Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 107 of 167
Found at i:35599745 original size:19 final size:17
Alignment explanation
Indices: 35599721--35599758 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
35599711 ACCAATTTGA
35599721 TTAAAAAATTATTAAAATT
1 TTAAAAAATTA--AAAATT
35599740 TTAAAAAATTAAAAATT
1 TTAAAAAATTAAAAATT
35599757 TT
1 TT
35599759 GAAATTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
19 11 0.58
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAAAAATTAAAAATT
Found at i:35602522 original size:42 final size:42
Alignment explanation
Indices: 35602463--35602544 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
35602453 TAAAACTATG
35602463 TGTAAGACCATATCTGGGATACGACATCAATATGAGACTTTT
1 TGTAAGACCATATCTGGGATACGACATCAATATGAGACTTTT
* * * *
35602505 TGTAAGACCATATCTGGGATATGGCATCGATGTGAGACTT
1 TGTAAGACCATATCTGGGATACGACATCAATATGAGACTT
35602545 CGTTTTGATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATACGACATCAATATGAGACTTTT
Found at i:35620708 original size:39 final size:39
Alignment explanation
Indices: 35620649--35620849 Score: 348
Period size: 39 Copynumber: 5.2 Consensus size: 39
35620639 TAATGGAGAA
*
35620649 TTATATCCGGGCTAACTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
35620688 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
35620727 TTATATCGGGGCTAAGCCCCGAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
35620766 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
35620805 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
35620844 TTATAT
1 TTATAT
35620850 TCAGGCTTAA
Statistics
Matches: 153, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 153 1.00
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:35628984 original size:50 final size:50
Alignment explanation
Indices: 35628929--35629028 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
35628919 GTGAGTATGT
35628929 ATCATATTACCATATGTGAAATATATGACAACGAATGATATGAATGTATA
1 ATCATATTACCATATGTGAAATATATGACAACGAATGATATGAATGTATA
35628979 ATCATATTACCATATGTGAAATATATGACAACGAATGATATGAATGTATA
1 ATCATATTACCATATGTGAAATATATGACAACGAATGATATGAATGTATA
35629029 CAAATAAATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (50 bp):
ATCATATTACCATATGTGAAATATATGACAACGAATGATATGAATGTATA
Found at i:35629019 original size:26 final size:26
Alignment explanation
Indices: 35628940--35629020 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
35628930 TCATATTACC
35628940 ATATGTGAAATATATGACAACGAATG
1 ATATGTGAAATATATGACAACGAATG
* * ** **
35628966 ATA--TG-AATGTATAATCATA-TTACC
1 ATATGTGAAATATATGA-CA-ACGAATG
35628990 ATATGTGAAATATATGACAACGAATG
1 ATATGTGAAATATATGACAACGAATG
35629016 ATATG
1 ATATG
35629021 AATGTATACA
Statistics
Matches: 37, Mismatches: 12, Indels: 12
0.61 0.20 0.20
Matches are distributed among these distances:
23 7 0.19
24 8 0.22
25 2 0.05
26 13 0.35
27 7 0.19
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (26 bp):
ATATGTGAAATATATGACAACGAATG
Found at i:35631202 original size:23 final size:23
Alignment explanation
Indices: 35631139--35631215 Score: 95
Period size: 23 Copynumber: 3.4 Consensus size: 23
35631129 TAGCTAATTG
** *
35631139 GAGCTTACCGTTTCAGCTC-GTA
1 GAGCTTACTATTTCAGCTCAATA
*
35631161 CGAGCTTAC-AATTCAGCTCAATA
1 -GAGCTTACTATTTCAGCTCAATA
35631184 GAGCTTACTATTTCAGCTCAATA
1 GAGCTTACTATTTCAGCTCAATA
35631207 GAGCTTACT
1 GAGCTTACT
35631216 GTTTATTAGC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
22 16 0.33
23 32 0.67
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (23 bp):
GAGCTTACTATTTCAGCTCAATA
Found at i:35631311 original size:12 final size:12
Alignment explanation
Indices: 35631294--35631320 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
35631284 TTATTGATGT
35631294 TATTCACCCGAG
1 TATTCACCCGAG
35631306 TATTCACCCGAG
1 TATTCACCCGAG
35631318 TAT
1 TAT
35631321 CCTTTGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (12 bp):
TATTCACCCGAG
Found at i:35633655 original size:48 final size:48
Alignment explanation
Indices: 35633590--35633865 Score: 298
Period size: 48 Copynumber: 5.8 Consensus size: 48
35633580 CATGGTAGGG
* * * *
35633590 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGACCACATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
*
35633638 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACAT--A
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
* * * *
35633684 T-CGAA-GCCGATAG-CCCAG-CTATGGTCTTACACGATG-TCTCATATCGA
1 TGCCAATGCC-AT-GTCCCAGAC-ATGGTCTTACATG-GGATCACATATCGA
* *
35633731 TGCCAATGCCATGTCCTAGACATGATCTTACATGGGATCACATAAT-GA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAT-ATCGA
*
35633779 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
* * * * *
35633827 TGCCGATGTCATATCCCAGATATGGTCTTATATGGGATC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
35633866 TCATCAACCT
Statistics
Matches: 190, Mismatches: 25, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
44 4 0.02
45 28 0.15
46 4 0.02
47 6 0.03
48 142 0.75
49 6 0.03
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
Found at i:35646038 original size:85 final size:85
Alignment explanation
Indices: 35645909--35646087 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
35645899 TTTTTTATTG
*
35645909 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
35645974 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
35645994 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
35646059 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
35646079 CCCATGCTC
1 CCCATGCTC
35646088 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:35646743 original size:16 final size:16
Alignment explanation
Indices: 35646717--35646749 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
35646707 TTGGTTAACA
35646717 ACAAGTACTTTTTCAAT
1 ACAAGTAC-TTTTCAAT
35646734 ACAA-TACTTTTCAAT
1 ACAAGTACTTTTCAAT
35646749 A
1 A
35646750 TTTAATGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.56
16 3 0.19
17 4 0.25
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (16 bp):
ACAAGTACTTTTCAAT
Found at i:35648389 original size:23 final size:25
Alignment explanation
Indices: 35648336--35648389 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
35648326 TGAAAATATA
*
35648336 ATTTTTAAAATCCCAAGTAATTTTCT
1 ATTTTTAAAATCCCAAG-AATTTTCC
* *
35648362 TTTTTTAGAATCCC-A-AATTTTCC
1 ATTTTTAAAATCCCAAGAATTTTCC
35648385 ATTTT
1 ATTTT
35648390 ATCATAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 11 0.46
25 1 0.04
26 12 0.50
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.50
Consensus pattern (25 bp):
ATTTTTAAAATCCCAAGAATTTTCC
Found at i:35652799 original size:88 final size:88
Alignment explanation
Indices: 35652650--35652826 Score: 354
Period size: 88 Copynumber: 2.0 Consensus size: 88
35652640 TGTCTGCCAT
35652650 TGTTAGTTTTCTTCTATTCTAAATATGTTTCTTATTTATAATGCTTGGATCTTTTGTCAATTGTG
1 TGTTAGTTTTCTTCTATTCTAAATATGTTTCTTATTTATAATGCTTGGATCTTTTGTCAATTGTG
35652715 TTCAGGTCATTGCTTCACTTGCA
66 TTCAGGTCATTGCTTCACTTGCA
35652738 TGTTAGTTTTCTTCTATTCTAAATATGTTTCTTATTTATAATGCTTGGATCTTTTGTCAATTGTG
1 TGTTAGTTTTCTTCTATTCTAAATATGTTTCTTATTTATAATGCTTGGATCTTTTGTCAATTGTG
35652803 TTCAGGTCATTGCTTCACTTGCA
66 TTCAGGTCATTGCTTCACTTGCA
35652826 T
1 T
35652827 ATTTGGTCTA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (88 bp):
TGTTAGTTTTCTTCTATTCTAAATATGTTTCTTATTTATAATGCTTGGATCTTTTGTCAATTGTG
TTCAGGTCATTGCTTCACTTGCA
Found at i:35655577 original size:21 final size:21
Alignment explanation
Indices: 35655539--35655579 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35655529 ATAGTTGATT
*
35655539 TACCATCAAAATTTTCTTGTC
1 TACCATCAAAATTGTCTTGTC
35655560 TACC-TCAAACATTGTCTTGT
1 TACCATCAAA-ATTGTCTTGT
35655580 TTGATATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.41
Consensus pattern (21 bp):
TACCATCAAAATTGTCTTGTC
Found at i:35657468 original size:34 final size:34
Alignment explanation
Indices: 35657322--35657475 Score: 100
Period size: 34 Copynumber: 4.6 Consensus size: 34
35657312 TCAACAAAAG
*
35657322 AAAAAGCTTTA--GGTTGAGTATTTCAACGAA-GA
1 AAAAAGCTTTATCGGTTGAGTTTTTCAAC-AAGGA
* * * * * * *
35657354 AATAAGATTGATAGGTTAAGTGTCTT-AACAAAGAA
1 AAAAAGCTTTATCGGTTGAGT-TTTTCAAC-AAGGA
* * * * *
35657389 AAAAAGATTTATCAGTCGAGTTTTTGAAGAAGGA
1 AAAAAGCTTTATCGGTTGAGTTTTTCAACAAGGA
*
35657423 AAAAAGCTTTATCGGTTGAGTTTTTCAACAAGGG
1 AAAAAGCTTTATCGGTTGAGTTTTTCAACAAGGA
* * *
35657457 AAGAAGTTTTATAGGTTGA
1 AAAAAGCTTTATCGGTTGA
35657476 TTATCAATTA
Statistics
Matches: 91, Mismatches: 26, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
32 8 0.09
34 63 0.69
35 20 0.22
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.31
Consensus pattern (34 bp):
AAAAAGCTTTATCGGTTGAGTTTTTCAACAAGGA
Found at i:35676255 original size:41 final size:41
Alignment explanation
Indices: 35676189--35676368 Score: 245
Period size: 41 Copynumber: 4.4 Consensus size: 41
35676179 TTATTCCTTG
* * *
35676189 AATTACACATACGTGCCCCTGTTTGTACTTTGATACCCCTA
1 AATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTA
* *
35676230 AATTGCACATACATGCCCCTATTTGTACTTTGGTA-CCCTG
1 AATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTA
* * * *
35676270 AATTGCACATACGTGCCCTTGTTTGGACTTCGGTACCCCTA
1 AATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTA
* *
35676311 AATTACACATACGTGCCCCTATTTGTACTTTGGTACCCCTG
1 AATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTA
*
35676352 AATTGCACATATGTGCC
1 AATTGCACATACGTGCC
35676369 ACTTTTACAC
Statistics
Matches: 119, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
40 34 0.29
41 85 0.71
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTA
Found at i:35676322 original size:81 final size:82
Alignment explanation
Indices: 35676187--35676368 Score: 285
Period size: 81 Copynumber: 2.2 Consensus size: 82
35676177 AATTATTCCT
* * * *
35676187 TGAATTACACATACGTGCCCCTGTTTGTACTTTGATACCCCTAAATTGCACATACATGCCCCTAT
1 TGAATTGCACATACGTGCCCCTGTTTGGACTTCGATACCCCTAAATTACACATACATGCCCCTAT
35676252 TTGTACTTTGGTA-CCC
66 TTGTACTTTGGTACCCC
* * *
35676268 TGAATTGCACATACGTGCCCTTGTTTGGACTTCGGTACCCCTAAATTACACATACGTGCCCCTAT
1 TGAATTGCACATACGTGCCCCTGTTTGGACTTCGATACCCCTAAATTACACATACATGCCCCTAT
35676333 TTGTACTTTGGTACCCC
66 TTGTACTTTGGTACCCC
*
35676350 TGAATTGCACATATGTGCC
1 TGAATTGCACATACGTGCC
35676369 ACTTTTACAC
Statistics
Matches: 92, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
81 71 0.77
82 21 0.23
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.34
Consensus pattern (82 bp):
TGAATTGCACATACGTGCCCCTGTTTGGACTTCGATACCCCTAAATTACACATACATGCCCCTAT
TTGTACTTTGGTACCCC
Found at i:35680752 original size:27 final size:27
Alignment explanation
Indices: 35680698--35680756 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
35680688 GGGCCCATTG
* *
35680698 CCCTCGATTTACAGAATTATCGTCTTA
1 CCCTCGATTTACAGAATTACCATCTTA
* * *
35680725 CCCTTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATCTTA
35680752 CCCTC
1 CCCTC
35680757 AATGTAGAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATCTTA
Found at i:35680847 original size:27 final size:26
Alignment explanation
Indices: 35680764--35680861 Score: 97
Period size: 27 Copynumber: 3.7 Consensus size: 26
35680754 CTCAATGTAG
** *
35680764 AAAATTACTGAAATACCTTTGGTTTAC
1 AAAATTACCAAAATACC-TTGGTTTAT
* * **
35680791 AAAATTACAAAAATACCTTCGATCAAT
1 AAAATTACCAAAATACCTT-GGTTTAT
*
35680818 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACC-TTGGTTTAT
35680845 AAAATTACCAAAATACC
1 AAAATTACCAAAATACC
35680862 CCTACTTTGT
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
26 2 0.03
27 54 0.93
28 2 0.03
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCTTGGTTTAT
Found at i:35680870 original size:27 final size:27
Alignment explanation
Indices: 35680817--35680889 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
35680807 CTTCGATCAA
** **
35680817 TAAAATTACCAAAATACCATTGGTTTG
1 TAAAATTACCAAAATACCCCTACTTTG
35680844 TAAAATTACCAAAATACCCCTACTTTG
1 TAAAATTACCAAAATACCCCTACTTTG
** * *
35680871 TGTAATTATCGAAATACCC
1 TAAAATTACCAAAATACCC
35680890 TTGTAGGGTA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTACTTTG
Found at i:35680904 original size:27 final size:27
Alignment explanation
Indices: 35680874--35681231 Score: 484
Period size: 27 Copynumber: 13.3 Consensus size: 27
35680864 TACTTTGTGT
*
35680874 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
35680901 AATTACCGAAATACCCTTGTAGGGAAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
35680928 AATTACTGAAATACCCCTATCGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
35680955 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
35680982 AATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
35681009 AATGACCGAAATACCCTTGTAGAGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** *
35681036 AACGACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
35681063 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
35681090 AATTACTGAAATATCCC-TGTAGGGTAG
1 AATTACCGAAATA-CCCTTGTAGGGTAG
*
35681117 AATTACCGAAATACCCTTGTAGCGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
35681144 AAATATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
35681171 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
35681198 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
35681225 AATTACC
1 AATTACC
35681232 ATTTTGCCCC
Statistics
Matches: 291, Mismatches: 38, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
26 3 0.01
27 285 0.98
28 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:35680905 original size:81 final size:80
Alignment explanation
Indices: 35680820--35681231 Score: 324
Period size: 81 Copynumber: 5.1 Consensus size: 80
35680810 CGATCAATAA
* ** * * * *
35680820 AATTACCAAAATACCATTGGTTTGTAA-AATTACCAAAATACCCCTACTTTGTGT-AATTATCGA
1 AATTACCGAAATACCATT-GTAGGGAAGAATTACCAAAATACCCCTA--TCGGGTAAATTACCGA
*
35680883 AATACCCTTGTAGGGTAG
63 AATACCCCTGTAGGGTAG
* **
35680901 AATTACCGAAATACCCTTGTAGGGAAGAATTACTGAAATACCCCTATCGGGTAGAATTACCGAAA
1 AATTACCGAAATACCATTGTAGGGAAGAATTACCAAAATACCCCTATCGGGTA-AATTACCGAAA
35680966 TACCCCTGTAGGGTAG
65 TACCCCTGTAGGGTAG
* ** * * * * * * * * **
35680982 AATTATCGAAATACCCCTATAGGGTAGAATGACCGAAATACCCTTGTAGAGTAGAACGACCGAAA
1 AATTACCGAAATACCATTGTAGGGAAGAATTACCAAAATACCCCTATCGGGTA-AATTACCGAAA
35681047 TACCCCTGTAGGGTAG
65 TACCCCTGTAGGGTAG
* * ** * * *
35681063 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATATCCCTGTAGGGTAGAATTACCGAAA
1 AATTACCGAAATACCATTGTAGGGAAGAATTACCAAAATACCCCTATCGGGTA-AATTACCGAAA
* *
35681128 TACCCTTGTAGCGTAG
65 TACCCCTGTAGGGTAG
* * ** * ** * * * *
35681144 AAATATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAGA
1 AATTACCGAAATACCATTGTAGGGAAGAATTACCAAAATACCCCTATCGGGTA-AATTACCGAAA
* * *
35681209 TACCCTTGTGGGGTAA
65 TACCCCTGTAGGGTAG
35681225 AATTACC
1 AATTACC
35681232 ATTTTGCCCC
Statistics
Matches: 282, Mismatches: 46, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
79 4 0.01
80 5 0.02
81 273 0.97
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (80 bp):
AATTACCGAAATACCATTGTAGGGAAGAATTACCAAAATACCCCTATCGGGTAAATTACCGAAAT
ACCCCTGTAGGGTAG
Found at i:35681671 original size:31 final size:31
Alignment explanation
Indices: 35681633--35681711 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
35681623 TTGCATTCAC
*
35681633 ATTCTGATTTTGATTCTGTTACCTGATACCG
1 ATTCTGATTTTGATTCTGTCACCTGATACCG
* *
35681664 ATTCTGATTTTGATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATACCG
*
35681695 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
35681712 AGTTCTATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACCTGATACCG
Found at i:35681677 original size:6 final size:6
Alignment explanation
Indices: 35681633--35681711 Score: 63
Period size: 6 Copynumber: 12.8 Consensus size: 6
35681623 TTGCATTCAC
* * * *
35681633 ATTCTG ATTTTG ATTCTG -TTACCTG ATACCG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
35681682 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
35681712 AGTTCTATTA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
5 3 0.05
6 46 0.81
7 6 0.11
8 2 0.04
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:35683193 original size:27 final size:27
Alignment explanation
Indices: 35683055--35683200 Score: 152
Period size: 27 Copynumber: 5.4 Consensus size: 27
35683045 AGAGTAAAGC
* * *
35683055 TACTGAAATACCTTCAACTTGTAAAAT
1 TACTGAAATACCCTCGATTTGTAAAAT
* * *
35683082 TAC-CAAAGTACCCCCGATTTATAAAAT
1 TACTGAAA-TACCCTCGATTTGTAAAAT
** *
35683109 TACCCAAATATCCTCGATTTGTAAAAT
1 TACTGAAATACCCTCGATTTGTAAAAT
* * *
35683136 TACAGAAATACCATC-AGTTTGCAAAAT
1 TACTGAAATACCCTCGA-TTTGTAAAAT
35683163 TACTGAAATACCCTCGATTTGTAAAAT
1 TACTGAAATACCCTCGATTTGTAAAAT
35683190 TACTGAAATAC
1 TACTGAAATAC
35683201 TCCTATAAGA
Statistics
Matches: 98, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
26 4 0.04
27 89 0.91
28 5 0.05
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
TACTGAAATACCCTCGATTTGTAAAAT
Found at i:35683463 original size:27 final size:27
Alignment explanation
Indices: 35683212--35683448 Score: 330
Period size: 27 Copynumber: 8.7 Consensus size: 27
35683202 CCTATAAGAT
35683212 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
35683239 AGAATTATCTTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
35683266 AGAATTACTATTTTTACCCTCGATTTAC
1 AGAATTACCA-TTTTACCCTCGATTTAC
* *
35683294 AGAATTACCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
35683321 AGAATTACTATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
35683348 AGAATTATCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
35683375 AAAATTACTATTTTATCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
35683402 AGAATTACCGTCTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
35683429 AGAATTACCATTTTACCCTC
1 AGAATTACCATTTTACCCTC
35683449 AATGTAGAAA
Statistics
Matches: 179, Mismatches: 30, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
27 155 0.87
28 24 0.13
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:35683463 original size:54 final size:54
Alignment explanation
Indices: 35683210--35683448 Score: 388
Period size: 54 Copynumber: 4.4 Consensus size: 54
35683200 CTCCTATAAG
* * *
35683210 ATAGAATTACCATTTTACCCTCGATTTACAGAATTATCTTTTTACCCTCGATTT
1 ATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
35683264 ATAGAATTACTATTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
1 ATAGAATTACTA-TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
*
35683319 ATAGAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTT
1 ATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
* * *
35683373 ATAAAATTACTATTTTATCCTCGATTTACAGAATTACCGTCTTACCCTCGATTT
1 ATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
* *
35683427 ACAGAATTACCATTTTACCCTC
1 ATAGAATTACTATTTTACCCTC
35683449 AATGTAGAAA
Statistics
Matches: 172, Mismatches: 12, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
54 120 0.70
55 52 0.30
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (54 bp):
ATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
Found at i:35683472 original size:27 final size:27
Alignment explanation
Indices: 35683415--35683555 Score: 102
Period size: 27 Copynumber: 5.2 Consensus size: 27
35683405 ATTACCGTCT
* * ***
35683415 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATCTACAAAATTACCAAAA
* * * *
35683442 TACCCTCAATGTAGAAAATTACTAAAA
1 TACCCTCGATCTACAAAATTACCAAAA
* * *
35683469 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATCTACAAAATTACCAAAA
* *
35683496 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATCTACAAAATTACCAAAA
* * * * **
35683523 TACCATTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATCTACAAAATTACCAAAA
35683550 TACCCT
1 TACCCT
35683556 TCCTTTGTGT
Statistics
Matches: 88, Mismatches: 26, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (27 bp):
TACCCTCGATCTACAAAATTACCAAAA
Found at i:35683482 original size:81 final size:81
Alignment explanation
Indices: 35683214--35683492 Score: 324
Period size: 81 Copynumber: 3.4 Consensus size: 81
35683204 TATAAGATAG
* * * * *
35683214 AATTACCATTTTACCCTCGATTTACAGAATTATCTTTTTACCCTCGATTTATAGAATTACTATTT
1 AATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCA-TT
*
35683279 TTACCCTCGATTTACAG
65 TTACCCTCGATTTACAA
** * * * *
35683296 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTATCGTTT
1 AATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
*
35683361 TACCCTCGATTTATAA
66 TACCCTCGATTTACAA
* * *
35683377 AATTACTATTTTATCCTCGATTTACAGAATTACCGTCTTACCCTCGATTTACAGAATTACCATTT
1 AATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* * *
35683442 TACCCTCAATGTAGAA
66 TACCCTCGATTTACAA
*** * * *
35683458 AATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 AATTACTATTTTACCCTCGATTTACAGAATTACCA
35683493 AAATACCCTC
Statistics
Matches: 166, Mismatches: 31, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
81 113 0.68
82 53 0.32
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (81 bp):
AATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
TACCCTCGATTTACAA
Found at i:35683500 original size:54 final size:54
Alignment explanation
Indices: 35683415--35683555 Score: 156
Period size: 54 Copynumber: 2.6 Consensus size: 54
35683405 ATTACCGTCT
* * * *** ** *
35683415 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATGTAGAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCTCAATCAAGAAAATTACCAAAA
* *
35683469 TACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCTCAATCAAGAAAATTACCAAAA
* **
35683523 TACCATTGGTTTGTAAAATTACCAAAATACCCT
1 TACCCTTGGTTTACAAAATTACCAAAATACCCT
35683556 TCCTTTGTGT
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (54 bp):
TACCCTTGGTTTACAAAATTACCAAAATACCCTCAATCAAGAAAATTACCAAAA
Found at i:35683562 original size:27 final size:27
Alignment explanation
Indices: 35683456--35683583 Score: 123
Period size: 27 Copynumber: 4.7 Consensus size: 27
35683446 CTCAATGTAG
* * *
35683456 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTCGTTTAT
**
35683483 AAAATTACCAAAATACCC-TCGATCAAT
1 AAAATTACCAAAATACCCTTCG-TTTAT
* * *
35683510 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCTTCGTTTAT
* *
35683537 AAAATTACCAAAATACCCTTCCTTTGT
1 AAAATTACCAAAATACCCTTCGTTTAT
** *
35683564 GTAATTACCGAAATACCCTT
1 AAAATTACCAAAATACCCTT
35683584 GTAGGGTAGA
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
26 2 0.02
27 79 0.95
28 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTCGTTTAT
Found at i:35683596 original size:27 final size:27
Alignment explanation
Indices: 35683566--35683810 Score: 339
Period size: 27 Copynumber: 9.1 Consensus size: 27
35683556 TCCTTTGTGT
35683566 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
35683593 AATTACTGAAATACCTTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
35683620 AATTACTGAAATACCCCTT-TCGGGTAG
1 AATTACCGAAATA-CCCTTGTAGGGTAG
* *
35683647 AATTACCGAAATACCCCTGTAGGGTTG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
35683674 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
35683701 AATGACCAAAATACCCCTGTGGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
35683728 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
35683755 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
35683782 AATTACCGAAATACCCTTGTAGCGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
35683809 AA
1 AA
35683811 ATANNNNNNN
Statistics
Matches: 193, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 4 0.02
27 185 0.96
28 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:35683597 original size:81 final size:78
Alignment explanation
Indices: 35683539--35683797 Score: 331
Period size: 81 Copynumber: 3.2 Consensus size: 78
35683529 TGGTTTGTAA
*
35683539 AATTACCAAAATACCCTTCCTTTGTGT-AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAA
1 AATTACCAAAATA-CC--CCTTTGGGTAAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAA
35683603 ATACCTTTGTAGGGTAG
63 ATACC-TTGTAGGGTAG
** * *
35683620 AATTACTGAAATACCCCTTTCGGGTAGAATTACCGAAATACCCCTGTAGGGTTGAATTACTGAAA
1 AATTACCAAAATACCCCTTT-GGGTA-AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAA
*
35683685 TACCCCTGTAGGGTAG
64 TA-CCTTGTAGGGTAG
* *
35683701 AATGACCAAAATACCCCTGTGGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAA
1 AATTACCAAAATACCCCT-TTGGGTA-AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAA
*
35683766 TACCCCTGTAGGGTAG
64 TA-CCTTGTAGGGTAG
*
35683782 AATTACCGAAATACCC
1 AATTACCAAAATACCC
35683798 TTGTAGCGTA
Statistics
Matches: 159, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
78 5 0.03
79 3 0.02
80 2 0.01
81 146 0.92
82 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (78 bp):
AATTACCAAAATACCCCTTTGGGTAAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATA
CCTTGTAGGGTAG
Found at i:35683809 original size:81 final size:81
Alignment explanation
Indices: 35683566--35683810 Score: 375
Period size: 81 Copynumber: 3.0 Consensus size: 81
35683556 TCCTTTGTGT
** *
35683566 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCTTTGTAGGGTAGAATTACTGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAA
*
35683631 TACCCCTT-TCGGGTAG
66 TA-CCCTTGTAGGGTAG
* * * *
35683647 AATTACCGAAATACCCCTGTAGGGTTGAATTACTGAAATACCCCTGTAGGGTAGAATGACCAAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAA
* *
35683712 TACCCCTGTGGGGTAG
66 TACCCTTGTAGGGTAG
35683728 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAA
*
35683793 TACCCTTGTAGCGTAG
66 TACCCTTGTAGGGTAG
35683809 AA
1 AA
35683811 ATANNNNNNN
Statistics
Matches: 147, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
80 4 0.03
81 143 0.97
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (81 bp):
AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAA
TACCCTTGTAGGGTAG
Found at i:35683896 original size:6 final size:6
Alignment explanation
Indices: 35683865--35683974 Score: 82
Period size: 6 Copynumber: 17.8 Consensus size: 6
35683855 NNNNNNNNNN
* * *
35683865 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
35683914 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTTTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
35683964 ATTCTG ATTCT
1 ATTCTG ATTCT
35683975 AGTTCTTATA
Statistics
Matches: 81, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
5 5 0.06
6 65 0.80
7 8 0.10
8 3 0.04
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:35683897 original size:19 final size:19
Alignment explanation
Indices: 35683875--35683932 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
35683865 ATTCTGATTT
35683875 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
35683894 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
35683906 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
35683925 TGATTCTG
1 TGATTCTG
35683933 ATTCTGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:35683959 original size:37 final size:31
Alignment explanation
Indices: 35683865--35683974 Score: 166
Period size: 31 Copynumber: 3.5 Consensus size: 31
35683855 NNNNNNNNNN
*
35683865 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
35683896 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * *
35683927 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
35683958 ATTTTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
35683975 AGTTCTTATA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:35687329 original size:34 final size:34
Alignment explanation
Indices: 35687246--35687329 Score: 98
Period size: 34 Copynumber: 2.5 Consensus size: 34
35687236 CTTTTGTACA
*
35687246 GATCTGTTATAAGCATATTAATTGCTTACATATT
1 GATCTGTTATAAGCATATTAATTGCTTACATATC
* * * *
35687280 TATTTGTTATTAGCATATTAATTGC-TACCGTATC
1 GATCTGTTATAAGCATATTAATTGCTTA-CATATC
*
35687314 GATCTATTATAAGCAT
1 GATCTGTTATAAGCAT
35687330 GCCATATTGC
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
33 2 0.05
34 38 0.95
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (34 bp):
GATCTGTTATAAGCATATTAATTGCTTACATATC
Found at i:35688079 original size:14 final size:14
Alignment explanation
Indices: 35688062--35688101 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
35688052 GTAAAATTAT
35688062 ATATTTATTATTTG
1 ATATTTATTATTTG
35688076 ATATTTGA-TATTTG
1 ATATTT-ATTATTTG
35688090 ATATTT-TTATTT
1 ATATTTATTATTT
35688102 AGAGACTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.21
14 18 0.75
15 1 0.04
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (14 bp):
ATATTTATTATTTG
Found at i:35688080 original size:7 final size:7
Alignment explanation
Indices: 35688070--35688095 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
35688060 ATATATTTAT
35688070 TATTTGA
1 TATTTGA
35688077 TATTTGA
1 TATTTGA
35688084 TATTTGA
1 TATTTGA
35688091 TATTT
1 TATTT
35688096 TTATTTAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.62
Consensus pattern (7 bp):
TATTTGA
Found at i:35688692 original size:372 final size:372
Alignment explanation
Indices: 35687999--35688741 Score: 1145
Period size: 372 Copynumber: 2.0 Consensus size: 372
35687989 CCATCAGGTT
* *
35687999 AGGATGCATACATGACATTCGAAGGGTCTCAACTTGGATTTATATATATATTTGTAAAATTATAT
1 AGGATGCATACATGACATTCGAAGGGTCTCAACTTGGATTTATATATATATTTATAAAATTATAG
* * * **
35688064 ATTTATTATTTGATATTTGATATTTGATATTTTTATTTAGAGACTGTATTACTTTATCTTTGAAC
66 ATTTATTATTTGATATTT-ATATATGATATTTTTATTCAAAGACTGTATTACTCGATCTTTGAAC
*
35688129 TATGACATGAGACTTAGGTTTTGGGTTTTTATAGCAAGCATGACAGTTAATTTGATTTTACGACA
130 TATGACATGAGACTTAGGTTTTGGGTTTTTATAGCAAGCATGACAGTTAATTTGACTTTACGACA
* **
35688194 TTGAATATATATATCAATTAATTATGCATGAACTTTGAATTTATTAAAATTATAAGTAGATATCA
195 TTGAATATATATATCAATTAATTATGCATGAAATTCAAATTTATTAAAATTATAAGTAGATATCA
*
35688259 CTTTTATGCTACTAGATTATAGATGAATTCTGAATAATAAATAAACGAGAAAATTATCTAAGTTC
260 CTTTTATGCTACTAGATTATAGATGAATTCTGAATAATAAATAAACGAGAAAATTATCTAAGTTA
*
35688324 TTAAAAGTAGTCTCCAATACAAAGAAGATGATAACTTAACCGGTTTTG
325 TTAAAAGTAATCTCCAATACAAAGAAGATGATAACTTAACCGGTTTTG
* *
35688372 AGGATTCATACATGACATTC-AGAGGGTCTCAACTTGGATTTATATATATTTTTATAAAATTATA
1 AGGATGCATACATGACATTCGA-AGGGTCTCAACTTGGATTTATATATATATTTATAAAATTATA
* *
35688436 GATTTATTATTTTATATTT-T-TAT-AT-TTTTTATTCAAAGACTGTGTTACTCGATCTTTGAAC
65 GATTTATTATTTGATATTTATATATGATATTTTTATTCAAAGACTGTATTACTCGATCTTTGAAC
* * * ** *
35688497 TATGACATGGGGCTTAGGTTTTGGGTTTTTATAGCACGCATGGTAGTTAATTTGACTTTACGATA
130 TATGACATGAGACTTAGGTTTTGGGTTTTTATAGCAAGCATGACAGTTAATTTGACTTTACGACA
35688562 TTGAAATATATATATATCAATTAATTATGCATGAAATTCAAATTTTATTAAAATTATAAGTAGAT
195 TTG--A-ATATATATATCAATTAATTATGCATGAAATTCAAA-TTTATTAAAATTATAAGTAGAT
* * * * *
35688627 ATCACTTTTCTGTTGCTAGGTTATAGATGAATTCTGAATAATAAATAAACGGGAAAATTATCTAA
256 ATCACTTTTATGCTACTAGATTATAGATGAATTCTGAATAATAAATAAACGAGAAAATTATCTAA
35688692 GTTATTAAAAGTAATCTCCAATACAAAGAAGATGATAACTTAACCGGTTT
321 GTTATTAAAAGTAATCTCCAATACAAAGAAGATGATAACTTAACCGGTTT
35688742 GGTTTTACTC
Statistics
Matches: 337, Mismatches: 28, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
368 92 0.27
369 2 0.01
370 3 0.01
371 33 0.10
372 131 0.39
373 76 0.23
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.40
Consensus pattern (372 bp):
AGGATGCATACATGACATTCGAAGGGTCTCAACTTGGATTTATATATATATTTATAAAATTATAG
ATTTATTATTTGATATTTATATATGATATTTTTATTCAAAGACTGTATTACTCGATCTTTGAACT
ATGACATGAGACTTAGGTTTTGGGTTTTTATAGCAAGCATGACAGTTAATTTGACTTTACGACAT
TGAATATATATATCAATTAATTATGCATGAAATTCAAATTTATTAAAATTATAAGTAGATATCAC
TTTTATGCTACTAGATTATAGATGAATTCTGAATAATAAATAAACGAGAAAATTATCTAAGTTAT
TAAAAGTAATCTCCAATACAAAGAAGATGATAACTTAACCGGTTTTG
Found at i:35690231 original size:38 final size:38
Alignment explanation
Indices: 35690187--35690285 Score: 117
Period size: 38 Copynumber: 2.6 Consensus size: 38
35690177 GAAATCCTTG
* *
35690187 TTATAATTATTGTAATTATAATTTACAATCGAATATTA
1 TTATAATTATTGTAATTATAATTTACAATCAAACATTA
* * * ***
35690225 TTATAATGATTGTAAGTGTAATTTTTGATCAAACATTA
1 TTATAATTATTGTAATTATAATTTACAATCAAACATTA
*
35690263 TTATAATTATGGTAATTATAATT
1 TTATAATTATTGTAATTATAATT
35690286 ACTACATTCG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.47
Consensus pattern (38 bp):
TTATAATTATTGTAATTATAATTTACAATCAAACATTA
Found at i:35692322 original size:38 final size:38
Alignment explanation
Indices: 35692278--35692376 Score: 117
Period size: 38 Copynumber: 2.6 Consensus size: 38
35692268 GAAATCCTTG
* *
35692278 TTATAATTATTGTAATTATAATTTACAATCGAATATTA
1 TTATAATTATTGTAATTATAATTTACAATCAAACATTA
* * * ***
35692316 TTATAATGATTGTAAGTGTAATTTTTGATCAAACATTA
1 TTATAATTATTGTAATTATAATTTACAATCAAACATTA
*
35692354 TTATAATTATGGTAATTATAATT
1 TTATAATTATTGTAATTATAATT
35692377 ACTACATTCG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.47
Consensus pattern (38 bp):
TTATAATTATTGTAATTATAATTTACAATCAAACATTA
Found at i:35694312 original size:41 final size:41
Alignment explanation
Indices: 35694264--35694358 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 41
35694254 ACTAGTTTGT
* * *
35694264 GGACAAGCCACCAGTAATTGTAGATAAACTTCTAGTATTGC
1 GGACAAGCCACCAGTAATTGCAGATAAACTACCAGTATTGC
* * *
35694305 GGTCAAGCCACTAGTAATTGCAGATAAACTACCAGTATTGT
1 GGACAAGCCACCAGTAATTGCAGATAAACTACCAGTATTGC
35694346 GGACAAGCCACCA
1 GGACAAGCCACCA
35694359 ATGTTGCAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (41 bp):
GGACAAGCCACCAGTAATTGCAGATAAACTACCAGTATTGC
Found at i:35694341 original size:21 final size:21
Alignment explanation
Indices: 35694273--35694341 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 21
35694263 TGGACAAGCC
*
35694273 ACCAGTAATTGTAGATAAACT
1 ACCAGTAATTGCAGATAAACT
* * * * *
35694294 TCTAGT-ATTGC-GGTCAAGCC
1 ACCAGTAATTGCAGAT-AAACT
*
35694314 ACTAGTAATTGCAGATAAACT
1 ACCAGTAATTGCAGATAAACT
35694335 ACCAGTA
1 ACCAGTA
35694342 TTGTGGACAA
Statistics
Matches: 34, Mismatches: 11, Indels: 6
0.67 0.22 0.12
Matches are distributed among these distances:
19 2 0.06
20 12 0.35
21 18 0.53
22 2 0.06
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (21 bp):
ACCAGTAATTGCAGATAAACT
Found at i:35711045 original size:140 final size:140
Alignment explanation
Indices: 35710809--35711072 Score: 456
Period size: 140 Copynumber: 1.9 Consensus size: 140
35710799 GACCGGTGGA
*
35710809 ATATCGGCTAGCATTACCACCTGAATTAGAGAAGATTCATGATGTGTTCCACGTATCTATGTTAC
1 ATATCGGCTAGCATTACCACCTGAATTAGAGAAGATTCATGATGTGTTCCACGTATCTATGCTAC
* ** * *
35710874 GTCGGTATCGTTCGGATCCTTCACATATAATTTCACCAACAGAAATTGAACTACGACCGAAGTTG
66 GCCGGTATCGTTCAAATCCTTCACATATAATTTCAACAACAGAAATTGAACTACAACCGAAGTTG
35710939 GACTGGTAGC
131 GACTGGTAGC
35710949 ATATCGGCTAGCATTACCACCTGAATTAGAGAAGATTCATGATGTGTTCCACGTATCTATGCTAC
1 ATATCGGCTAGCATTACCACCTGAATTAGAGAAGATTCATGATGTGTTCCACGTATCTATGCTAC
* *
35711014 GCCGGTATCGTTTAAATCCTTCACATATAATTTCAACGACAGAAATTGAACTACAACCG
66 GCCGGTATCGTTCAAATCCTTCACATATAATTTCAACAACAGAAATTGAACTACAACCG
35711073 GATATGACTT
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
140 116 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (140 bp):
ATATCGGCTAGCATTACCACCTGAATTAGAGAAGATTCATGATGTGTTCCACGTATCTATGCTAC
GCCGGTATCGTTCAAATCCTTCACATATAATTTCAACAACAGAAATTGAACTACAACCGAAGTTG
GACTGGTAGC
Found at i:35717006 original size:36 final size:36
Alignment explanation
Indices: 35716959--35717030 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
35716949 TTTACTGCTT
35716959 CCCTAGGGGTTTTAATTAAGAAAGAAATTCTGATTA
1 CCCTAGGGGTTTTAATTAAGAAAGAAATTCTGATTA
*
35716995 CCCTAGGGGTTTTAATTAAGAAAGAAATTTTGATTA
1 CCCTAGGGGTTTTAATTAAGAAAGAAATTCTGATTA
35717031 ATTCAACTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (36 bp):
CCCTAGGGGTTTTAATTAAGAAAGAAATTCTGATTA
Found at i:35717253 original size:13 final size:13
Alignment explanation
Indices: 35717235--35717263 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
35717225 TTTAGTTTAA
35717235 TTAGTTAATTAGT
1 TTAGTTAATTAGT
35717248 TTAGTTAATTAGT
1 TTAGTTAATTAGT
35717261 TTA
1 TTA
35717264 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:35721338 original size:15 final size:15
Alignment explanation
Indices: 35721307--35721335 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
35721297 AACTAAAGCG
35721307 AACATAGACCAAATT
1 AACATAGACCAAATT
35721322 AACATA-ACCAAATT
1 AACATAGACCAAATT
35721336 TAAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.21, G:0.03, T:0.21
Consensus pattern (15 bp):
AACATAGACCAAATT
Found at i:35726175 original size:27 final size:27
Alignment explanation
Indices: 35726145--35726228 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
35726135 CCAAAGTACT
* * *
35726145 CTCGATTTATAGAATTATCGTTTTACC
1 CTCGATTTAAAAAATTATCATTTTACC
*
35726172 CTCGATTTAAAAAATTACCATTTTACC
1 CTCGATTTAAAAAATTATCATTTTACC
*
35726199 CTC-AGTTTACAAAATTATCATTTTACC
1 CTCGA-TTTAAAAAATTATCATTTTACC
35726226 CTC
1 CTC
35726229 AATTGTGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
26 1 0.02
27 49 0.98
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (27 bp):
CTCGATTTAAAAAATTATCATTTTACC
Found at i:35726302 original size:27 final size:27
Alignment explanation
Indices: 35726290--35726350 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
35726280 CTAGTTTGAG
*
35726290 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCAATTTGTA
**
35726317 AAATTACCAAAATACCC-CTAATTTACA
1 AAATTACCAAAATACCCTC-AATTTGTA
35726344 AAATTAC
1 AAATTAC
35726351 AGAAATTCCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCAATTTGTA
Found at i:35726356 original size:27 final size:27
Alignment explanation
Indices: 35726290--35726361 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
35726280 CTAGTTTGAG
* **
35726290 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACAGAAATACCCTCAATTTACA
35726317 AAATTACCA-AAATACCC-CTAATTTACA
1 AAATTA-CAGAAATACCCTC-AATTTACA
*
35726344 AAATTACAGAAATTCCCT
1 AAATTACAGAAATACCCT
35726362 TAACTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
26 3 0.08
27 33 0.89
28 1 0.03
ACGTcount: A:0.44, C:0.24, G:0.04, T:0.28
Consensus pattern (27 bp):
AAATTACAGAAATACCCTCAATTTACA
Found at i:35726507 original size:27 final size:27
Alignment explanation
Indices: 35726464--35726537 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
35726454 AAATGACTAA
*
35726464 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
35726491 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
35726518 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
35726538 TGATGAATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:35727093 original size:27 final size:27
Alignment explanation
Indices: 35727063--35727143 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
35727053 GGTTAAAAAT
35727063 TACTGAAATACCCTTGTAGGGTAGAAA
1 TACTGAAATACCCTTGTAGGGTAGAAA
* *
35727090 TACTGAAATACCCCTGTAGGGTAGAAC
1 TACTGAAATACCCTTGTAGGGTAGAAA
* * * *
35727117 TACCGAGATACCCTCGTGGGGTA-AAA
1 TACTGAAATACCCTTGTAGGGTAGAAA
35727143 T
1 T
35727144 TACCATTTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
26 3 0.07
27 43 0.93
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (27 bp):
TACTGAAATACCCTTGTAGGGTAGAAA
Found at i:35727594 original size:42 final size:42
Alignment explanation
Indices: 35727535--35727626 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
35727525 TAGTCTCCCC
* ** *
35727535 AAATGGGCTTGCATACATTCATTGGTATCGCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATCACATGTGATATTG
*
35727577 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATCACATGTGATATTG
35727619 AAATGGGC
1 AAATGGGC
35727627 CGAAGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATCACATGTGATATTG
Found at i:35732212 original size:49 final size:48
Alignment explanation
Indices: 35732052--35732219 Score: 186
Period size: 49 Copynumber: 3.5 Consensus size: 48
35732042 ATGAATTGTC
*
35732052 GATGCCATGTCCTAGACATGGTCTTATACTGGCTCTCATATATGCGTGCT
1 GATGCCATGTCCCAGACAT-GTCTTATACTGGCTCT-ATATATGCGTGCT
* * * * *
35732102 GATG-CATGTCCCAGACATGTCTTACACTAGCAC-A-A-CT-CTTGGCT
1 GATGCCATGTCCCAGACATGTCTTATACTGGCTCTATATATGCGT-GCT
*
35732146 GATGCCATGTCCGAGACATGGTCTTATACTGGCTCTGATATATGCGTGCT
1 GATGCCATGTCCCAGACAT-GTCTTATACTGGCTCT-ATATATGCGTGCT
35732196 GATG-CATGTCCCAGACATGTCTTA
1 GATGCCATGTCCCAGACATGTCTTA
35732220 CACTAGCACA
Statistics
Matches: 97, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
43 2 0.02
44 8 0.08
45 14 0.14
46 13 0.13
48 19 0.20
49 27 0.28
50 12 0.12
51 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGTCTTATACTGGCTCTATATATGCGTGCT
Found at i:35732213 original size:94 final size:94
Alignment explanation
Indices: 35732051--35732271 Score: 356
Period size: 94 Copynumber: 2.4 Consensus size: 94
35732041 AATGAATTGT
*
35732051 CGATGCCATGTCCTAGACATGGTCTTATACTGGCTCTCATATATGCGTGCTGATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATATATGCGTGCTGATGCATGTCCCAG
35732116 ACATGTCTTACACTAGCACAACTCTTGGC
66 ACATGTCTTACACTAGCACAACTCTTGGC
* * *
35732145 TGATGCCATGTCCGAGACATGGTCTTATACTGGCTCTGATATATGCGTGCTGATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATATATGCGTGCTGATGCATGTCCCAG
*
35732210 ACATGTCTTACACTAGCACAATTCTTGGC
66 ACATGTCTTACACTAGCACAACTCTTGGC
* * *
35732239 CGATG-CGTGTCCCAAACAT-GTCTTACACTGGCT
1 CGATGCCATGTCCCAGACATGGTCTTATACTGGCT
35732272 ATCTCTGTCG
Statistics
Matches: 118, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 13 0.11
93 11 0.09
94 94 0.80
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATATATGCGTGCTGATGCATGTCCCAG
ACATGTCTTACACTAGCACAACTCTTGGC
Found at i:35736316 original size:21 final size:22
Alignment explanation
Indices: 35736280--35736321 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
35736270 CCTAACATTT
35736280 CATTATTTCACACATTTTACAA
1 CATTATTTCACACATTTTACAA
*
35736302 CATTATTT-TCACATTTTACA
1 CATTATTTCACACATTTTACA
35736322 TGTAACACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.45
Consensus pattern (22 bp):
CATTATTTCACACATTTTACAA
Found at i:35737806 original size:40 final size:40
Alignment explanation
Indices: 35737706--35737970 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
35737696 GCTCCTCGTT
* * * *
35737706 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
35737746 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
35737785 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
35737825 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
35737865 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
35737905 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
35737946 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
35737971 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:35737930 original size:80 final size:80
Alignment explanation
Indices: 35737673--35737970 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
35737663 AAATCACGTA
* ** * * *
35737673 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
35737735 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
35737751 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
35737814 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
35737831 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
35737895 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
35737911 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
35737971 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:35737979 original size:41 final size:41
Alignment explanation
Indices: 35737902--35737979 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
35737892 TTTGTATCTC
* * *
35737902 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35737943 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
35737980 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35745694 original size:39 final size:40
Alignment explanation
Indices: 35745649--35745873 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
35745639 GCTCCTCGTT
* * * *
35745649 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
35745689 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
35745728 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
35745768 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
35745808 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
35745849 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
35745874 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
39 39 0.25
40 105 0.66
41 15 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:35745882 original size:41 final size:41
Alignment explanation
Indices: 35745805--35745882 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
35745795 TTTGTATCTC
* * *
35745805 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35745846 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
35745883 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35766423 original size:40 final size:40
Alignment explanation
Indices: 35766361--35766578 Score: 323
Period size: 40 Copynumber: 5.5 Consensus size: 40
35766351 AAGCCAAGTA
* * * *
35766361 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
35766400 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35766440 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35766480 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * **
35766520 CCTTCGGGACTTAGCCCGGATATAGTCACTAGTGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35766560 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
35766579 TTATCATCCA
Statistics
Matches: 166, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 12 0.07
40 154 0.93
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:35772371 original size:101 final size:101
Alignment explanation
Indices: 35772196--35772397 Score: 361
Period size: 101 Copynumber: 2.0 Consensus size: 101
35772186 AAGCACCACA
*
35772196 AATTCTCGGATTTCTAAAATGCCAACATACAGCTTTATATCATTGTTCAGTCCATCTTCGAAACG
1 AATTCTCGGATTTCTAAAATGCCAACATACAACTTTATATCATTGTTCAGTCCATCTTCGAAACG
35772261 TTTACACATCACAGCTTCTGAAGAAATGCATTCTCG
66 TTTACACATCACAGCTTCTGAAGAAATGCATTCTCG
*
35772297 AATTCTCGGATTTCTAAAATGCCAATATACAACTTTATATCA-TGATTCAGTCCATCTTCGAAAC
1 AATTCTCGGATTTCTAAAATGCCAACATACAACTTTATATCATTG-TTCAGTCCATCTTCGAAAC
*
35772361 GTTTACACATCACAGCTTCTGAAGAAATGTATTCTCG
65 GTTTACACATCACAGCTTCTGAAGAAATGCATTCTCG
35772398 CGCGTACCGG
Statistics
Matches: 97, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
100 2 0.02
101 95 0.98
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (101 bp):
AATTCTCGGATTTCTAAAATGCCAACATACAACTTTATATCATTGTTCAGTCCATCTTCGAAACG
TTTACACATCACAGCTTCTGAAGAAATGCATTCTCG
Found at i:35774258 original size:40 final size:40
Alignment explanation
Indices: 35774196--35774373 Score: 220
Period size: 40 Copynumber: 4.5 Consensus size: 40
35774186 AGGCCAAGTA
* * *
35774196 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATG
* * *
35774235 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
*
35774275 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* *
35774315 CCTTCGGGACTTAGCCCGGA-ACTAGTCACT-AGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CACAAATG
35774355 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
35774374 TTATCATCCA
Statistics
Matches: 124, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 13 0.10
40 111 0.90
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:35782324 original size:27 final size:27
Alignment explanation
Indices: 35782055--35782350 Score: 249
Period size: 27 Copynumber: 11.0 Consensus size: 27
35782045 ATACCCCCAG
* * **
35782055 TTTGTAAAATTATCGAAGTACCC-CCA
1 TTTGTAAAATTACCGAAATACCCTTGA
* * *
35782081 GTTTGTAAAATTACCGGAGTACCCCT-A
1 -TTTGTAAAATTACCGAAATACCCTTGA
* * **
35782108 GTTTGTAAAATTACCAAAATATCCTCAA
1 -TTTGTAAAATTACCGAAATACCCTTGA
* * * **
35782136 TTTTTAAAATTACCAAAACACCCTCAA
1 TTTGTAAAATTACCGAAATACCCTTGA
* *
35782163 TTTGTAAAATTATCGAAATACCCTCGA
1 TTTGTAAAATTACCGAAATACCCTTGA
35782190 TTTGTAAAATTACCGAAATACCCTTGA
1 TTTGTAAAATTACCGAAATACCCTTGA
* *
35782217 CTTGTAAAATTACCGAAATACCCTCGA
1 TTTGTAAAATTACCGAAATACCCTTGA
* * **
35782244 TTTGTAAAATTACTGAAACACCCCCGA
1 TTTGTAAAATTACCGAAATACCCTTGA
**
35782271 TTTGTAAAATTATTGAAATACCCTTG-
1 TTTGTAAAATTACCGAAATACCCTTGA
* *
35782297 TAGTGTAAAATTACCGAAATACCATTG-
1 T-TTGTAAAATTACCGAAATACCCTTGA
* * *
35782324 TAGTGTAAAATGACCGACATACCCTTG
1 T-TTGTAAAATTACCGAAATACCCTTG
35782351 TAGGGTAAAA
Statistics
Matches: 230, Mismatches: 36, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.00
27 228 0.99
28 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (27 bp):
TTTGTAAAATTACCGAAATACCCTTGA
Found at i:35784342 original size:132 final size:132
Alignment explanation
Indices: 35784103--35784373 Score: 447
Period size: 132 Copynumber: 2.1 Consensus size: 132
35784093 TAGCATAACC
*
35784103 TCAACAATTCCAACTCTAGTGTCATATTATACTTACTCGTGCATTATGTTCTAGTTCTTTTACAT
1 TCAACAATTCCAACTCTAGTGTCATATTATACTTACTCGTGCATTATGTTCTAGTTCATTTACAT
*
35784168 GGTAAACATATTGACTTTTAAGCATATATAACAAAACACATGTAATTACATAATGTTC-ATGCAT
66 GGTAAACATATTGACTTTTAAGCATATATAACAAAACACATGTAATTACATAACG-TCAATGCAT
35784232 ACA
130 ACA
* *
35784235 TCAACAGTTCCAACTCTAGTGTCATATTATACTTACTCGTGCATTATTTTCTAGTTCATTTACAT
1 TCAACAATTCCAACTCTAGTGTCATATTATACTTACTCGTGCATTATGTTCTAGTTCATTTACAT
* * *
35784300 TGTAAATATATTGACTTTTAAGCATATATAACAAAACTCATGTAATTACATAACGTCAATGCATA
66 GGTAAACATATTGACTTTTAAGCATATATAACAAAACACATGTAATTACATAACGTCAATGCATA
*
35784365 TA
131 CA
35784367 TC-ACAAT
1 TCAACAAT
35784374 ACTCAAAAAC
Statistics
Matches: 129, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
131 6 0.05
132 123 0.95
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (132 bp):
TCAACAATTCCAACTCTAGTGTCATATTATACTTACTCGTGCATTATGTTCTAGTTCATTTACAT
GGTAAACATATTGACTTTTAAGCATATATAACAAAACACATGTAATTACATAACGTCAATGCATA
CA
Found at i:35786109 original size:25 final size:25
Alignment explanation
Indices: 35786031--35786109 Score: 115
Period size: 25 Copynumber: 3.2 Consensus size: 25
35786021 TCATTAGGGT
35786031 TACCTATTTATAGCTCGTAAGAGCA
1 TACCTATTTATAGCTCGTAAGAGCA
*
35786056 TA-CTGATTTATAGCTCGTAAAAGCA
1 TACCT-ATTTATAGCTCGTAAGAGCA
**
35786081 TACCTATTTATAGCTCGCGAGAGCA
1 TACCTATTTATAGCTCGTAAGAGCA
35786106 TACC
1 TACC
35786110 GATCTTCATC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
24 2 0.04
25 44 0.92
26 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (25 bp):
TACCTATTTATAGCTCGTAAGAGCA
Found at i:35786144 original size:25 final size:25
Alignment explanation
Indices: 35786101--35786158 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
35786091 TAGCTCGCGA
*
35786101 GAGCATACCGATCTTCATCTCGA-AT
1 GAGCATACCGATCTACATCTC-ATAT
35786126 GAGCATACCGAT-TCACATCTCATAT
1 GAGCATACCGATCT-ACATCTCATAT
35786151 GAGCATAC
1 GAGCATAC
35786159 ATGTACACAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 2 0.07
25 28 0.93
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (25 bp):
GAGCATACCGATCTACATCTCATAT
Found at i:35787849 original size:52 final size:49
Alignment explanation
Indices: 35787738--35787913 Score: 198
Period size: 52 Copynumber: 3.5 Consensus size: 49
35787728 ACTAGTGACT
*
35787738 CAAGTGTGGTACTATGTGAAGGCCACTTTG--AGAAGT-GATATTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAGAAGTAGCT-TTGGTCA
* *
35787785 GAAGTGTGGTACTATGTGGAGGCCACTTTGTAAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGT-AAG-AAG-TAGCTTTGGTCA
* *
35787837 CATGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTGAAT-A
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGT-AAGAA-GTAGCTTTG-GTCA
* *
35787888 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
35787914 CAGGTATCAG
Statistics
Matches: 110, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
47 28 0.25
50 2 0.02
51 37 0.34
52 41 0.37
53 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (49 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAGAAGTAGCTTTGGTCA
Found at i:35793447 original size:12 final size:12
Alignment explanation
Indices: 35793430--35793462 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
35793420 TTAGGCAGTT
35793430 ACACGGCCTAGC
1 ACACGGCCTAGC
35793442 ACACGGCCTAGC
1 ACACGGCCTAGC
35793454 ACACGGCCT
1 ACACGGCCT
35793463 GTAACACGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.42, G:0.24, T:0.09
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:35803741 original size:34 final size:34
Alignment explanation
Indices: 35803670--35803746 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
35803660 ATATGTCTAA
* * *
35803670 TTGAACGTTGTGCAAATGATGAGTTATCTCATGG
1 TTGAATGTTGTGCAAATAATGAGTTATCTCATAG
35803704 TTGAATGTTGTGCAAATAATGAGTTAT-T-ATACAG
1 TTGAATGTTGTGCAAATAATGAGTTATCTCAT--AG
35803738 TTGAATGTT
1 TTGAATGTT
35803747 CATGTATTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 2 0.05
33 1 0.03
34 35 0.92
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (34 bp):
TTGAATGTTGTGCAAATAATGAGTTATCTCATAG
Found at i:35808074 original size:12 final size:14
Alignment explanation
Indices: 35808059--35808090 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
35808049 GTGAGAACAC
35808059 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
35808071 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
35808085 ATGTGT
1 ATGTGT
35808091 TTAAAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:35808185 original size:50 final size:51
Alignment explanation
Indices: 35808056--35808275 Score: 199
Period size: 51 Copynumber: 4.3 Consensus size: 51
35808046 GTTGTGAGAA
* * *** * *
35808056 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAAATGGTCTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG-CTTAGGT
* * *
35808108 CACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGAT-GGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTAGGT
* * * ** * * *
35808158 CGCATGTGTAGTACAAAGTACAGGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTAGGT
* * ** *
35808209 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTAGGT
* *
35808260 CACAAGTGTGGTACTA
1 CACATGTGTAGTACTA
35808276 TGTGAAGGAA
Statistics
Matches: 134, Mismatches: 33, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
50 40 0.30
51 60 0.45
52 34 0.25
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTAGGT
Found at i:35808233 original size:51 final size:50
Alignment explanation
Indices: 35808056--35808240 Score: 145
Period size: 50 Copynumber: 3.6 Consensus size: 50
35808046 GTTGTGAGAA
* * ** *** * *
35808056 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAAATGGTCTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGAT-G-CTTAGAT
* * ** * *
35808108 CACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATGCTTAGAT
* * * * *
35808158 CGCATGTGTAGTACAAAGTACAGGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGAT-GCTTAGAT
* *
35808209 CACATGTGTGGTACTAAGTGCAGGCCACTATG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG
35808241 TGTAAAAGAT
Statistics
Matches: 107, Mismatches: 25, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
50 40 0.37
51 33 0.31
52 34 0.32
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATGCTTAGAT
Found at i:35808305 original size:51 final size:51
Alignment explanation
Indices: 35808197--35808330 Score: 137
Period size: 51 Copynumber: 2.6 Consensus size: 51
35808187 ATGCATACCC
* * * * * **
35808197 GATAGCTTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAA
1 GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGAAACTATGTGTAAAA
*
35808248 GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGAAACTTTGTG-AAGAA
1 GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGAAACTATGTGTAA-AA
* * *
35808299 GGTAGCTTT-GACTACAAGGGTGGTACTATGTG
1 GATAGCTTTGGTC-ACAAGTGTGGTACTATGTG
35808331 CAGGCCACCG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
50 4 0.06
51 66 0.94
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.29
Consensus pattern (51 bp):
GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGAAACTATGTGTAAAA
Found at i:35814208 original size:38 final size:38
Alignment explanation
Indices: 35814152--35814311 Score: 261
Period size: 38 Copynumber: 4.3 Consensus size: 38
35814142 AGGCCTGGAT
*
35814152 ATAT-TTCCAGCACATAGCCTGCGGACCTCAAGTCCGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
* *
35814189 ATATGTTCCAGCATGTAGCCTGCGGACCTCAAGTCTGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
**
35814227 ATATGTTCCAGCAC-TAGCCTATGGACCTCAAGTCCGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
35814264 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
35814302 ATATGTTCCA
1 ATATGTTCCA
35814312 AATACCATGC
Statistics
Matches: 112, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
37 38 0.34
38 74 0.66
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.24
Consensus pattern (38 bp):
ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
Found at i:35814253 original size:75 final size:76
Alignment explanation
Indices: 35814146--35814311 Score: 271
Period size: 75 Copynumber: 2.2 Consensus size: 76
35814136 GACTTTAGGC
* * *
35814146 CTGGATATATTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATGTTCCAGCATGTAGCCTG
1 CTGGATAT-GTTCCAGCACATAGCCTACGGACCTCAAGTCCGGATATGTTCCAGCACGTAGCCTG
35814211 CGGACCTCAAGT
65 CGGACCTCAAGT
*
35814223 CTGGATATGTTCCAGCAC-TAGCCTATGGACCTCAAGTCCGGATATGTTCCAGCACGTAGCCTGC
1 CTGGATATGTTCCAGCACATAGCCTACGGACCTCAAGTCCGGATATGTTCCAGCACGTAGCCTGC
35814287 GGACCTCAAGT
66 GGACCTCAAGT
*
35814298 CCGGATATGTTCCA
1 CTGGATATGTTCCA
35814312 AATACCATGC
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
75 67 0.80
76 9 0.11
77 8 0.10
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (76 bp):
CTGGATATGTTCCAGCACATAGCCTACGGACCTCAAGTCCGGATATGTTCCAGCACGTAGCCTGC
GGACCTCAAGT
Found at i:35817569 original size:51 final size:51
Alignment explanation
Indices: 35817373--35817592 Score: 183
Period size: 51 Copynumber: 4.3 Consensus size: 51
35817363 GTTGTGAGAA
* * * * *
35817373 CACATGTGTAGTACTATGTGCAAGCTACTATGTGTGTAAA-ATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGT-AAAAGATAG-CTTAGGT
* * * ** * *
35817425 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAG-TTGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTAGGT
* * ** *** * *
35817475 CGCATGTGTAGTACAAAGTGCAGGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTAGGT
* *
35817526 CACATGTGTGGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTAGGT
* *
35817577 CACAAGTGTGGTACTA
1 CACATGTGTAGTACTA
35817593 TATGAAGGAC
Statistics
Matches: 133, Mismatches: 33, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
50 38 0.29
51 65 0.49
52 30 0.23
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTAGGT
Found at i:35830018 original size:79 final size:80
Alignment explanation
Indices: 35829909--35830091 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
35829899 TACTCGTTCA
* * *
35829909 AATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
1 AATGCCTTC-GGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCAG
* *
35829972 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
** *
35829989 AATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCAGAT
*
35830053 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
35830068 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
35830092 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 61 0.69
80 25 0.28
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCAGAT
ATAGTAACTTAGCAC
Found at i:35830091 original size:40 final size:40
Alignment explanation
Indices: 35829907--35830091 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
35829897 ACTACTCGTT
* * *
35829907 CAAATGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
35829947 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
35829987 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * *
35830026 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
35830067 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35830092 CATCATTCGA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 79 0.64
41 12 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:35855107 original size:79 final size:81
Alignment explanation
Indices: 35854964--35855146 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
35854954 TACTCGTTCA
* * *
35854964 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
1 AATGCCTTCGAGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
* * *
35855028 TTTAGTGAC-TCGCACC
66 TATAGTCACTTAGCA-C
*
35855044 AATGCCTTCGAG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTT-AGTCCG
1 AATGCCTTCGAGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACT-CG
35855105 GATATAGTCACTTAGCAC
64 GATATAGTCACTTAGCAC
*
35855123 AAAGCCTTC-AGGACTTAGCCCGGA
1 AATGCCTTCGA-GACTTAGCCCGGA
35855147 CATCATTCGA
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
78 6 0.07
79 56 0.63
80 27 0.30
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGAGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
TATAGTCACTTAGCAC
Found at i:35855146 original size:40 final size:39
Alignment explanation
Indices: 35854962--35855146 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 39
35854952 TCTACTCGTT
* *
35854962 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATAGTAACTCGCA
* * * *
35855002 CAAATGCCTTCGGGACTTAACTCGGATTTAGTGACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATAGTAACTCGCA
*
35855042 CCAATGCCTTC-GAGCTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATA-TAGTAACTCGCA
* * *
35855081 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATAGTAAC-TCGCA
35855122 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
35855147 CATCATTCGA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 78 0.64
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:35857781 original size:21 final size:22
Alignment explanation
Indices: 35857751--35857791 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
35857741 GCTCCGAATA
35857751 AATTGAAAGAATTGA-AAGCTC
1 AATTGAAAGAATTGATAAGCTC
* *
35857772 AATTGCAAGAGTTGATAAGC
1 AATTGAAAGAATTGATAAGC
35857792 AAGGGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (22 bp):
AATTGAAAGAATTGATAAGCTC
Found at i:35860654 original size:24 final size:24
Alignment explanation
Indices: 35860627--35860673 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
35860617 TTTGAAAATT
35860627 TCGCTCAAAAATTTTGTCTTTTAA
1 TCGCTCAAAAATTTTGTCTTTTAA
35860651 TCGCTCAAAAATTTTGTCTTTTA
1 TCGCTCAAAAATTTTGTCTTTTA
35860674 GGCACTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (24 bp):
TCGCTCAAAAATTTTGTCTTTTAA
Found at i:35860681 original size:24 final size:24
Alignment explanation
Indices: 35860630--35860683 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
35860620 GAAAATTTCG
* *
35860630 CTCAAAAATTTTGTCTTTTAATCG
1 CTCAAAAATTTTGTCTTTTAAGCA
*
35860654 CTCAAAAATTTTGTCTTTTAGGCA
1 CTCAAAAATTTTGTCTTTTAAGCA
35860678 CTCAAA
1 CTCAAA
35860684 TTAGAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (24 bp):
CTCAAAAATTTTGTCTTTTAAGCA
Found at i:35861415 original size:30 final size:30
Alignment explanation
Indices: 35861377--35861440 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
35861367 TCAAAAATGT
35861377 AATT-TTGTCATAATATGATTTTTGGACTG
1 AATTATTGTCATAATATGATTTTTGGACTG
*
35861406 AATTATTGTCATAATATGATTTTTGGACTT
1 AATTATTGTCATAATATGATTTTTGGACTG
35861436 AATTA
1 AATTA
35861441 AACAATGTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.12
30 29 0.88
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.48
Consensus pattern (30 bp):
AATTATTGTCATAATATGATTTTTGGACTG
Found at i:35867021 original size:21 final size:22
Alignment explanation
Indices: 35866995--35867039 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
35866985 CTTCTCAAGG
* *
35866995 TTTGGATCGA-AGGCTTGGATC
1 TTTGGAGCGACAGACTTGGATC
35867016 TTTGGAGCGATCAGACTTGGATC
1 TTTGGAGCGA-CAGACTTGGATC
35867039 T
1 T
35867040 AGCCATCGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
23 11 0.55
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (22 bp):
TTTGGAGCGACAGACTTGGATC
Found at i:35867556 original size:28 final size:28
Alignment explanation
Indices: 35867524--35867588 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
35867514 ATTTACTAGA
*
35867524 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
35867552 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
35867580 ATACCCCTA
1 ATACCCCTA
35867589 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:35867736 original size:28 final size:29
Alignment explanation
Indices: 35867694--35867756 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
35867684 AGGAAGCGTC
*
35867694 CTGGTGGCTACGCCACAAATTATCTGT-T
1 CTGGTGGCTACGCCACAAAATATCTGTAT
35867722 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTAC-GCCACAAAATATCTGTAT
35867751 CTGGTG
1 CTGGTG
35867757 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 2 0.06
28 23 0.72
29 7 0.22
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (29 bp):
CTGGTGGCTACGCCACAAAATATCTGTAT
Found at i:35867767 original size:29 final size:28
Alignment explanation
Indices: 35867705--35867767 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
35867695 TGGTGGCTAC
* *
35867705 GCCACAAATTATCTGTTCTGGTGGCACT
1 GCCACAAAATATCTGTTCTGGTGACACT
*
35867733 GCCACAAAATATCTGTATCTGGTGACTCT
1 GCCACAAAATATCTGT-TCTGGTGACACT
*
35867762 GTCACA
1 GCCACA
35867768 TTTTCTGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (28 bp):
GCCACAAAATATCTGTTCTGGTGACACT
Found at i:35868245 original size:19 final size:19
Alignment explanation
Indices: 35868221--35868259 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
35868211 TTTTAATTAT
* *
35868221 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
35868240 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
35868259 T
1 T
35868260 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:35875377 original size:28 final size:28
Alignment explanation
Indices: 35875345--35875409 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
35875335 ATTTACTAGA
*
35875345 ATACCCCTATGTATGAAAAATTACCATT
1 ATACCCCTATGTATGAAAAATGACCATT
** *
35875373 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGAAAAATGACCATT
35875401 ATACCCCTA
1 ATACCCCTA
35875410 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGAAAAATGACCATT
Found at i:35875556 original size:28 final size:29
Alignment explanation
Indices: 35875515--35875577 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
35875505 AGGAAGCGTC
* *
35875515 CTGGTGGCTATGCCCCAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
35875543 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
35875572 CTGGTG
1 CTGGTG
35875578 ACTCTGTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.03
28 23 0.74
29 7 0.23
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:35875588 original size:29 final size:28
Alignment explanation
Indices: 35875525--35875588 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
35875515 CTGGTGGCTA
* * *
35875525 TGCCCCAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
35875553 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
35875582 TGTCACA
1 TGCCACA
35875589 TTTTCTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:35876066 original size:19 final size:19
Alignment explanation
Indices: 35876042--35876080 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
35876032 TTTTAATTAT
* *
35876042 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
35876061 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
35876080 T
1 T
35876081 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:35878752 original size:13 final size:13
Alignment explanation
Indices: 35878736--35878851 Score: 76
Period size: 13 Copynumber: 8.7 Consensus size: 13
35878726 AAATTTATAA
35878736 ATGAAATGGTTAT
1 ATGAAATGGTTAT
*
35878749 ATG-AATCAGTTAT
1 ATGAAAT-GGTTAT
**
35878762 ATGGAAA-CATATAT
1 AT-GAAATGGT-TAT
35878776 ATGAAATGGTTAT
1 ATGAAATGGTTAT
*
35878789 ATG-ATTCGGTTAT
1 ATGAAAT-GGTTAT
* * *
35878802 ATGGAAATTGATAA
1 AT-GAAATGGTTAT
35878816 ATGAAATGGTTAT
1 ATGAAATGGTTAT
* *
35878829 ATGAAAATAGATAT
1 ATG-AAATGGTTAT
35878843 ATGAAATGG
1 ATGAAATGG
35878852 AACATTGGGC
Statistics
Matches: 78, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
12 5 0.06
13 45 0.58
14 24 0.31
15 4 0.05
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:35878848 original size:27 final size:27
Alignment explanation
Indices: 35878796--35878851 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
35878786 TATATGATTC
* *
35878796 GGTTATATGGAAATTGATAAATGAAAT
1 GGTTATATGAAAATAGATAAATGAAAT
*
35878823 GGTTATATGAAAATAGATATATGAAAT
1 GGTTATATGAAAATAGATAAATGAAAT
35878850 GG
1 GG
35878852 AACATTGGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (27 bp):
GGTTATATGAAAATAGATAAATGAAAT
Found at i:35878849 original size:40 final size:39
Alignment explanation
Indices: 35878730--35878833 Score: 154
Period size: 40 Copynumber: 2.6 Consensus size: 39
35878720 GGTGAAAAAT
35878730 TTATAAATGAAATGGTTATATGAATCAGTTATATGGAAA
1 TTATAAATGAAATGGTTATATGAATCAGTTATATGGAAA
* * * *
35878769 CATATATATGAAATGGTTATATGATTCGGTTATATGGAAA
1 -TTATAAATGAAATGGTTATATGAATCAGTTATATGGAAA
35878809 TTGATAAATGAAATGGTTATATGAA
1 TT-ATAAATGAAATGGTTATATGAA
35878834 AATAGATATA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.02
40 55 0.98
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.37
Consensus pattern (39 bp):
TTATAAATGAAATGGTTATATGAATCAGTTATATGGAAA
Found at i:35880977 original size:43 final size:45
Alignment explanation
Indices: 35880915--35881005 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 45
35880905 TGATGCTCAG
*
35880915 CTTTCACTTGCTGGCATGTCAGACATT-TCCTACAAACTCCGGTA
1 CTTTCACTTGCTGGCATGTCAGACATTCCCCTACAAACTCCGGTA
* *
35880959 CTTTC-CTTGCTGGCATGTCAGACCTTCCCCTACAAACTCCGTTA
1 CTTTCACTTGCTGGCATGTCAGACATTCCCCTACAAACTCCGGTA
35881003 CTT
1 CTT
35881006 CTCGTTTAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 20 0.47
44 23 0.53
ACGTcount: A:0.20, C:0.33, G:0.14, T:0.33
Consensus pattern (45 bp):
CTTTCACTTGCTGGCATGTCAGACATTCCCCTACAAACTCCGGTA
Found at i:35884786 original size:27 final size:27
Alignment explanation
Indices: 35884738--35884896 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
35884728 GCGAGGCTGC
* *
35884738 CAGATATTGTGACGA-AGTCACCAGATA
1 CAGATATTGTGGC-ATAGCCACCAGATA
35884765 CAGATATTGTGGCATAGCCACCAGA-A
1 CAGATATTGTGGCATAGCCACCAGATA
*
35884791 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCATAGCCACCAGATA
*
35884818 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCATAGCCACCAGATA
* *
35884845 CAGATATATGTGGCAGAGCCACCAAAT-
1 CAGATAT-TGTGGCATAGCCACCAGATA
35884872 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCATAGCCACCAG
35884897 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
26 11 0.10
27 99 0.87
28 4 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCATAGCCACCAGATA
Found at i:35884897 original size:54 final size:54
Alignment explanation
Indices: 35884756--35884899 Score: 254
Period size: 54 Copynumber: 2.7 Consensus size: 54
35884746 GTGACGAAGT
*
35884756 CACCAGATACAGAT-ATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
35884810 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
35884864 CACCAAATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
35884900 GCTTCCTCCA
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
53 5 0.06
54 82 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:35886524 original size:26 final size:26
Alignment explanation
Indices: 35886493--35886600 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
35886483 TGAAATGCCC
*
35886493 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
35886519 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
35886545 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
35886571 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
35886597 ATCA
1 ATCA
35886601 ATTTGTAGCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:35892298 original size:131 final size:131
Alignment explanation
Indices: 35892068--35892492 Score: 520
Period size: 131 Copynumber: 3.3 Consensus size: 131
35892058 CCCAGCATAG
* * * * * * * *
35892068 TAGGGCACGACTCCTCGAATTTCTAGATATCAAACATTA-CCTTATTTT-AA-AA--TTTAGAGA
1 TAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTACCCTCATTTTAAAGAATTTTTAGAAA
* * * * *
35892128 ATATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACAGGAGATCGCAACCCAGCAC
66 ACATGAGTGAAATTCTAAAGGGATATTCAATTATTTTGAACAAAC-GGAAATTGCAACCCAGCAC
35892193 GA
130 GA
* * * *
35892195 TAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCATTTTGAAGAATTTTT-GAAG
1 TAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTACCCTCATTTTAAAGAATTTTTAGAAA
*
35892259 GCATGAGTGAAATTCTAAAGGGATATTCAATTATTTTGAACAAACGGGAAATTGCAACCCAGCAC
66 ACATGAGTGAAATTCTAAAGGGATATTCAATTATTTTGAACAAAC-GGAAATTGCAACCCAGCAC
*
35892324 AA
130 GA
* * * * * *
35892326 TAGGGCACGACTCTTCGGATTGCCAAACATCGAACATTTCCCTCGTTTTAAAGAGTTTTTAGAAA
1 TAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTACCCTCATTTTAAAGAATTTTTAGAAA
* * *
35892391 ACATGAGTGAAATTCTAAAAGGACATTCAATTATTTTGAGCAAACGAGAAATTGCAACCCAGCAC
66 ACATGAGTGAAATTCTAAAGGGATATTCAATTATTTTGAACAAACG-GAAATTGCAACCCAGCAC
35892456 GA
130 GA
*
35892458 TAGGGCACGATTCCTCGAATTGCCAAATATCGAAC
1 TAGGGCACGATTCCTCGAATTGCCAAACATCGAAC
35892493 TTCGCCTTTG
Statistics
Matches: 253, Mismatches: 38, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
127 32 0.13
128 7 0.03
129 2 0.01
130 2 0.01
131 113 0.45
132 97 0.38
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (131 bp):
TAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTACCCTCATTTTAAAGAATTTTTAGAAA
ACATGAGTGAAATTCTAAAGGGATATTCAATTATTTTGAACAAACGGAAATTGCAACCCAGCACG
A
Found at i:35892446 original size:132 final size:132
Alignment explanation
Indices: 35892120--35892518 Score: 520
Period size: 132 Copynumber: 3.0 Consensus size: 132
35892110 TATTTTAAAA
* * * * *
35892120 TTTAGAGAATATGAGTGAAATTCT-AAAGGAATATTCGATTATTTTGAACAAAC-AGGAGATCGC
1 TTTAGAAAACATGAGTGAAATTCTAAAAGG-ATATTCAATTATTTTGAACAAACGA-GAAATTGC
* * * * *
35892183 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCATTTTGAAG
64 AACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTTCCCTCGTTTTAAAG
*
35892248 AATT
129 AGTT
** * *
35892252 TTT-GAAGGCATGAGTGAAATTCTAAAGGGATATTCAATTATTTTGAACAAACGGGAAATTGCAA
1 TTTAGAAAACATGAGTGAAATTCTAAAAGGATATTCAATTATTTTGAACAAACGAGAAATTGCAA
* * * *
35892316 CCCAGCACAATAGGGCACGACTCTTCGGATTGCCAAACATCGAACATTTCCCTCGTTTTAAAGAG
66 CCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTTCCCTCGTTTTAAAGAG
35892381 TT
131 TT
* *
35892383 TTTAGAAAACATGAGTGAAATTCTAAAAGGACATTCAATTATTTTGAGCAAACGAGAAATTGCAA
1 TTTAGAAAACATGAGTGAAATTCTAAAAGGATATTCAATTATTTTGAACAAACGAGAAATTGCAA
* *
35892448 CCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAATATCGAAC--TTCGCCTTTGTTTTAAAG
66 CCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTTC-CC-TCGTTTTAAAG
35892511 AGTT
129 AGTT
35892515 TTTA
1 TTTA
35892519 AATGAATAAT
Statistics
Matches: 231, Mismatches: 31, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
130 3 0.01
131 108 0.47
132 120 0.52
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (132 bp):
TTTAGAAAACATGAGTGAAATTCTAAAAGGATATTCAATTATTTTGAACAAACGAGAAATTGCAA
CCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTTCCCTCGTTTTAAAGAG
TT
Found at i:35893248 original size:41 final size:42
Alignment explanation
Indices: 35893191--35893291 Score: 143
Period size: 41 Copynumber: 2.4 Consensus size: 42
35893181 GCGTTTCTTC
* *
35893191 AAAAACGCCGCTATAGATTTGAGTTTTAATGGCGC-TTTTAG
1 AAAAACGCCGCTATAGATTTAACTTTTAATGGCGCTTTTTAG
* *
35893232 AAAAACGCCG-TAATAGATTTAACTTTTAGTGGCGCTTTTTGG
1 AAAAACGCCGCT-ATAGATTTAACTTTTAATGGCGCTTTTTAG
35893274 AAAAACGCCGCTATAGAT
1 AAAAACGCCGCTATAGAT
35893292 CTAAACTATT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
40 1 0.02
41 30 0.57
42 21 0.40
43 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (42 bp):
AAAAACGCCGCTATAGATTTAACTTTTAATGGCGCTTTTTAG
Found at i:35894412 original size:22 final size:22
Alignment explanation
Indices: 35894370--35894414 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
35894360 TAGCTCTTTT
*
35894370 AAATATTAGTTAAATTTAAAAA
1 AAATATTAGTTAAATTGAAAAA
*
35894392 AAATATTTATTTAAA-TGAAAAA
1 AAATA-TTAGTTAAATTGAAAAA
35894414 A
1 A
35894415 TTAAAATACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
AAATATTAGTTAAATTGAAAAA
Found at i:35894413 original size:23 final size:22
Alignment explanation
Indices: 35894370--35894414 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
35894360 TAGCTCTTTT
**
35894370 AAATATTAGTTAAATTTAAAAA
1 AAATATTAGTTAAATGAAAAAA
*
35894392 AAATATTTATTTAAATGAAAAAA
1 AAATA-TTAGTTAAATGAAAAAA
35894415 TTAAAATACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
AAATATTAGTTAAATGAAAAAA
Found at i:35894502 original size:18 final size:16
Alignment explanation
Indices: 35894465--35894499 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
35894455 CTATATAACT
35894465 TATTTTTTTTAATTTA
1 TATTTTTTTTAATTTA
35894481 TATTGTTTTTT-ATTTA
1 TATT-TTTTTTAATTTA
35894497 TAT
1 TAT
35894500 ATTAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TATTTTTTTTAATTTA
Found at i:35895969 original size:26 final size:26
Alignment explanation
Indices: 35895933--35896006 Score: 121
Period size: 26 Copynumber: 2.8 Consensus size: 26
35895923 TGACAATAGG
* *
35895933 TTAGGTAAATGCTCCATGATAATGGC
1 TTAGGTAAATGTTTCATGATAATGGC
*
35895959 TTAGGTAAATGTTTCATGATAATGGG
1 TTAGGTAAATGTTTCATGATAATGGC
35895985 TTAGGTAAATGTTTCATGATAA
1 TTAGGTAAATGTTTCATGATAA
35896007 GAATTTCATG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TTAGGTAAATGTTTCATGATAATGGC
Found at i:35897521 original size:26 final size:26
Alignment explanation
Indices: 35897492--35897544 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
35897482 TTTACAGTTT
35897492 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
35897518 TACCCTTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
35897544 T
1 T
35897545 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:35900130 original size:33 final size:33
Alignment explanation
Indices: 35900079--35900145 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
35900069 ATCCTTTGGA
*
35900079 TCTCTTTGCTACTAGTTCCAATGCGTATGTTCT
1 TCTCATTGCTACTAGTTCCAATGCGTATGTTCT
* *
35900112 TCTCATTGCTATTGGTTCCAATGCGTATGTTCT
1 TCTCATTGCTACTAGTTCCAATGCGTATGTTCT
35900145 T
1 T
35900146 ACGTATGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.46
Consensus pattern (33 bp):
TCTCATTGCTACTAGTTCCAATGCGTATGTTCT
Found at i:35901691 original size:514 final size:514
Alignment explanation
Indices: 35900702--35901827 Score: 2182
Period size: 514 Copynumber: 2.2 Consensus size: 514
35900692 TATATTATAA
* * * *
35900702 TATAAAAATTAAACTACGATTC-TTTTTGATAGTATTATATTCAAATTACAATTGTTTTATATAA
1 TATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTA
* *
35900766 ATAATGTTTGATTTTAATATTTAATAATTTTAAATGTCTCTAAAAGTTATAACTAATTTTTATCA
66 ATAATGTTTGGTTTTAATATTTAATATTTTTAAATGTCTCTAAAAGTTATAACTAATTTTTATCA
35900831 AAATAGTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTGGTTCAACT
131 AAATAGTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTGGTTCAACT
35900896 TAATTATTATTTGATTCAACTTAAGTATGAATAAGTATGAATTAATTTTATTACCATGTAGCTTG
196 TAATTATTATTTGATTCAACTTAAGTATGAATAAGTATGAATTAATTTTATTACCATGTAGCTTG
35900961 CTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGA
261 CTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGA
35901026 TTCAAAGTATATAGGCTGGAAACTTGACAGGTTGCCTTATATCGAGCTGTAAGATATAATGGATC
326 TTCAAAGTATATAGGCTGGAAACTTGACAGGTTGCCTTATATCGAGCTGTAAGATATAATGGATC
35901091 CTCCCTAGGTGTAACAACGCCACATATGATGAATCTTAAAAAATTCAAAAAGGCTTGAAAAAAGT
391 CTCCCTAGGTGTAACAACGCCACATATGATGAATCTTAAAAAATTCAAAAAGGCTTGAAAAAAGT
35901156 TCTATCGAGCTCATTTACTATTGAATATTTATATGACCTTAATTTATTTCCAATTTACT
456 TCTATCGAGCTCATTTACTATTGAATATTTATATGACCTTAATTTATTTCCAATTTACT
35901215 TATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTA
1 TATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTA
*
35901280 ATAATGTTTGGTTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTTTTATCA
66 ATAATGTTTGGTTTTAATATTTAATATTTTTAAATGTCTCTAAAAGTTATAACTAATTTTTATCA
35901345 AAATAGTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTGGTTCAACT
131 AAATAGTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTGGTTCAACT
35901410 TAATTATTATTTGATTCAACTTAAGTATGAATAAGTATGAATTAATTTTATTACCATGTAGCTTG
196 TAATTATTATTTGATTCAACTTAAGTATGAATAAGTATGAATTAATTTTATTACCATGTAGCTTG
35901475 CTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGA
261 CTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGA
35901540 TTCAAAGTATATAGGCTGGAAACTTGACAGGTTGCCTTATATCGAGCTGTAAGATATAATGGATC
326 TTCAAAGTATATAGGCTGGAAACTTGACAGGTTGCCTTATATCGAGCTGTAAGATATAATGGATC
35901605 CTCCCTAGGTGTAACAACGCCACATATGATGAATCTTAAAAAATTCAAAAAGGCTTGAAAAAAGT
391 CTCCCTAGGTGTAACAACGCCACATATGATGAATCTTAAAAAATTCAAAAAGGCTTGAAAAAAGT
35901670 TCTATCGAGCTCATTTACTATTGAATATTTATATGACCTTAATTTATTTCCAATTTACT
456 TCTATCGAGCTCATTTACTATTGAATATTTATATGACCTTAATTTATTTCCAATTTACT
35901729 TATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTA
1 TATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTA
35901794 ATAATGTTTGGTTTTAATATTTAATATTTTTAAA
66 ATAATGTTTGGTTTTAATATTTAATATTTTTAAA
35901828 NCTCCAACCT
Statistics
Matches: 605, Mismatches: 7, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
513 22 0.04
514 583 0.96
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (514 bp):
TATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTA
ATAATGTTTGGTTTTAATATTTAATATTTTTAAATGTCTCTAAAAGTTATAACTAATTTTTATCA
AAATAGTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTGGTTCAACT
TAATTATTATTTGATTCAACTTAAGTATGAATAAGTATGAATTAATTTTATTACCATGTAGCTTG
CTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGA
TTCAAAGTATATAGGCTGGAAACTTGACAGGTTGCCTTATATCGAGCTGTAAGATATAATGGATC
CTCCCTAGGTGTAACAACGCCACATATGATGAATCTTAAAAAATTCAAAAAGGCTTGAAAAAAGT
TCTATCGAGCTCATTTACTATTGAATATTTATATGACCTTAATTTATTTCCAATTTACT
Found at i:35902224 original size:9 final size:9
Alignment explanation
Indices: 35902210--35902274 Score: 67
Period size: 9 Copynumber: 6.9 Consensus size: 9
35902200 CTTAAATAGA
35902210 TTACATAAC
1 TTACATAAC
35902219 TTACATAAC
1 TTACATAAC
* *
35902228 TCATATAAC
1 TTACATAAC
*
35902237 TTACATAAT
1 TTACATAAC
35902246 TTACATAACAAC
1 TTACAT---AAC
35902258 TTACATAAC
1 TTACATAAC
*
35902267 TCACATAA
1 TTACATAA
35902275 TTTCCTTAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
9 38 0.83
12 8 0.17
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:35902260 original size:21 final size:21
Alignment explanation
Indices: 35902216--35902274 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
35902206 TAGATTACAT
*
35902216 AACTTACATAACT--CAT-AT
1 AACTTACATAACTCACATAAC
* *
35902234 AACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAAC
35902255 AACTTACATAACTCACATAA
1 AACTTACATAACTCACATAA
35902275 TTTCCTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.35
20 3 0.09
21 19 0.56
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (21 bp):
AACTTACATAACTCACATAAC
Found at i:35907835 original size:21 final size:21
Alignment explanation
Indices: 35907797--35907837 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
35907787 CTTAGAGCGG
* *
35907797 AGGCAGCAGCGTGAGAGGCGA
1 AGGCAGCAACGAGAGAGGCGA
*
35907818 AGGCAGCAACGAGGGAGGCG
1 AGGCAGCAACGAGAGAGGCG
35907838 GAGCAGAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
AGGCAGCAACGAGAGAGGCGA
Found at i:35908221 original size:43 final size:42
Alignment explanation
Indices: 35908134--35908312 Score: 187
Period size: 43 Copynumber: 4.2 Consensus size: 42
35908124 AATGGGCAAA
* * * *
35908134 TTAGCGGCGTTTTTTTAAAAAAGCACCACTAAAGGTCTTGGTCT
1 TTAGCGGCG-TTTTTT-AAAAAGCGCCGCTGAATGTCTTGGTCT
* *
35908178 TTAGCGGCGTTTTTATAAAAAGCGCCGCTGAATGTCCTAGTCT
1 TTAGCGGCGTTTTT-TAAAAAGCGCCGCTGAATGTCTTGGTCT
* *
35908221 TTAGCGGCGTTTTTTAAAATTGCGTCGCTGAATGTCTTGGTCT
1 TTAGCGGCGTTTTTTAAAA-AGCGCCGCTGAATGTCTTGGTCT
* * * * * * *
35908264 TTAACGGCCTTTTTTAAACAGCGCCGCTAAAGGTCATGATCT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTGAATGTCTTGGTCT
35908306 TTAGCGG
1 TTAGCGG
35908313 TGTTACATAT
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
42 28 0.25
43 75 0.66
44 10 0.09
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTAAAAAGCGCCGCTGAATGTCTTGGTCT
Found at i:35908997 original size:23 final size:23
Alignment explanation
Indices: 35908971--35909020 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
35908961 TCGATGATAT
35908971 ATATAAACCAAACATACGTGCCA
1 ATATAAACCAAACATACGTGCCA
*
35908994 ATAT-AACCAAACTTACGTGCCA
1 ATATAAACCAAACATACGTGCCA
35909016 ATATA
1 ATATA
35909021 TATATGTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.46, C:0.24, G:0.08, T:0.22
Consensus pattern (23 bp):
ATATAAACCAAACATACGTGCCA
Found at i:35909308 original size:56 final size:56
Alignment explanation
Indices: 35909222--35909333 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
35909212 TAAAAAAACA
35909222 TTACAATAGTAATTTCAAAAATGAAATAAAATTATTAAAATAATTTATAAATATAT
1 TTACAATAGTAATTTCAAAAATGAAATAAAATTATTAAAATAATTTATAAATATAT
35909278 TTACAATAGTAATTTCAAAAATGAAATAAAATTATTAAAATAATTTATAAATATAT
1 TTACAATAGTAATTTCAAAAATGAAATAAAATTATTAAAATAATTTATAAATATAT
35909334 AAAGAAAAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (56 bp):
TTACAATAGTAATTTCAAAAATGAAATAAAATTATTAAAATAATTTATAAATATAT
Found at i:35910623 original size:20 final size:20
Alignment explanation
Indices: 35910594--35910633 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
35910584 TATTTTTGTA
*
35910594 TTTTTCGTTTTTTTGTTTGC
1 TTTTTCGTTTTTGTGTTTGC
*
35910614 TTTTTTGTTTTTGTGTTTGC
1 TTTTTCGTTTTTGTGTTTGC
35910634 ACGGGCCCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.07, G:0.17, T:0.75
Consensus pattern (20 bp):
TTTTTCGTTTTTGTGTTTGC
Done.