Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 113 of 141
Found at i:36286551 original size:90 final size:90
Alignment explanation
Indices: 36286398--36286960 Score: 393
Period size: 90 Copynumber: 6.4 Consensus size: 90
36286388 GCATATGTTT
* * * * ** * *
36286398 TATACATTACCGAATTGATTCATATTTGGATATACATTGTTGAATTGATTCGTATTTGGATATAC
1 TATACATTGCTGAATTGATTCGTATATGGATATACATTGCCGAATTGATTTGTATATGGATATAC
36286463 ATTGCCGAATTGATTCGTATTTGGA
66 ATTGCCGAATTGATTCGTATTTGGA
* * *
36286488 TATACATTGTTGAATTGATTCGTATTTGGATATACATTGCCGAATTGATTTGTATATAGATATAC
1 TATACATTGCTGAATTGATTCGTATATGGATATACATTGCCGAATTGATTTGTATATGGATATAC
*
36286553 ATTGCCGAATTGATTCGTATTTGTA
66 ATTGCCGAATTGATTCGTATTTGGA
* * * * * *
36286578 TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTGATTCGTATTTGTATATAC
1 TATACATTGCTGAATTGATTCGTATATGGATATACATTGCCGAATTGATTTGTATATGGATATAC
********************
36286643 ATTGCNNNNNNNNNNNNNNNNNNNNN
66 ATTGC-CGAATTGATTCGTATTTGGA
******** *
36286669 NNNNNNNNG-T--A-T--TT-G-----GGATATACA-TGCCGAATTGATTTGTATATAGATATAC
1 TATACATTGCTGAATTGATTCGTATATGGATATACATTGCCGAATTGATTTGTATATGGATATAC
* * *
36286721 ATTGCCGAATTTATTTGTATTTAGA
66 ATTGCCGAATTGATTCGTATTTGGA
* * * * *
36286746 TATACATTG-TCAAATTGATTCGTATATGGATGTACATTGCCGAACTAATTTGTATATGGAAATA
1 TATACATTGCT-GAATTGATTCGTATATGGATATACATTGCCGAATTGATTTGTATATGGATATA
* *
36286810 CATTACCGAATTGATTCGTATATGGA
65 CATTGCCGAATTGATTCGTATTTGGA
* * * * *
36286836 TATACATTACTAAATTGATTTGTATATAGATATACATTGTCGAATTGATTTGTATATGGATATAC
1 TATACATTGCTGAATTGATTCGTATATGGATATACATTGCCGAATTGATTTGTATATGGATATAC
* *
36286901 ATTGCCGAATTTATTTGTATTTGGA
66 ATTGCCGAATTGATTCGTATTTGGA
** *
36286926 TATACATTGCCAAATTGATTTGTATAT-G-TATACAT
1 TATACATTGCTGAATTGATTCGTATATGGATATACAT
36286961 ATATATTGCC
Statistics
Matches: 353, Mismatches: 105, Indels: 32
0.72 0.21 0.07
Matches are distributed among these distances:
77 2 0.01
78 29 0.08
79 8 0.02
80 1 0.00
81 1 0.00
83 2 0.01
84 2 0.01
85 2 0.01
87 1 0.00
88 8 0.02
89 9 0.03
90 286 0.81
91 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.40
Consensus pattern (90 bp):
TATACATTGCTGAATTGATTCGTATATGGATATACATTGCCGAATTGATTTGTATATGGATATAC
ATTGCCGAATTGATTCGTATTTGGA
Found at i:36286729 original size:30 final size:30
Alignment explanation
Indices: 36286684--36286960 Score: 344
Period size: 30 Copynumber: 9.3 Consensus size: 30
36286674 NNNGTATTTG
36286684 GGATATACA-TGCCGAATTGATTTGTATAT
1 GGATATACATTGCCGAATTGATTTGTATAT
* * *
36286713 AGATATACATTGCCGAATTTATTTGTATTT
1 GGATATACATTGCCGAATTGATTTGTATAT
* * * *
36286743 AGATATACATTGTCAAATTGATTCGTATAT
1 GGATATACATTGCCGAATTGATTTGTATAT
* * *
36286773 GGATGTACATTGCCGAACTAATTTGTATAT
1 GGATATACATTGCCGAATTGATTTGTATAT
* * *
36286803 GGAAATACATTACCGAATTGATTCGTATAT
1 GGATATACATTGCCGAATTGATTTGTATAT
* **
36286833 GGATATACATTACTAAATTGATTTGTATAT
1 GGATATACATTGCCGAATTGATTTGTATAT
* *
36286863 AGATATACATTGTCGAATTGATTTGTATAT
1 GGATATACATTGCCGAATTGATTTGTATAT
* *
36286893 GGATATACATTGCCGAATTTATTTGTATTT
1 GGATATACATTGCCGAATTGATTTGTATAT
*
36286923 GGATATACATTGCCAAATTGATTTGTATAT
1 GGATATACATTGCCGAATTGATTTGTATAT
36286953 -G-TATACAT
1 GGATATACAT
36286961 ATATATTGCC
Statistics
Matches: 210, Mismatches: 37, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
28 7 0.03
29 9 0.04
30 194 0.92
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (30 bp):
GGATATACATTGCCGAATTGATTTGTATAT
Found at i:36295516 original size:98 final size:99
Alignment explanation
Indices: 36295337--36295533 Score: 369
Period size: 98 Copynumber: 2.0 Consensus size: 99
36295327 GCATGTTTAA
* *
36295337 AAGAACAATGGACTGGTCTCAAAACCTATTTTGATGGATCATTTGCTTTGTATGGTGGCATGACT
1 AAGAACAATGGACTGGTCTCAAAACCTATTTTGATGGATCATTTGCTTTGTATGCTGGCATAACT
36295402 TCGAGATAAGTTATTCACTGGAGGTGTCAATTAT
66 TCGAGATAAGTTATTCACTGGAGGTGTCAATTAT
36295436 AAGAACAAT-GACTGGTCTCAAAACCTATTTTGATGGATCATTTGCTTTGTATGCTGGCATAACT
1 AAGAACAATGGACTGGTCTCAAAACCTATTTTGATGGATCATTTGCTTTGTATGCTGGCATAACT
36295500 TCGAGATAAGTTATTCACTGGAGGTGTCAATTAT
66 TCGAGATAAGTTATTCACTGGAGGTGTCAATTAT
36295534 TTTACTTGTT
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
98 87 0.91
99 9 0.09
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.35
Consensus pattern (99 bp):
AAGAACAATGGACTGGTCTCAAAACCTATTTTGATGGATCATTTGCTTTGTATGCTGGCATAACT
TCGAGATAAGTTATTCACTGGAGGTGTCAATTAT
Found at i:36296050 original size:68 final size:68
Alignment explanation
Indices: 36295941--36296077 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
36295931 TTATGTATGC
*
36295941 TTTTGTAGCTACCTAATTATGATTTCGAGAATTTCCCTTTAGAACTAGCAATATTAGAGATGAAA
1 TTTTGTAGCTACCTAATTATGATCTCGAGAATTTCCCTTTAGAACTAGCAATATTAGAGATGAAA
36296006 TGA
66 TGA
* *
36296009 TTTTGTAGCTATCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGATGAAA
1 TTTTGTAGCTACCTAATTATGATCTCGAGAATTTCCCTTTAGAACTAGCAATATTAGAGATGAAA
36296074 TGA
66 TGA
36296077 T
1 T
36296078 ACATCATATT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (68 bp):
TTTTGTAGCTACCTAATTATGATCTCGAGAATTTCCCTTTAGAACTAGCAATATTAGAGATGAAA
TGA
Found at i:36297829 original size:44 final size:46
Alignment explanation
Indices: 36297762--36297854 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 46
36297752 TTACAACTCT
*
36297762 ATTCCATTCAACCAAACACAAGAA-TAC-CATCACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACTCATCACGCCTCTATTCC
* *
36297806 ATTCCATTCAACCAAACAAAAGAATTACTTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACTCATCACGCCTCTATTCC
36297852 ATT
1 ATT
36297855 ACGCATCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.28
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACTCATCACGCCTCTATTCC
Found at i:36297857 original size:16 final size:16
Alignment explanation
Indices: 36297836--36297888 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
36297826 AGAATTACTT
36297836 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
36297852 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
*
36297868 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
36297884 ATTAC
1 ATTAC
36297889 AGCGAACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.34, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:36298817 original size:17 final size:17
Alignment explanation
Indices: 36298797--36298849 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
36298787 CTAAAACCAC
36298797 ATTTAGTTTTCATATCA
1 ATTTAGTTTTCATATCA
** **
36298814 ATTTTTTTTTTTTA-C-
1 ATTTAGTTTTCATATCA
36298829 ATTTAGTTTTCATATCA
1 ATTTAGTTTTCATATCA
36298846 ATTT
1 ATTT
36298850 TTTTTATTTA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
15 10 0.38
16 2 0.08
17 14 0.54
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (17 bp):
ATTTAGTTTTCATATCA
Found at i:36298832 original size:32 final size:32
Alignment explanation
Indices: 36298795--36298859 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
36298785 AACTAAAACC
*
36298795 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTATTT
36298827 ACATTTAGTTTTCATATCAATTTTTTTTATTT
1 ACATTTAGTTTTCATATCAATTTTTTTTATTT
36298859 A
1 A
36298860 TAAATTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.03, T:0.63
Consensus pattern (32 bp):
ACATTTAGTTTTCATATCAATTTTTTTTATTT
Found at i:36305357 original size:30 final size:31
Alignment explanation
Indices: 36305321--36305381 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
36305311 AAACCTTTTA
*
36305321 TTTTCCCCCAAAAGTTTTACTCCC-TCCCAT
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAT
* *
36305351 TTTTCCCCTAAAACTTTTATTCCCTTCCCAT
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAT
36305382 ACCACCTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.20, C:0.38, G:0.02, T:0.41
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAT
Found at i:36305527 original size:20 final size:20
Alignment explanation
Indices: 36305491--36305530 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
36305481 TTATTTTCCA
*
36305491 AAACTTTTTATTTTCACCCT
1 AAACTTTTTATTCTCACCCT
36305511 AAAC-TTTTACTTCTCACCCT
1 AAACTTTTTA-TTCTCACCCT
36305531 TTAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (20 bp):
AAACTTTTTATTCTCACCCT
Found at i:36307059 original size:18 final size:18
Alignment explanation
Indices: 36307023--36307057 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36307013 AAATAAAGAG
*
36307023 TTAAATAAATAGTTAAAA
1 TTAAATAAATAGTAAAAA
36307041 TTAAATAAA-AGTAAAAA
1 TTAAATAAATAGTAAAAA
36307058 ATGAAATTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
TTAAATAAATAGTAAAAA
Found at i:36307092 original size:16 final size:16
Alignment explanation
Indices: 36307071--36307101 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36307061 AAATTGGATA
*
36307071 TATGTATATGTATATG
1 TATGTATATATATATG
36307087 TATGTATATATATAT
1 TATGTATATATATAT
36307102 TGCCAGGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (16 bp):
TATGTATATATATATG
Found at i:36314609 original size:15 final size:16
Alignment explanation
Indices: 36314589--36314621 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
36314579 GTAAATAATA
36314589 AAATTTAATTC-ATTC
1 AAATTTAATTCTATTC
36314604 AAATTTAATTCTATTC
1 AAATTTAATTCTATTC
36314620 AA
1 AA
36314622 TTAAATCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTTAATTCTATTC
Found at i:36322502 original size:22 final size:23
Alignment explanation
Indices: 36322475--36322522 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
36322465 TGGTTTAAGG
36322475 TTTTAGG-GTTTAAGATTAGGGT
1 TTTTAGGTGTTTAAGATTAGGGT
* *
36322497 TTTTAGGTTTTTAAGTTTAGGGT
1 TTTTAGGTGTTTAAGATTAGGGT
36322520 TTT
1 TTT
36322523 AAAGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.54
Consensus pattern (23 bp):
TTTTAGGTGTTTAAGATTAGGGT
Found at i:36322516 original size:23 final size:22
Alignment explanation
Indices: 36322467--36322522 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
36322457 GTTTTTTGTG
*
36322467 GTTTAAGG-TTTTAGGGTTTAA
1 GTTTAGGGTTTTTAGGGTTTAA
* *
36322488 GATTAGGGTTTTTAGGTTTTTAA
1 GTTTAGGGTTTTTAGG-GTTTAA
36322511 GTTTAGGGTTTT
1 GTTTAGGGTTTT
36322523 AAAGAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 6 0.21
22 7 0.24
23 16 0.55
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.52
Consensus pattern (22 bp):
GTTTAGGGTTTTTAGGGTTTAA
Found at i:36322767 original size:94 final size:92
Alignment explanation
Indices: 36322618--36322842 Score: 242
Period size: 94 Copynumber: 2.4 Consensus size: 92
36322608 TCGTATTTAT
* **
36322618 GGTTTTTAAAGAAAAAAATCAATTAAATTAGGGTTTAGGATTGAGTAAATTAATTAA-AAT-TTT
1 GGTTTTT-AAG-AAAAAATCAAATAAATTAGGGTTTAGGATTGAGT-AA-TAATTAATAATAAAT
*
36322681 TTAAAAAAAATTAGATTAGGGTTTAGTGTTAAG
62 TT-AAAAAAA-TAGATTAAGGTTTAGTGTTAAG
*
36322714 GGTTTTTAAGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTGAGT-A-AATTAATTATAAAT
1 GGTTTTTAAGAAAAAATCAAATAAATTAGGGTTT-AGG--A-TTGAGTAATAATTAATAATAAAT
*
36322777 TTAAAAAAATAGATTAAGGTTTAGTGTTTAG
62 TTAAAAAAATAGATTAAGGTTTAGTGTTAAG
* * *
36322808 GGTTTTGAAGGAAAAACTCAAATAAATTAAGGTTT
1 GGTTTTTAA-GAAAAAATCAAATAAATTAGGGTTT
36322843 GGGGGTTTAG
Statistics
Matches: 113, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
94 57 0.50
95 38 0.34
96 11 0.10
97 1 0.01
98 6 0.05
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (92 bp):
GGTTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGATTGAGTAATAATTAATAATAAATTTAA
AAAAATAGATTAAGGTTTAGTGTTAAG
Found at i:36322867 original size:95 final size:94
Alignment explanation
Indices: 36322571--36322842 Score: 268
Period size: 95 Copynumber: 2.9 Consensus size: 94
36322561 CTTTCTTAAT
*** * * * * * *
36322571 TAAATTAATTATAAATTTTTCAAAATTGGATTAA-GTTTCGTATTTATGGTTTTTAAAGAAAAAA
1 TAAATTAATTATAAATTTAAAAAAATTAGATTAAGGTTTAGT-GTTAAGGGTTTTGAAG-AAAAA
* * *
36322635 ATCAATTAAATTAGGGTTT-AGG--ATTGAG
64 ATCAAATAAATTAAGGTTTAAGGTTATAGAG
* *
36322663 TAAATTAATTA-AAATTTTTTAAAAAAAATTAGATTAGGGTTTAGTGTTAAGGGTTTTTAAGAAA
1 TAAATTAATTATAAA---TTT-AAAAAAATTAGATTAAGGTTTAGTGTTAAGGGTTTTGAAGAAA
* *
36322727 AAATCAAATAAATTAGGGTTTAAGGTTACTTGAG
62 AAATCAAATAAATTAAGGTTTAAGGTTA-TAGAG
* *
36322761 TAAATTAATTATAAATTTAAAAAAA-TAGATTAAGGTTTAGTGTTTAGGGTTTTGAAGGAAAAAC
1 TAAATTAATTATAAATTTAAAAAAATTAGATTAAGGTTTAGTGTTAAGGGTTTTGAA-GAAAAAA
36322825 TCAAATAAATTAAGGTTT
65 TCAAATAAATTAAGGTTT
36322843 GGGGGTTTAG
Statistics
Matches: 153, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
91 3 0.02
92 11 0.07
94 54 0.35
95 56 0.37
96 9 0.06
97 1 0.01
98 16 0.10
99 3 0.02
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.39
Consensus pattern (94 bp):
TAAATTAATTATAAATTTAAAAAAATTAGATTAAGGTTTAGTGTTAAGGGTTTTGAAGAAAAAAT
CAAATAAATTAAGGTTTAAGGTTATAGAG
Found at i:36323244 original size:126 final size:125
Alignment explanation
Indices: 36322878--36323298 Score: 653
Period size: 126 Copynumber: 3.4 Consensus size: 125
36322868 TTGTTAATTT
* * * * *
36322878 AAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGGTCCTAAAAAAATAATTTCGAGAAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAA-AATTTTGAGTAGAC
*
36322943 ATTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
65 ATTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
* * * * * *
36323004 AAAGAAGCTTCCACATGGATGCGCTTTTGCTACGGTAGCTCCTGAAAAATAATTTTGAGTAGACG
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAAAATTTTGAGTAGACA
* * *
36323069 TTTCTAAGCAAATAATGTCAAAAACACTTTAAGCAGAATGCTTTGTCAGCAAAAGTACTG
66 TTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
* **
36323129 AAAGAAGCTCCCACGTGGATGCGCTTTTGCTATTGTAGCTCCTGAACAAAAAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAA-AAAAAATTTTGAGTAGAC
*
36323194 ATTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTATTG
65 ATTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
36323255 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG
36323299 TTTGGCCTGA
Statistics
Matches: 266, Mismatches: 28, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
125 110 0.41
126 156 0.59
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (125 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAAAATTTTGAGTAGACA
TTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
Found at i:36328851 original size:11 final size:11
Alignment explanation
Indices: 36328835--36328881 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
36328825 GCTTCTTTTA
36328835 AGAGGAATTTG
1 AGAGGAATTTG
36328846 AGAGGAATTTG
1 AGAGGAATTTG
36328857 AGA-GAATATT-
1 AGAGGAAT-TTG
*
36328867 AGAGAGAAATTG
1 AGAG-GAATTTG
36328879 AGA
1 AGA
36328882 AAAAGGATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.23
11 18 0.58
12 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.23
Consensus pattern (11 bp):
AGAGGAATTTG
Found at i:36333861 original size:33 final size:33
Alignment explanation
Indices: 36333824--36333907 Score: 150
Period size: 33 Copynumber: 2.5 Consensus size: 33
36333814 TCAATTGTAT
36333824 AGACATCTTGTAATTACCCTCACACTCAGACTG
1 AGACATCTTGTAATTACCCTCACACTCAGACTG
*
36333857 AGACATCTTGTAATTGCCCTCACACTCAGACTG
1 AGACATCTTGTAATTACCCTCACACTCAGACTG
*
36333890 ATACATCTTGTAATTACC
1 AGACATCTTGTAATTACC
36333908 TAATTCTCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.30
Consensus pattern (33 bp):
AGACATCTTGTAATTACCCTCACACTCAGACTG
Found at i:36334289 original size:117 final size:118
Alignment explanation
Indices: 36334148--36334382 Score: 420
Period size: 117 Copynumber: 2.0 Consensus size: 118
36334138 ATATAGGGAA
36334148 AGAAAATGAATAAAAATAAAATAAAAACAAAATGGACTTGAAACAAGGAAAACATGGGATATTTT
1 AGAAAATGAATAAAAATAAAATAAAAACAAAATGGACTTGAAACAAGGAAAACATGGGATATTTT
36334213 GGAAAAAGAAATTTAATTAATTTATTAACAAACAATTTATCTTCAAAAAGAAAT
66 GGAAAAAGAAATTTAATTAATTTATTAACAAACAATTTATCTTC-AAAAGAAAT
36334267 AGAAAATG-A-AAAAATAAAATAAAAACAAAATGGACTTGAAACAAGGAAAACATGGGATATTTT
1 AGAAAATGAATAAAAATAAAATAAAAACAAAATGGACTTGAAACAAGGAAAACATGGGATATTTT
* * *
36334330 GGAAAAAGAAATTTAATTATTTTATTAAGAATCAATTTATCTTCAAAAGAAAT
66 GGAAAAAGAAATTTAATTAATTTATTAACAAACAATTTATCTTCAAAAGAAAT
36334383 CAAATCCTAT
Statistics
Matches: 113, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
116 9 0.08
117 95 0.84
118 1 0.01
119 8 0.07
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.26
Consensus pattern (118 bp):
AGAAAATGAATAAAAATAAAATAAAAACAAAATGGACTTGAAACAAGGAAAACATGGGATATTTT
GGAAAAAGAAATTTAATTAATTTATTAACAAACAATTTATCTTCAAAAGAAAT
Found at i:36336710 original size:5 final size:6
Alignment explanation
Indices: 36336695--36336762 Score: 66
Period size: 6 Copynumber: 10.8 Consensus size: 6
36336685 GCTTTAAAAT
** *
36336695 TTTTTA TTTTTA TTTTCCC TTTTATT TTTCTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTT-TA TTTT-TA TTT-TTA TTTTTA TTTTTA TTTTTA
36336746 -TTTTA TTTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTT
36336763 TCTTTCCTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
5 5 0.10
6 30 0.58
7 16 0.31
8 1 0.02
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:36336744 original size:27 final size:26
Alignment explanation
Indices: 36336694--36336761 Score: 77
Period size: 27 Copynumber: 2.7 Consensus size: 26
36336684 TGCTTTAAAA
*
36336694 TTTTTTATTTTTATTTTCCCTTTTAT
1 TTTTTTATTTTTATTTTCACTTTTAT
* *
36336720 TTTTCTTATTTTTATTTTTATTTTTA-
1 TTTT-TTATTTTTATTTTCACTTTTAT
*
36336746 TTTTAT-TTTTTATTTT
1 TTTTTTATTTTTATTTT
36336762 TTCTTTCCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 10 0.27
25 1 0.03
26 8 0.22
27 18 0.49
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (26 bp):
TTTTTTATTTTTATTTTCACTTTTAT
Found at i:36336777 original size:12 final size:13
Alignment explanation
Indices: 36336762--36336840 Score: 69
Period size: 12 Copynumber: 6.2 Consensus size: 13
36336752 TTTTTATTTT
36336762 TTCTTTCCT-TTC
1 TTCTTTCCTCTTC
*
36336774 TTC-TTCTTCTTC
1 TTCTTTCCTCTTC
*
36336786 TTCTTCTTCTTCTTC
1 TTC-T-TTCCTCTTC
36336801 TTCTTT-CTCTTC
1 TTCTTTCCTCTTC
*
36336813 TT-TTTCTTCTTC
1 TTCTTTCCTCTTC
36336825 TT-TTTCCTTCTTC
1 TTCTTTCC-TCTTC
36336838 TTC
1 TTC
36336841 CTCAAAACCC
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
11 7 0.12
12 27 0.48
13 9 0.16
14 1 0.02
15 12 0.21
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (13 bp):
TTCTTTCCTCTTC
Found at i:36336779 original size:3 final size:3
Alignment explanation
Indices: 36336771--36336840 Score: 97
Period size: 3 Copynumber: 23.0 Consensus size: 3
36336761 TTTCTTTCCT
*
36336771 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TCTC TTC TTT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC TTC TTC
*
36336816 TTC TTC TTC TTT TTCC TTC TTC TTC
1 TTC TTC TTC TTC TT-C TTC TTC TTC
36336841 CTCAAAACCC
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
2 1 0.02
3 56 0.93
4 3 0.05
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:36336971 original size:19 final size:19
Alignment explanation
Indices: 36336941--36336980 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
36336931 CCCCCTCTTC
36336941 TTCCTTCTCTTTTCTC-CT
1 TTCCTTCTCTTTTCTCTCT
36336959 TTCCTTCCTCTTTTCTCTCT
1 TTCCTT-CTCTTTTCTCTCT
36336979 TT
1 TT
36336981 TTTTTGAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
19 10 0.50
20 4 0.20
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (19 bp):
TTCCTTCTCTTTTCTCTCT
Found at i:36337259 original size:30 final size:28
Alignment explanation
Indices: 36337223--36337313 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 28
36337213 ATAATTTCCA
36337223 AAAAGTTTAGGGGTTAAAATGTAATCTCTT
1 AAAAGTTTAGGGGTTAAAATGTAAT-T-TT
**
36337253 AAAAGTTTAAAGGTTAAAATGTAATTTT
1 AAAAGTTTAGGGGTTAAAATGTAATTTT
* *
36337281 AGAAAGTTAAGGGGTCAAAATGTAATTTT
1 A-AAAGTTTAGGGGTTAAAATGTAATTTT
36337310 AAAA
1 AAAA
36337314 AATGAAATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
28 6 0.11
29 25 0.46
30 23 0.43
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (28 bp):
AAAAGTTTAGGGGTTAAAATGTAATTTT
Found at i:36337728 original size:76 final size:75
Alignment explanation
Indices: 36337480--36338658 Score: 968
Period size: 76 Copynumber: 15.5 Consensus size: 75
36337470 ACGACCTGAA
* * * * * * *
36337480 GCTCAACTCACGTCTCGAATTATGAGTTAATCTTTGAAAAACAGAAATTGAAAACACCTCAGCGT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAATCAGAAATTAAAAATACCTCAGCGT
* *
36337545 GCGACCCGAG
66 GTGACTCGAG
* * *
36337555 GCTCAACTCACCTCTAGCATTATGAGTTGATTTTTGAAAGAACATAAATTGAAAAATACCTC-GA
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAA-ATCAGAAATT-AAAAATACCTCAG-
*
36337619 CGTGTGACCCGAG
63 CGTGTGACTCGAG
* * *
36337632 GCTCAACTCACCTTTCGCATTATGAGTTGATTTTTTGAAAATCATAAATTCAAAATACCTCAGCG
1 GCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAATCAGAAATTAAAAATACCTCAGCG
*
36337697 TGTGACCCGAG
65 TGTGACTCGAG
* * * * * * * *
36337708 ACTCAACTCATCGT-TTGCATTATGAGTTAATTTTTAAAAAAT-AGAAATTTTAAAATACCACGG
1 GCTCAACTCA-CCTCTCGCATTATGAGTTGATTTTT-GAAAATCAGAAA-TTAAAAATACCTCAG
* *
36337771 CATGTG-TTCGAG
63 CGTGTGACTCGAG
* * * *
36337783 GCTTAACTCACCTCTC-AATTTATGAGTTGATTTTCGAAAAAACAGAAATTGAAAAATACCTC-G
1 GCTCAACTCACCTCTCGCA-TTATGAGTTGATTTTTG-AAAATCAGAAATT-AAAAATACCTCAG
* *
36337846 CCGTGTG-CCCAAG
63 -CGTGTGACTCGAG
* **
36337859 GCTCAACTCACCTCTCACATTATGAGTTGATTTTTGAAAAAAT-AGAAATTAAAAATACCTTGGC
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG--AAAATCAGAAATTAAAAATACCTCAGC
* *
36337923 GTGTGACACAAG
64 GTGTGACTCGAG
* * * * *
36337935 GCTTAACTCACCTCTCGCATAATGAGTTGATTTTTTGAAAATCATATATTGAAAAA-ACCTTAGC
1 GCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAATCAGAAATT-AAAAATACCTCAGC
* *
36337999 ATGCGACTCGAG
64 GTGTGACTCGAG
* * *
36338011 GCTCAACTCACCTATCGCATTATGTGTTAATTTTTGAAAA-CTAGAAATTTAAAAAATACCTC-G
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAATC-AGAAA-TT-AAAAATACCTCAG
* * * *
36338074 TCATGTG-TTCTAT
63 -CGTGTGACTCGAG
* **
36338087 GCTCAACTCACCTCTTGCATTATGAGTTGATTTTTGAAAAAAT-AGAAATTAAAAATACCTTGGC
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG--AAAATCAGAAATTAAAAATACCTCAGC
* *
36338151 GTGTGACACAAG
64 GTGTGACTCGAG
* * * * *
36338163 GCTTAACTCACCTCTCGCATAATGAGTTGATTTTTTGAAAATCATATATTGAAAAA-ACCTTAGC
1 GCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAATCAGAAATT-AAAAATACCTCAGC
* *
36338227 ATGCGACTCGAG
64 GTGTGACTCGAG
* * *
36338239 GCTCAACTCACCTATCGCATTATGTGTTAATTTTTGAAAA-CTAGAAATTTAAAAAATACCTC-G
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAATC-AGAAA-TT-AAAAATACCTCAG
* * * *
36338302 TCATGTG-TTCTAT
63 -CGTGTGACTCGAG
* **
36338315 GCTCAACTCACCTCTTGCATTATGAGTTGATTTTTGAAAAAAT-AGAAATTAAAAATACCTTGGC
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG--AAAATCAGAAATTAAAAATACCTCAGC
* *
36338379 GTGTGACACAAG
64 GTGTGACTCGAG
* * * * *
36338391 GCTTAACTCACCTCTCGCATAATGAGTTGATTTTTTGAAAATCATATATTGAAAAA-ACCTTAGC
1 GCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAATCAGAAATT-AAAAATACCTCAGC
* *
36338455 ATGCGACTCGAG
64 GTGTGACTCGAG
* * *
36338467 GCTCAACTCACCTATCGCATTATGTGTTAATTTTTGAAAA-CTAGAAATTTAAAAAATACCTC-G
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAATC-AGAAA-TT-AAAAATACCTCAG
* * * *
36338530 TCATGTG-TTCTAT
63 -CGTGTGACTCGAG
*
36338543 GCTCAACTCACCTCTTGCATTATGAGTTGATTTTTGAAAAAAT-AGAAATTGAAAAATACCTC-G
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG--AAAATCAGAAATT-AAAAATACCTCAG
** * *
36338606 TTATGTG-TTCGAA
63 -CGTGTGACTCGAG
*
36338619 GCCCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAA
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAA
36338659 AGGTGAGTCA
Statistics
Matches: 907, Mismatches: 145, Indels: 105
0.78 0.13 0.09
Matches are distributed among these distances:
74 10 0.01
75 177 0.20
76 557 0.61
77 142 0.16
78 21 0.02
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (75 bp):
GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAATCAGAAATTAAAAATACCTCAGCGT
GTGACTCGAG
Found at i:36338638 original size:228 final size:228
Alignment explanation
Indices: 36337484--36338603 Score: 1490
Period size: 228 Copynumber: 4.9 Consensus size: 228
36337474 CCTGAAGCTC
* * * * * * * * * * *
36337484 AACTCACGTCTCGAATTATGAGTT-AATCTTTGAAAAACAGAAATTGAAAACACCTCAGCGTGCG
1 AACTCACCTCTCGCATAATGAGTTGATTTTTTGAAAATCATATATTGAAAAAACCTTAGCATGCG
* * * * * * *
36337548 ACCCGAGGCTCAACTCACCTCTAGCATTATGAGTTGATTTTTGAAAGAAC-ATAAA-TTGAAAAA
66 ACTCGAGGCTCAACTCACCTATCGCATTATGTGTTAATTTTTG-AA-AACTAGAAATTTAAAAAA
* * ** * *
36337611 TACCTCGACGTGTGACCCGAGGCTCAACTCACCT-TTCGCATTATGAGTTGATTTTTTG--AAAA
129 TACCTCGTCATGTG-TTCTATGCTCAACTCACCTCTT-GCATTATGAGTTGA-TTTTTGAAAAAA
* * ** * * * *
36337673 TCATAAATTCAAAATACCTCAGCGTGTGACCCGAGACTC
191 T-AGAAATTAAAAATACCTTGGCGTGTGACACAAGGCTT
* * * * ** * * * * ***
36337712 AACTCATCGT-TTGCATTATGAGTTAATTTTTAAAAAAT-AGAAATTTTAAAATACCACGGCATG
1 AACTCA-CCTCTCGCATAATGAGTTGATTTTTTGAAAATCATATA-TTGAAAAAACCTTAGCATG
* * * * * * * * *
36337775 TG-TTCGAGGCTTAACTCACCTCTC-AATTTATGAGTTGATTTTCGAAAAAAC-AGAAA-TTGAA
64 CGACTCGAGGCTCAACTCACCTATCGCA-TTATGTGTTAATTTTTG--AAAACTAGAAATTTAAA
* * ** * * **
36337836 AAATACCTCGCCGTGTGCCCAAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTGAAAAAA
126 AAATACCTCGTCATGTGTTCTATGCTCAACTCACCTCTTGCATTATGAGTTGATTTTTGAAAAAA
36337901 TAGAAATTAAAAATACCTTGGCGTGTGACACAAGGCTT
191 TAGAAATTAAAAATACCTTGGCGTGTGACACAAGGCTT
36337939 AACTCACCTCTCGCATAATGAGTTGATTTTTTGAAAATCATATATTGAAAAAACCTTAGCATGCG
1 AACTCACCTCTCGCATAATGAGTTGATTTTTTGAAAATCATATATTGAAAAAACCTTAGCATGCG
36338004 ACTCGAGGCTCAACTCACCTATCGCATTATGTGTTAATTTTTGAAAACTAGAAATTTAAAAAATA
66 ACTCGAGGCTCAACTCACCTATCGCATTATGTGTTAATTTTTGAAAACTAGAAATTTAAAAAATA
36338069 CCTCGTCATGTGTTCTATGCTCAACTCACCTCTTGCATTATGAGTTGATTTTTGAAAAAATAGAA
131 CCTCGTCATGTGTTCTATGCTCAACTCACCTCTTGCATTATGAGTTGATTTTTGAAAAAATAGAA
36338134 ATTAAAAATACCTTGGCGTGTGACACAAGGCTT
196 ATTAAAAATACCTTGGCGTGTGACACAAGGCTT
36338167 AACTCACCTCTCGCATAATGAGTTGATTTTTTGAAAATCATATATTGAAAAAACCTTAGCATGCG
1 AACTCACCTCTCGCATAATGAGTTGATTTTTTGAAAATCATATATTGAAAAAACCTTAGCATGCG
36338232 ACTCGAGGCTCAACTCACCTATCGCATTATGTGTTAATTTTTGAAAACTAGAAATTTAAAAAATA
66 ACTCGAGGCTCAACTCACCTATCGCATTATGTGTTAATTTTTGAAAACTAGAAATTTAAAAAATA
36338297 CCTCGTCATGTGTTCTATGCTCAACTCACCTCTTGCATTATGAGTTGATTTTTGAAAAAATAGAA
131 CCTCGTCATGTGTTCTATGCTCAACTCACCTCTTGCATTATGAGTTGATTTTTGAAAAAATAGAA
36338362 ATTAAAAATACCTTGGCGTGTGACACAAGGCTT
196 ATTAAAAATACCTTGGCGTGTGACACAAGGCTT
36338395 AACTCACCTCTCGCATAATGAGTTGATTTTTTGAAAATCATATATTGAAAAAACCTTAGCATGCG
1 AACTCACCTCTCGCATAATGAGTTGATTTTTTGAAAATCATATATTGAAAAAACCTTAGCATGCG
36338460 ACTCGAGGCTCAACTCACCTATCGCATTATGTGTTAATTTTTGAAAACTAGAAATTTAAAAAATA
66 ACTCGAGGCTCAACTCACCTATCGCATTATGTGTTAATTTTTGAAAACTAGAAATTTAAAAAATA
36338525 CCTCGTCATGTGTTCTATGCTCAACTCACCTCTTGCATTATGAGTTGATTTTTGAAAAAATAGAA
131 CCTCGTCATGTGTTCTATGCTCAACTCACCTCTTGCATTATGAGTTGATTTTTGAAAAAATAGAA
36338590 ATTGAAAAATACCT
196 ATT-AAAAATACCT
36338604 CGTTATGTGT
Statistics
Matches: 815, Mismatches: 62, Indels: 29
0.90 0.07 0.03
Matches are distributed among these distances:
226 13 0.02
227 110 0.13
228 652 0.80
229 40 0.05
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (228 bp):
AACTCACCTCTCGCATAATGAGTTGATTTTTTGAAAATCATATATTGAAAAAACCTTAGCATGCG
ACTCGAGGCTCAACTCACCTATCGCATTATGTGTTAATTTTTGAAAACTAGAAATTTAAAAAATA
CCTCGTCATGTGTTCTATGCTCAACTCACCTCTTGCATTATGAGTTGATTTTTGAAAAAATAGAA
ATTAAAAATACCTTGGCGTGTGACACAAGGCTT
Found at i:36339253 original size:76 final size:75
Alignment explanation
Indices: 36339023--36339727 Score: 594
Period size: 76 Copynumber: 9.3 Consensus size: 75
36339013 TTGAGTAGGA
* * * * * *
36339023 ATTATGAGTTAATCTTTGAAAAACAGAAATTGAAAACACCTCAGCGTGCGACCCGAGGCTCAACT
1 ATTATGAGTTGATTTTTGAAAATCAGAAATTAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT
*
36339088 CACCTCTAGC
66 CACCTCTCGC
* *
36339098 ATTATGAGTTGATTTTTGAAAGAACATAAATTGAAAAATACCTC-GACGTGTGACCCGAGGCTCA
1 ATTATGAGTTGATTTTTGAAA-ATCAGAAATT-AAAAATACCTCAG-CGTGTGACCCGAGGCTCA
*
36339162 ACTCACCTTTCGC
63 ACTCACCTCTCGC
* * *
36339175 ATTATGAGTTGATTTTTTGAAAATCATAAATTCAAAATACCTCAGCGTGTGACCCGAGACTCAAC
1 ATTATGAGTTGA-TTTTTGAAAATCAGAAATTAAAAATACCTCAGCGTGTGACCCGAGGCTCAAC
* *
36339240 TCATCGT-TTGC
65 TCA-CCTCTCGC
* * * * * * ** *
36339251 ATTATGAGTTAATTTTTAAAAAAT-AGAAATTTTAAAATACCACGGCATGTG-TTCGAGGCTTAA
1 ATTATGAGTTGATTTTT-GAAAATCAGAAA-TTAAAAATACCTCAGCGTGTGACCCGAGGCTCAA
*
36339314 CTCACCTCTC-A
64 CTCACCTCTCGC
* * *
36339325 ATTTATGAGTTGATTTTCGAAAAAACAGAAATTGAAAAATACCTC-GCCGTGTG-CCCAAGGCTC
1 A-TTATGAGTTGATTTTTG-AAAATCAGAAATT-AAAAATACCTCAG-CGTGTGACCCGAGGCTC
*
36339388 AACTCACCTCTCAC
62 AACTCACCTCTCGC
** * * *
36339402 ATTATGAGTTGATTTTTGAAAAAAT-AGAAATTAAAAATACCTTGGCGTGTGACACAAGGCTTAA
1 ATTATGAGTTGATTTTTG--AAAATCAGAAATTAAAAATACCTCAGCGTGTGACCCGAGGCTCAA
36339466 CTCACCTCTCGC
64 CTCACCTCTCGC
* * * * * * *
36339478 ATAATGAGTTGATTTTTTGAAAATCATATATTGAAAAA-ACCTTAGCATGCGACTCGAGGCTCAA
1 ATTATGAGTTGA-TTTTTGAAAATCAGAAATT-AAAAATACCTCAGCGTGTGACCCGAGGCTCAA
*
36339542 CTCACCTATCGC
64 CTCACCTCTCGC
* * * ** * *
36339554 ATTATGTGTTAATTTTTGAAAA-CTAGAAATTTAAAAAATACCTC-GTCATGTG-TTCTATGCTC
1 ATTATGAGTTGATTTTTGAAAATC-AGAAA-TT-AAAAATACCTCAG-CGTGTGACCCGAGGCTC
*
36339616 AACTCACCTCTTGC
62 AACTCACCTCTCGC
** ** * *
36339630 ATTATGAGTTGATTTTTGAAAAAAT-AGAAATTGAAAAATACCTC-GTTATGTG-TTCGAAGCCC
1 ATTATGAGTTGATTTTTG--AAAATCAGAAATT-AAAAATACCTCAG-CGTGTGACCCGAGGCTC
36339692 AACTCACCTCTCGC
62 AACTCACCTCTCGC
36339706 ATTATGAGTTGATTTTTGAAAA
1 ATTATGAGTTGATTTTTGAAAA
36339728 AGGTGAGTCA
Statistics
Matches: 526, Mismatches: 76, Indels: 57
0.80 0.12 0.09
Matches are distributed among these distances:
74 8 0.02
75 96 0.18
76 317 0.60
77 92 0.17
78 13 0.02
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (75 bp):
ATTATGAGTTGATTTTTGAAAATCAGAAATTAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT
CACCTCTCGC
Found at i:36339491 original size:152 final size:153
Alignment explanation
Indices: 36339023--36339728 Score: 688
Period size: 152 Copynumber: 4.6 Consensus size: 153
36339013 TTGAGTAGGA
* * * *
36339023 ATTATGAGTT-AATCTTTGAAAAACAGAAATTG-AAAACACCTCAGCGTGCGACCCGAGGCTCAA
1 ATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTC-GCGTGTGACCCGAGGCTCAA
* * * * * * *
36339086 CTCACCTCTAGCATTATGAGTTGATTTTTGAAAGAACATAAA-TTGAAAAATACCTCGACGTGTG
65 CTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAATAGAAATTTAAAAAATACCTCGGCATGTG
* *
36339150 ACCCGAGGCTCAACTCACCTTTCGC
130 -CTCGAGGCTCAACTCACCTCTCGC
* * * *
36339175 ATTATGAGTTGATTTTTTGAAAATCATAAATT-CAAAATACCTCAGCGTGTGACCCGAGACTCAA
1 ATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTC-GCGTGTGACCCGAGGCTCAA
* * * * *
36339239 CTCATCGT-TTGCATTATGAGTTAATTTTT-AAAAAATAGAAATTT-TAAAATACCACGGCATGT
65 CTCA-CCTCTCGCATTATGAGTTGATTTTTGAAAAAATAGAAATTTAAAAAATACCTCGGCATGT
* * *
36339301 GTTCGAGGCTTAACTCACCTCTC-A
129 GCTCGAGGCTCAACTCACCTCTCGC
* *
36339325 ATTTATGAGTTGA-TTTTCGAAAAAACAGAAATTGAAAAATACCTCGCCGTGTG-CCCAAGGCTC
1 A-TTATGAGTTGATTTTTTG-AAAAACAGAAATTGAAAAATACCTCG-CGTGTGACCCGAGGCTC
* * *
36339388 AACTCACCTCTCACATTATGAGTTGATTTTTGAAAAAATAGAAA-TT-AAAAATACCTTGGCGTG
63 AACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAATAGAAATTTAAAAAATACCTCGGCATG
* * *
36339451 TGACACAAGGCTTAACTCACCTCTCGC
128 TG-CTCGAGGCTCAACTCACCTCTCGC
* * * * * * * *
36339478 ATAATGAGTTGATTTTTTGAAAATCATATATTGAAAAA-ACCTTAGCATGCGACTCGAGGCTCAA
1 ATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACC-TCGCGTGTGACCCGAGGCTCAA
* * * * *
36339542 CTCACCTATCGCATTATGTGTTAATTTTTG-AAAACTAGAAATTTAAAAAATACCTCGTCATGTG
65 CTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAATAGAAATTTAAAAAATACCTCGGCATGTG
* * * *
36339606 TTCTATGCTCAACTCACCTCTTGC
130 CTCGAGGCTCAACTCACCTCTCGC
* ** ** * *
36339630 ATTATGAGTTGA-TTTTTGAAAAAATAGAAATTGAAAAATACCTCGTTATGTG-TTCGAAGCCCA
1 ATTATGAGTTGATTTTTTG-AAAAACAGAAATTGAAAAATACCTCG-CGTGTGACCCGAGGCTCA
36339693 ACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAA
64 ACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAA
36339729 GGTGAGTCAA
Statistics
Matches: 455, Mismatches: 78, Indels: 41
0.79 0.14 0.07
Matches are distributed among these distances:
150 8 0.02
151 113 0.25
152 229 0.50
153 103 0.23
154 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (153 bp):
ATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCGCGTGTGACCCGAGGCTCAAC
TCACCTCTCGCATTATGAGTTGATTTTTGAAAAAATAGAAATTTAAAAAATACCTCGGCATGTGC
TCGAGGCTCAACTCACCTCTCGC
Found at i:36339537 original size:228 final size:227
Alignment explanation
Indices: 36339026--36339673 Score: 693
Period size: 228 Copynumber: 2.8 Consensus size: 227
36339016 AGTAGGAATT
* * * * *
36339026 ATGAGTTAA-TCTTTGAAAAACAGAAATTGAAAACACCTCAGCGTGCGACCCGAGGCTCAACTCA
1 ATGAGTTAATTTTTTGAAAATCAGAAATTGAAAAAACCTCAGCATGCGACTCGAGGCTCAACTCA
* *
36339090 CCTCT-AGCATTATGAGTTGATTTTTGAAAGAACATAAATTGAAAAATACCTCGACGTGTGACCC
66 CCTCTCA--ATTATGAGTTGATTTTTGAAAAAACAGAAATTGAAAAATACCTCGACGTGTG-CCC
* * * *
36339154 GAGGCTCAACTCACCTTTCGCATTATGAGTTGATTTTTTG--AAAATCATAAATTCAAAATACCT
128 AAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAAAT-AGAAATTAAAAATACCT
* * * * *
36339217 CAGCGTGTGACCCGAGACTCAACTCATCGTTTGCATT
191 CAGCGTGTGACACAAGACTCAACTCATCCTTCGCATA
** * * * * * * *
36339254 ATGAGTTAATTTTTAAAAAAT-AGAAATTTTAAAATACCACGGCATGTG-TTCGAGGCTTAACTC
1 ATGAGTTAATTTTTTGAAAATCAGAAA-TTGAAAAAACCTCAGCATGCGACTCGAGGCTCAACTC
* *
36339317 ACCTCTCAATTTATGAGTTGATTTTCGAAAAAACAGAAATTGAAAAATACCTCGCCGTGTGCCCA
65 ACCTCTCAA-TTATGAGTTGATTTTTGAAAAAACAGAAATTGAAAAATACCTCGACGTGTGCCCA
* **
36339382 AGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTGAAAAAATAGAAATTAAAAATACCTTGG
129 AGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAATAGAAATTAAAAATACCTCAG
* *
36339447 CGTGTGACACAAGGCTTAACTCA-CCTCTCGCATA
194 CGTGTGACACAAGACTCAACTCATCCT-TCGCATA
* * * *
36339481 ATGAGTTGATTTTTTGAAAATCATATATTGAAAAAACCTTAGCATGCGACTCGAGGCTCAACTCA
1 ATGAGTTAATTTTTTGAAAATCAGAAATTGAAAAAACCTCAGCATGCGACTCGAGGCTCAACTCA
* * * * * * * **
36339546 CCTATCGCATTATGTGTTAATTTTTG--AAAACTAGAAATTTAAAAAATACCTCGTCATGTGTTC
66 CCTCTC-AATTATGAGTTGATTTTTGAAAAAAC-AGAAA-TTGAAAAATACCTCGACGTGTGCCC
* * *
36339609 TATGCTCAACTCACCTCTTGCATTATGAGTTGATTTTTGAAAAAATAGAAATTGAAAAATACCTC
128 AAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAATAGAAATT-AAAAATACCTC
36339674 GTTATGTGTT
Statistics
Matches: 348, Mismatches: 59, Indels: 25
0.81 0.14 0.06
Matches are distributed among these distances:
226 13 0.04
227 112 0.32
228 189 0.54
229 34 0.10
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (227 bp):
ATGAGTTAATTTTTTGAAAATCAGAAATTGAAAAAACCTCAGCATGCGACTCGAGGCTCAACTCA
CCTCTCAATTATGAGTTGATTTTTGAAAAAACAGAAATTGAAAAATACCTCGACGTGTGCCCAAG
GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAATAGAAATTAAAAATACCTCAGCG
TGTGACACAAGACTCAACTCATCCTTCGCATA
Found at i:36341416 original size:33 final size:33
Alignment explanation
Indices: 36341372--36341455 Score: 141
Period size: 33 Copynumber: 2.5 Consensus size: 33
36341362 CTTATTGTAT
*
36341372 AGACATCTTGTAATTACCCTCACACTCAGACTG
1 AGACATCTTGTAATTACCCGCACACTCAGACTG
*
36341405 AGACATTTTGTAATTACCCGCACACTCAGACTG
1 AGACATCTTGTAATTACCCGCACACTCAGACTG
*
36341438 ATACATCTTGTAATTACC
1 AGACATCTTGTAATTACC
36341456 TAATATTCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (33 bp):
AGACATCTTGTAATTACCCGCACACTCAGACTG
Found at i:36341633 original size:51 final size:49
Alignment explanation
Indices: 36341583--36341717 Score: 208
Period size: 44 Copynumber: 2.8 Consensus size: 49
36341573 ACCCGACTAA
*
36341583 ACAAAGACAAAAGAACCAAAAATAGTTGAAAGTGATGGCATACCCAACT
1 ACAAAGACAAAAGAACCAAAACTAGTTGAAAGTGATGGCATACCCAACT
36341632 ---AA-AC-AAAGAACCAAAACTAGTTGAAAGTGATGGCATACCCAACTTT
1 ACAAAGACAAAAGAACCAAAACTAGTTGAAAGTGATGGCATACCCAAC--T
36341678 ACAAAGACAAAAGAACCAAAACTAGTTGAAAGTGATGGCA
1 ACAAAGACAAAAGAACCAAAACTAGTTGAAAGTGATGGCA
36341718 ACAAGAGTGA
Statistics
Matches: 78, Mismatches: 1, Indels: 12
0.86 0.01 0.13
Matches are distributed among these distances:
44 38 0.49
45 2 0.03
46 3 0.04
49 2 0.03
50 2 0.03
51 31 0.40
ACGTcount: A:0.50, C:0.18, G:0.17, T:0.16
Consensus pattern (49 bp):
ACAAAGACAAAAGAACCAAAACTAGTTGAAAGTGATGGCATACCCAACT
Found at i:36351576 original size:13 final size:13
Alignment explanation
Indices: 36351558--36351583 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36351548 ATTTTACTTT
36351558 TAATCTGTATAGG
1 TAATCTGTATAGG
36351571 TAATCTGTATAGG
1 TAATCTGTATAGG
36351584 ACTCAGTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
TAATCTGTATAGG
Found at i:36356405 original size:33 final size:33
Alignment explanation
Indices: 36356368--36356451 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
36356358 TCAATTGTAT
*
36356368 AGACATCTTGTCATTACCCTCACACTCAGACTG
1 AGACATCTTGTAATTACCCTCACACTCAGACTG
*
36356401 AGACATCTTGTAATTGCCCTCACACTCAGACTG
1 AGACATCTTGTAATTACCCTCACACTCAGACTG
* *
36356434 ATACATCTTGTTATTACC
1 AGACATCTTGTAATTACC
36356452 TAATTGTCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (33 bp):
AGACATCTTGTAATTACCCTCACACTCAGACTG
Found at i:36357207 original size:138 final size:139
Alignment explanation
Indices: 36356944--36357221 Score: 495
Period size: 138 Copynumber: 2.0 Consensus size: 139
36356934 ATCACACGAC
36356944 AACAAACATCAAATCAAAACTCAAATTTTTGGGGCGTTACATTAATTGTAGCTTGTCAAGGAGTG
1 AACAAACATCAAATCAAAACTCAAATTTTTGGGGCGTTACATTAATTGTAGCTTGTCAAGGAGTG
* *
36357009 GATAGCTTTGTGGCAAATGTAAGTCCATTGTGTGATTTAATTGTTGTTTGTTAAGCATGATTTTG
66 GATAGCTTTGTGGCAAATGTAAGTCCATTGTATAATTTAATTGTTGTTTGTTAAGCATGATTTTG
36357074 AATGTTTAA
131 AATGTTTAA
36357083 AACAAACATC-AATCAAAACTCAAATTTTTGGGGCGTTACATTAATTGTAGCTTGTCAAGGAGTG
1 AACAAACATCAAATCAAAACTCAAATTTTTGGGGCGTTACATTAATTGTAGCTTGTCAAGGAGTG
* * * *
36357147 GATAGCTTTGTGGCAAATGTAAGTCCCTTTTATAATTTAATTTTTGTTTGTTAAGTATGATTTTG
66 GATAGCTTTGTGGCAAATGTAAGTCCATTGTATAATTTAATTGTTGTTTGTTAAGCATGATTTTG
36357212 AATGTTTAA
131 AATGTTTAA
36357221 A
1 A
36357222 TTAGGAATAC
Statistics
Matches: 133, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
138 123 0.92
139 10 0.08
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.38
Consensus pattern (139 bp):
AACAAACATCAAATCAAAACTCAAATTTTTGGGGCGTTACATTAATTGTAGCTTGTCAAGGAGTG
GATAGCTTTGTGGCAAATGTAAGTCCATTGTATAATTTAATTGTTGTTTGTTAAGCATGATTTTG
AATGTTTAA
Found at i:36361042 original size:15 final size:15
Alignment explanation
Indices: 36361015--36361049 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
36361005 AAACATTTTA
36361015 ATAT-AGATAATAAT
1 ATATAAGATAATAAT
*
36361029 ATATAAGATGATAAT
1 ATATAAGATAATAAT
36361044 ATATAA
1 ATATAA
36361050 ATTTAAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (15 bp):
ATATAAGATAATAAT
Found at i:36362154 original size:1 final size:1
Alignment explanation
Indices: 36362148--36362190 Score: 68
Period size: 1 Copynumber: 43.0 Consensus size: 1
36362138 TGTTCGTTTC
**
36362148 TTTTTTTTTTTTTTTTTCCTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
36362191 GCCTATTTGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:36365214 original size:24 final size:24
Alignment explanation
Indices: 36365156--36365207 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
36365146 CAAATATAAG
* *
36365156 TAATGCAATAAGGTTTAAACGCTT
1 TAATGCAATAAGGTTTAAACACCT
36365180 TAATGCAATAAGGTTTAAACACCT
1 TAATGCAATAAGGTTTAAACACCT
36365204 TAAT
1 TAAT
36365208 CTAATAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (24 bp):
TAATGCAATAAGGTTTAAACACCT
Found at i:36365612 original size:14 final size:14
Alignment explanation
Indices: 36365588--36365648 Score: 72
Period size: 14 Copynumber: 4.3 Consensus size: 14
36365578 CATATCATAC
36365588 AACCTTAAACCCCA
1 AACCTTAAACCCCA
36365602 AACAC-TAAACCCCA
1 AAC-CTTAAACCCCA
*
36365616 AACCTTAATCCCCA
1 AACCTTAAACCCCA
36365630 AA-CTTAAAACCCTCA
1 AACCTT-AAACCC-CA
36365645 AACC
1 AACC
36365649 AAAACCTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
13 4 0.10
14 30 0.75
15 5 0.12
16 1 0.03
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (14 bp):
AACCTTAAACCCCA
Found at i:36365639 original size:28 final size:29
Alignment explanation
Indices: 36365588--36365648 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
36365578 CATATCATAC
36365588 AACCTTAAACCCCAAACACTAAACCC-CA
1 AACCTTAAACCCCAAACACTAAACCCTCA
* *
36365616 AACCTTAATCCCCAAAC-TTAAAACCCTCA
1 AACCTTAAACCCCAAACACT-AAACCCTCA
36365645 AACC
1 AACC
36365649 AAAACCTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 1 0.03
28 22 0.76
29 6 0.21
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (29 bp):
AACCTTAAACCCCAAACACTAAACCCTCA
Found at i:36372514 original size:28 final size:28
Alignment explanation
Indices: 36372481--36372537 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
36372471 ATAAAAGAAG
36372481 TATAATTCTATAGGGATTTTACTTTTAT
1 TATAATTCTATAGGGATTTTACTTTTAT
36372509 TATAATTCTATAGGGATTTTACTTTTAT
1 TATAATTCTATAGGGATTTTACTTTTAT
36372537 T
1 T
36372538 TTATTTTACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (28 bp):
TATAATTCTATAGGGATTTTACTTTTAT
Found at i:36374488 original size:22 final size:22
Alignment explanation
Indices: 36374463--36374507 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
36374453 GGGAATCTTC
*
36374463 TGAGTAAGGATAAAATCAAAAA
1 TGAGTAAGGATAAAATAAAAAA
* *
36374485 TGAGTTAGGCTAAAATAAAAAA
1 TGAGTAAGGATAAAATAAAAAA
36374507 T
1 T
36374508 CAAATGGGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (22 bp):
TGAGTAAGGATAAAATAAAAAA
Found at i:36377801 original size:15 final size:15
Alignment explanation
Indices: 36377764--36377801 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
36377754 TAGTGATATT
* *
36377764 TAAAATATCAAAAGA
1 TAAAATATTAAAAAA
36377779 T-AAATATTAAAAAA
1 TAAAATATTAAAAAA
36377793 TAAAATATT
1 TAAAATATT
36377802 TTCTTAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (15 bp):
TAAAATATTAAAAAA
Found at i:36378109 original size:41 final size:41
Alignment explanation
Indices: 36378046--36378204 Score: 191
Period size: 41 Copynumber: 3.9 Consensus size: 41
36378036 TCATTAGTGA
* ** *
36378046 TGTTTTCCT-ATAAACGTTGCAAAAGGTAAGGCAATAGCGG
1 TGTTTTTCTCATAAACGCCGCAAAAGGTAAGGCAATAGCAG
*
36378086 CGTTTTTCTCATAAACGCCGCAAAAGGTAAGGCAATAGCTA-
1 TGTTTTTCTCATAAACGCCGCAAAAGGTAAGGCAATAGC-AG
* *
36378127 TGTTTGTCCCAT-AACGCCGCAAAAGGTAAGGCAATAGCAG
1 TGTTTTTCTCATAAACGCCGCAAAAGGTAAGGCAATAGCAG
* *
36378167 TGTTTTTC-CTATAAACACCACAAAAGGTAAGGCAATAG
1 TGTTTTTCTC-ATAAACGCCGCAAAAGGTAAGGCAATAG
36378205 TGTCATTTTA
Statistics
Matches: 103, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 42 0.41
41 59 0.57
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (41 bp):
TGTTTTTCTCATAAACGCCGCAAAAGGTAAGGCAATAGCAG
Found at i:36378222 original size:41 final size:38
Alignment explanation
Indices: 36378048--36378227 Score: 155
Period size: 41 Copynumber: 4.4 Consensus size: 38
36378038 ATTAGTGATG
** **
36378048 TTTTCCTATAAACGTTGCAAAAGGTAAGGCAATAGCGGCGT
1 TTTTCC-ATAAACGCCGCAAAAGGTAAGGCAATA--GGTAT
*
36378089 TTTTCTCATAAACGCCGCAAAAGGTAAGGCAATAGCTAT
1 TTTTC-CATAAACGCCGCAAAAGGTAAGGCAATAGGTAT
*
36378128 GTTTGTCCCAT-AACGCCGCAAAAGGTAAGGCAATAGCAGTGT
1 -TTT-T-CCATAAACGCCGCAAAAGGTAAGGCAATAG--GTAT
* *
36378170 TTTTCCTATAAACACCACAAAAGGTAAGGCAATAGTGTCAT
1 TTTTCC-ATAAACGCCGCAAAAGGTAAGGCAATAG-GT-AT
*
36378211 TTTATCCATAAATGCCG
1 TTT-TCCATAAACGCCG
36378228 TGAATTTATT
Statistics
Matches: 115, Mismatches: 14, Indels: 20
0.77 0.09 0.13
Matches are distributed among these distances:
39 4 0.03
40 33 0.29
41 71 0.62
42 7 0.06
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (38 bp):
TTTTCCATAAACGCCGCAAAAGGTAAGGCAATAGGTAT
Found at i:36381817 original size:18 final size:18
Alignment explanation
Indices: 36381794--36381832 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
36381784 ACCGAGTGGA
* *
36381794 CCACATGGGCATGTGGGC
1 CCACATGAGCATGTGAGC
*
36381812 CCACATGAGCGTGTGAGC
1 CCACATGAGCATGTGAGC
36381830 CCA
1 CCA
36381833 TTTTCACTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.31, G:0.33, T:0.15
Consensus pattern (18 bp):
CCACATGAGCATGTGAGC
Found at i:36383875 original size:19 final size:19
Alignment explanation
Indices: 36383851--36383924 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
36383841 GTATTGACAT
36383851 AATAAACAAAATGAAAACA
1 AATAAACAAAATGAAAACA
*
36383870 AATAAACAAAATAAATAACA
1 AATAAACAAAATGAA-AACA
*
36383890 GAATAAACAAAATGAAAAGA
1 -AATAAACAAAATGAAAACA
*
36383910 AGTAAACAAAA-GAAA
1 AATAAACAAAATGAAA
36383925 TAACAAATGG
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
18 4 0.08
19 24 0.49
20 7 0.14
21 14 0.29
ACGTcount: A:0.73, C:0.08, G:0.08, T:0.11
Consensus pattern (19 bp):
AATAAACAAAATGAAAACA
Found at i:36383906 original size:40 final size:40
Alignment explanation
Indices: 36383851--36383929 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
36383841 GTATTGACAT
*
36383851 AATAAACAAAATGAAAACAAATAAACAAAATAAATAACAG
1 AATAAACAAAATGAAAACAAATAAACAAAAGAAATAACAG
* *
36383891 AATAAACAAAATGAAAAGAAGTAAACAAAAGAAATAACA
1 AATAAACAAAATGAAAACAAATAAACAAAAGAAATAACA
36383930 AATGGAGAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.72, C:0.09, G:0.08, T:0.11
Consensus pattern (40 bp):
AATAAACAAAATGAAAACAAATAAACAAAAGAAATAACAG
Found at i:36389568 original size:31 final size:31
Alignment explanation
Indices: 36389532--36389591 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
36389522 ATGATCACTC
* *
36389532 AACTATTTGAAAGTTTTTATTTAAGTCACGT
1 AACTATTCGAAAGTATTTATTTAAGTCACGT
*
36389563 AACTATTCGGAAGTATTTATTTAAGTCAC
1 AACTATTCGAAAGTATTTATTTAAGTCAC
36389592 TTGGTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (31 bp):
AACTATTCGAAAGTATTTATTTAAGTCACGT
Found at i:36392045 original size:42 final size:42
Alignment explanation
Indices: 36391986--36392157 Score: 344
Period size: 42 Copynumber: 4.1 Consensus size: 42
36391976 TTTTGGTGAG
36391986 CTTGCAATTTTATAAAGTTCATATATTTGATGAGTTCACAGT
1 CTTGCAATTTTATAAAGTTCATATATTTGATGAGTTCACAGT
36392028 CTTGCAATTTTATAAAGTTCATATATTTGATGAGTTCACAGT
1 CTTGCAATTTTATAAAGTTCATATATTTGATGAGTTCACAGT
36392070 CTTGCAATTTTATAAAGTTCATATATTTGATGAGTTCACAGT
1 CTTGCAATTTTATAAAGTTCATATATTTGATGAGTTCACAGT
36392112 CTTGCAATTTTATAAAGTTCATATATTTGATGAGTTCACAGT
1 CTTGCAATTTTATAAAGTTCATATATTTGATGAGTTCACAGT
36392154 CTTG
1 CTTG
36392158 ATGAGCTCGC
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 130 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (42 bp):
CTTGCAATTTTATAAAGTTCATATATTTGATGAGTTCACAGT
Found at i:36392046 original size:25 final size:25
Alignment explanation
Indices: 36392018--36392132 Score: 64
Period size: 25 Copynumber: 5.2 Consensus size: 25
36392008 ATATTTGATG
36392018 AGTTCACAGTCTTGCAATTTTATAA
1 AGTTCACAGTCTTGCAATTTTATAA
* * *
36392043 AGTT--CA-T-AT---ATTTGAT-G
1 AGTTCACAGTCTTGCAATTTTATAA
36392060 AGTTCACAGTCTTGCAATTTTATAA
1 AGTTCACAGTCTTGCAATTTTATAA
* * *
36392085 AGTT--CA-T-AT---ATTTGAT-G
1 AGTTCACAGTCTTGCAATTTTATAA
36392102 AGTTCACAGTCTTGCAATTTTATAA
1 AGTTCACAGTCTTGCAATTTTATAA
36392127 AGTTCA
1 AGTTCA
36392133 TATATTTGAT
Statistics
Matches: 62, Mismatches: 12, Indels: 32
0.58 0.11 0.30
Matches are distributed among these distances:
17 8 0.13
18 12 0.19
19 4 0.06
20 2 0.03
21 4 0.06
22 2 0.03
23 4 0.06
24 12 0.19
25 14 0.23
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (25 bp):
AGTTCACAGTCTTGCAATTTTATAA
Found at i:36396847 original size:4 final size:4
Alignment explanation
Indices: 36396838--36396865 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
36396828 AAAGATATCA
36396838 TCTT TCTT TCTT TCTT TCTT TCTT TCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT
36396866 CAATCGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TCTT
Found at i:36397373 original size:15 final size:15
Alignment explanation
Indices: 36397355--36397384 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36397345 TAATTGAATA
*
36397355 GAATTAAATTTGATT
1 GAATTAAAATTGATT
36397370 GAATTAAAATTGATT
1 GAATTAAAATTGATT
36397385 ATTTAGATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (15 bp):
GAATTAAAATTGATT
Found at i:36398192 original size:23 final size:23
Alignment explanation
Indices: 36398139--36398192 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
36398129 AAATTGCTTT
*
36398139 TAAGCTTATGTATATTGAAATGG
1 TAAGCTTTTGTATATTGAAATGG
36398162 TAAGCTTTTGTATATTGAAATGG
1 TAAGCTTTTGTATATTGAAATGG
36398185 TAAGCTTT
1 TAAGCTTT
36398193 GTTTATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (23 bp):
TAAGCTTTTGTATATTGAAATGG
Found at i:36400196 original size:98 final size:98
Alignment explanation
Indices: 36400027--36400226 Score: 357
Period size: 98 Copynumber: 2.0 Consensus size: 98
36400017 CATTCTGACC
* *
36400027 TTGTCTTACAAAATTTATTATATCTCATGATTTATAATTCCGTTACTTACTCGTTTCTTTTATAA
1 TTGTCTTACAAAATTTATTATATCTCATGATTTATAATTCCATTACTTACTCGTTTCTTCTATAA
36400092 GAAACTAGACTCAATAAGCTCTAATTCCATAAT
66 GAAACTAGACTCAATAAGCTCTAATTCCATAAT
36400125 TTGTCTTGA-AAAATTTATTATATCTCATGATTTATAATTCCATTACTTACTCGTTTCTTCTATA
1 TTGTCTT-ACAAAATTTATTATATCTCATGATTTATAATTCCATTACTTACTCGTTTCTTCTATA
*
36400189 AGAAACTAGACTCAATAAGCTTTAATTCCATAAT
65 AGAAACTAGACTCAATAAGCTCTAATTCCATAAT
36400223 TTGT
1 TTGT
36400227 TCATCCTCTA
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
98 97 0.99
99 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (98 bp):
TTGTCTTACAAAATTTATTATATCTCATGATTTATAATTCCATTACTTACTCGTTTCTTCTATAA
GAAACTAGACTCAATAAGCTCTAATTCCATAAT
Found at i:36406886 original size:27 final size:27
Alignment explanation
Indices: 36406856--36406985 Score: 131
Period size: 27 Copynumber: 4.9 Consensus size: 27
36406846 TATCCTACAA
*
36406856 GGGTATTTCAATAATTTCACAAACTAG
1 GGGTATTTCAGTAATTTCACAAACTAG
*
36406883 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTCAGTAATTTCACAAACTAG
* * * **
36406910 GGGTGTTT-TGATAATTTTACAAA-GGG
1 GGGTATTTCAG-TAATTTCACAAACTAG
**
36406936 GGGTATTTCAGTAATTTTGCAAACT-G
1 GGGTATTTCAGTAATTTCACAAACTAG
*
36406962 AGAGTATTTCAGTAATTTCACAAA
1 -GGGTATTTCAGTAATTTCACAAA
36406986 TTGGGGTTCT
Statistics
Matches: 85, Mismatches: 14, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
26 21 0.25
27 64 0.75
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTCACAAACTAG
Found at i:36406992 original size:53 final size:53
Alignment explanation
Indices: 36406858--36406992 Score: 130
Period size: 53 Copynumber: 2.5 Consensus size: 53
36406848 TCCTACAAGG
* * *
36406858 GTATTTCAATAATTTCACAAACTAGGGGTATTTCAGTAATTTCACAAATTAGGG
1 GTATTTCAGTAATTTCACAAA-TAGGGGTATTTCAGTAATTTCACAAATGAGGA
* * * ** **
36406912 GTGTTT-TGATAATTTTACAAAGGGGGGTATTTCAGTAATTTTGCAAACTGA-GA
1 GTATTTCAG-TAATTTCACAAATAGGGGTATTTCAGTAATTTCACAAA-TGAGGA
*
36406965 GTATTTCAGTAATTTCACAAATTGGGGT
1 GTATTTCAGTAATTTCACAAATAGGGGT
36406993 TCTTGATGAC
Statistics
Matches: 63, Mismatches: 15, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
53 44 0.70
54 19 0.30
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (53 bp):
GTATTTCAGTAATTTCACAAATAGGGGTATTTCAGTAATTTCACAAATGAGGA
Found at i:36414225 original size:43 final size:43
Alignment explanation
Indices: 36414178--36414327 Score: 146
Period size: 43 Copynumber: 3.5 Consensus size: 43
36414168 TCCCAAACGT
* * *
36414178 GGTCTTACATGTAATCACATATCGATGCCACTATCCTAGACAG
1 GGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACAG
* * * * *
36414221 GGTCTTACACG-AATCAAATA-CGATGCCAATGTCCCAAATAT
1 GGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACAG
* * *
36414262 GGTCTTACATGTAAACACAAATCGATGCCAAC-GTCCCAGAC-G
1 GGTCTTACACGTAATCACATATCGATGCC-ACTGTCCCAGACAG
*
36414304 TGGTCTTACACGTAATCATATATC
1 -GGTCTTACACGTAATCACATATC
36414328 AAAAATCCTA
Statistics
Matches: 83, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
41 25 0.30
42 14 0.17
43 43 0.52
44 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACAG
Found at i:36414309 original size:84 final size:85
Alignment explanation
Indices: 36414159--36414321 Score: 224
Period size: 84 Copynumber: 1.9 Consensus size: 85
36414149 GGCTTGTACA
* * * *
36414159 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCACATATCGATGCCACTATCCTAGACAGGGT
1 ATGCCAACGTCCCAAACATGGTCTTACATGTAAACACAAATCGATGCCACTATCCCAGACAGGGT
36414224 CTTACACG-AATCAAATACG
66 CTTACACGTAATCAAATACG
* * *
36414243 ATGCCAATGTCCCAAATATGGTCTTACATGTAAACACAAATCGATGCCAAC-GTCCCAGAC-GTG
1 ATGCCAACGTCCCAAACATGGTCTTACATGTAAACACAAATCGATGCC-ACTATCCCAGACAG-G
36414306 GTCTTACACGTAATCA
64 GTCTTACACGTAATCA
36414322 TATATCAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
83 1 0.01
84 61 0.88
85 7 0.10
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (85 bp):
ATGCCAACGTCCCAAACATGGTCTTACATGTAAACACAAATCGATGCCACTATCCCAGACAGGGT
CTTACACGTAATCAAATACG
Found at i:36419785 original size:44 final size:44
Alignment explanation
Indices: 36419722--36419809 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
36419712 TAAACATGTC
* * *
36419722 CTTAGTCTAATTGGAAATGAGCAAACTGGTTAAAATACTAATAT
1 CTTAGTCTAATTGGAAATGAGAAAACTAGTTAAAAGACTAATAT
36419766 CTTAGTCTAATTGGAAATGAGAAAACTAGTTAAAAGACTAATAT
1 CTTAGTCTAATTGGAAATGAGAAAACTAGTTAAAAGACTAATAT
36419810 GCCATCTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (44 bp):
CTTAGTCTAATTGGAAATGAGAAAACTAGTTAAAAGACTAATAT
Found at i:36425125 original size:21 final size:21
Alignment explanation
Indices: 36425084--36425127 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
36425074 CCCCCTTATT
*
36425084 AACATAAAAATTTAAAATTTA
1 AACATAAAAATTGAAAATTTA
*
36425105 AACATAACAAA-TGAAATTTTA
1 AACATAA-AAATTGAAAATTTA
36425126 AA
1 AA
36425128 AAAAATTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (21 bp):
AACATAAAAATTGAAAATTTA
Found at i:36431203 original size:65 final size:65
Alignment explanation
Indices: 36431080--36431205 Score: 182
Period size: 65 Copynumber: 1.9 Consensus size: 65
36431070 ATGTTTTAAA
* * * *
36431080 ACCTTGATGAATTATGGTTGAATATAGAATAATTATTTGATGTAGATTATGAATTGTGGTTATGT
1 ACCTAGATGAAATATGGATGAATATAGAATAATTATTTGATGTAGATTACGAATTGTGGTTATGT
* *
36431145 ACCTAGATGAAATATGGATGATTATAGAATAATTATTTGATGTCGATTACGAGA-TGTGGTT
1 ACCTAGATGAAATATGGATGAATATAGAATAATTATTTGATGTAGATTACGA-ATTGTGGTT
36431206 GAATTTGGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 53 0.98
66 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (65 bp):
ACCTAGATGAAATATGGATGAATATAGAATAATTATTTGATGTAGATTACGAATTGTGGTTATGT
Found at i:36431321 original size:45 final size:44
Alignment explanation
Indices: 36431270--36431449 Score: 186
Period size: 44 Copynumber: 4.0 Consensus size: 44
36431260 TGGATTAGAT
*
36431270 CGGATATCCTCAAATATAAAGGTGGTTGCTAAGTGCTGATTCGAC
1 CGGATATCCTCAAATAT-AAGGTGGTTGCTAAGTGCTGATTCCAC
**
36431315 CGGATAT-C-CATGTGAGTAAGGTGGTTGCTAAGTGCTGATTCCAC
1 CGGATATCCTCAAAT-A-TAAGGTGGTTGCTAAGTGCTGATTCCAC
* * *
36431359 CAGATATCCTCGAATATAAAGGTGGTTGCTAAGTGTTGATTCCAC
1 CGGATATCCTCAAATAT-AAGGTGGTTGCTAAGTGCTGATTCCAC
** ** * *
36431404 CAAATATCCATGTAA-GTAAGGTGGTTGCTAAGTGCTGATTCTAC
1 CGGATATCC-TCAAATATAAGGTGGTTGCTAAGTGCTGATTCCAC
36431448 CG
1 CG
36431450 TGTAATTATT
Statistics
Matches: 114, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
43 3 0.03
44 61 0.54
45 45 0.39
46 5 0.04
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (44 bp):
CGGATATCCTCAAATATAAGGTGGTTGCTAAGTGCTGATTCCAC
Found at i:36431340 original size:44 final size:43
Alignment explanation
Indices: 36431288--36431444 Score: 210
Period size: 44 Copynumber: 3.6 Consensus size: 43
36431278 CTCAAATATA
* *
36431288 AAGGTGGTTGCTAAGTGCTGATTCGACCGGATATCCATGTGAGT
1 AAGGTGGTTGCTAAGTGCTGATTCCACCAGATATCCATGT-AGT
36431332 AAGGTGGTTGCTAAGTGCTGATTCCACCAGATATCC-TCGAATA-T
1 AAGGTGGTTGCTAAGTGCTGATTCCACCAGATATCCAT-G--TAGT
* *
36431376 AAAGGTGGTTGCTAAGTGTTGATTCCACCAAATATCCATGTAAGT
1 -AAGGTGGTTGCTAAGTGCTGATTCCACCAGATATCCATGT-AGT
36431421 AAGGTGGTTGCTAAGTGCTGATTC
1 AAGGTGGTTGCTAAGTGCTGATTC
36431445 TACCGTGTAA
Statistics
Matches: 101, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
43 2 0.02
44 60 0.59
45 37 0.37
46 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
AAGGTGGTTGCTAAGTGCTGATTCCACCAGATATCCATGTAGT
Found at i:36431375 original size:89 final size:89
Alignment explanation
Indices: 36431272--36431444 Score: 292
Period size: 89 Copynumber: 1.9 Consensus size: 89
36431262 GATTAGATCG
* ** *
36431272 GATATCCTCAAATATAAAGGTGGTTGCTAAGTGCTGATTCGACCGGATATCCATGTGAGTAAGGT
1 GATATCCTCAAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCAAATATCCATGTAAGTAAGGT
36431337 GGTTGCTAAGTGCTGATTCCACCA
66 GGTTGCTAAGTGCTGATTCCACCA
* *
36431361 GATATCCTCGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCAAATATCCATGTAAGTAAGGT
1 GATATCCTCAAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCAAATATCCATGTAAGTAAGGT
36431426 GGTTGCTAAGTGCTGATTC
66 GGTTGCTAAGTGCTGATTC
36431445 TACCGTGTAA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 78 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (89 bp):
GATATCCTCAAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCAAATATCCATGTAAGTAAGGT
GGTTGCTAAGTGCTGATTCCACCA
Found at i:36446257 original size:21 final size:21
Alignment explanation
Indices: 36446231--36446284 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
36446221 ATTGGCTTGG
* *
36446231 TTGTGTTGCGACCACATAAGT
1 TTGTGTTGCGACCACAGAAGC
* *
36446252 TTGTGTTGAGACCACGGAAGC
1 TTGTGTTGCGACCACAGAAGC
36446273 TTGTGTTGCGAC
1 TTGTGTTGCGAC
36446285 TTGACTATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (21 bp):
TTGTGTTGCGACCACAGAAGC
Found at i:36450805 original size:11 final size:11
Alignment explanation
Indices: 36450770--36450814 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
36450760 TTTTTGGAGG
*
36450770 TTTTTAAAAAA
1 TTTTAAAAAAA
*
36450781 TATTGAAAAGAAA
1 T-TTTAAAA-AAA
36450794 TTTTAAAAAAA
1 TTTTAAAAAAA
36450805 TTTTAAAAAA
1 TTTTAAAAAA
36450815 TTAAGTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 14 0.48
12 11 0.38
13 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (11 bp):
TTTTAAAAAAA
Found at i:36451926 original size:9 final size:10
Alignment explanation
Indices: 36451895--36451930 Score: 72
Period size: 10 Copynumber: 3.6 Consensus size: 10
36451885 AGAAATAAAG
36451895 AAACTTGTAA
1 AAACTTGTAA
36451905 AAACTTGTAA
1 AAACTTGTAA
36451915 AAACTTGTAA
1 AAACTTGTAA
36451925 AAACTT
1 AAACTT
36451931 CAAAAGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (10 bp):
AAACTTGTAA
Found at i:36453343 original size:23 final size:23
Alignment explanation
Indices: 36453312--36453357 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
36453302 TTTGGAGGGT
*
36453312 TTTTAAAAAATAT-TGAAAAGAAA
1 TTTTAAAAAAAATGT-AAAAGAAA
*
36453335 TTTTGAAAAAAATGTAAAAGAAA
1 TTTTAAAAAAAATGTAAAAGAAA
36453358 AATTAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (23 bp):
TTTTAAAAAAAATGTAAAAGAAA
Found at i:36453523 original size:23 final size:24
Alignment explanation
Indices: 36453491--36453537 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
36453481 TTTTGGAGGG
*
36453491 TTTTTAAAAAATAT-TGAAAAGAAA
1 TTTTTAAAAAAAATGT-AAAAGAAA
36453515 TTTTT-AAAAAAATGTAAAAGAAA
1 TTTTTAAAAAAAATGTAAAAGAAA
36453538 AATTAACTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.32
Consensus pattern (24 bp):
TTTTTAAAAAAAATGTAAAAGAAA
Found at i:36453523 original size:24 final size:23
Alignment explanation
Indices: 36453491--36453537 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
36453481 TTTTGGAGGG
36453491 TTTTTAAAAAATAT-TGAAAAGAAA
1 TTTTTAAAAAA-ATGT-AAAAGAAA
36453515 TTTTTAAAAAAATGTAAAAGAAA
1 TTTTTAAAAAAATGTAAAAGAAA
36453538 AATTAACTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.32
Consensus pattern (23 bp):
TTTTTAAAAAAATGTAAAAGAAA
Found at i:36453528 original size:180 final size:180
Alignment explanation
Indices: 36453300--36453659 Score: 693
Period size: 180 Copynumber: 2.0 Consensus size: 180
36453290 TTCGAATGTG
36453300 TTTTTGGAGGGTTTTTAAAAAATATTGAAAAGAAATTTTGAAAAAAATGTAAAAGAAAAATTAAC
1 TTTTTGGAGGGTTTTTAAAAAATATTGAAAAGAAATTTTGAAAAAAATGTAAAAGAAAAATTAAC
*
36453365 TTTTAATTCATATAATTGACCTTAAAAGGTAAATCATTCAAAAATGATTTTGAATAAATTTAAGA
66 TTGTAATTCATATAATTGACCTTAAAAGGTAAATCATTCAAAAATGATTTTGAATAAATTTAAGA
*
36453430 CTTTGAGTAATATAAATAATTGAAAAAAAAGAGTAAAAATACTATCACCA
131 CTTTGAGTAATAAAAATAATTGAAAAAAAAGAGTAAAAATACTATCACCA
*
36453480 TTTTTGGAGGGTTTTTAAAAAATATTGAAAAGAAATTTTTAAAAAAATGTAAAAGAAAAATTAAC
1 TTTTTGGAGGGTTTTTAAAAAATATTGAAAAGAAATTTTGAAAAAAATGTAAAAGAAAAATTAAC
36453545 TTGTAATTCATATAATTGACCTTAAAAGGTAAATCATTCAAAAATGATTTTGAATAAATTTAAGA
66 TTGTAATTCATATAATTGACCTTAAAAGGTAAATCATTCAAAAATGATTTTGAATAAATTTAAGA
36453610 CTTTGAGTAATAAAAATAATTGAAAAAAAAGAGTAAAAATACTATCACCA
131 CTTTGAGTAATAAAAATAATTGAAAAAAAAGAGTAAAAATACTATCACCA
36453660 CACCATCACA
Statistics
Matches: 177, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
180 177 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.33
Consensus pattern (180 bp):
TTTTTGGAGGGTTTTTAAAAAATATTGAAAAGAAATTTTGAAAAAAATGTAAAAGAAAAATTAAC
TTGTAATTCATATAATTGACCTTAAAAGGTAAATCATTCAAAAATGATTTTGAATAAATTTAAGA
CTTTGAGTAATAAAAATAATTGAAAAAAAAGAGTAAAAATACTATCACCA
Found at i:36454537 original size:30 final size:30
Alignment explanation
Indices: 36454475--36454651 Score: 155
Period size: 30 Copynumber: 5.9 Consensus size: 30
36454465 TTTATTTTTT
* *
36454475 AAATTATATTTTGACCCCATAACTTT-TTA
1 AAATTACATTTTGACCCCTTAACTTTCTTA
*
36454504 AAATTACATTTTGACCTCTTAACTTTCTTA
1 AAATTACATTTTGACCCCTTAACTTTCTTA
* * *
36454534 AAATTATATTTTGACCCCTTAGCTTTCTAA
1 AAATTACATTTTGACCCCTTAACTTTCTTA
* * **
36454564 AAATTTCATTTTGACCCCTCAA-TGTTCAAA
1 AAATTACATTTTGACCCCTTAACT-TTCTTA
* * * *
36454594 AAATTATATTTTAACACCTAAAC-TT-TTA
1 AAATTACATTTTGACCCCTTAACTTTCTTA
* *
36454622 GGAAATTAAATTTTGACCCATTAACTTTCT
1 --AAATTACATTTTGACCCCTTAACTTTCT
36454652 AGCAATTACA
Statistics
Matches: 117, Mismatches: 24, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
28 1 0.01
29 26 0.22
30 87 0.74
31 2 0.02
32 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (30 bp):
AAATTACATTTTGACCCCTTAACTTTCTTA
Found at i:36454597 original size:60 final size:59
Alignment explanation
Indices: 36454475--36454650 Score: 176
Period size: 60 Copynumber: 2.9 Consensus size: 59
36454465 TTTATTTTTT
* * * **
36454475 AAATTATATTTTGACCCCATAACTTTTTAAAATTACATTTTGACCTCTTAACTTTCTTA
1 AAATTATATTTTGACCCCATAACTTTTAAAAATTACATTTTGACCCCTCAACTTTCAAA
* * *
36454534 AAATTATATTTTGACCCCTTAGCTTTCTAAAAATTTCATTTTGACCCCTCAA-TGTTCAAA
1 AAATTATATTTTGACCCCATAACTTT-TAAAAATTACATTTTGACCCCTCAACT-TTCAAA
* * * * * *
36454594 AAATTATATTTTAACACC-TAAACTTTTAGGAAATTAAATTTTGACCCATTAACTTTC
1 AAATTATATTTTGACCCCAT-AACTTTTA-AAAATTACATTTTGACCCCTCAACTTTC
36454651 TAGCAATTAC
Statistics
Matches: 96, Mismatches: 16, Indels: 9
0.79 0.13 0.07
Matches are distributed among these distances:
59 28 0.29
60 67 0.70
61 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (59 bp):
AAATTATATTTTGACCCCATAACTTTTAAAAATTACATTTTGACCCCTCAACTTTCAAA
Found at i:36454875 original size:24 final size:24
Alignment explanation
Indices: 36454848--36454894 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
36454838 CGAAACCCCC
*
36454848 CGAAATAAAAAAAAAGAGAAAAGA
1 CGAAAGAAAAAAAAAGAGAAAAGA
** *
36454872 CGAAAGAAATGAGAAGAGAAAAG
1 CGAAAGAAAAAAAAAGAGAAAAG
36454895 GAAGAAGAGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.68, C:0.04, G:0.23, T:0.04
Consensus pattern (24 bp):
CGAAAGAAAAAAAAAGAGAAAAGA
Found at i:36455030 original size:20 final size:21
Alignment explanation
Indices: 36455005--36455053 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
36454995 AAGGAAGAAG
*
36455005 AAAAAGAAAGG-AAAAACCAA
1 AAAAAGAAAGGAAAAAAACAA
36455025 AAAAAG-AAGGAAAAAAACAA
1 AAAAAGAAAGGAAAAAAACAA
*
36455045 AAAAGGAAA
1 AAAAAGAAA
36455054 AATAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 19 0.76
21 2 0.08
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAGGAAAAAAACAA
Found at i:36455052 original size:16 final size:17
Alignment explanation
Indices: 36454995--36455066 Score: 65
Period size: 17 Copynumber: 4.1 Consensus size: 17
36454985 CTAAGGTTTT
* * *
36454995 AAGGAAGAAGAAAAAGA
1 AAGGAAAAACAAAAAAA
36455012 AAGGAAAAACCAAAAAAA
1 AAGGAAAAA-CAAAAAAA
*
36455030 GAAGGAAAAA-AACAAAA
1 -AAGGAAAAACAAAAAAA
*
36455047 AAGGAAAAATAAAAATAA
1 AAGGAAAAACAAAAA-AA
36455065 AA
1 AA
36455067 ATAAAAAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
16 9 0.20
17 18 0.39
18 10 0.22
19 9 0.20
ACGTcount: A:0.76, C:0.04, G:0.17, T:0.03
Consensus pattern (17 bp):
AAGGAAAAACAAAAAAA
Found at i:36455066 original size:19 final size:17
Alignment explanation
Indices: 36454995--36455067 Score: 58
Period size: 19 Copynumber: 4.1 Consensus size: 17
36454985 CTAAGGTTTT
* * *
36454995 AAGGAAGAAGAAAAAGA
1 AAGGAAAAAAAAAAAAA
*
36455012 AAGGAAAAACCAAAAAAAG
1 AAGGAAAAA--AAAAAAAA
*
36455031 AAGG-AAAAAAACAAAA
1 AAGGAAAAAAAAAAAAA
36455047 AAGGAAAAATAAAAATAAA
1 AAGGAAAAA-AAAAA-AAA
36455066 AA
1 AA
36455068 TAAAAAATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
16 10 0.23
17 12 0.27
18 8 0.18
19 14 0.32
ACGTcount: A:0.77, C:0.04, G:0.16, T:0.03
Consensus pattern (17 bp):
AAGGAAAAAAAAAAAAA
Found at i:36455211 original size:10 final size:9
Alignment explanation
Indices: 36455190--36455219 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
36455180 AAAGAAGGAG
36455190 AAGAAAAAA
1 AAGAAAAAA
36455199 AAGAAACAAA
1 AAGAAA-AAA
36455209 AAGAAAAAA
1 AAGAAAAAA
36455218 AA
1 AA
36455220 CTAGCAGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:36455396 original size:13 final size:13
Alignment explanation
Indices: 36455378--36455411 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
36455368 CAGCAGGCCA
36455378 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
36455391 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
36455404 AAAAAAAA
1 AAAAAAAA
36455412 AAGAGCCCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:36455403 original size:17 final size:15
Alignment explanation
Indices: 36455377--36455413 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 15
36455367 GCAGCAGGCC
36455377 AAAAAAAAAGAAAGAA
1 AAAAAAAAAGAAA-AA
36455393 AAAAAAGAAAGAAAAA
1 AAAAAA-AAAGAAAAA
36455409 AAAAA
1 AAAAA
36455414 GAGCCCTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAAA
Found at i:36455577 original size:13 final size:12
Alignment explanation
Indices: 36455558--36455591 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 12
36455548 ATTTTTTATT
36455558 TTTTATTTTGTA
1 TTTTATTTTGTA
36455570 TTTATATTTTGTA
1 TTT-TATTTTGTA
36455583 TTTTATTTT
1 TTTTATTTT
36455592 ATTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (12 bp):
TTTTATTTTGTA
Found at i:36455579 original size:20 final size:19
Alignment explanation
Indices: 36455548--36455600 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
36455538 ATTTTTAGGC
*
36455548 ATTTTTTATTTTTTATTTT
1 ATTTTATATTTTTTATTTT
* *
36455567 GTATTTATATTTTGTATTTT
1 AT-TTTATATTTTTTATTTT
36455587 ATTTTAT-TTTTTTA
1 ATTTTATATTTTTTA
36455601 AATTTAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 6 0.21
19 6 0.21
20 16 0.57
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (19 bp):
ATTTTATATTTTTTATTTT
Found at i:36455587 original size:14 final size:14
Alignment explanation
Indices: 36455548--36455588 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
36455538 ATTTTTAGGC
* *
36455548 ATTTTTTATTTTTT
1 ATTTTGTATTTTAT
36455562 ATTTTGTA-TTTAT
1 ATTTTGTATTTTAT
36455575 ATTTTGTATTTTAT
1 ATTTTGTATTTTAT
36455589 TTTATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (14 bp):
ATTTTGTATTTTAT
Found at i:36455730 original size:10 final size:9
Alignment explanation
Indices: 36455713--36455739 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
36455703 ATACGCCATT
36455713 TTAAAAAAA
1 TTAAAAAAA
36455722 TTAAAAAAA
1 TTAAAAAAA
36455731 TTAAAAAAA
1 TTAAAAAAA
36455740 GTTCTCGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:36457509 original size:4 final size:4
Alignment explanation
Indices: 36457500--36457535 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
36457490 GCATGATTGA
* *
36457500 CATT CATT CATT CAGT CATT CAAT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT
36457536 GCACCCTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.44
Consensus pattern (4 bp):
CATT
Found at i:36459658 original size:32 final size:31
Alignment explanation
Indices: 36459611--36459704 Score: 145
Period size: 32 Copynumber: 3.0 Consensus size: 31
36459601 NNNNNNNNNN
*
36459611 AAAGAGTTTTATTAGGATTCAATTACTCTTT
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
*
36459642 AAAGAGTTTTTATTAGGACTCAATTACTCTTG
1 AAAGAG-TTTTATTAGGATTCAATTACTCTTG
36459674 AAAGAGTTTTATTAGGAATTCAATTAC-CTTG
1 AAAGAGTTTTATTAGG-ATTCAATTACTCTTG
36459705 TAATTTTCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
31 20 0.34
32 38 0.66
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:36466756 original size:32 final size:31
Alignment explanation
Indices: 36466711--36466806 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
36466701 CTTAGATAAT
36466711 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
36466742 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
36466774 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
36466805 TT
1 TT
36466807 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:36468410 original size:6 final size:6
Alignment explanation
Indices: 36468399--36468443 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
36468389 TGAAATTGGA
36468399 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TAT
36468444 TGCCAGGGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:36470213 original size:32 final size:31
Alignment explanation
Indices: 36470168--36470263 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
36470158 CTTAGATAAT
36470168 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
36470199 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
36470231 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
36470262 TT
1 TT
36470264 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:36471867 original size:6 final size:6
Alignment explanation
Indices: 36471856--36471888 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
36471846 TGAAATTGGA
36471856 TATATG TATATG TATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TATATG TATATG TAT
36471889 TGCCAGGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:36472097 original size:19 final size:19
Alignment explanation
Indices: 36472073--36472110 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
36472063 CCCAAAAGTA
36472073 TAAGCAGCCCTCTCTTCCG
1 TAAGCAGCCCTCTCTTCCG
36472092 TAAGCAGCCCTCTCTTCCG
1 TAAGCAGCCCTCTCTTCCG
36472111 CCAGGCCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.42, G:0.16, T:0.26
Consensus pattern (19 bp):
TAAGCAGCCCTCTCTTCCG
Found at i:36477643 original size:144 final size:144
Alignment explanation
Indices: 36477383--36477672 Score: 553
Period size: 144 Copynumber: 2.0 Consensus size: 144
36477373 TCGAGGTCGA
* * *
36477383 AGAAATCCCTGAATTCTTTCTATCCTATGGCATGCCATCTATATCCGACTTCGCCCGAAATAATT
1 AGAAATCCCTAAACTCTTTCCATCCTATGGCATGCCATCTATATCCGACTTCGCCCGAAATAATT
36477448 AATAGGGTTTCATCTCACTTTCAATACATCCAATGTCTCAATTTCATATATGTACATGATTACAT
66 AATAGGGTTTCATCTCACTTTCAATACATCCAATGTCTCAATTTCATATATGTACATGATTACAT
36477513 ATAAACATGTATTC
131 ATAAACATGTATTC
36477527 AGAAATCCCTAAACTCTTTCCATCCTATGGCATGCCATCTATATCCGACTTCGCCCGAAATAATT
1 AGAAATCCCTAAACTCTTTCCATCCTATGGCATGCCATCTATATCCGACTTCGCCCGAAATAATT
36477592 AATAGGGTTTCATCTCACTTTCAATACATCCAATGTCTCAATTTCATATATGTACATGATTACAT
66 AATAGGGTTTCATCTCACTTTCAATACATCCAATGTCTCAATTTCATATATGTACATGATTACAT
36477657 ATAAACATGTATTC
131 ATAAACATGTATTC
36477671 AG
1 AG
36477673 TTTGGTAGCA
Statistics
Matches: 143, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 143 1.00
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.34
Consensus pattern (144 bp):
AGAAATCCCTAAACTCTTTCCATCCTATGGCATGCCATCTATATCCGACTTCGCCCGAAATAATT
AATAGGGTTTCATCTCACTTTCAATACATCCAATGTCTCAATTTCATATATGTACATGATTACAT
ATAAACATGTATTC
Found at i:36478452 original size:9 final size:9
Alignment explanation
Indices: 36478423--36478452 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
36478413 TCCCTTGCTA
36478423 TTTCTTTCT
1 TTTCTTTCT
*
36478432 TTCCTTTCT
1 TTTCTTTCT
36478441 TTTCTTTCT
1 TTTCTTTCT
36478450 TTT
1 TTT
36478453 GAATGTTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTCTTTCT
Found at i:36478541 original size:17 final size:16
Alignment explanation
Indices: 36478519--36478560 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
36478509 TCATTATTAT
*
36478519 TATAACTTATATATATA
1 TATAACATATATATA-A
36478536 TATAACATATATATAA
1 TATAACATATATATAA
36478552 TATACACAT
1 TATA-ACAT
36478561 GCATATTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (16 bp):
TATAACATATATATAA
Found at i:36505961 original size:19 final size:18
Alignment explanation
Indices: 36505933--36505969 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
36505923 AAAATTTAAG
36505933 TAAATTGAATATTAAAAT
1 TAAATTGAATATTAAAAT
*
36505951 TAAATTTGAATATTTAAAT
1 TAAA-TTGAATATTAAAAT
36505970 GAGACAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (18 bp):
TAAATTGAATATTAAAAT
Found at i:36509658 original size:81 final size:81
Alignment explanation
Indices: 36509523--36509742 Score: 413
Period size: 81 Copynumber: 2.7 Consensus size: 81
36509513 TCTTGAGTGT
36509523 AATGAGACAAATATACGGTAAGTATAAGAGTTTAATAATTGTCAAGTTGTTTATCAAGTCCTACA
1 AATGAGACAAATATACGGTAAGTATAAGAGTTTAATAATTGTCAAGTTGTTTATCAAGTCCTACA
36509588 CTCTTGATACGAGTAA
66 CTCTTGATACGAGTAA
36509604 AATGAGACAAATATACGGTAAGTATAAGAGTTTAATAATTGTCAAGTTGTTTATCAAGTCCTACA
1 AATGAGACAAATATACGGTAAGTATAAGAGTTTAATAATTGTCAAGTTGTTTATCAAGTCCTACA
36509669 CTCTTGATACGAGTAA
66 CTCTTGATACGAGTAA
* *
36509685 AATGAGACAAATATACGGTAAGTATAAGAGTTTAATAGTTGTCAAGTTTTTTTATCAA
1 AATGAGACAAATATACGGTAAGTATAAGAGTTTAATAATTGTCAAG-TTGTTTATCAA
36509743 AAAATAATTG
Statistics
Matches: 136, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
81 126 0.93
82 10 0.07
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (81 bp):
AATGAGACAAATATACGGTAAGTATAAGAGTTTAATAATTGTCAAGTTGTTTATCAAGTCCTACA
CTCTTGATACGAGTAA
Found at i:36512589 original size:22 final size:24
Alignment explanation
Indices: 36512564--36512609 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
36512554 TAGCCAATTT
*
36512564 TATTTTA-TTTA-TTTTATTTTTA
1 TATTTTATTTTAGTTTAATTTTTA
36512586 TATTTTATTTTAGTTTAATTTTTA
1 TATTTTATTTTAGTTTAATTTTTA
36512610 CGTTCTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 4 0.19
24 10 0.48
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (24 bp):
TATTTTATTTTAGTTTAATTTTTA
Found at i:36512591 original size:13 final size:14
Alignment explanation
Indices: 36512560--36512597 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
36512550 AATTTAGCCA
*
36512560 ATTTTATTTTATTT
1 ATTTTATTTTATAT
36512574 ATTTTATTTT-TAT
1 ATTTTATTTTATAT
36512587 ATTTTATTTTA
1 ATTTTATTTTA
36512598 GTTTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
ATTTTATTTTATAT
Found at i:36525124 original size:11 final size:11
Alignment explanation
Indices: 36525108--36525135 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
36525098 GTAACATAGA
36525108 CATTTGGAATT
1 CATTTGGAATT
36525119 CATTTGGAATT
1 CATTTGGAATT
36525130 CATTTG
1 CATTTG
36525136 TATAATATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (11 bp):
CATTTGGAATT
Found at i:36530511 original size:25 final size:25
Alignment explanation
Indices: 36530483--36530532 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
36530473 TTATTTTATC
36530483 AAATAGTACAT-TAATTTGTTGAAAA
1 AAATAGTACATATAATTTGTT-AAAA
* *
36530508 AAATCGTACTTATAATTTGTTAAAA
1 AAATAGTACATATAATTTGTTAAAA
36530533 TATCATTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (25 bp):
AAATAGTACATATAATTTGTTAAAA
Found at i:36531287 original size:23 final size:23
Alignment explanation
Indices: 36531259--36531349 Score: 82
Period size: 23 Copynumber: 4.1 Consensus size: 23
36531249 TGTGTAACTT
36531259 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
* * * * *
36531282 TTCATA---ATGTGT-GTAACTT
1 TTCATATTCAAGTCTCTTCACTC
* * *
36531301 TTCTTCTTCAAGTCTATTCACTC
1 TTCATATTCAAGTCTCTTCACTC
36531324 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
36531347 TTC
1 TTC
36531350 TAACTTTTCA
Statistics
Matches: 49, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
19 8 0.16
20 4 0.08
22 4 0.08
23 33 0.67
ACGTcount: A:0.21, C:0.26, G:0.07, T:0.46
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:36531299 original size:42 final size:42
Alignment explanation
Indices: 36531249--36531329 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
36531239 TTCATGCATA
*
36531249 TGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTCATAATG
1 TGTGTAACTTTTCATATTCAAGTCTATTCACTCTTCATAATG
* *
36531291 TGTGTAACTTTTCTTCTTCAAGTCTATTCACTCTTCATA
1 TGTGTAACTTTTCATATTCAAGTCTATTCACTCTTCATA
36531330 TTCAAGTCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.22, C:0.22, G:0.09, T:0.47
Consensus pattern (42 bp):
TGTGTAACTTTTCATATTCAAGTCTATTCACTCTTCATAATG
Found at i:36533987 original size:23 final size:23
Alignment explanation
Indices: 36533955--36534026 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
36533945 TGTGTAACTT
* *
36533955 TTCATCTTCAAGTCTATTCTCTC
1 TTCATATTCAAGTCTATTCACTC
*
36533978 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTATTCACTC
* *
36534001 TTCATATTCAAGTTTCTTCACTC
1 TTCATATTCAAGTCTATTCACTC
36534024 TTC
1 TTC
36534027 TAACTTTTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.19, C:0.29, G:0.04, T:0.47
Consensus pattern (23 bp):
TTCATATTCAAGTCTATTCACTC
Found at i:36536845 original size:17 final size:17
Alignment explanation
Indices: 36536823--36536856 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36536813 TCTGTGTAAA
* *
36536823 ATATTTTTTGTTTTTTG
1 ATATTTTCTGATTTTTG
36536840 ATATTTTCTGATTTTTG
1 ATATTTTCTGATTTTTG
36536857 GCAGATTTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.12, T:0.71
Consensus pattern (17 bp):
ATATTTTCTGATTTTTG
Found at i:36536916 original size:20 final size:20
Alignment explanation
Indices: 36536891--36536960 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 20
36536881 GGAAAAGCTG
36536891 TTTTTACATATATTAATAAA
1 TTTTTACATATATTAATAAA
* * *
36536911 TTTTTATATTTTTTAATAAA
1 TTTTTACATATATTAATAAA
* *
36536931 --TTT--ATATTTTAA-ATA
1 TTTTTACATATATTAATAAA
36536946 TTTTTACATATATTA
1 TTTTTACATATATTA
36536961 CAATGATTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
15 2 0.05
16 8 0.20
17 3 0.08
18 3 0.08
19 7 0.17
20 17 0.43
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTACATATATTAATAAA
Found at i:36536934 original size:18 final size:19
Alignment explanation
Indices: 36536903--36536940 Score: 60
Period size: 18 Copynumber: 2.0 Consensus size: 19
36536893 TTTACATATA
36536903 TTAATAAATTTTTATATTTT
1 TTAATAAA-TTTTATATTTT
36536923 TTAATAAA-TTTATATTTT
1 TTAATAAATTTTATATTTT
36536941 AAATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
20 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTAATAAATTTTATATTTT
Found at i:36538244 original size:27 final size:30
Alignment explanation
Indices: 36538177--36538250 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
36538167 TGTCCACCAT
* *
36538177 TTCAATAACCAACAAGCTTAAAACATTATAAA
1 TTCAATATCTAACAAGCTTAAAAC--TATAAA
36538209 TTCAATATCTAACAAGCTTAAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACTATAAA
36538237 -TCAATATCTAACAA
1 TTCAATATCTAACAA
36538251 ATTCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.35
28 2 0.05
29 2 0.05
32 22 0.55
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACTATAAA
Found at i:36538261 original size:27 final size:27
Alignment explanation
Indices: 36538210--36538264 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
36538200 CATTATAAAT
*
36538210 TCAATATCTAACAAGCTTAAAACATAA
1 TCAATATCTAACAAGATTAAAACATAA
*
36538237 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
36538264 T
1 T
36538265 AATTTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.27
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:36545850 original size:10 final size:11
Alignment explanation
Indices: 36545837--36545865 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
36545827 AGTTCAATCA
36545837 AGCTCAATT-T
1 AGCTCAATTCT
36545847 AGCTCAATTCT
1 AGCTCAATTCT
36545858 AGCTCAAT
1 AGCTCAAT
36545866 GAGCTCGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (11 bp):
AGCTCAATTCT
Found at i:36547538 original size:11 final size:12
Alignment explanation
Indices: 36547522--36547550 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
36547512 GAAATTACAC
36547522 AAAAAATT-GAA
1 AAAAAATTCGAA
36547533 AAAAAATTCGAA
1 AAAAAATTCGAA
36547545 AAAAAA
1 AAAAAA
36547551 GAAATTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (12 bp):
AAAAAATTCGAA
Found at i:36547568 original size:15 final size:16
Alignment explanation
Indices: 36547531--36547565 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
36547521 CAAAAAATTG
36547531 AAAAA-AAATTCGAAA
1 AAAAAGAAATTCGAAA
*
36547546 AAAAAGAAATTTGAAA
1 AAAAAGAAATTCGAAA
36547562 AAAA
1 AAAA
36547566 GAAGTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.14
Consensus pattern (16 bp):
AAAAAGAAATTCGAAA
Found at i:36548643 original size:17 final size:17
Alignment explanation
Indices: 36548616--36548648 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
36548606 AAAAAAAGTA
36548616 AAAAAGAAATTACAAAAG
1 AAAAAGAAATT-CAAAAG
36548634 AAAAAG-AATTCAAAA
1 AAAAAGAAATTCAAAA
36548649 AAGTAAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.73, C:0.06, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAAAGAAATTCAAAAG
Found at i:36548663 original size:30 final size:28
Alignment explanation
Indices: 36548595--36548693 Score: 78
Period size: 30 Copynumber: 3.5 Consensus size: 28
36548585 AAAAGAAATG
36548595 AGAGAAAAAGAAAAAAAAGTAAAAAAGA
1 AGAGAAAAAGAAAAAAAAGTAAAAAAGA
* * *
36548623 A-ATTACAAAAGAAAAAGAATTCAAAAAAGTA
1 AGA-GA-AAAAGAAAAAAAAGT-AAAAAAG-A
*
36548654 AGAGAAAAAGAAAAGAAAG-AAAAGAA-A
1 AGAGAAAAAGAAAAAAAAGTAAAA-AAGA
**
36548681 ATTGAAAAAGAAA
1 AGAGAAAAAGAAA
36548694 TTGAGATTGA
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
27 13 0.23
28 6 0.11
29 15 0.27
30 18 0.32
31 3 0.05
32 1 0.02
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.08
Consensus pattern (28 bp):
AGAGAAAAAGAAAAAAAAGTAAAAAAGA
Found at i:36548702 original size:18 final size:18
Alignment explanation
Indices: 36548681--36548715 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36548671 AGAAAAGAAA
36548681 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
36548699 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
36548716 AAGAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:36552547 original size:23 final size:23
Alignment explanation
Indices: 36552521--36552587 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
36552511 ACAGAGCACA
36552521 CACACTCCATGATTTTATTAACC
1 CACACTCCATGATTTTATTAACC
* * *
36552544 CACAC-CC-T-A---GA-GAACA
1 CACACTCCATGATTTTATTAACC
36552560 CACACTCCATGATTTTATTAACC
1 CACACTCCATGATTTTATTAACC
36552583 CACAC
1 CACAC
36552588 CCTAGAGAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 14
0.61 0.12 0.27
Matches are distributed among these distances:
16 8 0.26
17 3 0.10
18 1 0.03
19 1 0.03
20 1 0.03
21 1 0.03
22 3 0.10
23 13 0.42
ACGTcount: A:0.34, C:0.34, G:0.06, T:0.25
Consensus pattern (23 bp):
CACACTCCATGATTTTATTAACC
Found at i:36552561 original size:39 final size:39
Alignment explanation
Indices: 36552513--36552597 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 39
36552503 TATACCGAAC
*
36552513 AGAGCACACACACTCCATGATTTTATTAACCCACACCCT
1 AGAGAACACACACTCCATGATTTTATTAACCCACACCCT
36552552 AGAGAACACACACTCCATGATTTTATTAACCCACACCCT
1 AGAGAACACACACTCCATGATTTTATTAACCCACACCCT
36552591 AGAGAAC
1 AGAGAAC
36552598 CCCAATTTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.36, C:0.33, G:0.09, T:0.21
Consensus pattern (39 bp):
AGAGAACACACACTCCATGATTTTATTAACCCACACCCT
Found at i:36554955 original size:18 final size:18
Alignment explanation
Indices: 36554932--36554979 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
36554922 AGTTTTAATT
36554932 TTTATTTTCAATTTTA-A
1 TTTATTTTCAATTTTATA
*
36554949 GTTTATTTTCATTTTTATA
1 -TTTATTTTCAATTTTATA
*
36554968 TTTATGTTCAAT
1 TTTATTTTCAAT
36554980 AAGAGGGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (18 bp):
TTTATTTTCAATTTTATA
Done.