Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 184 of 344
Found at i:61450672 original size:64 final size:64
Alignment explanation
Indices: 61450592--61450775 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
61450582 AGACATTATG
* *
61450592 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
61450656 ATGTAGCTAGGTCGCATGCGTGGTTCCAATTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
61450721 AA
63 AA
* * * * *
61450723 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACGATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
61450776 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:61457627 original size:13 final size:13
Alignment explanation
Indices: 61457600--61457634 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
61457590 ATAAGGTTAA
*
61457600 AAAAGTAATTTAGT
1 AAAA-TAATTAAGT
61457614 AAAATAATTAAGT
1 AAAATAATTAAGT
61457627 AAAATAAT
1 AAAATAAT
61457635 AAAACAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (13 bp):
AAAATAATTAAGT
Found at i:61460723 original size:139 final size:139
Alignment explanation
Indices: 61460473--61460738 Score: 390
Period size: 139 Copynumber: 1.9 Consensus size: 139
61460463 TTTAGATGTG
* * * *
61460473 GCTCACAAGATCATTTCATTAGGGATTATCCTGAGTTTCACGAGAAAGACAAATATTTGAATACA
1 GCTCACAAGATCATTTCATTAGGGATTATCCTGAGTTACACAAGAAAGACAAATATCTAAATACA
* *
61460538 AGGCCAAGTAATACATCTGTCAGAGGAAGACCACCTAGAAATACGAGAAATGTGACTAGTAGTAG
66 AGGCCAAGTAATACAGCTATCAGAGGAAGACCACCTAGAAATACGAGAAATGTGACTAGTAGTAG
61460603 AGGTACGAC
131 AGGTACGAC
* * * *
61460612 GCTCACAAGATCATTTCATTCGGGATTCTCCT-AGGTTACCCAAGAAAGACTAATATCTAAATAC
1 GCTCACAAGATCATTTCATTAGGGATTATCCTGA-GTTACACAAGAAAGACAAATATCTAAATAC
* * * *
61460676 AATGCCAAGTAATATAGCTATCAGAGGGAGACCACCTATAAATACGAGAAATGTGACTAGTAG
65 AAGGCCAAGTAATACAGCTATCAGAGGAAGACCACCTAGAAATACGAGAAATGTGACTAGTAG
61460739 CAAAGGTGCG
Statistics
Matches: 112, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
138 1 0.01
139 111 0.99
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (139 bp):
GCTCACAAGATCATTTCATTAGGGATTATCCTGAGTTACACAAGAAAGACAAATATCTAAATACA
AGGCCAAGTAATACAGCTATCAGAGGAAGACCACCTAGAAATACGAGAAATGTGACTAGTAGTAG
AGGTACGAC
Found at i:61463029 original size:21 final size:20
Alignment explanation
Indices: 61462999--61463039 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
61462989 GATATCCAGC
*
61462999 CCCGTCCAACCAATACACCA
1 CCCGTCCAACCAACACACCA
61463019 CCCGTACCAACCAACACACCA
1 CCCGT-CCAACCAACACACCA
61463040 GGTAGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.37, C:0.51, G:0.05, T:0.07
Consensus pattern (20 bp):
CCCGTCCAACCAACACACCA
Found at i:61475582 original size:37 final size:37
Alignment explanation
Indices: 61475529--61475631 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
61475519 CGAATAGTCC
*
61475529 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
61475566 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
61475603 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
61475632 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:61475830 original size:48 final size:48
Alignment explanation
Indices: 61475772--61476061 Score: 490
Period size: 48 Copynumber: 6.0 Consensus size: 48
61475762 ATATACACAC
* *
61475772 ATCTCCTACATTTTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
61475820 ATCTCATACATATTTCACACTAGCCATTCTGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
61475868 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
61475916 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
61475964 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
61476012 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
61476060 AT
1 AT
61476062 ATTTATCTTG
Statistics
Matches: 230, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 230 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:61479622 original size:28 final size:28
Alignment explanation
Indices: 61479591--61479747 Score: 145
Period size: 28 Copynumber: 5.5 Consensus size: 28
61479581 CTGACTGATT
*
61479591 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * *
61479619 TCGCACACATAGTGGCTCAATTACCA-ATC
1 TCGCACACATAGT-GCTCGATTA-AAGAAC
*
61479648 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
61479676 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* * *
61479705 TGGCACACATAGTGCTCGGTTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* *
61479733 TTGCACACACAGTGC
1 TCGCACACATAGTGC
61479748 CTCATAACTC
Statistics
Matches: 101, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
27 1 0.01
28 55 0.54
29 44 0.44
30 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:61479650 original size:29 final size:29
Alignment explanation
Indices: 61479618--61479718 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
61479608 GATTAAAGAA
61479618 CTCGCACACATAGTGGCTCAATTACCAAT
1 CTCGCACACATAGTGGCTCAATTACCAAT
* **
61479647 CTCGCACACATAGT-GCTCGATTGAAGAA-
1 CTCGCACACATAGTGGCTCAATT-ACCAAT
* * **
61479675 CTCGCACACATAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGGCTCAATTACCAAT
*
61479704 CTGGCACACATAGTG
1 CTCGCACACATAGTG
61479719 CTCGGTTGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 23 0.39
29 36 0.61
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (29 bp):
CTCGCACACATAGTGGCTCAATTACCAAT
Found at i:61479652 original size:57 final size:57
Alignment explanation
Indices: 61479591--61479751 Score: 232
Period size: 57 Copynumber: 2.8 Consensus size: 57
61479581 CTGACTGATT
* * * *
61479591 TCGCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGGCTCAATTACCAATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
**
61479648 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * * *
61479705 TGGCACACATAGTGCTCGGTTGAAGAACTTGCACACACAGTGCCTCA
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCA
61479752 TAACTCCAGC
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 94 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (57 bp):
TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:61479823 original size:40 final size:40
Alignment explanation
Indices: 61479779--61480030 Score: 423
Period size: 40 Copynumber: 6.3 Consensus size: 40
61479769 CCTTCGAGGT
*
61479779 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
61479819 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
61479859 TTAGCCCGGATACATCACTAGCACGCATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
61479899 TTAGCCCGGATGCATCACTAGCATGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
61479939 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
61479979 TTAGCCCAGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
61480019 TTAGCTCGGATA
1 TTAGCCCGGATA
61480031 TATATAACTC
Statistics
Matches: 196, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 196 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
Found at i:61481413 original size:37 final size:37
Alignment explanation
Indices: 61481314--61481416 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
61481304 CGAATAGTCC
* *
61481314 CCACACGTAGTTATCGGGTCTTACCAGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
61481351 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
61481388 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
61481417 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:0.25, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:61481615 original size:48 final size:48
Alignment explanation
Indices: 61481557--61481846 Score: 481
Period size: 48 Copynumber: 6.0 Consensus size: 48
61481547 ATATACACAC
* *
61481557 ATCTCCTACATTTTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
61481605 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
61481653 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
61481701 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
61481749 ATCTCATACATATTTCGCATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
61481797 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
61481845 AT
1 AT
61481847 ATTTATCTTG
Statistics
Matches: 228, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 228 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:61485407 original size:14 final size:14
Alignment explanation
Indices: 61485388--61485419 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
61485378 GATGTGAAAA
61485388 ATGTATGAAAATGT
1 ATGTATGAAAATGT
61485402 ATGTATGAAAATGT
1 ATGTATGAAAATGT
61485416 ATGT
1 ATGT
61485420 TTGTTTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (14 bp):
ATGTATGAAAATGT
Found at i:61491777 original size:30 final size:30
Alignment explanation
Indices: 61491743--61491803 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
61491733 TCCTTAACTC
61491743 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
61491773 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
61491803 A
1 A
61491804 TGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:61497170 original size:47 final size:46
Alignment explanation
Indices: 61497054--61497247 Score: 182
Period size: 47 Copynumber: 4.2 Consensus size: 46
61497044 TTGGGCTATT
* * *
61497054 ACATGCATCGGCCACATTATGAGTGCCAGTATAAGACCATGTCTGGG
1 ACATGCATCGGCCTCATGATGAGTGCCAGTGTAAGA-CATGTCTGGG
* ** *
61497101 GCATGGCATCGGTGT-AGAGATGAGTGCCAGTGTAAGACATGTCTGGG
1 ACAT-GCATCGGCCTCA-TGATGAGTGCCAGTGTAAGACATGTCTGGG
* *
61497148 ACATGCATAGGCCTCGATGATGA-TAGCCAGTGTAAGACGTGTCTGGG
1 ACATGCATCGGCCTC-ATGATGAGT-GCCAGTGTAAGACATGTCTGGG
* * * *
61497195 ACACGCATCGG-CT-ATGA-GTTGTGCTAGTGTAAGACATGTTTGGG
1 ACATGCATCGGCCTCATGATG-AGTGCCAGTGTAAGACATGTCTGGG
61497239 ACATGCATC
1 ACATGCATC
61497248 AGCACATATA
Statistics
Matches: 120, Mismatches: 20, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 31 0.26
45 1 0.01
46 10 0.08
47 52 0.43
48 25 0.21
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (46 bp):
ACATGCATCGGCCTCATGATGAGTGCCAGTGTAAGACATGTCTGGG
Found at i:61498518 original size:43 final size:43
Alignment explanation
Indices: 61498450--61498542 Score: 114
Period size: 43 Copynumber: 2.2 Consensus size: 43
61498440 GGTGTTACAG
* * *
61498450 TTGGCATCCATATGGGATTAAGTGTAAGACCACGTTTGGGACA
1 TTGGCATCCATATGGGATCAAGTGTAAGACCACGTCTAGGACA
* * * **
61498493 TTGGCATCGATATGTGATCATGTGTAAGATGACGTCTAGGACA
1 TTGGCATCCATATGGGATCAAGTGTAAGACCACGTCTAGGACA
61498536 TTGGCAT
1 TTGGCAT
61498543 TAATATATGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (43 bp):
TTGGCATCCATATGGGATCAAGTGTAAGACCACGTCTAGGACA
Found at i:61501532 original size:57 final size:55
Alignment explanation
Indices: 61501406--61501552 Score: 145
Period size: 57 Copynumber: 2.6 Consensus size: 55
61501396 TACATACATG
* * * *
61501406 CATATGACCC-TCTAGCCCCAATCTCATTTAGATGGCCCATCCGGCCCAATTCACGTT
1 CATATGACCCATC-AGGCCCAATCACA-TTATATGGCCCATCAGGCCCAATTCAC-TT
* *
61501463 CATATGGCCCATCAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAATCTCA-TT
1 CATATGACCCATCAGGCCCAA-TCACATT-ATATGGCCCATCAGGCCCAAT-TCACTT
* *
61501520 TATATGACCCATCCGGCCCAAATCACATTATAT
1 CATATGACCCATCAGGCCC-AATCACATTATAT
61501553 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
56 4 0.05
57 43 0.57
58 26 0.34
59 3 0.04
ACGTcount: A:0.27, C:0.34, G:0.13, T:0.27
Consensus pattern (55 bp):
CATATGACCCATCAGGCCCAATCACATTATATGGCCCATCAGGCCCAATTCACTT
Found at i:61501550 original size:28 final size:29
Alignment explanation
Indices: 61501437--61501552 Score: 137
Period size: 29 Copynumber: 4.1 Consensus size: 29
61501427 TCTCATTTAG
* * *
61501437 ATGGCCCATCCGGCCCAATTCACGTTCAT
1 ATGGCCCATCAGGCCCAAATCACATTCAT
*
61501466 ATGGCCCATCAGGCCCAATTCACATTCAT
1 ATGGCCCATCAGGCCCAAATCACATTCAT
* * *
61501495 ATGGCCCATTAGGCCC-AATCTCATTTAT
1 ATGGCCCATCAGGCCCAAATCACATTCAT
* *
61501523 ATGACCCATCCGGCCCAAATCACATT-AT
1 ATGGCCCATCAGGCCCAAATCACATTCAT
61501551 AT
1 AT
61501553 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
28 26 0.34
29 50 0.66
ACGTcount: A:0.27, C:0.34, G:0.14, T:0.26
Consensus pattern (29 bp):
ATGGCCCATCAGGCCCAAATCACATTCAT
Found at i:61503133 original size:10 final size:10
Alignment explanation
Indices: 61503120--61503153 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
61503110 AGCTCGGTTC
61503120 AGCTCAAACG
1 AGCTCAAACG
*
61503130 AGCTAAAACG
1 AGCTCAAACG
*
61503140 AGCTCAAATG
1 AGCTCAAACG
61503150 AGCT
1 AGCT
61503154 GAGTTGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.41, C:0.24, G:0.21, T:0.15
Consensus pattern (10 bp):
AGCTCAAACG
Found at i:61503192 original size:20 final size:20
Alignment explanation
Indices: 61503145--61503193 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
61503135 AAACGAGCTC
61503145 AAATGAGCTGAGTTGAGCTGG
1 AAATGAGCTGAG-TGAGCTGG
*
61503166 ATA-GAGCTCGAG-GAGCTGG
1 AAATGAGCT-GAGTGAGCTGG
61503185 AAATGAGCT
1 AAATGAGCT
61503194 TGTATCAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 9 0.38
20 10 0.42
21 5 0.21
ACGTcount: A:0.31, C:0.12, G:0.37, T:0.20
Consensus pattern (20 bp):
AAATGAGCTGAGTGAGCTGG
Found at i:61506330 original size:47 final size:47
Alignment explanation
Indices: 61506279--61506653 Score: 581
Period size: 47 Copynumber: 8.0 Consensus size: 47
61506269 GATTTTATGA
61506279 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
61506326 GATGAATGTGAACATGCATATACGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
61506373 GATGAATGTGAACTTGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
61506420 GATGAATGTGAACATGCATATACGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * *
61506467 GATGAATGTGAACTTGCATATGTGTGATAAGGCCGAATAGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
61506514 GATGAATGTGAACATGCATATATGTGATAAGGCCAAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
**
61506561 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * * ** * *
61506608 GATGAACGTGGAA-GTGTATATATGTGGCAAAGCCGAATGGCTAATG
1 GATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCAATG
61506654 CGAAACGTGT
Statistics
Matches: 300, Mismatches: 27, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 297 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:61506686 original size:46 final size:46
Alignment explanation
Indices: 61506627--61506763 Score: 220
Period size: 46 Copynumber: 3.0 Consensus size: 46
61506617 GGAAGTGTAT
* *
61506627 ATATGTGGCAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
61506673 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * **
61506719 ATATGAGGTAAAGCCGAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
61506764 TGTATATATA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.34, C:0.10, G:0.32, T:0.23
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:61509296 original size:24 final size:21
Alignment explanation
Indices: 61509269--61509330 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 21
61509259 TCTTCTCACA
61509269 TTCTTTTTCACTCTCGATCTCTTT
1 TTCTTTTTCACTCT---TCTCTTT
61509293 TTCTTTTT--C-CTTCTCTTT
1 TTCTTTTTCACTCTTCTCTTT
61509311 TTCTTTTTCACT-TTCT-TTT
1 TTCTTTTTCACTCTTCTCTTT
61509330 T
1 T
61509331 CAATTTTCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
18 15 0.43
19 4 0.11
20 5 0.14
21 2 0.06
22 1 0.03
24 8 0.23
ACGTcount: A:0.05, C:0.26, G:0.02, T:0.68
Consensus pattern (21 bp):
TTCTTTTTCACTCTTCTCTTT
Found at i:61509307 original size:18 final size:19
Alignment explanation
Indices: 61509286--61509331 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
61509276 TCACTCTCGA
61509286 TCTCTTTTTCTTTTTC-CT
1 TCTCTTTTTCTTTTTCACT
61509304 TCTCTTTTTCTTTTTCACT
1 TCTCTTTTTCTTTTTCACT
61509323 T-TCTTTTTC
1 TCTCTTTTTC
61509332 AATTTTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTCACT
Found at i:61509344 original size:18 final size:18
Alignment explanation
Indices: 61509323--61509371 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
61509313 CTTTTTCACT
61509323 TTCTTTTTCAATTTTCTC
1 TTCTTTTTCAATTTTCTC
** * *
61509341 TTCTTGATC-ATTTTTTT
1 TTCTTTTTCAATTTTCTC
61509358 TTCTTTTTCAATTT
1 TTCTTTTTCAATTT
61509372 CATTTTTCTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.12, C:0.16, G:0.02, T:0.69
Consensus pattern (18 bp):
TTCTTTTTCAATTTTCTC
Found at i:61509393 original size:21 final size:19
Alignment explanation
Indices: 61509355--61509423 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 19
61509345 TGATCATTTT
*
61509355 TTTTTC-TTTTTCAATTTC
1 TTTTTCTTTTTTCACTTTC
61509373 ATTTTTCTTTTTCTCACTTTC
1 -TTTTTCTTTTT-TCACTTTC
**
61509394 TTTTTGCTTTTTTTCACACTC
1 TTTTT-C-TTTTTTCACTTTC
61509415 TTTTTCTTT
1 TTTTTCTTT
61509424 CATTTCTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
19 9 0.21
20 10 0.23
21 19 0.44
22 5 0.12
ACGTcount: A:0.09, C:0.20, G:0.01, T:0.70
Consensus pattern (19 bp):
TTTTTCTTTTTTCACTTTC
Found at i:61509423 original size:6 final size:6
Alignment explanation
Indices: 61509288--61509405 Score: 69
Period size: 6 Copynumber: 19.2 Consensus size: 6
61509278 ACTCTCGATC
* * ** *
61509288 TCTTTT TCTTTT TCCTTC TCTTTT TCTTTT TCACTT TCTTTT TCAATTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TC-TTTT
* ** * **
61509337 TC-TCT TCTTGA TCATTT T-TTTT TCTTTT TCAATT TCATTTT TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TC-TTTT TCTTTT
*
61509384 TCTCACTT TCTTTT TGCTTTT T
1 TCT--TTT TCTTTT T-CTTTT T
61509406 TTCACACTCT
Statistics
Matches: 83, Mismatches: 22, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
5 8 0.10
6 55 0.66
7 15 0.18
8 5 0.06
ACGTcount: A:0.08, C:0.20, G:0.02, T:0.70
Consensus pattern (6 bp):
TCTTTT
Found at i:61511972 original size:20 final size:20
Alignment explanation
Indices: 61511920--61511973 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
61511910 GTTAAAAGTA
* *
61511920 AGCTCAGTTGAGTTCAAAGG
1 AGCTGAGTTGAGCTCAAAGG
*** *
61511940 AGCTGAAACGAGCTCAAATG
1 AGCTGAGTTGAGCTCAAAGG
61511960 AGCTGAGTTGAGCT
1 AGCTGAGTTGAGCT
61511974 GGACAGAGCT
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (20 bp):
AGCTGAGTTGAGCTCAAAGG
Found at i:61514724 original size:37 final size:37
Alignment explanation
Indices: 61514674--61514749 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
61514664 ACTAACAAAG
61514674 TCCATAGTGATCCTTTCCCACTTCTAGAGTGGAATCT
1 TCCATAGTGATCCTTTCCCACTTCTAGAGTGGAATCT
61514711 TCCATAGTGATCCTTTCCCACTTCTAGAGTGGAATCT
1 TCCATAGTGATCCTTTCCCACTTCTAGAGTGGAATCT
61514748 TC
1 TC
61514750 ACTGGTTGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.36
Consensus pattern (37 bp):
TCCATAGTGATCCTTTCCCACTTCTAGAGTGGAATCT
Found at i:61525485 original size:27 final size:26
Alignment explanation
Indices: 61525392--61525504 Score: 86
Period size: 27 Copynumber: 4.2 Consensus size: 26
61525382 AGCATGGCTG
* *
61525392 CCAGAACAGATATTGT-GACAGAGTCA
1 CCAGATCAGATATTGTAG-CAGAGCCA
* *
61525418 CCAGATACAGATATTGTGGTAGAGCCA
1 CCAGAT-CAGATATTGTAGCAGAGCCA
* *
61525445 CTAGAAGT-AAATATTTGTAGCAGAGCCA
1 CCAG-A-TCAGATA-TTGTAGCAGAGCCA
* *
61525473 CCAGATCAGATATTTGTAGTAAAGCCA
1 CCAGATCAGATA-TTGTAGCAGAGCCA
61525500 CCAGA
1 CCAGA
61525505 ACGTTTCCTC
Statistics
Matches: 70, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
26 6 0.09
27 46 0.66
28 17 0.24
29 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (26 bp):
CCAGATCAGATATTGTAGCAGAGCCA
Found at i:61529804 original size:40 final size:40
Alignment explanation
Indices: 61529723--61529939 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
61529713 AAACCAAGTA
** *
61529723 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
61529762 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
61529802 CCTTCGGGACTTGGCCC-GATTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCACAAATG
61529842 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
61529882 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
61529922 CCTTC-GGCCTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61529940 TTATCGATCC
Statistics
Matches: 163, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 26 0.16
40 135 0.83
41 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61537723 original size:40 final size:40
Alignment explanation
Indices: 61537642--61537858 Score: 332
Period size: 40 Copynumber: 5.5 Consensus size: 40
61537632 AAACCAAGTA
** *
61537642 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
61537681 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
61537721 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
61537761 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61537801 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61537841 CCTTCGGG-CTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61537859 TTATCAATCC
Statistics
Matches: 165, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 23 0.14
40 142 0.86
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61540187 original size:40 final size:40
Alignment explanation
Indices: 61540089--61540351 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
61540079 TCCTCGTTCA
* * * * *
61540089 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
61540128 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61540168 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61540208 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
61540248 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
61540288 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
61540328 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61540352 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:61548135 original size:40 final size:39
Alignment explanation
Indices: 61548037--61548259 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
61548027 TCCTCGTTCA
* * * * *
61548037 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
61548076 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
61548115 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
61548155 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
61548195 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
61548236 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61548260 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:61548259 original size:120 final size:119
Alignment explanation
Indices: 61548037--61548259 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
61548027 TCCTCGTTCA
* * * *
61548037 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
61548102 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
61548156 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
61548220 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
61548260 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:61573630 original size:35 final size:36
Alignment explanation
Indices: 61573578--61573662 Score: 118
Period size: 35 Copynumber: 2.4 Consensus size: 36
61573568 CCTATTGAAA
* *
61573578 TAACAGTAAACAATGCAGTAAAAGT-AACAATGCAG
1 TAACAGTAAATAGTGCAGTAAAAGTAAACAATGCAG
* *
61573613 TAACAGTAAATAGTGCAGTAACAGTAAACAGTGCAG
1 TAACAGTAAATAGTGCAGTAAAAGTAAACAATGCAG
*
61573649 TAGCAGTAAATAGT
1 TAACAGTAAATAGT
61573663 ATGCAAGTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 22 0.50
36 22 0.50
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (36 bp):
TAACAGTAAATAGTGCAGTAAAAGTAAACAATGCAG
Found at i:61573631 original size:18 final size:18
Alignment explanation
Indices: 61573578--61573658 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
61573568 CCTATTGAAA
*
61573578 TAACAGTAAACAATGCAG
1 TAACAGTAAACAGTGCAG
* *
61573596 TAAAAGT-AACAATGCAG
1 TAACAGTAAACAGTGCAG
*
61573613 TAACAGTAAATAGTGCAG
1 TAACAGTAAACAGTGCAG
61573631 TAACAGTAAACAGTGCAG
1 TAACAGTAAACAGTGCAG
*
61573649 TAGCAGTAAA
1 TAACAGTAAA
61573659 TAGTATGCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
17 16 0.29
18 40 0.71
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.19
Consensus pattern (18 bp):
TAACAGTAAACAGTGCAG
Found at i:61574035 original size:27 final size:27
Alignment explanation
Indices: 61573973--61574160 Score: 207
Period size: 27 Copynumber: 7.0 Consensus size: 27
61573963 AAACATACAT
* * * *
61573973 CACATAGGGGTAAAACAATCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
61574000 CATAAAAGGGAAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
61574027 CACATAAGGGCAAAACAATTATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
61574054 CTCATAAGGGCAAAAGAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
61574081 CTCATAAGGGCAAAACAGTTATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
61574108 CTCATAAGGGCAAAACAGTCATTTTATC
1 CACATAAGGGCAAAACAGTCATTTTA-C
* *
61574136 C-CATAAAGGCAAAATAGTCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
61574161 TCGATTAAGG
Statistics
Matches: 138, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
27 136 0.99
28 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:61574162 original size:27 final size:27
Alignment explanation
Indices: 61574005--61574160 Score: 215
Period size: 27 Copynumber: 5.8 Consensus size: 27
61573995 CTTACCATAA
* * *
61574005 AAGGGAAAAATAGTCATTTTACCACAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
* *
61574032 AAGGGCAAAACAATTATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
*
61574059 AAGGGCAAAAGAGTCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
*
61574086 AAGGGCAAAACAGTTATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
61574113 AAGGGCAAAACAGTCATTTTATCC-CAT
1 AAGGGCAAAACAGTCATTTTA-CCTCAT
* *
61574140 AAAGGCAAAATAGTCATTTTA
1 AAGGGCAAAACAGTCATTTTA
61574161 TCGATTAAGG
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 113 0.98
28 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (27 bp):
AAGGGCAAAACAGTCATTTTACCTCAT
Found at i:61575485 original size:44 final size:45
Alignment explanation
Indices: 61575382--61575485 Score: 122
Period size: 44 Copynumber: 2.3 Consensus size: 45
61575372 GTAATGGTAG
* *
61575382 CAGTAACAGTAACAATATTCAACACACAAAGTGCTAAATCTGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTAAATCAGTAA
** * *
61575427 CAGTAATGGCAACAGTA-TCGACACACAAAGTG-TCAAATCAGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCT-AAATCAGTAA
*
61575471 CAGTAGCAGTAACAG
1 CAGTAACAGTAACAG
61575486 CAACAATAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
43 1 0.02
44 34 0.71
45 13 0.27
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.19
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCAACACACAAAGTGCTAAATCAGTAA
Found at i:61575739 original size:40 final size:40
Alignment explanation
Indices: 61575693--61575779 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
61575683 AATTCATTAC
* ** *
61575693 TTCAGTAATTTCACCGTTCAATGCAGTA-TACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACT-CAAAACAATA
*
61575733 TTCAGTAACTTCACAATTCAATTCAGTACTCAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACTCAAAACAATA
*
61575773 TTTAGTA
1 TTCAGTA
61575780 TTCCATAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTACTCAAAACAATA
Found at i:61578592 original size:11 final size:11
Alignment explanation
Indices: 61578576--61578600 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
61578566 CTTTATATTT
61578576 ATATACAATAA
1 ATATACAATAA
61578587 ATATACAATAA
1 ATATACAATAA
61578598 ATA
1 ATA
61578601 CAATAATCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATACAATAA
Found at i:61589307 original size:55 final size:52
Alignment explanation
Indices: 61589220--61589453 Score: 221
Period size: 55 Copynumber: 4.4 Consensus size: 52
61589210 ATTAGGGTTT
61589220 AAGGATACCATGTAAGACCATGCCAA-AGCATGGAAATTGGTAAGGTTTCTAAGGG
1 AAGGATACCATGTAAGACCATGCCAAGA-CATGG-AATTGGTAA-GTTTCTAA-GG
* * * *
61589275 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGG
* * * *
61589329 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGG
1 --AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGG
* *
61589382 CAAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA--
1 -AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTTCTAAGG
*
61589432 AAGGATACCACGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
61589454 AAAAGTCATG
Statistics
Matches: 152, Mismatches: 18, Indels: 24
0.78 0.09 0.12
Matches are distributed among these distances:
49 21 0.14
52 7 0.05
53 38 0.25
54 14 0.09
55 67 0.44
56 5 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGG
Found at i:61589426 original size:108 final size:110
Alignment explanation
Indices: 61589227--61589427 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
61589217 TTTAAGGATA
*
61589227 CCATGTAAGACCATGCCAAAGCATGGAAATTGGTAAGGTTTCTAAGGGAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAAGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
61589292 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
61589337 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAAGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
61589399 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
61589428 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.58
109 7 0.08
110 25 0.30
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAAGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:61605423 original size:27 final size:27
Alignment explanation
Indices: 61605393--61605570 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61605383 ATATTGAGCC
* * * *
61605393 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
61605420 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61605447 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
61605475 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
61605502 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
61605529 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61605556 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61605571 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:61605532 original size:82 final size:81
Alignment explanation
Indices: 61605414--61605569 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61605404 TGCTATATAA
* *
61605414 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61605479 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
61605496 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
61605560 CACTTAGTGC
65 CACTTAGTGC
61605570 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61608471 original size:28 final size:28
Alignment explanation
Indices: 61608423--61608512 Score: 128
Period size: 28 Copynumber: 3.2 Consensus size: 28
61608413 GTGACAGAGT
*
61608423 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
61608452 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
*
61608480 CACGAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
61608508 CACCA
1 CACCA
61608513 AGACGCTTCC
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
28 48 0.87
29 7 0.13
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:61608667 original size:28 final size:28
Alignment explanation
Indices: 61608619--61608687 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
61608609 AAATTAACCC
* **
61608619 TAGGGGTATAAAGGTCGTTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
61608647 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
61608675 TAGGGGGTATAAT
1 TA-GGGGTATAAT
61608688 AGCACCTCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 27 0.73
29 10 0.27
ACGTcount: A:0.30, C:0.07, G:0.29, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:61610350 original size:55 final size:55
Alignment explanation
Indices: 61610289--61610465 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
61610279 ATATTAAGTC
* * *
61610289 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
61610344 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
61610399 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
61610455 CGCACACTTAG
1 CGCACACTTAG
61610466 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:61610353 original size:28 final size:27
Alignment explanation
Indices: 61610289--61610440 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
61610279 ATATTAAGTC
* *
61610289 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
61610316 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
61610344 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
61610371 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
61610399 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
61610426 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61610441 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:61618517 original size:28 final size:27
Alignment explanation
Indices: 61618453--61618578 Score: 162
Period size: 28 Copynumber: 4.6 Consensus size: 27
61618443 CTATTAAGTC
* *
61618453 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
61618480 CTCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
61618508 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* * *
61618536 CGCACACTTAGTGCCACACTATTCAATT
1 CGCACACTTAGTGCTACA-TAATCAACT
61618564 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61618579 GCACAATTTA
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
27 21 0.24
28 61 0.70
29 5 0.06
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:61632656 original size:29 final size:29
Alignment explanation
Indices: 61632612--61632669 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
61632602 GATTGTATAC
61632612 TCTTTTTCCTTCATTAGGTTTTTATCGTA
1 TCTTTTTCCTTCATTAGGTTTTTATCGTA
*
61632641 TCTTTTTCCTTTATTAGGTTTTTATCGTA
1 TCTTTTTCCTTCATTAGGTTTTTATCGTA
61632670 CAAGGTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.14, C:0.16, G:0.10, T:0.60
Consensus pattern (29 bp):
TCTTTTTCCTTCATTAGGTTTTTATCGTA
Found at i:61633787 original size:33 final size:33
Alignment explanation
Indices: 61633750--61633832 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
61633740 CTTGTACTAT
* * *
61633750 GTTTAACTTTTATCTTTAGTATTTAGGAATCAA
1 GTTTAACTTTTGTCTTTAGCATTTAGGAACCAA
* * * *
61633783 GTTTAACCTTTGTCTATAGCCTTTAGTAACCAA
1 GTTTAACTTTTGTCTTTAGCATTTAGGAACCAA
61633816 GTTTAA-TTTTGTCTTTA
1 GTTTAACTTTTGTCTTTA
61633833 CTTAGTGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
32 9 0.22
33 32 0.78
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.48
Consensus pattern (33 bp):
GTTTAACTTTTGTCTTTAGCATTTAGGAACCAA
Found at i:61634209 original size:13 final size:13
Alignment explanation
Indices: 61634160--61634212 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
61634150 AATTTAGCAT
*
61634160 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
* * *
61634173 TGTTTTTTAAAAA
1 TGCTTTTGAAAAG
* *
61634186 TGCTATAGAAAAG
1 TGCTTTTGAAAAG
61634199 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
61634212 T
1 T
61634213 TTAGTTTAAG
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:61634489 original size:33 final size:35
Alignment explanation
Indices: 61634394--61634490 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
61634384 TTAATATTTT
*
61634394 AATATATGAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
61634429 AATTAATATTAATTAT-TTATAAA-ATTTAATT-AG-
1 AA-T-ATATAAATTATATTTTAAATATTTAATTAAGC
61634462 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
61634491 ATATAACCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 7 0.14
33 12 0.24
34 8 0.16
35 6 0.12
36 4 0.08
37 4 0.08
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:61636278 original size:28 final size:27
Alignment explanation
Indices: 61636226--61636280 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
61636216 CTCCCTTTCA
* *
61636226 CTCCCCTTGTTCCCTCTCTTTCCTTTT
1 CTCCCCTTGTTCACTCTCTTACCTTTT
61636253 CTCCCTCTTGTTTCACTC-CTTACCTTTT
1 CTCCC-CTTG-TTCACTCTCTTACCTTTT
61636281 TCTATCCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.21
28 13 0.54
29 6 0.25
ACGTcount: A:0.04, C:0.42, G:0.04, T:0.51
Consensus pattern (27 bp):
CTCCCCTTGTTCACTCTCTTACCTTTT
Found at i:61636371 original size:20 final size:20
Alignment explanation
Indices: 61636338--61636377 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
61636328 AAACATTTTG
*
61636338 TTTCTCTCCCCTTTTATTCT
1 TTTCTCTCACCTTTTATTCT
* *
61636358 TTTCTCTCATCTTTTTTTCT
1 TTTCTCTCACCTTTTATTCT
61636378 CATCTTCCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.30, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTCTCTCACCTTTTATTCT
Found at i:61639330 original size:25 final size:25
Alignment explanation
Indices: 61639294--61639347 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
61639284 AGGAAAGAGA
*
61639294 AGAAAAGGGGAAGAAAACTCACGTC
1 AGAAAAGAGGAAGAAAACTCACGTC
61639319 AGAAAAGAGGAAGAAAACTCACGTC
1 AGAAAAGAGGAAGAAAACTCACGTC
61639344 AGAA
1 AGAA
61639348 TCTTTTTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.52, C:0.15, G:0.26, T:0.07
Consensus pattern (25 bp):
AGAAAAGAGGAAGAAAACTCACGTC
Found at i:61654103 original size:16 final size:16
Alignment explanation
Indices: 61654082--61654124 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
61654072 ATCGGTAAAA
*
61654082 GCCAAAATGCCGAAAT
1 GCCAAAAAGCCGAAAT
*
61654098 GCCAAAAAGCTGAAAT
1 GCCAAAAAGCCGAAAT
61654114 GCCAAAAAGCC
1 GCCAAAAAGCC
61654125 AAAAGTTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.47, C:0.26, G:0.19, T:0.09
Consensus pattern (16 bp):
GCCAAAAAGCCGAAAT
Found at i:61654384 original size:29 final size:29
Alignment explanation
Indices: 61654338--61654450 Score: 131
Period size: 29 Copynumber: 4.0 Consensus size: 29
61654328 GTGAGCATGA
* *
61654338 ATATGAATATGA-CTGGGCCTAATGGGCC
1 ATATAAATATGATTTGGGCCTAATGGGCC
* *
61654366 ATATAAATTTGATTTGGGCCTAATGGGCT
1 ATATAAATATGATTTGGGCCTAATGGGCC
* **
61654395 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATATGATTTGGGCCTAATGGGCC
* *
61654424 ATATGAATATGA-TTGGGCTTAATGGGC
1 ATATAAATATGATTTGGGCCTAATGGGC
61654451 TAGATACAGG
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 24 0.34
29 47 0.66
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (29 bp):
ATATAAATATGATTTGGGCCTAATGGGCC
Found at i:61654421 original size:58 final size:57
Alignment explanation
Indices: 61654351--61654461 Score: 177
Period size: 58 Copynumber: 1.9 Consensus size: 57
61654341 TGAATATGAC
* *
61654351 TGGGCCTAATGGGCCATATAAATTTGATTTGGGCCTAATGGGCTATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATATGA-TTGGGCCTAATGGGCTAGATACAGGTGATT
* *
61654409 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCTAGATACAGGT
1 TGGGCCTAATGGGCCATATAAATATGATTGGGCCTAATGGGCTAGATACAGGT
61654462 ATGTGAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
57 24 0.49
58 25 0.51
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.31
Consensus pattern (57 bp):
TGGGCCTAATGGGCCATATAAATATGATTGGGCCTAATGGGCTAGATACAGGTGATT
Found at i:61657420 original size:29 final size:29
Alignment explanation
Indices: 61657364--61657454 Score: 112
Period size: 29 Copynumber: 3.2 Consensus size: 29
61657354 GTGGGCATGA
* * *
61657364 ATATGAATGTGA-CTGGGCCTAACAGGCC
1 ATATAAATGTGATTTGGGCCTAATAGGCC
*
61657392 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATAGGCC
* * *
61657421 ATATACAGGTGATTTGGGCCTAATTGGCC
1 ATATAAATGTGATTTGGGCCTAATAGGCC
61657450 ATATA
1 ATATA
61657455 CATATATGTG
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 11 0.20
29 44 0.80
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATAGGCC
Found at i:61657455 original size:29 final size:29
Alignment explanation
Indices: 61657377--61657456 Score: 115
Period size: 29 Copynumber: 2.8 Consensus size: 29
61657367 TGAATGTGAC
* * *
61657377 TGGGCCTAACAGGCCATATAAATGTGATT
1 TGGGCCTAATAGGCCATATACAGGTGATT
*
61657406 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATAGGCCATATACAGGTGATT
*
61657435 TGGGCCTAATTGGCCATATACA
1 TGGGCCTAATAGGCCATATACA
61657457 TATATGTGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATAGGCCATATACAGGTGATT
Found at i:61658758 original size:28 final size:28
Alignment explanation
Indices: 61658724--61658788 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
61658714 TCAGTGTACG
* *
61658724 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
61658752 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
61658780 AAATATTGA
1 AAATATTGA
61658789 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:61658909 original size:39 final size:39
Alignment explanation
Indices: 61658863--61659083 Score: 345
Period size: 39 Copynumber: 5.6 Consensus size: 39
61658853 CTTTATAATA
*
61658863 GTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTG
1 GTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTG
61658902 GTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTG
1 GTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTG
* *
61658941 GTGTTATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTG
1 GTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTG
*
61658980 GTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTG
1 GTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTG
* *
61659019 GTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTG
1 GTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTG
*
61659058 GTATTATATCCGGGCTTAAAGTCCCG
1 GTGTTATATCCGGGC-T-AAGTCCCG
61659084 CATGCTTTGT
Statistics
Matches: 170, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 149 0.88
40 21 0.12
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (39 bp):
GTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTG
Found at i:61661919 original size:36 final size:36
Alignment explanation
Indices: 61661872--61661946 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
61661862 CAATCCTGAA
61661872 CTAATCTTAGAACTTAAGAGAACTCTAAGAAAATTT
1 CTAATCTTAGAACTTAAGAGAACTCTAAGAAAATTT
61661908 CTAATCTTAGAACTTAAGAGAACTCTAAGAAAATTT
1 CTAATCTTAGAACTTAAGAGAACTCTAAGAAAATTT
61661944 CTA
1 CTA
61661947 GGGTTGAGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.31
Consensus pattern (36 bp):
CTAATCTTAGAACTTAAGAGAACTCTAAGAAAATTT
Found at i:61663536 original size:43 final size:43
Alignment explanation
Indices: 61663488--61663574 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
61663478 GTTACATGAA
* * *
61663488 TCGCATCCATCATGAACTCAAACCACTCAACTAGCTCGGATGC
1 TCGCATCCATAATAAACTCAAACCACTCAACGAGCTCGGATGC
* * *
61663531 TCGCATCCATAATAAACTCAGACCTCTCAACGATCTCGGATGC
1 TCGCATCCATAATAAACTCAAACCACTCAACGAGCTCGGATGC
61663574 T
1 T
61663575 ACATACCTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.30, C:0.33, G:0.14, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATAAACTCAAACCACTCAACGAGCTCGGATGC
Found at i:61667224 original size:79 final size:81
Alignment explanation
Indices: 61667088--61667272 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
61667078 TTGAATGATG
*
61667088 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
61667152 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
61667167 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
61667229 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
61667247 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61667273 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:61667286 original size:40 final size:41
Alignment explanation
Indices: 61667088--61667272 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 41
61667078 TTGAATGATG
* * *
61667088 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
61667128 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
61667168 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
61667207 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
61667248 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61667273 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 35 0.28
40 82 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:61667295 original size:79 final size:79
Alignment explanation
Indices: 61667141--61667305 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
61667131 GGACTAAGAT
* **
61667141 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
61667206 ATCCGGGTTAAGTC
66 ATCCGAGTTAAATC
* *
61667220 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
61667283 TATATCC-AGTTAAATT
63 TAAATCCGAGTTAAATC
61667299 CCGAAGG
1 CCGAAGG
61667306 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGAGTTAAATC
Found at i:61688382 original size:30 final size:30
Alignment explanation
Indices: 61688348--61688406 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
61688338 ACTAGAATCA
*
61688348 GAATCAGAATCAGAATTAGGTGACAGAATT
1 GAATCAGAATCAGAATTAGGTAACAGAATT
*
61688378 GAATCAGAATCAGTATTAGGTAACAGAAT
1 GAATCAGAATCAGAATTAGGTAACAGAAT
61688407 CAAAAGCAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (30 bp):
GAATCAGAATCAGAATTAGGTAACAGAATT
Found at i:61688591 original size:27 final size:27
Alignment explanation
Indices: 61688561--61688625 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
61688551 AATAAGTTGA
* *
61688561 GGCAAAGCCTCCAGAA-CAGATATTTGT
1 GGCAAAGCCACCAGAATCAGATA-ATGT
*
61688588 GGCATAGCCACCAGAATCAGATAATGT
1 GGCAAAGCCACCAGAATCAGATAATGT
61688615 GGCAAAGCCAC
1 GGCAAAGCCAC
61688626 TTAACAGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 27 0.82
28 6 0.18
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (27 bp):
GGCAAAGCCACCAGAATCAGATAATGT
Found at i:61688789 original size:27 final size:27
Alignment explanation
Indices: 61688749--61688800 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
61688739 GTCGTCAAAA
*
61688749 AAATATGTTAGGCAC-ATAGCCATAGAT
1 AAATACGTTAGGCACGA-AGCCATAGAT
*
61688776 AAATACGTTTGGCACGAAGCCATAG
1 AAATACGTTAGGCACGAAGCCATAG
61688801 TCAAGATGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (27 bp):
AAATACGTTAGGCACGAAGCCATAGAT
Found at i:61689038 original size:16 final size:16
Alignment explanation
Indices: 61689017--61689048 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61689007 AATTTCAACC
61689017 TATGCAGCATGTCATG
1 TATGCAGCATGTCATG
*
61689033 TATGCAGGATGTCATG
1 TATGCAGCATGTCATG
61689049 CCCATATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (16 bp):
TATGCAGCATGTCATG
Found at i:61689220 original size:27 final size:27
Alignment explanation
Indices: 61689190--61690159 Score: 1080
Period size: 27 Copynumber: 35.6 Consensus size: 27
61689180 GGGGCAAAAT
** * *
61689190 GGTATTTCAATAATTTTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
61689217 GGTATTTCGGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * * *
61689244 GGTATATAGATAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
61689271 GGTATTTCAGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
61689298 GGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
61689325 GGCATTTCGATAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
***
61689352 GGTATTTCGGTAATTCTATTTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
61689379 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
61689406 GGTATTTCGATAATTTTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
61689433 GGTATTTTGGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
61689460 GGTATTTCAGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
61689487 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * ** *
61689514 GGTATTTTGGTAATTTTACCCTGTTTTA-C
1 GGTATTTCGGTAATTCTACCC---TACAGG
** ** * * ** *
61689543 CCTACATGGGTATTTCGGTAATTCTACCCTACAG
1 GGTATTTCGGTAATTC--T-ACCCTA--C-A-GG
* *
61689577 GGGTATTTCGGTAATTCTACCCTATAGG
1 GGT-ATTTCGGTAATTCTACCCTACAGG
* * *
61689605 GGTATTTCAGTTATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
61689632 GGTATTTCGGTATTTCTACCCCACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
61689659 GGTATTTCGGTAATTCTA-CCTCACAAG
1 GGTATTTCGGTAATTCTACCCT-ACAGG
*
61689686 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
61689713 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
61689740 GGTATTTCGATAATTCTATCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
** *
61689767 GGTATTTCAATAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
61689794 GGTATTTCGATAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
61689821 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
61689848 GGTATTTCGGTATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * **
61689875 GGTATTTCGATAATTTTACAGTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * * *
61689902 GGTATTCCGGCAATTTTACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
61689929 GGTATTTCGATAATTCTATCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
61689956 GGTATTTCGGTATTTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * * *
61689983 GGTATTTCGATAACTCTATCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
61690010 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
61690037 GGTATTTCGGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
61690064 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
61690091 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
61690118 GGTATTCCAGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
61690145 GGTATTTCGGTAATT
1 GGTATTTCGGTAATT
61690160 TTGTAAATCG
Statistics
Matches: 791, Mismatches: 138, Indels: 28
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.00
27 752 0.95
28 6 0.01
29 11 0.01
30 2 0.00
31 1 0.00
32 7 0.01
33 1 0.00
35 9 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:61689274 original size:54 final size:54
Alignment explanation
Indices: 61689190--61690159 Score: 1213
Period size: 54 Copynumber: 17.8 Consensus size: 54
61689180 GGGGCAAAAT
** * * *
61689190 GGTATTTCAATAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
* * * * * *
61689244 GGTATATAGATAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
* * * *
61689298 GGTATTTCAGTAATTCTACCCTACAGGGGCATTTCGATAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
*** *
61689352 GGTATTTCGGTAATTCTATTTTACAGGGGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
* * * *
61689406 GGTATTTCGATAATTTTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
* *
61689460 GGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
* *
61689514 GGTATTTTGGTAATTTTACCCTGTTTTACCCTACATGGGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAA--TT---C-----TACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
* * * *
61689578 GGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGTTATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
* * * *
61689632 GGTATTTCGGTATTTCTACCCCACAAGGGTATTTCGGTAATTCTA-CCTCACAAG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCT-ACAGG
*
61689686 GGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
* * ** *
61689740 GGTATTTCGATAATTCTATCCTACAGGGGTATTTCAATAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
* * *
61689794 GGTATTTCGATAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
* * * * **
61689848 GGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGATAATTTTACAGTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
* * * * * *
61689902 GGTATTCCGGCAATTTTACCTTACAGGGGTATTTCGATAATTCTATCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
* * * * *
61689956 GGTATTTCGGTATTTCTACCCTACAGGGGTATTTCGATAACTCTATCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
* * *
61690010 GGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
* *
61690064 GGTATTCCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
* * *
61690118 GGTATTCCAGTAATTCTACCCTATAGGGGTATTTCGGTAATT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATT
61690160 TTGTAAATCG
Statistics
Matches: 799, Mismatches: 105, Indels: 24
0.86 0.11 0.03
Matches are distributed among these distances:
53 3 0.00
54 739 0.92
55 3 0.00
56 2 0.00
59 2 0.00
62 2 0.00
64 48 0.06
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
Found at i:61689337 original size:81 final size:81
Alignment explanation
Indices: 61689190--61690159 Score: 1213
Period size: 81 Copynumber: 11.9 Consensus size: 81
61689180 GGGGCAAAAT
** * * * * *
61689190 GGTATTTCAATAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATATAGAT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
*
61689255 AATTCTACCCTATAGG
66 AATTCTACCCTACAGG
* * * *
61689271 GGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGCATTTCGAT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
*
61689336 AATTCTACCCTACAAG
66 AATTCTACCCTACAGG
*** *
61689352 GGTATTTCGGTAATTCTATTTTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGAT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
*
61689417 AATTTTACCCTACAGG
66 AATTCTACCCTACAGG
* * * * *
61689433 GGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
61689498 AATTCTACCCTACAGG
66 AATTCTACCCTACAGG
* *
61689514 GGTATTTTGGTAATTTTACCCTGTTTTACCCTACATGGGTATTTCGGTAATTCTACCCTACAGGG
1 GGTATTTCGGTAA--TT---C-----TACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGG
* *
61689579 GTATTTCGGTAATTCTACCCTATAGG
56 GTATTTCGATAATTCTACCCTACAGG
* * * * * * *
61689605 GGTATTTCAGTTATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCCACAAGGGTATTTCGGT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
*
61689670 AATTCTA-CCTCACAAG
66 AATTCTACCCT-ACAGG
*
61689686 GGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
*
61689751 AATTCTATCCTACAGG
66 AATTCTACCCTACAGG
** * * *
61689767 GGTATTTCAATAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGAT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
61689832 AATTCTACCCTACAGG
66 AATTCTACCCTACAGG
* * * * ** * **
61689848 GGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGATAATTTTACAGTACAGGGGTATTCCGGC
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
* *
61689913 AATTTTACCTTACAGG
66 AATTCTACCCTACAGG
* * *
61689929 GGTATTTCGATAATTCTATCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCGAT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
* * *
61689994 AACTCTATCCTATAGG
66 AATTCTACCCTACAGG
* * * * *
61690010 GGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
61690075 AATTCTACCCTACAGG
66 AATTCTACCCTACAGG
* * * * *
61690091 GGTATTTTGGTAATTCTACCCTACAGGGGTATTCCAGTAATTCTACCCTATAGGGGTATTTCGGT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
61690156 AATT
66 AATT
61690160 TTGTAAATCG
Statistics
Matches: 775, Mismatches: 102, Indels: 24
0.86 0.11 0.03
Matches are distributed among these distances:
80 3 0.00
81 692 0.89
82 3 0.00
83 2 0.00
86 2 0.00
89 2 0.00
91 71 0.09
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (81 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
AATTCTACCCTACAGG
Found at i:61690291 original size:27 final size:26
Alignment explanation
Indices: 61690261--61690629 Score: 378
Period size: 27 Copynumber: 13.7 Consensus size: 26
61690251 CTATAAATCA
* * *
61690261 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAA-ACC
*** ** *
61690288 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTTGGTAATTTTACA-AACC
** * *
61690315 AGGGTATTTCAGTAATTTCACAAATC
1 AGGGTATTTTGGTAATTTTACAAACC
*
61690341 AGGGATATTTTGGTAATTTTACAAACT
1 AGGG-TATTTTGGTAATTTTACAAACC
*
61690368 AGGGGTATTTTGATAATTTTACAAACC
1 A-GGGTATTTTGGTAATTTTACAAACC
61690395 AGGGGTATTTTGGTAATTTTACAAACC
1 A-GGGTATTTTGGTAATTTTACAAACC
*
61690422 ACGGGTATTTTGGTAATTTTACAAACT
1 A-GGGTATTTTGGTAATTTTACAAACC
* * *
61690449 AGGGGTATTCTGGTAATTTTATAAACAA
1 A-GGGTATTTTGGTAATTTTACAAAC-C
* * *
61690477 AAGGTATTTTAGTAATTTTACAAAAC
1 AGGGTATTTTGGTAATTTTACAAACC
**
61690503 AGGGGTATTTTGGTAATTTTGTAAACC
1 A-GGGTATTTTGGTAATTTTACAAACC
61690530 AAGGGTATTTTGGTAATTTTACAAACC
1 -AGGGTATTTTGGTAATTTTACAAACC
* *
61690557 AGGGGTATTTTGGTGATTTTATAAACC
1 A-GGGTATTTTGGTAATTTTACAAACC
*
61690584 AAGGGTATTTTAGTAATTTTACAAACC
1 -AGGGTATTTTGGTAATTTTACAAACC
61690611 AGGGATATTTTGGTAATTT
1 AGGG-TATTTTGGTAATTT
61690630 GGTAAGCTAA
Statistics
Matches: 289, Mismatches: 44, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
26 10 0.03
27 273 0.94
28 6 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.38
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACC
Found at i:61693374 original size:93 final size:93
Alignment explanation
Indices: 61693267--61693439 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
61693257 CGCCCATAAG
* *
61693267 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
61693332 ACAAGCTCGGATGCCTAGTTACATCTCA
66 ACAAGCTCGGATGCCTAGTTACATCTCA
* * *
61693360 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAATTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
* *
61693425 ACGAGTTCGGATGCC
66 ACAAGCTCGGATGCC
61693440 CAAATATCCC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACAAGCTCGGATGCCTAGTTACATCTCA
Found at i:61693435 original size:46 final size:46
Alignment explanation
Indices: 61693260--61693435 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
61693250 TGTAACCCGC
* *
61693260 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * * *
61693306 CCATAAGTGAACTCAGACTCAACTCAACAAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
61693356 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
61693399 CCATAAGTGAATTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
61693436 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 65 0.61
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:61701090 original size:26 final size:25
Alignment explanation
Indices: 61701038--61701091 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
61701028 TTTATCTTTA
*
61701038 TTTATCTTCTTTAAGAACTTTTTAT
1 TTTATCTTCTTTAAGAACTTTTCAT
*
61701063 TTTATCTTCCTTTAA-TACTATTTCAT
1 TTTATCTT-CTTTAAGAACT-TTTCAT
61701089 TTT
1 TTT
61701092 TAGCTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.22, C:0.15, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTATCTTCTTTAAGAACTTTTCAT
Found at i:61702974 original size:19 final size:19
Alignment explanation
Indices: 61702936--61702974 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
61702926 AATAAATTAC
*
61702936 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
*
61702955 TCATCTTAGTTTATTAAGT
1 TCATCTTAGTTAATTAAGT
61702974 T
1 T
61702975 GCTGGAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:61702975 original size:54 final size:54
Alignment explanation
Indices: 61702910--61703039 Score: 199
Period size: 54 Copynumber: 2.4 Consensus size: 54
61702900 TGTAGTTTAA
* *
61702910 TTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAG
1 TTAATTAAGTTGCTGGAATAAATTACTCATCTTAATTAATTAAGTTCATCTTAG
* * *
61702964 TTTATTAAGTTGCTGGAATAAATTACTCATCTTAATTAATTAATTTCATTTTAG
1 TTAATTAAGTTGCTGGAATAAATTACTCATCTTAATTAATTAAGTTCATCTTAG
*
61703018 TTAATTAA-TTGTTGGAATAAAT
1 TTAATTAAGTTGCTGGAATAAAT
61703040 GTTTATCTTA
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 13 0.19
54 56 0.81
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.45
Consensus pattern (54 bp):
TTAATTAAGTTGCTGGAATAAATTACTCATCTTAATTAATTAAGTTCATCTTAG
Found at i:61706039 original size:41 final size:41
Alignment explanation
Indices: 61705933--61706067 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
61705923 ATATATATGA
*
61705933 CACTTAGTGTGCGAT-TCGAAATAGCTTCGGCTATATATA-G
1 CACTTAGTGTGCGATATCGAAATAGCTTCGGCTATGTA-AGG
* * * * *
61705973 CACTTAGTGTACGAGACCGAGATAGCTTTGGCTATGTAAGG
1 CACTTAGTGTGCGATATCGAAATAGCTTCGGCTATGTAAGG
** **
61706014 CACTTAGTGTGCGATATTAAAATAGCTTCGGCTATGTTTTGG
1 CACTTAGTGTGCGATATCGAAATAGCTTCGGCTATG-TAAGG
61706056 CACTTAGTGTGC
1 CACTTAGTGTGC
61706068 AAGAATTCGA
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
40 14 0.18
41 48 0.62
42 15 0.19
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
CACTTAGTGTGCGATATCGAAATAGCTTCGGCTATGTAAGG
Found at i:61707044 original size:19 final size:20
Alignment explanation
Indices: 61706990--61707044 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
61706980 TGGGCCTTAA
*
61706990 CCCATATCAACACAGTTGGG
1 CCCATATCAAAACAGTTGGG
* **
61707010 CCCATTTCAATGCAGTT-GG
1 CCCATATCAAAACAGTTGGG
*
61707029 CCCATAACAAAACAGT
1 CCCATATCAAAACAGT
61707045 CTCATATGAT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (20 bp):
CCCATATCAAAACAGTTGGG
Found at i:61726579 original size:40 final size:40
Alignment explanation
Indices: 61726542--61726766 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
61726532 GCTACTCGTT
* *
61726542 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
61726582 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
61726622 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
61726662 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
61726701 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
61726742 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
61726767 CATCATTCGA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:61726726 original size:119 final size:120
Alignment explanation
Indices: 61726544--61726766 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
61726534 TACTCGTTCA
*
61726544 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
61726609 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
61726664 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
61726726 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
61726767 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:61729935 original size:27 final size:28
Alignment explanation
Indices: 61729851--61729948 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
61729841 CATGAGATTG
* * * *
61729851 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
61729880 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
61729908 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
61729935 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
61729949 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:61729959 original size:27 final size:27
Alignment explanation
Indices: 61729879--61729961 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
61729869 TAAATTGTAC
* *
61729879 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
61729907 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
61729934 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
61729961 A
1 A
61729962 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:61729962 original size:29 final size:27
Alignment explanation
Indices: 61729851--61729962 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
61729841 CATGAGATTG
** * *
61729851 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
61729880 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
61729908 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
61729935 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
61729963 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:61730968 original size:20 final size:20
Alignment explanation
Indices: 61730943--61730984 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
61730933 ATCGAAGCTC
61730943 GATGAGTCTACTTTCATATA
1 GATGAGTCTACTTTCATATA
61730963 GATGAGTCTACTTTCATATA
1 GATGAGTCTACTTTCATATA
61730983 GA
1 GA
61730985 AGAAACGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (20 bp):
GATGAGTCTACTTTCATATA
Found at i:61737681 original size:13 final size:13
Alignment explanation
Indices: 61737663--61737687 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61737653 GGGATTTAAT
61737663 GAATAAAAGAAAA
1 GAATAAAAGAAAA
61737676 GAATAAAAGAAA
1 GAATAAAAGAAA
61737688 GCAAATGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (13 bp):
GAATAAAAGAAAA
Found at i:61739050 original size:52 final size:54
Alignment explanation
Indices: 61738988--61739159 Score: 162
Period size: 52 Copynumber: 3.3 Consensus size: 54
61738978 AAATTTGTAC
* *
61738988 AGCA-TAAGTGTGCGATTTGACTATGTTCACTAAGTGTGCGAAATGA-TATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAATTGACTATGAT
* * * *
61739040 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTG-GAGTTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATG-TGCACTAAGTGTGCGA-ATTGACTATGAT
* * * *
61739093 AGC-CT-AGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGT-GCACTAAGTGTGCGAATTGACTATGAT
*
61739145 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61739160 GACTCAATAT
Statistics
Matches: 97, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
51 3 0.03
52 59 0.61
53 21 0.22
54 14 0.14
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAATTGACTATGAT
Found at i:61739138 original size:27 final size:27
Alignment explanation
Indices: 61738988--61739159 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
61738978 AAATTTGTAC
*
61738988 AGCA-TAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
61739014 -TCACTAAGTGTGCGAAATGA-TATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
61739038 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
61739066 GGCACTAAGTGTG-GAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
61739093 AGC-CT-AGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
61739118 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
61739145 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61739160 GACTCAATAT
Statistics
Matches: 120, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
25 24 0.20
26 40 0.33
27 56 0.47
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:61751354 original size:31 final size:31
Alignment explanation
Indices: 61751311--61751374 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
61751301 CCTTTTCATA
61751311 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
61751342 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
61751373 TT
1 TT
61751375 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:61751608 original size:24 final size:24
Alignment explanation
Indices: 61751567--61751686 Score: 129
Period size: 24 Copynumber: 5.0 Consensus size: 24
61751557 GCTTTATCAT
*
61751567 ATAACTGGAGGCCT-AGCCTTTTTTA
1 ATAACTGG-GGCATAAGCC-TTTTTA
*
61751592 ATAGCTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAG-CC-TTTTTA
*
61751617 ATAACTGGGGCATAAGCC-CTTTA
1 ATAACTGGGGCATAAGCCTTTTTA
* *
61751640 ATAACTAGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCTTTTTA
*
61751664 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCTTTTT
61751687 GCACTTCCTC
Statistics
Matches: 84, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
23 21 0.25
24 31 0.37
25 29 0.35
26 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCTTTTTA
Found at i:61751643 original size:23 final size:24
Alignment explanation
Indices: 61751587--61751686 Score: 150
Period size: 24 Copynumber: 4.2 Consensus size: 24
61751577 GCCTAGCCTT
*
61751587 TTTTAATAGCTGGGGCA-AAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
61751610 TTTTTTAATAACTGGGGCATAAGCCC
1 --TTTTAATAACTGGGGCATAAGCCC
*
61751636 -TTTAATAACTAGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
61751659 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
61751683 TTTT
1 TTTT
61751687 GCACTTCCTC
Statistics
Matches: 70, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
23 22 0.31
24 26 0.37
25 16 0.23
26 6 0.09
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (24 bp):
TTTTAATAACTGGGGCATAAGCCC
Found at i:61751670 original size:47 final size:47
Alignment explanation
Indices: 61751588--61751685 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 47
61751578 CCTAGCCTTT
* *
61751588 TTTAATAGCTGGGGCAAAGCCCTTTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTAGGGCAAAGCCC-TTTTTAATAACTGGGGCATAAGCCC
61751636 TTTAATAACTAGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTAGGGCA-AAGCCCTTTTTAATAACTGGGGCATAAGCCC
61751683 TTT
1 TTT
61751686 TGCACTTCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
47 27 0.57
48 14 0.30
49 6 0.13
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (47 bp):
TTTAATAACTAGGGCAAAGCCCTTTTTAATAACTGGGGCATAAGCCC
Found at i:61751757 original size:9 final size:9
Alignment explanation
Indices: 61751743--61751799 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
61751733 ATCTCGTGTG
61751743 CATATCATA
1 CATATCATA
*
61751752 CATATCATGTG
1 CATATCA--TA
61751763 CATATCATA
1 CATATCATA
* *
61751772 CATGTCATCTG
1 CATATCA--TA
61751783 CATATCATA
1 CATATCATA
61751792 CATATCAT
1 CATATCAT
61751800 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:61751762 original size:20 final size:20
Alignment explanation
Indices: 61751739--61751801 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
61751729 GAACATCTCG
61751739 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
61751759 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
*
61751779 TCTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
61751799 TGT
1 TGT
61751802 TTATCAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:61751866 original size:25 final size:25
Alignment explanation
Indices: 61751838--61751885 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61751828 ATATATAAAC
* * *
61751838 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
61751863 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
61751886 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:61753712 original size:33 final size:33
Alignment explanation
Indices: 61753673--61753738 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
61753663 GATGCATCCT
61753673 TAAATGGGTTGGGTTGTGTATTGATGCAAGAAG
1 TAAATGGGTTGGGTTGTGTATTGATGCAAGAAG
61753706 TAAATGGGTTGGGTTGTGTATTGATGCAAGAAG
1 TAAATGGGTTGGGTTGTGTATTGATGCAAGAAG
61753739 GTCGAGTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.03, G:0.36, T:0.33
Consensus pattern (33 bp):
TAAATGGGTTGGGTTGTGTATTGATGCAAGAAG
Found at i:61757516 original size:38 final size:38
Alignment explanation
Indices: 61757407--61757559 Score: 180
Period size: 38 Copynumber: 4.0 Consensus size: 38
61757397 AGCACTCGAT
* * *
61757407 ATATATCCGGGTTAAGTCCCGCAGGCCTCGTGCTAGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* *
61757445 ATATATCCGGGTTAAGTCCCCCAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* *
61757483 ATATATCCGGGTTAAATCCCGCAAGCTTAGTGCTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* * * * *
61757521 TTATATCTGAGCTTAAAGTCCCGTAGGCTTTGTGCTGGT
1 ATATATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
61757560 GACTAGATTC
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 76 0.76
39 6 0.06
40 18 0.18
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (38 bp):
ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
Found at i:61760963 original size:28 final size:28
Alignment explanation
Indices: 61760925--61761031 Score: 151
Period size: 28 Copynumber: 3.8 Consensus size: 28
61760915 GAATCATTCG
* * *
61760925 ATATTTTGCACACGAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
61760953 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
61760981 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
61761009 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
61761032 ATTTGATTGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 72 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:61767552 original size:46 final size:46
Alignment explanation
Indices: 61767498--61767621 Score: 205
Period size: 46 Copynumber: 2.7 Consensus size: 46
61767488 GTTGAGCATC
*
61767498 TGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-T
1 TGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCT
61767543 TCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCT
1 T-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCT
* *
61767590 TGAGCTCGTTAAGTTGAGTCCGAGTTCACTTA
1 TGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
61767622 GGGGCGGGTT
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
45 1 0.01
46 71 0.96
47 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (46 bp):
TGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCT
Found at i:61770322 original size:44 final size:43
Alignment explanation
Indices: 61770225--61770337 Score: 111
Period size: 44 Copynumber: 2.6 Consensus size: 43
61770215 CCGACATTTC
* *
61770225 GCCTGCTAGGCCTGAAGCCCAATATAATTTCACCAGCATTATA
1 GCCTGCTAGGCCCGAAGCCCAATATAATTTCACCAGCATTAAA
** * *
61770268 GCCTGCTAGGCCCGAAGCCTGATAATATTATTCACTAGC-TTAAA
1 GCCTGCTAGGCCCGAAGCCCAAT-ATAAT-TTCACCAGCATTAAA
* * *
61770312 GCTTGCTAGGCTCAAAGCCCGAATAT
1 GCCTGCTAGGCCCGAAGCCC-AATAT
61770338 CACCATTATA
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
43 20 0.36
44 26 0.46
45 10 0.18
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
GCCTGCTAGGCCCGAAGCCCAATATAATTTCACCAGCATTAAA
Found at i:61770576 original size:28 final size:28
Alignment explanation
Indices: 61770451--61770585 Score: 189
Period size: 28 Copynumber: 4.8 Consensus size: 28
61770441 GAATCATTCG
* * * *
61770451 ATATTTTGCACACGAAGTGTCATTCTCA
1 ATATTTCGTACACTAAGTGCCATTCTCA
* *
61770479 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGTACACTAAGTGCCATTCTCA
61770507 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGTACACTAAGTGCCATTCTCA
*
61770535 ATATTTCGTACACTGAGTGCCATTCTCA
1 ATATTTCGTACACTAAGTGCCATTCTCA
* *
61770563 ATATTTCGTACACTGAGTACCAT
1 ATATTTCGTACACTAAGTGCCAT
61770586 ATTTGATTGC
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 99 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (28 bp):
ATATTTCGTACACTAAGTGCCATTCTCA
Found at i:61772802 original size:34 final size:34
Alignment explanation
Indices: 61772753--61772841 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
61772743 CATATACAAC
* * *
61772753 TATCATATCAAAATGTCATATTACCAAAAACATT
1 TATCAAATCAGAATGTCATATTACCAAAAACATA
* * * *
61772787 TATCAAATTAGAATGTCATCTTTCCAGAAACATA
1 TATCAAATCAGAATGTCATATTACCAAAAACATA
*
61772821 TATCAGATCAGAATGTCATAT
1 TATCAAATCAGAATGTCATAT
61772842 CAAATTAGTA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.33
Consensus pattern (34 bp):
TATCAAATCAGAATGTCATATTACCAAAAACATA
Found at i:61773801 original size:16 final size:15
Alignment explanation
Indices: 61773780--61773822 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
61773770 AATTATGTGT
61773780 ATTAATTTATAATTTA
1 ATTAATTTA-AATTTA
*
61773796 ATTAATGTTAATTTTA
1 ATTAAT-TTAAATTTA
61773812 ATTCAATTTAA
1 ATT-AATTTAA
61773823 TTTGGGTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTAATTTAAATTTA
Found at i:61773823 original size:16 final size:16
Alignment explanation
Indices: 61773792--61773825 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
61773782 TAATTTATAA
61773792 TTTAATTAATGTTAAT
1 TTTAATTAATGTTAAT
61773808 TTTAATTCAAT-TTAAT
1 TTTAATT-AATGTTAAT
61773824 TT
1 TT
61773826 GGGTTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTAATTAATGTTAAT
Found at i:61775525 original size:13 final size:13
Alignment explanation
Indices: 61775507--61775532 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61775497 AGAAGGAAAC
61775507 AAAGAGATGAACT
1 AAAGAGATGAACT
61775520 AAAGAGATGAACT
1 AAAGAGATGAACT
61775533 TCGAAAATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.23, T:0.15
Consensus pattern (13 bp):
AAAGAGATGAACT
Found at i:61778059 original size:14 final size:13
Alignment explanation
Indices: 61778042--61778080 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
61778032 AAATTCCAAA
61778042 AATAAAAATAATAT
1 AATAAAAATAA-AT
61778056 AATAAATAATAAAT
1 AATAAA-AATAAAT
61778070 AATAAAAATAA
1 AATAAAAATAA
61778081 GACTAAATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.21
14 14 0.58
15 5 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AATAAAAATAAAT
Found at i:61782541 original size:40 final size:40
Alignment explanation
Indices: 61782493--61782714 Score: 323
Period size: 40 Copynumber: 5.7 Consensus size: 40
61782483 GCTACTCACT
61782493 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
61782533 CAATTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
61782573 CAATTGCCTTC-GGACTT-GGCC-G-T-TAGTAACTCTCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
61782608 CAAATGCCTTC-GGACTTAGCCCAGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
61782647 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
61782687 CAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
61782715 CAATCCGAAT
Statistics
Matches: 168, Mismatches: 9, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
35 27 0.16
36 4 0.02
37 2 0.01
38 4 0.02
39 41 0.24
40 90 0.54
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:61782637 original size:114 final size:115
Alignment explanation
Indices: 61782493--61782699 Score: 353
Period size: 114 Copynumber: 1.8 Consensus size: 115
61782483 GCTACTCACT
* * *
61782493 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
61782558 TTATAGTAACTCGCACAATTGCCTTCGGACTTGGCCGTTAGTAACTCTCA
66 ATATAGTAACTCACACAAATGCCTTCGGACTTGGCCGTTAGTAACTCTCA
61782608 CAAATGCCTTC-GGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
61782672 ATATAGTAACTCACACAAATGCCTTCGG
66 ATATAGTAACTCACACAAATGCCTTCGG
61782700 GCTTAGCCCG
Statistics
Matches: 86, Mismatches: 6, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
114 75 0.87
115 11 0.13
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (115 bp):
CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATATAGTAACTCACACAAATGCCTTCGGACTTGGCCGTTAGTAACTCTCA
Found at i:61784720 original size:16 final size:16
Alignment explanation
Indices: 61784699--61784735 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
61784689 CATTGTTTTC
61784699 AAAAAGGAAAG-AAAAG
1 AAAAA-GAAAGAAAAAG
61784715 AAAAAGAAAGAAAAAG
1 AAAAAGAAAGAAAAAG
61784731 AAAAA
1 AAAAA
61784736 AATAAAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAGAAAAAG
Found at i:61784817 original size:13 final size:13
Alignment explanation
Indices: 61784799--61784826 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
61784789 CCAAAAATAA
61784799 AAAATAATAAAAT
1 AAAATAATAAAAT
61784812 AAAATAATAAAAT
1 AAAATAATAAAAT
61784825 AA
1 AA
61784827 GACAAATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAATAAAAT
Found at i:61785443 original size:184 final size:184
Alignment explanation
Indices: 61785134--61785490 Score: 705
Period size: 184 Copynumber: 1.9 Consensus size: 184
61785124 GTGGTATAAC
61785134 ACAAGCTACACCATTACACTTTCGCTACGCACTCTAGCCCGGATAGTACTACGCTAGACTTGAAC
1 ACAAGCTACACCATTACACTTTCGCTACGCACTCTAGCCCGGATAGTACTACGCTAGACTTGAAC
61785199 TCAAGACTTCACACACAGCCAGAACATTTAACCACTAAAGTAGATACATATTTGTCCTCTAACCA
66 TCAAGACTTCACACACAGCCAGAACATTTAACCACTAAAGTAGATACATATTTGTCCTCTAACCA
61785264 AAACGTCGACACATATACAACCATACCTGTCTCAAAGTCTTCGTCGACACATAT
131 AAACGTCGACACATATACAACCATACCTGTCTCAAAGTCTTCGTCGACACATAT
61785318 ACAAGCTACACCATTACACTTTCGCTACGCACTCTAGCCCGGATAGTACTACGCTAGACTTGAAC
1 ACAAGCTACACCATTACACTTTCGCTACGCACTCTAGCCCGGATAGTACTACGCTAGACTTGAAC
*
61785383 TCAAGACTTTACACACAGCCAGAACATTTAACCACTAAAGTAGATACATATTTGTCCTCTAACCA
66 TCAAGACTTCACACACAGCCAGAACATTTAACCACTAAAGTAGATACATATTTGTCCTCTAACCA
61785448 AAACGTCGACACATATACAACCATACCTGTCTCAAAGTCTTCG
131 AAACGTCGACACATATACAACCATACCTGTCTCAAAGTCTTCG
61785491 AGGACACTCC
Statistics
Matches: 172, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
184 172 1.00
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.24
Consensus pattern (184 bp):
ACAAGCTACACCATTACACTTTCGCTACGCACTCTAGCCCGGATAGTACTACGCTAGACTTGAAC
TCAAGACTTCACACACAGCCAGAACATTTAACCACTAAAGTAGATACATATTTGTCCTCTAACCA
AAACGTCGACACATATACAACCATACCTGTCTCAAAGTCTTCGTCGACACATAT
Found at i:61789005 original size:43 final size:43
Alignment explanation
Indices: 61788933--61789107 Score: 180
Period size: 43 Copynumber: 4.1 Consensus size: 43
61788923 TCACATAAAA
* * * *
61788933 CTCATA-CAATGCC-ATATCCCAGATATGGTCTTACATGTTAT
1 CTCATATCGATGCCAATGTCCCAGACATGGTCTTACATGTAAT
* *
61788974 CTCATATCGATGCCAATGTCCTAGACATGGTCTTACATGAAAT
1 CTCATATCGATGCCAATGTCCCAGACATGGTCTTACATGTAAT
* *
61789017 CAT-ATAAT-GATGCCACTGTCCCAGACATGGTCTTACACGTAAT
1 C-TCAT-ATCGATGCCAATGTCCCAGACATGGTCTTACATGTAAT
* * * *
61789060 CACA-ATACAATGCCAATGTCCCAGACATGGTCTTACATATGAT
1 CTCATAT-CGATGCCAATGTCCCAGACATGGTCTTACATGTAAT
61789103 CTCAT
1 CTCAT
61789108 CTTGGCAATC
Statistics
Matches: 109, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
41 8 0.07
42 6 0.06
43 92 0.84
44 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (43 bp):
CTCATATCGATGCCAATGTCCCAGACATGGTCTTACATGTAAT
Found at i:61789094 original size:86 final size:85
Alignment explanation
Indices: 61788941--61789097 Score: 226
Period size: 86 Copynumber: 1.8 Consensus size: 85
61788931 AACTCATACA
* * * * * *
61788941 ATGCCATATCCCAGATATGGTCTTACATGTTATCTCATATCGATGCCAATGTCCTAGACATGGTC
1 ATGCCATATCCCAGACATGGTCTTACACGTAATCACATATCAATGCCAATGTCCCAGACATGGTC
61789006 TTACATGAAATCATATAATG
66 TTACATGAAATCATATAATG
*
61789026 ATGCCACTGTCCCAGACATGGTCTTACACGTAATCACA-ATACAATGCCAATGTCCCAGACATGG
1 ATGCCA-TATCCCAGACATGGTCTTACACGTAATCACATAT-CAATGCCAATGTCCCAGACATGG
61789090 TCTTACAT
64 TCTTACAT
61789098 ATGATCTCAT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
85 8 0.13
86 55 0.87
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (85 bp):
ATGCCATATCCCAGACATGGTCTTACACGTAATCACATATCAATGCCAATGTCCCAGACATGGTC
TTACATGAAATCATATAATG
Found at i:61791627 original size:27 final size:27
Alignment explanation
Indices: 61791597--61791774 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
61791587 ATATTGAGTC
* * *
61791597 CGCACACTCAGTGCTATATAATCAATT
1 CGCACACTTAGTGCTACATAGTCAATT
* * *
61791624 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAATT
*
61791651 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AATT
** *
61791679 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAATT
* *
61791706 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAATT
* *
61791733 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAATT
*
61791760 CGCGCACTTAGTGCT
1 CGCACACTTAGTGCT
61791775 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAATT
Done.