Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 240 of 322
Found at i:79892974 original size:14 final size:13
Alignment explanation
Indices: 79892954--79892985 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
79892944 AATATTTAAC
79892954 TTGTTCTTAATTA
1 TTGTTCTTAATTA
79892967 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
79892981 TTGTT
1 TTGTT
79892986 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:79903476 original size:29 final size:28
Alignment explanation
Indices: 79903439--79903515 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 28
79903429 CATGAGATTG
*
79903439 GCACCAAGTGTGCGGGTTTAAATTGTACA-
1 GCACTAAGTGTGCGGGTTTAAA--GTACAT
*
79903468 GCACTAAGTGTGCGAGTTTAAAGTACAT
1 GCACTAAGTGTGCGGGTTTAAAGTACAT
79903496 GACACTAAGTGTGCGTGGTT
1 G-CACTAAGTGTGCG-GGTT
79903516 GATTATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.79
30 3 0.07
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGGGTTTAAAGTACAT
Found at i:79903734 original size:174 final size:174
Alignment explanation
Indices: 79903468--79903795 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
79903458 AAATTGTACA
79903468 GCACTAAGTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
* **
79903533 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTTGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
79903598 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
79903642 GCACTAAGTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
* * *
79903707 TGTGCGAACCCGATATATATTTTCTATAAATTATTTATATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
79903772 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
79903796 ACCTTGAGTA
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:79910440 original size:17 final size:17
Alignment explanation
Indices: 79910414--79910447 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
79910404 TATATATTTG
*
79910414 AAATATGTTACAATATA
1 AAATAAGTTACAATATA
*
79910431 AAATAAGTTATAATATA
1 AAATAAGTTACAATATA
79910448 TTAAGTGGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (17 bp):
AAATAAGTTACAATATA
Found at i:79911797 original size:24 final size:24
Alignment explanation
Indices: 79911765--79911893 Score: 143
Period size: 24 Copynumber: 5.4 Consensus size: 24
79911755 GAAATGACAT
79911765 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
79911789 TGGCACTATGTGTACAGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
79911813 TGGCACTATGTGTCCGGACTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * *
79911837 TGGCACTACGTGTGTGGATTAGCAA
1 TGGCACTATGTGTGCGGATTTG-AA
* * * *
79911862 -GGCACTATGTGTGTGGGTTAGCA
1 TGGCACTATGTGTGCGGATTTGAA
79911885 TGGCACTAT
1 TGGCACTAT
79911894 ATGTACGAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
23 1 0.01
24 87 0.97
25 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:79913047 original size:30 final size:29
Alignment explanation
Indices: 79913013--79913076 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
79913003 ATGAATCGGA
*
79913013 AGCTTTGACACTAAGTGTGTGATTTAAACT
1 AGCTTTGACACTAAGTGTGCGATTT-AACT
*
79913043 AGCTTTGGCACTAAGTGTGCGATTTAACT
1 AGCTTTGACACTAAGTGTGCGATTTAACT
79913072 AGCTT
1 AGCTT
79913077 CGGCTACTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.28
30 23 0.72
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (29 bp):
AGCTTTGACACTAAGTGTGCGATTTAACT
Found at i:79920270 original size:30 final size:30
Alignment explanation
Indices: 79920236--79920292 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
79920226 ATGAATTGGA
*
79920236 AGCTTTGGCACTAAGTGTGCGATTTAAACG
1 AGCTTTGGCACTAAGTGTACGATTTAAACG
79920266 AGCTTTGGCACTAAGTGTACGATTTAA
1 AGCTTTGGCACTAAGTGTACGATTTAA
79920293 CTAGCTTCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (30 bp):
AGCTTTGGCACTAAGTGTACGATTTAAACG
Found at i:79929536 original size:49 final size:49
Alignment explanation
Indices: 79929464--79929651 Score: 268
Period size: 49 Copynumber: 3.8 Consensus size: 49
79929454 TGAGGTCACG
* *
79929464 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
* * * * * *
79929513 TGTGTGGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-T-TGGTCGCA
*
79929564 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
*
79929613 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
79929652 GCTTCGGCTA
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 78 0.64
50 2 0.02
51 41 0.34
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
Found at i:79929632 original size:100 final size:100
Alignment explanation
Indices: 79929459--79929646 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
79929449 TATTGTGAGG
* *
79929459 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTGGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
79929524 AAGTGCAGGCTACTATGTGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
* *
79929559 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
79929624 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
79929647 AGATAGCTTC
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:79933966 original size:16 final size:17
Alignment explanation
Indices: 79933934--79933966 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
79933924 ATTGACTAAA
*
79933934 TGTTATATATGTATATT
1 TGTTATATATCTATATT
79933951 TGTTATA-ATCTATATT
1 TGTTATATATCTATATT
79933967 GGATGGCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (17 bp):
TGTTATATATCTATATT
Found at i:79934109 original size:43 final size:44
Alignment explanation
Indices: 79934062--79934145 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
79934052 GGAACGTTGT
* *
79934062 CTTCGATCTGAAATAT-CGTGTAAGACCGTGTTTGGGACATAGG
1 CTTCGATCTGAAATATACGTGTAAGACCATGTCTGGGACATAGG
* * *
79934105 CTTCGATTTGATATTTACGTGTAAGACCATGTCTGGGACAT
1 CTTCGATCTGAAATATACGTGTAAGACCATGTCTGGGACAT
79934146 CAACATCGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 13 0.37
44 22 0.63
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (44 bp):
CTTCGATCTGAAATATACGTGTAAGACCATGTCTGGGACATAGG
Found at i:79941375 original size:43 final size:44
Alignment explanation
Indices: 79941311--79941428 Score: 127
Period size: 42 Copynumber: 2.8 Consensus size: 44
79941301 CTGAAATATC
** * *
79941311 GTGTAAGACTGTGTCTTGGACACAGGCTTCGATT-TCAGATTTA
1 GTGTAAGACCATGTCTGGGACACAGGCATCGATTATCAGATTTA
* *
79941354 GTGTAAGACCATGTCTGGGACATC-GGCATC--TTATCTGATTTC
1 GTGTAAGACCATGTCTGGGACA-CAGGCATCGATTATCAGATTTA
* *
79941396 GTGTAAGACCCTGTCTGGGACAGAGGCATCGAT
1 GTGTAAGACCATGTCTGGGACACAGGCATCGAT
79941429 ATTGAATTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
41 2 0.03
42 34 0.55
43 24 0.39
44 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (44 bp):
GTGTAAGACCATGTCTGGGACACAGGCATCGATTATCAGATTTA
Found at i:79944103 original size:15 final size:15
Alignment explanation
Indices: 79944083--79944138 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
79944073 GTATCTTGGG
79944083 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
79944098 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
79944113 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
79944128 TTTCTTTATTC
1 TTTCTTTATTC
79944139 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:79946647 original size:47 final size:47
Alignment explanation
Indices: 79946529--79946885 Score: 484
Period size: 47 Copynumber: 7.6 Consensus size: 47
79946519 GGATGGTTGA
* *
79946529 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--AT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAG-T-AC--ATGAGATGTAACTAG
79946577 G--TCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGTAACTAG
79946622 GCATCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGTAACTAG
79946669 GCATCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGTAACTAG
** *
79946716 GCATCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGT-GGTTG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGTAACTAG
* *
79946762 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--AT
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAG-T-AC--ATGAGATGTAACTAG
79946811 G--TCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGTAACTAG
*
79946856 GCATCCGAACTCGTTGAGTTGAGTCTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGT
79946886 TCACTCATGG
Statistics
Matches: 281, Mismatches: 12, Indels: 33
0.86 0.04 0.10
Matches are distributed among these distances:
42 6 0.02
43 12 0.04
44 4 0.01
45 6 0.02
46 54 0.19
47 187 0.67
48 3 0.01
49 2 0.01
50 4 0.01
51 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGTAACTAG
Found at i:79946886 original size:93 final size:92
Alignment explanation
Indices: 79946532--79946931 Score: 412
Period size: 93 Copynumber: 4.3 Consensus size: 92
79946522 TGGTTGAGCA
* *
79946532 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG--TCCGAACTCGTTGA
1 TCCGAACTCGTTGAGTTGAGTCCGAG-T-AC--ATGAGATGTAACTAGGCATCCGAACTCGTTGA
* *
79946592 GTTGAGTCCGAG-T-AC-ATGAGATGTAACTAGGCA
62 GTTGAGTCCGAGTTCACTATG-GATGCAA--A--CG
79946625 TCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
* *
79946690 AGTCCGAG-T-AC-ATGAGATGTAACTAGGCA
66 AGTCCGAGTTCACTATG-GATGCAA--A--CG
** *
79946719 TCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGT-GGTTGAGCATCCGAACTCGTTGAGTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGTAACTAG-GCATCCGAACTCGTTGAGTT
*
79946783 GAGTCCGAGTTCACTTATGGATGCAAATG
65 GAGTCCGAGTTCAC-TATGGATGCAAACG
79946812 TCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
* *
79946877 AGTCTGAGTTCACTCATGGATGCGAACG
66 AGTCCGAGTTCACT-ATGGATGCAAACG
* * *
79946905 -CCTGAGCTTGTTGAGTTGATTCCGAGT
1 TCC-GAACTCGTTGAGTTGAGTCCGAGT
79946932 TCGCTTATGG
Statistics
Matches: 277, Mismatches: 17, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
89 3 0.01
90 6 0.02
91 2 0.01
92 6 0.02
93 131 0.47
94 116 0.42
95 2 0.01
96 2 0.01
97 6 0.02
98 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (92 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTACATGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
AGTCCGAGTTCACTATGGATGCAAACG
Found at i:79947896 original size:6 final size:6
Alignment explanation
Indices: 79947887--79948003 Score: 78
Period size: 6 Copynumber: 18.8 Consensus size: 6
79947877 TATTAGAACT
* * *
79947887 AGAATC AGAATC AGAATC AGAATC AGAATT AGGTGAT- AGAATT AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* * * *
79947936 AGAATT AGTATC AGGTAA-C AGAATC AAAATC AGAATC AGTATC AAGTAA-C
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC -AG-AATC
*
79947986 AGAATC TAAAATC AGAAT
1 AGAATC -AGAATC AGAAT
79948004 GTGAATGCAA
Statistics
Matches: 87, Mismatches: 14, Indels: 20
0.72 0.12 0.17
Matches are distributed among these distances:
5 6 0.07
6 64 0.74
7 13 0.15
8 4 0.05
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:79947902 original size:18 final size:18
Alignment explanation
Indices: 79947887--79948003 Score: 78
Period size: 19 Copynumber: 6.3 Consensus size: 18
79947877 TATTAGAACT
79947887 AGAATCAGAATCAGAATC
1 AGAATCAGAATCAGAATC
* *
79947905 AGAATCAGAATTAGGTGAT-
1 AGAATCAGAATCA-G-AATC
* *
79947924 AGAATTAGAATCAGAATT
1 AGAATCAGAATCAGAATC
*
79947942 AGTATCAGGTAA-CAGAATC
1 AGAATCA-G-AATCAGAATC
* *
79947961 AAAATCAGAATCAGTATC
1 AGAATCAGAATCAGAATC
*
79947979 AAGTAA-CAGAATCTAAAATC
1 -AG-AATCAGAATC-AGAATC
79947999 AGAAT
1 AGAAT
79948004 GTGAATGCAA
Statistics
Matches: 75, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
17 4 0.05
18 27 0.36
19 34 0.45
20 10 0.13
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (18 bp):
AGAATCAGAATCAGAATC
Found at i:79947934 original size:31 final size:31
Alignment explanation
Indices: 79947892--79948003 Score: 125
Period size: 31 Copynumber: 3.6 Consensus size: 31
79947882 GAACTAGAAT
* *
79947892 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* * * *
79947923 TAGAATTAGAATCAGAATTAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* * *
79947954 CAGAATCAAAATCAGAATCAGTATCAAGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
*
79947985 CAGAATCTAAAATCAGAAT
1 CAGAATC-AGAATCAGAAT
79948004 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 58 0.84
32 11 0.16
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.22
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:79948182 original size:27 final size:26
Alignment explanation
Indices: 79948140--79948249 Score: 98
Period size: 27 Copynumber: 4.2 Consensus size: 26
79948130 GCTCAGTTAT
*
79948140 CAGATATTG-TGACAGAGTCACCAGATA
1 CAGATATTGTTG-CAGAGCCACCAGA-A
*
79948167 TAGATATTGTTGCAGAGCCACCAGAA
1 CAGATATTGTTGCAGAGCCACCAGAA
* *
79948193 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTTGCAGAGCCACCAG-AA
* * * *
79948221 CAGATAATGTAGCAAAGCCA-CTGAA
1 CAGATATTGTTGCAGAGCCACCAGAA
79948246 CAGA
1 CAGA
79948250 ATACGTGGCA
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
25 6 0.08
26 8 0.11
27 47 0.66
28 10 0.14
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
CAGATATTGTTGCAGAGCCACCAGAA
Found at i:79948216 original size:54 final size:52
Alignment explanation
Indices: 79948140--79948249 Score: 121
Period size: 54 Copynumber: 2.1 Consensus size: 52
79948130 GCTCAGTTAT
* * * * * *
79948140 CAGATATTGTGACAGAGTCACCAGATATAGATATTGTTGCAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCA-CAGAA
* * *
79948193 CAGATATTTGTGGCATAGCCACCAGAAACAGATAATGTAGCAAAGCCACTGAA
1 CAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCACAGAA
79948246 CAGA
1 CAGA
79948250 ATACGTGGCA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 14 0.30
54 33 0.70
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (52 bp):
CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCACAGAA
Found at i:79948428 original size:22 final size:21
Alignment explanation
Indices: 79948400--79948464 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
79948390 GCAAATACGT
79948400 TTGGCACACAGCCATAATCAGG
1 TTGGCACA-AGCCATAATCAGG
* *
79948422 TTGGCACAGAGCTAT-ATGTAGG
1 TTGGCACA-AGCCATAAT-CAGG
*
79948444 TTGACACGAAGCCATAATCAG
1 TTGGCAC-AAGCCATAATCAG
79948465 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 2 0.06
22 29 0.85
23 3 0.09
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (21 bp):
TTGGCACAAGCCATAATCAGG
Found at i:79948956 original size:27 final size:27
Alignment explanation
Indices: 79948892--79949220 Score: 394
Period size: 27 Copynumber: 12.2 Consensus size: 27
79948882 GGGCAAAATG
* * * * *
79948892 GTAATTTTACCCTACA-AGGTGTCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
79948918 GTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
79948945 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
79948972 GAAATTCTACCCTACAGGGGTATTGC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
79948998 GATACTTCTACCCTACAGGGTTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
79949026 GTAATTCTACCCTACAGGAGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
79949053 GTAATTCTACCCTACAGGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
79949080 GTAATTCTACCCTACAGGAGTATTGCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
79949107 ATAATTCTACCGTACAGGGGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTTCA
79949134 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
79949160 GATAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
79949188 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
79949215 GTAATT
1 GTAATT
79949221 TTGTAAATCG
Statistics
Matches: 261, Mismatches: 37, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
26 16 0.06
27 243 0.93
28 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:79949023 original size:81 final size:81
Alignment explanation
Indices: 79948919--79949220 Score: 442
Period size: 81 Copynumber: 3.7 Consensus size: 81
79948909 GGTGTCTCGG
* * *
79948919 TAATTCCACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGAAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
*
79948984 TACAGGGGTATTGCGA
66 TACAGGGGTATTCCGA
* * * * *
79949000 TACTTCTACCCTACAGGGTTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
*
79949065 TACAGGGGTATTCCGG
66 TACAGGGGTATTCCGA
* * * * *
79949081 TAATTCTACCCTACAGGAGTATTGCAATAATTCTACCGTACAGGGGTATTGCGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
*
79949146 TACAGGGGTATTTCGA
66 TACAGGGGTATTCCGA
* *
79949162 TAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATT
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
79949221 TTGTAAATCG
Statistics
Matches: 192, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 192 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
TACAGGGGTATTCCGA
Found at i:79949288 original size:27 final size:27
Alignment explanation
Indices: 79949270--79949361 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
79949260 GGTACTTTGG
79949270 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* *
79949297 TAATTTTATAGGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* * ***
79949324 TAATTTCACAAATC-AGGGATATTTTGG
1 TAATTTTACAAGTCGAGGG-TATTTCAA
79949351 TAATTTTACAA
1 TAATTTTACAA
79949362 ACAAGGGGTA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 4 0.07
27 50 0.93
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:79949362 original size:27 final size:27
Alignment explanation
Indices: 79949324--79949572 Score: 309
Period size: 27 Copynumber: 9.2 Consensus size: 27
79949314 GGTATTTCAA
* * *
79949324 TAATTTCACAAATCAGGGATATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
79949351 TAATTTTACAAACAAGGGGTATTTTGA
1 TAATTTTACAAACCAGGGGTATTTTGG
*
79949378 TAACTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
79949405 CAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * * *
79949432 TGATTTTATAAACAAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
79949459 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
**
79949486 TAATTTTGTAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * *
79949513 TAATTTTATAAACCAAGGGTATTCTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * *
79949540 TAATTTTACAAACCAAGGATATTTTGT
1 TAATTTTACAAACCAGGGGTATTTTGG
79949567 TAATTT
1 TAATTT
79949573 GGTAAACTAA
Statistics
Matches: 190, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 190 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTGG
Found at i:79949579 original size:54 final size:54
Alignment explanation
Indices: 79949241--79949572 Score: 281
Period size: 54 Copynumber: 6.1 Consensus size: 54
79949231 AGCGTAAAAC
* * * * ** *
79949241 GGTAATTCTGTAAATCAAGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTC
1 GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTT
** *** * *** * * *
79949295 AATAATTTTATAGGTCGAGGGTATTTCAATAATTTCACAAATCAGGGATATTTT
1 GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
* * *
79949349 GGTAATTTTACAAA-CAAGGGGTATTTTGATAACTTTACAAACCAGGGGTATTTT
1 GGTAATTTTATAAACCAA-GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
* * * * * * *
79949403 GGCAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACAAAGGGTATTTT
1 GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
* * * **
79949457 AGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAGGGGTATTTT
1 GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
* * * *
79949511 GGTAATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAACCAAGGATATTTT
1 GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
*
79949565 GTTAATTT
1 GGTAATTT
79949573 GGTAAACTAA
Statistics
Matches: 224, Mismatches: 51, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
53 2 0.01
54 219 0.98
55 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (54 bp):
GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
Found at i:79953560 original size:56 final size:56
Alignment explanation
Indices: 79953421--79953573 Score: 179
Period size: 56 Copynumber: 2.8 Consensus size: 56
79953411 TGATGACATA
*
79953421 ATGCATGCTAGGTCCGGGAGCT-TGTGTAGCCC-GTTGAGAGGCATGTAATTATGTG
1 ATGCATGCTAGGTCCGGGAGCTCTTTGTAGCCCTGTTGAGAGGCATG-AATTATGTG
* * * * * *
79953476 GTACATGATATGCCCGGGAGCT-TTTGTAGCCCTGTTGAGAGGCATG-GTTATGTG
1 ATGCATGCTAGGTCCGGGAGCTCTTTGTAGCCCTGTTGAGAGGCATGAATTATGTG
* *
79953530 ATGCATGCTAGGTCCGGGTGCTCTTATGTAGCCTTGTTGAGAGG
1 ATGCATGCTAGGTCCGGGAGCTCTT-TGTAGCCCTGTTGAGAGG
79953574 TGTGCTATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
54 23 0.28
55 28 0.35
56 30 0.37
ACGTcount: A:0.18, C:0.17, G:0.34, T:0.31
Consensus pattern (56 bp):
ATGCATGCTAGGTCCGGGAGCTCTTTGTAGCCCTGTTGAGAGGCATGAATTATGTG
Found at i:79959974 original size:39 final size:39
Alignment explanation
Indices: 79959920--79960050 Score: 165
Period size: 39 Copynumber: 3.3 Consensus size: 39
79959910 GTGCAAACAG
* * *
79959920 GGGTACAAAAGTACAAATAGGGGTACCAAAATACAAATA
1 GGGTACCAAAGTACAAACAGGGGTACCAAAGTACAAATA
*
79959959 GGGTACCAAAGTACAAACAGGGGTACCGAAGTACAAATA
1 GGGTACCAAAGTACAAACAGGGGTACCAAAGTACAAATA
* * *
79959998 CGGTA-CAGAAGTACAAACAGGGGTACCAAAGTACATACA
1 GGGTACCA-AAGTACAAACAGGGGTACCAAAGTACAAATA
*
79960037 GGAGTACCGAAGTA
1 GG-GTACCAAAGTA
79960051 AATTCCCATA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.03
39 68 0.86
40 8 0.10
41 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.14
Consensus pattern (39 bp):
GGGTACCAAAGTACAAACAGGGGTACCAAAGTACAAATA
Found at i:79960022 original size:59 final size:59
Alignment explanation
Indices: 79959913--79960050 Score: 181
Period size: 59 Copynumber: 2.3 Consensus size: 59
79959903 CACAAATGTG
** * *
79959913 CAAACAGGGGTACAAAAGTACAAATAGGGGTACCAAAATACAAATAGGGTACCAAAGTA
1 CAAACAGGGGTACCGAAGTACAAATAGCGGTACCAAAATACAAACAGGGTACCAAAGTA
*
79959972 CAAACAGGGGTACCGAAGTACAAATA-CGGTA-CAGAAGTACAAACAGGGGTACCAAAGTA
1 CAAACAGGGGTACCGAAGTACAAATAGCGGTACCA-AAATACAAACA-GGGTACCAAAGTA
* *
79960031 CATACAGGAGTACCGAAGTA
1 CAAACAGGGGTACCGAAGTA
79960051 AATTCCCATA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
57 2 0.03
58 13 0.19
59 55 0.79
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (59 bp):
CAAACAGGGGTACCGAAGTACAAATAGCGGTACCAAAATACAAACAGGGTACCAAAGTA
Found at i:79960044 original size:20 final size:20
Alignment explanation
Indices: 79959913--79960050 Score: 156
Period size: 20 Copynumber: 7.0 Consensus size: 20
79959903 CACAAATGTG
*
79959913 CAAACAGGGGTACAAAAGTA
1 CAAACAGGGGTACCAAAGTA
* *
79959933 CAAATAGGGGTACCAAAATA
1 CAAACAGGGGTACCAAAGTA
*
79959953 CAAATA-GGGTACCAAAGTA
1 CAAACAGGGGTACCAAAGTA
*
79959972 CAAACAGGGGTACCGAAGTA
1 CAAACAGGGGTACCAAAGTA
* *
79959992 CAAATA-CGGTA-CAGAAGTA
1 CAAACAGGGGTACCA-AAGTA
79960011 CAAACAGGGGTACCAAAGTA
1 CAAACAGGGGTACCAAAGTA
* * *
79960031 CATACAGGAGTACCGAAGTA
1 CAAACAGGGGTACCAAAGTA
79960051 AATTCCCATA
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
18 1 0.01
19 31 0.31
20 66 0.66
21 2 0.02
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (20 bp):
CAAACAGGGGTACCAAAGTA
Found at i:79985415 original size:39 final size:39
Alignment explanation
Indices: 79985372--79985447 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
79985362 TTTGAGACTT
* *
79985372 TGGGTATTGTGGTTAAAAGCACTACGAGTGAGGTTACTA
1 TGGGTATTGTGGTTAAAAGCACTACAACTGAGGTTACTA
*
79985411 TGGGTATTGTGGTTGAAAGCACTACAACTGAGGTTAC
1 TGGGTATTGTGGTTAAAAGCACTACAACTGAGGTTAC
79985448 CGTGTTGAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (39 bp):
TGGGTATTGTGGTTAAAAGCACTACAACTGAGGTTACTA
Found at i:79995199 original size:24 final size:24
Alignment explanation
Indices: 79995110--79995259 Score: 146
Period size: 24 Copynumber: 6.2 Consensus size: 24
79995100 GCTCCTCCTA
*
79995110 AGCTGATGAACAGTAAGCTC-TATTG
1 AGCTGA-GAACAGTAAGCTCATA-CG
*
79995135 AGCTGA-AACGGTAAGCTC-TGACG
1 AGCTGAGAACAGTAAGCTCAT-ACG
**
79995158 AGCTGA-ATTAGTAAGCTCATACG
1 AGCTGAGAACAGTAAGCTCATACG
79995181 AGCTGAGAACAGTAAGCTCATACG
1 AGCTGAGAACAGTAAGCTCATACG
* * *
79995205 AGCTGAGACCAATAAGCTCTTACG
1 AGCTGAGAACAGTAAGCTCATACG
* *
79995229 AGCTGATATATCAATAAGCTCATACG
1 AGCTGAGA-A-CAGTAAGCTCATACG
79995255 AGCTG
1 AGCTG
79995260 TGATGAGTCC
Statistics
Matches: 107, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
23 37 0.35
24 45 0.42
25 6 0.06
26 19 0.18
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (24 bp):
AGCTGAGAACAGTAAGCTCATACG
Found at i:79995231 original size:71 final size:74
Alignment explanation
Indices: 79995110--79995259 Score: 193
Period size: 71 Copynumber: 2.1 Consensus size: 74
79995100 GCTCCTCCTA
* ** *
79995110 AGCTGATGAACAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCTGACGAGCTGA-AT-T-AGTAA
1 AGCTGATGAACAGTAAGCTCTATCGAGCTGAAACAATAAGCTCTGACGAGCTGATATATCAATAA
79995172 GCTCATACG
66 GCTCATACG
* *
79995181 AGCTGA-GAACAGTAAGCTC-ATACGAGCTGAGACCAATAAGCTCTTACGAGCTGATATATCAAT
1 AGCTGATGAACAGTAAGCTCTAT-CGAGCTGA-AACAATAAGCTCTGACGAGCTGATATATCAAT
79995244 AAGCTCATACG
64 AAGCTCATACG
79995255 AGCTG
1 AGCTG
79995260 TGATGAGTCC
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
69 2 0.03
70 20 0.29
71 25 0.37
72 2 0.03
73 1 0.01
74 18 0.26
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (74 bp):
AGCTGATGAACAGTAAGCTCTATCGAGCTGAAACAATAAGCTCTGACGAGCTGATATATCAATAA
GCTCATACG
Found at i:79997128 original size:39 final size:40
Alignment explanation
Indices: 79997048--79997286 Score: 270
Period size: 40 Copynumber: 6.0 Consensus size: 40
79997038 GATGATAACT
* * * *
79997048 GGGCTAAGTCCCGAAGGCAATTGCGCTAGTGACTAGT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCC
*
79997088 GGGC-AAGTCCCGAAGGCATTTGTGCAAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
79997127 GGAC-AAGTCCCGAAGGCATTTGTGTGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * * *
79997166 GAGCTAAGCCCCGAAGGCATTTGTGCGAATTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * * *
79997206 GGTCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
79997246 GGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
79997286 G
1 G
79997287 ATTAAATTCC
Statistics
Matches: 169, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
38 1 0.01
39 68 0.40
40 100 0.59
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:80000106 original size:53 final size:53
Alignment explanation
Indices: 79999924--80000130 Score: 207
Period size: 53 Copynumber: 3.8 Consensus size: 53
79999914 ATTAGGGTTT
* * * * *
79999924 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
79999978 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
** * * * *
80000033 AAATATCCCATGTAAGACCATGCCAAGGCCTGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
80000086 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
80000131 TAAAAGGGAA
Statistics
Matches: 120, Mismatches: 31, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 44 0.37
54 38 0.32
55 38 0.32
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:80003460 original size:27 final size:27
Alignment explanation
Indices: 80003430--80003481 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
80003420 CTGCCAAAAA
*
80003430 AGTAAATGTGGCAAAGCCACTAGTATC
1 AGTAAATGTGGCAAAGCCACCAGTATC
* *
80003457 AGTAATTGTGGCATAGCCACCAGTA
1 AGTAAATGTGGCAAAGCCACCAGTA
80003482 ATAGTGAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (27 bp):
AGTAAATGTGGCAAAGCCACCAGTATC
Found at i:80003493 original size:27 final size:27
Alignment explanation
Indices: 80003434--80003508 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
80003424 CAAAAAAGTA
* *
80003434 AATGTGGCAAAGCCACTAGT-ATCAGT
1 AATGTGGCATAGCCACCAGTAATCAGT
80003460 AATTGTGGCATAGCCACCAGTAAT-AGT
1 AA-TGTGGCATAGCCACCAGTAATCAGT
* * *
80003487 GAATGTGACATAGTCACGAGTA
1 -AATGTGGCATAGCCACCAGTA
80003509 CAGTACTTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 2 0.05
27 35 0.85
28 4 0.10
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (27 bp):
AATGTGGCATAGCCACCAGTAATCAGT
Found at i:80003796 original size:27 final size:27
Alignment explanation
Indices: 80003662--80003795 Score: 187
Period size: 27 Copynumber: 5.0 Consensus size: 27
80003652 CATTTTGTCA
* *
80003662 TACAGGGGTAATACGATCATTTTACCC
1 TACAGGGGTATTACGGTCATTTTACCC
* *
80003689 TATAGGGGCATTACGGTCATTTTACCC
1 TACAGGGGTATTACGGTCATTTTACCC
* *
80003716 TATAGGGGTATTACGATCATTTTACCC
1 TACAGGGGTATTACGGTCATTTTACCC
*
80003743 TACAGGGGTATTACGGTCATTTTACCT
1 TACAGGGGTATTACGGTCATTTTACCC
* *
80003770 TACAAGGGTATTACGGTTATTTTACC
1 TACAGGGGTATTACGGTCATTTTACC
80003796 TATTTTGGGG
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (27 bp):
TACAGGGGTATTACGGTCATTTTACCC
Found at i:80020043 original size:53 final size:53
Alignment explanation
Indices: 80019981--80020093 Score: 154
Period size: 53 Copynumber: 2.1 Consensus size: 53
80019971 TTGCCAGGTT
* * * *
80019981 GTGTAACACTATGAGTGCTACACACACCCGTGTGTCAGGTCATGTGCTAAGTC
1 GTGTAACACTATGAGTGCCACACACACCCATGTGTCAGGCCATGTGCTAAGCC
* * *
80020034 GTGTAACACTATGAGTGCCACACACGCCCATGTGTTAGGCCGTGTGCTAAGCC
1 GTGTAACACTATGAGTGCCACACACACCCATGTGTCAGGCCATGTGCTAAGCC
*
80020087 ATGTAAC
1 GTGTAAC
80020094 TCATTGACTT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (53 bp):
GTGTAACACTATGAGTGCCACACACACCCATGTGTCAGGCCATGTGCTAAGCC
Found at i:80022064 original size:20 final size:20
Alignment explanation
Indices: 80022039--80022118 Score: 97
Period size: 20 Copynumber: 4.0 Consensus size: 20
80022029 AGCTGTTACA
80022039 GGTACTCCTGTTTGTACTTC
1 GGTACTCCTGTTTGTACTTC
**
80022059 GGTACTCCTACTTGTACTTC
1 GGTACTCCTGTTTGTACTTC
* * *
80022079 GGTACACCTGTTTGTAGTTT
1 GGTACTCCTGTTTGTACTTC
* *
80022099 GGTACTCTTGTTTCTACTTC
1 GGTACTCCTGTTTGTACTTC
80022119 AGTAACCTTA
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (20 bp):
GGTACTCCTGTTTGTACTTC
Found at i:80022166 original size:20 final size:20
Alignment explanation
Indices: 80022141--80022188 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
80022131 TGCAGATTCA
*
80022141 TGCCTCTGTAAGCACTATAG
1 TGCCTCTGTAAGCACTACAG
* * *
80022161 TGCCTCTATAAGCATTACGG
1 TGCCTCTGTAAGCACTACAG
80022181 TGCCTCTG
1 TGCCTCTG
80022189 AAATATGGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (20 bp):
TGCCTCTGTAAGCACTACAG
Found at i:80025992 original size:46 final size:46
Alignment explanation
Indices: 80025891--80025978 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
80025881 TGTAACCCGC
* * * *
80025891 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
80025937 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
80025979 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:80031188 original size:61 final size:61
Alignment explanation
Indices: 80031093--80031216 Score: 221
Period size: 61 Copynumber: 2.0 Consensus size: 61
80031083 TGTGAAAATG
*
80031093 AACCGCTCATCGGTCTTTTCTTCCAATTTCTAGTCTCAACCTTTACCTTTTTCTTTTCTTT
1 AACCGCTCATCGGTCTTTTCTTCCAATTTCTAGTCTCAACCTCTACCTTTTTCTTTTCTTT
* *
80031154 AACCGCTCATCGGTCTTTTCTTCCGATTTCTAGTCTCAGCCTCTACCTTTTTCTTTTCTTT
1 AACCGCTCATCGGTCTTTTCTTCCAATTTCTAGTCTCAACCTCTACCTTTTTCTTTTCTTT
80031215 AA
1 AA
80031217 GTAATTCTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.15, C:0.30, G:0.08, T:0.48
Consensus pattern (61 bp):
AACCGCTCATCGGTCTTTTCTTCCAATTTCTAGTCTCAACCTCTACCTTTTTCTTTTCTTT
Found at i:80033538 original size:46 final size:46
Alignment explanation
Indices: 80033437--80033524 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
80033427 TGTAACCCGC
* * * *
80033437 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
80033483 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
80033525 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:80037592 original size:22 final size:23
Alignment explanation
Indices: 80037567--80037609 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
80037557 TGATCACACA
* *
80037567 TACTTAA-CATATCATAATAACC
1 TACTTAATCATACCAAAATAACC
80037589 TACTTAATCATACCAAAATAA
1 TACTTAATCATACCAAAATAA
80037610 GCCATTACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (23 bp):
TACTTAATCATACCAAAATAACC
Found at i:80042297 original size:20 final size:20
Alignment explanation
Indices: 80042244--80042301 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
80042234 ACGAGTTTGC
* * *
80042244 ACTTCAATGCCTCTACTTGG
1 ACTTTAATGCCTCTATTTAG
80042264 ACTTTAATGCCTCTATTTAG
1 ACTTTAATGCCTCTATTTAG
* *
80042284 ACTTTAGTGTCTCTATTT
1 ACTTTAATGCCTCTATTT
80042302 GCACTCCAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.45
Consensus pattern (20 bp):
ACTTTAATGCCTCTATTTAG
Found at i:80043505 original size:20 final size:20
Alignment explanation
Indices: 80043480--80043519 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
80043470 GGTTGTGATG
*
80043480 GTTCCAAATGGCATATTGGT
1 GTTCCAAATGGCATAATGGT
80043500 GTTCCAAATGGCATAATGGT
1 GTTCCAAATGGCATAATGGT
80043520 TAAGTTGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (20 bp):
GTTCCAAATGGCATAATGGT
Found at i:80044579 original size:18 final size:18
Alignment explanation
Indices: 80044544--80044580 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
80044534 AATACAATAT
*
80044544 CAACATCTATCATACACA
1 CAACATCTATCAAACACA
80044562 CAACAT-TATCAAAC-CA
1 CAACATCTATCAAACACA
80044578 CAA
1 CAA
80044581 TTGACTACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 7 0.39
18 6 0.33
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (18 bp):
CAACATCTATCAAACACA
Found at i:80052256 original size:31 final size:31
Alignment explanation
Indices: 80052218--80052279 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
80052208 AAAGGAAAGT
80052218 AAGAGAGTAAGCTTTATGGCTTAGTAAGACC
1 AAGAGAGTAAGCTTTATGGCTTAGTAAGACC
80052249 AAGAGAGTAAGCTTTATGGCTTAGTAAGACC
1 AAGAGAGTAAGCTTTATGGCTTAGTAAGACC
80052280 GTATGAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (31 bp):
AAGAGAGTAAGCTTTATGGCTTAGTAAGACC
Found at i:80053585 original size:50 final size:49
Alignment explanation
Indices: 80053427--80053787 Score: 294
Period size: 50 Copynumber: 7.5 Consensus size: 49
80053417 CGACATCATA
* * **
80053427 TCCCAGACATGGTCTTACACTAG--CTCACCCATCAAAGTCGATGCCATG
1 TCCCAGACATGGTCTTACACTAGCTCTCATCTATCGTA-TCGATGCCATG
* * * * * *
80053475 TCCCAAACATGGTCTTACACTAACTCTCGTATATCG-AGGCAATGCCATG
1 TCCCAGACATGGTCTTACACTAGCTCTCATCTATCGTA-TCGATGCCATG
* *
80053524 TCCCAGACATGGTGTTACACTAGCTCTCATCTATCGGTATTGATGCCATG
1 TCCCAGACATGGTCTTACACTAGCTCTCATCTATC-GTATCGATGCCATG
* * *
80053574 TCCCAGACATGGTCTTACACTAGCTCTCATCTATTAGTGTCGATGTCATG
1 TCCCAGACATGGTCTTACACTAGCTCTCATCTA-TCGTATCGATGCCATG
* * * * **
80053624 TCCCAGACATAGTCTTACACTAGCTCTCGTCT-CCATGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTAGCTCTCATCTATCGTATCGATGCCATG
* * * * **
80053672 T-CCA-ACATAGTCTTACACTAGCTCTCGTCT-CCATGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTAGCTCTCATCTATCGTATCGATGCCATG
* * * ** **
80053718 T-CCA-ACATGGTCTTACACTGGCACACA-AAAT-GTGGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTAGCTCTCATCTATCGT-ATCGATGCCATG
80053764 TCCCAGACATGGTCTTACACTAGC
1 TCCCAGACATGGTCTTACACTAGC
80053788 GCACATATCA
Statistics
Matches: 265, Mismatches: 39, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
45 1 0.00
46 77 0.29
47 6 0.02
48 50 0.19
49 41 0.15
50 88 0.33
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (49 bp):
TCCCAGACATGGTCTTACACTAGCTCTCATCTATCGTATCGATGCCATG
Found at i:80053601 original size:99 final size:97
Alignment explanation
Indices: 80053465--80053699 Score: 269
Period size: 99 Copynumber: 2.4 Consensus size: 97
80053455 CCATCAAAGT
*
80053465 CGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCGTATATCGAG-G-CAATGCCATGTCCC
1 CGATGCCATGTCCC-AACATGGTCTTACACTAGCTCTCGTATAT-GAGTGTCAATGCCATGTCCC
* * ** *
80053528 AGACATGGTGTTACACTAGCTCTCATCTATCGGTAT
64 AGACATAGTCTTACACTAGCTCTCATC--TCCATAC
* * * * * *
80053564 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTATTAGTGTCGATGTCATGTCCCA
1 CGATGCCATGTCCCA-ACATGGTCTTACACTAGCTCTCGTATATGAGTGTCAATGCCATGTCCCA
* *
80053629 GACATAGTCTTACACTAGCTCTCGTCTCCATGC
65 GACATAGTCTTACACTAGCTCTCATCTCCATAC
*
80053662 CGATGCCATGT-CCAACATAGTCTTACACTAGCTCTCGT
1 CGATGCCATGTCCCAACATGGTCTTACACTAGCTCTCGT
80053700 CTCCATGCCG
Statistics
Matches: 116, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
96 22 0.19
97 3 0.03
98 16 0.14
99 39 0.34
100 36 0.31
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.30
Consensus pattern (97 bp):
CGATGCCATGTCCCAACATGGTCTTACACTAGCTCTCGTATATGAGTGTCAATGCCATGTCCCAG
ACATAGTCTTACACTAGCTCTCATCTCCATAC
Found at i:80060376 original size:37 final size:37
Alignment explanation
Indices: 80060326--80060405 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
80060316 CTTATTACGA
* *
80060326 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
80060363 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
80060400 GGTCTT
1 AGTCTT
80060406 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:80060595 original size:47 final size:47
Alignment explanation
Indices: 80060525--80061678 Score: 2076
Period size: 47 Copynumber: 24.6 Consensus size: 47
80060515 CCTTCGGGAC
** * * * *
80060525 TTATCACATTTATACACT-TTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACACATATACA-TGTTCACTTTCATCACATTGGCCATTCGGCT
* * * * * *
80060572 TTATCTCACATACACATGCTCACATTCATCACATTGGCCACTCGGCC
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
* * *
80060619 TTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80060666 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80060713 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80060760 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80060807 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80060854 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80060901 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80060948 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80060995 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80061042 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80061089 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80061136 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80061183 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80061230 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80061277 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80061324 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80061371 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80061418 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
*
80061465 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCC
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
* * *
80061512 TTATCACACATACACACGTTCACTTTCATCACATTGGCCATTCGGCC
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
* * * * *
80061559 TTATCACACATACACCTATTCACATTCATCACATTGGCCATTCGGCC
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80061606 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
1 TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
80061653 TTATCACACATATACATGTTCACTTT
1 TTATCACACATATACATGTTCACTTT
80061679 TATTCAATTA
Statistics
Matches: 1080, Mismatches: 26, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
46 1 0.00
47 1079 1.00
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.35
Consensus pattern (47 bp):
TTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCT
Found at i:80061566 original size:22 final size:22
Alignment explanation
Indices: 80061539--80061613 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
80061529 GTTCACTTTC
80061539 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
*** * *
80061561 ATCACACATACACCTATTC-ACATT
1 AT--CACATTGGCC-ATTCGGCCTT
80061585 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
80061608 ATCACA
1 ATCACA
80061614 CATATACATG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 12 0.32
23 10 0.26
24 10 0.26
25 6 0.16
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:80068263 original size:28 final size:27
Alignment explanation
Indices: 80068202--80068267 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 27
80068192 ATTTACTAAA
* *
80068202 ATACCCCTAAGTATGACAATTACCATT
1 ATACCCCTAAGTATGAAAATGACCATT
80068229 ATACCCCTAAGTATGCAAAATGACCATT
1 ATACCCCTAAGTATG-AAAATGACCATT
80068257 ATACCCCTAAG
1 ATACCCCTAAG
80068268 GTTAATTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 15 0.42
28 21 0.58
ACGTcount: A:0.38, C:0.27, G:0.09, T:0.26
Consensus pattern (27 bp):
ATACCCCTAAGTATGAAAATGACCATT
Found at i:80068440 original size:27 final size:26
Alignment explanation
Indices: 80068369--80068480 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
80068359 TGGAGGAAGC
*
80068369 GTTCTGGTGGCTATGCCACAATTATCT
1 GTTCTAGTGGCTATGCCACAA-TATCT
80068396 GTTTCTAGTGGCTATGCCACAGATATCT
1 G-TTCTAGTGGCTATGCCACA-ATATCT
* *
80068424 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTAGTGGCTATGCCACAATATCT
* * *
80068450 GTATCTAGTGACTCTGTCACAATATCT
1 GT-TCTAGTGGCTATGCCACAATATCT
80068477 GTTC
1 GTTC
80068481 CGGTAGCCAT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 10 0.13
27 41 0.54
28 24 0.32
29 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
GTTCTAGTGGCTATGCCACAATATCT
Found at i:80070464 original size:44 final size:44
Alignment explanation
Indices: 80070380--80070464 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
80070370 TATGTAATCT
* * *
80070380 GAACTAATTGAGTTGTGTCTGAGTTCATTATATTTGTGACATTC
1 GAACTAATTGAGTTGTGTCTGAGTTCATGATATGTATGACATTC
* *
80070424 GAACTCATTGAGTTGTGTCTGAGTTCGTGATATGTATGACA
1 GAACTAATTGAGTTGTGTCTGAGTTCATGATATGTATGACA
80070465 CATGTTTTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.40
Consensus pattern (44 bp):
GAACTAATTGAGTTGTGTCTGAGTTCATGATATGTATGACATTC
Found at i:80070822 original size:40 final size:40
Alignment explanation
Indices: 80070767--80070847 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
80070757 CACAGGTATG
80070767 TACATCGAACTCATGTGAATGACATGAAATATGATGAGCT
1 TACATCGAACTCATGTGAATGACATGAAATATGATGAGCT
80070807 TACATCGAACTCATGTGAATGACATGAAATATGATGAGCT
1 TACATCGAACTCATGTGAATGACATGAAATATGATGAGCT
80070847 T
1 T
80070848 GTGGTAAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (40 bp):
TACATCGAACTCATGTGAATGACATGAAATATGATGAGCT
Found at i:80081042 original size:5 final size:6
Alignment explanation
Indices: 80081027--80081056 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
80081017 AAATCTGCTA
80081027 AAAAAT AAAAAT AAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
80081057 GTAGTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:80081043 original size:13 final size:12
Alignment explanation
Indices: 80081027--80081056 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
80081017 AAATCTGCTA
80081027 AAAAATAAAAAT
1 AAAAATAAAAAT
80081039 AAAAATAAAAAAT
1 AAAAAT-AAAAAT
80081052 AAAAA
1 AAAAA
80081057 GTAGTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:80082223 original size:58 final size:58
Alignment explanation
Indices: 80082159--80082274 Score: 178
Period size: 58 Copynumber: 2.0 Consensus size: 58
80082149 TGGTCAAGGT
* *
80082159 GGTTCGAGGAGTTTATACTCATCATTCCTACTATGAATCCCATCAAAATAAGGTTTTA
1 GGTTCGAGGAGTTTATACTCATAATTCCTACTATCAATCCCATCAAAATAAGGTTTTA
* * * *
80082217 GGTTCGAGGAGTTTATACTCCTAATTCCTGCTATCAATCTCATCAAAATAGGGTTTTA
1 GGTTCGAGGAGTTTATACTCATAATTCCTACTATCAATCCCATCAAAATAAGGTTTTA
80082275 ATCAGGAGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (58 bp):
GGTTCGAGGAGTTTATACTCATAATTCCTACTATCAATCCCATCAAAATAAGGTTTTA
Found at i:80096270 original size:26 final size:26
Alignment explanation
Indices: 80096240--80096290 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
80096230 AGATTTATTA
* *
80096240 CAAGTTGGGTTTACCAGTTGGTTTGG
1 CAAGTAGGGTTCACCAGTTGGTTTGG
80096266 CAAGTAGGGTTCACCAGTTGGTTTG
1 CAAGTAGGGTTCACCAGTTGGTTTG
80096291 TCGAACTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.14, G:0.33, T:0.35
Consensus pattern (26 bp):
CAAGTAGGGTTCACCAGTTGGTTTGG
Found at i:80096958 original size:13 final size:13
Alignment explanation
Indices: 80096926--80096971 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
80096916 ATTTTAAAAC
* *
80096926 ATGTTTCCAAGTT
1 ATGTTTTCAAGAT
*
80096939 ATGTTTTCAAGCT
1 ATGTTTTCAAGAT
*
80096952 ATGTTTTAAAGAT
1 ATGTTTTCAAGAT
80096965 ATGTTTT
1 ATGTTTT
80096972 ATCCATGCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (13 bp):
ATGTTTTCAAGAT
Found at i:80097349 original size:14 final size:13
Alignment explanation
Indices: 80097321--80097345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80097311 TATGCAAGCC
80097321 TATGTTTTTAAAG
1 TATGTTTTTAAAG
80097334 TATGTTTTTAAA
1 TATGTTTTTAAA
80097346 AGTACAGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TATGTTTTTAAAG
Found at i:80099157 original size:21 final size:21
Alignment explanation
Indices: 80099132--80099173 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
80099122 GCGTAAAATA
*
80099132 TAAAAGTTTTCTATTG-TTTGT
1 TAAAAG-TGTCTATTGATTTGT
80099153 TAAAAGTGTCTATTGATTTGT
1 TAAAAGTGTCTATTGATTTGT
80099174 CTTATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.26, C:0.05, G:0.17, T:0.52
Consensus pattern (21 bp):
TAAAAGTGTCTATTGATTTGT
Found at i:80100235 original size:44 final size:42
Alignment explanation
Indices: 80100168--80100266 Score: 110
Period size: 44 Copynumber: 2.3 Consensus size: 42
80100158 CGATATGTTT
* *
80100168 TTTCGTGTAAGACCACATTTGGGACGTTGGCATCG-ATTTGGTA
1 TTTCGTGTAAGACCACATATGGGACGTAGGCATCGTATTT-G-A
** * *
80100211 TTTACGTGTAAGACCATGTATGGGATGTAGGTATCGTATTTGA
1 TTT-CGTGTAAGACCACATATGGGACGTAGGCATCGTATTTGA
80100254 TTTCGTGTAAGAC
1 TTTCGTGTAAGAC
80100267 TCTGTGTAGG
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
42 10 0.21
43 7 0.15
44 27 0.56
45 4 0.08
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.36
Consensus pattern (42 bp):
TTTCGTGTAAGACCACATATGGGACGTAGGCATCGTATTTGA
Found at i:80101956 original size:27 final size:27
Alignment explanation
Indices: 80101926--80102103 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
80101916 ATATTGAGTC
* * * *
80101926 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
80101953 CGCACACTTAGTGCTACGTAATAAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
80101980 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
80102008 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
80102035 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
80102062 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
80102089 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
80102104 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:80116332 original size:20 final size:22
Alignment explanation
Indices: 80116295--80116342 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
80116285 AAATAGTGAG
*
80116295 AATT-TATGTTCTAAGAAT-A-
1 AATTCTATTTTCTAAGAATTAC
*
80116314 AATTCTATTTTCTAGGAATTAC
1 AATTCTATTTTCTAAGAATTAC
80116336 AATTCTA
1 AATTCTA
80116343 CTAATTTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.17
20 12 0.50
21 1 0.04
22 7 0.29
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (22 bp):
AATTCTATTTTCTAAGAATTAC
Found at i:80117142 original size:23 final size:23
Alignment explanation
Indices: 80117112--80117157 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
80117102 AATAGATTAC
80117112 GGGTCCTCGTGCTATGAAGTGAT
1 GGGTCCTCGTGCTATGAAGTGAT
*
80117135 GGGTCCTCTTGCTATGAAGTGAT
1 GGGTCCTCGTGCTATGAAGTGAT
80117158 CATACTGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (23 bp):
GGGTCCTCGTGCTATGAAGTGAT
Found at i:80130705 original size:47 final size:49
Alignment explanation
Indices: 80130480--80131001 Score: 866
Period size: 49 Copynumber: 10.9 Consensus size: 49
80130470 NNNNNNNNNN
*
80130480 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
80130529 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
80130578 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
80130627 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT-
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
* * * * * * *
80130675 T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--A
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
80130721 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
80130770 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
80130819 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
80130866 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
80130913 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
80130960 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
80131002 CTATCATTTC
Statistics
Matches: 454, Mismatches: 15, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 212 0.47
48 1 0.00
49 240 0.53
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
Found at i:80130816 original size:192 final size:192
Alignment explanation
Indices: 80130480--80130998 Score: 898
Period size: 192 Copynumber: 2.7 Consensus size: 192
80130470 NNNNNNNNNN
80130480 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATACACTTTCACA
1 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACA
* *
80130545 TTCATCACGTCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACGTCGGCCA
64 TTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCA
*
80130610 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
129 TTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
* * * * * * *
80130674 TTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATT
1 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
*
80130739 CATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
66 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
80130804 AGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
131 AGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
*
80130866 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
1 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
80130931 CATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATT
66 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
80130994 AGGCC
131 AGGCC
80130999 TTACTATCAT
Statistics
Matches: 305, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
190 40 0.13
192 226 0.74
194 39 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (192 bp):
TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
AGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
Found at i:80133617 original size:56 final size:55
Alignment explanation
Indices: 80133527--80133634 Score: 189
Period size: 56 Copynumber: 1.9 Consensus size: 55
80133517 TTATAGCTTG
*
80133527 CAAATTAATTATTCATGAGCACTATTCAAATTAAAAGTGATGATTTATCATCTTA
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATCTTA
*
80133582 CAAACTTAATTATTCATAAGTACTATTCAAATTAAAAGTGATGATTTATCATC
1 CAAA-TTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATC
80133635 CAATGGACAC
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
55 4 0.08
56 46 0.92
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATCTTA
Found at i:80139740 original size:28 final size:28
Alignment explanation
Indices: 80139653--80139740 Score: 65
Period size: 28 Copynumber: 3.1 Consensus size: 28
80139643 ATTGCAAATT
*
80139653 AATTATTCATGAGCACTATTCAAATTAA
1 AATTATTCATAAGCACTATTCAAATTAA
* * ** * *
80139681 AAGTGA-TGATTTGTCA-TATTACAAGTT-T
1 AA-TTATTCATAAG-CACTATT-CAAATTAA
80139709 AATTATTCATAAGCACTATTCAAATTAA
1 AATTATTCATAAGCACTATTCAAATTAA
80139737 AATT
1 AATT
80139741 GATGATTTAT
Statistics
Matches: 42, Mismatches: 12, Indels: 12
0.64 0.18 0.18
Matches are distributed among these distances:
27 9 0.21
28 24 0.57
29 9 0.21
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (28 bp):
AATTATTCATAAGCACTATTCAAATTAA
Found at i:80139903 original size:26 final size:26
Alignment explanation
Indices: 80139874--80139923 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
80139864 TGGTGCTCAT
*
80139874 AAAATGTACAATTACAATCAATCTAC
1 AAAATATACAATTACAATCAATCTAC
80139900 AAAATATACAATTACAATCAATCT
1 AAAATATACAATTACAATCAATCT
80139924 TATTTTCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.52, C:0.18, G:0.02, T:0.28
Consensus pattern (26 bp):
AAAATATACAATTACAATCAATCTAC
Found at i:80145023 original size:46 final size:45
Alignment explanation
Indices: 80144970--80145145 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
80144960 TATTTGGGCA
80144970 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
80145016 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
80145063 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
80145109 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
80145146 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:80145125 original size:93 final size:93
Alignment explanation
Indices: 80144966--80145137 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
80144956 GGGATATTTG
* *
80144966 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
80145031 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
80145059 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
80145124 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
80145138 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:80146500 original size:48 final size:48
Alignment explanation
Indices: 80146446--80146660 Score: 224
Period size: 48 Copynumber: 4.5 Consensus size: 48
80146436 GTGGTGTTAC
* *
80146446 AGACCATGTCTAGGACATGGCACCGGTCTCGATATGTGACCTAGTGTA
1 AGACCATGTCTAGGACATGGCATCGGTCTCGATATGTGAGCTAGTGTA
* * * *
80146494 AGACCATGT-TTGGAACATGGCATCGGTATTGATATGAGAGCTAGTGTA
1 AGACCATGTCTAGG-ACATGGCATCGGTCTCGATATGTGAGCTAGTGTA
* * *
80146542 AGACCATGTCTAGGACACGGCATCAGCCTCGATATGTGAGCTAGTGTA
1 AGACCATGTCTAGGACATGGCATCGGTCTCGATATGTGAGCTAGTGTA
* * ** * *
80146590 AGACCATGT-TTGGAACATGACATTAG-CAT-GATATGAGAGCCAGTGTA
1 AGACCATGTCTAGG-ACATGGCATCGGTC-TCGATATGTGAGCTAGTGTA
*
80146637 AGACCAT-TCTAAGACATGGCATCG
1 AGACCATGTCTAGGACATGGCATCG
80146661 ATATCTTACC
Statistics
Matches: 138, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
46 9 0.07
47 32 0.23
48 94 0.68
49 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
AGACCATGTCTAGGACATGGCATCGGTCTCGATATGTGAGCTAGTGTA
Found at i:80150983 original size:40 final size:40
Alignment explanation
Indices: 80150856--80151023 Score: 212
Period size: 40 Copynumber: 4.1 Consensus size: 40
80150846 GCAAAAATTT
* * *
80150856 TAAAATACAGAGCAATAGCGGCGTTTTTGGTAAAAACACCGC
1 TAAAA-ACAGAGCAATAGCGGCGCTTTTAGT-AAAACGCCGC
* * *
80150898 TAAAAACAGAGCAACAGCGGCGTTTTTTACTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCG-CTTTTAGTAAAACGCCGC
* *
80150939 TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGC
*
80150979 TAAAAACCA-AGCATTAGCGGCGCTTTTAGTAAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGC
80151019 TAAAA
1 TAAAA
80151024 GTCATATAAC
Statistics
Matches: 114, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
40 56 0.49
41 47 0.41
42 11 0.10
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGC
Found at i:80151203 original size:14 final size:14
Alignment explanation
Indices: 80151184--80151223 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
80151174 TATCATTACA
80151184 GTTTAAGGTTTATG
1 GTTTAAGGTTTATG
* *
80151198 GTTTAAGATATATG
1 GTTTAAGGTTTATG
*
80151212 GTTTAGGGTTTA
1 GTTTAAGGTTTA
80151224 AGCAGGTTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (14 bp):
GTTTAAGGTTTATG
Found at i:80151214 original size:21 final size:21
Alignment explanation
Indices: 80151190--80151274 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 21
80151180 TACAGTTTAA
*
80151190 GGTTTATGGTTTAAGATATAT
1 GGTTTAGGGTTTAAGATATAT
*
80151211 GGTTTAGGGTTTAAGCAGGTTTAT
1 GGTTTAGGGTTTAAG-A--TATAT
* *
80151235 GAGTTAACTATGGTTTAAGATATAC
1 G-GTT---TAGGGTTTAAGATATAT
80151260 GGTTTAGGGTTTAAG
1 GGTTTAGGGTTTAAG
80151275 GTTTAAGAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
21 24 0.47
22 1 0.02
24 8 0.16
25 7 0.14
27 1 0.02
28 10 0.20
ACGTcount: A:0.27, C:0.04, G:0.28, T:0.41
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGATATAT
Found at i:80151252 original size:49 final size:46
Alignment explanation
Indices: 80151194--80151290 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 46
80151184 GTTTAAGGTT
* *
80151194 TATGGTTTAAGATATATGGTTTAGGGTTTAAGCAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATACGGTTTAGGGTTT-A--AGGTTTAAGAGTTAAC
80151243 TATGGTTTAAGATATACGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
1 TATGGTTTAAGATATACGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
80151289 TA
1 TA
80151291 GTATTTGAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
46 17 0.37
48 1 0.02
49 28 0.61
ACGTcount: A:0.30, C:0.04, G:0.26, T:0.40
Consensus pattern (46 bp):
TATGGTTTAAGATATACGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
Found at i:80155225 original size:19 final size:19
Alignment explanation
Indices: 80155202--80155248 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
80155192 ATTTAATCTA
*
80155202 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
80155220 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
80155240 ATTTTTATT
1 ATTTTTATT
80155249 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:80157763 original size:32 final size:32
Alignment explanation
Indices: 80157722--80157787 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
80157712 CATACATGTT
*
80157722 TAATTAGTTCAGATATTTCAAGCTCTTTGAAC
1 TAATTAGTTCAGATATTTCAAGCACTTTGAAC
*
80157754 TAATTAGTTCAGATATTTCAAGCAGTTTGAAC
1 TAATTAGTTCAGATATTTCAAGCACTTTGAAC
80157786 TA
1 TA
80157788 TTGGAAGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (32 bp):
TAATTAGTTCAGATATTTCAAGCACTTTGAAC
Found at i:80160849 original size:54 final size:51
Alignment explanation
Indices: 80160765--80160972 Score: 154
Period size: 54 Copynumber: 4.0 Consensus size: 51
80160755 AAATTCGAAA
* *
80160765 AAAAAAAGTTTTTGGGTTTGAGCAAAGTAAAAGTTTTGAGGGAAAGCAAAAG
1 AAAAAAAGTTTTGGGGTTTGAGCGAAGTAAAAGTTTTGAGGGAAAG-AAAAG
* * *
80160817 AAAAAAAGTTTTAGGGGTTTGGGAG-GAAGTAAAAATTTTGTGGAAAAGTAAAAG
1 AAAAAAAGTTTT-GGGGTTT--GAGCGAAGTAAAAGTTTTGAGGGAAAG-AAAAG
* * * * **
80160871 GAAAAAGGTTTTGAGGGTTTAAGTGAAGTGGAAGTTTTGAGAGGAAAATGAAAAGG
1 AAAAAAAGTTTTG-GGGTTTGAGCGAAGTAAAAGTTTTGAG-GG-AAA-GAAAA-G
* * * **
80160927 AAAAAAA--TTTGGGGTTTGGGAGAAGT-AAATTTTTTTGGGAAAGAAA
1 AAAAAAAGTTTTGGGGTTTGAGCGAAGTAAAAGTTTTGAGGGAAAGAAA
80160973 GAGGGTTTGA
Statistics
Matches: 124, Mismatches: 23, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
49 4 0.03
50 3 0.02
51 2 0.02
52 21 0.17
53 32 0.26
54 45 0.36
55 10 0.08
56 7 0.06
ACGTcount: A:0.42, C:0.01, G:0.30, T:0.26
Consensus pattern (51 bp):
AAAAAAAGTTTTGGGGTTTGAGCGAAGTAAAAGTTTTGAGGGAAAGAAAAG
Found at i:80161024 original size:9 final size:9
Alignment explanation
Indices: 80161001--80161037 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
80160991 AAAAGTTTGA
*
80161001 TATTTGATT
1 TATTTGAAT
*
80161010 TGTTTGAAT
1 TATTTGAAT
80161019 TATTTGAAT
1 TATTTGAAT
80161028 TATTTGAAT
1 TATTTGAAT
80161037 T
1 T
80161038 CGAAAATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (9 bp):
TATTTGAAT
Found at i:80163128 original size:15 final size:15
Alignment explanation
Indices: 80163108--80163137 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
80163098 TGAATTTATG
80163108 TTTGAATAAGTTTAA
1 TTTGAATAAGTTTAA
*
80163123 TTTGAATATGTTTAA
1 TTTGAATAAGTTTAA
80163138 ATCAAAAACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (15 bp):
TTTGAATAAGTTTAA
Found at i:80163932 original size:43 final size:43
Alignment explanation
Indices: 80163871--80164129 Score: 344
Period size: 43 Copynumber: 6.0 Consensus size: 43
80163861 TATATGTGAT
*
80163871 ATCGATATGTAATTATGTGTAAGACCACATCTGGGACGTTGGC
1 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
* *
80163914 ATCGATATGTAATTATGTGTAAAACCAAGTCTGGGACGTTGGC
1 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
* *
80163957 ATCGATATGTAATTATGTGTAAGACCACGTCTAGGACGTTTGC
1 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
* *
80164000 ATCGATATGTAATTATGTTTAAGACCA-GTTTGGGACGTTGGC
1 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
* * * *
80164042 ATCGATATGTGATTACGTGTAAGA-TATTGTCTGGGACAG-TGGC
1 ATCGATATGTAATTATGTGTAAGACCA-CGTCTGGGAC-GTTGGC
* ** *
80164085 ATCGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGC
1 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
80164128 AT
1 AT
80164130 TGTACGATAT
Statistics
Matches: 191, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.01
42 33 0.17
43 155 0.81
44 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
Found at i:80164106 original size:128 final size:129
Alignment explanation
Indices: 80163871--80164121 Score: 355
Period size: 128 Copynumber: 2.0 Consensus size: 129
80163861 TATATGTGAT
*
80163871 ATCGATATGTAATTATGTGTAAGACCACATCTGGGACGTTGGCATCGATATGTAATTATGTGTAA
1 ATCGATATGTAATTATGTGTAAGACCACATCTGGGACGTTGGCATCGATATGTAATTACGTGTAA
**
80163936 AACCAAGTCTGGGACGTTGGCATCGATATGTAATTATGTGTAAGACCACGTCTAGGACGTTTGC
66 AACCAAGTCTGGGACGTTGGCATCGATATGTAATTACATGTAAGACCACGTCTAGGACGTTTGC
* * * *
80164000 ATCGATATGTAATTATGTTTAAGACCA-GTTTGGGACGTTGGCATCGATATGTGATTACGTGTAA
1 ATCGATATGTAATTATGTGTAAGACCACATCTGGGACGTTGGCATCGATATGTAATTACGTGTAA
* * * * *
80164064 GA-TATTGTCTGGGACAG-TGGCATCGATATGTGATTACATGTAAGACCACGTCTGGGAC
66 AACCA-AGTCTGGGAC-GTTGGCATCGATATGTAATTACATGTAAGACCACGTCTAGGAC
80164122 ATTGGCATTG
Statistics
Matches: 108, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
127 1 0.01
128 80 0.74
129 27 0.25
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (129 bp):
ATCGATATGTAATTATGTGTAAGACCACATCTGGGACGTTGGCATCGATATGTAATTACGTGTAA
AACCAAGTCTGGGACGTTGGCATCGATATGTAATTACATGTAAGACCACGTCTAGGACGTTTGC
Found at i:80170000 original size:26 final size:27
Alignment explanation
Indices: 80169964--80170135 Score: 219
Period size: 26 Copynumber: 6.5 Consensus size: 27
80169954 GTAATCACTG
80169964 TAGGGTAAAATGACCGAAATA-CCCTA
1 TAGGGTAAAATGACCGAAATACCCCTA
*
80169990 TAGGGTAAAATGACCGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATACCCCTA
* * *
80170017 TTGGATAAAATGACCGAAATACCCCTG
1 TAGGGTAAAATGACCGAAATACCCCTA
80170044 TAGGGTAAAATGACCGAAATA-CCCTA
1 TAGGGTAAAATGACCGAAATACCCCTA
*
80170070 TAGGGTAAAAT-AACGAAAATACCCC-A
1 TAGGGTAAAATGACCG-AAATACCCCTA
* *
80170096 TAGGGTAAAATGA-CTATAATACCCCTG
1 TAGGGTAAAATGACCGA-AATACCCCTA
*
80170123 TAAGGTAAAATGA
1 TAGGGTAAAATGA
80170136 TTGATTTTCC
Statistics
Matches: 128, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
25 4 0.03
26 62 0.48
27 62 0.48
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (27 bp):
TAGGGTAAAATGACCGAAATACCCCTA
Found at i:80170033 original size:27 final size:26
Alignment explanation
Indices: 80169964--80170135 Score: 204
Period size: 27 Copynumber: 6.5 Consensus size: 26
80169954 GTAATCACTG
80169964 TAGGGTAAAATGACCGAAATACCCTA
1 TAGGGTAAAATGACCGAAATACCCTA
*
80169990 TAGGGTAAAATGACCGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATA-CCCTA
* * *
80170017 TTGGATAAAATGACCGAAATACCCCTG
1 TAGGGTAAAATGACCGAAATA-CCCTA
80170044 TAGGGTAAAATGACCGAAATACCCTA
1 TAGGGTAAAATGACCGAAATACCCTA
* *
80170070 TAGGGTAAAAT-AACGAAAATACCCCA
1 TAGGGTAAAATGACCG-AAATACCCTA
* *
80170096 TAGGGTAAAATGA-CTATAATACCCCTG
1 TAGGGTAAAATGACCGA-AATA-CCCTA
*
80170123 TAAGGTAAAATGA
1 TAGGGTAAAATGA
80170136 TTGATTTTCC
Statistics
Matches: 127, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
25 4 0.03
26 61 0.48
27 62 0.49
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (26 bp):
TAGGGTAAAATGACCGAAATACCCTA
Found at i:80170094 original size:80 final size:79
Alignment explanation
Indices: 80169961--80170135 Score: 264
Period size: 80 Copynumber: 2.2 Consensus size: 79
80169951 TGTGTAATCA
* *
80169961 CTGTAGGGTAAAATGACCGAAATACCCTATAGGGTAAAATGACCGAAATACCCCCATTGGATAAA
1 CTGTAGGGTAAAATGACCGAAATACCCTATAGGGTAAAATGAACGAAATA-CCCCATAGGATAAA
80170026 ATGACCGA-AATACCC
65 ATGA-CGATAATACCC
*
80170041 CTGTAGGGTAAAATGACCGAAATACCCTATAGGGTAAAAT-AACGAAAATACCCCATAGGGTAAA
1 CTGTAGGGTAAAATGACCGAAATACCCTATAGGGTAAAATGAACG-AAATACCCCATAGGATAAA
*
80170105 ATGACTATAATACCC
65 ATGACGATAATACCC
*
80170120 CTGTAAGGTAAAATGA
1 CTGTAGGGTAAAATGA
80170136 TTGATTTTCC
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
78 2 0.02
79 41 0.47
80 45 0.51
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (79 bp):
CTGTAGGGTAAAATGACCGAAATACCCTATAGGGTAAAATGAACGAAATACCCCATAGGATAAAA
TGACGATAATACCC
Found at i:80170617 original size:34 final size:34
Alignment explanation
Indices: 80170534--80170607 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
80170524 ACATTACTGC
* * *
80170534 ACTGATACTGTTACTGTAATGGGCTAAGACCCAC
1 ACTGATACTGATACTGTAACGGGCTAAGACCCAA
* *
80170568 ATTGATACTGATACTGTAACGGGCTTAGACCCAA
1 ACTGATACTGATACTGTAACGGGCTAAGACCCAA
80170602 ACTGAT
1 ACTGAT
80170608 CTATCTACTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (34 bp):
ACTGATACTGATACTGTAACGGGCTAAGACCCAA
Found at i:80173317 original size:27 final size:27
Alignment explanation
Indices: 80173277--80173438 Score: 227
Period size: 27 Copynumber: 6.0 Consensus size: 27
80173267 CATGTTGGGC
*
80173277 CGAAATACCCCCATAGGGTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATGAT
* * *
80173304 CAAAATACCTCCATAGGTTAAAATGAT
1 CGAAATACCCCCATAGGGTAAAATGAT
**
80173331 CGAAATACCCCTTTAGGGTAAAATGAT
1 CGAAATACCCCCATAGGGTAAAATGAT
*
80173358 CGAAATA-CCCCATAAGGTAAAATGAT
1 CGAAATACCCCCATAGGGTAAAATGAT
* *
80173384 CGAAATACCCCCATAAGGTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATGAT
*
80173411 CAAAATACCCCCATAGGGTAAAATGAT
1 CGAAATACCCCCATAGGGTAAAATGAT
80173438 C
1 C
80173439 NNNNNNNNNN
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 23 0.19
27 95 0.81
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.20
Consensus pattern (27 bp):
CGAAATACCCCCATAGGGTAAAATGAT
Found at i:80173377 original size:80 final size:81
Alignment explanation
Indices: 80173277--80173438 Score: 229
Period size: 80 Copynumber: 2.0 Consensus size: 81
80173267 CATGTTGGGC
* * * *
80173277 CGAAATACCCCCATAGGGTAAAATGACCAAAATACCTCCAT-AGGTTAAAATGATCGAAATACCC
1 CGAAATACCCCCATAAGGTAAAATGACCAAAATACCCCCATAAGG-TAAAATGACCAAAATACCC
**
80173341 CTTTAGGGTAAAATGAT
65 CCATAGGGTAAAATGAT
* *
80173358 CGAAATA-CCCCATAAGGTAAAATGATCGAAATACCCCCATAAGGTAAAATGACCAAAATACCCC
1 CGAAATACCCCCATAAGGTAAAATGACCAAAATACCCCCATAAGGTAAAATGACCAAAATACCCC
80173422 CATAGGGTAAAATGAT
66 CATAGGGTAAAATGAT
80173438 C
1 C
80173439 NNNNNNNNNN
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
80 62 0.86
81 10 0.14
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.20
Consensus pattern (81 bp):
CGAAATACCCCCATAAGGTAAAATGACCAAAATACCCCCATAAGGTAAAATGACCAAAATACCCC
CATAGGGTAAAATGAT
Found at i:80178190 original size:33 final size:33
Alignment explanation
Indices: 80178153--80178221 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
80178143 AGATCAATTT
** *
80178153 ATATTTTATGTATTATTATGTTAAATTATTTAA
1 ATATTTTATGTAACATTATATTAAATTATTTAA
80178186 ATATTTTATGTAACATTATATTAAATTATTTAA
1 ATATTTTATGTAACATTATATTAAATTATTTAA
80178219 ATA
1 ATA
80178222 AAAATTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (33 bp):
ATATTTTATGTAACATTATATTAAATTATTTAA
Found at i:80178203 original size:23 final size:25
Alignment explanation
Indices: 80178163--80178216 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 25
80178153 ATATTTTATG
80178163 TATTATTATGTTAAATTAT-TTAAA-
1 TATT-TTATGTTAAATTATATTAAAT
80178187 TATTTTATG-TAACATTATATTAAAT
1 TATTTTATGTTAA-ATTATATTAAAT
80178212 TATTT
1 TATTT
80178217 AAATAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 3 0.11
23 10 0.37
24 9 0.33
25 5 0.19
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (25 bp):
TATTTTATGTTAAATTATATTAAAT
Found at i:80190437 original size:2 final size:2
Alignment explanation
Indices: 80190430--80191231 Score: 1604
Period size: 2 Copynumber: 401.0 Consensus size: 2
80190420 ATGTTTACTC
80190430 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80190472 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80190514 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80190556 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80190598 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80190640 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80190682 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80190724 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80190766 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80190808 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80190850 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80190892 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80190934 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80190976 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80191018 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80191060 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80191102 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80191144 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80191186 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
80191228 CA CA
1 CA CA
80191232 TATATATTTA
Statistics
Matches: 800, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 800 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:80200358 original size:28 final size:28
Alignment explanation
Indices: 80200318--80200397 Score: 108
Period size: 28 Copynumber: 2.9 Consensus size: 28
80200308 ATAAAAAAAA
*
80200318 GGAA-GTCCGCCATGGACTATCTTACGT
1 GGAATGTCCGCCATAGACTATCTTACGT
* *
80200345 GGAATGTCTGCCATAGACTATCTTATGT
1 GGAATGTCCGCCATAGACTATCTTACGT
* *
80200373 GGAATGTCCACCAAAGACTATCTTA
1 GGAATGTCCGCCATAGACTATCTTA
80200398 AAAATGGGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 4 0.09
28 42 0.91
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (28 bp):
GGAATGTCCGCCATAGACTATCTTACGT
Found at i:80201619 original size:25 final size:26
Alignment explanation
Indices: 80201563--80201619 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
80201553 TACAAATTTG
* *
80201563 AAAATTGCACTAATTTGGACAGTAGC
1 AAAATTGCACTAATTTGAACAATAGC
* *
80201589 AGAATT-CACTAATTTGAACAATAGT
1 AAAATTGCACTAATTTGAACAATAGC
80201614 AAAATT
1 AAAATT
80201620 TCATTTATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (26 bp):
AAAATTGCACTAATTTGAACAATAGC
Found at i:80202835 original size:18 final size:19
Alignment explanation
Indices: 80202812--80202850 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
80202802 AATTTGAAAC
80202812 AAAATA-GAAAATTTTAGA
1 AAAATATGAAAATTTTAGA
80202830 AAAATATGAAAATTTTAGA
1 AAAATATGAAAATTTTAGA
80202849 AA
1 AA
80202851 CAAGGATCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (19 bp):
AAAATATGAAAATTTTAGA
Found at i:80205081 original size:23 final size:25
Alignment explanation
Indices: 80205054--80205102 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
80205044 AAGATGACCC
80205054 TATTTTCATTATATT-ACTT-TTAT
1 TATTTTCATTATATTAACTTATTAT
*
80205077 TATTTTCATTATTTTAACTTATTAT
1 TATTTTCATTATATTAACTTATTAT
80205102 T
1 T
80205103 CAATAGCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.61
24 4 0.17
25 5 0.22
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (25 bp):
TATTTTCATTATATTAACTTATTAT
Found at i:80210744 original size:27 final size:26
Alignment explanation
Indices: 80210687--80210738 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
80210677 TATATAATTC
80210687 TTATAAAATAATTAAATTGTATACTTA
1 TTATAAAATAATTAAATTG-ATACTTA
80210714 TTATAAAATAATTAAATTG-TACTTA
1 TTATAAAATAATTAAATTGATACTTA
80210739 AATTATTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 6 0.24
27 19 0.76
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (26 bp):
TTATAAAATAATTAAATTGATACTTA
Found at i:80210955 original size:6 final size:6
Alignment explanation
Indices: 80210944--80210978 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
80210934 CATAATATAA
80210944 TTAATT TTAATT TTAATT TTAATT TTAATT TTAAT
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAAT
80210979 CCAAATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTAATT
Found at i:80210985 original size:18 final size:18
Alignment explanation
Indices: 80210946--80210991 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
80210936 TAATATAATT
***
80210946 AATTTTAATTTTAATTTT
1 AATTTTAATTTTAATCCA
80210964 AATTTTAATTTTAATCCA
1 AATTTTAATTTTAATCCA
80210982 AA-TTTAATTT
1 AATTTTAATTT
80210992 GGGTTAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTTTAATTTTAATCCA
Found at i:80212293 original size:20 final size:21
Alignment explanation
Indices: 80212248--80212293 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
80212238 GTCATGGATG
80212248 TATTATGCTAGAAATTAGAAA
1 TATTATGCTAGAAATTAGAAA
*
80212269 T-TTATGGTAGAGAA-TA-AAA
1 TATTATGCTAGA-AATTAGAAA
80212288 TATTAT
1 TATTAT
80212294 TGATAGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 4 0.18
20 15 0.68
21 3 0.14
ACGTcount: A:0.46, C:0.02, G:0.15, T:0.37
Consensus pattern (21 bp):
TATTATGCTAGAAATTAGAAA
Found at i:80215165 original size:21 final size:22
Alignment explanation
Indices: 80215141--80215182 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
80215131 TGTAACAACA
80215141 TAAA-CATGAGTTTAGTAATTC
1 TAAAGCATGAGTTTAGTAATTC
* *
80215162 TAAAGTATGAGTTTATTAATT
1 TAAAGCATGAGTTTAGTAATT
80215183 AAAATCATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (22 bp):
TAAAGCATGAGTTTAGTAATTC
Found at i:80219616 original size:27 final size:28
Alignment explanation
Indices: 80219532--80219628 Score: 142
Period size: 27 Copynumber: 3.5 Consensus size: 28
80219522 CATGAGATTG
* * *
80219532 GCACTAAGTGTGCGAGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
80219561 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
80219589 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
80219616 GCACTGAGTGTGC
1 GCACTAAGTGTGC
80219629 AGACTTAATA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 23 0.36
28 22 0.34
29 19 0.30
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:80219640 original size:27 final size:27
Alignment explanation
Indices: 80219532--80219642 Score: 98
Period size: 27 Copynumber: 4.0 Consensus size: 27
80219522 CATGAGATTG
* * * *
80219532 GCACTAAGTGTGCGAGTTTAAATTGTACA
1 GCACTAAGTGTGCGA-CTTGAA-TATATA
* *
80219561 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTGAATATATA
* *
80219589 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTGAATATATA
*
80219616 GCACTGAGTGTGCAGACTT-AATATATA
1 GCACTAAGTGTGC-GACTTGAATATATA
80219643 TTTTTGAATC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 30 0.41
28 23 0.32
29 20 0.27
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTGAATATATA
Found at i:80219643 original size:29 final size:27
Alignment explanation
Indices: 80219532--80219643 Score: 107
Period size: 28 Copynumber: 4.0 Consensus size: 27
80219522 CATGAGATTG
* * *
80219532 GCACTAAGTGTGCGAGTTTAAATTGTACA
1 GCACTAAGTGTGCGA-CTT-AATTATATA
* *
80219561 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
80219589 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
80219616 GCACTGAGTGTGCAGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
80219644 TTTTGAATCA
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
27 23 0.31
28 27 0.36
29 24 0.32
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:80224125 original size:31 final size:31
Alignment explanation
Indices: 80224082--80224162 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
80224072 TATCAGAACT
* *
80224082 AGAATCAAAATCAGAATGAAAATTAGGTGAC
1 AGAATCAAAATCAGAATGAAAATCAGGTAAC
* * * **
80224113 AGAATCAGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATGAAAATCAGGTAAC
80224144 AGAATCAAAACTCAGAATG
1 AGAATCAAAA-TCAGAATG
80224163 TGAATGCAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 33 0.85
32 6 0.15
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATGAAAATCAGGTAAC
Found at i:80224340 original size:27 final size:26
Alignment explanation
Indices: 80224298--80224407 Score: 123
Period size: 27 Copynumber: 4.2 Consensus size: 26
80224288 GCTCAGTTAT
* * *
80224298 CAGATATTGTGACAGAGTCACTAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
80224325 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
80224351 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
80224379 CAGATAATGTGGCAAAGCCA-CATAA
1 CAGATATTGTGGCAGAGCCACCAGAA
80224404 CAGA
1 CAGA
80224408 ATACGTGGCA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
25 6 0.08
26 9 0.12
27 51 0.69
28 8 0.11
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:80224583 original size:22 final size:22
Alignment explanation
Indices: 80224558--80224621 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
80224548 GCAAATACGT
*
80224558 TTGGCATACAGCCATAATCAAG
1 TTGGCATAAAGCCATAATCAAG
* * * *
80224580 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCATAAAGCCATAAT-CAAG
*
80224602 TTGACATAAAGCCATAATCA
1 TTGGCATAAAGCCATAATCA
80224622 GAAGGCTTTA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 2 0.06
22 28 0.88
23 2 0.06
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (22 bp):
TTGGCATAAAGCCATAATCAAG
Found at i:80225106 original size:27 final size:27
Alignment explanation
Indices: 80225049--80225512 Score: 671
Period size: 27 Copynumber: 17.3 Consensus size: 27
80225039 GGGGTAAAAT
* * *
80225049 GGTAATTTTACCCTACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
80225075 GGTAATTCCACTCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
80225102 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
80225129 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
80225156 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
80225183 GGTAATTTTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
80225210 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
80225237 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
80225264 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
80225291 GGTAATTTTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
80225318 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
80225345 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
80225372 GGTAATTTTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
80225399 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
80225426 GGTAATTCTACCATACAAGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
80225453 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
80225480 GGTAATTCTACCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
80225506 GATAATT
1 GGTAATT
80225513 TCACAAATCA
Statistics
Matches: 390, Mismatches: 47, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
26 29 0.07
27 361 0.93
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:80225719 original size:27 final size:27
Alignment explanation
Indices: 80225417--80225774 Score: 203
Period size: 27 Copynumber: 13.2 Consensus size: 27
80225407 TACCCTATAG
* * * *
80225417 GGGTATTTCGGTAATTCTACCATACAA
1 GGGTATTTTGGTAATTTTATCAAACAA
** * * **
80225444 GGGTATTCCGGTAATTCTACCCTACAA
1 GGGTATTTTGGTAATTTTATCAAACAA
* * * **
80225471 GGGTATTTCGGTAATTCTACCCTAC-A
1 GGGTATTTTGGTAATTTTATCAAACAA
* * * *
80225497 GGGTATTTCGATAATTTCA-CAAATCAG
1 GGGTATTTTGGTAATTTTATCAAA-CAA
* * *
80225524 GGGTATTTCGATAATTTTA-CAAACTA
1 GGGTATTTTGGTAATTTTATCAAACAA
* *
80225550 GGGATATTTTTGTAATTTTA-CAAACTAG
1 GGG-TATTTTGGTAATTTTATCAAAC-AA
80225578 GGGTATTTTGGTAATTTTAT-AAACCAAA
1 GGGTATTTTGGTAATTTTATCAAA-C-AA
* *
80225606 GGGTATTTTAGTAATTTTA-CAAACCAG
1 GGGTATTTTGGTAATTTTATCAAA-CAA
* *
80225633 GGGTATTTTGGTAATTTTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTAT-CAAA-CAA
* *
80225662 GGGTATTTTGGTAATCTTA-CAAACCAG
1 GGGTATTTTGGTAATTTTATCAAA-CAA
** * *
80225689 GGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTTGGTAATTTTATCAAACAA
* *
80225716 GGGTATTTGGGTAATTTTGT-AAACCAA
1 GGGTATTTTGGTAATTTTATCAAA-CAA
** *
80225743 GGGTATTTCAGTAATTTTGT-AAATCAA
1 GGGTATTTTGGTAATTTTATCAAA-CAA
80225770 GGGTA
1 GGGTA
80225775 AAATGGTAAT
Statistics
Matches: 276, Mismatches: 44, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.01
26 23 0.08
27 199 0.72
28 29 0.11
29 23 0.08
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATCAAACAA
Found at i:80225773 original size:54 final size:54
Alignment explanation
Indices: 80225496--80225774 Score: 290
Period size: 54 Copynumber: 5.1 Consensus size: 54
80225486 TCTACCCTAC
* * * * * * * *
80225496 AGGGTATTTCGATAATTTCACAAATCAGGGGTATTTCGATAATTTTACAAA-CT
1 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* *
80225549 AGGGATATTTTTGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
1 AGGG-TATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACC-A
* *
80225605 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAA--TTTTATAAACCA
* ** * *
80225661 AGGGTATTTTGGTAATCTTACAAACCAGGGGTATTTTGGTAATTTTATTGATCG
1 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* ** * ** * *
80225715 AGGGTATTTGGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCA
1 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
80225769 AGGGTA
1 AGGGTA
80225775 AAATGGTAAT
Statistics
Matches: 190, Mismatches: 31, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
53 4 0.02
54 94 0.49
55 37 0.19
56 45 0.24
57 10 0.05
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
Found at i:80225783 original size:27 final size:27
Alignment explanation
Indices: 80225725--80225785 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
80225715 AGGGTATTTG
**
80225725 GGTAATTTTGTAAACCAAGGGTATTTC
1 GGTAATTTTGTAAACCAAGGGTAAATC
* *
80225752 AGTAATTTTGTAAATCAAGGGTAAAAT-
1 GGTAATTTTGTAAACCAAGGGT-AAATC
80225779 GGTAATT
1 GGTAATT
80225786 CTATCTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 26 0.93
28 2 0.07
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTAATTTTGTAAACCAAGGGTAAATC
Found at i:80225822 original size:27 final size:27
Alignment explanation
Indices: 80225792--80225886 Score: 104
Period size: 27 Copynumber: 3.5 Consensus size: 27
80225782 AATTCTATCT
*
80225792 TATTTCAGTAATTTTACAAATCGAGGA
1 TATTTCAGTAATTTTACAAATCGAGGG
** *
80225819 TATTTGGGTAATTTTATAAATC-AGGGG
1 TATTTCAGTAATTTTACAAATCGA-GGG
* *
80225846 TACTTT-GGTAATTTTACAAGTCGAGGG
1 TA-TTTCAGTAATTTTACAAATCGAGGG
80225873 TATTTCAGTAATTT
1 TATTTCAGTAATTT
80225887 GGTAAACTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
26 4 0.07
27 49 0.86
28 4 0.07
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
TATTTCAGTAATTTTACAAATCGAGGG
Found at i:80227875 original size:31 final size:31
Alignment explanation
Indices: 80227839--80227949 Score: 123
Period size: 31 Copynumber: 3.5 Consensus size: 31
80227829 TATCAGAACT
* * ** * *
80227839 AGAATCAGAATCAGAATGAAAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
80227870 AGAATCAGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
80227901 AGAATCAAAACCAGAATCAGTATGAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
80227932 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
80227950 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 58 0.85
32 10 0.15
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:80228128 original size:27 final size:26
Alignment explanation
Indices: 80228086--80228187 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
80228076 GCTCAGTTAT
* * *
80228086 CAGATATTATGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
80228113 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
80228139 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
80228167 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
80228188 ATAATAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 52 0.78
28 8 0.12
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:80228382 original size:22 final size:22
Alignment explanation
Indices: 80228346--80228410 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
80228336 GCAAATACGT
80228346 TTGGCACACAA-CCATAATCAGG
1 TTGGCACA-AAGCCATAATCAGG
* *
80228368 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
80228390 TTGACGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
80228411 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Done.