Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002356.1 Hibiscus syriacus cultivar Beakdansim tig00004810_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: 318585
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:171 original size:50 final size:51
Alignment explanation
Indices: 50--159 Score: 125
Period size: 51 Copynumber: 2.2 Consensus size: 51
40 AGTAAAGCAT
* * ** * *
50 GCCCCATGAACCGCGATATACACTGATTTGGCGCCACATGGAGTATAGCGC
1 GCCCCCTGACCCGCGATATACGGTGATTTGGCGCCACATGGAGTATAACAC
* *
101 GCTCCCTGCCCCGCGATATACGGTGATTTGGCGCCA-AGTGG-GTATAACAC
1 GCCCCCTGACCCGCGATATACGGTGATTTGGCGCCACA-TGGAGTATAACAC
151 GCCCCCTGA
1 GCCCCCTGA
160 TCTGCGCTAT
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
50 15 0.31
51 33 0.69
ACGTcount: A:0.22, C:0.32, G:0.26, T:0.20
Consensus pattern (51 bp):
GCCCCCTGACCCGCGATATACGGTGATTTGGCGCCACATGGAGTATAACAC
Found at i:636 original size:111 final size:111
Alignment explanation
Indices: 450--663 Score: 410
Period size: 111 Copynumber: 1.9 Consensus size: 111
440 ATATATCGCT
* *
450 ACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
1 ACACTTTACTGATACGGTAACATTTCAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAAT
515 TGATTTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
66 TGATTTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
561 ACACTTTACTGATACGGTAACATTTCAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAAT
1 ACACTTTACTGATACGGTAACATTTCAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAAT
626 TGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
664 TTTTTGTAAT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 101 1.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (111 bp):
ACACTTTACTGATACGGTAACATTTCAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAAT
TGATTTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
Found at i:2194 original size:18 final size:18
Alignment explanation
Indices: 2171--2205 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2161 CAGCAGCCAC
*
2171 CGTAGCCATTTATGATGT
1 CGTAGCCATATATGATGT
2189 CGTAGCCATATATGATG
1 CGTAGCCATATATGATG
2206 CCGCCATCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (18 bp):
CGTAGCCATATATGATGT
Found at i:9127 original size:26 final size:27
Alignment explanation
Indices: 9067--9127 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
9057 TAGGATACGC
* * *
9067 AAAATATAATCGTTAATAACCATTGCA
1 AAAATATAATCATTAATAAACAATGCA
*
9094 AAAATATAATCATT-ATAAACAATGCT
1 AAAATATAATCATTAATAAACAATGCA
*
9120 AAACTATA
1 AAAATATA
9128 TAATTTAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 16 0.55
27 13 0.45
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.30
Consensus pattern (27 bp):
AAAATATAATCATTAATAAACAATGCA
Found at i:9717 original size:35 final size:35
Alignment explanation
Indices: 9671--9738 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
9661 AATACAATCC
*
9671 TCAATTTTATTCTAAACCTCAAATTCTAAAATAAT
1 TCAATTATATTCTAAACCTCAAATTCTAAAATAAT
*
9706 TCAATTATATTCTAAACCTTAAATTCTAAAATA
1 TCAATTATATTCTAAACCTCAAATTCTAAAATA
9739 CTTTAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (35 bp):
TCAATTATATTCTAAACCTCAAATTCTAAAATAAT
Found at i:9786 original size:33 final size:34
Alignment explanation
Indices: 9743--9815 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 34
9733 AAAATACTTT
9743 AATTTAGGGTTTAGAA-TAATTAAAGTATTTTGG
1 AATTTAGGGTTTAGAAGTAATTAAAGTATTTTGG
* * *
9776 AATTTGGGGTTTAGAATGTAATTGAAGTGTTTTGG
1 AATTTAGGGTTTAGAA-GTAATTAAAGTATTTTGG
9811 AATTT
1 AATTT
9816 TGAATATGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 15 0.43
35 20 0.57
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.44
Consensus pattern (34 bp):
AATTTAGGGTTTAGAAGTAATTAAAGTATTTTGG
Found at i:17402 original size:17 final size:18
Alignment explanation
Indices: 17380--17417 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
17370 AATTAAATCT
* *
17380 AAAATTTATTTGAA-TTA
1 AAAATTAATTTAAACTTA
17397 AAAATTAATTTAAACTTA
1 AAAATTAATTTAAACTTA
17415 AAA
1 AAA
17418 CTGATCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (18 bp):
AAAATTAATTTAAACTTA
Found at i:17417 original size:18 final size:17
Alignment explanation
Indices: 17367--17417 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
17357 AGTTTAAATT
*
17367 TTAAATTAAATCT-AAAA
1 TTAATTTAAAT-TAAAAA
* *
17384 TTTATTTGAATTAAAAA
1 TTAATTTAAATTAAAAA
17401 TTAATTTAAACTTAAAA
1 TTAATTTAAA-TTAAAA
17418 CTGATCCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 1 0.04
17 20 0.74
18 6 0.22
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (17 bp):
TTAATTTAAATTAAAAA
Found at i:20870 original size:60 final size:60
Alignment explanation
Indices: 20802--20986 Score: 165
Period size: 60 Copynumber: 3.0 Consensus size: 60
20792 GTGTCATATG
* * ** * * *
20802 TCCCTAAACTATAATTATCATTTTAAATTGGTCCCTGAACTTTTTAATATTCCAATTTCA
1 TCCCTAAACTATAACTATCATTCTAAATTAATCCCTAAAATTTTGAATATTCCAATTTCA
* * * *
20862 TCCCTAAACTATGACTCTCATTCTAAATTAATCCTTAAAATTTTGAATATTCTAATTTCA
1 TCCCTAAACTATAACTATCATTCTAAATTAATCCCTAAAATTTTGAATATTCCAATTTCA
* ** * ** * *
20922 TCCCTAAACTATGACCCTC-TTTTAAACCAGTCCCCAAAAACTTCTTGAATATTCCAATTTCA
1 TCCCTAAACTATAACTATCATTCTAAATTAAT-CCCTAAAA-TT-TTGAATATTCCAATTTCA
20984 TCC
1 TCC
20987 TCAAATTCAT
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
59 8 0.08
60 73 0.71
61 2 0.02
62 20 0.19
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.39
Consensus pattern (60 bp):
TCCCTAAACTATAACTATCATTCTAAATTAATCCCTAAAATTTTGAATATTCCAATTTCA
Found at i:21216 original size:60 final size:60
Alignment explanation
Indices: 21125--21309 Score: 189
Period size: 60 Copynumber: 3.1 Consensus size: 60
21115 TGTATAGTTT
* * * * *
21125 GGGATGAAATTGGAATGTGCAAAAAGTTTGAGGGCCAATTTAGAATGAATGTCATATTTTG
1 GGGATGAAATTGAAATATTC-AAAAGTTTGAGGGCCAATTTAGAATGAATGTCATACTTTA
* * * * *
21186 GGGATGAAATTGAAATATTCAAAAGTTTGAGGACTAATTTAAAATG-ATAGTCACAGTTTA
1 GGGATGAAATTGAAATATTCAAAAGTTTGAGGGCCAATTTAGAATGAAT-GTCATACTTTA
* *
21246 GGGATGAAATTGGAAA-ATTTAAAAGTTT-AGGGACCAATTT-GAAATGATTGTCATACTTTA
1 GGGATGAAATT-GAAATATTCAAAAGTTTGAGGG-CCAATTTAG-AATGAATGTCATACTTTA
21306 GGGA
1 GGGA
21310 CATGTATGCA
Statistics
Matches: 103, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
59 5 0.05
60 76 0.74
61 22 0.21
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.31
Consensus pattern (60 bp):
GGGATGAAATTGAAATATTCAAAAGTTTGAGGGCCAATTTAGAATGAATGTCATACTTTA
Found at i:22619 original size:2 final size:2
Alignment explanation
Indices: 22614--22642 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22604 TCACACACAC
22614 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22643 ATAATAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25123 original size:21 final size:22
Alignment explanation
Indices: 25097--25139 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
25087 TTGAACAATG
25097 GTACCGATACCC-TGCTACAGT
1 GTACCGATACCCTTGCTACAGT
25118 GTACCGATACCCTTGCTACAGT
1 GTACCGATACCCTTGCTACAGT
25140 AACTTTCGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.26
Consensus pattern (22 bp):
GTACCGATACCCTTGCTACAGT
Found at i:25350 original size:13 final size:13
Alignment explanation
Indices: 25332--25357 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25322 TTTGTTTTTA
25332 GGTAAGAAGAAAC
1 GGTAAGAAGAAAC
25345 GGTAAGAAGAAAC
1 GGTAAGAAGAAAC
25358 TGACATGTCT
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:0.54, C:0.08, G:0.31, T:0.08
Consensus pattern (13 bp):
GGTAAGAAGAAAC
Found at i:26039 original size:32 final size:32
Alignment explanation
Indices: 25920--26044 Score: 123
Period size: 31 Copynumber: 4.0 Consensus size: 32
25910 AACCTCGACA
* * *
25920 ACTGTCCAT-TGGTCCTGAAGAACCTAGGTAA-
1 ACTGTCCATATGTTCC-GTAGAACATAGGTAAT
*
25951 ACTGTCCATATGTTCCTTAGAACATAGGT-AT
1 ACTGTCCATATGTTCCGTAGAACATAGGTAAT
* * * *
25982 ACTATCAATATGTCCCG-AAAGACATAGGTAAT
1 ACTGTCCATATGTTCCGTAGA-ACATAGGTAAT
*
26014 TCTGTCCATATGTTCCGTAGAACATAGGTAA
1 ACTGTCCATATGTTCCGTAGAACATAGGTAA
26045 ACCCTCGACT
Statistics
Matches: 75, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
30 3 0.04
31 40 0.53
32 30 0.40
33 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (32 bp):
ACTGTCCATATGTTCCGTAGAACATAGGTAAT
Found at i:28596 original size:30 final size:30
Alignment explanation
Indices: 28540--28692 Score: 263
Period size: 30 Copynumber: 5.1 Consensus size: 30
28530 GAAGGACCTA
* * *
28540 TCCAGAGGTCACAAAGA-CCCCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
28569 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
28599 TCCAGAGGTCATAAAAATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
28629 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
28659 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
28689 TCCA
1 TCCA
28693 TATGTTCCTT
Statistics
Matches: 118, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
29 16 0.14
30 102 0.86
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:28723 original size:31 final size:30
Alignment explanation
Indices: 28681--28778 Score: 117
Period size: 31 Copynumber: 3.2 Consensus size: 30
28671 AAAGATCCTC
*
28681 GGTAACTGTCCATATGTTCCTTAGAACATA
1 GGTAACTGTCCATATGTTCCATAGAACATA
* *
28711 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTA-ACTGTCCATATGT-TCCATAGAACATA
*
28742 GGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGT--AACTGTCCATATGTTCCATAGAACATA
28774 GGTAA
1 GGTAA
28779 ACCCTCGACT
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
30 6 0.11
31 25 0.44
32 25 0.44
33 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (30 bp):
GGTAACTGTCCATATGTTCCATAGAACATA
Found at i:29728 original size:21 final size:21
Alignment explanation
Indices: 29698--29742 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
29688 ATTCTGTCGT
* *
29698 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
29719 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
29740 TTG
1 TTG
29743 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:30904 original size:29 final size:29
Alignment explanation
Indices: 30854--30914 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
30844 AAATTTTGTC
* * *
30854 TAGTGACTAAAATGTAATTTTTGAAAGTT
1 TAGTGACTAAAATATAAATTTTGAAAATT
* *
30883 TAGTGGCTAAAGTATAAATTTTGAAAATT
1 TAGTGACTAAAATATAAATTTTGAAAATT
30912 TAG
1 TAG
30915 GGATTAGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (29 bp):
TAGTGACTAAAATATAAATTTTGAAAATT
Found at i:31622 original size:18 final size:17
Alignment explanation
Indices: 31595--31630 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
31585 GATTTGATGA
*
31595 TTAGGGTTTTGAAGAGT
1 TTAGGGTTTTAAAGAGT
31612 TTAGTGGTTTTAAAGAGT
1 TTAG-GGTTTTAAAGAGT
31630 T
1 T
31631 GTTGAAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TTAGGGTTTTAAAGAGT
Found at i:33966 original size:145 final size:145
Alignment explanation
Indices: 33752--34041 Score: 580
Period size: 145 Copynumber: 2.0 Consensus size: 145
33742 CTATAACTAC
33752 TTTAGTTTATTTTACTTAGTTTAGTTTTATCAGTATTTATGCATGAAAATAACATATTATATTAT
1 TTTAGTTTATTTTACTTAGTTTAGTTTTATCAGTATTTATGCATGAAAATAACATATTATATTAT
33817 TATGTTATGAAAAGATTTCACGAAAAGACATTATTTCGTAAAATCACTGATTAACAAATGAATTT
66 TATGTTATGAAAAGATTTCACGAAAAGACATTATTTCGTAAAATCACTGATTAACAAATGAATTT
33882 ATTTTCCTACGACAA
131 ATTTTCCTACGACAA
33897 TTTAGTTTATTTTACTTAGTTTAGTTTTATCAGTATTTATGCATGAAAATAACATATTATATTAT
1 TTTAGTTTATTTTACTTAGTTTAGTTTTATCAGTATTTATGCATGAAAATAACATATTATATTAT
33962 TATGTTATGAAAAGATTTCACGAAAAGACATTATTTCGTAAAATCACTGATTAACAAATGAATTT
66 TATGTTATGAAAAGATTTCACGAAAAGACATTATTTCGTAAAATCACTGATTAACAAATGAATTT
34027 ATTTTCCTACGACAA
131 ATTTTCCTACGACAA
34042 AGTATTTATT
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 145 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.42
Consensus pattern (145 bp):
TTTAGTTTATTTTACTTAGTTTAGTTTTATCAGTATTTATGCATGAAAATAACATATTATATTAT
TATGTTATGAAAAGATTTCACGAAAAGACATTATTTCGTAAAATCACTGATTAACAAATGAATTT
ATTTTCCTACGACAA
Found at i:41899 original size:20 final size:20
Alignment explanation
Indices: 41805--42173 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
41795 GATTTTCCAT
* ** *
41805 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
41825 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
41845 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
41865 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
41885 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
41905 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
41925 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
41945 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
41965 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
41985 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
42005 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
42025 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
42045 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
42065 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
42085 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
42105 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
42125 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
42145 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
42165 AATCACAAC
1 AATCGCAAC
42174 ACTTAAATTT
Statistics
Matches: 305, Mismatches: 34, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.01
20 297 0.97
21 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:42895 original size:24 final size:24
Alignment explanation
Indices: 42856--42902 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
42846 AAATTTGGTC
42856 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
42880 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
42903 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:43094 original size:12 final size:12
Alignment explanation
Indices: 43077--43101 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43067 ATATAATCCT
43077 GAAGAAGAAAAA
1 GAAGAAGAAAAA
43089 GAAGAAGAAAAA
1 GAAGAAGAAAAA
43101 G
1 G
43102 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:44915 original size:33 final size:33
Alignment explanation
Indices: 44868--44938 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
44858 AATACTAACT
* *
44868 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
44901 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
44934 TGAAA
1 TGAAA
44939 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:45172 original size:22 final size:22
Alignment explanation
Indices: 45120--45174 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
45110 TGGTTGTGAG
**
45120 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
45142 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
45164 GGATTTCTTCG
1 GGATTTCTTCG
45175 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:45345 original size:20 final size:20
Alignment explanation
Indices: 45320--45512 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
45310 CTTTAAATAT
45320 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
45340 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
45362 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
45381 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
45401 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
45421 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
45441 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
45461 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
45481 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
45501 CGCGTTGCGATT
1 CGCGTTGCGATT
45513 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:45507 original size:60 final size:60
Alignment explanation
Indices: 45320--45512 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
45310 CTTTAAATAT
**
45320 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
45381 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
45441 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
45501 CGCGTTGCGATT
1 CGCGTTGCGATT
45513 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:45593 original size:20 final size:20
Alignment explanation
Indices: 45568--45619 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
45558 AAGAATCGCG
*
45568 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
45588 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
45608 TTGCGATTCTGG
1 TTGCGATTCTGG
45620 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:51611 original size:34 final size:34
Alignment explanation
Indices: 51547--51611 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
51537 ATTTGATTCA
* * * *
51547 TAAAATATAATGTTGTCTCTGAGAATATGATTAT
1 TAAAATATAATATTATCTCTAAGAAAATGATTAT
51581 TAAAATATAATATTATCT-TAAGAAAAATGAT
1 TAAAATATAATATTATCTCTAAG-AAAATGAT
51612 GACAGATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 3 0.12
34 23 0.88
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (34 bp):
TAAAATATAATATTATCTCTAAGAAAATGATTAT
Found at i:52971 original size:31 final size:31
Alignment explanation
Indices: 52936--53006 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
52926 TACCTATTTG
*
52936 AAAATTTTATT-ATTTAAATAATTAAAATTAA-
1 AAAATTTT-TTAATTTAAAT-AGTAAAATTAAT
* *
52967 AAAATATTTTTAATTTTAATAGTCAAATTAAT
1 AAAAT-TTTTTAATTTAAATAGTAAAATTAAT
52999 AAAATTTT
1 AAAATTTT
53007 CATTCACATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
31 19 0.56
32 15 0.44
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (31 bp):
AAAATTTTTTAATTTAAATAGTAAAATTAAT
Found at i:54773 original size:25 final size:28
Alignment explanation
Indices: 54712--54773 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 28
54702 TTATCCGTGT
54712 TTTATTTTTCAAAATCATACATATAATTA
1 TTTATTTTTCAAAAT-ATACATATAATTA
*
54741 TTTA-TTTT-AAAAT-TACATCTAA-TA
1 TTTATTTTTCAAAATATACATATAATTA
54765 TTTATTTTT
1 TTTATTTTT
54774 TTATTTCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 6 0.19
25 12 0.39
27 5 0.16
28 4 0.13
29 4 0.13
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (28 bp):
TTTATTTTTCAAAATATACATATAATTA
Found at i:55354 original size:16 final size:16
Alignment explanation
Indices: 55333--55415 Score: 62
Period size: 16 Copynumber: 5.0 Consensus size: 16
55323 AGATATTATT
*
55333 TTATTAAATTTTATAA
1 TTATTAAAATTTATAA
55349 TTATTAAAATTTATAAGA
1 TTATTAAAATTTAT-A-A
* **
55367 TAATTTTTAA-TTATAAA
1 TTA-TTAAAATTTAT-AA
55384 TTATTAAAAATTT-TAA
1 TTATT-AAAATTTATAA
*
55400 TTATTAAAAGTTATAA
1 TTATTAAAATTTATAA
55416 AATAATCATT
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
15 6 0.11
16 25 0.47
17 7 0.13
18 11 0.21
19 4 0.08
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TTATTAAAATTTATAA
Found at i:58828 original size:182 final size:182
Alignment explanation
Indices: 58291--58829 Score: 810
Period size: 182 Copynumber: 3.0 Consensus size: 182
58281 CGATACAAAT
* * * * * *
58291 TAAAAATGTATCGATCCATAGCAATATAACATGTAAAAATATGATAAAACCGGTGTC-ATTATGA
1 TAAAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTATCGA-AATGA
** * *
58355 TAAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATAAATTAATATAAGTGTCGACACT
65 TAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACT
* *
58420 TTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAGGTGTCAATACTTTA
130 TTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTA
* *
58473 TAAAAATGTGTCGATCTATAGCAATATAACAGGTAATAATATGACAAAACAGGTATCGAAATGAT
1 TAAAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTATCGAAATGAT
58538 AAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
66 AAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
* ** *
58603 TTGTAATTTAAAAGAGAAGAAGTTATAGTGGTTGAAAAGTGTCGATACTTTA
131 TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTA
* * * * *
58655 TACAAATGTATCGATCCATAGTAATATATCCGGTAATAATATGACAAAAGAGGTATCGAAATGAT
1 TAAAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTATCGAAATGAT
* * *
58720 AAAACCGGTAAAAAGATACCGGATATATTGAAAGTGCCGATAAATTAATATAAGTATCGACAGTT
66 AAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
* *
58785 TCGTAATTTAAAAGAGAAGAAATTATAGCGCCTAAAAAGTGTCGA
131 TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGA
58830 CCATACAAAT
Statistics
Matches: 322, Mismatches: 34, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
182 321 1.00
183 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.28
Consensus pattern (182 bp):
TAAAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTATCGAAATGAT
AAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTA
Found at i:60338 original size:198 final size:198
Alignment explanation
Indices: 59984--60418 Score: 524
Period size: 197 Copynumber: 2.2 Consensus size: 198
59974 AGATTTTGTG
* * *
59984 TCGATAAATATAATGTAATAGGTAATTTTCAATGTAACCGGTAGAAATATACCGGGTTCATGAGA
1 TCGATAATTATAATGTAATAGGTAATTTACAATGTAACCGGTAGAAATATACCGGGTTAATGAGA
* * * * *
60049 GAATAGGTCAACATAAAGTATCGATACTTTGTTTAATTTGTGTCGATACATTTTTTCAAAATGAA
66 GAATAGGTCAACATAAAGTATCGACACTCTGTTAAATATGTGTCGATACATTTTTTCAAAATAAA
*** *
60114 TGGCAAACGAGGTGTACGCATAAAGTGTCGATACATTTTTAAAA-AGTATCGATCCTCAAAACAT
131 ACACAAACGAGGTGCACGCATAAAGTGTCGATACA--TTTAAAATAGTATCGATCCTCAAAACAT
60178 CGAAA
194 CGAAA
* * *
60183 TCGATAATTATTATGTAACAGGTAAATTTACAATGTAACCGGTTA-AAATATACC-GGTTAATTA
1 TCGATAATTATAATGTAATAGGT-AATTTACAATGTAACCGG-TAGAAATATACCGGGTTAATGA
* *
60246 GCA-AATAGGT-ATACATTATGTATCGACACTCT-TTAAATATGTGTCGATAC-TTTTTTCCAAA
64 G-AGAATAGGTCA-ACATAAAGTATCGACACTCTGTTAAATATGTGTCGATACATTTTTT-CAAA
* * *
60307 ATAAAACACAAACGAGTTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCTGAAAA
126 ATAAAACACAAACGAGGTGCACGCATAAAGTGTCGATACATTTAAAATAGTATCGATCCTCAAAA
*
60372 TATCGAAA
191 CATCGAAA
* * * *
60380 CCGATATTTATAATCTAATAGGTCAATTTATAATGTAAC
1 TCGATAATTATAATGTAATAGGT-AATTTACAATGTAAC
60419 TGATTTAAAT
Statistics
Matches: 202, Mismatches: 28, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
196 7 0.03
197 60 0.30
198 55 0.27
199 51 0.25
200 27 0.13
201 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (198 bp):
TCGATAATTATAATGTAATAGGTAATTTACAATGTAACCGGTAGAAATATACCGGGTTAATGAGA
GAATAGGTCAACATAAAGTATCGACACTCTGTTAAATATGTGTCGATACATTTTTTCAAAATAAA
ACACAAACGAGGTGCACGCATAAAGTGTCGATACATTTAAAATAGTATCGATCCTCAAAACATCG
AAA
Found at i:60560 original size:87 final size:87
Alignment explanation
Indices: 60456--60616 Score: 277
Period size: 87 Copynumber: 1.9 Consensus size: 87
60446 AAATAGATCA
*
60456 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATTTGTTATTGTACTTAATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTAATAATATTT
60521 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
* * * *
60543 ATATAAGCGCTTCCTATTACATTATCTAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTAATAATATTT
60608 CCGGTTAAA
66 CCGGTTAAA
60617 GATATAACAT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTAATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:60590 original size:23 final size:23
Alignment explanation
Indices: 60540--60584 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
60530 TGCCTATTTT
* *
60540 ATTATATAAGCGCTTCCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
60563 ATTATCTAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
60585 TGTTATTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:64784 original size:2 final size:2
Alignment explanation
Indices: 64777--64802 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
64767 TTTTCAGTGC
64777 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
64803 TGTCAATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65529 original size:16 final size:16
Alignment explanation
Indices: 65508--65546 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
65498 GGTATTACCC
*
65508 GACCTGTTTTCAACCT
1 GACCTGTTATCAACCT
*
65524 GACCTGTTATGAACCT
1 GACCTGTTATCAACCT
65540 GACCTGT
1 GACCTGT
65547 AATTGACTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (16 bp):
GACCTGTTATCAACCT
Found at i:66531 original size:24 final size:24
Alignment explanation
Indices: 66504--66550 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
66494 AGTCAAAGGA
66504 AAAGATGTATT-AATAAACAATTTG
1 AAAGATGTATTAAAT-AACAATTTG
* *
66528 AAAGTTTTATTAAATAACAATTT
1 AAAGATGTATTAAATAACAATTT
66551 AGATTACCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (24 bp):
AAAGATGTATTAAATAACAATTTG
Found at i:69211 original size:20 final size:20
Alignment explanation
Indices: 69186--69233 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
69176 TTAATTGGGT
69186 TGCTCGAGTGATGTCGGGCG
1 TGCTCGAGTGATGTCGGGCG
69206 TGCTCGAGTGATGTCGGGCG
1 TGCTCGAGTGATGTCGGGCG
*
69226 TGCACGAG
1 TGCTCGAG
69234 CAGGGCGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.12, C:0.21, G:0.44, T:0.23
Consensus pattern (20 bp):
TGCTCGAGTGATGTCGGGCG
Found at i:69656 original size:61 final size:60
Alignment explanation
Indices: 69581--69716 Score: 193
Period size: 61 Copynumber: 2.2 Consensus size: 60
69571 TTCTAGTTTT
* *
69581 AAATTTGTTCAATTTAGTCCAAATTTAATAATT-CAATATATTAATTTAAGCTTCATATTTC
1 AAATTTGTTCAATTTAGTCCAAATTTAAT-ATTACAATATATTAA-TTAAACTTCATATTTA
* * * *
69642 AACTTTTTTCAATTTAGTCCAAATTTAATATTACAGTTTATTAATTAAACTTCATATTTA
1 AAATTTGTTCAATTTAGTCCAAATTTAATATTACAATATATTAATTAAACTTCATATTTA
69702 AAATTTGTTCAATTT
1 AAATTTGTTCAATTT
69717 GATCTTTATA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
60 30 0.45
61 36 0.55
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (60 bp):
AAATTTGTTCAATTTAGTCCAAATTTAATATTACAATATATTAATTAAACTTCATATTTA
Found at i:69855 original size:29 final size:29
Alignment explanation
Indices: 69823--69880 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
69813 ATAGTTTATA
*
69823 TATACTATATAGTT-CATATAAATATAAAT
1 TATACTATATA-TTAAATATAAATATAAAT
* *
69852 TATAGTATGTATTAAATATAAATATAAAT
1 TATACTATATATTAAATATAAATATAAAT
69881 ACAAATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.41
Consensus pattern (29 bp):
TATACTATATATTAAATATAAATATAAAT
Found at i:70136 original size:18 final size:18
Alignment explanation
Indices: 70124--70182 Score: 91
Period size: 18 Copynumber: 3.2 Consensus size: 18
70114 GTATATAGTT
70124 TATACATAATATATATATA
1 TATACAT-ATATATATATA
*
70143 TATATATATATATATATA
1 TATACATATATATATATA
*
70161 TATATATATATATATATA
1 TATACATATATATATATA
70179 TATA
1 TATA
70183 AACCATATAG
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
18 33 0.85
19 6 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TATACATATATATATATA
Found at i:70263 original size:2 final size:2
Alignment explanation
Indices: 70132--70253 Score: 108
Period size: 2 Copynumber: 60.5 Consensus size: 2
70122 TTTATACATA
70132 AT AT 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 AT AT
* * * * *
70174 AT AT AT AT AA ACC AT AT AGT -T AGT TT AT AT AT AC A- AT AC AT
1 AT AT AT AT AT A-T AT AT A-T AT A-T AT AT AT AT AT AT AT AT AT
* *
70215 AT ACT TT AT AT AT AT -T AT AT AGT TT AT AT -T AT AT AT AT A
1 AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A
70254 AACAATATAT
Statistics
Matches: 99, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
1 4 0.04
2 90 0.91
3 5 0.05
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:70320 original size:22 final size:21
Alignment explanation
Indices: 70287--70342 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 21
70277 ACCCTAACAC
70287 ATATATTCTATA-TATATAAACT
1 ATATATT-TATATTA-ATAAACT
70309 ATATACTTTATATTAATAAACT
1 ATATA-TTTATATTAATAAACT
70331 ATATAATTTATA
1 ATAT-ATTTATA
70343 CAATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
22 26 0.84
23 5 0.16
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATATTTATATTAATAAACT
Found at i:70421 original size:9 final size:10
Alignment explanation
Indices: 70345--70426 Score: 53
Period size: 11 Copynumber: 7.8 Consensus size: 10
70335 AATTTATACA
70345 ATATAT-ATT
1 ATATATAATT
*
70354 ATTTATAATT
1 ATATATAATT
*
70364 ATACATAATAT
1 ATATATAAT-T
70375 ATAAATATAAATT
1 AT--ATAT-AATT
*
70388 GTATAGT--TT
1 ATATA-TAATT
70397 ATATATAATT
1 ATATATAATT
70407 CATATATAATTT
1 -ATATATAA-TT
70419 ATATATAA
1 ATATATAA
70427 ACTATGCAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
8 1 0.02
9 11 0.19
10 12 0.21
11 22 0.39
12 3 0.05
13 5 0.09
14 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (10 bp):
ATATATAATT
Found at i:70424 original size:13 final size:11
Alignment explanation
Indices: 70389--70426 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
70379 ATATAAATTG
*
70389 TATAGTTTATA
1 TATAATTTATA
*
70400 TATAATTCATA
1 TATAATTTATA
70411 TATAATTTATA
1 TATAATTTATA
70422 TATAA
1 TATAA
70427 ACTATGCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:70506 original size:20 final size:19
Alignment explanation
Indices: 70474--70512 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
70464 AAACTATATA
70474 GTATTATAATTTATACATG
1 GTATTATAATTTATACATG
*
70493 GTATATATAGTTTATACATG
1 GTAT-TATAATTTATACATG
70513 TAACCCCTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.46
Consensus pattern (19 bp):
GTATTATAATTTATACATG
Found at i:71084 original size:2 final size:2
Alignment explanation
Indices: 71077--71105 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
71067 TTTTTAAAAC
71077 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71106 CCCCCATCCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:71240 original size:35 final size:35
Alignment explanation
Indices: 71167--71241 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
71157 CGTCACTAAC
**
71167 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
71202 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
71237 AGTAA
1 AGTAA
71242 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:71379 original size:23 final size:23
Alignment explanation
Indices: 71319--71393 Score: 105
Period size: 24 Copynumber: 3.2 Consensus size: 23
71309 CATAATTCAA
*
71319 GTCAAGTATCATATCAGAATCCAG
1 GTCAA-TATCAGATCAGAATCCAG
* *
71343 GTCATGTATCAGATCAGAATCCAT
1 GTCA-ATATCAGATCAGAATCCAG
71367 GTCAATATCAGATCAGAATCCAG
1 GTCAATATCAGATCAGAATCCAG
71390 GTCA
1 GTCA
71394 GGATCATAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 21 0.47
24 24 0.53
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (23 bp):
GTCAATATCAGATCAGAATCCAG
Found at i:71399 original size:23 final size:23
Alignment explanation
Indices: 71323--71408 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 23
71313 ATTCAAGTCA
*
71323 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
71346 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
71370 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
* * *
71393 AGGATCATAACAGAAT
1 AGTATCAGATCAGAAT
71409 TCAAGTCGGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
23 33 0.61
24 21 0.39
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.24
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:71426 original size:47 final size:47
Alignment explanation
Indices: 71302--71415 Score: 131
Period size: 47 Copynumber: 2.4 Consensus size: 47
71292 TATATCAAAA
* * * * *
71302 ATCAAAACATAATTCAAGTCAAGTATCATATCAGAATCCAGGTCATGT
1 ATCAGAACAGAATCCAAGTCAA-TATCAGATCAGAATCCAGGTCATGG
* *
71350 ATCAGATCAGAATCCATGTCAATATCAGATCAGAATCCAGGTCA-GG
1 ATCAGAACAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
* *
71396 ATCATAACAGAATTCAAGTC
1 ATCAGAACAGAATCCAAGTC
71416 GGAAATCAGA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
46 17 0.31
47 21 0.38
48 17 0.31
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (47 bp):
ATCAGAACAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
Found at i:72574 original size:18 final size:18
Alignment explanation
Indices: 72553--72588 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
72543 CTTCCATCCG
*
72553 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
72571 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
72589 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:73909 original size:15 final size:15
Alignment explanation
Indices: 73889--73917 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
73879 AACGCCAGTC
73889 AACGGTCAACGGGTA
1 AACGGTCAACGGGTA
73904 AACGGTCAACGGGT
1 AACGGTCAACGGGT
73918 CAATGGGTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.21, G:0.34, T:0.14
Consensus pattern (15 bp):
AACGGTCAACGGGTA
Found at i:73918 original size:8 final size:8
Alignment explanation
Indices: 73886--73939 Score: 55
Period size: 8 Copynumber: 7.4 Consensus size: 8
73876 GTCAACGCCA
73886 GTCAAC-G
1 GTCAACGG
73893 GTCAACGG
1 GTCAACGG
*
73901 GTAAAC-G
1 GTCAACGG
73908 GTCAACGG
1 GTCAACGG
*
73916 GTCAATGG
1 GTCAACGG
73924 GT---CGG
1 GTCAACGG
73929 GTCAACGG
1 GTCAACGG
73937 GTC
1 GTC
73940 GGGTCGGGTC
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
5 4 0.11
7 12 0.32
8 22 0.58
ACGTcount: A:0.24, C:0.22, G:0.37, T:0.17
Consensus pattern (8 bp):
GTCAACGG
Found at i:73931 original size:13 final size:13
Alignment explanation
Indices: 73913--73944 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
73903 AAACGGTCAA
*
73913 CGGGTCAATGGGT
1 CGGGTCAACGGGT
73926 CGGGTCAACGGGT
1 CGGGTCAACGGGT
73939 CGGGTC
1 CGGGTC
73945 GGGTCAACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.12, C:0.22, G:0.47, T:0.19
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:73945 original size:18 final size:18
Alignment explanation
Indices: 73907--73959 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
73897 ACGGGTAAAC
73907 GGTCAACGGGTCAATGGGTCG
1 GGTCAACGGGTC---GGGTCG
73928 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
73946 GGTCAACTGGTCGG
1 GGTCAACGGGTCGG
73960 ATAAACGGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 19 0.61
21 12 0.39
ACGTcount: A:0.15, C:0.21, G:0.45, T:0.19
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:73951 original size:31 final size:31
Alignment explanation
Indices: 73913--73974 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
73903 AAACGGTCAA
* *
73913 CGGGTCAA-TGGGTCGGGTCAACGGGTCGGGT
1 CGGGTCAACT-GGTCGGATAAACGGGTCGGGT
73944 CGGGTCAACTGGTCGGATAAACGGGTCGGGT
1 CGGGTCAACTGGTCGGATAAACGGGTCGGGT
73975 AAACTGGTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.16, C:0.19, G:0.45, T:0.19
Consensus pattern (31 bp):
CGGGTCAACTGGTCGGATAAACGGGTCGGGT
Found at i:73957 original size:13 final size:13
Alignment explanation
Indices: 73941--73987 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
73931 CAACGGGTCG
*
73941 GGTCGGGTCAACT
1 GGTCGGGTAAACT
* *
73954 GGTCGGATAAACG
1 GGTCGGGTAAACT
73967 GGTCGGGTAAACT
1 GGTCGGGTAAACT
73980 GGTCGGGT
1 GGTCGGGT
73988 CGGGTAGGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.19, C:0.17, G:0.43, T:0.21
Consensus pattern (13 bp):
GGTCGGGTAAACT
Found at i:74777 original size:2 final size:2
Alignment explanation
Indices: 74770--74837 Score: 52
Period size: 2 Copynumber: 33.5 Consensus size: 2
74760 ACAATACATA
* *
74770 AT AT AT AT AT AT AT AT AT AA ACT AT AT AGT -T AGT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT A-T AT AT AT AT
*
74812 AT A- AT AT AGT TT AT A- AT AT AT AT AT A
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT A
74838 AACTACATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
1 3 0.06
2 46 0.87
3 4 0.08
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:74812 original size:17 final size:19
Alignment explanation
Indices: 74767--74837 Score: 69
Period size: 18 Copynumber: 3.8 Consensus size: 19
74757 GTTACAATAC
*
74767 ATAATATATATATATA-TAT
1 ATAATATATA-ATATAGTTT
*
74786 ATAAACTATATAGT-TAGTTT
1 AT-AA-TATATAATATAGTTT
74806 AT-ATATATAATATAGTTT
1 ATAATATATAATATAGTTT
74824 ATAATATAT-ATATA
1 ATAATATATAATATA
74838 AACTACATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
17 7 0.16
18 14 0.32
19 10 0.23
20 7 0.16
21 6 0.14
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (19 bp):
ATAATATATAATATAGTTT
Found at i:74814 original size:19 final size:20
Alignment explanation
Indices: 74767--74837 Score: 80
Period size: 19 Copynumber: 3.7 Consensus size: 20
74757 GTTACAATAC
*
74767 ATAATATATATATATA-TAT
1 ATAATATATATATATAGTTT
74786 ATAA-ACTATATAGT-TAGTTT
1 ATAATA-TATATA-TATAGTTT
74806 AT-ATATATA-ATATAGTTT
1 ATAATATATATATATAGTTT
74824 ATAATATATATATA
1 ATAATATATATATA
74838 AACTACATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
17 1 0.02
18 10 0.23
19 24 0.55
20 9 0.20
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (20 bp):
ATAATATATATATATAGTTT
Found at i:74873 original size:14 final size:14
Alignment explanation
Indices: 74851--74896 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
74841 TACATATTTC
*
74851 TAAACCATAAACCT
1 TAAATCATAAACCT
74865 TAAATCATAAACCT
1 TAAATCATAAACCT
* * *
74879 TGAATCCTAAACCC
1 TAAATCATAAACCT
74893 TAAA
1 TAAA
74897 CCCTAACTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAATCATAAACCT
Found at i:74936 original size:20 final size:20
Alignment explanation
Indices: 74913--75211 Score: 128
Period size: 20 Copynumber: 15.2 Consensus size: 20
74903 CTCATATATA
74913 TTATATATATACTATATAGT
1 TTATATATATACTATATAGT
* * *
74933 TTATATTAATAAACTGTATAAT
1 TTATA-T-ATATACTATATAGT
*
74955 TTATACA-ATA-TATATTA-T
1 TTATATATATACTATA-TAGT
74973 TTATA-ATTATAC-ATA-A-T
1 TTATATA-TATACTATATAGT
* * * * *
74990 ATAAATATAAATTGTATAGT
1 TTATATATATACTATATAGT
*
75010 TTATATAT-T-CATATATAAT
1 TTATATATATAC-TATATAGT
* *
75029 TTATATATAAACTATTTAGT
1 TTATATATATACTATATAGT
* *
75049 TTCTATATAGTTC-A-ATAGT
1 TTATATATA-TACTATATAGT
* *
75068 TCATATATAAACTATATAGT
1 TTATATATATACTATATAGT
* *
75088 ATTATAGTTTATAC-ATGGTA-T
1 -TTATA-TATATACTAT-ATAGT
* * *
75109 ATATAGTTTATACATACATA-T
1 TTATA-TATATAC-TATATAGT
*
75130 ATATATATATA-TATATA-T
1 TTATATATATACTATATAGT
*
75148 ATATATATATA-TATATAGT
1 TTATATATATACTATATAGT
* *
75167 TTATATATATAATACATATACT
1 TTATATATATACT--ATATAGT
*
75189 TTATATATAAACTATATAGT
1 TTATATATATACTATATAGT
75209 TTA
1 TTA
75212 CATTGATCCC
Statistics
Matches: 212, Mismatches: 42, Indels: 50
0.70 0.14 0.16
Matches are distributed among these distances:
17 9 0.04
18 36 0.17
19 48 0.23
20 60 0.28
21 18 0.08
22 41 0.19
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (20 bp):
TTATATATATACTATATAGT
Found at i:74957 original size:22 final size:25
Alignment explanation
Indices: 74909--75034 Score: 72
Period size: 22 Copynumber: 5.2 Consensus size: 25
74899 CTAACTCATA
*
74909 TATATTATATATATACTATATAGTT
1 TATATTATATATATACTATATAATT
*
74934 TATATTA-ATA-A-ACTGTATAATT
1 TATATTATATATATACTATATAATT
** *
74956 TATACAATATATATTA-TTTATAA-T
1 TATATTATATATA-TACTATATAATT
* *
74980 TATA-CATA-ATATA-AATATAAATT
1 TATATTATATATATACTATAT-AATT
*
75003 GTATAGTT-TATATATTCATATATAATT
1 -TATA-TTATATATATAC-TATATAATT
75030 TATAT
1 TATAT
75035 ATAAACTATT
Statistics
Matches: 78, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
21 5 0.06
22 19 0.24
23 8 0.10
24 13 0.17
25 16 0.21
26 9 0.12
27 4 0.05
28 4 0.05
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.48
Consensus pattern (25 bp):
TATATTATATATATACTATATAATT
Found at i:75206 original size:2 final size:2
Alignment explanation
Indices: 75106--75197 Score: 96
Period size: 2 Copynumber: 45.0 Consensus size: 2
75096 TTATACATGG
* * *
75106 TA TA TA TA GTT TA TA CA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
75149 TA TA TA TA TA TA TA TA GTT TA TA TA TA TA -A TA CA TA TA CTT TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA
75192 TA TA TA
1 TA TA TA
75198 AACTATATAG
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
1 1 0.01
2 70 0.95
3 3 0.04
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:75623 original size:205 final size:206
Alignment explanation
Indices: 75214--75680 Score: 697
Period size: 205 Copynumber: 2.2 Consensus size: 206
75204 ATAGTTTACA
75214 TTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATT
1 TTGATCCCTCATCAA-GTGTGTTGTTTAATTTATTTAAA----T-TTT-T-A--TCATATTTATT
* * *
75279 CAATTTTATCCTCCAAATTTTATTTGCATCTGAAATTGACCCGTACTTATTACTTATTTCTATTT
56 CAATTTTATCCTCCAAATTTTATTTGCATATGAAATTGACCCATACTTATTACTTAATTCTATTT
* * *
75344 TTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATC
121 TTAAATTAGCCCATAACCTTTTAAATGGGTATAATTTAGTACTTTTTTATATTAATTTCAACATC
75409 ACAATTTAAAATTATTTCGAT
186 ACAATTTAAAATTATTTCGAT
*
75430 TTGATCCCTCATCAA-TGTGTTGTTTAATTTATTTAAATTTTTAT-ATATTTGTTCAA-TTTAGT
1 TTGATCCCTCATCAAGTGTGTTGTTTAATTTATTTAAATTTTTATCATATTTATTCAATTTTA-T
* *
75492 CCTCCAAATTTTATTTGCATATGAAATTGATCCATACTTATTACTTAATTCTATTTTTTTAATTA
65 CCTCCAAATTTTATTTGCATATGAAATTGACCCATACTTATTACTTAATTCTA-TTTTTAAATTA
* *
75557 GCCCATAACCTTTTAAATGGGTATAATTTAGTACTTTTTTATATTAATTTCAACCTCTCAATTTA
129 GCCCATAACCTTTTAAATGGGTATAATTTAGTACTTTTTTATATTAATTTCAACATCACAATTTA
75622 AAATTATTTCGAT
194 AAATTATTTCGAT
75635 TTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTTTTAT
1 TTGATCCCTCATCAA-GTGTGTTGTTTAATTTATTTAAATTTTTAT
75681 TTGTAATTTC
Statistics
Matches: 236, Mismatches: 11, Indels: 17
0.89 0.04 0.06
Matches are distributed among these distances:
203 4 0.02
204 61 0.26
205 99 0.42
207 30 0.13
208 1 0.00
209 3 0.01
210 1 0.00
214 22 0.09
216 15 0.06
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (206 bp):
TTGATCCCTCATCAAGTGTGTTGTTTAATTTATTTAAATTTTTATCATATTTATTCAATTTTATC
CTCCAAATTTTATTTGCATATGAAATTGACCCATACTTATTACTTAATTCTATTTTTAAATTAGC
CCATAACCTTTTAAATGGGTATAATTTAGTACTTTTTTATATTAATTTCAACATCACAATTTAAA
ATTATTTCGAT
Found at i:78141 original size:21 final size:23
Alignment explanation
Indices: 78068--78130 Score: 117
Period size: 23 Copynumber: 2.7 Consensus size: 23
78058 TCGAGGGTTT
*
78068 TATGTGGTTCTTCGGGACAAAAC
1 TATGTGGTCCTTCGGGACAAAAC
78091 TATGTGGTCCTTCGGGACAAAAC
1 TATGTGGTCCTTCGGGACAAAAC
78114 TATGTGGTCCTTCGGGA
1 TATGTGGTCCTTCGGGA
78131 GAAATATGTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (23 bp):
TATGTGGTCCTTCGGGACAAAAC
Found at i:85469 original size:16 final size:16
Alignment explanation
Indices: 85435--85470 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
85425 TTTGAATCTA
*
85435 TGAAGGAATTGGAACC
1 TGAAGGAATTGAAACC
*
85451 TGAAGGAATTGAAATC
1 TGAAGGAATTGAAACC
85467 TGAA
1 TGAA
85471 TCTGAAACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.08, G:0.28, T:0.22
Consensus pattern (16 bp):
TGAAGGAATTGAAACC
Found at i:86899 original size:25 final size:25
Alignment explanation
Indices: 86870--86948 Score: 158
Period size: 25 Copynumber: 3.2 Consensus size: 25
86860 TTTGGCTTAG
86870 TTTCAATCTTTCCTTTATTATTTTC
1 TTTCAATCTTTCCTTTATTATTTTC
86895 TTTCAATCTTTCCTTTATTATTTTC
1 TTTCAATCTTTCCTTTATTATTTTC
86920 TTTCAATCTTTCCTTTATTATTTTC
1 TTTCAATCTTTCCTTTATTATTTTC
86945 TTTC
1 TTTC
86949 TTTTCAATTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTCAATCTTTCCTTTATTATTTTC
Found at i:86944 original size:13 final size:13
Alignment explanation
Indices: 86878--86944 Score: 56
Period size: 13 Copynumber: 5.3 Consensus size: 13
86868 AGTTTCAATC
86878 TTTCCTTTATTAT
1 TTTCCTTTATTAT
86891 TTT-CTTTCA--AT
1 TTTCCTTT-ATTAT
86902 CTTTCCTTTATTAT
1 -TTTCCTTTATTAT
86916 TTT-CTTTCA--AT
1 TTTCCTTT-ATTAT
86927 CTTTCCTTTATTAT
1 -TTTCCTTTATTAT
86941 TTTC
1 TTTC
86945 TTTCTTTTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 20
0.69 0.00 0.31
Matches are distributed among these distances:
11 4 0.09
12 16 0.36
13 20 0.45
14 4 0.09
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTCCTTTATTAT
Found at i:86947 original size:12 final size:12
Alignment explanation
Indices: 86882--86947 Score: 60
Period size: 12 Copynumber: 5.3 Consensus size: 12
86872 TCAATCTTTC
86882 CTTTATTATTTT
1 CTTTATTATTTT
* * *
86894 CTTTCAATCTTTC
1 CTTT-ATTATTTT
86907 CTTTATTATTTT
1 CTTTATTATTTT
* * *
86919 CTTTCAATCTTTC
1 CTTT-ATTATTTT
86932 CTTTATTATTTT
1 CTTTATTATTTT
86944 CTTT
1 CTTT
86948 CTTTTCAATT
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
12 22 0.55
13 18 0.45
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (12 bp):
CTTTATTATTTT
Found at i:86967 original size:50 final size:49
Alignment explanation
Indices: 86870--86972 Score: 129
Period size: 50 Copynumber: 2.1 Consensus size: 49
86860 TTTGGCTTAG
* * *
86870 TTTCAATCTTTCCTTTATTATTTTCTTTCAATCTTTCCTTTATTATTTTC
1 TTTCAATCTTTCCTTTATTATTTTCTTTC-ATCTTTCATTTACTATTTCC
86920 TTTCAATCTTTCCTTTATTATTTTCTTTC-T-TTTCAATTTAGCCTATTTCC
1 TTTCAATCTTTCCTTTATTATTTTCTTTCATCTTTC-ATTTA--CTATTTCC
86970 TTT
1 TTT
86973 ATATATATAC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
47 4 0.09
48 5 0.11
50 38 0.81
ACGTcount: A:0.16, C:0.20, G:0.01, T:0.63
Consensus pattern (49 bp):
TTTCAATCTTTCCTTTATTATTTTCTTTCATCTTTCATTTACTATTTCC
Found at i:93721 original size:20 final size:20
Alignment explanation
Indices: 93696--93743 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
93686 ATGAGAACCT
93696 GAAACCTGATCATGTTTTGA
1 GAAACCTGATCATGTTTTGA
93716 GAAACCTGATCATGTTTTGA
1 GAAACCTGATCATGTTTTGA
*
93736 GGAACCTG
1 GAAACCTG
93744 TTGCTGAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (20 bp):
GAAACCTGATCATGTTTTGA
Found at i:102411 original size:21 final size:21
Alignment explanation
Indices: 102385--102484 Score: 141
Period size: 21 Copynumber: 4.8 Consensus size: 21
102375 ACATAGAATT
*
102385 TGTCCCAAATGACCACATATA
1 TGTCCCAAATGACCACTTATA
*
102406 TGTCCCTAATGACCACTTATA
1 TGTCCCAAATGACCACTTATA
*
102427 TGTCCCAAAGGACCACTTATA
1 TGTCCCAAATGACCACTTATA
102448 TGTCCCGAAA-GACCAC-TATA
1 TGTCCC-AAATGACCACTTATA
*
102468 TGTCCCGAATGACCACT
1 TGTCCCAAATGACCACT
102485 CCTTAAGAAC
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
19 2 0.03
20 16 0.23
21 50 0.70
22 3 0.04
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (21 bp):
TGTCCCAAATGACCACTTATA
Found at i:102757 original size:24 final size:24
Alignment explanation
Indices: 102730--102778 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
102720 ACATGTTCAC
102730 ATAATCACATAGGCATATTATCAT
1 ATAATCACATAGGCATATTATCAT
102754 ATAATCACATAGGCATATTATCAT
1 ATAATCACATAGGCATATTATCAT
102778 A
1 A
102779 GCTCATGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (24 bp):
ATAATCACATAGGCATATTATCAT
Found at i:106909 original size:2 final size:2
Alignment explanation
Indices: 106902--106928 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
106892 TATCATTGAA
106902 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
106929 ATAAATTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:107391 original size:2 final size:2
Alignment explanation
Indices: 107384--107461 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
107374 TATTTGGATC
107384 AT AT 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 AT AT
107426 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
107462 TAAGGCAATG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110337 original size:35 final size:36
Alignment explanation
Indices: 110291--110361 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
110281 TATGTGCAGG
110291 GGGAACAGATTCCCCCT-GGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTGGGGGGGTATCGATTCCCC
*
110326 GGGAATAGATTCCCCCTGGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTGGGGGGGTATCGATTCCCC
110362 TCTAAATGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 16 0.47
36 18 0.53
ACGTcount: A:0.17, C:0.30, G:0.32, T:0.21
Consensus pattern (36 bp):
GGGAACAGATTCCCCCTGGGGGGGTATCGATTCCCC
Found at i:110810 original size:7 final size:6
Alignment explanation
Indices: 110780--110824 Score: 51
Period size: 5 Copynumber: 7.7 Consensus size: 6
110770 ATAAGCTATG
110780 TGAATA TGAA-A TGACATA TGAATA TGCAATA TG-ATA TG-ATA TGAA
1 TGAATA TGAATA TGA-ATA TGAATA TG-AATA TGAATA TGAATA TGAA
110825 ATATATGGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 14 0.40
6 11 0.31
7 10 0.29
ACGTcount: A:0.47, C:0.04, G:0.18, T:0.31
Consensus pattern (6 bp):
TGAATA
Found at i:110827 original size:17 final size:18
Alignment explanation
Indices: 110780--110828 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
110770 ATAAGCTATG
*
110780 TGAATATGAAATGA-CATA
1 TGAATATGAAAT-ATGATA
*
110798 TGAATATGCAATATGATA
1 TGAATATGAAATATGATA
110816 TG-ATATGAAATAT
1 TGAATATGAAATAT
110829 ATGGTTACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.47, C:0.04, G:0.16, T:0.33
Consensus pattern (18 bp):
TGAATATGAAATATGATA
Found at i:113267 original size:3 final size:3
Alignment explanation
Indices: 113259--113286 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
113249 ATTATATAGA
113259 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
113287 TATATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:115327 original size:18 final size:19
Alignment explanation
Indices: 115306--115348 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
115296 ATATACTATT
115306 TTTTAAATT-AATTTTAAA
1 TTTTAAATTGAATTTTAAA
*
115324 TTTT-TATTGAATTTTAAA
1 TTTTAAATTGAATTTTAAA
115342 TTATTAA
1 TT-TTAA
115349 TAAAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
17 3 0.15
18 15 0.75
19 2 0.10
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTTAAATTGAATTTTAAA
Found at i:126188 original size:37 final size:38
Alignment explanation
Indices: 126115--126188 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 38
126105 TTATATTTTT
*
126115 AATTTTGTAAAAAAAATTATATAAATATTATGAATTTA
1 AATTTTGTAAAAAAAATTATATAAATATTATCAATTTA
* *
126153 AATTTT-TAAAGAAAA-TATATAAATATTTTACAATTT
1 AATTTTGTAAAAAAAATTATATAAATATTAT-CAATTT
126189 GTAATATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 13 0.41
37 13 0.41
38 6 0.19
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (38 bp):
AATTTTGTAAAAAAAATTATATAAATATTATCAATTTA
Found at i:127449 original size:18 final size:18
Alignment explanation
Indices: 127426--127460 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
127416 ACTGAATATT
*
127426 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
127444 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
127461 GATAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:128063 original size:19 final size:19
Alignment explanation
Indices: 128039--128105 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
128029 CCTTAATATG
128039 TGCATCGATACACTATCTA
1 TGCATCGATACACTATCTA
** *
128058 TGCATCCCTTA-A-TA--TG
1 TGCAT-CGATACACTATCTA
128074 TGCATCGATACACTATCTA
1 TGCATCGATACACTATCTA
*
128093 TGCATCGGTACAC
1 TGCATCGATACAC
128106 AAATCGCATT
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
15 3 0.08
16 7 0.19
17 2 0.06
18 2 0.06
19 19 0.53
20 3 0.08
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (19 bp):
TGCATCGATACACTATCTA
Found at i:128068 original size:35 final size:35
Alignment explanation
Indices: 128017--128098 Score: 155
Period size: 35 Copynumber: 2.3 Consensus size: 35
128007 CTCTATAGTG
*
128017 TATCGATGCATCCCTTAATATGTGCATCGATACAC
1 TATCTATGCATCCCTTAATATGTGCATCGATACAC
128052 TATCTATGCATCCCTTAATATGTGCATCGATACAC
1 TATCTATGCATCCCTTAATATGTGCATCGATACAC
128087 TATCTATGCATC
1 TATCTATGCATC
128099 GGTACACAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (35 bp):
TATCTATGCATCCCTTAATATGTGCATCGATACAC
Found at i:131663 original size:32 final size:33
Alignment explanation
Indices: 131617--131699 Score: 102
Period size: 31 Copynumber: 2.6 Consensus size: 33
131607 AAGATTCATG
**
131617 ATTTATTTTTAAAAAAATTGTAAAATTTAGGAT-T
1 ATTT-TTTTTAAAAAAATTGT-AAATTTAAAATGT
131651 -TTTTTTTTAAAAAAA-T-TAAATTTAAAATGT
1 ATTTTTTTTAAAAAAATTGTAAATTTAAAATGT
131681 ATTTTTTTTAAAAAAATTG
1 ATTTTTTTTAAAAAAATTG
131700 AATATTAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
29 9 0.21
30 2 0.05
31 16 0.37
32 13 0.30
33 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (33 bp):
ATTTTTTTTAAAAAAATTGTAAATTTAAAATGT
Found at i:140712 original size:16 final size:16
Alignment explanation
Indices: 140691--140724 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
140681 TAAAACAAAC
*
140691 AATAAAAAAATAAGAT
1 AATAAAAAAATAAAAT
*
140707 AATAAACAAATAAAAT
1 AATAAAAAAATAAAAT
140723 AA
1 AA
140725 AAATAGACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (16 bp):
AATAAAAAAATAAAAT
Found at i:140726 original size:27 final size:28
Alignment explanation
Indices: 140671--140744 Score: 79
Period size: 27 Copynumber: 2.8 Consensus size: 28
140661 AAACAAGAAG
*
140671 TAAAAA-AAGAT-A-AAACAAACAATAA
1 TAAAAATAAGATAATAAACAAATAATAA
140696 -AAAAATAAGATAATAAACAAATAA-AA
1 TAAAAATAAGATAATAAACAAATAATAA
*
140722 TAAAAAT-AGACAAATAAACAAAT
1 TAAAAATAAGA-TAATAAACAAAT
140745 TAGAAAAACC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
24 5 0.12
25 5 0.12
26 6 0.14
27 26 0.62
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (28 bp):
TAAAAATAAGATAATAAACAAATAATAA
Found at i:141040 original size:2 final size:2
Alignment explanation
Indices: 141033--141067 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
141023 AAACATGTAA
141033 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
141068 CTATTAGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:141234 original size:18 final size:18
Alignment explanation
Indices: 141201--141268 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
141191 TACATACATA
141201 AATAAGTAAAAA-AATAGT
1 AATAA-TAAAAATAATAGT
*
141219 AATAATAGAAATAATAAG-
1 AATAATAAAAATAAT-AGT
* * * *
141237 GATAATATAAAGAATAAT
1 AATAATAAAAATAATAGT
141255 AATAATAAAAATAA
1 AATAATAAAAATAA
141269 AAATGGTAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
17 6 0.15
18 31 0.79
19 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (18 bp):
AATAATAAAAATAATAGT
Found at i:141366 original size:2 final size:2
Alignment explanation
Indices: 141302--141349 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
141292 AAATAAGTAA
*
141302 AT AT AT AT AT AT AT AT AT AC AT AT A- AT A- AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
141341 AT AT AT AT A
1 AT AT AT AT A
141350 ATAAAACGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
1 3 0.07
2 38 0.93
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:141366 original size:23 final size:23
Alignment explanation
Indices: 141301--141353 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 23
141291 GAAATAAGTA
141301 AATATATATATATATATATACATAT
1 AATA-ATA-ATATATATATACATAT
*
141326 AATAATAATATATATATATATAT
1 AATAATAATATATATATACATAT
141349 AATAA
1 AATAA
141354 AACGTAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 20 0.74
24 3 0.11
25 4 0.15
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AATAATAATATATATATACATAT
Found at i:143162 original size:105 final size:104
Alignment explanation
Indices: 143040--143695 Score: 1032
Period size: 105 Copynumber: 6.4 Consensus size: 104
143030 GTATTGTTCC
143040 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAA-TTGAGAAATGTTTGTTGACAAC
*
143105 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
143145 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-AAATTGAGAAATGTTTGTTGACAAC
*
143210 CAGCGGTCCCTTCGTCGTTAAGTTGAACTTGCGTTGTCTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
143250 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-AAATTGAGAAATGTTTGTTGACAAC
143315 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
143355 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGC-C----CTGA-AATTGTTTATTGACAACC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAATTGAGAAATGTTTGTTGACAACC
143414 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
143453 GAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGCCCTGAAATT--G---T-TTAT-TTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-AAATTGAGAAATGTT-TGTTGACAA
* *
143511 TCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
143552 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTCTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-AAATTGAGAAATGTTTGTTGACAAC
*
143617 CAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
143657 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
143696 GGGTAAAACC
Statistics
Matches: 515, Mismatches: 20, Indels: 32
0.91 0.04 0.06
Matches are distributed among these distances:
98 89 0.17
99 95 0.18
100 2 0.00
101 1 0.00
104 4 0.01
105 322 0.63
106 2 0.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (104 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAATTGAGAAATGTTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:143460 original size:98 final size:98
Alignment explanation
Indices: 143297--143690 Score: 637
Period size: 98 Copynumber: 3.9 Consensus size: 98
143287 CTGAATTTGA
*
143297 GAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
143361 AATATCCTTCGTTGTGAAGTTAAAATTGGCCCT
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCCCT
143394 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
143459 AATATCCTTCGTTGCGAAGTTGAAATTGGCCCT
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCCCT
* *
143492 GAAATTGTTTATTTGACAATCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTC
1 GAAATTGTTTA-TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
*
143557 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
65 CAATATCCTTCGTTGTGAAGTTGAAATTGGCCCT
* *
143591 GAAATTGAGAAATGTCTGTTGACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCT
1 GAAATT--G---T-T-TATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
143656 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
59 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
143691 ACTCTGGGTA
Statistics
Matches: 277, Mismatches: 11, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
97 4 0.01
98 101 0.36
99 89 0.32
101 1 0.00
104 1 0.00
105 80 0.29
106 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.34
Consensus pattern (98 bp):
GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
AATATCCTTCGTTGTGAAGTTGAAATTGGCCCT
Found at i:143649 original size:302 final size:308
Alignment explanation
Indices: 143040--143690 Score: 1055
Period size: 302 Copynumber: 2.1 Consensus size: 308
143030 GTATTGTTCC
* *
143040 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC---A-CTGAGAAATGTTTATTGACAAC
* *
143105 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
62 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGCGAAG
* * *
143170 TTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTTAAGTTG
127 TTGAAATTGGCCCTGAAATT-AG--ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
143235 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAA
189 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA
* *
143300 ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
254 ATGTCTGTTGACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTG
* *
143355 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGC-C-CTGA-AATTGTTTATTGACAACCAGC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCACTGAGAAATGTTTATTGACAACCAGC
143417 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGCGAAGTTGA
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGCGAAGTTGA
* *
143482 AATTGGCCCTGAAATT-G-T-TTAT-TTGACAATCAGCGGTCCCTTCGTTGTGAAGTTGAACTTG
131 AATTGGCCCTGAAATTAGATGTT-TGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
143543 CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTCT
195 CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTCT
143608 GTTGACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTG
260 GTTGACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTG
143657 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
143691 ACTCTGGGTA
Statistics
Matches: 320, Mismatches: 15, Indels: 15
0.91 0.04 0.04
Matches are distributed among these distances:
302 182 0.57
303 2 0.01
306 1 0.00
308 96 0.30
309 3 0.01
314 1 0.00
315 35 0.11
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (308 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCACTGAGAAATGTTTATTGACAACCAGC
GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGCGAAGTTGA
AATTGGCCCTGAAATTAGATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTCTG
TTGACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:144450 original size:21 final size:21
Alignment explanation
Indices: 144422--144465 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
144412 ACCCACCTTA
144422 TTTTCTCTTCTT-TTGTTCTT
1 TTTTCTCTTCTTCTTGTTCTT
* *
144442 TTTTCCTCTTTTTCTTTTTCTT
1 TTTT-CTCTTCTTCTTGTTCTT
144464 TT
1 TT
144466 CTCAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 7 0.35
22 9 0.45
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTCTCTTCTTCTTGTTCTT
Found at i:144558 original size:64 final size:67
Alignment explanation
Indices: 144436--144565 Score: 160
Period size: 64 Copynumber: 2.0 Consensus size: 67
144426 CTCTTCTTTT
* * * * *
144436 GTTCTTTTTTCCTCTTTTTCTTTTTCTTTTCTCAATTTAGGGCGCCCTTTCGGGTTTTCACCCTA
1 GTTCTTTTTT-CTCTTCTTCTTTTTCTTTTCTCAACTTAGGACACCCTCTCGGGTTTTCACCCTA
144501 AAC
65 AAC
*
144504 GTTCTTTTTT-TCTTCTTCTTCTTT-TTTT-T-AACTTAGGACACCCTCTCGGGTTTTCATCCTA
1 GTTCTTTTTTCTCTTCTTCTT-TTTCTTTTCTCAACTTAGGACACCCTCTCGGGTTTTCACCCTA
144565 A
65 A
144566 GCGAAGTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
64 28 0.51
65 1 0.02
66 13 0.24
67 3 0.05
68 10 0.18
ACGTcount: A:0.12, C:0.25, G:0.11, T:0.52
Consensus pattern (67 bp):
GTTCTTTTTTCTCTTCTTCTTTTTCTTTTCTCAACTTAGGACACCCTCTCGGGTTTTCACCCTAA
AC
Found at i:145167 original size:324 final size:324
Alignment explanation
Indices: 144578--145544 Score: 1620
Period size: 324 Copynumber: 3.0 Consensus size: 324
144568 GAAGTATTTC
144578 TTGACTGCGTCCGAGTTAATGGGATGTGGCAGTTCAGGTCCGTCCATTTCAGCCAGGATGAGGGC
1 TTGACTGCGTCCGAGTTAATGGGATGTGGCAGTTCAGGTCCGTCCATTTCAGCCAGGATGAGGGC
*
144643 TCTTCCGGAGAAAGCCTTTTTCACGACATAAGGTCCTTCCCAATTTGGCGTCCATTTTCCTCGGA
66 TCCTCCGGAGAAAGCCTTTTTCACGACATAAGGTCCTTCCCAATTTGGCGTCCATTTTCCTCGGA
144708 AATCTTTCCGGACTGGCCAAATTCTTTTTAGCACTAGATCCCCTTCGCGGAATATTCTCGGGCGC
131 AATCTTTCCGGACTGGCCAAATTCTTTTTAGCACTAGATCCCCTTCGCGGAATATTCTCGGGCGC
* *
144773 ACATTTTTGTCATGTGCCCGGATCATTCGTTTCTGATAGATTTGACCATGATGAATGGCTTTCAG
196 ACCTTTTTGTCATGTGCCCGAATCATTCGTTTCTGATAGATTTGACCATGATGAATGGCTTTCAG
144838 TCTTTTTTCCTCTATCAGATTAAGCTGATCATATCTGGATTGTACCCACTCTGCATCGTCTAGT
261 TCTTTTTTCCTCTATCAGATTAAGCTGATCATATCTGGATTGTACCCACTCTGCATCGTCTAGT
144902 TTGACTGCGTCCGAGTTAATGGGATGTGGCAGTTCAGGTCCGTCCATTTCAGCCAGGATGAGGGC
1 TTGACTGCGTCCGAGTTAATGGGATGTGGCAGTTCAGGTCCGTCCATTTCAGCCAGGATGAGGGC
*
144967 TCCTCTGGAGAAAGCCTTTTTCACGACATAAGGTCCTTCCCAATTTGGCGTCCATTTTCCTCGGA
66 TCCTCCGGAGAAAGCCTTTTTCACGACATAAGGTCCTTCCCAATTTGGCGTCCATTTTCCTCGGA
145032 AATCTTTCCGGACTGGCCAAATTCTTTTTAGCACTAGATCCCCTTCGCGGAATATTCTCGGGCGC
131 AATCTTTCCGGACTGGCCAAATTCTTTTTAGCACTAGATCCCCTTCGCGGAATATTCTCGGGCGC
145097 ACCTTTTTGTCATGTGCCCGAATCATTCGTTTCTGATAGATTTGACCATGATGAATGGCTTTCAG
196 ACCTTTTTGTCATGTGCCCGAATCATTCGTTTCTGATAGATTTGACCATGATGAATGGCTTTCAG
** * * * * * * * ** * * *
145162 TCTTTTTT-AACT-T-AG---GA-C--ACCCTCTC-GGGTT-TTCATC-CTAAGCGA-AGTAT-T
261 TCTTTTTTCCTCTATCAGATTAAGCTGATCATATCTGGATTGTAC-CCACTCTGC-ATCGTCTAG
145213 T
324 T
145214 CTTGACTGCGTCCGAGTTAATGGGATGTGGCAGTTCAGGTCCGTCCATTTCAGCCAGGATGAGGG
1 -TTGACTGCGTCCGAGTTAATGGGATGTGGCAGTTCAGGTCCGTCCATTTCAGCCAGGATGAGGG
145279 CTCCTCCGGAGAAAGCCTTTTTCACGACATAAGGTCCTTCCCAATTTGGCGTCCATTTTCCTCGG
65 CTCCTCCGGAGAAAGCCTTTTTCACGACATAAGGTCCTTCCCAATTTGGCGTCCATTTTCCTCGG
145344 AAATCTTTCCGGACTGGCCAAATTCTTTTTAGCACTAGATCCCCTTCGCGGAATATTCTCGGGCG
130 AAATCTTTCCGGACTGGCCAAATTCTTTTTAGCACTAGATCCCCTTCGCGGAATATTCTCGGGCG
*
145409 TACCTTTTTGTCATGTGCCCGAATCATTCGTTTCTGATAGATTTGACCATGATGAATGGCTTTCA
195 CACCTTTTTGTCATGTGCCCGAATCATTCGTTTCTGATAGATTTGACCATGATGAATGGCTTTCA
* *
145474 GTCTTTTTTCCTCTATCAGATTAAGCTGATCATATATGGTTTGTACCCACTCTGCATCGTCTAGT
260 GTCTTTTTTCCTCTATCAGATTAAGCTGATCATATCTGGATTGTACCCACTCTGCATCGTCTAGT
145539 TTGACT
1 TTGACT
145545 TCTGTCAAGA
Statistics
Matches: 591, Mismatches: 35, Indels: 34
0.90 0.05 0.05
Matches are distributed among these distances:
312 1 0.00
313 275 0.47
314 8 0.01
315 6 0.01
316 2 0.00
317 1 0.00
318 1 0.00
319 1 0.00
320 1 0.00
321 2 0.00
322 5 0.01
323 8 0.01
324 279 0.47
325 1 0.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.34
Consensus pattern (324 bp):
TTGACTGCGTCCGAGTTAATGGGATGTGGCAGTTCAGGTCCGTCCATTTCAGCCAGGATGAGGGC
TCCTCCGGAGAAAGCCTTTTTCACGACATAAGGTCCTTCCCAATTTGGCGTCCATTTTCCTCGGA
AATCTTTCCGGACTGGCCAAATTCTTTTTAGCACTAGATCCCCTTCGCGGAATATTCTCGGGCGC
ACCTTTTTGTCATGTGCCCGAATCATTCGTTTCTGATAGATTTGACCATGATGAATGGCTTTCAG
TCTTTTTTCCTCTATCAGATTAAGCTGATCATATCTGGATTGTACCCACTCTGCATCGTCTAGT
Found at i:145416 original size:313 final size:313
Alignment explanation
Indices: 144527--145482 Score: 1594
Period size: 313 Copynumber: 3.0 Consensus size: 313
144517 TCTTCTTCTT
144527 TTTTTTAACTTAGGACACCCTCTCGGGTTTTCATCCTAAGCGAAGTATTTCTTGACTGCGTCCGA
1 TTTTTTAACTTAGGACACCCTCTCGGGTTTTCATCCTAAGCGAAGTATTTCTTGACTGCGTCCGA
*
144592 GTTAATGGGATGTGGCAGTTCAGGTCCGTCCATTTCAGCCAGGATGAGGGCTCTTCCGGAGAAAG
66 GTTAATGGGATGTGGCAGTTCAGGTCCGTCCATTTCAGCCAGGATGAGGGCTCCTCCGGAGAAAG
144657 CCTTTTTCACGACATAAGGTCCTTCCCAATTTGGCGTCCATTTTCCTCGGAAATCTTTCCGGACT
131 CCTTTTTCACGACATAAGGTCCTTCCCAATTTGGCGTCCATTTTCCTCGGAAATCTTTCCGGACT
*
144722 GGCCAAATTCTTTTTAGCACTAGATCCCCTTCGCGGAATATTCTCGGGCGCACATTTTTGTCATG
196 GGCCAAATTCTTTTTAGCACTAGATCCCCTTCGCGGAATATTCTCGGGCGCACCTTTTTGTCATG
*
144787 TGCCCGGATCATTCGTTTCTGATAGATTTGACCATGATGAATGGCTTTCAGTC
261 TGCCCGAATCATTCGTTTCTGATAGATTTGACCATGATGAATGGCTTTCAGTC
** * * * * * * * ** * * *
144840 TTTTTTCCTCTATCAGATTAAGCTGATCATATCTGGATTGT-A-CCCACTCTGCATCGTCTAGT-
1 TTTTTT-AACT-T-AG---GA-C--ACCCTCTC-GGGTTTTCATCCTAAGC-G-A-AGTAT-TTC
144902 TTGACTGCGTCCGAGTTAATGGGATGTGGCAGTTCAGGTCCGTCCATTTCAGCCAGGATGAGGGC
52 TTGACTGCGTCCGAGTTAATGGGATGTGGCAGTTCAGGTCCGTCCATTTCAGCCAGGATGAGGGC
*
144967 TCCTCTGGAGAAAGCCTTTTTCACGACATAAGGTCCTTCCCAATTTGGCGTCCATTTTCCTCGGA
117 TCCTCCGGAGAAAGCCTTTTTCACGACATAAGGTCCTTCCCAATTTGGCGTCCATTTTCCTCGGA
145032 AATCTTTCCGGACTGGCCAAATTCTTTTTAGCACTAGATCCCCTTCGCGGAATATTCTCGGGCGC
182 AATCTTTCCGGACTGGCCAAATTCTTTTTAGCACTAGATCCCCTTCGCGGAATATTCTCGGGCGC
145097 ACCTTTTTGTCATGTGCCCGAATCATTCGTTTCTGATAGATTTGACCATGATGAATGGCTTTCAG
247 ACCTTTTTGTCATGTGCCCGAATCATTCGTTTCTGATAGATTTGACCATGATGAATGGCTTTCAG
145162 TC
312 TC
145164 TTTTTTAACTTAGGACACCCTCTCGGGTTTTCATCCTAAGCGAAGTATTTCTTGACTGCGTCCGA
1 TTTTTTAACTTAGGACACCCTCTCGGGTTTTCATCCTAAGCGAAGTATTTCTTGACTGCGTCCGA
145229 GTTAATGGGATGTGGCAGTTCAGGTCCGTCCATTTCAGCCAGGATGAGGGCTCCTCCGGAGAAAG
66 GTTAATGGGATGTGGCAGTTCAGGTCCGTCCATTTCAGCCAGGATGAGGGCTCCTCCGGAGAAAG
145294 CCTTTTTCACGACATAAGGTCCTTCCCAATTTGGCGTCCATTTTCCTCGGAAATCTTTCCGGACT
131 CCTTTTTCACGACATAAGGTCCTTCCCAATTTGGCGTCCATTTTCCTCGGAAATCTTTCCGGACT
*
145359 GGCCAAATTCTTTTTAGCACTAGATCCCCTTCGCGGAATATTCTCGGGCGTACCTTTTTGTCATG
196 GGCCAAATTCTTTTTAGCACTAGATCCCCTTCGCGGAATATTCTCGGGCGCACCTTTTTGTCATG
145424 TGCCCGAATCATTCGTTTCTGATAGATTTGACCATGATGAATGGCTTTCAGTC
261 TGCCCGAATCATTCGTTTCTGATAGATTTGACCATGATGAATGGCTTTCAGTC
145477 TTTTTT
1 TTTTTT
145483 CCTCTATCAG
Statistics
Matches: 592, Mismatches: 34, Indels: 34
0.90 0.05 0.05
Matches are distributed among these distances:
312 1 0.00
313 275 0.46
314 8 0.01
315 8 0.01
316 6 0.01
317 1 0.00
318 1 0.00
319 1 0.00
320 1 0.00
321 6 0.01
322 8 0.01
323 8 0.01
324 267 0.45
325 1 0.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.34
Consensus pattern (313 bp):
TTTTTTAACTTAGGACACCCTCTCGGGTTTTCATCCTAAGCGAAGTATTTCTTGACTGCGTCCGA
GTTAATGGGATGTGGCAGTTCAGGTCCGTCCATTTCAGCCAGGATGAGGGCTCCTCCGGAGAAAG
CCTTTTTCACGACATAAGGTCCTTCCCAATTTGGCGTCCATTTTCCTCGGAAATCTTTCCGGACT
GGCCAAATTCTTTTTAGCACTAGATCCCCTTCGCGGAATATTCTCGGGCGCACCTTTTTGTCATG
TGCCCGAATCATTCGTTTCTGATAGATTTGACCATGATGAATGGCTTTCAGTC
Found at i:148412 original size:626 final size:626
Alignment explanation
Indices: 147221--148475 Score: 2492
Period size: 626 Copynumber: 2.0 Consensus size: 626
147211 GGAGTCTTTT
147221 TGTAGCCCAGACCAGGGCACAACAAACCTTCTCCATAGGAGGATATCGGACCTCGCAATCGGTGA
1 TGTAGCCCAGACCAGGGCACAACAAACCTTCTCCATAGGAGGATATCGGACCTCGCAATCGGTGA
147286 ACTTCTTGCTTAAGTAGTAGATGGCTCTTTCCTTCTTCCCAGACTCGTCATGTTGACCCAGGACA
66 ACTTCTTGCTTAAGTAGTAGATGGCTCTTTCCTTCTTCCCAGACTCGTCATGTTGACCCAGGACA
147351 CACCCCATGGAGCTCTCGAATATGGAGAGATACAAGAACAGAGGTTTTCCTGGGATAGGGGACAT
131 CACCCCATGGAGCTCTCGAATATGGAGAGATACAAGAACAGAGGTTTTCCTGGGATAGGGGACAT
*
147416 CAGGATAGGAGCGTGGGACAGGTATTCTTTTACCTTCTCAAATGTAATCTGACAGTTTTCATCCC
196 CAGGATAGGAGCGTGGGACAGGTATTCTTTTACCTTCTCAAATGTAATATGACAGTTTTCATCCC
147481 ATGTTCCAGGGCTGTTTTTTCGGAGAAGGCGAAAGATTGGATCACACTTGTCAGTTAAATGAGAT
261 ATGTTCCAGGGCTGTTTTTTCGGAGAAGGCGAAAGATTGGATCACACTTGTCAGTTAAATGAGAT
147546 ATAAACCGGGCTATGTAATTCAATCTTCCTAAAAAACCTCGGACCTCCTTTTGTGTTCGTGGAGG
326 ATAAACCGGGCTATGTAATTCAATCTTCCTAAAAAACCTCGGACCTCCTTTTGTGTTCGTGGAGG
147611 AGGTAGACTCTGGATAGCCTTAACCTTATCAGGATCAACCTCGATGCCTTTTCTGCTGACTATAA
391 AGGTAGACTCTGGATAGCCTTAACCTTATCAGGATCAACCTCGATGCCTTTTCTGCTGACTATAA
147676 AGCCTAATAGTTTCCCGGATGTCACCCCGAAGGTACACTTGCTAGGGTTCAGTCGTAACCGGAAT
456 AGCCTAATAGTTTCCCGGATGTCACCCCGAAGGTACACTTGCTAGGGTTCAGTCGTAACCGGAAT
147741 TTCCTCAATCTCTGGAAGAGCTTTCTCAGATTCTCGACATGTTCATTCTCTGTATGTGCCTTGAC
521 TTCCTCAATCTCTGGAAGAGCTTTCTCAGATTCTCGACATGTTCATTCTCTGTATGTGCCTTGAC
147806 AATCATGTCGTTGACATAAACCTCGATCTCTTTATGCATCA
586 AATCATGTCGTTGACATAAACCTCGATCTCTTTATGCATCA
147847 TGTAGCCCAGACCAGGGCACAACAAACCTTCTCCATAGGAGGATATCGGACCTCGCAATCGGTGA
1 TGTAGCCCAGACCAGGGCACAACAAACCTTCTCCATAGGAGGATATCGGACCTCGCAATCGGTGA
*
147912 ACTTCTTGCTTAAGTAGTAGATGGCTCTTTCCTTCTTCCCGGACTCGTCATGTTGACCCAGGACA
66 ACTTCTTGCTTAAGTAGTAGATGGCTCTTTCCTTCTTCCCAGACTCGTCATGTTGACCCAGGACA
147977 CACCCCATGGAGCTCTCGAATATGGAGAGATACAAGAACAGAGGTTTTCCTGGGATAGGGGACAT
131 CACCCCATGGAGCTCTCGAATATGGAGAGATACAAGAACAGAGGTTTTCCTGGGATAGGGGACAT
148042 CAGGATAGGAGCGTGGGACAGGTATTCTTTTACCTTCTCAAATGTAATATGACAGTTTTCATCCC
196 CAGGATAGGAGCGTGGGACAGGTATTCTTTTACCTTCTCAAATGTAATATGACAGTTTTCATCCC
148107 ATGTTCCAGGGCTGTTTTTTCGGAGAAGGCGAAAGATTGGATCACACTTGTCAGTTAAATGAGAT
261 ATGTTCCAGGGCTGTTTTTTCGGAGAAGGCGAAAGATTGGATCACACTTGTCAGTTAAATGAGAT
148172 ATAAACCGGGCTATGTAATTCAATCTTCCTAAAAAACCTCGGACCTCCTTTTGTGTTCGTGGAGG
326 ATAAACCGGGCTATGTAATTCAATCTTCCTAAAAAACCTCGGACCTCCTTTTGTGTTCGTGGAGG
148237 AGGTAGACTCTGGATAGCCTTAACCTTATCAGGATCAACCTCGATGCCTTTTCTGCTGACTATAA
391 AGGTAGACTCTGGATAGCCTTAACCTTATCAGGATCAACCTCGATGCCTTTTCTGCTGACTATAA
148302 AGCCTAATAGTTTCCCGGATGTCACCCCGAAGGTACACTTGCTAGGGTTCAGTCGTAACCGGAAT
456 AGCCTAATAGTTTCCCGGATGTCACCCCGAAGGTACACTTGCTAGGGTTCAGTCGTAACCGGAAT
148367 TTCCTCAATCTCTGGAAGAGCTTTCTCAGATTCTCGACATGTTCATTCTCTGTATGTGCCTTGAC
521 TTCCTCAATCTCTGGAAGAGCTTTCTCAGATTCTCGACATGTTCATTCTCTGTATGTGCCTTGAC
148432 AATCATGTCGTTGACATAAACCTCGATCTCTTTATGCATCA
586 AATCATGTCGTTGACATAAACCTCGATCTCTTTATGCATCA
148473 TGT
1 TGT
148476 CGTGGAACAG
Statistics
Matches: 627, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
626 627 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (626 bp):
TGTAGCCCAGACCAGGGCACAACAAACCTTCTCCATAGGAGGATATCGGACCTCGCAATCGGTGA
ACTTCTTGCTTAAGTAGTAGATGGCTCTTTCCTTCTTCCCAGACTCGTCATGTTGACCCAGGACA
CACCCCATGGAGCTCTCGAATATGGAGAGATACAAGAACAGAGGTTTTCCTGGGATAGGGGACAT
CAGGATAGGAGCGTGGGACAGGTATTCTTTTACCTTCTCAAATGTAATATGACAGTTTTCATCCC
ATGTTCCAGGGCTGTTTTTTCGGAGAAGGCGAAAGATTGGATCACACTTGTCAGTTAAATGAGAT
ATAAACCGGGCTATGTAATTCAATCTTCCTAAAAAACCTCGGACCTCCTTTTGTGTTCGTGGAGG
AGGTAGACTCTGGATAGCCTTAACCTTATCAGGATCAACCTCGATGCCTTTTCTGCTGACTATAA
AGCCTAATAGTTTCCCGGATGTCACCCCGAAGGTACACTTGCTAGGGTTCAGTCGTAACCGGAAT
TTCCTCAATCTCTGGAAGAGCTTTCTCAGATTCTCGACATGTTCATTCTCTGTATGTGCCTTGAC
AATCATGTCGTTGACATAAACCTCGATCTCTTTATGCATCA
Found at i:156270 original size:16 final size:16
Alignment explanation
Indices: 156249--156282 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
156239 TAAAACAAAC
*
156249 AATAAAAAAATAAGAT
1 AATAAAAAAATAAAAT
*
156265 AATAAACAAATAAAAT
1 AATAAAAAAATAAAAT
156281 AA
1 AA
156283 AAATAGACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (16 bp):
AATAAAAAAATAAAAT
Found at i:156284 original size:27 final size:28
Alignment explanation
Indices: 156229--156302 Score: 79
Period size: 27 Copynumber: 2.8 Consensus size: 28
156219 AAACAAGAAG
*
156229 TAAAAA-AAGAT-A-AAACAAACAATAA
1 TAAAAATAAGATAATAAACAAATAATAA
156254 -AAAAATAAGATAATAAACAAATAA-AA
1 TAAAAATAAGATAATAAACAAATAATAA
*
156280 TAAAAAT-AGACAAATAAACAAAT
1 TAAAAATAAGA-TAATAAACAAAT
156303 TAGAAAAACC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
24 5 0.12
25 5 0.12
26 6 0.14
27 26 0.62
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (28 bp):
TAAAAATAAGATAATAAACAAATAATAA
Found at i:156771 original size:18 final size:18
Alignment explanation
Indices: 156738--156805 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
156728 TATATACATA
156738 AATAAGTAAAAA-AATAGT
1 AATAA-TAAAAATAATAGT
*
156756 AATAATAGAAATAATAAG-
1 AATAATAAAAATAAT-AGT
* * * *
156774 GATAATATAAAGAATAAT
1 AATAATAAAAATAATAGT
156792 AATAATAAAAATAA
1 AATAATAAAAATAA
156806 AATGGTAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
17 6 0.15
18 31 0.79
19 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (18 bp):
AATAATAAAAATAATAGT
Found at i:156849 original size:8 final size:7
Alignment explanation
Indices: 156837--156886 Score: 54
Period size: 6 Copynumber: 7.6 Consensus size: 7
156827 GAAATAAGTA
156837 AATATAT
1 AATATAT
156844 -ATATAT
1 AATATAT
156850 -ATATAT
1 AATATAT
*
156856 ACACATAT
1 A-ATATAT
156864 AATA-AT
1 AATATAT
156870 AATA-AT
1 AATATAT
156876 AATATAT
1 AATATAT
156883 AATA
1 AATA
156887 AAACGTAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
6 24 0.63
7 8 0.21
8 6 0.16
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (7 bp):
AATATAT
Found at i:156886 original size:10 final size:10
Alignment explanation
Indices: 156837--156887 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
156827 GAAATAAGTA
156837 AATATAT-AT
1 AATATATAAT
156846 -ATATATATAT
1 AATATATA-AT
*
156856 ACACATATAAT
1 A-ATATATAAT
156867 AATA-ATAAT
1 AATATATAAT
156876 AATATATAAT
1 AATATATAAT
156886 AA
1 AA
156888 AACGTAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
8 6 0.17
9 9 0.26
10 11 0.31
11 3 0.09
12 6 0.17
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (10 bp):
AATATATAAT
Found at i:182117 original size:19 final size:18
Alignment explanation
Indices: 182076--182119 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
182066 AATTAATAAA
182076 AAATAAAT-ATATTATTT
1 AAATAAATAATATTATTT
182093 -AA-AAATAATATTATTT
1 AAATAAATAATATTATTT
182109 CAAATAAATAA
1 -AAATAAATAA
182120 ATGATAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.17
16 11 0.48
18 2 0.09
19 6 0.26
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATAAATAATATTATTT
Found at i:184834 original size:16 final size:18
Alignment explanation
Indices: 184803--184837 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
184793 TACTTATAGT
184803 TAATTTATTCATTTGTTA
1 TAATTTATTCATTTGTTA
184821 TAATTTATT-A-TTGTTA
1 TAATTTATTCATTTGTTA
184837 T
1 T
184838 TTTTGCAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 1 0.06
18 9 0.53
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (18 bp):
TAATTTATTCATTTGTTA
Found at i:188870 original size:130 final size:131
Alignment explanation
Indices: 188634--188895 Score: 363
Period size: 130 Copynumber: 2.0 Consensus size: 131
188624 ATTGTAAAAG
* * *
188634 TTGCTTGAGTAGGCTGTAATATATCTGGGGCCCTCTTCTTACTAATGTTATCATTGTCAGTCACA
1 TTGCTTGAGTAGGCTGTAATATATCTGAGGCCCTCTTCTTACCAATGATATCATTGTCAGTCACA
*
188699 CTGCAAATCCCTTCCACTCAAGTAGAGTAAGCAGAACAAGACTGATTTTCAGAATTGCAAACCAC
66 CTGCAAATCCCTTCCACTCAAGTAGAGTAAGCAGAACAAGACTGATTGTCAGAATTGCAAA-CAC
188764 AT
130 AT
* *
188766 TTGCTTGAGTA-GCTGTAA-ATAT-TCGAGG-CCTTTTCCTTACCAATGATATCCTTGTCAGTCA
1 TTGCTTGAGTAGGCTGTAATATATCT-GAGGCCCTCTT-CTTACCAATGATATCATTGTCAGTCA
* * * *
188827 CACTGCAAGTCTCTTCCACT-ACAGTAGAGTAAGCAGCATAAGACTGATTGTCAGAATTGCAAAC
64 CACTGCAAATCCCTTCCACTCA-AGTAGAGTAAGCAGAACAAGACTGATTGTCAGAATTGCAAAC
188891 ACAT
128 ACAT
188895 T
1 T
188896 ACTATTACCA
Statistics
Matches: 117, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
129 13 0.11
130 86 0.74
131 7 0.06
132 11 0.09
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (131 bp):
TTGCTTGAGTAGGCTGTAATATATCTGAGGCCCTCTTCTTACCAATGATATCATTGTCAGTCACA
CTGCAAATCCCTTCCACTCAAGTAGAGTAAGCAGAACAAGACTGATTGTCAGAATTGCAAACACA
T
Found at i:203305 original size:24 final size:25
Alignment explanation
Indices: 203273--203319 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
203263 ATTAAAAATC
*
203273 AATTTGT-CCTCCTGAAATTTTATA
1 AATTTGTCCCTCCTAAAATTTTATA
*
203297 AATTTGTCCCTTCTAAAATTTTA
1 AATTTGTCCCTCCTAAAATTTTA
203320 AAGATTCGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (25 bp):
AATTTGTCCCTCCTAAAATTTTATA
Found at i:213466 original size:10 final size:10
Alignment explanation
Indices: 213451--213480 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
213441 TTTGAGATAA
213451 TTTTATAATT
1 TTTTATAATT
213461 TTTTAT-ATT
1 TTTTATAATT
213470 TTTTATAATT
1 TTTTATAATT
213480 T
1 T
213481 AATATGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTATAATT
Found at i:214041 original size:14 final size:14
Alignment explanation
Indices: 214001--214042 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
213991 AGTGATAGAT
*
214001 TTATA-ATTAAATA
1 TTATATATTAAAAA
214014 TT-TATGATTAAAAA
1 TTATAT-ATTAAAAA
214028 TTATATATTAAAAA
1 TTATATATTAAAAA
214042 T
1 T
214043 ATTTTATAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 2 0.08
13 2 0.08
14 18 0.72
15 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
TTATATATTAAAAA
Found at i:219755 original size:27 final size:27
Alignment explanation
Indices: 219724--219788 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
219714 CGTTCCGGGT
*
219724 TCGGGTCCTCTGGAGAGGGGGTTCATG
1 TCGGGTCCTCTCGAGAGGGGGTTCATG
**
219751 TCGGGTCCGATCGAGAGGGGGTTCATG
1 TCGGGTCCTCTCGAGAGGGGGTTCATG
219778 TCGGGTCCTCT
1 TCGGGTCCTCT
219789 TGATAATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.11, C:0.22, G:0.42, T:0.26
Consensus pattern (27 bp):
TCGGGTCCTCTCGAGAGGGGGTTCATG
Found at i:223857 original size:23 final size:23
Alignment explanation
Indices: 223831--223886 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
223821 ACTTACAAAC
*
223831 GTTAAATAAATATATTCGTAAAT
1 GTTAAATAAATATATTCATAAAT
* *
223854 GTTAAATAAATATGTTTATAAAT
1 GTTAAATAAATATATTCATAAAT
223877 GTTAAATAAA
1 GTTAAATAAA
223887 AAAATATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (23 bp):
GTTAAATAAATATATTCATAAAT
Found at i:223863 original size:27 final size:25
Alignment explanation
Indices: 223833--223893 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 25
223823 TTACAAACGT
*
223833 TAAATAAATATATTCGTAAATGTTAAA
1 TAAATAAATAT-TT-ATAAATGTTAAA
*
223860 TAAAT--ATGTTTATAAATGTTAAA
1 TAAATAAATATTTATAAATGTTAAA
*
223883 TAAAAAAATAT
1 TAAATAAATAT
223894 GAACACCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
23 15 0.54
24 2 0.07
25 6 0.21
27 5 0.18
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (25 bp):
TAAATAAATATTTATAAATGTTAAA
Found at i:226922 original size:45 final size:45
Alignment explanation
Indices: 226858--226947 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
226848 ATCTCTCTCA
226858 AGTAAAACAACTTAATTACTTGTTATTGAAACTACATATATCTAC
1 AGTAAAACAACTTAATTACTTGTTATTGAAACTACATATATCTAC
226903 AGTAAAACAACTTAATTACTTGTTATTGAAACTACATATATCTAC
1 AGTAAAACAACTTAATTACTTGTTATTGAAACTACATATATCTAC
226948 TCAGATATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.36
Consensus pattern (45 bp):
AGTAAAACAACTTAATTACTTGTTATTGAAACTACATATATCTAC
Found at i:226934 original size:24 final size:24
Alignment explanation
Indices: 226862--226934 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
226852 CTCTCAAGTA
226862 AAACAACTTAATTACTTGTTATTG
1 AAACAACTTAATTACTTGTTATTG
* * *
226886 AAACTACATATATCTAC-AG-TA---
1 AAACAACTTA-AT-TACTTGTTATTG
226907 AAACAACTTAATTACTTGTTATTG
1 AAACAACTTAATTACTTGTTATTG
226931 AAAC
1 AAAC
226935 TACATATATC
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
19 3 0.08
20 3 0.08
21 10 0.28
24 14 0.39
25 3 0.08
26 3 0.08
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (24 bp):
AAACAACTTAATTACTTGTTATTG
Found at i:240885 original size:2 final size:2
Alignment explanation
Indices: 240878--240922 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
240868 AATATTTGTT
240878 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
240920 TA T
1 TA T
240923 TTTCATACAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.