Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 178 of 333
Found at i:58433347 original size:22 final size:23
Alignment explanation
Indices: 58433296--58433405 Score: 75
Period size: 23 Copynumber: 4.8 Consensus size: 23
58433286 TGATGGACGG
* **
58433296 TAAGCTCTATTGAGCTGAAACGG
1 TAAGCTCTATCGAGCTGAAACAA
*
58433319 TAAGCTCTATCGAGTTG-AACAA
1 TAAGCTCTATCGAGCTGAAACAA
* **
58433341 TAAGCTCGTAT-GAGCTAAAACGG
1 TAAGCTC-TATCGAGCTGAAACAA
* *
58433364 TAGGCTCTAAT-GAGCTGAAAATAA
1 TAAGCTCT-ATCGAGCTG-AAACAA
58433388 TAAGCTCT-TACGAGCTGA
1 TAAGCTCTAT-CGAGCTGA
58433406 TATATCGGTA
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
22 16 0.24
23 35 0.52
24 16 0.24
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (23 bp):
TAAGCTCTATCGAGCTGAAACAA
Found at i:58442093 original size:32 final size:32
Alignment explanation
Indices: 58442052--58442115 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
58442042 AAGCTTGAAA
58442052 GAAGCTGAACCCTAGCTTCTTTTTCTTTTTCT
1 GAAGCTGAACCCTAGCTTCTTTTTCTTTTTCT
58442084 GAAGCTGAACCCTAGCTTCTTTTTCTTTTTCT
1 GAAGCTGAACCCTAGCTTCTTTTTCTTTTTCT
58442116 TTCTTGTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.16, C:0.25, G:0.12, T:0.47
Consensus pattern (32 bp):
GAAGCTGAACCCTAGCTTCTTTTTCTTTTTCT
Found at i:58443094 original size:43 final size:43
Alignment explanation
Indices: 58443033--58443149 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
58443023 CACATATATT
* * *
58443033 GCATCCATTATGAACTCGGACCACTGAACGAGGTCAGATGCTC
1 GCATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGCTC
*
58443076 GCATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGC-C
1 GCATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGCTC
* ** * * *
58443118 ACATATATCATGAACTTGGATCACTCAACGAG
1 GCATCCATAATGAACTCGGACCACTCAACGAG
58443150 TTTGGACTTC
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
42 27 0.42
43 37 0.58
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (43 bp):
GCATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGCTC
Found at i:58445931 original size:27 final size:27
Alignment explanation
Indices: 58445893--58446221 Score: 412
Period size: 27 Copynumber: 12.2 Consensus size: 27
58445883 GGGCCGAAAT
58445893 GATGACCGAAATACCCCCATAGGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
*
58445920 GATGACCGAAATACCCTCATAGGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
*
58445947 GATGACCGAAATACCCTCATAGGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
58445974 GATGACCGAAATACCCCCATAGGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
* *
58446001 GATGATCAAAATACCCCCATAGGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
* * * *
58446028 AATGATCAAAATACCCCCATAAGGTCAA
1 GATGACCGAAATACCCCCATAGGGT-AA
* * * *
58446056 -ATGACTG-AATACCGCCACAAGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
*
58446081 TATGACCGAAATACCCCCATAGGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
* * *
58446108 GATGACTGAAATACCCCAATAAGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
*
58446135 -AGTGACTGAAATACCCCCATAGGGTAA
1 GA-TGACCGAAATACCCCCATAGGGTAA
*
58446162 GATGACCAAAATACCCCCATAGGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
* * **
58446189 GACGACTGAAATACCCATATAGGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
*
58446216 AATGAC
1 GATGAC
58446222 TATTTTTCCC
Statistics
Matches: 267, Mismatches: 30, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
25 2 0.01
26 21 0.08
27 241 0.90
28 3 0.01
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (27 bp):
GATGACCGAAATACCCCCATAGGGTAA
Found at i:58446203 original size:161 final size:161
Alignment explanation
Indices: 58445915--58446222 Score: 451
Period size: 161 Copynumber: 1.9 Consensus size: 161
58445905 ACCCCCATAG
* *
58445915 GGTAAGATGACCGAAATACCCTCATAGGGTAAGATGACCGAAATACCCTCATAGGGTAAGATGAC
1 GGTAAGATGACCGAAATACCCCCATAGGGTAAGATGACCGAAATACCCTCATAAGGTAAGATGAC
* * *
58445980 CGAAATACCCCCATAGGGTAAGATGATCAAAATACCCCCATAGGGTAAAATGATCAAAATACCCC
66 CGAAATACCCCCATAGGGTAAGATGACCAAAATACCCCCATAGGGTAAAACGATCAAAATACCCA
*
58446045 CATAAGGTCAAATGACTGAATACCGCCACAA
131 CATAAGGTAAAATGACTGAATACCGCCACAA
* *
58446076 GGTAATATGACCGAAATACCCCCATAGGGTAAGATGACTGAAATACCC-CAATAAGGTAA-AGTG
1 GGTAAGATGACCGAAATACCCCCATAGGGTAAGATGACCGAAATACCCTC-ATAAGGTAAGA-TG
* * *
58446139 ACTGAAATACCCCCATAGGGTAAGATGACCAAAATACCCCCATAGGGTAAGACGA-CTGAAATAC
64 ACCGAAATACCCCCATAGGGTAAGATGACCAAAATACCCCCATAGGGTAAAACGATC-AAAATAC
* *
58446203 CCATATAGGGTAAAATGACT
128 CCACATAAGGTAAAATGACT
58446223 ATTTTTCCCT
Statistics
Matches: 131, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
160 3 0.02
161 128 0.98
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (161 bp):
GGTAAGATGACCGAAATACCCCCATAGGGTAAGATGACCGAAATACCCTCATAAGGTAAGATGAC
CGAAATACCCCCATAGGGTAAGATGACCAAAATACCCCCATAGGGTAAAACGATCAAAATACCCA
CATAAGGTAAAATGACTGAATACCGCCACAA
Found at i:58446243 original size:27 final size:27
Alignment explanation
Indices: 58446213--58446394 Score: 128
Period size: 27 Copynumber: 7.0 Consensus size: 27
58446203 CCATATAGGG
*
58446213 TAAAATGACTATTTTTCCCTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGA
** * *
58446240 TAAAATGACGGTTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATGTGA
* * * * *
58446267 CAAAATGACTGTATTGCCCTTATTTGT
1 TAAAATGACTATTTTGCCCTTATGTGA
** * * *
58446294 TAAAATGGTTGTTTTGCCCTTATATGT
1 TAAAATGACTATTTTGCCCTTATGTGA
*
58446321 TAAAATG---A-----CCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGA
* *
58446340 TAAAATGACGATTTTGCCTTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGA
* *
58446367 TAAAATGACTATTTTACCCCTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGA
58446394 T
1 T
58446395 GTATGTTTAT
Statistics
Matches: 124, Mismatches: 23, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
19 17 0.14
22 1 0.01
27 106 0.85
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGA
Found at i:58446298 original size:54 final size:54
Alignment explanation
Indices: 58446214--58446329 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
58446204 CATATAGGGT
* *
58446214 AAAATGACTATTTTTCCCTTATGTGATAAAATGACGGTTTTGCCCTTATATGGC
1 AAAATGACTATATTGCCCTTATGTGATAAAATGACGGTTTTGCCCTTATATGGC
* * * *** **
58446268 AAAATGACTGTATTGCCCTTATTTGTTAAAATGGTTGTTTTGCCCTTATATGTT
1 AAAATGACTATATTGCCCTTATGTGATAAAATGACGGTTTTGCCCTTATATGGC
58446322 AAAATGAC
1 AAAATGAC
58446330 CCTTATGTGT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (54 bp):
AAAATGACTATATTGCCCTTATGTGATAAAATGACGGTTTTGCCCTTATATGGC
Found at i:58446334 original size:19 final size:19
Alignment explanation
Indices: 58446310--58446348 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
58446300 GGTTGTTTTG
58446310 CCCTTATATGTTAAAATGA
1 CCCTTATATGTTAAAATGA
*
58446329 CCCTTATGTGTTAAAATGA
1 CCCTTATATGTTAAAATGA
58446348 C
1 C
58446349 GATTTTGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (19 bp):
CCCTTATATGTTAAAATGA
Found at i:58446355 original size:46 final size:46
Alignment explanation
Indices: 58446283--58446375 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
58446273 GACTGTATTG
* ** *
58446283 CCCTTATTTGTTAAAATGGTTGTTTTGCCCTTATATGTTAAAATGA
1 CCCTTATGTGTTAAAATGGACGTTTTGCCCTTATATGATAAAATGA
* *
58446329 CCCTTATGTGTTAAAAT-GACGATTTTGCCTTTATGTGATAAAATGA
1 CCCTTATGTGTTAAAATGGACG-TTTTGCCCTTATATGATAAAATGA
58446375 C
1 C
58446376 TATTTTACCC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
45 2 0.05
46 38 0.95
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (46 bp):
CCCTTATGTGTTAAAATGGACGTTTTGCCCTTATATGATAAAATGA
Found at i:58446765 original size:18 final size:18
Alignment explanation
Indices: 58446742--58446777 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
58446732 GCACTGTTTA
*
58446742 CTGTTATTACAATGGGCC
1 CTGTTACTACAATGGGCC
*
58446760 CTGTTACTGCAATGGGCC
1 CTGTTACTACAATGGGCC
58446778 AAGGCTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (18 bp):
CTGTTACTACAATGGGCC
Found at i:58449423 original size:21 final size:22
Alignment explanation
Indices: 58449397--58449438 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
58449387 CACTTAACAT
58449397 AGGGGC-ACACGCCCGTGTGAG
1 AGGGGCAACACGCCCGTGTGAG
* *
58449418 AGGGGCAATACGCCTGTGTGA
1 AGGGGCAACACGCCCGTGTGA
58449439 CTGTTTAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.21, C:0.24, G:0.40, T:0.14
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGAG
Found at i:58452903 original size:40 final size:40
Alignment explanation
Indices: 58452843--58453066 Score: 243
Period size: 40 Copynumber: 5.5 Consensus size: 40
58452833 TATTCGGATG
*
58452843 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
58452883 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
58452926 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
58452966 ATATCCAGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * ** * *
58453006 ATATCTGGGCTAAGACCGGAAGGCATTTCCGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
58453046 ATAT-CTGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
58453067 ATACTTGGGT
Statistics
Matches: 156, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 12 0.08
40 106 0.68
41 1 0.01
43 37 0.24
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:58457444 original size:27 final size:27
Alignment explanation
Indices: 58457406--58457733 Score: 401
Period size: 27 Copynumber: 12.2 Consensus size: 27
58457396 GGGCCGAAAT
58457406 GATGACCGAAATACCCCCATAGGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
*
58457433 GATGACCGAAATACCCTCATAGGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
*
58457460 GATGACCGAAATACCCTCATAGGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
58457487 GATGACCGAAATA-CCCCATAGGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
* *
58457513 GATGATCAAAATACCCCCATAGGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
* * *
58457540 GATGATCAAAATACCCCCATAAGGTCAA
1 GATGACCGAAATACCCCCATAGGGT-AA
* * * *
58457568 -ATGACTG-AATACACCCACAAGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
*
58457593 TATGACCGAAATACCCCCATAGGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
** * * *
58457620 GATGATTGGAATACCCCAATAAGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
* *
58457647 GGTGACTGAAATACCCCCATAGGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
*
58457674 GATGACCAAAATACCCCCATAGGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
* * **
58457701 GACGACTGAAATACCCATATAGGGTAA
1 GATGACCGAAATACCCCCATAGGGTAA
*
58457728 AATGAC
1 GATGAC
58457734 TATTTTTCCC
Statistics
Matches: 262, Mismatches: 35, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
25 2 0.01
26 43 0.16
27 215 0.82
28 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (27 bp):
GATGACCGAAATACCCCCATAGGGTAA
Found at i:58457516 original size:80 final size:81
Alignment explanation
Indices: 58457406--58457733 Score: 396
Period size: 80 Copynumber: 4.1 Consensus size: 81
58457396 GGGCCGAAAT
* *
58457406 GATGACCGAAATACCCCCATAGGGTAAGATGACCGAAATACCCTCATAGGGTAAGATGACCGAAA
1 GATGACCGAAATACCCCCATAGGGTAAGATGACCAAAATACCCCCATAGGGTAAGATGACCGAAA
*
58457471 TACCCTCATAGGGTAA
66 TACCCTCATAAGGTAA
* * *
58457487 GATGACCGAAATA-CCCCATAGGGTAAGATGATCAAAATACCCCCATAGGGTAAGATGATCAAAA
1 GATGACCGAAATACCCCCATAGGGTAAGATGACCAAAATACCCCCATAGGGTAAGATGACCGAAA
*
58457551 TACCCCCATAAGGTCAA
66 TACCCTCATAAGGT-AA
* * * * * * ** *
58457568 -ATGACTG-AATACACCCACAAGGTAATATGACCGAAATACCCCCATAGGGTAAGATGATTGGAA
1 GATGACCGAAATACCCCCATAGGGTAAGATGACCAAAATACCCCCATAGGGTAAGATGACCGAAA
58457631 TACCC-CAATAAGGTAA
66 TACCCTC-ATAAGGTAA
* * * *
58457647 GGTGACTGAAATACCCCCATAGGGTAAGATGACCAAAATACCCCCATAGGGTAAGACGACTGAAA
1 GATGACCGAAATACCCCCATAGGGTAAGATGACCAAAATACCCCCATAGGGTAAGATGACCGAAA
*
58457712 TACCCAT-ATAGGGTAA
66 TACCC-TCATAAGGTAA
*
58457728 AATGAC
1 GATGAC
58457734 TATTTTTCCC
Statistics
Matches: 211, Mismatches: 29, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
79 7 0.03
80 124 0.59
81 80 0.38
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (81 bp):
GATGACCGAAATACCCCCATAGGGTAAGATGACCAAAATACCCCCATAGGGTAAGATGACCGAAA
TACCCTCATAAGGTAA
Found at i:58457611 original size:107 final size:106
Alignment explanation
Indices: 58457414--58457732 Score: 356
Period size: 107 Copynumber: 3.0 Consensus size: 106
58457404 ATGATGACCG
* *
58457414 AAATACCCCCATAGGGTAAGATGACCGAAATACCCTCATAGGGTAAGATGACCGAAATACCCTCA
1 AAATACCCCCATAGGGTAAGATGA-CGAAATACCCCCATAAGGTAAGATGACCGAAATACCCTCA
* *
58457479 TAGGGTAAGATGACCGAAATACCCCATAGGGTAAGATGATCA
65 CAAGGTAAGATGACCGAAATACCCCATAGGGTAAGATGATCA
* *
58457521 AAATACCCCCATAGGGTAAGATGATCAAAATACCCCCATAAGGTCAA-ATGACTG-AATACACC-
1 AAATACCCCCATAGGGTAAGATGA-CGAAATACCCCCATAAGGT-AAGATGACCGAAATAC-CCT
* **
58457583 CACAAGGTAATATGACCGAAATACCCCCATAGGGTAAGATGATTG
63 CACAAGGTAAGATGACCGAAATA-CCCCATAGGGTAAGATGATCA
* * * * * * *
58457628 GAATACCCCAATAAGGTAAGGTGACTGAAATACCCCCATAGGGTAAGATGACCAAAATACCCCCA
1 AAATACCCCCATAGGGTAAGATGAC-GAAATACCCCCATAAGGTAAGATGACCGAAATACCCTCA
* * * * * *
58457693 TAGGGTAAGACGACTGAAATACCCATATAGGGTAAAATGA
65 CAAGGTAAGATGACCGAAATACCC-CATAGGGTAAGATGA
58457733 CTATTTTTCC
Statistics
Matches: 179, Mismatches: 25, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
106 28 0.16
107 113 0.63
108 38 0.21
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (106 bp):
AAATACCCCCATAGGGTAAGATGACGAAATACCCCCATAAGGTAAGATGACCGAAATACCCTCAC
AAGGTAAGATGACCGAAATACCCCATAGGGTAAGATGATCA
Found at i:58457755 original size:27 final size:27
Alignment explanation
Indices: 58457725--58457906 Score: 128
Period size: 27 Copynumber: 7.0 Consensus size: 27
58457715 CCATATAGGG
*
58457725 TAAAATGACTATTTTTCCCTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGA
** * *
58457752 TAAAATGACGGTTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATGTGA
* * * * *
58457779 CAAAATGACTGTATTGCCCTTATTTGT
1 TAAAATGACTATTTTGCCCTTATGTGA
** * * *
58457806 TAAAATGGTTGTTTTGCCCTTATATGT
1 TAAAATGACTATTTTGCCCTTATGTGA
*
58457833 TAAAATG---A-----CCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGA
* *
58457852 TAAAATGACGATTTTGCCTTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGA
* *
58457879 TAAAATGACTATTTTACCCCTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGA
58457906 T
1 T
58457907 GTATGTTTAT
Statistics
Matches: 124, Mismatches: 23, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
19 17 0.14
22 1 0.01
27 106 0.85
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGA
Found at i:58457810 original size:54 final size:54
Alignment explanation
Indices: 58457726--58457841 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
58457716 CATATAGGGT
* *
58457726 AAAATGACTATTTTTCCCTTATGTGATAAAATGACGGTTTTGCCCTTATATGGC
1 AAAATGACTATATTGCCCTTATGTGATAAAATGACGGTTTTGCCCTTATATGGC
* * * *** **
58457780 AAAATGACTGTATTGCCCTTATTTGTTAAAATGGTTGTTTTGCCCTTATATGTT
1 AAAATGACTATATTGCCCTTATGTGATAAAATGACGGTTTTGCCCTTATATGGC
58457834 AAAATGAC
1 AAAATGAC
58457842 CCTTATGTGT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (54 bp):
AAAATGACTATATTGCCCTTATGTGATAAAATGACGGTTTTGCCCTTATATGGC
Found at i:58457846 original size:19 final size:19
Alignment explanation
Indices: 58457822--58457860 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
58457812 GGTTGTTTTG
58457822 CCCTTATATGTTAAAATGA
1 CCCTTATATGTTAAAATGA
*
58457841 CCCTTATGTGTTAAAATGA
1 CCCTTATATGTTAAAATGA
58457860 C
1 C
58457861 GATTTTGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (19 bp):
CCCTTATATGTTAAAATGA
Found at i:58457867 original size:46 final size:46
Alignment explanation
Indices: 58457795--58457887 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
58457785 GACTGTATTG
* ** *
58457795 CCCTTATTTGTTAAAATGGTTGTTTTGCCCTTATATGTTAAAATGA
1 CCCTTATGTGTTAAAATGGACGTTTTGCCCTTATATGATAAAATGA
* *
58457841 CCCTTATGTGTTAAAAT-GACGATTTTGCCTTTATGTGATAAAATGA
1 CCCTTATGTGTTAAAATGGACG-TTTTGCCCTTATATGATAAAATGA
58457887 C
1 C
58457888 TATTTTACCC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
45 2 0.05
46 38 0.95
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (46 bp):
CCCTTATGTGTTAAAATGGACGTTTTGCCCTTATATGATAAAATGA
Found at i:58458276 original size:18 final size:18
Alignment explanation
Indices: 58458253--58458288 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
58458243 GCACTGTTTA
*
58458253 CTGTTATTACAATGGGCC
1 CTGTTACTACAATGGGCC
*
58458271 CTGTTACTGCAATGGGCC
1 CTGTTACTACAATGGGCC
58458289 AAGGCTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (18 bp):
CTGTTACTACAATGGGCC
Found at i:58460919 original size:21 final size:22
Alignment explanation
Indices: 58460893--58460934 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
58460883 CACTTAACAT
58460893 AGGGGC-ACACGCCCGTGTGAG
1 AGGGGCAACACGCCCGTGTGAG
* *
58460914 AGGGGCAATACGCCTGTGTGA
1 AGGGGCAACACGCCCGTGTGA
58460935 CTGTTTAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.21, C:0.24, G:0.40, T:0.14
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGAG
Found at i:58464250 original size:40 final size:40
Alignment explanation
Indices: 58464184--58464406 Score: 234
Period size: 40 Copynumber: 5.5 Consensus size: 40
58464174 TATTCGGATG
*
58464184 ATATTCGGGCTAAGT-CCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
58464223 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
58464266 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
58464306 ATATCCAGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * ** * *
58464346 ATATCTGGGCTAAGACCGGAAGGCATTTCCGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
58464386 ATAT-CTGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
58464407 ATACTTGGGT
Statistics
Matches: 155, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
39 26 0.17
40 91 0.59
41 1 0.01
43 37 0.24
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:58468797 original size:27 final size:26
Alignment explanation
Indices: 58468743--58469065 Score: 373
Period size: 27 Copynumber: 12.2 Consensus size: 26
58468733 GGGCCGAAAT
58468743 GATGACCGAAATACCCCATAGGGTAA
1 GATGACCGAAATACCCCATAGGGTAA
58468769 GATGACCGAAATACCCTCATAGGGTAA
1 GATGACCGAAATACCC-CATAGGGTAA
58468796 GATGACCGAAATACCCTCATAGGGTAA
1 GATGACCGAAATACCC-CATAGGGTAA
58468823 GATGACCGAAATACCCCATAGGGTAA
1 GATGACCGAAATACCCCATAGGGTAA
* *
58468849 GATGATCAAAATACCCCCATAGGGTAA
1 GATGACCGAAATA-CCCCATAGGGTAA
* * *
58468876 GATGATCAAAATACCCCCATAAGGTCAA
1 GATGACCGAAATA-CCCCATAGGGT-AA
* * *
58468904 -ATGACTG-AATACACCCACAAGGTAA
1 GATGACCGAAATAC-CCCATAGGGTAA
*
58468929 TATGACCG-AATACCCCATAGGGTAA
1 GATGACCGAAATACCCCATAGGGTAA
** * *
58468954 GATGATTGGAATACCCCAATAAGGTAA
1 GATGACCGAAATACCCC-ATAGGGTAA
* *
58468981 GGTGACTGAAATACCCCATAGGGTAA
1 GATGACCGAAATACCCCATAGGGTAA
*
58469007 GATGACCAAAATACCCCATAGGGTAA
1 GATGACCGAAATACCCCATAGGGTAA
* * *
58469033 GACGACTGAAATACCCATATAGGGTAA
1 GATGACCGAAATACCC-CATAGGGTAA
*
58469060 AATGAC
1 GATGAC
58469066 TATTTTTCCC
Statistics
Matches: 262, Mismatches: 27, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
25 18 0.07
26 113 0.43
27 129 0.49
28 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.18
Consensus pattern (26 bp):
GATGACCGAAATACCCCATAGGGTAA
Found at i:58468843 original size:53 final size:52
Alignment explanation
Indices: 58468743--58469065 Score: 373
Period size: 53 Copynumber: 6.1 Consensus size: 52
58468733 GGGCCGAAAT
58468743 GATGACCGAAATACCCCATAGGGTAAGATGACCGAAATACCCTCATAGGGTAA
1 GATGACCGAAATACCCCATAGGGTAAGATGACCGAAATACCC-CATAGGGTAA
58468796 GATGACCGAAATACCCTCATAGGGTAAGATGACCGAAATACCCCATAGGGTAA
1 GATGACCGAAATACCC-CATAGGGTAAGATGACCGAAATACCCCATAGGGTAA
* * * * *
58468849 GATGATCAAAATACCCCCATAGGGTAAGATGATCAAAATACCCCCATAAGGTCAA
1 GATGACCGAAATA-CCCCATAGGGTAAGATGACCGAAATA-CCCCATAGGGT-AA
* * * *
58468904 -ATGACTG-AATACACCCACAAGGTAATATGACCG-AATACCCCATAGGGTAA
1 GATGACCGAAATAC-CCCATAGGGTAAGATGACCGAAATACCCCATAGGGTAA
** * * * *
58468954 GATGATTGGAATACCCCAATAAGGTAAGGTGACTGAAATACCCCATAGGGTAA
1 GATGACCGAAATACCCC-ATAGGGTAAGATGACCGAAATACCCCATAGGGTAA
* * * *
58469007 GATGACCAAAATACCCCATAGGGTAAGACGACTGAAATACCCATATAGGGTAA
1 GATGACCGAAATACCCCATAGGGTAAGATGACCGAAATACCC-CATAGGGTAA
*
58469060 AATGAC
1 GATGAC
58469066 TATTTTTCCC
Statistics
Matches: 232, Mismatches: 28, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
50 2 0.01
51 19 0.08
52 45 0.19
53 121 0.52
54 43 0.19
55 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.18
Consensus pattern (52 bp):
GATGACCGAAATACCCCATAGGGTAAGATGACCGAAATACCCCATAGGGTAA
Found at i:58469087 original size:27 final size:27
Alignment explanation
Indices: 58469057--58469238 Score: 128
Period size: 27 Copynumber: 7.0 Consensus size: 27
58469047 CCATATAGGG
*
58469057 TAAAATGACTATTTTTCCCTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGA
** * *
58469084 TAAAATGACGGTTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATGTGA
* * * * *
58469111 CAAAATGACTGTATTGCCCTTATTTGT
1 TAAAATGACTATTTTGCCCTTATGTGA
** * * *
58469138 TAAAATGGTTGTTTTGCCCTTATATGT
1 TAAAATGACTATTTTGCCCTTATGTGA
*
58469165 TAAAATG---A-----CCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGA
* *
58469184 TAAAATGACGATTTTGCCTTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGA
* *
58469211 TAAAATGACTATTTTACCCCTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGA
58469238 T
1 T
58469239 GTATGTTTAT
Statistics
Matches: 124, Mismatches: 23, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
19 17 0.14
22 1 0.01
27 106 0.85
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGA
Found at i:58469142 original size:54 final size:54
Alignment explanation
Indices: 58469058--58469173 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
58469048 CATATAGGGT
* *
58469058 AAAATGACTATTTTTCCCTTATGTGATAAAATGACGGTTTTGCCCTTATATGGC
1 AAAATGACTATATTGCCCTTATGTGATAAAATGACGGTTTTGCCCTTATATGGC
* * * *** **
58469112 AAAATGACTGTATTGCCCTTATTTGTTAAAATGGTTGTTTTGCCCTTATATGTT
1 AAAATGACTATATTGCCCTTATGTGATAAAATGACGGTTTTGCCCTTATATGGC
58469166 AAAATGAC
1 AAAATGAC
58469174 CCTTATGTGT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (54 bp):
AAAATGACTATATTGCCCTTATGTGATAAAATGACGGTTTTGCCCTTATATGGC
Found at i:58469178 original size:19 final size:19
Alignment explanation
Indices: 58469154--58469192 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
58469144 GGTTGTTTTG
58469154 CCCTTATATGTTAAAATGA
1 CCCTTATATGTTAAAATGA
*
58469173 CCCTTATGTGTTAAAATGA
1 CCCTTATATGTTAAAATGA
58469192 C
1 C
58469193 GATTTTGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (19 bp):
CCCTTATATGTTAAAATGA
Found at i:58469199 original size:46 final size:46
Alignment explanation
Indices: 58469127--58469219 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
58469117 GACTGTATTG
* ** *
58469127 CCCTTATTTGTTAAAATGGTTGTTTTGCCCTTATATGTTAAAATGA
1 CCCTTATGTGTTAAAATGGACGTTTTGCCCTTATATGATAAAATGA
* *
58469173 CCCTTATGTGTTAAAAT-GACGATTTTGCCTTTATGTGATAAAATGA
1 CCCTTATGTGTTAAAATGGACG-TTTTGCCCTTATATGATAAAATGA
58469219 C
1 C
58469220 TATTTTACCC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
45 2 0.05
46 38 0.95
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (46 bp):
CCCTTATGTGTTAAAATGGACGTTTTGCCCTTATATGATAAAATGA
Found at i:58469609 original size:18 final size:18
Alignment explanation
Indices: 58469586--58469621 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
58469576 GCACTGTTTA
*
58469586 CTGTTATTACAATGGGCC
1 CTGTTACTACAATGGGCC
*
58469604 CTGTTACTGCAATGGGCC
1 CTGTTACTACAATGGGCC
58469622 AAGGCTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (18 bp):
CTGTTACTACAATGGGCC
Found at i:58472267 original size:21 final size:22
Alignment explanation
Indices: 58472241--58472282 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
58472231 CACTTAACAT
58472241 AGGGGC-ACACGCCCGTGTGAG
1 AGGGGCAACACGCCCGTGTGAG
* *
58472262 AGGGGCAATACGCCTGTGTGA
1 AGGGGCAACACGCCCGTGTGA
58472283 CTGTTTAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.21, C:0.24, G:0.40, T:0.14
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGAG
Found at i:58475474 original size:40 final size:40
Alignment explanation
Indices: 58475414--58475633 Score: 262
Period size: 40 Copynumber: 5.5 Consensus size: 40
58475404 TATTCGGATG
*
58475414 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
58475454 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
58475497 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
58475537 ATATCCAGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * * *
58475577 ATATCTGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
58475617 ATATCC-GGCTAAATCCC
1 ATATCCGGGCTAAGTCCC
58475634 AAAGATACTT
Statistics
Matches: 155, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 9 0.06
40 108 0.70
41 1 0.01
43 37 0.24
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:58475558 original size:83 final size:79
Alignment explanation
Indices: 58475419--58475633 Score: 263
Period size: 83 Copynumber: 2.7 Consensus size: 79
58475409 GGATGATATT
* **
58475419 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCC-GGCTAAGTCCCGAAGGCATTCAT
58475484 GCGAGTAGTTG-CTATACC
65 GC---TAG-TGACTATACC
*
58475502 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCAGGCTAAGTCCCGAAGGCATTCAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCC-GGCTAAGTCCCGAAGGCATTCAT
*
58475567 GCTAGTGACTATATC
65 GCTAGTGACTATACC
* * * * *
58475582 TGGGCTAAGACCCGAAGGCATTTGCGCGAGTTG-CTATATCCGGCTAAATCCC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGCTAAGTCCC
58475634 AAAGATACTT
Statistics
Matches: 119, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
79 12 0.10
80 43 0.36
81 2 0.02
83 62 0.52
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (79 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGCTAAGTCCCGAAGGCATTCATG
CTAGTGACTATACC
Found at i:58482731 original size:40 final size:40
Alignment explanation
Indices: 58482676--58482824 Score: 253
Period size: 40 Copynumber: 3.7 Consensus size: 40
58482666 TATTCGGATG
* *
58482676 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
58482716 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
58482756 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
58482796 ATATCCGGGCTAAGACCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
58482825 CGTGAGTTGC
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:58482838 original size:40 final size:39
Alignment explanation
Indices: 58482676--58482856 Score: 224
Period size: 40 Copynumber: 4.6 Consensus size: 39
58482666 TATTCGGATG
* * *
58482676 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGCG-TAGTGACT
*
58482716 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGCG-TAGTGACT
58482756 ATATCCGGGCTAAGTCCCGAAGGCATTCATGC-TAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATT--TGCGTAGTGACT
*
58482796 ATATCCGGGCTAAGACCCGAAGGCATTTGCGTGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGCGT-AG-TGACT
* *
58482836 ATATCC-GGCTAAATTCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
58482857 ATACTTGGGT
Statistics
Matches: 129, Mismatches: 7, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
38 3 0.02
39 13 0.10
40 109 0.84
41 2 0.02
42 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGCGTAGTGACT
Found at i:58482838 original size:80 final size:80
Alignment explanation
Indices: 58482676--58482856 Score: 251
Period size: 80 Copynumber: 2.3 Consensus size: 80
58482666 TATTCGGATG
** * *
58482676 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
58482741 TTTGTGCTAGTGACT
66 TTTGCGCTAGTGACT
*
58482756 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
58482821 TTTGCG-TGAGTTG-CT
66 TTTGCGCT-AG-TGACT
* *
58482836 ATATCC-GGCTAAATTCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
58482857 ATACTTGGGT
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
79 14 0.15
80 75 0.82
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGCGCTAGTGACT
Found at i:58485137 original size:43 final size:42
Alignment explanation
Indices: 58485082--58485239 Score: 194
Period size: 43 Copynumber: 3.7 Consensus size: 42
58485072 ATATCATACA
* * *
58485082 ATGCCAACGTCCCAGACGTGGTCTTACATGCAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AATTACATATCG
* *
58485125 ATGCCACTGTCCCAGACAG-GGTCTTACACGAATTAAATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAATTACATATCG
* *
58485166 ATGCCAATGTCCCAGACATGGTCTTACACGTAATTACATATTG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AATTACATATCG
* *
58485209 ATGCCAATGTCCCAAACTTGGTCTTACACGA
1 ATGCCAATGTCCCAGACGTGGTCTTACACGA
58485240 GAACACATAT
Statistics
Matches: 100, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
41 29 0.29
42 16 0.16
43 54 0.54
44 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAATTACATATCG
Found at i:58485232 original size:84 final size:84
Alignment explanation
Indices: 58485077--58485239 Score: 227
Period size: 84 Copynumber: 1.9 Consensus size: 84
58485067 CACGCATATC
* * * *
58485077 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGCAATCACATATCGATGCCACTGTCCCAGAC
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGCAATCACATATCGATGCCAATGTCCCAAAC
58485142 AGGGTCTTACACGAATTAA
66 AGGGTCTTACACGAATTAA
* * * * *
58485161 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAATTACATATTGATGCCAATGTCCCAAAC
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGCAATCACATATCGATGCCAATGTCCCAAAC
**
58485226 TTGGTCTTACACGA
66 AGGGTCTTACACGA
58485240 GAACACATAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 68 1.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (84 bp):
ATACAATGCCAACGTCCCAGACATGGTCTTACACGCAATCACATATCGATGCCAATGTCCCAAAC
AGGGTCTTACACGAATTAA
Found at i:58486394 original size:14 final size:15
Alignment explanation
Indices: 58486377--58486405 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
58486367 ACACGAAAAT
58486377 TTCACACAT-ATAAA
1 TTCACACATAATAAA
58486391 TTCACACATAATAAA
1 TTCACACATAATAAA
58486406 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:58489929 original size:163 final size:163
Alignment explanation
Indices: 58489659--58489986 Score: 593
Period size: 163 Copynumber: 2.0 Consensus size: 163
58489649 CTTTAACAGG
*
58489659 GCACCACCCATGAGTATAACATACGTACCTGTACATATCCGTAGCATATTAAATAACTTTACCTT
1 GCACCACCCATGAGTATAACATACGTACCTGTACATATCCGTAGCATATCAAATAACTTTACCTT
* *
58489724 TATTGCCATGCCCATCTTAGGACTTTCATCTCATCATTCATATAATACCCGTTGAACACTCGAAA
66 CATTGCCATGCCCAGCTTAGGACTTTCATCTCATCATTCATATAATACCCGTTGAACACTCGAAA
*
58489789 TACTATTGGATACACGGAAAATTGCACACAAGT
131 TACTATTGGATACACAGAAAATTGCACACAAGT
* *
58489822 GCACCACCCATGAGTATAACGTACGTACCTGTACATATCTGTAGCATATCAAATAACTTTACCTT
1 GCACCACCCATGAGTATAACATACGTACCTGTACATATCCGTAGCATATCAAATAACTTTACCTT
*
58489887 CATTGCCATGCCCAGCTTAGGACTTTCATCTCATCATTCATATAATACTCGTTGAACACTCGAAA
66 CATTGCCATGCCCAGCTTAGGACTTTCATCTCATCATTCATATAATACCCGTTGAACACTCGAAA
58489952 TACTATTGGATACACAGAAAATTGCACACAAGT
131 TACTATTGGATACACAGAAAATTGCACACAAGT
58489985 GC
1 GC
58489987 CACATAAACA
Statistics
Matches: 158, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
163 158 1.00
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (163 bp):
GCACCACCCATGAGTATAACATACGTACCTGTACATATCCGTAGCATATCAAATAACTTTACCTT
CATTGCCATGCCCAGCTTAGGACTTTCATCTCATCATTCATATAATACCCGTTGAACACTCGAAA
TACTATTGGATACACAGAAAATTGCACACAAGT
Found at i:58492734 original size:27 final size:27
Alignment explanation
Indices: 58492625--58492792 Score: 227
Period size: 27 Copynumber: 6.4 Consensus size: 27
58492615 CTTTAATCGA
* *
58492625 TAAAAAGACTATTTTTCCC-T-TGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
58492650 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
58492677 T-AAATAACTGTTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
58492703 T-AAATGACTATTTTTCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
58492729 TAAAATGACTATTTTGCCCTTCTGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
58492756 TAAAATGACTATTTTTCCCTCATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
58492783 TAAAATGACT
1 TAAAATGACT
58492793 GAAATTCCAC
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
25 16 0.12
26 49 0.38
27 63 0.49
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:58492811 original size:54 final size:54
Alignment explanation
Indices: 58492647--58492821 Score: 162
Period size: 54 Copynumber: 3.3 Consensus size: 54
58492637 TTTTCCCTTG
* * * * *** *
58492647 TGGTAAAATGACTGTTTTGCCCTTATGTGGT-AAATAACTGTTTTGCCCTTA-TG
1 TGGTAAAATGACTATTTTTCCCTCATGTGGTAAAATGACTAAATTGCCC-TACTA
* ** * *
58492700 TGGT-AAATGACTATTTTTCCCTTATGTGGTAAAATGACTATTTTGCCCTTCTG
1 TGGTAAAATGACTATTTTTCCCTCATGTGGTAAAATGACTAAATTGCCCTACTA
58492753 TGGTAAAATGACTATTTTTCCCTCATGTGGTAAAATGACTGAAATT-CCACTAC-A
1 TGGTAAAATGACTATTTTTCCCTCATGTGGTAAAATGACT-AAATTGCC-CTACTA
*
58492807 TGGTAAATTGACTAT
1 TGGTAAAATGACTAT
58492822 GTTGCCCCTA
Statistics
Matches: 106, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
52 25 0.24
53 25 0.24
54 50 0.47
55 6 0.06
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (54 bp):
TGGTAAAATGACTATTTTTCCCTCATGTGGTAAAATGACTAAATTGCCCTACTA
Found at i:58493141 original size:18 final size:18
Alignment explanation
Indices: 58493118--58493159 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
58493108 CATACTTTTT
58493118 ACTATTGCTGCATTGTTC
1 ACTATTGCTGCATTGTTC
* *
58493136 ACTATTGCTGCATTTTTT
1 ACTATTGCTGCATTGTTC
58493154 ACTATT
1 ACTATT
58493160 ACTACAATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (18 bp):
ACTATTGCTGCATTGTTC
Found at i:58496381 original size:20 final size:20
Alignment explanation
Indices: 58496356--58496402 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
58496346 TAGACCCACA
*
58496356 TGGGCCTGCAATATGGGACT
1 TGGGCCCGCAATATGGGACT
*
58496376 TGGGCCCGCAATATGGGCCT
1 TGGGCCCGCAATATGGGACT
58496396 TGGGCCC
1 TGGGCCC
58496403 ATTTTCTCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.21
Consensus pattern (20 bp):
TGGGCCCGCAATATGGGACT
Found at i:58496527 original size:27 final size:27
Alignment explanation
Indices: 58496497--58496585 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
58496487 TCTTAATTGA
* *
58496497 TAAAATGAGTGTTTTTCCCTTATCTGG
1 TAAAATGATTGTTTTTCCCTTATATGG
* *
58496524 TAAAATGATTGTTTTGCCCTTATGTGG
1 TAAAATGATTGTTTTTCCCTTATATGG
*
58496551 TAAAATGATTATTTTTCCCTTATATGG
1 TAAAATGATTGTTTTTCCCTTATATGG
58496578 TAAAATGA
1 TAAAATGA
58496586 CTGAAATGCC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (27 bp):
TAAAATGATTGTTTTTCCCTTATATGG
Found at i:58496606 original size:54 final size:54
Alignment explanation
Indices: 58496497--58496608 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 54
58496487 TCTTAATTGA
* * * *** * **
58496497 TAAAATGAGTGTTTTTCCCTTATCTGGTAAAATGATTGTTTTGCCCTTATGTGG
1 TAAAATGAGTATTTTTCCCTTATATGGTAAAATGACTGAAATGCCCCTACATGG
*
58496551 TAAAATGATTATTTTTCCCTTATATGGTAAAATGACTGAAATGCCCCTACATGG
1 TAAAATGAGTATTTTTCCCTTATATGGTAAAATGACTGAAATGCCCCTACATGG
58496605 TAAA
1 TAAA
58496609 TTGACTGTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (54 bp):
TAAAATGAGTATTTTTCCCTTATATGGTAAAATGACTGAAATGCCCCTACATGG
Found at i:58500674 original size:21 final size:21
Alignment explanation
Indices: 58500650--58500717 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
58500640 CACATGCATC
58500650 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
** * *
58500671 ATGAGTTCAGATGTCACAAAT-A
1 ATGAACTCAGA--CCACAACTCA
58500693 TCATGAACTCAGACCACAACTCA
1 --ATGAACTCAGACCACAACTCA
58500716 AT
1 AT
58500718 AAGTTCAGAT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
21 11 0.32
22 7 0.21
23 7 0.21
24 9 0.26
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (21 bp):
ATGAACTCAGACCACAACTCA
Found at i:58500687 original size:45 final size:45
Alignment explanation
Indices: 58500637--58500727 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
58500627 CCAAAACATG
** *
58500637 TGTCACATGCATCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACAAACATCATGAACTCAGACCACAACTCAATAAGTTCAGA
*
58500682 TGTCACAAATATCATGAACTCAGACCACAACTCAATAAGTTCAGA
1 TGTCACAAACATCATGAACTCAGACCACAACTCAATAAGTTCAGA
58500727 T
1 T
58500728 CACATAGTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.23
Consensus pattern (45 bp):
TGTCACAAACATCATGAACTCAGACCACAACTCAATAAGTTCAGA
Found at i:58503741 original size:45 final size:44
Alignment explanation
Indices: 58503629--58503741 Score: 118
Period size: 45 Copynumber: 2.5 Consensus size: 44
58503619 TACGTCTAAG
* * * *
58503629 AATGAGTAAGACCATAGTTGAAAGATGCTATGGCGTCATGATAA
1 AATGAGTAAGAACATAGTTGAAAGATGCTAAGGCATCATAATAA
* * *
58503673 AATTGAGTAAGAACATAGCTGAAAGATGCTAAGGCATTATAACTGA
1 AA-TGAGTAAGAACATAGTTGAAAGATGCTAAGGCATCATAA-TAA
* * *
58503719 AATGACTAAGATCATGGTTGAAA
1 AATGAGTAAGAACATAGTTGAAA
58503742 AACACCATGA
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
44 2 0.04
45 50 0.89
46 4 0.07
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.25
Consensus pattern (44 bp):
AATGAGTAAGAACATAGTTGAAAGATGCTAAGGCATCATAATAA
Found at i:58504976 original size:28 final size:28
Alignment explanation
Indices: 58504931--58504999 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
58504921 TTTAGAGTAC
* *
58504931 ACCACAAAGG-TT-TTTTTTCGTAGATA
1 ACCACAAAGGCTTCATTTTTAGTAGATA
* *
58504957 ACCATAAAGGCTTCATTTTTAGTAGATC
1 ACCACAAAGGCTTCATTTTTAGTAGATA
*
58504985 CCCACAAAGGCTTCA
1 ACCACAAAGGCTTCA
58505000 CCATAAAGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 9 0.26
27 2 0.06
28 24 0.69
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (28 bp):
ACCACAAAGGCTTCATTTTTAGTAGATA
Found at i:58510305 original size:27 final size:26
Alignment explanation
Indices: 58510270--58510381 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
58510260 AGCATGGCTG
* *
58510270 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
58510296 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
58510324 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
58510351 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
58510378 CCAG
1 CCAG
58510382 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:58510362 original size:54 final size:54
Alignment explanation
Indices: 58510270--58510381 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
58510260 AGCATGGCTG
* *
58510270 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
58510324 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
58510378 CCAG
1 CCAG
58510382 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:58511823 original size:24 final size:24
Alignment explanation
Indices: 58511796--58511866 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
58511786 CTAGATTTCC
**
58511796 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
58511820 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
58511844 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
58511867 CTCCTGACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:58515399 original size:27 final size:27
Alignment explanation
Indices: 58515368--58515545 Score: 223
Period size: 27 Copynumber: 6.6 Consensus size: 27
58515358 TAAATTGTAC
58515368 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
58515395 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
58515421 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
58515449 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
58515477 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
58515504 AGCACTAAGTGTGCGATTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
58515531 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58515546 GACTAAAGAT
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 109 0.83
28 23 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:58515482 original size:82 final size:81
Alignment explanation
Indices: 58515369--58515524 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
58515359 AAATTGTACA
*
58515369 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
58515433 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
58515450 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
58515515 TGCGATTTGA
65 TGCGAATTGA
58515525 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:58515536 original size:82 final size:81
Alignment explanation
Indices: 58515365--58515545 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
58515355 GATTAAATTG
*
58515365 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
58515430 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
58515446 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
58515510 AAGTGTGCGATTTGATTA
64 AAGTGTGCGAATTGACCA
* *
58515528 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
58515546 GACTAAAGAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:58520206 original size:49 final size:49
Alignment explanation
Indices: 58520141--58520617 Score: 785
Period size: 49 Copynumber: 9.9 Consensus size: 49
58520131 TAGTATGGCG
*
58520141 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
58520190 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
58520239 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
58520286 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
58520335 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
58520384 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
58520431 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATACGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
58520480 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
58520527 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * * *
58520574 GAGTCGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
58520618 TCCCGAAGGG
Statistics
Matches: 407, Mismatches: 15, Indels: 14
0.93 0.03 0.03
Matches are distributed among these distances:
47 187 0.46
48 1 0.00
49 219 0.54
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:58520307 original size:96 final size:97
Alignment explanation
Indices: 58520141--58520617 Score: 772
Period size: 96 Copynumber: 5.0 Consensus size: 97
58520131 TAGTATGGCG
* *
58520141 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGAT
58520206 GAATGTGAAAGTGTATATATATGTGATAAGGCC
65 GAATGTGAAAGTGTATATATATGTGATAAGGCC
58520239 TAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 TAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
58520303 AATGTGAAAGTGTATATATATGTGATAAGGCC
66 AATGTGAAAGTGTATATATATGTGATAAGGCC
58520335 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGAT
58520400 GAATGTGAAAGTG--TATATATGTGATAAGGCC
65 GAATGTGAAAGTGTATATATATGTGATAAGGCC
*
58520431 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATACGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGAT
58520496 GAATGTGAAAGTG--TATATATGTGATAAGGCC
65 GAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * * * *
58520527 TAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGACAGGGCCGAGTCGCCAACGTGATG
1 TAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58520591 GATGTGAAAGTGTATA-A-ATGTGATAAG
66 AATGTGAAAGTGTATATATATGTGATAAG
58520618 TCCCGAAGGG
Statistics
Matches: 364, Mismatches: 11, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
94 49 0.13
95 1 0.00
96 239 0.66
98 75 0.21
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (97 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
AATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:58520404 original size:145 final size:145
Alignment explanation
Indices: 58520141--58520617 Score: 827
Period size: 145 Copynumber: 3.3 Consensus size: 145
58520131 TAGTATGGCG
* *
58520141 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
58520206 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
58520271 ATATGTGATAAGGCC
131 ATATGTGATAAGGCC
58520286 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
58520351 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
58520416 ATATGTGATAAGGCC
131 ATATGTGATAAGGCC
*
58520431 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATACGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
58520496 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
58520559 ATATGTGACAGGGCC
131 ATATGTGATAAGGCC
* * * * * *
58520574 GAGTCGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
58520618 TCCCGAAGGG
Statistics
Matches: 320, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
141 9 0.03
142 1 0.00
143 90 0.28
145 220 0.69
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (145 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCC
Found at i:58525305 original size:27 final size:26
Alignment explanation
Indices: 58525270--58525381 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
58525260 AGCATGGCTG
** *
58525270 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
58525296 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
58525324 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
58525351 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
58525378 CCAG
1 CCAG
58525382 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:58525361 original size:54 final size:54
Alignment explanation
Indices: 58525270--58525381 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
58525260 AGCATGGCTG
* * *
58525270 CCAGAACAGATAATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
58525324 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
58525378 CCAG
1 CCAG
58525382 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:58526825 original size:24 final size:24
Alignment explanation
Indices: 58526798--58526844 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
58526788 CTAGATTTGC
** *
58526798 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCGAAATCCTA
58526822 TCCCTTATCAACTCCGAAATCCT
1 TCCCTTATCAACTCCGAAATCCT
58526845 CTCCTGATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.38, G:0.04, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCGAAATCCTA
Found at i:58531922 original size:20 final size:20
Alignment explanation
Indices: 58531889--58531928 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
58531879 CATAATCTCC
*
58531889 ACACGAAGTTATCGGGTCTT
1 ACACGAAGTCATCGGGTCTT
*
58531909 ACACGTAGTCATCGGGTCTT
1 ACACGAAGTCATCGGGTCTT
58531929 TAGAGTTCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (20 bp):
ACACGAAGTCATCGGGTCTT
Found at i:58532125 original size:47 final size:47
Alignment explanation
Indices: 58532047--58532490 Score: 708
Period size: 47 Copynumber: 9.4 Consensus size: 47
58532037 CCCTTCGGGA
* * * * * * *
58532047 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58532094 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58532141 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58532188 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58532235 GTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58532282 CTTATCACACATATACACTTTGACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58532329 CTTATCACATATATATACACTTTCACATTCATCAGATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58532378 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58532425 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58532472 CTTATCACATATATACACT
1 CTTATCACATATATACACT
58532491 GTCTTGGCTG
Statistics
Matches: 369, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 325 0.88
49 44 0.12
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58532402 original size:190 final size:188
Alignment explanation
Indices: 58532047--58532490 Score: 717
Period size: 190 Copynumber: 2.4 Consensus size: 188
58532037 CCCTTCGGGA
* * * * * * * * * *
58532047 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
58532112 TTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATC
* *
58532177 GGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58532235 GTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
* * *
58532300 TTTGACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAGA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTA-C-CACATATATACACTTTCACATTCATCACA
58532365 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58532425 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
58532490 T
66 T
58532491 GTCTTGGCTG
Statistics
Matches: 235, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
188 85 0.36
189 1 0.00
190 149 0.63
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (188 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58536139 original size:40 final size:39
Alignment explanation
Indices: 58536036--58536173 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 39
58536026 CCGACATGAT
* * *
58536036 TGCTCTTC-GGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAG-CCGGATATATCACTAGCACGAA
**
58536075 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGC-CGGATATATCACTAGCACGAA
* * *
58536115 TGCTCTTCGGAACTTAGTCTGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGACTTAG-CCGGATAT-ATCAC-TAGCACGAA
*
58536156 AGC-CTTCGGGACTTAGCC
1 TGCTCTTCGGGACTTAGCC
58536174 CGGACATCAT
Statistics
Matches: 81, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
39 10 0.12
40 56 0.69
41 9 0.11
42 6 0.07
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
TGCTCTTCGGGACTTAGCCGGATATATCACTAGCACGAA
Found at i:58536522 original size:29 final size:29
Alignment explanation
Indices: 58536483--58536561 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
58536473 CTTAATAATC
*
58536483 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
58536513 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
58536542 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
58536562 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:58536605 original size:43 final size:43
Alignment explanation
Indices: 58536543--58536642 Score: 191
Period size: 43 Copynumber: 2.3 Consensus size: 43
58536533 TGCATTTCAA
*
58536543 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGGGCCAATCTCACAACCGTGAACACTTATT
58536586 GCCCGCACACTTAGGGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGGGCCAATCTCACAACCGTGAACACTTATT
58536629 GCCCGCACACTTAG
1 GCCCGCACACTTAG
58536643 TGCTGAAAAC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.27, C:0.36, G:0.16, T:0.21
Consensus pattern (43 bp):
GCCCGCACACTTAGGGCCAATCTCACAACCGTGAACACTTATT
Found at i:58538559 original size:37 final size:37
Alignment explanation
Indices: 58538509--58538587 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 37
58538499 TTATTACGAA
* *
58538509 GTCTTACCCGGACATAA-TCTCCACACGA-AGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACAC-ATAGTCATCGG
58538546 GTCTTACCCGGACAAAATTCCCACACATAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACATAGTCATCGG
58538583 GTCTT
1 GTCTT
58538588 TAGAGTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 1 0.03
37 35 0.92
38 2 0.05
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACATAGTCATCGG
Found at i:58538923 original size:46 final size:47
Alignment explanation
Indices: 58538705--58539056 Score: 584
Period size: 47 Copynumber: 7.6 Consensus size: 47
58538695 CCCTTCGGGA
* * * * * * *
58538705 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58538752 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58538799 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58538846 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58538893 CTTATCACA-ATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58538938 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58538984 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58539031 CTTATCACATATATACACTTTCACAT
1 CTTATCACATATATACACTTTCACAT
58539057 CTAATCATTC
Statistics
Matches: 288, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
45 16 0.06
46 102 0.35
47 170 0.59
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58560689 original size:42 final size:42
Alignment explanation
Indices: 58560630--58560748 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 42
58560620 GGGTTAGTTG
*
58560630 AGATTATGTGTAAGACCATATTTGGGATATGGCATCGATATA
1 AGATTATGTGTAAGACCATATCTGGGATATGGCATCGATATA
* * * * * *
58560672 AGATTTTGTGTAAGACCAAAGCTGGGCTATTAGCATCGATTTA
1 AGATTATGTGTAAGACCATATCTGGGATA-TGGCATCGATATA
****
58560715 AGATCCCATGTAAGACCATATCTGGGATATGGCA
1 AGATTATGTGTAAGACCATATCTGGGATATGGCA
58560749 ATAGTATGGT
Statistics
Matches: 61, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 28 0.46
43 33 0.54
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (42 bp):
AGATTATGTGTAAGACCATATCTGGGATATGGCATCGATATA
Found at i:58560718 original size:43 final size:42
Alignment explanation
Indices: 58560630--58560718 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
58560620 GGGTTAGTTG
* ** *
58560630 AGATTATGTGTAAGACCATATTTGGGATATGGCATCGATATA
1 AGATTATGTGTAAGACCAAAGCTGGGATATAGCATCGATATA
* * *
58560672 AGATTTTGTGTAAGACCAAAGCTGGGCTATTAGCATCGATTTA
1 AGATTATGTGTAAGACCAAAGCTGGGATA-TAGCATCGATATA
58560715 AGAT
1 AGAT
58560719 CCCATGTAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 24 0.62
43 15 0.38
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.33
Consensus pattern (42 bp):
AGATTATGTGTAAGACCAAAGCTGGGATATAGCATCGATATA
Found at i:58572971 original size:20 final size:20
Alignment explanation
Indices: 58572927--58572971 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
58572917 TGGGGGAAAG
*
58572927 AAGAAGAGAAAGTAAATGAA
1 AAGAAGAGAAAGAAAATGAA
*
58572947 GAGAAGAGAAAAGAAAAT-AA
1 AAGAAGAG-AAAGAAAATGAA
58572967 AAGAA
1 AAGAA
58572972 AAAGAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (20 bp):
AAGAAGAGAAAGAAAATGAA
Found at i:58572976 original size:16 final size:16
Alignment explanation
Indices: 58572950--58572983 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
58572940 AAATGAAGAG
58572950 AAGAGAAAAGAAAATAA
1 AAGAGAAAAGAAAA-AA
58572967 AAGA-AAAAGAAAAAA
1 AAGAGAAAAGAAAAAA
58572982 AA
1 AA
58572984 CTGAATCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 9 0.53
17 4 0.24
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (16 bp):
AAGAGAAAAGAAAAAA
Found at i:58573928 original size:51 final size:51
Alignment explanation
Indices: 58573812--58573947 Score: 155
Period size: 51 Copynumber: 2.7 Consensus size: 51
58573802 CTACCATCAA
* * *
58573812 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
* * ** * * * **
58573863 ATATGTAATCTTATAAAATAATATCTTATAAGTTTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
*
58573914 ATCTCTAAGATTATAATATCATATCTTTTAAGAT
1 ATCTCTAAGATTATAATATCATATCTTATAAGAT
58573948 CATGTTTCCA
Statistics
Matches: 65, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
Found at i:58574657 original size:15 final size:16
Alignment explanation
Indices: 58574623--58574657 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
58574613 TTTTCCTATC
58574623 AAATAATAATTATTAT
1 AAATAATAATTATTAT
58574639 -AATAATAATT-TTAT
1 AAATAATAATTATTAT
58574653 AAATA
1 AAATA
58574658 TATCTAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATAATAATTATTAT
Found at i:58577253 original size:27 final size:26
Alignment explanation
Indices: 58577197--58577253 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
58577187 CAACCTTAAC
* *
58577197 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACA
* *
58577223 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTACA
58577250 CCTA
1 CCTA
58577254 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACA
Found at i:58578506 original size:5 final size:5
Alignment explanation
Indices: 58578475--58578533 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
58578465 GGCTATGGGG
* * *
58578475 GAAAA GAAGAA GAGAAA GTAAAT GAAGA GAAGA GAAAA GAAAA GAAAA
1 GAAAA GAA-AA GA-AAA G-AAAA GAAAA GAAAA GAAAA GAAAA GAAAA
58578523 GAAGAA GAAAA
1 GAA-AA GAAAA
58578534 AAATTGCATC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 29 0.63
6 15 0.33
7 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.03
Consensus pattern (5 bp):
GAAAA
Found at i:58578525 original size:20 final size:22
Alignment explanation
Indices: 58578475--58578533 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 22
58578465 GGCTATGGGG
*
58578475 GAAAAGAAGAAGAGAAAGTAAAT
1 GAAAAGAAGAAGA-AAAGTAAAA
*
58578498 GAAGAGAAG-AGAAAAG-AAAA
1 GAAAAGAAGAAGAAAAGTAAAA
58578518 GAAAAGAAGAAGAAAA
1 GAAAAGAAGAAGAAAA
58578534 AAATTGCATC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 11 0.34
21 10 0.31
22 3 0.09
23 8 0.25
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.03
Consensus pattern (22 bp):
GAAAAGAAGAAGAAAAGTAAAA
Found at i:58579457 original size:15 final size:15
Alignment explanation
Indices: 58579420--58579448 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
58579410 TATTCCTATC
58579420 TAATAATAATAATTA
1 TAATAATAATAATTA
58579435 TAATAATAATAATT
1 TAATAATAATAATT
58579449 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:58579562 original size:17 final size:19
Alignment explanation
Indices: 58579540--58579585 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
58579530 ACATACATGC
58579540 AATAAT-ATTTT-TCTAAT
1 AATAATAATTTTATCTAAT
*
58579557 AATAATAATTTTATCTCAT
1 AATAATAATTTTATCTAAT
*
58579576 AATACTAATT
1 AATAATAATT
58579586 AAAATTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
19 14 0.56
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
AATAATAATTTTATCTAAT
Found at i:58582472 original size:28 final size:29
Alignment explanation
Indices: 58582407--58582504 Score: 123
Period size: 28 Copynumber: 3.4 Consensus size: 29
58582397 CATGAGATTG
* *
58582407 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
58582436 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
*
58582464 GCACTAAGTGTGCGA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
58582492 GCACTAAGTGTGC
1 GCACTAAGTGTGC
58582505 AGGCTTATTA
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
27 4 0.06
28 41 0.65
29 14 0.22
30 4 0.06
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:58591191 original size:36 final size:35
Alignment explanation
Indices: 58591104--58591198 Score: 118
Period size: 36 Copynumber: 2.7 Consensus size: 35
58591094 AATATTTTGG
* * * *
58591104 TTCGCATGTTAAGCATGCTATTAATTTGATTTTGA
1 TTCGCATGTTAAGCATGCAATTATTTTCATTCTGA
* *
58591139 CTCGCATGTTAAGCATGCCATTATTTCTCATTCTGA
1 TTCGCATGTTAAGCATGCAATTATTT-TCATTCTGA
*
58591175 TTCGCATGTTAGGCATGCAATTAT
1 TTCGCATGTTAAGCATGCAATTAT
58591199 GTTAAATCGA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 23 0.45
36 28 0.55
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (35 bp):
TTCGCATGTTAAGCATGCAATTATTTTCATTCTGA
Found at i:58596904 original size:79 final size:78
Alignment explanation
Indices: 58596802--58597024 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
58596792 GCTCCTCGTT
* *
58596802 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
58596867 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
58596882 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
58596945 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
58596960 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
58597023 GA
63 GA
58597025 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:58596919 original size:39 final size:40
Alignment explanation
Indices: 58596802--58597024 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
58596792 GCTCCTCGTT
* *
58596802 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
58596842 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
58596882 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
58596921 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
58596960 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
58597001 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58597025 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:58599727 original size:46 final size:45
Alignment explanation
Indices: 58599657--58599827 Score: 157
Period size: 46 Copynumber: 3.7 Consensus size: 45
58599647 GGGGTCAGGT
* *
58599657 GCCGATGCATGTCCCAAACATGTCTTCCACTGGCTTACGTCTTAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTTAAG
* * * *
58599703 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTCTTAAG
* * ** **
58599749 GCCGATGCCATGGT-CTAGACATGGTCTTACACTGGCTCTCATGATGTG
1 GCCGATG-CAT-GTCCCAGACAT-GTCTTACACTGGCT-TCGTCTTAAG
58599797 GCCGATGCATG-CCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCC-AGACATGTCTTACACT
58599828 AGCTCACACA
Statistics
Matches: 101, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
46 56 0.55
47 20 0.20
48 25 0.25
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTTAAG
Found at i:58611691 original size:68 final size:66
Alignment explanation
Indices: 58611619--58611790 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
58611609 CATCATGTGT
* * * *
58611619 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
58611682 TGTAG
62 TGTAG
** * *
58611687 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
58611752 AG
65 AG
* * * *
58611754 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
58611791 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:58611724 original size:64 final size:64
Alignment explanation
Indices: 58611643--58611826 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
58611633 AGACATTATG
* * *
58611643 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
58611707 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
58611772 AA
63 AA
* * *
58611774 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
58611827 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:58627290 original size:20 final size:20
Alignment explanation
Indices: 58627265--58627306 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
58627255 TCTTTGGTTC
58627265 TTGATCTAAAAAAATTCAAA
1 TTGATCTAAAAAAATTCAAA
58627285 TTGATCTAAAAAAATTCAAA
1 TTGATCTAAAAAAATTCAAA
58627305 TT
1 TT
58627307 AAACTTATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (20 bp):
TTGATCTAAAAAAATTCAAA
Found at i:58634812 original size:45 final size:45
Alignment explanation
Indices: 58634682--58634813 Score: 118
Period size: 44 Copynumber: 3.0 Consensus size: 45
58634672 ATGCTATCTC
* *
58634682 ATATCAATGCCACTGTCCCAGACAG-GGTCTTACAC--GAATCA-A-
1 ATATCGATGCCAATGTCCCAGAC-GTGGTCTTACACAAGAA-CACAT
** * * *
58634724 ATAT-GATGCTGATGTCCCAGACAT-GTCTTACTCATA-ACCACAT
1 ATATCGATGCCAATGTCCCAGACGTGGTCTTACACA-AGAACACAT
58634767 ATATCGATGCCAATGTCCCAGACGTGGTCTTACACAAGAACACAT
1 ATATCGATGCCAATGTCCCAGACGTGGTCTTACACAAGAACACAT
58634812 AT
1 AT
58634814 CAGAAATCCT
Statistics
Matches: 69, Mismatches: 12, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
40 8 0.12
41 16 0.23
42 6 0.09
43 4 0.06
44 18 0.26
45 17 0.25
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (45 bp):
ATATCGATGCCAATGTCCCAGACGTGGTCTTACACAAGAACACAT
Found at i:58639098 original size:64 final size:64
Alignment explanation
Indices: 58639017--58639199 Score: 194
Period size: 64 Copynumber: 2.8 Consensus size: 64
58639007 AGACATTATG
* * *
58639017 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
58639081 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAA-AGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
58639145 AA
63 AA
* * *
58639147 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
58639200 CAACTATATG
Statistics
Matches: 97, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
61 1 0.01
62 13 0.13
63 6 0.06
64 24 0.25
65 19 0.20
66 18 0.19
67 16 0.16
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:58650133 original size:8 final size:8
Alignment explanation
Indices: 58650120--58650144 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
58650110 CTAGGGTTTG
58650120 TTTCAAGC
1 TTTCAAGC
58650128 TTTCAAGC
1 TTTCAAGC
58650136 TTTCAAGC
1 TTTCAAGC
58650144 T
1 T
58650145 CCATATTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (8 bp):
TTTCAAGC
Found at i:58650968 original size:46 final size:48
Alignment explanation
Indices: 58650896--58650998 Score: 138
Period size: 46 Copynumber: 2.2 Consensus size: 48
58650886 GACAGGACAG
* * * * *
58650896 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCAAGTAAGCCCATATCATATATATATGGCATTGGA
*
58650942 GACAGGAATGAGCCAAGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCAAGTAAGCCCATATCATATATATATGGCATTGGA
58650990 GACAGGAAT
1 GACAGGAAT
58650999 AATTCATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 26 0.53
47 1 0.02
48 22 0.45
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (48 bp):
GACAGGAATGAGCCAAGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:58653928 original size:28 final size:29
Alignment explanation
Indices: 58653896--58653994 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 29
58653886 ATAATAAGCC
*
58653896 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
*
58653924 CGCACACTTAGTGC-TATATAATC-AACCT
1 CGCACACTTAGTGCTTACATAATCGAA-CT
* * *
58653952 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
58653981 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58653995 CAATCTCATG
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.07
28 35 0.57
29 17 0.28
30 5 0.08
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:58655755 original size:32 final size:32
Alignment explanation
Indices: 58655714--58655779 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
58655704 TACCTCATGC
58655714 TTAGCATATTGTTGGAAGAATTATCCTTAGAT
1 TTAGCATATTGTTGGAAGAATTATCCTTAGAT
*
58655746 TTAGCATATTTTTGGAAGAATTATCCTTAGAT
1 TTAGCATATTGTTGGAAGAATTATCCTTAGAT
58655778 TT
1 TT
58655780 GTGAATTCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (32 bp):
TTAGCATATTGTTGGAAGAATTATCCTTAGAT
Found at i:58657283 original size:14 final size:14
Alignment explanation
Indices: 58657266--58657318 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
58657256 ACGTGTGTAG
58657266 TACTAAGTGTAGGC
1 TACTAAGTGTAGGC
*
58657280 TACTACGTGT-GTAG-
1 TACTAAGTGTAG--GC
58657294 TACTAAGTGTAGGC
1 TACTAAGTGTAGGC
*
58657308 TACTACGTGTA
1 TACTAAGTGTA
58657319 TCAGATGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 2 0.06
14 28 0.88
15 2 0.06
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (14 bp):
TACTAAGTGTAGGC
Found at i:58657288 original size:28 final size:28
Alignment explanation
Indices: 58657256--58657363 Score: 131
Period size: 28 Copynumber: 4.1 Consensus size: 28
58657246 AACTTCGATC
58657256 ACGTGTGTAGTACTAAGTGTAGGCTACT
1 ACGTGTGTAGTACTAAGTGTAGGCTACT
58657284 ACGTGTGTAGTACTAAGTGTAGGCTACT
1 ACGTGTGTAGTACTAAGTGTAGGCTACT
* *
58657312 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGTAGGCTACT
*
58657334 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGTAGGCTACT
58657362 AC
1 AC
58657364 ATGTACCAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
21 2 0.03
22 8 0.12
23 2 0.03
24 3 0.04
25 7 0.10
26 3 0.04
27 2 0.03
28 38 0.57
29 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.31
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGTAGGCTACT
Found at i:58657343 original size:50 final size:49
Alignment explanation
Indices: 58657284--58657424 Score: 183
Period size: 49 Copynumber: 2.9 Consensus size: 49
58657274 GTAGGCTACT
* * **
58657284 ACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTC
* *
58657334 ACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTT
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTC
* * * *
58657383 GCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
58657425 GCTTTGGCTA
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
49 40 0.50
50 40 0.50
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (49 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTC
Found at i:58657358 original size:78 final size:79
Alignment explanation
Indices: 58657208--58657363 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 79
58657198 TACGGTCGCA
* * *
58657208 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTTAGATCACGTGTGTAGTACTAAG
*
58657273 TGTAGGCTACTACG
66 TGCAGGCTACTACG
* * * ** *
58657287 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGAT-GGTTAGGTCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTTAGATCACGTGTGTAGTACTAAG
58657351 TGCAGGCTACTAC
66 TGCAGGCTACTAC
58657364 ATGTACCAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
78 34 0.51
79 33 0.49
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (79 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTTAGATCACGTGTGTAGTACTAAG
TGCAGGCTACTACG
Found at i:58657402 original size:49 final size:50
Alignment explanation
Indices: 58657287--58657411 Score: 171
Period size: 50 Copynumber: 2.5 Consensus size: 50
58657277 GGCTACTACG
* * * ** *
58657287 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTAGGTCACA
**
58657337 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT-GGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTAGGTCACA
58657386 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
58657412 TGTGTACTAG
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 30 0.45
50 37 0.55
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTAGGTCACA
Found at i:58659510 original size:51 final size:51
Alignment explanation
Indices: 58659450--58659551 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
58659440 TGATTCAGAG
58659450 TCAAATAAAAAGTGAAGTCAAGGTGAAATTTTCCTTGGGTATTGTCTTAAT
1 TCAAATAAAAAGTGAAGTCAAGGTGAAATTTTCCTTGGGTATTGTCTTAAT
*
58659501 TCAAATAAAAAGTGAAGTCAAGGTGAATTTTTCCTTGGGTATTGTCTTAAT
1 TCAAATAAAAAGTGAAGTCAAGGTGAAATTTTCCTTGGGTATTGTCTTAAT
58659552 CAATCAGTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (51 bp):
TCAAATAAAAAGTGAAGTCAAGGTGAAATTTTCCTTGGGTATTGTCTTAAT
Found at i:58664825 original size:18 final size:18
Alignment explanation
Indices: 58664784--58664827 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
58664774 TGTTTAAAGA
*
58664784 CTTTTTATTTTTATTTTC
1 CTTTTTATATTTATTTTC
*
58664802 CCTTTTATATTTATTTATC
1 CTTTTTATATTTATTT-TC
*
58664821 TTTTTTA
1 CTTTTTA
58664828 AGTACTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (18 bp):
CTTTTTATATTTATTTTC
Found at i:58664858 original size:25 final size:26
Alignment explanation
Indices: 58664811--58664868 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
58664801 CCCTTTTATA
*
58664811 TTTA-TTTATCTTTTTTAAGTACT-T
1 TTTATTTTATCTTATTTAAGTACTAT
58664835 TTTATTTTATCTTCATTTAA-TACTAT
1 TTTATTTTATCTT-ATTTAAGTACTAT
*
58664861 TTCATTTT
1 TTTATTTT
58664869 TAGGTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 4 0.14
25 12 0.41
26 13 0.45
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTATTTTATCTTATTTAAGTACTAT
Found at i:58674779 original size:43 final size:43
Alignment explanation
Indices: 58674731--58674889 Score: 148
Period size: 43 Copynumber: 3.7 Consensus size: 43
58674721 AGCTTATACA
* *
58674731 ATGCCAACGACCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
* *
58674774 ATGCC-ACTGTCCTAGA--TAGCGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGACGT-G-GTCTTACACGTAATCAAATATCG
* * * *
58674816 ATACGAACGTCCCAGACATGGTCTTACACGTCAATCATAAT-TCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT-AATCA-AATATCG
* *
58674860 ATGCCAACGTCTCAGATGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
58674890 AAAACACATA
Statistics
Matches: 93, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
41 1 0.01
42 24 0.26
43 39 0.42
44 29 0.31
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
Found at i:58681516 original size:35 final size:36
Alignment explanation
Indices: 58681477--58681562 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 36
58681467 TTTTGGTTTG
* *
58681477 CATGTTAAGCATGCTATTAATTT-T-ATTTTGACTCA
1 CATGTTAAGCATGCCATT-ATTTCTCATTCTGACTCA
* *
58681512 CATGTTAAGCATGCCATTATTTCTCATTCTGATTCC
1 CATGTTAAGCATGCCATTATTTCTCATTCTGACTCA
*
58681548 CATGTTAGGCATGCC
1 CATGTTAAGCATGCC
58681563 CAGCCATCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
34 4 0.09
35 18 0.41
36 22 0.50
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (36 bp):
CATGTTAAGCATGCCATTATTTCTCATTCTGACTCA
Found at i:58682462 original size:40 final size:40
Alignment explanation
Indices: 58682407--58682488 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
58682397 AATGTTTTAA
58682407 TTGAAGTAGGGTGTTTTCTGAAAAATATCAGAACTTGAGT
1 TTGAAGTAGGGTGTTTTCTGAAAAATATCAGAACTTGAGT
58682447 TTGAAGTAGGGTGTTTTCTGAAAAATATCAGAACTTGAGT
1 TTGAAGTAGGGTGTTTTCTGAAAAATATCAGAACTTGAGT
58682487 TT
1 TT
58682489 TCTAAATATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (40 bp):
TTGAAGTAGGGTGTTTTCTGAAAAATATCAGAACTTGAGT
Found at i:58682884 original size:29 final size:29
Alignment explanation
Indices: 58682849--58682904 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
58682839 TCTATACACC
*
58682849 GTGAAACTTTAAATTCTGAAAACTATATT
1 GTGAAACTCTAAATTCTGAAAACTATATT
*
58682878 GTGAAACTCTAGATTCTGAAAACTATA
1 GTGAAACTCTAAATTCTGAAAACTATA
58682905 GATACTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (29 bp):
GTGAAACTCTAAATTCTGAAAACTATATT
Found at i:58688207 original size:52 final size:52
Alignment explanation
Indices: 58688145--58688254 Score: 220
Period size: 52 Copynumber: 2.1 Consensus size: 52
58688135 CATACAAAGT
58688145 CATGTTTTCCATCAACTTGGCAAAATTGCCTAAACATATGCATTCAATCAAA
1 CATGTTTTCCATCAACTTGGCAAAATTGCCTAAACATATGCATTCAATCAAA
58688197 CATGTTTTCCATCAACTTGGCAAAATTGCCTAAACATATGCATTCAATCAAA
1 CATGTTTTCCATCAACTTGGCAAAATTGCCTAAACATATGCATTCAATCAAA
58688249 CATGTT
1 CATGTT
58688255 AGTCACAAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (52 bp):
CATGTTTTCCATCAACTTGGCAAAATTGCCTAAACATATGCATTCAATCAAA
Found at i:58696304 original size:43 final size:43
Alignment explanation
Indices: 58696239--58696352 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
58696229 CATTAGGATT
* * * *
58696239 ATCGAGATGTAATTACATGTAAGACCATGTCTGGGACATTGGC
1 ATCGATATGTGATAACATGTAAGACCATGTCTGGGACAGTGGC
* ** * *
58696282 ATTG-TATTGTGATTTCGTGTAAGACCTTGTCTGGGACAGTGGC
1 ATCGATA-TGTGATAACATGTAAGACCATGTCTGGGACAGTGGC
58696325 ATCGATATGTGATAACATGTAAGACCAT
1 ATCGATATGTGATAACATGTAAGACCAT
58696353 ATCTAAGATA
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
42 1 0.02
43 54 0.95
44 2 0.04
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
ATCGATATGTGATAACATGTAAGACCATGTCTGGGACAGTGGC
Found at i:58697604 original size:18 final size:18
Alignment explanation
Indices: 58697581--58697692 Score: 197
Period size: 18 Copynumber: 6.2 Consensus size: 18
58697571 TTCACACGTC
58697581 CTGGTGACACGGGCGTGT
1 CTGGTGACACGGGCGTGT
58697599 CTGGTGACACGGGCGTGT
1 CTGGTGACACGGGCGTGT
*
58697617 CTGGTGACACGGGTGTGT
1 CTGGTGACACGGGCGTGT
*
58697635 CTGGTGACATGGGCGTGT
1 CTGGTGACACGGGCGTGT
58697653 CTGGTGACACGGGCGTGT
1 CTGGTGACACGGGCGTGT
*
58697671 CTGGTGACACGGGTGTGT
1 CTGGTGACACGGGCGTGT
58697689 CTGG
1 CTGG
58697693 CTCACACGGC
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 89 1.00
ACGTcount: A:0.11, C:0.20, G:0.45, T:0.25
Consensus pattern (18 bp):
CTGGTGACACGGGCGTGT
Found at i:58699611 original size:94 final size:94
Alignment explanation
Indices: 58699463--58699635 Score: 231
Period size: 94 Copynumber: 1.8 Consensus size: 94
58699453 TTGTATATAG
* * * * *
58699463 CGAGGCTGATGTATGTCCCAGAGATGTCTTACACTAGCTCTCGTCTCAATGCCGATGCATGCCCC
1 CGAGGCTGAAGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAATGCCGATGCATGCCCC
58699528 AAACATGTATTACATTGGCTTAAATATCT
66 AAACATGTATTACATTGGCTTAAATATCT
* ** *
58699557 CGAGGCTGAAGCATGTCTCAGACATGTCTTACACTAGCTCTCATAT-TGTGGCCGATGCATGTCC
1 CGAGGCTGAAGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAAT-GCCGATGCATGCCC
* *
58699621 CAGACATGTCTTACA
65 CAAACATGTATTACA
58699636 CTAGCACACA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
93 1 0.01
94 66 0.99
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (94 bp):
CGAGGCTGAAGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAATGCCGATGCATGCCCC
AAACATGTATTACATTGGCTTAAATATCT
Found at i:58699625 original size:46 final size:47
Alignment explanation
Indices: 58699470--58699640 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 47
58699460 TAGCGAGGCT
* * * * **
58699470 GATGTATGTCCCAGAGATGTCTTACACTAGCTCTCGTCTCAAT-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCTGTGGCC
* * * * * * * *
58699516 GATGCATGCCCCAAACATGTATTACATTGGCT-TAAATATCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATATCT-GTGGCC
* *
58699564 GAAGCATGTCTCAGACATGTCTTACACTAGCTCTCATAT-TGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCTGTGGCC
58699610 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
58699641 ACACAAATGA
Statistics
Matches: 95, Mismatches: 26, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
45 1 0.01
46 61 0.64
47 1 0.01
48 31 0.33
49 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCTGTGGCC
Found at i:58703108 original size:28 final size:27
Alignment explanation
Indices: 58703056--58703108 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
58703046 ACCACAATTT
**
58703056 GGGCCTATGCCCTTTCAGTTTCAGTTA
1 GGGCCTATGCCCTTTCAGTAACAGTTA
58703083 GGGCCT-TAGCCCATTTCAGTAACAGT
1 GGGCCTAT-GCCC-TTTCAGTAACAGT
58703109 AGCAGTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 1 0.05
27 10 0.45
28 11 0.50
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (27 bp):
GGGCCTATGCCCTTTCAGTAACAGTTA
Found at i:58703581 original size:27 final size:27
Alignment explanation
Indices: 58703495--58703568 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
58703485 TACACATCGT
* *
58703495 AGGGCAAATCAGTCATTTTACCTTACA
1 AGGGTAAAACAGTCATTTTACCTTACA
58703522 AGGGTAAAACAGTCATTTTACCTTACA
1 AGGGTAAAACAGTCATTTTACCTTACA
* *
58703549 GGGGTAATACAGTCATTTTA
1 AGGGTAAAACAGTCATTTTA
58703569 TCCTATATGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (27 bp):
AGGGTAAAACAGTCATTTTACCTTACA
Found at i:58703592 original size:27 final size:27
Alignment explanation
Indices: 58703562--58703667 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 27
58703552 GTAATACAGT
* **
58703562 CATTTTATCCTATATGGGTATTTCGGC
1 CATTTTACCCTATGGGGGTATTTCGGC
* **
58703589 CATTTTGCCCTATGGGGGTATTTCGAT
1 CATTTTACCCTATGGGGGTATTTCGGC
*
58703616 CATTTTACCCTATGGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCGGC
* *
58703643 TATTTCACCCTATGGGGGTATTTCG
1 CATTTTACCCTATGGGGGTATTTCG
58703668 ATCACCATTT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.42
Consensus pattern (27 bp):
CATTTTACCCTATGGGGGTATTTCGGC
Found at i:58703607 original size:54 final size:54
Alignment explanation
Indices: 58703549--58703671 Score: 131
Period size: 54 Copynumber: 2.3 Consensus size: 54
58703539 TTACCTTACA
* * **
58703549 GGGGTAATAC-AGTCATTTTATCCTATATGGGTATTTCGGCCATTTTGCCCTATG
1 GGGGTAATACGA-TCATTTTACCCTATAGGGGTATTTCGGCCATTTCACCCTATG
* * * **
58703603 GGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTTATTTCACCCTATG
1 GGGGTAATACGATCATTTTACCCTATAGGGGTATTTCGGCCATTTCACCCTATG
* *
58703657 GGGGTATTTCGATCA
1 GGGGTAATACGATCA
58703672 CCATTTTGGC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 58 0.98
55 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (54 bp):
GGGGTAATACGATCATTTTACCCTATAGGGGTATTTCGGCCATTTCACCCTATG
Found at i:58715471 original size:39 final size:39
Alignment explanation
Indices: 58715417--58715550 Score: 130
Period size: 39 Copynumber: 3.4 Consensus size: 39
58715407 AAACCAAGTT
* * * *
58715417 CCTTCAGAATTTAGCCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCAGGACTTAGCCGGATATAG-TAACTAGCACAAATG
* *
58715456 CCTTCAGGACTTAGCCTGGTTATAGTAACTCGCACAAATG
1 CCTTCAGGACTTAGCC-GGATATAGTAACTAGCACAAATG
* *
58715496 CCTTC-GGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCAGGACTTAG-CCGGATA-TAGTAACTAGCACAAATG
*
58715535 CCTTCGGGACTTAGCC
1 CCTTCAGGACTTAGCC
58715551 CAGTTATCAT
Statistics
Matches: 80, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
38 1 0.01
39 47 0.59
40 32 0.40
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (39 bp):
CCTTCAGGACTTAGCCGGATATAGTAACTAGCACAAATG
Found at i:58721272 original size:40 final size:40
Alignment explanation
Indices: 58721195--58721375 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
58721185 AAACCAAGTA
* * * *
58721195 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTTGCACAAATG
58721234 CCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATG
* * *
58721274 CCTTCGGGACTTAGCCCGATTATACTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATG
* * *
58721314 CCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTTGCACAAATG
58721353 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
58721376 CATTTGAATA
Statistics
Matches: 124, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 45 0.36
40 77 0.62
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATG
Found at i:58721326 original size:79 final size:80
Alignment explanation
Indices: 58721228--58721375 Score: 237
Period size: 79 Copynumber: 1.9 Consensus size: 80
58721218 GCTACTTGCT
* *
58721228 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCG
58721292 ATTATACTAACTCGCA
65 ATTATACTAACTCGCA
* *
58721308 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGA
58721372 TTAT
66 TTAT
58721376 CATTTGAATA
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
79 48 0.76
80 15 0.24
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGA
TTATACTAACTCGCA
Found at i:58734505 original size:40 final size:40
Alignment explanation
Indices: 58734450--58734593 Score: 200
Period size: 40 Copynumber: 3.5 Consensus size: 40
58734440 TATTCGGATG
58734450 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
58734490 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
58734533 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
58734573 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
58734594 ATACTTGGGT
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
39 14 0.15
40 41 0.45
41 1 0.01
43 36 0.39
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:58744693 original size:40 final size:40
Alignment explanation
Indices: 58744633--58744984 Score: 587
Period size: 40 Copynumber: 8.7 Consensus size: 40
58744623 GAGCATTGGA
*
58744633 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
58744673 ATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
58744713 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
58744753 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
58744793 ATATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 --ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
58744835 ATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
58744875 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
58744915 ATATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 --ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
58744957 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
58744985 ATGTGTTTGC
Statistics
Matches: 294, Mismatches: 14, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
40 218 0.74
42 76 0.26
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Done.