Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 302 of 325
Found at i:95970412 original size:25 final size:25
Alignment explanation
Indices: 95970343--95970413 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
95970333 AGCTTGCAAT
*
95970343 AGCATCCCATTATTTAG-TGCTTATG
1 AGCATCCCATTATATAGCT-CTTATG
*
95970368 AGCATCCCATTATTTAGCTCTTATG
1 AGCATCCCATTATATAGCTCTTATG
* *
95970393 AGCAAT-CCGTTATATGGCTCT
1 AGC-ATCCCATTATATAGCTCT
95970414 CACGAGCTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
25 38 0.93
26 3 0.07
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (25 bp):
AGCATCCCATTATATAGCTCTTATG
Found at i:95970468 original size:24 final size:24
Alignment explanation
Indices: 95970399--95970546 Score: 80
Period size: 24 Copynumber: 6.0 Consensus size: 24
95970389 TATGAGCAAT
*
95970399 CCGTTATATGGCTCTCACGAGCTTC
1 CCGTT-TATGGCTCTCATGAGCTTC
** * *
95970424 CCAATAATTGGCTCTCTTGAGCTTC
1 CCGTTTA-TGGCTCTCATGAGCTTC
* *
95970449 CCGTTTATGGCTCGCATGAGCTTT
1 CCGTTTATGGCTCTCATGAGCTTC
* * **
95970473 CTGATTAATGGCTCTCCGGAGCTTC
1 CCG-TTTATGGCTCTCATGAGCTTC
* * ** * *
95970498 CCGATAATAACTCACATGAGCTTT
1 CCGTTTATGGCTCTCATGAGCTTC
** * *
95970522 CCAATTACGGCTCTTATGAGCTTC
1 CCGTTTATGGCTCTCATGAGCTTC
95970546 C
1 C
95970547 TATTACATGG
Statistics
Matches: 88, Mismatches: 33, Indels: 5
0.70 0.26 0.04
Matches are distributed among these distances:
24 48 0.55
25 40 0.45
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (24 bp):
CCGTTTATGGCTCTCATGAGCTTC
Found at i:95970551 original size:23 final size:24
Alignment explanation
Indices: 95970511--95970575 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
95970501 ATAATAACTC
* *
95970511 ACATGAGCTTTCCAATTAC-GGCTC
1 ACATGAGC-TTCCTATTACAGGCTA
**
95970535 TTATGAGCTTCCTATTACATGGCTA
1 ACATGAGCTTCCTATTACA-GGCTA
95970560 ACATGAGCTTCCTATT
1 ACATGAGCTTCCTATT
95970576 CCATAGCTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
23 9 0.27
24 6 0.18
25 18 0.55
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (24 bp):
ACATGAGCTTCCTATTACAGGCTA
Found at i:95970592 original size:25 final size:25
Alignment explanation
Indices: 95970539--95970596 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
95970529 CGGCTCTTAT
* *
95970539 GAGCTTCCTATTACATGGCTAACAT
1 GAGCTTCCTATTACATAGCTAACAA
* * *
95970564 GAGCTTCCTATTCCATAGCTCAGAA
1 GAGCTTCCTATTACATAGCTAACAA
95970589 GAGCTTCC
1 GAGCTTCC
95970597 CGTTTATATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (25 bp):
GAGCTTCCTATTACATAGCTAACAA
Found at i:95971664 original size:21 final size:20
Alignment explanation
Indices: 95971638--95971676 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
95971628 AACCCATTAA
95971638 ACCCCAAAACCCAACTAACCC
1 ACCCCAAAACCCAA-TAACCC
95971659 ACCCCAAAACCCAATAAC
1 ACCCCAAAACCCAATAAC
95971677 TAAACCTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.49, G:0.00, T:0.05
Consensus pattern (20 bp):
ACCCCAAAACCCAATAACCC
Found at i:95971701 original size:42 final size:42
Alignment explanation
Indices: 95971655--95971787 Score: 112
Period size: 42 Copynumber: 3.1 Consensus size: 42
95971645 AACCCAACTA
95971655 ACCCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCAT
1 ACCCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCAT
* * ** *
95971697 ACCCATCTCATCCTAAA-CTAACCCATTAAACC--C-CAAAACCCAACT
1 ACCCA-C-C--CCAAAACCCAA-TAACTAAACCTACTCAAAACCC-A-T
*
95971742 AACCCACCACAAAACCCAATAACTAAACCTACTCAAAACCCAT
1 -ACCCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCAT
95971785 ACC
1 ACC
95971788 ATCTCATCCT
Statistics
Matches: 68, Mismatches: 11, Indels: 24
0.66 0.11 0.23
Matches are distributed among these distances:
42 19 0.28
43 13 0.19
44 6 0.09
45 13 0.19
46 17 0.25
ACGTcount: A:0.44, C:0.42, G:0.00, T:0.14
Consensus pattern (42 bp):
ACCCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCAT
Found at i:95971720 original size:50 final size:49
Alignment explanation
Indices: 95971666--95971804 Score: 149
Period size: 46 Copynumber: 3.0 Consensus size: 49
95971656 CCCACCCCAA
95971666 AACCCAATAACTAAACCTACTCAAAACCCATACCCATCTCATCCTAAACT
1 AACCCAATAACTAAACCTACTCAAAACCCATA-CCATCTCATCCTAAACT
* * *
95971716 AACCC-AT---TAAACC--C-CAAAACCCA-ACTAACCCA-CC-ACAA--
1 AACCCAATAACTAAACCTACTCAAAACCCATACCATCTCATCCTA-AACT
95971754 AACCCAATAACTAAACCTACTCAAAACCCATACCATCTCATCCTAAACT
1 AACCCAATAACTAAACCTACTCAAAACCCATACCATCTCATCCTAAACT
95971803 AA
1 AA
95971805 GCCTAAACAA
Statistics
Matches: 70, Mismatches: 6, Indels: 27
0.68 0.06 0.26
Matches are distributed among these distances:
38 5 0.07
39 3 0.04
40 4 0.06
41 5 0.07
42 7 0.10
43 9 0.13
44 2 0.03
45 9 0.13
46 12 0.17
47 4 0.06
48 1 0.01
49 4 0.06
50 5 0.07
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.17
Consensus pattern (49 bp):
AACCCAATAACTAAACCTACTCAAAACCCATACCATCTCATCCTAAACT
Found at i:95971726 original size:88 final size:87
Alignment explanation
Indices: 95971625--95971804 Score: 342
Period size: 88 Copynumber: 2.1 Consensus size: 87
95971615 CCATTAAATC
*
95971625 ACTAACCCATTAAACCCCAAAACCCAACTAACCCACCCCAAAACCCAATAACTAAACCTACTCAA
1 ACTAACCCATTAAACCCCAAAACCCAACTAACCCACCACAAAACCCAATAACTAAACCTACTCAA
95971690 AACCCATACCCATCTCATCCTAA
66 AACCCATA-CCATCTCATCCTAA
95971713 ACTAACCCATTAAACCCCAAAACCCAACTAACCCACCACAAAACCCAATAACTAAACCTACTCAA
1 ACTAACCCATTAAACCCCAAAACCCAACTAACCCACCACAAAACCCAATAACTAAACCTACTCAA
95971778 AACCCATACCATCTCATCCTAA
66 AACCCATACCATCTCATCCTAA
95971800 ACTAA
1 ACTAA
95971805 GCCTAAACAA
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
87 19 0.21
88 72 0.79
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (87 bp):
ACTAACCCATTAAACCCCAAAACCCAACTAACCCACCACAAAACCCAATAACTAAACCTACTCAA
AACCCATACCATCTCATCCTAA
Found at i:95975104 original size:53 final size:54
Alignment explanation
Indices: 95975023--95975188 Score: 200
Period size: 53 Copynumber: 3.1 Consensus size: 54
95975013 CTTACACGAT
* *
95975023 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAA-TCACATTA
1 TCACAT-T-ATACCGATGCCATAACCCAG-CTATGGTCTTATACGGAAGTCACATTA
95975078 TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATAC-GAAGTCACATTA
1 TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGGAAGTCACATTA
** * *
95975131 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG--G-CACACTTA
1 TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGGAAGTCACA-TTA
95975183 TCACAT
1 TCACAT
95975189 ATTTTTCGTC
Statistics
Matches: 101, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
51 4 0.04
52 14 0.14
53 75 0.74
54 2 0.02
55 6 0.06
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (54 bp):
TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGGAAGTCACATTA
Found at i:95982608 original size:53 final size:53
Alignment explanation
Indices: 95982527--95982677 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
95982517 CTTACACGGT
* *
95982527 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
95982582 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
95982635 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
95982678 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:95992577 original size:69 final size:70
Alignment explanation
Indices: 95992295--95992597 Score: 295
Period size: 73 Copynumber: 4.2 Consensus size: 70
95992285 TTTGGGTACT
* * * * ** **
95992295 CTGAGGTATCTTTAATTCATGTTTTCAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCT
1 CTGAGGTATTTTTAGTTTATG-TTTC--AAAAATC-ACTCATATTGCGAGAGGTGAGTCAAGCCT
**
95992360 CAGGTCACACG
62 C-GG-GGCACG
* *
95992371 CTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAG
1 CTGAGGTATTTTTAGTTTATGTTTCAAAAA-TCACTCATATTGCGAGAGGTGAGTCAAGCCTCGG
*
95992436 GTCACG
65 GGCACG
* * * * * ** *
95992442 CTGAGGTATTTTAATTCCTTTTGTTTCAAAAATCAGCTCATATGGCGAGGGGTGAGTTGAGTCTC
1 CTGAGGTATTTTTAGT--TTATGTTTCAAAAATCA-CTCATATTGCGAGAGGTGAGTCAAGCCTC
95992507 GGGGCACG
63 GGGGCACG
95992515 CTGAGGTATTTTTAGTTTATGTTT-AGAAAAT-ACTCATATTGCGAGAGGTGAGTCAAGCCTCGG
1 CTGAGGTATTTTTAGTTTATGTTTCA-AAAATCACTCATATTGCGAGAGGTGAGTCAAGCCTCGG
95992578 GGCACG
65 GGCACG
*
95992584 CTGAGGTCTTTTTA
1 CTGAGGTATTTTTA
95992598 ATTTCTGCTT
Statistics
Matches: 190, Mismatches: 32, Indels: 17
0.79 0.13 0.07
Matches are distributed among these distances:
69 45 0.24
70 2 0.01
71 30 0.16
72 3 0.02
73 87 0.46
74 1 0.01
75 4 0.02
76 18 0.09
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (70 bp):
CTGAGGTATTTTTAGTTTATGTTTCAAAAATCACTCATATTGCGAGAGGTGAGTCAAGCCTCGGG
GCACG
Found at i:95993090 original size:139 final size:135
Alignment explanation
Indices: 95992720--95993112 Score: 620
Period size: 128 Copynumber: 2.9 Consensus size: 135
95992710 GTTCAAGAAC
* * *
95992720 CAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATTAACTCATATT
1 CAACTCATATGGCGAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAACTCATATT
*
95992785 GCGAGAGGTGAGTTAAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGT------AAAAA
66 GCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAAA
95992844 AAAAA
131 AAAAA
95992849 CAACTCATATGGCGAGAGGTGGGTTGAACCTTTTAATCTCTAC-TTTTCAAAATCAACTCATATT
1 CAACTCATATGGCGAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAACTCATATT
* *
95992913 GCGAGAAGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAAA
66 GCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC---AAAAAAA
95992978 CAAAAAAAA
128 -AAAAAAAA
95992987 CAACTCATATGGCGAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAACTCATATT
1 CAACTCATATGGCGAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAACTCATATT
* *
95993052 GCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGTTTTTCAAAAA
66 GCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAA
95993113 TCAACTCATA
Statistics
Matches: 242, Mismatches: 10, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
128 71 0.29
129 41 0.17
137 7 0.03
138 51 0.21
139 68 0.28
140 4 0.02
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (135 bp):
CAACTCATATGGCGAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAACTCATATT
GCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAAA
AAAAA
Found at i:95993951 original size:17 final size:17
Alignment explanation
Indices: 95993913--95993954 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
95993903 AACCCAATTT
* *
95993913 CAAACCCCATTAAATCA
1 CAAAACCCATTAAACCA
*
95993930 C-AAACCCATTAAACCC
1 CAAAACCCATTAAACCA
95993946 CAAAACCCA
1 CAAAACCCA
95993955 ACTAACCCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.48, C:0.40, G:0.00, T:0.12
Consensus pattern (17 bp):
CAAAACCCATTAAACCA
Found at i:95993968 original size:21 final size:20
Alignment explanation
Indices: 95993942--95993980 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
95993932 AACCCATTAA
95993942 ACCCCAAAACCCAACTAACCC
1 ACCCCAAAACCCAA-TAACCC
95993963 ACCCCAAAACCCAATAAC
1 ACCCCAAAACCCAATAAC
95993981 TAAACCTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.49, G:0.00, T:0.05
Consensus pattern (20 bp):
ACCCCAAAACCCAATAACCC
Found at i:95994005 original size:42 final size:42
Alignment explanation
Indices: 95993959--95994093 Score: 116
Period size: 42 Copynumber: 3.1 Consensus size: 42
95993949 AACCCAACTA
95993959 ACCCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCAT
1 ACCCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCAT
* * ** *
95994001 ACCCATCTCATCCTAAA-CTAACCCATTAAACC--C-CAAAACCCAACT
1 ACCCA-C-C--CCAAAACCCAA-TAACTAAACCTACTCAAAACCC-A-T
*
95994046 AACCCACCACAAAACCCAATAACTAAACCTACTCAAAACCCAT
1 -ACCCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCAT
95994089 ACCCA
1 ACCCA
95994094 TCTCATCCTA
Statistics
Matches: 70, Mismatches: 11, Indels: 24
0.67 0.10 0.23
Matches are distributed among these distances:
42 21 0.30
43 13 0.19
44 6 0.09
45 13 0.19
46 17 0.24
ACGTcount: A:0.44, C:0.42, G:0.00, T:0.13
Consensus pattern (42 bp):
ACCCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCAT
Found at i:95994034 original size:88 final size:88
Alignment explanation
Indices: 95993932--95994109 Score: 347
Period size: 88 Copynumber: 2.0 Consensus size: 88
95993922 TTAAATCACA
*
95993932 AACCCATTAAACCCCAAAACCCAACTAACCCACCCCAAAACCCAATAACTAAACCTACTCAAAAC
1 AACCCATTAAACCCCAAAACCCAACTAACCCACCACAAAACCCAATAACTAAACCTACTCAAAAC
95993997 CCATACCCATCTCATCCTAAACT
66 CCATACCCATCTCATCCTAAACT
95994020 AACCCATTAAACCCCAAAACCCAACTAACCCACCACAAAACCCAATAACTAAACCTACTCAAAAC
1 AACCCATTAAACCCCAAAACCCAACTAACCCACCACAAAACCCAATAACTAAACCTACTCAAAAC
95994085 CCATACCCATCTCATCCTAAACT
66 CCATACCCATCTCATCCTAAACT
95994108 AA
1 AA
95994110 GCCTAAACAA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (88 bp):
AACCCATTAAACCCCAAAACCCAACTAACCCACCACAAAACCCAATAACTAAACCTACTCAAAAC
CCATACCCATCTCATCCTAAACT
Found at i:95995267 original size:26 final size:25
Alignment explanation
Indices: 95995246--95995317 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
95995236 TTTATTCTTC
*
95995246 TTATATTTATTACTAATATATTATTA
1 TTATAGTTATTA-TAATATATTATTA
*
95995272 TTATAGTTATTATCATATATGTATTA
1 TTATAGTTATTATAATATAT-TATTA
* *
95995298 TTA-AGTTTTTATAACATATT
1 TTATAGTTATTATAATATATT
95995318 TATGTAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 20 0.50
26 19 0.47
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (25 bp):
TTATAGTTATTATAATATATTATTA
Found at i:95995666 original size:21 final size:21
Alignment explanation
Indices: 95995624--95995666 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
95995614 TCAATATAAA
* *
95995624 TATATATATATCATATAGGTT
1 TATATACATATCATACAGGTT
* *
95995645 TATATACATGTCATACATGTT
1 TATATACATATCATACAGGTT
95995666 T
1 T
95995667 CATTATTCCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (21 bp):
TATATACATATCATACAGGTT
Found at i:95995889 original size:13 final size:14
Alignment explanation
Indices: 95995865--95995895 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
95995855 AAATATTCGA
95995865 GTATTATTATATGT
1 GTATTATTATATGT
95995879 GTATT-TTATATGT
1 GTATTATTATATGT
95995892 GTAT
1 GTAT
95995896 ATGCTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (14 bp):
GTATTATTATATGT
Found at i:96003507 original size:24 final size:24
Alignment explanation
Indices: 96003463--96003514 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
96003453 TTTTTAAAAG
* **
96003463 ATTTAGTATTTATTAGTATAATCT
1 ATTTAGCATTTATTAACATAATCT
*
96003487 ATTTAGCATTTATTAACATAATTT
1 ATTTAGCATTTATTAACATAATCT
96003511 ATTT
1 ATTT
96003515 GACCTACGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATCT
Found at i:96004139 original size:26 final size:26
Alignment explanation
Indices: 96004079--96004147 Score: 61
Period size: 26 Copynumber: 2.6 Consensus size: 26
96004069 TATACAAAGT
96004079 TAATACATTATA-AATATTGTTATTATA
1 TAATA-ATTATATAA-ATTGTTATTATA
** * *
96004106 TACCAATTATATAAATTGTTTTTATG
1 TAATAATTATATAAATTGTTATTATA
96004132 TAATAATT-TACTAAAT
1 TAATAATTATA-TAAAT
96004148 ATATAAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
25 2 0.06
26 27 0.79
27 5 0.15
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (26 bp):
TAATAATTATATAAATTGTTATTATA
Found at i:96006306 original size:19 final size:19
Alignment explanation
Indices: 96006275--96006322 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
96006265 TTACTTGAAA
*
96006275 TTTA-AATATTTTTTTAATT
1 TTTATAATA-TTTTTCAATT
96006294 TTTATAATATTTTTCAATT
1 TTTATAATATTTTTCAATT
96006313 TTTAT-ATATT
1 TTTATAATATT
96006323 ATTGACTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 5 0.19
19 18 0.67
20 4 0.15
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATAATATTTTTCAATT
Found at i:96006940 original size:23 final size:21
Alignment explanation
Indices: 96006888--96006960 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 21
96006878 ATATATAAAA
*
96006888 AATTTAAAATTTAAAA-ATTT
1 AATTTAAAATTTAAAATATAT
*
96006908 TATTATAAAATTATAAAATATAT
1 AATT-TAAAATT-TAAAATATAT
96006931 AATTCTAAAATTCTAAAATATTATT
1 AATT-TAAAATT-TAAAATA-TA-T
96006956 AATTT
1 AATTT
96006961 CAACTAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.07
21 7 0.16
22 5 0.12
23 20 0.47
24 3 0.07
25 5 0.12
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
AATTTAAAATTTAAAATATAT
Found at i:96022306 original size:4 final size:4
Alignment explanation
Indices: 96022291--96022330 Score: 71
Period size: 4 Copynumber: 9.8 Consensus size: 4
96022281 GGTTGTCGTC
96022291 TTTG TCTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTT
1 TTTG T-TTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTT
96022331 CTGCCCCTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 31 0.89
5 4 0.11
ACGTcount: A:0.00, C:0.03, G:0.23, T:0.75
Consensus pattern (4 bp):
TTTG
Found at i:96026872 original size:14 final size:15
Alignment explanation
Indices: 96026846--96026878 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
96026836 TTTATGAGCC
96026846 AAAATATAATATCAT
1 AAAATATAATATCAT
*
96026861 AAAATA-AATATCTT
1 AAAATATAATATCAT
96026875 AAAA
1 AAAA
96026879 CGAATACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATATAATATCAT
Found at i:96033069 original size:42 final size:42
Alignment explanation
Indices: 96033022--96033105 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
96033012 AAATTAATAC
96033022 AATCCAACTATTATCTCCTTTAACAATCAATTCAATTTAATT
1 AATCCAACTATTATCTCCTTTAACAATCAATTCAATTTAATT
96033064 AATCCAACTATTATCTCCTTTAACAATCAATTCAATTTAATT
1 AATCCAACTATTATCTCCTTTAACAATCAATTCAATTTAATT
96033106 GTTGCTATTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.40
Consensus pattern (42 bp):
AATCCAACTATTATCTCCTTTAACAATCAATTCAATTTAATT
Found at i:96040086 original size:1 final size:1
Alignment explanation
Indices: 96040080--96040104 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
96040070 AAGGAGACAC
96040080 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
96040105 GAAGAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:96058833 original size:42 final size:42
Alignment explanation
Indices: 96058774--96058856 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
96058764 ATCCTAATTA
* *
96058774 GGAAAATAATTCCCTTATTCTAATAAACTATTAAAATATAAG
1 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAG
* *
96058816 GGAAAATAGTTCTCTTATTCTAATAAACTACTAAAAGATAA
1 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
96058857 AATAAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (42 bp):
GGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAG
Found at i:96058908 original size:19 final size:18
Alignment explanation
Indices: 96058884--96058927 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
96058874 AATATGAATA
*
96058884 AAATTTATCTTCCTAAAT
1 AAATTTATCTACCTAAAT
96058902 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCTAAAT
96058921 AAATTTA
1 AAATTTA
96058928 AAATATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:96062779 original size:19 final size:18
Alignment explanation
Indices: 96062755--96062798 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
96062745 AATATGAATA
*
96062755 AAATTTATCTTCCTAAAT
1 AAATTTATCTACCTAAAT
96062773 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCTAAAT
96062792 AAATTTA
1 AAATTTA
96062799 AAATATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:96069989 original size:17 final size:17
Alignment explanation
Indices: 96069967--96070003 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
96069957 TATAATCTCT
96069967 ATTAGATTTGATTTGAC
1 ATTAGATTTGATTTGAC
96069984 ATTAGATTTGATTTGAC
1 ATTAGATTTGATTTGAC
96070001 ATT
1 ATT
96070004 TAAGGCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (17 bp):
ATTAGATTTGATTTGAC
Found at i:96070109 original size:22 final size:22
Alignment explanation
Indices: 96070064--96070109 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
96070054 ACGTTAATCC
** *
96070064 TTTGAAAATTTAATTAAAATAT
1 TTTGAAAATTTAAAGAAAACAT
*
96070086 TTTGAAAATTTAAAGAAACCAT
1 TTTGAAAATTTAAAGAAAACAT
96070108 TT
1 TT
96070110 AAAACCTGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (22 bp):
TTTGAAAATTTAAAGAAAACAT
Found at i:96070472 original size:13 final size:12
Alignment explanation
Indices: 96070454--96070496 Score: 54
Period size: 13 Copynumber: 3.7 Consensus size: 12
96070444 TTAATAAAAA
96070454 TATAAAAATGTAT
1 TATAAAAAT-TAT
96070467 TATAAAAATTA-
1 TATAAAAATTAT
*
96070478 TA-AATAATTAT
1 TATAAAAATTAT
96070489 TATAAAAA
1 TATAAAAA
96070497 AATTAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 7 0.27
11 4 0.15
12 6 0.23
13 9 0.35
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (12 bp):
TATAAAAATTAT
Found at i:96070473 original size:21 final size:22
Alignment explanation
Indices: 96070447--96070496 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
96070437 ATTAAAATTA
96070447 ATAAAAA-TATAAA-AATGTATT
1 ATAAAAATTATAAATAAT-TATT
96070468 ATAAAAATTATAAATAATTATT
1 ATAAAAATTATAAATAATTATT
96070490 ATAAAAA
1 ATAAAAA
96070497 AATTAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.26
22 17 0.63
23 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
ATAAAAATTATAAATAATTATT
Found at i:96070505 original size:18 final size:20
Alignment explanation
Indices: 96070482--96070519 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
96070472 AAATTATAAA
*
96070482 TAATTATTA-TAAA-AAAAT
1 TAATTAATATTAAATAAAAT
96070500 TAATTAATATTAAATAAAAT
1 TAATTAATATTAAATAAAAT
96070520 AAAAAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 4 0.24
20 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAATTAATATTAAATAAAAT
Found at i:96070510 original size:21 final size:23
Alignment explanation
Indices: 96070449--96070520 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 23
96070439 TAAAATTAAT
96070449 AAAAATATAAA-AATGTATTAT-A
1 AAAAATATAAATAAT-TATTATAA
*
96070471 AAAATTATAAATAATTATTATAA
1 AAAAATATAAATAATTATTATAA
*
96070494 AAAAAT-TAATTAA-TATTA-AA
1 AAAAATATAAATAATTATTATAA
*
96070514 TAAAATA
1 AAAAATA
96070521 AAAAACCCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 7 0.16
21 5 0.12
22 22 0.51
23 9 0.21
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (23 bp):
AAAAATATAAATAATTATTATAA
Found at i:96070633 original size:5 final size:5
Alignment explanation
Indices: 96070623--96070655 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
96070613 AGGGAGGATT
*
96070623 TTTTA TTTTA TTTTA TTTTA TATTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
96070656 AATATCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:96070643 original size:15 final size:15
Alignment explanation
Indices: 96070623--96070666 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
96070613 AGGGAGGATT
*
96070623 TTTTATTTTATTTTA
1 TTTTATATTATTTTA
96070638 TTTTATATTATTTTA
1 TTTTATATTATTTTA
* *
96070653 TTTAATATCATTTT
1 TTTTATATTATTTT
96070667 TATAATACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTATATTATTTTA
Found at i:96074371 original size:37 final size:37
Alignment explanation
Indices: 96074321--96074396 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
96074311 TTTTACTTTC
*
96074321 ATATTTTTATTCAAGTAAATATGGTAACAAGTTATTA
1 ATATTTTCATTCAAGTAAATATGGTAACAAGTTATTA
96074358 ATATTTTCATTCAAGTAAATATGGTAACAAGTTATTA
1 ATATTTTCATTCAAGTAAATATGGTAACAAGTTATTA
96074395 AT
1 AT
96074397 GTTATTTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.42
Consensus pattern (37 bp):
ATATTTTCATTCAAGTAAATATGGTAACAAGTTATTA
Found at i:96084422 original size:21 final size:21
Alignment explanation
Indices: 96084398--96084438 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
96084388 TGTAAATATT
96084398 CTCATAGATTAATAAAGTACA
1 CTCATAGATTAATAAAGTACA
* *
96084419 CTCATTGATTTATAAAGTAC
1 CTCATAGATTAATAAAGTAC
96084439 GCTATCTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (21 bp):
CTCATAGATTAATAAAGTACA
Found at i:96087935 original size:12 final size:12
Alignment explanation
Indices: 96087918--96087948 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
96087908 TTTGTCAGAA
*
96087918 GCACCACATTAT
1 GCACCACACTAT
96087930 GCACCACACTAT
1 GCACCACACTAT
96087942 GCACCAC
1 GCACCAC
96087949 CGCAACATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.42, G:0.10, T:0.16
Consensus pattern (12 bp):
GCACCACACTAT
Found at i:96088316 original size:24 final size:24
Alignment explanation
Indices: 96088267--96088346 Score: 117
Period size: 24 Copynumber: 3.3 Consensus size: 24
96088257 GATGGAGACA
* *
96088267 AAGATGAAGATGA-GTGTGGAGCTG
1 AAGATGAAGATGATG-GTCGAGATG
96088291 AAGATGAAGATGATGGTCGAGATG
1 AAGATGAAGATGATGGTCGAGATG
*
96088315 AAGATGAAGACGATGGTCGAGATG
1 AAGATGAAGATGATGGTCGAGATG
96088339 AAGATGAA
1 AAGATGAA
96088347 TACAGGGGTC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
24 51 0.98
25 1 0.02
ACGTcount: A:0.39, C:0.05, G:0.38, T:0.19
Consensus pattern (24 bp):
AAGATGAAGATGATGGTCGAGATG
Found at i:96088356 original size:24 final size:24
Alignment explanation
Indices: 96088267--96088368 Score: 107
Period size: 24 Copynumber: 4.2 Consensus size: 24
96088257 GATGGAGACA
* * * *
96088267 AAGATGAAGATGAGTGTGGAGCTG
1 AAGATGAAGACGAGGGTCGAGATG
* *
96088291 AAGATGAAGATGATGGTCGAGATG
1 AAGATGAAGACGAGGGTCGAGATG
*
96088315 AAGATGAAGACGATGGTCGAGATG
1 AAGATGAAGACGAGGGTCGAGATG
* *
96088339 AAGATGAATAC-AGGGGTCGAGGTG
1 AAGATGAAGACGA-GGGTCGAGATG
96088363 AAGATG
1 AAGATG
96088369 GAGAAGATGA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
23 1 0.01
24 68 0.99
ACGTcount: A:0.36, C:0.06, G:0.39, T:0.19
Consensus pattern (24 bp):
AAGATGAAGACGAGGGTCGAGATG
Found at i:96090514 original size:34 final size:35
Alignment explanation
Indices: 96090471--96090548 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 35
96090461 TTTTAAGGTT
*
96090471 TTTA-GGTTTAGGGTTTTGCTAAAATAA-TATA-AG
1 TTTAGGGTTTAAGGTTTTGCTAAAATAAGT-TAGAG
* * *
96090504 TTTAGGGTTTAAGTTTTTGTTAAAATAAGTTAGGG
1 TTTAGGGTTTAAGGTTTTGCTAAAATAAGTTAGAG
96090539 TTTAGGGTTT
1 TTTAGGGTTT
96090549 TAATGAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 4 0.11
34 22 0.58
35 12 0.32
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.46
Consensus pattern (35 bp):
TTTAGGGTTTAAGGTTTTGCTAAAATAAGTTAGAG
Found at i:96090631 original size:34 final size:34
Alignment explanation
Indices: 96090585--96090654 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
96090575 TTTAGTATTA
* *
96090585 TTTTATAAAAATTAATTAAATTAAGGTTTATGGT
1 TTTTATAAAAATTAAGTAAATTAAGGTTTAGGGT
*
96090619 TTTTA-AATAAATTAAGTAAATTAGGGTTTAGGGT
1 TTTTATAA-AAATTAAGTAAATTAAGGTTTAGGGT
96090653 TT
1 TT
96090655 AAGGTTTAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 2 0.06
34 30 0.94
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.46
Consensus pattern (34 bp):
TTTTATAAAAATTAAGTAAATTAAGGTTTAGGGT
Found at i:96090651 original size:7 final size:7
Alignment explanation
Indices: 96090643--96090688 Score: 83
Period size: 7 Copynumber: 6.6 Consensus size: 7
96090633 AGTAAATTAG
*
96090643 GGTTTAG
1 GGTTTAA
96090650 GGTTTAA
1 GGTTTAA
96090657 GGTTTAA
1 GGTTTAA
96090664 GGTTTAA
1 GGTTTAA
96090671 GGTTTAA
1 GGTTTAA
96090678 GGTTTAA
1 GGTTTAA
96090685 GGTT
1 GGTT
96090689 AAAATTAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (7 bp):
GGTTTAA
Found at i:96094580 original size:18 final size:18
Alignment explanation
Indices: 96094554--96094596 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
96094544 GATTGAAAAA
*
96094554 AGGAAACATATAAGGGTT
1 AGGAAACATATAAGGGCT
*
96094572 AGGATACATATAAGGGCT
1 AGGAAACATATAAGGGCT
96094590 AGGAAAC
1 AGGAAAC
96094597 GCATCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGAAACATATAAGGGCT
Found at i:96095193 original size:7 final size:7
Alignment explanation
Indices: 96095181--96095205 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
96095171 TTATAGACAT
96095181 AATACTA
1 AATACTA
96095188 AATACTA
1 AATACTA
96095195 AATACTA
1 AATACTA
96095202 AATA
1 AATA
96095206 TGAAATGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:96096194 original size:18 final size:18
Alignment explanation
Indices: 96096173--96096256 Score: 52
Period size: 18 Copynumber: 4.7 Consensus size: 18
96096163 ATAAACGAAA
96096173 AAAATATTAAATAATATT
1 AAAATATTAAATAATATT
* *
96096191 AAAAAATTAAA-ATTAATT
1 AAAATATTAAATAAT-ATT
*
96096209 AAAATGACATAAATGAA-A--
1 AAAAT-A-TTAAAT-AATATT
*
96096227 AAAATATTAAACAATATT
1 AAAATATTAAATAATATT
96096245 CAAAA-ATTAAAT
1 -AAAATATTAAAT
96096257 TTAACCCTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 18
0.65 0.11 0.24
Matches are distributed among these distances:
15 2 0.04
16 5 0.10
17 3 0.06
18 28 0.57
19 5 0.10
20 5 0.10
22 1 0.02
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAATATTAAATAATATT
Found at i:96096207 original size:54 final size:54
Alignment explanation
Indices: 96096149--96096260 Score: 179
Period size: 54 Copynumber: 2.1 Consensus size: 54
96096139 AAAATACAAG
* *
96096149 TTAATTAAAATTACATAAACGAAAAAAATATTAAATAATATTAAAAAATTAAAA
1 TTAATTAAAATGACATAAACGAAAAAAATATTAAACAATATTAAAAAATTAAAA
* * *
96096203 TTAATTAAAATGACATAAATGAAAAAAATATTAAACAATATTCAAAAATTAAAT
1 TTAATTAAAATGACATAAACGAAAAAAATATTAAACAATATTAAAAAATTAAAA
96096257 TTAA
1 TTAA
96096261 CCCTTACCAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.30
Consensus pattern (54 bp):
TTAATTAAAATGACATAAACGAAAAAAATATTAAACAATATTAAAAAATTAAAA
Found at i:96096443 original size:21 final size:21
Alignment explanation
Indices: 96096399--96096459 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
96096389 AAATAACTAA
* *
96096399 TTAAAGAGAACTTTGAGAAAT
1 TTAAAGAGAAATTTGAGAGAT
* *
96096420 TTAATGAGAAATTTGAGAGCT
1 TTAAAGAGAAATTTGAGAGAT
** *
96096441 TTAGGGAGAAATTTTAGAG
1 TTAAAGAGAAATTTGAGAG
96096460 TTTTTTTTAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.31
Consensus pattern (21 bp):
TTAAAGAGAAATTTGAGAGAT
Found at i:96102623 original size:30 final size:31
Alignment explanation
Indices: 96102557--96102621 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
96102547 TTTTTCTAGG
**
96102557 TTTTAAGGGTCTAAAATTTTTTTTACCAACT
1 TTTTAAGGACCTAAAATTTTTTTTACCAACT
96102588 TTTTAAGGACCTAAAATTTTTTTCT-CCAACT
1 TTTTAAGGACCTAAAATTTTTTT-TACCAACT
96102619 TTT
1 TTT
96102622 AAAAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (31 bp):
TTTTAAGGACCTAAAATTTTTTTTACCAACT
Found at i:96102634 original size:31 final size:31
Alignment explanation
Indices: 96102568--96102635 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
96102558 TTTAAGGGTC
* ** *
96102568 TAAAATTTTTTTTACCAACTTTTTAAGGACC
1 TAAAATTTTTTTTACCAACTTTTAAAAAACA
*
96102599 TAAAATTTTTTTCT-CCAACTTTTAAAAAATA
1 TAAAATTTTTTT-TACCAACTTTTAAAAAACA
96102630 TAAAAT
1 TAAAAT
96102636 CCCATTTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.44
Consensus pattern (31 bp):
TAAAATTTTTTTTACCAACTTTTAAAAAACA
Found at i:96104220 original size:30 final size:30
Alignment explanation
Indices: 96104164--96104264 Score: 123
Period size: 30 Copynumber: 3.4 Consensus size: 30
96104154 GAGCCCAAAC
* * *
96104164 ACAAGCCC-AAATACCTTAGACCCGTTACA
1 ACAAACCCAAAATAGCTCAGACCCGTTACA
* *
96104193 GCAAACCCAAAATAGCTCAGACTCGTTACA
1 ACAAACCCAAAATAGCTCAGACCCGTTACA
*
96104223 ACAAACCCAAAATAGCTCAGACCCGTTATA
1 ACAAACCCAAAATAGCTCAGACCCGTTACA
*
96104253 CACACACCCAAA
1 -ACAAACCCAAA
96104265 CAGACCGGTT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 6 0.10
30 45 0.74
31 10 0.16
ACGTcount: A:0.42, C:0.34, G:0.10, T:0.15
Consensus pattern (30 bp):
ACAAACCCAAAATAGCTCAGACCCGTTACA
Found at i:96105613 original size:21 final size:20
Alignment explanation
Indices: 96105589--96105707 Score: 61
Period size: 21 Copynumber: 6.0 Consensus size: 20
96105579 ATATTTTAAC
* *
96105589 TTATATATCTTATATATTTAT
1 TTATATATATTATACA-TTAT
*
96105610 TTATTTATATTATACATTAT
1 TTATATATATTATACATTAT
* * * *
96105630 TT-TAAAAACT-TACATTTT
1 TTATATATATTATACATTAT
*
96105648 TATATTATATATTATAAATTAT
1 T-TA-TATATATTATACATTAT
*
96105670 TTCAT-T-TATTAT-TATT-T
1 TT-ATATATATTATACATTAT
*
96105687 TTATATACTATTATATATTAT
1 TTATATA-TATTATACATTAT
96105708 CTATTTTAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 20
0.69 0.13 0.19
Matches are distributed among these distances:
16 2 0.03
17 4 0.05
18 11 0.15
19 17 0.23
20 11 0.15
21 21 0.28
22 8 0.11
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATATATATTATACATTAT
Found at i:96109658 original size:14 final size:16
Alignment explanation
Indices: 96109639--96109675 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
96109629 CGATATCCTT
96109639 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
96109653 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
96109669 TTT-CATC
1 TTTGCATC
96109676 ACATCGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:96109675 original size:15 final size:15
Alignment explanation
Indices: 96109639--96109688 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
96109629 CGATATCCTT
96109639 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
96109653 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
* *
96109669 TTT-CATCACAT-CG
1 TTTGCATCTCATGCA
96109682 TTTGCAT
1 TTTGCAT
96109689 TCAAAGAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 11 0.35
16 6 0.19
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:96118030 original size:205 final size:205
Alignment explanation
Indices: 96117678--96118146 Score: 665
Period size: 205 Copynumber: 2.3 Consensus size: 205
96117668 TAGGCCGCAG
* * * * * * *
96117678 CATAGCAGATCTCATCTTCAGATGTTTATG-CTGAAGCAGATCCAGGATGGTTTGGTATCCTTGT
1 CATAGCAGATCTCACCTTCAGACGATTA-GACTAAAGCAGATCCAAGATGATTTGGCATCCTTGT
* *
96117742 GCTTACGAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACACTAAAACAAATC
65 GCTTACAAAGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACACTAAAACAAATC
* * *
96117807 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCATTTCAATG
130 TAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACG
96117872 GAGAGCAGACA
195 GAGAGCAGACA
* *
96117883 CATAGCA-ATCTGACCTTCAGACGATTAGACTAAAGCAAGATCCAAGATGATCTGGCATCCTTGT
1 CATAGCAGATCTCACCTTCAGACGATTAGACTAAAGC-AGATCCAAGATGATTTGGCATCCTTGT
* * * * *
96117947 GTTTACAAAGAACAAATCGGAGACATAGTTTATTTGGCTTTCACGTGTTTACGA-TGAAACAAAT
65 GCTTACAAAGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTAC-ACTAAAACAAAT
96118011 CTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAAC
129 CTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAAC
* *
96118076 GGTGAGCAGATA
194 GGAGAGCAGACA
* * * *
96118088 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATC
1 CATAGCAGATCTCACCTTCAGACGATTAGACTAAAGCAGATCCAAGATGATTTGGCATC
96118147 TCTGTATTGT
Statistics
Matches: 233, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
203 1 0.00
204 22 0.09
205 185 0.79
206 25 0.11
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (205 bp):
CATAGCAGATCTCACCTTCAGACGATTAGACTAAAGCAGATCCAAGATGATTTGGCATCCTTGTG
CTTACAAAGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACACTAAAACAAATCT
AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
AGAGCAGACA
Found at i:96118177 original size:118 final size:118
Alignment explanation
Indices: 96118013--96118265 Score: 470
Period size: 118 Copynumber: 2.1 Consensus size: 118
96118003 AAACAAATCT
96118013 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
1 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
*
96118078 TGAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCC
66 GGAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCC
*
96118131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
1 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
*
96118196 GGAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATTC
66 GGAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCC
*
96118249 AAGATGATTTAGCATCT
1 AAGATGATTTGGCATCT
96118266 TTGTGCTTAC
Statistics
Matches: 131, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 131 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (118 bp):
AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
GGAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCC
Found at i:96118352 original size:323 final size:324
Alignment explanation
Indices: 96117808--96118465 Score: 998
Period size: 323 Copynumber: 2.0 Consensus size: 324
96117798 AAACAAATCT
* *
96117808 AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCATTTCAATGG
1 AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
* *
96117873 AGAGCAGACACATAGCAATCTGACCTTCAGACGATTAGACTAAAGCAAGATCCAAGATGATCTGG
66 AGAGCAGACACATAGCAATCTCACCTTCAGACGATTAGACTAAAGCAAGATCCAAGATGATCTAG
* * * *
96117938 CATCCTTGTGTTTACAAAGAACAAATCGGAGACATAGTTTATTTGGCTTTCACGTGTTTACGATG
131 CATCCTTGTGCTTACAAAGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATG
* *
96118003 AAACAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCC
196 AAACAAATCTAAGATGATTTGGCATCTCTGTATTAGCAGAGAGCAAATCGAAGTCTAGCATCTCC
* * * * *
96118068 ACTTCAACGGTGAGCAGATACATAGCAGATCTCACCTTCAGAT-GTTTATACTGAAGC-AGATCC
261 ACTTCAACGGGGAGCAAATACATAGCAGACCTCACCTTCAGATAATTT-CACTGAAGCAAGATCC
96118131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
1 AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
* * * * * * * *
96118196 GGAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGC-AGATTCAAGATGATTTA
66 AGAGCAGACACATAGCA-ATCTCACCTTCAGACGATTAGACTAAAGCAAGATCCAAGATGATCTA
* * * *
96118260 GCATCTTTGTGCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGAT
130 GCATCCTTGTGCTTACAAAGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGAT
* * * *
96118325 GAAGCAAATCTAGGATGATTTGGCATCTCTGTATTATCAGAGAGCAAATCGAAGTCTAGCATCTT
195 GAAACAAATCTAAGATGATTTGGCATCTCTGTATTAGCAGAGAGCAAATCGAAGTCTAGCATCTC
96118390 CACTTCAACGGGGAGCAAATACATAGCAGACCTCACCTTCAGATAATTTCACTGAAGCAAGATCC
260 CACTTCAACGGGGAGCAAATACATAGCAGACCTCACCTTCAGATAATTTCACTGAAGCAAGATCC
96118455 AAGATGATTTG
1 AAGATGATTTG
96118466 ATACTCTTAT
Statistics
Matches: 301, Mismatches: 31, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
323 257 0.85
324 44 0.15
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (324 bp):
AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
AGAGCAGACACATAGCAATCTCACCTTCAGACGATTAGACTAAAGCAAGATCCAAGATGATCTAG
CATCCTTGTGCTTACAAAGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATG
AAACAAATCTAAGATGATTTGGCATCTCTGTATTAGCAGAGAGCAAATCGAAGTCTAGCATCTCC
ACTTCAACGGGGAGCAAATACATAGCAGACCTCACCTTCAGATAATTTCACTGAAGCAAGATCC
Found at i:96118821 original size:30 final size:30
Alignment explanation
Indices: 96118781--96118889 Score: 191
Period size: 30 Copynumber: 3.6 Consensus size: 30
96118771 ACACAAGCCC
*
96118781 AAATACCTCAGACCCGTTACAGCAAACCCA
1 AAATAGCTCAGACCCGTTACAGCAAACCCA
*
96118811 AAATAGCTCAGACCCGTTACAACAAACCCA
1 AAATAGCTCAGACCCGTTACAGCAAACCCA
96118841 AAATAGCTCAGACCCGTTACAGCAAACCCA
1 AAATAGCTCAGACCCGTTACAGCAAACCCA
*
96118871 AAATAGCCCAGACCCGTTA
1 AAATAGCTCAGACCCGTTA
96118890 TACACACACC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 75 1.00
ACGTcount: A:0.40, C:0.34, G:0.12, T:0.14
Consensus pattern (30 bp):
AAATAGCTCAGACCCGTTACAGCAAACCCA
Found at i:96118870 original size:60 final size:61
Alignment explanation
Indices: 96118771--96118903 Score: 207
Period size: 60 Copynumber: 2.2 Consensus size: 61
96118761 AAGAGCCCAA
* *
96118771 ACACAAGCCC-AAATACCTCAGACCCGTTACAGCAAACCCAAAATAGCTCAGACCCGTTAC
1 ACACAAACCCAAAATACCTCAGACCCGTTACAGCAAACCCAAAATAGCCCAGACCCGTTAC
* *
96118831 A-ACAAACCCAAAATAGCTCAGACCCGTTACAGCAAACCCAAAATAGCCCAGACCCGTTAT
1 ACACAAACCCAAAATACCTCAGACCCGTTACAGCAAACCCAAAATAGCCCAGACCCGTTAC
*
96118891 ACACACACCCAAA
1 ACACAAACCCAAA
96118904 CAGACCGGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
59 7 0.11
60 49 0.74
61 10 0.15
ACGTcount: A:0.41, C:0.36, G:0.11, T:0.12
Consensus pattern (61 bp):
ACACAAACCCAAAATACCTCAGACCCGTTACAGCAAACCCAAAATAGCCCAGACCCGTTAC
Found at i:96120266 original size:21 final size:20
Alignment explanation
Indices: 96120242--96120360 Score: 61
Period size: 21 Copynumber: 6.0 Consensus size: 20
96120232 ATATTTTAAC
* *
96120242 TTATATATCTTATATATTTAT
1 TTATATATATTATACA-TTAT
*
96120263 TTATTTATATTATACATTAT
1 TTATATATATTATACATTAT
* * * *
96120283 TT-TAAAAACT-TACATTTT
1 TTATATATATTATACATTAT
*
96120301 TATATTATATATTATAAATTAT
1 T-TA-TATATATTATACATTAT
*
96120323 TTCAT-T-TATTAT-TATT-T
1 TT-ATATATATTATACATTAT
*
96120340 TTATATACTATTATATATTAT
1 TTATATA-TATTATACATTAT
96120361 CTATTTTAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 20
0.69 0.13 0.19
Matches are distributed among these distances:
16 2 0.03
17 4 0.05
18 11 0.15
19 17 0.23
20 11 0.15
21 21 0.28
22 8 0.11
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATATATATTATACATTAT
Found at i:96124096 original size:37 final size:37
Alignment explanation
Indices: 96124055--96124128 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
96124045 AACTCCGATA
*
96124055 ATTCTGTCAGGCCATTTTGAGTGGCTATTGTAATCTT
1 ATTCTGTCAGGCCATTTTGAGTGGCTATTATAATCTT
*
96124092 ATTCTGTTAGGCCATTTTGAGTGGCTATTATAATCTT
1 ATTCTGTCAGGCCATTTTGAGTGGCTATTATAATCTT
96124129 TCGAATTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45
Consensus pattern (37 bp):
ATTCTGTCAGGCCATTTTGAGTGGCTATTATAATCTT
Found at i:96125251 original size:19 final size:20
Alignment explanation
Indices: 96125227--96125267 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
96125217 ATGAATCAAA
96125227 TTATTTTTT-AAATTATATT
1 TTATTTTTTAAAATTATATT
*
96125246 TTATTTTTTAAAATTTTATT
1 TTATTTTTTAAAATTATATT
96125266 TT
1 TT
96125268 TAAACAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTATTTTTTAAAATTATATT
Found at i:96127780 original size:128 final size:129
Alignment explanation
Indices: 96127593--96127832 Score: 385
Period size: 128 Copynumber: 1.9 Consensus size: 129
96127583 AACTCAATCA
96127593 AGAGTTATATAGATAATATATTTATATAAAAAATTAGGTAAAGCTTTGGTTGAAATAATAATGTT
1 AGAGTTATATAGATAATATATTTATATAAAAAATTAGGTAAAGCTTTGGTTGAAATAATAATGTT
*
96127658 AAAAACTTAAAAATCCTAATGTCTTGAAT-TCAAATATGATCATATAAAACTCAATCGGGAGACG
66 AAAAACTTAAAAATCCTAATGTCTTAAATAT-AAATATGATCATATAAAACTCAATCGGGAGACG
* *
96127722 AGAGTTTTATAGATAATATATTTATAT-AAAAATTAGTTAAAGCTTTGGTTGAAATAATAATGTT
1 AGAGTTATATAGATAATATATTTATATAAAAAATTAGGTAAAGCTTTGGTTGAAATAATAATGTT
* * * * *
96127786 AAAAGCTTAAAATTTCTAATGTCTTAAATATTAATATGATTATATAA
66 AAAAACTTAAAAATCCTAATGTCTTAAATATAAATATGATCATATAA
96127833 CTTTTATATT
Statistics
Matches: 102, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
128 75 0.74
129 27 0.26
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (129 bp):
AGAGTTATATAGATAATATATTTATATAAAAAATTAGGTAAAGCTTTGGTTGAAATAATAATGTT
AAAAACTTAAAAATCCTAATGTCTTAAATATAAATATGATCATATAAAACTCAATCGGGAGACG
Found at i:96128816 original size:14 final size:15
Alignment explanation
Indices: 96128797--96128829 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
96128787 TAAGTAAAAA
96128797 ATAATATA-AAATTT
1 ATAATATATAAATTT
*
96128811 ATAATATATAACTTT
1 ATAATATATAAATTT
96128826 ATAA
1 ATAA
96128830 AAAAAAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATATATAAATTT
Found at i:96130950 original size:10 final size:11
Alignment explanation
Indices: 96130902--96130954 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
96130892 AAATGGTAAT
*
96130902 AAAATAAAAAG
1 AAAATAACAAG
*
96130913 AAAACAACAAG
1 AAAATAACAAG
**
96130924 AAAATAACATT
1 AAAATAACAAG
96130935 AAAATAACAA-
1 AAAATAACAAG
96130945 AAAATAACAA
1 AAAATAACAA
96130955 TTTTTTGTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
10 10 0.28
11 26 0.72
ACGTcount: A:0.75, C:0.09, G:0.04, T:0.11
Consensus pattern (11 bp):
AAAATAACAAG
Found at i:96130950 original size:21 final size:22
Alignment explanation
Indices: 96130913--96130953 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
96130903 AAATAAAAAG
96130913 AAAACAACAAGAAAATAACATT
1 AAAACAACAAGAAAATAACATT
*
96130935 AAAATAACAA-AAAATAACA
1 AAAACAACAAGAAAATAACA
96130954 ATTTTTTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.73, C:0.12, G:0.02, T:0.12
Consensus pattern (22 bp):
AAAACAACAAGAAAATAACATT
Found at i:96140476 original size:40 final size:40
Alignment explanation
Indices: 96140411--96140505 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
96140401 CCATCTCCGT
* * * *
96140411 CCAACCCAACACACC-A-TGTGGGGATAAAATCGACCTAC
1 CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
* * *
96140449 CCAGCCTTACACACCAAGTATGGGGATAAAATCAACCCAT
1 CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
96140489 CCAACCCTACACACCAA
1 CCAACCCTACACACCAA
96140506 ATGGTACAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
38 12 0.26
39 1 0.02
40 33 0.72
ACGTcount: A:0.38, C:0.36, G:0.13, T:0.14
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
Found at i:96145887 original size:19 final size:18
Alignment explanation
Indices: 96145871--96145919 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 18
96145861 TAATTTATCC
96145871 ATTTTTATTTTTATTATA
1 ATTTTTATTTTTATTATA
96145889 ATTTTTATTTTT-TTAGTTTA
1 ATTTTTATTTTTATTA---TA
96145909 ATTTTTATTTT
1 ATTTTTATTTT
96145920 CTAATTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.11
18 12 0.43
20 13 0.46
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (18 bp):
ATTTTTATTTTTATTATA
Found at i:96145903 original size:20 final size:20
Alignment explanation
Indices: 96145878--96145919 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
96145868 TCCATTTTTA
96145878 TTTTTA-TTATAATTTTTATT
1 TTTTTAGTT-TAATTTTTATT
96145898 TTTTTAGTTTAATTTTTATT
1 TTTTTAGTTTAATTTTTATT
96145918 TT
1 TT
96145920 CTAATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTTAGTTTAATTTTTATT
Found at i:96149085 original size:20 final size:21
Alignment explanation
Indices: 96149062--96149100 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
96149052 AAAATAAGTA
96149062 ATATAATAAAAA-TATATAAC
1 ATATAATAAAAATTATATAAC
96149082 ATATAATAAAAATTATATA
1 ATATAATAAAAATTATATA
96149101 TATAATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATAATAAAAATTATATAAC
Found at i:96149105 original size:18 final size:17
Alignment explanation
Indices: 96149044--96149106 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 17
96149034 TACATATAAA
*
96149044 AATATAAT-AAAATAAGT
1 AATATAATAAAAATTA-T
96149061 AATATAATAAAAATATAT
1 AATATAATAAAAAT-TAT
96149079 AACATATAATAAAAATTAT
1 -A-ATATAATAAAAATTAT
96149098 ATATATAAT
1 A-ATATAAT
96149107 GTTACAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.20
18 14 0.35
19 5 0.12
20 13 0.32
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AATATAATAAAAATTAT
Found at i:96155328 original size:40 final size:40
Alignment explanation
Indices: 96155284--96155389 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
96155274 CAGATAGAGT
*
96155284 ATTAGCGGTGCTTTTTAAAAAACACCACTATAGGTCGAGC
1 ATTAGCGGTGCTTTTTAAAAAACACCACTATAGGTCGACC
* * ** **
96155324 ATTAGCGGCGCTTCTTAAAAAATGCTGCTATAGGTCGACC
1 ATTAGCGGTGCTTTTTAAAAAACACCACTATAGGTCGACC
*
96155364 ATTAGCGGTGCTTTTTGAAAAACACC
1 ATTAGCGGTGCTTTTTAAAAAACACC
96155390 GCAAAAAAAT
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (40 bp):
ATTAGCGGTGCTTTTTAAAAAACACCACTATAGGTCGACC
Found at i:96155563 original size:40 final size:41
Alignment explanation
Indices: 96155449--96155563 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 41
96155439 ATTAGTGGGG
* *
96155449 TTTTTAAAAAACGCCATTATAGACTGAA-CATTAGCGGAGA
1 TTTTTAAAAAACGCCACTATAGACTCAAGCATTAGCGGAGA
* * * * * *
96155489 TTTTTAAAAAACGCCGCTATA-AGTCGAGCGTTAGCGGCGC
1 TTTTTAAAAAACGCCACTATAGACTCAAGCATTAGCGGAGA
* *
96155529 TTTTTTAAAAATGCCACTATAGA-TCAAGCATTAGC
1 TTTTTAAAAAACGCCACTATAGACTCAAGCATTAGC
96155564 CTTTTTGAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
39 3 0.05
40 56 0.93
41 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (41 bp):
TTTTTAAAAAACGCCACTATAGACTCAAGCATTAGCGGAGA
Found at i:96155628 original size:190 final size:191
Alignment explanation
Indices: 96155284--96155633 Score: 513
Period size: 194 Copynumber: 1.8 Consensus size: 191
96155274 CAGATAGAGT
* * *
96155284 ATTAGCGGTGCTTTTTAAAAAACACCACTATAGGTCGAGCATTAGCGGCGCTTCTTAAAAAATGC
1 ATTAGCGGAGATTTTTAAAAAACACCACTATAAGTCGAGCATTAGCGGCGCTTCTTAAAAAATGC
** * * *
96155349 TGCTATAGGTCGACCATTAGCGGTGCTTTTTGAAAAACACCGCAAAAAAATTAAGCACAACGCCG
66 CACTATAGATCAACCATTAGC---GCTTTTTGAAAAACACCGCAAAAAAATTAACCACAACGCCG
96155414 TCGTTTTATGTTGAGCTTTAGTGGCATTAGTGGGGTTTTTAAAAAACGCCATTATAGACTGAAC
128 TCGTTTTATGTTGAGCTTTAGTGGCATTAGTGGGGTTTTTAAAAAACGCCATTATAGACTGAAC
* * * * *
96155478 ATTAGCGGAGATTTTTAAAAAACGCCGCTATAAGTCGAGCGTTAGCGGCGCTTTTTTAAAAATGC
1 ATTAGCGGAGATTTTTAAAAAACACCACTATAAGTCGAGCATTAGCGGCGCTTCTTAAAAAATGC
* * * *
96155543 CACTATAGATCAAGCATTAGC-CTTTTTGAAAAACGCCGCAAAGAAATTAACCACAACGCTGTCG
66 CACTATAGATCAACCATTAGCGCTTTTTGAAAAACACCGCAAAAAAATTAACCACAACGCCGTCG
96155607 TTTTATGTTGAGCTTTAGTGGCATTAG
131 TTTTATGTTGAGCTTTAGTGGCATTAG
96155634 CGGCTGATAA
Statistics
Matches: 139, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
190 66 0.47
194 73 0.53
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (191 bp):
ATTAGCGGAGATTTTTAAAAAACACCACTATAAGTCGAGCATTAGCGGCGCTTCTTAAAAAATGC
CACTATAGATCAACCATTAGCGCTTTTTGAAAAACACCGCAAAAAAATTAACCACAACGCCGTCG
TTTTATGTTGAGCTTTAGTGGCATTAGTGGGGTTTTTAAAAAACGCCATTATAGACTGAAC
Found at i:96156708 original size:16 final size:16
Alignment explanation
Indices: 96156687--96156717 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96156677 TATTTCATCT
*
96156687 ATTTTCTTTTGTTTTG
1 ATTTTCTTTTATTTTG
96156703 ATTTTCTTTTATTTT
1 ATTTTCTTTTATTTT
96156718 TTTATTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.06, T:0.77
Consensus pattern (16 bp):
ATTTTCTTTTATTTTG
Found at i:96157571 original size:25 final size:25
Alignment explanation
Indices: 96157543--96157591 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
96157533 TCGCTTACCC
96157543 TTTCATGTTA-TTTATTTAGTTATTG
1 TTTC-TGTTATTTTATTTAGTTATTG
*
96157568 TTTCTGTTATTTTATTTATTTATT
1 TTTCTGTTATTTTATTTAGTTATT
96157592 AATTCTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.18, C:0.04, G:0.08, T:0.69
Consensus pattern (25 bp):
TTTCTGTTATTTTATTTAGTTATTG
Found at i:96157597 original size:25 final size:24
Alignment explanation
Indices: 96157548--96157597 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
96157538 TACCCTTTCA
**
96157548 TGTTATTTATTTAGTTATTGTTTC
1 TGTTATTTATTTAGTTATTAATTC
*
96157572 TGTTATTTTATTTATTTATTAATTC
1 TGTTA-TTTATTTAGTTATTAATTC
96157597 T
1 T
96157598 ATTCTTAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.20, C:0.04, G:0.08, T:0.68
Consensus pattern (24 bp):
TGTTATTTATTTAGTTATTAATTC
Found at i:96158385 original size:3 final size:3
Alignment explanation
Indices: 96158371--96158402 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
96158361 TATTGTTTCC
*
96158371 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
96158403 CTATGCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:96160926 original size:7 final size:7
Alignment explanation
Indices: 96160907--96161012 Score: 63
Period size: 7 Copynumber: 15.0 Consensus size: 7
96160897 AGCCCTTAAT
96160907 CCCTAAA
1 CCCTAAA
*
96160914 CTCTAAA
1 CCCTAAA
* *
96160921 GCCTAAT
1 CCCTAAA
96160928 CCCTAAA
1 CCCTAAA
*
96160935 -CCTTAA
1 CCCTAAA
96160941 CACCTAAA
1 C-CCTAAA
96160949 CCCTAAA
1 CCCTAAA
**
96160956 ATCTAAA
1 CCCTAAA
* *
96160963 GCCTAAC
1 CCCTAAA
96160970 CCCTAAA
1 CCCTAAA
*
96160977 TCCT-AA
1 CCCTAAA
*
96160983 CCCATGAA
1 CCC-TAAA
**
96160991 CTGTAAA
1 CCCTAAA
96160998 CCCTTAAA
1 CCC-TAAA
96161006 CCCTAAA
1 CCCTAAA
96161013 ACCTTAAACT
Statistics
Matches: 72, Mismatches: 22, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
6 9 0.12
7 47 0.65
8 16 0.22
ACGTcount: A:0.41, C:0.35, G:0.04, T:0.21
Consensus pattern (7 bp):
CCCTAAA
Found at i:96160927 original size:21 final size:21
Alignment explanation
Indices: 96160903--96160976 Score: 89
Period size: 21 Copynumber: 3.5 Consensus size: 21
96160893 TTTCAGCCCT
96160903 TAATCCCTAAACTCTAAAGCC
1 TAATCCCTAAACTCTAAAGCC
96160924 TAATCCCTAAAC-CTTAACA-CC
1 TAATCCCTAAACTC-TAA-AGCC
* *
96160945 TAAACCCTAAAATCTAAAGCC
1 TAATCCCTAAACTCTAAAGCC
*
96160966 TAACCCCTAAA
1 TAATCCCTAAA
96160977 TCCTAACCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
20 2 0.04
21 42 0.91
22 2 0.04
ACGTcount: A:0.42, C:0.34, G:0.03, T:0.22
Consensus pattern (21 bp):
TAATCCCTAAACTCTAAAGCC
Found at i:96162043 original size:261 final size:261
Alignment explanation
Indices: 96161622--96162129 Score: 759
Period size: 261 Copynumber: 1.9 Consensus size: 261
96161612 ACGTTTGGCC
** * *
96161622 TTGTTATTAGTGGCGTTTCGCTAAAAAACGCTGCAAAATGTGTTAAGTGTTAGCAAAATGGCGCT
1 TTGTTATTAGTGGCGTTTCGC-AAAAAACGCCACAAAATGTGTTAAGTGTTAGCAAAACGACGCT
* ** *
96161687 GTTTTATTCTTTGTATTTAGTGGTGCTTTTATAAAACGCCACAAATGTGTATTATGAGTCCATAA
65 GTTTTATTCTTTGTATTTAGTGGCGCTTCCATAAAACGCCACAAATGTGTATTACGAGTCCATAA
** * * * *
96161752 AATGATGCCGTTTTATCCTTTTTGTTAGTGGCATTTTGTCCAAAACGTCGCAATAGGCTATGCAT
130 AATGACACCGTTTTATCCGTGTTATTAGTGGCATTTTGTCCAAAACGCCGCAATAGGCTATGCAT
* **
96161817 TATCGGCGTTTTAGCCAAAAACGCCGCAAATATGTGTTAGGTGTTAGTAAAACGACACCATTTAT
195 TACCGGCGTTTTAGCCAAAAACGCAACAAATATGTGTTAGGTGTTAGTAAAACGACACCATTTAT
96161882 CG
260 CG
*
96161884 TTGTTATTAGTGGCGTTTTC-C-AAAAACGCCACAAATATGTGTTAAGTGTTAGCAAAACGATGC
1 TTGTTATTAGTGGCG-TTTCGCAAAAAACGCCACAAA-ATGTGTTAAGTGTTAGCAAAACGACGC
*
96161947 TGTTTTGTTCTTTGTATTTAGTGGCGCTTCCATAAAACGCCACAAATGTGTATTACGAGTCCATA
64 TGTTTTATTCTTTGTATTTAGTGGCGCTTCCATAAAACGCCACAAATGTGTATTACGAGTCCATA
**
96162012 AAATGACACCGTTTTATCCGTGTTATTAGTGGTGTTTTGTCCAAAACGCCGCAATAGGCTATGCA
129 AAATGACACCGTTTTATCCGTGTTATTAGTGGCATTTTGTCCAAAACGCCGCAATAGGCTATGCA
* * *
96162077 TTACCGGCTTTTTAGCCAAAAATGCAATAAATATGTGTTAGGTGTTAGTAAAA
194 TTACCGGCGTTTTAGCCAAAAACGCAACAAATATGTGTTAGGTGTTAGTAAAA
96162130 TGGCGCCATT
Statistics
Matches: 220, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
260 12 0.05
261 188 0.85
262 16 0.07
263 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (261 bp):
TTGTTATTAGTGGCGTTTCGCAAAAAACGCCACAAAATGTGTTAAGTGTTAGCAAAACGACGCTG
TTTTATTCTTTGTATTTAGTGGCGCTTCCATAAAACGCCACAAATGTGTATTACGAGTCCATAAA
ATGACACCGTTTTATCCGTGTTATTAGTGGCATTTTGTCCAAAACGCCGCAATAGGCTATGCATT
ACCGGCGTTTTAGCCAAAAACGCAACAAATATGTGTTAGGTGTTAGTAAAACGACACCATTTATC
G
Found at i:96171699 original size:17 final size:17
Alignment explanation
Indices: 96171679--96171714 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
96171669 ACAATATTTA
96171679 ATTTAAATTACCTATAT
1 ATTTAAATTACCTATAT
96171696 ATTTAAATTACCTATAT
1 ATTTAAATTACCTATAT
96171713 AT
1 AT
96171715 ATAATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTTAAATTACCTATAT
Found at i:96171722 original size:22 final size:19
Alignment explanation
Indices: 96171672--96171715 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
96171662 ATTTTGTACA
*
96171672 ATATTTAATTTAAATTACC
1 ATATATAATTTAAATTACC
96171691 -TATAT-ATTTAAATTACC
1 ATATATAATTTAAATTACC
96171708 TATATATA
1 -ATATATA
96171716 TAATTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
17 12 0.57
18 4 0.19
19 5 0.24
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATATAATTTAAATTACC
Found at i:96182851 original size:17 final size:18
Alignment explanation
Indices: 96182829--96182902 Score: 66
Period size: 17 Copynumber: 4.1 Consensus size: 18
96182819 TCATTGAACC
96182829 TTCTTATTTTTTA-TTTA
1 TTCTTATTTTTTATTTTA
96182846 TTCTTA-TTTTTATTTTA
1 TTCTTATTTTTTATTTTA
96182863 TT-TTATTTATTTTAGTTTTA
1 TTCTTA-TT-TTTTA-TTTTA
* *
96182883 TTTTTCTTTTTCT-TTTTA
1 TTCTTATTTTT-TATTTTA
96182901 TT
1 TT
96182903 TTCATTTCAA
Statistics
Matches: 49, Mismatches: 1, Indels: 13
0.78 0.02 0.21
Matches are distributed among these distances:
16 9 0.18
17 12 0.24
18 8 0.16
19 8 0.16
20 10 0.20
21 2 0.04
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (18 bp):
TTCTTATTTTTTATTTTA
Found at i:96182858 original size:6 final size:6
Alignment explanation
Indices: 96182832--96182909 Score: 61
Period size: 6 Copynumber: 13.0 Consensus size: 6
96182822 TTGAACCTTC
* * * *
96182832 TTATTT TT-TAT TTATTC TTATTT TTA-TT TTATTT TATTTATT TTAGTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT T-TAT-TT TTATTT
* * *
96182880 TTATTT TTCTTT TTCTTT TTATTT TCATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
96182910 CAATTTTATT
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
5 9 0.16
6 42 0.74
7 3 0.05
8 3 0.05
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:96182863 original size:5 final size:5
Alignment explanation
Indices: 96182837--96182929 Score: 65
Period size: 5 Copynumber: 18.8 Consensus size: 5
96182827 CCTTCTTATT
96182837 TTTTA -TTTA TTCTTA TTTTTA TTTTA TTTTA -TTTA TTTTA GTTTTA
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA
* *
96182883 TTTT- TCTTT- TTCT- TTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA
1 TTTTA T-TTTA TTTTA TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA
96182926 TTTT
1 TTTT
96182930 GAAAAACATA
Statistics
Matches: 73, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
3 3 0.04
4 14 0.19
5 35 0.48
6 19 0.26
7 2 0.03
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:96182922 original size:49 final size:47
Alignment explanation
Indices: 96182832--96182929 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 47
96182822 TTGAACCTTC
* *
96182832 TTATTTTTTATTTATTCTTATTTTTATTTTATTTTATTTATTTTAGTT
1 TTATTTTTTATTTATTCTTATTTTCATTTAATTTTATTTATTTTA-TT
* * *
96182880 TTATTTTTCTTTTTCTTTTTATTTTCATTTCAATTTTA-TTATTTTATT
1 TTATTTTT-TATTTATTCTTATTTTCATTT-AATTTTATTTATTTTATT
96182928 TT
1 TT
96182930 GAAAAACATA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
48 12 0.28
49 25 0.58
50 6 0.14
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (47 bp):
TTATTTTTTATTTATTCTTATTTTCATTTAATTTTATTTATTTTATT
Found at i:96192935 original size:21 final size:21
Alignment explanation
Indices: 96192909--96192950 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
96192899 AACATATATA
*
96192909 GAATAATAA-AATAAATTAAAG
1 GAATAA-AATAATAAAATAAAG
96192930 GAATAAAATAATAAAATAAAG
1 GAATAAAATAATAAAATAAAG
96192951 AAAGAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (21 bp):
GAATAAAATAATAAAATAAAG
Found at i:96193929 original size:30 final size:30
Alignment explanation
Indices: 96193895--96193955 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
96193885 CTAGGCCGTA
* *
96193895 TGGGTTACACAGCCGTGTCGCCAGGCTGTG
1 TGGGTTACACAGCCATATCGCCAGGCTGTG
* * *
96193925 TGGGTTATACGGTCATATCGCCAGGCTGTG
1 TGGGTTACACAGCCATATCGCCAGGCTGTG
96193955 T
1 T
96193956 AACTCACTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.15, C:0.23, G:0.34, T:0.28
Consensus pattern (30 bp):
TGGGTTACACAGCCATATCGCCAGGCTGTG
Found at i:96199898 original size:46 final size:46
Alignment explanation
Indices: 96199838--96200065 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
96199828 TTTGACATGG
* * * * * * *
96199838 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
*
96199884 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
96199930 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
96199976 TGCCATAGTATCTTTCAACCATGGTCTTATACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
96200022 TGCAATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
96200066 AGAGCACACT
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 164 0.98
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:96200470 original size:26 final size:26
Alignment explanation
Indices: 96200439--96200522 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
96200429 TGATACAAAT
96200439 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
96200465 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
96200491 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
96200517 TGATAA
1 TGATAA
96200523 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:96205580 original size:29 final size:30
Alignment explanation
Indices: 96205530--96205597 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
96205520 CACCCTTAAA
* * *
96205530 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
96205560 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
96205589 AGTATTTAC
1 A-TATTTAC
96205598 TCTTAGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:96206587 original size:19 final size:19
Alignment explanation
Indices: 96206563--96206634 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
96206553 ATAATCTTCA
*
96206563 ATGATATGCAATCTTATAT
1 ATGATATGCAATCTTAGAT
96206582 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
96206599 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
96206617 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
96206635 AGATATGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 15 0.31
18 16 0.33
19 17 0.35
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:96206609 original size:35 final size:37
Alignment explanation
Indices: 96206563--96206641 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
96206553 ATAATCTTCA
*
96206563 ATGATATGCAATCTTATATATG-ATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGAATACAATCTTAGAT
96206599 ATGAT-TGCAATCTTAGATATGATATACAATCTTAGA-
1 ATGATATGCAATCTTAGATATGA-ATACAATCTTAGAT
96206635 A-GATATG
1 ATGATATG
96206642 ATTTTGTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 18 0.46
36 8 0.21
37 13 0.33
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGAATACAATCTTAGAT
Found at i:96206956 original size:12 final size:11
Alignment explanation
Indices: 96206941--96206974 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
96206931 TATTTTTAAT
96206941 TTATTATATATA
1 TTATT-TATATA
96206953 TTATTTATTATA
1 TTATTTA-TATA
96206965 TTATTTATAT
1 TTATTTATAT
96206975 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTATATA
Found at i:96206972 original size:16 final size:16
Alignment explanation
Indices: 96206939--96206969 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
96206929 CTTATTTTTA
96206939 ATTTATTATATATATT
1 ATTTATTATATATATT
96206955 ATTTATTATAT-TATT
1 ATTTATTATATATATT
96206970 TATATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATTATATATATT
Found at i:96207052 original size:24 final size:24
Alignment explanation
Indices: 96207016--96207061 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
96207006 ATATTTTAAC
* *
96207016 TTATATATCTTATATATTATTTAT
1 TTATATATATTATACATTATTTAT
*
96207040 TTATTTATATTATACATTATTT
1 TTATATATATTATACATTATTT
96207062 TAAAAACTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (24 bp):
TTATATATATTATACATTATTTAT
Found at i:96210453 original size:2 final size:2
Alignment explanation
Indices: 96210448--96210476 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
96210438 AAAGAAAGAA
96210448 AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
96210477 GGTCACGGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:96212978 original size:9 final size:9
Alignment explanation
Indices: 96212964--96212999 Score: 63
Period size: 9 Copynumber: 3.9 Consensus size: 9
96212954 TTCTATTTCA
96212964 AAAAAAAAG
1 AAAAAAAAG
96212973 AAAAAAAAG
1 AAAAAAAAG
96212982 AAAAAAAAG
1 AAAAAAAAG
96212991 AGAAAAAAA
1 A-AAAAAAA
96213000 TAAATAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.73
10 7 0.27
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:96212985 original size:14 final size:13
Alignment explanation
Indices: 96212963--96213020 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
96212953 CTTCTATTTC
96212963 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
96212976 AAAAAGAAAA-AAA
1 AAAAA-AAAAGAAA
*
96212989 AGAGAAAAAAATAAA
1 A-A-AAAAAAAGAAA
* *
96213004 TAGAAAAAAGAAA
1 AAAAAAAAAGAAA
96213017 AAAA
1 AAAA
96213021 TGGAGAGGCC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
13 20 0.56
14 10 0.28
15 6 0.17
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:96214039 original size:44 final size:44
Alignment explanation
Indices: 96213898--96214077 Score: 195
Period size: 44 Copynumber: 4.1 Consensus size: 44
96213888 CAAAGAAACA
* *
96213898 AGATTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * * * **
96213942 AGATCTGACATTCCTGTGCTTACAGTGAAGCAGATTGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* *
96213987 AGCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGAGAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
96214030 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
96214074 AGAT
1 AGAT
96214078 CTAACCTCCA
Statistics
Matches: 109, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
42 2 0.02
43 12 0.11
44 80 0.73
45 14 0.13
46 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:96214283 original size:118 final size:119
Alignment explanation
Indices: 96214069--96214659 Score: 1017
Period size: 118 Copynumber: 5.0 Consensus size: 119
96214059 CAGATCGAAG
*
96214069 ATAGCAGATCTAACCTCCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
96214134 TTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACGTTCTCAAAG
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
*
96214188 ATAGC-GATCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
96214252 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* *
96214306 ATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
96214371 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* *
96214425 ATAACAGATCTAACCTTCAGATG-TTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
96214489 TTACAA-GAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * * *
96214542 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTATGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * * *
96214607 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
96214660 CAGACTCAAG
Statistics
Matches: 452, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
117 69 0.15
118 202 0.45
119 181 0.40
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (119 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
Found at i:96214488 original size:237 final size:236
Alignment explanation
Indices: 96214073--96214659 Score: 1005
Period size: 237 Copynumber: 2.5 Consensus size: 236
96214063 TCGAAGATAG
*
96214073 CAGATCTAACCTCCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTAC
1 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTAC
* *
96214138 AAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACGTTCTCAAAGATAGCGATCTAACCT
66 AAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGATAACGATCTAACCT
*
96214203 TCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATC
131 TCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAA-GAACAAATC
96214268 GAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAA
195 GAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAA
*
96214310 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
1 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTAC
*
96214375 AAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAACAGATCTAACC
66 AAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGATAAC-GATCTAACC
*
96214440 TTCAGATG-TTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAACAAATC
130 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGAACAAATC
*
96214504 GAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAG
195 GAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAA
* * * *
96214546 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTATGCTTAC
1 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTAC
* * * *
96214611 AAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 AAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
96214660 CAGACTCAAG
Statistics
Matches: 332, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
236 155 0.47
237 160 0.48
238 17 0.05
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (236 bp):
CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTAC
AAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGATAACGATCTAACCT
TCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGAACAAATCG
AGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAA
Found at i:96214802 original size:84 final size:83
Alignment explanation
Indices: 96214583--96214852 Score: 468
Period size: 83 Copynumber: 3.2 Consensus size: 83
96214573 GAAGCAGATC
* *
96214583 CAAGATGGTTTGGCATCCTTATGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
96214648 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
*
96214666 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
96214731 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* *
96214749 CAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGACCTTGCAGATATGATTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTC
96214814 AAATGTTCTCAAACAGACT
65 AAATGTTCTCAAACAGACT
* *
96214833 CAAGATGATTTGACATCCTT
1 CAAGATGGTTTGGCATCCTT
96214853 ACAAATCGAA
Statistics
Matches: 178, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
83 99 0.56
84 79 0.44
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:96215623 original size:26 final size:26
Alignment explanation
Indices: 96215586--96215643 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
96215576 TGATACAAAT
96215586 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
96215612 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
96215638 TGATAA
1 TGATAA
96215644 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:96217305 original size:27 final size:27
Alignment explanation
Indices: 96217264--96217403 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
96217254 GAGGAAGTGT
*
96217264 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
96217291 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
96217318 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
96217345 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
96217373 TCTGGTGACTCTGACAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
96217399 TCTGG
1 TCTGG
96217404 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 15 0.15
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:96217349 original size:54 final size:55
Alignment explanation
Indices: 96217264--96217403 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 55
96217254 GAGGAAGTGT
* * *
96217264 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
96217318 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
96217373 TCTGGTGACTCTGACACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
96217404 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:96217489 original size:19 final size:22
Alignment explanation
Indices: 96217465--96217504 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
96217455 CTCCCCACAC
96217465 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
96217484 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
96217505 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:96218350 original size:18 final size:18
Alignment explanation
Indices: 96218312--96218373 Score: 99
Period size: 18 Copynumber: 3.4 Consensus size: 18
96218302 GGGGTGCTAC
96218312 ATCTTAGATATGA-TACA
1 ATCTTAGATATGATTACA
*
96218329 ATCTTAGATATGATTGCA
1 ATCTTAGATATGATTACA
96218347 ATCTTAGATATGATATACA
1 ATCTTAGATATGAT-TACA
96218366 ATCTTAGA
1 ATCTTAGA
96218374 AGATATGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.32
18 17 0.41
19 11 0.27
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
ATCTTAGATATGATTACA
Found at i:96218696 original size:12 final size:11
Alignment explanation
Indices: 96218681--96218714 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
96218671 TATTTTTAAT
96218681 TTATTATATATA
1 TTATT-TATATA
96218693 TTATTTATTATA
1 TTATTTA-TATA
96218705 TTATTTATAT
1 TTATTTATAT
96218715 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTATATA
Found at i:96218706 original size:21 final size:21
Alignment explanation
Indices: 96218682--96218793 Score: 67
Period size: 21 Copynumber: 5.5 Consensus size: 21
96218672 ATTTTTAATT
96218682 TATTATATATATTATTTATTA
1 TATTATATATATTATTTATTA
* *
96218703 TATTATTTATATT-TTCA--A
1 TATTATATATATTATTTATTA
* * *
96218721 AATT-TGTAAATTA-TTATTA
1 TATTATATATATTATTTATTA
* *
96218740 TA-TATTATATTTTAACTTATATA
1 TATTA-TATATATT-ATTTAT-TA
*
96218763 TCTTATATAT-TTATTTATTTA
1 TATTATATATATTATTTA-TTA
96218784 TATTATATAT
1 TATTATATAT
96218794 TATTTTAAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
17 8 0.12
18 5 0.07
19 2 0.03
20 8 0.12
21 28 0.41
22 7 0.10
23 8 0.12
24 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.60
Consensus pattern (21 bp):
TATTATATATATTATTTATTA
Found at i:96218712 original size:16 final size:16
Alignment explanation
Indices: 96218679--96218709 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
96218669 CTTATTTTTA
96218679 ATTTATTATATATATT
1 ATTTATTATATATATT
96218695 ATTTATTATAT-TATT
1 ATTTATTATATATATT
96218710 TATATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATTATATATATT
Found at i:96218747 original size:7 final size:7
Alignment explanation
Indices: 96218730--96218836 Score: 59
Period size: 7 Copynumber: 15.7 Consensus size: 7
96218720 AAATTTGTAA
96218730 ATTAT-T
1 ATTATAT
96218736 ATTATAT
1 ATTATAT
96218743 ATTATAT
1 ATTATAT
96218750 -TT-TA-
1 ATTATAT
96218754 ACTTATAT
1 A-TTATAT
96218762 ATCTTATAT
1 A--TTATAT
*
96218771 ATTTATTT
1 A-TTATAT
96218779 ATT-TAT
1 ATTATAT
96218785 ATTATAT
1 ATTATAT
96218792 ATTAT-T
1 ATTATAT
* *
96218798 -TTAAAA
1 ATTATAT
*
96218804 ACTTACAT
1 A-TTATAT
*
96218812 -TTTTAT
1 ATTATAT
96218818 ATTATAT
1 ATTATAT
*
96218825 ATTATAA
1 ATTATAT
96218832 ATTAT
1 ATTAT
96218837 TTCATTTATT
Statistics
Matches: 79, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
5 5 0.06
6 19 0.24
7 36 0.46
8 11 0.14
9 8 0.10
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTATAT
Found at i:96218794 original size:21 final size:21
Alignment explanation
Indices: 96218734--96218798 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
96218724 TTGTAAATTA
*
96218734 TTATTATATATTATAT-TTTAAC
1 TTATT-TATATTATATATTT-AT
* *
96218756 TTATATATCTTATATATTTAT
1 TTATTTATATTATATATTTAT
96218777 TTATTTATATTATATA-TTAT
1 TTATTTATATTATATATTTAT
96218797 TT
1 TT
96218799 TAAAAACTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 6 0.16
21 24 0.65
22 7 0.19
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATTTATATTATATATTTAT
Found at i:96219179 original size:3 final size:3
Alignment explanation
Indices: 96219171--96219229 Score: 100
Period size: 3 Copynumber: 19.3 Consensus size: 3
96219161 TATGTTACTA
*
96219171 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96219219 TAT ATAT TAT T
1 TAT -TAT TAT T
96219230 GTATTTGTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:96222115 original size:46 final size:46
Alignment explanation
Indices: 96222052--96222325 Score: 415
Period size: 46 Copynumber: 6.0 Consensus size: 46
96222042 TTTGACATGA
* * * * * *
96222052 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*
96222098 TGGCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
96222144 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
96222190 TGCCATGGTATCTTTCAACCATGGTCTTACGCATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
96222236 TGCCATGGTATCTTTCAACCATGGTCTTCCGCATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
96222282 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
96222326 AGAGCACACT
Statistics
Matches: 213, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 209 0.98
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:96224782 original size:29 final size:30
Alignment explanation
Indices: 96224732--96224799 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
96224722 CACCCTTAAA
* * *
96224732 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
96224762 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
96224791 AGTATTTAC
1 A-TATTTAC
96224800 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Done.