Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 69 of 230
Found at i:18751678 original size:5 final size:6
Alignment explanation
Indices: 18751663--18751688 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18751653 TGATTTTGGG
18751663 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
18751689 GAACAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:18785802 original size:17 final size:16
Alignment explanation
Indices: 18785777--18785818 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
18785767 TCACCAGTGC
*
18785777 TTTGGCAAATTGAGGAG
1 TTTGCCAAA-TGAGGAG
*
18785794 TTTGCCAAATGGGGAG
1 TTTGCCAAATGAGGAG
18785810 TTTGCCAAA
1 TTTGCCAAA
18785819 AGAGTATCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (16 bp):
TTTGCCAAATGAGGAG
Found at i:18788226 original size:20 final size:21
Alignment explanation
Indices: 18788203--18788252 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
18788193 GCCATTTTAA
*
18788203 TTTTAATTTTAATTTTTATGT
1 TTTTAATTTTAATTTTTACGT
*
18788224 TTTTAA-ATTAATTTTTACG-
1 TTTTAATTTTAATTTTTACGT
*
18788243 TTCTAATTTT
1 TTTTAATTTT
18788253 TTTTCATTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 5 0.21
20 13 0.54
21 6 0.25
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (21 bp):
TTTTAATTTTAATTTTTACGT
Found at i:18790375 original size:8 final size:9
Alignment explanation
Indices: 18790326--18790378 Score: 69
Period size: 8 Copynumber: 6.3 Consensus size: 9
18790316 ATCATTAAAT
18790326 AATT-TTAA
1 AATTATTAA
18790334 AATTATTAA
1 AATTATTAA
18790343 AATTATT-A
1 AATTATTAA
*
18790351 TATTA-TAA
1 AATTATTAA
18790359 AATTATTAA
1 AATTATTAA
18790368 AATT-TTAA
1 AATTATTAA
18790376 AAT
1 AAT
18790379 CATTTGCTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
7 1 0.03
8 21 0.52
9 18 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
AATTATTAA
Found at i:18790997 original size:24 final size:24
Alignment explanation
Indices: 18790956--18791018 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
18790946 ACATCCCCGA
*
18790956 AACAATAGAAAGGCTGAAAAGGAT
1 AACAATGGAAAGGCTGAAAAGGAT
* *
18790980 AACAATGGAACGGTTGAAAAGGAT
1 AACAATGGAAAGGCTGAAAAGGAT
* *
18791004 AGCAATGGAATGGCT
1 AACAATGGAAAGGCT
18791019 ATTATATCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.46, C:0.10, G:0.29, T:0.16
Consensus pattern (24 bp):
AACAATGGAAAGGCTGAAAAGGAT
Found at i:18801065 original size:19 final size:20
Alignment explanation
Indices: 18801041--18801078 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18801031 CCTGACTTGA
18801041 AAATTTTC-AATTTCTTTCT
1 AAATTTTCTAATTTCTTTCT
*
18801060 AAATTTTCTAATTTGTTTC
1 AAATTTTCTAATTTCTTTC
18801079 GAATTGGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.26, C:0.13, G:0.03, T:0.58
Consensus pattern (20 bp):
AAATTTTCTAATTTCTTTCT
Found at i:18802553 original size:56 final size:56
Alignment explanation
Indices: 18802475--18802588 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
18802465 TAAATATTAG
* *
18802475 AGGCAAGTCGTGAGAACAAAACTAATTAAAGCAATCGGTGTTTTTAATATTGGTGT
1 AGGCAAGTCATGAGAACAAAACTAATTAAAGCAATCGATGTTTTTAATATTGGTGT
*
18802531 AGGCAAGTCATGAGAACGAAACTAATTAAAGCAATCGATGTTTTTAATATTGGTGT
1 AGGCAAGTCATGAGAACAAAACTAATTAAAGCAATCGATGTTTTTAATATTGGTGT
18802587 AG
1 AG
18802589 TTTTTATGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.30
Consensus pattern (56 bp):
AGGCAAGTCATGAGAACAAAACTAATTAAAGCAATCGATGTTTTTAATATTGGTGT
Found at i:18805209 original size:19 final size:19
Alignment explanation
Indices: 18805175--18805223 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
18805165 GATAGAAAAG
*
18805175 ATGACAAATG-AATAT-GA
1 ATGAGAAATGAAATATGGA
18805192 TATGAGAAATGAAATATGGA
1 -ATGAGAAATGAAATATGGA
18805212 ATGATGAAATGA
1 ATGA-GAAATGA
18805224 GATGTGAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 9 0.33
19 9 0.33
20 9 0.33
ACGTcount: A:0.51, C:0.02, G:0.22, T:0.24
Consensus pattern (19 bp):
ATGAGAAATGAAATATGGA
Found at i:18805232 original size:19 final size:18
Alignment explanation
Indices: 18805180--18805244 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 18
18805170 AAAAGATGAC
18805180 AAATGAATATGATATGA-G
1 AAATGAATATGA-ATGATG
18805198 AAATGAAATATGGAATGATG
1 AAATG-AATAT-GAATGATG
*
18805218 AAATGAGATGTGAATTG-TG
1 AAATGA-ATATGAA-TGATG
18805237 AAATGAAT
1 AAATGAAT
18805245 TCAAGTATTG
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
18 7 0.17
19 21 0.51
20 13 0.32
ACGTcount: A:0.48, C:0.00, G:0.25, T:0.28
Consensus pattern (18 bp):
AAATGAATATGAATGATG
Found at i:18806248 original size:54 final size:54
Alignment explanation
Indices: 18806144--18806250 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
18806134 TGTGAGATCA
* * **
18806144 AAGTCAGTGAGTTATACAGGCAGAGACACGGGCTCGGACACGGCCATGTGTCTT
1 AAGTCAGTGAGTTACACAGGCAGAGACACGAGCTCGGACACAACCATGTGTCTT
* * *
18806198 AAGTTAGTGAGTTACACAGGCA-AGGACACGAGCTGGGACACAACCGTGTGTCT
1 AAGTCAGTGAGTTACACAGGCAGA-GACACGAGCTCGGACACAACCATGTGTCT
18806251 CAACTTTGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 1 0.02
54 44 0.98
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.20
Consensus pattern (54 bp):
AAGTCAGTGAGTTACACAGGCAGAGACACGAGCTCGGACACAACCATGTGTCTT
Found at i:18808029 original size:8 final size:8
Alignment explanation
Indices: 18808016--18808084 Score: 50
Period size: 8 Copynumber: 8.2 Consensus size: 8
18808006 CTAAGCCCTA
18808016 TTTTTATT
1 TTTTTATT
18808024 TTTTTATT
1 TTTTTATT
*
18808032 TATTTTTTT
1 T-TTTTATT
*
18808041 TATTTTATGGA
1 T-TTTTAT--T
* *
18808052 TTTATATG
1 TTTTTATT
*
18808060 TTTTTA-C
1 TTTTTATT
18808067 TTTTTATT
1 TTTTTATT
18808075 TTTTTATT
1 TTTTTATT
18808083 TT
1 TT
18808085 CTGGATTTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
7 6 0.12
8 24 0.49
9 13 0.27
10 5 0.10
11 1 0.02
ACGTcount: A:0.16, C:0.01, G:0.04, T:0.78
Consensus pattern (8 bp):
TTTTTATT
Found at i:18819768 original size:42 final size:42
Alignment explanation
Indices: 18819655--18819756 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 42
18819645 AATGTCATGT
* * *
18819655 CCCAGACATGGTCTTACATGGAAATCTCATATCGGTGCCAATAG
1 CCCAGATATGGTCTTACA-CG-AATCTCATATCGATGCCAATAG
* *
18819699 CCCAGGTATGGTCTTACACGAAGTCTCATATCGATGTC-ATA-
1 CCCAGATATGGTCTTACACGAA-TCTCATATCGATGCCAATAG
18819740 CCCTAGATATGGTCTTA
1 CCC-AGATATGGTCTTA
18819757 TACGGGATCT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
41 3 0.06
42 17 0.34
43 14 0.28
44 16 0.32
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (42 bp):
CCCAGATATGGTCTTACACGAATCTCATATCGATGCCAATAG
Found at i:18819798 original size:20 final size:20
Alignment explanation
Indices: 18819773--18819815 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
18819763 ATCTCAAATT
18819773 GATGCCGATGCCACATCCCA
1 GATGCCGATGCCACATCCCA
18819793 GATGCCGATGCCACATCCCA
1 GATGCCGATGCCACATCCCA
18819813 GAT
1 GAT
18819816 ATGGTCTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.37, G:0.21, T:0.16
Consensus pattern (20 bp):
GATGCCGATGCCACATCCCA
Found at i:18821070 original size:8 final size:8
Alignment explanation
Indices: 18821057--18821082 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
18821047 CACACGAGTT
18821057 GCCATACG
1 GCCATACG
18821065 GCCATACG
1 GCCATACG
18821073 GCCATACG
1 GCCATACG
18821081 GC
1 GC
18821083 AGGTGTGTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.38, G:0.27, T:0.12
Consensus pattern (8 bp):
GCCATACG
Found at i:18826014 original size:109 final size:106
Alignment explanation
Indices: 18825823--18826027 Score: 295
Period size: 109 Copynumber: 1.9 Consensus size: 106
18825813 TTATTGATTT
18825823 TGAAGACAGGTCATGCATGGTATTTATACGCACCATGCATTAGAAAAACATAAACGTTAGTAGGA
1 TGAAGACAGGTCATGCATGGTATTTATACGCACCATGCATTAGAAAAACATAAACGTTAGTAGGA
* **
18825888 AGCCTGTTTGGCCAAAATAATCTTTAAAAAAAGAAATAAAACAA
66 AGCCTATTTAACCAAAAT-A--TTTAAAAAAAGAAATAAAACAA
* * * * *
18825932 TGAAGACTGGTCATGCATGGTATTTATAGGCACCATGTATTAGAAAAACATGAACGTT-GATAGT
1 TGAAGACAGGTCATGCATGGTATTTATACGCACCATGCATTAGAAAAACATAAACGTTAG-TAGG
18825996 AAGCCTATTTAACCAAAATATTTAAAAAAAGA
65 AAGCCTATTTAACCAAAATATTTAAAAAAAGA
18826028 GAAAGAAAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
106 12 0.14
108 2 0.02
109 73 0.84
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.26
Consensus pattern (106 bp):
TGAAGACAGGTCATGCATGGTATTTATACGCACCATGCATTAGAAAAACATAAACGTTAGTAGGA
AGCCTATTTAACCAAAATATTTAAAAAAAGAAATAAAACAA
Found at i:18828407 original size:2 final size:2
Alignment explanation
Indices: 18828402--18828433 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18828392 TTCTATATAA
18828402 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
18828434 ACATGTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:18843383 original size:17 final size:17
Alignment explanation
Indices: 18843341--18843384 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
18843331 TATTGCTTCT
18843341 AAATGATATTTTTGGGAA
1 AAATG-TATTTTTGGGAA
*
18843359 AAAAGTATTTTT-GGAA
1 AAATGTATTTTTGGGAA
18843375 CAAATGTATT
1 -AAATGTATT
18843385 CCTAAACAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 15 0.65
18 4 0.17
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (17 bp):
AAATGTATTTTTGGGAA
Found at i:18844453 original size:128 final size:128
Alignment explanation
Indices: 18844225--18844481 Score: 514
Period size: 128 Copynumber: 2.0 Consensus size: 128
18844215 ACGACTCAAA
18844225 CTAAAATCAACTTAAATTAACAAAACTCAAAATCATCCCAAACCCCAAAATCATTCAAATGAAAC
1 CTAAAATCAACTTAAATTAACAAAACTCAAAATCATCCCAAACCCCAAAATCATTCAAATGAAAC
18844290 CTAAAATTACTAAAAAAAAACTTGAACTACCCAGAATTATTCTAATTTAAAACTAGCCTAAAT
66 CTAAAATTACTAAAAAAAAACTTGAACTACCCAGAATTATTCTAATTTAAAACTAGCCTAAAT
18844353 CTAAAATCAACTTAAATTAACAAAACTCAAAATCATCCCAAACCCCAAAATCATTCAAATGAAAC
1 CTAAAATCAACTTAAATTAACAAAACTCAAAATCATCCCAAACCCCAAAATCATTCAAATGAAAC
18844418 CTAAAATTACTAAAAAAAAACTTGAACTACCCAGAATTATTCTAATTTAAAACTAGCCTAAAT
66 CTAAAATTACTAAAAAAAAACTTGAACTACCCAGAATTATTCTAATTTAAAACTAGCCTAAAT
18844481 C
1 C
18844482 GAAATAATCT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 129 1.00
ACGTcount: A:0.51, C:0.22, G:0.03, T:0.24
Consensus pattern (128 bp):
CTAAAATCAACTTAAATTAACAAAACTCAAAATCATCCCAAACCCCAAAATCATTCAAATGAAAC
CTAAAATTACTAAAAAAAAACTTGAACTACCCAGAATTATTCTAATTTAAAACTAGCCTAAAT
Found at i:18851443 original size:135 final size:138
Alignment explanation
Indices: 18851237--18851546 Score: 305
Period size: 135 Copynumber: 2.2 Consensus size: 138
18851227 TTTTTTAAAT
* * * * * *
18851237 AATAAAGGAAACT-AAAAAGATAAAATAGTTTTTCCT-TCATAA-TCCAAGTTTTCCTCTAAATA
1 AATAAAGGAAA-TAAAAAAGATAAATTAATTTTTCGTGT-AAAACT-CAAGTTTTCCTATAAAAA
* * *
18851299 CTCAGGTAATTTCCTGTAAAATCCC-AAGTGTT-TC-CCTCTTACTA-AAAAA-TAAAATTAATT
63 CTCAAGTAATTTACTATAAAA-CCCTAAGTGTTCTCTCCTCTTACTAGAAAAACTAAAA-TAATT
18851359 CTAAAAAAGAAAA
126 CTAAAAAAGAAAA
*
18851372 AATGAAATGAAA-AAAAAAGATAAATTAATTTTTCGTGTAAAACTCAAGTTTTCCTATAAAAACT
1 AAT-AAAGGAAATAAAAAAGATAAATTAATTTTTCGTGTAAAACTCAAGTTTTCCTATAAAAACT
* * * * *
18851436 TAAGTAATTTATTATAAAACCCTAAGTTTTCTCTTCCTTTTACTAGGAAAAATCTGAAATAATTC
65 CAAGTAATTTACTATAAAACCCTAAGTGTTCTC-TCCTCTTACTA-GAAAAA-CTAAAATAATTC
*
18851501 TAAAAAGGAAAA
127 TAAAAAAGAAAA
* * *
18851513 GATAAAGGAAATTAAAAAGATAAATTGATTTTTC
1 AATAAAGGAAATAAAAAAGATAAATTAATTTTTC
18851547 TAGTCCATAT
Statistics
Matches: 142, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
134 3 0.02
135 64 0.45
136 11 0.08
138 9 0.06
140 12 0.08
141 39 0.27
142 4 0.03
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (138 bp):
AATAAAGGAAATAAAAAAGATAAATTAATTTTTCGTGTAAAACTCAAGTTTTCCTATAAAAACTC
AAGTAATTTACTATAAAACCCTAAGTGTTCTCTCCTCTTACTAGAAAAACTAAAATAATTCTAAA
AAAGAAAA
Found at i:18851720 original size:31 final size:31
Alignment explanation
Indices: 18851685--18851743 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
18851675 ATGTGTGCAA
18851685 TGACTAAAATAATAAAAATATGTAACGAGAG
1 TGACTAAAATAATAAAAATATGTAACGAGAG
* *
18851716 TGACTAAAATGATAAAATTATGTAACGA
1 TGACTAAAATAATAAAAATATGTAACGA
18851744 TAATATCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.53, C:0.07, G:0.15, T:0.25
Consensus pattern (31 bp):
TGACTAAAATAATAAAAATATGTAACGAGAG
Found at i:18854675 original size:18 final size:18
Alignment explanation
Indices: 18854634--18854675 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
18854624 TCATTGCAAT
*
18854634 ATATGTAAAAATAATTTA
1 ATATATAAAAATAATTTA
*
18854652 AAATATAAAAATTAA-TTA
1 ATATATAAAAA-TAATTTA
18854670 ATATAT
1 ATATAT
18854676 CAATATATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
ATATATAAAAATAATTTA
Found at i:18854831 original size:34 final size:35
Alignment explanation
Indices: 18854765--18854831 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
18854755 CAAACACCAG
*
18854765 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAACCATTTTACAGAAAAGT
* *
18854800 AAAATATTTTCCCG-AAACCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAACCATTTTACAGAAAA
18854832 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAACCATTTTACAGAAAAGT
Found at i:18856894 original size:17 final size:18
Alignment explanation
Indices: 18856857--18856894 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
18856847 TACAATAAAT
* *
18856857 AATATATAATAAATTTGA
1 AATATATAATAAATATAA
18856875 AATA-ATAATAAATATAA
1 AATATATAATAAATATAA
18856892 AAT
1 AAT
18856895 TAAAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AATATATAATAAATATAA
Found at i:18856969 original size:24 final size:24
Alignment explanation
Indices: 18856843--18857142 Score: 142
Period size: 24 Copynumber: 12.8 Consensus size: 24
18856833 TGAATTGGAT
* *
18856843 AATTTACAATAAATAATATATAATA
1 AATTTAAAAT-AATAATATATGATA
* *
18856868 AATTTGAAATAATAATAAAT-ATA
1 AATTTAAAATAATAATATATGATA
* *
18856891 AAATTAAAA-AAT--TTTGATGAT-
1 AATTTAAAATAATAATAT-ATGATA
* * ***
18856912 AATTCTAGAATAATCATACGCGATA
1 AATT-TAAAATAATAATATATGATA
** * *
18856937 AATCCAAAATAATAGTATATAATA
1 AATTTAAAATAATAATATATGATA
*
18856961 AATTT-AAA-AATATTA-ATGATA
1 AATTTAAAATAATAATATATGATA
* *
18856982 AATTTGAAATAGAT-ATACATGATA
1 AATTTAAAATA-ATAATATATGATA
** ** *
18857006 AATTTAAAATAATGTTA-ACAATG
1 AATTTAAAATAATAATATATGATA
18857029 AATTTAAAATAATAATAT-TGATA
1 AATTTAAAATAATAATATATGATA
* *
18857052 AA-TTACAAATAATAAAACATGATA
1 AATTTA-AAATAATAATATATGATA
* **
18857076 AATCTAAAATAATAATATACAATA
1 AATTTAAAATAATAATATATGATA
* * * * *
18857100 CACTT-AGATAATATTA-ATGATT
1 AATTTAAAATAATAATATATGATA
18857122 AATTTAATAATAATAAGTATA
1 AATTTAA-AATAATAA-TATA
18857143 AACATTCAAA
Statistics
Matches: 199, Mismatches: 56, Indels: 39
0.68 0.19 0.13
Matches are distributed among these distances:
20 1 0.01
21 15 0.08
22 27 0.14
23 63 0.32
24 76 0.38
25 16 0.08
26 1 0.01
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (24 bp):
AATTTAAAATAATAATATATGATA
Found at i:18857111 original size:70 final size:68
Alignment explanation
Indices: 18856933--18857125 Score: 174
Period size: 70 Copynumber: 2.8 Consensus size: 68
18856923 AATCATACGC
* * * * * ** *
18856933 GATAAATCCAAAATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATAT
1 GATAAATCTAAAATAATAATATACAAT-AATTTAATAATAATAATGATAAATTACAAATAGATAA
18856998 ACAT
65 ACAT
* ** *
18857002 GATAAATTTAAAATAATGTTA-ACAATGAATTTAAAATAATAATATTGATAAATTACAAATA-AT
1 GATAAATCTAAAATAATAATATACAAT-AATTT--AATAATAATAATGATAAATTACAAATAGAT
18857065 AAAACAT
63 -AAACAT
* * *
18857072 GATAAATCTAAAATAATAATATACAATACACTTAGATAATATTAATGATTAATT
1 GATAAATCTAAAATAATAATATACAATA-ATTTA-ATAATAATAATGATAAATT
18857126 TAATAATAAT
Statistics
Matches: 99, Mismatches: 19, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
68 9 0.09
69 20 0.20
70 62 0.63
71 8 0.08
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (68 bp):
GATAAATCTAAAATAATAATATACAATAATTTAATAATAATAATGATAAATTACAAATAGATAAA
CAT
Found at i:18859573 original size:22 final size:22
Alignment explanation
Indices: 18859525--18859573 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
18859515 AATCATGTCA
* *
18859525 TTTTCAAGTTGAAACGGTATGG
1 TTTTGAAGTTGAAACGGAATGG
18859547 TTTTGAAGTTGAAACGGAATGG
1 TTTTGAAGTTGAAACGGAATGG
18859569 TTTTG
1 TTTTG
18859574 GCTGGTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.06, G:0.29, T:0.39
Consensus pattern (22 bp):
TTTTGAAGTTGAAACGGAATGG
Found at i:18869572 original size:19 final size:20
Alignment explanation
Indices: 18869530--18869575 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
18869520 AAAAAAATTA
* *
18869530 AAAATCATAATATATTTTTG
1 AAAATTATAAAATATTTTTG
18869550 AAAATTATAAAATATTTTT-
1 AAAATTATAAAATATTTTTG
18869569 AAAATTA
1 AAAATTA
18869576 CAAGTCTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
AAAATTATAAAATATTTTTG
Found at i:18869681 original size:22 final size:22
Alignment explanation
Indices: 18869656--18869706 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
18869646 AGAAAATCTT
18869656 AAATTTTTTTATGATTTTTTAA
1 AAATTTTTTTATGATTTTTTAA
**
18869678 AAATAATTTTATGATTTTTTAA
1 AAATTTTTTTATGATTTTTTAA
18869700 AAATTTT
1 AAATTTT
18869707 ATGGGTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (22 bp):
AAATTTTTTTATGATTTTTTAA
Found at i:18869936 original size:19 final size:19
Alignment explanation
Indices: 18869886--18869954 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
18869876 TCAAAAATAG
* *
18869886 TTTATGATTATTTTTAATTT
1 TTTAAGATT-TTTTTAATGT
* * *
18869906 TTTAATAATTTTCT-ATGT
1 TTTAAGATTTTTTTAATGT
*
18869924 TTTAAGATTTTTTTAATTT
1 TTTAAGATTTTTTTAATGT
*
18869943 TTTAGGATTTTT
1 TTTAAGATTTTT
18869955 AATAAATTTA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
18 14 0.37
19 18 0.47
20 6 0.16
ACGTcount: A:0.25, C:0.01, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTAAGATTTTTTTAATGT
Found at i:18871754 original size:26 final size:26
Alignment explanation
Indices: 18871725--18871814 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 26
18871715 CTTATGAGAG
*
18871725 TCCCGTTATATGGCTCTTCGTGAGCT
1 TCCCGTTATATGGCTCTTCGTGAACT
* *
18871751 TCCCGATTA-AAGGCTCTTTGTGAACT
1 TCCCG-TTATATGGCTCTTCGTGAACT
* * *
18871777 TCCCGTTAT-T-TCTC-ACTTGAACT
1 TCCCGTTATATGGCTCTTCGTGAACT
18871800 TCCCGTTATATGGCT
1 TCCCGTTATATGGCT
18871815 ATCCAGTGCT
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
23 15 0.29
24 4 0.08
25 5 0.10
26 24 0.47
27 3 0.06
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.39
Consensus pattern (26 bp):
TCCCGTTATATGGCTCTTCGTGAACT
Found at i:18871876 original size:24 final size:24
Alignment explanation
Indices: 18871831--18871881 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
18871821 TGCTTCCTAA
*
18871831 TTAATTGCTCTTCGGAGCTACCCG
1 TTAATTGCTCTTCAGAGCTACCCG
*
18871855 TTAATTGCTC-TCTAGAGTTACCCG
1 TTAATTGCTCTTC-AGAGCTACCCG
18871879 TTA
1 TTA
18871882 TAGTCTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (24 bp):
TTAATTGCTCTTCAGAGCTACCCG
Found at i:18879264 original size:223 final size:222
Alignment explanation
Indices: 18878877--18879322 Score: 730
Period size: 223 Copynumber: 2.0 Consensus size: 222
18878867 GCTGTTGATA
* *
18878877 GATAAACAACTTTTGTTAAAGGAATTTTGATGAAAACATGATTTAGGGGCTAAATTGAAAAGTTG
1 GATAAACAACTTTTGTTAAAGGAATTTTGATGAAAACATGATTTAAGGGCTAAATTGAAAAGATG
* ** * *
18878942 TAAAATTTATGGGAAATTTTAATTTTTGTGAAATACATAGGCTATTATTTTTATAAGTAAAAATT
66 TAAAATTCATGAAAAATTCTAATTTTTGTGAAATACATAGGCTATTATTGTTATAAGTAAAAATT
* *
18879007 GGCTAGGCTTGGAATAAGAATTAAATTGCATGAATTTCATTTTCCGAGCCTAGGGATGAAATCGT
131 GGCTAGGCTTGGAATAAGAATTAAATTGCATGAATTTAATTTTCCGAGCCTAAGGATGAAATCGT
18879072 CATTAATTAAAAGTATAGAGGCAAAAT
196 CATTAATTAAAAGTATAGAGGCAAAAT
18879099 GATAAACAACTTTTGTTAAAGGAATTTTGATGAAAACATGATTTAAGGGCTAAATTGAAAAGATG
1 GATAAACAACTTTTGTTAAAGGAATTTTGATGAAAACATGATTTAAGGGCTAAATTGAAAAGATG
*
18879164 TAAAATTCATAGAAAAATTCTAATTTTTGTGAAATACATGGGCTATTATTGTTATAAGTAAAAAT
66 TAAAATTCAT-GAAAAATTCTAATTTTTGTGAAATACATAGGCTATTATTGTTATAAGTAAAAAT
* ** *
18879229 TGGCTAGGCTTGGAATAAGGATTAAATTGCATGAATTTAATTTTTTGAGCCTAAGGATGAAATTG
130 TGGCTAGGCTTGGAATAAGAATTAAATTGCATGAATTTAATTTTCCGAGCCTAAGGATGAAATCG
* * *
18879294 TTATTAATTAAAAGTATAGGGGCTAAAT
195 TCATTAATTAAAAGTATAGAGGCAAAAT
18879322 G
1 G
18879323 GAAATTTTAT
Statistics
Matches: 206, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
222 72 0.35
223 134 0.65
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (222 bp):
GATAAACAACTTTTGTTAAAGGAATTTTGATGAAAACATGATTTAAGGGCTAAATTGAAAAGATG
TAAAATTCATGAAAAATTCTAATTTTTGTGAAATACATAGGCTATTATTGTTATAAGTAAAAATT
GGCTAGGCTTGGAATAAGAATTAAATTGCATGAATTTAATTTTCCGAGCCTAAGGATGAAATCGT
CATTAATTAAAAGTATAGAGGCAAAAT
Found at i:18879844 original size:26 final size:26
Alignment explanation
Indices: 18879814--18879870 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
18879804 GCAACTCTTA
*
18879814 TGAGCGTCCCG-TTATATGGCTCTTCG
1 TGAGCGTCCCGATTA-AAGGCTCTTCG
* * *
18879840 TGAGCTTCTCGATTAAAGGCTCTTTG
1 TGAGCGTCCCGATTAAAGGCTCTTCG
18879866 TGAGC
1 TGAGC
18879871 TTCTTATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (26 bp):
TGAGCGTCCCGATTAAAGGCTCTTCG
Found at i:18888010 original size:20 final size:20
Alignment explanation
Indices: 18887987--18888025 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18887977 TGAAAAGATG
18887987 TAAAATTTATGAAAAAATTC
1 TAAAATTTATGAAAAAATTC
* *
18888007 TAAATTTTATGAAATAATT
1 TAAAATTTATGAAAAAATT
18888026 GACTGCTACT
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:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAAAATTTATGAAAAAATTC
Found at i:18888549 original size:24 final size:24
Alignment explanation
Indices: 18888522--18888586 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
18888512 CGAAAGAGTG
*
18888522 TCCCGTTATTAGCTCTCA-TGAGCT
1 TCCCGTTATTAGCTCT-AGCGAGCT
*
18888546 TCCCGTTATATAGTTCTAGCGAGCT
1 TCCCGTTAT-TAGCTCTAGCGAGCT
* *
18888571 TTCCGTTAATAGCTCT
1 TCCCGTTATTAGCTCT
18888587 TCGGAGCATC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 16 0.47
25 18 0.53
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.38
Consensus pattern (24 bp):
TCCCGTTATTAGCTCTAGCGAGCT
Found at i:18891736 original size:43 final size:41
Alignment explanation
Indices: 18891520--18891759 Score: 182
Period size: 43 Copynumber: 5.7 Consensus size: 41
18891510 TTAGCGGTAC
* * * *
18891520 CTTTAGCGGCGC--TTCAAAAAAAGCCGCTAAAGGTTATGTT
1 CTTTAGCGGCGCTTTTCCACAAACGCCGCTAAA-GTAATGTT
* * **
18891560 CTTTAGCGGCGC-TTTCTCAGAAACGCCGCTAAAGAACATGAC
1 CTTTAGCGGCGCTTTTC-CACAAACGCCGCTAAAGTA-ATGTT
* * * * *
18891602 CTTTAGCGGCGATTCTACGACAAACGCCGCTAAAGAACATGAT
1 CTTTAGCGGCGCTT-TTCCACAAACGCCGCTAAAGTA-ATGTT
* * * *
18891645 CTTTAGCAGCGC-ATACCAACAAACGCCGCTAAAGCTCATGTT
1 CTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAAG-TAATGTT
18891687 CTTTTAGCGGCGCCTTTTCCACAAACGCCGCTACAAGTAATGTT
1 C-TTTAGCGGCG-CTTTTCCACAAACGCCGCTA-AAGTAATGTT
*
18891731 CTTTAGCGGCGTTGTTTTCCACAAACGCC
1 CTTTAGCGGCG--CTTTTCCACAAACGCC
18891760 ACTATGGTCA
Statistics
Matches: 163, Mismatches: 25, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
40 12 0.07
41 7 0.04
42 48 0.29
43 52 0.32
44 38 0.23
45 6 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (41 bp):
CTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGTAATGTT
Found at i:18892209 original size:21 final size:21
Alignment explanation
Indices: 18892185--18892225 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18892175 TGAACCCCTG
*
18892185 CTTCTCTCACTGCAGCCTCTA
1 CTTCCCTCACTGCAGCCTCTA
* *
18892206 CTTCCCTCGCTGCCGCCTCT
1 CTTCCCTCACTGCAGCCTCT
18892226 GCTTTAAGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.49, G:0.12, T:0.32
Consensus pattern (21 bp):
CTTCCCTCACTGCAGCCTCTA
Found at i:18897702 original size:9 final size:9
Alignment explanation
Indices: 18897685--18898319 Score: 211
Period size: 9 Copynumber: 74.4 Consensus size: 9
18897675 TAAGTATAAT
*
18897685 TAAGCTATG
1 TAAGTTATG
18897694 TAAGTTATG
1 TAAGTTATG
18897703 TAAGTTATG
1 TAAGTTATG
18897712 TATTAAGTTAT-
1 ---TAAGTTATG
*
18897723 TTA-TTATG
1 TAAGTTATG
* *
18897731 AAAATTATG
1 TAAGTTATG
18897740 TAAGTTATG
1 TAAGTTATG
18897749 T-A-TTATG
1 TAAGTTATG
*
18897756 -AATATTATG
1 TAA-GTTATG
*
18897765 TAAGTTGTG
1 TAAGTTATG
18897774 -AA-TTATG
1 TAAGTTATG
**
18897781 TAAGTGCTG
1 TAAGTTATG
18897790 T-A-TTATG
1 TAAGTTATG
18897797 ATCAA-TTATG
1 -T-AAGTTATG
18897807 TAAGTTATG
1 TAAGTTATG
*
18897816 T-A-TTCTG
1 TAAGTTATG
* *
18897823 AAAATTATG
1 TAAGTTATG
* *
18897832 TAAGCTGTG
1 TAAGTTATG
* *
18897841 T-A-CTATA
1 TAAGTTATG
18897848 TAAGTTATG
1 TAAGTTATG
18897857 TAAGTTATG
1 TAAGTTATG
* *
18897866 AAAATTATG
1 TAAGTTATG
18897875 TAAGTTATG
1 TAAGTTATG
*
18897884 TAAGTT-TT
1 TAAGTTATG
*
18897892 TTA-TTATG
1 TAAGTTATG
* * * **
18897900 AAAATGAAC
1 TAAGTTATG
*
18897909 TAACTTATG
1 TAAGTTATG
18897918 T-A-TTATG
1 TAAGTTATG
* *
18897925 AAAATTATG
1 TAAGTTATG
*
18897934 TAAGTTCA-A
1 TAAGTT-ATG
18897943 T-A-TTATG
1 TAAGTTATG
18897950 TAAGTTATG
1 TAAGTTATG
*
18897959 T-A-TTACG
1 TAAGTTATG
* *
18897966 AAAATTATG
1 TAAGTTATG
*
18897975 TAAGTTCA-A
1 TAAGTT-ATG
18897984 T-A-TTATG
1 TAAGTTATG
18897991 TAAGTTATG
1 TAAGTTATG
18898000 T-A-TTATG
1 TAAGTTATG
* *
18898007 AAAATTATG
1 TAAGTTATG
*
18898016 TAAGTTGTG
1 TAAGTTATG
18898025 TATAG-TA--
1 TA-AGTTATG
18898032 TAAGTTATG
1 TAAGTTATG
18898041 TAAGTTATG
1 TAAGTTATG
18898050 T-A-TTATG
1 TAAGTTATG
* *
18898057 AAAATTATG
1 TAAGTTATG
*
18898066 TAAGTTGTG
1 TAAGTTATG
18898075 TATAG-TA--
1 TA-AGTTATG
18898082 TAAGTTATG
1 TAAGTTATG
*
18898091 TAGGTTATG
1 TAAGTTATG
* *
18898100 AAAATTATG
1 TAAGTTATG
18898109 TAAGTTAT-
1 TAAGTTATG
**
18898117 T-TTTTATG
1 TAAGTTATG
* * *
18898125 AAAATTAAG
1 TAAGTTATG
18898134 TAAGTTATG
1 TAAGTTATG
18898143 T-A-TTATG
1 TAAGTTATG
* *
18898150 AAAATTATG
1 TAAGTTATG
*
18898159 TAAGTTCA-A
1 TAAGTT-ATG
18898168 T-A-TTATG
1 TAAGTTATG
18898175 TAAGTTATG
1 TAAGTTATG
*
18898184 T-A-CTATG
1 TAAGTTATG
* *
18898191 AAAATTATG
1 TAAGTTATG
18898200 TAAGTTATG
1 TAAGTTATG
* *
18898209 TATGTTGTG
1 TAAGTTATG
*
18898218 T-ATTATATG
1 TAAGT-TATG
18898227 TAAGTTATG
1 TAAGTTATG
*
18898236 TATGTGTATAATG
1 TA--AGT-T-ATG
*
18898249 AAAGTTATG
1 TAAGTTATG
*
18898258 TAAGTTGTG
1 TAAGTTATG
*
18898267 T-A-TAATG
1 TAAGTTATG
18898274 TAAGTTATG
1 TAAGTTATG
*
18898283 TAAGTTAAG
1 TAAGTTATG
*
18898292 T-A-TAAT-
1 TAAGTTATG
*
18898298 TAAGCTATG
1 TAAGTTATG
18898307 TAAGTTATG
1 TAAGTTATG
18898316 TAAG
1 TAAG
18898320 ATGTGATAGT
Statistics
Matches: 452, Mismatches: 108, Indels: 132
0.65 0.16 0.19
Matches are distributed among these distances:
6 8 0.02
7 83 0.18
8 46 0.10
9 280 0.62
10 18 0.04
11 4 0.01
12 9 0.02
13 4 0.01
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (9 bp):
TAAGTTATG
Found at i:18897743 original size:25 final size:25
Alignment explanation
Indices: 18897715--18897780 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
18897705 AGTTATGTAT
*
18897715 TAAGTTATTTATTATGAAAATTATG
1 TAAGTTATGTATTATGAAAATTATG
*
18897740 TAAGTTATGTATTATGAATATTATG
1 TAAGTTATGTATTATGAAAATTATG
* *
18897765 TAAGTTGTGAATTATG
1 TAAGTTATGTATTATG
18897781 TAAGTGCTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (25 bp):
TAAGTTATGTATTATGAAAATTATG
Found at i:18897753 original size:16 final size:16
Alignment explanation
Indices: 18897718--18898284 Score: 106
Period size: 16 Copynumber: 34.5 Consensus size: 16
18897708 TATGTATTAA
* *
18897718 GTTATTTATTATGAAA
1 GTTATGTATTATGTAA
*
18897734 ATTATGTAAGTTATGT-A
1 GTTATGT-A-TTATGTAA
18897751 -TTATGAATATTATGTAA
1 GTTATG--TATTATGTAA
* *
18897768 GTTGTGAATTATGTAA
1 GTTATGTATTATGTAA
**
18897784 GTGCTGTATTATGATCAA
1 GTTATGTATTATG-T-AA
18897802 -TTATGTAAGTTATGT-A
1 GTTATGT-A-TTATGTAA
* *
18897818 -TTCTGAAAATTATGTAA
1 GTTATG--TATTATGTAA
* * * *
18897835 GCTGTGTACTATATAA
1 GTTATGTATTATGTAA
*
18897851 GTTATGTAAGTTATGAAA
1 GTTATGT-A-TTATGTAA
*
18897869 ATTATGTAAGTTATGTAA
1 GTTATGT-A-TTATGTAA
* * *
18897887 GTTTTTTATTATGAAA
1 GTTATGTATTATGTAA
* * **
18897903 ATGAACTAACTTATGT-A
1 GTTATGT-A-TTATGTAA
*
18897920 -TTATGAAAATTATGTAA
1 GTTATG--TATTATGTAA
*
18897937 GTTCA-ATATTATGTAA
1 GTT-ATGTATTATGTAA
*
18897953 GTTATGTATTACG-AA
1 GTTATGTATTATGTAA
18897968 ---A---ATTATGTAA
1 GTTATGTATTATGTAA
*
18897978 GTTCA-ATATTATGTAA
1 GTT-ATGTATTATGTAA
*
18897994 GTTATGTATTATGAAA
1 GTTATGTATTATGTAA
* *
18898010 ATTATGTAAGTTGTGTATA
1 GTTATGT-A-TTATGTA-A
*
18898029 G-TAT-AAGTTATGTAA
1 GTTATGTA-TTATGTAA
*
18898044 GTTATGTATTATGAAA
1 GTTATGTATTATGTAA
* *
18898060 ATTATGTAAGTTGTGTATA
1 GTTATGT-A-TTATGTA-A
* *
18898079 G-TAT-AAGTTATGTAG
1 GTTATGTA-TTATGTAA
*
18898094 GTTATGAAAATTATGTAA
1 GTTATG--TATTATGTAA
* * *
18898112 GTTATTTTTTATGAAA
1 GTTATGTATTATGTAA
* *
18898128 ATTAAGTAAGTTATGT-A
1 GTTATGT-A-TTATGTAA
*
18898145 -TTATGAAAATTATGTAA
1 GTTATG--TATTATGTAA
*
18898162 GTTCA-ATATTATGTAA
1 GTT-ATGTATTATGTAA
* *
18898178 GTTATGTACTATGAAA
1 GTTATGTATTATGTAA
* *
18898194 ATTATGTAAGTTATGTAT
1 GTTATGT-A-TTATGTAA
*
18898212 GTTGTGTATTATATGTAA
1 GTTATGTA-T-TATGTAA
*
18898230 GTTATGTA-TGTGT-A
1 GTTATGTATTATGTAA
* *
18898244 -TAATGAAAGTTATGTAA
1 GTTATG-TA-TTATGTAA
* *
18898261 GTTGTGTATAATGTAA
1 GTTATGTATTATGTAA
18898277 GTTATGTA
1 GTTATGTA
18898285 AGTTAAGTAT
Statistics
Matches: 396, Mismatches: 95, Indels: 120
0.65 0.16 0.20
Matches are distributed among these distances:
9 5 0.01
10 2 0.01
12 1 0.00
13 4 0.01
14 3 0.01
15 12 0.03
16 220 0.56
17 28 0.07
18 110 0.28
19 11 0.03
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (16 bp):
GTTATGTATTATGTAA
Found at i:18897792 original size:41 final size:41
Alignment explanation
Indices: 18897733--18898205 Score: 137
Period size: 41 Copynumber: 10.9 Consensus size: 41
18897723 TTATTATGAA
*
18897733 AATTATGTAAGTTATGTATTATGA-ATATTATGTAAGTTGTG
1 AATTATGTAAGTGATGTATTATGATA-ATTATGTAAGTTGTG
*
18897774 AATTATGTAAGTGCTGTATTATGATCAATTATGTAAGTTATGTATTCTG
1 AATTATGTAAGTGATGTATTATGAT-AATTATGTAAG-T-TG-----TG
* *
18897823 AAAATTATGTAAGCTG-TGTACTAT-ATAAGTTATGTAAGTTATG
1 --AATTATGTAAG-TGATGTATTATGATAA-TTATGTAAGTTGTG
* * ** **
18897866 AAAATTATGTAAGTTATGTA--A-GTTTTTTAT-T-A--TGAA
1 --AATTATGTAAGTGATGTATTATGATAATTATGTAAGTTGTG
* ** * * * **
18897902 AATGAACTAACTTATGTATTATGAAAATTATGTAAGTT-CA
1 AATTATGTAAGTGATGTATTATGATAATTATGTAAGTTGTG
* * * **
18897942 ATATTATGTAAGTTATGTATTACGAAAATTATGTAAGTT-CA
1 A-ATTATGTAAGTGATGTATTATGATAATTATGTAAGTTGTG
* *
18897983 ATATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTGTGTATAG
1 A-ATTATGTAAGTGATGTATTATGATAATTATGTAAG-T-TG--T-G
* *
18898030 TATAAGTTATGTAAGTTATGTATTATGAAAATTATGTAAGTTGTG
1 ---AA-TTATGTAAGTGATGTATTATGATAATTATGTAAGTTGTG
* * * * *
18898075 TA-TAGTATAAGTTATGTAGGTTATGAAAATTATGTAAGTTATTTTTTATG
1 AATTA-TGTAAGTGATGTA--TTATGATAATTATGTAAG-------TTGTG
* * * **
18898125 AAAATTAAGTAAGTTATGTATTATGAAAATTATGTAAGTT-CA
1 --AATTATGTAAGTGATGTATTATGATAATTATGTAAGTTGTG
* * *
18898167 ATATTATGTAAGTTATGTACTATGAAAATTATGTAAGTT
1 A-ATTATGTAAGTGATGTATTATGATAATTATGTAAGTT
18898206 ATGTATGTTG
Statistics
Matches: 347, Mismatches: 38, Indels: 94
0.72 0.08 0.20
Matches are distributed among these distances:
34 14 0.04
36 2 0.01
37 5 0.01
38 2 0.01
39 2 0.01
40 9 0.03
41 142 0.41
42 13 0.04
43 42 0.12
44 2 0.01
45 1 0.00
46 1 0.00
48 3 0.01
49 7 0.02
50 68 0.20
51 18 0.05
52 14 0.04
53 2 0.01
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.43
Consensus pattern (41 bp):
AATTATGTAAGTGATGTATTATGATAATTATGTAAGTTGTG
Found at i:18897946 original size:25 final size:24
Alignment explanation
Indices: 18897774--18898185 Score: 170
Period size: 25 Copynumber: 16.4 Consensus size: 24
18897764 GTAAGTTGTG
*
18897774 AATTATGTAAGTGCT-GTATTATGATC
1 AATTATGTAAGT--TAGTATTATGA-A
*
18897800 AATTATGTAAGTTATGTATTCTGAA
1 AATTATGTAAGTTA-GTATTATGAA
*
18897825 AATTATGTAAGCTGT-GTACTAT-ATA
1 AATTATGTAAG-T-TAGTATTATGA-A
* * *
18897850 AGTTATGTAAGTTATGAAAATTATGTA
1 AATTATGTAAGTTA-G--TATTATGAA
* **
18897877 AGTTATGTAAGTTTTTTATTATGAA
1 AATTATGTAAG-TTAGTATTATGAA
* ** *
18897902 AATGAACTAACTTATGTATTATGAA
1 AATTATGTAAGTTA-GTATTATGAA
* *
18897927 AATTATGTAAGTTCAATATTATGTA
1 AATTATGTAAGTT-AGTATTATGAA
* *
18897952 AGTTATGT-A-TTACGAAAATTATGTAAGTTCA
1 AATTATGTAAGTTA-G--TATTATG--A----A
18897983 ATATTATGTAAGTTATGTATTATGAA
1 A-ATTATGTAAGTTA-GTATTATGAA
*
18898009 AATTATGTAAGTT-GT-GTATAGTATA
1 AATTATGTAAGTTAGTATTAT-G-A-A
*
18898034 AGTTATGTAAGTTATGTATTATGAA
1 AATTATGTAAGTTA-GTATTATGAA
*
18898059 AATTATGTAAGTT-GT-GTAT---
1 AATTATGTAAGTTAGTATTATGAA
*
18898078 -AGTA--TAAGTTATGTAGGTTATGAA
1 AATTATGTAAGTTA-GTA--TTATGAA
* *
18898102 AATTATGTAAGTTATTTTTTATGAA
1 AATTATGTAAGTTA-GTATTATGAA
*
18898127 AATTAAGTAAGTTATGTATTATGAA
1 AATTATGTAAGTTA-GTATTATGAA
* *
18898152 AATTATGTAAGTTCAATATTATGTA
1 AATTATGTAAGTT-AGTATTATGAA
*
18898177 AGTTATGTA
1 AATTATGTA
18898186 CTATGAAAAT
Statistics
Matches: 294, Mismatches: 49, Indels: 87
0.68 0.11 0.20
Matches are distributed among these distances:
16 6 0.02
18 5 0.02
21 3 0.01
22 7 0.02
23 8 0.03
24 7 0.02
25 178 0.61
26 26 0.09
27 29 0.10
28 5 0.02
30 1 0.00
31 2 0.01
32 12 0.04
33 1 0.00
34 4 0.01
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.43
Consensus pattern (24 bp):
AATTATGTAAGTTAGTATTATGAA
Found at i:18897947 original size:50 final size:45
Alignment explanation
Indices: 18897903--18898205 Score: 235
Period size: 41 Copynumber: 6.8 Consensus size: 45
18897893 TATTATGAAA
*
18897903 ATGAACTAACTTATGTATTATGAAAATTATGTAAGTTCAATAT-T-
1 ATGAA-TAAGTTATGTATTATGAAAATTATGTAAGTTCAATATATG
*
18897947 ATG--TAAGTTATGTATTACGAAAATTATGTAAGTTCAATAT-T-
1 ATGAATAAGTTATGTATTATGAAAATTATGTAAGTTCAATATATG
** *
18897988 ATG--TAAGTTATGTATTATGAAAATTATGTAAGTTGTGTATAGTATA
1 ATGAATAAGTTATGTATTATGAAAATTATGTAAG-T-TCAATA-TATG
* * * *
18898034 AGTTATGTAAGTTATGTATTATGAAAATTATGTAAGTT--GTGTAT-
1 A-TGA-ATAAGTTATGTATTATGAAAATTATGTAAGTTCAATATATG
* * *
18898078 A-GTATAAGTTATGTAGGTTATGAAAATTATGTAAGTT-ATTTTTTATG
1 ATGAATAAGTTATGTA--TTATGAAAATTATGTAAGTTCA--ATATATG
*
18898125 AAAATTAAGTAAGTTATGTATTATGAAAATTATGTAAGTTCAATAT-T-
1 ---ATGAA-TAAGTTATGTATTATGAAAATTATGTAAGTTCAATATATG
*
18898172 ATG--TAAGTTATGTACTATGAAAATTATGTAAGTT
1 ATGAATAAGTTATGTATTATGAAAATTATGTAAGTT
18898206 ATGTATGTTG
Statistics
Matches: 219, Mismatches: 19, Indels: 45
0.77 0.07 0.16
Matches are distributed among these distances:
41 108 0.49
42 1 0.00
43 24 0.11
44 7 0.03
45 4 0.02
46 6 0.03
47 1 0.00
48 2 0.01
49 3 0.01
50 50 0.23
51 2 0.01
52 11 0.05
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (45 bp):
ATGAATAAGTTATGTATTATGAAAATTATGTAAGTTCAATATATG
Found at i:18898222 original size:25 final size:25
Alignment explanation
Indices: 18898095--18898317 Score: 141
Period size: 25 Copynumber: 9.0 Consensus size: 25
18898085 GTTATGTAGG
* * * * *
18898095 TTATGAAAATTATGTAAGTTATTTT
1 TTATGTAAGTTATGTAAGTTGTGTA
* * * *
18898120 TTATGAAAATTAAGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTGTGTA
* * ***
18898145 TTATGAAAATTATGTAAGTTCAATA
1 TTATGTAAGTTATGTAAGTTGTGTA
* ***
18898170 TTATGTAAGTTATGT-ACTATGAAAA
1 TTATGTAAGTTATGTAAGT-TGTGTA
*
18898195 TTATGTAAGTTATGTATGTTGTGTA
1 TTATGTAAGTTATGTAAGTTGTGTA
18898220 TTATATGTAAGTTATGT-A--TGTGTA
1 -T-TATGTAAGTTATGTAAGTTGTGTA
* *
18898244 TAATGAAAGTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTGTGTA
* **
18898269 TAATGTAAGTTATGTAAGTTAAGTA
1 TTATGTAAGTTATGTAAGTTGTGTA
* * *
18898294 TAAT-TAAGCTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTGTGTA
18898318 AGATGTGATA
Statistics
Matches: 166, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
22 12 0.07
23 2 0.01
24 26 0.16
25 110 0.66
26 2 0.01
27 14 0.08
ACGTcount: A:0.37, C:0.01, G:0.18, T:0.44
Consensus pattern (25 bp):
TTATGTAAGTTATGTAAGTTGTGTA
Found at i:18898307 original size:49 final size:51
Alignment explanation
Indices: 18898197--18898342 Score: 153
Period size: 49 Copynumber: 2.9 Consensus size: 51
18898187 TATGAAAATT
* * *
18898197 ATGTAAGTTATGTATGTTGTGTATTATATGTAAGTTATGTATG-T--GTATA
1 ATGTAAGTTATGTAAGTTGTGTA-TAGATGTAAGTTATGTAAGTTAAGTATA
*
18898246 ATGAAAGTTATGTAAGTTGTGTATA-ATGTAAGTTATGTAAGTTAAGTATA
1 ATGTAAGTTATGTAAGTTGTGTATAGATGTAAGTTATGTAAGTTAAGTATA
* * *
18898296 AT-TAAGCTATGTAAGTTATGTA-AGATGTGATAGTCATGTAA-TTAAGT
1 ATGTAAGTTATGTAAGTTGTGTATAGATGT-A-AGTTATGTAAGTTAAGT
18898343 TATGTTTTTA
Statistics
Matches: 84, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
47 15 0.18
48 4 0.05
49 42 0.50
50 14 0.17
51 9 0.11
ACGTcount: A:0.34, C:0.01, G:0.22, T:0.42
Consensus pattern (51 bp):
ATGTAAGTTATGTAAGTTGTGTATAGATGTAAGTTATGTAAGTTAAGTATA
Found at i:18899035 original size:21 final size:21
Alignment explanation
Indices: 18899011--18899083 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
18899001 AGATGTTTAT
18899011 ATAAATACGCTGAAAATATAA
1 ATAAATACGCTGAAAATATAA
*** *
18899032 ATAAATAATAT-AATATCAATAA
1 ATAAATACGCTGAAAAT--ATAA
18899054 TATTAAATACGCTGAAAATATAA
1 -A-TAAATACGCTGAAAATATAA
18899077 ATAAATA
1 ATAAATA
18899084 GTCCCAAAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
20 4 0.10
21 14 0.36
22 5 0.13
23 5 0.13
24 7 0.18
25 4 0.10
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (21 bp):
ATAAATACGCTGAAAATATAA
Found at i:18899553 original size:16 final size:18
Alignment explanation
Indices: 18899473--18899543 Score: 101
Period size: 19 Copynumber: 3.9 Consensus size: 18
18899463 AGAATCACAT
18899473 ATGCTTAACATTC-AAA-
1 ATGCTTAACATTCAAAAC
*
18899489 ATGTTTAACATTCAAAAC
1 ATGCTTAACATTCAAAAC
18899507 ATAGCTTAACATTCAAAAC
1 AT-GCTTAACATTCAAAAC
18899526 TATGCTTAACATTCAAAA
1 -ATGCTTAACATTCAAAA
18899544 TGTTTAACAT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
16 12 0.24
17 3 0.06
18 2 0.04
19 30 0.61
20 2 0.04
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.31
Consensus pattern (18 bp):
ATGCTTAACATTCAAAAC
Found at i:18901590 original size:7 final size:7
Alignment explanation
Indices: 18901577--18901658 Score: 58
Period size: 7 Copynumber: 11.7 Consensus size: 7
18901567 TAAAGCGGCT
18901577 TAAACCC
1 TAAACCC
*
18901584 CAAACCC
1 TAAACCC
*
18901591 TAAACCT
1 TAAACCC
18901598 TAAACCC
1 TAAACCC
18901605 TAAACTCC
1 TAAAC-CC
* *
18901613 CAAACCT
1 TAAACCC
18901620 TAAACCC
1 TAAACCC
* **
18901627 CAAACAT
1 TAAACCC
18901634 TAAA-CC
1 TAAACCC
* * *
18901640 TATATCA
1 TAAACCC
18901647 TAAACCC
1 TAAACCC
18901654 TAAAC
1 TAAAC
18901659 TCAAAACTCT
Statistics
Matches: 54, Mismatches: 19, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
6 3 0.06
7 45 0.83
8 6 0.11
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:18901636 original size:14 final size:14
Alignment explanation
Indices: 18901575--18901639 Score: 76
Period size: 14 Copynumber: 4.6 Consensus size: 14
18901565 ACTAAAGCGG
18901575 CTTAAACCCCAAAC
1 CTTAAACCCCAAAC
* **
18901589 CCTAAACCTTAAAC
1 CTTAAACCCCAAAC
*
18901603 CCTAAACTCCCAAAC
1 CTTAAAC-CCCAAAC
18901618 CTTAAACCCCAAAC
1 CTTAAACCCCAAAC
*
18901632 ATTAAACC
1 CTTAAACC
18901640 TATATCATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 32 0.74
15 11 0.26
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (14 bp):
CTTAAACCCCAAAC
Found at i:18901637 original size:29 final size:28
Alignment explanation
Indices: 18901576--18901639 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
18901566 CTAAAGCGGC
** *
18901576 TTAAACCCCAAACCCTAAACCTTAAACC
1 TTAAACCCCAAACCCTAAACCCCAAACA
* *
18901604 CTAAACTCCCAAACCTTAAACCCCAAACA
1 TTAAAC-CCCAAACCCTAAACCCCAAACA
18901633 TTAAACC
1 TTAAACC
18901640 TATATCATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (28 bp):
TTAAACCCCAAACCCTAAACCCCAAACA
Found at i:18902266 original size:114 final size:114
Alignment explanation
Indices: 18902132--18902751 Score: 1003
Period size: 114 Copynumber: 5.4 Consensus size: 114
18902122 CTATTGGCTC
* * * * * * *
18902132 TATAACTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTACGGCGCTTTTCACAAAGCACTG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
* *
18902197 TTAATACTGTGATTTAGCGGCGTGTTTT-CATAAGCGCCACTAATTCTAA
66 CTAATACTGTGCTTTAGCGGCGT-TTTTGCATAAGCGCCACTAATTCTAA
*
18902246 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGTG-TTTTGTATAATGCGCC
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTT-TATAATGCGCC
*
18902310 GCTAATACTG-GCTTTAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAA
65 GCTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAA
*
18902359 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCAGCGCTTTTTATAATGCGCCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
18902424 CTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAA
66 CTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAA
*
18902473 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCAGCGCTTTTTATAATGCGCCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
*
18902538 CTAATACTGTGCTTTAGCGACGTTTTTGCATAAGCGCCACTAATTCTAA
66 CTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAA
* * * * *
18902587 TATACCTCAAGACCAAACGCTGCGTTTTGATTAAGATATTTTACGGCGTTTTTTACAATGCACCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
* *
18902652 CTAATATTGTGCTTTAGCGGCGTTGTTGCATAAGCGCCACTAATTCTAA
66 CTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAA
*
18902701 TATACCTCAAGACCTAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
18902752 GCAAATAAAC
Statistics
Matches: 475, Mismatches: 27, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
112 4 0.01
113 104 0.22
114 367 0.77
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (114 bp):
TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
CTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAA
Found at i:18905917 original size:166 final size:166
Alignment explanation
Indices: 18905643--18906131 Score: 807
Period size: 166 Copynumber: 2.9 Consensus size: 166
18905633 TCTAAAATAG
* * *
18905643 GCATACTGTTAGTTCATGCCATTGTTTTAGATGTTAATTTTCTGTACATTACAGATACTGTGGCC
1 GCATACTATTAGTTCATGCCATTGTTTTAGATGTCAATTTTCTATACATTACAGATACTGTGGCC
* * * *
18905708 AGGGAAACATTAGATCAAGTTATGGCTAATGCAATTTCAAAATCTGGCTCTAATCGATCTGCAGT
66 AGGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCGATCTGCAGC
* * *
18905773 ATACATTTCATGTCTTATTTTTGCAATCGATTTGCA
131 ATACATTTCATGTCTTCTTTTTGCAATCGATCTACA
* *
18905809 GCATACTATTAATTCATGCCGTTGTTTTAGATGTCAATTTTCTATACATTACAGATACTGTGGCC
1 GCATACTATTAGTTCATGCCATTGTTTTAGATGTCAATTTTCTATACATTACAGATACTGTGGCC
* * *
18905874 AGGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTGTAATCGAACTGCAAC
66 AGGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCGATCTGCAGC
18905939 ATACATTTCATGTCTTCTTTTTGCAATCGATCTACA
131 ATACATTTCATGTCTTCTTTTTGCAATCGATCTACA
**
18905975 GCATACTATTAGTTCATGCCATTGTTTTAGATGTCAATTTTCTATACATTACAGATGTTGTGGCC
1 GCATACTATTAGTTCATGCCATTGTTTTAGATGTCAATTTTCTATACATTACAGATACTGTGGCC
* *
18906040 AGGGAAACATTAGATCAAGTTATGGCAGATGCACTTTCAAAATATGGTTCTAATCGATCTGCAGC
66 AGGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCGATCTGCAGC
18906105 ATACATTTCATGTCTTCTTTTTGCAAT
131 ATACATTTCATGTCTTCTTTTTGCAAT
18906132 GGCATTTTAA
Statistics
Matches: 299, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
166 299 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (166 bp):
GCATACTATTAGTTCATGCCATTGTTTTAGATGTCAATTTTCTATACATTACAGATACTGTGGCC
AGGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCGATCTGCAGC
ATACATTTCATGTCTTCTTTTTGCAATCGATCTACA
Found at i:18908291 original size:21 final size:20
Alignment explanation
Indices: 18908257--18908296 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
18908247 AAATAATATA
*
18908257 CTTTTAAAAGTTACCAATTG
1 CTTTAAAAAGTTACCAATTG
18908277 CTTTAAAATAGTTACCAATT
1 CTTTAAAA-AGTTACCAATT
18908297 CTTCATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (20 bp):
CTTTAAAAAGTTACCAATTG
Found at i:18912809 original size:24 final size:23
Alignment explanation
Indices: 18912762--18912820 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 23
18912752 TATTTTAAAA
* *
18912762 AAATA-TTTGAAATATAAATTTT
1 AAATATTTTTAAATATAAATATT
18912784 AAATATTTTTAAATAATAAATATT
1 AAATATTTTTAAAT-ATAAATATT
* *
18912808 AATTATTTATAAA
1 AAATATTTTTAAA
18912821 ATTTAATTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 5 0.16
23 7 0.23
24 19 0.61
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
AAATATTTTTAAATATAAATATT
Found at i:18913480 original size:33 final size:32
Alignment explanation
Indices: 18913443--18913505 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
18913433 TTTATTAAAA
* *
18913443 TTTTAAAAATTCAAATAATATAAAAATATTATT
1 TTTTAAAAATTAAAATAAT-TAAAAAAATTATT
*
18913476 TTTTAAAAATTAAAATTATTAAAAAAATTA
1 TTTTAAAAATTAAAATAATTAAAAAAATTA
18913506 ATTAATTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (32 bp):
TTTTAAAAATTAAAATAATTAAAAAAATTATT
Found at i:18913497 original size:16 final size:16
Alignment explanation
Indices: 18913436--18913500 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
18913426 CAATTAATTT
18913436 ATTAAAATT-TTAAAA
1 ATTAAAATTATTAAAA
* *
18913451 ATTCAAATAATATAAAA
1 ATTAAAATTAT-TAAAA
* * *
18913468 A-TATTATTTTTTAAAA
1 ATTA-AAATTATTAAAA
18913484 ATTAAAATTATTAAAA
1 ATTAAAATTATTAAAA
18913500 A
1 A
18913501 AATTAATTAA
Statistics
Matches: 36, Mismatches: 10, Indels: 7
0.68 0.19 0.13
Matches are distributed among these distances:
15 7 0.19
16 18 0.50
17 11 0.31
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTAAAATTATTAAAA
Found at i:18914105 original size:45 final size:45
Alignment explanation
Indices: 18914041--18914126 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
18914031 TCTTGACCAC
* * *
18914041 ATATAAATAATTAATAATAAATATTGTGTAATTTAATTAAAATTA
1 ATATAAATAATTAATAATAAATACTATATAATTTAATTAAAATTA
*
18914086 ATATAAATAATTTATAATAAATACTATATAATTTAATTAAA
1 ATATAAATAATTAATAATAAATACTATATAATTTAATTAAA
18914127 CATTTAGTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (45 bp):
ATATAAATAATTAATAATAAATACTATATAATTTAATTAAAATTA
Found at i:18915108 original size:24 final size:25
Alignment explanation
Indices: 18915057--18915109 Score: 63
Period size: 27 Copynumber: 2.1 Consensus size: 25
18915047 CTAGTGGTGT
**
18915057 ATAAGATTGTACATTTTTTTTTGGTAA
1 ATAAGATTGTACA--TTTTTTTAATAA
18915084 ATAAGATTGTACA-TTTTTTAATAA
1 ATAAGATTGTACATTTTTTTAATAA
18915108 AT
1 AT
18915110 TATGTGATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 11 0.46
27 13 0.54
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (25 bp):
ATAAGATTGTACATTTTTTTAATAA
Found at i:18918832 original size:67 final size:67
Alignment explanation
Indices: 18918638--18918876 Score: 241
Period size: 67 Copynumber: 3.6 Consensus size: 67
18918628 TACTGCTACA
* * * * * *
18918638 GTGGACTCCATT-GACTGTCATAGTCGAGCCATGGTCTTACACCTTAATCCTTATTTTTAAAGTC
1 GTGGACTCTATTGGA-TGCCATAGTCGAGCTATGGTCTTACACCTTAATCCCTATGTTTAATGTC
*
18918702 CT-
65 TTG
** * * *
18918704 GTAAAACTCTGTTGGATGCCATAGCCGAGCTATGGTCTTACACCTGAATCCACT-TGTTTAATGT
1 GT-GGACTCTATTGGATGCCATAGTCGAGCTATGGTCTTACACCTTAATCC-CTATGTTTAATGT
18918768 CTTG
64 CTTG
* * *
18918772 GTGGACTCTATTGGATGCCATAGTCGAGTTATGGTCTTAAACCTTAATCCCTATGTTTAATATCT
1 GTGGACTCTATTGGATGCCATAGTCGAGCTATGGTCTTACACCTTAATCCCTATGTTTAATGTCT
18918837 TG
66 TG
* * * ** *
18918839 ATGGACTCAATTGGTTGCCATAACCGAACTATGGTCTT
1 GTGGACTCTATTGGATGCCATAGTCGAGCTATGGTCTT
18918877 GCAAACCTCT
Statistics
Matches: 141, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
66 4 0.03
67 132 0.94
68 5 0.04
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (67 bp):
GTGGACTCTATTGGATGCCATAGTCGAGCTATGGTCTTACACCTTAATCCCTATGTTTAATGTCT
TG
Found at i:18921642 original size:38 final size:39
Alignment explanation
Indices: 18921553--18921652 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 39
18921543 CGAATATAAC
* * *
18921553 AATTATAACTACCATAATTAAAATAATATTTGGCTGAAA
1 AATTATAATTACAATAATTATAATAATATTTGGCTGAAA
* * *
18921592 AATTACAATTACAATAATTATAATAATATTT-GATCG-TA
1 AATTATAATTACAATAATTATAATAATATTTGGCT-GAAA
*
18921630 AATTATAATTACAATTATTATAA
1 AATTATAATTACAATAATTATAA
18921653 CAAGGATTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
38 24 0.46
39 28 0.54
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (39 bp):
AATTATAATTACAATAATTATAATAATATTTGGCTGAAA
Found at i:18947191 original size:22 final size:24
Alignment explanation
Indices: 18947164--18947208 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
18947154 TTTTTGCTAT
*
18947164 AAAATAAA-AAGATAGGA-AGTAA
1 AAAATAAAGAAAATAGGAGAGTAA
18947186 AAAATAAAGAAAATAGGAGAGTA
1 AAAATAAAGAAAATAGGAGAGTA
18947209 TTGATCAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 8 0.40
24 4 0.20
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.13
Consensus pattern (24 bp):
AAAATAAAGAAAATAGGAGAGTAA
Found at i:18949871 original size:18 final size:21
Alignment explanation
Indices: 18949848--18949885 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 21
18949838 CAATTTATTT
18949848 TTATAT-TG-ATA-AATATAA
1 TTATATGTGTATATAATATAA
18949866 TTATATGTGTATATAATATA
1 TTATATGTGTATATAATATA
18949886 TAAATATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 3 0.18
21 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (21 bp):
TTATATGTGTATATAATATAA
Found at i:18949902 original size:29 final size:29
Alignment explanation
Indices: 18949856--18949912 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
18949846 TTTTATATTG
*
18949856 ATAAATATAATTATATGTGTATAT-AATAT
1 ATAAATATAATAATATGT-TATATCAATAT
18949885 ATAAATATAA-AATGATGTTATATCAATA
1 ATAAATATAATAAT-ATGTTATATCAATA
18949913 ATTATGTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (29 bp):
ATAAATATAATAATATGTTATATCAATAT
Found at i:18952408 original size:20 final size:21
Alignment explanation
Indices: 18952379--18952417 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
18952369 TAAAATAAAG
18952379 TTTAAAATAATTTT-AAAAAA
1 TTTAAAATAATTTTCAAAAAA
*
18952399 TTTAATATAATTTTCAAAA
1 TTTAAAATAATTTTCAAAA
18952418 TTCAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTAAAATAATTTTCAAAAAA
Found at i:18953126 original size:18 final size:18
Alignment explanation
Indices: 18953100--18953139 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
18953090 GAAAATGTAA
18953100 TTTACCAATTCCTTTTTG
1 TTTACCAATTCCTTTTTG
*
18953118 TTTATCAATTCCTTTTTG
1 TTTACCAATTCCTTTTTG
18953136 TTTA
1 TTTA
18953140 AGTTTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.17, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTACCAATTCCTTTTTG
Found at i:18959641 original size:5 final size:5
Alignment explanation
Indices: 18959631--18959658 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
18959621 CTTTTTTCCA
18959631 CATCC CATCC CATCC CATCC CATCC CAT
1 CATCC CATCC CATCC CATCC CATCC CAT
18959659 ACCTTCACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.57, G:0.00, T:0.21
Consensus pattern (5 bp):
CATCC
Found at i:18962376 original size:16 final size:18
Alignment explanation
Indices: 18962341--18962376 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18962331 GTTAGTAGGG
18962341 TATAAATACAACTTTATA
1 TATAAATACAACTTTATA
18962359 TATAAATACAACTTTATA
1 TATAAATACAACTTTATA
18962377 AACCCTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
TATAAATACAACTTTATA
Found at i:18970715 original size:21 final size:20
Alignment explanation
Indices: 18970681--18970735 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 20
18970671 ACATTTTGTT
*
18970681 GCTATATATTTTTTAATAGGA
1 GCTA-ATATTTTTTAATAGAA
18970702 GCTAATATTGTTTTAATAGAA
1 GCTAATATT-TTTTAATAGAA
18970723 GCTAATATTTTTT
1 GCTAATATTTTTT
18970736 TTATTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 9 0.28
21 23 0.72
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (20 bp):
GCTAATATTTTTTAATAGAA
Found at i:18979748 original size:14 final size:14
Alignment explanation
Indices: 18979713--18979785 Score: 60
Period size: 14 Copynumber: 4.9 Consensus size: 14
18979703 TTATTGATAT
*
18979713 TATAAAAATAAAAA
1 TATAAAAATTAAAA
*
18979727 TAT-CAAATTAAAA
1 TATAAAAATTAAAA
18979740 TATAAAAATTAAATTGA
1 TATAAAAATTAAA---A
18979757 TATAGAAAAATTAAAA
1 TAT--AAAAATTAAAA
18979773 -ATTAAAAATTAAA
1 TA-TAAAAATTAAA
18979786 TAAACAAGGG
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
13 11 0.22
14 21 0.43
15 1 0.02
16 2 0.04
17 4 0.08
19 10 0.20
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (14 bp):
TATAAAAATTAAAA
Found at i:18979753 original size:19 final size:19
Alignment explanation
Indices: 18979715--18979771 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
18979705 ATTGATATTA
18979715 TAAAA-ATAAAAATATCAAAT
1 TAAAATATAAAAAT-T-AAAT
18979735 TAAAATATAAAAATTAAAT
1 TAAAATATAAAAATTAAAT
* * *
18979754 TGATATAGAAAAATTAAA
1 TAAAATATAAAAATTAAA
18979772 AATTAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 19 0.58
20 6 0.18
21 8 0.24
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (19 bp):
TAAAATATAAAAATTAAAT
Found at i:18980444 original size:16 final size:16
Alignment explanation
Indices: 18980419--18980473 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
18980409 AAAAAAATTC
18980419 AAAT-TATTTTTAAAA
1 AAATATATTTTTAAAA
18980434 AAATATATTTTTAAAA
1 AAATATATTTTTAAAA
* **
18980450 AATTATAATTTTTTTAA
1 AAATAT-ATTTTTAAAA
18980467 AAATATA
1 AAATATA
18980474 ACAAATATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 4 0.12
16 17 0.50
17 13 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATATATTTTTAAAA
Found at i:18980468 original size:17 final size:17
Alignment explanation
Indices: 18980420--18980474 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
18980410 AAAAAATTCA
*
18980420 AATTATTTTTAAAAAAAT
1 AATT-TTTTTAAAAATAT
*
18980438 -ATATTTTTAAAAAATTAT
1 AAT-TTTTTTAAAAA-TAT
18980456 AATTTTTTTAAAAATAT
1 AATTTTTTTAAAAATAT
18980473 AA
1 AA
18980475 CAAATATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 16 0.52
18 13 0.42
19 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTTTTTAAAAATAT
Found at i:18981186 original size:15 final size:16
Alignment explanation
Indices: 18981151--18981188 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18981141 AACTCCCTTC
*
18981151 AAAATTTATAAAAATT
1 AAAATTAATAAAAATT
*
18981167 TAAATTAATAAAAA-T
1 AAAATTAATAAAAATT
18981182 AAAATTA
1 AAAATTA
18981189 TACTTTAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATTAATAAAAATT
Found at i:18984672 original size:35 final size:35
Alignment explanation
Indices: 18984606--18984672 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 35
18984596 AATCCCTTCA
* * * *
18984606 AAACACACCAAGGGGCTCCAAAGTTCCAAGCCACC
1 AAACACACCAAAGAGCACCAAAGTGCCAAGCCACC
* *
18984641 AAACACACCAAAGAGCACCTAAGTGCTAAGCC
1 AAACACACCAAAGAGCACCAAAGTGCCAAGCC
18984673 TGAAAGCGTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 26 1.00
ACGTcount: A:0.40, C:0.34, G:0.16, T:0.09
Consensus pattern (35 bp):
AAACACACCAAAGAGCACCAAAGTGCCAAGCCACC
Found at i:18988087 original size:19 final size:19
Alignment explanation
Indices: 18988063--18988100 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18988053 TTAGTGTTAG
18988063 TTAATTAAG-TTAAATTAAA
1 TTAATTAAGATT-AATTAAA
*
18988082 TTAATTTAGATTAATTAAA
1 TTAATTAAGATTAATTAAA
18988101 GGTTAAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
TTAATTAAGATTAATTAAA
Found at i:18988950 original size:12 final size:13
Alignment explanation
Indices: 18988932--18988969 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
18988922 CCGTAAAGAA
18988932 ATGATAAATTGAT
1 ATGATAAATTGAT
18988945 -TGATAAATTGAAT
1 ATGATAAATTG-AT
*
18988958 ATGATGAATTGA
1 ATGATAAATTGA
18988970 AAATTGAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 10 0.45
13 3 0.14
14 9 0.41
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.37
Consensus pattern (13 bp):
ATGATAAATTGAT
Found at i:19005779 original size:24 final size:24
Alignment explanation
Indices: 19005751--19005797 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
19005741 AATCAATTTC
*
19005751 TCAATCCAATATATATATTTCAAA
1 TCAATCCAATATATATATGTCAAA
*
19005775 TCAATTCAATATATATATGTCAA
1 TCAATCCAATATATATATGTCAA
19005798 TCATCTAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (24 bp):
TCAATCCAATATATATATGTCAAA
Found at i:19007758 original size:23 final size:23
Alignment explanation
Indices: 19007738--19007782 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
19007728 TTTCTTACTA
*
19007738 TAGTAATTTTCGGGGTATTACAG
1 TAGTAATTTTCGGGATATTACAG
19007761 TAGTAATTTTCGGGATATTACA
1 TAGTAATTTTCGGGATATTACA
19007783 AACACTCACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (23 bp):
TAGTAATTTTCGGGATATTACAG
Found at i:19008936 original size:168 final size:168
Alignment explanation
Indices: 19008742--19009058 Score: 420
Period size: 168 Copynumber: 1.9 Consensus size: 168
19008732 TTTTTATTAA
* ** *
19008742 TTTTCTTAAAAAATATAAAAAGATAAAAATATCATCACAATTGTAAAACTAATTTTAAATATGAA
1 TTTTCGTAAAAAATATAAAAAGATAAAAATATCATCACAATAATAAAACTAATTTTAAATAAGAA
* * * * * * *
19008807 -AGAGTTAATTAGTAATTTAACCAACTGAATTGCTGTCACTTAACTCGTGTCACCAAACTCAGTA
66 GAGA-CTAATTAGTAATTTAACCAACTCAACTGCTGTCACTTAACTCATGACACAAAACTCAATA
19008871 AACGACCTAATATTAGTAGATATGTAATTTTGTTTTTGG
130 AACGACCTAATATTAGTAGATATGTAATTTTGTTTTTGG
** * * * *
19008910 TTTTCGTAAAAAATATGCAAAGATAAAAATTTCATCATAATAATATAACTTATTTTAAATAAGAA
1 TTTTCGTAAAAAATATAAAAAGATAAAAATATCATCACAATAATAAAACTAATTTTAAATAAGAA
* * * *
19008975 GAGACTAATTAGTAATTTAACCAACTCAGCTGGTGTCACTTTACTCATGACACAAAACTTAATAA
66 GAGACTAATTAGTAATTTAACCAACTCAACTGCTGTCACTTAACTCATGACACAAAACTCAATAA
*
19009040 ACGACTTAATATTAGTAGA
131 ACGACCTAATATTAGTAGA
19009059 GATAAAAAGA
Statistics
Matches: 126, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
168 123 0.98
169 3 0.02
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.34
Consensus pattern (168 bp):
TTTTCGTAAAAAATATAAAAAGATAAAAATATCATCACAATAATAAAACTAATTTTAAATAAGAA
GAGACTAATTAGTAATTTAACCAACTCAACTGCTGTCACTTAACTCATGACACAAAACTCAATAA
ACGACCTAATATTAGTAGATATGTAATTTTGTTTTTGG
Found at i:19013573 original size:6 final size:6
Alignment explanation
Indices: 19013510--19013572 Score: 94
Period size: 6 Copynumber: 10.7 Consensus size: 6
19013500 GCGCATGAAT
19013510 ATAAAA AT-AAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA AT-AAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
*
19013556 ATAATAA ATAATA ATAA
1 ATAA-AA ATAAAA ATAA
19013573 TGATACAAGA
Statistics
Matches: 53, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
5 10 0.19
6 37 0.70
7 6 0.11
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
ATAAAA
Found at i:19013827 original size:23 final size:20
Alignment explanation
Indices: 19013782--19013827 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 20
19013772 GATTTGAAAT
*
19013782 AAAAAATATACAAATCAATA
1 AAAAAATATACAAATCAACA
19013802 AAAAAATTATACACGAATCAACA
1 AAAAAA-TATACA--AATCAACA
19013825 AAA
1 AAA
19013828 TAAGAACGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 6 0.27
23 10 0.45
ACGTcount: A:0.67, C:0.13, G:0.02, T:0.17
Consensus pattern (20 bp):
AAAAAATATACAAATCAACA
Found at i:19014051 original size:19 final size:19
Alignment explanation
Indices: 19014027--19014072 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
19014017 AATCATATCT
**
19014027 TCTAAGATCGGATACCATA
1 TCTAAGATCACATACCATA
* *
19014046 TCTAAGATTACATATCATA
1 TCTAAGATCACATACCATA
19014065 TCTAAGAT
1 TCTAAGAT
19014073 TGCATATCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (19 bp):
TCTAAGATCACATACCATA
Found at i:19014073 original size:19 final size:19
Alignment explanation
Indices: 19014042--19014080 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
19014032 GATCGGATAC
19014042 CATATCTAAGATTACATAT
1 CATATCTAAGATTACATAT
*
19014061 CATATCTAAGATTGCATAT
1 CATATCTAAGATTACATAT
19014080 C
1 C
19014081 CATTAAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (19 bp):
CATATCTAAGATTACATAT
Found at i:19014089 original size:17 final size:19
Alignment explanation
Indices: 19014045--19014091 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
19014035 CGGATACCAT
*
19014045 ATCTAAGATTACATATCAT
1 ATCTAAGATTACATATCAC
*
19014064 ATCTAAGATTGCATATC-C
1 ATCTAAGATTACATATCAC
19014082 AT-TAAGATTA
1 ATCTAAGATTA
19014092 TGTTTCCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 7 0.28
18 2 0.08
19 16 0.64
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (19 bp):
ATCTAAGATTACATATCAC
Found at i:19014682 original size:45 final size:45
Alignment explanation
Indices: 19014625--19014966 Score: 174
Period size: 45 Copynumber: 7.8 Consensus size: 45
19014615 TTGTTTATTT
* * * *
19014625 AGTCTGCCCCACTGCAATTTCAGGGGGATAGGACTTGATTTCTTG
1 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATTTCTTG
* * *
19014670 AGTCTGCTCCACTGCAACTTCAGTGAGATAAGACTCGCTTTCTTG
1 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATTTCTTG
* * *
19014715 GGTCTGCTCCACTGCAACTTT-AGGGAGATAAGACCCGA-TGC---
1 AGTCTGCTCCACTGCAA-TTTCAGGGAGATAAGACTCGATTTCTTG
* ** * * *
19014756 AATCTGCT-TTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TT-
1 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGA-CT-CGATTTCTTG
* ** * * * *
19014799 AATCCACTCCACTGCAACTTT-AGGGAGATAGGA-TTG-TTGGCTTT
1 AGTCTGCTCCACTGCAA-TTTCAGGGAGATAAGACTCGATT-TCTTG
* * * * *** *
19014843 AATCCGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTC
1 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATTTCTTG
* * * * * *
19014888 AGTCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-
1 AGTCTGCTC-CACTGCAATTTCAGGGA-GATAAGACTCGATTTCTTG
*
19014932 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACT
19014967 ATATGCAATA
Statistics
Matches: 229, Mismatches: 49, Indels: 39
0.72 0.15 0.12
Matches are distributed among these distances:
39 2 0.01
40 17 0.07
41 10 0.04
42 4 0.02
43 10 0.04
44 76 0.33
45 108 0.47
46 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATTTCTTG
Found at i:19014999 original size:217 final size:218
Alignment explanation
Indices: 19014575--19015109 Score: 693
Period size: 217 Copynumber: 2.5 Consensus size: 218
19014565 TAATTTCAGA
* ** * * ** * *
19014575 GATTCTAATCCACTCTGCTACAACTTTAGGGAGATGGGATTTGTT-TATTTAGTCTGCCCCACTG
1 GATTTTAATCCACTCCACTGCAACTTTAGGGAGATAGGA-TTGTTGGCTTTAATCTGCTCCACTG
* * * *** * *
19014639 CAATTTCAGGGGGATAGGACTT-GATTTCTTGAGTCTGCTCCACTGCAACTTCAGTGAGATAAGA
65 CAACTTCAGGGAGATAAGA-TTCGCCATCTTCAGTCTGCTCCACTACAACTTCAGTGAGATAAGA
* * * * * *
19014703 CTCGCTTTCTTGGGTCTGCTCCACTGCAACTTTAGGGAGATAAGACCCGATGCAATCTGCTTTCT
129 CTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATATGCTCTCT
19014768 GCAACTTCAGAGAGATAAGATCTGT
194 GCAACTTCAGAGAGATAAGATCTGT
*
19014793 GATTTTAATCCACTCCACTGCAACTTTAGGGAGATAGGATTGTTGGCTTTAATCCGCTCCACTGC
1 GATTTTAATCCACTCCACTGCAACTTTAGGGAGATAGGATTGTTGGCTTTAATCTGCTCCACTGC
*
19014858 AACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGC-CTCACTACAACTTCAG-GAGGATAAGG
66 AACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCTC-CACTACAACTTCAGTGA-GATAAGA
* * * *
19014921 CTTGCTTACTT-AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTATATGCAATATTCTCTCT
129 CTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATATGCTCTCT
19014985 GCAACTTCAGAGAGATAAGATCTGT
194 GCAACTTCAGAGAGATAAGATCTGT
* * * * *
19015010 GATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAAGATTATTGGCTTTAATCTGCTCCACTGC
1 GATTTTAATCCACTCCACTGCAACTTTAGGGAGATAGGATTGTTGGCTTTAATCTGCTCCACTGC
19015075 AACTTCAGGGAGATAAGATTCGCCATCTTCAGTCT
66 AACTTCAGGGAGATAAGATTCGCCATCTTCAGTCT
19015110 TTTAAATTGC
Statistics
Matches: 278, Mismatches: 35, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
217 174 0.63
218 104 0.37
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (218 bp):
GATTTTAATCCACTCCACTGCAACTTTAGGGAGATAGGATTGTTGGCTTTAATCTGCTCCACTGC
AACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCTCCACTACAACTTCAGTGAGATAAGACT
CGCTTACTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATATGCTCTCTGC
AACTTCAGAGAGATAAGATCTGT
Found at i:19015094 original size:44 final size:43
Alignment explanation
Indices: 19014672--19015094 Score: 251
Period size: 44 Copynumber: 9.8 Consensus size: 43
19014662 ATTTCTTGAG
* ***
19014672 TCTGCTCCACTGCAACTTCAGTGAGATAAGACTCGCTTT--CTTGGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T---TTTGACTTTAA
* *** **
19014717 TCTGCTCCACTGCAACTTTAGGGAGATAAGA-CCCGA-TGCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTGACTTTAA
** * * *
19014758 TCTGCT-TTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TTTGACTTTAA
** * * *
19014801 TCCACTCCACTGCAACTTTAGGGAGATAGGATTGTTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TTGACTTTAA
* * * *
19014845 TCCGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTG--A-CTTTAA
* * *
19014890 TCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTT-AC-TTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAA-GATT--TTGACTTTAA
* * **
19014934 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAT-A-TGCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTGACTTTAA
* * * * * *
19014975 TATTCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TTTGACTTTAA
* * *
19015018 TCCGCTCCACTGCGACTTCAGGGAGATAAGATTATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TTGACTTTAA
19015062 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT
19015095 CGCCATCTTC
Statistics
Matches: 288, Mismatches: 66, Indels: 49
0.71 0.16 0.12
Matches are distributed among these distances:
40 42 0.15
41 16 0.06
42 5 0.02
43 18 0.06
44 144 0.50
45 59 0.20
46 2 0.01
47 1 0.00
49 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTGACTTTAA
Found at i:19015654 original size:88 final size:88
Alignment explanation
Indices: 19015546--19016113 Score: 830
Period size: 88 Copynumber: 6.4 Consensus size: 88
19015536 GCCGGGGTCA
* * * * * *
19015546 TCGATTTGCTTGGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCACTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
19015611 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * * *
19015634 TCGATCTGCTTCGTTGTCGGTGTAGGAAGGCAAGATCTGTTATTTTTGACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
19015699 CCAGGGAGGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
19015722 TCGATCTGCTTCGTTGTCGGTGCAAGAAGGCAATATCTGCTATTTTTAACCTGCTCTGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
19015787 CCAGGGAGGTAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
19015810 TCGATATGCTTCGCTGTCGGTGCTAGAAGGCAAGATCTGCAATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
19015875 CAAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
19015898 TCGATCTGCTTCGCTGTCAGTGCAAGAAGGCAAGATCTACTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
* *
19015963 CCAGGGAGGCGAGGCTAGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
19015986 TCGATCTACTTCGCTGTCGATGTAAGAAGGCAAGATCTGCTATTTTTTAACCTGCTCCGCTACAA
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTA-TTTTTAACCTGCTCCGCTACAA
* *
19016051 CCCAGGGAAGCAAGGTTGGTGTCT
65 CCCAGGGAGGCAAGGCTGGTGTCT
* *
19016075 TCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTG
19016114 TTATATCCAC
Statistics
Matches: 431, Mismatches: 48, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
88 354 0.82
89 77 0.18
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.29
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:19015887 original size:44 final size:44
Alignment explanation
Indices: 19015837--19015972 Score: 114
Period size: 44 Copynumber: 3.1 Consensus size: 44
19015827 CGGTGCTAGA
*
19015837 AGGCAAGATCTGCAATTTTTAACCTGCTCCGCTGCAACCAAGGG
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCAAGGG
* * * * ** * * ** *
19015881 AGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAA-GA
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CA-ACCAAGGG
* *
19015925 AGGCAAGATCTACTATTTTTAACCTGCTCCGCTGCAACCCAGGG
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCAAGGG
19015969 AGGC
1 AGGC
19015973 GAGGCTAGTG
Statistics
Matches: 63, Mismatches: 25, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
43 19 0.30
44 24 0.38
45 20 0.32
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (44 bp):
AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCAAGGG
Found at i:19015958 original size:45 final size:45
Alignment explanation
Indices: 19015816--19015958 Score: 112
Period size: 45 Copynumber: 3.2 Consensus size: 45
19015806 GTCTTCGATA
* * * *
19015816 TGCTTCGCTGTCGGTGCTAGAAGGCAAGATCTGCAATTTTTAACC
1 TGCTCCGCTGTCAGTGCAAGAAGGCAAGATCTGCTATTTTTAACC
** * * * * * ** *
19015861 TGCTCCGCTG-CA-ACCAAGGGAGGCAAG-GCTGGTGTCTTCGATC
1 TGCTCCGCTGTCAGTGCAA-GAAGGCAAGATCTGCTATTTTTAACC
* *
19015904 TGCTTCGCTGTCAGTGCAAGAAGGCAAGATCTACTATTTTTAACC
1 TGCTCCGCTGTCAGTGCAAGAAGGCAAGATCTGCTATTTTTAACC
19015949 TGCTCCGCTG
1 TGCTCCGCTG
19015959 CAACCCAGGG
Statistics
Matches: 67, Mismatches: 27, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
43 19 0.28
44 19 0.28
45 29 0.43
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (45 bp):
TGCTCCGCTGTCAGTGCAAGAAGGCAAGATCTGCTATTTTTAACC
Found at i:19022671 original size:7 final size:7
Alignment explanation
Indices: 19022635--19022677 Score: 58
Period size: 6 Copynumber: 6.7 Consensus size: 7
19022625 GCGCATGAAT
19022635 ATAA-AA
1 ATAATAA
19022641 ATAA-AA
1 ATAATAA
19022647 ATAA-AA
1 ATAATAA
19022653 ATAATAA
1 ATAATAA
19022660 ATAATAA
1 ATAATAA
19022667 ATAAT-A
1 ATAATAA
19022673 ATAAT
1 ATAAT
19022678 GATACAAGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 22 0.61
7 14 0.39
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
ATAATAA
Found at i:19023157 original size:19 final size:19
Alignment explanation
Indices: 19023131--19023219 Score: 151
Period size: 19 Copynumber: 4.7 Consensus size: 19
19023121 AATTATATCT
19023131 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
19023150 TTTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
19023169 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
19023188 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
19023207 TCTAAGATTGCAT
1 TCTAAGATTGCAT
19023220 GTCCTTGAAG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 64 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:19023178 original size:38 final size:38
Alignment explanation
Indices: 19023131--19023219 Score: 169
Period size: 38 Copynumber: 2.3 Consensus size: 38
19023121 AATTATATCT
*
19023131 TCTAAGATTGCATATCATATTTAAGATTACATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTACATATCATA
19023169 TCTAAGATTGCATATCATATCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTACATATCATA
19023207 TCTAAGATTGCAT
1 TCTAAGATTGCAT
19023220 GTCCTTGAAG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTACATATCATA
Found at i:19042162 original size:24 final size:24
Alignment explanation
Indices: 19042114--19042160 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
19042104 ACTGGTCATA
*
19042114 GAGAGAATTAAGGAGGGATATTTG
1 GAGAGAATTAAGGAGGAATATTTG
*
19042138 GAGAGATTTAAGGAGAGAATATT
1 GAGAGAATTAAGGAG-GAATATT
19042161 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.40, C:0.00, G:0.34, T:0.26
Consensus pattern (24 bp):
GAGAGAATTAAGGAGGAATATTTG
Found at i:19043284 original size:20 final size:20
Alignment explanation
Indices: 19043261--19043320 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
19043251 ATAGGTAAAA
* *
19043261 TGACCAAAATACCCCTATAG
1 TGACCGAAATACCCCCATAG
19043281 TGACCGAAATACCCCCATAG
1 TGACCGAAATACCCCCATAG
* *
19043301 TGACTGAAATACCCTCATAG
1 TGACCGAAATACCCCCATAG
19043321 ACCAAAATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.30, G:0.13, T:0.20
Consensus pattern (20 bp):
TGACCGAAATACCCCCATAG
Found at i:19043368 original size:27 final size:27
Alignment explanation
Indices: 19043334--19043732 Score: 386
Period size: 27 Copynumber: 15.1 Consensus size: 27
19043324 AAAATCACCC
* *
19043334 AGGGTAAAATGACCGAAATACCCTCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
19043361 AGGGTAAAATGACCAAAATACCCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
*
19043388 AGGGTAAAATAACCAAAATA-CCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
*
19043414 A--GCAAAATGACCAAAATACCCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
* * **
19043439 AGGGTAAAATGATCGAAATACCCTAAT
1 AGGGTAAAATGACCAAAATACCCCCAT
* ** *
19043466 AGGGTAAAAAGACTGAAATACCCTCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
19043493 AGGGTAAAATGACCAAAATACCCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
* ***
19043520 AAGGTAAAATGATTGAAATACCCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
***
19043547 AGGGTAAAATGAATGAAATACCCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
** ** **
19043574 AGGAAAAAATGACTTAAATACCTTCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
*
19043601 A--G-----TGACCAAAATACCCCTAT
1 AGGGTAAAATGACCAAAATACCCCCAT
* *
19043621 AAGGTAAAATGACCAAAATATCCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
* *
19043648 CGGGTAGAATGACCAAAATACCCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
*** *
19043675 AGGGTAAAATGATTGAAATACCCCTAAT
1 AGGGTAAAATGACCAAAATACCCC-CAT
* * *
19043703 AGGGTAGAATGATCGAAATACCCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
19043730 AGG
1 AGG
19043733 AGATGAAATG
Statistics
Matches: 310, Mismatches: 51, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
20 14 0.05
22 1 0.00
24 15 0.05
25 7 0.02
26 7 0.02
27 242 0.78
28 24 0.08
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
AGGGTAAAATGACCAAAATACCCCCAT
Found at i:19043674 original size:155 final size:156
Alignment explanation
Indices: 19043454--19043733 Score: 424
Period size: 155 Copynumber: 1.8 Consensus size: 156
19043444 AAAATGATCG
* **
19043454 AAATACCCTAATAGGGTAAAAAGACTGAAATACCCTCATAGGGTAAAATGACCAAAATACCCCCA
1 AAATACCCTAATAAGGTAAAAAGACCAAAATACCCTCATAGGGTAAAATGACCAAAATACCCCCA
*
19043519 TAAGGTAAAATGATTGAAATACCCC-CATAGGGTAAAATGAAT-GAAATACCCCCATAGGAAAAA
66 TAAGGTAAAATGATTGAAATACCCCTAATAGGGTAAAATG-ATCGAAATACCCCCATAGGAAAAA
19043582 ATGACTTAAATACCTTCATAGTGACCA
130 ATGACTTAAATACCTTCATAGTGACCA
* * *
19043609 AAATACCCCT-ATAAGGTAAAATGACCAAAATATCCC-CATCGGGTAGAATGACCAAAATACCCC
1 AAATA-CCCTAATAAGGTAAAAAGACCAAAATA-CCCTCATAGGGTAAAATGACCAAAATACCCC
* *
19043672 CATAGGGTAAAATGATTGAAATACCCCTAATAGGGTAGAATGATCGAAATACCCCCATAGGA
64 CATAAGGTAAAATGATTGAAATACCCCTAATAGGGTAAAATGATCGAAATACCCCCATAGGA
19043734 GATGAAATGA
Statistics
Matches: 112, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
155 76 0.68
156 36 0.32
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.20
Consensus pattern (156 bp):
AAATACCCTAATAAGGTAAAAAGACCAAAATACCCTCATAGGGTAAAATGACCAAAATACCCCCA
TAAGGTAAAATGATTGAAATACCCCTAATAGGGTAAAATGATCGAAATACCCCCATAGGAAAAAA
TGACTTAAATACCTTCATAGTGACCA
Found at i:19043676 original size:74 final size:74
Alignment explanation
Indices: 19043535--19043676 Score: 158
Period size: 74 Copynumber: 1.9 Consensus size: 74
19043525 AAAATGATTG
* ** ** **
19043535 AAATACCCCCATAGGGTAAAATGAATGAAATACCCCCATAGGAAAAAATGACTTAAATACCTTCA
1 AAATACCCCCATAAGGTAAAATGAACAAAATACCCCCATAGGAAAAAATGACCAAAATACCCCCA
19043600 TAGTGACCA
66 TAGTGACCA
* * * * ** *
19043609 AAATACCCCTATAAGGTAAAATGACCAAAATATCCCCATCGGGTAGAATGACCAAAATACCCCCA
1 AAATACCCCCATAAGGTAAAATGAACAAAATACCCCCATAGGAAAAAATGACCAAAATACCCCCA
19043674 TAG
66 TAG
19043677 GGTAAAATGA
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
74 54 1.00
ACGTcount: A:0.44, C:0.24, G:0.13, T:0.19
Consensus pattern (74 bp):
AAATACCCCCATAAGGTAAAATGAACAAAATACCCCCATAGGAAAAAATGACCAAAATACCCCCA
TAGTGACCA
Found at i:19049585 original size:27 final size:27
Alignment explanation
Indices: 19049551--19049952 Score: 390
Period size: 27 Copynumber: 14.6 Consensus size: 27
19049541 AGACCCAAAA
* * *
19049551 ATAGGGTAAAATGACCAAAATATCCCA
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
19049578 ATAGGGTAAAATAACCGAAATACCACC
1 ATAGGGTAAAATGACCGAAATACCCCC
19049605 ATAGGGTAAAACGATCGAAATAACCGAAATACCCCC
1 ATAGGGT-AAA--AT-G-----ACCGAAATACCCCC
* *
19049641 ATAAGGTAAAATGACCGAAATAACCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * * * *
19049668 GTAGGGTAAAAAGACCAAAATACTCTC
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
19049695 GTAGGGTAAAATGACTGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * ** *
19049722 ATAGGATAAAAGGACTAAAATACTCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
*** *
19049749 ATAGGGTAAAATGATTAAAATACGCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
19049776 ATAGGGTAAAATGATCGAAATACCCCT
1 ATAGGGTAAAATGACCGAAATACCCCC
19049803 ATAGGGTAAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* **
19049830 ATAGGGTTAAATGATTGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
** *
19049857 ATAGGGTAAAATGATTGAAATACCCCT
1 ATAGGGTAAAATGACCGAAATACCCCC
** **
19049884 ATAGGGTAAAATGAATGAAATACCTTC
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
19049911 ATAGAGTAAAATGACCGAAATACCCTC
1 ATAGGGTAAAATGACCGAAATACCCCC
19049938 ATAGGGTAAAATGAC
1 ATAGGGTAAAATGAC
19049953 TGTTATACCC
Statistics
Matches: 316, Mismatches: 50, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
27 286 0.91
28 3 0.01
30 2 0.01
32 1 0.00
33 2 0.01
35 3 0.01
36 19 0.06
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (27 bp):
ATAGGGTAAAATGACCGAAATACCCCC
Found at i:19049633 original size:36 final size:36
Alignment explanation
Indices: 19049586--19049665 Score: 124
Period size: 36 Copynumber: 2.2 Consensus size: 36
19049576 CAATAGGGTA
* *
19049586 AAATAACCGAAATACCACCATAGGGTAAAACGATCG
1 AAATAACCGAAATACCACCATAAGGTAAAACGACCG
* *
19049622 AAATAACCGAAATACCCCCATAAGGTAAAATGACCG
1 AAATAACCGAAATACCACCATAAGGTAAAACGACCG
19049658 AAATAACC
1 AAATAACC
19049666 CCGTAGGGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.49, C:0.24, G:0.14, T:0.14
Consensus pattern (36 bp):
AAATAACCGAAATACCACCATAAGGTAAAACGACCG
Found at i:19049673 original size:63 final size:63
Alignment explanation
Indices: 19049559--19049678 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 63
19049549 AAATAGGGTA
* * *
19049559 AAATGACCAAAATATCCCAATAGGGTAAAATAACCGAAATACCACCATAGGGTAAAACGATCG
1 AAATAACCAAAATACCCCAATAAGGTAAAATAACCGAAATACCACCATAGGGTAAAACGATCG
* * * *
19049622 AAATAACCGAAATACCCCCATAAGGTAAAATGACCGAAATAACC-CCGTAGGGTAAAA
1 AAATAACCAAAATACCCCAATAAGGTAAAATAACCGAAAT-ACCACCATAGGGTAAAA
19049679 AGACCAAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
63 46 0.94
64 3 0.06
ACGTcount: A:0.47, C:0.22, G:0.16, T:0.15
Consensus pattern (63 bp):
AAATAACCAAAATACCCCAATAAGGTAAAATAACCGAAATACCACCATAGGGTAAAACGATCG
Found at i:19050222 original size:26 final size:26
Alignment explanation
Indices: 19050186--19050240 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
19050176 TTTGCGACAT
* *
19050186 ATACTGTTACTGGCAGCTTTGCTGTG
1 ATACTATTACTGGCAGCTTTGCTGCG
19050212 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
19050238 ATA
1 ATA
19050241 TTGGTGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:19050390 original size:28 final size:28
Alignment explanation
Indices: 19050350--19050458 Score: 166
Period size: 28 Copynumber: 3.9 Consensus size: 28
19050340 TGCATTGTTA
19050350 CTGTATTGGGCTAAGGCCCACACTGATT
1 CTGTATTGGGCTAAGGCCCACACTGATT
19050378 CTGTATTGGGCTAAGGCCCACACTG-TT
1 CTGTATTGGGCTAAGGCCCACACTGATT
* *
19050405 ACTATATTGGGCTAAGGCCCACACTGATA
1 -CTGTATTGGGCTAAGGCCCACACTGATT
* *
19050434 CTGTATTAGGCTAAGACCCACACTG
1 CTGTATTGGGCTAAGGCCCACACTG
19050459 TACTGTCATT
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
27 2 0.03
28 71 0.96
29 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (28 bp):
CTGTATTGGGCTAAGGCCCACACTGATT
Found at i:19050428 original size:56 final size:56
Alignment explanation
Indices: 19050345--19050459 Score: 194
Period size: 56 Copynumber: 2.1 Consensus size: 56
19050335 TGCACTGCAT
* * * *
19050345 TGTTACTGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCACAC
1 TGTTACTATATTGGGCTAAGGCCCACACTGATACTGTATTAGGCTAAGACCCACAC
19050401 TGTTACTATATTGGGCTAAGGCCCACACTGATACTGTATTAGGCTAAGACCCACAC
1 TGTTACTATATTGGGCTAAGGCCCACACTGATACTGTATTAGGCTAAGACCCACAC
19050457 TGT
1 TGT
19050460 ACTGTCATTG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (56 bp):
TGTTACTATATTGGGCTAAGGCCCACACTGATACTGTATTAGGCTAAGACCCACAC
Found at i:19050475 original size:27 final size:28
Alignment explanation
Indices: 19050361--19050475 Score: 81
Period size: 28 Copynumber: 4.1 Consensus size: 28
19050351 TGTATTGGGC
* * * **
19050361 TAAGGCCCACACTGATTCTGTATTGGGC
1 TAAGACCCACACTGATACTGTATTAGAA
* * * * **
19050389 TAAGGCCCACACTGTTACTATATTGGGC
1 TAAGACCCACACTGATACTGTATTAGAA
* **
19050417 TAAGGCCCACACTGATACTGTATTAGGC
1 TAAGACCCACACTGATACTGTATTAGAA
19050445 TAAGACCCACACTG-TACTGTCATT-GAA
1 TAAGACCCACACTGATACTGT-ATTAGAA
19050472 TAAG
1 TAAG
19050476 GCTTAGGCCT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
27 11 0.14
28 66 0.86
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (28 bp):
TAAGACCCACACTGATACTGTATTAGAA
Found at i:19050949 original size:21 final size:22
Alignment explanation
Indices: 19050903--19050952 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
19050893 TTGATTGTGT
*
19050903 GTTTTTTAAACATTAAAAAGAG
1 GTTTTTAAAACATTAAAAAGAG
*
19050925 GTTTTTAAAAC-TTAGAAATGA-
1 GTTTTTAAAACATTA-AAAAGAG
19050946 GTTTTTA
1 GTTTTTA
19050953 CCAACAACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (22 bp):
GTTTTTAAAACATTAAAAAGAG
Found at i:19055497 original size:7 final size:7
Alignment explanation
Indices: 19055485--19055521 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
19055475 GCTAGTTTGA
19055485 GCTTTCG
1 GCTTTCG
19055492 GCTTTCG
1 GCTTTCG
19055499 GCTTTCG
1 GCTTTCG
19055506 GCTTTCG
1 GCTTTCG
19055513 GCTTTCG
1 GCTTTCG
19055520 GC
1 GC
19055522 GAAAGTGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.00, C:0.30, G:0.30, T:0.41
Consensus pattern (7 bp):
GCTTTCG
Found at i:19057086 original size:18 final size:18
Alignment explanation
Indices: 19057063--19057102 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
19057053 TATGCTAGTT
*
19057063 TGGTATTGATTTTCCAGG
1 TGGTATTGATTTTCCAAG
19057081 TGGTATTGATTTTCCAAG
1 TGGTATTGATTTTCCAAG
19057099 TGGT
1 TGGT
19057103 TTCGATACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.10, G:0.28, T:0.45
Consensus pattern (18 bp):
TGGTATTGATTTTCCAAG
Found at i:19060163 original size:165 final size:166
Alignment explanation
Indices: 19059988--19060287 Score: 410
Period size: 165 Copynumber: 1.8 Consensus size: 166
19059978 TAAAGAAAAA
* *
19059988 AAAGATAAAAATATCATCAAAATAGTAAAACTTATTTTAAATAAGAAAG-AGTGAA-TTAGTCAT
1 AAAGATAAAAATATCATCAAAATAATAAAACTTATTTTAAATAAG-AAGTAGTGAACTT-GTAAT
*
19060051 TTAACCAACTGAATTGGTATCACTTAACTCGTGTCACAAAAC-TAGTAAA-CGACTTAATATGAG
64 TTAACCAACTGAATTGGTATCACTTAACTCGTGACACAAAACTTAG-AAAGCGACTTAATATGAG
*
19060114 TAGAGATATAATTTTTTTCGGTTTTCTTAAAAAATATGC
128 AAGAGATATAATTTTTTTCGGTTTTCTTAAAAAATATGC
* * * * * * *
19060153 AAAGATAAAAATTTCATCATACTAATATAACTTATTTTAAATAAGAAGTGGTTAACTTTTAATTT
1 AAAGATAAAAATATCATCAAAATAATAAAACTTATTTTAAATAAGAAGTAGTGAACTTGTAATTT
* * * *
19060218 AACCAACTGAGTTGGTGTCACTTAACTCGTGACACCAAACTTAGAAAGCGACTTAATATTAGAAG
66 AACCAACTGAATTGGTATCACTTAACTCGTGACACAAAACTTAGAAAGCGACTTAATATGAGAAG
19060283 AGATA
131 AGATA
19060288 AAAAGATAAA
Statistics
Matches: 116, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
164 3 0.03
165 88 0.76
166 25 0.22
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.32
Consensus pattern (166 bp):
AAAGATAAAAATATCATCAAAATAATAAAACTTATTTTAAATAAGAAGTAGTGAACTTGTAATTT
AACCAACTGAATTGGTATCACTTAACTCGTGACACAAAACTTAGAAAGCGACTTAATATGAGAAG
AGATATAATTTTTTTCGGTTTTCTTAAAAAATATGC
Found at i:19085485 original size:27 final size:27
Alignment explanation
Indices: 19085451--19085613 Score: 204
Period size: 27 Copynumber: 6.0 Consensus size: 27
19085441 TTGTTAACTA
*
19085451 TACCGAAATACCCTCGATGGGTAAACT
1 TACCGAAATACCCTCGATGGGTAAAAT
19085478 TACCGAAATACCCTCGATGGGTAAAAT
1 TACCGAAATACCCTCGATGGGTAAAAT
*
19085505 TATCGAAATACCCTCGATGGGTAAAAT
1 TACCGAAATACCCTCGATGGGTAAAAT
*
19085532 TACTGAAATACCCTCGATGGGTAAAAT
1 TACCGAAATACCCTCGATGGGTAAAAT
* * * *
19085559 TACCAAAATA-CTTCTGATGAGTTAAAT
1 TACCGAAATACCCTC-GATGGGTAAAAT
* *
19085586 TACC-ATAATACCCCCGTTAGGGTAAAAT
1 TACCGA-AATACCCTCGAT-GGGTAAAAT
19085614 GACTGCTATG
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
26 4 0.03
27 105 0.89
28 9 0.08
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (27 bp):
TACCGAAATACCCTCGATGGGTAAAAT
Found at i:19091783 original size:27 final size:27
Alignment explanation
Indices: 19091745--19091826 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
19091735 TTGTTAACTG
19091745 TATCAAAATA-CCCTCGATGGGTAAAAT
1 TATCAAAATACCCCT-GATGGGTAAAAT
*
19091772 TATCGAAATACCCCTGATGGGTAAAAT
1 TATCAAAATACCCCTGATGGGTAAAAT
* *
19091799 TACCATAATACCCCT-ATTAGGGTAAAAT
1 TATCAAAATACCCCTGA-T-GGGTAAAAT
19091827 GATATATATA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 34 0.71
28 13 0.27
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (27 bp):
TATCAAAATACCCCTGATGGGTAAAAT
Found at i:19091964 original size:27 final size:27
Alignment explanation
Indices: 19091925--19091997 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
19091915 ATGAAGGAAG
19091925 TACTGTT-TCTGGTGGCTCTGCCACAGT-
1 TACTGTTAT-TGGTGGCTCTGCCACA-TA
*
19091952 TACTGTTATTGGTGGCTTTGCCACATA
1 TACTGTTATTGGTGGCTCTGCCACATA
*
19091979 TACTG-TATTGG-AGCTCTGC
1 TACTGTTATTGGTGGCTCTGC
19091998 TGCGTTATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 6 0.15
26 7 0.17
27 27 0.66
28 1 0.02
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (27 bp):
TACTGTTATTGGTGGCTCTGCCACATA
Found at i:19095186 original size:5 final size:6
Alignment explanation
Indices: 19095171--19095202 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
19095161 ATCTTGTGGC
19095171 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
19095203 GAGATGGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:19105722 original size:60 final size:60
Alignment explanation
Indices: 19105608--19105731 Score: 133
Period size: 60 Copynumber: 2.1 Consensus size: 60
19105598 AGAATGGGAA
* ** * *
19105608 TGAT-CTTGGCCTCAATGATGATCTGAATGGTCAAGATGCTAATCCTCTTTTTTGTAGAG
1 TGATACTTGGCCTCAATGATAATCTGAATGGTCAAGACCCTAATCCTCATGTTTGTAGAG
* * * * * * *
19105667 TGATACTTGGTCTGAATGATAATTTGAATGGTCAAGGCCCTAATCTTCATGTTTGTGGGG
1 TGATACTTGGCCTCAATGATAATCTGAATGGTCAAGACCCTAATCCTCATGTTTGTAGAG
19105727 TGATA
1 TGATA
19105732 GATGACTAAG
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
59 4 0.08
60 48 0.92
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (60 bp):
TGATACTTGGCCTCAATGATAATCTGAATGGTCAAGACCCTAATCCTCATGTTTGTAGAG
Found at i:19118320 original size:40 final size:40
Alignment explanation
Indices: 19118265--19118341 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
19118255 AGAATCTTGA
*
19118265 CTAATAATTTTATATCTTCATTTAAGTCATCTTCAAATCG
1 CTAATAATTTTATATCTTCATTTAAGCCATCTTCAAATCG
*
19118305 CTAATAATTTTATATCTTTATTTAAGCCATCTTCAAA
1 CTAATAATTTTATATCTTCATTTAAGCCATCTTCAAA
19118342 CTGCTTACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (40 bp):
CTAATAATTTTATATCTTCATTTAAGCCATCTTCAAATCG
Found at i:19120801 original size:50 final size:50
Alignment explanation
Indices: 19120681--19120792 Score: 131
Period size: 50 Copynumber: 2.3 Consensus size: 50
19120671 GTCATAATAA
* * *
19120681 GGAAGCTCATATGAGCC-AATATCGAGAAGCTCCGGAGAGCCATTAATCG
1 GGAAGCTCATAAGATCCAAATATCGAGAAGCTCCGGAGAGACATTAATCG
* *
19120730 GGAAGCTCATAAGATCCAAATATCGGGAAGCT-CGTGAGGGACATATAA-CG
1 GGAAGCTCATAAGATCCAAATATCGAGAAGCTCCG-GAGAGACAT-TAATCG
*
19120780 GGATGCTCATAAG
1 GGAAGCTCATAAG
19120793 TGCTAAATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
49 17 0.31
50 34 0.63
51 3 0.06
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.19
Consensus pattern (50 bp):
GGAAGCTCATAAGATCCAAATATCGAGAAGCTCCGGAGAGACATTAATCG
Found at i:19121807 original size:21 final size:21
Alignment explanation
Indices: 19121781--19121823 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
19121771 TACCCAAACA
*
19121781 CTAAACCCAATTAGCCTTAGC
1 CTAAACCCAATTAGCCTAAGC
*
19121802 CTAAACCTAATTAGCCTAAGC
1 CTAAACCCAATTAGCCTAAGC
19121823 C
1 C
19121824 CAATAACCCT
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:0.35, C:0.33, G:0.09, T:0.23
Consensus pattern (21 bp):
CTAAACCCAATTAGCCTAAGC
Found at i:19122924 original size:15 final size:16
Alignment explanation
Indices: 19122900--19122940 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
19122890 TCATATATAC
19122900 ATTCTTTAATAT-TTT
1 ATTCTTTAATATGTTT
*
19122915 ATTCTATAATATGTTT
1 ATTCTTTAATATGTTT
*
19122931 TTTCTTTAAT
1 ATTCTTTAAT
19122941 TTCACTCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTCTTTAATATGTTT
Found at i:19125993 original size:27 final size:27
Alignment explanation
Indices: 19125650--19125993 Score: 421
Period size: 27 Copynumber: 12.7 Consensus size: 27
19125640 ACCGAAAGAT
19125650 CCCCATAGGGTAAAATGA-TCGAAATAC
1 CCCCATAGGGTAAAATGACT-GAAATAC
*
19125677 CCCCATAGGGTAAAATGATTGAAATAC
1 CCCCATAGGGTAAAATGACTGAAATAC
*
19125704 CCTCATAGGGTAAAATGA-TCGAAATAC
1 CCCCATAGGGTAAAATGACT-GAAATAC
* * *
19125731 CCTCATAGGATAAATTGACT-AAAGTAC
1 CCCCATAGGGTAAAATGACTGAAA-TAC
* * * *
19125758 CCCCGTAGGGTAAAGTGA-TCAAAATAT
1 CCCCATAGGGTAAAATGACT-GAAATAC
*
19125785 CCCCATAGGGTAAAATTA-TCGAAATAC
1 CCCCATAGGGTAAAATGACT-GAAATAC
*
19125812 CCTCATAGGGTAAAATGA-TCGAAATAC
1 CCCCATAGGGTAAAATGACT-GAAATAC
*
19125839 CCCCATAGGGTAAAATGACTAAAATAC
1 CCCCATAGGGTAAAATGACTGAAATAC
*
19125866 CCTCATAGGGTAAAATGACTGAAATAC
1 CCCCATAGGGTAAAATGACTGAAATAC
* *
19125893 CTCTATAGGGTAAAATGACTGAAATAC
1 CCCCATAGGGTAAAATGACTGAAATAC
*
19125920 CCCTATAGGGTAAAATGACTGAAATAC
1 CCCCATAGGGTAAAATGACTGAAATAC
* *
19125947 CCCTATAAGGTAAAATGACTGAAATAC
1 CCCCATAGGGTAAAATGACTGAAATAC
*
19125974 CCCCATAGGATAAAATGACT
1 CCCCATAGGGTAAAATGACT
19125994 ATTATACCCC
Statistics
Matches: 283, Mismatches: 27, Indels: 14
0.87 0.08 0.04
Matches are distributed among these distances:
26 5 0.02
27 272 0.96
28 6 0.02
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.22
Consensus pattern (27 bp):
CCCCATAGGGTAAAATGACTGAAATAC
Found at i:19127745 original size:24 final size:25
Alignment explanation
Indices: 19127713--19127783 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
19127703 TGCTAAAGAG
19127713 CCCACTCAAGCTACTACTGAAG-CA
1 CCCACTCAAGCTACTACTGAAGACA
* * *
19127737 CCCACTCAACCTGCTACCG-AGACA
1 CCCACTCAAGCTACTACTGAAGACA
*
19127761 CCTACTCAAAG-TACTACTGAAGA
1 CCCACTC-AAGCTACTACTGAAGA
19127784 GCCTAAAAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 2 0.05
24 30 0.81
25 5 0.14
ACGTcount: A:0.34, C:0.37, G:0.13, T:0.17
Consensus pattern (25 bp):
CCCACTCAAGCTACTACTGAAGACA
Done.