Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 62 of 222
Found at i:18712128 original size:44 final size:44
Alignment explanation
Indices: 18712038--18712133 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
18712028 GGGTAAAGCA
* * * *
18712038 CCGCTAAAGGTCATGTTCTTTAGCGACATTTTTTTATAAAAGCG
1 CCGCTAAAGGCCATGTTCTATAGCGACATTTTTTCATAAAAACG
*
18712082 CCGCTAAAGGCCATGTTCTATAGC-AGCGTTTTTTCA-AATAAACG
1 CCGCTAAAGGCCATGTTCTATAGCGA-CATTTTTTCATAA-AAACG
18712126 CCGCTAAA
1 CCGCTAAA
18712134 TTTTGCAGCG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
43 3 0.07
44 42 0.93
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
CCGCTAAAGGCCATGTTCTATAGCGACATTTTTTCATAAAAACG
Found at i:18717182 original size:50 final size:50
Alignment explanation
Indices: 18717123--18717268 Score: 141
Period size: 50 Copynumber: 2.8 Consensus size: 50
18717113 ATGAGAGTTT
* * *
18717123 TCATATCGGTGCCCATGCCATGTCCTAGAA-ATGGTCTTACGGGGGACCTC
1 TCATATCGGTACCAATGCCATGTCCCA-AACATGGTCTTACGGGGGACCTC
* * *
18717173 TCATCTCGGTACCAATGCCATGTCCCAAACATGGTCTTATGTGGGACCTC
1 TCATATCGGTACCAATGCCATGTCCCAAACATGGTCTTACGGGGGACCTC
** *
18717223 TCATAACCTCAATAATGCCAATGCCATGTCCCATACATGGTCTTAC
1 TCAT-A--TCGGT-A--CCAATGCCATGTCCCAAACATGGTCTTAC
18717269 ATGGGGTCTC
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
49 2 0.03
50 45 0.58
53 3 0.04
54 1 0.01
56 27 0.35
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (50 bp):
TCATATCGGTACCAATGCCATGTCCCAAACATGGTCTTACGGGGGACCTC
Found at i:18731779 original size:18 final size:18
Alignment explanation
Indices: 18731756--18731790 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18731746 AACTAAGAAA
*
18731756 ATGTATGATCAATTGTTG
1 ATGTATGATCAAGTGTTG
18731774 ATGTATGATCAAGTGTT
1 ATGTATGATCAAGTGTT
18731791 ATGATAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.43
Consensus pattern (18 bp):
ATGTATGATCAAGTGTTG
Found at i:18735628 original size:26 final size:26
Alignment explanation
Indices: 18735598--18735652 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
18735588 AACACACTAA
18735598 TATCACAGCAAAGCTGCCAGTAATAG
1 TATCACAGCAAAGCTGCCAGTAATAG
*
18735624 TATCACAGCAAAGCTGCTAGTAATAG
1 TATCACAGCAAAGCTGCCAGTAATAG
18735650 TAT
1 TAT
18735653 ATATGGCAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAATAG
Found at i:18735900 original size:54 final size:54
Alignment explanation
Indices: 18735842--18736012 Score: 243
Period size: 54 Copynumber: 3.2 Consensus size: 54
18735832 TTACTGTACT
*
18735842 GGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCTTATG
1 GGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATG
* * * * *
18735896 GGGGTATTTTGGTCATTTTATCGTACGGTGGTATTTCGATCATTTTACCCTATA
1 GGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATG
* * * *
18735950 CGGGTATTTCGGTCATTTTACCTTATGAGGGTATTTCGATCATTTTACCCTATG
1 GGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATG
*
18736004 GAGGTATTT
1 GGGGTATTT
18736013 CAATCATTTT
Statistics
Matches: 101, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 101 1.00
ACGTcount: A:0.18, C:0.15, G:0.23, T:0.44
Consensus pattern (54 bp):
GGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATG
Found at i:18735939 original size:81 final size:79
Alignment explanation
Indices: 18735815--18736023 Score: 256
Period size: 81 Copynumber: 2.6 Consensus size: 79
18735805 TAATCTCTTA
* * * **
18735815 GGGGCATTTTGGTCATTTTACTGTACTGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCG
1 GGGGTATTTTGGTCATTTTAC-GTAC-GGGGTATTTCGATCATTTTACCCTATACGGGTATTTCG
18735880 ATCATTTTACCTTATG
64 ATCATTTTACCTTATG
18735896 GGGGTATTTTGGTCATTTTATCGTACGGTGGTATTTCGATCATTTTACCCTATACGGGTATTTCG
1 GGGGTATTTTGGTCATTTTA-CGTACGG-GGTATTTCGATCATTTTACCCTATACGGGTATTTCG
*
18735961 GTCATTTTACCTTATG
64 ATCATTTTACCTTATG
* * * * * *
18735977 AGGGTATTTCGATCATTTTACCCTATGGAGGTATTTCAATCATTTTA
1 GGGGTATTTTGGTCATTTTA-CGTACGG-GGTATTTCGATCATTTTA
18736024 TTGACCTCAC
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 2 0.02
81 109 0.97
82 1 0.01
ACGTcount: A:0.19, C:0.15, G:0.22, T:0.44
Consensus pattern (79 bp):
GGGGTATTTTGGTCATTTTACGTACGGGGTATTTCGATCATTTTACCCTATACGGGTATTTCGAT
CATTTTACCTTATG
Found at i:18736013 original size:27 final size:26
Alignment explanation
Indices: 18735827--18736023 Score: 205
Period size: 27 Copynumber: 7.3 Consensus size: 26
18735817 GGCATTTTGG
** * *
18735827 TCATTTTACTGTACTGGGGTATTTTGG
1 TCATTTTACCCTA-TGGGGTATTTCGA
18735854 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTAT-GGGGTATTTCGA
* * *
18735881 TCATTTTACCTTATGGGGGTATTTTGG
1 TCATTTTACCCTAT-GGGGTATTTCGA
* * *
18735908 TCATTTTATCGTACGGTGGTATTTCGA
1 TCATTTTACCCTATGG-GGTATTTCGA
* *
18735935 TCATTTTACCCTATACGGGTATTTCGG
1 TCATTTTACCCTAT-GGGGTATTTCGA
*
18735962 TCATTTTACCTTATGAGGGTATTTCGA
1 TCATTTTACCCTATG-GGGTATTTCGA
*
18735989 TCATTTTACCCTATGGAGGTATTTCAA
1 TCATTTTACCCTATGG-GGTATTTCGA
18736016 TCATTTTA
1 TCATTTTA
18736024 TTGACCTCAC
Statistics
Matches: 143, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
26 4 0.03
27 138 0.97
28 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.20, T:0.45
Consensus pattern (26 bp):
TCATTTTACCCTATGGGGTATTTCGA
Found at i:18753632 original size:40 final size:40
Alignment explanation
Indices: 18753393--18753618 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
18753383 TTGAATGATG
* * * *
18753393 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
18753433 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
18753473 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18753513 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18753553 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
18753594 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18753619 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 158 0.93
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18753636 original size:120 final size:120
Alignment explanation
Indices: 18753393--18753651 Score: 287
Period size: 120 Copynumber: 2.2 Consensus size: 120
18753383 TTGAATGATG
* * *
18753393 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
***
18753458 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGTGAGTTACTAAA
66 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
* * **
18753513 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
18753576 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTTA-CTAAA
* *
18753633 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
18753652 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
119 18 0.15
120 90 0.76
121 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:18759676 original size:37 final size:37
Alignment explanation
Indices: 18759635--18759758 Score: 133
Period size: 37 Copynumber: 3.4 Consensus size: 37
18759625 ATCAAATCAA
*
18759635 AACACGCCAAATGTTCATAAGAGTTAATCCAACCGAT
1 AACACGCCAAATGTTCATAAGAGCTAATCCAACCGAT
* *
18759672 AACACGCCAAACGCTCATAAGAGCTAATCCAACCGAT
1 AACACGCCAAATGTTCATAAGAGCTAATCCAACCGAT
** * * * *
18759709 AGGACTCCAAGTGCTCCA-AAGAGCTAATCCAACCGGT
1 AACACGCCAAATG-TTCATAAGAGCTAATCCAACCGAT
* *
18759746 TACACGCTAAATG
1 AACACGCCAAATG
18759759 CTCCGAAGAG
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
37 67 0.97
38 2 0.03
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (37 bp):
AACACGCCAAATGTTCATAAGAGCTAATCCAACCGAT
Found at i:18764485 original size:13 final size:13
Alignment explanation
Indices: 18764469--18764498 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
18764459 ATTGTCATGT
18764469 AATTGTTTTTCTG
1 AATTGTTTTTCTG
18764482 AATTGTTTTTCTG
1 AATTGTTTTTCTG
18764495 AATT
1 AATT
18764499 TAGCTGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
AATTGTTTTTCTG
Found at i:18765463 original size:82 final size:81
Alignment explanation
Indices: 18765372--18765621 Score: 186
Period size: 82 Copynumber: 3.1 Consensus size: 81
18765362 CATATAAGAA
*
18765372 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATG
1 TATTTATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAATTATG
18765437 TTTAAATATGATTAAAT
65 TTTAAATATGATTAAAT
* * * * * * * *
18765454 TATTTATTATT---CATATTAATAATCTTATCAAAATTTAA-ATAACA-A--TAACAATAA-TA-
1 TATTTATTATTAAGAATTTTATTAA-ATTAT-ATATTTTAATATAATATATTTAATAATAATTAT
* *
18765510 ATTTACCAA-A--A-CAAAT
64 GTTTA--AATATGATTAAAT
* *
18765526 T-TCTGGTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAAT
1 TAT-T--T-ATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAAT
*
18765590 TATGTTTAAATATGATTAAAA
61 TATGTTTAAATATGATTAAAT
18765611 TATTTATTATT
1 TATTTATTATT
18765622 GATAATAATA
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 5 0.04
75 9 0.07
76 17 0.14
77 4 0.03
78 13 0.11
79 13 0.11
80 4 0.03
81 17 0.14
82 19 0.16
83 5 0.04
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (81 bp):
TATTTATTATTAAGAATTTTATTAAATTATATATTTTAATATAATATATTTAATAATAATTATGT
TTAAATATGATTAAAT
Found at i:18765541 original size:157 final size:157
Alignment explanation
Indices: 18765375--18765684 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
18765365 ATAAGAATAT
*
18765375 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
18765440 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
18765505 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
* *
18765532 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* * *
18765597 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAATAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
*
18765662 TAATTATTTACCAAAACAAATTT
131 TAATAATTTACCAAAACAAATTT
18765685 ATGCTAAGGG
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:18765835 original size:16 final size:16
Alignment explanation
Indices: 18765814--18765879 Score: 105
Period size: 16 Copynumber: 4.1 Consensus size: 16
18765804 GATTTGCTAT
*
18765814 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
*
18765830 TACACCTCTAATTCAA
1 TACACCTCTAATCCAA
*
18765846 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
18765862 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18765878 TA
1 TA
18765880 TACCGCAACA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.30
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:18768071 original size:23 final size:23
Alignment explanation
Indices: 18768040--18768125 Score: 68
Period size: 23 Copynumber: 3.7 Consensus size: 23
18768030 AGCCTTTGGG
*
18768040 ATAAT-CATGTGAGCCTAAATTA
1 ATAATACATGTGAACCTAAATTA
** *
18768062 ATAATACATGCAAACCTAAACTA
1 ATAATACATGTGAACCTAAATTA
* *
18768085 TTAATACATGTGGACCCTAAATTGA
1 ATAATACATGT-GAACCTAAATT-A
*
18768110 ATATTAC-TCGTGAACC
1 ATAATACAT-GTGAACC
18768126 CTTGGTGATT
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
22 5 0.10
23 22 0.46
24 13 0.27
25 8 0.17
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (23 bp):
ATAATACATGTGAACCTAAATTA
Found at i:18768312 original size:9 final size:9
Alignment explanation
Indices: 18768300--18768351 Score: 68
Period size: 9 Copynumber: 5.7 Consensus size: 9
18768290 TGTTTAGGGG
18768300 TTTTTTATA
1 TTTTTTATA
18768309 TTTTTTATA
1 TTTTTTATA
18768318 TTTTTATATA
1 TTTTT-TATA
* *
18768328 TTCTTTAGA
1 TTTTTTATA
*
18768337 CTTTTTATA
1 TTTTTTATA
18768346 TTTTTT
1 TTTTTT
18768352 GAGTTGTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
9 28 0.78
10 8 0.22
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (9 bp):
TTTTTTATA
Found at i:18769296 original size:11 final size:11
Alignment explanation
Indices: 18769236--18769326 Score: 52
Period size: 11 Copynumber: 8.5 Consensus size: 11
18769226 GAGGAATAAA
*
18769236 AATTGAGTGAG
1 AATTGAGAGAG
*
18769247 AATTAAGAGCA-
1 AATTGAGAG-AG
18769258 AATTGAGAGA-
1 AATTGAGAGAG
* *
18769268 AATATAAAAGAG
1 AAT-TGAGAGAG
*
18769280 ATTTGAGAGAG
1 AATTGAGAGAG
18769291 AATT----GAG
1 AATTGAGAGAG
18769298 AATGTGAGAGAG
1 AAT-TGAGAGAG
18769310 AATTGAGATGAG
1 AATTGAGA-GAG
18769322 -ATTGA
1 AATTGA
18769327 CTTGAAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
7 6 0.10
8 1 0.02
10 4 0.06
11 39 0.63
12 12 0.19
ACGTcount: A:0.46, C:0.01, G:0.30, T:0.23
Consensus pattern (11 bp):
AATTGAGAGAG
Found at i:18780734 original size:87 final size:87
Alignment explanation
Indices: 18780582--18780818 Score: 339
Period size: 87 Copynumber: 2.7 Consensus size: 87
18780572 AGATCAGTGA
* * ** * *
18780582 AGATCGAAAACAAAGCCTTGCCTCTATTGGTTATAGTGGAGCTGGTTAAAGATAGTAGATATTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
18780647 CTTCTTGCAGTGACAACGAAGC
66 CTTCCTACAGTGACAACGAAGC
18780669 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
18780734 CTTCCTACATTGACAACGAAGC
66 CTTCCTACAGTGACAACGAAGC
** * * * *
18780756 AGATCGAAGGCAAAGCCTTTCCTTCATCGGTTGCAGTGGAGCTGGTTAAAAATTGCAGATCTT
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
18780819 ATCTCCCTAA
Statistics
Matches: 135, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 135 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTACAGTGACAACGAAGC
Found at i:18781169 original size:44 final size:44
Alignment explanation
Indices: 18781072--18781193 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
18781062 TGAAGAAGCA
* * * *
18781072 AATCTTATCTCTCTGAGGTTGTAGTGGAGCAGATTGAATTCGAT
1 AATCTTATCTCTCTGAAGTTGTAGTGGAGCAGATTAAAGTCAAT
* * *
18781116 AATCCTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGT-AAT
1 AATCTTATCTCTCTGAAGTTGTAGTGGAGCAGATTAAAGTCAAT
** *
18781159 AGATCTTATCTCTCTGAAGTTCCAGTAGAGCAGAT
1 A-ATCTTATCTCTCTGAAGTTGTAGTGGAGCAGAT
18781194 CGCATCAAGT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 3 0.05
44 61 0.95
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (44 bp):
AATCTTATCTCTCTGAAGTTGTAGTGGAGCAGATTAAAGTCAAT
Found at i:18787069 original size:19 final size:19
Alignment explanation
Indices: 18787033--18787072 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18787023 TCCACCCCCA
* **
18787033 CCTCTTCTTTTCTTTTTCT
1 CCTCATCTTTTCAGTTTCT
18787052 CCTCATCTTTTCAGTTTCT
1 CCTCATCTTTTCAGTTTCT
18787071 CC
1 CC
18787073 CCTAGTCAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.05, C:0.35, G:0.03, T:0.57
Consensus pattern (19 bp):
CCTCATCTTTTCAGTTTCT
Found at i:18787603 original size:27 final size:27
Alignment explanation
Indices: 18787571--18787982 Score: 378
Period size: 27 Copynumber: 15.3 Consensus size: 27
18787561 ATTCGTGGGC
* *
18787571 AAATGATAGAAATACCCCCGATGGGTA
1 AAATGACAGAAATACCCTCGATGGGTA
*
18787598 AAATGACCA-AAATACTCTCGATGGGTA
1 AAATGA-CAGAAATACCCTCGATGGGTA
*
18787625 AAATGACCGAAATACCCTCGATGGGTA
1 AAATGACAGAAATACCCTCGATGGGTA
* * * *
18787652 AAATGACCGAAGTACCATCAATGGGTA
1 AAATGACAGAAATACCCTCGATGGGTA
* *
18787679 AAATGACCGAAATACCCTCAATGGGTA
1 AAATGACAGAAATACCCTCGATGGGTA
*
18787706 AAATGATC-GAAATACCCTTGATGGGTA
1 AAATGA-CAGAAATACCCTCGATGGGTA
*
18787733 AAATGACCGAAATACCCTCGATGGGTA
1 AAATGACAGAAATACCCTCGATGGGTA
* *
18787760 AAATGACTGAAATACCCCCGATGGGTA
1 AAATGACAGAAATACCCTCGATGGGTA
* *
18787787 AAATGATC-GAAATACCC-CTAATAGGTA
1 AAATGA-CAGAAATACCCTC-GATGGGTA
18787814 AAATGACCA-AAATACCCTCGATGGGTA
1 AAATGA-CAGAAATACCCTCGATGGGTA
** *
18787841 AAATGACCA-AAATACCCTTAATAGGTA
1 AAATGA-CAGAAATACCCTCGATGGGTA
* *
18787868 AAATAATCA-AAATACCCCCGATGGGTA
1 AAATGA-CAGAAATACCCTCGATGGGTA
* * * * *
18787895 AAATAATCA-AAATACCCCCAATGAGTT
1 AAATGA-CAGAAATACCCTCGATGGGTA
* * *
18787922 AAATAACTA-AAATACCCTCGAAGGGCA
1 AAATGAC-AGAAATACCCTCGATGGGTA
*
18787949 AAATGACCA-AAATACCC-CCATAGGGTA
1 AAATGA-CAGAAATACCCTCGAT-GGGTA
18787976 AAATGAC
1 AAATGAC
18787983 TGTTATACCC
Statistics
Matches: 332, Mismatches: 42, Indels: 23
0.84 0.11 0.06
Matches are distributed among these distances:
26 7 0.02
27 320 0.96
28 5 0.02
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (27 bp):
AAATGACAGAAATACCCTCGATGGGTA
Found at i:18787630 original size:54 final size:54
Alignment explanation
Indices: 18787571--18787982 Score: 420
Period size: 54 Copynumber: 7.6 Consensus size: 54
18787561 ATTCGTGGGC
* * *
18787571 AAATGATAGAAATACCCCCGATGGGTAAAATGACCAAAATACTCTCGATGGGTA
1 AAATGACAGAAATACCCCCAATGGGTAAAATGACCAAAATACCCTCGATGGGTA
* * * * * * *
18787625 AAATGACCGAAATACCCTCGATGGGTAAAATGACCGAAGTACCATCAATGGGTA
1 AAATGACAGAAATACCCCCAATGGGTAAAATGACCAAAATACCCTCGATGGGTA
* * * * *
18787679 AAATGACCGAAATACCCTCAATGGGTAAAATGATCGAAATACCCTTGATGGGTA
1 AAATGACAGAAATACCCCCAATGGGTAAAATGACCAAAATACCCTCGATGGGTA
* * * ** *
18787733 AAATGACCGAAATACCCTCGATGGGTAAAATGACTGAAATACCCCCGATGGGTA
1 AAATGACAGAAATACCCCCAATGGGTAAAATGACCAAAATACCCTCGATGGGTA
* *
18787787 AAATGATC-GAAATACCCCTAATAGGTAAAATGACCAAAATACCCTCGATGGGTA
1 AAATGA-CAGAAATACCCCCAATGGGTAAAATGACCAAAATACCCTCGATGGGTA
** * * * *
18787841 AAATGACCA-AAATACCCTTAATAGGTAAAATAATCAAAATACCCCCGATGGGTA
1 AAATGA-CAGAAATACCCCCAATGGGTAAAATGACCAAAATACCCTCGATGGGTA
* * * * * * *
18787895 AAATAATCA-AAATACCCCCAATGAGTTAAATAACTAAAATACCCTCGAAGGGCA
1 AAATGA-CAGAAATACCCCCAATGGGTAAAATGACCAAAATACCCTCGATGGGTA
18787949 AAATGACCA-AAATACCCCC-ATAGGGTAAAATGAC
1 AAATGA-CAGAAATACCCCCAAT-GGGTAAAATGAC
18787983 TGTTATACCC
Statistics
Matches: 307, Mismatches: 48, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
53 2 0.01
54 304 0.99
55 1 0.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (54 bp):
AAATGACAGAAATACCCCCAATGGGTAAAATGACCAAAATACCCTCGATGGGTA
Found at i:18787684 original size:81 final size:80
Alignment explanation
Indices: 18787580--18787982 Score: 446
Period size: 81 Copynumber: 5.0 Consensus size: 80
18787570 CAAATGATAG
* * * *
18787580 AAATACCCCCGATGGGTAAAATGACCAAAATACTCTCGATGGGTAAAATGACCGAAATACCCTCG
1 AAATACCCTCAATGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGATCGAAATACCC-CG
*
18787645 ATGGGTAAAATGACCG
65 ATGGGTAAAATGACCA
* * * * *
18787661 AAGTACCATCAATGGGTAAAATGACCGAAATACCCTCAATGGGTAAAATGATCGAAATACCCTTG
1 AAATACCCTCAATGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGATCGAAATACCC-CG
*
18787726 ATGGGTAAAATGACCG
65 ATGGGTAAAATGACCA
* ** * *
18787742 AAATACCCTCGATGGGTAAAATGACTGAAATACCCCCGATGGGTAAAATGATCGAAATACCCCTA
1 AAATACCCTCAATGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGATCGAAATACCCC-G
*
18787807 ATAGGTAAAATGACCA
65 ATGGGTAAAATGACCA
* ** * * *
18787823 AAATACCCTCGATGGGTAAAATGACCAAAATACCCTTAATAGGTAAAATAATCAAAATACCCCCG
1 AAATACCCTCAATGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGATCGAAATA-CCCCG
* *
18787888 ATGGGTAAAATAATCA
65 ATGGGTAAAATGACCA
* * * * * * * * * *
18787904 AAATACCCCCAATGAGTTAAATAACTAAAATACCCTCGAAGGGCAAAATGACCAAAATACCCCCA
1 AAATACCCTCAATGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGATCGAAATACCCCGA
18787969 TAGGGTAAAATGAC
66 T-GGGTAAAATGAC
18787983 TGTTATACCC
Statistics
Matches: 272, Mismatches: 47, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
80 6 0.02
81 262 0.96
82 4 0.01
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (80 bp):
AAATACCCTCAATGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGATCGAAATACCCCGA
TGGGTAAAATGACCA
Found at i:18788174 original size:27 final size:26
Alignment explanation
Indices: 18788136--18788203 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
18788126 AAGTATACTA
*
18788136 TACTGGTGGCTTTGCCACATATACAGT
1 TACTGGTAGCTTTGCCACAT-TACAGT
* ** *
18788163 TAGTGGTAGCTTTGCTGCATTACTGT
1 TACTGGTAGCTTTGCCACATTACAGT
*
18788189 TACTGGCAGCTTTGC
1 TACTGGTAGCTTTGC
18788204 TGCGTCATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 18 0.53
27 16 0.47
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.37
Consensus pattern (26 bp):
TACTGGTAGCTTTGCCACATTACAGT
Found at i:18788199 original size:26 final size:26
Alignment explanation
Indices: 18788161--18788231 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
18788151 CACATATACA
* * *
18788161 GTTAGTGGTAGCTTTGCTGCATTACT
1 GTTACTGGCAGCTTTGCTGCATCACT
* *
18788187 GTTACTGGCAGCTTTGCTGCGTCATT
1 GTTACTGGCAGCTTTGCTGCATCACT
* *
18788213 ATTACTGGCATCTTTGCTG
1 GTTACTGGCAGCTTTGCTG
18788232 TAATATTGGT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.41
Consensus pattern (26 bp):
GTTACTGGCAGCTTTGCTGCATCACT
Found at i:18788900 original size:20 final size:20
Alignment explanation
Indices: 18788871--18788912 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
18788861 TCTAAACTTC
18788871 AGAAACGAGTTTTATCAACA
1 AGAAACGAGTTTTATCAACA
* *
18788891 AGAAATGAGTTTTATTAACA
1 AGAAACGAGTTTTATCAACA
18788911 AG
1 AG
18788913 TTTAAGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.29
Consensus pattern (20 bp):
AGAAACGAGTTTTATCAACA
Found at i:18793653 original size:18 final size:18
Alignment explanation
Indices: 18793619--18793653 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18793609 TAAGTCAGTT
18793619 TCATTTATGAAATCATTC
1 TCATTTATGAAATCATTC
18793637 TCATTGTATGAAA-CATT
1 TCATT-TATGAAATCATT
18793654 ATAAAAGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (18 bp):
TCATTTATGAAATCATTC
Found at i:18796809 original size:298 final size:298
Alignment explanation
Indices: 18796265--18796854 Score: 952
Period size: 298 Copynumber: 2.0 Consensus size: 298
18796255 AAGCCTCCAT
*
18796265 TCATGGAGCAGTGTCAAGTGGTTCGACGCCCGTATATGAGGGCCGGAGAGGGGAAGATAAGGAAG
1 TCATGGAGCAGTGTCAAGTGGTTCGACGCCCGTATATGAGGGCCGAAGAGGGGAAGATAAGGAAG
* *
18796330 CTTTCTTTCAAATGATAAGTGAGTGGTTTACAAAGTTCGTGCGAACGAACCCGGCGGCTCAACAA
66 CTTTCTTTCAAATGATAAGTGAGTGGTTTACAAAGTTCGTACGAACGAACCCAGCGGCTCAACAA
* *
18796395 CCTCCATCCCTACTTGTTCCTCAACCGATTCCTGTTGTCCACAAGGCGTGGAAATAGTGCGAGCT
131 CCTCCATCCCCACTTGTTCCTCAACCGATTCCTGTTGTCCACAAGGCGTGGAAATAGTGAGAGCT
* * *
18796460 AATAAGCCACCAATCAACAGAATTCACAAATACGGGGTTGAAGAGTTTTGAGCTACAGTTGATGA
196 AATAAGCCACCAATCAACAGAATTCACAAATACGGGGCTGAAGAATTTTGAGCTACAGTCGATGA
*
18796525 TGATCTTGAGAAAGCTAAATTTTGGTTAGAGAGCTAAA
261 TGATCCTGAGAAAGCTAAATTTTGGTTAGAGAGCTAAA
* * * *
18796563 TCATGGAGCAGTGTCAAGTGGTTTGAGGCCCGTATCTGAGGGCTGAAGAGGGGAAGATAAGGAAG
1 TCATGGAGCAGTGTCAAGTGGTTCGACGCCCGTATATGAGGGCCGAAGAGGGGAAGATAAGGAAG
* * *
18796628 CTTTCTTTCAAATGATAAGTGAGTGGTTTACGAAGTTTGTACGAATGAACCCAGCGGCTCAACAA
66 CTTTCTTTCAAATGATAAGTGAGTGGTTTACAAAGTTCGTACGAACGAACCCAGCGGCTCAACAA
* *
18796693 CCTCCATCCCCACTTGTTCCTCAACCGGTT-CTCGTTGTCCACAAGGTGTGGAAATAGTGAGAGC
131 CCTCCATCCCCACTTGTTCCTCAACCGATTCCT-GTTGTCCACAAGGCGTGGAAATAGTGAGAGC
*
18796757 TAATAAG-CAGCCAATCAACAGAATTCGA-AAATATGGGGCTGAAGAATTTTGAGCTACAGTCGA
195 TAATAAGCCA-CCAATCAACAGAATTC-ACAAATACGGGGCTGAAGAATTTTGAGCTACAGTCGA
*
18796820 TGATGATCCTGAGAGAGCTAAATTTTGGTTAGAGA
258 TGATGATCCTGAGAAAGCTAAATTTTGGTTAGAGA
18796855 ATACTATTCG
Statistics
Matches: 269, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
297 4 0.01
298 264 0.98
299 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (298 bp):
TCATGGAGCAGTGTCAAGTGGTTCGACGCCCGTATATGAGGGCCGAAGAGGGGAAGATAAGGAAG
CTTTCTTTCAAATGATAAGTGAGTGGTTTACAAAGTTCGTACGAACGAACCCAGCGGCTCAACAA
CCTCCATCCCCACTTGTTCCTCAACCGATTCCTGTTGTCCACAAGGCGTGGAAATAGTGAGAGCT
AATAAGCCACCAATCAACAGAATTCACAAATACGGGGCTGAAGAATTTTGAGCTACAGTCGATGA
TGATCCTGAGAAAGCTAAATTTTGGTTAGAGAGCTAAA
Found at i:18800150 original size:29 final size:29
Alignment explanation
Indices: 18800115--18800182 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
18800105 ATCAACGAAT
*
18800115 GAAAAGGGATAGCTTTAGCTATCGAATAC
1 GAAAAGGGATAGCTTCAGCTATCGAATAC
* * *
18800144 GGAAAGGGATAGCTTCAGCTATCGATTAT
1 GAAAAGGGATAGCTTCAGCTATCGAATAC
18800173 GAAAAGGGAT
1 GAAAAGGGAT
18800183 GGTGACGACC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.24
Consensus pattern (29 bp):
GAAAAGGGATAGCTTCAGCTATCGAATAC
Found at i:18800323 original size:30 final size:30
Alignment explanation
Indices: 18800168--18800390 Score: 172
Period size: 30 Copynumber: 7.5 Consensus size: 30
18800158 TCAGCTATCG
*
18800168 ATTATGAAAAGGGATGGTGACGACCATCAA
1 ATTATGAAAAGGGATGATGACGACCATCAA
* *
18800198 CA--ATGAAAAGGCATGGTGACGACCATCAA
1 -ATTATGAAAAGGGATGATGACGACCATCAA
* * * * * *
18800227 ACTATG-AAAGGGATGGCT-TCGGCTATCGA
1 ATTATGAAAAGGGAT-GATGACGACCATCAA
* * * *
18800256 TTTATGAAAAGGGATAACT-TC-AGCTAAT-AA
1 ATTATGAAAAGGGATGA-TGACGA-C-CATCAA
*
18800286 ATTATGAAAAGGGATGATGACGACCATCGA
1 ATTATGAAAAGGGATGATGACGACCATCAA
** * *
18800316 ACAATGAAAAGGGATGTTGACGACCAACAA
1 ATTATGAAAAGGGATGATGACGACCATCAA
* *
18800346 ATTATGAAAAGGGATGCTGACGACTATCAA
1 ATTATGAAAAGGGATGATGACGACCATCAA
18800376 ATTATGAAAAGGGAT
1 ATTATGAAAAGGGAT
18800391 AGTTTCAGCT
Statistics
Matches: 153, Mismatches: 29, Indels: 21
0.75 0.14 0.10
Matches are distributed among these distances:
28 1 0.01
29 47 0.31
30 101 0.66
31 4 0.03
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (30 bp):
ATTATGAAAAGGGATGATGACGACCATCAA
Found at i:18800323 original size:60 final size:59
Alignment explanation
Indices: 18800259--18800420 Score: 155
Period size: 60 Copynumber: 2.7 Consensus size: 59
18800249 CTATCGATTT
* *
18800259 ATGAAAAGGGATAACTTCAGCTAATAAATTATGAAAAGGGATGATGACGACCATCGAACA
1 ATGAAAAGGGAT-ACTTCAGCTAACAAATTATGAAAAGGGATGATGACGACCATCAAACA
* * * * * **
18800319 ATGAAAAGGGAT-GTTGACGACCAACAAATTATGAAAAGGGATGCTGACGACTATCAAATT
1 ATGAAAAGGGATACTTCA-G-CTAACAAATTATGAAAAGGGATGATGACGACCATCAAACA
* ** * *
18800379 ATGAAAAGGGATAGTTTCAGCTGTCGAACTATGAAAAGGGAT
1 ATGAAAAGGGATA-CTTCAGCTAACAAATTATGAAAAGGGAT
18800421 AACTTCGGTT
Statistics
Matches: 82, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
58 3 0.04
59 1 0.01
60 74 0.90
61 1 0.01
62 3 0.04
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (59 bp):
ATGAAAAGGGATACTTCAGCTAACAAATTATGAAAAGGGATGATGACGACCATCAAACA
Found at i:18803926 original size:17 final size:17
Alignment explanation
Indices: 18803904--18803936 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18803894 CACTAACACC
*
18803904 AAAATGTAATGATAATA
1 AAAATGCAATGATAATA
18803921 AAAATGCAATGATAAT
1 AAAATGCAATGATAAT
18803937 GTATACTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.12, T:0.27
Consensus pattern (17 bp):
AAAATGCAATGATAATA
Found at i:18814095 original size:296 final size:296
Alignment explanation
Indices: 18813561--18814152 Score: 972
Period size: 296 Copynumber: 2.0 Consensus size: 296
18813551 GATGCCAAAA
* * * * *
18813561 ACTTGATTGGTTGTTTAACGTCCCAGCAATAATGTGCAAGCATACACTGTCAGTGCAAGTATAGT
1 ACTTGATCGGCTGTTTAACGTCACAGCAAAAATGTGCAAGCATACACTATCAGTGCAAGTATAGT
* *
18813626 AGGCAGATGTGAGTTTGTCGGATATAGATCCCACAGAGATGGGAATCTTTTGTCTATTAATGTCG
66 AGGCAGATGTGAGTTTGTCGAATATAGATCCCAAAGAGATGGGAATCTTTTGTCTATTAATGTCG
18813691 ATGCAATAACTTGATAATAACGATATAAATTGCGAGGATAGTTGTCGATGCAATAACTTGAGAAC
131 ATGCAATAACTTGATAATAACGATATAAATTGCGAGGATAGTTGTCGATGCAATAACTTGAGAAC
18813756 AATAAAATAAAATATGACAATGAGAAACTGGAATCCCCAACATGAATCTTCAGCAGAATACTAAG
196 AATAAAATAAAATATGACAATGAGAAACTGGAATCCCCAACATGAATCTTCAGCAGAATACTAAG
*
18813821 TGCTCATGAGGTATAAAAGTATAGGTGATTGTCGAT
261 TGCTCACGAGGTATAAAAGTATAGGTGATTGTCGAT
* *
18813857 ACTTGATCGGCTGTTTAACGTCACAGTAAAAATGTGCAAGCGTACACTATCAGTGCAAGTATAGT
1 ACTTGATCGGCTGTTTAACGTCACAGCAAAAATGTGCAAGCATACACTATCAGTGCAAGTATAGT
* ** *
18813922 AGGTAGATGTGAGTTTGTCGAATA-ATGATCCCATAAG-GATGGGTGTCTTTTGTCTTTTAATGT
66 AGGCAGATGTGAGTTTGTCGAATATA-GATCCCA-AAGAGATGGGAATCTTTTGTCTATTAATGT
* *
18813985 CGATGCAATAACTTGATAATAACGATATAAATTGTGAGGATAGTTGTTGATGCAATAACTTGAGA
129 CGATGCAATAACTTGATAATAACGATATAAATTGCGAGGATAGTTGTCGATGCAATAACTTGAGA
* * * *
18814050 AGAATAAAATAAAATATGATAATGATAAACTGGGATCCCCAACATGAATCTTCAGCAGAATACTA
194 ACAATAAAATAAAATATGACAATGAGAAACTGGAATCCCCAACATGAATCTTCAGCAGAATACTA
18814115 AGTGCTCACGAGGTATAAAAGTATAGGTGATTGTCGAT
259 AGTGCTCACGAGGTATAAAAGTATAGGTGATTGTCGAT
18814153 GCAATAAAAT
Statistics
Matches: 274, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
295 1 0.00
296 271 0.99
297 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (296 bp):
ACTTGATCGGCTGTTTAACGTCACAGCAAAAATGTGCAAGCATACACTATCAGTGCAAGTATAGT
AGGCAGATGTGAGTTTGTCGAATATAGATCCCAAAGAGATGGGAATCTTTTGTCTATTAATGTCG
ATGCAATAACTTGATAATAACGATATAAATTGCGAGGATAGTTGTCGATGCAATAACTTGAGAAC
AATAAAATAAAATATGACAATGAGAAACTGGAATCCCCAACATGAATCTTCAGCAGAATACTAAG
TGCTCACGAGGTATAAAAGTATAGGTGATTGTCGAT
Found at i:18823574 original size:26 final size:26
Alignment explanation
Indices: 18823538--18823629 Score: 78
Period size: 26 Copynumber: 3.4 Consensus size: 26
18823528 TCACCATGTA
18823538 ACATTTATATATTATCAAATTTAATG
1 ACATTTATATATTATCAAATTTAATG
** * *
18823564 ACATTTATATAAAATTC-CATTCATCATG
1 ACATTTATATATTA-TCAAATT--TAATG
* *
18823592 TAACATTGATATATTATCAAATTTAACG
1 --ACATTTATATATTATCAAATTTAATG
18823620 ACATTTATAT
1 ACATTTATAT
18823630 GCTTATAGAC
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
26 24 0.49
27 2 0.04
28 7 0.14
29 2 0.04
30 14 0.29
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.42
Consensus pattern (26 bp):
ACATTTATATATTATCAAATTTAATG
Found at i:18823598 original size:30 final size:30
Alignment explanation
Indices: 18823518--18823604 Score: 76
Period size: 26 Copynumber: 3.0 Consensus size: 30
18823508 TATATTCACA
*
18823518 AAAATTCCATTCACCATGTAACATTTATAT
1 AAAATTCCATTCATCATGTAACATTTATAT
** * *
18823548 ATTA-TCAAATT--TAATG--ACATTTATAT
1 AAAATTC-CATTCATCATGTAACATTTATAT
*
18823574 AAAATTCCATTCATCATGTAACATTGATAT
1 AAAATTCCATTCATCATGTAACATTTATAT
18823604 A
1 A
18823605 TTATCAAATT
Statistics
Matches: 41, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
26 15 0.37
27 2 0.05
28 7 0.17
29 2 0.05
30 15 0.37
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (30 bp):
AAAATTCCATTCATCATGTAACATTTATAT
Found at i:18823604 original size:56 final size:56
Alignment explanation
Indices: 18823518--18823629 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
18823508 TATATTCACA
* *
18823518 AAAATTCCATTCACCATGTAACATTTATATATTATCAAATTTAATGACATTTATAT
1 AAAATTCCATTCACCATGTAACATTGATATATTATCAAATTTAACGACATTTATAT
*
18823574 AAAATTCCATTCATCATGTAACATTGATATATTATCAAATTTAACGACATTTATAT
1 AAAATTCCATTCACCATGTAACATTGATATATTATCAAATTTAACGACATTTATAT
18823630 GCTTATAGAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.40
Consensus pattern (56 bp):
AAAATTCCATTCACCATGTAACATTGATATATTATCAAATTTAACGACATTTATAT
Found at i:18828028 original size:41 final size:40
Alignment explanation
Indices: 18827964--18828082 Score: 112
Period size: 41 Copynumber: 2.9 Consensus size: 40
18827954 TCACATATTG
* * *
18827964 ATGCCACTGTCCCAGATAGGGTCTTACACGAAACAAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAACAAAT-CA
* * * *
18828005 ATGCCAATGTCCCAAACATGGTCTTATACGTAACACAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AA-ACAAATCA
* * *
18828047 ATGCCAACGTACCAGACGTGGTCTTACACGAGAACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA-AACA
18828083 TATATTAGAA
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
41 29 0.46
42 29 0.46
43 5 0.08
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.20
Consensus pattern (40 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAACAAATCA
Found at i:18828960 original size:32 final size:32
Alignment explanation
Indices: 18828898--18829050 Score: 139
Period size: 32 Copynumber: 4.8 Consensus size: 32
18828888 TTGCCAGTAG
* * * *
18828898 TATGATCGGCACAAAACCATTAGCAGCAGTGA
1 TATGATCGGCACAAAGCCATCAGTAACAGTGA
* *
18828930 TATGATCGGCACACAGTCATCAGTAACAGTGA
1 TATGATCGGCACAAAGCCATCAGTAACAGTGA
* * * * ** * *
18828962 AATGATTGGCACACAGACATTGGTAATAGTAA
1 TATGATCGGCACAAAGCCATCAGTAACAGTGA
*
18828994 TATGATCGGCATAAAGCCATCAGTAAC-GAT-A
1 TATGATCGGCACAAAGCCATCAGTAACAG-TGA
18829025 CTATGATCGGCACAAAGCCATCAGTA
1 -TATGATCGGCACAAAGCCATCAGTA
18829051 GCATCACAGC
Statistics
Matches: 97, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
31 2 0.02
32 95 0.98
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (32 bp):
TATGATCGGCACAAAGCCATCAGTAACAGTGA
Found at i:18829126 original size:27 final size:27
Alignment explanation
Indices: 18829108--18829158 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
18829098 TAATAGTATA
18829108 TGTGGCCA-AGCCACCAGTAACAGTAAT
1 TGTGG-CAGAGCCACCAGTAACAGTAAT
18829135 TGTGGCAGAGCCACCAGT-ACAGTA
1 TGTGGCAGAGCCACCAGTAACAGTA
18829159 CTTCCTCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGTAACAGTAAT
Found at i:18829248 original size:24 final size:23
Alignment explanation
Indices: 18829221--18829303 Score: 69
Period size: 24 Copynumber: 3.5 Consensus size: 23
18829211 GCCATGCTCA
18829221 AAATCAATCATTCAAATCACAAAC
1 AAATCAATCATTCAAA-CACAAAC
* * *
18829245 AAATCAGTCATACCAAACACAGAC
1 AAATCAATCAT-TCAAACACAAAC
* * *
18829269 AAAT-AAGTCATTTAACCTCAAAC
1 AAATCAA-TCATTCAAACACAAAC
*
18829292 AAAACAATCATT
1 AAATCAATCATT
18829304 TGACCTCGAG
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
23 16 0.35
24 26 0.57
25 4 0.09
ACGTcount: A:0.52, C:0.24, G:0.04, T:0.20
Consensus pattern (23 bp):
AAATCAATCATTCAAACACAAAC
Found at i:18829369 original size:27 final size:27
Alignment explanation
Indices: 18829292--18829362 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
18829282 AACCTCAAAC
*
18829292 AAAACAATCATTTGACCTCGAGGGGCA
1 AAAATAATCATTTGACCTCGAGGGGCA
*
18829319 AAAATAATCATTTGACCTTGAGGGGCA
1 AAAATAATCATTTGACCTCGAGGGGCA
*
18829346 AAAATAGTCATTT-ACCT
1 AAAATAATCATTTGACCT
18829363 ACCAGGGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 4 0.10
27 37 0.90
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (27 bp):
AAAATAATCATTTGACCTCGAGGGGCA
Found at i:18829390 original size:27 final size:26
Alignment explanation
Indices: 18829366--18829657 Score: 230
Period size: 27 Copynumber: 10.9 Consensus size: 26
18829356 TTTACCTACC
*
18829366 AGGGCATTACGGTCATTTTACCCTAAA
1 AGGGTATTACGGTCATTTTACCCT-AA
*
18829393 AGGGTATTACAGTCATTTTACCCTTACA
1 AGGGTATTACGGTCATTTTACCC-TA-A
* *
18829421 GGGGCATTACGGTCATTTTACCCTATA
1 AGGGTATTACGGTCATTTTACCCTA-A
*
18829448 GGGGTATTACGGTCATTTTACCCTACA
1 AGGGTATTACGGTCATTTTACCCTA-A
* *
18829475 GGGGCATTACGGTCATTTTACCCTACA
1 AGGGTATTACGGTCATTTTACCCTA-A
18829502 AGGGTATTACGGTCATTTTA-CCTGACA
1 AGGGTATTACGGTCATTTTACCCT-A-A
* *
18829529 AGGGTATTACGGTTATTTTACCCTATG
1 AGGGTATTACGGTCATTTTACCCTA-A
* * ** *
18829556 AGGGTGTTTCAAT-ATTCTACCCTATA
1 AGGGTATTACGGTCATTTTACCCTA-A
*** *
18829582 AGGGTATTTTAGTCATTTTACCCTATG
1 AGGGTATTACGGTCATTTTACCCTA-A
* * * *
18829609 AGGGTATTTCAGT-ATTCTACCCTACG
1 AGGGTATTACGGTCATTTTACCCTA-A
* **
18829635 GGGGTATTTTGGTCATTTTACCC
1 AGGGTATTACGGTCATTTTACCC
18829658 ATCGAGGATA
Statistics
Matches: 227, Mismatches: 32, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
26 45 0.20
27 157 0.69
28 25 0.11
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (26 bp):
AGGGTATTACGGTCATTTTACCCTAA
Found at i:18829441 original size:81 final size:80
Alignment explanation
Indices: 18829352--18829553 Score: 271
Period size: 81 Copynumber: 2.5 Consensus size: 80
18829342 GGCAAAAATA
* * *
18829352 GTCA-TTTACCTACCAGGGCATTACGGTCATTTTACCCTAAAAGGGTATTACAGTCATTTTACCC
1 GTCATTTTACCTACAAGGGTATTACGGTCATTTTACCCTAAAAGGGCATTACAGTCATTTTACCC
*
18829416 TTACAGGGGCATTACG
66 -TACAAGGGCATTACG
* * * * *
18829432 GTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACC
1 GTCATTTTA-CCTACAAGGGTATTACGGTCATTTTACCCTAAAAGGGCATTACAGTCATTTTACC
*
18829497 CTACAAGGGTATTACG
65 CTACAAGGGCATTACG
*
18829513 GTCATTTTACCTGACAAGGGTATTACGGTTATTTTACCCTA
1 GTCATTTTACCT-ACAAGGGTATTACGGTCATTTTACCCTA
18829554 TGAGGGTGTT
Statistics
Matches: 106, Mismatches: 13, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
80 7 0.07
81 51 0.48
82 48 0.45
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (80 bp):
GTCATTTTACCTACAAGGGTATTACGGTCATTTTACCCTAAAAGGGCATTACAGTCATTTTACCC
TACAAGGGCATTACG
Found at i:18829499 original size:54 final size:53
Alignment explanation
Indices: 18829352--18829560 Score: 287
Period size: 54 Copynumber: 3.9 Consensus size: 53
18829342 GGCAAAAATA
* *
18829352 GTCA-TTTACCTACCA-GGGCATTACGGTCATTTTACCCTAAAAGGGTATTACA
1 GTCATTTTACCTA-CAGGGGCATTACGGTCATTTTACCCTATAAGGGTATTACG
*
18829404 GTCATTTTACCCTTACAGGGGCATTACGGTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTA-CC-TACAGGGGCATTACGGTCATTTTACCCTATAAGGGTATTACG
*
18829459 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTA-CCTACAGGGGCATTACGGTCATTTTACCCTATAAGGGTATTACG
* * * *
18829513 GTCATTTTACCTGACAAGGGTATTACGGTTATTTTACCCTATGAGGGT
1 GTCATTTTACCT-ACAGGGGCATTACGGTCATTTTACCCTATAAGGGT
18829561 GTTTCAATAT
Statistics
Matches: 142, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
52 4 0.03
53 7 0.05
54 83 0.58
55 48 0.34
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (53 bp):
GTCATTTTACCTACAGGGGCATTACGGTCATTTTACCCTATAAGGGTATTACG
Found at i:18829577 original size:26 final size:26
Alignment explanation
Indices: 18829542--18829643 Score: 123
Period size: 26 Copynumber: 3.9 Consensus size: 26
18829532 GTATTACGGT
* * *
18829542 TATTTTACCCTATGAGGGTGTTTCAA
1 TATTCTACCCTATGAGGGTATTTCAG
* *
18829568 TATTCTACCCTATAAGGGTATTTTAG
1 TATTCTACCCTATGAGGGTATTTCAG
*
18829594 TCATTTTACCCTATGAGGGTATTTCAG
1 T-ATTCTACCCTATGAGGGTATTTCAG
* *
18829621 TATTCTACCCTACGGGGGTATTT
1 TATTCTACCCTATGAGGGTATTT
18829644 TGGTCATTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 41 0.64
27 23 0.36
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.41
Consensus pattern (26 bp):
TATTCTACCCTATGAGGGTATTTCAG
Found at i:18829602 original size:53 final size:53
Alignment explanation
Indices: 18829529--18829708 Score: 211
Period size: 53 Copynumber: 3.4 Consensus size: 53
18829519 TTACCTGACA
** * * *
18829529 AGGGTATTACGGTTATTTTACCCTATGAGGGTGTTTCAATATTCTACCCTATA
1 AGGGTATTTTGGTCATTTTACCCTATGAGGGTATTTCAATATTCTACCCTATG
* * *
18829582 AGGGTATTTTAGTCATTTTACCCTATGAGGGTATTTCAGTATTCTACCCTACG
1 AGGGTATTTTGGTCATTTTACCCTATGAGGGTATTTCAATATTCTACCCTATG
* * * *
18829635 GGGGTATTTTGGTCATTTTACCC-ATCGAGGATATTTCGATCATTTTA-CCTATCG
1 AGGGTATTTTGGTCATTTTACCCTAT-GAGGGTATTTCAAT-ATTCTACCCTAT-G
18829689 AGGGTATTTTGGTCATTTTA
1 AGGGTATTTTGGTCATTTTA
18829709 TTCGTCGAGG
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
52 2 0.02
53 81 0.75
54 25 0.23
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (53 bp):
AGGGTATTTTGGTCATTTTACCCTATGAGGGTATTTCAATATTCTACCCTATG
Found at i:18829669 original size:27 final size:27
Alignment explanation
Indices: 18829431--18829756 Score: 161
Period size: 27 Copynumber: 12.1 Consensus size: 27
18829421 GGGGCATTAC
* **
18829431 GGTCATTTTACCCTATAG-GGGTATTAC
1 GGTCATTTTACCC-ATCGAGGGTATTTT
* **
18829458 GGTCATTTTACCC-TAC-AGGGGCATTAC
1 GGTCATTTTACCCAT-CGA-GGGTATTTT
* **
18829485 GGTCATTTTACCC-TACAAGGGTATTAC
1 GGTCATTTTACCCAT-CGAGGGTATTTT
* * **
18829512 GGTCATTTTACCTGA-CAAGGGTATTAC
1 GGTCATTTTACC-CATCGAGGGTATTTT
* * *
18829539 GGTTATTTTACCCTAT-GAGGGTGTTTC
1 GGTCATTTTACCC-ATCGAGGGTATTTT
** * *
18829566 AAT-ATTCTACCCTAT-AAGGGTATTTT
1 GGTCATTTTACCC-ATCGAGGGTATTTT
* *
18829592 AGTCATTTTACCCTAT-GAGGGTATTTC
1 GGTCATTTTACCC-ATCGAGGGTATTTT
* * *
18829619 AGT-ATTCTACCC-TACGGGGGTATTTT
1 GGTCATTTTACCCAT-CGAGGGTATTTT
* *
18829645 GGTCATTTTACCCATCGAGGATATTTC
1 GGTCATTTTACCCATCGAGGGTATTTT
* *
18829672 GATCATTTTACCTATCGAGGGTATTTT
1 GGTCATTTTACCCATCGAGGGTATTTT
** * *
18829699 GGTCATTTTATTCGTCGAGGGCATTTT
1 GGTCATTTTACCCATCGAGGGTATTTT
* * * *
18829726 GGTTATTTTACCCTTTGAGGGTATTTC
1 GGTCATTTTACCCATCGAGGGTATTTT
18829753 GGTC
1 GGTC
18829757 CATATATCGA
Statistics
Matches: 241, Mismatches: 45, Indels: 26
0.77 0.14 0.08
Matches are distributed among these distances:
24 1 0.00
25 1 0.00
26 40 0.17
27 197 0.82
28 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (27 bp):
GGTCATTTTACCCATCGAGGGTATTTT
Found at i:18836976 original size:27 final size:27
Alignment explanation
Indices: 18836938--18836990 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
18836928 GATCACCAAT
*
18836938 AGGTTTGGCGAGTTAGAGTTTGCCAGA
1 AGGTTTGGCGAGATAGAGTTTGCCAGA
*
18836965 AGGTTTGGCGAGATAGTGTTTGCCAG
1 AGGTTTGGCGAGATAGAGTTTGCCAG
18836991 CAAGTCTAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.11, G:0.38, T:0.30
Consensus pattern (27 bp):
AGGTTTGGCGAGATAGAGTTTGCCAGA
Found at i:18837002 original size:27 final size:27
Alignment explanation
Indices: 18836945--18837008 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
18836935 AATAGGTTTG
* * * *
18836945 GCGAGTTAGAGTTTGCCAGAAGGTTTG
1 GCGAGATAGTGTTTGCCAGAAGGTCTA
18836972 GCGAGATAGTGTTTGCCAGCAA-GTCTA
1 GCGAGATAGTGTTTGCCAG-AAGGTCTA
*
18836999 GCGAGCTAGT
1 GCGAGATAGT
18837009 ATTCGATACT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.27
Consensus pattern (27 bp):
GCGAGATAGTGTTTGCCAGAAGGTCTA
Found at i:18841344 original size:40 final size:40
Alignment explanation
Indices: 18841154--18841337 Score: 207
Period size: 39 Copynumber: 4.7 Consensus size: 40
18841144 TTGAATGATG
* * * *
18841154 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
18841194 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18841234 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
18841273 TCCGGGTTAAGT-CCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
18841313 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18841338 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 67 0.55
40 46 0.38
41 8 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18841355 original size:79 final size:78
Alignment explanation
Indices: 18841155--18841370 Score: 197
Period size: 79 Copynumber: 2.7 Consensus size: 78
18841145 TGAATGATGT
** * * * ** *
18841155 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGCAATT
*
18841219 GTGCGAGATACTAATT
63 GTGCGAGATACTAATA
* ** *
18841235 TCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCAATTGTG
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCCGGGTTAAGTCCGAAGGCAATTGTG
*
18841300 CGAGTTACT-ATAA
66 CGAGATACTAAT-A
* *
18841313 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTATATCCGGGTT-AAGTCCGAAGG
18841371 TACGTGATTT
Statistics
Matches: 115, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
77 2 0.02
78 37 0.32
79 60 0.52
80 16 0.14
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCCGGGTTAAGTCCGAAGGCAATTGTG
CGAGATACTAATA
Found at i:18856204 original size:27 final size:27
Alignment explanation
Indices: 18856162--18856316 Score: 152
Period size: 27 Copynumber: 5.7 Consensus size: 27
18856152 CGAAAAGTTT
* * * * *
18856162 GTAAAATTAGCAAAATACACTCGACGA
1 GTAAAATTATCGAAATACCCTCGAAGG
*
18856189 GTAAAATTATCGAAATATCCCT-AAAGG
1 GTAAAATTATCGAAATA-CCCTCGAAGG
* *
18856216 GTAAAATTATTGAAATACCCCCGAAGG
1 GTAAAATTATCGAAATACCCTCGAAGG
* * * *
18856243 GTGAAACTATCCAAATACCCCCGAAGG
1 GTAAAATTATCGAAATACCCTCGAAGG
18856270 GTAAAATTATCGAAATACCCTC-AATGG
1 GTAAAATTATCGAAATACCCTCGAA-GG
* *
18856297 GTAAAATTACCAAAATACCC
1 GTAAAATTATCGAAATACCC
18856317 CTGTAAGGTA
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
26 5 0.05
27 98 0.92
28 3 0.03
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (27 bp):
GTAAAATTATCGAAATACCCTCGAAGG
Found at i:18856837 original size:33 final size:33
Alignment explanation
Indices: 18856778--18856840 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
18856768 AGGCTGATGG
**
18856778 GGGCTAAGGCCCATTTGCTACCATTACTGTATT
1 GGGCTAAGGCCCAACTGCTACCATTACTGTATT
*
18856811 GGGCTAAGGCCCACACTG-TACTATTACTGT
1 GGGCTAAGGCCCA-ACTGCTACCATTACTGT
18856841 TAAGGGCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 24 0.92
34 2 0.08
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.30
Consensus pattern (33 bp):
GGGCTAAGGCCCAACTGCTACCATTACTGTATT
Found at i:18859475 original size:25 final size:25
Alignment explanation
Indices: 18859447--18859495 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
18859437 GTAGTGGCAA
18859447 GGTGGCGACACAGGTGTGGTAAGGT
1 GGTGGCGACACAGGTGTGGTAAGGT
* *
18859472 GGTGGCGTCATAGGTGTGGTAAGG
1 GGTGGCGACACAGGTGTGGTAAGG
18859496 AGGTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.18, C:0.10, G:0.49, T:0.22
Consensus pattern (25 bp):
GGTGGCGACACAGGTGTGGTAAGGT
Found at i:18860956 original size:27 final size:26
Alignment explanation
Indices: 18860910--18861145 Score: 181
Period size: 27 Copynumber: 8.7 Consensus size: 26
18860900 CAGAAAGGTT
* *
18860910 GTAAAATTAGCGAAATACCCTCGACGG
1 GTAAAATTA-CCAAATACCCTCGAAGG
*
18860937 GTAAAATTATCCAAACACCC-CTGAAGG
1 GTAAAATTA-CCAAATACCCTC-GAAGG
* * *
18860964 GTAAAATTACCGAAATACCCTTGATGA
1 GTAAAATTACC-AAATACCCTCGAAGG
* *
18860991 GTAAAATTACTAAAATACCCTCGATGG
1 GTAAAATTAC-CAAATACCCTCGAAGG
*
18861018 GTAAAATTACCAAAATACCC-CTGAAGT
1 GTAAAATTACC-AAATACCCTC-GAAGG
*
18861045 GTAAAATTATCGAAATAACCC-CGAAGG
1 GTAAAATTA-CCAAAT-ACCCTCGAAGG
** *
18861072 GTAAAGCTACCGAAATACCCTTGAAGG
1 GTAAAATTACC-AAATACCCTCGAAGG
* ** *
18861099 ATAAAATTATTGAAATACCCTCGATGG
1 GTAAAATTA-CCAAATACCCTCGAAGG
*
18861126 GTAAAATTATCAAAATACCC
1 GTAAAATTA-CCAAATACCC
18861146 CCATAAGGTA
Statistics
Matches: 168, Mismatches: 30, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
26 9 0.05
27 153 0.91
28 6 0.04
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (26 bp):
GTAAAATTACCAAATACCCTCGAAGG
Found at i:18861076 original size:81 final size:80
Alignment explanation
Indices: 18860922--18861147 Score: 222
Period size: 81 Copynumber: 2.8 Consensus size: 80
18860912 AAAATTAGCG
* * * *
18860922 AAATACCCTCGACGGGTAAAATTATCCAAACACCCCTGAAGGGTAAAATTACCGAAAT-ACCCTT
1 AAATACCCTCGAAGGGTAAAATTA-CCAAATACCCCTGAAGGGTAAAATTATCGAAATAACCC-C
* * *
18860986 GATGAGTAAAATTACTA
64 GAAGAGTAAAACTACCA
* *
18861003 AAATACCCTCGATGGGTAAAATTACCAAAATACCCCTGAAGTGTAAAATTATCGAAATAACCCCG
1 AAATACCCTCGAAGGGTAAAATTACC-AAATACCCCTGAAGGGTAAAATTATCGAAATAACCCCG
* * *
18861068 AAGGGTAAAGCTACCG
65 AAGAGTAAAACTACCA
* * ** * * *
18861084 AAATACCCTTGAAGGATAAAATTATTGAAATA-CCCTCGATGGGTAAAATTATCAAAATACCCCC
1 AAATACCCTCGAAGGGTAAAATTA-CCAAATACCCCT-GAAGGGTAAAATTATCGAAATAACCCC
18861148 ATAAGGTAAA
Statistics
Matches: 121, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
80 6 0.05
81 111 0.92
82 4 0.03
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (80 bp):
AAATACCCTCGAAGGGTAAAATTACCAAATACCCCTGAAGGGTAAAATTATCGAAATAACCCCGA
AGAGTAAAACTACCA
Found at i:18861158 original size:54 final size:53
Alignment explanation
Indices: 18860910--18861159 Score: 220
Period size: 54 Copynumber: 4.6 Consensus size: 53
18860900 CAGAAAGGTT
* * * ** * *
18860910 GTAAAATTAGCGAAATA-CCCTCGACGGGTAAAATTATCCAAACACCC-CTGAAGG
1 GTAAAATTACCAAAATACCCCT-GA-AGGTAAAATTATTGAAATACCCTC-GATGG
* * * * *
18860964 GTAAAATTACCGAAATACCCTTGATGAGTAAAATTACTAAAATACCCTCGATGG
1 GTAAAATTACCAAAATACCCCTGAAG-GTAAAATTATTGAAATACCCTCGATGG
* *
18861018 GTAAAATTACCAAAATACCCCTGAAGTGTAAAATTATCGAAATAACCC-CGAAGG
1 GTAAAATTACCAAAATACCCCTGAAG-GTAAAATTATTGAAAT-ACCCTCGATGG
** * *
18861072 GTAAAGCTACCGAAATACCCTTGAAGGATAAAATTATTGAAATACCCTCGATGG
1 GTAAAATTACCAAAATACCCCTGAAGG-TAAAATTATTGAAATACCCTCGATGG
*
18861126 GTAAAATTATCAAAATACCCCCAT-AAGGTAAAAT
1 GTAAAATTACCAAAATA-CCCC-TGAAGGTAAAAT
18861160 GGTTGTTATA
Statistics
Matches: 161, Mismatches: 27, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
53 6 0.04
54 139 0.86
55 15 0.09
56 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (53 bp):
GTAAAATTACCAAAATACCCCTGAAGGTAAAATTATTGAAATACCCTCGATGG
Found at i:18862547 original size:21 final size:21
Alignment explanation
Indices: 18862523--18862572 Score: 68
Period size: 19 Copynumber: 2.4 Consensus size: 21
18862513 TATTTCATTC
18862523 ATTAAAACATATCATATATAT
1 ATTAAAACATATCATATATAT
*
18862544 ATT-AAA-GTATCATATATAT
1 ATTAAAACATATCATATATAT
18862563 ATATAAAACA
1 AT-TAAAACA
18862573 ACCATCAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 14 0.58
20 4 0.17
21 6 0.25
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.36
Consensus pattern (21 bp):
ATTAAAACATATCATATATAT
Found at i:18862556 original size:19 final size:20
Alignment explanation
Indices: 18862532--18862569 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
18862522 CATTAAAACA
18862532 TATCATATATATAT-TAAAG
1 TATCATATATATATATAAAG
18862551 TATCATATATATATATAAA
1 TATCATATATATATATAAA
18862570 ACAACCATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (20 bp):
TATCATATATATATATAAAG
Found at i:18868463 original size:77 final size:77
Alignment explanation
Indices: 18868336--18868492 Score: 305
Period size: 77 Copynumber: 2.0 Consensus size: 77
18868326 TAAGGCTAAA
*
18868336 ATCATACAAGCATTCCATTTTTCATGATAATATACTTTCACTTAGATAAAATCATCATTCATACT
1 ATCATACAAGCATTCCATTCTTCATGATAATATACTTTCACTTAGATAAAATCATCATTCATACT
18868401 TGCATACAAACT
66 TGCATACAAACT
18868413 ATCATACAAGCATTCCATTCTTCATGATAATATACTTTCACTTAGATAAAATCATCATTCATACT
1 ATCATACAAGCATTCCATTCTTCATGATAATATACTTTCACTTAGATAAAATCATCATTCATACT
18868478 TGCATACAAACT
66 TGCATACAAACT
18868490 ATC
1 ATC
18868493 TTAGTAACAA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.36
Consensus pattern (77 bp):
ATCATACAAGCATTCCATTCTTCATGATAATATACTTTCACTTAGATAAAATCATCATTCATACT
TGCATACAAACT
Found at i:18868472 original size:40 final size:40
Alignment explanation
Indices: 18868351--18868472 Score: 96
Period size: 36 Copynumber: 3.1 Consensus size: 40
18868341 ACAAGCATTC
*
18868351 CATTTTTCATGATAATATACTTTCACTTAGATAAAATCAT
1 CATTCTTCATGATAATATACTTTCACTTAGATAAAATCAT
* * * * **
18868391 CATTCATACTTGCATACA-A-ACTATCA--TACA-AGCAT--T
1 CATTC-TTCATG-ATA-ATATACTTTCACTTAGATAAAATCAT
18868427 CCATTCTTCATGATAATATACTTTCACTTAGATAAAATCAT
1 -CATTCTTCATGATAATATACTTTCACTTAGATAAAATCAT
18868468 CATTC
1 CATTC
18868473 ATACTTGCAT
Statistics
Matches: 58, Mismatches: 13, Indels: 22
0.62 0.14 0.24
Matches are distributed among these distances:
34 1 0.02
35 4 0.07
36 11 0.19
37 5 0.09
38 6 0.10
39 6 0.10
40 9 0.16
41 11 0.19
42 4 0.07
43 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (40 bp):
CATTCTTCATGATAATATACTTTCACTTAGATAAAATCAT
Found at i:18883768 original size:27 final size:28
Alignment explanation
Indices: 18883713--18883769 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
18883703 TAAGTGGTTC
* *
18883713 AACGAGCATGAAAAAGGGAAGGAATGGT
1 AACGAGCATGAAAAAGGGAAAGAACGGT
18883741 AACGAGCATG-AAAAGGGAAAGAACGGT
1 AACGAGCATGAAAAAGGGAAAGAACGGT
18883768 AA
1 AA
18883770 GTATTCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.49, C:0.09, G:0.33, T:0.09
Consensus pattern (28 bp):
AACGAGCATGAAAAAGGGAAAGAACGGT
Found at i:18889264 original size:20 final size:22
Alignment explanation
Indices: 18889214--18889264 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
18889204 TACGTAGTGT
18889214 TTTCTTTTGCCTAATTTGATTTA
1 TTTCTTTTGCCT-ATTTGATTTA
* *
18889237 ATTATTTTG-CT-TTTGATTTA
1 TTTCTTTTGCCTATTTGATTTA
18889257 TTTCTTTT
1 TTTCTTTT
18889265 ATTAATTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 15 0.62
22 2 0.08
23 7 0.29
ACGTcount: A:0.16, C:0.10, G:0.08, T:0.67
Consensus pattern (22 bp):
TTTCTTTTGCCTATTTGATTTA
Found at i:18908481 original size:20 final size:20
Alignment explanation
Indices: 18908456--18908517 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
18908446 TTGTACGGGA
18908456 TTTTCACTTTGGTGCCCCTG
1 TTTTCACTTTGGTGCCCCTG
**
18908476 TTTTCACTTCAGTGCCCCTG
1 TTTTCACTTTGGTGCCCCTG
* * *
18908496 TATACACTTTGGTGTCCCTG
1 TTTTCACTTTGGTGCCCCTG
18908516 TT
1 TT
18908518 CGCACTACGG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.10, C:0.29, G:0.18, T:0.44
Consensus pattern (20 bp):
TTTTCACTTTGGTGCCCCTG
Found at i:18909490 original size:21 final size:22
Alignment explanation
Indices: 18909464--18909504 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
18909454 GAAAGAGATA
18909464 GAAGCTTGAACTTT-AGCCATT
1 GAAGCTTGAACTTTCAGCCATT
18909485 GAAGCTTGAACTTTCAGCCA
1 GAAGCTTGAACTTTCAGCCA
18909505 ACCCTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (22 bp):
GAAGCTTGAACTTTCAGCCATT
Found at i:18910210 original size:32 final size:33
Alignment explanation
Indices: 18910132--18910217 Score: 115
Period size: 32 Copynumber: 2.7 Consensus size: 33
18910122 GTATATTTTT
18910132 TATATATTGCCGAATTGA-TT-TATATGTAGATA
1 TATATATTGCCGAATTGATTTGTATATGTA-ATA
* **
18910164 TATACATTTTCGAATTGATTTGTATATGT-ATA
1 TATATATTGCCGAATTGATTTGTATATGTAATA
18910196 TATATATTGCCGAATTGATTTG
1 TATATATTGCCGAATTGATTTG
18910218 AGATTCCGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
32 37 0.80
33 2 0.04
34 7 0.15
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (33 bp):
TATATATTGCCGAATTGATTTGTATATGTAATA
Found at i:18910280 original size:48 final size:48
Alignment explanation
Indices: 18910212--18910394 Score: 223
Period size: 48 Copynumber: 3.9 Consensus size: 48
18910202 TTGCCGAATT
* *
18910212 GATTTGAGATTCCGTATAAGACCATACCT-GAGATATGGCATCGGCATT
1 GATTTGAGATCCCGTATAAGACCATACCTAG-GATATGGCATCGGCATC
* * *
18910260 GATTTGAGATCCCGTATAAGATCATATCTTGGATATGGCAT---CA-C
1 GATTTGAGATCCCGTATAAGACCATACCTAGGATATGGCATCGGCATC
* * * * *
18910304 GATTTGAGATCTCGTATAAGACTATATCTAGGATATGACATCAGCATC
1 GATTTGAGATCCCGTATAAGACCATACCTAGGATATGGCATCGGCATC
*
18910352 GATTTGAGATCCCGTATAAGACCATATCTAGGATATGGCATCG
1 GATTTGAGATCCCGTATAAGACCATACCTAGGATATGGCATCG
18910395 ATATGAGACT
Statistics
Matches: 117, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
44 36 0.31
45 2 0.02
47 2 0.02
48 76 0.65
49 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (48 bp):
GATTTGAGATCCCGTATAAGACCATACCTAGGATATGGCATCGGCATC
Found at i:18910369 original size:92 final size:90
Alignment explanation
Indices: 18910212--18910419 Score: 269
Period size: 92 Copynumber: 2.3 Consensus size: 90
18910202 TTGCCGAATT
* * * *
18910212 GATTTGAGAT-TCCGTATAAGACCATACCTGAGATATGGCATCGGCATTGATTTGAGATCCCGTA
1 GATTTGAGATCT-CGTATAAGACTATACCTGAGATATGACATCAGCATCGATTTGAGATCCCGTA
* *
18910276 TAAGATCATATCTTGGATATGGCATCAC
65 TAAGACCATATCTAGGATATGGCAT--C
*
18910304 GATTTGAGATCTCGTATAAGACTATATCT-AGGATATGACATCAGCATCGATTTGAGATCCCGTA
1 GATTTGAGATCTCGTATAAGACTATACCTGA-GATATGACATCAGCATCGATTTGAGATCCCGTA
18910368 TAAGACCATATCTAGGATATGGCATC
65 TAAGACCATATCTAGGATATGGCATC
* *
18910394 GATATGAGA-CTTCGTGTAAGACTATA
1 GATTTGAGATC-TCGTATAAGACTATA
18910420 GCTGGGCTAT
Statistics
Matches: 104, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
89 1 0.01
90 23 0.22
91 1 0.01
92 78 0.75
93 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (90 bp):
GATTTGAGATCTCGTATAAGACTATACCTGAGATATGACATCAGCATCGATTTGAGATCCCGTAT
AAGACCATATCTAGGATATGGCATC
Found at i:18915786 original size:28 final size:28
Alignment explanation
Indices: 18915723--18915900 Score: 243
Period size: 28 Copynumber: 6.4 Consensus size: 28
18915713 ATATTAAGTC
* *
18915723 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
18915750 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
18915778 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
18915806 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
18915834 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
18915861 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
18915890 CGCACACTTAG
1 CGCACACTTAG
18915901 CGCCAATCTC
Statistics
Matches: 138, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
27 42 0.30
28 83 0.60
29 13 0.09
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:18920675 original size:7 final size:7
Alignment explanation
Indices: 18920663--18920692 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
18920653 TAGTCTTTTT
18920663 TTATTTA
1 TTATTTA
18920670 TTATTTA
1 TTATTTA
18920677 TTATTTA
1 TTATTTA
18920684 TT-TTTA
1 TTATTTA
18920690 TTA
1 TTA
18920693 AATTTGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:18923013 original size:9 final size:9
Alignment explanation
Indices: 18922986--18923023 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
18922976 TTAAATCATA
*
18922986 ATATTTTAT
1 ATATTTAAT
*
18922995 -TATTTTAT
1 ATATTTAAT
18923003 ATATTTAAT
1 ATATTTAAT
18923012 ATATTTAAT
1 ATATTTAAT
18923021 ATA
1 ATA
18923024 AAATTATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
ATATTTAAT
Found at i:18923667 original size:25 final size:25
Alignment explanation
Indices: 18923633--18923682 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
18923623 AGTGCTCACC
18923633 CTTAGTTTTTTTTATTCCTTATAAG
1 CTTAGTTTTTTTTATTCCTTATAAG
18923658 CTTAGTTTTTTTTATTCCTTATAAG
1 CTTAGTTTTTTTTATTCCTTATAAG
18923683 ACATTACTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (25 bp):
CTTAGTTTTTTTTATTCCTTATAAG
Found at i:18929347 original size:6 final size:6
Alignment explanation
Indices: 18929336--18929386 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
18929326 GGGTTTGGTA
18929336 GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG
1 GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG
18929384 GTG
1 GTG
18929387 AAAATTAGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.16, C:0.00, G:0.67, T:0.18
Consensus pattern (6 bp):
GTGGAG
Found at i:18931163 original size:3 final size:3
Alignment explanation
Indices: 18931157--18931185 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18931147 TTACAATACC
18931157 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18931186 GGAGAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18931821 original size:16 final size:17
Alignment explanation
Indices: 18931782--18931825 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
18931772 ATTTTCTTAT
*
18931782 AAAATAAAAAAAATCAA
1 AAAATAGAAAAAATCAA
*
18931799 AAGAATAGAAAATAT-AA
1 AA-AATAGAAAAAATCAA
18931816 AAAATAGAAA
1 AAAATAGAAA
18931826 CTCGATTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.33
17 6 0.25
18 10 0.42
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (17 bp):
AAAATAGAAAAAATCAA
Found at i:18932514 original size:15 final size:15
Alignment explanation
Indices: 18932494--18932538 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
18932484 CCCACCCTTA
18932494 ATTATTTTAATTTAT
1 ATTATTTTAATTTAT
18932509 ATTATTTTTAATTTAAT
1 ATTA-TTTTAATTT-AT
18932526 ATT-TTTT-ATTTAT
1 ATTATTTTAATTTAT
18932539 TAAAATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 2 0.07
14 4 0.14
15 8 0.29
16 9 0.32
17 5 0.18
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTATTTTAATTTAT
Found at i:18932530 original size:14 final size:16
Alignment explanation
Indices: 18932494--18932538 Score: 60
Period size: 14 Copynumber: 3.0 Consensus size: 16
18932484 CCCACCCTTA
18932494 ATTA-TTTTAATTTAT
1 ATTATTTTTAATTTAT
18932509 ATTATTTTTAATTTA-
1 ATTATTTTTAATTTAT
*
18932524 A-TATTTTTTATTTAT
1 ATTATTTTTAATTTAT
18932539 TAAAATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 12 0.44
15 5 0.19
16 10 0.37
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTATTTTTAATTTAT
Found at i:18932887 original size:3 final size:3
Alignment explanation
Indices: 18932879--18932908 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
18932869 ATTATCCTTT
*
18932879 TAA TAA TAA TAA TAA TAA GAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18932909 AAAACAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:18933767 original size:8 final size:8
Alignment explanation
Indices: 18933754--18933781 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
18933744 TATCATACTT
18933754 TTATAAAA
1 TTATAAAA
18933762 TTATAAAA
1 TTATAAAA
18933770 TTATAAAA
1 TTATAAAA
18933778 TTAT
1 TTAT
18933782 TTTAATCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
TTATAAAA
Found at i:18949156 original size:41 final size:40
Alignment explanation
Indices: 18949058--18949243 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
18949048 TTGAATGATG
* * * * *
18949058 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
18949098 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
18949138 TCCAGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCC-GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18949179 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
18949219 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
18949244 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
39 35 0.27
40 54 0.41
41 42 0.32
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18949196 original size:39 final size:39
Alignment explanation
Indices: 18949111--18949243 Score: 212
Period size: 39 Copynumber: 3.3 Consensus size: 39
18949101 GGACTAAGAT
18949111 CCGAAGGCATTTGTGCGAGTTACTAAATCCAGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAAT-C-GGGTTAAGTC
18949152 CCGAAGGCATTTGTGCGAGTTACTAAATCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCGGGTTAAGTC
* * *
18949191 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCGGGTTAAGTC
18949231 CCGAAGGCATTTG
1 CCGAAGGCATTTG
18949244 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
39 35 0.40
40 25 0.28
41 28 0.32
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCGGGTTAAGTC
Found at i:18949265 original size:79 final size:80
Alignment explanation
Indices: 18949111--18949276 Score: 221
Period size: 79 Copynumber: 2.1 Consensus size: 80
18949101 GGACTAAGAT
* **
18949111 CCGAAGGCATTTGTGCGAGTTACTAAATCCAGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCAGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACT
* *
18949176 AAATCGGGTTAAGTC
66 AAATCCGGTTAAATC
*
18949191 CCGAAGGCATTTGTGCGAGTTACTATAA-CC-GGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCAGGGCTAAGTCCCGAAGGCATTTGAACGAGTTA-
* *
18949253 CTATATCCGGTTAAATT
64 CTAAATCCGGTTAAATC
18949270 CCGAAGG
1 CCGAAGG
18949277 TACGTGATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
78 2 0.03
79 45 0.59
80 27 0.36
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCAGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACT
AAATCCGGTTAAATC
Found at i:18956409 original size:40 final size:40
Alignment explanation
Indices: 18956326--18956511 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
18956316 TTGAATGATG
* * * *
18956326 TCCGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
18956366 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18956406 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18956446 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
18956487 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18956512 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.91
41 11 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18956518 original size:80 final size:79
Alignment explanation
Indices: 18956379--18956544 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
18956369 GGACTAAGAT
* **
18956379 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
18956443 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
18956459 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
18956523 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
18956538 CCGAAGG
1 CCGAAGG
18956545 TACGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:18961108 original size:20 final size:20
Alignment explanation
Indices: 18961085--18961154 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
18961075 TGAACCACTC
*
18961085 CATTTACTTACTTACCATTT
1 CATTTACTTACTTTCCATTT
* *
18961105 CATTTAGTTACTTTCGATTT
1 CATTTACTTACTTTCCATTT
* *
18961125 CGTTTACTTACTTTCCATTC
1 CATTTACTTACTTTCCATTT
18961145 CATTTACTTA
1 CATTTACTTA
18961155 TCATAAGCTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.21, C:0.23, G:0.04, T:0.51
Consensus pattern (20 bp):
CATTTACTTACTTTCCATTT
Found at i:18962618 original size:18 final size:18
Alignment explanation
Indices: 18962595--18962634 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
18962585 CATCATGCTA
*
18962595 CATTCATTTTATACCA-AC
1 CATTCATTGT-TACCATAC
18962613 CATTCATTGTTACCATAC
1 CATTCATTGTTACCATAC
18962631 CATT
1 CATT
18962635 TCCATCAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.30, C:0.28, G:0.03, T:0.40
Consensus pattern (18 bp):
CATTCATTGTTACCATAC
Found at i:18974492 original size:5 final size:5
Alignment explanation
Indices: 18974484--18974555 Score: 144
Period size: 5 Copynumber: 14.4 Consensus size: 5
18974474 ATTTATGTAT
18974484 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
18974534 TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TA
18974556 ATGAACGAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 67 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:18977457 original size:51 final size:50
Alignment explanation
Indices: 18977390--18977583 Score: 196
Period size: 51 Copynumber: 3.8 Consensus size: 50
18977380 AAATGATACT
* * *
18977390 CGATTCACATAGTAGCCTACACATAGTACTACACATGTGACCATTTTCATC
1 CGATACACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TATCATC
* * * *
18977441 CGATACACGTAGTAGCCTGCACATAGTACTACAC-TCGTGATCGA-AGCTATT
1 CGATACACATAGTAGCCTGCACATAGTACTACACAT-GTGA-CCATATC-ATC
* * *
18977492 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGATACACATAGTAGCCTGCACATAGTACTACACATGTGACCATATCA-TC
* ** *
18977542 CGGTACATGTAGTAGCCCGCACATAGTACTACACATGTGACC
1 CGATACACATAGTAGCCTGCACATAGTACTACACATGTGACC
18977584 TAGCAACTTC
Statistics
Matches: 118, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
49 1 0.01
50 43 0.36
51 71 0.60
52 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (50 bp):
CGATACACATAGTAGCCTGCACATAGTACTACACATGTGACCATATCATC
Found at i:18983106 original size:50 final size:52
Alignment explanation
Indices: 18982980--18983110 Score: 162
Period size: 50 Copynumber: 2.6 Consensus size: 52
18982970 ATACTCGGTT
* * *
18982980 CACATAGTAGCCTGCACATAGTACTACAC-TCGTGATCGAAGCTATTCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATCGCGATCCAAGCTATTCGATA
* * * *
18983031 CGCATAGTAGCCTGCACATAATACTACACAT-GCGA-CCTA-TTATTCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATCGCGATCCAAGCTATT-CGATA
18983081 CACATAGTAGCCTGCACATAGTACTACACA
1 CACATAGTAGCCTGCACATAGTACTACACA
18983111 CGTGTCCTAG
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
49 4 0.06
50 34 0.49
51 30 0.43
52 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (52 bp):
CACATAGTAGCCTGCACATAGTACTACACATCGCGATCCAAGCTATTCGATA
Found at i:18984896 original size:11 final size:12
Alignment explanation
Indices: 18984870--18984903 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
18984860 CAGGTTCCCA
18984870 AAAATGGAAATG
1 AAAATGGAAATG
* *
18984882 GAAATGAAAATG
1 AAAATGGAAATG
18984894 AAAATGGAAA
1 AAAATGGAAA
18984904 CTTGCAATCC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.15
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:18986499 original size:27 final size:27
Alignment explanation
Indices: 18986444--18986551 Score: 101
Period size: 27 Copynumber: 4.0 Consensus size: 27
18986434 AGGCGTTCCA
* **
18986444 TTCAGAATTTGCCACAAAGGCAT-CCCT
1 TTCAGAGTTTGCCACAAAGG-ATATTCT
18986471 TTCAGAGTTTGCCACAAAGGATATTCT
1 TTCAGAGTTTGCCACAAAGGATATTCT
* ** *
18986498 TTCAAAGTTCACCACAAAGGTTATTCT
1 TTCAGAGTTTGCCACAAAGGATATTCT
* * * *
18986525 TTTAGAGTTTTCCATAAAGGCTATTCT
1 TTCAGAGTTTGCCACAAAGGATATTCT
18986552 CACTTGTTGT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 2 0.03
27 65 0.97
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (27 bp):
TTCAGAGTTTGCCACAAAGGATATTCT
Found at i:18988888 original size:247 final size:247
Alignment explanation
Indices: 18988450--18988934 Score: 709
Period size: 247 Copynumber: 2.0 Consensus size: 247
18988440 TATTTGAAAG
* * * * *
18988450 GATTGAGTATATATTGTTGGATGCTTAAATTTATTTGAAATTAGATGTTTGAACTTGATTAAACA
1 GATTGAGTATATATTGTTGGATGCTTAAATTGATTTGAAATCAAATGTGTGAAATTGATTAAACA
*
18988515 TACTTGAAATTAATTAATTACGCGAGTAAAAACTTATGGTTTGATTGATGATTTGAATGTGAATT
66 TACTTGAAATTAATTAATTACGCGAGTAAAAACTTATGGTTTGATTGATGATTTGAATGTGAACT
* * * * *
18988580 AGTAGATCTTTTGTTTAAAGTAGAAATGTTATGTTTTGTGCCTATATTTGTTAGCTAAATGGCAT
131 AGTAGATCTTTTGTTCAAAGTAGAAATGGTATGTTTTGTACCTATATTTGTGAGCTAAATGGCAG
* *
18988645 GTTTTAGAGGTGTCTAACGTAACTATTTGAAGGATATTAAGTTAAATGGTAA
196 GTTTTAGAGGTGTCTAAAGTAACCATTTGAAGGATATTAAGTTAAATGGTAA
* * * *
18988697 GATTGAGTATATATTGTTGGATGGTTAAGTTGGTTTGAAATCAAATGTGTGAAATTGATTTAACA
1 GATTGAGTATATATTGTTGGATGCTTAAATTGATTTGAAATCAAATGTGTGAAATTGATTAAACA
* * * * ** * *
18988762 TGCTTGAAGTTGATTAATTAGGTTAGTAAACACTTATGGTTTGATTGATGATTTGGATGTGAACT
66 TACTTGAAATTAATTAATTACGCGAGTAAAAACTTATGGTTTGATTGATGATTTGAATGTGAACT
* * *
18988827 AGTAGATCTTTTGTTCGAAGTAGAAATGGTATGTTTTGTACTTATATTTGTGAGTTAAATGGCAG
131 AGTAGATCTTTTGTTCAAAGTAGAAATGGTATGTTTTGTACCTATATTTGTGAGCTAAATGGCAG
*
18988892 GTTTTAGAGGTGTCTAAAGTAACCGTTTGAAGGATATTAAGTT
196 GTTTTAGAGGTGTCTAAAGTAACCATTTGAAGGATATTAAGTT
18988935 TGGGCATGAA
Statistics
Matches: 209, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
247 209 1.00
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (247 bp):
GATTGAGTATATATTGTTGGATGCTTAAATTGATTTGAAATCAAATGTGTGAAATTGATTAAACA
TACTTGAAATTAATTAATTACGCGAGTAAAAACTTATGGTTTGATTGATGATTTGAATGTGAACT
AGTAGATCTTTTGTTCAAAGTAGAAATGGTATGTTTTGTACCTATATTTGTGAGCTAAATGGCAG
GTTTTAGAGGTGTCTAAAGTAACCATTTGAAGGATATTAAGTTAAATGGTAA
Found at i:18993848 original size:15 final size:15
Alignment explanation
Indices: 18993815--18993849 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18993805 TTAAGTCATT
*
18993815 ACAATTTTTGAAACT
1 ACAATTTTTGAAACC
*
18993830 ACAATTTTTGACACC
1 ACAATTTTTGAAACC
18993845 ACAAT
1 ACAAT
18993850 AGGGTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (15 bp):
ACAATTTTTGAAACC
Found at i:18997697 original size:27 final size:27
Alignment explanation
Indices: 18997667--18997844 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18997657 ATATTGAGTC
* * * *
18997667 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
18997694 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18997721 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
18997749 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
18997776 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
18997803 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18997830 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18997845 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:18997806 original size:82 final size:81
Alignment explanation
Indices: 18997688--18997843 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18997678 TGCTATATAA
* *
18997688 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
18997753 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
18997770 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
18997834 CACTTAGTGC
65 CACTTAGTGC
18997844 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19004913 original size:27 final size:27
Alignment explanation
Indices: 19004883--19005060 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19004873 ATATTGAGTC
* * * *
19004883 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
19004910 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19004937 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
19004965 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
19004992 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
19005019 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19005046 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19005061 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:19005022 original size:82 final size:81
Alignment explanation
Indices: 19004904--19005059 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19004894 TGCTATATAA
* *
19004904 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
19004969 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19004986 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
19005050 CACTTAGTGC
65 CACTTAGTGC
19005060 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19009904 original size:39 final size:40
Alignment explanation
Indices: 19009783--19010005 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
19009773 GCTCCTCGTT
* *
19009783 CAAATGCCTTCGGGACCTAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
19009823 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
19009863 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
19009902 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
19009941 CAAATGCCTTC-GGATCTTAGTCCAGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
19009982 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19010006 CATCATTGAA
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.01
39 86 0.53
40 63 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:19009999 original size:118 final size:119
Alignment explanation
Indices: 19009783--19010005 Score: 280
Period size: 118 Copynumber: 1.9 Consensus size: 119
19009773 GCTCCTCGTT
* *
19009783 CAAATGCCTTCGGGACCTAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACCTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCAG
*
19009848 ATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCACA
66 ATTTAGTAACTAGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCACA
* **
19009902 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACCTAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
*
19009963 CAGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCGGA
63 CAGAT-TTAGTAAC-TAGCACAAATGCCTTCGGG-CTTAGCCCGGA
19010006 CATCATTGAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
117 15 0.16
118 55 0.60
119 21 0.23
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGGACCTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCAG
ATTTAGTAACTAGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCACA
Found at i:19018472 original size:79 final size:79
Alignment explanation
Indices: 19018328--19018545 Score: 239
Period size: 79 Copynumber: 2.7 Consensus size: 79
19018318 AAATCACGTA
* * * * *
19018328 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGGGACTTAACCGGATATAG-TACTCGTACAAATGCCTTCGGGACTTAGCCCGGAATATAG
19018392 TAACTCGCACAAATG
65 TAACTCGCACAAATG
*
19018407 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGG-CTTAGCCCGGAAT-TA
1 CCTTCGGGACTTAA-CCGGATATAGT-ACTCGTACAAATGCCTTCGGGACTTAGCCCGGAATATA
*
19018470 GTATCTCGCACAAATG
64 GTAACTCGCACAAATG
* * * *
19018486 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTA-ACCGGATATAGT-AC-TCGTACAAATGCCTTCGGGACTTAGCCCGGA
19018546 CATCATTCAA
Statistics
Matches: 119, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.03
79 68 0.57
80 48 0.40
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAACCGGATATAGTACTCGTACAAATGCCTTCGGGACTTAGCCCGGAATATAGT
AACTCGCACAAATG
Found at i:19018545 original size:40 final size:40
Alignment explanation
Indices: 19018342--19018545 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
19018332 CGGAATTTAA
** *
19018342 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19018382 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19018422 CCGGATTTAGTAACTCGTACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19018461 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
19018501 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
19018541 CCGGA
1 CCGGA
19018546 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:19026431 original size:79 final size:79
Alignment explanation
Indices: 19026287--19026504 Score: 239
Period size: 79 Copynumber: 2.7 Consensus size: 79
19026277 AAATCACGTA
* * * * *
19026287 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGGGACTTAACCGGATATAG-TACTCGTACAAATGCCTTCGGGACTTAGCCCGGAATATAG
19026351 TAACTCGCACAAATG
65 TAACTCGCACAAATG
*
19026366 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGG-CTTAGCCCGGAAT-TA
1 CCTTCGGGACTTAA-CCGGATATAGT-ACTCGTACAAATGCCTTCGGGACTTAGCCCGGAATATA
*
19026429 GTATCTCGCACAAATG
64 GTAACTCGCACAAATG
* * * *
19026445 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTA-ACCGGATATAGT-AC-TCGTACAAATGCCTTCGGGACTTAGCCCGGA
19026505 CATCATTCAA
Statistics
Matches: 119, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.03
79 68 0.57
80 48 0.40
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAACCGGATATAGTACTCGTACAAATGCCTTCGGGACTTAGCCCGGAATATAGT
AACTCGCACAAATG
Found at i:19026504 original size:40 final size:40
Alignment explanation
Indices: 19026301--19026504 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
19026291 CGGAATTTAA
** *
19026301 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19026341 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19026381 CCGGATTTAGTAACTCGTACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19026420 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
19026460 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
19026500 CCGGA
1 CCGGA
19026505 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:19039588 original size:20 final size:20
Alignment explanation
Indices: 19039550--19039588 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19039540 GCATCCCTCA
* *
19039550 ATCATTCCTCATTCACTCTC
1 ATCATTCATCAATCACTCTC
*
19039570 ATCATTCATCAATCTCTCT
1 ATCATTCATCAATCACTCT
19039589 TTTATCTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.36, G:0.00, T:0.41
Consensus pattern (20 bp):
ATCATTCATCAATCACTCTC
Found at i:19042607 original size:12 final size:12
Alignment explanation
Indices: 19042590--19042614 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19042580 GGGGAAAACT
19042590 AAATGCATGCTA
1 AAATGCATGCTA
19042602 AAATGCATGCTA
1 AAATGCATGCTA
19042614 A
1 A
19042615 GGATAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (12 bp):
AAATGCATGCTA
Found at i:19043492 original size:17 final size:17
Alignment explanation
Indices: 19043470--19043503 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19043460 CACTAACATG
*
19043470 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
19043487 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
19043504 TATACCTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:19051016 original size:17 final size:17
Alignment explanation
Indices: 19050994--19051026 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
19050984 CACTAACATT
19050994 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
19051011 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
19051027 GTGCACTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:19071565 original size:26 final size:26
Alignment explanation
Indices: 19071528--19071591 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
19071518 TCCGACCCAT
* * *
19071528 AGCTCGTATGAGTAGGCCCATTTCAC
1 AGCTCGTGTGAGAAGACCCATTTCAC
* * *
19071554 AGCTTGTGTGAGAATACTCATTTCAC
1 AGCTCGTGTGAGAAGACCCATTTCAC
19071580 AGCTCGTGTGAG
1 AGCTCGTGTGAG
19071592 CAACAATGTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (26 bp):
AGCTCGTGTGAGAAGACCCATTTCAC
Found at i:19074246 original size:27 final size:28
Alignment explanation
Indices: 19074214--19074266 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
19074204 CCACTGAATC
*
19074214 GGGGAATCAGCACTTAGCAAC-CCCTCG
1 GGGGAATCAGCACATAGCAACTCCCTCG
19074241 GGGGAATCAGCACATAGCAACTCCCT
1 GGGGAATCAGCACATAGCAACTCCCT
19074267 TTTCATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.28, C:0.32, G:0.25, T:0.15
Consensus pattern (28 bp):
GGGGAATCAGCACATAGCAACTCCCTCG
Found at i:19074458 original size:27 final size:27
Alignment explanation
Indices: 19074421--19074472 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
19074411 CAATGAAATC
*
19074421 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
19074448 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
19074473 TTCACATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:19074488 original size:104 final size:102
Alignment explanation
Indices: 19074180--19074547 Score: 569
Period size: 103 Copynumber: 3.6 Consensus size: 102
19074170 TAACTGCTAT
** *
19074180 CGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
19074245 AATCAGCACATAGCAACTCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAAC-CCCTTTTCATTTCAAAGATA
* * * *
19074283 CGGTGGATATCGCACTTAGCATCACCAATGAATTGGGGAATCGGCATTTAGCAACCCCTCGGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
19074348 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAA-CCCCTTTTCATTTCAAAGATA
19074386 CGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
19074451 GAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCTTT-TCATTTCAAAGATA
* * **
19074490 TGGTGGATCA-CGCACATAGCACCACCAATGAAT-GGGGAATCAGCACACAGCAACCCCT
1 CGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
19074548 TTTATATACA
Statistics
Matches: 245, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
102 23 0.09
103 133 0.54
104 88 0.36
105 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (102 bp):
CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCTTTTCATTTCAAAGATA
Found at i:19081370 original size:27 final size:28
Alignment explanation
Indices: 19081338--19081390 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
19081328 CCACTGAATC
*
19081338 GGGGAATCAGCACTTAGCAAC-CCCTCG
1 GGGGAATCAGCACATAGCAACTCCCTCG
19081365 GGGGAATCAGCACATAGCAACTCCCT
1 GGGGAATCAGCACATAGCAACTCCCT
19081391 TTTCATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.28, C:0.32, G:0.25, T:0.15
Consensus pattern (28 bp):
GGGGAATCAGCACATAGCAACTCCCTCG
Found at i:19081591 original size:104 final size:103
Alignment explanation
Indices: 19081304--19081672 Score: 553
Period size: 103 Copynumber: 3.6 Consensus size: 103
19081294 TAACCGTTAT
** *
19081304 CGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
19081369 AATCAGCACATAGCAACTCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
* * * * *
19081407 CGGTGGATATCGCACTTAGTATCACCAATGAATCGGAGAATCAGCATTTAGCAACCCCTCAGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
19081472 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
*
19081510 CGGTGGATATCGCACTTAGCACCACCAATAAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 CGGTGGATATCGCACTTAGCACCACCAAT-GAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
* *
19081575 GAATCAGCACATAGCAACCGCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * **
19081615 TGGTGGATCA-CGCACATAGCACCACCAATGAAT-GGGGAATCAGCACACAGCAACCCCT
1 CGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
19081673 TTTATATACA
Statistics
Matches: 241, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
103 144 0.60
104 58 0.24
105 38 0.16
106 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (103 bp):
CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:19083969 original size:50 final size:50
Alignment explanation
Indices: 19083894--19084131 Score: 289
Period size: 50 Copynumber: 4.6 Consensus size: 50
19083884 GATCATAACA
* * * *
19083894 TGCCAAAGCCATGTACCAGACATGGTTTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
19083944 TGCCAATGTCATATCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
19083994 TGCCAATGCCATGTCCCAAACATGGTCTTAC-GTGGGACCTCTCGTCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAG-GGGACCTCTCATCTCGG
* *
19084044 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATCTC--GG
19084099 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACA
19084132 TAAGATCTCT
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
50 125 0.78
53 3 0.02
55 2 0.01
56 31 0.19
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:19084067 original size:100 final size:103
Alignment explanation
Indices: 19083893--19084130 Score: 322
Period size: 100 Copynumber: 2.3 Consensus size: 103
19083883 TGATCATAAC
* * * * * *
19083893 ATGCCAAAGCCATGTACCAGACATGGTTTTATAGGGGACCTCTCATCTCGGTGCCAATGTCATAT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTA-CGGGGACCTCTCATCTCGGTGCCAACGCCATAT
19083958 CCCAGACATGGTCTTACATGGGACCTCTC-G-TCTC-GG
65 CCCAGACATGGTCTTACATGGGACCTCTCAGATCTCAGG
* * * *
19083994 -TGCCAATGCCATGTCCCAAACATGGTCTTACGTGGGACCTCTCGTCTTGGTGCCAACGCCATGT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACG-GGGACCTCTCATCTCGGTGCCAACGCCATAT
19084058 CCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
65 CCCAGACATGGTCTTACATGGGACCTCTCA-GATCTC-AGG
19084099 ATGCCAATGCCATGTCCCAGACATGGTCTTAC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTAC
19084131 ATAAGATCTC
Statistics
Matches: 119, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
99 1 0.01
100 81 0.68
102 1 0.01
103 4 0.03
105 2 0.02
106 30 0.25
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (103 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACGGGGACCTCTCATCTCGGTGCCAACGCCATATC
CCAGACATGGTCTTACATGGGACCTCTCAGATCTCAGG
Found at i:19091543 original size:25 final size:25
Alignment explanation
Indices: 19091515--19091606 Score: 85
Period size: 25 Copynumber: 3.7 Consensus size: 25
19091505 TCCGACCAAC
*
19091515 AGCTCGTGTGAGCTTACCGATTTAT
1 AGCTCGTGTGAGCATACCGATTTAT
* * * *
19091540 AGCTCGTGAGAGCATACTGGTCTAT
1 AGCTCGTGTGAGCATACCGATTTAT
* * * *
19091565 AGCTTGAGTGAGCATACCGATTCAC
1 AGCTCGTGTGAGCATACCGATTTAT
* *
19091590 AACTCGTATGAGCATAC
1 AGCTCGTGTGAGCATAC
19091607 ATATACATGA
Statistics
Matches: 50, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (25 bp):
AGCTCGTGTGAGCATACCGATTTAT
Found at i:19112065 original size:22 final size:22
Alignment explanation
Indices: 19112025--19112066 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
19112015 ATTGCATTCG
* *
19112025 ATGTCATGACATGCTCCCTGCT
1 ATGTCATGACATACCCCCTGCT
*
19112047 ATGTCGTGACATACCCCCTG
1 ATGTCATGACATACCCCCTG
19112067 TGTTGCAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.29
Consensus pattern (22 bp):
ATGTCATGACATACCCCCTGCT
Found at i:19126227 original size:41 final size:42
Alignment explanation
Indices: 19126129--19126529 Score: 310
Period size: 41 Copynumber: 9.5 Consensus size: 42
19126119 GAATGTAAGG
* * * * *
19126129 GGTTGCTAAGTGCAGATTCC-CCGAATCATTGATCAAAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATAAAGT
* * *
19126170 GGTTTCTATGTGCTGATTCC-CCGTATCATTGATTATAATGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATAAAGT
* * * * * * * *
19126211 TGTTGTTAACTACTGATTCCACCGTATCCTTGACTGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTAT-AAAGT
* * * *
19126254 GGTTGGTATGTGCTGATTTC-CCGTATCATTGATTATAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATAAAGT
* *
19126295 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAA-T
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTAT-AAAGT
* * ** *
19126337 AGGTTGCTATGTGTTGATTCC-CTATATCATTGATTATAAGGT
1 -GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATAAAGT
* * * * *
19126379 GATTGCTAAGTGCTAATTCCACCGTATCCTTGATTGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTAT-AAAGT
* * * *
19126422 GGTTGCTATGTGCTAATTCC-CTGTATCATTGATTATAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATAAAGT
* * * * ** * *
19126463 GGTTGCTAAGTGTTGATTCCACTAGGATCCTTTGAACATGAGGT
1 GGTTGCTAAGTGCTGATTCCAC-CGTAT-CATTGATTATAAAGT
19126507 GGTTGCTAAGTGCTGATTCCACC
1 GGTTGCTAAGTGCTGATTCCACC
19126530 ATGTAACGGT
Statistics
Matches: 278, Mismatches: 71, Indels: 20
0.75 0.19 0.05
Matches are distributed among these distances:
41 105 0.38
42 80 0.29
43 61 0.22
44 32 0.12
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATAAAGT
Found at i:19126311 original size:84 final size:85
Alignment explanation
Indices: 19126124--19126484 Score: 466
Period size: 84 Copynumber: 4.3 Consensus size: 85
19126114 TCTTTGAATG
* * * *** *
19126124 TAAGG-GGTTGCTAAGTGCAGATTCC-CCGAATCATTGA-TCAAAAAGGGGTTTCTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
*
19126186 -TTCCCCGTATCATTGATTA
66 TTTCCCTGTATCATTGATTA
* * * * * * *
19126205 TAATGTTGTTGTTAACTACTGATTCCACCGTATCCTTGACTGTGAAAGGGGTTGGTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
19126270 TTTCCC-GTATCATTGATTA
66 TTTCCCTGTATCATTGATTA
** *
19126289 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAATAGGTTGCTATGTGTTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
*
19126354 -TTCCCTATATCATTGATTA
66 TTTCCCTGTATCATTGATTA
* *
19126373 TAAGGTGATTGCTAAGTGCTAATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCT-A
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
*
19126437 ATTCCCTGTATCATTGATTA
66 TTTCCCTGTATCATTGATTA
*
19126457 TAAGGTGGTTGCTAAGTGTTGATTCCAC
1 TAAGGTGGTTGCTAAGTGCTGATTCCAC
19126485 TAGGATCCTT
Statistics
Matches: 241, Mismatches: 33, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
81 4 0.02
82 15 0.06
83 16 0.07
84 201 0.83
85 5 0.02
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (85 bp):
TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
TTTCCCTGTATCATTGATTA
Found at i:19133200 original size:5 final size:5
Alignment explanation
Indices: 19133190--19133214 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19133180 AACAAAACCT
19133190 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
19133215 CAATCACGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Done.