAAATAAT
1 ATAATAAAATAAT
*
84532550 ATAATAAAATAAA
1 ATAATAAAATAAT
84532563 ATAAATAAATAATAAT
1 AT-AAT-AA-AATAAT
84532579 AATAATAAAATAA
1 -ATAATAAAATAA
84532592 AAAAAATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
13 14 0.39
14 8 0.22
15 4 0.11
16 8 0.22
17 2 0.06
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
ATAATAAAATAAT
Found at i:84532568 original size:30 final size:30
Alignment explanation
Indices: 84532534--84532603 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
84532524 AATGAATTAG
84532534 TAAATAATAAAATAAT-ATAATAAAATAAAA
1 TAAATAA-AAAATAATAATAATAAAATAAAA
*
84532564 TAAATAAATAATAATAATAATAAAATAAAA
1 TAAATAAAAAATAATAATAATAAAATAAAA
*
84532594 AAAATAAAAA
1 TAAATAAAAA
84532604 TTGGGTTGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 7 0.19
30 29 0.81
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (30 bp):
TAAATAAAAAATAATAATAATAAAATAAAA
Found at i:84532592 original size:5 final size:5
Alignment explanation
Indices: 84532539--84532602 Score: 66
Period size: 5 Copynumber: 13.4 Consensus size: 5
84532529 ATTAGTAAAT
*
84532539 AATAA AAT-- AATAT AATAA AATAA AAT-A AAT-A AATAA TAATAA TAATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA -AATAA -AATAA
84532587 AATAA AA-AA AATAA AA
1 AATAA AATAA AATAA AA
84532603 ATTGGGTTGC
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
3 3 0.06
4 12 0.23
5 27 0.51
6 11 0.21
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:84538230 original size:17 final size:18
Alignment explanation
Indices: 84538210--84538243 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
84538200 AAGTGAATTG
84538210 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
84538227 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
84538244 ATGAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:84538978 original size:10 final size:10
Alignment explanation
Indices: 84538959--84539028 Score: 99
Period size: 10 Copynumber: 7.0 Consensus size: 10
84538949 TGAAATTCTA
84538959 AAAGATAAAT
1 AAAGATAAAT
84538969 ACAA-ATAAAT
1 A-AAGATAAAT
*
84538979 AAAGATAATT
1 AAAGATAAAT
84538989 AAAGATAAAT
1 AAAGATAAAT
84538999 AAAGATAAAT
1 AAAGATAAAT
84539009 AAAGATAAAT
1 AAAGATAAAT
84539019 GAAA-ATAAAT
1 -AAAGATAAAT
84539029 CCTAGAATTA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
9 2 0.04
10 48 0.87
11 5 0.09
ACGTcount: A:0.69, C:0.01, G:0.09, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:84539007 original size:16 final size:16
Alignment explanation
Indices: 84538975--84539027 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
84538965 AAATACAAAT
*
84538975 AAATAAAGAT-AATTA
1 AAATAAAGATAAATGA
84538990 AAGAT-AA-ATAAA-GA
1 AA-ATAAAGATAAATGA
84539004 TAAATAAAGATAAATGA
1 -AAATAAAGATAAATGA
84539021 AAATAAA
1 AAATAAA
84539028 TCCTAGAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
14 5 0.16
15 10 0.32
16 14 0.45
17 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (16 bp):
AAATAAAGATAAATGA
Found at i:84539842 original size:30 final size:30
Alignment explanation
Indices: 84539766--84539851 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 30
84539756 TTAGTTAAGT
84539766 TATATAATATTTAAATAATTTAATATAATGA
1 TATATAA-ATTTAAATAATTTAATATAATGA
* * *
84539797 TAAATGATATTTAAATAATTT-ATATAGTGA
1 TATAT-AAATTTAAATAATTTAATATAATGA
*
84539827 TATATAAATTATAAATTAATCTAAT
1 TATATAAATT-TAAA-TAATTTAAT
84539852 TTTTATATAC
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
29 4 0.09
30 16 0.36
31 22 0.49
32 3 0.07
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.44
Consensus pattern (30 bp):
TATATAAATTTAAATAATTTAATATAATGA
Found at i:84540880 original size:6 final size:7
Alignment explanation
Indices: 84540863--84540889 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
84540853 CTAAAATTTA
84540863 AAAAATT
1 AAAAATT
84540870 AAAAATT
1 AAAAATT
84540877 AAAAATT
1 AAAAATT
84540884 AAAAAT
1 AAAAAT
84540890 AACCAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:84540997 original size:3 final size:3
Alignment explanation
Indices: 84540989--84541030 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
84540979 TTTGAAATAA
84540989 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
84541031 CACGACTTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:84541271 original size:31 final size:30
Alignment explanation
Indices: 84541208--84541283 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 30
84541198 TTATATACAT
*
84541208 AAATTTTAATTTTGTACAATTATATAAGTG
1 AAATTTTAATTTTGTACAAATATATAAGTG
* **
84541238 AAATTTTAATTTTGATTCAAATATATATTTG
1 AAATTTTAATTTTG-TACAAATATATAAGTG
84541269 AAATTTTAATTTTGT
1 AAATTTTAATTTTGT
84541284 TTTAATCATG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 15 0.37
31 26 0.63
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (30 bp):
AAATTTTAATTTTGTACAAATATATAAGTG
Found at i:84541494 original size:2 final size:2
Alignment explanation
Indices: 84541482--84541516 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
84541472 TACATTAAAC
84541482 TA TA T- TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
84541517 CACAATTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:84541502 original size:15 final size:15
Alignment explanation
Indices: 84541482--84541516 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
84541472 TACATTAAAC
84541482 TATATTATATATATA
1 TATATTATATATATA
84541497 TATATTATATATATA
1 TATATTATATATATA
84541512 TATAT
1 TATAT
84541517 CACAATTTGT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATATTATATATATA
Found at i:84541505 original size:13 final size:13
Alignment explanation
Indices: 84541489--84541514 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84541479 AACTATATTA
84541489 TATATATATATAT
1 TATATATATATAT
84541502 TATATATATATAT
1 TATATATATATAT
84541515 ATCACAATTT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATATATAT
Found at i:84542171 original size:12 final size:12
Alignment explanation
Indices: 84542154--84542188 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
84542144 ACCCAAAACC
84542154 CTTAGCCCAAAA
1 CTTAGCCCAAAA
84542166 CTTAGCCCAAAA
1 CTTAGCCCAAAA
*
84542178 CATTAACCCAA
1 C-TTAGCCCAA
84542189 CCCAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.43, C:0.34, G:0.06, T:0.17
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:84542289 original size:28 final size:25
Alignment explanation
Indices: 84542223--84542277 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
84542213 AACCCTAATC
84542223 CCACCTACTCCACCACCCTTGTTGG
1 CCACCTACTCCACCACCCTTGTTGG
84542248 CCACCTACTCCACCACCCTTGTTGG
1 CCACCTACTCCACCACCCTTGTTGG
84542273 CCACC
1 CCACC
84542278 ACCTTGGCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.16, C:0.51, G:0.11, T:0.22
Consensus pattern (25 bp):
CCACCTACTCCACCACCCTTGTTGG
Found at i:84542844 original size:3 final size:3
Alignment explanation
Indices: 84542825--84542915 Score: 59
Period size: 3 Copynumber: 30.3 Consensus size: 3
84542815 GTTGAGAGCT
* * *
84542825 TTA TT- TTA TT- TTT TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
84542868 TTA TTA TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA
1 TTA TTA TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA
84542912 TTA T
1 TTA T
84542916 ATATACCCTC
Statistics
Matches: 71, Mismatches: 7, Indels: 20
0.72 0.07 0.20
Matches are distributed among these distances:
2 9 0.13
3 53 0.75
4 7 0.10
5 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:84542854 original size:12 final size:12
Alignment explanation
Indices: 84542824--84542908 Score: 68
Period size: 12 Copynumber: 7.0 Consensus size: 12
84542814 AGTTGAGAGC
84542824 TTTATT-TTATT
1 TTTATTATTATT
84542835 TTT-TTATTATT
1 TTTATTATTATT
*
84542846 TTTACTATTATT
1 TTTATTATTATT
*
84542858 TATATTATTATT
1 TTTATTATTATT
*
84542870 ATTATT-TCTCATGT
1 TTTATTAT-T-AT-T
*
84542884 ATATATTATTATT
1 -TTTATTATTATT
*
84542897 TATATTATTATT
1 TTTATTATTATT
84542909 ATATTATATA
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
10 2 0.03
11 12 0.20
12 34 0.57
13 3 0.05
14 3 0.05
15 5 0.08
16 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (12 bp):
TTTATTATTATT
Found at i:84542868 original size:27 final size:27
Alignment explanation
Indices: 84542829--84542915 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 27
84542819 AGAGCTTTAT
* *
84542829 TTTATTTTTTTATTATTTTTACTATTA
1 TTTATATTATTATTATTTTTACTATTA
*
84542856 TTTATATTATTATTATTATTT-C--TCA
1 TTTATATTATTATTATT-TTTACTATTA
* * *
84542881 TGTATA-TATTATTATTTATATTATTA
1 TTTATATTATTATTATTTTTACTATTA
84542907 -TTATATTAT
1 TTTATATTAT
84542916 ATATACCCTC
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 5 0.11
27 16 0.34
28 3 0.06
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (27 bp):
TTTATATTATTATTATTTTTACTATTA
Found at i:84542890 original size:21 final size:18
Alignment explanation
Indices: 84542826--84542919 Score: 88
Period size: 18 Copynumber: 5.2 Consensus size: 18
84542816 TTGAGAGCTT
84542826 TATT-TTATT-TT-TTTA
1 TATTATTATTATTATTTA
* *
84542841 TTATTTTTACTATTATTTA
1 -TATTATTATTATTATTTA
*
84542860 TATTATTATTATTATTTC
1 TATTATTATTATTATTTA
84542878 TCATGTATATATTATTATTTA
1 T-AT-TAT-TATTATTATTTA
84542899 TATTATTATTA-TATTATA
1 TATTATTATTATTATT-TA
84542917 TAT
1 TAT
84542920 ACCCTCTCCA
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
16 4 0.06
17 8 0.12
18 28 0.42
19 9 0.14
20 5 0.08
21 12 0.18
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (18 bp):
TATTATTATTATTATTTA
Found at i:84548936 original size:43 final size:44
Alignment explanation
Indices: 84548888--84548982 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 44
84548878 GCCTCAGCGA
* * *
84548888 AGCAGATTGAAGTCACTAGCCTTATCTCCCTGAAGT-GCAGTAG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCGCAGTAG
* * * *
84548931 AGCAGACTGAAGTTACAAGTCTCATCTCCTTGAAGTCGCAGTGG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCGCAGTAG
84548975 AGCAGACT
1 AGCAGACT
84548983 AAATGTACAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 30 0.68
44 14 0.32
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.24
Consensus pattern (44 bp):
AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCGCAGTAG
Found at i:84549365 original size:43 final size:44
Alignment explanation
Indices: 84549258--84549370 Score: 122
Period size: 43 Copynumber: 2.6 Consensus size: 44
84549248 CCACCAAGCT
* * * * *
84549258 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATA
1 TTAAACCCCTAAGCAGTAGGGTAACAAGCTCAAATTTATAAACA
* * * *
84549302 TTATTA-CCCTAAGCAATAGGGTAACAAGC-CAAATTTTTAAACC
1 TTA-AACCCCTAAGCAGTAGGGTAACAAGCTCAAATTTATAAACA
84549345 TTAAACCCCTAAGCAGTAGGGTAACA
1 TTAAACCCCTAAGCAGTAGGGTAACA
84549371 GGTTGAGTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
42 1 0.02
43 30 0.54
44 25 0.45
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (44 bp):
TTAAACCCCTAAGCAGTAGGGTAACAAGCTCAAATTTATAAACA
Found at i:84549402 original size:42 final size:44
Alignment explanation
Indices: 84549343--84549462 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
84549333 AATTTTTAAA
* *
84549343 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGA-GTTTAC-AG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAG
* * * **
84549385 -ATCTAAACCCCTAAGCAGTAGGGAAACAGATCAATGATGACAAG
1 CCT-TAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAG
*
84549429 CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGA
84549463 AAATCAAATA
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
41 1 0.02
42 27 0.44
43 4 0.07
44 28 0.46
45 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (44 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAG
Found at i:84549444 original size:86 final size:88
Alignment explanation
Indices: 84549252--84549462 Score: 236
Period size: 86 Copynumber: 2.4 Consensus size: 88
84549242 TTCGAACCAC
* * * * * *
84549252 CAAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATATTATTACCCTAAGCA
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTG-AGTTTACAGATACTATAACCCTAAGCA
* ** *
84549317 ATAGGGTAACAAGCCAAATTTTTA
65 ATAGGGAAACAAGCCAAATGATGA
*
84549341 -AA-CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAGTTTACAGAT-CTA-AACCCCTAAGCA
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAGTTTACAGATACTATAA-CCCTAAGCA
* *
84549402 GTAGGGAAAC-AGATC-AATGATGA
65 ATAGGGAAACAAG-CCAAATGATGA
84549425 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGA
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGA
84549463 AAATCAAATA
Statistics
Matches: 104, Mismatches: 14, Indels: 11
0.81 0.11 0.09
Matches are distributed among these distances:
84 8 0.08
85 22 0.21
86 43 0.41
87 29 0.28
88 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (88 bp):
CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAGTTTACAGATACTATAACCCTAAGCAA
TAGGGAAACAAGCCAAATGATGA
Found at i:84549910 original size:12 final size:12
Alignment explanation
Indices: 84549893--84549917 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84549883 ACCCAAAACC
84549893 CTTAGCCCAAAA
1 CTTAGCCCAAAA
84549905 CTTAGCCCAAAA
1 CTTAGCCCAAAA
84549917 C
1 C
84549918 ACTAACCCAA
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:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:84550564 original size:3 final size:3
Alignment explanation
Indices: 84550556--84550636 Score: 53
Period size: 3 Copynumber: 26.3 Consensus size: 3
84550546 TGTTTTATCT
* *
84550556 TTA TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT- TCTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-T-A
*
84550602 TGTA TATA TTG TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
84550637 ATATACCCTC
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
2 5 0.08
3 48 0.77
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:84550570 original size:12 final size:12
Alignment explanation
Indices: 84550550--84550596 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
84550540 GAGCTTTGTT
*
84550550 TTATCTTTATTA
1 TTATTTTTATTA
*
84550562 TTATTTTTACTA
1 TTATTTTTATTA
*
84550574 TTATTTATATTA
1 TTATTTTTATTA
*
84550586 TTATTATTATT
1 TTATTTTTATT
84550597 TCTCATGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:84550611 original size:21 final size:18
Alignment explanation
Indices: 84550556--84550640 Score: 79
Period size: 18 Copynumber: 4.7 Consensus size: 18
84550546 TGTTTTATCT
84550556 TTATTA-TTAT-TT-TTA
1 TTATTATTTATATTATTA
*
84550571 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
84550589 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
*
84550610 TTGTTATTTATATTATTA
1 TTATTATTTATATTATTA
84550628 TTA-TATTATATAT
1 TTATTATT-TATAT
84550641 ACCCTCTCCA
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
15 5 0.09
16 4 0.07
17 6 0.11
18 21 0.37
19 5 0.09
20 5 0.09
21 11 0.19
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.64
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:84550758 original size:12 final size:13
Alignment explanation
Indices: 84550711--84550763 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 13
84550701 TTCTGACTAC
*
84550711 TATTATTATATA-
1 TATTATTATGTAT
84550723 TA-TA-TATGTAT
1 TATTATTATGTAT
*
84550734 TATTGTT-TGTAT
1 TATTATTATGTAT
84550746 TATTATTAT-TAT
1 TATTATTATGTAT
84550758 TATTAT
1 TATTAT
84550764 CACCCCTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 5 0.15
11 4 0.12
12 23 0.68
13 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (13 bp):
TATTATTATGTAT
Found at i:84555435 original size:3 final size:3
Alignment explanation
Indices: 84555427--84555583 Score: 137
Period size: 3 Copynumber: 52.3 Consensus size: 3
84555417 TAATAGTATG
* * *
84555427 ATA ATA ATA ATA ATA GTA ACA AAA ATA ATA ATGA CA-A AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A -ATA ATA ATA ATA
84555472 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * * ** *
84555517 AAA ACA ATA GTA ATA GCA ATA ATA GA-A ATA ATA ATA CTCA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA
84555562 ATA ATA A-A CATA ATA ATA ATA A
1 ATA ATA ATA -ATA ATA ATA ATA A
84555584 ATATAAGACT
Statistics
Matches: 126, Mismatches: 16, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
2 8 0.06
3 112 0.89
4 5 0.04
5 1 0.01
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:84556803 original size:39 final size:39
Alignment explanation
Indices: 84556760--84556836 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
84556750 TTGTGGGTTA
84556760 GTGCTAGGTGGGCTAGGGTTTTCAGCCTAGATTTTTAGG
1 GTGCTAGGTGGGCTAGGGTTTTCAGCCTAGATTTTTAGG
84556799 GTGCTAGGTGGGCTAGGGTTTTCAGCCTAGATTTTTAG
1 GTGCTAGGTGGGCTAGGGTTTTCAGCCTAGATTTTTAG
84556837 TTTAGGTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.16, C:0.13, G:0.35, T:0.36
Consensus pattern (39 bp):
GTGCTAGGTGGGCTAGGGTTTTCAGCCTAGATTTTTAGG
Found at i:84557621 original size:175 final size:177
Alignment explanation
Indices: 84557325--84557774 Score: 638
Period size: 177 Copynumber: 2.6 Consensus size: 177
84557315 AACTTTTAGA
* * * ** *
84557325 GAGATAAGACTTGTGGCTTAAATCTGCTCTATTGCCGCTACATGGAGATAAGATTTGCCCTCTTC
1 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCACCGTCTTC
* * * *
84557390 GATATACTCCACTA-TGGCTTAGGGAGATAAGATCTGCAATTTTTAGTCTACTCTACTGCAACTT
66 GATCTACTCCACTACT-GCTTAGGGAGATAAGATCTACAACTTTTAGTCTACTCTACTACAACTT
* *
84557454 CA-GG-GATAAGACTTGTATCCTGAGCCTGCTCCATTGCAACCTCAGG
130 CAGGGAGATAAGACTTGTATCCTGAGCCTGCTCCACTGCAACCTCAAG
*
84557500 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCACCGTCGTC
1 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCACCGTCTTC
* * * *
84557565 GATCTACTCCACTACTGTTTAAGGAGATAAGATCTACAACTTTTAGTAC-GCTCTACTACTACTT
66 GATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAACTTTTAGT-CTACTCTACTACAACTT
* *
84557629 TAGGGAGATAAGACTTGTATCTTGAGCCTGCTCCACTGCAACCTCAAG
130 CAGGGAGATAAGACTTGTATCCTGAGCCTGCTCCACTGCAACCTCAAG
* * *
84557677 AAGATAAAGCTGGTGGCTTAAATCTGCTCCATTGCCGCTATATGGAGATAAGATTCACCGTCTTC
1 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCACCGTCTTC
* *
84557742 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT
66 GATCTACTCCACTACTGCTTAGGGAGATAAGAT
84557775 ATGTGACTTC
Statistics
Matches: 244, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
175 111 0.45
176 4 0.02
177 129 0.53
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (177 bp):
GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCACCGTCTTC
GATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAACTTTTAGTCTACTCTACTACAACTTC
AGGGAGATAAGACTTGTATCCTGAGCCTGCTCCACTGCAACCTCAAG
Found at i:84562473 original size:20 final size:20
Alignment explanation
Indices: 84562427--84562467 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
84562417 GAATAAAATG
84562427 CAAGA-AAAGAATATTTGCT
1 CAAGATAAAGAATATTTGCT
84562446 CAAGATAAAGAATATTTGCT
1 CAAGATAAAGAATATTTGCT
84562466 CA
1 CA
84562468 GAATAAGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (20 bp):
CAAGATAAAGAATATTTGCT
Found at i:84566042 original size:19 final size:19
Alignment explanation
Indices: 84566002--84566040 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
84565992 GTGAAATTTG
* *
84566002 ATGCACATGATGCGATGAA
1 ATGCAAATGATGAGATGAA
84566021 ATGCAAATGCATGAGATGAA
1 ATGCAAATG-ATGAGATGAA
84566041 TGTAAAACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.21
Consensus pattern (19 bp):
ATGCAAATGATGAGATGAA
Found at i:84569908 original size:28 final size:29
Alignment explanation
Indices: 84569855--84569911 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
84569845 TGAAATAAAC
*
84569855 AAATAAAATAGAAGTTTGTAAAAAAATGA
1 AAATAAAATAGAAGTTTATAAAAAAATGA
*
84569884 AAATAAAA-AGAA-TTTATATATAAAATGA
1 AAATAAAATAGAAGTTTATA-AAAAAATGA
84569912 TAAGTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 12 0.48
29 8 0.32
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (29 bp):
AAATAAAATAGAAGTTTATAAAAAAATGA
Found at i:84569978 original size:3 final size:3
Alignment explanation
Indices: 84569970--84570170 Score: 175
Period size: 3 Copynumber: 67.3 Consensus size: 3
84569960 TAATAGTATG
* * * *
84569970 ATA ATA ATA ATA ATA GT- ATCA A-A AAA ATA ATA ACA A-A TATA ACA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA -ATA ATA
84570014 A-A TATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
84570059 ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA GTA ATA ATA CA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * * ** *
84570104 AAA ACA ATA GTA ATA GCA ATA ATA GA-A ATA ATA ATA CTCA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA
84570149 ATA ATA A-A CATA ATA ATA ATA A
1 ATA ATA ATA -ATA ATA ATA ATA A
84570171 ATATATGACT
Statistics
Matches: 163, Mismatches: 20, Indels: 30
0.77 0.09 0.14
Matches are distributed among these distances:
2 10 0.06
3 146 0.90
4 7 0.04
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:84579535 original size:20 final size:19
Alignment explanation
Indices: 84579512--84579555 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
84579502 CTATTCAAAC
*
84579512 AATATTACTA-TAATAGTTA
1 AATATTA-TATTAATAATTA
84579531 TAATATTATATTAATAATTA
1 -AATATTATATTAATAATTA
84579551 AATAT
1 AATAT
84579556 ATTTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
AATATTATATTAATAATTA
Found at i:84581334 original size:48 final size:47
Alignment explanation
Indices: 84581213--84581388 Score: 162
Period size: 48 Copynumber: 3.7 Consensus size: 47
84581203 TAGGGTATGA
* * ** * *
84581213 TGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTTTCACATATCCA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAAC-ACCTC-TAT-CG
* * *
84581263 TGCCGATGCCATGTCCTAGACATGATCTTACACTAACACCTCTATACG
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAACACCTCTAT-CG
* *
84581311 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGACACATC--TCG
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAACACCTCTATCG
* *
84581356 TAGCCGATG-CATGTCCCAGACAT-GTCTTGCACT
1 T-GCCGATGCCATGTCCCAAACATGGTCTTACACT
84581389 GGCTTATATC
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
44 9 0.08
45 16 0.15
46 8 0.07
48 41 0.38
49 2 0.02
50 32 0.30
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.27
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTAACACCTCTATCG
Found at i:84586363 original size:39 final size:39
Alignment explanation
Indices: 84586236--84586366 Score: 115
Period size: 40 Copynumber: 3.3 Consensus size: 39
84586226 GACTAGCTCA
* *
84586236 AATGCCTTCGGGAC-GAAGCCCGG-TTATAGTGACTCGCACG
1 AATGCCTTC-GGACTTAA-CCCGGATT-TAGTAACTCGCACG
* *
84586276 AATGCCTTCAGGACTTAACCCGGGTTTAGTAACTTGCAC-
1 AATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCACG
* * * *
84586315 AATTGCCTTCGGGCTTAGCCCGGATTTATTAACTCACACG
1 AA-TGCCTTCGGACTTAACCCGGATTTAGTAACTCGCACG
*
84586355 AATCCCTTCGGA
1 AATGCCTTCGGA
84586367 TCCTAGTCCG
Statistics
Matches: 75, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
39 33 0.44
40 38 0.51
41 4 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:84588495 original size:17 final size:17
Alignment explanation
Indices: 84588473--84588506 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
84588463 AAGTAAAAGA
84588473 TATTT-ATTGATTATTAT
1 TATTTAATTGA-TATTAT
84588490 TATTTAATTGATATTAT
1 TATTTAATTGATATTAT
84588507 ATTAGTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATTTAATTGATATTAT
Found at i:84590637 original size:40 final size:40
Alignment explanation
Indices: 84590576--84590732 Score: 160
Period size: 39 Copynumber: 4.0 Consensus size: 40
84590566 CAAATCCAAT
* *
84590576 CACCACCAC-AAAGCATGCGGGACTTTAAGCCTGGATATAA
1 CACCAGCACGAAAGCCTGCGGGACTTT-AGCCTGGATATAA
* * *
84590616 TACCCGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGACTTTAGCCTGGATATAA
* * * *
84590655 CATCAGCACGAATGCCTTCGGGAC-TTGGCCTGGATATAA
1 CACCAGCACGAAAGCCTGCGGGACTTTAGCCTGGATATAA
* * * *
84590694 CACCAGCACGAATGCCTTCGGGAC-TTGGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGACTTTAGCCTGGATATAA
84590733 TTCTCCATTA
Statistics
Matches: 102, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
39 68 0.67
40 34 0.33
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (40 bp):
CACCAGCACGAAAGCCTGCGGGACTTTAGCCTGGATATAA
Found at i:84590690 original size:39 final size:39
Alignment explanation
Indices: 84590608--84590732 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
84590598 CTTTAAGCCT
* * * * *
84590608 GGATATAATACCCGCAC-AAAGCCTGCGGGACTTTAGCCC
1 GGATATAACACCAGCACGAATGCCTTCGGGAC-TTGGCCC
* *
84590647 GGATATAACATCAGCACGAATGCCTTCGGGACTTGGCCT
1 GGATATAACACCAGCACGAATGCCTTCGGGACTTGGCCC
84590686 GGATATAACACCAGCACGAATGCCTTCGGGACTTGGCCC
1 GGATATAACACCAGCACGAATGCCTTCGGGACTTGGCCC
84590725 GGATATAA
1 GGATATAA
84590733 TTCTCCATTA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
39 64 0.84
40 12 0.16
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (39 bp):
GGATATAACACCAGCACGAATGCCTTCGGGACTTGGCCC
Found at i:84593439 original size:13 final size:14
Alignment explanation
Indices: 84593423--84593452 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
84593413 TTTGAGAAGG
84593423 GATTTGGAGATG-T
1 GATTTGGAGATGCT
84593436 GATTTGGAGATGCT
1 GATTTGGAGATGCT
84593450 GAT
1 GAT
84593453 GTTTATATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.23, C:0.03, G:0.37, T:0.37
Consensus pattern (14 bp):
GATTTGGAGATGCT
Found at i:84593532 original size:29 final size:27
Alignment explanation
Indices: 84593493--84593576 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 27
84593483 CACTCTGTGC
*
84593493 TATTCTGGTGTGTTCTGGATGGATTGTAT
1 TATTCTGGTGTGTT-TGGA-GGATTATAT
84593522 TATTCTGGTGTGTTTGAGAGGATTATAT
1 TATTCTGGTGTGTTTG-GAGGATTATAT
* *
84593550 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTG-TTTGGAGGATTATA
84593577 CTGGTGTGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
28 30 0.60
29 20 0.40
ACGTcount: A:0.19, C:0.05, G:0.31, T:0.45
Consensus pattern (27 bp):
TATTCTGGTGTGTTTGGAGGATTATAT
Found at i:84593546 original size:23 final size:22
Alignment explanation
Indices: 84593520--84593614 Score: 66
Period size: 23 Copynumber: 3.9 Consensus size: 22
84593510 GATGGATTGT
84593520 ATTATTCTGGTGTGTTTGAGAGG
1 ATTATTCTGGTGTGTTTG-GAGG
84593543 ATTATATGATACTGGTGTGTTTTGGAGG
1 A-T-TAT--T-CTGGTGTG-TTTGGAGG
* *
84593571 ATTATACTGGTGTGTTTTGGTTGG
1 ATTATTCTGGTGTG-TTTGG-AGG
*
84593595 A-CATTTCTGGTGTGTTTGGA
1 ATTA-TTCTGGTGTGTTTGGA
84593615 TGAAATCTGT
Statistics
Matches: 59, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
23 21 0.36
24 13 0.22
25 3 0.05
26 3 0.05
27 2 0.03
28 13 0.22
29 4 0.07
ACGTcount: A:0.17, C:0.05, G:0.33, T:0.45
Consensus pattern (22 bp):
ATTATTCTGGTGTGTTTGGAGG
Found at i:84599563 original size:21 final size:20
Alignment explanation
Indices: 84599519--84599564 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
84599509 TCCTTTCTTT
* *
84599519 TTCTTTCCCTTTTTCTTTCT
1 TTCTTTCCCTTTCTCTTTCG
*
84599539 TTCTTTCCCTGTTCTGTTTCG
1 TTCTTTCCCT-TTCTCTTTCG
84599560 TTCTT
1 TTCTT
84599565 CTTTCTTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.00, C:0.28, G:0.07, T:0.65
Consensus pattern (20 bp):
TTCTTTCCCTTTCTCTTTCG
Found at i:84599609 original size:19 final size:19
Alignment explanation
Indices: 84599574--84599616 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
84599564 TCTTTCTTTC
*
84599574 CTTTTTCTTTATTTTATTT
1 CTTTTTCTTTATATTATTT
84599593 CTTTATTCTTT-TATTATTT
1 CTTT-TTCTTTATATTATTT
84599612 CTTTT
1 CTTTT
84599617 ATTATATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.68
20 6 0.27
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (19 bp):
CTTTTTCTTTATATTATTT
Found at i:84599626 original size:8 final size:8
Alignment explanation
Indices: 84599615--84599652 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
84599605 ATTATTTCTT
84599615 TTATTATA
1 TTATTATA
84599623 TTATTA-A
1 TTATTATA
*
84599630 CTATTATA
1 TTATTATA
84599638 TTATTATAA
1 TTATTAT-A
84599647 TTATTA
1 TTATTA
84599653 ATTTCTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 13 0.50
9 7 0.27
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (8 bp):
TTATTATA
Found at i:84604195 original size:49 final size:49
Alignment explanation
Indices: 84604081--84604448 Score: 211
Period size: 49 Copynumber: 7.8 Consensus size: 49
84604071 TAGGGTATGA
* * * *
84604081 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCA-AAATTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCG
* * * *
84604129 AGGCTGACGCCACGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-G
* * * *
84604180 TGCCGATG-CATGTCCCAGACATGATCTTACACTAACAC-CTC-TATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAT-CG
* * * * * *
84604227 TGCTGATGACATGTCCTAGAGATGGTCTTACACT-G---ACACATCTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCG
* * * **
84604272 TAGCCAATG-CATGTCCTAGACAT-GTCTTACACTGGCT-T-ACATCGCG
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCG
* * * * *
84604318 AGGCCGATG-CGTGTCCCAAACAT-GTCTTACACTAGCTCT--CATCTCAA
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-G
* ** * *
84604365 TGCCGAATGCCATGTCCTAGACACAGTCTTACAC-AGGCTTTCATA-AT-G
1 TGCCG-ATGCCATGTCCCAGACATGGTCTTACACTA-GCTCTCACATATCG
84604413 TGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
84604449 ACAAAAATAA
Statistics
Matches: 251, Mismatches: 47, Indels: 45
0.73 0.14 0.13
Matches are distributed among these distances:
44 10 0.04
45 19 0.08
46 64 0.25
47 28 0.11
48 40 0.16
49 79 0.31
50 9 0.04
51 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCG
Found at i:84604341 original size:46 final size:45
Alignment explanation
Indices: 84604278--84604445 Score: 140
Period size: 46 Copynumber: 3.6 Consensus size: 45
84604268 CTCGTAGCCA
* * *
84604278 ATGCATGTCCTAGACATGTCTTACACTGGCTTACATCGCGAGGCCG
1 ATGCATGTCCCAAACATGTCTTACACTGGCTT-CATCACGAGGCCG
* * * * *
84604324 ATGCGTGTCCCAAACATGTCTTACACTAGCTCTCATCTCAATGCCG
1 ATGCATGTCCCAAACATGTCTTACACTGGCT-TCATCACGAGGCCG
* * * * *
84604370 AATGCCATGTCCTAGACACA-GTCTTACACAGGCTTTCATAATGTGGCCG
1 -ATG-CATGTCCCA-A-ACATGTCTTACACTGGC-TTCATCACGAGGCCG
*
84604419 ATGCATGTCCCAGACATGTCTTACACT
1 ATGCATGTCCCAAACATGTCTTACACT
84604446 AGCACAAAAA
Statistics
Matches: 95, Mismatches: 20, Indels: 14
0.74 0.16 0.11
Matches are distributed among these distances:
45 3 0.03
46 46 0.48
47 12 0.13
48 10 0.11
49 20 0.21
50 4 0.04
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (45 bp):
ATGCATGTCCCAAACATGTCTTACACTGGCTTCATCACGAGGCCG
Found at i:84604404 original size:95 final size:93
Alignment explanation
Indices: 84604277--84604448 Score: 245
Period size: 95 Copynumber: 1.8 Consensus size: 93
84604267 TCTCGTAGCC
* * ** *
84604277 AATGCATGTCCTAGACATGTCTTACACTGGCTTACATCGCGAGGCCGATGCGTGTCCCAAACATG
1 AATGCATGTCCTAGACAAGTCTTACACAGGCTTACATAACGAGGCCGATGCATGTCCCAAACATG
84604342 TCTTACACTAGCTCTCATCTCAATGCCG
66 TCTTACACTAGCTCTCATCTCAATGCCG
* * * *
84604370 AATGCCATGTCCTAGACACAGTCTTACACAGGCTTTCATAATGTGGCCGATGCATGTCCCAGACA
1 AATG-CATGTCCTAGACA-AGTCTTACACAGGCTTACATAACGAGGCCGATGCATGTCCCAAACA
84604435 TGTCTTACACTAGC
64 TGTCTTACACTAGC
84604449 ACAAAAATAA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
93 4 0.06
94 13 0.19
95 51 0.75
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (93 bp):
AATGCATGTCCTAGACAAGTCTTACACAGGCTTACATAACGAGGCCGATGCATGTCCCAAACATG
TCTTACACTAGCTCTCATCTCAATGCCG
Found at i:84611710 original size:19 final size:20
Alignment explanation
Indices: 84611686--84611728 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
84611676 CATGAGATTT
*
84611686 TGATATACATGATTTG-ACA
1 TGATATACATGATATGCACA
*
84611705 TGATATGCATGATATGCACA
1 TGATATACATGATATGCACA
84611725 TGAT
1 TGAT
84611729 GTATCCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (20 bp):
TGATATACATGATATGCACA
Found at i:84611805 original size:25 final size:24
Alignment explanation
Indices: 84611775--84611870 Score: 104
Period size: 25 Copynumber: 3.9 Consensus size: 24
84611765 TGAGGAAGTG
*
84611775 CAAAAGGGCTATGCCCTAGTTTAT
1 CAAAAGGGCTATGCCCCAGTTTAT
*
84611799 CAAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTATGCCCCAGTTTAT
*
84611824 CAAAAGGGCTTTGGCCCCAG-TTAT
1 CAAAAGGGCTAT-GCCCCAGTTTAT
* *
84611848 TAAAAGAGGCTAGGCCTCCAGTT
1 CAAAAG-GGCTATGCC-CCAGTT
84611871 ATAAGATAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
24 24 0.39
25 37 0.60
26 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTATGCCCCAGTTTAT
Found at i:84619613 original size:11 final size:10
Alignment explanation
Indices: 84619581--84619634 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
84619571 CATAAGATTT
84619581 TGATAT-ACA
1 TGATATGACA
*
84619590 TGATTTGACA
1 TGATATGACA
84619600 TGATATGCACA
1 TGATATG-ACA
*
84619611 TGATATG-TA
1 TGATATGACA
84619620 TGATATGCACA
1 TGATATG-ACA
84619631 TGAT
1 TGAT
84619635 GTATCCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 13 0.35
10 9 0.24
11 15 0.41
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:84619764 original size:24 final size:24
Alignment explanation
Indices: 84619681--84619800 Score: 134
Period size: 25 Copynumber: 4.9 Consensus size: 24
84619671 GGAGGAAGTG
* *
84619681 CAAAAGGGCTATGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
**
84619705 CGAAAAGGGCTTTGCCTTAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
84619730 CAAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
84619755 CAAAAGGGCTTTGGCCCCAG-TTAT
1 CAAAAGGGCTTT-GCCCCAGTTTAT
* **
84619779 TAAAAGAGGCTAGGCCCCAGTT
1 CAAAAG-GGCTTTGCCCCAGTT
84619801 ATTAAAATAG
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
24 28 0.34
25 54 0.66
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:84619796 original size:49 final size:50
Alignment explanation
Indices: 84619681--84619800 Score: 140
Period size: 49 Copynumber: 2.4 Consensus size: 50
84619671 GGAGGAAGTG
**
84619681 CAAAAG-GGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCTTAGTTTAT
1 CAAAAGAGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAT
* *
84619730 CAAAA-AGGGCTTTGCCCCAGTTTATC-AAAAGGGCTTTGGCCCCAG-TTAT
1 CAAAAGA-GGCTATGCCCCAGTTTACCGAAAAGGGCTTT-GCCCCAGTTTAT
* *
84619779 TAAAAGAGGCTAGGCCCCAGTT
1 CAAAAGAGGCTATGCCCCAGTT
84619801 ATTAAAATAG
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
49 37 0.62
50 23 0.38
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (50 bp):
CAAAAGAGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAT
Found at i:84619801 original size:24 final size:24
Alignment explanation
Indices: 84619743--84619827 Score: 91
Period size: 24 Copynumber: 3.5 Consensus size: 24
84619733 AAAGGGCTTT
* *
84619743 GCCCCAGTTTATCAAAAG-GGCTTTG
1 GCCCCAG-TTATTAAAAGAGGC-TAG
84619768 GCCCCAGTTATTAAAAGAGGCTAG
1 GCCCCAGTTATTAAAAGAGGCTAG
* *
84619792 GCCCCAGTTATTAAAATAGGGTAG
1 GCCCCAGTTATTAAAAGAGGCTAG
*
84619816 GCCTTCAGTTAT
1 GCC-CCAGTTAT
84619828 ATGATAAAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
24 36 0.68
25 17 0.32
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (24 bp):
GCCCCAGTTATTAAAAGAGGCTAG
Found at i:84620062 original size:32 final size:31
Alignment explanation
Indices: 84620021--84620105 Score: 127
Period size: 32 Copynumber: 2.7 Consensus size: 31
84620011 CGTATACAGT
84620021 AAAGGCTTCGGCCCAGTGATATGAATAATGAA
1 AAAGGCTTCGGCCCAGTGATATGAATAATG-A
* * *
84620053 AAAGGCTTCGGACTAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
84620084 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
84620106 CTGAGATTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 5 0.10
31 15 0.31
32 28 0.58
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:84624484 original size:126 final size:126
Alignment explanation
Indices: 84624259--84624513 Score: 402
Period size: 126 Copynumber: 2.0 Consensus size: 126
84624249 CTACTACACC
* ** **
84624259 GATCCGCCTAAGACTGTGGATTACCTGACAATACAGACAAACAGGTGTGAGTTTATGTAAACTCA
1 GATCCACCTAAGACTGTGGATTACCTGACAATACAGACAAACAAATGTGAGTTTACATAAACTCA
* **
84624324 GTGTGTAACCCAACAGAATTAAGCATGCAATCATACAGAATCATATACGCAGTTGGAAATA
66 GTGTGTAACCCAACAGAATTAAGCATGCAATCATACAGAATCATATACACAGTCAGAAATA
* *
84624385 GATCCACCTAAGACTGTGGATTACTTGACAATACAGACAAACAAATGTTAGTTTACATAAACTCA
1 GATCCACCTAAGACTGTGGATTACCTGACAATACAGACAAACAAATGTGAGTTTACATAAACTCA
* *
84624450 GTGTGTAACCCAATAGAATTAAGCATGCAATCATACAGAATCGTATACACAGTCAGAAATA
66 GTGTGTAACCCAACAGAATTAAGCATGCAATCATACAGAATCATATACACAGTCAGAAATA
84624511 GAT
1 GAT
84624514 ACATATACAG
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 117 1.00
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (126 bp):
GATCCACCTAAGACTGTGGATTACCTGACAATACAGACAAACAAATGTGAGTTTACATAAACTCA
GTGTGTAACCCAACAGAATTAAGCATGCAATCATACAGAATCATATACACAGTCAGAAATA
Found at i:84633987 original size:40 final size:40
Alignment explanation
Indices: 84633910--84634125 Score: 325
Period size: 39 Copynumber: 5.5 Consensus size: 40
84633900 AAACCAAGTA
* *
84633910 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
84633949 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
84633989 CCTTCGGGACCTAG-CCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
84634028 CCTTCGGGAC-TAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
84634067 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
84634107 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
84634126 TTATCATCCG
Statistics
Matches: 165, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
38 3 0.02
39 84 0.51
40 78 0.47
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:84634122 original size:118 final size:118
Alignment explanation
Indices: 84633910--84634122 Score: 324
Period size: 118 Copynumber: 1.8 Consensus size: 118
84633900 AAACCAAGTA
* * *
84633910 CCTTCGGGATTTAGCCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGT
1 CCTTCGGGATCTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
84633975 AACTCGCACAAATGCCTTCGGGACCTAGCCGGATATAGTAACTCGCACAAATG
66 AACTAGCACAAATGCCTTCGGGACCTAGCCGGATATAGTAACTCGCACAAATG
84634028 CCTTCGGGA-CTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATT
1 CCTTCGGGATCTAG-CCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
* *
84634090 AGTCACTAGCACAAATGCCTTCGGGACTTAGCC
63 AGTAACTAGCACAAATGCCTTCGGGACCTAGCC
84634123 CGGTTATCAT
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
117 5 0.06
118 81 0.94
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (118 bp):
CCTTCGGGATCTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACCTAGCCGGATATAGTAACTCGCACAAATG
Found at i:84642194 original size:40 final size:40
Alignment explanation
Indices: 84642117--84642334 Score: 343
Period size: 40 Copynumber: 5.5 Consensus size: 40
84642107 AAACCAAGTA
* *
84642117 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
84642156 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
84642196 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
84642236 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
84642276 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
84642316 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
84642335 TTATCATCCG
Statistics
Matches: 168, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 15 0.09
40 153 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:84650401 original size:40 final size:40
Alignment explanation
Indices: 84650324--84650540 Score: 359
Period size: 40 Copynumber: 5.5 Consensus size: 40
84650314 AAACCAAGTA
* *
84650324 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
84650363 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
84650403 CCTTCGGGAC-TAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
84650442 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
84650482 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
84650522 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
84650541 TTATCATCCG
Statistics
Matches: 169, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 52 0.31
40 117 0.69
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:84650455 original size:79 final size:78
Alignment explanation
Indices: 84650324--84650544 Score: 354
Period size: 79 Copynumber: 2.8 Consensus size: 78
84650314 AAACCAAGTA
* *
84650324 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGA-CTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
84650388 TAACTCGCACAAATG
64 TAACTCGCACAAATG
*
84650403 CCTTCGGGACTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CCTTCGGGACTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGT
84650468 AACTCGCACAAATG
65 AACTCGCACAAATG
*
84650482 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGAC-TAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
84650545 CATCCGAATA
Statistics
Matches: 133, Mismatches: 6, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
78 4 0.03
79 80 0.60
80 49 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (78 bp):
CCTTCGGGACTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
ACTCGCACAAATG
Found at i:84657659 original size:40 final size:40
Alignment explanation
Indices: 84657582--84657799 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
84657572 AAACCAAGTA
* *
84657582 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
84657621 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
84657661 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
84657701 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
84657741 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
84657781 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
84657800 TTATCATCCG
Statistics
Matches: 168, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 15 0.09
40 153 0.91
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:84663449 original size:60 final size:59
Alignment explanation
Indices: 84663324--84663458 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 59
84663314 GTGTTAACTG
* * *
84663324 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTATACTG
1 GGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTATACTA
* * *
84663385 GGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-C-GAGATATATTA
1 GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TATACTA
*
84663445 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
84663459 TGACACAGTT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 3 0.05
60 50 0.78
61 8 0.12
62 3 0.05
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (59 bp):
GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACAGAGTATACTA
Found at i:84663476 original size:20 final size:19
Alignment explanation
Indices: 84663451--84663506 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
84663441 ATTAGGCCTT
*
84663451 GCCCATATTGACACAGTTGG
1 GCCCATATTAACACAGTT-G
* *
84663471 GCCCATTTTAATACAGTTG
1 GCCCATATTAACACAGTTG
* *
84663490 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
84663507 CTCATATGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (19 bp):
GCCCATATTAACACAGTTG
Found at i:84663575 original size:33 final size:33
Alignment explanation
Indices: 84663533--84663598 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
84663523 ATGATAACCC
84663533 CATCCAACCCTGCACTTCCCTCCGTCCATCCCT
1 CATCCAACCCTGCACTTCCCTCCGTCCATCCCT
84663566 CATCCAACCCTGCACTTCCCTCCGTCCATCCCT
1 CATCCAACCCTGCACTTCCCTCCGTCCATCCCT
84663599 ACACTTCCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.15, C:0.55, G:0.06, T:0.24
Consensus pattern (33 bp):
CATCCAACCCTGCACTTCCCTCCGTCCATCCCT
Found at i:84663585 original size:21 final size:22
Alignment explanation
Indices: 84663561--84663606 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
84663551 CCTCCGTCCA
*
84663561 TCCCT-CATCCAACCCTGCACT
1 TCCCTCCATCCAACCCTACACT
* *
84663582 TCCCTCCGTCCATCCCTACACT
1 TCCCTCCATCCAACCCTACACT
84663604 TCC
1 TCC
84663607 TGTGGGGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.15, C:0.54, G:0.04, T:0.26
Consensus pattern (22 bp):
TCCCTCCATCCAACCCTACACT
Found at i:84671461 original size:40 final size:40
Alignment explanation
Indices: 84671402--84671609 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
84671392 CAATTGAATG
* * * *
84671402 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
84671442 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
84671482 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
84671522 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
84671562 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
84671602 ATATCCGG
1 ATATCCGG
84671610 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:84671540 original size:80 final size:80
Alignment explanation
Indices: 84671404--84671609 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
84671394 ATTGAATGAT
* * ** * * *
84671404 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
84671468 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
84671484 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
84671549 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
84671564 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
84671610 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:84677958 original size:27 final size:27
Alignment explanation
Indices: 84677918--84678014 Score: 104
Period size: 27 Copynumber: 3.6 Consensus size: 27
84677908 ACACGTCATG
*
84677918 AAAGAAATGCCTTTGTAGCTAACTCTA
1 AAAGAAATGCCTTTGTAGCAAACTCTA
* * * *
84677945 AAAGACATGTCTTTGTGGCAAACTCTG
1 AAAGAAATGCCTTTGTAGCAAACTCTA
** *
84677972 AAAGAAATGCCTTTGTAGCGGACTCTG
1 AAAGAAATGCCTTTGTAGCAAACTCTA
* *
84677999 AAGGAAATTCCTTTGT
1 AAAGAAATGCCTTTGT
84678015 GGTGAACTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (27 bp):
AAAGAAATGCCTTTGTAGCAAACTCTA
Found at i:84681777 original size:140 final size:140
Alignment explanation
Indices: 84681483--84681797 Score: 324
Period size: 140 Copynumber: 2.2 Consensus size: 140
84681473 GGGTAAGTTT
* *
84681483 CCGATGCCATGTCCCATACATCGTCTCACACTGGCTATCATCACCGAGGCTGATTCCATGTCCCA
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCACCGAGGCTGATTCCATGTCCCA
84681548 GACATGGTCTTACACTAGCTCTCACATATCCGTGCCGACGTCATGTCCCAGACATGGTCTTACAC
64 GACATGGTCTTACACTAGCTCTCACATATCCGTGCCGACGTCATG---CAGACATGGTCTTACAC
**
84681613 TGACACATCTCGTAG
126 TGACACATCTAATAG
* * *
84681628 CCGATGCATGTCCCAGACATGTCTTACATTGGCT-TACGTC-CCGAGGCTGA-TGCATGTCCCAG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTAT-CATCACCGAGGCTGATTCCATGTCCCAG
* *
84681690 ACAT-GTCTTACACTAGCCCTCGTCTCAATAT-CGTTGCC-ATGTC-TG-AGACATGGTCTTACA
65 ACATGGTCTTACACTAG--CTC-TCAC-ATATCCG-TGCCGACGTCATGCAGACATGGTCTTACA
* *
84681750 CTGGCTC-TCATAATATGG
125 CTGACACATC-TAATA--G
**
84681768 CCGATGCATGTCCTTGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
84681798 AGCCCACAAT
Statistics
Matches: 147, Mismatches: 14, Indels: 23
0.80 0.08 0.12
Matches are distributed among these distances:
137 2 0.01
138 23 0.16
140 40 0.27
141 15 0.10
142 16 0.11
143 24 0.16
144 21 0.14
145 6 0.04
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (140 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCACCGAGGCTGATTCCATGTCCCAGA
CATGGTCTTACACTAGCTCTCACATATCCGTGCCGACGTCATGCAGACATGGTCTTACACTGACA
CATCTAATAG
Found at i:84683313 original size:16 final size:16
Alignment explanation
Indices: 84683288--84683323 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
84683278 TTACTCATAG
84683288 TGAT-TAATATGTATA
1 TGATCTAATATGTATA
84683303 TGATCTAATATGTATA
1 TGATCTAATATGTATA
84683319 TGATC
1 TGATC
84683324 CTCATACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (16 bp):
TGATCTAATATGTATA
Found at i:84693411 original size:40 final size:40
Alignment explanation
Indices: 84693281--84693433 Score: 137
Period size: 40 Copynumber: 3.9 Consensus size: 40
84693271 ATGGTAACCC
* * * * * * *
84693281 GCACCAAGGCCTACGGGACTTAACCCGGATATCACGA-TT
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* * ** *
84693320 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTT
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* * *
84693360 TCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* * *
84693400 GCACCATTGCCTTCGGGTCTTAACCCGGTTATAA
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATATAA
84693434 TTTCTAGCAT
Statistics
Matches: 92, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
39 29 0.32
40 63 0.68
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
GCACCAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
Found at i:84693441 original size:40 final size:40
Alignment explanation
Indices: 84693289--84693471 Score: 136
Period size: 40 Copynumber: 4.6 Consensus size: 40
84693279 CCGCACCAAG
* * * * * * *
84693289 GCCTACGGGACTTAACCCGGATATCACGA-TTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACCACTAGCACAATT
* ** **
84693328 GCCTTCGGGTCTTAGCCCGGATAGAATGACTTTCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACCACTAGCAC-AATT
* *
84693368 GCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACCATT
1 GCCTTCGGGTCTTAGCCCGGATATAACCACTAGCACAATT
* * *** *
84693408 GCCTTCGGGTCTTAACCCGGTTATAATTTCTAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACCACTAGCACAATT
* * *
84693448 GTCTTCGGGGCTTAGCCCGAATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
84693472 CATTCAATTT
Statistics
Matches: 114, Mismatches: 27, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
39 24 0.21
40 88 0.77
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACCACTAGCACAATT
Found at i:84699668 original size:100 final size:100
Alignment explanation
Indices: 84699490--84699674 Score: 307
Period size: 100 Copynumber: 1.9 Consensus size: 100
84699480 AAAAAAAAAC
*
84699490 TTGTTTTATAATAGAGAAGGAAAATTTTGTAAACGATATGGGAAAAATCTAGAATGTTGTAAACG
1 TTGTTTTATAATAGAAAAGGAAAATTTTGTAAACGATATGGGAAAAATCTAGAATGTTGTAAACG
84699555 CAAATATGAAAGGGTACCCAAACACGAAAGCTATT
66 CAAATATGAAAGGGTACCCAAACACGAAAGCTATT
* **
84699590 TTGTTTTATAATAGAAAAGTAAAATTTTGTAAACGATATGGGAAATGTCTAGAATGTTGTAAACG
1 TTGTTTTATAATAGAAAAGGAAAATTTTGTAAACGATATGGGAAAAATCTAGAATGTTGTAAACG
* * *
84699655 TAAATATGGAAGGGTCCCCA
66 CAAATATGAAAGGGTACCCA
84699675 CTTCCAACGG
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 78 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (100 bp):
TTGTTTTATAATAGAAAAGGAAAATTTTGTAAACGATATGGGAAAAATCTAGAATGTTGTAAACG
CAAATATGAAAGGGTACCCAAACACGAAAGCTATT
Found at i:84700270 original size:15 final size:16
Alignment explanation
Indices: 84700234--84700271 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
84700224 GCAATTTAAA
* *
84700234 AATTTTAAATTAAATT
1 AATTATAAATTAAATG
84700250 AATTATAAATT-AATG
1 AATTATAAATTAAATG
84700265 AATTATA
1 AATTATA
84700272 TTTTATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
AATTATAAATTAAATG
Found at i:84705853 original size:40 final size:40
Alignment explanation
Indices: 84705808--84705975 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
84705798 CGGAATATAA
84705808 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
84705848 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
84705888 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
84705928 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
84705968 CCGGATAT
1 CCGGATAT
84705976 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84705958 original size:80 final size:80
Alignment explanation
Indices: 84705824--84705973 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
84705814 ATAACCACGT
* *
84705824 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
84705889 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
84705904 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
84705967 CCCGGAT
64 CCCGGAT
84705974 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:84715718 original size:40 final size:40
Alignment explanation
Indices: 84715614--84715741 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 40
84715604 CGGAATATAA
** *
84715614 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
* * * *
84715654 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
*** * * *
84715694 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
*
84715734 CCAGATAT
1 CCGGATAT
84715742 CATTCAATTT
Statistics
Matches: 71, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:84726885 original size:23 final size:23
Alignment explanation
Indices: 84726855--84726904 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
84726845 AACTAAATAC
84726855 TTAGAATTTTTTATATTCATGTG
1 TTAGAATTTTTTATATTCATGTG
84726878 TTAGAATTTTTTATATTCATGTG
1 TTAGAATTTTTTATATTCATGTG
84726901 TTAG
1 TTAG
84726905 TTACTAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.56
Consensus pattern (23 bp):
TTAGAATTTTTTATATTCATGTG
Found at i:84729813 original size:6 final size:6
Alignment explanation
Indices: 84729802--84729828 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
84729792 TATTTATTTA
84729802 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
84729829 CTTCTTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:84732570 original size:50 final size:50
Alignment explanation
Indices: 84732507--84732795 Score: 318
Period size: 50 Copynumber: 5.7 Consensus size: 50
84732497 ACCAAAGTTC
* * *
84732507 TCTGGTACGCATAGTAGCCTGCACTTAGTACTATACATGTGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * *
84732557 TCTGGTACACATAGGAGCCTGCACTTA-TACTATACACGTGACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * * * *
84732606 TCTGATACACGTAGTAACCTGCACTTAGTACTACACACGTGATC-AGAGCTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTA-A-CAA
* * *
84732657 T-TGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* *
84732707 TCTGGTACACGTAGTAGCCTGCACTTAGTACTAAACACGTGACCTAA-AA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* *
84732756 -CTGTCTTAAACACATAGTAGCCTGCACATAGTACTACACA
1 TCTG--GT--ACACATAGTAGCCTGCACTTAGTACTACACA
84732796 TGTGTTCTCA
Statistics
Matches: 201, Mismatches: 28, Indels: 18
0.81 0.11 0.07
Matches are distributed among these distances:
48 3 0.01
49 46 0.23
50 84 0.42
51 39 0.19
52 29 0.14
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
Done.