Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 28 of 356
Found at i:9575676 original size:59 final size:58
Alignment explanation
Indices: 9575494--9575676 Score: 146
Period size: 56 Copynumber: 3.1 Consensus size: 58
9575484 TATAGTATCA
*
9575494 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
* * * * * *
9575552 TATA-TAT--TTTAATTAAAATAT-ATTTAATAATTATTATT-TTAATTTATATTTTA-CAGTAT
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAA-TATTATTATTAA--GA-ATTTTATTA-AAT
*
9575611 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
9575672 TATAT
1 TATAT
9575677 ATTTTAATTA
Statistics
Matches: 94, Mismatches: 14, Indels: 33
0.67 0.10 0.23
Matches are distributed among these distances:
55 7 0.07
56 15 0.16
57 8 0.09
58 6 0.06
59 13 0.14
61 12 0.13
62 10 0.11
63 14 0.15
64 9 0.10
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (58 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTATTATTAAGAATTTTATTAAAT
Found at i:9575688 original size:18 final size:17
Alignment explanation
Indices: 9575660--9575694 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9575650 ATTATTAAGA
*
9575660 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
9575677 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
9575695 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:9575802 original size:147 final size:148
Alignment explanation
Indices: 9575648--9575921 Score: 498
Period size: 147 Copynumber: 1.9 Consensus size: 148
9575638 ATAAGAATAT
*
9575648 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
9575713 AAATATGAGTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGAGTAAATTATTTATT-TTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
9575776 TACCAAAACAAATTTCTGC
130 TACCAAAACAAATTTCTGC
9575795 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
9575860 AAATATGATTAAATTATTTATTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGAGTAAATTATTTATTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
9575922 CAATAATCAT
Statistics
Matches: 122, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
146 5 0.04
147 112 0.92
148 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (148 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGAGTAAATTATTTATTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATTT
ACCAAAACAAATTTCTGC
Found at i:9575835 original size:18 final size:17
Alignment explanation
Indices: 9575807--9575841 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9575797 ATTATTAAGA
*
9575807 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
9575824 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
9575842 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:9576051 original size:44 final size:45
Alignment explanation
Indices: 9576002--9576096 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
9575992 TTACACCTCT
* * *
9576002 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
9576046 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
9576091 ATTACA
1 ATTACA
9576097 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:9576096 original size:16 final size:16
Alignment explanation
Indices: 9576077--9576144 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
9576067 GATTTGCTAT
* * *
9576077 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
9576093 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
9576109 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
9576125 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
9576141 TACA
1 TACA
9576145 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:9580218 original size:186 final size:185
Alignment explanation
Indices: 9579902--9580236 Score: 600
Period size: 186 Copynumber: 1.8 Consensus size: 185
9579892 AACTAGATGT
9579902 TGTGTTTTAAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAGAAAAATGGCAGCCGA
1 TGTGTTTTAAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAGAAAAATGGCAGCCGA
* *
9579967 CAGTGGGGGAAAAAAACAATGATTTTAAGTTGAAAGTGTGGTGCAGGTTTACAAAAATCACACAA
66 CAGTGGAGGAAAAAAACAATGATTTTAAGCTGAAAGTGTGGTGCAGGTTTACAAAAATCACACAA
9580032 AAGCATGATTATAATCATGATGATGGAAATTCTTGTAGATGAAATGAGCCAACCA
131 AAGCATGATTATAATCATGATGATGGAAATTCTTGTAGATGAAATGAGCCAACCA
*
9580087 TGTGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAGAAAAAATGGCAGCCG
1 TGTGTTTTAAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAG-AAAAATGGCAGCCG
* *
9580152 ACAGTGGAGGAAAAAAACAATGATTTTAAGCTGAAAGTGTGGTG-TGAGTTTACAAAAATTACAC
65 ACAGTGGAGGAAAAAAACAATGATTTTAAGCTGAAAGTGTGGTGCAG-GTTTACAAAAATCACAC
9580216 AAAAGCATGATTATAATCATG
129 AAAAGCATGATTATAATCATG
9580237 GTAATTGATG
Statistics
Matches: 143, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
185 50 0.35
186 93 0.65
ACGTcount: A:0.42, C:0.09, G:0.26, T:0.23
Consensus pattern (185 bp):
TGTGTTTTAAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAGAAAAATGGCAGCCGA
CAGTGGAGGAAAAAAACAATGATTTTAAGCTGAAAGTGTGGTGCAGGTTTACAAAAATCACACAA
AAGCATGATTATAATCATGATGATGGAAATTCTTGTAGATGAAATGAGCCAACCA
Found at i:9589718 original size:30 final size:30
Alignment explanation
Indices: 9589678--9589753 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
9589668 CACGGCCATG
9589678 ACACACGGGCGTGTGGCCTACCCGTGTGTC
1 ACACACGGGCGTGTGGCCTACCCGTGTGTC
* **
9589708 ACACAAGGGCGTGTGGCCTGTCCGTGTGTC
1 ACACACGGGCGTGTGGCCTACCCGTGTGTC
9589738 ACACACGGGCGTGTGG
1 ACACACGGGCGTGTGG
9589754 TTTACTCGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.14, C:0.29, G:0.37, T:0.20
Consensus pattern (30 bp):
ACACACGGGCGTGTGGCCTACCCGTGTGTC
Found at i:9590433 original size:184 final size:185
Alignment explanation
Indices: 9589973--9590433 Score: 683
Period size: 184 Copynumber: 2.5 Consensus size: 185
9589963 TGGTTTATCA
* * * * *
9589973 GTAATGGAAATTATTGTAGATGAAATAAGTCAACCATATGTTTTGAAGAAGAAAAATTGTGTTTG
1 GTAATGGAAATTCTTGTAGATGAAATGAGCCAACCATATGTTTTGAAGAAAAAAAATAGTGTTTG
* *
9590038 GAAAGAGAGAAAATGAGAGAAAAAATGGCAGCCGACAGTGGAGGGAAAAAAACAATGATTTTAAG
66 GCAAGAGAGAAAATGAGAGAAAAAATGGCAACCGACAGTGGAGGGAAAAAAACAATGATTTTAAG
* *
9590103 TTGAAAGTGTAGTGTCGGTTTACAAAAATTACACAAAAGCATGATTATAATCATG
131 CTGAAAGTGTAGTGTCGGTTTACAAAAATTACACAAAAACATGATTATAATCATG
* * * *
9590158 GTAATAGAAATTCTTGTAGATGAAATGAGCTAACCATATGTTTAGAAGAAAAAAAACAGTGTTTG
1 GTAATGGAAATTCTTGTAGATGAAATGAGCCAACCATATGTTTTGAAGAAAAAAAATAGTGTTTG
* * * ***
9590223 GCAAGAGAGAAAATGAAAGAAAAAAATGGTAACCGACATTGG-GGG-GGGAAACAATGATTTTAA
66 GCAAGAGAGAAAATGAGAG-AAAAAATGGCAACCGACAGTGGAGGGAAAAAAACAATGATTTTAA
* *
9590286 GCTGAAAGTGTGGTGTGGGTTTACAAAAATTACACAAAAACATGATTATAATCATG
130 GCTGAAAGTGTAGTGTCGGTTTACAAAAATTACACAAAAACATGATTATAATCATG
* *
9590342 GTAATGGAAATTCTTGTAGATGAAATGAGCCAACCATGTGTTTTGAAGAAAAAAAAGTGGTGTTT
1 GTAATGGAAATTCTTGTAGATGAAATGAGCCAACCATATGTTTTGAAGAAAAAAAA-TAGTGTTT
9590407 GGCAAGAGAGAAAATGAGAGAAAAAAT
65 GGCAAGAGAGAAAATGAGAGAAAAAAT
9590434 TTTGTTAAAT
Statistics
Matches: 246, Mismatches: 28, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
184 126 0.51
185 101 0.41
186 19 0.08
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.25
Consensus pattern (185 bp):
GTAATGGAAATTCTTGTAGATGAAATGAGCCAACCATATGTTTTGAAGAAAAAAAATAGTGTTTG
GCAAGAGAGAAAATGAGAGAAAAAATGGCAACCGACAGTGGAGGGAAAAAAACAATGATTTTAAG
CTGAAAGTGTAGTGTCGGTTTACAAAAATTACACAAAAACATGATTATAATCATG
Found at i:9594017 original size:32 final size:32
Alignment explanation
Indices: 9593971--9594042 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 32
9593961 AAGTCGAATT
9593971 GCACACGGCCTGAGCACCTTCACACTG-GCGTG
1 GCACACGGCCTGAGCACCTTCACAC-GAGCGTG
* *
9594003 GTACACGGCTTGAGCACCTTCACACGAGCGTG
1 GCACACGGCCTGAGCACCTTCACACGAGCGTG
9594035 GCACACGG
1 GCACACGG
9594043 TCGTGTCCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 1 0.03
32 35 0.97
ACGTcount: A:0.21, C:0.35, G:0.29, T:0.15
Consensus pattern (32 bp):
GCACACGGCCTGAGCACCTTCACACGAGCGTG
Found at i:9596413 original size:33 final size:34
Alignment explanation
Indices: 9596375--9596455 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
9596365 GCCTAAGCCC
* *
9596375 ATTCAGATAACAGTGATACTGGGCC-AGATCCCTT
1 ATTCAGATAACAGTGAAACTGGGCCTAG-CCCCTT
* *
9596409 -TTCAGATTACA-TTAAACTGGGCCTTAGCCCCTT
1 ATTCAGATAACAGTGAAACTGGGCC-TAGCCCCTT
9596442 ATTCAGATAACAGT
1 ATTCAGATAACAGT
9596456 ATGGCCTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
32 10 0.26
33 15 0.39
34 12 0.32
35 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (34 bp):
ATTCAGATAACAGTGAAACTGGGCCTAGCCCCTT
Found at i:9596795 original size:26 final size:26
Alignment explanation
Indices: 9596766--9596818 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
9596756 TCCAACATGC
9596766 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAGGGGT
* *
9596792 ATTTGGGTACTTTATCTCCTAGGGGT
1 ATTTAGGTAATTTATCTCCTAGGGGT
9596818 A
1 A
9596819 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGGGGT
Found at i:9598104 original size:24 final size:24
Alignment explanation
Indices: 9598070--9598170 Score: 123
Period size: 24 Copynumber: 4.2 Consensus size: 24
9598060 CCAACTCCTG
*
9598070 CTCCTTGATCAGCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
*
9598094 CTCCTTTATCAGGTCCTAAATCCTT
1 CTCCTTTATCAGCTCCTAAAT-CTT
* *
9598119 -TCCCTTATCAGCTCCTAAATCCT
1 CTCCTTTATCAGCTCCTAAATCTT
* * *
9598142 CTCCCTTATCAACTCCTATATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
9598166 CTCCT
1 CTCCT
9598171 GACAGTCTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
23 2 0.03
24 61 0.92
25 3 0.05
ACGTcount: A:0.20, C:0.37, G:0.05, T:0.39
Consensus pattern (24 bp):
CTCCTTTATCAGCTCCTAAATCTT
Found at i:9606413 original size:23 final size:22
Alignment explanation
Indices: 9606341--9606428 Score: 92
Period size: 21 Copynumber: 4.1 Consensus size: 22
9606331 TACTTGATCA
*
9606341 GAATACGACACATAA-GTGCCT
1 GAATACGACACACAAGGTGCCT
*
9606362 GAA-ACGACACACGAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
9606383 G-CTGCGACACACAAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
9606404 GAAATACGACACATAAAGTGCCT
1 G-AATACGACACACAAGGTGCCT
9606427 GA
1 GA
9606429 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
20 9 0.17
21 27 0.50
22 1 0.02
23 17 0.31
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (22 bp):
GAATACGACACACAAGGTGCCT
Found at i:9606425 original size:44 final size:41
Alignment explanation
Indices: 9606346--9606427 Score: 101
Period size: 44 Copynumber: 1.9 Consensus size: 41
9606336 GATCAGAATA
* * *
9606346 CGACACATAAGTGCCTGAAACGACACACGAGGTGCCTGCTG
1 CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTG
*
9606387 CGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 CGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGCCTG
9606428 ATCAGTAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 9 0.26
42 7 0.21
43 2 0.06
44 16 0.47
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.15
Consensus pattern (41 bp):
CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTG
Found at i:9606688 original size:23 final size:23
Alignment explanation
Indices: 9606619--9606689 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 23
9606609 AAATGTCCAA
*
9606619 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGAATAATCCT
9606642 CCAAAACACACCAGTATTATATAATCCT
1 CCAAAACACACCAG----A-ATAATCCT
*
9606670 CCCAAACACACCAGAATAAT
1 CCAAAACACACCAGAATAAT
9606690 ATAATCCATC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
23 19 0.46
24 1 0.02
28 21 0.51
ACGTcount: A:0.45, C:0.32, G:0.04, T:0.18
Consensus pattern (23 bp):
CCAAAACACACCAGAATAATCCT
Found at i:9606715 original size:29 final size:28
Alignment explanation
Indices: 9606633--9606716 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
9606623 AACACACCAG
* *
9606633 TATAATCCTCCAAAACACACCAGTATTA
1 TATAATCCTCCAAAACACACCAGAATAA
*
9606661 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
*
9606689 TATAATCCATCCAAAACACGCCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
9606717 GCACAAAGTG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 33 0.66
29 17 0.34
ACGTcount: A:0.45, C:0.30, G:0.05, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:9611636 original size:33 final size:34
Alignment explanation
Indices: 9611598--9611678 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
9611588 GCCTAAGCCC
* *
9611598 ATTCAGATAACAGTGATACTGGGCC-AGATCCCTT
1 ATTCAGATAACAGTGAAACTGGGCCTAG-CCCCTT
* *
9611632 -TTCAGATTACA-TTAAACTGGGCCTTAGCCCCTT
1 ATTCAGATAACAGTGAAACTGGGCC-TAGCCCCTT
9611665 ATTCAGATAACAGT
1 ATTCAGATAACAGT
9611679 ATGGCCCATA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
32 10 0.26
33 15 0.39
34 12 0.32
35 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (34 bp):
ATTCAGATAACAGTGAAACTGGGCCTAGCCCCTT
Found at i:9614804 original size:24 final size:24
Alignment explanation
Indices: 9614770--9614846 Score: 109
Period size: 24 Copynumber: 3.2 Consensus size: 24
9614760 CCAACTCCTG
*
9614770 CTCCTTGATCAGCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
* *
9614794 CTCCTTTATCAGCTCCTAAACCCT
1 CTCCTTTATCAGCTCCTAAATCTT
* *
9614818 CTCCCTTATCAGTTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
9614842 CTCCT
1 CTCCT
9614847 GACAGCCTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.19, C:0.38, G:0.05, T:0.38
Consensus pattern (24 bp):
CTCCTTTATCAGCTCCTAAATCTT
Found at i:9618804 original size:5 final size:5
Alignment explanation
Indices: 9618766--9618824 Score: 73
Period size: 5 Copynumber: 10.8 Consensus size: 5
9618756 CATAAACATA
9618766 AAAAT AGAAAT AAAACT AAAACT AAAAAT AAAAAT AAAAT AAAAT AAAAT
1 AAAAT A-AAAT AAAA-T AAAA-T -AAAAT -AAAAT AAAAT AAAAT AAAAT
9618816 AAAAT AAAA
1 AAAAT AAAA
9618825 ATAAGTGATA
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
5 28 0.55
6 19 0.37
7 4 0.08
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:9618827 original size:6 final size:6
Alignment explanation
Indices: 9618747--9618828 Score: 82
Period size: 6 Copynumber: 14.3 Consensus size: 6
9618737 AATAAGTCTA
** * * * *
9618747 AAAAAT AACCAT AAACAT AAAAAT AGAAAT AAAACT AAAACT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
9618795 AAAAAT -AAAAT -AAAAT -AAAAT -AAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
9618829 GTGATAAATG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
5 20 0.30
6 47 0.70
ACGTcount: A:0.76, C:0.06, G:0.01, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:9619829 original size:18 final size:18
Alignment explanation
Indices: 9619814--9619868 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
9619804 TCAGTAACGA
*
9619814 TCAATTGTTTAGTAACAG
1 TCAATTATTTAGTAACAG
*
9619832 TCGATTATTTAGTAACAG
1 TCAATTATTTAGTAACAG
* *
9619850 TCATTTATTCAGTAACAG
1 TCAATTATTTAGTAACAG
9619868 T
1 T
9619869 TGTAATAGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.40
Consensus pattern (18 bp):
TCAATTATTTAGTAACAG
Found at i:9621321 original size:7 final size:7
Alignment explanation
Indices: 9621309--9621414 Score: 69
Period size: 7 Copynumber: 14.9 Consensus size: 7
9621299 TATATAATTA
9621309 ATTTATT
1 ATTTATT
9621316 ATTTATT
1 ATTTATT
*
9621323 ATGTATT
1 ATTTATT
9621330 ATTT-TT
1 ATTTATT
**
9621336 CATAAATT
1 -ATTTATT
9621344 A-TTATT
1 ATTTATT
9621350 A-TT-TT
1 ATTTATT
*
9621355 ACATTATT
1 A-TTTATT
9621363 ATTTA-T
1 ATTTATT
9621369 ATATTATT
1 AT-TTATT
9621377 ATATTATAT
1 AT-TTAT-T
9621386 ATTTATT
1 ATTTATT
9621393 AATTATATT
1 -ATT-TATT
*
9621402 ATATATT
1 ATTTATT
9621409 ATTTAT
1 ATTTAT
9621415 ATATATATAC
Statistics
Matches: 80, Mismatches: 9, Indels: 20
0.73 0.08 0.18
Matches are distributed among these distances:
5 3 0.04
6 11 0.14
7 37 0.46
8 22 0.28
9 7 0.09
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (7 bp):
ATTTATT
Found at i:9621384 original size:13 final size:13
Alignment explanation
Indices: 9621343--9621482 Score: 82
Period size: 13 Copynumber: 10.7 Consensus size: 13
9621333 TTTCATAAAT
*
9621343 TATTATTATTTTA
1 TATTATTATATTA
* *
9621356 CATTATTATTTATA
1 TATTATTATAT-TA
9621370 TATTATTATATTA
1 TATTATTATATTA
9621383 TA-TATTTATTAATTA
1 TATTA-TTA-T-ATTA
9621398 TATTA-TATATTA
1 TATTATTATATTA
9621410 T-TTA-TATATATA
1 TATTATTATAT-TA
*
9621422 TACCT-TTATATTA
1 TA-TTATTATATTA
*
9621435 TA-CATTATAATTA
1 TATTATTAT-ATTA
9621448 TATTA-TATATTA
1 TATTATTATATTA
9621460 TTATGTCATT-T-TTA
1 -TAT-T-ATTATATTA
9621474 TATTATTAT
1 TATTATTAT
9621483 CCATTTTTAT
Statistics
Matches: 104, Mismatches: 6, Indels: 35
0.72 0.04 0.24
Matches are distributed among these distances:
11 11 0.11
12 20 0.19
13 37 0.36
14 25 0.24
15 8 0.08
16 3 0.03
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (13 bp):
TATTATTATATTA
Found at i:9621392 original size:30 final size:29
Alignment explanation
Indices: 9621312--9621463 Score: 115
Period size: 30 Copynumber: 5.3 Consensus size: 29
9621302 ATAATTAATT
*
9621312 TATTATT-TATTATGTATTATT-TTTCATA
1 TATTATTATATTATATATTATTATTT-ATA
* * *
9621340 AATTATTATTATTTTACATTATTATTTATA
1 TATTATTA-TATTATATATTATTATTTATA
*
9621370 TATTATTATATTATATATTTATTAATTATA
1 TATTATTATATTATATA-TTATTATTTATA
*
9621400 TTATATATTAT-TTATATA-TATATACCTT-TA
1 -TAT-TATTATATTATATATTAT-TA-TTTATA
*
9621430 TATTA-TACATTATA-ATTA-TA-TTATA
1 TATTATTATATTATATATTATTATTTATA
9621455 TATTATTAT
1 TATTATTAT
9621464 GTCATTTTTA
Statistics
Matches: 101, Mismatches: 11, Indels: 26
0.73 0.08 0.19
Matches are distributed among these distances:
24 2 0.02
25 7 0.07
26 4 0.04
27 3 0.03
28 15 0.15
29 13 0.13
30 36 0.36
31 15 0.15
32 6 0.06
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (29 bp):
TATTATTATATTATATATTATTATTTATA
Found at i:9621397 original size:4 final size:5
Alignment explanation
Indices: 9621359--9621455 Score: 53
Period size: 5 Copynumber: 18.6 Consensus size: 5
9621349 TATTTTACAT
*
9621359 TATTA T-TTA TA-TA TTATTA TATTA TATATT TATTA -ATTA TATTA TA-TA
1 TATTA TATTA TATTA -TATTA TATTA TAT-TA TATTA TATTA TATTA TATTA
9621407 TTATT- TA-TA TATATA TACCTTTA TATTA TACATTA TAATTA TATTA TAT
1 -TATTA TATTA TAT-TA TA---TTA TATTA T--ATTA T-ATTA TATTA TAT
9621456 ATTATTATGT
Statistics
Matches: 74, Mismatches: 3, Indels: 30
0.69 0.03 0.28
Matches are distributed among these distances:
3 1 0.01
4 16 0.22
5 31 0.42
6 16 0.22
7 5 0.07
8 4 0.05
9 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (5 bp):
TATTA
Found at i:9621399 original size:20 final size:19
Alignment explanation
Indices: 9621359--9621479 Score: 85
Period size: 19 Copynumber: 6.3 Consensus size: 19
9621349 TATTTTACAT
* *
9621359 TATTATTTATATATTATTA
1 TATTATATATTTATTATTA
9621378 TATTATATATTTATTAATTA
1 TATTATATATTTATT-ATTA
9621398 TATTATATA-TTA-T-TTA
1 TATTATATATTTATTATTA
9621414 TATATATATACCTTTA-TATTA
1 TAT-TATATA--TTTATTATTA
9621435 TACATTATA-ATTATATTA-TA
1 T--ATTATATATT-TATTATTA
* *
9621455 TATTAT-TATGTCATTTTTA
1 TATTATATAT-TTATTATTA
9621474 TATTAT
1 TATTAT
9621480 TATCCATTTT
Statistics
Matches: 85, Mismatches: 4, Indels: 26
0.74 0.03 0.23
Matches are distributed among these distances:
16 6 0.07
17 6 0.07
18 11 0.13
19 27 0.32
20 22 0.26
21 7 0.08
22 4 0.05
23 2 0.02
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (19 bp):
TATTATATATTTATTATTA
Found at i:9621404 original size:35 final size:35
Alignment explanation
Indices: 9621360--9621462 Score: 110
Period size: 35 Copynumber: 3.0 Consensus size: 35
9621350 ATTTTACATT
9621360 ATTAT-TTATATATTATTATATTATATATTTATTA
1 ATTATATTATATATTATTATATTATATATTTATTA
9621394 ATTATATTATATATTATTTATATATATATACCTTTA-T-
1 ATTATATTATATATTA-TTATAT-TATATA--TTTATTA
* *
9621431 ATTATA-CAT-TATAATTATATTATATA-TTATTA
1 ATTATATTATATATTATTATATTATATATTTATTA
9621463 TGTCATTTTT
Statistics
Matches: 60, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
30 3 0.05
31 1 0.02
33 6 0.10
34 11 0.18
35 14 0.23
36 8 0.13
37 12 0.20
38 1 0.02
39 4 0.07
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (35 bp):
ATTATATTATATATTATTATATTATATATTTATTA
Found at i:9621430 original size:39 final size:35
Alignment explanation
Indices: 9621359--9621457 Score: 107
Period size: 39 Copynumber: 2.7 Consensus size: 35
9621349 TATTTTACAT
9621359 TATTAT-TTATATATTA-TTATAT-TATATATTTA
1 TATTATATTATATATTATTTATATATATATATTTA
9621391 TTAATTATATTATATATTATTTATATATATATACCTTTA
1 -T-ATTATATTATATATTATTTATATATATATA--TTTA
9621430 TATTATACATTATA-ATTATATTATATAT
1 TATTAT--ATTATATATTAT-TTATATAT
9621458 TATTATGTCA
Statistics
Matches: 57, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
33 1 0.02
34 5 0.09
35 10 0.18
36 6 0.11
37 11 0.19
38 6 0.11
39 18 0.32
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (35 bp):
TATTATATTATATATTATTTATATATATATATTTA
Found at i:9621477 original size:19 final size:18
Alignment explanation
Indices: 9621453--9621492 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
9621443 AATTATATTA
*
9621453 TATATTATTATGTCATTTT
1 TATATTATTAT-CCATTTT
9621472 TATATTATTATCCATTTT
1 TATATTATTATCCATTTT
9621490 TAT
1 TAT
9621493 CTATATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (18 bp):
TATATTATTATCCATTTT
Found at i:9621802 original size:15 final size:14
Alignment explanation
Indices: 9621758--9621804 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
9621748 CTTTTATATT
9621758 TTTTTTATGTAATTA
1 TTTTTTAT-TAATTA
9621773 TTATTCTTA-TAATTA
1 TT-TT-TTATTAATTA
9621788 TTTTTTATTATATTA
1 TTTTTTATTA-ATTA
9621803 TT
1 TT
9621805 AAATATCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 3 0.11
14 4 0.14
15 16 0.57
16 2 0.07
17 3 0.11
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (14 bp):
TTTTTTATTAATTA
Found at i:9638764 original size:5 final size:5
Alignment explanation
Indices: 9638754--9638809 Score: 112
Period size: 5 Copynumber: 11.2 Consensus size: 5
9638744 AATTAAGTAC
9638754 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
9638804 ATTAT A
1 ATTAT A
9638810 AAAGAAACAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:9641617 original size:17 final size:19
Alignment explanation
Indices: 9641575--9641618 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9641565 ACGAAATTTT
*
9641575 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
9641594 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
9641612 AA-TATTA
1 AATTATTA
9641619 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:9643639 original size:8 final size:8
Alignment explanation
Indices: 9643626--9643655 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
9643616 CTAGATCGGC
9643626 AAAAGCCG
1 AAAAGCCG
9643634 AAAAGCCG
1 AAAAGCCG
9643642 AAAAGCCG
1 AAAAGCCG
9643650 AAAAGC
1 AAAAGC
9643656 TGGCATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.23, G:0.23, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:9644310 original size:20 final size:19
Alignment explanation
Indices: 9644257--9644312 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
9644247 ATCATATGAG
*
9644257 ACTGTTTTATTATGGG-CCA
1 ACTG-TTTAATATGGGCCCA
*
9644276 ACTGTATTAAAATGGGCCCA
1 ACTGT-TTAATATGGGCCCA
9644296 ACTGTTTCAATATGGGC
1 ACTGTTT-AATATGGGC
9644313 AAGGCCCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 1 0.03
19 14 0.45
20 16 0.52
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (19 bp):
ACTGTTTAATATGGGCCCA
Found at i:9647090 original size:26 final size:26
Alignment explanation
Indices: 9647061--9647168 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
9647051 TGGTACAAAT
9647061 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9647087 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9647113 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9647139 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9647165 TGAT
1 TGAT
9647169 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9648789 original size:27 final size:27
Alignment explanation
Indices: 9648748--9648859 Score: 156
Period size: 27 Copynumber: 4.1 Consensus size: 27
9648738 GAGGAAGCGT
9648748 TCTGGTGGCTATGCCACA-ATTATCTGA
1 TCTGGTGGCTATGCCACATA-TATCTGA
* *
9648775 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTATGCCACATATATCTGA
*
9648802 TCTAGTGGCTATGCCACGAT-TATCTGA
1 TCTGGTGGCTATGCCAC-ATATATCTGA
*
9648829 TCTGGTGGCTCTGCCACATATATCTGA
1 TCTGGTGGCTATGCCACATATATCTGA
9648856 TCTG
1 TCTG
9648860 ATAGGCAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
26 2 0.03
27 70 0.93
28 3 0.04
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTATGCCACATATATCTGA
Found at i:9648828 original size:54 final size:54
Alignment explanation
Indices: 9648746--9648854 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
9648736 TGGAGGAAGC
*
9648746 GTTCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
9648800 GTTCTAGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
9648854 G
1 G
9648855 ATCTGATAGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
GTTCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:9649723 original size:26 final size:26
Alignment explanation
Indices: 9649694--9649801 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
9649684 TGGTACAAAT
9649694 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9649720 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9649746 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9649772 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9649798 TGAT
1 TGAT
9649802 GGGCATTTGA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9651425 original size:27 final size:27
Alignment explanation
Indices: 9651376--9651516 Score: 180
Period size: 27 Copynumber: 5.2 Consensus size: 27
9651366 AGGAAGCGTC
*
9651376 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
* * *
9651403 CTAGTGGCTCTGCTACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
9651430 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
*
9651457 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
9651484 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
9651511 CTGGTG
1 CTGGTG
9651517 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
26 9 0.09
27 87 0.88
28 3 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:9651513 original size:54 final size:53
Alignment explanation
Indices: 9651376--9651516 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 53
9651366 AGGAAGCGTC
* *
9651376 CTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCTACATATATCTGTT
1 CTGGTGGCTATGCCACAA-TATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
9651430 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-AATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
9651484 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACAATATCTG-ATCTGGTG
9651517 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
53 7 0.09
54 72 0.90
55 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:9651527 original size:27 final size:27
Alignment explanation
Indices: 9651376--9651534 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
9651366 AGGAAGCGTC
*
9651376 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
* *
9651403 CTAGTGGCTCTGCTACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
9651430 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
9651457 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
9651484 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
9651511 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
9651535 GCAGCCTCGC
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:9656616 original size:130 final size:129
Alignment explanation
Indices: 9656330--9656916 Score: 436
Period size: 131 Copynumber: 4.5 Consensus size: 129
9656320 GCTTGAAAAC
* * * * * * ** * * * *
9656330 TCGGGAATTGTGCCATATCGTGTTGGGTTTCGATTTCCCGTTTGTTCAAAATAATCAAATATTCC
1 TCGGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTTTCGTTTGCTCAAAATAATCGAAGATCCC
* * * * *
9656395 TTTAGAATTTCACTC--GCATTTTTCTAAATCC--T-AAACGAAGGCGATATTCGATACTTGGTA
66 TTTAAAATTTCACTCATGC--TTTT-AAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGGCA
9656455 AT
128 AT
* * * *
9656457 TTGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTTTCGTTTGCTCAAAGTAATCGAAGGTCC
1 TCG-GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTTTCGTTTGCTCAAAATAATCGAAGATCC
* * * *
9656522 CTTTAAAATTTCACTTATGCCTTTTAAAATCCCTT-AAACGAAGGTGATGTGCGATATTTGGCAA
65 CTTTAAAATTTCACTCATG-CTTTTAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAA
9656586 T
129 T
* * * * *
9656587 TCGCGGAATCGTGCCCTAACATGCTGGGTTGCAATTTCTT-GTCTGCTTAAAATAATCAAATATC
1 TCG-GGAATCGTGCCCTAACGTGCTGGGTTGCAATTT-TTCGTTTGCTCAAAATAATCGAAGATC
* ** ** **
9656651 CCTTCAAAATTTCACTCACAT-CTTTTAAAAATCCTTTAAAACGAAGGTAATACTC-AGGGTTTG
64 CCTTTAAAATTTCACT--CATGCTTTT-AAAATCCTTTAAAACGAAGGCGATGTTCGA-TATTTG
*
9656714 ACAAT
125 GCAAT
* * *** * * * * *
9656719 TCGGGAATCATGCCCTATCGTGCTGGGTTATGATTTCTCGTTTGTTCAAAACAATCGAATATTCC
1 TCGGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTTTCGTTTGCTCAAAATAATCGAAGATCCC
* * * * * *
9656784 TTTAGATTTTCACTCATGTTTATTAAAAACCTTTCAAAACGAAAGCGATGTTCGATGTTTGGCAA
66 TTTAAAATTTCACTCATGCTT-TTAAAATCCTTT-AAAACGAAGGCGATGTTCGATATTTGGCAA
9656849 T
129 T
* * * * * ** *
9656850 TTGAGAATCGTGCCCTATCGTGCTGCGTTGCACTTTTTTATTTGTTCAAAATAATCGAAGATCCC
1 TCGGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTTTCGTTTGCTCAAAATAATCGAAGATCCC
9656915 TT
66 TT
9656917 CGGAATTTCA
Statistics
Matches: 362, Mismatches: 81, Indels: 30
0.77 0.17 0.06
Matches are distributed among these distances:
127 2 0.01
128 68 0.19
129 7 0.02
130 110 0.30
131 148 0.41
132 27 0.07
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (129 bp):
TCGGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTTTCGTTTGCTCAAAATAATCGAAGATCCC
TTTAAAATTTCACTCATGCTTTTAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAAT
Found at i:9659839 original size:50 final size:50
Alignment explanation
Indices: 9659764--9659863 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
9659754 GAAGGCCTTA
*
9659764 TAAATATTTCGAGAGGAAATGTGACACAAAAGAGGCACGTGGTCAAGTGG
1 TAAATATTTCGAGAGGAAAGGTGACACAAAAGAGGCACGTGGTCAAGTGG
9659814 TAAATATTTCGAGAGGAAAGGTGACACAAAAGAGGCACGTGGTCAAGTGG
1 TAAATATTTCGAGAGGAAAGGTGACACAAAAGAGGCACGTGGTCAAGTGG
9659864 CAAGGAGGCG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (50 bp):
TAAATATTTCGAGAGGAAAGGTGACACAAAAGAGGCACGTGGTCAAGTGG
Found at i:9667212 original size:21 final size:21
Alignment explanation
Indices: 9667186--9667230 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
9667176 TCATTCATAC
9667186 TAAGGTTAATTAGGGGTCTTT
1 TAAGGTTAATTAGGGGTCTTT
9667207 TAAGGTTAATTAGGGGTCTTT
1 TAAGGTTAATTAGGGGTCTTT
9667228 TAA
1 TAA
9667231 TGTCAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.04, G:0.27, T:0.42
Consensus pattern (21 bp):
TAAGGTTAATTAGGGGTCTTT
Found at i:9668949 original size:77 final size:74
Alignment explanation
Indices: 9668823--9669081 Score: 263
Period size: 77 Copynumber: 3.4 Consensus size: 74
9668813 TTCTCTATCT
* * *
9668823 TATTTTACATCAA-GAATATACTTATTTACAATCTGTGAAAAAATTTTAAAAAAATATTTGTATT
1 TATTTTATATCAATAAATATACTTATTTACAATCTATGAAAAAA--TTAAAAAAATATTTGTATT
9668887 GTATTCTATTG
64 GTATTCTATTG
* *
9668898 TATTTTATATCAATAATATATACTTATTTACAATCTATGAACGAAAATTAAAAACATTTTTGTAT
1 TATTTTATATCAATAA-ATATACTTATTTACAATCTATGAA--AAAATTAAAAAAATATTTGTAT
*
9668963 TGTATTCTATCG
63 TGTATTCTATTG
** * * * * * * * *
9668975 TATACCT-TCTCAATAAA-ATATTTATTTACAATCTACGAAAAAATGAAAAAATTGTTTATATAG
1 TAT-TTTATATCAATAAATATACTTATTTACAATCTATGAAAAAATTAAAAAAATATTTGTATTG
*
9669038 TATTCTACTG
65 TATTCTATTG
* *
9669048 TATTTTATATTAAGAACATATACTTATTTACAAT
1 TATTTTATATCAATAA-ATATACTTATTTACAAT
9669082 TTACCAAAAA
Statistics
Matches: 151, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
72 1 0.01
73 35 0.23
74 1 0.01
75 46 0.30
76 2 0.01
77 61 0.40
78 1 0.01
79 4 0.03
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.43
Consensus pattern (74 bp):
TATTTTATATCAATAAATATACTTATTTACAATCTATGAAAAAATTAAAAAAATATTTGTATTGT
ATTCTATTG
Found at i:9670857 original size:85 final size:85
Alignment explanation
Indices: 9670743--9670901 Score: 219
Period size: 85 Copynumber: 1.9 Consensus size: 85
9670733 TCACCATAGA
** *** ** * *
9670743 TAAGATAATGTAAGAAATCGTGTCAGAATTCAATTTTGGATGATTTTGTGACATACTTGCAATAA
1 TAAGATAATGTAAGAAATCAAGTCAGAATTCAATTTCAAATGATCCTATGACATACTTGCAACAA
9670808 CACAAGTATTTAAAAATAAG
66 CACAAGTATTTAAAAATAAG
* *
9670828 TAAGATAATGTCAGAGATCAAGTCAGAATTCAATTTCAAATGATCCTATGACATACTTGCAACAA
1 TAAGATAATGTAAGAAATCAAGTCAGAATTCAATTTCAAATGATCCTATGACATACTTGCAACAA
9670893 CACAAGTAT
66 CACAAGTAT
9670902 GTGGAGTGTT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 63 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (85 bp):
TAAGATAATGTAAGAAATCAAGTCAGAATTCAATTTCAAATGATCCTATGACATACTTGCAACAA
CACAAGTATTTAAAAATAAG
Found at i:9671700 original size:49 final size:48
Alignment explanation
Indices: 9671619--9671739 Score: 136
Period size: 49 Copynumber: 2.5 Consensus size: 48
9671609 GTGGCATGAA
* * * *
9671619 ACTTGAACCCATGACCGCATAATCCTCGTCAACT-GAGGCCTCAAGTTAT
1 ACTTGAACCCGTGACCGTATAA-CCTCGTCAACTAAAAGCC-CAAGTTAT
* * *
9671668 ACTTGAACTCGTGACCGTATAACCATCTTCAACTAAAAGCCCTAGTTAT
1 ACTTGAACCCGTGACCGTATAACC-TCGTCAACTAAAAGCCCAAGTTAT
*
9671717 ACTTCAACCCGTGACCGTATAAC
1 ACTTGAACCCGTGACCGTATAAC
9671740 TATCGTAAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
48 2 0.03
49 55 0.90
50 4 0.07
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.26
Consensus pattern (48 bp):
ACTTGAACCCGTGACCGTATAACCTCGTCAACTAAAAGCCCAAGTTAT
Found at i:9672803 original size:3 final size:3
Alignment explanation
Indices: 9672795--9672830 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
9672785 TAGGTAAGTT
9672795 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9672831 ATTTGCACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9676480 original size:300 final size:300
Alignment explanation
Indices: 9676011--9676615 Score: 1201
Period size: 300 Copynumber: 2.0 Consensus size: 300
9676001 GGAGAGGATC
9676011 TTAGAGGGAAGAGTTTTACTGGTAAAGAATTCATGGCTCTTTCCCCTTCCCAGCAAATCGAAACT
1 TTAGAGGGAAGAGTTTTACTGGTAAAGAATTCATGGCTCTTTCCCCTTCCCAGCAAATCGAAACT
9676076 TTGTCAAAGCCAGGGGGGAAGGTATTCTCTCGTGCTGAGCCTAGGCATAAGCAAGAAATTGTTAG
66 TTGTCAAAGCCAGGGGGGAAGGTATTCTCTCGTGCTGAGCCTAGGCATAAGCAAGAAATTGTTAG
9676141 GATGCTAAAAGAGATGGGGGAAATCGTCGCAATGACTGGAGATGGTGTGAATGATGCACCTGCTC
131 GATGCTAAAAGAGATGGGGGAAATCGTCGCAATGACTGGAGATGGTGTGAATGATGCACCTGCTC
9676206 TCAAACTGGCTGACATTGGAATTGCAATGGGCATAACTGGAACGGAGGTTAATATATTACCTTGT
196 TCAAACTGGCTGACATTGGAATTGCAATGGGCATAACTGGAACGGAGGTTAATATATTACCTTGT
9676271 TTCTTATGCTTGGAATTGGAATCTTGATTCTTGTAGACTT
261 TTCTTATGCTTGGAATTGGAATCTTGATTCTTGTAGACTT
9676311 TTAGAGGGAAGAGTTTTACTGGTAAAGAATTCATGGCTCTTTCCCCTTCCCAGCAAATCGAAACT
1 TTAGAGGGAAGAGTTTTACTGGTAAAGAATTCATGGCTCTTTCCCCTTCCCAGCAAATCGAAACT
*
9676376 TTGTCAAAGCCAGGGGGGAAGGTATTCTCTTGTGCTGAGCCTAGGCATAAGCAAGAAATTGTTAG
66 TTGTCAAAGCCAGGGGGGAAGGTATTCTCTCGTGCTGAGCCTAGGCATAAGCAAGAAATTGTTAG
9676441 GATGCTAAAAGAGATGGGGGAAATCGTCGCAATGACTGGAGATGGTGTGAATGATGCACCTGCTC
131 GATGCTAAAAGAGATGGGGGAAATCGTCGCAATGACTGGAGATGGTGTGAATGATGCACCTGCTC
9676506 TCAAACTGGCTGACATTGGAATTGCAATGGGCATAACTGGAACGGAGGTTAATATATTACCTTGT
196 TCAAACTGGCTGACATTGGAATTGCAATGGGCATAACTGGAACGGAGGTTAATATATTACCTTGT
9676571 TTCTTATGCTTGGAATTGGAATCTTGATTCTTGTAGACTT
261 TTCTTATGCTTGGAATTGGAATCTTGATTCTTGTAGACTT
9676611 TTAGA
1 TTAGA
9676616 TTAAACATGC
Statistics
Matches: 304, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
300 304 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (300 bp):
TTAGAGGGAAGAGTTTTACTGGTAAAGAATTCATGGCTCTTTCCCCTTCCCAGCAAATCGAAACT
TTGTCAAAGCCAGGGGGGAAGGTATTCTCTCGTGCTGAGCCTAGGCATAAGCAAGAAATTGTTAG
GATGCTAAAAGAGATGGGGGAAATCGTCGCAATGACTGGAGATGGTGTGAATGATGCACCTGCTC
TCAAACTGGCTGACATTGGAATTGCAATGGGCATAACTGGAACGGAGGTTAATATATTACCTTGT
TTCTTATGCTTGGAATTGGAATCTTGATTCTTGTAGACTT
Found at i:9688807 original size:28 final size:29
Alignment explanation
Indices: 9688766--9688821 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
9688756 CCAGGTTTTT
*
9688766 GGACACAGGTGTGTCT-AGGCCGTGTGAG
1 GGACACAGGCGTGTCTCAGGCCGTGTGAG
* * *
9688794 GGACACGGGCGTGTGTCCGGCCGTGTGA
1 GGACACAGGCGTGTCTCAGGCCGTGTGA
9688822 AAACCTCTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.14, C:0.21, G:0.45, T:0.20
Consensus pattern (29 bp):
GGACACAGGCGTGTCTCAGGCCGTGTGAG
Found at i:9690636 original size:21 final size:21
Alignment explanation
Indices: 9690592--9690662 Score: 115
Period size: 21 Copynumber: 3.3 Consensus size: 21
9690582 GTGTTTCACT
* *
9690592 TTCTGTTTAGCTCTTACAGAGC
1 TTCTGTTCAGCTCTTA-TGAGC
9690614 TTCTGTTCAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTATGAGC
9690635 TTCTGTTCAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTATGAGC
9690656 TTCTGTT
1 TTCTGTT
9690663 TTTCAACTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
21 32 0.68
22 15 0.32
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTATGAGC
Found at i:9690677 original size:43 final size:43
Alignment explanation
Indices: 9690592--9690684 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
9690582 GTGTTTCACT
* *
9690592 TTCTGTTTAGCTCTTACAGAGCTTCTGTTCAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTACAGAGCTTCTGTTCAACTCTTATGAGC
*
9690635 TTCTGTTCAGCTCTTA-TGAGCTTCTGTTTTTCAACT-TT-TGAGC
1 TTCTGTTCAGCTCTTACAGAGCTTCTG---TTCAACTCTTATGAGC
9690678 TTCTGTT
1 TTCTGTT
9690685 GGCGTATTCG
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
42 9 0.20
43 27 0.61
44 2 0.05
45 6 0.14
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (43 bp):
TTCTGTTCAGCTCTTACAGAGCTTCTGTTCAACTCTTATGAGC
Found at i:9691452 original size:26 final size:25
Alignment explanation
Indices: 9691401--9691452 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
9691391 GCCTTGTTAT
*
9691401 GGCTGGTTGATGTGCAATTTGTTGA
1 GGCTGGTTGATGTGCAATTTGGTGA
*
9691426 GGCTAGGTTGGTGT-CAATTTAGGTGA
1 GGCT-GGTTGATGTGCAATTT-GGTGA
9691452 G
1 G
9691453 AAATATGGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.17, C:0.08, G:0.38, T:0.37
Consensus pattern (25 bp):
GGCTGGTTGATGTGCAATTTGGTGA
Found at i:9696344 original size:21 final size:20
Alignment explanation
Indices: 9696320--9696358 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
9696310 TCATTTTTTT
9696320 TATAATTTAACAAATTTTAAA
1 TATAATTTAA-AAATTTTAAA
* *
9696341 TATATTTTAAATATTTTA
1 TATAATTTAAAAATTTTA
9696359 GAAATTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TATAATTTAAAAATTTTAAA
Found at i:9697383 original size:14 final size:14
Alignment explanation
Indices: 9697364--9697402 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
9697354 ACTTCCATTT
9697364 GAAAATAATTTTCA
1 GAAAATAATTTTCA
*
9697378 GAAAATAATTTTTA
1 GAAAATAATTTTCA
*
9697392 AAAAATAATTT
1 GAAAATAATTT
9697403 ATTTTCATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (14 bp):
GAAAATAATTTTCA
Found at i:9697871 original size:15 final size:16
Alignment explanation
Indices: 9697850--9697897 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
9697840 TATACTACAA
9697850 AATATTTATTATTAAT
1 AATATTTATTATTAAT
*
9697866 -ATATTTATAATTGTAAT
1 AATATTTATTA-T-TAAT
9697883 AAATATTTATTATTA
1 -AATATTTATTATTA
9697898 GAATATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 9 0.35
16 1 0.04
17 6 0.23
18 1 0.04
19 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
AATATTTATTATTAAT
Found at i:9697904 original size:34 final size:34
Alignment explanation
Indices: 9697849--9697917 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 34
9697839 TTATACTACA
*
9697849 AAATATTTATTATTAATATATTTATA-ATTGTAAT
1 AAATATTTATTATTAATATATTAATATATTG-AAT
9697883 AAATATTTATTATTAGA-ATATTAATATATTGAAT
1 AAATATTTATTATTA-ATATATTAATATATTGAAT
9697917 A
1 A
9697918 TTTTCAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 27 0.84
35 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (34 bp):
AAATATTTATTATTAATATATTAATATATTGAAT
Found at i:9698778 original size:15 final size:15
Alignment explanation
Indices: 9698758--9698809 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
9698748 ACTACAAAAC
9698758 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
9698773 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
9698792 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
9698807 ATT
1 ATT
9698810 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:9698873 original size:16 final size:16
Alignment explanation
Indices: 9698842--9698878 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
9698832 ATCTGAATCA
9698842 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
9698858 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
9698874 TATTA
1 TATTA
9698879 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:9698930 original size:22 final size:22
Alignment explanation
Indices: 9698890--9698945 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
9698880 AATAAAATTG
*
9698890 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
9698910 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
9698932 TATTAATAATTTAT
1 AAATAATAAATTAT
9698946 TATATGATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:9699913 original size:19 final size:19
Alignment explanation
Indices: 9699891--9699942 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
9699881 ATAATTTATT
9699891 TATAAAAATTTAATTTTAA
1 TATAAAAATTTAATTTTAA
* *
9699910 TATATAAA-TCATATTTTAA
1 TATAAAAATTTA-ATTTTAA
* *
9699929 TATTAAAATATAAT
1 TATAAAAATTTAAT
9699943 CATTAGGAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
18 2 0.08
19 22 0.88
20 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
TATAAAAATTTAATTTTAA
Found at i:9699927 original size:25 final size:24
Alignment explanation
Indices: 9699899--9699945 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
9699889 TTTATAAAAA
* *
9699899 TTTAATTTTAATATATAAATCATAT
1 TTTAATATTAAAATAT-AATCATAT
9699924 TTTAATATTAAAATATAATCAT
1 TTTAATATTAAAATATAATCAT
9699946 TAGGAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTAATATTAAAATATAATCATAT
Found at i:9700285 original size:20 final size:21
Alignment explanation
Indices: 9700262--9700302 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
9700252 TTTATTTCAA
9700262 ATATATAAAAT-TTTATATTT
1 ATATATAAAATATTTATATTT
*
9700282 ATATTTAAAATATTTATATTT
1 ATATATAAAATATTTATATTT
9700303 TATCATATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATATAAAATATTTATATTT
Found at i:9713664 original size:15 final size:15
Alignment explanation
Indices: 9713634--9713662 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9713624 ACTATTAGAA
9713634 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
9713649 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
9713663 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:9716564 original size:18 final size:19
Alignment explanation
Indices: 9716527--9716563 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9716517 TTTAAAAATA
9716527 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
9716545 TATAAATATTTAGAATTTT
1 TATAAATATTTAGAATTTT
9716564 AAAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:9716573 original size:19 final size:19
Alignment explanation
Indices: 9716530--9716574 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
9716520 AAAAATATAT
*
9716530 AAAT-TTTAGAATTTTTAT
1 AAATATTTAGAATTTTTAA
9716548 AAATATTTAGAA-TTTTAA
1 AAATATTTAGAATTTTTAA
9716566 AAATTATTT
1 AAA-TATTT
9716575 TGAAAATTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
AAATATTTAGAATTTTTAA
Found at i:9723772 original size:49 final size:49
Alignment explanation
Indices: 9723712--9723808 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
9723702 ACTAAGCAAC
* *
9723712 GTTTTCTAATAAATTTTGTTGCTTTTGATGTGGGGTTCCAATTTGGATT
1 GTTTTCCAATAAATTTTGTTGCTTTTGATGTGGGGTTCAAATTTGGATT
9723761 GTTTTCCAATAAATTTTGTTGCTTTTGATGTGGGGTTCAAATTTGGAT
1 GTTTTCCAATAAATTTTGTTGCTTTTGATGTGGGGTTCAAATTTGGAT
9723809 AACAGCTGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.20, C:0.08, G:0.23, T:0.49
Consensus pattern (49 bp):
GTTTTCCAATAAATTTTGTTGCTTTTGATGTGGGGTTCAAATTTGGATT
Found at i:9727622 original size:16 final size:16
Alignment explanation
Indices: 9727601--9727633 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9727591 AGTTGATGAG
9727601 TCTTAT-TTTATTAATT
1 TCTTATATTT-TTAATT
9727617 TCTTATATTTTTAATT
1 TCTTATATTTTTAATT
9727633 T
1 T
9727634 TTTTATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (16 bp):
TCTTATATTTTTAATT
Found at i:9727671 original size:28 final size:27
Alignment explanation
Indices: 9727623--9727685 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
9727613 AATTTCTTAT
* *
9727623 ATTTTTAATTTTTTTATAATTGCAATA
1 ATTTTTAATTTTTATATAATTGAAATA
*
9727650 ATTTTATAATTTCTTATA-AATTTAAATA
1 ATTTT-TAATTT-TTATATAATTGAAATA
*
9727678 ATTATTAA
1 ATTTTTAA
9727686 AAGTCTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 8 0.27
28 18 0.60
29 4 0.13
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.56
Consensus pattern (27 bp):
ATTTTTAATTTTTATATAATTGAAATA
Found at i:9733261 original size:47 final size:46
Alignment explanation
Indices: 9733199--9733398 Score: 154
Period size: 47 Copynumber: 4.4 Consensus size: 46
9733189 ATATACATAC
*
9733199 ATATAT-ATATTAAAATATAAACATAATAATAGTATTACAAAGTAT
1 ATATATAATATTAAAATATAAACATAATAATAATATTACAAAGTAT
* * *
9733244 ATATATAATATTAAAAATATATACATAATATATACATATTAGAGA-TA-
1 ATATATAATATT-AAAATATAAACATAATA-ATA-ATATTACAAAGTAT
* *
9733291 ATA-ATAATATTAAAA-AT-AAC-TATTAATAATACTACATAAGTAT
1 ATATATAATATTAAAATATAAACATAATAATAATATTACA-AAGTAT
* *
9733334 ACACATATCTATATTAAAA-AT-AA-ATACATAATAATATTA-AAAGTAT
1 --ATATAT-AATATTAAAATATAAACATA-ATAATAATATTACAAAGTAT
* *
9733380 ATACATAATA-TATAATATA
1 ATATATAATATTAAAATATA
9733399 GTTATTAAAA
Statistics
Matches: 123, Mismatches: 17, Indels: 31
0.72 0.10 0.18
Matches are distributed among these distances:
40 6 0.05
41 4 0.03
42 10 0.08
43 7 0.06
44 6 0.05
45 12 0.10
46 21 0.17
47 35 0.28
48 15 0.12
49 7 0.06
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (46 bp):
ATATATAATATTAAAATATAAACATAATAATAATATTACAAAGTAT
Found at i:9733309 original size:18 final size:20
Alignment explanation
Indices: 9733268--9733309 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
9733258 AAATATATAC
* *
9733268 ATAATATATACATATTAGAG
1 ATAATATATACATATTAAAA
9733288 ATAATA-ATA-ATATTAAAA
1 ATAATATATACATATTAAAA
9733306 ATAA
1 ATAA
9733310 CTATTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.55
19 3 0.15
20 6 0.30
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (20 bp):
ATAATATATACATATTAAAA
Found at i:9733437 original size:25 final size:27
Alignment explanation
Indices: 9733394--9733450 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 27
9733384 ATAATATATA
*
9733394 ATATAGTTATTAAAAAATACATACAAT
1 ATATAGTTATTAAAAAATACACACAAT
* *
9733421 ATATAG-TATT-AAGAATATACACAAT
1 ATATAGTTATTAAAAAATACACACAAT
9733446 ATATA
1 ATATA
9733451 TGGTACTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 17 0.63
26 4 0.15
27 6 0.22
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.33
Consensus pattern (27 bp):
ATATAGTTATTAAAAAATACACACAAT
Found at i:9733440 original size:27 final size:25
Alignment explanation
Indices: 9733394--9733450 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 25
9733384 ATAATATATA
9733394 ATATAGTTATTAAAAAATACATACAAT
1 ATATAGTTATTAAAAAATAC--ACAAT
*
9733421 ATATAG-TATTAAGAATATACACAAT
1 ATATAGTTATTAA-AAAATACACAAT
9733446 ATATA
1 ATATA
9733451 TGGTACTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 10 0.36
26 6 0.21
27 12 0.43
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.33
Consensus pattern (25 bp):
ATATAGTTATTAAAAAATACACAAT
Found at i:9733451 original size:27 final size:27
Alignment explanation
Indices: 9733389--9733466 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 27
9733379 TATACATAAT
* *
9733389 ATATAATATAGTTATTAAAAAATACATAC
1 ATAT-ATATAG-TATTAAAATATACACAC
9733418 A-ATATATAGTATTAAGAATATACACA-
1 ATATATATAGTATTAA-AATATACACAC
* *
9733444 ATATATATGGTACTAAAAATATA
1 ATATATATAGTA-TTAAAATATA
9733467 GTATTAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 7 0.17
27 29 0.69
28 5 0.12
29 1 0.02
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.33
Consensus pattern (27 bp):
ATATATATAGTATTAAAATATACACAC
Found at i:9733673 original size:21 final size:22
Alignment explanation
Indices: 9733643--9733683 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
9733633 ATATACACGT
*
9733643 AAACACATATATATA-TATTGA
1 AAACACATATACATAGTATTGA
*
9733664 AAACATATATACATAGTATT
1 AAACACATATACATAGTATT
9733684 AGTATTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (22 bp):
AAACACATATACATAGTATTGA
Found at i:9733696 original size:23 final size:22
Alignment explanation
Indices: 9733670--9733714 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
9733660 TTGAAAACAT
* *
9733670 ATATACATAGTATTAGTATTTAA
1 ATATACATAATA-TAATATTTAA
*
9733693 ATATATATAATATAATATTTAA
1 ATATACATAATATAATATTTAA
9733715 GAAAAACTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (22 bp):
ATATACATAATATAATATTTAA
Found at i:9733937 original size:19 final size:19
Alignment explanation
Indices: 9733915--9733952 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9733905 ATAATAATGC
9733915 TAATAAATAAT-AAATATAA
1 TAAT-AATAATAAAATATAA
*
9733934 TAATAGTAATAAAATATAA
1 TAATAATAATAAAATATAA
9733953 AAGTATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
TAATAATAATAAAATATAA
Found at i:9735842 original size:88 final size:86
Alignment explanation
Indices: 9735690--9735918 Score: 266
Period size: 88 Copynumber: 2.6 Consensus size: 86
9735680 GTGATCCTGA
* * * *
9735690 GCTCAACTCACTTCTCGCAATATGAGTTGACTCTTTAAAAACAGACATT-AAAAATAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGA-ATTGAAAAACAGAAATTGA
* * *
9735754 AAATAGCTCAGCACA-TGAGCCAAT
64 AAATACCTC-G-ACAGTGACCCAAG
*
9735778 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGAAAAACA-AATTTTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAA-TTGAAAAACAGAA-ATTGA
*
9735842 AAATACCTCGACATGTGACCCGAG
64 AAATACCTCGACA-GTGACCCAAG
*
9735866 GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAG-AATTGAAA
9735919 TTACTTCAGC
Statistics
Matches: 124, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
86 4 0.03
87 17 0.14
88 89 0.72
89 12 0.10
90 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (86 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTGAAAAACAGAAATTGAAA
ATACCTCGACAGTGACCCAAG
Found at i:9736019 original size:75 final size:73
Alignment explanation
Indices: 9735863--9736061 Score: 285
Period size: 75 Copynumber: 2.7 Consensus size: 73
9735853 CATGTGACCC
* *
9735863 GAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTGACAAACAGAAATTGAAATTACTTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAAATTGAAAATACTTCA
*
9735927 GCGTGTCTT
65 ACGTGTCTT
* *
9735936 GAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTTTAAAGACAGAAATTGAAAATACCTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATA-CTT
*
9736001 -AATGTGTCTT
63 CAACGTGTCTT
*
9736011 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAACAGAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAAT
9736062 AAAAACATCA
Statistics
Matches: 113, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
73 38 0.34
74 12 0.11
75 60 0.53
76 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (73 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACTTCAA
CGTGTCTT
Found at i:9741590 original size:37 final size:37
Alignment explanation
Indices: 9741537--9741639 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
9741527 CGAATAGTCC
* *
9741537 CCACACGTAGTTATCGGGTCTTACCCGGGCAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
9741574 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
9741611 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
9741640 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:9741843 original size:50 final size:50
Alignment explanation
Indices: 9741789--9741890 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
9741779 CATCTCCTAC
9741789 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
9741839 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
9741889 AT
1 AT
9741891 GCTTTACCAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.36
Consensus pattern (50 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:9741895 original size:31 final size:31
Alignment explanation
Indices: 9741860--9741921 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
9741850 TAGCCATTCG
*
9741860 GCTTTACCACATATACATATCTCATATATAT
1 GCTTTACCACATATACATATCTCATACATAT
9741891 GCTTTACCACATATACATATCTCATACATAT
1 GCTTTACCACATATACATATCTCATACATAT
9741922 TTCACATTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.37
Consensus pattern (31 bp):
GCTTTACCACATATACATATCTCATACATAT
Found at i:9741921 original size:48 final size:46
Alignment explanation
Indices: 9741891--9742164 Score: 201
Period size: 48 Copynumber: 5.4 Consensus size: 46
9741881 TCATATATAT
*
9741891 GCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
1 GCTTTACCACATATACATATCTCATACATA--TCACATTAGCCATTAG
*
9741939 GCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
1 GCTTTACCACATATACATATCTCATACATA--TCACATTAGCCATTAG
* * *
9741987 ACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCG
1 GCTTTACCACATATACATATCTCATACATA--TCACATTAGCCATTAG
* * * * *
9742035 GCTTTAGCCATTCGACTTTACCACATATACATATCTCATAT-ATATT-TCACATTAGCCATTCG
1 GCTTTA-CCA--C-A-TATA-CATATCT-CATA---CATATCACATTAGC-CATT----A---G
*
9742097 GCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
1 GCTTTACCACATATACATATCTCATACATA--TCACATTAGCCATTAG
9742145 GCTTTACCACATATACATAT
1 GCTTTACCACATATACATAT
9742165 ATATTTATCT
Statistics
Matches: 188, Mismatches: 16, Indels: 44
0.76 0.06 0.18
Matches are distributed among these distances:
48 120 0.64
49 3 0.02
51 1 0.01
52 5 0.03
53 3 0.02
54 7 0.04
55 24 0.13
56 7 0.04
57 3 0.02
58 4 0.02
59 1 0.01
61 3 0.02
62 7 0.04
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (46 bp):
GCTTTACCACATATACATATCTCATACATATCACATTAGCCATTAG
Found at i:9741935 original size:129 final size:127
Alignment explanation
Indices: 9741780--9742017 Score: 413
Period size: 127 Copynumber: 1.9 Consensus size: 127
9741770 ATATACACAC
* *
9741780 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTT
*
9741845 CACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATGCTTTACCACATATACAT
64 CACACTAGCCATTCGACTTTACCACATATACATATCTCATATATATGCTTTACCACATATACAT
*
9741909 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
9741974 CATTAGCCATTCGACTTTACCACATATACATATCTCATATATAT
66 CACTAGCCATTCGACTTTACCACATATACATATCTCATATATAT
9742018 TTCACATTAG
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
127 53 0.51
129 51 0.49
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.36
Consensus pattern (127 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGACTTTACCACATATACATATCTCATATATATGCTTTACCACATATACAT
Found at i:9741950 original size:79 final size:80
Alignment explanation
Indices: 9741810--9741969 Score: 277
Period size: 79 Copynumber: 2.0 Consensus size: 80
9741800 TAGCCATTCG
*
9741810 GCTTTACCACATATACATATCTCATATATATATTTCACACTAGCCATTCGGCTTTACCACATATA
1 GCTTTACCACATATACATATCTCA-ATACATATTTCACACTAGCCATTCGGCTTTACCACATATA
*
9741875 CATATCTCATATATAT
65 CATATCTCATACATAT
*
9741891 GCTTTACCACATATACATATCTC-ATACATATTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GCTTTACCACATATACATATCTCAATACATATTTCACACTAGCCATTCGGCTTTACCACATATAC
9741955 ATATCTCATACATAT
66 ATATCTCATACATAT
9741970 TTCACATTAG
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
79 53 0.70
81 23 0.30
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (80 bp):
GCTTTACCACATATACATATCTCAATACATATTTCACACTAGCCATTCGGCTTTACCACATATAC
ATATCTCATACATAT
Found at i:9742043 original size:14 final size:14
Alignment explanation
Indices: 9742024--9742054 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9742014 ATATTTCACA
*
9742024 TTAGCCATTCGGCT
1 TTAGCCATTCGACT
9742038 TTAGCCATTCGACT
1 TTAGCCATTCGACT
9742052 TTA
1 TTA
9742055 CCACATATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.39
Consensus pattern (14 bp):
TTAGCCATTCGACT
Found at i:9742046 original size:62 final size:62
Alignment explanation
Indices: 9741976--9742102 Score: 254
Period size: 62 Copynumber: 2.0 Consensus size: 62
9741966 ATATTTCACA
9741976 TTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCT
1 TTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCT
9742038 TTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCT
1 TTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCT
9742100 TTA
1 TTA
9742103 CCACATATAC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (62 bp):
TTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCT
Found at i:9742048 original size:110 final size:110
Alignment explanation
Indices: 9741928--9742150 Score: 410
Period size: 110 Copynumber: 2.0 Consensus size: 110
9741918 ATATTTCACA
*
9741928 TTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTA
1 TTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTA
*
9741993 CCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCT
66 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCT
* *
9742038 TTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTA
1 TTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTA
9742103 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCT
66 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCT
9742148 TTA
1 TTA
9742151 CCACATATAC
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (110 bp):
TTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTA
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCT
Found at i:9751351 original size:46 final size:47
Alignment explanation
Indices: 9751252--9751455 Score: 148
Period size: 47 Copynumber: 4.4 Consensus size: 47
9751242 ATATACATAC
*
9751252 ATATAT-ATATT-AAAATATAAACATAATAATAGTATTACAAAGTAT
1 ATATATAATATTAAAAATATAAACATAATAATAATATTACAAAGTAT
* * *
9751297 ATATATAATATTAAAAATATATACATAATATATACATATTAGAGA-TA-
1 ATATATAATATTAAAAATATAAACATAATA-ATA-ATATTACAAAGTAT
* * *
9751344 ATA-ATAATATT-AAAA-A-CAAC-TATTAATAATACTACATAAGTAT
1 ATATATAATATTAAAAATATAAACATAATAATAATATTACA-AAGTAT
*
9751387 ACACATATATATATT-AAAA-AT-AA-ATACATAATAATATTA-AAAGTAT
1 --ATATATA-ATATTAAAAATATAAACATA-ATAATAATATTACAAAGTAT
*
9751433 ATACATAATATATATAAAATATA
1 ATATATAATAT-TA-AAAATATA
9751456 GTTGTCGAAA
Statistics
Matches: 125, Mismatches: 15, Indels: 35
0.71 0.09 0.20
Matches are distributed among these distances:
40 6 0.05
41 4 0.03
42 6 0.05
43 6 0.05
44 7 0.06
45 12 0.10
46 26 0.21
47 36 0.29
48 15 0.12
49 7 0.06
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (47 bp):
ATATATAATATTAAAAATATAAACATAATAATAATATTACAAAGTAT
Found at i:9751368 original size:59 final size:57
Alignment explanation
Indices: 9751303--9751446 Score: 141
Period size: 59 Copynumber: 2.5 Consensus size: 57
9751293 GTATATATAT
*
9751303 AATATTAAAAATATATACATAATATATACATAT-TAGAGATAATAATAATATTA-AAAAC
1 AATATTAAAAATATATACATAATATATACATATATAGA-ATAAAAATAA-A-TACAAAAC
* * * * * * *
9751361 AACTATTAATAATA-CTACATAAGTATACACATATATATATTAAAAATAAATACATAAT
1 AA-TATTAAAAATATATACATAA-TATATACATATATAGAATAAAAATAAATACAAAAC
*
9751419 AATATTAAAAGTATATACATAATATATA
1 AATATTAAAAATATATACATAATATATA
9751447 TAAAATATAG
Statistics
Matches: 69, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
57 16 0.23
58 22 0.32
59 28 0.41
60 3 0.04
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (57 bp):
AATATTAAAAATATATACATAATATATACATATATAGAATAAAAATAAATACAAAAC
Found at i:9752835 original size:14 final size:14
Alignment explanation
Indices: 9752816--9752845 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9752806 AACACGACAC
9752816 AAAAATAATGGACT
1 AAAAATAATGGACT
*
9752830 AAAAATGATGGACT
1 AAAAATAATGGACT
9752844 AA
1 AA
9752846 CAATCAAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (14 bp):
AAAAATAATGGACT
Found at i:9753447 original size:32 final size:32
Alignment explanation
Indices: 9753402--9753473 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
9753392 AGGTAATAAA
*
9753402 TAAAATAT-TTTAAAGT-AAATA-AATAAAGTT
1 TAAAATATATTTAAAATAAAATATAA-AAAGTT
*
9753432 TAAGAATATATTTAAAATAAAATATAAATAGTT
1 TAA-AATATATTTAAAATAAAATATAAAAAGTT
9753465 TAAAATATA
1 TAAAATATA
9753474 ATTCATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
30 3 0.08
31 5 0.14
32 13 0.36
33 13 0.36
34 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (32 bp):
TAAAATATATTTAAAATAAAATATAAAAAGTT
Found at i:9753571 original size:36 final size:33
Alignment explanation
Indices: 9753530--9753607 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 33
9753520 TTTATATATG
* * *
9753530 AATAATATATATATATATATATAAACGTTAAAAAT
1 AATAATAT-TA-ATATATACATAAAAGTTAAAAAC
* *
9753565 AGATAATGTTAATATATACATAAAAGTTTAAAAC
1 A-ATAATATTAATATATACATAAAAGTTAAAAAC
9753599 AATAATATT
1 AATAATATT
9753608 TAAATAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
33 7 0.19
34 20 0.56
35 3 0.08
36 6 0.17
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (33 bp):
AATAATATTAATATATACATAAAAGTTAAAAAC
Found at i:9755147 original size:25 final size:25
Alignment explanation
Indices: 9755098--9755167 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 25
9755088 GGCCCACTAC
9755098 AATAGTTATTAAAAA-ATACATACAATA
1 AATAG-TATTAAAAATATAC--ACAATA
* *
9755125 TATAGTATTAAGAATATACACAATA
1 AATAGTATTAAAAATATACACAATA
*
9755150 AATGGTATTAAAAATATA
1 AATAGTATTAAAAATATA
9755168 GTATTAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 21 0.57
26 8 0.22
27 8 0.22
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (25 bp):
AATAGTATTAAAAATATACACAATA
Found at i:9761517 original size:45 final size:43
Alignment explanation
Indices: 9761466--9761703 Score: 138
Period size: 45 Copynumber: 5.4 Consensus size: 43
9761456 ATCCTGTTTC
9761466 CCTGAAGTTGCAGTGGAGCAGATCAAAGACAACGAATCTTGACTT
1 CCTGAAGTTGCAGTGGAGCAGATCAAAGAC-ACGAATCTTG-CTT
* * * ** * * * * *
9761511 CCTGAAGTTGCAATGAAACAGATTTAAGTCACTAACCTAGCTC
1 CCTGAAGTTGCAGTGGAGCAGATCAAAGACACGAATCTTGCTT
* * * * **** * *
9761554 CCTAAAGTTGTAGTGGAGTA-AGTTAAA-ATTTTAGATCTCGTTT
1 CCTGAAGTTGCAGTGGAGCAGA-TCAAAGACACGA-ATCTTGCTT
9761597 CCCTGAAGTTGCAGTGGAGCAGATCAAAGACGACGAATCTTGACTT
1 -CCTGAAGTTGCAGTGGAGCAGATCAAAGAC-ACGAATCTTG-CTT
* ** * * * *
9761643 CCTGAAGTTGCAGTGAAGCAGATTTAAGTCACTAATCTAGCTC
1 CCTGAAGTTGCAGTGGAGCAGATCAAAGACACGAATCTTGCTT
* *
9761686 CCTAAAGTTGTAGTGGAG
1 CCTGAAGTTGCAGTGGAG
9761704 TAAGTCAAAA
Statistics
Matches: 141, Mismatches: 45, Indels: 16
0.70 0.22 0.08
Matches are distributed among these distances:
42 3 0.02
43 42 0.30
44 36 0.26
45 57 0.40
46 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (43 bp):
CCTGAAGTTGCAGTGGAGCAGATCAAAGACACGAATCTTGCTT
Found at i:9761667 original size:132 final size:132
Alignment explanation
Indices: 9761461--9761752 Score: 530
Period size: 132 Copynumber: 2.2 Consensus size: 132
9761451 CACAGATCCT
9761461 GTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACAACGAATCTTGACTTCCTGAAGTTGCAATG
1 GTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACAACGAATCTTGACTTCCTGAAGTTGCAATG
*
9761526 AAACAGATTTAAGTCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAAGTTAAAATTTTAGATC
66 AAACAGATTTAAGTCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAAGTCAAAATTTTAGATC
9761591 TC
131 TC
* *
9761593 GTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGACGAATCTTGACTTCCTGAAGTTGCAGTG
1 GTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACAACGAATCTTGACTTCCTGAAGTTGCAATG
* *
9761658 AAGCAGATTTAAGTCACTAATCTAGCTCCCTAAAGTTGTAGTGGAGTAAGTCAAAATTTTAGATC
66 AAACAGATTTAAGTCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAAGTCAAAATTTTAGATC
9761723 TC
131 TC
*
9761725 GTTTCCCTAAAGTTGCAGTGGAGCAGAT
1 GTTTCCCTGAAGTTGCAGTGGAGCAGAT
9761753 TTAAGCCATC
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 154 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (132 bp):
GTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACAACGAATCTTGACTTCCTGAAGTTGCAATG
AAACAGATTTAAGTCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAAGTCAAAATTTTAGATC
TC
Found at i:9761733 original size:44 final size:44
Alignment explanation
Indices: 9761684--9761834 Score: 119
Period size: 44 Copynumber: 3.5 Consensus size: 44
9761674 CTAATCTAGC
*
9761684 TCCCTAAAGTTGTAGTGGAGTAAGTCAAAATTTTAGATCTCGTT
1 TCCCTAAAGTTGTAGTGGAGTAAGTCAAAATTTTAGATCTAGTT
* * * * **** * ** *
9761728 TCCCTAAAGTTGCAGTGGAGCAGATTTAAGCCATCA-CCCTAG-C
1 TCCCTAAAGTTGTAGTGGAGTA-AGTCAAAATTTTAGATCTAGTT
* * *
9761771 TCCCTAAAGTTGTAGTGGAGT-AGGCTAAAATTTTAGGTCTGGTT
1 TCCCTAAAGTTGTAGTGGAGTAAGTC-AAAATTTTAGATCTAGTT
9761815 TCCCTAAAGTTGTAGTGGAG
1 TCCCTAAAGTTGTAGTGGAG
9761835 CAGATCAAAG
Statistics
Matches: 76, Mismatches: 27, Indels: 8
0.68 0.24 0.07
Matches are distributed among these distances:
41 1 0.01
42 4 0.05
43 22 0.29
44 43 0.57
45 6 0.08
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (44 bp):
TCCCTAAAGTTGTAGTGGAGTAAGTCAAAATTTTAGATCTAGTT
Found at i:9761757 original size:87 final size:87
Alignment explanation
Indices: 9761647--9761839 Score: 282
Period size: 87 Copynumber: 2.2 Consensus size: 87
9761637 TGACTTCCTG
* * * *
9761647 AAGTTGCAGTGAAGCAGATTTAAGTCA-CTAATCTAGCTCCCTAAAGTTGTAGTGGAGTAAG-TC
1 AAGTTGCAGTGGAGCAGATTTAAGCCATC-AACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCT-
9761710 AAAATTTTAGATCTCGTTTCCCTA
64 AAAATTTTAGATCTCGTTTCCCTA
*
9761734 AAGTTGCAGTGGAGCAGATTTAAGCCATCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAA
1 AAGTTGCAGTGGAGCAGATTTAAGCCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAA
* *
9761799 AATTTTAGGTCTGGTTTCCCTA
66 AATTTTAGATCTCGTTTCCCTA
*
9761821 AAGTTGTAGTGGAGCAGAT
1 AAGTTGCAGTGGAGCAGAT
9761840 CAAAGACGAC
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
87 94 0.98
88 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (87 bp):
AAGTTGCAGTGGAGCAGATTTAAGCCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAA
AATTTTAGATCTCGTTTCCCTA
Found at i:9761871 original size:132 final size:132
Alignment explanation
Indices: 9761734--9761971 Score: 354
Period size: 132 Copynumber: 1.8 Consensus size: 132
9761724 CGTTTCCCTA
** * *
9761734 AAGTTGCAGTGGAGCAGATTTAAGCCA-TCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG-CT
1 AAGTTGCAGTAAAACAGATTTAAGCCACT-AACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTC-
* * *
9761797 AAAATTTTAGGTCTGGTTTCCCTAAAGTTGTAGTGGAGCAGATCAAAGACGACGAATCTTGACTT
64 AAAATTTTAGATCTCGTTTCCCTAAAGTTGCAGTGGAGCAGATCAAAGACGACGAATCTTGACTT
9761862 CCTG
129 CCTG
* *
9761866 AAGTTGCAGTAAAACAGATTTAAGTCACTAACCTAGCTCCCTAGAGTTGTAGTGGAGTAGGTCAA
1 AAGTTGCAGTAAAACAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTCAA
*
9761931 AATTTTAGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGAT
66 AATTTTAGATCTCGTTTCCCTAAAGTTGCAGTGGAGCAGAT
9761972 TTAAGCCATC
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
132 92 0.98
133 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
AAGTTGCAGTAAAACAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTCAA
AATTTTAGATCTCGTTTCCCTAAAGTTGCAGTGGAGCAGATCAAAGACGACGAATCTTGACTTCC
TG
Found at i:9761894 original size:219 final size:219
Alignment explanation
Indices: 9761515--9762015 Score: 815
Period size: 219 Copynumber: 2.3 Consensus size: 219
9761505 TGACTTCCTG
* * * * * *
9761515 AAGTTGCAATGAAACAGATTTAAGTCA-CTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAAGTTA
1 AAGTTGCAGTGGAGCAGATTTAAGCCATC-AACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTA
*
9761579 AAATTTTAGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGACGAATCTTGACTTC
65 AAATTTTAGATCTCGTTTCCCTAAAGTTGCAGTGGAGCAGATCAAAGACGACGAATCTTGACTTC
* * *
9761644 CTGAAGTTGCAGTGAAGCAGATTTAAGTCACTAATCTAGCTCCCTAAAGTTGTAGTGGAGTAAGT
130 CTGAAGTTGCAGTAAAACAGATTTAAGTCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAAGT
9761709 CAAAATTTTAGATCTCGTTTCCCTA
195 CAAAATTTTAGATCTCGTTTCCCTA
*
9761734 AAGTTGCAGTGGAGCAGATTTAAGCCATCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAA
1 AAGTTGCAGTGGAGCAGATTTAAGCCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAA
* * *
9761799 AATTTTAGGTCTGGTTTCCCTAAAGTTGTAGTGGAGCAGATCAAAGACGACGAATCTTGACTTCC
66 AATTTTAGATCTCGTTTCCCTAAAGTTGCAGTGGAGCAGATCAAAGACGACGAATCTTGACTTCC
* *
9761864 TGAAGTTGCAGTAAAACAGATTTAAGTCACTAACCTAGCTCCCTAGAGTTGTAGTGGAGTAGGTC
131 TGAAGTTGCAGTAAAACAGATTTAAGTCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAAGTC
*
9761929 AAAATTTTAGATCTCGTTTCCCTG
196 AAAATTTTAGATCTCGTTTCCCTA
* *
9761953 AAGTTGCAGTGGAGCAGATTTAAGCCATCAGCCTAGCTCCCTAAAATTGTAGTGGAGTAGGCT
1 AAGTTGCAGTGGAGCAGATTTAAGCCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCT
9762016 GAAGAATGCA
Statistics
Matches: 262, Mismatches: 19, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
219 261 1.00
220 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (219 bp):
AAGTTGCAGTGGAGCAGATTTAAGCCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAA
AATTTTAGATCTCGTTTCCCTAAAGTTGCAGTGGAGCAGATCAAAGACGACGAATCTTGACTTCC
TGAAGTTGCAGTAAAACAGATTTAAGTCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAAGTC
AAAATTTTAGATCTCGTTTCCCTA
Found at i:9765130 original size:130 final size:130
Alignment explanation
Indices: 9764881--9765253 Score: 462
Period size: 130 Copynumber: 2.9 Consensus size: 130
9764871 AAAATTCTTC
* * * * *
9764881 AAAACAAAGACGAAATTTGATGTTCGGCAATTCGCGGAATTGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * * * *
9764946 TTTCGTATTTGCTCAAAATAATTGAATTTCCCTTTGAAATTCCATTCATATCTTTTAAAACCCCT
66 TTTCGTATTTGCTCAAAATAATCGAATATCCCTTTAAAATTTCACTCGTATCTTTTAAAACCCCT
* *
9765011 TAAACGAAGATGAGATTTGATGTTTGGCAATTTGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * *
9765076 TTTCGTATTTGCTCAAAATAATCGAATATCACTTTAAAATTTCACTCGTGTCTTTTAAAATCCCT
66 TTTCGTATTTGCTCAAAATAATCGAATATCCCTTTAAAATTTCACTCGTATCTTTTAAAACCCCT
* * * * * * * *
9765141 AAAACGAAGGTGATATCTGGTATTTGGCAATTCGTGGGATCGTGCCCTAACGTGTTGGGTAGCAA
1 AAAACGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * *
9765206 TTTC-TCGA-TTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTCG
66 TTTCGT--ATTTGCTCAAAATAATCGAATATCCCTTTAAAATTTCACTCG
9765254 GCTCTTCTAA
Statistics
Matches: 210, Mismatches: 31, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
129 1 0.00
130 208 0.99
131 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (130 bp):
AAAACGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
TTTCGTATTTGCTCAAAATAATCGAATATCCCTTTAAAATTTCACTCGTATCTTTTAAAACCCCT
Found at i:9766693 original size:3 final size:3
Alignment explanation
Indices: 9766687--9766720 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
9766677 TCTAATTTGG
9766687 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9766721 CATGGCATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9769980 original size:36 final size:36
Alignment explanation
Indices: 9769932--9770003 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
9769922 GAGTGAGACA
9769932 TTGAATGGGATGGAAAAGGTGTAGTGGAGGTAGGTG
1 TTGAATGGGATGGAAAAGGTGTAGTGGAGGTAGGTG
* * *
9769968 TTGAATGTGATGGGATAGGTGTAGTGGAGGTAGGTG
1 TTGAATGGGATGGAAAAGGTGTAGTGGAGGTAGGTG
9770004 GCGTATTTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.25, C:0.00, G:0.47, T:0.28
Consensus pattern (36 bp):
TTGAATGGGATGGAAAAGGTGTAGTGGAGGTAGGTG
Found at i:9784471 original size:17 final size:17
Alignment explanation
Indices: 9784451--9784489 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
9784441 TATTGAGAAA
9784451 TTTTTTTGGTATTTTAT
1 TTTTTTTGGTATTTTAT
9784468 TTTTTTTGGTATTTTAT
1 TTTTTTTGGTATTTTAT
9784485 TTTTT
1 TTTTT
9784490 ATAATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (17 bp):
TTTTTTTGGTATTTTAT
Found at i:9784497 original size:17 final size:17
Alignment explanation
Indices: 9784460--9784500 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
9784450 ATTTTTTTGG
* **
9784460 TATTTTATTTTTTTTGG
1 TATTTTATTTTTTATAA
9784477 TATTTTATTTTTTATAA
1 TATTTTATTTTTTATAA
9784494 TATTTTA
1 TATTTTA
9784501 ATAAAAAACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (17 bp):
TATTTTATTTTTTATAA
Found at i:9791426 original size:13 final size:14
Alignment explanation
Indices: 9791403--9791431 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9791393 GCGGCTCTGC
9791403 TTTTTCTTTTTCTT
1 TTTTTCTTTTTCTT
9791417 TTTTTC-TTTTCTT
1 TTTTTCTTTTTCTT
9791430 TT
1 TT
9791432 GTTCATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTCTTTTTCTT
Found at i:9792130 original size:23 final size:24
Alignment explanation
Indices: 9792086--9792130 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
9792076 AAAAATTTAT
* *
9792086 ATTGATTTTACAAAATATTTGAAA
1 ATTGATTTTACAAAAAAGTTGAAA
*
9792110 ATTG-TTTTATAAAAAAGTTGA
1 ATTGATTTTACAAAAAAGTTGA
9792131 TTTCTCAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.42
Consensus pattern (24 bp):
ATTGATTTTACAAAAAAGTTGAAA
Found at i:9794225 original size:38 final size:38
Alignment explanation
Indices: 9794168--9794346 Score: 236
Period size: 38 Copynumber: 4.7 Consensus size: 38
9794158 GCACATATAT
* * * *
9794168 TGCCATGGCCCCGCCATGGTCTTTACACTTT-ATCATAA
1 TGCCATAGCCCAGCTATGGTC-TTACACTTTAATCACAA
*
9794206 TGCCATAGCTCAGCTATGGTCTTTACACTTT-ATCACAA
1 TGCCATAGCCCAGCTATGGTC-TTACACTTTAATCACAA
* * *
9794244 TGACATAGCCCAGCTATGGTCTTACACTTTAATTACGA
1 TGCCATAGCCCAGCTATGGTCTTACACTTTAATCACAA
* *
9794282 TGCCATAGCCCAGCTATGGTCTTACACTTTAATTACGA
1 TGCCATAGCCCAGCTATGGTCTTACACTTTAATCACAA
9794320 TGCCATAGCCCAGCTATGGTCTTACAC
1 TGCCATAGCCCAGCTATGGTCTTACAC
9794347 GTACACACAT
Statistics
Matches: 130, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
37 9 0.07
38 121 0.93
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (38 bp):
TGCCATAGCCCAGCTATGGTCTTACACTTTAATCACAA
Found at i:9797588 original size:23 final size:24
Alignment explanation
Indices: 9797560--9797604 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
9797550 ACAAAACAAG
* *
9797560 ATAATATAAAAATTC-ACTCCATT
1 ATAATAAAAAAAATCGACTCCATT
9797583 ATAATAAAAAAAATCGACTCCA
1 ATAATAAAAAAAATCGACTCCA
9797605 CCAAATTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.53, C:0.18, G:0.02, T:0.27
Consensus pattern (24 bp):
ATAATAAAAAAAATCGACTCCATT
Found at i:9800812 original size:30 final size:28
Alignment explanation
Indices: 9800758--9800830 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
9800748 CATGTTTATA
9800758 ATTTTAATAAGTTTTCTATATTTTT-ATAT
1 ATTTTAATAA-TTTTCTATATTTTTCA-AT
*
9800787 CATTTTAATAATTTTCTAATTTTTTTCAAT
1 -ATTTTAATAATTTTCT-ATATTTTTCAAT
*
9800817 ATTTTAGTAATTTT
1 ATTTTAATAATTTT
9800831 AGGCTTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
29 19 0.49
30 19 0.49
31 1 0.03
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (28 bp):
ATTTTAATAATTTTCTATATTTTTCAAT
Found at i:9800830 original size:29 final size:29
Alignment explanation
Indices: 9800727--9800810 Score: 90
Period size: 28 Copynumber: 3.0 Consensus size: 29
9800717 TAATATATTA
*
9800727 ATAT-ATTTT-ATAATATTT-TATCATGTTT
1 ATATCATTTTAATAAT-TTTCTAT-ATTTTT
9800755 ATA--ATTTTAATAAGTTTTCTATATTTTT
1 ATATCATTTTAATAA-TTTTCTATATTTTT
9800783 ATATCATTTTAATAATTTTCTA-ATTTTT
1 ATATCATTTTAATAATTTTCTATATTTTT
9800811 TTCAATATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
27 5 0.10
28 24 0.48
29 11 0.22
30 10 0.20
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (29 bp):
ATATCATTTTAATAATTTTCTATATTTTT
Found at i:9804403 original size:6 final size:6
Alignment explanation
Indices: 9804392--9804426 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
9804382 TATAATCCCA
9804392 TATAAT TATAAT TATAAT TATAAT TATAAT TATAA
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATAA
9804427 GGACGAGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TATAAT
Found at i:9810024 original size:9 final size:8
Alignment explanation
Indices: 9809998--9810022 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9809988 AATTATAAAA
9809998 TAATTTTT
1 TAATTTTT
9810006 TAATTTTT
1 TAATTTTT
9810014 TAATTTTT
1 TAATTTTT
9810022 T
1 T
9810023 TATCAACACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TAATTTTT
Found at i:9810826 original size:20 final size:20
Alignment explanation
Indices: 9810798--9810841 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
9810788 TTTATTTTGG
*
9810798 ATATTATTGATGAA-TATTTT
1 ATATAATTGAT-AATTATTTT
9810818 ATATAATTGATAATTATTTT
1 ATATAATTGATAATTATTTT
9810838 ATAT
1 ATAT
9810842 TTAAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
ATATAATTGATAATTATTTT
Found at i:9812280 original size:3 final size:3
Alignment explanation
Indices: 9812272--9812296 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9812262 TATCACATTA
9812272 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
9812297 TTAATTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:9814038 original size:60 final size:59
Alignment explanation
Indices: 9813974--9814130 Score: 167
Period size: 60 Copynumber: 2.6 Consensus size: 59
9813964 TTGTTATTAA
* *
9813974 ATTTTAATAAAATTATTATTAAATATAATTTAATAAAATAATAACAAATAACTTAATCAT
1 ATTTTAATAAAATTATTATTAAATATAA-TTAATAAAATAATAACAAATAACTTAATAAC
* * * * * *
9814034 ATTTTAA-AACAATTATTATTAAATAAAATT-AT-ATATAATTATATATAATTTAATAAC
1 ATTTTAATAA-AATTATTATTAAATATAATTAATAAAATAATAACAAATAACTTAATAAC
*
9814091 ATTATTAATATAATTATTATTAAAATATGAATTAATAAAA
1 ATT-TTAATAAAATTATTATT-AAATAT-AATTAATAAAA
9814131 ATCATAATAT
Statistics
Matches: 79, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
57 21 0.27
58 16 0.20
59 10 0.13
60 28 0.35
61 2 0.03
62 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (59 bp):
ATTTTAATAAAATTATTATTAAATATAATTAATAAAATAATAACAAATAACTTAATAAC
Found at i:9818253 original size:46 final size:46
Alignment explanation
Indices: 9818196--9818362 Score: 131
Period size: 46 Copynumber: 3.5 Consensus size: 46
9818186 ACACACCGTA
9818196 GCCATAGCCCAGCCATGGTCTTACGCGAATCACATATCACACTGAT
1 GCCATAGCCCAGCCATGGTCTTACGCGAATCACATATCACACTGAT
* ** * *
9818242 GCCATATCCCAGATATGGTCTTATACG-GAAGCACGTAATCACATATCTCTGAT
1 GCCATAGCCCAGCCATGGTC-T-TACGCGAATCACAT-ATCAC--A---CTGAT
* * * *
9818295 GCCATAGCCCAGCTATGGTCTTACAC-AGATCATATATCACATTGAT
1 GCCATAGCCCAGCCATGGTCTTACGCGA-ATCACATATCACACTGAT
* * *
9818341 GCCATGGTCCAACCATGGTCTT
1 GCCATAGCCCAGCCATGGTCTT
9818363 TTCCGTCAAT
Statistics
Matches: 95, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
46 39 0.41
47 8 0.08
48 9 0.09
49 1 0.01
50 1 0.01
51 9 0.09
52 5 0.05
53 23 0.24
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (46 bp):
GCCATAGCCCAGCCATGGTCTTACGCGAATCACATATCACACTGAT
Found at i:9819494 original size:23 final size:22
Alignment explanation
Indices: 9819427--9819512 Score: 97
Period size: 21 Copynumber: 4.0 Consensus size: 22
9819417 CCTGATCAGT
*
9819427 ATACGACACATAA-GTGCCTGA
1 ATACGACACACAAGGTGCCTGA
*
9819448 A-ACGACACACGAGGTGCCTG-
1 ATACGACACACAAGGTGCCTGA
*
9819468 ATACGACACACAAGGTGCTTGAA
1 ATACGACACACAAGGTGCCTG-A
* *
9819491 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
9819513 TCAGTATAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 10 0.19
21 25 0.46
22 1 0.02
23 18 0.33
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.16
Consensus pattern (22 bp):
ATACGACACACAAGGTGCCTGA
Found at i:9819509 original size:44 final size:41
Alignment explanation
Indices: 9819427--9819513 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 41
9819417 CCTGATCAGT
* * *
9819427 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACACAAGTGCCTGAAACGACACACAAAGTGCCTG
* *
9819468 ATACGACACACAAGGTGCTTGAAATACGACACATAAAGTGCCTG
1 ATACGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGCCTG
9819512 AT
1 AT
9819514 CAGTATAGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 12 0.32
42 6 0.16
43 2 0.05
44 18 0.47
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (41 bp):
ATACGACACACAAGTGCCTGAAACGACACACAAAGTGCCTG
Done.