Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007777.1 Hibiscus syriacus cultivar Beakdansim tig00110059_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: 1720799
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 10
Found at i:328 original size:21 final size:21
Alignment explanation
Indices: 302--341 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
292 CAGAACCCCA
*
302 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
323 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
342 TCAAAGGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:6457 original size:30 final size:30
Alignment explanation
Indices: 6418--6483 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
6408 TTAGAAAATC
6418 ATTTGGAAAATCTTAAAATCCATTTAACTTA
1 ATTT-GAAAATCTTAAAATCCATTTAACTTA
6449 ATTTGAAAATCTTAAAATCCATTTAACTTA
1 ATTTGAAAATCTTAAAATCCATTTAACTTA
6479 ATTTG
1 ATTTG
6484 TTATATCGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (30 bp):
ATTTGAAAATCTTAAAATCCATTTAACTTA
Found at i:6844 original size:70 final size:70
Alignment explanation
Indices: 6726--6904 Score: 304
Period size: 70 Copynumber: 2.6 Consensus size: 70
6716 AGTCAATTGG
*
6726 GATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTAGACT
1 GATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTAAACT
6791 TTTGT
66 TTTGT
*
6796 GATGTTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTAAACT
1 GATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTAAACT
6861 TTTGT
66 TTTGT
* * * *
6866 AATGCTATTCTATGTTTCTTAGCTATGTGAGATTTTTTT
1 GATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTT
6905 AAAAAAAATT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 102 1.00
ACGTcount: A:0.17, C:0.13, G:0.15, T:0.55
Consensus pattern (70 bp):
GATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTAAACT
TTTGT
Found at i:12830 original size:19 final size:19
Alignment explanation
Indices: 12790--12831 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
12780 ATATTTTGCC
*
12790 ATTTTAAATAAAAATAATA
1 ATTTTAAATAAAAATAAAA
*
12809 ATTTT-AATGAAAATGAAAA
1 ATTTTAAATAAAAAT-AAAA
12828 ATTT
1 ATTT
12832 GTGGTCTACG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
ATTTTAAATAAAAATAAAA
Found at i:13466 original size:2 final size:2
Alignment explanation
Indices: 13459--13483 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13449 TATATTTTAC
13459 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13484 AATTATGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14256 original size:22 final size:22
Alignment explanation
Indices: 14231--14279 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
14221 ACAAACCCCT
* *
14231 AAAACTAACCCCAAAATAACAC
1 AAAAATAAACCCAAAATAACAC
* *
14253 AAAAATAAATCCGAAATAACAC
1 AAAAATAAACCCAAAATAACAC
14275 AAAAA
1 AAAAA
14280 CAGGATACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.65, C:0.22, G:0.02, T:0.10
Consensus pattern (22 bp):
AAAAATAAACCCAAAATAACAC
Found at i:25749 original size:24 final size:24
Alignment explanation
Indices: 25722--25791 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
25712 TTTCTATTAT
*
25722 AATACCTGACGTGGATTCTGATCG
1 AATACCTGACCTGGATTCTGATCG
* * *
25746 AATACTTGACCTGGATTTTGATATG
1 AATACCTGACCTGGATTCTGAT-CG
* *
25771 -ATACTTGACCTGGATTTTGAT
1 AATACCTGACCTGGATTCTGAT
25792 ATGATACTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 40 0.98
25 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (24 bp):
AATACCTGACCTGGATTCTGATCG
Found at i:25820 original size:29 final size:24
Alignment explanation
Indices: 25747--25806 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
25737 TTCTGATCGA
25747 ATACTTGACCTGGATTTTGATATG
1 ATACTTGACCTGGATTTTGATATG
25771 ATACTTGACCTGGATTTTGATATG
1 ATACTTGACCTGGATTTTGATATG
25795 ATACTTGACCTG
1 ATACTTGACCTG
25807 TATTATGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (24 bp):
ATACTTGACCTGGATTTTGATATG
Found at i:27724 original size:23 final size:20
Alignment explanation
Indices: 27680--27740 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 20
27670 GTGACATATA
* *
27680 AAATATCCCAAAGAACCTCAT
1 AAATGTCCCAAAG-ACCACAT
27701 AGAATTGTCCCGAAAGACCACAT
1 A-AA-TGTCCC-AAAGACCACAT
*
27724 ATATGTCCCAAAAGACC
1 AAATGTCCC-AAAGACC
27741 TCGTAGAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 14 0.42
22 3 0.09
23 12 0.36
24 4 0.12
ACGTcount: A:0.43, C:0.28, G:0.11, T:0.18
Consensus pattern (20 bp):
AAATGTCCCAAAGACCACAT
Found at i:31031 original size:15 final size:15
Alignment explanation
Indices: 30995--31024 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30985 TACTTGTCTA
*
30995 CGAGTCTCGAGACTG
1 CGAGTCTCGAGACCG
31010 CGAGTCTCGAGACCG
1 CGAGTCTCGAGACCG
31025 TCAGTCTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (15 bp):
CGAGTCTCGAGACCG
Found at i:32036 original size:13 final size:13
Alignment explanation
Indices: 32018--32060 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
32008 TGCATCATGA
* *
32018 ATTTATGACGCGT
1 ATTTATGACACGC
32031 ATTTATGACACGC
1 ATTTATGACACGC
*
32044 ATTTATGACACAC
1 ATTTATGACACGC
32057 ATTT
1 ATTT
32061 TTTACGCTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (13 bp):
ATTTATGACACGC
Found at i:32302 original size:2 final size:2
Alignment explanation
Indices: 32295--32329 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
32285 ATAATACTAA
32295 AT AT AT AT AT AT AT AT AT AT AT CAT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT A
32330 AGTAATCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 28 0.90
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37455 original size:22 final size:22
Alignment explanation
Indices: 37425--37564 Score: 217
Period size: 22 Copynumber: 6.4 Consensus size: 22
37415 ATATTAGTCA
37425 TTCGGGACGTATCCAGTGGTCC
1 TTCGGGACGTATCCAGTGGTCC
** *
37447 TTCATGACGTATCCAGTGGTCA
1 TTCGGGACGTATCCAGTGGTCC
* *
37469 TTCGGGACGCATCCAGTAGTCC
1 TTCGGGACGTATCCAGTGGTCC
*
37491 TTCGGGATGTATCCAGTGGTCC
1 TTCGGGACGTATCCAGTGGTCC
37513 TTCGGGACGTATCCAGTGGTCC
1 TTCGGGACGTATCCAGTGGTCC
*
37535 TTCGGGACGTATCCAGTGGTTC
1 TTCGGGACGTATCCAGTGGTCC
37557 TTCGGGAC
1 TTCGGGAC
37565 ATAGTGGTCT
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 105 1.00
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.29
Consensus pattern (22 bp):
TTCGGGACGTATCCAGTGGTCC
Found at i:37572 original size:18 final size:18
Alignment explanation
Indices: 37549--37583 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
37539 GGACGTATCC
37549 AGTGGTTCT-TCGGGACAT
1 AGTGG-TCTATCGGGACAT
37567 AGTGGTCTATCGGGACA
1 AGTGGTCTATCGGGACA
37584 AATACTGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (18 bp):
AGTGGTCTATCGGGACAT
Found at i:44471 original size:22 final size:22
Alignment explanation
Indices: 44446--44566 Score: 181
Period size: 22 Copynumber: 5.5 Consensus size: 22
44436 GGGTATATTA
44446 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
44468 GTCCTTCGGGAC-TATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
44489 GTCCTTCGGGACGTATCCAGTA
1 GTCCTTCGGGACGTATCCAGTG
* *
44511 GTCATTCGGGACGAATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
* *
44533 GTCTTTCAGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
44555 GTCCTTCAGGAC
1 GTCCTTCGGGAC
44567 AAATATTGAA
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
21 21 0.23
22 69 0.77
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.27
Consensus pattern (22 bp):
GTCCTTCGGGACGTATCCAGTG
Found at i:50458 original size:4 final size:4
Alignment explanation
Indices: 50451--50477 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
50441 TACTTTATTT
50451 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
50478 TATATACTTT
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:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:50540 original size:13 final size:13
Alignment explanation
Indices: 50522--50547 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50512 TTTATACTTA
50522 TATATACTTATAT
1 TATATACTTATAT
50535 TATATACTTATAT
1 TATATACTTATAT
50548 AAGTATATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATACTTATAT
Found at i:50618 original size:17 final size:17
Alignment explanation
Indices: 50604--50635 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50594 ATTATATATT
50604 TTATAT-AAGTATATAC
1 TTATATAAAGTATATAC
50620 TTATATAAAGTATATA
1 TTATATAAAGTATATA
50636 ATGTATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
TTATATAAAGTATATAC
Found at i:53924 original size:31 final size:31
Alignment explanation
Indices: 53887--53945 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
53877 GAGTCAAGCT
53887 CAATTTTACACTTTTCGAGTCGAATCGAACA
1 CAATTTTACACTTTTCGAGTCGAATCGAACA
* *
53918 CAATTTTACACTTTTTGAGTCGAGTCGA
1 CAATTTTACACTTTTCGAGTCGAATCGA
53946 GTCGAGCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (31 bp):
CAATTTTACACTTTTCGAGTCGAATCGAACA
Found at i:55071 original size:9 final size:9
Alignment explanation
Indices: 55057--55089 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
55047 CCAAAGAAAG
55057 GAAAATGAA
1 GAAAATGAA
55066 GAAAATGAA
1 GAAAATGAA
55075 GAAAATGAA
1 GAAAATGAA
55084 GAAAAT
1 GAAAAT
55090 AAGCAGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (9 bp):
GAAAATGAA
Found at i:55858 original size:20 final size:21
Alignment explanation
Indices: 55834--55879 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
55824 AATCACAATT
55834 AAATTAAAATA-AAATTTTAA
1 AAATTAAAATATAAATTTTAA
* * *
55854 TAATTATATTATAAATTTTAA
1 AAATTAAAATATAAATTTTAA
55875 AAATT
1 AAATT
55880 TAAGAACTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATTAAAATATAAATTTTAA
Found at i:60081 original size:7 final size:7
Alignment explanation
Indices: 60069--60122 Score: 108
Period size: 7 Copynumber: 7.7 Consensus size: 7
60059 CTGCGAGCGT
60069 AAGCACG
1 AAGCACG
60076 AAGCACG
1 AAGCACG
60083 AAGCACG
1 AAGCACG
60090 AAGCACG
1 AAGCACG
60097 AAGCACG
1 AAGCACG
60104 AAGCACG
1 AAGCACG
60111 AAGCACG
1 AAGCACG
60118 AAGCA
1 AAGCA
60123 TGTTCATATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.44, C:0.28, G:0.28, T:0.00
Consensus pattern (7 bp):
AAGCACG
Found at i:60582 original size:17 final size:17
Alignment explanation
Indices: 60560--60593 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60550 CTTATTAATA
*
60560 CTAGGAACACGTGACTT
1 CTAGGAAAACGTGACTT
*
60577 CTAGGAAAATGTGACTT
1 CTAGGAAAACGTGACTT
60594 ATTAATACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (17 bp):
CTAGGAAAACGTGACTT
Found at i:60962 original size:24 final size:24
Alignment explanation
Indices: 60929--60977 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
60919 AATACAAAGT
*
60929 TGAAACTGAAAAGGCTATAAATCC
1 TGAAACTGAAAAAGCTATAAATCC
* *
60953 TGAAATTGAAAAAGTTATAAATCC
1 TGAAACTGAAAAAGCTATAAATCC
60977 T
1 T
60978 AACTTTTACG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (24 bp):
TGAAACTGAAAAAGCTATAAATCC
Found at i:66521 original size:20 final size:20
Alignment explanation
Indices: 66471--66521 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
66461 CGATTTAAAA
66471 TTTTTAAA-TTCTTATATGG
1 TTTTTAAATTTCTTATATGG
*
66490 TTTTTAACATTTCGTT-TATGT
1 TTTTTAA-ATTTC-TTATATGG
66511 TTTTTAAATTT
1 TTTTTAAATTT
66522 ATATAAATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.25
20 5 0.18
21 14 0.50
22 2 0.07
ACGTcount: A:0.24, C:0.06, G:0.08, T:0.63
Consensus pattern (20 bp):
TTTTTAAATTTCTTATATGG
Found at i:69978 original size:22 final size:21
Alignment explanation
Indices: 69957--70024 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 21
69947 GGCCTGAAGA
69957 ACTTAACATCTTGCTCGAAAG
1 ACTTAACATCTTGCTCGAAAG
* *
69978 AC-TAACA-GTTGATCCGAAAG
1 ACTTAACATCTTGCT-CGAAAG
* *
69998 ATTTAATCATCATGCTCGAAAG
1 ACTTAA-CATCTTGCTCGAAAG
70020 ACTTA
1 ACTTA
70025 CTGATGGTCC
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
19 4 0.11
20 12 0.33
21 5 0.14
22 12 0.33
23 3 0.08
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (21 bp):
ACTTAACATCTTGCTCGAAAG
Found at i:70036 original size:42 final size:41
Alignment explanation
Indices: 69959--70037 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 41
69949 CCTGAAGAAC
* *
69959 TTAACATCTTGCTCGAAAGACTAACAGTTGATCCGAAAGAT
1 TTAACATCATGCTCGAAAGACTAACAGATGATCCGAAAGAT
* * *
70000 TTAATCATCATGCTCGAAAGACTTACTGATGGTCCGAA
1 TTAA-CATCATGCTCGAAAGACTAACAGATGATCCGAA
70038 TGACTTACCA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 4 0.12
42 28 0.88
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (41 bp):
TTAACATCATGCTCGAAAGACTAACAGATGATCCGAAAGAT
Found at i:70292 original size:150 final size:152
Alignment explanation
Indices: 70048--70320 Score: 401
Period size: 150 Copynumber: 1.8 Consensus size: 152
70038 TGACTTACCA
* * *
70048 ATTTTGGAAATAGTTGACTAGTTTAAAAACTTTGGAAATCGTTTTCTTACTTTTCAAAGATTTCA
1 ATTTTGGAAATAGTTGACTAGTGTAAAAACTTTGGAAATCCTTTTCTTACTTTTCAAAAATTTCA
** *
70113 TTTTCTAAAAATTTTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTT-TC-AAAATGACTTAC
66 TTTTCTAAAAACATTAAATGAGAAACTTTGAAAATCGCCTTCTCATTTTCTCGAAAATGACTTAC
70176 TGATGGTCTGAAGTTCTTATAG
131 TGATGGTCTGAAGTTCTTATAG
*
70198 ATTTTGGAAATAGTTTACTAG-GTAAGAAACTTTGGAAATCACTTTT-TTACTTTTCAAAAATTT
1 ATTTTGGAAATAGTTGACTAGTGTAA-AAACTTTGGAAATC-CTTTTCTTACTTTTCAAAAATTT
* * * *
70261 TATTTTCTGAAAACATTAAATGAGAAGCTTTGGAAATCGCCTTCTCATTTTCTCGAAAAT
64 CATTTTCTAAAAACATTAAATGAGAAACTTTGAAAATCGCCTTCTCATTTTCTCGAAAAT
70321 CATGTGAAAA
Statistics
Matches: 108, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
149 3 0.03
150 94 0.87
151 6 0.06
152 5 0.05
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.41
Consensus pattern (152 bp):
ATTTTGGAAATAGTTGACTAGTGTAAAAACTTTGGAAATCCTTTTCTTACTTTTCAAAAATTTCA
TTTTCTAAAAACATTAAATGAGAAACTTTGAAAATCGCCTTCTCATTTTCTCGAAAATGACTTAC
TGATGGTCTGAAGTTCTTATAG
Found at i:70397 original size:41 final size:42
Alignment explanation
Indices: 70352--70453 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
70342 AAGGTCTTAC
* * *
70352 AGATGGCCCGAAAGACTTATCATCTTGCTCTAAAGACTGA-T
1 AGATGGCCCGAAAGACTTATCATCATACTCGAAAGACTGACT
* * * *
70393 AGATGACCCGAAAGATTTAATCATCATACTCGAAAGGCTTACT
1 AGATGGCCCGAAAGACTT-ATCATCATACTCGAAAGACTGACT
*
70436 -GATGGCCCGAAGGACTTA
1 AGATGGCCCGAAAGACTTA
70454 CTAATTTTGG
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 17 0.35
42 31 0.63
43 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (42 bp):
AGATGGCCCGAAAGACTTATCATCATACTCGAAAGACTGACT
Found at i:70414 original size:409 final size:408
Alignment explanation
Indices: 69790--70576 Score: 1150
Period size: 409 Copynumber: 1.9 Consensus size: 408
69780 TGACTTACCA
* * * *
69790 ATTTTGGAAATAGTTTGCTGGGTAAGAAACTTTGGAAACCGCTTTCTTACTTTTCAAAGATTTCA
1 ATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAACCACTTTCTTACTTTTCAAAAATTTCA
* * ** *
69855 TTTTTTGAAAATATTAAATGAGAAACTTTGGAAATAATTTTCTCATTTTTCAAAAATCTTGTGAA
66 TTTTCTGAAAACATTAAATGAGAAACTTTGGAAATAACCTTCTCATTTTTCAAAAATCATGTGAA
* *
69920 AACATCATGCCCGAAGGTCTTATAAACGGCCTGAAGAACTTAACATCTTGCTCGAAAGACTAACA
131 AACATCATGCCCGAAGGTCTTACAAACGGCCCGAAGAACTTAACATCTTGCTCGAAAGACTAACA
* * * * *
69985 GTTGATCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGTCCGAATGACTTACCAAT
196 GATGACCCGAAAGATTTAATCATCATACTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAAT
* * *
70050 TTTGGAAATAGTTGACTAGTTTAA-AAACTTTGGAAATCGTTTTCTTACTTTTCAAAGATTTCAT
261 TTTGGAAATAGTTGACTAG-GTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCAT
* *
70114 TTTCTA-AAAA-TTTTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAAATGACTTACT
325 TTTC-AGAAAAGATTTAAATGAGAAACTTTGAAAATCACTTTCTCA-TTTTCAAAATGACTTACT
70177 GATGGTCTGAAGTTCTTATAG
388 GATGGTCTGAAGTTCTTATAG
* * *
70198 ATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTTTTACTTTTCAAAAATTTTA
1 ATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAACCACTTTCTTACTTTTCAAAAATTTCA
* ** *
70263 TTTTCTGAAAACATTAAATGAGAAGCTTTGGAAATCGCCTTCTCATTTTCTCGAAAATCATGTGA
66 TTTTCTGAAAACATTAAATGAGAAACTTTGGAAATAACCTTCTCATTTT-TCAAAAATCATGTGA
* * * * * *
70328 AAACATCATGCCTGAAGGTCTTACAGATGGCCCGAA-AGACTTATCATCTTGCTCTAAAGACTGA
130 AAACATCATGCCCGAAGGTCTTACAAACGGCCCGAAGA-ACTTAACATCTTGCTCGAAAGACTAA
* * *
70392 TAGATGACCCGAAAGATTTAATCATCATACTCGAAAGGCTTACTGATGGCCCGAAGGACTTACTA
194 CAGATGACCCGAAAGATTTAATCATCATACTCGAAAGACTTACTGATGGCCCGAAGGACTTACCA
*
70457 ATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCA
259 ATTTTGGAAATAGTTGACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCA
*
70522 TTTTCAGAAAAGATTTAAATGAGAAACTTTGGAAATCACTTTCTCATTTTCAAAA
324 TTTTCAGAAAAGATTTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTCAAAA
70577 CAAGTTAATG
Statistics
Matches: 335, Mismatches: 39, Indels: 9
0.87 0.10 0.02
Matches are distributed among these distances:
408 105 0.31
409 199 0.59
410 31 0.09
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (408 bp):
ATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAACCACTTTCTTACTTTTCAAAAATTTCA
TTTTCTGAAAACATTAAATGAGAAACTTTGGAAATAACCTTCTCATTTTTCAAAAATCATGTGAA
AACATCATGCCCGAAGGTCTTACAAACGGCCCGAAGAACTTAACATCTTGCTCGAAAGACTAACA
GATGACCCGAAAGATTTAATCATCATACTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAAT
TTTGGAAATAGTTGACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATT
TTCAGAAAAGATTTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTCAAAATGACTTACTGAT
GGTCTGAAGTTCTTATAG
Found at i:72558 original size:22 final size:22
Alignment explanation
Indices: 72530--72611 Score: 87
Period size: 22 Copynumber: 3.6 Consensus size: 22
72520 ATTTGATTTG
*
72530 TTCTCTTTCTTCTTTT-TCTTTT
1 TTCTCTTTTTTCTTTTAT-TTTT
*
72552 TTCTC-TTTTTCTTTTTGTTTTTT
1 TTCTCTTTTTTC-TTTT-ATTTTT
72575 TCTCTCTTTTTTCTTTTATTTTT
1 T-TCTCTTTTTTCTTTTATTTTT
*
72598 TTATCTTTTTTCTT
1 TTCTCTTTTTTCTT
72612 CTCTTTTCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
21 5 0.10
22 21 0.40
23 11 0.21
24 9 0.17
25 6 0.12
ACGTcount: A:0.02, C:0.17, G:0.01, T:0.79
Consensus pattern (22 bp):
TTCTCTTTTTTCTTTTATTTTT
Found at i:72585 original size:33 final size:32
Alignment explanation
Indices: 72537--72639 Score: 106
Period size: 33 Copynumber: 3.2 Consensus size: 32
72527 TTGTTCTCTT
* *
72537 TCTTCTTT-TTCTTTTTTCTCTTTTTCTTTTTG
1 TCTTTTTTCTTCTTTTTTCTCTTTTT-TTTTTA
72569 T-TTTTTTCTCTCTTTTTTCT-TTTATTTTTTTA
1 TCTTTTTTCT-TCTTTTTTCTCTTT-TTTTTTTA
*
72601 TCTTTTTTCTTCTCTTTTC-CTTTTTTTTCTTTA
1 TCTTTTTTCTTCTTTTTTCTC-TTTTTTT-TTTA
72634 TCTTTT
1 TCTTTT
72640 CTGAATATGA
Statistics
Matches: 61, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
31 5 0.08
32 23 0.38
33 33 0.54
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (32 bp):
TCTTTTTTCTTCTTTTTTCTCTTTTTTTTTTA
Found at i:72596 original size:10 final size:9
Alignment explanation
Indices: 72535--72632 Score: 61
Period size: 11 Copynumber: 9.8 Consensus size: 9
72525 ATTTGTTCTC
*
72535 TTTCTTCTT
1 TTTCTTTTT
72544 TTTCTTTTT
1 TTTCTTTTT
*
72553 TCTCTTTTT
1 TTTCTTTTT
*
72562 CTTTTTGTTTT
1 -TTTCT-TTTT
72573 TTTCTCTCTTT
1 TTTCT-T-TTT
72584 TTTCTTTTATT
1 TTTC-TTT-TT
*
72595 TTTTTATCTTT
1 TTTCT-T-TTT
72606 TTTCTTCTCTT
1 TTTCTT-T-TT
*
72617 TTCCTTTTT
1 TTTCTTTTT
72626 TTTCTTT
1 TTTCTTT
72633 ATCTTTTCTG
Statistics
Matches: 71, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
9 24 0.34
10 14 0.20
11 31 0.44
12 2 0.03
ACGTcount: A:0.02, C:0.17, G:0.01, T:0.80
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:72618 original size:22 final size:23
Alignment explanation
Indices: 72570--72641 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 23
72560 TTCTTTTTGT
* *
72570 TTTTTTCTCTCTTTTTTCTTTTA
1 TTTTTTCTATCTTTTTTCTTCTA
72593 TTTTTT-TATCTTTTTTCTTCT-
1 TTTTTTCTATCTTTTTTCTTCTA
* *
72614 CTTTTCCT-T-TTTTTTCTT-TA
1 TTTTTTCTATCTTTTTTCTTCTA
*
72634 TCTTTTCT
1 TTTTTTCT
72642 GAATATGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.03
20 14 0.35
21 5 0.12
22 14 0.35
23 6 0.15
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTTCTATCTTTTTTCTTCTA
Found at i:73413 original size:2 final size:2
Alignment explanation
Indices: 73406--73443 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
73396 GTGTTTTTAA
73406 AT 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 AT
73444 TTTTTGAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:77801 original size:7 final size:7
Alignment explanation
Indices: 77791--77816 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
77781 TTTCACATTA
77791 AATTTTG
1 AATTTTG
77798 AATTTTG
1 AATTTTG
77805 AATTTTG
1 AATTTTG
77812 AATTT
1 AATTT
77817 ATTAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.58
Consensus pattern (7 bp):
AATTTTG
Found at i:78511 original size:29 final size:29
Alignment explanation
Indices: 78435--78519 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
78425 TAAAAGAGCT
*
78435 AAAACAGAAATTTAAAG-GACATAAATAGAA
1 AAAACAGAAA-CTAAAGTGACA-AAATAGAA
**
78465 AAAACAGAAACTTCAGTGACTAAAATA-AA
1 AAAACAGAAACTAAAGTGAC-AAAATAGAA
* *
78494 ATAACAGAAACTAAAGTGTCAAAATA
1 AAAACAGAAACTAAAGTGACAAAATA
78520 TATAACATAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
28 6 0.13
29 21 0.46
30 18 0.39
31 1 0.02
ACGTcount: A:0.60, C:0.11, G:0.12, T:0.18
Consensus pattern (29 bp):
AAAACAGAAACTAAAGTGACAAAATAGAA
Found at i:79623 original size:40 final size:41
Alignment explanation
Indices: 79568--79845 Score: 163
Period size: 40 Copynumber: 6.6 Consensus size: 41
79558 TATCTAAAGT
* *
79568 TGACACTGCTCCTACGTGATGAGGA-GATCTGGTCGAGGGA
1 TGACACAGTTCCTACGTGATGAGGACGATCTGGTCGAGGGA
* * ** *
79608 TGACACGGTTCCTACGTGATGAGGACGACAACCATTAT-TAGGGA
1 TGACACAGTTCCTACGTGATGAGGACG---ATC-TGGTCGAGGGA
* ** * * * * *
79652 TGATAACACGATTCCTGTGTGATGAGGATGA-CTGATTATCTAAGGT
1 TGA-CACA-G-TTCCTACGTGATGAGGACGATCTG---GTCGAGGGA
* * *
79698 TGACACGGCTCCTACGCGATGAGGA-GATCTGGTCGAGGGA
1 TGACACAGTTCCTACGTGATGAGGACGATCTGGTCGAGGGA
* * * * * *
79738 TGACACAATTTCTACGTGATGAGGACG-GCTGGTTATCTAAGGT
1 TGACACAGTTCCTACGTGATGAGGACGATCTGG---TCGAGGGA
* *
79781 TGACACAGCTCTTACGTGATGAGGA-GATCTGGTCGAGGGA
1 TGACACAGTTCCTACGTGATGAGGACGATCTGGTCGAGGGA
79821 TGACACAGTTCCTACGTGATGAGGA
1 TGACACAGTTCCTACGTGATGAGGA
79846 TGATAAGCCA
Statistics
Matches: 177, Mismatches: 43, Indels: 36
0.69 0.17 0.14
Matches are distributed among these distances:
40 80 0.45
41 2 0.01
42 4 0.02
43 47 0.27
44 12 0.07
45 8 0.05
46 8 0.05
47 16 0.09
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (41 bp):
TGACACAGTTCCTACGTGATGAGGACGATCTGGTCGAGGGA
Found at i:79753 original size:130 final size:130
Alignment explanation
Indices: 79519--79764 Score: 384
Period size: 130 Copynumber: 1.9 Consensus size: 130
79509 GATCGTCTAA
** *
79519 GGATGATAACACAATTCCTACGTGATGAGGAAGGTTGATTATCTAAAGTTGACACTGCTCCTACG
1 GGATGATAACACAATTCCTACGTGATGAGGAAGACTGATTATCTAAAGTTGACACGGCTCCTACG
* **
79584 TGATGAGGAGATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGACGACAACCATTATTAG
66 CGATGAGGAGATCTGGTCGAGGGATGACACAATTCCTACGTGATGAGGACGACAACCATTATTAG
* ** * *
79649 GGATGATAACACGATTCCTGTGTGATGAGGATGACTGATTATCTAAGGTTGACACGGCTCCTACG
1 GGATGATAACACAATTCCTACGTGATGAGGAAGACTGATTATCTAAAGTTGACACGGCTCCTACG
*
79714 CGATGAGGAGATCTGGTCGAGGGATGACACAATTTCTACGTGATGAGGACG
66 CGATGAGGAGATCTGGTCGAGGGATGACACAATTCCTACGTGATGAGGACG
79765 GCTGGTTATC
Statistics
Matches: 104, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
130 104 1.00
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (130 bp):
GGATGATAACACAATTCCTACGTGATGAGGAAGACTGATTATCTAAAGTTGACACGGCTCCTACG
CGATGAGGAGATCTGGTCGAGGGATGACACAATTCCTACGTGATGAGGACGACAACCATTATTAG
Found at i:79809 original size:83 final size:83
Alignment explanation
Indices: 79670--79845 Score: 280
Period size: 83 Copynumber: 2.1 Consensus size: 83
79660 CGATTCCTGT
* *
79670 GTGATGAGGATGACTGATTATCTAAGGTTGACACGGCTCCTACGCGATGAGGAGATCTGGTCGAG
1 GTGATGAGGACGACTGATTATCTAAGGTTGACACAGCTCCTACGCGATGAGGAGATCTGGTCGAG
*
79735 GGATGACACAATTTCTAC
66 GGATGACACAATTCCTAC
* * * *
79753 GTGATGAGGACGGCTGGTTATCTAAGGTTGACACAGCTCTTACGTGATGAGGAGATCTGGTCGAG
1 GTGATGAGGACGACTGATTATCTAAGGTTGACACAGCTCCTACGCGATGAGGAGATCTGGTCGAG
*
79818 GGATGACACAGTTCCTAC
66 GGATGACACAATTCCTAC
79836 GTGATGAGGA
1 GTGATGAGGA
79846 TGATAAGCCA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 85 1.00
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (83 bp):
GTGATGAGGACGACTGATTATCTAAGGTTGACACAGCTCCTACGCGATGAGGAGATCTGGTCGAG
GGATGACACAATTCCTAC
Found at i:79813 original size:43 final size:44
Alignment explanation
Indices: 79670--79813 Score: 124
Period size: 43 Copynumber: 3.4 Consensus size: 44
79660 CGATTCCTGT
* * * *
79670 GTGATGAGGATGA-CTGATTATCTAAGGTTGACACGGCTCCTAC
1 GTGATGAGGACGATCTGGTTATCTAAGGTTGACACAGCTCTTAC
* * * * * *
79713 GCGATGAGGA-GATCTGG---TCGAGGGATGACACA-ATTTCTAC
1 GTGATGAGGACGATCTGGTTATCTAAGGTTGACACAGCTCT-TAC
*
79753 GTGATGAGGACG-GCTGGTTATCTAAGGTTGACACAGCTCTTAC
1 GTGATGAGGACGATCTGGTTATCTAAGGTTGACACAGCTCTTAC
79796 GTGATGAGGA-GATCTGGT
1 GTGATGAGGACGATCTGGT
79814 CGAGGGATGA
Statistics
Matches: 76, Mismatches: 17, Indels: 16
0.70 0.16 0.15
Matches are distributed among these distances:
39 1 0.01
40 27 0.36
41 1 0.01
42 3 0.04
43 42 0.55
44 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (44 bp):
GTGATGAGGACGATCTGGTTATCTAAGGTTGACACAGCTCTTAC
Found at i:80101 original size:16 final size:17
Alignment explanation
Indices: 80074--80107 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
80064 GAGATTTGTT
80074 TCAAGAGAAACTAAAAC
1 TCAAGAGAAACTAAAAC
80091 TCAAG-GAAACTAAAAC
1 TCAAGAGAAACTAAAAC
80107 T
1 T
80108 TGTTTCAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.18, G:0.12, T:0.15
Consensus pattern (17 bp):
TCAAGAGAAACTAAAAC
Found at i:80381 original size:73 final size:72
Alignment explanation
Indices: 80163--80536 Score: 469
Period size: 73 Copynumber: 5.3 Consensus size: 72
80153 CATCTCGAGG
* * * *
80163 GAGACAAAATTTGTTTCAAGAGAAACGGTCTCAAGTGAGACAAAATATGTTTCAAGAGAAAATGT
1 GAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGT
80228 CTCAAGA
66 CTCAAGA
* * * *
80235 GAGACAAAATTTGTTTCAAGA-AAAATGTCTCAAGAGACACAAAATTTGTTTCAAGGGAAATTGT
1 GAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGT
80299 CTCAAGA
66 CTCAAGA
* * * * *
80306 GAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTA
1 GAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGAGAAACTG
80371 TCTCAAGA
65 TCTCAAGA
* * * * * *
80379 GAGACAAACTTTGTTTCAATAGAAACATAT-TC-----A-AC-GATTTTGTTTCAAGGGAAACTG
1 GAGACAAAATTTGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTG
80436 TCTCAAGA
65 TCTCAAGA
*
80444 GAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTG
1 GAGACAAAA-TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTG
*
80509 TCTCAAGG
65 TCTCAAGA
80517 GAGACAAAATTTGTTTCAAG
1 GAGACAAAATTTGTTTCAAG
80537 GGAGACACAA
Statistics
Matches: 257, Mismatches: 33, Indels: 24
0.82 0.11 0.08
Matches are distributed among these distances:
65 32 0.12
66 19 0.07
67 2 0.01
68 1 0.00
71 64 0.25
72 55 0.21
73 82 0.32
74 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (72 bp):
GAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGT
CTCAAGA
Found at i:80506 original size:102 final size:106
Alignment explanation
Indices: 80163--80515 Score: 391
Period size: 102 Copynumber: 3.3 Consensus size: 106
80153 CATCTCGAGG
* ** * * *
80163 GAGACAAAATTTGTTTCAAGAGAAAC-GGTCTCAAGTGAGACAAAATATGTTTCAAGAGAAAATG
1 GAGACAAAATTTGTTTCAAGGGAAACATATCTC-A---AGACGAAATTTGTTTCAAGAGAAACTG
*
80227 TCTCAAGAGAGACAAAA-TTTGTTTCAAGA-AAAATGTCTCAAGA
62 TCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGA
* * *
80270 GACACAAAATTTGTTTCAAGGGAAA-TTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTG
1 GAGACAAAATTTGTTTCAAGGGAAACATATCTC---A-AGACGAAATTTGTTTCAAGAGAAACTG
* * * *
80334 TCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGA
62 TCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGA
* ** * *
80379 GAGACAAACTTTGTTTCAATAGAAACATAT-TC-A-ACG-ATTTTGTTTCAAGGGAAACTGTCTC
1 GAGACAAAATTTGTTTCAAGGGAAACATATCTCAAGACGAAATTTGTTTCAAGAGAAACTGTCTC
80440 AAGAGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGA
66 AAGAGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGA
*
80481 GAGACAAAATTTGTTTCAAGGGAAAC-TGTCTCAAG
1 GAGACAAAATTTGTTTCAAGGGAAACATATCTCAAG
80516 GGAGACAAAA
Statistics
Matches: 209, Mismatches: 28, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
101 2 0.01
102 85 0.41
103 4 0.02
104 1 0.00
107 70 0.33
108 9 0.04
109 36 0.17
110 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.25
Consensus pattern (106 bp):
GAGACAAAATTTGTTTCAAGGGAAACATATCTCAAGACGAAATTTGTTTCAAGAGAAACTGTCTC
AAGAGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGA
Found at i:80537 original size:21 final size:21
Alignment explanation
Indices: 80475--80560 Score: 76
Period size: 21 Copynumber: 4.4 Consensus size: 21
80465 AGAAACTGTC
*
80475 TCAAGAGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* *
80496 TCAA-GG-G---AAA-CTGTC
1 TCAAGGGAGACAAAATTTGTT
80511 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* *
80532 TCAAGGGAGACACAATTCGTT
1 TCAAGGGAGACAAAATTTGTT
*
80553 TTAAGGGA
1 TCAAGGGA
80561 AAAGTTCTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
15 7 0.14
16 5 0.10
17 1 0.02
19 1 0.02
20 4 0.08
21 33 0.65
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:80539 original size:36 final size:36
Alignment explanation
Indices: 80163--80536 Score: 469
Period size: 36 Copynumber: 10.6 Consensus size: 36
80153 CATCTCGAGG
* *
80163 GAGACAAAATTTGTTTCAAGAGAAACGGTCTCAAGT
1 GAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGA
* *
80199 GAGACAAAATATGTTTCAAGAGAAAATGTCTCAAGA
1 GAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGA
*
80235 GAGACAAAATTTGTTTCAAGA-AAAATGTCTCAAGA
1 GAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGA
* * *
80270 GACACAAAATTTGTTTCAAGGGAAATTGTCTCAAGA
1 GAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGA
*
80306 GAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGA
1 GAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGA
* * * *
80342 GAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGA
1 GAGACAAAA-TTTGTTTCAAGAGAAACTGTCTCAAGA
* * *
80379 GAGACAAACTTTGTTTCAATAGAAACATAT-TC----
1 GAGACAAAATTTGTTTCAAGAGAAAC-TGTCTCAAGA
* * *
80411 -A-AC-GATTTTGTTTCAAGGGAAACTGTCTCAAGA
1 GAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGA
80444 GAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGA
1 GAGACAAAA-TTTGTTTCAAGAGAAACTGTCTCAAGA
* *
80481 GAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGG
1 GAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGA
80517 GAGACAAAATTTGTTTCAAG
1 GAGACAAAATTTGTTTCAAG
80537 GGAGACACAA
Statistics
Matches: 295, Mismatches: 31, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
28 2 0.01
29 18 0.06
30 2 0.01
31 1 0.00
34 1 0.00
35 35 0.12
36 167 0.57
37 69 0.23
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (36 bp):
GAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGA
Found at i:81339 original size:32 final size:32
Alignment explanation
Indices: 81298--81385 Score: 131
Period size: 32 Copynumber: 2.8 Consensus size: 32
81288 TTCACATCAG
* *
81298 GATGTTGAATCCCCAAAGATGCCCCAATATTT
1 GATGTTGAATCTCCAAAGATGCCCCAACATTT
81330 GATGTTGAATCTCCAAAGATGCCCCAACATTT
1 GATGTTGAATCTCCAAAGATGCCCCAACATTT
* * *
81362 GATGTTAAATATTCAAAGATGCCC
1 GATGTTGAATCTCCAAAGATGCCC
81386 TTTATTGCTT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAGATGCCCCAACATTT
Found at i:82191 original size:20 final size:19
Alignment explanation
Indices: 82168--82209 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
82158 TTTACCTCAC
*
82168 TTTTTCCTTTTTTTCTCTCT
1 TTTTTCCTTATTTTCTC-CT
*
82188 TTTTTGCTTATTTTCTCCT
1 TTTTTCCTTATTTTCTCCT
82207 TTT
1 TTT
82210 GTTCTGATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTCCTTATTTTCTCCT
Found at i:82394 original size:2 final size:2
Alignment explanation
Indices: 82387--82418 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
82377 ACAACAAGGG
*
82387 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
82419 GGATAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:84326 original size:17 final size:17
Alignment explanation
Indices: 84304--84337 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
84294 TGAATATAAC
84304 ATCTACCC-ATTCATGAT
1 ATCTACCCGATT-ATGAT
84321 ATCTACCCGATTATGAT
1 ATCTACCCGATTATGAT
84338 TTTATTAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (17 bp):
ATCTACCCGATTATGAT
Found at i:85692 original size:29 final size:29
Alignment explanation
Indices: 85616--85709 Score: 102
Period size: 29 Copynumber: 3.2 Consensus size: 29
85606 TAAAAGAGCT
85616 AAAACAGAAACTTAAAG-GACATAAATAACA
1 AAAACAGAAAC-TAAAGTGACA-AAATAACA
**
85646 AAAACAGAAACTTCAGTGACTAAAATAA-A
1 AAAACAGAAACTAAAGTGAC-AAAATAACA
* * *
85675 ATAACAGAAACTAAAGTGTCAAAATAAGA
1 AAAACAGAAACTAAAGTGACAAAATAACA
85704 AAAACA
1 AAAACA
85710 CAAAGATTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
28 7 0.13
29 26 0.48
30 20 0.37
31 1 0.02
ACGTcount: A:0.62, C:0.13, G:0.11, T:0.15
Consensus pattern (29 bp):
AAAACAGAAACTAAAGTGACAAAATAACA
Found at i:86220 original size:146 final size:146
Alignment explanation
Indices: 85949--86229 Score: 366
Period size: 146 Copynumber: 1.9 Consensus size: 146
85939 TAAAAAGACC
* *
85949 AAAAACCATTCGGATTAAATTTCTCCGATCCGCCTCCATCCACCGTCCGATCGTCCTAATTTTAC
1 AAAAACCATTCGAATTAAATTTCTCCGATCCACCTCCATCCACCGTCCGATCGTCCTAATTTTAC
* * *
86014 AGTATGTTTTTCGTGTTGGCCTTGCGCAACATTTTACCATTCAAAACGTTTATCGAAGATCCCGA
66 AGTATGTTGTTCGTGTTGGCCTTGCGCAACATTTTACCATTCAAAACATTGATCGAAGATCCCGA
86079 TCACCTTAAAGAGGCA
131 TCACCTTAAAGAGGCA
* * * * * * * *
86095 AAAAACTATTCGAATTTATTTTCTCCGATCTACCTCCGTCCACCGTCTGATCGTCCTGATTTTTC
1 AAAAACCATTCGAATTAAATTTCTCCGATCCACCTCCATCCACCGTCCGATCGTCCTAATTTTAC
* ** ** * *
86160 AGTATGTTGTTCGTGTTGGCCTTGTGCAA-ATTTTCACTGTTCGGAACATTGATCGGAGATCTCG
66 AGTATGTTGTTCGTGTTGGCCTTGCGCAACATTTT-ACCATTCAAAACATTGATCGAAGATCCCG
86224 ATCACC
130 ATCACC
86230 GGTAAAAATC
Statistics
Matches: 114, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
145 5 0.04
146 109 0.96
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (146 bp):
AAAAACCATTCGAATTAAATTTCTCCGATCCACCTCCATCCACCGTCCGATCGTCCTAATTTTAC
AGTATGTTGTTCGTGTTGGCCTTGCGCAACATTTTACCATTCAAAACATTGATCGAAGATCCCGA
TCACCTTAAAGAGGCA
Found at i:86463 original size:17 final size:18
Alignment explanation
Indices: 86441--86474 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
86431 AGGATTTATT
86441 TAATGGGTT-GTGGTAGA
1 TAATGGGTTAGTGGTAGA
86458 TAATGGGTTAGTGGTAG
1 TAATGGGTTAGTGGTAG
86475 GTTATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (18 bp):
TAATGGGTTAGTGGTAGA
Found at i:87031 original size:40 final size:42
Alignment explanation
Indices: 86986--87176 Score: 126
Period size: 40 Copynumber: 4.5 Consensus size: 42
86976 ATACGGCTTT
* **
86986 TACGTGATGAGGA-GATC-TGGTCAAGGGATGACATGGTTCC
1 TACGTGATGAGGACGATCATGATCAAGGGATGACACAGTTCC
* *
87026 TACGTGATGAGGATGA-CATTCCATCATTAGGGATGATAACACAGTTCC
1 TACGTGATGAGGACGATCA-T-GATCA--AGGGATG---ACACAGTTCC
* * * * *
87074 TACGTGATGAGGACGACTCGTTATCTAA-GGTTGACACGGCTCC
1 TACGTGATGAGGACGA-TCATGATC-AAGGGATGACACAGTTCC
* * *
87117 TACGTGATGAGGA-GATC-TGGTCGAGGGATGACACAGTTTC
1 TACGTGATGAGGACGATCATGATCAAGGGATGACACAGTTCC
*
87157 TACGAGATGAGGACGA-CATG
1 TACGTGATGAGGACGATCATG
87177 CCATCTTTAG
Statistics
Matches: 118, Mismatches: 18, Indels: 29
0.72 0.11 0.18
Matches are distributed among these distances:
39 1 0.01
40 41 0.35
41 8 0.07
42 3 0.03
43 24 0.20
45 7 0.06
46 4 0.03
47 1 0.01
48 26 0.22
49 2 0.02
50 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (42 bp):
TACGTGATGAGGACGATCATGATCAAGGGATGACACAGTTCC
Found at i:87044 original size:112 final size:112
Alignment explanation
Indices: 86847--87067 Score: 370
Period size: 112 Copynumber: 2.0 Consensus size: 112
86837 ATGAGGACGA
* *
86847 CTGGTTATCTATGGTTGATACTGCTCTTACATGATGAGGAGATCTGGTCAAGGGATGACACAGTT
1 CTGGTTATCTAAGGTTGATACGGCTCTTACATGATGAGGAGATCTGGTCAAGGGATGACACAGTT
86912 CCTACGTGATGAGGACGACATGCCATCATTAGGGATGATAACACGGT
66 CCTACGTGATGAGGACGACATGCCATCATTAGGGATGATAACACGGT
* * **
86959 CTGGTTATCTAAGGTTGATACGGCTTTTACGTGATGAGGAGATCTGGTCAAGGGATGACATGGTT
1 CTGGTTATCTAAGGTTGATACGGCTCTTACATGATGAGGAGATCTGGTCAAGGGATGACACAGTT
* *
87024 CCTACGTGATGAGGATGACATTCCATCATTAGGGATGATAACAC
66 CCTACGTGATGAGGACGACATGCCATCATTAGGGATGATAACAC
87068 AGTTCCTACG
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 101 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (112 bp):
CTGGTTATCTAAGGTTGATACGGCTCTTACATGATGAGGAGATCTGGTCAAGGGATGACACAGTT
CCTACGTGATGAGGACGACATGCCATCATTAGGGATGATAACACGGT
Found at i:87523 original size:36 final size:36
Alignment explanation
Indices: 87474--88141 Score: 623
Period size: 36 Copynumber: 19.0 Consensus size: 36
87464 CAAAGTTTGG
*
87474 TGTTTCATA-AGAAACTGTCT-AGAGGGAGACAAAATT
1 TGTTTCA-AGAGAAACTGTCTCA-AGAGAGACAAAATT
* * *
87510 TGTTTCAAGAGAAACGGTCTCAAGTGAGACAAAATA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
87546 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
87582 TGTTTCAAGA-AAACTGTTTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
87617 TGTTTCAAGA-AAATTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * *
87652 TGTTTTAAGGGAAATTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
87688 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
87725 AG-TTCTAAAAGAAACTGTCTCAAGAGAGACAAACTT
1 TGTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
87761 TGTTTCAAGGGAAAAATAT-T-----GA-AC-GATTT
1 TGTTTCAAGAG-AAACTGTCTCAAGAGAGACAAAATT
*
87790 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
87827 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
87863 TATTTCAAGGGAAACTGTCTCAAGGGAGAC--AATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
87897 TGTTTCAAGGGAAACTGTCTCAAG-GTAGACAAGATT
1 TGTTTCAAGAGAAACTGTCTCAAGAG-AGACAAAATT
* * **
87933 CGTTTCAAGGGAAAC-GTTCTCAA-AG-TTC---A--
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* * * *
87962 TGTTTCAAGAGAAACTATCTCAAAAGAGATAAAACT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
87998 TGTTTCAAGAGAAACTATCTCAAGCGAGATAAAATCT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT-T
* * * * * *
88035 GGTTTTAAGAAAAATTGTCTCAAGGGAGACAAAACT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
88071 TGTTTCAAGGGCAACTGTCTCAAGAGAGAC--AATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** ** * *
88105 TGTTTTGATTGAAATTGTCTCAAGCGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
88141 T
1 T
88142 TATTTTTCAA
Statistics
Matches: 527, Mismatches: 73, Indels: 64
0.79 0.11 0.10
Matches are distributed among these distances:
28 5 0.01
29 34 0.06
30 4 0.01
31 3 0.01
33 1 0.00
34 61 0.12
35 69 0.13
36 249 0.47
37 101 0.19
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:87649 original size:70 final size:71
Alignment explanation
Indices: 87485--88141 Score: 581
Period size: 73 Copynumber: 9.4 Consensus size: 71
87475 GTTTCATAAG
* * * * *
87485 AAACTGTCT-AGAGGGAGACAAAATTTGTTTCAAGAGAAACGGTCTCAAGTGAGACAAAATATGT
1 AAACTGTCTCA-AGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
*
87549 TTCAAGGG
65 TTCAA-GA
* *
87557 AAACTGTCTCAAGAGAGACAAAATTTGTTTCAA-GAAAACTGTTTCAAGAGAGACAAAATTTGTT
1 AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
87621 TCAAGA
66 TCAAGA
* * * *
87627 AAATTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATTGTCTCAAGAGAGACGAAATTTGTT
1 AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
87692 TCAAGA
66 TCAAGA
* ** *
87698 GAAACTGTCTCAAGAGAGACAAAACTTAG-TTCTAAAAGAAACTGTCTCAAGAGAGACAAACTTT
1 -AAACTGTCTCAAGAGAGACAAAA-TTTGTTTC-AAGGGAAACTGTCTCAAGAGAGACAAAATTT
87762 GTTTCAAGGGA
63 GTTTCAA--GA
* * * *
87773 AAAATAT-T-----GA-AC-GATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGT
1 AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGT
87830 TTCAAGA
65 TTCAAGA
* *
87837 GAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGGGAGAC--AATTTGT
1 -AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
*
87900 TTCAAGGG
65 TTCAA-GA
* * **
87908 AAACTGTCTCAAG-GTAGACAAGATTCGTTTCAAGGGAAAC-GTTCTCAA-AG-TTC---A--TG
1 AAACTGTCTCAAGAG-AGACAAAATTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTTG
87964 TTTCAAGA
64 TTTCAAGA
* * * * * * * * *
87972 GAAACTATCTCAAAAGAGATAAAACTTGTTTCAAGAGAAACTATCTCAAGCGAGATAAAATCTGG
1 -AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT-TTG
*
88037 TTTTAAGAA
64 TTTCAAG-A
* * * *
88046 AAATTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGCAACTGTCTCAAGAGAGAC--AATTTGTT
1 AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG-T
* *
88109 TTGATTG-
65 TTCA-AGA
* *
88116 AAATTGTCTCAAGCGAGACAAAATTT
1 AAACTGTCTCAAGAGAGACAAAATTT
88142 TATTTTTCAA
Statistics
Matches: 477, Mismatches: 73, Indels: 72
0.77 0.12 0.12
Matches are distributed among these distances:
64 3 0.01
65 78 0.16
66 17 0.04
67 3 0.01
68 3 0.01
69 3 0.01
70 110 0.23
71 74 0.16
72 57 0.12
73 121 0.25
74 6 0.01
75 2 0.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (71 bp):
AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
TCAAGA
Found at i:87825 original size:102 final size:105
Alignment explanation
Indices: 87484--87928 Score: 423
Period size: 102 Copynumber: 4.2 Consensus size: 105
87474 TGTTTCATAA
* * * * *
87484 GAAACTGTCT-AGAGGGAGACAAAA-TTTGTTTCAAGAGAAACGGTCTCAAGTGAGACAAAATAT
1 GAAACTGTCTCA-AGAGAGACAAAACTTTGTTT-AAAAGAAACTGTCTCAAGAGAGACAAAATTT
* * *
87547 GTTTCAAGGG-AAACTGTCTCAAGAGAGACAAAATTTGTTTCAA-G
64 GTTTCAAGGGAAAAATATCT----AGAGACGAAATTTGTTTCAAGG
* * * *
87591 AAAACTGTTTCAAGAGAGACAAAA-TTTGTTT-CAAGAAAATTGTCTCAAGAGAGACAAAATTTG
1 GAAACTGTCTCAAGAGAGACAAAACTTTGTTTAAAAG-AAACTGTCTCAAGAGAGACAAAATTTG
* * * *
87654 TTTTAAGGG-AAATTGTCTCAAGAGAGACGAAATTTGTTTCAAGA
65 TTTCAAGGGAAAAATATCT----AGAGACGAAATTTGTTTCAAGG
* *
87698 GAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAACTTTG
1 GAAACTGTCTCAAGAGAGACAAAACTTTGTT-TAAAAGAAACTGTCTCAAGAGAGACAAAATTTG
*
87763 TTTCAAGGGAAAAATAT-T-GA-ACG-ATTTTGTTTCAAGG
65 TTTCAAGGGAAAAATATCTAGAGACGAAATTTGTTTCAAGG
* *
87800 GAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
1 GAAACTGTCTCAAGAGAGACAAAACTTTGTTT-AAAAGAAACTGTCTCAAGAGAGACAAAATTTG
* * *
87865 TTTCAAGGG-AAACTGTCTCAAGGGA-GACAATTTGTTTCAAGG
65 TTTCAAGGGAAAAATATCT--AGAGACGA-AATTTGTTTCAAGG
87907 GAAACTGTCTCAAG-GTAGACAA
1 GAAACTGTCTCAAGAG-AGACAA
87929 GATTCGTTTC
Statistics
Matches: 290, Mismatches: 32, Indels: 32
0.82 0.09 0.09
Matches are distributed among these distances:
101 6 0.02
102 81 0.28
103 3 0.01
104 2 0.01
105 4 0.01
106 64 0.22
107 81 0.28
108 6 0.02
109 35 0.12
110 8 0.03
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (105 bp):
GAAACTGTCTCAAGAGAGACAAAACTTTGTTTAAAAGAAACTGTCTCAAGAGAGACAAAATTTGT
TTCAAGGGAAAAATATCTAGAGACGAAATTTGTTTCAAGG
Found at i:87887 original size:15 final size:15
Alignment explanation
Indices: 87867--87921 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
87857 AAAATTTATT
87867 TCAAGGGAAACTGTC
1 TCAAGGGAAACTGTC
* *
87882 TCAAGGGAGACAATTTGTT
1 TCAA-GG-GA-AA-CTGTC
87901 TCAAGGGAAACTGTC
1 TCAAGGGAAACTGTC
87916 TCAAGG
1 TCAAGG
87922 TAGACAAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 13 0.41
16 4 0.12
17 4 0.12
18 4 0.12
19 7 0.22
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (15 bp):
TCAAGGGAAACTGTC
Found at i:88079 original size:208 final size:212
Alignment explanation
Indices: 87474--88138 Score: 629
Period size: 208 Copynumber: 3.2 Consensus size: 212
87464 CAAAGTTTGG
* * * * *
87474 TGTTTCATA-AGAAACTGTCT-AGAGGGAGACAAAA-TTTGTT-TCAAGAGAAACGGTCTCAAGT
1 TGTTTCA-AGAGAAACTGTCTCA-AGAGAGACAAAACTTAGTTCT-AAAAGAAACTGTCTCAAGA
* * *
87535 GAGACAAAATATGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGA-AAACTGT
63 GAGAC---A-ATGTTTCAAGGGAAACTATCTCAAAAGAGATAAAATTTGTTTCAAGAGAAACTGT
* *
87599 TTCAAGAGAGACAAAAT-TTGTTTCAAG-AAAATTGTCTCAAGAGAGACAAAATTTGTTTTAAGG
124 CTCAAGAGAGACAAAATCTTGTTTCAAGAAAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGG
*
87662 GAAATTGTCTCAAGAGAGACGAAATT
189 GAAACTGTCTCAAGAGAGAC--AATT
87688 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGAGAG
* * * *
87753 ACAAACTTTGTTTCAAGGGAAAAATAT-T--GAA-CGAT----TTTGTTTCAAGGGAAACTGTCT
66 AC-AA---TGTTTCAAGGG-AAACTATCTCAAAAGAGATAAAATTTGTTTCAAGAGAAACTGTCT
* * *
87810 CAAGAGAGACAAAA-CTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGG
126 CAAGAGAGACAAAATC-TTGTTTCAAGAAAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGGG
*
87874 AAACTGTCTCAAGGGAGACAATT
190 AAACTGTCTCAAGAGAGACAATT
* * * **
87897 TGTTTCAAGGGAAACTGTCTCAAG-GTAGACAAGA-TTCGTT-TCAAGGGAAAC-GTTCTCAA-A
1 TGTTTCAAGAGAAACTGTCTCAAGAG-AGACAAAACTTAGTTCT-AAAAGAAACTG-TCTCAAGA
** * * *
87957 G-TTC-ATGTTTCAAGAGAAACTATCTCAAAAGAGATAAAACTTGTTTCAAGAGAAACTATCTCA
63 GAGACAATGTTTCAAGGGAAACTATCTCAAAAGAGATAAAATTTGTTTCAAGAGAAACTGTCTCA
* * * * * * *
88020 AGCGAGATAAAATCTGGTTTTAAGAAAAATTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGCAA
128 AGAGAGACAAAATCTTGTTTCAAGAAAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAA
88085 CTGTCTCAAGAGAGACAATT
193 CTGTCTCAAGAGAGACAATT
** ** * *
88105 TGTTTTGATTGAAATTGTCTCAAGCGAGACAAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
88139 TTTTATTTTT
Statistics
Matches: 376, Mismatches: 50, Indels: 56
0.78 0.10 0.12
Matches are distributed among these distances:
200 6 0.02
201 11 0.03
203 2 0.01
204 4 0.01
206 1 0.00
207 4 0.01
208 149 0.40
209 58 0.15
210 10 0.03
211 50 0.13
212 3 0.01
213 4 0.01
214 29 0.08
215 39 0.10
216 6 0.02
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (212 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGAGAG
ACAATGTTTCAAGGGAAACTATCTCAAAAGAGATAAAATTTGTTTCAAGAGAAACTGTCTCAAGA
GAGACAAAATCTTGTTTCAAGAAAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTG
TCTCAAGAGAGACAATT
Found at i:88766 original size:32 final size:32
Alignment explanation
Indices: 88681--88768 Score: 122
Period size: 32 Copynumber: 2.8 Consensus size: 32
88671 TTCGTATCAG
* * * *
88681 GATGTTGAATCCCCAAAGATGACCTAATATTT
1 GATGTTGAATCTCCAAAGATGCCCCAACATTT
*
88713 AATGTTGAATCTCCAAAGATGCCCCAACATTT
1 GATGTTGAATCTCCAAAGATGCCCCAACATTT
*
88745 GATGTTGAATCTTCAAAGATGCCC
1 GATGTTGAATCTCCAAAGATGCCC
88769 TCTATTGCCT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAGATGCCCCAACATTT
Found at i:89830 original size:19 final size:18
Alignment explanation
Indices: 89808--89850 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
89798 TTTTACTTCA
*
89808 CTTTTTCCTTTGTTTTTCT
1 CTTTTTCCTTT-CTTTTCT
**
89827 CTTTTTTGTTTCTTTTCT
1 CTTTTTCCTTTCTTTTCT
89845 CTTTTT
1 CTTTTT
89851 GTTCTGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.77
Consensus pattern (18 bp):
CTTTTTCCTTTCTTTTCT
Found at i:93855 original size:145 final size:146
Alignment explanation
Indices: 93568--93866 Score: 395
Period size: 145 Copynumber: 2.1 Consensus size: 146
93558 CTCCGTTCGT
* *
93568 CGTAAAAAGACCAAAAACCGTTCCGATTAAGTTTCTCCAATCCGCCTCCGTCCACTATCCGGTCA
1 CGTAAAAAGACCAAAAACCGTTCCGATTAAGTTTCTCCAATCCGCCTCCGTCCACCATCCGATCA
* * * *
93633 TCCTGATTTTGCAGTATGTTGTTCGTGTTGGCCTTGTGCAACTTTTCACTATTCGAAACTTTGAT
66 TCCTGATTTTGCAGTATGTTGTTCGTGTTAGCCTTGCGCAACTTTTCACTATCCGAAACATTGAT
93698 CGGAGATCTCGATCAC
131 CGGAGATCTCGATCAC
* * * * ** *
93714 CGTAAAGAGGCCAAAAACCGTTCGGA-TATATTTTCTCTGATCCGCCTCCGTCCACCGTCCGATC
1 CGTAAAAAGACCAAAAACCGTTCCGATTA-AGTTTCTCCAATCCGCCTCCGTCCACCATCCGATC
* * * * *
93778 GTCCTGATTTT-TAGTATGTTGTTCGTGTTAGCCTTGCGTAACTTTTCACTGTCCGGAACATTGA
65 ATCCTGATTTTGCAGTATGTTGTTCGTGTTAGCCTTGCGCAACTTTTCACTATCCGAAACATTGA
*
93842 TTGGAGATCTCGATCAC
130 TCGGAGATCTCGATCAC
*
93859 CGGAAAAA
1 CGTAAAAA
93867 ATCTGGCATA
Statistics
Matches: 131, Mismatches: 21, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
145 69 0.53
146 62 0.47
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (146 bp):
CGTAAAAAGACCAAAAACCGTTCCGATTAAGTTTCTCCAATCCGCCTCCGTCCACCATCCGATCA
TCCTGATTTTGCAGTATGTTGTTCGTGTTAGCCTTGCGCAACTTTTCACTATCCGAAACATTGAT
CGGAGATCTCGATCAC
Found at i:97690 original size:21 final size:21
Alignment explanation
Indices: 97664--97714 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
97654 ATTCGGTTAA
*
97664 TTCGGTCGGCCATCGAATTAG
1 TTCGGTCGGCCACCGAATTAG
97685 TTCGGTCGGCCACCGAATTAG
1 TTCGGTCGGCCACCGAATTAG
97706 TTCGGTCGG
1 TTCGGTCGG
97715 GGATCGATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.16, C:0.25, G:0.31, T:0.27
Consensus pattern (21 bp):
TTCGGTCGGCCACCGAATTAG
Found at i:102185 original size:23 final size:23
Alignment explanation
Indices: 102159--102206 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
102149 ATAAAATACA
*
102159 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
102182 ATAATGTAATATGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
102205 AT
1 AT
102207 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:102663 original size:23 final size:23
Alignment explanation
Indices: 102637--102695 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
102627 AACCACTACC
102637 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
102660 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
102683 TATTACATCATAT
1 TATTACATTATAT
102696 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:103073 original size:430 final size:430
Alignment explanation
Indices: 102273--103328 Score: 2006
Period size: 430 Copynumber: 2.5 Consensus size: 430
102263 TATTACATTA
102273 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
102338 TTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
102403 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
102468 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
*
102533 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGATACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
102598 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATAT
326 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATAT
102663 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
102703 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
102768 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
**
102833 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATTTTATTTAGAATTTTTAATTTA
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
102898 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
* *
102963 TTAAAACTCACTCAAAGGATAACCTTAAATTAATTTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
*
103028 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATAT
103093 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
103133 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAAGGATCGATACTTCTTTTAAAGTTATGTAA
1 TATTATATTGAAAGTGTCCATACTTTTTAT-AAAAAGGATCGATACTTCTTTTAAAGTTATGTAA
* *
103198 TTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTT
65 TTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
103263 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTAAATTT
130 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTT
103327 AA
195 AA
103329 CAACATTAAC
Statistics
Matches: 613, Mismatches: 12, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
430 463 0.76
431 150 0.24
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (430 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATAT
TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:103089 original size:23 final size:23
Alignment explanation
Indices: 103063--103125 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
103053 ATATAACCAC
103063 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
103086 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
103109 TACCTATTACATCATAT
1 TACCTATTACATTATAT
103126 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:103601 original size:39 final size:39
Alignment explanation
Indices: 103547--103633 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
103537 TCAAGTTGTA
*
103547 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
103586 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
103625 GATTTTGAT
1 GATTTTGAT
103634 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:103926 original size:18 final size:18
Alignment explanation
Indices: 103903--103939 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
103893 CGAAATATAT
103903 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
103921 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
103939 A
1 A
103940 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:104355 original size:25 final size:25
Alignment explanation
Indices: 104319--104368 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
104309 ATTATTTTTC
* *
104319 CAAATAATGTACCCATAACAATGTT
1 CAAATAAAGTACCCACAACAATGTT
104344 CAAATAAAGTACCCACAACAATGTT
1 CAAATAAAGTACCCACAACAATGTT
104369 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.24
Consensus pattern (25 bp):
CAAATAAAGTACCCACAACAATGTT
Found at i:104667 original size:21 final size:22
Alignment explanation
Indices: 104642--104693 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
104632 ATACTTTACA
*
104642 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
104665 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
104688 ATATAA
1 ATATAA
104694 GCGCTATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:104678 original size:23 final size:23
Alignment explanation
Indices: 104652--104714 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
104642 ATATAACCAC
104652 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
104675 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
* *
104698 TATCTATTACATCATAT
1 TACCTATTACATTATAT
104715 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:105117 original size:25 final size:25
Alignment explanation
Indices: 105060--105125 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
105050 CACTCAAAAG
*
105060 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
105085 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
105110 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
105126 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:107935 original size:183 final size:183
Alignment explanation
Indices: 107594--107936 Score: 546
Period size: 183 Copynumber: 1.9 Consensus size: 183
107584 TTAAAATTAC
* *
107594 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTGAAATGGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
* * *
107659 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCACATAAAACCGGTATATTTATACCGGAT
* *
107724 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ACATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
107777 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTTCAATATGGACATAAAGTACCGACACAA
1 CGACACTTTTTGA-AATGGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
107841 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCACATAAAACCGGTATATTTATACC-GA
65 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCACATAAAACCGGTATATTTATACCGGA
* * **
107905 TAGCATTGCAAATTTACCTATTTTATTATAAT
130 TA-CATTACAAAATTACCTATTACATTATAAT
107937 ATGTTGAAAG
Statistics
Matches: 146, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
182 3 0.02
183 140 0.96
184 3 0.02
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (183 bp):
CGACACTTTTTGAAATGGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCACATAAAACCGGTATATTTATACCGGAT
ACATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:108318 original size:23 final size:23
Alignment explanation
Indices: 108290--108352 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
108280 ATATAACCAC
108290 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
108313 TGCCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
108336 TACCTATTACATCATAT
1 TACCTATTACATTATAT
108353 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:108742 original size:431 final size:430
Alignment explanation
Indices: 107940--108986 Score: 1928
Period size: 431 Copynumber: 2.4 Consensus size: 430
107930 TTATAATATG
* *
107940 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTT-AAAGATATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGT
108004 TTCAATTTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
66 TTCAA-TTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
*
108069 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTAAGAATTTTTAA-TT--TAAT
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT
108131 AATATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
195 AATATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
*
108196 TTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAA
260 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAA
*
108261 AAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATGCCTATTACATT
325 AAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATT
108326 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
390 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
*
108367 TTGAAAGTGTCCATAGTTTTTATAAAAAGGATCGATACTTTTTTTTAAAAGTTATGTAATTTATG
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAAGTTATGTAATTTATG
108432 TTTCAATTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
65 TTTCAATTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
108497 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT
108562 AATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
195 AATATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
108627 ACTCACTC-AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATA
259 ACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATA
108691 AAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACAT
324 AAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACAT
108756 TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
389 TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
*
108798 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGGTACTTTTTTTAAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGT
*
108863 TTCAATTTTTTTAA-TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
66 TTCAATTTTTTTAAGTA-TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
*
108927 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTAAATTTAA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAA
108987 CAACATTAAC
Statistics
Matches: 603, Mismatches: 10, Indels: 12
0.96 0.02 0.02
Matches are distributed among these distances:
427 36 0.06
428 121 0.20
429 37 0.06
430 136 0.23
431 219 0.36
432 54 0.09
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.42
Consensus pattern (430 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGT
TTCAATTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
ATATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC
TCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAA
AAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTA
TATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:108747 original size:23 final size:23
Alignment explanation
Indices: 108721--108783 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
108711 ATATAACCAC
108721 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
108744 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
108767 TACCTATTACATCATAT
1 TACCTATTACATTATAT
108784 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:110389 original size:6 final size:6
Alignment explanation
Indices: 110372--110443 Score: 63
Period size: 6 Copynumber: 12.0 Consensus size: 6
110362 ACTTGTTTGG
* * * * * *
110372 ATCATC ACCATC ATCATC ATCGTC ATCATC TTCATC TTCAGC TTCATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * *
110420 GTCATC ATCATC GTCATC TTCATC
1 ATCATC ATCATC ATCATC ATCATC
110444 GTCAGCTTCA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.36
Consensus pattern (6 bp):
ATCATC
Found at i:110437 original size:36 final size:36
Alignment explanation
Indices: 110380--110455 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
110370 GGATCATCAC
* *
110380 CATCATCATCATCGTCATCATCTTCATCTTCAGCTT
1 CATCATCATCATCATCATCATCTTCATCGTCAGCTT
* *
110416 CATCGTCATCATCATCGTCATCTTCATCGTCAGCTT
1 CATCATCATCATCATCATCATCTTCATCGTCAGCTT
110452 CATC
1 CATC
110456 TTCTGCGACC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.37
Consensus pattern (36 bp):
CATCATCATCATCATCATCATCTTCATCGTCAGCTT
Found at i:110454 original size:18 final size:18
Alignment explanation
Indices: 110397--110458 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
110387 ATCATCGTCA
*
110397 TCATCTTCATCTTCAGCT
1 TCATCTTCATCATCAGCT
* * *
110415 TCATCGTCATCATCATCG
1 TCATCTTCATCATCAGCT
*
110433 TCATCTTCATCGTCAGCT
1 TCATCTTCATCATCAGCT
110451 TCATCTTC
1 TCATCTTC
110459 TGCGACCGCT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.18, C:0.34, G:0.08, T:0.40
Consensus pattern (18 bp):
TCATCTTCATCATCAGCT
Found at i:110458 original size:6 final size:6
Alignment explanation
Indices: 110397--110458 Score: 70
Period size: 6 Copynumber: 10.3 Consensus size: 6
110387 ATCATCGTCA
* * * * *
110397 TCATCT TCATCT TCAGCT TCATCG TCATCA TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
110445 TCAGCT TCATCT TC
1 TCATCT TCATCT TC
110459 TGCGACCGCT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.18, C:0.34, G:0.08, T:0.40
Consensus pattern (6 bp):
TCATCT
Found at i:112665 original size:199 final size:198
Alignment explanation
Indices: 111924--112893 Score: 1751
Period size: 198 Copynumber: 4.9 Consensus size: 198
111914 TTTAAATTAG
111924 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
* *
111989 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATATTTTTAGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
* *
112054 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
112119 AAA
196 AAA
* * *
112122 TATTGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCGCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
112187 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
*
112252 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
*
112317 ATA
196 AAA
112320 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
*
112385 TTGTACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
* * *
112450 GACACTTTTTATATATGGATTGACACTTTATGGTTGCACCATGTTTTCCATTCATTATGGAACAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
112515 AAA
196 AAA
*
112518 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTTATAAAACCGGTATA
1 TATCGACACAAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
112583 CCTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATTTTTTTGGGAT
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
112648 CGACACTTTTTATATATGGATCAACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
130 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
112713 AAAA
195 AAAA
112717 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
112782 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGA
112847 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
129 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
112894 GGCCATATTG
Statistics
Matches: 741, Mismatches: 29, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
198 398 0.54
199 282 0.38
200 61 0.08
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
AAA
Found at i:113058 original size:19 final size:19
Alignment explanation
Indices: 113012--113060 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
113002 TTATATTCAC
*
113012 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
113031 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
113050 ATACAAAATTA
1 ATACAAAATTA
113061 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:114892 original size:33 final size:33
Alignment explanation
Indices: 114855--114920 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
114845 CATCTTAATA
*
114855 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
114888 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
114921 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:114979 original size:21 final size:21
Alignment explanation
Indices: 114954--114997 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
114944 CCCCTTATGC
114954 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
114975 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
114996 CT
1 CT
114998 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:117238 original size:17 final size:18
Alignment explanation
Indices: 117216--117258 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
117206 ATATATCCGG
117216 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
117233 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
117253 TATCAT
1 TATCAT
117259 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:117276 original size:20 final size:19
Alignment explanation
Indices: 117221--117267 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
117211 TCCGGTATCA
117221 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
117240 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
117261 TTTTACC
1 TTTTACC
117268 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:117492 original size:181 final size:183
Alignment explanation
Indices: 117188--117662 Score: 715
Period size: 181 Copynumber: 2.6 Consensus size: 183
117178 CGTACTTACA
* *
117188 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTG-ATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTATACCGGTT
* * *
117252 TTATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTA
66 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
* *
117317 TAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTCTA-T
131 TAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
117369 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTA-ACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTATACCGGTT
* *
117433 TTATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTA
66 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
** *
117498 TAGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 TAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * ** * *
117551 AAAGTACCGACACTTTAAATGTATCTGGTAGTGCTTTACCGGTTTTATCA-TTTCTATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTATACCGGTT
* * *
117615 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTTA
66 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTA
117663 TTTGGATCGA
Statistics
Matches: 267, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
181 171 0.64
182 96 0.36
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (183 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTATACCGGTT
TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
TAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:118181 original size:229 final size:228
Alignment explanation
Indices: 117731--118221 Score: 876
Period size: 229 Copynumber: 2.1 Consensus size: 228
117721 ACTTTTATAC
* *
117731 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATTTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGGTATGTAATTTATGTTTCAATTT
117796 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
66 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
*
117861 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAT
131 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
*
117926 ATAATAATAAATATGTTTTCCACAGTGAAATAA
196 ATAATAATAAATATATTTTCCACAGTGAAATAA
117959 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGGTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGGTATGTAATTTATGTTTCAA-TT
*
118024 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
65 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
*
118089 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
130 TTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
118154 AGATAATAATAAATATATTTT-CACAGTGAAATAA
194 AGATAATAATAAATATATTTTCCACAGTGAAATAA
* * *
118188 GTATGTACACTTTTATAAAAAGGATAGATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
118222 ACAATATAAC
Statistics
Matches: 252, Mismatches: 9, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
228 60 0.24
229 120 0.48
230 72 0.29
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (228 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGGTATGTAATTTATGTTTCAATTT
TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
ATAATAATAAATATATTTTCCACAGTGAAATAA
Found at i:119370 original size:20 final size:21
Alignment explanation
Indices: 119332--119371 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
119322 ACACCCTTGT
119332 AGCCTTCCTATACCATTTATA
1 AGCCTTCCTATACCATTTATA
119353 AGCCTTACC-ATA-CATTTAT
1 AGCCTT-CCTATACCATTTAT
119372 GTATCTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 9 0.50
22 2 0.11
ACGTcount: A:0.30, C:0.28, G:0.05, T:0.38
Consensus pattern (21 bp):
AGCCTTCCTATACCATTTATA
Found at i:119787 original size:21 final size:21
Alignment explanation
Indices: 119761--119811 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
119751 CAAGGGCTGA
119761 GTATCGATATTCCCTATAGGG
1 GTATCGATATTCCCTATAGGG
*
119782 GTATCGATATTTCCTATAGGG
1 GTATCGATATTCCCTATAGGG
119803 GTATCGATA
1 GTATCGATA
119812 CTACCCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (21 bp):
GTATCGATATTCCCTATAGGG
Found at i:125615 original size:31 final size:31
Alignment explanation
Indices: 125562--125634 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
125552 AAAGAATAAT
* * * *
125562 ATTTGGTCAGTTTTGTTTTTATTTAATTAAG
1 ATTTAGTCACTTTTATTATTATTTAATTAAG
125593 ATTTAGTCACTTTTATTATTATTTAATTAAG
1 ATTTAGTCACTTTTATTATTATTTAATTAAG
125624 ATATTA-TCACT
1 AT-TTAGTCACT
125635 GAGAGTTAGC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 34 0.92
32 3 0.08
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.55
Consensus pattern (31 bp):
ATTTAGTCACTTTTATTATTATTTAATTAAG
Found at i:131178 original size:31 final size:31
Alignment explanation
Indices: 131120--131178 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
131110 ACAAATTGGT
* ** *
131120 CACTAACGTTATTGATTTGTAACAAAATTGA
1 CACTAAAGTTATCAATTTATAACAAAATTGA
*
131151 CACTAAAGTTATCAATTTATAATAAAAT
1 CACTAAAGTTATCAATTTATAACAAAAT
131179 GATCACTCTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (31 bp):
CACTAAAGTTATCAATTTATAACAAAATTGA
Found at i:138088 original size:12 final size:12
Alignment explanation
Indices: 138073--138115 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
138063 AAGAAGCGGC
138073 GAGAGAAGC--A
1 GAGAGAAGCAGA
*
138083 GAGAG-AGCAGT
1 GAGAGAAGCAGA
138094 GAGAGAAGCAGA
1 GAGAGAAGCAGA
138106 GAGAGAAGCA
1 GAGAGAAGCA
138116 TCATTTCAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 3 0.11
10 5 0.18
11 5 0.18
12 15 0.54
ACGTcount: A:0.47, C:0.09, G:0.42, T:0.02
Consensus pattern (12 bp):
GAGAGAAGCAGA
Found at i:145206 original size:16 final size:17
Alignment explanation
Indices: 145185--145218 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
145175 TTTTTATAAA
145185 AAAAATAATTA-AATTT
1 AAAAATAATTATAATTT
145201 AAAAATAATTATAATTT
1 AAAAATAATTATAATTT
145218 A
1 A
145219 TTGGAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAAATAATTATAATTT
Found at i:146050 original size:2 final size:2
Alignment explanation
Indices: 146043--146072 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
146033 CTATATTTAC
146043 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
146073 CATAATAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:147722 original size:3 final size:3
Alignment explanation
Indices: 147716--147742 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
147706 GTAGTAGTAG
147716 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
147743 AGTAGAACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:148343 original size:140 final size:138
Alignment explanation
Indices: 147999--148549 Score: 629
Period size: 138 Copynumber: 4.0 Consensus size: 138
147989 GGTAAATTAA
* * * * *
147999 GAGATAATATGGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTAACGCTGCTCCTACGTG
1 GAGATAACATGGTTCCTACGTGATGAGGAAGTCTGGCTATCTAAGGATGACGCTGCTCCTACGTG
* * * * * * * * * *
148064 ATGAGGAGATATGGTCAGTGTATGGCACTATTCTTACGTGATGAGGATGTCTAGACATCTTTAGG
66 ATAAGGAGATCTGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACGTTTAGCCATCTTTAGG
148129 GATAAATG
131 GATAAATG
* * * * * *
148137 GAGATAGCATGGTTCCTACGCGATAAAGAAGTCTGGCTATCTAAGGATGACGCTGCTCTTATGTG
1 GAGATAACATGGTTCCTACGTGATGAGGAAGTCTGGCTATCTAAGGATGACGCTGCTCCTACGTG
* ** * *
148202 ATAAGGAGATCTGGTCGGTGGATGACACTGCTCCTATATGATGAAGACGTTTGGCCATCTTTAGG
66 ATAAGGAGATCTGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACGTTTAGCCATCTTTAGG
*
148267 GATAATTTGG
131 GATAA-AT-G
* * * * * * * *
148277 GAGACAACACGGTTCTTACGTGATGGGGAAGTCTGGTTATCTAAGGTTTACGTTGCTCCTACGTG
1 GAGATAACATGGTTCCTACGTGATGAGGAAGTCTGGCTATCTAAGGATGACGCTGCTCCTACGTG
* * * *
148342 ATGAGAAGATCTAGTCGGTGGATGACA-TGGTTCCTACGTGATGAGGACGTTTGGCCATCTTTAG
66 ATAAGGAGATCTGGTCGGTGGATGACACT-GTTCCTACGTGATGAGGACGTTTAGCCATCTTTAG
148406 GGATAAATG
130 GGATAAATG
* * * *
148415 GAGATAACATGATTCCTAC-TCGATGAGGAAGTCTAGCTATCAAAGGATGACGTTGCTCCTACGT
1 GAGATAACATGGTTCCTACGT-GATGAGGAAGTCTGGCTATCTAAGGATGACGCTGCTCCTACGT
* * * *
148479 GATAAGGAGATCTGGTCGGAGGATGACACAGTTTCTACGTGATGAGGACATTTAGCCATCTTTAG
65 GATAAGGAGATCTGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACGTTTAGCCATCTTTAG
148544 GGATAA
130 GGATAA
148550 TTTGTTTCAA
Statistics
Matches: 341, Mismatches: 67, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
137 1 0.00
138 224 0.66
139 3 0.01
140 113 0.33
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (138 bp):
GAGATAACATGGTTCCTACGTGATGAGGAAGTCTGGCTATCTAAGGATGACGCTGCTCCTACGTG
ATAAGGAGATCTGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACGTTTAGCCATCTTTAGG
GATAAATG
Found at i:148539 original size:278 final size:278
Alignment explanation
Indices: 148009--148553 Score: 741
Period size: 278 Copynumber: 2.0 Consensus size: 278
147999 GAGATAATAT
*
148009 GGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTAACGCTGCTCCTACGTGATGAGGAGAT
1 GGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTAACGCTGCTCCTACGTGATGAGAAGAT
* * * * *
148074 ATGGTCAGTGTATGGCACTATTCTTACGTGATGAGGATGTCTAGACATCTTTAGGGATAAATGGA
66 ATAGTCAGTGGATGACACTATTCCTACGTGATGAGGACGTCTAGACATCTTTAGGGATAAATGGA
* * * * * *
148139 GATAGCATGGTTCCTACGCGATAAAGAAGTCTGGCTATCTAAGGATGACGCTGCTCTTATGTGAT
131 GATAACATGATTCCTACGCGATAAAGAAGTCTAGCTATCAAAGGATGACGCTGCTCCTACGTGAT
* * * * *
148204 AAGGAGATCTGGTCGGTGGATGACACTGCTCCTATATGATGAAGACGTTTGGCCATCTTTAGGGA
196 AAGGAGATCTGGTCGGAGGATGACACAGCTCCTACATGATGAAGACATTTAGCCATCTTTAGGGA
148269 TAATTTGGGAGACAACAC
261 TAATTTGGGAGACAACAC
* * * * * *
148287 GGTTCTTACGTGATGGGGAAGTCTGGTTATCTAAGGTTTACGTTGCTCCTACGTGATGAGAAGAT
1 GGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTAACGCTGCTCCTACGTGATGAGAAGAT
* * * * * *
148352 CTAGTCGGTGGATGACA-TGGTTCCTACGTGATGAGGACGTTTGGCCATCTTTAGGGATAAATGG
66 ATAGTCAGTGGATGACACT-ATTCCTACGTGATGAGGACGTCTAGACATCTTTAGGGATAAATGG
* * * *
148416 AGATAACATGATTCCTACTCGATGAGGAAGTCTAGCTATCAAAGGATGACGTTGCTCCTACGTGA
130 AGATAACATGATTCCTACGCGATAAAGAAGTCTAGCTATCAAAGGATGACGCTGCTCCTACGTGA
* * * *
148481 TAAGGAGATCTGGTCGGAGGATGACACAGTTTCTACGTGATGAGGACATTTAGCCATCTTTAGGG
195 TAAGGAGATCTGGTCGGAGGATGACACAGCTCCTACATGATGAAGACATTTAGCCATCTTTAGGG
148546 ATAATTTG
260 ATAATTTG
148554 TTTCAAGAGA
Statistics
Matches: 229, Mismatches: 37, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
277 1 0.00
278 228 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (278 bp):
GGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTAACGCTGCTCCTACGTGATGAGAAGAT
ATAGTCAGTGGATGACACTATTCCTACGTGATGAGGACGTCTAGACATCTTTAGGGATAAATGGA
GATAACATGATTCCTACGCGATAAAGAAGTCTAGCTATCAAAGGATGACGCTGCTCCTACGTGAT
AAGGAGATCTGGTCGGAGGATGACACAGCTCCTACATGATGAAGACATTTAGCCATCTTTAGGGA
TAATTTGGGAGACAACAC
Found at i:148663 original size:21 final size:19
Alignment explanation
Indices: 148637--148684 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
148627 AGAAACTGTC
148637 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGAC-AAATTT-TT
*
148658 TCAAGATAGACAAATTTTT
1 TCAAGAGAGACAAATTTTT
*
148677 TTAAGAGA
1 TCAAGAGA
148685 AATAATCTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.33
20 6 0.25
21 10 0.42
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (19 bp):
TCAAGAGAGACAAATTTTT
Found at i:148697 original size:85 final size:86
Alignment explanation
Indices: 148583--148748 Score: 271
Period size: 85 Copynumber: 1.9 Consensus size: 86
148573 AAGCGAGATA
* *
148583 AAATTTATTTCAAGGGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 AAATTTATTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
148648 AAAATTTGTTTCAAGATAGAC
66 AAAACTTGTTTCAAGATAGAC
* * *
148669 AAATTT-TTTTAAGAGAAATAATCTCAAAGGTTTGTGTTTCAAGAGAAACTATCTCAAGAGAGAC
1 AAATTTATTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
148733 AAAACTTGTTTCAAGA
66 AAAACTTGTTTCAAGA
148749 GAAACAATCT
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
85 68 0.92
86 6 0.08
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (86 bp):
AAATTTATTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAACTTGTTTCAAGATAGAC
Found at i:148758 original size:66 final size:66
Alignment explanation
Indices: 148658--149081 Score: 579
Period size: 66 Copynumber: 6.5 Consensus size: 66
148648 AAAATTTGTT
* * * * * *
148658 TCAAGATAGACAA-ATTT-TTTTAAGAGAAATAATCTCAAAGGTTTGTGTTTCAAGAGAAACTAT
1 TCAAGAGAGACAACATTTGTTTCAAGAGAAACAATCTCAAAGTTTTATGTTTCAAGAGAAACTGT
148721 C
66 C
* * * * *
148722 TCAAGAGAGACAAAACTTGTTTCAAGAGAAACAATCTCGATGTTTTTATGTTTAAAGAGAAACTG
1 TCAAGAGAGACAACATTTGTTTCAAGAGAAACAATCTCAAAG-TTTTATGTTTCAAGAGAAACTG
148787 TC
65 TC
** * *
148789 TCAAGAGAGACAACATTTGTTTTGAGAGAAACATTCTCAAAGTTTTATGTTTCAAGAGAAATTGT
1 TCAAGAGAGACAACATTTGTTTCAAGAGAAACAATCTCAAAGTTTTATGTTTCAAGAGAAACTGT
148854 C
66 C
* * *
148855 TCAAGAGAGATAACATTTATTTCAAGAGAAACAATCTCAAAGTTTTATGTTTCAAGAGAAATTGT
1 TCAAGAGAGACAACATTTGTTTCAAGAGAAACAATCTCAAAGTTTTATGTTTCAAGAGAAACTGT
148920 C
66 C
*
148921 TCAAGAGAGACAACATTTGTTTC-A-A-AAACATTCTCAAAGTTTTATGTTTCAAGAGAAACTGT
1 TCAAGAGAGACAACATTTGTTTCAAGAGAAACAATCTCAAAGTTTTATGTTTCAAGAGAAACTGT
148983 C
66 C
* * *
148984 TCAAGAGAGACAACATTTGTTTCAAGAGAAACAGTCTCAAAGTTTTATGTTTCAAGAAAAACTAT
1 TCAAGAGAGACAACATTTGTTTCAAGAGAAACAATCTCAAAGTTTTATGTTTCAAGAGAAACTGT
149049 C
66 C
* *
149050 TCAAGAGAGACAAAACTTTGTTTTAAGAGAAA
1 TCAAGAGAGACAACA-TTTGTTTCAAGAGAAA
149082 TTGTCTCAAG
Statistics
Matches: 320, Mismatches: 33, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
63 59 0.18
64 14 0.04
65 5 0.02
66 172 0.54
67 70 0.22
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (66 bp):
TCAAGAGAGACAACATTTGTTTCAAGAGAAACAATCTCAAAGTTTTATGTTTCAAGAGAAACTGT
C
Found at i:148990 original size:129 final size:131
Alignment explanation
Indices: 148658--149081 Score: 584
Period size: 129 Copynumber: 3.2 Consensus size: 131
148648 AAAATTTGTT
* * * * * * * *
148658 TCAAGATAGACAA-ATTTTTTTAAGAGAAATAATCTCAAAGGTTTGTGTTTCAAGAGAAACTATC
1 TCAAGAGAGACAACATTTGTTTCAGAGAAACATTCTCAAAGTTTTATGTTTCAAGAGAAACTGTC
* * * * *
148722 TCAAGAGAGACAAAACTTGTTTCAAGAGAAACAATCTCGATGTTTTTATGTTTAAAGAGAAACTG
66 TCAAGAGAGACAACATTTGTTTCAAGAGAAACAATCTCAAAG-TTTTATGTTTCAAGAGAAACTG
148787 TC
130 TC
* *
148789 TCAAGAGAGACAACATTTGTTTTGAGAGAAACATTCTCAAAGTTTTATGTTTCAAGAGAAATTGT
1 TCAAGAGAGACAACATTTG-TTTCAGAGAAACATTCTCAAAGTTTTATGTTTCAAGAGAAACTGT
* * *
148854 CTCAAGAGAGATAACATTTATTTCAAGAGAAACAATCTCAAAGTTTTATGTTTCAAGAGAAATTG
65 CTCAAGAGAGACAACATTTGTTTCAAGAGAAACAATCTCAAAGTTTTATGTTTCAAGAGAAACTG
148919 TC
130 TC
148921 TCAAGAGAGACAACATTTGTTTCA-A-AAACATTCTCAAAGTTTTATGTTTCAAGAGAAACTGTC
1 TCAAGAGAGACAACATTTGTTTCAGAGAAACATTCTCAAAGTTTTATGTTTCAAGAGAAACTGTC
* * *
148984 TCAAGAGAGACAACATTTGTTTCAAGAGAAACAGTCTCAAAGTTTTATGTTTCAAGAAAAACTAT
66 TCAAGAGAGACAACATTTGTTTCAAGAGAAACAATCTCAAAGTTTTATGTTTCAAGAGAAACTGT
149049 C
131 C
* *
149050 TCAAGAGAGACAAAACTTTGTTTTAAGAGAAA
1 TCAAGAGAGACAACA-TTTG-TTTCAGAGAAA
149082 TTGTCTCAAG
Statistics
Matches: 260, Mismatches: 27, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
129 111 0.43
130 5 0.02
131 20 0.08
132 46 0.18
133 78 0.30
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (131 bp):
TCAAGAGAGACAACATTTGTTTCAGAGAAACATTCTCAAAGTTTTATGTTTCAAGAGAAACTGTC
TCAAGAGAGACAACATTTGTTTCAAGAGAAACAATCTCAAAGTTTTATGTTTCAAGAGAAACTGT
C
Found at i:149024 original size:195 final size:197
Alignment explanation
Indices: 148648--149081 Score: 588
Period size: 195 Copynumber: 2.2 Consensus size: 197
148638 CAAGAGAGAC
* * * * * *
148648 AAAATTTGTTTCAAGATAGACAAATTTTTTTAAGAGAAATAATCTCAAAGGTTTGTGTTTCAAGA
1 AAAAATTGTCTCAAGAGAGACAAATTTTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGA
* *
148713 GAAACTATCTCAAGAGAGACAAAACTTGTTTCAAGAGAAACAATCTCGATGTTTTTATGTTTAAA
66 GAAACTATCTCAAGAGAGACAAAACTTGTTTCAAGAGAAACAATCTCAAAGTTTTTATGTTTAAA
** *
148778 GAGAAACTGTCTCAAGAGAGACAACATTTGTTTTGAGAGAAACATTCTCAAAGTTTTATGTTTCA
131 GAGAAACTGTCTCAAGAGAGACAACATTTGTTTCAAGAGAAACAGTCTCAAAGTTTTATGTTTCA
148843 AG
196 AG
* * *
148845 AGAAATTGTCTCAAGAGAGATAACATTTATTTCAAGAGAAACAATCTCAAAGTTTTATGTTTCAA
1 AAAAATTGTCTCAAGAGAGACAA-ATTT-TTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAA
* * * * * *
148910 GAGAAATTGTCTCAAGAGAGACAACATTTGTTTC-A-A-AAACATTCTCAAAG-TTTTATGTTTC
64 GAGAAACTATCTCAAGAGAGACAAAACTTGTTTCAAGAGAAACAATCTCAAAGTTTTTATGTTTA
148971 AAGAGAAACTGTCTCAAGAGAGACAACATTTGTTTCAAGAGAAACAGTCTCAAAGTTTTATGTTT
129 AAGAGAAACTGTCTCAAGAGAGACAACATTTGTTTCAAGAGAAACAGTCTCAAAGTTTTATGTTT
149036 CAAG
194 CAAG
* * *
149040 AAAAACTATCTCAAGAGAGACAAAACTTTGTTTTAAGAGAAA
1 AAAAATTGTCTCAAGAGAGAC-AAA-TTT-TTTCAAGAGAAA
149082 TTGTCTCAAG
Statistics
Matches: 207, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
195 94 0.45
196 27 0.13
197 19 0.09
198 5 0.02
199 62 0.30
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (197 bp):
AAAAATTGTCTCAAGAGAGACAAATTTTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGA
GAAACTATCTCAAGAGAGACAAAACTTGTTTCAAGAGAAACAATCTCAAAGTTTTTATGTTTAAA
GAGAAACTGTCTCAAGAGAGACAACATTTGTTTCAAGAGAAACAGTCTCAAAGTTTTATGTTTCA
AG
Found at i:149089 original size:37 final size:37
Alignment explanation
Indices: 149031--149146 Score: 119
Period size: 37 Copynumber: 3.1 Consensus size: 37
149021 CAAAGTTTTA
* *
149031 TGTTTCAAGAAAAACTA-TCTCAAGAGAGACAAAACTT
1 TGTTTTAAGAAAAAC-AGTCTCAAGCGAGACAAAACTT
* **
149068 TGTTTTAAGAGAAATTGTCTCAAGCGAGACAAAA-TT
1 TGTTTTAAGAAAAACAGTCTCAAGCGAGACAAAACTT
* * * *
149104 TATTTTTAAGAAAAACAGTCTCTAGCGAGACGACACTT
1 T-GTTTTAAGAAAAACAGTCTCAAGCGAGACAAAACTT
149142 TGTTT
1 TGTTT
149147 CGAAAGAAAC
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
36 3 0.05
37 57 0.90
38 3 0.05
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (37 bp):
TGTTTTAAGAAAAACAGTCTCAAGCGAGACAAAACTT
Found at i:151574 original size:17 final size:17
Alignment explanation
Indices: 151552--151590 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
151542 ATATGCAAGA
151552 ATGCCTAAATGAATGCC
1 ATGCCTAAATGAATGCC
151569 ATGCCTAAATGAATGCC
1 ATGCCTAAATGAATGCC
151586 ATGCC
1 ATGCC
151591 GAATGCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (17 bp):
ATGCCTAAATGAATGCC
Found at i:155568 original size:3 final size:3
Alignment explanation
Indices: 155560--155680 Score: 161
Period size: 3 Copynumber: 40.3 Consensus size: 3
155550 AAATGTTATA
* * ** *
155560 AAT AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT AGT AGC AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
155608 AGT AGT TAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
155656 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
155681 CTAAAAAAGT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 108 1.00
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:161973 original size:59 final size:59
Alignment explanation
Indices: 161898--162015 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
161888 TTGCAGCGTG
161898 ATCTTGTAAGAGATCTACGTGAGGTATGTGAGTTTTTTTTAGAGAACTTAAATGCTACA
1 ATCTTGTAAGAGATCTACGTGAGGTATGTGAGTTTTTTTTAGAGAACTTAAATGCTACA
161957 ATCTTGTAAGAGATCTACGTGAGGTATGTGAGTTTTTTTTAGAGAACTTAAATGCTACA
1 ATCTTGTAAGAGATCTACGTGAGGTATGTGAGTTTTTTTTAGAGAACTTAAATGCTACA
162016 CCCAGTATCT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (59 bp):
ATCTTGTAAGAGATCTACGTGAGGTATGTGAGTTTTTTTTAGAGAACTTAAATGCTACA
Found at i:177496 original size:38 final size:38
Alignment explanation
Indices: 177454--177529 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
177444 TTAAGTGGTG
177454 AAACCTTATATCAAATTTTCTATTGAAAA-TTCATAATT
1 AAACCTTATATCAAATTTTCTATT-AAAATTTCATAATT
177492 AAACCTTATATCAAATTTTCTATTAAAATTTCATAATT
1 AAACCTTATATCAAATTTTCTATTAAAATTTCATAATT
177530 CATAATGATA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 4 0.11
38 33 0.89
ACGTcount: A:0.42, C:0.13, G:0.01, T:0.43
Consensus pattern (38 bp):
AAACCTTATATCAAATTTTCTATTAAAATTTCATAATT
Found at i:177641 original size:13 final size:13
Alignment explanation
Indices: 177623--177650 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
177613 CGTCTTTCGG
177623 TTGGGCCTCGGAA
1 TTGGGCCTCGGAA
177636 TTGGGCCTCGGAA
1 TTGGGCCTCGGAA
177649 TT
1 TT
177651 AGGTTTCGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.36, T:0.29
Consensus pattern (13 bp):
TTGGGCCTCGGAA
Found at i:179163 original size:17 final size:18
Alignment explanation
Indices: 179141--179174 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
179131 TCAATTGGTC
179141 CGGTTC-GAACGGTTCAG
1 CGGTTCTGAACGGTTCAG
*
179158 CGGTTCTGACCGGTTCA
1 CGGTTCTGAACGGTTCA
179175 CTAATAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.26, G:0.32, T:0.26
Consensus pattern (18 bp):
CGGTTCTGAACGGTTCAG
Found at i:180802 original size:84 final size:83
Alignment explanation
Indices: 180659--180880 Score: 302
Period size: 84 Copynumber: 2.6 Consensus size: 83
180649 GTCAGATAGT
* * * *
180659 CTATGCTGCAAAT-ATTGTGCCTTTGAGTTGAGTGTAATTGAACTTGAAGGTTTTTTGTTGGCAG
1 CTATGCTGCAAATGA-TGTGCC-TTGAGTTGAGTGTAATCGAACTCGAAGGTCTTGTGTTGGCAG
180723 ATAACCCTTCTAGCCTTGAG
64 ATAACCCTTCTAGCCTTGAG
* *
180743 TTATGCTGCAAATGATGTGCCTTAGAGCTGAGTGTAATCGAACTCGAAGGTCTTGTGTTGGCAGA
1 CTATGCTGCAAATGATGTGCCTT-GAGTTGAGTGTAATCGAACTCGAAGGTCTTGTGTTGGCAGA
**
180808 TAACCCTTCTTTCCTTGAG
65 TAACCCTTCTAGCCTTGAG
* * *
180827 CTATGCTGCAAATGATGTGCCGTTGAGTTGAGCGTAGTCGAACTCAAAGGTCTT
1 CTATGCTGCAAATGATGTGCC-TTGAGTTGAGTGTAATCGAACTCGAAGGTCTT
180881 TGGGTTTCAA
Statistics
Matches: 122, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
83 2 0.02
84 117 0.96
85 3 0.02
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (83 bp):
CTATGCTGCAAATGATGTGCCTTGAGTTGAGTGTAATCGAACTCGAAGGTCTTGTGTTGGCAGAT
AACCCTTCTAGCCTTGAG
Found at i:180965 original size:61 final size:66
Alignment explanation
Indices: 180870--181007 Score: 196
Period size: 61 Copynumber: 2.2 Consensus size: 66
180860 GTAGTCGAAC
*
180870 TCAAAGGTCTTTGGGTTTCAAGAGAAACACTTTCAAA-G-G-TTTT-T-TTTCAAGAGAAACAAT
1 TCAAAGGTTTTTGGGTTTCAAGAGAAACACTTTCAAAGGTGTTTTTGTGTTTCAAGAGAAACAAT
180930 T
66 T
* * *
180931 TCAAAGGTTTTTGTGTTTCAAGAGAAGCATTTTCAAAGGTGTTTTTTGTGTTTCAAGAGAAACAA
1 TCAAAGGTTTTTGGGTTTCAAGAGAAACACTTTCAAAGGTG-TTTTTGTGTTTCAAGAGAAACAA
180996 TT
65 TT
180998 TCAAAGGTTT
1 TCAAAGGTTT
181008 GTGTTGACAG
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
61 33 0.49
62 1 0.01
63 1 0.01
65 4 0.06
66 1 0.01
67 27 0.40
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (66 bp):
TCAAAGGTTTTTGGGTTTCAAGAGAAACACTTTCAAAGGTGTTTTTGTGTTTCAAGAGAAACAAT
T
Found at i:180984 original size:35 final size:32
Alignment explanation
Indices: 180870--181007 Score: 183
Period size: 32 Copynumber: 4.3 Consensus size: 32
180860 GTAGTCGAAC
* * *
180870 TCAAAGGTCTTTGGGTTTCAAGAGAAACACTT
1 TCAAAGGTTTTTGTGTTTCAAGAGAAACAATT
180902 TCAAAGG-TTTT-T-TTTCAAGAGAAACAATT
1 TCAAAGGTTTTTGTGTTTCAAGAGAAACAATT
* *
180931 TCAAAGGTTTTTGTGTTTCAAGAGAAGCATTT
1 TCAAAGGTTTTTGTGTTTCAAGAGAAACAATT
180963 TCAAAGGTGTTTTTTGTGTTTCAAGAGAAACAATT
1 TCAAA-G-G-TTTTTGTGTTTCAAGAGAAACAATT
180998 TCAAAGGTTT
1 TCAAAGGTTT
181008 GTGTTGACAG
Statistics
Matches: 93, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
29 23 0.25
30 4 0.04
31 4 0.04
32 30 0.32
33 2 0.02
34 2 0.02
35 28 0.30
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (32 bp):
TCAAAGGTTTTTGTGTTTCAAGAGAAACAATT
Found at i:181212 original size:84 final size:83
Alignment explanation
Indices: 181001--181877 Score: 823
Period size: 84 Copynumber: 10.6 Consensus size: 83
180991 AACAATTTCA
* * * * * * * *
181001 AAGGT-TTGTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGGA
1 AAGGTCTTG-GTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGA
**
181065 GCTGAGTATAATCGAACTCG
64 GCTGAGCGTAATCGAACTCG
** * * * * *
181085 GGGGAC-T--TTGACAGATAGCCCTTCTTGACTTGAGCTATGCTGCAAATGATGTGCCTTGGAGC
1 AAGGTCTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGC
*
181147 TGAGCGTAGTCGAACTCG
66 TGAGCGTAATCGAACTCG
* * * * *
181165 AAGGTCTTGGGTTGGTAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATATGCCCTCGGA
1 AAGGTCTT-GGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGA
* *
181230 GTTGAGTGTAATCGAACTCG
64 GCTGAGCGTAATCGAACTCG
** * * *
181250 GGGGTC-T--TTGGCAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAATGATGTGCCTTTGAGC
1 AAGGTCTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGC
* *
181312 TGAGTGTAATCGAACTCA
66 TGAGCGTAATCGAACTCG
* ** * * * * * * *
181330 AAAGTCTTTATTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCACTCGGAG
1 AAGGTCTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC-CTTGGAG
**
181395 CTGAGTATAATCGAACTCG
65 CTGAGCGTAATCGAACTCG
** * * *
181414 GGGGTC-T--TTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGC
1 AAGGTCTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGC
*
181476 TGAGCGTAGTCGAACTCG
66 TGAGCGTAATCGAACTCG
* *
181494 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAG
1 AAGGTC-TTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAG
*
181559 CTGAGCGTAGTCGAACTCG
65 CTGAGCGTAATCGAACTCG
* * * * * *
181578 AAGGTCTT--TTGGTCATAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTTG
1 AAGGTCTTGGTTGG-C--AGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTG
* * * *
181641 AACCTGAGTGTAATCAAACTCG
62 GAGCTGAGCGTAATCGAACTCG
* * * *
181663 AGGGTC-T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAAGATGTGCCTTGGAGT
1 AAGGTCTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGC
*
181725 TGAGCGTAATCGAACTTG
66 TGAGCGTAATCGAACTCG
* * * *
181743 AAGGTCTTTGGTTGGCAGATAACCCTTCTCTACTTAAGCTATGCTGCAAATGATATGTCTTTGAG
1 AAGGTC-TTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAG
*
181808 CTGAGCGTAGTCGAACTCG
65 CTGAGCGTAATCGAACTCG
* ** * * *
181827 AAGGTATTTATTGGCAGATAACCCTTCTAG-CATTGAGTTATGCTGCAAATG
1 AAGGTCTTGGTTGGCAGATAACCCTTCTCGAC-TTAAGCTATGCTGCAAATG
181878 TTGTCTTAAA
Statistics
Matches: 651, Mismatches: 119, Indels: 47
0.80 0.15 0.06
Matches are distributed among these distances:
80 104 0.16
81 157 0.24
82 4 0.01
83 80 0.12
84 252 0.39
85 54 0.08
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (83 bp):
AAGGTCTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGC
TGAGCGTAATCGAACTCG
Found at i:181292 original size:165 final size:164
Alignment explanation
Indices: 181015--181877 Score: 955
Period size: 165 Copynumber: 5.2 Consensus size: 164
181005 TTTGTGTTGA
* * * * *
181015 CAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGGAGCTGAGTATAATCGA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGGAGCTGAGTGTAATCGA
* * * *
181080 ACTCGGGGGACTTTGACAGATAGCCCTTCTTGACTTGAGCTATGCTGCAAATGATGTGCCTTGGA
66 ACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGA
*
181145 GCTGAGCGTAGTCGAACTCGAAGGTCTTGGGTTGG
131 GCTGAGCGTAGTCGAACTCGAAGGTCTT-GATTGG
* * * * *
181180 TAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATATGCCCTCGGAGTTGAGTGTAATCGA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGGAGCTGAGTGTAATCGA
* *
181245 ACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAATGATGTGCCTTTGA
66 ACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGA
* * * * * *
181310 GCTGAGTGTAATCGAACTCAAAAGTCTTTATTGA
131 GCTGAGCGTAGTCGAACTCGAAGGTCTTGATTGG
* * * * *
181344 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCACTCGGAGCTGAGTATAATCGA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGGAGCTGAGTGTAATCGA
* *
181409 ACTCGGGGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGA
66 ACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGA
*
181474 GCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGG
131 GCTGAGCGTAGTCGAACTCGAAGGTC-TTGATTGG
* * * * *
181509 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGGAGCTGAGTGTAATCGA
** * * * * * * *
181573 ACTCGAAGGTCTTTTGGTCATAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCC
66 ACTCGGGGGTC-TTTGG-C--AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CC
* * * * * *
181638 TTGAACCTGAGTGTAATCAAACTCGAGGGTC-T--TTGG
126 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGATTGG
* * * * * * *
181674 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAAGATGTG-CCTTGGAGTTGAGCGTAATCGA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGGAGCTGAGTGTAATCGA
* ** * * * *
181738 ACTTGAAGGTCTTTGGTTGGCAGATAACCCTTCTCTACTTAAGCTATGCTGCAAATGATATGTCT
66 ACTCGGGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
* * *
181803 TTGAGCTGAGCGTAGTCGAACTCGAAGGTATTTATTGG
127 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGATTGG
*
181841 CAGATAACCCTTCTAG-CATTGAGTTATGCTGCAAATG
1 CAGATAACCCTTCTAGAC-TTAAGTTATGCTGCAAATG
181878 TTGTCTTAAA
Statistics
Matches: 585, Mismatches: 100, Indels: 24
0.83 0.14 0.03
Matches are distributed among these distances:
164 191 0.33
165 290 0.50
166 4 0.01
167 36 0.06
168 37 0.06
169 27 0.05
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (164 bp):
CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGGAGCTGAGTGTAATCGA
ACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGA
GCTGAGCGTAGTCGAACTCGAAGGTCTTGATTGG
Found at i:181634 original size:249 final size:246
Alignment explanation
Indices: 181005--181877 Score: 1006
Period size: 249 Copynumber: 3.5 Consensus size: 246
180995 ATTTCAAAGG
* * * * * * * * *
181005 TTTGTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGGAGCTGA
1 TTTG-GTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATG-CCTTGGAGCTGA
** ** * * * * *
181070 GTATAATCGAACTCGGGGGAC-TTTG-ACAGATAGCCCTTCTTGACTTGAGCTATGCTGCAAATG
64 GCGTAATCGAACTCGAAGGTCTTTTGCACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATG
* * * * *
181133 ATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGGTTGGTAGATAACCCTTCTCGAC
129 ATGTGCCTTGGAGCTGAGTGTAATCGAACTCGAGGGTC-T---TTGGCAGATAGCCCTTCTCGAC
* * * * **
181198 TTAAGTTATACTGCAAATGATATGCCCTCGGAGTTGAGTGTAATCGAACTCGGGGGTC
190 TTAAGCTATGCTGCAAATGATATG-CCTTGGAGTTGAGCGTAATCGAACTCGAAGGTC
* * * * *
181256 --T--TTGGCAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAATGATGTGCCTTTGAGCTGAGT
1 TTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGC
* * *
181317 GTAATCGAACTCAAAAGTCTTTATTG-ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
66 GTAATCGAACTCGAAGGTC-TT-TTGCACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATG
* * * *
181381 ATGTGCACTCGGAGCTGAGTATAATCGAACTCGGGGGTCTTTAGCAGATAGCCCTTCTCGACTTA
129 ATGTGC-CTTGGAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTA
* *
181446 AGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
193 AGCTATGCTGCAAATGATATGCCTTGGAGTTGAGCGTAATCGAACTCGAAGGTC
*
181500 TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGC
1 TTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGC
* * * *
181565 GTAGTCGAACTCGAAGGTCTTTTGGTCATAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATG
66 GTAATCGAACTCGAAGGTCTTTT-G-CACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATG
* * *
181630 ATGTGCCCTTGAACCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTA
129 ATGTG-CCTTGGAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTA
* * *
181695 AGCTATGCTGCAAAAGATGTGCCTTGGAGTTGAGCGTAATCGAACTTGAAGGTC
193 AGCTATGCTGCAAATGATATGCCTTGGAGTTGAGCGTAATCGAACTCGAAGGTC
* * *
181749 TTTGGTTGGCAGATAACCCTTCTCTACTTAAGCTATGCTGCAAATGATATGTCTTTGAGCTGAGC
1 TTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGC
* * * *
181814 GTAGTCGAACTCGAAGGTATTTATTG-GCAGATAACCCTTCTAGCATTGAGTTATGCTGCAAATG
66 GTAATCGAACTCGAAGGT-CTT-TTGCACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATG
181878 TTGTCTTAAA
Statistics
Matches: 536, Mismatches: 72, Indels: 31
0.84 0.11 0.05
Matches are distributed among these distances:
244 27 0.05
245 66 0.12
246 40 0.07
247 4 0.01
248 146 0.27
249 247 0.46
250 4 0.01
251 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (246 bp):
TTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGC
GTAATCGAACTCGAAGGTCTTTTGCACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
GTGCCTTGGAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGC
TATGCTGCAAATGATATGCCTTGGAGTTGAGCGTAATCGAACTCGAAGGTC
Found at i:186768 original size:20 final size:19
Alignment explanation
Indices: 186731--186791 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 19
186721 GTATCGATCC
*
186731 AAAATGAT-ATACCAGGTAA
1 AAAATGATAAAACC-GGTAA
186750 AAATATGATAAAACCGGTAA
1 AAA-ATGATAAAACCGGTAA
186770 CAAAATGATAAAACCGGTAA
1 -AAAATGATAAAACCGGTAA
186790 AA
1 AA
186792 CGTTACCGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
19 5 0.13
20 26 0.68
21 7 0.18
ACGTcount: A:0.56, C:0.11, G:0.15, T:0.18
Consensus pattern (19 bp):
AAAATGATAAAACCGGTAA
Found at i:186868 original size:181 final size:182
Alignment explanation
Indices: 186533--187005 Score: 687
Period size: 181 Copynumber: 2.6 Consensus size: 182
186523 GATCCAAATT
* * * * * ** *
186533 AAAAATGTGTCGATCCAAAACGATATAACATGTAAAACTATGACAAAACCAGTATTGAAATGATG
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * *
186598 AAACCGATAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
186663 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * *
186715 AAAAATGTATCGATCCAAAATGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
186780 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
186844 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * *
186896 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGATATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
*
186961 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
187006 CGTAAGTACG
Statistics
Matches: 260, Mismatches: 31, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
181 167 0.64
182 93 0.36
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Done.