Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 314 of 356
Found at i:101863046 original size:17 final size:17
Alignment explanation
Indices: 101863016--101863048 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
101863006 TATTTGAACT
101863016 AATTGATAACATTAAAA
1 AATTGATAACATTAAAA
101863033 AATT-ATAACGATTAAA
1 AATTGATAAC-ATTAAA
101863049 TTATGTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (17 bp):
AATTGATAACATTAAAA
Found at i:101864741 original size:20 final size:20
Alignment explanation
Indices: 101864718--101864756 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
101864708 ATCACCTAGT
101864718 TTTTATTTCAATCACTCAAA
1 TTTTATTTCAATCACTCAAA
*
101864738 TTTTATTTCAGTCACTCAA
1 TTTTATTTCAATCACTCAA
101864757 CTTTCAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.46
Consensus pattern (20 bp):
TTTTATTTCAATCACTCAAA
Found at i:101864780 original size:30 final size:31
Alignment explanation
Indices: 101864746--101864806 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
101864736 AATTTTATTT
* *
101864746 CAGTCACTCAAC-TT-TCAAAAAGTTACAAAA
1 CAGTCACT-AACGTTATAAAAAAGTGACAAAA
101864776 CAGTCACTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTAACGTTATAAAAAAGTGACAAAA
101864807 TGTAGCAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 3 0.11
30 10 0.37
31 14 0.52
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.21
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAAAGTGACAAAA
Found at i:101865399 original size:24 final size:23
Alignment explanation
Indices: 101865359--101865418 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
101865349 CACTGATTCT
* *
101865359 GATTTTGATTTCAATTTTGATCTC
1 GATTTAGATTT-AATTTAGATCTC
* *
101865383 GATTTAGATTTATATTTAGATTTG
1 GATTTAGATTTA-ATTTAGATCTC
*
101865407 GATTTCGATTTA
1 GATTTAGATTTA
101865419 GGGTAATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 1 0.03
24 29 0.97
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.53
Consensus pattern (23 bp):
GATTTAGATTTAATTTAGATCTC
Found at i:101865429 original size:16 final size:16
Alignment explanation
Indices: 101865408--101865449 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
101865398 TTAGATTTGG
*
101865408 ATTTCGATTTAGGGTA
1 ATTTCGATTTAGAGTA
*
101865424 ATTTCGATTTAGAGTT
1 ATTTCGATTTAGAGTA
101865440 ATTTCGATTT
1 ATTTCGATTT
101865450 GTATGACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.24, C:0.07, G:0.19, T:0.50
Consensus pattern (16 bp):
ATTTCGATTTAGAGTA
Found at i:101865684 original size:62 final size:62
Alignment explanation
Indices: 101865618--101865740 Score: 185
Period size: 62 Copynumber: 2.0 Consensus size: 62
101865608 ACCTTCTTTA
*
101865618 TTGTACTGGTTATTGTCTGCCATGCGCATGACA-AAAATGGTTGTGTTTGTATTAAATTATTT
1 TTGTACTGGTTATTGTCTGCCATGCACATGACAGAAAATGGTT-TGTTTGTATTAAATTATTT
* * * *
101865680 TTGTATTGGTTGTTGTCTGCCATGTACATGACAGAAATTGGTTTGTTTGTATTAAATTATT
1 TTGTACTGGTTATTGTCTGCCATGCACATGACAGAAAATGGTTTGTTTGTATTAAATTATT
101865741 GGGTATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 47 0.85
63 8 0.15
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.46
Consensus pattern (62 bp):
TTGTACTGGTTATTGTCTGCCATGCACATGACAGAAAATGGTTTGTTTGTATTAAATTATTT
Found at i:101865949 original size:20 final size:20
Alignment explanation
Indices: 101865924--101865962 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
101865914 GGAGTTAATT
101865924 TAGATGGTTTAAACATGGAG
1 TAGATGGTTTAAACATGGAG
101865944 TAGATGGTTTAAACATGGA
1 TAGATGGTTTAAACATGGA
101865963 TGGTATAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.31
Consensus pattern (20 bp):
TAGATGGTTTAAACATGGAG
Found at i:101867648 original size:40 final size:40
Alignment explanation
Indices: 101867585--101867686 Score: 159
Period size: 40 Copynumber: 2.5 Consensus size: 40
101867575 TTAGTGAATG
* * *
101867585 TTTTTTAATATGCATGCACTGATTGTTTGTGTGTTGACTA
1 TTTTTTAATATGCATGCAGTGATTGATGGTGTGTTGACTA
* *
101867625 TTTTTTAATATGCATACAGTGATTGATGGTGTGTTGCCTA
1 TTTTTTAATATGCATGCAGTGATTGATGGTGTGTTGACTA
101867665 TTTTTTAATATGCATGCAGTGA
1 TTTTTTAATATGCATGCAGTGA
101867687 GTATTTTTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.47
Consensus pattern (40 bp):
TTTTTTAATATGCATGCAGTGATTGATGGTGTGTTGACTA
Found at i:101867718 original size:25 final size:27
Alignment explanation
Indices: 101867665--101867721 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
101867655 GTGTTGCCTA
101867665 TTTTT-TAATATGCATGCAGTGAGTAT
1 TTTTTATAATATGCATGCAGTGAGTAT
*
101867691 TTTTTATAATATGCATGTAGTGA-T-T
1 TTTTTATAATATGCATGCAGTGAGTAT
101867716 TTTTTA
1 TTTTTA
101867722 GGGGTGTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 7 0.24
26 6 0.21
27 16 0.55
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (27 bp):
TTTTTATAATATGCATGCAGTGAGTAT
Found at i:101868463 original size:21 final size:22
Alignment explanation
Indices: 101868410--101868463 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
101868400 GTATCCCAAC
*
101868410 TCAACAGGCTGCCCCAACTCAG
1 TCAACAAGCTGCCCCAACTCAG
* * *
101868432 TTACCTA-CTGCCCCAACTCA-
1 TCAACAAGCTGCCCCAACTCAG
101868452 TCAACAAGCTGC
1 TCAACAAGCTGC
101868464 TCTAAGAGAA
Statistics
Matches: 24, Mismatches: 7, Indels: 3
0.71 0.21 0.09
Matches are distributed among these distances:
20 4 0.17
21 17 0.71
22 3 0.12
ACGTcount: A:0.28, C:0.41, G:0.13, T:0.19
Consensus pattern (22 bp):
TCAACAAGCTGCCCCAACTCAG
Found at i:101870108 original size:12 final size:12
Alignment explanation
Indices: 101870091--101870117 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
101870081 TTATTTATTC
101870091 ATTATCATTGTT
1 ATTATCATTGTT
101870103 ATTATCATTGTT
1 ATTATCATTGTT
101870115 ATT
1 ATT
101870118 TAAATGGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (12 bp):
ATTATCATTGTT
Found at i:101870347 original size:34 final size:34
Alignment explanation
Indices: 101870304--101870382 Score: 140
Period size: 34 Copynumber: 2.3 Consensus size: 34
101870294 ACTGTTTCTT
101870304 TCATGTCTATTTTTTATAATACTATTATTATAATA
1 TCAT-TCTATTTTTTATAATACTATTATTATAATA
101870339 TCATTCTATTTTTTATAATACTATTATTATAATA
1 TCATTCTATTTTTTATAATACTATTATTATAATA
*
101870373 TCATTTTATT
1 TCATTCTATT
101870383 ATTATCATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
34 39 0.91
35 4 0.09
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (34 bp):
TCATTCTATTTTTTATAATACTATTATTATAATA
Found at i:101870421 original size:13 final size:13
Alignment explanation
Indices: 101870403--101870427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101870393 CTAATATATA
101870403 TATATATATATCG
1 TATATATATATCG
101870416 TATATATATATC
1 TATATATATATC
101870428 ATCTACATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (13 bp):
TATATATATATCG
Found at i:101870533 original size:21 final size:22
Alignment explanation
Indices: 101870507--101870575 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 22
101870497 CTTATTATTA
101870507 TTATTA-ATAT-TAGTATATGTT
1 TTATTATATATATAGTATATG-T
* *
101870528 TTATTATATATGTA-TATATCT
1 TTATTATATATATAGTATATGT
*
101870549 TTAATATATATATAGGTATATGT
1 TTATTATATATATA-GTATATGT
101870572 TTAT
1 TTAT
101870576 GTAATATTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 19 0.49
22 9 0.23
23 11 0.28
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.55
Consensus pattern (22 bp):
TTATTATATATATAGTATATGT
Found at i:101870653 original size:24 final size:24
Alignment explanation
Indices: 101870625--101870674 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
101870615 CCAATATGTA
*
101870625 TATATTATGTAAATATTTTAATAT
1 TATATTATATAAATATTTTAATAT
** *
101870649 TATATTATATATGTATTTTTATAT
1 TATATTATATAAATATTTTAATAT
101870673 TA
1 TA
101870675 CGTATATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (24 bp):
TATATTATATAAATATTTTAATAT
Found at i:101870707 original size:23 final size:24
Alignment explanation
Indices: 101870638--101870708 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
101870628 ATTATGTAAA
* *
101870638 TATTTTAATATTATATTATATATG
1 TATTTTAATATTGTATTATATATC
*
101870662 TATTTTTATATTACGTA-TATATATC
1 TATTTTAATATT--GTATTATATATC
*
101870687 T-TTTTAATATTGTATTTTATAT
1 TATTTTAATATTGTATTATATAT
101870709 ATGTCATGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 3 0.08
23 6 0.15
24 20 0.51
25 8 0.21
26 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (24 bp):
TATTTTAATATTGTATTATATATC
Found at i:101870721 original size:36 final size:38
Alignment explanation
Indices: 101870655--101870731 Score: 88
Period size: 36 Copynumber: 2.1 Consensus size: 38
101870645 ATATTATATT
* *
101870655 ATATATGTATTTTTATATTACGTATATATATCTTTTTA
1 ATATATGTATTTTTATATTACGTATATATATATTTCTA
* *
101870693 ATAT-TGTA-TTTTATA-TATGTCATGTATATATTTCTA
1 ATATATGTATTTTTATATTACGT-ATATATATATTTCTA
101870729 ATA
1 ATA
101870732 CTATATTACA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
35 4 0.12
36 22 0.65
37 4 0.12
38 4 0.12
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.56
Consensus pattern (38 bp):
ATATATGTATTTTTATATTACGTATATATATATTTCTA
Found at i:101870840 original size:23 final size:21
Alignment explanation
Indices: 101870805--101870867 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
101870795 TATTTTCAAC
101870805 ACTATATTATGTACATACTTTT
1 ACTATATTATGTACATA-TTTT
**
101870827 ACTATCATTATGTATTTATTTT
1 ACTAT-ATTATGTACATATTTT
*
101870849 AATATA-TATGTACATATTT
1 ACTATATTATGTACATATTT
101870868 ATGTAGTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 11 0.31
21 1 0.03
22 13 0.37
23 10 0.29
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (21 bp):
ACTATATTATGTACATATTTT
Found at i:101870866 original size:20 final size:21
Alignment explanation
Indices: 101870807--101870867 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
101870797 TTTTCAACAC
*
101870807 TATATTATGTACATACTTTTAC
1 TATATTATGTACATA-TTTTAA
**
101870829 TATCATTATGTATTTATTTTAA
1 TAT-ATTATGTACATATTTTAA
101870851 TATA-TATGTACATATTT
1 TATATTATGTACATATTT
101870868 ATGTAGTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 11 0.33
21 1 0.03
22 11 0.33
23 10 0.30
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (21 bp):
TATATTATGTACATATTTTAA
Found at i:101883218 original size:14 final size:14
Alignment explanation
Indices: 101883199--101883234 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
101883189 CGTCGAGCTA
* *
101883199 TTTTCAAATTTTGT
1 TTTTCAAATTCTAT
101883213 TTTTCAAATTCTAT
1 TTTTCAAATTCTAT
101883227 TTTTCAAA
1 TTTTCAAA
101883235 AATCAACTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.28, C:0.11, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTTCAAATTCTAT
Found at i:101883303 original size:89 final size:86
Alignment explanation
Indices: 101883143--101883766 Score: 401
Period size: 90 Copynumber: 7.4 Consensus size: 86
101883133 TGCTTTTCAA
* * * * * *
101883143 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTCACGTCGAGCTATTTTCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTC-AAT
*
101883208 TTTGTTTTTCAAATTCTATTTTTC
65 TCTGTTTTTC-AATT-TATTTTTC
* *
101883232 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTCTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTCAATT
101883297 CCTGTTTTTC-A---A------
66 -CTGTTTTTCAATTTATTTTTC
* * * **
101883309 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGGCTCAGG-TCTCACGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCCAAGGTATTTTCAA-
* *
101883373 TTCTGCTTTTCACTTTATGTTTGTC
64 TTCTGTTTTTCAATTTAT-TTT-TC
* *
101883398 AAAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTTAA-
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTCAAT
* **
101883462 ------TTTC---TGA-TCGTC
65 TCTGTTTTTCAATTTATTTTTC
* ** * ** *
101883474 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCCGCTCACATGCTGAGGTATTTTCAGTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTCA-AT
*
101883539 TTTGTTTTTTCAATTTATATTTTTC
65 TCTG-TTTTTCAA-TT-TATTTTTC
* * * * * *
101883564 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTC-AAT
* *
101883629 TCTGCTTTTC-----A-GTTTC
65 TCTGTTTTTCAATTTATTTTTC
* * * * ** *** *
101883645 -AAAACCAACTCATATTGCGAGAGGTGAGTTAAACTTTGGCTCACGTGTTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTCAA-T
*
101883709 TCTGTTTTT-AATGTCTGTTTTT-
65 TCTGTTTTTCAAT-T-TATTTTTC
* * **
101883731 AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGC
101883767 TCAAGATCAC
Statistics
Matches: 421, Mismatches: 70, Indels: 89
0.73 0.12 0.15
Matches are distributed among these distances:
75 54 0.13
76 2 0.00
77 62 0.15
78 4 0.01
79 4 0.01
80 59 0.14
81 5 0.01
82 5 0.01
83 1 0.00
84 4 0.01
87 6 0.01
88 30 0.07
89 69 0.16
90 115 0.27
91 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (86 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTCAATT
CTGTTTTTCAATTTATTTTTC
Found at i:101883340 original size:166 final size:165
Alignment explanation
Indices: 101883068--101883766 Score: 708
Period size: 165 Copynumber: 4.2 Consensus size: 165
101883058 TCTGTCTTCA
* ** ***
101883068 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC-T--CAAGACACGTTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACACGCCAAGGTATTTTCAAT
101883130 TTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTCACGTC-G
65 TTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCTCACGTCTG
*
101883194 AGCTATTTTCAAATTTTGTTTTTCAAATTCTATTTTTC
129 AGGTATTTTCAAATTTTGTTTTTCAAATT-TATTTTTC
* *
101883232 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTCTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTCAATT
* * *
101883297 CCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGGCTCAGGTCTCACG-CTGA
66 TCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCTCACGTCTGA
* *
101883361 GGTATTTTC-AATTTCTGCTTTTC-ACTTTATGTTTGTC
130 GGTATTTTCAAATTT-TGTTTTTCAAATTTAT-TTT-TC
* *
101883398 AAAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTTAAT
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTCAAT
* ** * * *
101883463 TTCTGATCGTC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCCG-CTCACATGCTG
65 TTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCTCACGT-CTG
** *
101883525 AGGTATTTTCAGTTTTTGTTTTTTCAATTTATATTTTTC
129 AGGTATTTTCAAATTTTG-TTTTTCAAATT-TATTTTTC
* * * * * **
101883564 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTCAATT
** * * * * * *
101883629 TCTGCTTTTCAGTTTCAAAACCAACTCATATTGCGAGAGGTGAGTTAAACTTTGG-CTCACGTGT
66 TCTGCTTTTCA---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCTCACGT-C
* *
101883693 TGAGCTATTTTC-AATTTCTGTTTTT--AATGTCTGTTTTT-
127 TGAGGTATTTTCAAATTT-TGTTTTTCAAAT-T-TATTTTTC
* * **
101883731 AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGC
101883767 TCAAGATCAC
Statistics
Matches: 450, Mismatches: 63, Indels: 40
0.81 0.11 0.07
Matches are distributed among these distances:
163 5 0.01
164 38 0.08
165 127 0.28
166 103 0.23
167 79 0.18
168 38 0.08
169 8 0.02
170 52 0.12
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (165 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTCAATT
TCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCTCACGTCTGAG
GTATTTTCAAATTTTGTTTTTCAAATTTATTTTTC
Found at i:101883364 original size:77 final size:77
Alignment explanation
Indices: 101883232--101883384 Score: 209
Period size: 77 Copynumber: 2.0 Consensus size: 77
101883222 TCTATTTTTC
*
101883232 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTCTCAATT
1 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTAGGCTCACACGCCAAGGTATTCTCAATT
*
101883297 CCTGTTTTTCAA
66 CCTGCTTTTCAA
* * * ** *
101883309 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGGCTCAGG-TCTCACGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCT-AGGCTCACACGCCAAGGTATTCTCAAT
*
101883373 TTCTGCTTTTCA
65 TCCTGCTTTTCA
101883385 CTTTATGTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
77 64 0.97
78 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (77 bp):
AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTAGGCTCACACGCCAAGGTATTCTCAATT
CCTGCTTTTCAA
Found at i:101885550 original size:3 final size:3
Alignment explanation
Indices: 101885544--101885620 Score: 57
Period size: 3 Copynumber: 24.7 Consensus size: 3
101885534 ATTGTCACAG
* * * *
101885544 TTA TTA TTA TTTA TTTA TTCA TTA TCA TTG TTA TTA TCA TTG TTA TT-
1 TTA TTA TTA -TTA -TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
101885591 TACA TGA TTA TTA TTA TTA TTA TTA TTA TT
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TT
101885621 TACGTTACCA
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
2 1 0.02
3 47 0.80
4 11 0.19
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:101885697 original size:22 final size:21
Alignment explanation
Indices: 101885661--101885706 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
101885651 ATTCTTATCT
101885661 TTACTTTTATCATTAACATTA
1 TTACTTTTATCATTAACATTA
* **
101885682 TTACTATTTATTATTATTATTA
1 TTACT-TTTATCATTAACATTA
101885704 TTA
1 TTA
101885707 TATACATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.59
Consensus pattern (21 bp):
TTACTTTTATCATTAACATTA
Found at i:101885895 original size:23 final size:23
Alignment explanation
Indices: 101885846--101885935 Score: 67
Period size: 24 Copynumber: 3.8 Consensus size: 23
101885836 CATTTCTAAT
* * *
101885846 ATATAT-ATCGTATATGTTTATAT
1 ATATATCAT-GTATATTTTTTTAA
101885869 ATATATCATGTATATTTTTTTAA
1 ATATATCATGTATATTTTTTTAA
*
101885892 ATATTATTA-GTTATATTTTTTTATA
1 ATA-TATCATG-TATATTTTTTTA-A
* * *
101885917 CTATTTCATATATATTTTT
1 ATATATCATGTATATTTTT
101885936 ATATTATCCT
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
23 21 0.39
24 30 0.56
25 3 0.06
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (23 bp):
ATATATCATGTATATTTTTTTAA
Found at i:101885930 original size:24 final size:22
Alignment explanation
Indices: 101885856--101885939 Score: 71
Period size: 24 Copynumber: 3.7 Consensus size: 22
101885846 ATATATATCG
* * *
101885856 TATATGTTTATATATATATCAT
1 TATATTTTTTTATATATTTCAT
* *
101885878 GTATATTTTTTTAAATATTATTAGT
1 -TATATTTTTTTATATATT-TCA-T
101885903 TATATTTTTTTATACTATTTCA-
1 TATATTTTTTTATA-TATTTCAT
*
101885925 TATATATTTTTATAT
1 TATATTTTTTTATAT
101885940 TATCCTTATT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.02
22 13 0.26
23 14 0.28
24 17 0.34
25 5 0.10
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (22 bp):
TATATTTTTTTATATATTTCAT
Found at i:101885980 original size:21 final size:22
Alignment explanation
Indices: 101885954--101886022 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 22
101885944 CTTATTATTA
101885954 TTATTA-ATAT-TAGTATATGTT
1 TTATTATATATATAGTATATG-T
* *
101885975 TTATTATATATGTA-TATATCT
1 TTATTATATATATAGTATATGT
*
101885996 TTAATATATATATAGGTATATGT
1 TTATTATATATATA-GTATATGT
101886019 TTAT
1 TTAT
101886023 GTAATATTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 19 0.49
22 9 0.23
23 11 0.28
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.55
Consensus pattern (22 bp):
TTATTATATATATAGTATATGT
Found at i:101886114 original size:24 final size:23
Alignment explanation
Indices: 101886087--101886151 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 23
101886077 TTATGTAAAT
101886087 ATTTTAATATTATATTATATATGC
1 ATTTTAATATTATATTATATAT-C
*
101886111 ATTTTTTATATTACGTA-TATATATC
1 A-TTTTAATATTA--TATTATATATC
* *
101886136 TTTTTAATATTGTATT
1 ATTTTAATATTATATT
101886152 TTTATATATG
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
22 2 0.06
23 1 0.03
24 10 0.30
25 11 0.33
26 7 0.21
27 2 0.06
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (23 bp):
ATTTTAATATTATATTATATATC
Found at i:101886292 original size:23 final size:21
Alignment explanation
Indices: 101886257--101886319 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
101886247 TATTTTCAAC
101886257 ACTATATTATGTACATACTTTT
1 ACTATATTATGTACATA-TTTT
**
101886279 ACTATCATTATGTATTTATTTT
1 ACTAT-ATTATGTACATATTTT
*
101886301 AATATA-TATGTACATATTT
1 ACTATATTATGTACATATTT
101886320 ATGTAGTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 11 0.31
21 1 0.03
22 13 0.37
23 10 0.29
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (21 bp):
ACTATATTATGTACATATTTT
Found at i:101886318 original size:20 final size:21
Alignment explanation
Indices: 101886259--101886319 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
101886249 TTTTCAACAC
*
101886259 TATATTATGTACATACTTTTAC
1 TATATTATGTACATA-TTTTAA
**
101886281 TATCATTATGTATTTATTTTAA
1 TAT-ATTATGTACATATTTTAA
101886303 TATA-TATGTACATATTT
1 TATATTATGTACATATTT
101886320 ATGTAGTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 11 0.33
21 1 0.03
22 11 0.33
23 10 0.30
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (21 bp):
TATATTATGTACATATTTTAA
Found at i:101887470 original size:36 final size:36
Alignment explanation
Indices: 101887423--101887514 Score: 157
Period size: 36 Copynumber: 2.6 Consensus size: 36
101887413 TAACATATGT
*
101887423 TAAGCAACAATATACAAGTAGCCATGTATACCAACA
1 TAAGCAACAATATACAAGCAGCCATGTATACCAACA
*
101887459 TAAGCAACAATATACCAGCAGCCATGTATACCAACA
1 TAAGCAACAATATACAAGCAGCCATGTATACCAACA
*
101887495 TAAGCAACAATATACCAGCA
1 TAAGCAACAATATACAAGCA
101887515 ACAATATTAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.47, C:0.25, G:0.11, T:0.17
Consensus pattern (36 bp):
TAAGCAACAATATACAAGCAGCCATGTATACCAACA
Found at i:101887474 original size:20 final size:20
Alignment explanation
Indices: 101887449--101887511 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
101887439 AGTAGCCATG
101887449 TATACCAACATAAGCAACAA
1 TATACCAACATAAGCAACAA
* *
101887469 TATACCAGC---AGC--CATG
1 TATACCAACATAAGCAACA-A
101887485 TATACCAACATAAGCAACAA
1 TATACCAACATAAGCAACAA
101887505 TATACCA
1 TATACCA
101887512 GCAACAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
15 2 0.06
16 8 0.24
17 3 0.09
19 3 0.09
20 15 0.45
21 2 0.06
ACGTcount: A:0.48, C:0.27, G:0.08, T:0.17
Consensus pattern (20 bp):
TATACCAACATAAGCAACAA
Found at i:101887534 original size:36 final size:36
Alignment explanation
Indices: 101887423--101887535 Score: 102
Period size: 36 Copynumber: 3.1 Consensus size: 36
101887413 TAACATATGT
* * * * * * *
101887423 TAAGCAACAATATACAAGTAGCCATGTATACCAACA
1 TAAGCAACAATATACCAGCAACAATATATACAAAAA
* * * * *
101887459 TAAGCAACAATATACCAGCAGCCATGTATACCAACA
1 TAAGCAACAATATACCAGCAACAATATATACAAAAA
101887495 TAAGCAACAATATACCAGCAACAATAT-TACAAAAAA
1 TAAGCAACAATATACCAGCAACAATATATAC-AAAAA
101887531 TAAGC
1 TAAGC
101887536 TGATTTTCAA
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 3 0.04
36 66 0.96
ACGTcount: A:0.50, C:0.23, G:0.10, T:0.18
Consensus pattern (36 bp):
TAAGCAACAATATACCAGCAACAATATATACAAAAA
Found at i:101889579 original size:29 final size:29
Alignment explanation
Indices: 101889545--101889608 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
101889535 AAATAATTTG
*
101889545 ATCTTTATCCAGCCAAATTCAAATCTTCA
1 ATCTTTATCCACCCAAATTCAAATCTTCA
*
101889574 ATCTTTATCCACCCAACTTCAAATCTTCA
1 ATCTTTATCCACCCAAATTCAAATCTTCA
101889603 ATCTTT
1 ATCTTT
101889609 CAATCTACCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.31, C:0.30, G:0.02, T:0.38
Consensus pattern (29 bp):
ATCTTTATCCACCCAAATTCAAATCTTCA
Found at i:101891160 original size:25 final size:23
Alignment explanation
Indices: 101891105--101891154 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
101891095 ATTTGTTTTT
101891105 GTTATATAT-A-TATATTTAGTA
1 GTTATATATGATTATATTTAGTA
*
101891126 GTTATATATGATTATATTTAGTT
1 GTTATATATGATTATATTTAGTA
101891149 GTTATA
1 GTTATA
101891155 AATATGTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 9 0.35
22 1 0.04
23 16 0.62
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (23 bp):
GTTATATATGATTATATTTAGTA
Found at i:101892422 original size:15 final size:17
Alignment explanation
Indices: 101892386--101892428 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
101892376 TTAGTTGGGC
101892386 TGTGTGGGCAACACGAG
1 TGTGTGGGCAACACGAG
* *
101892403 TGTGTGGGCCACACGGG
1 TGTGTGGGCAACACGAG
*
101892420 TGTATGGGC
1 TGTGTGGGC
101892429 CATTTTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.16, C:0.19, G:0.44, T:0.21
Consensus pattern (17 bp):
TGTGTGGGCAACACGAG
Found at i:101893135 original size:23 final size:24
Alignment explanation
Indices: 101893105--101893149 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
101893095 TGGGTAGGAA
101893105 GTTTTCTAAAAAAT-CTGCATTAT
1 GTTTTCTAAAAAATACTGCATTAT
*
101893128 GTTTTCTAAAAAGTACTGCATT
1 GTTTTCTAAAAAATACTGCATT
101893150 GGCATAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.42
Consensus pattern (24 bp):
GTTTTCTAAAAAATACTGCATTAT
Found at i:101903684 original size:86 final size:86
Alignment explanation
Indices: 101903539--101903710 Score: 344
Period size: 86 Copynumber: 2.0 Consensus size: 86
101903529 ATCATTTGCT
101903539 AATAATCTACCTGTATTTTGGAAAAAAATTGTGTCAAAAACAGCTTTGGACCACCCATTCATTCC
1 AATAATCTACCTGTATTTTGGAAAAAAATTGTGTCAAAAACAGCTTTGGACCACCCATTCATTCC
101903604 TTCACTAATAAAAAGCATGGG
66 TTCACTAATAAAAAGCATGGG
101903625 AATAATCTACCTGTATTTTGGAAAAAAATTGTGTCAAAAACAGCTTTGGACCACCCATTCATTCC
1 AATAATCTACCTGTATTTTGGAAAAAAATTGTGTCAAAAACAGCTTTGGACCACCCATTCATTCC
101903690 TTCACTAATAAAAAGCATGGG
66 TTCACTAATAAAAAGCATGGG
101903711 TATATATGAA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (86 bp):
AATAATCTACCTGTATTTTGGAAAAAAATTGTGTCAAAAACAGCTTTGGACCACCCATTCATTCC
TTCACTAATAAAAAGCATGGG
Found at i:101911061 original size:12 final size:12
Alignment explanation
Indices: 101911024--101911083 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
101911014 ACAAAATAAA
*
101911024 ACAAATAATAAGT
1 ACAAA-AATAATT
101911037 ACTAAAAATTAATT
1 AC-AAAAA-TAATT
101911051 ACAAAAATAATT
1 ACAAAAATAATT
* *
101911063 A-ATAAATAACT
1 ACAAAAATAATT
101911074 ACAAAAATAA
1 ACAAAAATAA
101911084 ATTTACCTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 9 0.22
12 13 0.32
13 9 0.22
14 9 0.22
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (12 bp):
ACAAAAATAATT
Found at i:101911186 original size:11 final size:12
Alignment explanation
Indices: 101911166--101911191 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
101911156 AACAATAAAC
101911166 ACTAAAAAAATT
1 ACTAAAAAAATT
101911178 ACTAAAAAAATT
1 ACTAAAAAAATT
101911190 AC
1 AC
101911192 CTTTCAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (12 bp):
ACTAAAAAAATT
Found at i:101914038 original size:13 final size:13
Alignment explanation
Indices: 101914022--101914046 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101914012 TAAATTTACC
101914022 ATAATAATTAAAA
1 ATAATAATTAAAA
101914035 ATAATAATTAAA
1 ATAATAATTAAA
101914047 TGTCAAACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAATTAAAA
Found at i:101917125 original size:17 final size:18
Alignment explanation
Indices: 101917092--101917125 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
101917082 AATAAATCTA
101917092 ACTAAAACTCTTAATTAT
1 ACTAAAACTCTTAATTAT
*
101917110 ACTAGAACTC-TAATTA
1 ACTAAAACTCTTAATTA
101917126 ACCAAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.35
Consensus pattern (18 bp):
ACTAAAACTCTTAATTAT
Found at i:101921835 original size:20 final size:20
Alignment explanation
Indices: 101921801--101921857 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
101921791 TTAATCATTT
*
101921801 TATTATTAATATTTTTATAG
1 TATTATTAATATTTTTATAA
101921821 TATTAATTAAT-TTTTTATAA
1 TATT-ATTAATATTTTTATAA
101921841 TATT-TT-ATATTTTTATA
1 TATTATTAATATTTTTATA
101921858 TTTCATGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
17 2 0.06
18 10 0.29
20 16 0.47
21 6 0.18
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TATTATTAATATTTTTATAA
Found at i:101924399 original size:13 final size:14
Alignment explanation
Indices: 101924379--101924409 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
101924369 ATAAATTTTT
*
101924379 ATTTTTTAAAATTA
1 ATTTTTAAAAATTA
101924393 ATTTTTAAAAATTA
1 ATTTTTAAAAATTA
101924407 ATT
1 ATT
101924410 AATTAGATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTTAAAAATTA
Found at i:101926252 original size:8 final size:8
Alignment explanation
Indices: 101926239--101926263 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
101926229 ACTGACATTC
101926239 ATCGGCAA
1 ATCGGCAA
101926247 ATCGGCAA
1 ATCGGCAA
101926255 ATCGGCAA
1 ATCGGCAA
101926263 A
1 A
101926264 GGTTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.12
Consensus pattern (8 bp):
ATCGGCAA
Found at i:101932168 original size:16 final size:16
Alignment explanation
Indices: 101932149--101932201 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
101932139 AGCCTTTGGT
*
101932149 TATATTTATTTTAAAA
1 TATATTTATATTAAAA
101932165 TATATTTATATTAAAA
1 TATATTTATATTAAAA
*
101932181 T-TAGTTTACATTAAAA
1 TATA-TTTATATTAAAA
101932197 -ATATT
1 TATATT
101932202 CAAAAATATG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 4 0.12
16 29 0.88
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
TATATTTATATTAAAA
Found at i:101942018 original size:26 final size:30
Alignment explanation
Indices: 101941957--101942020 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 30
101941947 GCCCATTTTG
101941957 TTTATTTTTCATTTTTTTATTACAAATTAAT
1 TTTATTTTTCATTTTTTTATTA-AAATTAAT
*
101941988 CTTATTTTTCA-TTTTTTA-T-AAA-TAAT
1 TTTATTTTTCATTTTTTTATTAAAATTAAT
101942014 TTTATTT
1 TTTATTT
101942021 CTATTATTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 10 0.32
27 3 0.10
29 1 0.03
30 7 0.23
31 10 0.32
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (30 bp):
TTTATTTTTCATTTTTTTATTAAAATTAAT
Found at i:101945000 original size:6 final size:6
Alignment explanation
Indices: 101944968--101944997 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
101944958 AATCCCCAAA
*
101944968 GGGTGG GGGTGG GGGTGG GGGTGG TGGTGG
1 GGGTGG GGGTGG GGGTGG GGGTGG GGGTGG
101944998 TGGGAATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.80, T:0.20
Consensus pattern (6 bp):
GGGTGG
Found at i:101945148 original size:12 final size:12
Alignment explanation
Indices: 101945133--101945214 Score: 103
Period size: 12 Copynumber: 6.8 Consensus size: 12
101945123 TAGATGGAAG
*
101945133 TGATGATGATTT
1 TGATGATGAGTT
101945145 TGATGATGAGTT
1 TGATGATGAGTT
* *
101945157 CGATGATGAATT
1 TGATGATGAGTT
101945169 TGATGATGAGTT
1 TGATGATGAGTT
*
101945181 TGATGATGA-TGA
1 TGATGATGAGT-T
*
101945193 AGATGATGAGTT
1 TGATGATGAGTT
101945205 TGATGATGAG
1 TGATGATGAG
101945215 GAATTTGGTC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
11 1 0.02
12 57 0.97
13 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.32, T:0.38
Consensus pattern (12 bp):
TGATGATGAGTT
Found at i:101945161 original size:24 final size:24
Alignment explanation
Indices: 101945133--101945213 Score: 117
Period size: 24 Copynumber: 3.4 Consensus size: 24
101945123 TAGATGGAAG
101945133 TGATGATGATTTTGATGATGAGTT
1 TGATGATGATTTTGATGATGAGTT
* *
101945157 CGATGATGAATTTGATGATGAGTT
1 TGATGATGATTTTGATGATGAGTT
***
101945181 TGATGATGATGAAGATGATGAGTT
1 TGATGATGATTTTGATGATGAGTT
101945205 TGATGATGA
1 TGATGATGA
101945214 GGAATTTGGT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.30, C:0.01, G:0.31, T:0.38
Consensus pattern (24 bp):
TGATGATGATTTTGATGATGAGTT
Found at i:101945895 original size:30 final size:30
Alignment explanation
Indices: 101945830--101945915 Score: 102
Period size: 30 Copynumber: 2.8 Consensus size: 30
101945820 CGGTAAGAAT
* *
101945830 ATGGGGCAGATGGGCCAAATGGGTGGTCAG
1 ATGGGTCACATGGGCCAAATGGGTGGTCAG
101945860 ATGGGTCACATGGGTCC-AATGGGTGGTCAG
1 ATGGGTCACATGGG-CCAAATGGGTGGTCAG
*
101945890 ATGGGTTATAACATGGGCCAAATGGG
1 ATGGG---TCACATGGGCCAAATGGG
101945916 AAACCATCCG
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
30 30 0.62
31 2 0.04
32 2 0.04
33 14 0.29
ACGTcount: A:0.24, C:0.14, G:0.41, T:0.21
Consensus pattern (30 bp):
ATGGGTCACATGGGCCAAATGGGTGGTCAG
Found at i:101948853 original size:15 final size:15
Alignment explanation
Indices: 101948833--101948912 Score: 65
Period size: 15 Copynumber: 5.3 Consensus size: 15
101948823 TTTTGGTAAT
*
101948833 TTGAAAAATTAAATA
1 TTGAAAAATCAAATA
*
101948848 TTGAAAAATCAATTA
1 TTGAAAAATCAAATA
*
101948863 -TGAAAAATCAAGTA
1 TTGAAAAATCAAATA
* * *
101948877 ATGAAAGATTAAATA
1 TTGAAAAATCAAATA
*
101948892 TTAAAAAAAATC-AATA
1 TT--GAAAAATCAAATA
101948908 TTGAA
1 TTGAA
101948913 TTTAAATTAG
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
14 15 0.29
15 25 0.49
16 6 0.12
17 5 0.10
ACGTcount: A:0.59, C:0.04, G:0.09, T:0.29
Consensus pattern (15 bp):
TTGAAAAATCAAATA
Found at i:101956635 original size:50 final size:50
Alignment explanation
Indices: 101956560--101956735 Score: 248
Period size: 50 Copynumber: 3.5 Consensus size: 50
101956550 CCATGGCAAT
*
101956560 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
101956610 AAGTGATAAGT-AGTAGCTTCGGCTACACTCATCTGATCAAGGA-AAGTGA
1 AAGTGATAAGTGA-TAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
101956659 AAGTGATAAGTGATAGCTTCTGCTACACCTATCTGATCAGGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
101956709 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
101956736 CTGATCAGTG
Statistics
Matches: 111, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
49 43 0.39
50 45 0.41
51 23 0.21
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:101956921 original size:31 final size:31
Alignment explanation
Indices: 101956711--101956913 Score: 361
Period size: 31 Copynumber: 6.5 Consensus size: 31
101956701 ACAAATGACA
* *
101956711 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
*
101956742 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
101956773 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
101956804 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
101956835 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
101956866 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
* *
101956897 AGTGAATAGTGGTAGCT
1 AGTGAAAAATGGTAGCT
101956914 TCAGCTACAA
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 168 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (31 bp):
AGTGAAAAATGGTAGCTCCGGCTACCTGATC
Found at i:101957009 original size:47 final size:46
Alignment explanation
Indices: 101956939--101957104 Score: 162
Period size: 47 Copynumber: 3.7 Consensus size: 46
101956929 AAGTGATTTC
* * * *
101956939 CGTATAAGACCATATCTGAGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* *
101956985 CTGTATAAGACCATATTTGGGATATGGCATCAGTGAGATATATGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * *
101957032 CGTGTAAGACCATAGCTGGGCTATGGCATC----A-ATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG-ATA
* * * *
101957074 TGTGTAAGACCATAGCTGGGCTATGGCATCA
1 CGTATAAGACCATATCTGGGATATGGCATCA
101957105 TTATGTGAAG
Statistics
Matches: 105, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
41 7 0.07
42 32 0.30
46 26 0.25
47 40 0.38
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:101957091 original size:42 final size:42
Alignment explanation
Indices: 101957033--101957145 Score: 172
Period size: 42 Copynumber: 2.7 Consensus size: 42
101957023 TATATGATTC
*
101957033 GTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAAGAT
* *
101957075 GTGTAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAAGAT
* **
101957117 GTGTAAGACCATAGTTGAACTATGGCATC
1 GTGTAAGACCATAGCTGGGCTATGGCATC
101957146 GAGAAAACGA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAAGAT
Found at i:101958226 original size:42 final size:42
Alignment explanation
Indices: 101958103--101958261 Score: 133
Period size: 42 Copynumber: 3.7 Consensus size: 42
101958093 ACGTCAATGT
* * ** *
101958103 CATATCCCAGATATGGTCTTACATGGGATCACATATATCGATGC
1 CATATCCCAGACATGGTCTTACAAGAAATCA-A-ATATTGATGC
* * * ***
101958147 CGATAGCCCA-ACTATGGTCTTAC-TGATATCTCGTATTGATGC
1 C-ATATCCCAGAC-ATGGTCTTACAAGAAATCAAATATTGATGC
* **
101958189 CATGTCCCAGACATGGTCTTACGCGAAATCAAATATTGATGC
1 CATATCCCAGACATGGTCTTACAAGAAATCAAATATTGATGC
*
101958231 CATATCCCAGATATGGTCTTACAAGAAATCA
1 CATATCCCAGACATGGTCTTACAAGAAATCA
101958262 CACATAACCC
Statistics
Matches: 92, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 16 0.17
42 52 0.57
44 7 0.08
45 17 0.18
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (42 bp):
CATATCCCAGACATGGTCTTACAAGAAATCAAATATTGATGC
Found at i:101964473 original size:11 final size:11
Alignment explanation
Indices: 101964448--101964480 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
101964438 AGGTATAAGC
101964448 TTTTTATTTTA
1 TTTTTATTTTA
101964459 -TTTTATTTTA
1 TTTTTATTTTA
*
101964469 TTTTTCTTTTA
1 TTTTTATTTTA
101964480 T
1 T
101964481 ACTTTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:101974611 original size:21 final size:22
Alignment explanation
Indices: 101974582--101974628 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
101974572 CAGAAGGAGT
*
101974582 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
101974604 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
101974625 GAGT
1 GAGT
101974629 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:101992669 original size:18 final size:18
Alignment explanation
Indices: 101992646--101992683 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
101992636 AATATATATT
101992646 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
101992664 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
101992682 AA
1 AA
101992684 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:101992676 original size:13 final size:13
Alignment explanation
Indices: 101992660--101992684 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101992650 CAAGTACCCA
101992660 ACCCAACCCAATT
1 ACCCAACCCAATT
101992673 ACCCAACCCAAT
1 ACCCAACCCAAT
101992685 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:101992722 original size:5 final size:6
Alignment explanation
Indices: 101992709--101992749 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
101992699 ATAATTTAAT
*
101992709 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
101992750 ATATAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:101992750 original size:20 final size:20
Alignment explanation
Indices: 101992712--101992750 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
101992702 ATTTAATAAA
**
101992712 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
101992732 TAAAAATAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
101992751 TATAATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:101992780 original size:9 final size:8
Alignment explanation
Indices: 101992766--101992842 Score: 82
Period size: 9 Copynumber: 8.6 Consensus size: 8
101992756 TTTATACAAA
101992766 TAATTCTGT
1 TAATTC-GT
101992775 TAATTCGAT
1 TAATTCG-T
101992784 TAATTCGT
1 TAATTCGT
101992792 GTAATTCGT
1 -TAATTCGT
101992801 GTAATTCGGT
1 -TAATTC-GT
101992811 TAATTCGAT
1 TAATTCG-T
101992820 TAATTCGGT
1 TAATTC-GT
101992829 TAATTCGGT
1 TAATTC-GT
101992838 TAATT
1 TAATT
101992843 TTATACTTAT
Statistics
Matches: 63, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
8 3 0.05
9 57 0.90
10 3 0.05
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.47
Consensus pattern (8 bp):
TAATTCGT
Found at i:101992789 original size:18 final size:18
Alignment explanation
Indices: 101992766--101992842 Score: 104
Period size: 18 Copynumber: 4.3 Consensus size: 18
101992756 TTTATACAAA
*
101992766 TAATTCTGTTAATTCGAT
1 TAATTCGGTTAATTCGAT
101992784 TAATTC-GTGTAATTCG-T
1 TAATTCGGT-TAATTCGAT
101992801 GTAATTCGGTTAATTCGAT
1 -TAATTCGGTTAATTCGAT
*
101992820 TAATTCGGTTAATTCGGT
1 TAATTCGGTTAATTCGAT
101992838 TAATT
1 TAATT
101992843 TTATACTTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 8
0.86 0.02 0.13
Matches are distributed among these distances:
17 3 0.06
18 48 0.89
19 3 0.06
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.47
Consensus pattern (18 bp):
TAATTCGGTTAATTCGAT
Found at i:101992805 original size:27 final size:28
Alignment explanation
Indices: 101992766--101992842 Score: 108
Period size: 27 Copynumber: 2.9 Consensus size: 28
101992756 TTTATACAAA
*
101992766 TAATTC-TGTTAATTCGATTAATTCG-T
1 TAATTCGTGTTAATTCGGTTAATTCGAT
101992792 GTAATTCGTG-TAATTCGGTTAATTCGAT
1 -TAATTCGTGTTAATTCGGTTAATTCGAT
101992820 TAATTCG-GTTAATTCGGTTAATT
1 TAATTCGTGTTAATTCGGTTAATT
101992843 TTATACTTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
26 1 0.02
27 42 0.91
28 3 0.07
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.47
Consensus pattern (28 bp):
TAATTCGTGTTAATTCGGTTAATTCGAT
Found at i:101995881 original size:15 final size:15
Alignment explanation
Indices: 101995857--101995890 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
101995847 AACAATTACG
* *
101995857 ATAATGCGAGTAAAA
1 ATAATACGAGCAAAA
101995872 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
101995887 ATAA
1 ATAA
101995891 CAAAAGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:101996054 original size:9 final size:9
Alignment explanation
Indices: 101996042--101996093 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
101996032 AGAAATGAAT
101996042 AAAATTTTA
1 AAAATTTTA
101996051 AAAATTTTA
1 AAAATTTTA
101996060 AAAATGTATGTA
1 AAAAT-T-T-TA
**
101996072 TGAATTTTA
1 AAAATTTTA
101996081 AAAA-TTTA
1 AAAATTTTA
101996089 AAAAT
1 AAAAT
101996094 ACGAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
8 8 0.23
9 18 0.51
10 2 0.06
11 2 0.06
12 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (9 bp):
AAAATTTTA
Found at i:101996590 original size:12 final size:12
Alignment explanation
Indices: 101996573--101996601 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
101996563 GGTAAATAAA
101996573 ATATACATATAT
1 ATATACATATAT
101996585 ATATACATATAT
1 ATATACATATAT
101996597 ATATA
1 ATATA
101996602 ACTTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATACATATAT
Found at i:101997665 original size:15 final size:15
Alignment explanation
Indices: 101997645--101997676 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
101997635 GTGGGCTGGA
101997645 GGCGTGGCAGACGAG
1 GGCGTGGCAGACGAG
101997660 GGCGTGGCAGACGAG
1 GGCGTGGCAGACGAG
101997675 GG
1 GG
101997677 GGCCACGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.56, T:0.06
Consensus pattern (15 bp):
GGCGTGGCAGACGAG
Found at i:101998291 original size:82 final size:83
Alignment explanation
Indices: 101998149--101998746 Score: 743
Period size: 82 Copynumber: 7.3 Consensus size: 83
101998139 TTTTAGTCTA
** * * * * *
101998149 CTCCACTACTATTTAGGAAGATAAGACTGGGTGTGATCTGCTCCACTACTACTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAG
101998214 ATCTGTGGTTTC-TTCTG
66 ATCTGTGGTTTCGTTCTG
* * *
101998231 CCCCGCTACTGCTTAAGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAG
*
101998296 ATCTGTGGTTTCGTCCT-
66 ATCTGTGGTTTCGTTCTG
** * *
101998313 CTCCGTTACTGCTTAGGGAGATAAGACTTGATTCGATCTGCTCCACTATTGCTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAG
*
101998378 ATCTGTGGTTTTG-TCTG
66 ATCTGTGGTTTCGTTCTG
* * *
101998395 CTCCACTACTGCTTAGGGAGATGAGACTTGATGCGATCTGCTCCACTATTACTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAG
* * **
101998460 A-CT-T-GATGCAATCTG
66 ATCTGTGGTTTCGTTCTG
* **
101998475 CTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTG-TCTGCTCCACTACTGCTTAGGGAGAT
1 CTCCACTACTGCTTAGGGAGATAAGA-CT-T-GATGCGATCTGCTCCACTACTGCTTAGGGAGAT
* * * *
101998539 GAGA-CT-T-GATGCGATCTG
63 AAGATCTGTGGTTTCGTTCTG
* *
101998557 CTCCACTATTACTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAG
*
101998622 ATCTGTGGTTTCGTCCT-
66 ATCTGTGGTTTCGTTCTG
* * * *
101998639 CTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTACTTCACTATTGCTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAG
*
101998704 ATCTGTGGTTT-TTTCTG
66 ATCTGTGGTTTCGTTCTG
101998721 CTCCACTACTGCTTAGGGAGATAAGA
1 CTCCACTACTGCTTAGGGAGATAAGA
101998747 TCTGTAATCT
Statistics
Matches: 451, Mismatches: 54, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
79 5 0.01
80 60 0.13
81 13 0.03
82 361 0.80
83 12 0.03
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (83 bp):
CTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAG
ATCTGTGGTTTCGTTCTG
Found at i:101998293 original size:122 final size:122
Alignment explanation
Indices: 101998144--101998751 Score: 735
Period size: 122 Copynumber: 5.0 Consensus size: 122
101998134 TGTGTTTTTA
* ** * * * * *
101998144 GTCTACTCCACTACTATTTAGGAAGATAAGACTGGGTGTGATCTGCTCCACTACTACTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTACTTAGGGAG
* * * * * * *
101998209 ATAAGATCTGTGGTTTC-TTCTGCCCCGCTACTGCTTAAGGAGATAAGA-CT-T-GATGC
66 ATAAGA-CT-T-GATTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTC
* * ** * *
101998265 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTCG-TCCT-CTCCGTTACTGCTTA
1 G-TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GATGCGAT-CTGCTCCACTATTACTTA
* *
101998328 GGGAGATAAGACTTGATTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTT
61 GGGAGATAAGACTTGATTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTC
*
101998390 GTCTGCTCCACTACTGCTTAGGGAGATGAGACTTGATGCGATCTGCTCCACTATTACTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTACTTAGGGAG
* * *
101998455 ATAAGACTTGATGCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTT
66 ATAAGACTTGATTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTC
*
101998512 GTCTGCTCCACTACTGCTTAGGGAGATGAGACTTGATGCGATCTGCTCCACTATTACTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTACTTAGGGAG
*
101998577 ATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTC
66 ATAAGACTTGATTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTC
* * * *
101998634 GTCCT-CTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTACTTCACTATTGCTTAGGGA
1 GT-CTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTACTTAGGGA
* ***
101998698 GATAAGATCTGTGGTTTTTTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
65 GATAAGA-CT-TGATTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
101998752 AATCTTCACT
Statistics
Matches: 431, Mismatches: 42, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
121 11 0.03
122 308 0.71
123 12 0.03
124 92 0.21
125 8 0.02
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (122 bp):
GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTACTTAGGGAG
ATAAGACTTGATTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTC
Found at i:101998499 original size:204 final size:203
Alignment explanation
Indices: 101998149--101998746 Score: 760
Period size: 204 Copynumber: 2.9 Consensus size: 203
101998139 TTTTAGTCTA
* * * * * * *
101998149 CTCCACTACTATTTAGGAAGATAAGACTGGGTGTGATCTGCTCCACTACTACTTAGGGAGATAAG
1 CTCCACTATTACTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAG
* * * * * * *
101998214 ATCTGTGGTTTC-TTCTGCCCCGCTACTGCTTAAGGAGATAAGACTTGATGCGATCTGCTCCACT
66 ATCTGTGGATGCGTCCT-CTCCACTACTACTTAGGGAGATAAGACTTGATGCGATCTGCTCCACT
**
101998278 ACTGCTTAGGGAGATAAGATCTGTGGTTTCGTCCT-CTCCGTTACTGCTTAGGGAGATAAGACTT
130 ACTGCTTAGGGAGATAAGATCTGTGGTTT-GT-CTGCTCCACTACTGCTTAGGGAGATAAGACTT
*
101998342 GATTCGATCTG
193 GATGCGATCTG
* * **
101998353 CTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTG-TCTGCTCCACTACTGCTTAGGGAGAT
1 CTCCACTATTACTTAGGGAGATAAGA-CT-T-GATGCGATCTGCTCCACTACTGCTTAGGGAGAT
* * *
101998417 GAGA-CT-T-GATGCGAT-CTGCTCCACTATTACTTAGGGAGATAAGACTTGATGCAATCTGCTC
63 AAGATCTGTGGATGCG-TCCT-CTCCACTACTACTTAGGGAGATAAGACTTGATGCGATCTGCTC
*
101998478 CACTACTGCTTAGGGAGATAAGATCTGTGGTTTTGTCTGCTCCACTACTGCTTAGGGAGATGAGA
126 CACTACTGCTTAGGGAGATAAGATCTGTGG-TTTGTCTGCTCCACTACTGCTTAGGGAGATAAGA
101998543 CTTGATGCGATCTG
190 CTTGATGCGATCTG
101998557 CTCCACTATTACTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAG
1 CTCCACTATTACTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAG
* * * * * *
101998622 ATCTGTGGTTTCGTCCTCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTACTTCACTA
66 ATCTGTGGATGCGTCCTCTCCACTACTACTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTA
* *
101998687 TTGCTTAGGGAGATAAGATCTGTGGTTTTTTCTGCTCCACTACTGCTTAGGGAGATAAGA
131 CTGCTTAGGGAGATAAGATCTGTGG-TTTGTCTGCTCCACTACTGCTTAGGGAGATAAGA
101998747 TCTGTAATCT
Statistics
Matches: 345, Mismatches: 37, Indels: 24
0.85 0.09 0.06
Matches are distributed among these distances:
201 3 0.01
202 30 0.09
203 9 0.03
204 257 0.74
205 14 0.04
206 28 0.08
207 4 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (203 bp):
CTCCACTATTACTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAG
ATCTGTGGATGCGTCCTCTCCACTACTACTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTA
CTGCTTAGGGAGATAAGATCTGTGGTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAT
GCGATCTG
Found at i:101999111 original size:132 final size:131
Alignment explanation
Indices: 101998910--101999754 Score: 799
Period size: 132 Copynumber: 6.4 Consensus size: 131
101998900 TCCCCTGCCA
*
101998910 AATACAGG--GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCT
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTC-CCACCAATATGGGAAGACAAGATCT
* * * * *
101998973 GTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACG
65 GCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACG
101999038 CC
130 CC
* *
101999040 AATACATGAAGACAAGATCTGCTTTCTACGATCTACTTCGCCACCAATATGGGAAGACAAGATCT
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTC-CCACCAATATGGGAAGACAAGATCT
101999105 GCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACG
65 GCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACG
101999170 CC
130 CC
*
101999172 AATACATGAAGACAAGATCTGCTTTCTGT-GATCTACTTCGCCACCAATATGGGAAGACAAGATC
1 AATACAGGAAGACAAGATCTGCTTTCT-TCGATCTACTTC-CCACCAATATGGGAAGACAAGATC
101999236 TGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCAC
64 TGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCAC
101999301 GCC
129 GCC
** * * * * * * *
101999304 AATATGGGAAGACAAGATCTAC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTG
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATGGGAAGACAAGATCTG
* * * * * * * * ** * *
101999368 CTACCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCC
66 C-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTC-AC
*
101999433 ACC
129 GCC
** * * * * * *
101999436 AATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTG
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATGGGAAGACAAGATCTG
* * * * * * * ** ** * *
101999500 CTACCTTCGATCTAATTCAC-GCCAATACATGAAGAAAATATCTGCTTTCTGCGATCTACTTCGC
66 C-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTC-A
*
101999564 CACC
128 CGCC
** * * * * * *
101999568 AATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTG
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATGGGAAGACAAGATCTG
* * * * * * * ** * *
101999632 CTACCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGC
66 C-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTC-A
*
101999696 CACC
128 CGCC
** * * * * *
101999700 AATATGGGAAGACAAGATCTGC-ATCTTTGATCCACTTCCTACCAATATAGGAAGA
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATGGGAAGA
101999755 TAGGACCTAT
Statistics
Matches: 666, Mismatches: 42, Indels: 12
0.93 0.06 0.02
Matches are distributed among these distances:
130 31 0.05
131 61 0.09
132 574 0.86
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (131 bp):
AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATGGGAAGACAAGATCTG
CATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGC
C
Found at i:101999378 original size:351 final size:351
Alignment explanation
Indices: 101998923--101999721 Score: 1337
Period size: 351 Copynumber: 2.3 Consensus size: 351
101998913 ACAGGGACAA
** * * * *
101998923 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGATCCAC
1 GATCTGCTACCTTCGATCTACTTCA-CGCCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * *
101998988 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
65 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
101999053 AAGATCTGCTTTCTACGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
130 AAGATCTGCTTTCTACGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
*
101999118 ACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAG
195 ACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTAATTCACGCCAATACATGAAG
* *
101999183 ACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGAT
260 AAAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGAT
101999248 CCACTTCCTACCAATATAGGAAGATAG
325 CCACTTCCTACCAATATAGGAAGATAG
*
101999275 GATCTGCTACCTTCGATCTACTTCACGCCAATATGGGAAGACAAGATCTACATCTTCGATCCACT
1 GATCTGCTACCTTCGATCTACTTCACGCCAATATGGGAAGACAAGATCTGCATCTTCGATCCACT
*
101999340 TCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCATGCCAATACATGAAGACA
66 TCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACA
*
101999405 AGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
131 AGATCTGCTTTCTACGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
101999470 CTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTAATTCACGCCAATACATGAAGA
196 CTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTAATTCACGCCAATACATGAAGA
*
101999535 AAATATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATC
261 AAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATC
101999600 CACTTCCTACCAATATAGGAAGATAG
326 CACTTCCTACCAATATAGGAAGATAG
*** * * *
101999626 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
1 GATCTGCTACCTTCGATCTACTTCACGCCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCAC
* * * *
101999691 TTCGCCACCAATATGGGAAGACAAGATCTGC
65 TTC-CTACCAATATAGGAAGATAGGATCTGC
101999722 ATCTTTGATC
Statistics
Matches: 418, Mismatches: 27, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
351 359 0.86
352 36 0.09
353 23 0.06
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (351 bp):
GATCTGCTACCTTCGATCTACTTCACGCCAATATGGGAAGACAAGATCTGCATCTTCGATCCACT
TCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACA
AGATCTGCTTTCTACGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
CTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTAATTCACGCCAATACATGAAGA
AAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATC
CACTTCCTACCAATATAGGAAGATAG
Found at i:101999755 original size:132 final size:132
Alignment explanation
Indices: 101999047--101999759 Score: 900
Period size: 132 Copynumber: 5.4 Consensus size: 132
101999037 GCCAATACAT
* * * * * * * *
101999047 GAAGACAAGATCTGCTTTCTACGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCT
1 GAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCT
* * * * * * ** * * *
101999111 TCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTC-ACGCCAA
64 TCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAA
***
101999174 TACAT
128 TATGG
* * * * * * *
101999179 GAAGACAAGATCTGCTTTCTGT-GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATC
1 GAAGACAAGATCTGC-ATCT-TCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACC
* * * * * * ** * * *
101999242 TTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTC-ACGCCA
63 TTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
101999305 ATATGG
127 ATATGG
*
101999311 GAAGACAAGATCTACATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
*
101999376 GATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
101999441 GG
131 GG
101999443 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
* * *
101999508 GATCTAATTCACGCCAATACATGAAGAAAATATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
101999573 GG
131 GG
101999575 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
101999640 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
101999705 GG
131 GG
*
101999707 GAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAATATAGGAAGATAGGA
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGA
101999760 CCTATTTACG
Statistics
Matches: 543, Mismatches: 33, Indels: 10
0.93 0.06 0.02
Matches are distributed among these distances:
130 24 0.04
131 60 0.11
132 459 0.85
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (132 bp):
GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
GG
Found at i:102006564 original size:15 final size:15
Alignment explanation
Indices: 102006540--102006573 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
102006530 AACAATTACG
* *
102006540 ATAATGCGAGTAAAA
1 ATAATACGAGCAAAA
102006555 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
102006570 ATAA
1 ATAA
102006574 CAAAAGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:102006738 original size:9 final size:9
Alignment explanation
Indices: 102006726--102006778 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
102006716 AGAAATGAAT
102006726 AAAATTTTA
1 AAAATTTTA
102006735 AAAATTTTA
1 AAAATTTTA
102006744 AAAATGTATGTA
1 AAAAT-T-T-TA
**
102006756 TGAATTTTA
1 AAAATTTTA
*
102006765 AAAAATTTA
1 AAAATTTTA
102006774 AAAAT
1 AAAAT
102006779 ACGAAAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
9 26 0.74
10 2 0.06
11 2 0.06
12 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (9 bp):
AAAATTTTA
Found at i:102007278 original size:12 final size:12
Alignment explanation
Indices: 102007261--102007289 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
102007251 GGTAAATAAA
102007261 ATATACATATAT
1 ATATACATATAT
102007273 ATATACATATAT
1 ATATACATATAT
102007285 ATATA
1 ATATA
102007290 ACTTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATACATATAT
Found at i:102008355 original size:15 final size:15
Alignment explanation
Indices: 102008335--102008366 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
102008325 GTGGGCTGGA
102008335 GGCGTGGCAGACGAG
1 GGCGTGGCAGACGAG
102008350 GGCGTGGCAGACGAG
1 GGCGTGGCAGACGAG
102008365 GG
1 GG
102008367 GGCCACGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.56, T:0.06
Consensus pattern (15 bp):
GGCGTGGCAGACGAG
Found at i:102008977 original size:16 final size:16
Alignment explanation
Indices: 102008956--102008988 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
102008946 TAATAATTTC
102008956 TTATTTGATAGAATAT
1 TTATTTGATAGAATAT
102008972 TTATTTGATAGAATAT
1 TTATTTGATAGAATAT
102008988 T
1 T
102008989 AGGGAAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (16 bp):
TTATTTGATAGAATAT
Found at i:102009120 original size:16 final size:17
Alignment explanation
Indices: 102009095--102009127 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
102009085 AATATAAATC
102009095 TTTATAATTATATTATA
1 TTTATAATTATATTATA
102009112 TTTAT-ATTATATTATA
1 TTTATAATTATATTATA
102009128 AATAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTATAATTATATTATA
Found at i:102011115 original size:3 final size:3
Alignment explanation
Indices: 102011101--102011141 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
102011091 AGACTAGTGT
* *
102011101 TGA TGC TGA TGA TGA TGC TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
102011142 GATGGGAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.27, C:0.05, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:102011118 original size:12 final size:12
Alignment explanation
Indices: 102011101--102011141 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
102011091 AGACTAGTGT
102011101 TGATGCTGATGA
1 TGATGCTGATGA
102011113 TGATGCTGATGA
1 TGATGCTGATGA
*
102011125 TGATGATGATGA
1 TGATGCTGATGA
102011137 TGATG
1 TGATG
102011142 GATGGGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.27, C:0.05, G:0.34, T:0.34
Consensus pattern (12 bp):
TGATGCTGATGA
Found at i:102024609 original size:9 final size:9
Alignment explanation
Indices: 102024583--102024640 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 9
102024573 ATGTGGCAAA
102024583 AAAAATTAT
1 AAAAATTAT
102024592 AAAAA--AT
1 AAAAATTAT
102024599 AAAAATTAT
1 AAAAATTAT
*
102024608 AAAAATAGAT
1 AAAAAT-TAT
*
102024618 AAAAATTGT
1 AAAAATTAT
*
102024627 AAAAAATAT
1 AAAAATTAT
102024636 AAAAA
1 AAAAA
102024641 AGTGTAAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
7 7 0.17
9 26 0.63
10 8 0.20
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (9 bp):
AAAAATTAT
Found at i:102024611 original size:15 final size:16
Alignment explanation
Indices: 102024583--102024639 Score: 69
Period size: 16 Copynumber: 3.3 Consensus size: 16
102024573 ATGTGGCAAA
102024583 AAAAATTATAAAAAAT
1 AAAAATTATAAAAAAT
102024599 AAAAATTATAAAAATAGAT
1 AAAAATTAT-AAAA-A-AT
*
102024618 AAAAATTGTAAAAAAT
1 AAAAATTATAAAAAAT
102024634 ATAAAA
1 A-AAAA
102024640 AAGTGTAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
16 12 0.33
17 9 0.25
18 5 0.14
19 10 0.28
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (16 bp):
AAAAATTATAAAAAAT
Found at i:102024641 original size:9 final size:9
Alignment explanation
Indices: 102024582--102024690 Score: 55
Period size: 9 Copynumber: 12.0 Consensus size: 9
102024572 CATGTGGCAA
102024582 AAAAAAT-T
1 AAAAAATAT
102024590 ATAAAAA-AT
1 A-AAAAATAT
*
102024599 AAAAATTAT
1 AAAAAATAT
*
102024608 AAAAATAGAT
1 AAAAA-ATAT
* *
102024618 AAAAATTGT
1 AAAAAATAT
102024627 AAAAAATAT
1 AAAAAATAT
*
102024636 AAAAAAGTGT
1 AAAAAA-TAT
***
102024646 AAATTTTTAT
1 AAA-AAATAT
*
102024656 AAAAAACAT
1 AAAAAATAT
102024665 --AAAATAT
1 AAAAAATAT
*
102024672 AGAAAATAT
1 AAAAAATAT
102024681 ATAAAAATAT
1 A-AAAAATAT
102024691 GGAAAAACAA
Statistics
Matches: 73, Mismatches: 19, Indels: 16
0.68 0.18 0.15
Matches are distributed among these distances:
7 6 0.08
8 5 0.07
9 38 0.52
10 24 0.33
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.28
Consensus pattern (9 bp):
AAAAAATAT
Found at i:102024641 original size:19 final size:18
Alignment explanation
Indices: 102024582--102024690 Score: 73
Period size: 19 Copynumber: 6.0 Consensus size: 18
102024572 CATGTGGCAA
102024582 AAAAAATTATAAAAA-AT
1 AAAAAATTATAAAAATAT
*
102024599 -AAAAATTATAAAAATAG
1 AAAAAATTATAAAAATAT
*
102024616 ATAAAAATTGTAAAAAATAT
1 A-AAAAATTAT-AAAAATAT
* * **
102024636 AAAAAAGTGTAAATTTTTAT
1 AAAAAATTATAAA--AATAT
*
102024656 AAAAAA-CAT-AAAATAT
1 AAAAAATTATAAAAATAT
*
102024672 AGAAAATATATAAAAATAT
1 AAAAAAT-TATAAAAATAT
102024691 GGAAAAACAA
Statistics
Matches: 71, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
16 22 0.31
17 1 0.01
18 7 0.10
19 24 0.34
20 17 0.24
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.28
Consensus pattern (18 bp):
AAAAAATTATAAAAATAT
Found at i:102029351 original size:11 final size:11
Alignment explanation
Indices: 102029329--102029377 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
102029319 TGTTTTGATG
*
102029329 TTATTTTGCTA
1 TTATTTTACTA
102029340 TTATTTTACTA
1 TTATTTTACTA
*
102029351 TTATATTACTA
1 TTATTTTACTA
* *
102029362 TTATTCTATTA
1 TTATTTTACTA
102029373 TTATT
1 TTATT
102029378 GTTTGGGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (11 bp):
TTATTTTACTA
Found at i:102032771 original size:16 final size:16
Alignment explanation
Indices: 102032750--102032820 Score: 97
Period size: 16 Copynumber: 4.4 Consensus size: 16
102032740 GTTTGGTTCA
*
102032750 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
102032766 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
* *
102032782 TTGTAATGGAATATAG
1 CTGTAATGGAATAGAG
*
102032798 TTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
102032814 CTGTAAT
1 CTGTAAT
102032821 CAGTAATTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.32
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:102032886 original size:44 final size:46
Alignment explanation
Indices: 102032806--102032894 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 46
102032796 AGTTGTAATG
102032806 GAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATT
1 GAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATT
*
102032852 GAATAGAGCTGTAAT-AG-AATTC-TTGTGTTTGGTTGAATGGAAT
1 GAATAGAGCTGTAATCAGTAATTCAAT-TGTTTGGTTGAATGGAAT
102032895 AGATGTTGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
43 1 0.02
44 23 0.56
45 2 0.05
46 15 0.37
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (46 bp):
GAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATT
Found at i:102032895 original size:39 final size:40
Alignment explanation
Indices: 102032797--102032910 Score: 115
Period size: 44 Copynumber: 2.7 Consensus size: 40
102032787 ATGGAATATA
102032797 GTTGTAATGGAATAGAGCTGTAATCAGTAATTCAATTGTTTG
1 GTTG-AATGGAATAGAGCTGTAAT-AGTAATTCAATTGTTTG
*
102032839 GTTGAATGGAATTGAATAGAGCTGTAATAG-AATTC-TTGTGTTTG
1 GTTGAAT-G----GAATAGAGCTGTAATAGTAATTCAAT-TGTTTG
*
102032883 GTTGAATGGAATAGATGTTGTAATAGTA
1 GTTGAATGGAATAGA-GCTGTAATAGTA
102032911 TAAGGAAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 17
0.77 0.02 0.21
Matches are distributed among these distances:
39 7 0.11
40 9 0.15
41 4 0.06
42 5 0.08
43 2 0.03
44 18 0.29
45 2 0.03
46 15 0.24
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (40 bp):
GTTGAATGGAATAGAGCTGTAATAGTAATTCAATTGTTTG
Found at i:102032996 original size:25 final size:26
Alignment explanation
Indices: 102032967--102033017 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
102032957 GTAAATAGAT
*
102032967 GATTATTGTT-ATTAAATTTTAATAA
1 GATTATTGTTCAATAAATTTTAATAA
*
102032992 GATTATTGTTCAATATATTTTAATAA
1 GATTATTGTTCAATAAATTTTAATAA
102033018 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (26 bp):
GATTATTGTTCAATAAATTTTAATAA
Found at i:102033096 original size:12 final size:11
Alignment explanation
Indices: 102033069--102033143 Score: 52
Period size: 12 Copynumber: 6.8 Consensus size: 11
102033059 TATTAAATAC
102033069 AATTTAATAA-
1 AATTTAATAAT
102033079 AA--TAATATAT
1 AATTTAATA-AT
*
102033089 AATTTAATAAC
1 AATTTAATAAT
*
102033100 ATTATTAAT-AT
1 AAT-TTAATAAT
102033111 AATTATTAATAAT
1 AA-T-TTAATAAT
102033124 -ATTTAATAAT
1 AATTTAATAAT
102033134 AATTTTAATA
1 AA-TTTAATA
102033144 TAACATTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
8 5 0.10
9 1 0.02
10 12 0.23
11 7 0.13
12 25 0.48
13 2 0.04
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (11 bp):
AATTTAATAAT
Found at i:102033135 original size:13 final size:12
Alignment explanation
Indices: 102033081--102033143 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
102033071 TTTAATAAAA
102033081 TAATATATAA-TT
1 TAATA-ATAATTT
*
102033093 TAATAA-CATTAT
1 TAATAATAATT-T
102033105 TAAT-ATAATTAT
1 TAATAATAATT-T
102033117 TAATAAT-A-TT
1 TAATAATAATTT
102033127 TAATAATAATTT
1 TAATAATAATTT
102033139 TAATA
1 TAATA
102033144 TAACATTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
10 9 0.21
11 5 0.12
12 27 0.63
13 2 0.05
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (12 bp):
TAATAATAATTT
Found at i:102035871 original size:39 final size:39
Alignment explanation
Indices: 102035828--102035902 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
102035818 CATCAAGTAA
102035828 AGAGAGATCAAATTATAGCATACTAGACTCAGTTTTTAC
1 AGAGAGATCAAATTATAGCATACTAGACTCAGTTTTTAC
102035867 AGAGAGATCAAATTATAGCATACTAGACTCAGTTTT
1 AGAGAGATCAAATTATAGCATACTAGACTCAGTTTT
102035903 GCATCGAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (39 bp):
AGAGAGATCAAATTATAGCATACTAGACTCAGTTTTTAC
Found at i:102058758 original size:81 final size:80
Alignment explanation
Indices: 102058623--102058784 Score: 236
Period size: 81 Copynumber: 2.0 Consensus size: 80
102058613 CATTGGACCA
* * *
102058623 TCACTTTTTTGCAAACCTTTTCTGCTCTTCAATGGTGACACCAATCTGCTAGCCAAAT-GGGAAG
1 TCACTTCTTTGCAAACCTTTTCTGCTCTTCAATGGTGAAACCAATCTACTAGCC-AATCGGGAAG
*
102058687 GTGAAAATGATCTACCG
65 GCGAAAATGATCT-CCG
** *
102058704 TCACTTCTTTGCAAAGTTTTTCTGCTCTTCAATGGTGAAACCAATCTATTAGCCAATCGGGAAGG
1 TCACTTCTTTGCAAACCTTTTCTGCTCTTCAATGGTGAAACCAATCTACTAGCCAATCGGGAAGG
102058769 CGAAAATGATCTCCG
66 CGAAAATGATCTCCG
102058784 T
1 T
102058785 AGCTTCGAAG
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
80 7 0.10
81 66 0.90
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (80 bp):
TCACTTCTTTGCAAACCTTTTCTGCTCTTCAATGGTGAAACCAATCTACTAGCCAATCGGGAAGG
CGAAAATGATCTCCG
Found at i:102061363 original size:20 final size:21
Alignment explanation
Indices: 102061338--102061392 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
102061328 GAACCCTAAA
*
102061338 TGAGTTTAGGGTTC-GAGGTT
1 TGAGTTTAGGGTTCTGAAGTT
*
102061358 TGAGTTT-GGGATCTGAAGTT
1 TGAGTTTAGGGTTCTGAAGTT
*
102061378 TGATATTTAGGGTTC
1 TGA-GTTTAGGGTTC
102061393 AAGATTTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.18
20 15 0.54
21 3 0.11
22 5 0.18
ACGTcount: A:0.18, C:0.05, G:0.35, T:0.42
Consensus pattern (21 bp):
TGAGTTTAGGGTTCTGAAGTT
Found at i:102075901 original size:4 final size:4
Alignment explanation
Indices: 102075894--102075927 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
102075884 ATGATCATTC
*
102075894 ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
102075928 ATCATATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:102082773 original size:30 final size:30
Alignment explanation
Indices: 102082738--102082812 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
102082728 AAAAATGATA
102082738 ACTGAATTTTAAAACATTACCATTTAAGTC
1 ACTGAATTTTAAAACATTACCATTTAAGTC
* *
102082768 ACTGAATTTAAAAACATTATCATTTAAGTC
1 ACTGAATTTTAAAACATTACCATTTAAGTC
102082798 ACTGAATTATTAAAA
1 ACTGAATT-TTAAAA
102082813 TCATAAGTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 36 0.88
31 5 0.12
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (30 bp):
ACTGAATTTTAAAACATTACCATTTAAGTC
Found at i:102083546 original size:22 final size:22
Alignment explanation
Indices: 102083483--102083548 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
102083473 TAAATCTCTC
102083483 TAAAATAGTAACAAAATTAATAA
1 TAAAATAGTAACAAAA-TAATAA
** * *
102083506 TAAAATAAAAACTATATAATAA
1 TAAAATAGTAACAAAATAATAA
* *
102083528 TAAAATAGTAGCAACATAATA
1 TAAAATAGTAACAAAATAATA
102083549 GTGAAATGGT
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
22 22 0.65
23 12 0.35
ACGTcount: A:0.64, C:0.06, G:0.05, T:0.26
Consensus pattern (22 bp):
TAAAATAGTAACAAAATAATAA
Found at i:102114559 original size:24 final size:24
Alignment explanation
Indices: 102114532--102114577 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
102114522 ATTCATGTCA
102114532 CAAAATATACCAATGCATCATCAT
1 CAAAATATACCAATGCATCATCAT
* *
102114556 CAAAATATACTAATTCATCATC
1 CAAAATATACCAATGCATCATC
102114578 CCTATACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.28
Consensus pattern (24 bp):
CAAAATATACCAATGCATCATCAT
Found at i:102115595 original size:42 final size:42
Alignment explanation
Indices: 102115586--102115665 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
102115576 GTTGTACATG
102115586 AATCTTATATCGATGCCAATGTCCCAGACATGGGCTTACACA
1 AATCTTATATCGATGCCAATGTCCCAGACATGGGCTTACACA
* *
102115628 AATCTCATATCGATGCCAATGTCCCAGACATGGTCTTA
1 AATCTTATATCGATGCCAATGTCCCAGACATGGGCTTA
102115666 ATCTCATATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
AATCTTATATCGATGCCAATGTCCCAGACATGGGCTTACACA
Found at i:102121093 original size:41 final size:41
Alignment explanation
Indices: 102120990--102121192 Score: 327
Period size: 41 Copynumber: 5.0 Consensus size: 41
102120980 GTAAAACACA
* * *
102120990 GAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAAT-A
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
102121030 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
* *
102121071 GAGCAATAGCGGCTCTTCTGGTAAAACGCCGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
* *
102121112 GAGCAATAGCGGCGCTTCTGGTAAAACGCCACTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
*
102121153 GAGCAATAGCGGCGCTTTTAGTAAAACGCCGCTAAAAGTC
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
102121193 ATATAACCCC
Statistics
Matches: 152, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 37 0.24
41 115 0.76
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (41 bp):
GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
Found at i:102121274 original size:16 final size:17
Alignment explanation
Indices: 102121250--102121283 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
102121240 CTAAAATACT
*
102121250 AAACTCCTAAACCCTAA
1 AAACTCCTAAACACTAA
102121267 AAAC-CCTAAACACTAA
1 AAACTCCTAAACACTAA
102121283 A
1 A
102121284 CTATAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (17 bp):
AAACTCCTAAACACTAA
Found at i:102121776 original size:16 final size:16
Alignment explanation
Indices: 102121743--102121776 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
102121733 ATACTGTGTT
* *
102121743 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
102121759 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
102121775 AA
1 AA
102121777 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:102124596 original size:21 final size:21
Alignment explanation
Indices: 102124570--102124610 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
102124560 AGACGAGCAA
* *
102124570 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
102124591 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
102124611 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:102126548 original size:16 final size:16
Alignment explanation
Indices: 102126515--102126548 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
102126505 GGAGATTGTT
* *
102126515 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
102126531 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
102126547 AA
1 AA
102126549 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:102127411 original size:7 final size:7
Alignment explanation
Indices: 102127401--102127480 Score: 56
Period size: 7 Copynumber: 11.3 Consensus size: 7
102127391 CATTAAACCG
102127401 AAATAAA
1 AAATAAA
102127408 AAAT--A
1 AAATAAA
*
102127413 AACTCAAA
1 AAAT-AAA
102127421 AAATAAA
1 AAATAAA
*
102127428 AATTAAA
1 AAATAAA
*
102127435 AAATTAA
1 AAATAAA
* *
102127442 AATTTAA
1 AAATAAA
102127449 AAATAAA
1 AAATAAA
*
102127456 AAATTTAA
1 AAA-TAAA
*
102127464 AATTAAA
1 AAATAAA
102127471 AAATTAAA
1 AAA-TAAA
102127479 AA
1 AA
102127481 CTTAAAAATT
Statistics
Matches: 56, Mismatches: 12, Indels: 9
0.73 0.16 0.12
Matches are distributed among these distances:
5 4 0.07
7 37 0.66
8 15 0.27
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (7 bp):
AAATAAA
Found at i:102127435 original size:14 final size:14
Alignment explanation
Indices: 102127404--102127495 Score: 78
Period size: 15 Copynumber: 6.4 Consensus size: 14
102127394 TAAACCGAAA
*
102127404 TAAAAAAT-AAACT
1 TAAAAAATAAAAAT
*
102127417 CAAAAAATAAAAAT
1 TAAAAAATAAAAAT
*
102127431 TAAAAAATTAAAAT
1 TAAAAAATAAAAAT
*
102127445 TTAAAAATAAAAAAT
1 TAAAAAAT-AAAAAT
* *
102127460 TTAAAATTAAAAAAT
1 TAAAAAAT-AAAAAT
*
102127475 TAAAAACTTAAAAAT
1 TAAAAA-ATAAAAAT
*
102127490 TTAAAA
1 TAAAAA
102127496 TTAATCAATA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
13 7 0.10
14 23 0.34
15 35 0.52
16 2 0.03
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAAAAATAAAAAT
Found at i:102127436 original size:8 final size:8
Alignment explanation
Indices: 102127425--102127495 Score: 78
Period size: 8 Copynumber: 9.4 Consensus size: 8
102127415 CTCAAAAAAT
102127425 AAAAATTA
1 AAAAATTA
102127433 AAAAATT-
1 AAAAATTA
*
102127440 -AAAATTT
1 AAAAATTA
102127447 AAAAA-TA
1 AAAAATTA
102127454 AAAAATT-
1 AAAAATTA
*
102127461 TAAAATTA
1 AAAAATTA
102127469 AAAAATTA
1 AAAAATTA
*
102127477 AAAACTTA
1 AAAAATTA
*
102127485 AAAATTTA
1 AAAAATTA
102127493 AAA
1 AAA
102127496 TTAATCAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
6 6 0.11
7 12 0.22
8 36 0.67
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.28
Consensus pattern (8 bp):
AAAAATTA
Found at i:102127436 original size:15 final size:15
Alignment explanation
Indices: 102127425--102127499 Score: 84
Period size: 15 Copynumber: 5.1 Consensus size: 15
102127415 CTCAAAAAAT
102127425 AAAAATTAAAAAATT-
1 AAAAATT-AAAAATTA
*
102127440 AAAATTTAAAAA-TA
1 AAAAATTAAAAATTA
*
102127454 AAAAATTTAAAATTA
1 AAAAATTAAAAATTA
102127469 AAAAATTAAAAACTT-
1 AAAAATTAAAAA-TTA
*
102127484 AAAAATTTAAAATTA
1 AAAAATTAAAAATTA
102127499 A
1 A
102127500 TCAATAGTGG
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
13 1 0.02
14 17 0.33
15 31 0.61
16 2 0.04
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAATTAAAAATTA
Found at i:102127449 original size:22 final size:22
Alignment explanation
Indices: 102127424--102127499 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
102127414 ACTCAAAAAA
102127424 TAAAAATTAAAAAATTAAAATT
1 TAAAAATTAAAAAATTAAAATT
102127446 TAAAAA-TAAAAAATTTAAAATT
1 TAAAAATTAAAAAA-TTAAAATT
* *
102127468 AAAAAATTAAAAACTTAAAAATT
1 TAAAAATTAAAAAATT-AAAATT
102127491 T-AAAATTAA
1 TAAAAATTAA
102127500 TCAATAGTGG
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
21 7 0.15
22 29 0.60
23 12 0.25
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAAATTAAAAAATTAAAATT
Found at i:102127487 original size:7 final size:7
Alignment explanation
Indices: 102127418--102127499 Score: 92
Period size: 7 Copynumber: 11.3 Consensus size: 7
102127408 AAATAAACTC
*
102127418 AAAAAAT
1 AAAAATT
102127425 AAAAATT
1 AAAAATT
102127432 AAAAAATT
1 -AAAAATT
*
102127440 AAAATTT
1 AAAAATT
*
102127447 AAAAATA
1 AAAAATT
102127454 AAAAATT
1 AAAAATT
*
102127461 TAAAATT
1 AAAAATT
102127468 AAAAAATT
1 -AAAAATT
102127476 AAAAACTT
1 AAAAA-TT
102127484 AAAAATT
1 AAAAATT
*
102127491 TAAAATT
1 AAAAATT
102127498 AA
1 AA
102127500 TCAATAGTGG
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
7 43 0.68
8 20 0.32
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAAATT
Found at i:102131249 original size:19 final size:21
Alignment explanation
Indices: 102131221--102131268 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
102131211 TTATTATTTA
102131221 TTTTAGTTTTGATTCTAA-AT
1 TTTTAGTTTTGATTCTAATAT
* *
102131241 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTCTAATAT
102131261 TTTTAGTT
1 TTTTAGTT
102131269 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTGATTCTAATAT
Found at i:102138149 original size:12 final size:12
Alignment explanation
Indices: 102138132--102138156 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
102138122 TTGTGTGTTC
102138132 TTTATTTTATTT
1 TTTATTTTATTT
102138144 TTTATTTTATTT
1 TTTATTTTATTT
102138156 T
1 T
102138157 ATTTTTCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:102148751 original size:21 final size:21
Alignment explanation
Indices: 102148725--102148767 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
102148715 ACACAGACTA
*
102148725 TTCACACGGACGTGTGGGGCC
1 TTCACACGGACGTGTGAGGCC
*
102148746 TTCACACGGGCGTGTGAGGCC
1 TTCACACGGACGTGTGAGGCC
102148767 T
1 T
102148768 CTATATGGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.28, G:0.37, T:0.21
Consensus pattern (21 bp):
TTCACACGGACGTGTGAGGCC
Found at i:102151510 original size:50 final size:50
Alignment explanation
Indices: 102151435--102151660 Score: 328
Period size: 50 Copynumber: 4.5 Consensus size: 50
102151425 TATGGCAACC
* * *
102151435 AGTGATAAGTGATAGCTTTGTCTACACTTATCTGATCAAGGATAAGTGAA
1 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
102151485 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
1 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
*
102151535 AGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGACAAGTGAA
1 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
* * *
102151585 AGTGATAAGTGATGGCTTCGACTACACTTATCTAATCAAGGACGAA-TGACA
1 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAC-AAGTGA-A
* ** *
102151636 AGTGAAAAGTGGCAGCTTCAGCTAC
1 AGTGATAAGTGATAGCTTCGGCTAC
102151661 CTGATCAGTG
Statistics
Matches: 160, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
50 138 0.86
51 22 0.14
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
Found at i:102151674 original size:31 final size:31
Alignment explanation
Indices: 102151636--102151751 Score: 160
Period size: 31 Copynumber: 3.7 Consensus size: 31
102151626 ACGAATGACA
* *
102151636 AGTGAAAAGTGGCAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
102151667 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
102151698 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
102151729 GGTGAATAGTGGTAACTTTGGCT
1 AGTGAAAAGTGGTAGCTTCGGCT
102151752 GCAAGTGACA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Done.