Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 207 of 276
Found at i:68788149 original size:18 final size:18
Alignment explanation
Indices: 68788128--68788162 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
68788118 AGAAAAGAAA
68788128 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
68788146 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
68788163 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:68790573 original size:27 final size:26
Alignment explanation
Indices: 68790525--68790576 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
68790515 GCGAGGCTGC
*
68790525 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
68790551 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
68790577 TTGCAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:68791256 original size:27 final size:27
Alignment explanation
Indices: 68791226--68791423 Score: 247
Period size: 27 Copynumber: 7.4 Consensus size: 27
68791216 GAGGCAAAAT
* * *
68791226 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
68791253 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
68791280 GGTATTTC-ACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
68791306 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
68791333 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
68791360 AGTAATTCTACCTTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
68791386 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
68791413 AGTAATTCTAC
1 GGTAATTCTAC
68791424 AACTTATCCA
Statistics
Matches: 147, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 46 0.31
27 101 0.69
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:68791302 original size:53 final size:54
Alignment explanation
Indices: 68791230--68791423 Score: 277
Period size: 53 Copynumber: 3.6 Consensus size: 54
68791220 CAAAATGGTA
* * * * *
68791230 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCGGT
* *
68791283 ATTTC-ACCTTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCGGT
68791336 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCTTACA-GGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCGGT
* * *
68791389 AATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTAC
68791424 AACTTATCCA
Statistics
Matches: 129, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
53 96 0.74
54 33 0.26
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.37
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCGGT
Found at i:68791359 original size:80 final size:80
Alignment explanation
Indices: 68791226--68791423 Score: 272
Period size: 80 Copynumber: 2.5 Consensus size: 80
68791216 GAGGCAAAAT
* * * * * * * *
68791226 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGTATTTC-AC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
68791290 CTTACAAGGGTATTTC
66 CTTAC-AGGGTATTTC
* *
68791306 GGTAATTCTACCTTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
68791371 CTTACAGGGTATTTC
66 CTTACAGGGTATTTC
**
68791386 GGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
68791424 AACTTATCCA
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
80 96 0.93
81 7 0.07
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (80 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
CTTACAGGGTATTTC
Found at i:68792450 original size:54 final size:54
Alignment explanation
Indices: 68792368--68792475 Score: 171
Period size: 54 Copynumber: 2.0 Consensus size: 54
68792358 GCCATGATTA
** *
68792368 CGCCACAGTACCTTTACTAGCGAAACTAATTTTCGCCTCAAAATCTTAACATCT
1 CGCCACAACACCTTTACTAGCGAAACTAATTTCCGCCTCAAAATCTTAACATCT
* *
68792422 CGCCACAACACCTTTACTAGCGGAACTAATTTCCTCCTCAAAATCTTAACATCT
1 CGCCACAACACCTTTACTAGCGAAACTAATTTCCGCCTCAAAATCTTAACATCT
68792476 TGATCCAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.29
Consensus pattern (54 bp):
CGCCACAACACCTTTACTAGCGAAACTAATTTCCGCCTCAAAATCTTAACATCT
Found at i:68799508 original size:8 final size:8
Alignment explanation
Indices: 68799491--68799530 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
68799481 TACCAAAGTA
*
68799491 GGCCCGTT
1 GGCCCATT
*
68799499 GGCCTATT
1 GGCCCATT
*
68799507 GGCCCGTT
1 GGCCCATT
68799515 GGCCCATT
1 GGCCCATT
68799523 GGCCCATT
1 GGCCCATT
68799531 TTCGGCCCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.07, C:0.35, G:0.30, T:0.28
Consensus pattern (8 bp):
GGCCCATT
Found at i:68799512 original size:16 final size:16
Alignment explanation
Indices: 68799491--68799527 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
68799481 TACCAAAGTA
*
68799491 GGCCCGTTGGCCTATT
1 GGCCCGTTGGCCCATT
68799507 GGCCCGTTGGCCCATT
1 GGCCCGTTGGCCCATT
68799523 GGCCC
1 GGCCC
68799528 ATTTTCGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.05, C:0.38, G:0.32, T:0.24
Consensus pattern (16 bp):
GGCCCGTTGGCCCATT
Found at i:68806520 original size:16 final size:16
Alignment explanation
Indices: 68806496--68806533 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
68806486 GTAGATCGGT
* *
68806496 AAAAACCAAAATGTCG
1 AAAAGCCAAAATGCCG
68806512 AAAAGCCAAAATGCCG
1 AAAAGCCAAAATGCCG
68806528 AAAAGC
1 AAAAGC
68806534 TGAAAGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.55, C:0.21, G:0.16, T:0.08
Consensus pattern (16 bp):
AAAAGCCAAAATGCCG
Found at i:68806834 original size:29 final size:29
Alignment explanation
Indices: 68806762--68806896 Score: 136
Period size: 29 Copynumber: 4.7 Consensus size: 29
68806752 ATAATATGAT
68806762 TTGGGCCGGATGGGCCATAT-AAA-TGAGA
1 TTGGGCCGGATGGGCCATATGAAAGTGA-A
**
68806790 TTGGGCCTAATGGGCCATATGAAAGTGAA
1 TTGGGCCGGATGGGCCATATGAAAGTGAA
* ** *
68806819 TTGGGCCGGATAGGCCATATGAGTGTGGA
1 TTGGGCCGGATGGGCCATATGAAAGTGAA
68806848 TTGGGCCGGATGGGCCATAT-AAA-TGAGA
1 TTGGGCCGGATGGGCCATATGAAAGTGA-A
* *
68806876 TTTGGCC-TAGTGGGCCATATG
1 TTGGGCCGGA-TGGGCCATATG
68806897 CATGTATATA
Statistics
Matches: 88, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
27 3 0.03
28 36 0.41
29 46 0.52
30 3 0.03
ACGTcount: A:0.25, C:0.15, G:0.36, T:0.24
Consensus pattern (29 bp):
TTGGGCCGGATGGGCCATATGAAAGTGAA
Found at i:68813276 original size:81 final size:82
Alignment explanation
Indices: 68813181--68813364 Score: 246
Period size: 81 Copynumber: 2.3 Consensus size: 82
68813171 AGTACTCAAT
* * *
68813181 ATCTCGCACACTAAGTGTCGTACATAGCTGAAGCTATCTCAA-ATTGCACACTAAATGCCATATA
1 ATCTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAATATTGCACACTAAATGCCATATA
*
68813245 TAGCCGAAGCTATCTCA
66 CAGCCGAAGCTATCTCA
* * * *
68813262 ATCTCGCACCCTAAGTGCCATATATAGCCGAAGCTATCTCAATCTTGCACACTAAGTGCCATATA
1 ATCTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAATATTGCACACTAAATGCCATATA
* *
68813327 CAGCTGAAGCTATGTCA
66 CAGCCGAAGCTATCTCA
* *
68813344 A-ATCGCACACTAAATGCCATA
1 ATCTCGCACACTAAGTGCCATA
68813365 TGTAGCAGAT
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 54 0.61
82 35 0.39
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (82 bp):
ATCTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAATATTGCACACTAAATGCCATATA
CAGCCGAAGCTATCTCA
Found at i:68813289 original size:41 final size:41
Alignment explanation
Indices: 68813181--68813370 Score: 233
Period size: 41 Copynumber: 4.7 Consensus size: 41
68813171 AGTACTCAAT
* * * *
68813181 ATCTCGCACACTAAGTGTCGTACATAGCTGAAGCTATCTCAA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTC-A
*
68813223 AT-T-GCACACTAAATGCCATATATAGCCGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
*
68813262 ATCTCGCACCCTAAGTGCCATATATAGCCGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
* * * *
68813303 ATCTTGCACACTAAGTGCCATATACAGCTGAAGCTATGTCA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
* * *
68813344 A-ATCGCACACTAAATGCCATATGTAGC
1 ATCTCGCACACTAAGTGCCATATATAGC
68813371 AGATGTGACA
Statistics
Matches: 129, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.02
40 52 0.40
41 72 0.56
42 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
Found at i:68831946 original size:16 final size:16
Alignment explanation
Indices: 68831925--68831956 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
68831915 TTTGTAACGC
68831925 CCCAAAGATCCTGAAA
1 CCCAAAGATCCTGAAA
*
68831941 CCCAAAGATCTTGAAA
1 CCCAAAGATCCTGAAA
68831957 TCCTAAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.28, G:0.12, T:0.16
Consensus pattern (16 bp):
CCCAAAGATCCTGAAA
Found at i:68832618 original size:35 final size:34
Alignment explanation
Indices: 68832571--68832652 Score: 112
Period size: 35 Copynumber: 2.4 Consensus size: 34
68832561 TTGTGTCAAA
*
68832571 TTCTATTATTCCTTTACTTCATTGCTAACTTTTCT
1 TTCTATT-TTCCTTTACCTCATTGCTAACTTTTCT
* *
68832606 TTCTATTCTTCCTATACCTCATTGCTGACTTTTCT
1 TTCTATT-TTCCTTTACCTCATTGCTAACTTTTCT
68832641 TTCT-TTTTCCTT
1 TTCTATTTTCCTT
68832653 GGAGTCGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 5 0.12
34 2 0.05
35 35 0.83
ACGTcount: A:0.13, C:0.26, G:0.04, T:0.57
Consensus pattern (34 bp):
TTCTATTTTCCTTTACCTCATTGCTAACTTTTCT
Found at i:68833257 original size:24 final size:24
Alignment explanation
Indices: 68833227--68833277 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
68833217 ATGAATCGGC
* *
68833227 AAAAGTCGAAATGTCGAAATGCCA
1 AAAAGTCGAAATGCCGAAAAGCCA
68833251 AAAAGTCGAAATGCCGAAAAGCCA
1 AAAAGTCGAAATGCCGAAAAGCCA
68833275 AAA
1 AAA
68833278 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.18, G:0.20, T:0.12
Consensus pattern (24 bp):
AAAAGTCGAAATGCCGAAAAGCCA
Found at i:68833260 original size:16 final size:16
Alignment explanation
Indices: 68833239--68833271 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
68833229 AAGTCGAAAT
68833239 GTCGAAATGCCAAAAA
1 GTCGAAATGCCAAAAA
*
68833255 GTCGAAATGCCGAAAA
1 GTCGAAATGCCAAAAA
68833271 G
1 G
68833272 CCAAAAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.12
Consensus pattern (16 bp):
GTCGAAATGCCAAAAA
Found at i:68833528 original size:28 final size:28
Alignment explanation
Indices: 68833488--68833611 Score: 104
Period size: 29 Copynumber: 4.4 Consensus size: 28
68833478 GTGAGCATGA
* *
68833488 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGACTGGGCCTAATGGGCC
*
68833516 ATATAAATGTGACTTGGGCCTAATAGGCC
1 ATATAAATGTGAC-TGGGCCTAATGGGCC
* * * *
68833545 ATATACAGGTGATTTGGGCCTAATGGGCT
1 ATATAAATGTGA-CTGGGCCTAATGGGCC
* * * * *
68833574 ATATGAATATTAATGGGCTTAATGGGCC
1 ATATAAATGTGACTGGGCCTAATGGGCC
* *
68833602 AGATACATGT
1 ATATAAATGT
68833612 ATGTGAATTT
Statistics
Matches: 74, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
28 31 0.42
29 43 0.58
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.28
Consensus pattern (28 bp):
ATATAAATGTGACTGGGCCTAATGGGCC
Found at i:68833544 original size:29 final size:29
Alignment explanation
Indices: 68833488--68833577 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 29
68833478 GTGAGCATGA
* *
68833488 ATATGAATGTGAC-TGGGCCTAACGGGCC
1 ATATAAATGTGACTTGGGCCTAATGGGCC
*
68833516 ATATAAATGTGACTTGGGCCTAATAGGCC
1 ATATAAATGTGACTTGGGCCTAATGGGCC
* * * *
68833545 ATATACAGGTGATTTGGGCCTAATGGGCT
1 ATATAAATGTGACTTGGGCCTAATGGGCC
68833574 ATAT
1 ATAT
68833578 GAATATTAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 12 0.23
29 41 0.77
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (29 bp):
ATATAAATGTGACTTGGGCCTAATGGGCC
Found at i:68836838 original size:25 final size:25
Alignment explanation
Indices: 68836804--68836854 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
68836794 TCGGTGGACC
* *
68836804 ACACATTCAGTAGAAACATTTTAAA
1 ACACATTCAGTACAAACATTTCAAA
68836829 ACACATTCAGTACAAACATTTCAAA
1 ACACATTCAGTACAAACATTTCAAA
68836854 A
1 A
68836855 TACTTCCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.20, G:0.06, T:0.25
Consensus pattern (25 bp):
ACACATTCAGTACAAACATTTCAAA
Found at i:68837988 original size:27 final size:28
Alignment explanation
Indices: 68837928--68837988 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
68837918 CATACATCTC
*
68837928 ATAGAGGCATAACAGTCATTTTATCACA
1 ATAGGGGCATAACAGTCATTTTATCACA
* *
68837956 CT-GGGGCATAATAGTCATTTTATC-CA
1 ATAGGGGCATAACAGTCATTTTATCACA
68837982 ATAGGGG
1 ATAGGGG
68837989 TCCAGGTACA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 3 0.11
27 24 0.86
28 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (28 bp):
ATAGGGGCATAACAGTCATTTTATCACA
Found at i:68840787 original size:32 final size:31
Alignment explanation
Indices: 68840730--68840797 Score: 100
Period size: 32 Copynumber: 2.2 Consensus size: 31
68840720 TGAAACAGGG
68840730 ACACACGCCCGCGTGGGTAGGCCGTGTGGTC
1 ACACACGCCCGCGTGGGTAGGCCGTGTGGTC
* * *
68840761 ACACACTCCCGTGTGCGTTAGGCCGTGTGGTC
1 ACACACGCCCGCGTG-GGTAGGCCGTGTGGTC
68840793 ACACA
1 ACACA
68840798 TACCCATGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.19
Consensus pattern (31 bp):
ACACACGCCCGCGTGGGTAGGCCGTGTGGTC
Found at i:68842503 original size:27 final size:28
Alignment explanation
Indices: 68842469--68842534 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
68842459 TGTCTCGCAT
*
68842469 ACTAAGTGCCATACTCAATATCTCATAC
1 ACTAAGTGCCATACTCAATATCTCACAC
* * *
68842497 AC-AAGTGCCATTCTCAATATTTCGCAC
1 ACTAAGTGCCATACTCAATATCTCACAC
68842524 ACTAAGTGCCA
1 ACTAAGTGCCA
68842535 CATTGATGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 23 0.70
28 10 0.30
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.27
Consensus pattern (28 bp):
ACTAAGTGCCATACTCAATATCTCACAC
Found at i:68842578 original size:46 final size:40
Alignment explanation
Indices: 68842518--68842706 Score: 216
Period size: 40 Copynumber: 4.4 Consensus size: 40
68842508 TCTCAATATT
68842518 TCGCACACTAAGTGCCACATTGATGTATAGCCAAAGCTATCTCAAA
1 TCGCACACTAAGTGCCAC----AT-T-TAGCCAAAGCTATCTCAAA
* * *
68842564 TCGCACACCAAGTGCCACATTTAGCCGAAGCTATTTCAAA
1 TCGCACACTAAGTGCCACATTTAGCCAAAGCTATCTCAAA
68842604 TCGCACACTAAGTGCCACATTGATGTATAGCCAAAGCTATCTCAAA
1 TCGCACACTAAGTGCCAC----AT-T-TAGCCAAAGCTATCTCAAA
* * *
68842650 TCGCACACCAAGTGCCACATTTAGCCGAAGCTATTTCAAA
1 TCGCACACTAAGTGCCACATTTAGCCAAAGCTATCTCAAA
68842690 TCGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
68842707 TTCTTAGCCG
Statistics
Matches: 127, Mismatches: 10, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
40 67 0.53
41 2 0.02
42 4 0.03
44 2 0.02
45 1 0.01
46 51 0.40
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (40 bp):
TCGCACACTAAGTGCCACATTTAGCCAAAGCTATCTCAAA
Found at i:68842663 original size:86 final size:86
Alignment explanation
Indices: 68842518--68842706 Score: 378
Period size: 86 Copynumber: 2.2 Consensus size: 86
68842508 TCTCAATATT
68842518 TCGCACACTAAGTGCCACATTGATGTATAGCCAAAGCTATCTCAAATCGCACACCAAGTGCCACA
1 TCGCACACTAAGTGCCACATTGATGTATAGCCAAAGCTATCTCAAATCGCACACCAAGTGCCACA
68842583 TTTAGCCGAAGCTATTTCAAA
66 TTTAGCCGAAGCTATTTCAAA
68842604 TCGCACACTAAGTGCCACATTGATGTATAGCCAAAGCTATCTCAAATCGCACACCAAGTGCCACA
1 TCGCACACTAAGTGCCACATTGATGTATAGCCAAAGCTATCTCAAATCGCACACCAAGTGCCACA
68842669 TTTAGCCGAAGCTATTTCAAA
66 TTTAGCCGAAGCTATTTCAAA
68842690 TCGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
68842707 TTCTTAGCCG
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 103 1.00
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (86 bp):
TCGCACACTAAGTGCCACATTGATGTATAGCCAAAGCTATCTCAAATCGCACACCAAGTGCCACA
TTTAGCCGAAGCTATTTCAAA
Found at i:68846572 original size:42 final size:42
Alignment explanation
Indices: 68846473--68846577 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 42
68846463 GTCCAAATAT
* * * ** *
68846473 GGTCTTACACGAAGTCTCACATCGATGCCATGTCCCAGACAT
1 GGTCTTACACGAAATCTCATATCAATGCCACATCCCAGACAC
* * * * *
68846515 GGTCTAATACAAAATCACATATCAATGCCGCATCCCAGACAC
1 GGTCTTACACGAAATCTCATATCAATGCCACATCCCAGACAC
68846557 GGTCTTACACGAAATCTCATA
1 GGTCTTACACGAAATCTCATA
68846578 CCTAAACCAT
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (42 bp):
GGTCTTACACGAAATCTCATATCAATGCCACATCCCAGACAC
Found at i:68846753 original size:37 final size:36
Alignment explanation
Indices: 68846686--68846779 Score: 134
Period size: 37 Copynumber: 2.6 Consensus size: 36
68846676 TGTCCCAGAC
* *
68846686 ATGGTCTTACATGTATCACAATGCCATAGCCTAGCT
1 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCT
* *
68846722 ATGGTCTTACACGCTATTACGATGCCATAGCCCAGCT
1 ATGGTCTTACACG-TATCACAATGCCATAGCCCAGCT
68846759 ATGGTCTTACACGTACTCACA
1 ATGGTCTTACACGTA-TCACA
68846780 TGTATTGCCA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
36 14 0.28
37 36 0.72
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.29
Consensus pattern (36 bp):
ATGGTCTTACACGTATCACAATGCCATAGCCCAGCT
Found at i:68849476 original size:28 final size:28
Alignment explanation
Indices: 68849424--68849500 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
68849414 ATCTTCGATG
** *
68849424 TCTCGCATACTAAGTTTCATACTCAGTA
1 TCTCGCATACTAAGTGCCATACTCAATA
* *
68849452 TCTCGCATACCAAGTGCCATTCTCAATA
1 TCTCGCATACTAAGTGCCATACTCAATA
* * *
68849480 TTTCACACACTAAGTGCCATA
1 TCTCGCATACTAAGTGCCATA
68849501 TATATATATA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.31
Consensus pattern (28 bp):
TCTCGCATACTAAGTGCCATACTCAATA
Found at i:68855662 original size:42 final size:43
Alignment explanation
Indices: 68855611--68855707 Score: 146
Period size: 42 Copynumber: 2.3 Consensus size: 43
68855601 ATAGCCCAAC
*
68855611 TATGGTCTTACACG-AAATCTCATATTGATGTCATAT-CCTAGA
1 TATGGTCTTACACGAAAATCTCATAATGATGTCATATGCC-AGA
*
68855653 TATGGTCTTATA-GAAAATCTCATAATGATGTCATATGCCAGA
1 TATGGTCTTACACGAAAATCTCATAATGATGTCATATGCCAGA
68855695 TATGGTCTTACAC
1 TATGGTCTTACAC
68855708 ATAGTCTCAG
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
41 1 0.02
42 46 0.94
43 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (43 bp):
TATGGTCTTACACGAAAATCTCATAATGATGTCATATGCCAGA
Found at i:68858994 original size:29 final size:29
Alignment explanation
Indices: 68858925--68859035 Score: 109
Period size: 29 Copynumber: 3.9 Consensus size: 29
68858915 ACCCCTACAT
* * *
68858925 ACATGCATATGGCCCACTGGGCCCAA-TC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* * * *
68858953 TCATT-ATATGGCCCATTTGGCCTAGTTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* * *
68858981 ATATTCTTATGGCCCACTAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
*
68859010 ACATTCATATGGCCTATTAGGCCCAA
1 ACATTCATATGGCCCATTAGGCCCAA
68859036 CCCATATAAT
Statistics
Matches: 64, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
27 16 0.25
28 8 0.12
29 40 0.62
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAATTC
Found at i:68859148 original size:10 final size:9
Alignment explanation
Indices: 68859117--68859156 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
68859107 AGGCCCAACA
*
68859117 GCCCATTAG
1 GCCCATTTG
*
68859126 GCCCATTTA
1 GCCCATTTG
68859135 GCCCATTCTG
1 GCCCATT-TG
68859145 GCCCATTTG
1 GCCCATTTG
68859154 GCC
1 GCC
68859157 AATTCTCAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.15, C:0.38, G:0.20, T:0.28
Consensus pattern (9 bp):
GCCCATTTG
Found at i:68859149 original size:19 final size:19
Alignment explanation
Indices: 68859116--68859162 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
68859106 TAGGCCCAAC
*
68859116 AGCCCATT-AGGCCCATTT
1 AGCCCATTCTGGCCCATTT
68859134 AGCCCATTCTGGCCCATTT
1 AGCCCATTCTGGCCCATTT
* *
68859153 GGCCAATTCT
1 AGCCCATTCT
68859163 CAACCCAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.19, C:0.34, G:0.17, T:0.30
Consensus pattern (19 bp):
AGCCCATTCTGGCCCATTT
Found at i:68860367 original size:16 final size:16
Alignment explanation
Indices: 68860346--68860378 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
68860336 AAAAATTCAA
*
68860346 GATTTCGGGATTTTTG
1 GATTTCGAGATTTTTG
68860362 GATTTCGAGATTTTTG
1 GATTTCGAGATTTTTG
68860378 G
1 G
68860379 GGCGTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCGAGATTTTTG
Found at i:68862442 original size:18 final size:18
Alignment explanation
Indices: 68862401--68862434 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
68862391 CATATTAAGG
68862401 GCCCATGTGAGCCCACAC
1 GCCCATGTGAGCCCACAC
68862419 GCCCATGTG-GCCCACA
1 GCCCATGTGAGCCCACA
68862435 TGACCCATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.21, C:0.44, G:0.24, T:0.12
Consensus pattern (18 bp):
GCCCATGTGAGCCCACAC
Found at i:68869241 original size:22 final size:22
Alignment explanation
Indices: 68869216--68869258 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
68869206 TAATAAAAAG
68869216 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
68869238 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
68869259 CACTCCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:68875959 original size:22 final size:22
Alignment explanation
Indices: 68875934--68875976 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
68875924 TAATAAAAAG
68875934 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
68875956 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
68875977 CACACACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:68885568 original size:74 final size:74
Alignment explanation
Indices: 68885410--68885595 Score: 247
Period size: 75 Copynumber: 2.5 Consensus size: 74
68885400 TTACTTAAAT
* * *
68885410 AATACAAAGTTTATTATTTAAATTGCAAAAAA-CCTTAAAATTAATAGCTGAAATGGCAAAAAAA
1 AATACAAAG-TTA-TATTTAAATTACAAAAAACCCTTAAAATTAATAACTAAAATGGCAAAAAAA
68885474 GTCATTACATA
64 GTCATTACATA
68885485 AATACAAAGTTGACTATTTAAATTACAAAAAACCCTTAAAATTAATAACTAAAATGG-AAAAAAA
1 AATACAAAGTT-A-TATTTAAATTACAAAAAACCCTTAAAATTAATAACTAAAATGGCAAAAAAA
68885549 -TCATTACATA
64 GTCATTACATA
* * *
68885559 AATATAAAG-T-TATTTAAATTACAAAAACCCCCTAAAA
1 AATACAAAGTTATATTTAAATTACAAAAAACCCTTAAAA
68885596 CTGATGGTTT
Statistics
Matches: 102, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
70 25 0.25
73 1 0.01
74 20 0.20
75 34 0.33
76 22 0.22
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.28
Consensus pattern (74 bp):
AATACAAAGTTATATTTAAATTACAAAAAACCCTTAAAATTAATAACTAAAATGGCAAAAAAAGT
CATTACATA
Found at i:68885815 original size:33 final size:33
Alignment explanation
Indices: 68885765--68885838 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
68885755 CCGAAATTAG
*
68885765 TGGAGTACGATGTTGGATACGGGC-AGGGAGGAA
1 TGGAGTACGATGATGGATACGGGCTA-GGAGGAA
*
68885798 TGGAGTAC-AGTGATGGATACGGGCTAGGAGGAG
1 TGGAGTACGA-TGATGGATACGGGCTAGGAGGAA
*
68885831 TGAAGTAC
1 TGGAGTAC
68885839 TGAGGTGGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 1 0.03
33 34 0.94
34 1 0.03
ACGTcount: A:0.28, C:0.09, G:0.43, T:0.19
Consensus pattern (33 bp):
TGGAGTACGATGATGGATACGGGCTAGGAGGAA
Found at i:68885848 original size:33 final size:33
Alignment explanation
Indices: 68885778--68885850 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
68885768 AGTACGATGT
* *
68885778 TGGATACGGGCAGGGAGGAATGGAGTACAGTGA
1 TGGATACGGGCAGGGAGGAATGAAGTACAGAGA
* * *
68885811 TGGATACGGGCTA-GGAGGAGTGAAGTACTGAGG
1 TGGATACGGGC-AGGGAGGAATGAAGTACAGAGA
68885844 TGGATAC
1 TGGATAC
68885851 AAGCTGAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.29, C:0.10, G:0.44, T:0.18
Consensus pattern (33 bp):
TGGATACGGGCAGGGAGGAATGAAGTACAGAGA
Found at i:68887167 original size:28 final size:29
Alignment explanation
Indices: 68887113--68887168 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
68887103 ACAGGGGTTT
**
68887113 TCACACGGCCAAGCACACGCCTGTGTCCC
1 TCACACGGCCAAGCACACGCCCATGTCCC
* *
68887142 TCACATGGCCTAG-ACACGCCCATGTCC
1 TCACACGGCCAAGCACACGCCCATGTCC
68887169 AAAAACCCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.21, C:0.43, G:0.20, T:0.16
Consensus pattern (29 bp):
TCACACGGCCAAGCACACGCCCATGTCCC
Found at i:68891420 original size:105 final size:102
Alignment explanation
Indices: 68890873--68891582 Score: 792
Period size: 104 Copynumber: 6.9 Consensus size: 102
68890863 TAACAAAAAA
* *
68890873 AACAATTTATATAACCTAATCATAAATTAATAACAAAATAATTATAAAATTA--TTTTTAAAAAA
1 AACAA-TT-TATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTTAAAAAA
* *
68890936 TGTACATTACT-AAAAATCACAAAACACTGAATTAAACACT
64 T-TACATTACTAAAAAATCACAAAAC-CTAAACTAAACACT
* *
68890976 AACAATATATATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTAATTTTTAAAAAAA
1 AACAAT-T-TATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTTAAAAAA
*
68891041 GTT-CATTACTAAAAAAT-AGAAAACACTAAACTAAACACT
64 -TTACATTACTAAAAAATCACAAAAC-CTAAACTAAACACT
* *
68891080 AACAATTTATATAACCTAATCATAAATTACTAACAAAATAAATAACTATAA-TATTTTTTTAAAA
1 AACAA-TT-TATAACCTAATCATAAATTACTAACAAAATAACT-A-TAAAATTATTTTTTT--AA
* * *
68891144 AGAAATTTCATTACTAAAAAATAACAAAA-C---ACAAAACACT
60 A-AAATTACATTACTAAAAAATCACAAAACCTAAACTAAACACT
* *
68891184 AACAATTTATAACCTAATCCCATAAATTACTAACAAAATAAATAACTATAA-TATTTTTTTAAAA
1 AACAATTTATAACCTAAT--CATAAATTACTAACAAAATAACT-A-TAAAATTATTTTTTT--AA
* * *
68891248 AGAAATTTCATTACTAAAAAATAACAAAA-C---ACAAAACACT
60 A-AAATTACATTACTAAAAAATCACAAAACCTAAACTAAACACT
**
68891288 AACAATTTATAACCTAATCCCATAAATTACTAACAAAATAACTATAAAATTATTTTTTTTGAAAA
1 AACAATTTATAACCTAAT--CATAAATTACTAACAAAATAACTATAAAATTATTTTTTTAAAAAA
68891353 TTACATTACTAAAAAATCACAAAATCCTAAACTAAACACT
64 TTACATTACTAAAAAATCACAAAA-CCTAAACTAAACACT
**
68891393 AACAATTTATAACCTAATCCCATAAATTACTAACAAAATAACTATAAAATTATTTTTTTTGAAAA
1 AACAATTTATAACCTAAT--CATAAATTACTAACAAAATAACTATAAAATTATTTTTTTAAAAAA
68891458 TTACATTACTAAAAAATCACAAAATCCTAAACTAAACACT
64 TTACATTACTAAAAAATCACAAAA-CCTAAACTAAACACT
* **
68891498 AACAATTTATAACCTAATCATAAACTACTAACAAAATAACTAT--AA-T-TTTTTAAAAAAAATT
1 AACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTTAAAAAA-T
* *
68891559 TACATTACTGAAAACTCACAAAAC
65 TACATTACTAAAAAATCACAAAAC
68891583 ATAACAAATA
Statistics
Matches: 559, Mismatches: 26, Indels: 48
0.88 0.04 0.08
Matches are distributed among these distances:
99 10 0.02
100 48 0.09
101 3 0.01
102 17 0.03
103 84 0.15
104 206 0.37
105 158 0.28
106 5 0.01
107 6 0.01
108 17 0.03
109 5 0.01
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (102 bp):
AACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTTAAAAAATT
ACATTACTAAAAAATCACAAAACCTAAACTAAACACT
Found at i:68892494 original size:19 final size:19
Alignment explanation
Indices: 68892472--68892521 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
68892462 AGTATTTTTT
*
68892472 ATTTTTATAAATTTTAATA
1 ATTTTTATAAAATTTAATA
68892491 ATTTTTCA-AAAATTTAATA
1 ATTTTT-ATAAAATTTAATA
*
68892510 ATTTTTTTAAAA
1 ATTTTTATAAAA
68892522 AAATTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTTATAAAATTTAATA
Found at i:68892521 original size:20 final size:19
Alignment explanation
Indices: 68892473--68892522 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
68892463 GTATTTTTTA
*
68892473 TTTTTATAAATTTTAATAAT
1 TTTTTA-AAAATTTAATAAT
*
68892493 TTTTCAAAAATTTAATAATT
1 TTTTTAAAAATTTAATAA-T
68892513 TTTTTAAAAA
1 TTTTTAAAAA
68892523 AATTAAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTTAAAAATTTAATAAT
Found at i:68892626 original size:13 final size:13
Alignment explanation
Indices: 68892594--68892631 Score: 60
Period size: 12 Copynumber: 3.0 Consensus size: 13
68892584 AAAAAAATGA
68892594 AATTTTTTTATTT
1 AATTTTTTTATTT
*
68892607 AA-CTTTTTATTT
1 AATTTTTTTATTT
68892619 AATTTTTTTATTT
1 AATTTTTTTATTT
68892632 TGTTTACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
AATTTTTTTATTT
Found at i:68901011 original size:22 final size:22
Alignment explanation
Indices: 68900986--68901035 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
68900976 CTCAAGGCCG
*
68900986 TAAACAGGACATCACATAGCCA
1 TAAACAGGACAACACATAGCCA
* *
68901008 TAAATAGGACAACACATAGCCG
1 TAAACAGGACAACACATAGCCA
68901030 TAAACA
1 TAAACA
68901036 TCGCAGTAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.24, G:0.14, T:0.14
Consensus pattern (22 bp):
TAAACAGGACAACACATAGCCA
Found at i:68903767 original size:13 final size:13
Alignment explanation
Indices: 68903749--68903773 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68903739 TACTAAATTT
68903749 TCATGGATTCAAG
1 TCATGGATTCAAG
68903762 TCATGGATTCAA
1 TCATGGATTCAA
68903774 TATACCATTA
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:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:68904871 original size:41 final size:41
Alignment explanation
Indices: 68904749--68904871 Score: 183
Period size: 41 Copynumber: 3.0 Consensus size: 41
68904739 AAAAGCCACC
* * * * *
68904749 GGTGGATCCACGATTGTCAAGCAACCATGTGATCCTTAATC
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATT
*
68904790 AGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATT
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATT
*
68904831 GGTGGATCCACGGTCGTCAAGCAACCATACGATCCTCAATT
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATT
68904872 TCTTCCTCCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATT
Found at i:68905235 original size:27 final size:27
Alignment explanation
Indices: 68905136--68905390 Score: 148
Period size: 27 Copynumber: 9.4 Consensus size: 27
68905126 ATCTACAATC
* *
68905136 CAAGGGTATTTCGATAATTTTGCAAAAT
1 CAAGGGTATTTCTATAATTTTTC-AAAT
* *
68905164 -AATGGTATTTCTATAATTTTTGAAAGT
1 CAAGGGTATTTCTATAATTTTTCAAA-T
* * *
68905191 CAAGGGAATTTCTGTAATTCTGT-AAAT
1 CAAGGGTATTTCTATAATT-TTTCAAAT
*
68905218 CAGGGGTATTTCTATAATTTTTCAAAT
1 CAAGGGTATTTCTATAATTTTTCAAAT
* *
68905245 CAAGGGTATTTC-AGTAACTTTCCAAAT
1 CAAGGGTATTTCTA-TAATTTTTCAAAT
* * *
68905272 CAGGGGTATTT-TGGTAATTTTACAAAT
1 CAAGGGTATTTCT-ATAATTTTTCAAAT
* * *
68905299 -AGAGGGTATTT-TGGTAATTTTACAAGT
1 CA-AGGGTATTTCT-ATAATTTTTCAAAT
** * **
68905326 GGAGGGTATTT-TAGTAATTTTACAGGT
1 CAAGGGTATTTCTA-TAATTTTTCAAAT
* * * *
68905353 CGAGGGTATTTCGATAATTTTACAAGT
1 CAAGGGTATTTCTATAATTTTTCAAAT
*
68905380 CGA-GGTATTTC
1 CAAGGGTATTTC
68905391 GGTAATTTCA
Statistics
Matches: 189, Mismatches: 27, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
26 15 0.08
27 153 0.81
28 19 0.10
29 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCTATAATTTTTCAAAT
Found at i:68905272 original size:54 final size:54
Alignment explanation
Indices: 68905167--68905309 Score: 166
Period size: 54 Copynumber: 2.6 Consensus size: 54
68905157 GCAAAATAAT
* * * **
68905167 GGTATTTCTATAATTTTTGAAAGTCAAGGGAATTTCTGTAATTCTGTAAATCAGG
1 GGTATTTCTATAATTTTTCAAA-TCAAGGGTATTTCAGTAATTCTCCAAATCAGG
68905222 GGTATTTCTATAATTTTTCAAATCAAGGGTATTTCAGTAACTT-TCCAAATCAGG
1 GGTATTTCTATAATTTTTCAAATCAAGGGTATTTCAGTAA-TTCTCCAAATCAGG
* *
68905276 GGTATTT-TGGTAATTTTACAAAT-AGAGGGTATTT
1 GGTATTTCT-ATAATTTTTCAAATCA-AGGGTATTT
68905310 TGGTAATTTT
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
53 2 0.03
54 53 0.68
55 23 0.29
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (54 bp):
GGTATTTCTATAATTTTTCAAATCAAGGGTATTTCAGTAATTCTCCAAATCAGG
Found at i:68905333 original size:54 final size:53
Alignment explanation
Indices: 68905275--68905535 Score: 222
Period size: 54 Copynumber: 4.8 Consensus size: 53
68905265 TCCAAATCAG
68905275 GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTGGTAATTTTACAAGTGGA
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTGGTAATTTTACAAGT-GA
* ** * * *
68905329 GGGTATTTTAGTAATTTTACAGGTCGAGGGTATTTCGATAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTGGTAATTTTACAAGT-GA
* * ** * * * * * *
68905383 -GGTATTTCGGTAATTTCACAGGTCA-AAGGTATTTCGATAATTTCACAAATTA
1 GGGTATTTTGGTAATTTTACAAAT-AGAGGGTATTTTGGTAATTTTACAAGTGA
* * * * *
68905435 GGGGTATTTTGGTAATCTTA-AAAAACCAGAGGTATTTTGGTAATTTTACAAACTAA
1 -GGGTATTTTGGTAATTTTACAAATA-GAG-GGTATTTTGGTAATTTTAC-AAGTGA
* * *
68905491 GGGTATTTTGGTAATTTTTCTAATTGAGGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTGGTAATTTT
68905536 GTAAACCAAG
Statistics
Matches: 166, Mismatches: 33, Indels: 16
0.77 0.15 0.07
Matches are distributed among these distances:
52 2 0.01
53 43 0.26
54 80 0.48
55 35 0.21
56 6 0.04
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTGGTAATTTTACAAGTGA
Found at i:68905414 original size:53 final size:54
Alignment explanation
Indices: 68905303--68905430 Score: 168
Period size: 53 Copynumber: 2.4 Consensus size: 54
68905293 ACAAATAGAG
* * * * * * *
68905303 GGTATTTTGGTAATTTTACAAGTGGAGGGTATTTTAGTAATTTTACAGGTCGAG
1 GGTATTTCGATAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAGGTCAAA
*
68905357 GGTATTTCGATAATTTTACAAGTCGA-GGTATTTCGGTAATTTCACAGGTCAAA
1 GGTATTTCGATAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAGGTCAAA
*
68905410 GGTATTTCGATAATTTCACAA
1 GGTATTTCGATAATTTTACAA
68905431 ATTAGGGGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 42 0.65
54 23 0.35
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (54 bp):
GGTATTTCGATAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAGGTCAAA
Found at i:68905417 original size:27 final size:27
Alignment explanation
Indices: 68905276--68905535 Score: 150
Period size: 27 Copynumber: 9.6 Consensus size: 27
68905266 CCAAATCAGG
* * * *
68905276 GGTATTTTGGTAATTTTACAAATAGAG
1 GGTATTTCGGTAATTTTACAAGTCGAA
* * *
68905303 GGTATTTTGGTAATTTTACAAGTGGAG
1 GGTATTTCGGTAATTTTACAAGTCGAA
** * *
68905330 GGTATTTTAGTAATTTTACAGGTCGAG
1 GGTATTTCGGTAATTTTACAAGTCGAA
*
68905357 GGTATTTCGATAATTTTACAAGTCG-A
1 GGTATTTCGGTAATTTTACAAGTCGAA
* * *
68905383 GGTATTTCGGTAATTTCACAGGTCAAA
1 GGTATTTCGGTAATTTTACAAGTCGAA
* * * * *
68905410 GGTATTTCGATAATTTCACAAAT-TAGG
1 GGTATTTCGGTAATTTTACAAGTCGA-A
* * * ** *
68905437 GGTATTTTGGTAATCTTAAAAAACCAGA
1 GGTATTTCGGTAATTTTACAAGTCGA-A
* * *
68905465 GGTATTTTGGTAATTTTACAA-ACTAA
1 GGTATTTCGGTAATTTTACAAGTCGAA
* * * *
68905491 GGGTATTTTGGTAATTTTTCTAA-TTGAG
1 -GGTATTTCGGTAATTTTAC-AAGTCGAA
*
68905519 GGTATTTTGGTAATTTT
1 GGTATTTCGGTAATTTT
68905536 GTAAACCAAG
Statistics
Matches: 193, Mismatches: 35, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
26 23 0.12
27 146 0.76
28 24 0.12
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAGTCGAA
Found at i:68905579 original size:26 final size:25
Alignment explanation
Indices: 68905542--68905591 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
68905532 TTTTGTAAAC
*
68905542 CAAGGGTATTCAGTAATTCTACCCA
1 CAAGGGCATTCAGTAATTCTACCCA
68905567 CAAGGGCATTTCAGTAATTCTACCC
1 CAAGGGCA-TTCAGTAATTCTACCC
68905592 TACATAGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (25 bp):
CAAGGGCATTCAGTAATTCTACCCA
Found at i:68908381 original size:22 final size:22
Alignment explanation
Indices: 68908352--68908404 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
68908342 ACAGCTGAAG
*
68908352 GCCATAAACAGGACAGCACATA
1 GCCATAAACAGGACAACACATA
* *
68908374 GCCGTAAATAGGACAACACATA
1 GCCATAAACAGGACAACACATA
68908396 GCCATAAAC
1 GCCATAAAC
68908405 TCGTAGCAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.45, C:0.26, G:0.17, T:0.11
Consensus pattern (22 bp):
GCCATAAACAGGACAACACATA
Found at i:68908875 original size:41 final size:39
Alignment explanation
Indices: 68908813--68908935 Score: 147
Period size: 41 Copynumber: 3.0 Consensus size: 39
68908803 TAAAAGCCAC
* *
68908813 CGGTGGATCTACGGTAGTCAAGCAACCATGCAATCCTTAAT
1 CGGTGGATCCAC-GTA-TCAAGCAACCATGCGATCCTTAAT
* *
68908854 CGGTGGATCCACAGTCATCAAGTAACCATGCGATCCTCAAT
1 CGGTGGATCCAC-GT-ATCAAGCAACCATGCGATCCTTAAT
*
68908895 CGGTGGATCCACGATTGTCAAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCACG--TATCAAGCAACCATGCGATCCTTAAT
68908936 TTCTTCCTCC
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
40 1 0.01
41 68 0.96
42 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CGGTGGATCCACGTATCAAGCAACCATGCGATCCTTAAT
Found at i:68909261 original size:28 final size:27
Alignment explanation
Indices: 68909199--68909319 Score: 95
Period size: 27 Copynumber: 4.4 Consensus size: 27
68909189 ATCTACAAAC
* *
68909199 CAAGGGTATTTCGTTAA-TTTTGCAAAC
1 CAAGGGTATTTCTTTAATTTTTG-AAAT
*
68909226 CAATGGTATTTCTTTAATTTTTGAAAGT
1 CAAGGGTATTTCTTTAATTTTTGAAA-T
* *
68909254 TAAGGGTATTT-TTGTAATTTTTTAAAT
1 CAAGGGTATTTCTT-TAATTTTTGAAAT
* **
68909281 CAGGGGTATTTCTGTT-ATTTTCCAAAT
1 CAAGGGTATTTCT-TTAATTTTTGAAAT
* *
68909308 TAAGGTTATTTC
1 CAAGGGTATTTC
68909320 GATAACTTTC
Statistics
Matches: 76, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
27 48 0.63
28 27 0.36
29 1 0.01
ACGTcount: A:0.27, C:0.09, G:0.17, T:0.47
Consensus pattern (27 bp):
CAAGGGTATTTCTTTAATTTTTGAAAT
Found at i:68909307 original size:27 final size:27
Alignment explanation
Indices: 68909202--68909381 Score: 93
Period size: 27 Copynumber: 6.7 Consensus size: 27
68909192 TACAAACCAA
* * *
68909202 GGGTATTTC-GTTAATTTTGCAAACCAA
1 GGGTATTTCTG-TAATTTTCCAAATCAG
* * ** * *
68909229 TGGTATTTCTTTAATTTTTGAAAGTTAA
1 GGGTATTTCTGTAATTTTCCAAA-TCAG
* **
68909257 GGGTATTTTTGTAATTTTTTAAATCAG
1 GGGTATTTCTGTAATTTTCCAAATCAG
* * *
68909284 GGGTATTTCTGTTATTTTCCAAATTAA
1 GGGTATTTCTGTAATTTTCCAAATCAG
* * *
68909311 GGTTATTTC-GATAACTTTCCAAATTA-
1 GGGTATTTCTG-TAATTTTCCAAATCAG
*
68909337 GGGTATTT-TGGTAATTTTACAAATC-G
1 GGGTATTTCT-GTAATTTTCCAAATCAG
68909363 AGGGTATTT-TAGTAATTTT
1 -GGGTATTTCT-GTAATTTT
68909382 ACAATTTGAG
Statistics
Matches: 120, Mismatches: 26, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
26 19 0.16
27 80 0.67
28 21 0.17
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (27 bp):
GGGTATTTCTGTAATTTTCCAAATCAG
Found at i:68909382 original size:27 final size:27
Alignment explanation
Indices: 68909336--68909398 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
68909326 TTTCCAAATT
*
68909336 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTTAGTAATTTTACAAATCG
* *
68909363 AGGGTATTTTAGTAATTTTACAATTTG
1 AGGGTATTTTAGTAATTTTACAAATCG
68909390 AGGGTATTT
1 AGGGTATTT
68909399 CTACCCTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.44
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTACAAATCG
Found at i:68909451 original size:27 final size:27
Alignment explanation
Indices: 68909397--68909462 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
68909387 TTGAGGGTAT
* *
68909397 TTCTACCCTATAGGGGCATTTTAATAA
1 TTCTACCCTACAGGGGCATTTCAATAA
* *
68909424 TTCTACCCTACAGGGGTATTTCAGTAA
1 TTCTACCCTACAGGGGCATTTCAATAA
*
68909451 TACTA-CCTACAG
1 TTCTACCCTACAG
68909463 ATATGAGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.21
27 27 0.79
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (27 bp):
TTCTACCCTACAGGGGCATTTCAATAA
Found at i:68912041 original size:16 final size:14
Alignment explanation
Indices: 68912010--68912069 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 14
68912000 CATCATCAGA
68912010 AAAATTAAAAAATT
1 AAAATTAAAAAATT
68912024 AAAATTACAAAAATTT
1 AAAATTA-AAAAA-TT
68912040 AAAAATGT-AAAAATT
1 -AAAAT-TAAAAAATT
* *
68912055 -TATTTAAAAAATT
1 AAAATTAAAAAATT
68912068 AA
1 AA
68912070 TCTTAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
12 1 0.03
13 9 0.24
14 7 0.19
15 7 0.19
16 7 0.19
17 5 0.14
18 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (14 bp):
AAAATTAAAAAATT
Found at i:68913189 original size:9 final size:9
Alignment explanation
Indices: 68913170--68913270 Score: 62
Period size: 9 Copynumber: 10.7 Consensus size: 9
68913160 GTATTTAAGC
68913170 TAAAAATTTA
1 TAAAAA-TTA
68913180 TAAAAATTA
1 TAAAAATTA
68913189 TTAAACAA-TA
1 -TAAA-AATTA
68913199 TAATCAAATTA
1 TAA--AAATTA
*
68913210 TAAAAACTA
1 TAAAAATTA
*
68913219 TAAAAGTGTA
1 TAAAAAT-TA
* *
68913229 AAAAAAATA
1 TAAAAATTA
* *
68913238 TTAAAA-TG
1 TAAAAATTA
*
68913246 GAAAAATTA
1 TAAAAATTA
68913255 TTAAAAATTA
1 -TAAAAATTA
68913265 TAAAAA
1 TAAAAA
68913271 AATTGTAAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
8 5 0.07
9 29 0.41
10 28 0.40
11 8 0.11
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:68913270 original size:20 final size:22
Alignment explanation
Indices: 68913247--68913303 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
68913237 ATTAAAATGG
*
68913247 AAAAATTATTAAAAATTA-TAA
1 AAAAATTATTAAAAATAAGTAA
*
68913268 AAAAATT-GTAAAAA-AAGTAA
1 AAAAATTATTAAAAATAAGTAA
*
68913288 AAAGATTATTAAAAAT
1 AAAAATTATTAAAAAT
68913304 GAAACTAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 1 0.03
20 15 0.52
21 13 0.45
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (22 bp):
AAAAATTATTAAAAATAAGTAA
Found at i:68913289 original size:58 final size:56
Alignment explanation
Indices: 68913204--68913338 Score: 132
Period size: 58 Copynumber: 2.4 Consensus size: 56
68913194 CAATATAATC
* * ** *
68913204 AAATTATAAAAACTAT-AAAAGTGTAAAAAAAATATT-AAAATGGAAA-AATTATTAA
1 AAATTATAAAAATTGTAAAAAAAGTAAAAAAAATATTAAAAAT-GAAACAAGTATT-A
* * *
68913259 AAATTATAAAAAAATTGTAAAAAAAGTAAAAAGATTATTAAAAATGAAACTAGTATTA
1 AAATTAT--AAAAATTGTAAAAAAAGTAAAAAAAATATTAAAAATGAAACAAGTATTA
*
68913317 AAATTATTAAAATTGTAAAAAA
1 AAATTATAAAAATTGTAAAAAA
68913339 CTCAAAATTC
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
55 7 0.11
56 14 0.21
57 7 0.11
58 28 0.42
59 10 0.15
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.28
Consensus pattern (56 bp):
AAATTATAAAAATTGTAAAAAAAGTAAAAAAAATATTAAAAATGAAACAAGTATTA
Found at i:68921269 original size:20 final size:20
Alignment explanation
Indices: 68921232--68921269 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
68921222 ACTTCTTCAC
* *
68921232 TTACTTACTTACTTAAATAT
1 TTACTTACTTAATCAAATAT
68921252 TTACTTACTTAATCAAAT
1 TTACTTACTTAATCAAAT
68921270 TTATTAATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (20 bp):
TTACTTACTTAATCAAATAT
Found at i:68926458 original size:39 final size:39
Alignment explanation
Indices: 68926270--68926454 Score: 289
Period size: 39 Copynumber: 4.7 Consensus size: 39
68926260 TATGTGAGAT
* *
68926270 TTATATTCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
68926309 TTAAATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
68926348 TTATATTCGGGCTAAGTCCCGAAGGTATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
68926387 TTATATCCGGGCTAAGTCCCGAAGGTATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
68926426 TTATATCCGGTCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
68926455 TGTGTTGGAA
Statistics
Matches: 134, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 134 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:68929692 original size:13 final size:12
Alignment explanation
Indices: 68929676--68929714 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
68929666 TATGGTTTCT
68929676 ATTTTAAGTTTTA
1 ATTTTAA-TTTTA
68929689 ATTTTAATTTTA
1 ATTTTAATTTTA
*
68929701 GTCTTTAATTTTA
1 AT-TTTAATTTTA
68929714 A
1 A
68929715 ACTCACTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (12 bp):
ATTTTAATTTTA
Found at i:68929700 original size:19 final size:19
Alignment explanation
Indices: 68929676--68929714 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
68929666 TATGGTTTCT
68929676 ATTTTAAGT-TTTAATTTTA
1 ATTTT-AGTCTTTAATTTTA
68929695 ATTTTAGTCTTTAATTTTA
1 ATTTTAGTCTTTAATTTTA
68929714 A
1 A
68929715 ACTCACTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (19 bp):
ATTTTAGTCTTTAATTTTA
Found at i:68929713 original size:6 final size:6
Alignment explanation
Indices: 68929676--68929714 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
68929666 TATGGTTTCT
*
68929676 ATTTTA AGTTTTA ATTTTA ATTTTA GTCTTTA ATTTTA A
1 ATTTTA A-TTTTA ATTTTA ATTTTA AT-TTTA ATTTTA A
68929715 ACTCACTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (6 bp):
ATTTTA
Found at i:68929912 original size:24 final size:24
Alignment explanation
Indices: 68929856--68929924 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
68929846 CAACACTCAT
68929856 CAAATCTTTTTTATATAATT-TTTA
1 CAAAT-TTTTTTATATAATTGTTTA
*
68929880 -ATTAGTTTTTTTATATAATTGTTTA
1 CA--AATTTTTTTATATAATTGTTTA
68929905 CAAA--TTTTTA-ATAATTGTTT
1 CAAATTTTTTTATATAATTGTTT
68929925 TCCATTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
21 10 0.26
22 6 0.15
23 1 0.03
24 15 0.38
25 6 0.15
26 1 0.03
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (24 bp):
CAAATTTTTTTATATAATTGTTTA
Found at i:68929933 original size:21 final size:21
Alignment explanation
Indices: 68929886--68929952 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 21
68929876 TTTAATTAGT
*
68929886 TTTTTTATATAATTGTTTACAA
1 TTTTTTA-ATAATTGTTTTCAA
* *
68929908 ATTTTTAATAATTGTTTTCCA
1 TTTTTTAATAATTGTTTTCAA
*
68929929 -TTTTT-AT-ATTGTTTT-TA
1 TTTTTTAATAATTGTTTTCAA
68929946 TTTTTTA
1 TTTTTTA
68929953 CAATTTTTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 1 0.03
18 13 0.33
19 2 0.05
20 5 0.13
21 12 0.31
22 6 0.15
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.66
Consensus pattern (21 bp):
TTTTTTAATAATTGTTTTCAA
Found at i:68930009 original size:19 final size:17
Alignment explanation
Indices: 68929975--68930009 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
68929965 TTGTAATACT
68929975 CTTTTTATAAGTTTTAC
1 CTTTTTATAAGTTTTAC
68929992 CTTTTTAGTAATGTTTTA
1 CTTTTTA-TAA-GTTTTA
68930010 TATATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.60
Consensus pattern (17 bp):
CTTTTTATAAGTTTTAC
Found at i:68931896 original size:23 final size:25
Alignment explanation
Indices: 68931844--68931900 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
68931834 TACATTTTGA
68931844 TGTGAGCAGGCCTATTTCACAGCTCG
1 TGTGAGCAGGCCTATTT-ACAGCTCG
68931870 TGTGAGCAGGCCTATTT-CA-CTCG
1 TGTGAGCAGGCCTATTTACAGCTCG
68931893 TGTGAGCA
1 TGTGAGCA
68931901 ATGATGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.39
24 2 0.06
26 17 0.55
ACGTcount: A:0.19, C:0.25, G:0.28, T:0.28
Consensus pattern (25 bp):
TGTGAGCAGGCCTATTTACAGCTCG
Found at i:68945471 original size:96 final size:95
Alignment explanation
Indices: 68945324--68945825 Score: 739
Period size: 96 Copynumber: 5.3 Consensus size: 95
68945314 TATTTGAATA
* * *
68945324 AATGTGAAAGTGTATATA-TGTGATAAGGCCTAATAG-CGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGTATATATTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
*
68945387 ATGTGATGAGGCCTAATGGCCGATGGTGATG
66 ATGTGATAAGGCCTAATGGCCGAT-GTGATG
68945418 AATGTGAAAGTGTATATATTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGTATATATTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
68945483 ATGTGATAAGGCCTAATGGCCGATGTGATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATG
68945513 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATAT-TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
68945578 TATGTGATAAGGCCTAATGGCCGATGTGATG
65 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
68945609 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGT
1 AATGTGAAAGTGTATATAT-TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTAT
* * *
68945673 ATGTGTGATAAGGCCGAATGGCCAATGTGATG
64 ATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
68945705 AATGTGAACA-TGCATA-AATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAA-AGTGTATATATTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * * * *
68945768 TATGTGA-CAGAGCCGAGTGGCCAACGTGATG
65 TATGTGATAAG-GCCTAATGGCCGATGTGATG
* *
68945799 GATGTGAAAGTGTATA-AATGTGATAAG
1 AATGTGAAAGTGTATATATTGTGATAAG
68945826 TCCCGAAGGG
Statistics
Matches: 381, Mismatches: 19, Indels: 16
0.92 0.05 0.04
Matches are distributed among these distances:
93 4 0.01
94 105 0.28
95 42 0.11
96 228 0.60
97 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (95 bp):
AATGTGAAAGTGTATATATTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:68945509 original size:47 final size:47
Alignment explanation
Indices: 68945324--68945825 Score: 715
Period size: 47 Copynumber: 10.6 Consensus size: 47
68945314 TATTTGAATA
* * *
68945324 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAG-CGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
68945370 AATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAAT-GTGATG
68945418 AATGTGAAAGTGTATATATTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATA-TGTGATAAGGCCGAATGGCCAATGTGATG
* *
68945466 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
68945513 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
68945562 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
68945609 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
68945658 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
68945705 AATGTGAACA-TGCATAAATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
68945752 AATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAG-GCCGAATGGCCAATGTGATG
* *
68945799 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
68945826 TCCCGAAGGG
Statistics
Matches: 416, Mismatches: 29, Indels: 20
0.89 0.06 0.04
Matches are distributed among these distances:
46 37 0.09
47 220 0.53
48 50 0.12
49 108 0.26
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:68945589 original size:143 final size:141
Alignment explanation
Indices: 68945324--68945825 Score: 715
Period size: 143 Copynumber: 3.5 Consensus size: 141
68945314 TATTTGAATA
* * *
68945324 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAG-CGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* * *
68945388 TGTGATGAGGCCTAATGGCCGATGGTGATGAATGTGAAAGTGTATATATTGTGATAAGGCCGAAT
66 TGTGATAAGGCCGAATGGCCAAT-GTGATGAATGTGAAAGTGTATATA-TGTGATAAGGCCGAAT
68945453 GGCCAATGTGATG
129 GGCCAATGTGATG
* *
68945466 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATA
*
68945531 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
*
68945596 GGCCGATGTGATG
129 GGCCAATGTGATG
*
68945609 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGT
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTAT
* * * *
68945673 ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATAAATGAGATAAGGCCGA
63 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGA
68945737 ATGGCCAATGTGATG
127 ATGGCCAATGTGATG
* * * * *
68945752 AATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAA
1 AATGTGAAAGTGTATATATGTGATAAG-GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
68945816 ATGTGATAAG
65 ATGTGATAAG
68945826 TCCCGAAGGG
Statistics
Matches: 329, Mismatches: 22, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
140 3 0.01
141 50 0.15
142 35 0.11
143 146 0.44
144 25 0.08
145 69 0.21
146 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
CCAATGTGATG
Found at i:68954193 original size:27 final size:27
Alignment explanation
Indices: 68954163--68954307 Score: 166
Period size: 27 Copynumber: 5.4 Consensus size: 27
68954153 CCCTAAAATT
* *
68954163 GGTAAAATAACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
68954190 GGTAAAATGATCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* * * *
68954217 GGTAAAATGACTGTAATGCCCTTGTAA
1 GGTAAAATGACCGTAATACCCCTGTAG
*
68954244 GGTAAAATTG-CCGTAATTCCCCTGTAG
1 GGTAAAA-TGACCGTAATACCCCTGTAG
* * * *
68954271 GATAAAATGACCGTAATATCCTTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
68954298 GGTAAAATGA
1 GGTAAAATGA
68954308 TGATTATGCC
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.02
27 94 0.96
28 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:68954248 original size:54 final size:54
Alignment explanation
Indices: 68954163--68954308 Score: 186
Period size: 54 Copynumber: 2.7 Consensus size: 54
68954153 CCCTAAAATT
* * *
68954163 GGTAAAATAACCGTAATGCCCCTGTAGGGTAAAATGATCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCTTGTAAGGTAAAATGATCGTAATACCCCTGTAG
* * *
68954217 GGTAAAATGACTGTAATGCCCTTGTAAGGTAAAATTG-CCGTAATTCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCTTGTAAGGTAAAA-TGATCGTAATACCCCTGTAG
* ** *
68954271 GATAAAATGACCGTAATATCCTTGTATGGTAAAATGAT
1 GGTAAAATGACCGTAATGCCCTTGTAAGGTAAAATGAT
68954309 GATTATGCCC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 2 0.03
54 74 0.95
55 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (54 bp):
GGTAAAATGACCGTAATGCCCTTGTAAGGTAAAATGATCGTAATACCCCTGTAG
Found at i:68954302 original size:81 final size:81
Alignment explanation
Indices: 68954163--68954320 Score: 219
Period size: 81 Copynumber: 2.0 Consensus size: 81
68954153 CCCTAAAATT
* *
68954163 GGTAAAATAACCGTAATGCCCCTGTAGGGTAAAATGATCGTAATACCCCTGTAGGGTAAAATGAC
1 GGTAAAATAACCGTAATGCCCCTGTAGGATAAAATGACCGTAATACCCCTGTAGGGTAAAATGA-
68954228 TG-TAATGCCCTTGTAA
65 TGATAATGCCCTTGTAA
** * * * *
68954244 GGTAAAATTGCCGTAATTCCCCTGTAGGATAAAATGACCGTAATATCCTTGTATGGTAAAATGAT
1 GGTAAAATAACCGTAATGCCCCTGTAGGATAAAATGACCGTAATACCCCTGTAGGGTAAAATGAT
*
68954309 GATTATGCCCTT
66 GATAATGCCCTT
68954321 ATGTTCTGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
80 2 0.03
81 65 0.97
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (81 bp):
GGTAAAATAACCGTAATGCCCCTGTAGGATAAAATGACCGTAATACCCCTGTAGGGTAAAATGAT
GATAATGCCCTTGTAA
Found at i:68957046 original size:44 final size:45
Alignment explanation
Indices: 68956932--68957055 Score: 148
Period size: 46 Copynumber: 2.8 Consensus size: 45
68956922 TATATCTCGA
*
68956932 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTTCGTCTCAAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAG--TGCGTCTCAAT
* *
68956979 -GCCAATGCATGTCCTAGACATGTCTTACACT-G-GC-TCTCAATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGTGCGTCTCAA--T
*
68957022 GGCCGATCCATGTCCCAGACATGTCTTACACTAG
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAG
68957056 CACACATTTC
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
41 6 0.09
42 1 0.01
43 1 0.01
44 28 0.42
45 2 0.03
46 29 0.43
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGTGCGTCTCAAT
Found at i:68959105 original size:27 final size:27
Alignment explanation
Indices: 68959074--68959177 Score: 163
Period size: 27 Copynumber: 3.9 Consensus size: 27
68959064 ATTACCAAAG
*
68959074 TACCCTCGATTTATATAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
68959101 AACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
68959128 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
68959155 TACCCTCGATTTATAAAATTACT
1 TACCCTCGATTTATAGAATTACT
68959178 AAAATACCCT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:68959121 original size:54 final size:54
Alignment explanation
Indices: 68959060--68959196 Score: 166
Period size: 54 Copynumber: 2.5 Consensus size: 54
68959050 CCTCAAATTG
* * *
68959060 TAAAATTACCAAAGTACCCTCGATTTATATAATTACTGTTTAACCCTCGATTTA
1 TAAAATTACTAAAATACCCTCGATTTATAGAATTACTGTTTAACCCTCGATTTA
* **** * * *
68959114 TAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTA
1 TAAAATTACTAAAATACCCTCGATTTATAGAATTACTGTTTAACCCTCGATTTA
*
68959168 TAAAATTACTAAAATACCCTCGGTTTATA
1 TAAAATTACTAAAATACCCTCGATTTATA
68959197 AAATCACCAA
Statistics
Matches: 65, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (54 bp):
TAAAATTACTAAAATACCCTCGATTTATAGAATTACTGTTTAACCCTCGATTTA
Found at i:68959185 original size:27 final size:27
Alignment explanation
Indices: 68959035--68959238 Score: 124
Period size: 27 Copynumber: 7.6 Consensus size: 27
68959025 TTAGTTTACC
* * * *
68959035 AAATTACTGAAATACCCTCAAATTGTA
1 AAATTACTAAAATACCCTCGATTTATA
* *
68959062 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTATA
* ***
68959089 TAATTACT-GTTTAACCCTCGATTTATA
1 AAATTACTAAAAT-ACCCTCGATTTATA
* **** * *
68959116 GAATTACTGTTTTACCCTTGATTTACA
1 AAATTACTAAAATACCCTCGATTTATA
* ****
68959143 GAATTACTGTTTTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTATA
*
68959170 AAATTACTAAAATACCCTCGGTTTATA
1 AAATTACTAAAATACCCTCGATTTATA
* * * *
68959197 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACTAAAATACCCTC-GATTTATA
*
68959224 AAATTACCAAAATAC
1 AAATTACTAAAATAC
68959239 NNNNNNNNNN
Statistics
Matches: 147, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.01
27 142 0.97
28 3 0.02
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTATA
Found at i:68959325 original size:27 final size:27
Alignment explanation
Indices: 68959295--68959420 Score: 173
Period size: 27 Copynumber: 4.7 Consensus size: 27
68959285 TGTAGGATAG
68959295 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
68959322 AATTACCAAAATATCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
68959349 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
68959376 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
68959403 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
68959421 GATTTACAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.03
27 79 0.92
28 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:68959425 original size:27 final size:27
Alignment explanation
Indices: 68959295--68959523 Score: 153
Period size: 27 Copynumber: 8.4 Consensus size: 27
68959285 TGTAGGATAG
68959295 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
*
68959322 AATTACCAAAATATCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* * * *
68959349 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
68959376 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-GATTTGTAA
**
68959403 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
68959430 AGTTA-CAGAAATA-CCCTCGATTTTCTAAA
1 AATTACCA-AAATACCCCT-GA-TTTGT-AA
*** ** **
68959459 AATTATGGAAATACCATTGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
* * * *
68959486 AATTACTAAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCCTGATTTGTAA
*
68959513 ATTTACCAAAA
1 AATTACCAAAA
68959524 CACCTTTGTA
Statistics
Matches: 159, Mismatches: 34, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
26 9 0.06
27 125 0.79
28 10 0.06
29 13 0.08
30 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:68959441 original size:81 final size:81
Alignment explanation
Indices: 68959295--68959444 Score: 207
Period size: 81 Copynumber: 1.9 Consensus size: 81
68959285 TGTAGGATAG
* * * *
68959295 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCCTAGTTTGTAAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACAGAAA
68959360 TACCACTGGTTTGTGA
66 TACCACTGGTTTGTGA
*
68959376 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTACAG
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTACAG
68959438 AAATACC
63 AAATACC
68959445 CTCGATTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
79 2 0.03
80 10 0.16
81 49 0.80
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:68959592 original size:27 final size:27
Alignment explanation
Indices: 68959562--68959648 Score: 131
Period size: 27 Copynumber: 3.2 Consensus size: 27
68959552 ACCGCTATTA
*
68959562 GGTAAACAGACCGTAAAGCCCCTGTAG
1 GGTAAAGAGACCGTAAAGCCCCTGTAG
68959589 GGTAAAGAGACCGTAAAGCCCCTGTAG
1 GGTAAAGAGACCGTAAAGCCCCTGTAG
* *
68959616 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAGAGACCGTAA-AGCCCCTGTAG
68959643 GGTAAA
1 GGTAAA
68959649 ATGACGAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.18
Consensus pattern (27 bp):
GGTAAAGAGACCGTAAAGCCCCTGTAG
Found at i:68960366 original size:9 final size:10
Alignment explanation
Indices: 68960354--68960430 Score: 54
Period size: 9 Copynumber: 7.8 Consensus size: 10
68960344 TACGTGGGAT
68960354 ATGATAT-AC
1 ATGATATGAC
*
68960363 ATGAT-TGAT
1 ATGATATGAC
68960372 ATGATATGCAC
1 ATGATATG-AC
*
68960383 ATGATATG-T
1 ATGATATGAC
*
68960392 ATGAAATGCAC
1 ATGATATG-AC
*
68960403 ATGATATG-T
1 ATGATATGAC
*
68960412 ATGAAATGCAC
1 ATGATATG-AC
68960423 ATGATATG
1 ATGATATG
68960431 TATGAAATGC
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
8 1 0.02
9 25 0.49
10 2 0.04
11 23 0.45
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.32
Consensus pattern (10 bp):
ATGATATGAC
Found at i:68960386 original size:20 final size:20
Alignment explanation
Indices: 68960361--68960447 Score: 149
Period size: 20 Copynumber: 4.3 Consensus size: 20
68960351 GATATGATAT
*
68960361 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
68960381 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
68960401 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
68960421 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
68960441 ACATGAT
1 ACATGAT
68960448 GTATTCATAA
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
20 63 0.97
21 2 0.03
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:68960388 original size:11 final size:11
Alignment explanation
Indices: 68960372--68960447 Score: 56
Period size: 11 Copynumber: 7.5 Consensus size: 11
68960362 CATGATTGAT
68960372 ATGATATGCAC
1 ATGATATGCAC
*
68960383 ATGATATG--T
1 ATGATATGCAC
*
68960392 ATGAAATGCAC
1 ATGATATGCAC
*
68960403 ATGATATG--T
1 ATGATATGCAC
*
68960412 ATGAAATGCAC
1 ATGATATGCAC
*
68960423 ATGATATG--T
1 ATGATATGCAC
*
68960432 ATGAAATGCAC
1 ATGATATGCAC
68960443 ATGAT
1 ATGAT
68960448 GTATTCATAA
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
9 21 0.45
11 26 0.55
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:68960526 original size:26 final size:26
Alignment explanation
Indices: 68960497--68960671 Score: 282
Period size: 26 Copynumber: 6.8 Consensus size: 26
68960487 GAGGAAGTGC
**
68960497 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
68960523 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
68960549 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
68960575 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
68960601 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
68960627 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
68960652 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
68960672 ATTAAAGAGG
Statistics
Matches: 139, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
25 33 0.24
26 106 0.76
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:68960575 original size:52 final size:52
Alignment explanation
Indices: 68960497--68960671 Score: 336
Period size: 52 Copynumber: 3.4 Consensus size: 52
68960487 GAGGAAGTGC
68960497 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
68960549 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
68960601 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
68960652 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
68960672 ATTAAAGAGG
Statistics
Matches: 123, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
50 10 0.08
51 25 0.20
52 88 0.72
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:68960875 original size:42 final size:42
Alignment explanation
Indices: 68960816--68960907 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
68960806 TAGTCTCCCC
* ** *
68960816 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
68960858 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
68960900 AAATGGGC
1 AAATGGGC
68960908 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:68960966 original size:31 final size:31
Alignment explanation
Indices: 68960931--68961009 Score: 158
Period size: 31 Copynumber: 2.5 Consensus size: 31
68960921 CGTTTACAGT
68960931 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
68960962 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
68960993 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
68961010 AACCGTTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:68962487 original size:38 final size:38
Alignment explanation
Indices: 68962439--68962537 Score: 126
Period size: 38 Copynumber: 2.6 Consensus size: 38
68962429 GAAATCCTGG
* * *
68962439 TTATAATTATTGTAATTATAATTTACGATCGAATATTA
1 TTATAGTTATTGTAATTATAATTTACGATCAAACATTA
* ** *
68962477 TTATAGTTATTGTAATTGTAATTTTTGGTCAAACATTA
1 TTATAGTTATTGTAATTATAATTTACGATCAAACATTA
*
68962515 TTATAGTTATGGTAATTATAATT
1 TTATAGTTATTGTAATTATAATT
68962538 ATTAAATTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.49
Consensus pattern (38 bp):
TTATAGTTATTGTAATTATAATTTACGATCAAACATTA
Found at i:68964059 original size:12 final size:12
Alignment explanation
Indices: 68964008--68964060 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
68963998 TAAATATTAG
68964008 ATTAAATTTAAT
1 ATTAAATTTAAT
*
68964020 ATCAAATTT-AT
1 ATTAAATTTAAT
*
68964031 ATATAAACATTAA-
1 AT-TAAA-TTTAAT
68964044 ATTAAATTTAAT
1 ATTAAATTTAAT
68964056 ATTAA
1 ATTAA
68964061 GAAAATCACT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 8 0.24
12 20 0.61
13 4 0.12
14 1 0.03
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTAAATTTAAT
Found at i:68965631 original size:17 final size:17
Alignment explanation
Indices: 68965609--68965644 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
68965599 AATGCTCACT
68965609 TTGATTCTTTTACAGGA
1 TTGATTCTTTTACAGGA
*
68965626 TTGATTCTTTTACGGGA
1 TTGATTCTTTTACAGGA
68965643 TT
1 TT
68965645 ACGGACTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.11, G:0.19, T:0.50
Consensus pattern (17 bp):
TTGATTCTTTTACAGGA
Found at i:68968052 original size:51 final size:52
Alignment explanation
Indices: 68967978--68968095 Score: 170
Period size: 51 Copynumber: 2.3 Consensus size: 52
68967968 CATTTCCAGG
*
68967978 TCATTT-T-CATTTTCATTTAGGAGAAAACCACATTCATTTCCAAATGATTC
1 TCATTTCTCCATTTTCATTTAGGAGAAAACCACAATCATTTCCAAATGATTC
* * * *
68968028 -CATTTCTCCATTTTCATTTTGGAGAAAACCATAATCATTTGCAAATGTTTC
1 TCATTTCTCCATTTTCATTTAGGAGAAAACCACAATCATTTCCAAATGATTC
68968079 TCATTTCTCCATTTTCA
1 TCATTTCTCCATTTTCA
68968096 CCATTTCAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
49 5 0.08
50 1 0.02
51 38 0.63
52 16 0.27
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (52 bp):
TCATTTCTCCATTTTCATTTAGGAGAAAACCACAATCATTTCCAAATGATTC
Found at i:68982158 original size:16 final size:16
Alignment explanation
Indices: 68982139--68982169 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68982129 CTTCTTCACT
68982139 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
68982155 TACTTACTTACTTAA
1 TACTCACTTACTTAA
68982170 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:68982175 original size:20 final size:20
Alignment explanation
Indices: 68982136--68982175 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
68982126 AAACTTCTTC
* *
68982136 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
68982156 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
68982176 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:68982854 original size:18 final size:18
Alignment explanation
Indices: 68982831--68982866 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
68982821 AGAACACACA
*
68982831 TTTTACGACTTTTACAAT
1 TTTTACAACTTTTACAAT
*
68982849 TTTTACAACTTTTGCAAT
1 TTTTACAACTTTTACAAT
68982867 ATAGTCCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.50
Consensus pattern (18 bp):
TTTTACAACTTTTACAAT
Found at i:68988941 original size:16 final size:16
Alignment explanation
Indices: 68988922--68988952 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68988912 CTTCTTCACT
68988922 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
68988938 TACTTACTTACTTAA
1 TACTCACTTACTTAA
68988953 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:68988958 original size:20 final size:20
Alignment explanation
Indices: 68988919--68988958 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
68988909 AAACTTCTTC
* *
68988919 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
68988939 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
68988959 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:68989334 original size:55 final size:53
Alignment explanation
Indices: 68989144--68989398 Score: 245
Period size: 55 Copynumber: 4.8 Consensus size: 53
68989134 ACACGGGTAC
* * * * *
68989144 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG-AA
* *
68989193 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAA
* * *
68989246 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AA
* * * * *
68989301 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA
*
68989354 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
68989399 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 35 0.20
52 2 0.01
53 47 0.27
54 14 0.08
55 72 0.42
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAA
Found at i:68989335 original size:108 final size:110
Alignment explanation
Indices: 68989191--68989391 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
68989181 ATCCTTTTGA
* *
68989191 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
68989254 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
68989299 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
68989364 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
68989392 TATCCTTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:68995296 original size:48 final size:48
Alignment explanation
Indices: 68995235--68995367 Score: 160
Period size: 48 Copynumber: 2.8 Consensus size: 48
68995225 GTGTGAATTA
* *
68995235 TACCTTGATTTGGCTTTGGGCCATGGTATATGTA-TTTCGAAGATGAGT
1 TACCTTGATTTGGCTTTGGGCCATGGTATAGGTACTTT-GAAGATAAGT
*** **
68995283 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTTTGGGGATAAGT
1 TACCTTGATTTGGCTTTGGGCCATGGTATAGGTACTTTGAAGATAAGT
* * *
68995331 GACCTTGATTTGGCTTTGAGACATGGTATAGGTACTT
1 TACCTTGATTTGGCTTTGGGCCATGGTATAGGTACTT
68995368 ATCGATTGAG
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 68 0.96
49 3 0.04
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.37
Consensus pattern (48 bp):
TACCTTGATTTGGCTTTGGGCCATGGTATAGGTACTTTGAAGATAAGT
Found at i:68999596 original size:40 final size:40
Alignment explanation
Indices: 68999524--68999784 Score: 411
Period size: 40 Copynumber: 6.6 Consensus size: 40
68999514 TATTCGAATG
* * *
68999524 ATATCCGGGTTAAGT-CCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
68999563 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
68999603 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
68999643 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
68999683 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
68999723 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
68999763 ATATCC-GACTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
68999785 TACTTGGGTT
Statistics
Matches: 212, Mismatches: 8, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
39 28 0.13
40 182 0.86
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:69009622 original size:39 final size:40
Alignment explanation
Indices: 69009521--69009622 Score: 163
Period size: 40 Copynumber: 2.6 Consensus size: 40
69009511 NNNNNNNNNN
*
69009521 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
69009561 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACT
*
69009601 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
69009623 TACTTGGGTT
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
39 15 0.25
40 42 0.71
41 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:69011219 original size:31 final size:30
Alignment explanation
Indices: 69011160--69011224 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
69011150 GGAACGAGCA
69011160 CAATGAGCTAAAGTTGAGCCAAATCAAGCT
1 CAATGAGCTAAAGTTGAGCCAAATCAAGCT
**
69011190 CAATGAGCTTAAA-TTCGAGCTGAATCAAGCT
1 CAATGAGC-TAAAGTT-GAGCCAAATCAAGCT
69011221 CAAT
1 CAAT
69011225 AGGCTAGGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 10 0.32
31 21 0.68
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (30 bp):
CAATGAGCTAAAGTTGAGCCAAATCAAGCT
Found at i:69014246 original size:6 final size:6
Alignment explanation
Indices: 69014235--69014336 Score: 111
Period size: 6 Copynumber: 16.8 Consensus size: 6
69014225 AACCAAAGAG
* *
69014235 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* *
69014283 AGTAA-C AGAATC AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
69014332 AGAAT
1 AGAAT
69014337 GTGAATGCAA
Statistics
Matches: 81, Mismatches: 8, Indels: 14
0.79 0.08 0.14
Matches are distributed among these distances:
5 5 0.06
6 70 0.86
7 5 0.06
8 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:69014269 original size:30 final size:30
Alignment explanation
Indices: 69014235--69014336 Score: 168
Period size: 30 Copynumber: 3.4 Consensus size: 30
69014225 AACCAAAGAG
*
69014235 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
69014265 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
69014295 AGAATCAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
69014326 AGAATCAGAAT
1 AGAATCAGAAT
69014337 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 46 0.69
31 21 0.31
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:69014491 original size:27 final size:26
Alignment explanation
Indices: 69014454--69014519 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
69014444 AGCATGACTG
*
69014454 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
69014480 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
69014507 CCAGAATCAGATA
1 CCAGAA-CAGATA
69014520 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:69014524 original size:27 final size:27
Alignment explanation
Indices: 69014454--69014527 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
69014444 AGCATGACTG
* *
69014454 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
69014480 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
69014507 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
69014528 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:69014534 original size:27 final size:27
Alignment explanation
Indices: 69014478--69014535 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
69014468 GTGACAGAGT
* * *
69014478 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
69014505 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
69014532 CACC
1 CACC
69014536 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:69014917 original size:27 final size:26
Alignment explanation
Indices: 69014838--69014920 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
69014828 TCGATCGGTC
* * *
69014838 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
* *
69014864 ATATAGATATTGTGGCAGAGCTACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
69014891 AACAGATATTGGTGGCATAGCCACCAG
1 AACAGATATT-GTGGCAGAGCCACCAG
69014918 AAC
1 AAC
69014921 GCTTCCTCCG
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 9 0.19
27 38 0.81
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:69015168 original size:27 final size:27
Alignment explanation
Indices: 69015120--69015368 Score: 261
Period size: 27 Copynumber: 9.2 Consensus size: 27
69015110 GGGCAAAATG
* * ** *
69015120 GTAATTTTACCCCACAAAGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
69015147 GTAATTCTACCTTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
69015174 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
69015200 GATAATTCTACCCTACAGGGGTATTT-T
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
69015227 GATATTTCTACCCTACAAGGGTATTTC-
1 G-TAATTCTACCCTACAGGGGTATTTCA
**
69015254 GATAATTCTACCCTACAGGGGTATTTTG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
69015282 GTAATTCTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
69015309 GTAATTCTACACTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
69015336 GAAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
69015363 GTAATT
1 GTAATT
69015369 TCACAATCAA
Statistics
Matches: 187, Mismatches: 31, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 185 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:69015176 original size:54 final size:54
Alignment explanation
Indices: 69015118--69015361 Score: 305
Period size: 54 Copynumber: 4.5 Consensus size: 54
69015108 AGGGGCAAAA
* * * *
69015118 TGGTAATTT-TACCCCACAAAGGTATCTC-AGTAATTCTACCTTACAGGGGTATTT
1 TGGT-ATTTCTACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTT
69015172 TGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
1 TGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
*
69015226 TGATATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
1 TGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
* * * * *
69015280 TGGTAATTCTATCCTATAAGGGTATTTC-AGTAATTCTACACTATAGGGGTATTT
1 TGGTATTTCTACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTT
** * * *
69015334 CAGAAATTCTACCCTACAGGGGTATTTC
1 TGGTATTTCTACCCTACAAGGGTATTTC
69015362 AGTAATTTCA
Statistics
Matches: 170, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
53 5 0.03
54 164 0.96
55 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
TGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
Found at i:69015441 original size:27 final size:27
Alignment explanation
Indices: 69015411--69015683 Score: 331
Period size: 27 Copynumber: 10.1 Consensus size: 27
69015401 ATCGAGGGTC
* *
69015411 AAACTGAGGGTAAAATAGTAATTCTAT
1 AAACTGAGGGTAAAACAGTAATTCTGT
*
69015438 AAACTGAGGGTAAAATAGTAATTCTGT
1 AAACTGAGGGTAAAACAGTAATTCTGT
*
69015465 AAA-TCGAGGGTAAAACGGTAATTCTGT
1 AAACT-GAGGGTAAAACAGTAATTCTGT
69015492 AAA-TCGAGGGTAAAACAGTAATTCTGT
1 AAACT-GAGGGTAAAACAGTAATTCTGT
* *
69015519 AAACTGAGGGTAAAACGGTAATTCTGC
1 AAACTGAGGGTAAAACAGTAATTCTGT
* *
69015546 AAACTGAGGGTAAAATAGTAATTCTAT
1 AAACTGAGGGTAAAACAGTAATTCTGT
*
69015573 AAACTGAGGGTAAAATAGTAATTCTGT
1 AAACTGAGGGTAAAACAGTAATTCTGT
*
69015600 AAA-TCGAGGGTAAAACGGTAATT-T-T
1 AAACT-GAGGGTAAAACAGTAATTCTGT
* * *
69015625 AAAAATCGAGAGTAAAACGGTAATTCTGT
1 -AAACT-GAGGGTAAAACAGTAATTCTGT
* *
69015654 AAATTGAGGGTAAAACGGTAATTCTGT
1 AAACTGAGGGTAAAACAGTAATTCTGT
69015681 AAA
1 AAA
69015684 TCGGGAGTAC
Statistics
Matches: 223, Mismatches: 16, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
25 1 0.00
26 6 0.03
27 209 0.94
28 6 0.03
29 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.27
Consensus pattern (27 bp):
AAACTGAGGGTAAAACAGTAATTCTGT
Found at i:69015701 original size:81 final size:81
Alignment explanation
Indices: 69015415--69015717 Score: 335
Period size: 81 Copynumber: 3.7 Consensus size: 81
69015405 AGGGTCAAAC
* * ** * **
69015415 TGAGGGTAAAATAGTAATTCTATAAA-CTGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAA
1 TGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAA
69015479 ACGGTAATTCTGTAAAT
65 ACGGTAATTCTGTAAAT
* * *
69015496 CGAGGGTAAAACAGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGCAAA-CTGAGGGTAA
1 TGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTTTACAAATC-GAGGGTAA
** * *
69015559 AATAGTAATTCTATAAAC
64 AACGGTAATTCTGTAAAT
* * *
69015577 TGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTAAAAATCGAGAGTAAAA
1 TGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAA
69015642 CGGTAATTCTGTAAAT
66 CGGTAATTCTGTAAAT
* **** *
69015658 TGAGGGTAAAACGGTAATTCTGTAAATCG-GGAGTACTTTGGTAATTTTACAAGTCGAGGG
1 TGAGGGTAAAACAGTAATTCTGTAAATCGAGG-GTAAAACGGTAATTTTACAAATCGAGGG
69015718 CATTTCAGTA
Statistics
Matches: 189, Mismatches: 29, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
80 3 0.02
81 184 0.97
82 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (81 bp):
TGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAA
CGGTAATTCTGTAAAT
Found at i:69022383 original size:53 final size:53
Alignment explanation
Indices: 69022325--69022430 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
69022315 ATATAATGAG
69022325 AAAGAATTTTAACATGAGAAAGATAATAACTATTCTAGATATAACATTTGTAT
1 AAAGAATTTTAACATGAGAAAGATAATAACTATTCTAGATATAACATTTGTAT
69022378 AAAGAATTTTAACATGAGAAAGATAATAACTATTCTAGATATAACATTTGTAT
1 AAAGAATTTTAACATGAGAAAGATAATAACTATTCTAGATATAACATTTGTAT
69022431 GATAAAAATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (53 bp):
AAAGAATTTTAACATGAGAAAGATAATAACTATTCTAGATATAACATTTGTAT
Found at i:69029004 original size:30 final size:31
Alignment explanation
Indices: 69028970--69029038 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 31
69028960 AGATAGAACG
*
69028970 AGCTCAATGAGCTAAAGTT-GAGTCAG-ATCA
1 AGCTCAATGAGCTAAAATTCGAG-CAGAATCA
*
69029000 AGCTCAATGAGCTAAAATTCGAGCTGAATCA
1 AGCTCAATGAGCTAAAATTCGAGCAGAATCA
69029031 AGCTCAAT
1 AGCTCAAT
69029039 AGGCTAGGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 20 0.57
31 15 0.43
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (31 bp):
AGCTCAATGAGCTAAAATTCGAGCAGAATCA
Found at i:69029149 original size:33 final size:33
Alignment explanation
Indices: 69029107--69029173 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
69029097 ACCAGGGGCG
* *
69029107 TTCTCGGGGCATGGCCATATCAATTTATTTAGC
1 TTCTCGGGGCATGGCCATATCAATGTATGTAGC
69029140 TTCTCGGGGCATGGCCATATCAATGTATGTAGC
1 TTCTCGGGGCATGGCCATATCAATGTATGTAGC
69029173 T
1 T
69029174 AAGTAAACGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (33 bp):
TTCTCGGGGCATGGCCATATCAATGTATGTAGC
Done.