Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 167 of 240
Found at i:52044801 original size:7 final size:7
Alignment explanation
Indices: 52044789--52044823 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
52044779 ATTCGTAACA
52044789 CTAAACC
1 CTAAACC
52044796 CTAAACC
1 CTAAACC
*
52044803 CTAAATC
1 CTAAACC
*
52044810 CAAAACC
1 CTAAACC
52044817 CTAAACC
1 CTAAACC
52044824 ATGCATTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.14
Consensus pattern (7 bp):
CTAAACC
Found at i:52044856 original size:21 final size:21
Alignment explanation
Indices: 52044832--52044872 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
52044822 CCATGCATTG
* * *
52044832 TAAACCTTAAATCATTAACAC
1 TAAACCGTAAACCATAAACAC
52044853 TAAACCGTAAACCATAAACA
1 TAAACCGTAAACCATAAACA
52044873 TCAAGCCCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.24, G:0.02, T:0.22
Consensus pattern (21 bp):
TAAACCGTAAACCATAAACAC
Found at i:52045265 original size:42 final size:42
Alignment explanation
Indices: 52045212--52045380 Score: 202
Period size: 41 Copynumber: 4.0 Consensus size: 42
52045202 TGCTAAAGCC
* *
52045212 CCGCTAAAATCCCCTGAGCATTAGCGGCGCTTTC-TAAAAAACG
1 CCGCT-AAAT-CCCAGAGCATTAGCGGCGCTTTCTTCAAAAACG
* * * *
52045255 CTGCTAAATCCCAGAGCAATAGCGGTGCTTTCTTCAAAAACA
1 CCGCTAAATCCCAGAGCATTAGCGGCGCTTTCTTCAAAAACG
52045297 CCGCT-AATGCCCAGAGCATTAGCGGCGC-TTCTTCAAAAACG
1 CCGCTAAAT-CCCAGAGCATTAGCGGCGCTTTCTTCAAAAACG
* * *
52045338 CCGCTAAAGCCTAGAGCATTAGCGGTGC-TTCTTCAAAAACG
1 CCGCTAAATCCCAGAGCATTAGCGGCGCTTTCTTCAAAAACG
52045379 CC
1 CC
52045381 ACCCTTGGTC
Statistics
Matches: 110, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
41 72 0.65
42 34 0.31
43 4 0.04
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (42 bp):
CCGCTAAATCCCAGAGCATTAGCGGCGCTTTCTTCAAAAACG
Found at i:52045729 original size:58 final size:57
Alignment explanation
Indices: 52045597--52045731 Score: 166
Period size: 58 Copynumber: 2.3 Consensus size: 57
52045587 GTAAAGTCAT
** *
52045597 ATAATAATTATATTAAGAA-ATTTATTAAATTATATGTTATTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATA-TGGTTAAATTATATATTATTTTATTAAATTATATTTA
* * *
52045655 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATATGGTTAAATTATATATTA-TTTTATTAAATTATATTTA
52045713 ATAATAATCT-TATTAAAAT
1 ATAATAAT-TATATTAAAAT
52045732 TTCATAACAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
57 16 0.24
58 50 0.75
59 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.52
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGGTTAAATTATATATTATTTTATTAAATTATATTTA
Found at i:52045914 original size:46 final size:44
Alignment explanation
Indices: 52045822--52045915 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 44
52045812 ATTACAACAT
* *
52045822 CATTCTATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACACTTCTATTC
*
52045866 CATTCCATTCAACCAAACA-ATTGAACTACTGATTACAACTT-TATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACT-ATTAC-ACTTCTATTC
52045912 CATT
1 CATT
52045916 ACAGCTCTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
43 1 0.02
44 21 0.49
45 4 0.09
46 14 0.33
47 3 0.07
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACACTTCTATTC
Found at i:52045937 original size:16 final size:16
Alignment explanation
Indices: 52045897--52045951 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
52045887 TGAACTACTG
* * *
52045897 ATTACAACTTTATTCC
1 ATTACAGCTCTATTCA
52045913 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
* * *
52045929 ATTATAGCTCTAATCC
1 ATTACAGCTCTATTCA
52045945 ATTACAG
1 ATTACAG
52045952 TGAACCAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:52046139 original size:19 final size:20
Alignment explanation
Indices: 52046115--52046152 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
52046105 CCTTTCGGTA
52046115 CAAAAC-ATAAAATTTAAGG
1 CAAAACTATAAAATTTAAGG
52046134 CAAAACTATAAAATTTAAG
1 CAAAACTATAAAATTTAAG
52046153 AAGTAAGGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.24
Consensus pattern (20 bp):
CAAAACTATAAAATTTAAGG
Found at i:52047550 original size:18 final size:18
Alignment explanation
Indices: 52047527--52047562 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
52047517 TGAATTAATG
52047527 ATTTATCATTCATTCATA
1 ATTTATCATTCATTCATA
*
52047545 ATTTATCATTCTTTCATA
1 ATTTATCATTCATTCATA
52047563 TTATCCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTATCATTCATTCATA
Found at i:52050233 original size:73 final size:73
Alignment explanation
Indices: 52050152--52050301 Score: 264
Period size: 73 Copynumber: 2.1 Consensus size: 73
52050142 TGGCCTAACA
*
52050152 TGGGTAATGAGATATTGATAATTGGAGGGAAATAGAAAGATTACTACAAAATGGGTGGGAAAAAA
1 TGGGTAATGAGATATTGAGAATTGGAGGGAAATAGAAAGATTACTACAAAATGGGTGGGAAAAAA
* *
52050217 TGTTTGTT
66 GGTCTGTT
*
52050225 TGGGTAATGAGATATTGAGAATTGGAGGGAAATAGAAAGATTACTACTAAATGGGTGGGAAAAAA
1 TGGGTAATGAGATATTGAGAATTGGAGGGAAATAGAAAGATTACTACAAAATGGGTGGGAAAAAA
52050290 GGTCTGTT
66 GGTCTGTT
52050298 TGGG
1 TGGG
52050302 CCAAATTGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.38, C:0.03, G:0.31, T:0.27
Consensus pattern (73 bp):
TGGGTAATGAGATATTGAGAATTGGAGGGAAATAGAAAGATTACTACAAAATGGGTGGGAAAAAA
GGTCTGTT
Found at i:52059939 original size:26 final size:26
Alignment explanation
Indices: 52059910--52059961 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
52059900 CATAATTTGC
* *
52059910 ATATTTTTATGATAGTGATTTAAATT
1 ATATTTTTATCATAATGATTTAAATT
*
52059936 ATATTTTTCTCATAATGATTTAAATT
1 ATATTTTTATCATAATGATTTAAATT
52059962 TTATAGAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (26 bp):
ATATTTTTATCATAATGATTTAAATT
Found at i:52063021 original size:33 final size:33
Alignment explanation
Indices: 52062984--52063050 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
52062974 TAAAAATATT
*
52062984 TTATTTCACCCACATTGCGGGGGTGACAAAATC
1 TTATTTCACCCACATTGCGAGGGTGACAAAATC
52063017 TTATTTCACCCACATTGCGAGGGTGACAAAATC
1 TTATTTCACCCACATTGCGAGGGTGACAAAATC
52063050 T
1 T
52063051 AGTATATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (33 bp):
TTATTTCACCCACATTGCGAGGGTGACAAAATC
Found at i:52063842 original size:10 final size:10
Alignment explanation
Indices: 52063827--52063907 Score: 87
Period size: 10 Copynumber: 8.3 Consensus size: 10
52063817 AACGGACATT
*
52063827 ATTTTTATTA
1 ATTTTTAATA
*
52063837 ATTTTTATTA
1 ATTTTTAATA
*
52063847 ATTTTAAATA
1 ATTTTTAATA
52063857 A-TTTTAATA
1 ATTTTTAATA
52063866 ATTTATT-ATA
1 ATTT-TTAATA
*
52063876 ATTTTTAACA
1 ATTTTTAATA
*
52063886 ATTTTTTAT-
1 ATTTTTAATA
52063895 ATTTTTAATA
1 ATTTTTAATA
52063905 ATT
1 ATT
52063908 ATTCGAAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
9 18 0.30
10 40 0.67
11 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:52063851 original size:19 final size:19
Alignment explanation
Indices: 52063829--52063907 Score: 74
Period size: 19 Copynumber: 4.1 Consensus size: 19
52063819 CGGACATTAT
*
52063829 TTTTATTAATTTTTATTAA
1 TTTTATTAATTTTTAATAA
*
52063848 TTTTAAATAA-TTTTAATAA
1 TTTT-ATTAATTTTTAATAA
*
52063867 -TTTATTATAATTTTTAACAA
1 TTTTA-T-TAATTTTTAATAA
52063887 TTTT-TTATATTTTTAATAA
1 TTTTATTA-ATTTTTAATAA
52063906 TT
1 TT
52063908 ATTCGAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
17 1 0.02
18 5 0.10
19 28 0.57
20 12 0.24
21 3 0.06
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTATTAATTTTTAATAA
Found at i:52063877 original size:29 final size:29
Alignment explanation
Indices: 52063829--52063907 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
52063819 CGGACATTAT
* *
52063829 TTTTATTAATTTTTATTAATTTTAAATAA
1 TTTTAATAATTTTTATTAATTTTAAACAA
*
52063858 TTTTAATAATTTATTA-TAATTTTTAACAA
1 TTTTAATAATTT-TTATTAATTTTAAACAA
* *
52063887 TTTT-TTATATTTTTAATAATT
1 TTTTAATA-ATTTTTATTAATT
52063908 ATTCGAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
28 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTTAATAATTTTTATTAATTTTAAACAA
Found at i:52063882 original size:39 final size:39
Alignment explanation
Indices: 52063827--52063907 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
52063817 AACGGACATT
**
52063827 ATTTTTATTAATTTTTATTAATTTTAAATAATTTTAATA
1 ATTTTTATTAATTTTTAACAATTTTAAATAATTTTAATA
** *
52063866 ATTTATTA-TAATTTTTAACAATTTTTTATATTTTTAATA
1 ATTT-TTATTAATTTTTAACAATTTTAAATAATTTTAATA
52063905 ATT
1 ATT
52063908 ATTCGAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
39 33 0.92
40 3 0.08
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (39 bp):
ATTTTTATTAATTTTTAACAATTTTAAATAATTTTAATA
Found at i:52064014 original size:10 final size:10
Alignment explanation
Indices: 52064001--52064030 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
52063991 ATTTTATTTA
52064001 TTTTTTAAAT
1 TTTTTTAAAT
52064011 TTTTTTAAAT
1 TTTTTTAAAT
52064021 TTTTTTAAAT
1 TTTTTTAAAT
52064031 ATTGCAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:52068019 original size:63 final size:64
Alignment explanation
Indices: 52067920--52068046 Score: 184
Period size: 63 Copynumber: 2.0 Consensus size: 64
52067910 ATAAATGAAA
* * *
52067920 AAAATGGAGAACTGAGAAATCATTTGGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATC
1 AAAATGGAGAAAT-AGAAATCATCTAGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATC
* * *
52067985 AAAATGGAGAAAT-GAAATCATCTAGAAATTATTATGGTTTTCTCTAAACTGAAAATGAAAAT
1 AAAATGGAGAAATAGAAATCATCTAGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAAT
52068047 GGAAAACAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 44 0.79
65 12 0.21
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.29
Consensus pattern (64 bp):
AAAATGGAGAAATAGAAATCATCTAGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATC
Found at i:52068058 original size:20 final size:20
Alignment explanation
Indices: 52068030--52068068 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
52068020 GGTTTTCTCT
*
52068030 AAACTGAAAATGAAAATGGA
1 AAACAGAAAATGAAAATGGA
52068050 AAACAGAAAATGAAAATGG
1 AAACAGAAAATGAAAATGG
52068069 CCTAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.21, T:0.13
Consensus pattern (20 bp):
AAACAGAAAATGAAAATGGA
Found at i:52068061 original size:63 final size:63
Alignment explanation
Indices: 52067935--52068064 Score: 172
Period size: 63 Copynumber: 2.1 Consensus size: 63
52067925 GGAGAACTGA
* * **
52067935 GAAATCATTTGGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATCAAAATGGAGAAAT
1 GAAATCATCTAGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATCAAAACAGAGAAAT
* * * *
52067998 GAAATCATCTAGAAATTATTATGGTTTTCTCTAAACTGAAAATGAAAATGGAAAACAGA-AAAT
1 GAAATCATCTAGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAAT-CAAAACAGAGAAAT
52068061 GAAA
1 GAAA
52068065 ATGGCCTAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 52 0.90
64 6 0.10
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (63 bp):
GAAATCATCTAGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATCAAAACAGAGAAAT
Found at i:52077760 original size:20 final size:22
Alignment explanation
Indices: 52077735--52077784 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
52077725 CCCAAATTAG
52077735 TTCCCCAAAATCCC-T-ATTTT
1 TTCCCCAAAATCCCTTAATTTT
52077755 TTCCCC-AAATCCCTTAATTTT
1 TTCCCCAAAATCCCTTAATTTT
52077776 TTCTCCCAA
1 TTC-CCCAA
52077785 CGTCTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 7 0.27
20 7 0.27
21 8 0.31
22 3 0.12
23 1 0.04
ACGTcount: A:0.24, C:0.36, G:0.00, T:0.40
Consensus pattern (22 bp):
TTCCCCAAAATCCCTTAATTTT
Found at i:52089082 original size:193 final size:193
Alignment explanation
Indices: 52088753--52089150 Score: 733
Period size: 193 Copynumber: 2.1 Consensus size: 193
52088743 TCAGGCTATT
52088753 ACACGGCCTAGCACATGGGCGTGTGTGTCTATTTCGAGACTTACACGGCCTGGCACATGGGTGTG
1 ACACGGCCTAGCACATGGGCGTGTGTGTCTATTTCGAGACTTACACGGCCTGGCACATGGGTGTG
* * *
52088818 TGGCTTGGTCGTGTAACCCAACTCAAAGAGTTACATGGGTGAGGATATGGGATAGGACATGGCTG
66 TGGCTTGGTCATGTAACCCAACTCAAAGAGTTACACGGGTGAGGACATGGGATAGGACATGGCTG
52088883 TGTGTCCCAATTTCGATTATTACATGGCCTCAAACATGGTCGTGTGTCTCAACCATGTGAAGC
131 TGTGTCCCAATTTCGATTATTACATGGCCTCAAACATGGTCGTGTGTCTCAACCATGTGAAGC
*
52088946 ACACGGCCTAGCACATGGGCGTGTGTGTCTATTTCGAGACTTACACGGCCTGGCACATTGGTGTG
1 ACACGGCCTAGCACATGGGCGTGTGTGTCTATTTCGAGACTTACACGGCCTGGCACATGGGTGTG
*
52089011 TGGCTTGGTCATGTAACCCAACTCCAAGAGTTACACGGGTGAGGACATGGGATAGGACATGGCTG
66 TGGCTTGGTCATGTAACCCAACTCAAAGAGTTACACGGGTGAGGACATGGGATAGGACATGGCTG
* *
52089076 TGTGTCCCAATTTCGATTGTTACATGGCCTCAAACATGGTCGTGTGTCTTAACCATGTGAAGC
131 TGTGTCCCAATTTCGATTATTACATGGCCTCAAACATGGTCGTGTGTCTCAACCATGTGAAGC
52089139 ACACGGCCTAGC
1 ACACGGCCTAGC
52089151 CACACCGCTG
Statistics
Matches: 198, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
193 198 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (193 bp):
ACACGGCCTAGCACATGGGCGTGTGTGTCTATTTCGAGACTTACACGGCCTGGCACATGGGTGTG
TGGCTTGGTCATGTAACCCAACTCAAAGAGTTACACGGGTGAGGACATGGGATAGGACATGGCTG
TGTGTCCCAATTTCGATTATTACATGGCCTCAAACATGGTCGTGTGTCTCAACCATGTGAAGC
Found at i:52091852 original size:37 final size:37
Alignment explanation
Indices: 52091792--52091867 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
52091782 TATTACGAAA
* *
52091792 TCTTACCCGGACATAATCTCCACACGAAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
52091829 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
52091866 TC
1 TC
52091868 CTTAGAACTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.21
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:52092066 original size:47 final size:47
Alignment explanation
Indices: 52091988--52092346 Score: 565
Period size: 47 Copynumber: 7.6 Consensus size: 47
52091978 CCCTTCGGGA
* * * * * *
52091988 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
52092035 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
52092082 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52092129 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52092178 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52092225 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52092272 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52092319 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ATATATACACTTTCACAT
52092347 ATGGGTTTAA
Statistics
Matches: 291, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
47 229 0.79
49 62 0.21
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52092311 original size:190 final size:190
Alignment explanation
Indices: 52091988--52092346 Score: 619
Period size: 190 Copynumber: 1.9 Consensus size: 190
52091978 CCCTTCGGGA
* * * * *
52091988 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
52092053 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATC
52092118 GGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
52092178 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
* *
52092243 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATC
52092308 GGCCATTAAGCCTTATCACATATATATACACTTTCACAT
131 GGCCATTAAGCCTTATCACATATATATACACTTTCACAT
52092347 ATGGGTTTAA
Statistics
Matches: 158, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
190 158 1.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATC
GGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52093779 original size:13 final size:13
Alignment explanation
Indices: 52093761--52093785 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52093751 TACTAAATTT
52093761 TCATGGATTCAAG
1 TCATGGATTCAAG
52093774 TCATGGATTCAA
1 TCATGGATTCAA
52093786 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:52096826 original size:29 final size:29
Alignment explanation
Indices: 52096787--52096865 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
52096777 CTTAATAATC
*
52096787 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
52096817 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
52096846 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
52096866 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:52096908 original size:43 final size:43
Alignment explanation
Indices: 52096847--52097035 Score: 369
Period size: 43 Copynumber: 4.4 Consensus size: 43
52096837 TGCATTTCAA
52096847 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
52096890 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
52096933 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
52096976 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
52097019 GCTCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
52097036 TGAAAACCAA
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 145 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:52098946 original size:37 final size:37
Alignment explanation
Indices: 52098886--52098961 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
52098876 TATTACGAAA
* *
52098886 TCTTACCCGGACATAATCTCCACACGAAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
52098923 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
52098960 TC
1 TC
52098962 CTTAGAACTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.21
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:52099160 original size:47 final size:47
Alignment explanation
Indices: 52099082--52099438 Score: 552
Period size: 47 Copynumber: 7.6 Consensus size: 47
52099072 CCCTTCGGGA
* * * * * *
52099082 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
52099129 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
52099176 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
52099223 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52099270 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52099317 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52099364 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52099411 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ATATATACACTTTCACAT
52099439 ATGGGTTTAA
Statistics
Matches: 290, Mismatches: 18, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
47 272 0.94
49 18 0.06
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52100871 original size:13 final size:13
Alignment explanation
Indices: 52100853--52100877 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52100843 TACTAAATTT
52100853 TCATGGATTCAAG
1 TCATGGATTCAAG
52100866 TCATGGATTCAA
1 TCATGGATTCAA
52100878 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:52103920 original size:29 final size:29
Alignment explanation
Indices: 52103881--52103959 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
52103871 CTTAATAATC
*
52103881 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
52103911 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
52103940 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
52103960 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:52104002 original size:43 final size:43
Alignment explanation
Indices: 52103941--52104128 Score: 360
Period size: 43 Copynumber: 4.4 Consensus size: 43
52103931 TGCATTTCAA
52103941 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
52103984 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
52104027 G-CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
52104069 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
52104112 GCTCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
52104129 TGAAAACCAA
Statistics
Matches: 143, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
42 42 0.29
43 101 0.71
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:52104046 original size:85 final size:85
Alignment explanation
Indices: 52103943--52104128 Score: 363
Period size: 85 Copynumber: 2.2 Consensus size: 85
52103933 CATTTCAAGC
52103943 CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTC
1 CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTC
52104008 ACAACCGTGAACACTTATTG
66 ACAACCGTGAACACTTATTG
52104028 CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTC
1 CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTC
52104093 ACAACCGTGAACACTTATTG
66 ACAACCGTGAACACTTATTG
52104113 CTCGCACACTTAGTGC
1 C-CGCACACTTAGTGC
52104129 TGAAAACCAA
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 86 0.86
86 14 0.14
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (85 bp):
CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTC
ACAACCGTGAACACTTATTG
Found at i:52106040 original size:37 final size:37
Alignment explanation
Indices: 52105980--52106055 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
52105970 TATTACGAAA
* *
52105980 TCTTACCCGGACATAATCTCCACACGAAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
52106017 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
52106054 TC
1 TC
52106056 CTTAGAACTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.21
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:52106254 original size:47 final size:47
Alignment explanation
Indices: 52106176--52106530 Score: 543
Period size: 47 Copynumber: 7.6 Consensus size: 47
52106166 CCCTTCGGGA
* * * * * **
52106176 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
52106223 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
52106270 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
** *
52106317 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
52106364 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATT-AGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
52106410 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
52106457 CTTATCACATATATACACTTTCACATTCATCACAT-GGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
52106503 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ATATATACACTTTCACAT
52106531 ATGGGTTTAA
Statistics
Matches: 286, Mismatches: 19, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
46 63 0.22
47 205 0.72
48 18 0.06
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:52107963 original size:13 final size:13
Alignment explanation
Indices: 52107945--52107969 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52107935 TACTAAATTT
52107945 TCATGGATTCAAG
1 TCATGGATTCAAG
52107958 TCATGGATTCAA
1 TCATGGATTCAA
52107970 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:52111011 original size:29 final size:29
Alignment explanation
Indices: 52110972--52111050 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
52110962 CTTAATAATC
*
52110972 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
52111002 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
52111031 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
52111051 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:52111093 original size:43 final size:43
Alignment explanation
Indices: 52111032--52111220 Score: 369
Period size: 43 Copynumber: 4.4 Consensus size: 43
52111022 TGCATTTCAA
52111032 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
52111075 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
52111118 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
52111161 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
52111204 GCTCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
52111221 TGAAAACCAA
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 145 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:52113130 original size:37 final size:37
Alignment explanation
Indices: 52113070--52113145 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
52113060 TATTACGAAA
* *
52113070 TCTTACCCGGACATAATCTCCACACGAAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
52113107 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
52113144 TC
1 TC
52113146 CTTAGAACTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.21
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:52113344 original size:47 final size:47
Alignment explanation
Indices: 52113266--52113611 Score: 462
Period size: 47 Copynumber: 7.6 Consensus size: 47
52113256 CCCTTCGGGA
* * * * * **
52113266 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
52113313 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
52113359 C-TATCACGCATATACAC-TTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
52113404 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
52113451 CTTATCAC--ATATACACTTTCACATTCAT--C-T--TCCATT-AGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
52113490 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
52113537 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
52113584 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ATATATACACTTTCACAT
52113612 ATGGGTTTAA
Statistics
Matches: 270, Mismatches: 16, Indels: 24
0.87 0.05 0.08
Matches are distributed among these distances:
39 11 0.04
40 5 0.02
41 20 0.07
42 1 0.00
43 2 0.01
44 28 0.10
45 34 0.13
46 22 0.08
47 129 0.48
49 18 0.07
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:52113539 original size:86 final size:90
Alignment explanation
Indices: 52113317--52113611 Score: 415
Period size: 86 Copynumber: 3.2 Consensus size: 90
52113307 CTCGGCCCTG
52113317 TCACATATATACACTTTCACATTCATCACATCGGCCATTAAG-C-TATCACGCATATACAC-TTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCA--CATATACACTTTC
52113379 ACATTCATCACATCGGCCATTAAGCCTTA
64 ACATTCAT-ACATC-GCCATTAAGCCTTA
**
52113408 TCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATACACTTTCAC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATACACTTTCAC
*
52113473 ATTCAT-C-T-TCCATT-AGCCTTA
66 ATTCATACATCGCCATTAAGCCTTA
*
52113494 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--ATATACACTTTC
52113559 ACATTCATCACATCGGCCATTAAGCCTTA
64 ACATTCAT-ACATC-GCCATTAAGCCTTA
52113588 TCACATATATATACACTTTCACAT
1 TCAC--ATATATACACTTTCACAT
52113612 ATGGGTTTAA
Statistics
Matches: 184, Mismatches: 7, Indels: 21
0.87 0.03 0.10
Matches are distributed among these distances:
86 55 0.30
87 5 0.03
88 20 0.11
89 1 0.01
90 2 0.01
91 50 0.27
92 12 0.07
93 10 0.05
94 11 0.06
96 18 0.10
ACGTcount: A:0.31, C:0.30, G:0.06, T:0.32
Consensus pattern (90 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATACACTTTCAC
ATTCATACATCGCCATTAAGCCTTA
Found at i:52113551 original size:133 final size:134
Alignment explanation
Indices: 52113266--52113596 Score: 436
Period size: 133 Copynumber: 2.4 Consensus size: 134
52113256 CCCTTCGGGA
* * * * * ** * *
52113266 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--ATATACAC
*
52113331 TTTCACATTCATCACATCGGCCATTAAGCTATCACGCATATACACTTCACATTCATCACATCGGC
64 TTTCACATTCAT-ACATC-GCCATTAAGCTATCACACATATACACTTCACATTCATCACATCGGC
52113396 CATTAAGC
127 CATTAAGC
**
52113404 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATACACTT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATACACTT
* *
52113469 TCACATTCAT-C-T-TCCATT-AGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
66 TCACATTCATACATCGCCATTAAG-C-TATCACACATATACAC-TTCACATTCATCACATCGGCC
*
52113530 ATTAGGC
128 ATTAAGC
52113537 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATA
52113597 TATACACTTT
Statistics
Matches: 173, Mismatches: 17, Indels: 11
0.86 0.08 0.05
Matches are distributed among these distances:
130 2 0.01
131 6 0.03
132 14 0.08
133 86 0.50
134 1 0.01
136 20 0.12
138 44 0.25
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (134 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATACACTT
TCACATTCATACATCGCCATTAAGCTATCACACATATACACTTCACATTCATCACATCGGCCATT
AAGC
Found at i:52115044 original size:13 final size:13
Alignment explanation
Indices: 52115026--52115050 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52115016 TACTAAATTT
52115026 TCATGGATTCAAG
1 TCATGGATTCAAG
52115039 TCATGGATTCAA
1 TCATGGATTCAA
52115051 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:52115424 original size:188 final size:188
Alignment explanation
Indices: 52115107--52115485 Score: 749
Period size: 188 Copynumber: 2.0 Consensus size: 188
52115097 AGGAAAATCA
*
52115107 CATTACAAATCTCAAATTCAAGCAAAGACCATGGCCGAAATGCACATATAACCACATAACAAAAA
1 CATTACAAATCTCAAATTCAAGCAAAGAACATGGCCGAAATGCACATATAACCACATAACAAAAA
52115172 TATTGAACCTTTGGTTGCCTAACTAGCTTAACATCCATCAAATTTTAAATCAAGAAACTCACCTC
66 TATTGAACCTTTGGTTGCCTAACTAGCTTAACATCCATCAAATTTTAAATCAAGAAACTCACCTC
52115237 ATCTATAATCAACCCTCAATACCCTAAAGCATCAAAAATGACATCAAAGAAATACAAC
131 ATCTATAATCAACCCTCAATACCCTAAAGCATCAAAAATGACATCAAAGAAATACAAC
52115295 CATTACAAATCTCAAATTCAAGCAAAGAACATGGCCGAAATGCACATATAACCACATAACAAAAA
1 CATTACAAATCTCAAATTCAAGCAAAGAACATGGCCGAAATGCACATATAACCACATAACAAAAA
52115360 TATTGAACCTTTGGTTGCCTAACTAGCTTAACATCCATCAAATTTTAAATCAAGAAACTCACCTC
66 TATTGAACCTTTGGTTGCCTAACTAGCTTAACATCCATCAAATTTTAAATCAAGAAACTCACCTC
52115425 ATCTATAATCAACCCTCAATACCCTAAAGCATCAAAAATGACATCAAAGAAATACAAC
131 ATCTATAATCAACCCTCAATACCCTAAAGCATCAAAAATGACATCAAAGAAATACAAC
52115483 CAT
1 CAT
52115486 CCATGGCCAA
Statistics
Matches: 190, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
188 190 1.00
ACGTcount: A:0.44, C:0.25, G:0.08, T:0.23
Consensus pattern (188 bp):
CATTACAAATCTCAAATTCAAGCAAAGAACATGGCCGAAATGCACATATAACCACATAACAAAAA
TATTGAACCTTTGGTTGCCTAACTAGCTTAACATCCATCAAATTTTAAATCAAGAAACTCACCTC
ATCTATAATCAACCCTCAATACCCTAAAGCATCAAAAATGACATCAAAGAAATACAAC
Found at i:52126325 original size:48 final size:49
Alignment explanation
Indices: 52126266--52126371 Score: 142
Period size: 48 Copynumber: 2.2 Consensus size: 49
52126256 TAATACTTTT
* * * *
52126266 AATATTTAATTTAATTTTATACTTATCTTGAT-AATGTTCTATTAATTC
1 AATATTAAATTTAATCTTATACTTATCTTGATAAATATTATATTAATTC
** *
52126314 AATATTAAATTTAATCTTATGTTTATCTTGATAAATATTATATTAATTT
1 AATATTAAATTTAATCTTATACTTATCTTGATAAATATTATATTAATTC
52126363 AATATTAAA
1 AATATTAAA
52126372 GTAATTATGT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 28 0.56
49 22 0.44
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.52
Consensus pattern (49 bp):
AATATTAAATTTAATCTTATACTTATCTTGATAAATATTATATTAATTC
Found at i:52135923 original size:38 final size:38
Alignment explanation
Indices: 52135840--52136038 Score: 150
Period size: 38 Copynumber: 5.3 Consensus size: 38
52135830 TAGAAACGTG
* * * *
52135840 GTGATATTCGGGCTCCATGCATAACAGGTTTTTTG-TC
1 GTGATATTCGGGCTCCATGCCTAACAGGCTTTGTGCTA
* * * *
52135877 GATTATATTCGGGCTTCATACCTAACAGGCTTTATGCTA
1 G-TGATATTCGGGCTCCATGCCTAACAGGCTTTGTGCTA
* * * ** *
52135916 GTGATATTTGGGCTCCGTGCCTAGCAGGCTCCGTGCTG
1 GTGATATTCGGGCTCCATGCCTAACAGGCTTTGTGCTA
* * ** ** *
52135954 GTGATATTCGAGCTTCATAACTAGTAGGCTTTGTGCCA
1 GTGATATTCGGGCTCCATGCCTAACAGGCTTTGTGCTA
* * * *
52135992 GTTATATTCGAGC-CCGTGCCTAACAGGCTTTGTGCTG
1 GTGATATTCGGGCTCCATGCCTAACAGGCTTTGTGCTA
52136029 GTGATATTCG
1 GTGATATTCG
52136039 AGTTTTGTGC
Statistics
Matches: 122, Mismatches: 38, Indels: 4
0.74 0.23 0.02
Matches are distributed among these distances:
37 26 0.21
38 94 0.77
39 2 0.02
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (38 bp):
GTGATATTCGGGCTCCATGCCTAACAGGCTTTGTGCTA
Found at i:52135969 original size:76 final size:75
Alignment explanation
Indices: 52135881--52136040 Score: 203
Period size: 76 Copynumber: 2.1 Consensus size: 75
52135871 TTTGTCGATT
* * * * * *
52135881 ATATTCGGGCTTCATACCTAACAGGCTTTATGCTAGTGATATTTGGGCTCCGTGCCTAGCAGGCT
1 ATATTCGAGCTTCATAACTAACAGGCTTTATGCCAGTGATATTCGAGC-CCGTGCCTAACAGGCT
52135946 CCGTGCTGGTG
65 CCGTGCTGGTG
** * * *
52135957 ATATTCGAGCTTCATAACTAGTAGGCTTTGTGCCAGTTATATTCGAGCCCGTGCCTAACAGGCTT
1 ATATTCGAGCTTCATAACTAACAGGCTTTATGCCAGTGATATTCGAGCCCGTGCCTAACAGGCTC
*
52136022 TGTGCTGGTG
66 CGTGCTGGTG
52136032 ATATTCGAG
1 ATATTCGAG
52136041 TTTTGTGCTT
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
75 33 0.46
76 39 0.54
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (75 bp):
ATATTCGAGCTTCATAACTAACAGGCTTTATGCCAGTGATATTCGAGCCCGTGCCTAACAGGCTC
CGTGCTGGTG
Found at i:52136034 original size:75 final size:75
Alignment explanation
Indices: 52135881--52136110 Score: 228
Period size: 75 Copynumber: 3.0 Consensus size: 75
52135871 TTTGTCGATT
* * ** * * * * *
52135881 ATATTCGGGCTTCATACCTAACAGGCTTTATGCTAGTGATATTTGGGCTCCGTGCCTAGCAGGCT
1 ATATTCGAGCTTCATAACTAGTAGGCTTTGTGCCAGTTATATTCGAGC-CCGTGCCTAGCAGGCT
*
52135946 CCGTGCTGGTG
65 TCGTGCTGGTG
*
52135957 ATATTCGAGCTTCATAACTAGTAGGCTTTGTGCCAGTTATATTCGAGCCCGTGCCTAACAGGCTT
1 ATATTCGAGCTTCATAACTAGTAGGCTTTGTGCCAGTTATATTCGAGCCCGTGCCTAGCAGGCTT
*
52136022 TGTGCTGGTG
66 CGTGCTGGTG
* ** * * * *
52136032 ATATTCGAGTTTTGT-GCTTAGTAGGCTTCGTGCCAGTGTATTATATCAAGCCTTGTGCCTAGCA
1 ATATTCGAGCTTCATAAC-TAGTAGGCTTTGTGCCAGT-TA-TAT-TCGAGCC-CGTGCCTAGCA
52136096 GGCTTCGTGCTGGTG
61 GGCTTCGTGCTGGTG
52136111 TGTTATATCA
Statistics
Matches: 128, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
74 1 0.01
75 54 0.42
76 41 0.32
77 3 0.02
78 6 0.05
79 23 0.18
ACGTcount: A:0.18, C:0.21, G:0.27, T:0.34
Consensus pattern (75 bp):
ATATTCGAGCTTCATAACTAGTAGGCTTTGTGCCAGTTATATTCGAGCCCGTGCCTAGCAGGCTT
CGTGCTGGTG
Found at i:52136089 original size:41 final size:41
Alignment explanation
Indices: 52136043--52136161 Score: 121
Period size: 41 Copynumber: 2.9 Consensus size: 41
52136033 TATTCGAGTT
*
52136043 TTGTGCTTAGTAGGCTTCGTGCCAGTGTATTATATCAAGCC
1 TTGTGCTTAGCAGGCTTCGTGCCAGTGTATTATATCAAGCC
* ** * * *
52136084 TTGTGCCTAGCAGGCTTCGTGCTGGTGTGTTATATCAGGCT
1 TTGTGCTTAGCAGGCTTCGTGCCAGTGTATTATATCAAGCC
** * * * *
52136125 TTAAGCTTAGCAGTCTTCATGCCAATGTATTGTATCA
1 TTGTGCTTAGCAGGCTTCGTGCCAGTGTATTATATCA
52136162 GGTAAGTTGT
Statistics
Matches: 61, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (41 bp):
TTGTGCTTAGCAGGCTTCGTGCCAGTGTATTATATCAAGCC
Found at i:52144873 original size:14 final size:14
Alignment explanation
Indices: 52144854--52144880 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52144844 AATTGTTTTA
52144854 CTTAGTTTTTAATT
1 CTTAGTTTTTAATT
52144868 CTTAGTTTTTAAT
1 CTTAGTTTTTAAT
52144881 CATCTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (14 bp):
CTTAGTTTTTAATT
Found at i:52151025 original size:22 final size:21
Alignment explanation
Indices: 52151000--52151043 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
52150990 TGATAAACTT
52151000 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
52151022 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
52151043 T
1 T
52151044 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:52152558 original size:18 final size:18
Alignment explanation
Indices: 52152531--52152580 Score: 82
Period size: 18 Copynumber: 2.7 Consensus size: 18
52152521 ATTCTTGTCG
52152531 AAAAATAATTAAATATTAT
1 AAAAA-AATTAAATATTAT
52152550 AAAAAAATTAAATATTAT
1 AAAAAAATTAAATATTAT
*
52152568 AAAATAATTAAAT
1 AAAAAAATTAAAT
52152581 TATGTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 25 0.83
19 5 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAAAATTAAATATTAT
Found at i:52168931 original size:17 final size:18
Alignment explanation
Indices: 52168899--52168933 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
52168889 GTTCATTATT
*
52168899 ATTTTAGTATTTTTTTTA
1 ATTTTAGTAATTTTTTTA
52168917 ATTTTA-TAATTTTTTTA
1 ATTTTAGTAATTTTTTTA
52168934 GCATTTGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTAGTAATTTTTTTA
Found at i:52175007 original size:26 final size:26
Alignment explanation
Indices: 52174978--52175058 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 26
52174968 AGCAAGCTTT
52174978 AATAGATTTAGAGTAAAAGAAATTCA
1 AATAGATTTAGAGTAAAAGAAATTCA
* * * * *
52175004 AATATA-TTAAACT-AAAGCAAGCTT-T
1 AATAGATTTAGAGTAAAAG-AA-ATTCA
52175029 AATAGATTTAGAGTAAAAGAAATTCA
1 AATAGATTTAGAGTAAAAGAAATTCA
52175055 AATA
1 AATA
52175059 TATTAAACTA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
24 4 0.10
25 14 0.35
26 18 0.45
27 4 0.10
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.28
Consensus pattern (26 bp):
AATAGATTTAGAGTAAAAGAAATTCA
Found at i:52175019 original size:25 final size:25
Alignment explanation
Indices: 52174991--52175070 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
52174981 AGATTTAGAG
52174991 TAAAAGAAATTCAAATATATTAAAC
1 TAAAAGAAATTCAAATATATTAAAC
* * * * *
52175016 T-AAAGCAAGCTT-TAATAGATTTAGAG
1 TAAAAG-AA-ATTCAAATATA-TTAAAC
52175042 TAAAAGAAATTCAAATATATTAAAC
1 TAAAAGAAATTCAAATATATTAAAC
52175067 TAAA
1 TAAA
52175071 TCTTAAAGTG
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
24 4 0.10
25 18 0.45
26 14 0.35
27 4 0.10
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.29
Consensus pattern (25 bp):
TAAAAGAAATTCAAATATATTAAAC
Found at i:52175024 original size:51 final size:51
Alignment explanation
Indices: 52174968--52175070 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
52174958 AAATTAAATG
52174968 AGCAAGCTTTAATAGATTTAGAGTAAAAGAAATTCAAATATATTAAACTAA
1 AGCAAGCTTTAATAGATTTAGAGTAAAAGAAATTCAAATATATTAAACTAA
52175019 AGCAAGCTTTAATAGATTTAGAGTAAAAGAAATTCAAATATATTAAACTAA
1 AGCAAGCTTTAATAGATTTAGAGTAAAAGAAATTCAAATATATTAAACTAA
52175070 A
1 A
52175071 TCTTAAAGTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (51 bp):
AGCAAGCTTTAATAGATTTAGAGTAAAAGAAATTCAAATATATTAAACTAA
Found at i:52180181 original size:19 final size:20
Alignment explanation
Indices: 52180157--52180198 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
52180147 TTCAAATAAG
52180157 TTTTCACAACAAACAC-TAT
1 TTTTCACAACAAACACATAT
*
52180176 TTTTCATAACAAACACATAT
1 TTTTCACAACAAACACATAT
52180196 TTT
1 TTT
52180199 CAACTTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTTCACAACAAACACATAT
Found at i:52184449 original size:27 final size:27
Alignment explanation
Indices: 52184410--52184628 Score: 257
Period size: 27 Copynumber: 8.2 Consensus size: 27
52184400 GCTTGGGCTA
52184410 TAAAATTACCGAAATACCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
* *
52184437 AAAAATTATCGAAATACCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
* * *
52184464 TAAAATTATCAAAATACCC-CCACTA-GG
1 TAAAATTACCGAAATACCCTCGA--AGGG
* *
52184491 TAAAATTACAGAAATACCCTC-AAAGG
1 TAAAATTACCGAAATACCCTCGAAGGG
52184517 TAAAATTACCGAAATACCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
* *
52184544 TAAAATTACTGAAATACCCTCAAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
* * *
52184571 TAAAATTACCAAAATACCC-CAAAGGT
1 TAAAATTACCGAAATACCCTCGAAGGG
* * *
52184597 TAAAATTATCGAAATACCCCCGATGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
52184624 TAAAA
1 TAAAA
52184629 CGACTGTAAT
Statistics
Matches: 166, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.01
26 47 0.28
27 116 0.70
28 2 0.01
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.20
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTCGAAGGG
Found at i:52184625 original size:53 final size:54
Alignment explanation
Indices: 52184410--52184628 Score: 250
Period size: 53 Copynumber: 4.1 Consensus size: 54
52184400 GCTTGGGCTA
* * *
52184410 TAAAATTACCGAAATACCCTCGAAGGGAAAAATTATC-GAAATACCCTCGAAGGG
1 TAAAATTACCAAAATACCCTCAAAGGGTAAAATTA-CAGAAATACCCTCGAAGGG
* * * *
52184464 TAAAATTATCAAAATACCCCCACTA-GGTAAAATTACAGAAATACCCTC-AAAGG
1 TAAAATTACCAAAATACCCTCA-AAGGGTAAAATTACAGAAATACCCTCGAAGGG
* * * *
52184517 TAAAATTACCGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCTCAAAGGG
1 TAAAATTACCAAAATACCCTCAAAGGGTAAAATTACAGAAATACCCTCGAAGGG
* * *
52184571 TAAAATTACCAAAATACCC-CAAAGGTTAAAATTATC-GAAATACCCCCGATGGG
1 TAAAATTACCAAAATACCCTCAAAGGGTAAAATTA-CAGAAATACCCTCGAAGGG
52184624 TAAAA
1 TAAAA
52184629 CGACTGTAAT
Statistics
Matches: 140, Mismatches: 20, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
53 77 0.55
54 61 0.44
55 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.20
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCTCAAAGGGTAAAATTACAGAAATACCCTCGAAGGG
Found at i:52184640 original size:80 final size:80
Alignment explanation
Indices: 52184410--52184661 Score: 298
Period size: 80 Copynumber: 3.1 Consensus size: 80
52184400 GCTTGGGCTA
* * *
52184410 TAAAATTACCGAAATACCCTCGAAGGGAAAAATTATCGAAATACCCTCGAAGGGTAAAATTA-TC
1 TAAAATTACCAAAATACCCTC-AAAGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACT-
*
52184474 AAAATACCCCCACTA-GG
64 GAAATA-CCCCACTAGGG
*
52184491 TAAAATTA-CAGAAATACCCTCAAAGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACTG
1 TAAAATTACCA-AAATACCCTCAAAGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTG
*
52184555 AAATACCCTCA-AAGGG
65 AAATACCC-CACTAGGG
* * **
52184571 TAAAATTACCAAAATACCC-CAAAGGTTAAAATTATCGAAATACCCCCGATGGGTAAAACGACTG
1 TAAAATTACCAAAATACCCTCAAAGG-TAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTG
* *
52184635 TAATACCCCATTAGGG
65 AAATACCCCACTAGGG
*
52184651 TAAAATAACCA
1 TAAAATTACCA
52184662 TGATGCCCCT
Statistics
Matches: 150, Mismatches: 14, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
79 12 0.08
80 117 0.78
81 21 0.14
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.20
Consensus pattern (80 bp):
TAAAATTACCAAAATACCCTCAAAGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTGA
AATACCCCACTAGGG
Found at i:52187449 original size:21 final size:20
Alignment explanation
Indices: 52187402--52187454 Score: 65
Period size: 18 Copynumber: 2.7 Consensus size: 20
52187392 TAATGAAAGG
52187402 AAGACAAAAAGA-AAT-AAA
1 AAGACAAAAAGAGAATGAAA
* *
52187420 AAAATAAAAAGAGAATGAAA
1 AAGACAAAAAGAGAATGAAA
52187440 AAGAGCAAAAAGAGA
1 AAGA-CAAAAAGAGA
52187455 TTGAGAGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 10 0.36
19 3 0.11
20 6 0.21
21 9 0.32
ACGTcount: A:0.74, C:0.04, G:0.17, T:0.06
Consensus pattern (20 bp):
AAGACAAAAAGAGAATGAAA
Found at i:52190532 original size:24 final size:24
Alignment explanation
Indices: 52190477--52190523 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
52190467 CCCTCAAGGT
* *
52190477 TAAATGATTGATTTGTCTGTGATG
1 TAAATGACTGATTTGTCTATGATG
52190501 TAAATGACTGATTTGTCTATGAT
1 TAAATGACTGATTTGTCTATGAT
52190524 TTGTATGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTATGATG
Found at i:52190537 original size:24 final size:24
Alignment explanation
Indices: 52190477--52190537 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
52190467 CCCTCAAGGT
** *
52190477 TAAATGATTGATTTGTCTGTGATG
1 TAAATGACCGATTTGTCTATGATG
* *
52190501 TAAATGACTGATTTGTCTATGATT
1 TAAATGACCGATTTGTCTATGATG
**
52190525 TGTATGACCGATT
1 TAAATGACCGATT
52190538 CTGAGCATGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.44
Consensus pattern (24 bp):
TAAATGACCGATTTGTCTATGATG
Found at i:52190682 original size:26 final size:26
Alignment explanation
Indices: 52190653--52190718 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
52190643 TTGGCCACAT
* *
52190653 ATACTATTAATGGCAGCTTTACTGCG
1 ATACTATTGATGGCAGCTTTACTACG
* * *
52190679 ATACTGTTGCTGGCAGCTTTGCTACG
1 ATACTATTGATGGCAGCTTTACTACG
*
52190705 ATGCTATTGATGGC
1 ATACTATTGATGGC
52190719 TTTGTGACGG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (26 bp):
ATACTATTGATGGCAGCTTTACTACG
Found at i:52190767 original size:32 final size:33
Alignment explanation
Indices: 52190712--52190801 Score: 105
Period size: 32 Copynumber: 2.8 Consensus size: 33
52190702 ACGATGCTAT
* ** * *
52190712 TGATGGCTTTGTGACGGTTATATTACCT-TTAC
1 TGATGGCTTTGTGCCAATCATATTACCTACTAC
52190744 TGATGG-TTGTGTGCCAATCATATTA-CTACTAC
1 TGATGGCTT-TGTGCCAATCATATTACCTACTAC
52190776 TGATGGCTTTGTGCCAATCATATTAC
1 TGATGGCTTTGTGCCAATCATATTAC
52190802 TGTACTTATG
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
31 4 0.08
32 43 0.88
33 2 0.04
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (33 bp):
TGATGGCTTTGTGCCAATCATATTACCTACTAC
Found at i:52190802 original size:32 final size:32
Alignment explanation
Indices: 52190741--52190802 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 32
52190731 ATATTACCTT
52190741 TACTGATGGTTGTGTGCCAATCATATTACTAC
1 TACTGATGGTTGTGTGCCAATCATATTACTAC
52190773 TACTGATGGCTT-TGTGCCAATCATATTACT
1 TACTGATGG-TTGTGTGCCAATCATATTACT
52190803 GTACTTATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 27 0.93
33 2 0.07
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (32 bp):
TACTGATGGTTGTGTGCCAATCATATTACTAC
Found at i:52204100 original size:6 final size:6
Alignment explanation
Indices: 52204089--52204181 Score: 62
Period size: 6 Copynumber: 15.3 Consensus size: 6
52204079 CTTTTCATAG
* * * * *
52204089 TTTTAT TTTTAT TTCTAAT TTTTAT CTTTAT CTTTCAT TTTGA- TTTAAT
1 TTTTAT TTTTAT TT-TTAT TTTTAT TTTTAT -TTTTAT TTTTAT TTTTAT
* * * * * *
52204138 TTTAAT TTTAAT CTTTAT TTTTAA TTTTAT TGTTAA TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
52204182 ATTTTATTAA
Statistics
Matches: 68, Mismatches: 16, Indels: 6
0.76 0.18 0.07
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 9 0.13
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (6 bp):
TTTTAT
Found at i:52204111 original size:19 final size:18
Alignment explanation
Indices: 52204089--52204165 Score: 75
Period size: 19 Copynumber: 4.2 Consensus size: 18
52204079 CTTTTCATAG
*
52204089 TTTTATTTTTATTTCTAAT
1 TTTTATCTTTATTT-TAAT
*
52204108 TTTTATCTTTATCTTTCAT
1 TTTTATCTTTAT-TTTAAT
* *
52204127 TTTGAT-TTAATTTTAAT
1 TTTTATCTTTATTTTAAT
*
52204144 TTTAATCTTTATTTTTAAT
1 TTTTATCTTTA-TTTTAAT
52204163 TTT
1 TTT
52204166 ATTGTTAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
17 10 0.21
18 7 0.15
19 29 0.60
20 2 0.04
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.70
Consensus pattern (18 bp):
TTTTATCTTTATTTTAAT
Found at i:52204144 original size:36 final size:37
Alignment explanation
Indices: 52204071--52204178 Score: 109
Period size: 36 Copynumber: 3.0 Consensus size: 37
52204061 TTTCTAATTC
* * *
52204071 ATTTTAATCTTT-TC-ATAGTTTTATT-TTTATTTCTA
1 ATTTTAATCTTTATCTTTAATTTTATTGTTAATTT-TA
* *
52204106 ATTTTTATCTTTATCTTTCATTTTGA-T-TTAATTTTA
1 ATTTTAATCTTTATCTTTAATTTT-ATTGTTAATTTTA
*
52204142 ATTTTAATCTTTATTTTTAATTTTATTGTTAATTTTA
1 ATTTTAATCTTTATCTTTAATTTTATTGTTAATTTTA
52204179 TTTATTTTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
35 12 0.20
36 26 0.43
37 21 0.35
38 1 0.02
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (37 bp):
ATTTTAATCTTTATCTTTAATTTTATTGTTAATTTTA
Found at i:52204149 original size:12 final size:12
Alignment explanation
Indices: 52204089--52204178 Score: 62
Period size: 13 Copynumber: 7.4 Consensus size: 12
52204079 CTTTTCATAG
*
52204089 TTTT-ATTTTTA
1 TTTTAATTTTAA
*
52204100 TTTCTAATTTTTA
1 TTT-TAATTTTAA
*
52204113 TCTTT-ATCTTTCA
1 T-TTTAAT-TTTAA
*
52204126 TTTTGA-TTTAA
1 TTTTAATTTTAA
52204137 TTTTAATTTTAA
1 TTTTAATTTTAA
*
52204149 TCTTTATTTTTAA
1 T-TTTAATTTTAA
52204162 TTTT-ATTGTTAA
1 TTTTAATT-TTAA
52204174 TTTTA
1 TTTTA
52204179 TTTATTTTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 16
0.76 0.06 0.19
Matches are distributed among these distances:
11 14 0.22
12 23 0.35
13 26 0.40
14 2 0.03
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTAATTTTAA
Found at i:52204176 original size:19 final size:19
Alignment explanation
Indices: 52204099--52204177 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 19
52204089 TTTTATTTTT
* * *
52204099 ATTTCTAATTTTTATCTTT
1 ATTTTTAATTTTAATCTTA
* * *
52204118 ATCTTTCATTTTGAT-TTA
1 ATTTTTAATTTTAATCTTA
*
52204136 A-TTTTAATTTTAATCTTT
1 ATTTTTAATTTTAATCTTA
* *
52204154 ATTTTTAATTTTATTGTTA
1 ATTTTTAATTTTAATCTTA
52204173 ATTTT
1 ATTTT
52204178 ATTTATTTTA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
17 10 0.22
18 6 0.13
19 30 0.65
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (19 bp):
ATTTTTAATTTTAATCTTA
Found at i:52204179 original size:12 final size:11
Alignment explanation
Indices: 52204089--52204189 Score: 73
Period size: 12 Copynumber: 8.6 Consensus size: 11
52204079 CTTTTCATAG
*
52204089 TTTTATTTTTA
1 TTTTATTTTAA
*
52204100 TTTCTAATTTTTA
1 TTT-T-ATTTTAA
*
52204113 TCTTTATCTTTCA
1 T-TTTAT-TTTAA
52204126 TTTTGA-TTTAA
1 TTTT-ATTTTAA
52204137 TTTTAATTTTAA
1 TTTT-ATTTTAA
52204149 TCTTTATTTTTAA
1 T-TTTA-TTTTAA
52204162 TTTTATTGTTAA
1 TTTTATT-TTAA
52204174 TTTTA-TTT-A
1 TTTTATTTTAA
52204183 TTTTATT
1 TTTTATT
52204190 AAAAGGGGTC
Statistics
Matches: 77, Mismatches: 3, Indels: 21
0.76 0.03 0.21
Matches are distributed among these distances:
9 6 0.08
10 3 0.04
11 15 0.19
12 26 0.34
13 25 0.32
14 2 0.03
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (11 bp):
TTTTATTTTAA
Found at i:52206180 original size:25 final size:24
Alignment explanation
Indices: 52206140--52206187 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
52206130 TTTCTTTAGT
*
52206140 TTTTATTTCTCTTTAGTTTTTTAA
1 TTTTATTTCTCTTTAGTATTTTAA
52206164 TTTTATTTCT-TAGTTAGTATTTTA
1 TTTTATTTCTCT--TTAGTATTTTA
52206188 CTTTCGCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 10 0.48
25 10 0.48
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (24 bp):
TTTTATTTCTCTTTAGTATTTTAA
Found at i:52221189 original size:42 final size:42
Alignment explanation
Indices: 52221142--52221226 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
52221132 GGGTGTTACA
* **
52221142 TTTAGTGGTATTAGAGCTTGCAGGTTTAGTCGATTCTCAGAC
1 TTTAGTGGTATCAGAGCTTGCAGGTTTAACCGATTCTCAGAC
52221184 TTTAGTGGTATCAGAGCTTGCAGGTTTAACCGATTCTCAGAC
1 TTTAGTGGTATCAGAGCTTGCAGGTTTAACCGATTCTCAGAC
52221226 T
1 T
52221227 AAATCGAGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.36
Consensus pattern (42 bp):
TTTAGTGGTATCAGAGCTTGCAGGTTTAACCGATTCTCAGAC
Found at i:52226212 original size:15 final size:16
Alignment explanation
Indices: 52226188--52226231 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
52226178 TAATGTTGTA
*
52226188 TTATATATATAATATT
1 TTATATATATAATATG
52226204 TTA-ATATAT-ATATG
1 TTATATATATAATATG
52226218 TTATATATTATAAT
1 TTATATA-TATAAT
52226232 TAATAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 7 0.29
15 9 0.38
16 6 0.25
17 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
TTATATATATAATATG
Found at i:52237668 original size:13 final size:13
Alignment explanation
Indices: 52237650--52237678 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
52237640 AAATATCCAT
52237650 GTTTTAGAAAATG
1 GTTTTAGAAAATG
52237663 GTTTTAGAAAATG
1 GTTTTAGAAAATG
52237676 GTT
1 GTT
52237679 GCGGCTATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (13 bp):
GTTTTAGAAAATG
Found at i:52239767 original size:14 final size:16
Alignment explanation
Indices: 52239738--52239769 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
52239728 TTTTCTATCC
52239738 TATTTTGATAATTATT
1 TATTTTGATAATTATT
52239754 TATTTT-AT-ATTATT
1 TATTTTGATAATTATT
52239768 TA
1 TA
52239770 AATAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TATTTTGATAATTATT
Found at i:52241125 original size:10 final size:10
Alignment explanation
Indices: 52241112--52241180 Score: 51
Period size: 10 Copynumber: 7.3 Consensus size: 10
52241102 AAAATTCTCA
52241112 AAAATTTATT
1 AAAATTTATT
52241122 AAAA--TATT
1 AAAATTTATT
52241130 AAAATATTA-T
1 AAAAT-TTATT
*
52241140 AAAATTT-TG
1 AAAATTTATT
*
52241149 AAAA-TTATAG
1 AAAATTTAT-T
*
52241159 AAAATGTA-T
1 AAAATTTATT
52241168 AAAATTTATT
1 AAAATTTATT
52241178 AAA
1 AAA
52241181 TATAATAATG
Statistics
Matches: 47, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
8 10 0.21
9 14 0.30
10 19 0.40
11 4 0.09
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (10 bp):
AAAATTTATT
Found at i:52241157 original size:17 final size:18
Alignment explanation
Indices: 52241112--52241233 Score: 54
Period size: 19 Copynumber: 6.6 Consensus size: 18
52241102 AAAATTCTCA
52241112 AAAAT-TTATTAAAATATT
1 AAAATATTA-TAAAATATT
*
52241130 AAAATATTATAAAATTTT
1 AAAATATTATAAAATATT
* *
52241148 GAAAAT-TATAGAAAATGTAT
1 -AAAATAT-TATAAAATAT-T
*
52241168 AAAAT-TTATTAAATA-T
1 AAAATATTATAAAATATT
* * *
52241184 AATAATGTTTTAAAAAATT
1 AA-AATATTATAAAATATT
* * *
52241203 ATAAAAACTATTAAATATTAT
1 A-AAATATTATAAAATA-T-T
52241224 AAAATATTAT
1 AAAATATTAT
52241234 TCATTTGTTA
Statistics
Matches: 77, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
16 3 0.04
17 3 0.04
18 27 0.35
19 32 0.42
20 10 0.13
21 2 0.03
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (18 bp):
AAAATATTATAAAATATT
Found at i:52241163 original size:47 final size:47
Alignment explanation
Indices: 52241102--52241233 Score: 112
Period size: 47 Copynumber: 2.8 Consensus size: 47
52241092 AGGATTATAT
* * *
52241102 AAAATTCTCAAAAATTTATTAAAATATTAAAATATTATAAAATTTT-G
1 AAAATTAT-AAAAATCTATTAAAATATTAAAATATTATAAAATTTTAA
* * **
52241149 AAAATTATAGAAAATGTA-TAAAAT-TTATTAAATATAATAATGTTTTAA
1 AAAATTATA-AAAATCTATTAAAATATTA--AAATATTATAAAATTTTAA
52241197 AAAATTATAAAAA-CTATT-AAATATTATAAAATATTAT
1 AAAATTATAAAAATCTATTAAAATA-T-TAAAATATTAT
52241234 TCATTTGTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
45 3 0.04
46 13 0.19
47 41 0.59
48 10 0.14
49 2 0.03
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.39
Consensus pattern (47 bp):
AAAATTATAAAAATCTATTAAAATATTAAAATATTATAAAATTTTAA
Found at i:52241320 original size:30 final size:30
Alignment explanation
Indices: 52241278--52241346 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
52241268 ATATTATAAA
*
52241278 AATTAGAAATGATAGAAAAT-TATATAAAAAT
1 AATTA-AAATGATAAAAAATCTATA-AAAAAT
*
52241309 AATTAAAATGATAAAAAATCTATAAAAATT
1 AATTAAAATGATAAAAAATCTATAAAAAAT
*
52241339 AATAAAAA
1 AATTAAAA
52241347 AAACTTATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 25 0.74
31 9 0.26
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (30 bp):
AATTAAAATGATAAAAAATCTATAAAAAAT
Found at i:52241676 original size:19 final size:19
Alignment explanation
Indices: 52241652--52241726 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 19
52241642 GTAGTAATAT
52241652 TTATTAAAAAGTT-TAAAAA
1 TTATTAAAAA-TTATAAAAA
*
52241671 TTATTAGAAATTAGTAAAATA
1 TTATTAAAAATTA-TAAAA-A
* * *
52241692 TTATAAAAAAATTATATAAG
1 TTAT-TAAAAATTATAAAAA
52241712 TTATTAAAAAATTAT
1 TTATT-AAAAATTAT
52241727 TAAATGTCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 2 0.04
19 9 0.20
20 18 0.40
21 9 0.20
22 7 0.16
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
TTATTAAAAATTATAAAAA
Found at i:52241720 original size:31 final size:32
Alignment explanation
Indices: 52241666--52241726 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
52241656 TAAAAAGTTT
*
52241666 AAAAATTATTAGAAATTAGTAAAATATTATAA
1 AAAAATTATTAGAAATTAGTAAAAAATTATAA
* * *
52241698 AAAAATTA-TATAAGTTATTAAAAAATTAT
1 AAAAATTATTAGAAATTAGTAAAAAATTAT
52241727 TAAATGTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (32 bp):
AAAAATTATTAGAAATTAGTAAAAAATTATAA
Found at i:52241726 original size:11 final size:11
Alignment explanation
Indices: 52241666--52241730 Score: 55
Period size: 11 Copynumber: 6.2 Consensus size: 11
52241656 TAAAAAGTTT
52241666 AAAAATTATT-
1 AAAAATTATTA
* *
52241676 AGAAATTAGTA
1 AAAAATTATTA
* *
52241687 AAATATTATAA
1 AAAAATTATTA
52241698 AAAAATTA-T-
1 AAAAATTATTA
* *
52241707 ATAAGTTATTA
1 AAAAATTATTA
52241718 AAAAATTATTA
1 AAAAATTATTA
52241729 AA
1 AA
52241731 TGTCATAAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 5
0.70 0.21 0.09
Matches are distributed among these distances:
9 6 0.15
10 9 0.22
11 25 0.62
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (11 bp):
AAAAATTATTA
Found at i:52241751 original size:20 final size:21
Alignment explanation
Indices: 52241678--52241751 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 21
52241668 AAATTATTAG
* *
52241678 AAATTAGTAAAATATTATAAAA
1 AAATTA-TAAAATGTCATAAAA
* * *
52241700 AAATTATATAA-GTTATTAAA
1 AAATTATAAAATGTCATAAAA
*
52241720 AAATTATTAAATGTCATAAAA
1 AAATTATAAAATGTCATAAAA
52241741 AAATT-TAAAAT
1 AAATTATAAAAT
52241752 TAATGCTCCT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 21 0.49
21 16 0.37
22 6 0.14
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (21 bp):
AAATTATAAAATGTCATAAAA
Found at i:52243991 original size:14 final size:14
Alignment explanation
Indices: 52243972--52244001 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
52243962 TCAGTATTAC
52243972 AAAATTAAATTATA
1 AAAATTAAATTATA
*
52243986 AAAATTAAATTTTA
1 AAAATTAAATTATA
52244000 AA
1 AA
52244002 TTTCGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATTAAATTATA
Found at i:52246717 original size:21 final size:19
Alignment explanation
Indices: 52246680--52246754 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
52246670 AATCATATAT
52246680 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
52246699 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
*
52246720 TCTAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
52246739 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
52246755 CTTGAAGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 35 0.66
21 18 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:52247176 original size:44 final size:42
Alignment explanation
Indices: 52247101--52247480 Score: 227
Period size: 44 Copynumber: 8.9 Consensus size: 42
52247091 GACTTGTATC
* *
52247101 TTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTACCT
1 TTCGATCTACTTCGCCA--A-TACATGAAGACAAGATCTGCT-CCT
* * **
52247147 TT-GATCTATTTCATGCCGATACATGAAGACAAGATCTGCTTTT
1 TTCGATCTACTTC--GCCAATACATGAAGACAAGATCTGCTCCT
*
52247190 TTCGATCTACTTCGCCAATACATGAAGACAAGA-C--CTAC-
1 TTCGATCTACTTCGCCAATACATGAAGACAAGATCTGCTCCT
* * *** *
52247228 -T---TC-AC--CACCAGTATGGGAAGACAAGATCTGCT-AT
1 TTCGATCTACTTCGCCAATACATGAAGACAAGATCTGCTCCT
* * *
52247262 CTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTATCA
1 -TTCGATCTACTT--CGCCAATACATGAAGACAAGATCTGCT-CCT
*
52247308 TT-GATCTACTTCACGCCAATACATGAAGACAAGATCTGCT-TT
1 TTCGATCTACTT--CGCCAATACATGAAGACAAGATCTGCTCCT
*** *
52247350 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCT-AT
1 -TTCGATCTACTTCGCCA--A-TACATGAAGACAAGATCTGCTCCT
*
52247395 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCT
1 -TTCGATCTACTT--CGCCAATACATGAAGACAAGATCTGCT-CCT
* *
52247441 TT-GATCCACTTCACGCCAATACATGAAGACAAGATTTGCT
1 TTCGATCTACTT--CGCCAATACATGAAGACAAGATCTGCT
52247481 TTCTTTGATA
Statistics
Matches: 269, Mismatches: 37, Indels: 58
0.74 0.10 0.16
Matches are distributed among these distances:
31 16 0.06
32 1 0.00
33 2 0.01
34 4 0.01
36 1 0.00
37 1 0.00
39 4 0.01
40 2 0.01
41 1 0.00
42 24 0.09
43 5 0.02
44 150 0.56
45 47 0.17
46 3 0.01
47 8 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
TTCGATCTACTTCGCCAATACATGAAGACAAGATCTGCTCCT
Found at i:52247403 original size:89 final size:88
Alignment explanation
Indices: 52247244--52247499 Score: 343
Period size: 89 Copynumber: 2.9 Consensus size: 88
52247234 ACCAGTATGG
* * *
52247244 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTATCAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCAT
52247309 TGATCTACTTCACGCCAATACAT
66 TGATCTACTTCACGCCAATACAT
* * * **
52247332 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATC-
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATACAGGAAGACAAGATCTGCTATCA
52247396 TTCGATCTACTTCACGCCAATACAT
65 TT-GATCTACTTCACGCCAATACAT
* * * * * * *
52247421 GAAGACAAGATCTGCTATCTTTGATCCACTTCACGCCAATACATGAAGACAAGATTTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCAT
*
52247486 TGATATACTTCACG
66 TGATCTACTTCACG
52247500 ACAACTTAGG
Statistics
Matches: 145, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
88 68 0.47
89 77 0.53
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (88 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCAT
TGATCTACTTCACGCCAATACAT
Found at i:52247462 original size:133 final size:133
Alignment explanation
Indices: 52247224--52247498 Score: 487
Period size: 133 Copynumber: 2.1 Consensus size: 133
52247214 AAGACAAGAC
52247224 CTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
1 CTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
* *
52247289 AAGATAAGATCTGCTATCATTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC
66 AAGACAAGATCTGCTATCATTGATCCACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC
52247354 GAT
131 GAT
*
52247357 CTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
1 CTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
* * *
52247422 AAGACAAGATCTGCTATCTTTGATCCACTTCACGCCAATACATGAAGACAAGATTTGCTTTCTTT
66 AAGACAAGATCTGCTATCATTGATCCACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC
52247487 GAT
131 GAT
*
52247490 ATACTTCAC
1 CTACTTCAC
52247499 GACAACTTAG
Statistics
Matches: 134, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
133 134 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (133 bp):
CTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
AAGACAAGATCTGCTATCATTGATCCACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC
GAT
Found at i:52247486 original size:44 final size:44
Alignment explanation
Indices: 52247244--52247499 Score: 361
Period size: 44 Copynumber: 5.8 Consensus size: 44
52247234 ACCAGTATGG
52247244 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
52247288 GAAGATAAGATCTGCTATCATT-GATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATC-TTCGATCTACTTCACGCCAATACAT
* * * * ***
52247332 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACAT
52247377 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
52247421 GAAGACAAGATCTGCTATCTTTGATCCACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * *
52247465 GAAGACAAGATTTGCTTTCTTTGATATACTTCACG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACG
52247500 ACAACTTAGG
Statistics
Matches: 187, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
43 2 0.01
44 146 0.78
45 39 0.21
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
Found at i:52247562 original size:88 final size:88
Alignment explanation
Indices: 52247507--52247815 Score: 503
Period size: 88 Copynumber: 3.5 Consensus size: 88
52247497 ACGACAACTT
* * **
52247507 AGGGAGGCAAGGCTAGTATCTTTGATCTATTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
52247572 TTCAACCTACTCCACTACAACCC
66 TTCAACCTACTCCACTACAACCC
52247595 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGT-CTAGGAAGGCAAGATCTGCTAT
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTAC-AGGAAGGCAAGATCTGCTAT
* *
52247659 CTTCAACCTGCTCCACTACGACCC
65 CTTCAACCTACTCCACTACAACCC
* * *
52247683 AGGGAGGCAAGGTTGGTATCCTCGATCTGCTTCACTGTCGGTACAGGAAGGTAAGATCTGCTATC
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
*
52247748 TTCAACCTGCTCCACTACAACCC
66 TTCAACCTACTCCACTACAACCC
*
52247771 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCAGTACA
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACA
52247816 AGAACTCCAC
Statistics
Matches: 206, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
87 1 0.00
88 204 0.99
89 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (88 bp):
AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
TTCAACCTACTCCACTACAACCC
Found at i:52247603 original size:44 final size:44
Alignment explanation
Indices: 52247550--52247781 Score: 198
Period size: 44 Copynumber: 5.3 Consensus size: 44
52247540 ACTGTCGGTA
* *
52247550 CAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
* * * * * * * **
52247594 CAGGGAGGCAAG-GCTGGTATCTTCGATCTGCTTCACTGTCGGTC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACC
*
52247638 TAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
* * * * * * * * ***
52247682 CAGGGAGGCAAGGT-TGGTATCCTCGATCTGCTTCACTGTCGGTA
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACC
* *
52247726 CAGGAAGGTAAGATCTGCTATCTTCAACCTGCTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
*
52247770 CAGGGAGGCAAG
1 CAGGAAGGCAAG
52247782 GCTGGTATCT
Statistics
Matches: 136, Mismatches: 48, Indels: 8
0.71 0.25 0.04
Matches are distributed among these distances:
43 37 0.27
44 61 0.45
45 38 0.28
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
Found at i:52247972 original size:88 final size:88
Alignment explanation
Indices: 52247820--52248463 Score: 939
Period size: 88 Copynumber: 7.3 Consensus size: 88
52247810 AGTACAAGAA
* * *
52247820 CTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGTAGGAAGG
1 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGG
**
52247885 CAAGATCTATTATCTTCAACCTG
66 CAAGATCTGCTATCTTCAACCTG
* * *
52247908 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTTACTATCGATGCAAGAAGG
1 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGG
* *
52247973 TAAGATCTGCTATCTTCAACCTT
66 CAAGATCTGCTATCTTCAACCTG
* * * * * * *
52247996 CTCCACTAAAACCTAGGGAGGCAAGGTTAGTATCTTCGATCTGCTTCAATGTCGATGTAAGAAGG
1 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGG
52248061 CAAGATCTGCTATCTTCAACCTG
66 CAAGATCTGCTATCTTCAACCTG
*
52248084 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGG
1 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGG
*
52248149 CAAGATCTGCTATCTTCAACCTT
66 CAAGATCTGCTATCTTCAACCTG
*
52248172 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGGAAGG
1 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGG
*
52248237 CAAGATCTGCTATCTTCAACGTG
66 CAAGATCTGCTATCTTCAACCTG
* * * * *
52248260 CTCCACTACAACCAAGGGAGGCAAGGCTAGTATCTTCGATTTGGTTCACTATCGATGCAGGAAGG
1 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGG
52248325 CAAGATCTGCTATCTTCAACCTG
66 CAAGATCTGCTATCTTCAACCTG
* * * * *
52248348 CTCCACTACAACCCATGGAGGCAAGGCTGGTATCTTAGATCTGCTTCGCCGTC-AGTACAGGAAG
1 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGA-TGCAGGAAG
* *
52248412 GCAAGATCTGTTATTTTCAACCTG
65 GCAAGATCTGCTATCTTCAACCTG
* * * *
52248436 CTCCGCTGCAAACCAGGAAGGCAAGGCT
1 CTCCACTACAACCCAGGGAGGCAAGGCT
52248464 TTGTGATTTC
Statistics
Matches: 498, Mismatches: 57, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
87 1 0.00
88 497 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (88 bp):
CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGG
CAAGATCTGCTATCTTCAACCTG
Found at i:52248453 original size:44 final size:44
Alignment explanation
Indices: 52248056--52248460 Score: 200
Period size: 44 Copynumber: 9.2 Consensus size: 44
52248046 GTCGATGTAA
* * *
52248056 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAG
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAACCAG
* * * * * * * **
52248100 GGAGGCAAG-GCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAG
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTG-CAAACCAG
* * * *
52248144 GAAGGCAAGATCTGCTATCTTCAACCTTCTCCACTACAACCCAG
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAACCAG
* * * * * * * *
52248188 GGAGGCAAG-GCTGGTATCTTCGATCTGCTTCACTGTCGATA-CAG
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTG-C-AAACCAG
* * *
52248232 GAAGGCAAGATCTGCTATCTTCAACGTGCTCCACTAC-AACCAAG
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAACC-AG
* * * ** * * * * * **
52248276 GGAGGCAAG-GCTAG-TATCTTCGATTTGGTTCACTATCGATGCAG
1 GAAGGCAAGATCT-GCTATCTTCAACCTGCTCCGCT-GCAAACCAG
* * *
52248320 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCATG
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAACCA-G
* * * * * *
52248365 G-AGGCAAG-GCTGGTATCTT-AGATCTGCTTCGCCGTCAGTA-CAG
1 GAAGGCAAGATCTGCTATCTTCA-ACCTGCTCCGCTG-CA-AACCAG
* *
52248408 GAAGGCAAGATCTGTTATTTTCAACCTGCTCCGCTGCAAACCAG
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAACCAG
52248452 GAAGGCAAG
1 GAAGGCAAG
52248461 GCTTTGTGAT
Statistics
Matches: 262, Mismatches: 79, Indels: 40
0.69 0.21 0.10
Matches are distributed among these distances:
42 2 0.01
43 76 0.29
44 106 0.40
45 77 0.29
46 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (44 bp):
GAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAACCAG
Found at i:52251213 original size:31 final size:31
Alignment explanation
Indices: 52251175--52251236 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
52251165 CATTGAACAA
52251175 GTTTTGATACAGCTCCTTATACGTCATCGGG
1 GTTTTGATACAGCTCCTTATACGTCATCGGG
* *
52251206 GTTTTGATACAGTTTCTTATACGTCATCGGG
1 GTTTTGATACAGCTCCTTATACGTCATCGGG
52251237 ATTGGTGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (31 bp):
GTTTTGATACAGCTCCTTATACGTCATCGGG
Found at i:52254207 original size:21 final size:19
Alignment explanation
Indices: 52254170--52254244 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
52254160 AATCATATCT
52254170 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
52254189 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
*
52254210 TCTAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
52254229 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
52254245 CTTGAAGGTT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 35 0.66
21 18 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:52255060 original size:37 final size:36
Alignment explanation
Indices: 52255001--52255071 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
52254991 TACATATTTT
* * *
52255001 ATATATATATATTATTTTATTTTCATAATGTATATGG
1 ATATATATATATCATTTCATTTT-ATAATGCATATGG
52255038 ATATATATATA-CATTTACATTTTATAATGCATAT
1 ATATATATATATCATTT-CATTTTATAATGCATAT
52255072 ACATTTCCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 14 0.47
37 16 0.53
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.51
Consensus pattern (36 bp):
ATATATATATATCATTTCATTTTATAATGCATATGG
Found at i:52255095 original size:24 final size:23
Alignment explanation
Indices: 52255038--52255099 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 23
52255028 ATGTATATGG
*
52255038 ATATATATATACATTTACATTTT
1 ATATATATATACATTTACATATT
*
52255061 ATA-ATGCATATACATTTCCTATATT
1 ATATAT--ATATACATTTAC-ATATT
52255086 ATATATATATACAT
1 ATATATATATACAT
52255100 ATATTTTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
22 2 0.06
23 3 0.09
24 19 0.58
25 7 0.21
26 2 0.06
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (23 bp):
ATATATATATACATTTACATATT
Found at i:52255191 original size:48 final size:49
Alignment explanation
Indices: 52255126--52255234 Score: 175
Period size: 50 Copynumber: 2.2 Consensus size: 49
52255116 TATATATTTA
* *
52255126 TATACATACATATTTTTAC-ATATATATACATACTCTATACAAAACTAT
1 TATAAATATATATTTTTACAATATATATACATACTCTATACAAAACTAT
*
52255174 TATAAATATATATTTTTACATATATATATACATACTCTATTCAAAACTAT
1 TATAAATATATATTTTTACA-ATATATATACATACTCTATACAAAACTAT
52255224 TATAAATATAT
1 TATAAATATAT
52255235 TTTCTGCATT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 17 0.30
50 39 0.70
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (49 bp):
TATAAATATATATTTTTACAATATATATACATACTCTATACAAAACTAT
Found at i:52256960 original size:16 final size:16
Alignment explanation
Indices: 52256939--52256973 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
52256929 TTGTGTTTTG
52256939 TTTTGAATGCATGACA
1 TTTTGAATGCATGACA
* *
52256955 TTTTGACTGCATGGCA
1 TTTTGAATGCATGACA
52256971 TTT
1 TTT
52256974 CATTATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (16 bp):
TTTTGAATGCATGACA
Found at i:52259434 original size:7 final size:7
Alignment explanation
Indices: 52259422--52259481 Score: 61
Period size: 7 Copynumber: 8.4 Consensus size: 7
52259412 TCAATCCAAA
*
52259422 AAAAAAC
1 AAAAAAG
52259429 AAAAAAG
1 AAAAAAG
52259436 AAAAAAG
1 AAAAAAG
52259443 AAAAGAA-
1 AAAA-AAG
*
52259450 AAGAAAG
1 AAAAAAG
52259457 AGAAAAAG
1 A-AAAAAG
52259465 -AAAAAG
1 AAAAAAG
52259471 AAAAATAG
1 AAAAA-AG
52259479 AAA
1 AAA
52259482 TAAAAAACAA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
6 8 0.18
7 25 0.56
8 12 0.27
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:52259439 original size:6 final size:6
Alignment explanation
Indices: 52259430--52259475 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
52259420 AAAAAAAACA
*
52259430 AAAAAG AAAAA- AGAAAAG -AAAAG AAAGAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG A-AAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
52259476 TAGAAATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 6 0.17
6 29 0.83
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:52259439 original size:12 final size:11
Alignment explanation
Indices: 52259419--52259475 Score: 62
Period size: 12 Copynumber: 5.1 Consensus size: 11
52259409 GATTCAATCC
*
52259419 AAAAAA-AAAC
1 AAAAAAGAAAA
52259429 AAAAAAGAAAA
1 AAAAAAGAAAA
52259440 AAGAAAAGAAAA
1 AA-AAAAGAAAA
* *
52259452 GAAAGAGAAAA
1 AAAAAAGAAAA
52259463 AGAAAAAGAAAA
1 A-AAAAAGAAAA
52259475 A
1 A
52259476 TAGAAATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
10 6 0.15
11 13 0.33
12 20 0.51
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:52260010 original size:15 final size:15
Alignment explanation
Indices: 52259985--52260021 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
52259975 AATATGACGA
*
52259985 AAAAAT-GAAAATG-
1 AAAAATGGAAAAAGT
52259998 AAAAATGGAAAAAGT
1 AAAAATGGAAAAAGT
52260013 AAAAATGGA
1 AAAAATGGA
52260022 GAGGCTAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.29
14 6 0.29
15 9 0.43
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.14
Consensus pattern (15 bp):
AAAAATGGAAAAAGT
Found at i:52261305 original size:44 final size:44
Alignment explanation
Indices: 52261255--52261481 Score: 138
Period size: 44 Copynumber: 5.2 Consensus size: 44
52261245 AAACTTTAGC
52261255 CTTGTCTCCCTGAGTAGTAGTGGAATAGGTTGAAAACAGCAGAT
1 CTTGTCTCCCTGAGTAGTAGTGGAATAGGTTGAAAACAGCAGAT
* * * * * * * *** *
52261299 CTTGTCTTCCTGTATTGGTAG-CGAAGTAGATCGAAGACCTTAG-C
1 CTTGTCTCCCTG-AGTAGTAGTGGAA-TAGGTTGAAAACAGCAGAT
* *
52261343 CTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAGTAGTAGTGGAATAGGTTGAAAACAGCAGAT
* * * * ** * * *** *
52261387 CTTGTCTTCCTGTATTGGCAG-CAAAGTAGATTGAAGACCTAAG-C
1 CTTGTCTCCCTG-AGTAGTAGTGGAA-TAGGTTGAAAACAGCAGAT
* * *
52261431 CTTGTCTCCCTGGGTAGTAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAGTAGTAGTGGAATAGGTTGAAAACAGCAGAT
52261475 CTTGTCT
1 CTTGTCT
52261482 TCCTAAATTC
Statistics
Matches: 122, Mismatches: 53, Indels: 16
0.64 0.28 0.08
Matches are distributed among these distances:
43 31 0.25
44 58 0.48
45 33 0.27
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (44 bp):
CTTGTCTCCCTGAGTAGTAGTGGAATAGGTTGAAAACAGCAGAT
Found at i:52261611 original size:44 final size:44
Alignment explanation
Indices: 52261563--52261794 Score: 132
Period size: 44 Copynumber: 5.3 Consensus size: 44
52261553 AATAGTAGAT
* *
52261563 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAAACCTCAGC
1 CTTGTCTCCCTGTATTGGCAGCGAAGTAGATCGAAAACCTCAGC
* * * *** *
52261607 CTTGTCTCCCTG-A---GCAGTAGTAGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGTATTGGCAG-CG-A-AGTAGATCGAAAACCTCAG-C
* * * *
52261651 CTTGTCTTCCTGTATTGGCAGCAAAGTAAATCGAATACCTCAGC
1 CTTGTCTCCCTGTATTGGCAGCGAAGTAGATCGAAAACCTCAGC
*** * * * * * *** *
52261695 CTTGTCTCCCTG-AGCAGTAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGTATTGGCAGCGAAGTAGATCGAAAACCTCAG-C
* * *
52261739 CTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGACCTCAGC
1 CTTGTCTCCCTGTATTGGCAGCGAAGTAGATCGAAAACCTCAGC
52261783 CTTGTCTCCCTG
1 CTTGTCTCCCTG
52261795 AGTAGCAGTG
Statistics
Matches: 126, Mismatches: 52, Indels: 20
0.64 0.26 0.10
Matches are distributed among these distances:
40 4 0.03
41 1 0.01
42 1 0.01
43 30 0.24
44 55 0.44
45 30 0.24
46 1 0.01
48 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (44 bp):
CTTGTCTCCCTGTATTGGCAGCGAAGTAGATCGAAAACCTCAGC
Found at i:52261858 original size:88 final size:88
Alignment explanation
Indices: 52261252--52261864 Score: 902
Period size: 88 Copynumber: 7.0 Consensus size: 88
52261242 GTGAAACTTT
* *
52261252 AGCCTTGTCTCCCTGAGTAGTAGTGGAATAGGTTGAAAACAGCAGATCTTGTCTTCCTGTATTGG
1 AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
* *
52261317 TAGCGAAGTAGATCGAAGACCTT
66 CAGCGAAGTAGATCGAAGACCTC
52261340 AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
1 AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
* * *
52261405 CAGCAAAGTAGATTGAAGACCTA
66 CAGCGAAGTAGATCGAAGACCTC
* ** *
52261428 AGCCTTGTCTCCCTGGGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTAAATTCG
1 AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
*
52261493 CAGCGAAGTAGATCGAAAACCTC
66 CAGCGAAGTAGATCGAAGACCTC
* * * * *
52261516 AGCCTTGTCTCCTTGAGCAATAGTAGAGTAGGTTGAAAATAGTAGATCTTGTCTTCCTGTATTGG
1 AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
* *
52261581 CAGCGAAGTAGATCAAAAACCTC
66 CAGCGAAGTAGATCGAAGACCTC
* *
52261604 AGCCTTGTCTCCCTGAGCAGTAGTAGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
1 AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
* * *
52261669 CAGCAAAGTAAATCGAATACCTC
66 CAGCGAAGTAGATCGAAGACCTC
*
52261692 AGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
1 AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
*
52261757 CAGCAAAGTAGATCGAAGACCTC
66 CAGCGAAGTAGATCGAAGACCTC
* * * ** * *
52261780 AGCCTTGTCTCCCTGAGTAGCAGTGCAGTAGGTTGAATATAGCAGATCTTACCTTCCTATACTGG
1 AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
* * *
52261845 CAGTGAAGCAGATCAAAGAC
66 CAGCGAAGTAGATCGAAGAC
52261865 ACCAGTTTTA
Statistics
Matches: 479, Mismatches: 46, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 479 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (88 bp):
AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
CAGCGAAGTAGATCGAAGACCTC
Found at i:52262449 original size:126 final size:125
Alignment explanation
Indices: 52262218--52262510 Score: 310
Period size: 126 Copynumber: 2.3 Consensus size: 125
52262208 AGATGGCGAA
* * *
52262218 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAGTCCTATCTCCCTGAGGTTGCA
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTAAAGCCAATAGTCCTATCTCCCTAAGGTTGCA
* **
52262283 GTGGAGCTGATTAAAATTAGATATTATCTCCTTACGGTTGCAGAGAGCAGATCACATCAAG
66 GTGGAGCTGATTAAAATCAGATATTATCT-CTTAAAGTTGCAGAGAGCAGATCACATCAAG
*
52262344 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGACCTAA-A-TCCTATCTCCCTAAGGTTG
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTAAAG-CC-AATAGTCCTATCTCCCTAAGGTTG
* ** * *
52262407 CAGTGGAG-TGGATTAAAACATCCAGAT-TTATCT-TTAAAGTTGCAATAGAATAAGTTGA-AGT
64 CAGTGGAGCT-GATT-AAA-AT-CAGATATTATCTCTTAAAGTTGC-AGAG-AGCAGATCACA--
52262468 CTCAAG
121 -TCAAG
* *
52262474 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTAAAG
52262511 ATAGCAAATT
Statistics
Matches: 141, Mismatches: 15, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
125 1 0.01
126 72 0.51
127 10 0.07
128 15 0.11
129 4 0.03
130 39 0.28
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (125 bp):
TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTAAAGCCAATAGTCCTATCTCCCTAAGGTTGCA
GTGGAGCTGATTAAAATCAGATATTATCTCTTAAAGTTGCAGAGAGCAGATCACATCAAG
Found at i:52262934 original size:21 final size:21
Alignment explanation
Indices: 52262896--52262935 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
52262886 CGCAGCAGTC
* *
52262896 CCCCGCACATCTCGCACGTTG
1 CCCCGCACATCGCACACGTTG
*
52262917 CCCCGCACGTCGCACACGT
1 CCCCGCACATCGCACACGT
52262936 CACCCAGCAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.50, G:0.20, T:0.15
Consensus pattern (21 bp):
CCCCGCACATCGCACACGTTG
Found at i:52263084 original size:18 final size:18
Alignment explanation
Indices: 52263052--52263091 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
52263042 TATTGTATTT
*
52263052 AAAAGAATAATGAAATAAA
1 AAAAGAATAAGGAAA-AAA
52263071 AAAAGAA-AAGGAAAAAA
1 AAAAGAATAAGGAAAAAA
52263088 AAAA
1 AAAA
52263092 CAAATTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 6 0.30
19 7 0.35
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (18 bp):
AAAAGAATAAGGAAAAAA
Found at i:52263784 original size:3 final size:3
Alignment explanation
Indices: 52263767--52263824 Score: 64
Period size: 3 Copynumber: 18.3 Consensus size: 3
52263757 ATTTCAATAG
*
52263767 TAT TA- TAT TATT TAT TATT TAT TATT TAT TATT TAT TAT TAT TGT TAT
1 TAT TAT TAT TA-T TAT TA-T TAT TA-T TAT TA-T TAT TAT TAT TAT TAT
52263815 TAT TAT TAT T
1 TAT TAT TAT T
52263825 TCTATATTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 2 0.04
3 34 0.71
4 12 0.25
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:52263784 original size:7 final size:7
Alignment explanation
Indices: 52263767--52263825 Score: 79
Period size: 7 Copynumber: 8.7 Consensus size: 7
52263757 ATTTCAATAG
52263767 TATTATAT
1 TATT-TAT
52263775 TATTTAT
1 TATTTAT
52263782 TATTTAT
1 TATTTAT
52263789 TATTTAT
1 TATTTAT
52263796 TATTTAT
1 TATTTAT
52263803 TA-TTAT
1 TATTTAT
*
52263809 T-GTTAT
1 TATTTAT
52263815 TA-TTAT
1 TATTTAT
52263821 TATTT
1 TATTT
52263826 CTATATTAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
6 16 0.33
7 28 0.58
8 4 0.08
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (7 bp):
TATTTAT
Found at i:52269304 original size:3 final size:3
Alignment explanation
Indices: 52269296--52269325 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
52269286 TGCGCTGTGA
52269296 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
52269326 TCTCTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:52269821 original size:9 final size:9
Alignment explanation
Indices: 52269807--52269866 Score: 75
Period size: 9 Copynumber: 6.2 Consensus size: 9
52269797 GACTAAAATT
52269807 TTCGGGTAA
1 TTCGGGTAA
52269816 TTCGGGTAA
1 TTCGGGTAA
*
52269825 TTCGAGTAA
1 TTCGGGTAA
52269834 TTAAGTCGGGTAA
1 -T---TCGGGTAA
52269847 TTCGGGTAA
1 TTCGGGTAA
52269856 TTCGGGTAA
1 TTCGGGTAA
52269865 TT
1 TT
52269867 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
9 36 0.80
10 1 0.02
12 1 0.02
13 7 0.16
ACGTcount: A:0.25, C:0.10, G:0.30, T:0.35
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:52269843 original size:31 final size:31
Alignment explanation
Indices: 52269808--52269866 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
52269798 ACTAAAATTT
52269808 TCGGGTAATTCGGGTAATTCGAGTAATTAAG
1 TCGGGTAATTCGGGTAATTCGAGTAATTAAG
*
52269839 TCGGGTAATTCGGGTAATTCGGGTAATT
1 TCGGGTAATTCGGGTAATTCGAGTAATT
52269867 TTTAACCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.10, G:0.31, T:0.34
Consensus pattern (31 bp):
TCGGGTAATTCGGGTAATTCGAGTAATTAAG
Found at i:52269987 original size:28 final size:28
Alignment explanation
Indices: 52269929--52269987 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
52269919 TTATTAACCG
* * *** *
52269929 AAAAAATTTCGGTTCGGTTAATTTTTTA
1 AAAAAAATTAGGTTCGGTTAACGGTTAA
52269957 AAAAAAATTAGGTTCGGTTAACGGTTAA
1 AAAAAAATTAGGTTCGGTTAACGGTTAA
52269985 AAA
1 AAA
52269988 TTTTGAGAGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.36
Consensus pattern (28 bp):
AAAAAAATTAGGTTCGGTTAACGGTTAA
Found at i:52273126 original size:28 final size:28
Alignment explanation
Indices: 52273062--52273147 Score: 102
Period size: 28 Copynumber: 3.0 Consensus size: 28
52273052 TTGGAGCGTT
* * *
52273062 TTTCTTCAAAATTATTTCTTCAGAACCTA
1 TTTCGTCAAAATTATTT-TTTAGAACCCA
52273091 TCTT-GTCAAAATTATTTTTTAGAACCCA
1 T-TTCGTCAAAATTATTTTTTAGAACCCA
52273119 TTTCGTCAAAATTATTTTTTTCAGAACCC
1 TTTCGTCAAAATTA-TTTTTT-AGAACCC
52273148 CTAAACCCTA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
27 2 0.04
28 20 0.40
29 19 0.38
30 9 0.18
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (28 bp):
TTTCGTCAAAATTATTTTTTAGAACCCA
Found at i:52273262 original size:22 final size:20
Alignment explanation
Indices: 52273237--52273303 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 20
52273227 AACTTACAAA
52273237 TTAAGAAACCTTAAACCCTAAT
1 TTAA-AAACC-TAAACCCTAAT
* *
52273259 TTAAAATTCCCACAACCCTAAT
1 TTAAAA-ACCTA-AACCCTAAT
*
52273281 TTAATAAACCCTAAGCCCTAAT
1 TTAA-AAA-CCTAAACCCTAAT
52273303 T
1 T
52273304 AGCAATTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 3 0.08
22 28 0.78
23 5 0.14
ACGTcount: A:0.42, C:0.27, G:0.03, T:0.28
Consensus pattern (20 bp):
TTAAAAACCTAAACCCTAAT
Found at i:52274041 original size:9 final size:9
Alignment explanation
Indices: 52274027--52274057 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
52274017 CCGCTTTAGC
52274027 TTTTCTTTT
1 TTTTCTTTT
52274036 TTTTCTTTT
1 TTTTCTTTT
*
52274045 GTTTCTTTT
1 TTTTCTTTT
52274054 TTTT
1 TTTT
52274058 TCCTTTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (9 bp):
TTTTCTTTT
Done.