Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 25 of 345
Found at i:7223523 original size:15 final size:16
Alignment explanation
Indices: 7223496--7223530 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
7223486 TATATCATTC
7223496 ATTTCATTATACCAAT
1 ATTTCATTATACCAAT
*
7223512 ATTTCA-TATACCATT
1 ATTTCATTATACCAAT
7223527 ATTT
1 ATTT
7223531 TTGTGAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTCATTATACCAAT
Found at i:7224482 original size:46 final size:46
Alignment explanation
Indices: 7223889--7224479 Score: 743
Period size: 46 Copynumber: 12.9 Consensus size: 46
7223879 AATACTATAA
* * * * * *
7223889 CTCAATATAGTTTTCTTCATTGAAATACCATAGCTACATTCCACAA
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* * *
7223935 CTCAGAATGGTTTTCTTCATTGAAATACCATACCTACATTCCACAT
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* * * * * *
7223981 CTCGGTATGGTTTTCTTTACCGAAATACCATATCTGCATTTCACAA
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* *
7224027 CTCAGTATGGTTTTATTTACTAAAATACCATACCTACATTCCACAT
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* * * * * *
7224073 CTCAGTATGGTTGTCTTTAGTGAAATAACATACCTACGTTTCACAA
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* * *
7224119 CTCAGTCTGGTTTTATTTATTGAAATACCATACCTACATTCCACAT
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* * *
7224165 CTCGGTATGATTTTCTTTACTGAAATACCATACCTACGTTCCACAT
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* * * * * *
7224211 CTCGGTATGGTTTTCTTTTCTGAAATATCATACCTACGTTTCACAA
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* *
7224257 CTCTGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCACAT
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
*
7224303 CTCAGTATGGTTTCCTTTACTGAAATACCATACCTACATTCCACAT
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* * * *
7224349 CTCAGTATGGTTTTCTTTACGGAAATACCATAACTACGTTTCACAT
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* * * *
7224395 CTCGGTATGGTTTT-TTTACTGAAATACCATACCTACGTTTCACAA
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* *
7224440 CTCAGTATAGTTTTCTTTACTGAAATACCATGCCTACATT
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATT
7224480 TCATACTTTG
Statistics
Matches: 474, Mismatches: 70, Indels: 2
0.87 0.13 0.00
Matches are distributed among these distances:
45 40 0.08
46 434 0.92
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (46 bp):
CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
Found at i:7232381 original size:42 final size:42
Alignment explanation
Indices: 7232320--7232399 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
7232310 GTCACACGTC
* * *
7232320 CGTGTGAACAGGCCGTGTGCCTCACACGGTATTAGACACGCT
1 CGTGTGAACAGGCCATGTGCCTCAAACGATATTAGACACGCT
* *
7232362 CGTGTGAATAGGCTATGTGCCTCAAACGATATTAGACA
1 CGTGTGAACAGGCCATGTGCCTCAAACGATATTAGACA
7232400 AACCCGTGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (42 bp):
CGTGTGAACAGGCCATGTGCCTCAAACGATATTAGACACGCT
Found at i:7232408 original size:42 final size:42
Alignment explanation
Indices: 7232319--7232409 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 42
7232309 GGTCACACGT
* * * **
7232319 CCGTGTGAACAGGCCGTGTGCCTCACACGGTATTAGACACGC
1 CCGTGTGAACAGGCCATGTGCCTCAAACGATATTAGACAAAC
* * *
7232361 TCGTGTGAATAGGCTATGTGCCTCAAACGATATTAGACAAAC
1 CCGTGTGAACAGGCCATGTGCCTCAAACGATATTAGACAAAC
7232403 CCGTGTG
1 CCGTGTG
7232410 TCTAAGCCGT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.23
Consensus pattern (42 bp):
CCGTGTGAACAGGCCATGTGCCTCAAACGATATTAGACAAAC
Found at i:7252033 original size:23 final size:23
Alignment explanation
Indices: 7252007--7252083 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
7251997 CGAGCCGAAA
7252007 CGGTAAGCTCCGTAGAACTAAAT
1 CGGTAAGCTCCGTAGAACTAAAT
* *
7252030 CGGTAAGCTCTGTAGAGCTAAAT
1 CGGTAAGCTCCGTAGAACTAAAT
* * * *
7252053 CTGTAAGC-CCGAAGGACTGAA-
1 CGGTAAGCTCCGTAGAACTAAAT
7252074 CGGTAAGCTC
1 CGGTAAGCTC
7252084 ATAAGAGATG
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 7 0.16
22 9 0.20
23 28 0.64
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (23 bp):
CGGTAAGCTCCGTAGAACTAAAT
Found at i:7252103 original size:44 final size:46
Alignment explanation
Indices: 7252003--7252106 Score: 108
Period size: 44 Copynumber: 2.3 Consensus size: 46
7251993 CTTTCGAGCC
* * *
7252003 GAAACGGTAAGCTCCGTAGAACTAAATCGGTAAGCTCTGTAGAGCT
1 GAAACGGTAAGCTCCGAAGAACTAAATCGGTAAGCTCTGAAGAGAT
* * *
7252049 -AAATCTGTAAGC-CCGAAGGACTGAA-CGGTAAGCTCAT-AAGAGAT
1 GAAA-CGGTAAGCTCCGAAGAACTAAATCGGTAAGCTC-TGAAGAGAT
7252093 GAAACGGTAAGCTC
1 GAAACGGTAAGCTC
7252107 AAATGAGCTG
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
44 22 0.47
45 18 0.38
46 7 0.15
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (46 bp):
GAAACGGTAAGCTCCGAAGAACTAAATCGGTAAGCTCTGAAGAGAT
Found at i:7260103 original size:39 final size:38
Alignment explanation
Indices: 7260042--7260276 Score: 131
Period size: 37 Copynumber: 6.2 Consensus size: 38
7260032 CTCATTTCGC
* * *
7260042 ATAATCAATGGATAAT-ATTCGTTTAAGCATGCATTCCA-T
1 ATAATCAGTGGAT-ATCACTCGTTTAAGCA-CCATT-CAGT
7260081 ATAATCAGTGGATATCACTCGTTTGAA-C-CCATTCAGT
1 ATAATCAGTGGATATCACTCGTTT-AAGCACCATTCAGT
* * * * *
7260118 ATAATCAGTGGATATCGCTCGTTTGAGCAACTTTTAGT
1 ATAATCAGTGGATATCACTCGTTTAAGCACCATTCAGT
* * * ** * * *
7260156 ATAATTAGTAGACATTTCTCTTTTGAGCA-CGTTCAGT
1 ATAATCAGTGGATATCACTCGTTTAAGCACCATTCAGT
* * * ** *
7260193 ATATTTAGTAGATATTGCTCGTTTGAGC-CCATTCAGT
1 ATAATCAGTGGATATCACTCGTTTAAGCACCATTCAGT
* ** * * * *
7260230 ATAATCAATGGATATTGCTCGTTTGAGGAACTTTCAGT
1 ATAATCAGTGGATATCACTCGTTTAAGCACCATTCAGT
7260268 ATAATCAGT
1 ATAATCAGT
7260277 AAACATTGCT
Statistics
Matches: 160, Mismatches: 29, Indels: 15
0.78 0.14 0.07
Matches are distributed among these distances:
36 3 0.02
37 89 0.56
38 46 0.29
39 20 0.12
40 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (38 bp):
ATAATCAGTGGATATCACTCGTTTAAGCACCATTCAGT
Found at i:7260123 original size:37 final size:37
Alignment explanation
Indices: 7260080--7260481 Score: 347
Period size: 37 Copynumber: 10.8 Consensus size: 37
7260070 ATGCATTCCA
** * *
7260080 TATAATCAGTGGATATCACTCGTTTGAACCCATTCAG
1 TATAATCAGTGGATATTGCTCGTTTGAGCACATTCAG
* * *
7260117 TATAATCAGTGGATATCGCTCGTTTGAGCAACTTTTAG
1 TATAATCAGTGGATATTGCTCGTTTGAGC-ACATTCAG
* * * * * *
7260155 TATAATTAGTAGACATTTCTCTTTTGAGCACGTTCAG
1 TATAATCAGTGGATATTGCTCGTTTGAGCACATTCAG
* * * *
7260192 TATATTTAGTAGATATTGCTCGTTTGAGCCCATTCAG
1 TATAATCAGTGGATATTGCTCGTTTGAGCACATTCAG
* * *
7260229 TATAATCAATGGATATTGCTCGTTTGAGGAACTTTCAG
1 TATAATCAGTGGATATTGCTCGTTTGA-GCACATTCAG
** * *
7260267 TATAATCAGTAAACATTGCTCTTTTGAGCACATTCAG
1 TATAATCAGTGGATATTGCTCGTTTGAGCACATTCAG
* * * *
7260304 TA-AATTTAGTAGATATTGCTCGTTTGAGAACATTCAT
1 TATAA-TCAGTGGATATTGCTCGTTTGAGCACATTCAG
* * *
7260341 TATAATTAGTAGATATTGCTCGTTTGAGCAACTTTCAG
1 TATAATCAGTGGATATTGCTCGTTTGAGC-ACATTCAG
* * * * * * *
7260379 TATAATTAGTAGACATTTCTCTTTTGAGTACGTTCAG
1 TATAATCAGTGGATATTGCTCGTTTGAGCACATTCAG
* * * *
7260416 TAGATTCAGTAGATATTGCTCGTTTGAACACATTCAG
1 TATAATCAGTGGATATTGCTCGTTTGAGCACATTCAG
* * * *
7260453 TATAATGAGTAGACATTGCTTGTTTGAGC
1 TATAATCAGTGGATATTGCTCGTTTGAGC
7260482 CTATTCAATA
Statistics
Matches: 298, Mismatches: 62, Indels: 10
0.81 0.17 0.03
Matches are distributed among these distances:
36 2 0.01
37 206 0.69
38 90 0.30
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (37 bp):
TATAATCAGTGGATATTGCTCGTTTGAGCACATTCAG
Found at i:7260194 original size:75 final size:74
Alignment explanation
Indices: 7260112--7260480 Score: 416
Period size: 75 Copynumber: 4.9 Consensus size: 74
7260102 TTTGAACCCA
* * * * * *
7260112 TTCAGTATAATCAGTGGATATCGCTCGTTTGAGCAACTTTTAGTATAATTAGTAGACATTTCTCT
1 TTCAGTATAATCAGTAGATATTGCTCGTTTGAGC-ACATTCAGTATAATTAGTAGACATTGCTCG
*
7260177 TTTGAGCACG
65 TTTGAGAACG
* * * * * * *
7260187 TTCAGTATATTTAGTAGATATTGCTCGTTTGAGCCCATTCAGTATAATCAATGGATATTGCTCGT
1 TTCAGTATAATCAGTAGATATTGCTCGTTTGAGCACATTCAGTATAATTAGTAGACATTGCTCGT
*
7260252 TTGAGGAACT
66 TTGA-GAACG
* * * *
7260262 TTCAGTATAATCAGTAAACATTGCTCTTTTGAGCACATTCAGTA-AATTTAGTAGATATTGCTCG
1 TTCAGTATAATCAGTAGATATTGCTCGTTTGAGCACATTCAGTATAA-TTAGTAGACATTGCTCG
*
7260326 TTTGAGAACA
65 TTTGAGAACG
* * * * *
7260336 TTCATTATAATTAGTAGATATTGCTCGTTTGAGCAACTTTCAGTATAATTAGTAGACATTTCTCT
1 TTCAGTATAATCAGTAGATATTGCTCGTTTGAGC-ACATTCAGTATAATTAGTAGACATTGCTCG
*
7260401 TTTGAGTACG
65 TTTGAGAACG
* * * * *
7260411 TTCAGTAGATTCAGTAGATATTGCTCGTTTGAACACATTCAGTATAATGAGTAGACATTGCTTGT
1 TTCAGTATAATCAGTAGATATTGCTCGTTTGAGCACATTCAGTATAATTAGTAGACATTGCTCGT
7260476 TTGAG
66 TTGAG
7260481 CCTATTCAAT
Statistics
Matches: 244, Mismatches: 46, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
74 92 0.38
75 150 0.61
76 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.39
Consensus pattern (74 bp):
TTCAGTATAATCAGTAGATATTGCTCGTTTGAGCACATTCAGTATAATTAGTAGACATTGCTCGT
TTGAGAACG
Found at i:7260289 original size:112 final size:112
Alignment explanation
Indices: 7260098--7260481 Score: 554
Period size: 112 Copynumber: 3.4 Consensus size: 112
7260088 GTGGATATCA
* * *
7260098 CTCGTTTGAACCCATTCAGTATAATCAGTGGATATCGCTCGTTTGAGCAACTTTTAGTATAATTA
1 CTCGTTTGAACACATTCAGTATAATCAGTGGATATTGCTCGTTTGAGCAACTTTCAGTATAATTA
*
7260163 GTAGACATTTCTCTTTTGAGCACGTTCAGTATATTTAGTAGATATTG
66 GTAGACATTTCTCTTTTGAGCACGTTCAGTAAATTTAGTAGATATTG
* * * * *
7260210 CTCGTTTGAGCCCATTCAGTATAATCAATGGATATTGCTCGTTTGAGGAACTTTCAGTATAATCA
1 CTCGTTTGAACACATTCAGTATAATCAGTGGATATTGCTCGTTTGAGCAACTTTCAGTATAATTA
* * *
7260275 GTAAACATTGCTCTTTTGAGCACATTCAGTAAATTTAGTAGATATTG
66 GTAGACATTTCTCTTTTGAGCACGTTCAGTAAATTTAGTAGATATTG
* * *
7260322 CTCGTTTGAGA-ACATTCATTATAATTAGTAGATATTGCTCGTTTGAGCAACTTTCAGTATAATT
1 CTCGTTTGA-ACACATTCAGTATAATCAGTGGATATTGCTCGTTTGAGCAACTTTCAGTATAATT
* * *
7260386 AGTAGACATTTCTCTTTTGAGTACGTTCAGTAGATTCAGTAGATATTG
65 AGTAGACATTTCTCTTTTGAGCACGTTCAGTAAATTTAGTAGATATTG
* * * *
7260434 CTCGTTTGAACACATTCAGTATAATGAGTAGACATTGCTTGTTTGAGC
1 CTCGTTTGAACACATTCAGTATAATCAGTGGATATTGCTCGTTTGAGC
7260482 CTATTCAATA
Statistics
Matches: 242, Mismatches: 28, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
111 1 0.00
112 241 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (112 bp):
CTCGTTTGAACACATTCAGTATAATCAGTGGATATTGCTCGTTTGAGCAACTTTCAGTATAATTA
GTAGACATTTCTCTTTTGAGCACGTTCAGTAAATTTAGTAGATATTG
Found at i:7262854 original size:93 final size:93
Alignment explanation
Indices: 7262742--7262914 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
7262732 CGCCCATAAG
***
7262742 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7262807 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
7262835 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
7262900 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
7262915 AAATATCCTA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:7262910 original size:46 final size:46
Alignment explanation
Indices: 7262735--7262910 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
7262725 TGTAACCCGC
***
7262735 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
7262781 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
7262831 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
7262874 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
7262911 TGCCAAATAT
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.58
47 28 0.25
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:7265330 original size:15 final size:15
Alignment explanation
Indices: 7265293--7265357 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
7265283 CAAAGATAAC
*
7265293 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
7265307 AAAAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
7265322 GAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
7265337 AATAAATCCAGAATA
1 AAGAAATCCAGAATA
7265352 AAGAAA
1 AAGAAA
7265358 CCCAAGATAC
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
14 8 0.20
15 32 0.78
16 1 0.02
ACGTcount: A:0.63, C:0.12, G:0.12, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:7268394 original size:93 final size:93
Alignment explanation
Indices: 7268287--7268459 Score: 258
Period size: 93 Copynumber: 1.9 Consensus size: 93
7268277 CGCCCATAAG
* *
7268287 CGAACTCGAACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCAGACTAAACTC
1 CGAACTCGAACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCAGACTAAACTC
*
7268351 AACGAGCTCGGATGCCTAGTTACATCTCA
65 AACAAGCTCGGATGCCTAGTTACATCTCA
* * * *
7268380 CGAACTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTAAACTCA
*
7268445 ACAAGTTCGGATGCC
66 ACAAGCTCGGATGCC
7268460 CAAATATCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTAAACTCA
ACAAGCTCGGATGCCTAGTTACATCTCA
Found at i:7268437 original size:46 final size:46
Alignment explanation
Indices: 7268280--7268455 Score: 155
Period size: 46 Copynumber: 3.8 Consensus size: 46
7268270 TGTAACCCGC
* * *
7268280 CCATAAGCGAACTCGAACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
* * * * *
7268326 CCATAAGTGAACTCAGACTAAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
7268376 -C-TCA-CGAACTCGGACTCAACTTAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
7268419 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
7268456 TGCCCAAATA
Statistics
Matches: 101, Mismatches: 19, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 56 0.55
47 25 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:7274607 original size:22 final size:21
Alignment explanation
Indices: 7274582--7274622 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
7274572 TGGCCAAAGT
*
7274582 GGTGTTTTCAGGGCTATTCTGG
1 GGTGATTTCAGGGCT-TTCTGG
*
7274604 GGTGATTTCATGGCTTTCT
1 GGTGATTTCAGGGCTTTCT
7274623 CGACGGCCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.10, C:0.15, G:0.32, T:0.44
Consensus pattern (21 bp):
GGTGATTTCAGGGCTTTCTGG
Found at i:7276065 original size:21 final size:21
Alignment explanation
Indices: 7276041--7276080 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7276031 CTGCAATATC
7276041 TATTTGACTGTCTAATTGAAT
1 TATTTGACTGTCTAATTGAAT
*
7276062 TATTTGACTGTCTGATTGA
1 TATTTGACTGTCTAATTGA
7276081 CTGAGAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.47
Consensus pattern (21 bp):
TATTTGACTGTCTAATTGAAT
Found at i:7285416 original size:22 final size:23
Alignment explanation
Indices: 7285390--7285438 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
7285380 TAAATTATAT
*
7285390 TTTTTACAATAATAAAAATATAA
1 TTTTTACAATAATAAAAATAAAA
* *
7285413 TTTTTA-AATAATTAAATTAAAA
1 TTTTTACAATAATAAAAATAAAA
7285435 TTTT
1 TTTT
7285439 ATCAATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTTTACAATAATAAAAATAAAA
Found at i:7285428 original size:23 final size:24
Alignment explanation
Indices: 7285377--7285428 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
7285367 TTAGGGTCGA
* *
7285377 AATT-AAATTATATTTTTTACAAT
1 AATTAAAAATATAATTTTTACAAT
7285400 AA-TAAAAATATAATTTTTA-AAT
1 AATTAAAAATATAATTTTTACAAT
7285422 AATTAAA
1 AATTAAA
7285429 TTAAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
AATTAAAAATATAATTTTTACAAT
Found at i:7285878 original size:12 final size:12
Alignment explanation
Indices: 7285861--7285885 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7285851 CGAGAATAAT
7285861 TTTTTAATATTA
1 TTTTTAATATTA
7285873 TTTTTAATATTA
1 TTTTTAATATTA
7285885 T
1 T
7285886 AAAAATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTAATATTA
Found at i:7286608 original size:10 final size:10
Alignment explanation
Indices: 7286595--7286641 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
7286585 ATTTATAAAA
7286595 ATAAAAAATT
1 ATAAAAAATT
7286605 AT-AAAAATT
1 ATAAAAAATT
*
7286614 ATTAAAAATT
1 ATAAAAAATT
*
7286624 ATGTAAAAA-T
1 AT-AAAAAATT
7286634 ATAAAAAA
1 ATAAAAAA
7286642 ATTCATTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 14 0.41
10 14 0.41
11 6 0.18
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:7286612 original size:9 final size:9
Alignment explanation
Indices: 7286587--7286640 Score: 60
Period size: 10 Copynumber: 6.0 Consensus size: 9
7286577 CATTTTAAAT
7286587 TTATAAAAA
1 TTATAAAAA
7286596 -TA-AAAAA
1 TTATAAAAA
7286603 TTATAAAAA
1 TTATAAAAA
7286612 TTATTAAAAA
1 TTA-TAAAAA
7286622 TTATGTAAAAA
1 TTA--TAAAAA
7286633 -TATAAAAA
1 TTATAAAAA
7286641 AATTCATTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
7 5 0.12
8 10 0.25
9 8 0.20
10 11 0.28
11 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (9 bp):
TTATAAAAA
Found at i:7286644 original size:21 final size:19
Alignment explanation
Indices: 7286595--7286641 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
7286585 ATTTATAAAA
7286595 ATAAAAAATTATAAAAATT
1 ATAAAAAATTATAAAAATT
*
7286614 ATTAAAAATTATGTAAAAA-T
1 ATAAAAAATTA--TAAAAATT
7286634 ATAAAAAA
1 ATAAAAAA
7286642 ATTCATTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 8 0.33
21 6 0.25
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAAAAATTATAAAAATT
Found at i:7286661 original size:21 final size:20
Alignment explanation
Indices: 7286596--7286676 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 20
7286586 TTTATAAAAA
7286596 TAAAAAATTA-TAAAAATTAT
1 TAAAAAATTATTAAAAATT-T
*
7286616 T-AAAAATTATGTAAAAATAT
1 TAAAAAATTAT-TAAAAATTT
* *
7286636 AAAAAAATTCATTGAAAATTT
1 TAAAAAATT-ATTAAAAATTT
7286657 TAAAATAATTTATATAAAAA
1 TAAAA-AA-TTAT-TAAAAA
7286677 ATCATTATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
19 8 0.17
20 2 0.04
21 25 0.52
22 6 0.12
23 7 0.15
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (20 bp):
TAAAAAATTATTAAAAATTT
Found at i:7288263 original size:21 final size:21
Alignment explanation
Indices: 7288214--7288272 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
7288204 AATATGCTAG
* *
7288214 AGATATTTTGATATTTT-ATA
1 AGATATATTAATATTTTAATA
*
7288234 A-TTATTATTAATATTTTAATA
1 AGATA-TATTAATATTTTAATA
*
7288255 AGATATATTATTATTTTA
1 AGATATATTAATATTTTA
7288273 TTAGTATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.06
20 11 0.35
21 16 0.52
22 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
AGATATATTAATATTTTAATA
Found at i:7288281 original size:21 final size:21
Alignment explanation
Indices: 7288224--7288282 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
7288214 AGATATTTTG
*
7288224 ATATTTTATAATTAT-TATTA
1 ATATTTTATAAGTATATATTA
7288244 ATATTTTAATAAG-ATATATTA
1 ATATTTT-ATAAGTATATATTA
* *
7288265 TTATTTTATTAGTATATA
1 ATATTTTATAAGTATATA
7288283 AAGAAAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 13 0.39
21 20 0.61
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (21 bp):
ATATTTTATAAGTATATATTA
Found at i:7290132 original size:23 final size:23
Alignment explanation
Indices: 7290018--7290133 Score: 92
Period size: 23 Copynumber: 5.0 Consensus size: 23
7290008 CCGAAATATA
*
7290018 GCTCTTCGTGAGCTTCCTGATAG
1 GCTCTTCGTGAGCTTCCCGATAG
* * *
7290041 GATCTTTGTGAGCTTCCCAATAG
1 GCTCTTCGTGAGCTTCCCGATAG
* * *
7290064 TGCTC-GCTTGAACTTCCCGACATATG
1 -GCTCTTCGTGAGCTTCCCG--ATA-G
* *
7290090 GCTATCCG-GAGCTTCCCGATAG
1 GCTCTTCGTGAGCTTCCCGATAG
*
7290112 GCTCTTCGTGAGCTTCACGATA
1 GCTCTTCGTGAGCTTCCCGATA
7290134 TGGTTCTTTG
Statistics
Matches: 70, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
22 7 0.10
23 43 0.61
24 3 0.04
25 15 0.21
26 2 0.03
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.31
Consensus pattern (23 bp):
GCTCTTCGTGAGCTTCCCGATAG
Found at i:7290603 original size:46 final size:46
Alignment explanation
Indices: 7290465--7290646 Score: 231
Period size: 46 Copynumber: 4.0 Consensus size: 46
7290455 GCTCTCTGAT
* * * *
7290465 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
7290511 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
7290557 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * * *
7290603 A-GAAAATTAGTAAGACCGTAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
7290647 TCAAAGATAA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 121 0.99
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:7294395 original size:25 final size:22
Alignment explanation
Indices: 7294357--7294411 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
7294347 TCCTTATATA
*
7294357 TATTTTTATAATAT-T-TTTAAT
1 TATTTTTATAATATATATTT-TT
*
7294378 GATTTTTATAATATATATTTTT
1 TATTTTTATAATATATATTTTT
7294400 TATTTTTATAAT
1 TATTTTTATAAT
7294412 TTTGGAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.45
22 13 0.45
23 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TATTTTTATAATATATATTTTT
Found at i:7295405 original size:20 final size:21
Alignment explanation
Indices: 7295356--7295409 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
7295346 CTAGATAAAT
7295356 ATTAAATTAA-ATTAAATATC
1 ATTAAATTAATATTAAATATC
*
7295376 -TTATATTAATATTAAAT-TC
1 ATTAAATTAATATTAAATATC
*
7295395 ATTAAAATAATATTA
1 ATTAAATTAATATTA
7295410 TCTTTGGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTAAATTAATATTAAATATC
Found at i:7299088 original size:16 final size:16
Alignment explanation
Indices: 7299051--7299093 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
7299041 TTAAAACCTT
*
7299051 TAATGATAATAATATA
1 TAATGATAAAAATATA
7299067 T-A-GATAAAAATATA
1 TAATGATAAAAATATA
7299081 TAATGATATAAAA
1 TAATGATA-AAAA
7299094 AATGAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 12 0.52
15 2 0.09
16 5 0.22
17 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (16 bp):
TAATGATAAAAATATA
Found at i:7299165 original size:7 final size:7
Alignment explanation
Indices: 7299110--7299255 Score: 58
Period size: 7 Copynumber: 21.0 Consensus size: 7
7299100 ATAATGTAAA
7299110 ATAAT-T
1 ATAATAT
*
7299116 ATAATTT
1 ATAATAT
7299123 ATAATAT
1 ATAATAT
*
7299130 GA-AAGTGT
1 -ATAA-TAT
7299138 AT-ATAT
1 ATAATAT
* *
7299144 GTAAAAT
1 ATAATAT
7299151 AT-ATAT
1 ATAATAT
7299157 ATAATAT
1 ATAATAT
7299164 ATAA-AT
1 ATAATAT
*
7299170 A-ATTA-
1 ATAATAT
7299175 ATAAATAT
1 AT-AATAT
*
7299183 ATAATACA
1 ATAATA-T
*
7299191 AGTAAAAAT
1 A-T-AATAT
7299200 ATAATA-
1 ATAATAT
*
7299206 ATAATAA
1 ATAATAT
7299213 ATAATAAT
1 ATAAT-AT
* *
7299221 GTAAAAT
1 ATAATAT
7299228 AATAATAT
1 -ATAATAT
*
7299236 ATAATAA
1 ATAATAT
7299243 ATAATA-
1 ATAATAT
7299249 ATAATAT
1 ATAATAT
7299256 GAAATAATAT
Statistics
Matches: 104, Mismatches: 19, Indels: 33
0.67 0.12 0.21
Matches are distributed among these distances:
5 2 0.02
6 29 0.28
7 52 0.50
8 16 0.15
9 2 0.02
10 3 0.03
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (7 bp):
ATAATAT
Found at i:7299168 original size:20 final size:20
Alignment explanation
Indices: 7299140--7299267 Score: 54
Period size: 23 Copynumber: 6.3 Consensus size: 20
7299130 GAAAGTGTAT
*
7299140 ATATGTAAAATATATATATA
1 ATATATAAAATATATATATA
7299160 ATATAT-AAATA-AT-TAATA
1 ATATATAAAATATATAT-ATA
* *
7299178 A-ATATATAATACA-AGTA-A
1 ATATATAAAATATATA-TATA
* *
7299196 AAATATAATAATA-ATAAATA
1 ATATATAA-AATATATATATA
*
7299216 ATAATGTAAAATAATAATATATA
1 AT-ATATAAAAT-AT-ATATATA
* *
7299239 ATAAATAATAATAATATGAAATA
1 ATATATAA-AAT-ATAT-ATATA
7299262 ATATAT
1 ATATAT
7299268 TGTTAAAATG
Statistics
Matches: 82, Mismatches: 11, Indels: 27
0.68 0.09 0.22
Matches are distributed among these distances:
17 5 0.06
18 12 0.15
19 14 0.17
20 16 0.20
21 6 0.07
22 6 0.07
23 23 0.28
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (20 bp):
ATATATAAAATATATATATA
Found at i:7299261 original size:13 final size:12
Alignment explanation
Indices: 7299151--7299264 Score: 84
Period size: 11 Copynumber: 10.0 Consensus size: 12
7299141 TATGTAAAAT
*
7299151 ATATATATAAT-
1 ATATAAATAATA
*
7299162 ATATAAATAATT
1 ATATAAATAATA
7299174 A-ATAAATATATA
1 ATATAAATA-ATA
* * *
7299186 ATACAAGTAAAA
1 ATATAAATAATA
7299198 ATAT-AATAAT-
1 ATATAAATAATA
7299208 A-ATAAATAATA
1 ATATAAATAATA
*
7299219 ATGTAAAATAATA
1 ATAT-AAATAATA
7299232 ATAT--ATAATA
1 ATATAAATAATA
7299242 A-AT-AATAATA
1 ATATAAATAATA
7299252 ATATGAAATAATA
1 ATAT-AAATAATA
7299265 TATTGTTAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
9 4 0.05
10 21 0.26
11 24 0.29
12 10 0.12
13 23 0.28
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:7299264 original size:3 final size:3
Alignment explanation
Indices: 7299200--7299254 Score: 60
Period size: 3 Copynumber: 18.0 Consensus size: 3
7299190 AAGTAAAAAT
*
7299200 ATA ATA ATA ATAA ATA ATA AT- GTA A-A ATA ATA ATA TATA ATAA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA -ATA AT-A ATA
7299246 ATA ATA ATA
1 ATA ATA ATA
7299255 TGAAATAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 3 0.07
3 33 0.73
4 9 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7300327 original size:22 final size:26
Alignment explanation
Indices: 7300282--7300328 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
7300272 TGTCTGTGTC
7300282 TATGTATGTTTCTGTTTCTCTCTGTG
1 TATGTATGTTTCTGTTTCTCTCTGTG
7300308 TATGTAT-TTT-T-TTTCT-TCTGT
1 TATGTATGTTTCTGTTTCTCTCTGT
7300329 CCTTTTTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 5 0.24
23 5 0.24
24 1 0.05
25 3 0.14
26 7 0.33
ACGTcount: A:0.09, C:0.13, G:0.15, T:0.64
Consensus pattern (26 bp):
TATGTATGTTTCTGTTTCTCTCTGTG
Found at i:7306968 original size:18 final size:18
Alignment explanation
Indices: 7306931--7306983 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
7306921 TATAAATTCA
*
7306931 AAATATATATTAAAAATTAT
1 AAATA-ATATT-ATAATTAT
7306951 AAATAATATTATAATTAT
1 AAATAATATTATAATTAT
** *
7306969 TTATACTATTATAAT
1 AAATAATATTATAAT
7306984 AGTTTTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 19 0.66
19 5 0.17
20 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATAATATTATAATTAT
Found at i:7308733 original size:26 final size:27
Alignment explanation
Indices: 7308681--7308733 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
7308671 AATTAAGTAT
*
7308681 TTAATAATTTTATATATTTTTTATTTA
1 TTAATAATTTTATATATATTTTATTTA
7308708 TTAA-AATTTTATATATAATTTT-TTTA
1 TTAATAATTTTATATAT-ATTTTATTTA
7308734 AAAGAATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (27 bp):
TTAATAATTTTATATATATTTTATTTA
Found at i:7313755 original size:48 final size:48
Alignment explanation
Indices: 7313677--7313824 Score: 233
Period size: 48 Copynumber: 3.1 Consensus size: 48
7313667 ACTCAAAAGT
* * * *
7313677 CTCGCACCCTAGGTGCCAATATCATGGCCCGAAGCCAAATTAATGAAG
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAG
* *
7313725 CTTGCACCCGAAGTGCTAATATCATAGCCCGAAGCCAAATCAATGAAG
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAG
*
7313773 CTCGCACCCGAAGTGCTAATATCATGGCCCGACGCCAAATCAATGAAG
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAG
7313821 CTCG
1 CTCG
7313825 TAATGACATG
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 91 1.00
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (48 bp):
CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAG
Found at i:7316230 original size:20 final size:22
Alignment explanation
Indices: 7316181--7316230 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 22
7316171 TCCTTCTATA
*
7316181 TATATACATTTTATATATAATT
1 TATATATATTTTATATATAATT
*
7316203 TAT-T-TATTTTA-A-ATATTT
1 TATATATATTTTATATATAATT
7316221 TATATATATT
1 TATATATATT
7316231 GTTTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
18 8 0.33
19 2 0.08
20 10 0.42
21 1 0.04
22 3 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TATATATATTTTATATATAATT
Found at i:7316242 original size:19 final size:19
Alignment explanation
Indices: 7316218--7316255 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7316208 ATTTTAAATA
* *
7316218 TTTTATATATATTGTTTAT
1 TTTTATAAATATTATTTAT
7316237 TTTTATAAATATTATTTAT
1 TTTTATAAATATTATTTAT
7316256 ACATGTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTATAAATATTATTTAT
Found at i:7316348 original size:12 final size:13
Alignment explanation
Indices: 7316317--7316351 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
7316307 TTATTTGTAT
7316317 TTTATATATTTTA
1 TTTATATATTTTA
*
7316330 TTTATATCTTTTA
1 TTTATATATTTTA
7316343 -TTATATATT
1 TTTATATATT
7316352 ATATATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATATATTTTA
Found at i:7316353 original size:7 final size:7
Alignment explanation
Indices: 7316318--7316372 Score: 57
Period size: 7 Copynumber: 8.6 Consensus size: 7
7316308 TATTTGTATT
7316318 TTATATA
1 TTATATA
*
7316325 TTTTAT-
1 TTATATA
*
7316331 TTATATC
1 TTATATA
7316338 TT-T-TA
1 TTATATA
7316343 TTATATA
1 TTATATA
7316350 TTATATA
1 TTATATA
7316357 TT-T-TA
1 TTATATA
7316362 TTATATA
1 TTATATA
7316369 TTAT
1 TTAT
7316373 TCCCTATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
5 7 0.17
6 9 0.22
7 24 0.60
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (7 bp):
TTATATA
Found at i:7316355 original size:19 final size:19
Alignment explanation
Indices: 7316331--7316372 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
7316321 TATATTTTAT
*
7316331 TTATATCTTTTATTATATA
1 TTATATATTTTATTATATA
7316350 TTATATATTTTATTATATA
1 TTATATATTTTATTATATA
7316369 TTAT
1 TTAT
7316373 TCCCTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATATATTTTATTATATA
Found at i:7316363 original size:12 final size:12
Alignment explanation
Indices: 7316318--7316370 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
7316308 TATTTGTATT
7316318 TTATATATTTTA
1 TTATATATTTTA
*
7316330 TT-TATATCTT-
1 TTATATATTTTA
*
7316340 TTAT-TA-TATA
1 TTATATATTTTA
7316350 TTATATATTTTA
1 TTATATATTTTA
7316362 TTATATATT
1 TTATATATT
7316371 ATTCCCTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
9 1 0.03
10 8 0.24
11 10 0.30
12 14 0.42
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATATATTTTA
Found at i:7316381 original size:33 final size:34
Alignment explanation
Indices: 7316314--7316406 Score: 81
Period size: 33 Copynumber: 2.9 Consensus size: 34
7316304 ATGTTATTTG
* *
7316314 TATT-TTATATATTTTATT-TATATCT-TTTATTA
1 TATTATTATATATTTTATTATATAT-TATTCACTA
*
7316346 TA-TATTATATATTTTATTATATATTATTCCCTA
1 TATTATTATATATTTTATTATATATTATTCACTA
* *
7316379 TATTATCT-T-CATTTTATTATATACTATT
1 TATTAT-TATATATTTTATTATATATTATT
7316407 TTATCATTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
31 1 0.02
32 17 0.33
33 28 0.55
34 4 0.08
35 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (34 bp):
TATTATTATATATTTTATTATATATTATTCACTA
Found at i:7316587 original size:20 final size:18
Alignment explanation
Indices: 7316556--7316610 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
7316546 ATATTATTAT
*
7316556 TTTTATAAATATATTAAG
1 TTTTATATATATATTAAG
* *
7316574 TTATTATATCATATAGTATG
1 TT-TTATAT-ATATATTAAG
7316594 TTTTATATATATATTAA
1 TTTTATATATATATTAA
7316611 TCGTTTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.30
19 11 0.37
20 10 0.33
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTTATATATATATTAAG
Found at i:7316616 original size:20 final size:19
Alignment explanation
Indices: 7316556--7316618 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
7316546 ATATTATTAT
*
7316556 TTTTATAAATATATTAA-G
1 TTTTATATATATATTAATG
*
7316574 TTATTATATCATATAGT-ATG
1 TT-TTATAT-ATATATTAATG
7316594 TTTTATATATATATTAATCG
1 TTTTATATATATATTAAT-G
7316614 TTTTA
1 TTTTA
7316619 AAAAATTCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 8 0.22
19 14 0.38
20 15 0.41
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (19 bp):
TTTTATATATATATTAATG
Found at i:7316780 original size:20 final size:20
Alignment explanation
Indices: 7316738--7316787 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
7316728 ATAATTTGTT
* *
7316738 TATTTGTTTATTTATTTTTG
1 TATTTTTTTATTTATTTTAG
7316758 TATTTTTTTATCTTA-TTTAG
1 TATTTTTTTAT-TTATTTTAG
*
7316778 TATTGTTTTA
1 TATTTTTTTA
7316788 GTAGGTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.18, C:0.02, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTTTTTATTTATTTTAG
Found at i:7316874 original size:45 final size:43
Alignment explanation
Indices: 7316818--7316935 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 43
7316808 TAAATATTTG
*
7316818 TTATT-TTTATGTTATTTATTGTTTTTATATATTCGCATGAAA-A
1 TTATTATTTATGTTATTTATTGTTGTTATAT-TT-GCATGAAATA
7316861 TTGATTATTTATGTTA-TTATT-TTAAGTTATATTTGCATGAAATA
1 TT-ATTATTTATGTTATTTATTGTT--GTTATATTTGCATGAAATA
* *
7316905 TTATTATATATGTAATTTA-TGTTGTTATATT
1 TTATTATTTATGTTATTTATTGTTGTTATATT
7316936 CATCATTTTC
Statistics
Matches: 65, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
42 8 0.12
43 24 0.37
44 18 0.28
45 15 0.23
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.58
Consensus pattern (43 bp):
TTATTATTTATGTTATTTATTGTTGTTATATTTGCATGAAATA
Found at i:7329066 original size:45 final size:45
Alignment explanation
Indices: 7328306--7329073 Score: 329
Period size: 45 Copynumber: 17.1 Consensus size: 45
7328296 GTAGATCACT
* * * * * *
7328306 GATAGCAGATTTGGCATCTCTGTATT-GACAGGGAACAAATCGAA
1 GATAGCAGATTTGACGTCTCTGTATTAGACGGGGAGCAGATCAAA
* * * *
7328350 GAT-GACAGATTTGGCGTCTTTGTATTAGACGGAGAGTAGATCAAA
1 GATAG-CAGATTTGACGTCTCTGTATTAGACGGGGAGCAGATCAAA
* ** * * * **
7328395 GATAGCAGATCTGATATTCGTATGT-TTACATC--GAAGCAGATTGAA
1 GATAGCAGATTTGA-CGTC-TCTGTATTAGA-CGGGGAGCAGATCAAA
* *
7328440 GAT-GACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAA
1 GATAG-CAGATTTGACGTCTCTGTATTAGACGGGGAGCAGATCAAA
* * * * * *
7328485 GATAGCAGATCTGACAT-TCGTGTGTTTACATC--GAAGCAGATCGAA
1 GATAGCAGATTTGACGTCTC-TGT-ATTAGA-CGGGGAGCAGATCAAA
* * *
7328530 GAT-GATAGATTT-AGCGTCTCTGTATTAGACGGGAAGCAGATCGAA
1 GATAG-CAGATTTGA-CGTCTCTGTATTAGACGGGGAGCAGATCAAA
* * * * * *
7328575 GATAGTAGATCTGACAT-TCGTGTGTTTACATC--GAAGCAGATCAAA
1 GATAGCAGATTTGACGTCTC-TGT-ATTAGA-CGGGGAGCAGATCAAA
*** * *
7328620 GAT-GACAGATTTGGTATCTCTGTATTAGATGGGGAGCAGATCGAA
1 GATAG-CAGATTTGACGTCTCTGTATTAGACGGGGAGCAGATCAAA
* * * * * *
7328665 GATAGCAGATCTGACAT-TCGTGTGTTTACATC--GAAGCAGATCGAA
1 GATAGCAGATTTGACGTCTC-TGT-ATTAGA-CGGGGAGCAGATCAAA
* *
7328710 GAT-GACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAA
1 GATAG-CAGATTTGACGTCTCTGTATTAGACGGGGAGCAGATCAAA
* ** * * * * *
7328755 TATAGCAGAACTGACAT-TCGTGTGTTTACATC--GAAGCAGATCGAA
1 GATAGCAGATTTGACGTCTC-TGT-ATTAGA-CGGGGAGCAGATCAAA
* * *
7328800 GAT-GACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAA
1 GATAG-CAGATTTGACGTCTCTGTATTAGACGGGGAGCAGATCAAA
* * * * * * *
7328845 GGTAGCAGATCTGACAT-TCGTGTGTTTACATC--GAAGCAGATCGAA
1 GATAGCAGATTTGACGTCTC-TGT-ATTAGA-CGGGGAGCAGATCAAA
* *
7328890 GAT-GACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAA
1 GATAG-CAGATTTGACGTCTCTGTATTAGACGGGGAGCAGATCAAA
* * * * *
7328935 GATAGTAGATTTGACCT-TCGTGTGTTTACATC--GAAGCAGATCAAA
1 GATAGCAGATTTGACGTCTC-TGT-ATTAGA-CGGGGAGCAGATCAAA
* * *
7328980 GAT-GACAGATTTGACGTGTCTGTATTAGACAGAGAGCAGATCAAA
1 GATAG-CAGATTTGACGTCTCTGTATTAGACGGGGAGCAGATCAAA
* ** *
7329025 AATAGCAGATTTGGTGTCTCTGTATTTGACGGGGAGCAGATCAAA
1 GATAGCAGATTTGACGTCTCTGTATTAGACGGGGAGCAGATCAAA
7329070 GATA
1 GATA
7329074 TTAACATGGC
Statistics
Matches: 549, Mismatches: 114, Indels: 121
0.70 0.15 0.15
Matches are distributed among these distances:
43 11 0.02
44 72 0.13
45 405 0.74
46 51 0.09
47 10 0.02
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (45 bp):
GATAGCAGATTTGACGTCTCTGTATTAGACGGGGAGCAGATCAAA
Found at i:7329072 original size:90 final size:90
Alignment explanation
Indices: 7328344--7329034 Score: 1121
Period size: 90 Copynumber: 7.7 Consensus size: 90
7328334 CAGGGAACAA
* * * *
7328344 ATCGAAGATGACAGATTTGGCGTCTTTGTATTAGACGGAGAGTAGATCAAAGATAGCAGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
* *
7328409 TATTCGTATGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCGAAGCAG
*
7328434 ATTGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
7328499 CATTCGTGTGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCGAAGCAG
* * * *
7328524 ATCGAAGATGATAGATTTAGCGTCTCTGTATTAGACGGGAAGCAGATCGAAGATAGTAGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
7328589 CATTCGTGTGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCGAAGCAG
* ** *
7328614 ATCAAAGATGACAGATTTGGTATCTCTGTATTAGATGGGGAGCAGATCGAAGATAGCAGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
7328679 CATTCGTGTGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCGAAGCAG
* *
7328704 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAATATAGCAGAACTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
7328769 CATTCGTGTGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCGAAGCAG
* *
7328794 ATCGAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGGTAGCAGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
7328859 CATTCGTGTGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCGAAGCAG
* *
7328884 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATTTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
*
7328949 CCTTCGTGTGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCGAAGCAG
* * * * * * *
7328974 ATCAAAGATGACAGATTTGACGTGTCTGTATTAGACAGAGAGCAGATCAAAAATAGCAGAT
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGAT
7329035 TTGGTGTCTC
Statistics
Matches: 558, Mismatches: 43, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 558 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (90 bp):
ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
CATTCGTGTGTTTACATCGAAGCAG
Found at i:7330572 original size:19 final size:19
Alignment explanation
Indices: 7330548--7330585 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7330538 ATTTTAACTA
*
7330548 TTTTATATATATTATTTAT
1 TTTTATAAATATTATTTAT
7330567 TTTTATAAATATTATTTAT
1 TTTTATAAATATTATTTAT
7330586 ACATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATAAATATTATTTAT
Found at i:7330679 original size:12 final size:13
Alignment explanation
Indices: 7330648--7330681 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
7330638 TTATTTGTAT
7330648 TTTATATATTTTA
1 TTTATATATTTTA
*
7330661 TTTATATCTTTTA
1 TTTATATATTTTA
7330674 -TTATATAT
1 TTTATATAT
7330682 GATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTATATATTTTA
Found at i:7330691 original size:19 final size:19
Alignment explanation
Indices: 7330664--7330700 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7330654 TATTTTATTT
*
7330664 ATATCTTTTATTATATATG
1 ATATATTTTATTATATATG
7330683 ATATATTTTATTATATAT
1 ATATATTTTATTATATAT
7330701 TATTCCCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
ATATATTTTATTATATATG
Found at i:7330698 original size:12 final size:12
Alignment explanation
Indices: 7330649--7330701 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
7330639 TATTTGTATT
7330649 TTATATATTTTA
1 TTATATATTTTA
*
7330661 TT-TATATCTT-
1 TTATATATTTTA
*
7330671 TTAT-TA-TATA
1 TTATATATTTTA
*
7330681 TGATATATTTTA
1 TTATATATTTTA
7330693 TTATATATT
1 TTATATATT
7330702 ATTCCCTATA
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
9 1 0.03
10 7 0.23
11 10 0.32
12 13 0.42
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (12 bp):
TTATATATTTTA
Found at i:7330918 original size:20 final size:18
Alignment explanation
Indices: 7330887--7330936 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
7330877 ATATTATTAT
* *
7330887 TTTTATAAATATATTAAG
1 TTTTATATATATAGTAAG
*
7330905 TTATTATATCATATAGTATG
1 TT-TTATAT-ATATAGTAAG
7330925 TTTTATATATAT
1 TTTTATATATAT
7330937 TAATCGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 6 0.22
19 11 0.41
20 10 0.37
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (18 bp):
TTTTATATATATAGTAAG
Found at i:7331022 original size:14 final size:13
Alignment explanation
Indices: 7330982--7331024 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
7330972 ACCTCATCTA
*
7330982 TTTTTAATTATAT
1 TTTTTACTTATAT
* *
7330995 TTTTTATTTTTAT
1 TTTTTACTTATAT
7331008 TTTTTGACTTATAT
1 TTTTT-ACTTATAT
7331022 TTT
1 TTT
7331025 ATATATGTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTTTACTTATAT
Found at i:7331087 original size:20 final size:20
Alignment explanation
Indices: 7331045--7331094 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
7331035 ATAATTTGTT
* *
7331045 TATTTGTTTATTTATTTTTG
1 TATTTTTTTATTTATTTTAG
7331065 TATTTTTTTATCTTA-TTTAG
1 TATTTTTTTAT-TTATTTTAG
*
7331085 TATTGTTTTA
1 TATTTTTTTA
7331095 GTAGGTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.18, C:0.02, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTTTTTATTTATTTTAG
Found at i:7331140 original size:18 final size:18
Alignment explanation
Indices: 7331119--7331153 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7331109 ATCTCATAAA
*
7331119 TTATTTGTTATTTTTATG
1 TTATTTATTATTTTTATG
7331137 TTATTTATTATTTTTAT
1 TTATTTATTATTTTTAT
7331154 ATATTCGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:7331183 original size:45 final size:43
Alignment explanation
Indices: 7331126--7331243 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 43
7331116 AAATTATTTG
*
7331126 TTATT-TTTATGTTATTTATTATT-TTTATATATTCGCATGAAA-A
1 TTATTATTTATGTTATTTATT-TTAGTTATAT-TT-GCATGAAATA
7331169 TTGATTATTTATGTTA-TTATTTTAAGTTATATTTGCATGAAATA
1 TT-ATTATTTATGTTATTTATTTT-AGTTATATTTGCATGAAATA
* * *
7331213 TTATTATATATGTAATTTATGTT-GTTATATT
1 TTATTATTTATGTTATTTATTTTAGTTATATT
7331244 CATCATTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
42 8 0.12
43 23 0.35
44 19 0.29
45 15 0.23
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.58
Consensus pattern (43 bp):
TTATTATTTATGTTATTTATTTTAGTTATATTTGCATGAAATA
Found at i:7333351 original size:133 final size:132
Alignment explanation
Indices: 7333108--7333580 Score: 427
Period size: 133 Copynumber: 3.6 Consensus size: 132
7333098 TAGAAAATAC
* * * *
7333108 GAGTGAAATCCCAAA-GAGATATTCGGTTGTTTTGAACAAACGAGAGATTGCAACCCAGCGCGAT
1 GAGTGAAATCCTAAAGGA-ATATTCGATTGTTTTGAACAAACGAGAAATTGCAACCCAGCACGAT
* * * * * *
7333172 AGGGCACGATTCTCAAATTGCCAAACATCGAACATAGCCTTTGTTTTAAAGGGTTTTCTTAAAAG
65 AGGGCACGATTCCCAAATTGTCAAACATCGAATATTGCCTTAGTTTTAAAGGATTTT-TTAAAAG
7333237 ACAT
129 ACAT
* * **
7333241 GAGTGAAAACCTAAAGGAATATTCGATCGTTTTGAACAAACGAGAAATCACAACCCAGCACGATA
1 GAGTGAAATCCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATTGCAACCCAGCACGATA
* * * *
7333306 GGGCATGATTCCCAAATTGTCAAACATCGAGTATTGCCTTAGTTTTAGAGGATTTTTTAGAAGAC
66 GGGCACGATTCCCAAATTGTCAAACATCGAATATTGCCTTAGTTTTAAAGGATTTTTTAAAAGAC
*
7333371 CT
131 AT
* * * * * * * * * *
7333373 GAATGGAATCTTGAAGGGATATTTGATTATCTTGAGC-AACGAGAAATTGCAACCCAGCACGTTA
1 GAGTGAAATCCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATTGCAACCCAGCACGATA
* * * * *
7333437 GGGCACGATTCCGCGAATT-TCCAAATATCAAACT-TTGCCTTCGTTTTAAA-GAATTTTTAAAA
66 GGGCACGATTCC-CAAATTGT-CAAACATCGAA-TATTGCCTTAGTTTTAAAGGATTTTTTAAAA
*
7333499 GGCAT
128 GACAT
* * * * ** * * * * *
7333504 GAGTGAAAGT-TTGAAGGAATATTCGATTATTTCGTGCAAACGCGAATTTGCAACCCAACATGTT
1 GAGTGAAA-TCCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATTGCAACCCAGCACGAT
*
7333568 AGGGCACTATTCC
65 AGGGCACGATTCC
7333581 GTGAGTTGCC
Statistics
Matches: 278, Mismatches: 56, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
131 77 0.28
132 97 0.35
133 102 0.37
134 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (132 bp):
GAGTGAAATCCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATTGCAACCCAGCACGATA
GGGCACGATTCCCAAATTGTCAAACATCGAATATTGCCTTAGTTTTAAAGGATTTTTTAAAAGAC
AT
Found at i:7333447 original size:131 final size:133
Alignment explanation
Indices: 7333139--7333625 Score: 383
Period size: 132 Copynumber: 3.7 Consensus size: 133
7333129 TTCGGTTGTT
* * *
7333139 TTGAACAAACGAGAGATTGCAACCCAGCGCGATAGGGCACGATTCTCAAATTGCCAAACATCGAA
1 TTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACGATTCCCAAATTGCCAAACATCGAA
* * *
7333204 CATAGCCTTTGTTTTAAAGGGTTTTCTTAAAAGACATGAGTGAAAACCTAAAGGAATATTCGATC
66 CATAGCCTTAGTTTTAAAGGATTTTCTTAAAAGACATGAATGAAAACCTAAAGGAATATTCGATC
* *
7333269 GTT
131 ATC
** * * *
7333272 TTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCCCAAATTGTCAAACATCGAG
1 TTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACGATTCCCAAATTGCCAAACATCGAA
* * * * * * * * * * * *
7333337 TATTGCCTTAGTTTTAGAGGATTTT-TTAGAAGACCTGAATGGAATCTTGAAGGGATATTTGATT
66 CATAGCCTTAGTTTTAAAGGATTTTCTTAAAAGACATGAATGAAAACCTAAAGGAATATTCGATC
7333401 ATC
131 ATC
* * * * * *
7333404 TTGAGC-AACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTTCCAAATATCAA
1 TTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACGATTCC-CAAATTGCCAAACATCGA
* * * * * * *** *
7333468 ACTTTGCCTTCGTTTTAAA-GAATTT-TTAAAAGGCATGAGTGAAAGTTTGAAGGAATATTCGAT
65 ACATAGCCTTAGTTTTAAAGGATTTTCTTAAAAGACATGAATGAAAACCTAAAGGAATATTCGAT
*
7333531 TAT-
130 CATC
** * * * * * * ** * *
7333534 TTCGTGCAAACGCGAATTTGCAACCCAACATGTTAGGGCACTATTCCGTGAGTTGCCAAATATCG
1 TT-GAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACGATTCC-CAAATTGCCAAACATCG
* * *
7333599 AATC-TAGTCTTCGTTTTAAAGAATTTT
64 AA-CATAGCCTTAGTTTTAAAGGATTTT
7333626 TAAATGAATG
Statistics
Matches: 285, Mismatches: 64, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
130 2 0.01
131 75 0.26
132 126 0.44
133 82 0.29
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (133 bp):
TTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACGATTCCCAAATTGCCAAACATCGAA
CATAGCCTTAGTTTTAAAGGATTTTCTTAAAAGACATGAATGAAAACCTAAAGGAATATTCGATC
ATC
Found at i:7335725 original size:2 final size:2
Alignment explanation
Indices: 7335720--7335746 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7335710 TATATATATA
7335720 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
7335747 ATTATACTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:7336198 original size:7 final size:7
Alignment explanation
Indices: 7336186--7336215 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
7336176 CTTGGGTTAG
7336186 TTGGGTT
1 TTGGGTT
7336193 TTGGGTT
1 TTGGGTT
7336200 TTGGGTT
1 TTGGGTT
7336207 TTGGGTT
1 TTGGGTT
7336214 TT
1 TT
7336216 AAATGTTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.40, T:0.60
Consensus pattern (7 bp):
TTGGGTT
Found at i:7336909 original size:20 final size:19
Alignment explanation
Indices: 7336840--7336930 Score: 67
Period size: 20 Copynumber: 4.6 Consensus size: 19
7336830 CATAACAAAA
* **
7336840 GCACCAAAGTGCTGACAGG
1 GCACCGAAGTGCAAACAGG
*
7336859 GCA-CAAATGTGCAAACAGGG
1 GCACCGAA-GTGCAAACA-GG
* * **
7336879 GCATCGTAGTGTGAACAGG
1 GCACCGAAGTGCAAACAGG
7336898 GACACCGAAGTGCAAACAGAG
1 G-CACCGAAGTGCAAACAG-G
7336919 GCACCGAAGTGC
1 GCACCGAAGTGC
7336931 GAATCCCATA
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
18 4 0.07
19 13 0.23
20 36 0.63
21 4 0.07
ACGTcount: A:0.34, C:0.23, G:0.32, T:0.11
Consensus pattern (19 bp):
GCACCGAAGTGCAAACAGG
Found at i:7338642 original size:23 final size:23
Alignment explanation
Indices: 7338595--7338642 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
7338585 TAATTATTCG
*
7338595 ATCAAAATAACATTAATTACCAT
1 ATCAAAATAACATTAATTACAAT
7338618 ATCAAAATCAA-ATATAA-TACAAT
1 ATCAAAAT-AACAT-TAATTACAAT
7338641 AT
1 AT
7338643 TTGAATCGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (23 bp):
ATCAAAATAACATTAATTACAAT
Found at i:7339076 original size:13 final size:13
Alignment explanation
Indices: 7339037--7339087 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
7339027 AGTTTGGCAA
7339037 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
7339050 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
*
7339063 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
7339076 TGCTTTTGAAAA
1 TGCTTTTGAAAA
7339088 TTTTGGTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 2 0.06
13 28 0.88
14 2 0.06
ACGTcount: A:0.29, C:0.06, G:0.27, T:0.37
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:7343519 original size:45 final size:45
Alignment explanation
Indices: 7343469--7343558 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
7343459 AAAAGATCTA
*
7343469 AGTTCCACGAGCCATCCTCAGTAGCCATCTTGTGCAGAAGGCAAT
1 AGTTCCACGAGCCATCCTCAGTAACCATCTTGTGCAGAAGGCAAT
7343514 AGTTCCACGAGCCATCCTCAGTAACCATCTTGTGCAGAAGGCAAT
1 AGTTCCACGAGCCATCCTCAGTAACCATCTTGTGCAGAAGGCAAT
7343559 CACGGTTTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTTCCACGAGCCATCCTCAGTAACCATCTTGTGCAGAAGGCAAT
Found at i:7350928 original size:22 final size:22
Alignment explanation
Indices: 7350903--7350945 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
7350893 TATTTAAACA
7350903 ATAACAACAAAAT-ATTAGCAAT
1 ATAACAACAAAATGA-TAGCAAT
* *
7350925 ATAATAATAAAATGATAGCAA
1 ATAACAACAAAATGATAGCAA
7350946 AATAGCAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.23
Consensus pattern (22 bp):
ATAACAACAAAATGATAGCAAT
Found at i:7351675 original size:11 final size:10
Alignment explanation
Indices: 7351632--7351671 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
7351622 ATTACTTAAT
7351632 TATTATTTTA
1 TATTATTTTA
7351642 T-TTATTTTA
1 TATTATTTTA
7351651 TA-T-TTTTA
1 TATTATTTTA
7351659 TCATTATTTTA
1 T-ATTATTTTA
7351670 TA
1 TA
7351672 ATTAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
8 6 0.23
9 11 0.42
10 3 0.12
11 6 0.23
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTATTTTA
Found at i:7364825 original size:13 final size:13
Alignment explanation
Indices: 7364807--7364834 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7364797 GCAGTGTAAG
7364807 GTTCTAGAAATGA
1 GTTCTAGAAATGA
7364820 GTTCTAGAAATGA
1 GTTCTAGAAATGA
7364833 GT
1 GT
7364835 GGGCCTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (13 bp):
GTTCTAGAAATGA
Found at i:7366255 original size:20 final size:20
Alignment explanation
Indices: 7366208--7366266 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
7366198 GGATTAAATC
* *
7366208 ATTATAAAATTAATTGAACTA
1 ATTA-AAAAATAATTGAATTA
* *
7366229 ATAAAAAAATAATTGAATTG
1 ATTAAAAAATAATTGAATTA
* *
7366249 ATTAAAAACTATTTGAAT
1 ATTAAAAAATAATTGAAT
7366267 AGGATTTTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (20 bp):
ATTAAAAAATAATTGAATTA
Found at i:7367167 original size:22 final size:25
Alignment explanation
Indices: 7367142--7367192 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 25
7367132 CAACATTATC
7367142 ATAAAAATTATT-A-AAAA-TATAA
1 ATAAAAATTATTAATAAAATTATAA
**
7367164 ATAATCATTATTAATAAAATTATAA
1 ATAAAAATTATTAATAAAATTATAA
7367189 ATAA
1 ATAA
7367193 CCTTTTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.42
23 1 0.04
24 4 0.17
25 9 0.38
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
ATAAAAATTATTAATAAAATTATAA
Found at i:7367718 original size:40 final size:40
Alignment explanation
Indices: 7367659--7367739 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
7367649 GGACTCTTTG
*
7367659 TTGGTTCAAGTAAAGAGTGTTATATTAACAATCAAGTAGA
1 TTGGTTCAAGTAAAAAGTGTTATATTAACAATCAAGTAGA
*
7367699 TTGGTTCAAGTAAAAAGTGTTATATTAACAATCAATTAGA
1 TTGGTTCAAGTAAAAAGTGTTATATTAACAATCAAGTAGA
7367739 T
1 T
7367740 AGATTCCAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (40 bp):
TTGGTTCAAGTAAAAAGTGTTATATTAACAATCAAGTAGA
Found at i:7370274 original size:2 final size:2
Alignment explanation
Indices: 7370267--7370294 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7370257 CATTGTCTCT
7370267 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7370295 AATAAAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7377102 original size:41 final size:41
Alignment explanation
Indices: 7377056--7377139 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
7377046 TCAACTTCTC
7377056 AATCATTCTCTAATTGAGAATCAGATAAAAATTGTAGTGAA
1 AATCATTCTCTAATTGAGAATCAGATAAAAATTGTAGTGAA
7377097 AATCATTCTCTAATTGAGAATCAGATAAAAATTGTAGTGAA
1 AATCATTCTCTAATTGAGAATCAGATAAAAATTGTAGTGAA
7377138 AA
1 AA
7377140 AATTGCTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (41 bp):
AATCATTCTCTAATTGAGAATCAGATAAAAATTGTAGTGAA
Found at i:7382595 original size:3 final size:3
Alignment explanation
Indices: 7382589--7382617 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7382579 TATTATTATT
7382589 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
7382618 TATTATTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:7382986 original size:32 final size:32
Alignment explanation
Indices: 7382948--7383010 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
7382938 GAGAGGGCTA
*
7382948 CAATTAAAGAAGATAGAAATTTA-AAA-GTTAAT
1 CAATTAAA-AAG-TACAAATTTATAAATGTTAAT
7382980 CAATTAAAAAGTACAAATTTATAAATGTTAA
1 CAATTAAAAAGTACAAATTTATAAATGTTAA
7383011 CAAACCATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 9 0.32
31 6 0.21
32 13 0.46
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.30
Consensus pattern (32 bp):
CAATTAAAAAGTACAAATTTATAAATGTTAAT
Found at i:7387008 original size:33 final size:33
Alignment explanation
Indices: 7386966--7387032 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
7386956 AGTCATGATG
7386966 TAGCCTTAGTTCAATTGTAATCGATATTATTAT
1 TAGCCTTAGTTCAATTGTAATCGATATTATTAT
*
7386999 TAGCCTTAGTTCAATTGTAATTGATATTATTAT
1 TAGCCTTAGTTCAATTGTAATCGATATTATTAT
7387032 T
1 T
7387033 CGTGTAAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (33 bp):
TAGCCTTAGTTCAATTGTAATCGATATTATTAT
Found at i:7388635 original size:37 final size:37
Alignment explanation
Indices: 7388547--7388641 Score: 129
Period size: 37 Copynumber: 2.6 Consensus size: 37
7388537 ACTACACAAG
*
7388547 TAATCCAACCGA-AACACGCCAACTGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* * * *
7388583 TAATCTACCCAATAACACGTCAAATGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
*
7388620 TAATCCAATCGATAACACGCCA
1 TAATCCAACCGATAACACGCCA
7388642 CGGCAGTAAG
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
36 9 0.19
37 39 0.81
ACGTcount: A:0.40, C:0.31, G:0.12, T:0.18
Consensus pattern (37 bp):
TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
Found at i:7392537 original size:27 final size:27
Alignment explanation
Indices: 7392504--7392597 Score: 170
Period size: 27 Copynumber: 3.5 Consensus size: 27
7392494 ATAGTTGAAC
7392504 TATGGCAAAGTGATAAAGTGTGCCAAA
1 TATGGCAAAGTGATAAAGTGTGCCAAA
*
7392531 AATGGCAAAGTGATAAAGTGTGCCAAA
1 TATGGCAAAGTGATAAAGTGTGCCAAA
*
7392558 TATTGCAAAGTGATAAAGTGTGCCAAA
1 TATGGCAAAGTGATAAAGTGTGCCAAA
7392585 TATGGCAAAGTGA
1 TATGGCAAAGTGA
7392598 AATGTGACAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.41, C:0.11, G:0.26, T:0.22
Consensus pattern (27 bp):
TATGGCAAAGTGATAAAGTGTGCCAAA
Found at i:7392836 original size:33 final size:33
Alignment explanation
Indices: 7392799--7392869 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
7392789 GTATAAGTGT
7392799 ATGAATGTTTGGTAAGATTTATGTTTTATGCCA
1 ATGAATGTTTGGTAAGATTTATGTTTTATGCCA
7392832 ATGAATGTTTGGTAAGATTTATGTTTTATGCCA
1 ATGAATGTTTGGTAAGATTTATGTTTTATGCCA
7392865 ATGAA
1 ATGAA
7392870 CTTACTAAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.44
Consensus pattern (33 bp):
ATGAATGTTTGGTAAGATTTATGTTTTATGCCA
Found at i:7394158 original size:16 final size:16
Alignment explanation
Indices: 7394137--7394168 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7394127 TTTATATGTT
*
7394137 TAAATAATATAATATA
1 TAAATAACATAATATA
7394153 TAAATAACATAATATA
1 TAAATAACATAATATA
7394169 ATACATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAATAACATAATATA
Found at i:7398333 original size:10 final size:10
Alignment explanation
Indices: 7398314--7398363 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
7398304 TTAAATTTTA
7398314 AAAGATAAAT
1 AAAGATAAAT
7398324 ACAA-ATAAAT
1 A-AAGATAAAT
*
7398334 AAAGATAATT
1 AAAGATAAAT
7398344 AAAGATAAAT
1 AAAGATAAAT
*
7398354 AAAAATAAAT
1 AAAGATAAAT
7398364 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:7399203 original size:96 final size:96
Alignment explanation
Indices: 7399022--7399206 Score: 248
Period size: 96 Copynumber: 1.9 Consensus size: 96
7399012 ATTTTATTTA
* * * * * *
7399022 TTTATTTTTACTTAGAAATATATTGAACCTTTTGACGCGAAGAGAGATGATAGCAAGCACCCCAC
1 TTTATTTTTACTTAGAAACATATCGAACATTTTGACGCGAAGAGAGATGAAACCAAACACCCCAC
* * *
7399087 TCCGGTTACTCAGCCTAACACATTACTAATT
66 CCCAGTTACTCAGCCCAACACATTACTAATT
*
7399118 TTTATTTTT-CTTA-AGAACATATCGAACATTTTGACGCGAAGAGAGATGACAACCAAACACCTC
1 TTTATTTTTACTTAGA-AACATATCGAACATTTTGACGCGAAGAGAGATGA-AACCAAACACCCC
7399181 ACCCCAGTTACTCAGCCCAACACATT
64 ACCCCAGTTACTCAGCCCAACACATT
7399207 CTTAAAAATT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
94 1 0.01
95 35 0.45
96 41 0.53
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (96 bp):
TTTATTTTTACTTAGAAACATATCGAACATTTTGACGCGAAGAGAGATGAAACCAAACACCCCAC
CCCAGTTACTCAGCCCAACACATTACTAATT
Found at i:7400025 original size:15 final size:15
Alignment explanation
Indices: 7400005--7400052 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
7399995 TTAATATCTG
*
7400005 AAAATAATAAATAAT
1 AAAATAATAAATAAA
7400020 AAAATAATAAGATAAA
1 AAAATAATAA-ATAAA
7400036 ATAAATAA-AAATAAA
1 A-AAATAATAAATAAA
7400051 AA
1 AA
7400053 TTGGGTTGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
16 7 0.23
17 6 0.20
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAATAAATAAA
Found at i:7403767 original size:10 final size:10
Alignment explanation
Indices: 7403743--7403794 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
7403733 AATTAAATTC
7403743 TAAAAGATAAA
1 TAAAA-ATAAA
*
7403754 TAAAAATAAT
1 TAAAAATAAA
* *
7403764 TAAAGATAAT
1 TAAAAATAAA
*
7403774 TAAAGATAAA
1 TAAAAATAAA
7403784 TAAAAATAAA
1 TAAAAATAAA
7403794 T
1 T
7403795 CCTAAAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
10 32 0.86
11 5 0.14
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:7410668 original size:23 final size:23
Alignment explanation
Indices: 7410642--7410686 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
7410632 TGGGTATGTA
* * *
7410642 ATGACGTTATTTTATAAATATGC
1 ATGAAGTTATCTTAAAAATATGC
*
7410665 ATGAATTTATCTTAAAAATATG
1 ATGAAGTTATCTTAAAAATATG
7410687 TTGAATTGGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (23 bp):
ATGAAGTTATCTTAAAAATATGC
Found at i:7433281 original size:19 final size:19
Alignment explanation
Indices: 7433257--7433293 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7433247 GAAACAAGGG
*
7433257 AAGGAAAGAAGGAAAAAGA
1 AAGGAAAGAAAGAAAAAGA
7433276 AAGGAAAGAAAGAAAAAG
1 AAGGAAAGAAAGAAAAAG
7433294 GAAAAATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAGGAAAGAAAGAAAAAGA
Found at i:7434297 original size:6 final size:6
Alignment explanation
Indices: 7434283--7434317 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
7434273 TGTGTACCGC
* *
7434283 TACTGT TACTAT TACTGT TACTGT TACCGT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG
7434318 ACACAGTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (6 bp):
TACTGT
Found at i:7434470 original size:18 final size:18
Alignment explanation
Indices: 7434447--7434506 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
7434437 AACTGTCTGC
*
7434447 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTGT
* * *
7434465 TACTGAATAAACGGCTGA
1 TACTGAATAAATGACTGT
*
7434483 TACTGAATAAATGATTGT
1 TACTGAATAAATGACTGT
7434501 TACTGA
1 TACTGA
7434507 TTAACCGATT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (18 bp):
TACTGAATAAATGACTGT
Found at i:7441368 original size:209 final size:209
Alignment explanation
Indices: 7440941--7441567 Score: 1175
Period size: 209 Copynumber: 3.0 Consensus size: 209
7440931 TTCGACCAAC
*
7440941 CAATTATAGTGTATGTAAAGGGTGTTGTCAAAGGGCCTTAAGATACAAAAAATTTTATGTTTCAA
1 CAATTATAGTGTATGTAAAGGGTGTTGTCAAAGGGCCTTAAGATACAACAAATTTTATGTTTCAA
7441006 ATCAAAATCAAACCACTAAATACCTTTCATAAGAGCCATTCTT-TACTTGGTTTTCTACAGCAGA
66 ATCAAAATCAAACCACTAAATACCTTTCATAAGAGCCATTCTTATACTTGGTTTTCTACAGCAGA
*
7441070 CAAAGACTATGGGACTTACATTTACTTGAGAATGATACCAAAGAGAGTGATTCAAAAATTGTATT
131 CAAAGACTAAGGGACTTACATTTACTTGAGAATGATACCAAAGAGAGTGATTCAAAAATTGTATT
7441135 TATCTTTTCATATT
196 TATCTTTTCATATT
*
7441149 CAATTATAGTGTATGTAAAGGGTGTTGTCAAAGAGCCTTAAGATACAACAAATTTTATGTTTCAA
1 CAATTATAGTGTATGTAAAGGGTGTTGTCAAAGGGCCTTAAGATACAACAAATTTTATGTTTCAA
*
7441214 ATCAAAATCAAACCACTAAATACCTTTCATAAGAGCCATTCTTATACTTGGTTTTCTTCAGCAGA
66 ATCAAAATCAAACCACTAAATACCTTTCATAAGAGCCATTCTTATACTTGGTTTTCTACAGCAGA
**
7441279 CAAAGACTAAGGGACTTACATTTACTTGAGAATGATACCAAAGAGAGAAATTCAAAAATTGTATT
131 CAAAGACTAAGGGACTTACATTTACTTGAGAATGATACCAAAGAGAGTGATTCAAAAATTGTATT
*
7441344 TATTTTTTCATATT
196 TATCTTTTCATATT
*
7441358 CAATTATAGTGTATGTAAAGGGTGTGGTCAAAGGGCCTTAAGATACAACAAATTTTATGTTTCAA
1 CAATTATAGTGTATGTAAAGGGTGTTGTCAAAGGGCCTTAAGATACAACAAATTTTATGTTTCAA
7441423 ATCAAAATCAAACCACTAAATACCTTTCATAAGAGCCATTCTTATACTTGGTTTTCTACAGCAGA
66 ATCAAAATCAAACCACTAAATACCTTTCATAAGAGCCATTCTTATACTTGGTTTTCTACAGCAGA
7441488 CAAAGACTAAGGGACTTACATTTACTTGAGAATGATACCAAAGAGAGTGATTCAAAAATTGTATT
131 CAAAGACTAAGGGACTTACATTTACTTGAGAATGATACCAAAGAGAGTGATTCAAAAATTGTATT
7441553 TATCTTTTCATATT
196 TATCTTTTCATATT
7441567 C
1 C
7441568 TATGTTGGAA
Statistics
Matches: 405, Mismatches: 13, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
208 106 0.26
209 299 0.74
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (209 bp):
CAATTATAGTGTATGTAAAGGGTGTTGTCAAAGGGCCTTAAGATACAACAAATTTTATGTTTCAA
ATCAAAATCAAACCACTAAATACCTTTCATAAGAGCCATTCTTATACTTGGTTTTCTACAGCAGA
CAAAGACTAAGGGACTTACATTTACTTGAGAATGATACCAAAGAGAGTGATTCAAAAATTGTATT
TATCTTTTCATATT
Found at i:7446814 original size:65 final size:65
Alignment explanation
Indices: 7446735--7446865 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
7446725 ATAGAATAAG
7446735 AAAGAAAGAAAAATGGAATAATAAAATAGACCTCCGTATTCATGAAAATTAAGATTGAAAATTAA
1 AAAGAAAGAAAAATGGAATAATAAAATAGACCTCCGTATTCATGAAAATTAAGATTGAAAATTAA
*
7446800 AAAGAAAGAAAAATGGAATAATAAAATAGACCTTCGTATTCATGAAAATTAAGATTGAAAATTAA
1 AAAGAAAGAAAAATGGAATAATAAAATAGACCTCCGTATTCATGAAAATTAAGATTGAAAATTAA
7446865 A
1 A
7446866 TTGTAAAACT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.24
Consensus pattern (65 bp):
AAAGAAAGAAAAATGGAATAATAAAATAGACCTCCGTATTCATGAAAATTAAGATTGAAAATTAA
Found at i:7448298 original size:8 final size:8
Alignment explanation
Indices: 7448285--7448337 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
7448275 TAAAATTTAT
7448285 AAAAATAA
1 AAAAATAA
7448293 AAAAATAA
1 AAAAATAA
* *
7448301 AAATACAA
1 AAAAATAA
* *
7448309 AGATATAA
1 AAAAATAA
* *
7448317 AAAATTCA
1 AAAAATAA
7448325 AAAAATAA
1 AAAAATAA
7448333 AAAAA
1 AAAAA
7448338 ATTTGGTTGA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.15
Consensus pattern (8 bp):
AAAAATAA
Found at i:7448332 original size:16 final size:16
Alignment explanation
Indices: 7448285--7448336 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
7448275 TAAAATTTAT
7448285 AAAAATA-AAAAAAT-
1 AAAAATACAAAAAATA
*
7448299 AAAAATACAAAGATATA
1 AAAAATACAAA-AAATA
*
7448316 AAAAATTCAAAAAATA
1 AAAAATACAAAAAATA
7448332 AAAAA
1 AAAAA
7448337 AATTTGGTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 7 0.22
15 3 0.09
16 12 0.38
17 10 0.31
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.15
Consensus pattern (16 bp):
AAAAATACAAAAAATA
Found at i:7450455 original size:6 final size:6
Alignment explanation
Indices: 7450444--7450477 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
7450434 ATATGGTCAC
7450444 GTGAAT GTGAAT GTGAAT GTGAAT GTGAAT GTGA
1 GTGAAT GTGAAT GTGAAT GTGAAT GTGAAT GTGA
7450478 CACATATGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (6 bp):
GTGAAT
Found at i:7451128 original size:87 final size:87
Alignment explanation
Indices: 7451016--7451187 Score: 335
Period size: 87 Copynumber: 2.0 Consensus size: 87
7451006 TTCGCCCCAT
*
7451016 TGTTGAAATGATTAATTACCTTTGTCTGAAAAACTAGTCACTGTTGGTGGTAGGATTAGCATAAA
1 TGTTGAAATGATTAATTACCTTTGTCTGAAAAACTAGTCACTGTCGGTGGTAGGATTAGCATAAA
7451081 TCCAATGAATTATGGTACACAC
66 TCCAATGAATTATGGTACACAC
7451103 TGTTGAAATGATTAATTACCTTTGTCTGAAAAACTAGTCACTGTCGGTGGTAGGATTAGCATAAA
1 TGTTGAAATGATTAATTACCTTTGTCTGAAAAACTAGTCACTGTCGGTGGTAGGATTAGCATAAA
7451168 TCCAATGAATTATGGTACAC
66 TCCAATGAATTATGGTACAC
7451188 TTTTTTACGA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (87 bp):
TGTTGAAATGATTAATTACCTTTGTCTGAAAAACTAGTCACTGTCGGTGGTAGGATTAGCATAAA
TCCAATGAATTATGGTACACAC
Found at i:7451505 original size:27 final size:27
Alignment explanation
Indices: 7451474--7451525 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
7451464 TTAAACTTCA
7451474 ACTTTGTAATATAATTACAGCGAGGTG
1 ACTTTGTAATATAATTACAGCGAGGTG
7451501 ACTTTGTAATATAATTACAGCGAGG
1 ACTTTGTAATATAATTACAGCGAGG
7451526 CGGTACTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (27 bp):
ACTTTGTAATATAATTACAGCGAGGTG
Found at i:7454220 original size:13 final size:13
Alignment explanation
Indices: 7454204--7454239 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
7454194 TAATTCTAAA
*
7454204 TTTTGTAATTTAT
1 TTTTATAATTTAT
*
7454217 TTTTTTAATTTAT
1 TTTTATAATTTAT
7454230 TTTTATAATT
1 TTTTATAATT
7454240 GCAATTCCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTTATAATTTAT
Found at i:7469287 original size:30 final size:31
Alignment explanation
Indices: 7469230--7469288 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
7469220 GGAGGTGGGA
*
7469230 TGAGAGGGGAGTAAAAGTTTTTAGGGAAAAG
1 TGAGAGGGGAGTAAAAGTTTTGAGGGAAAAG
*
7469261 TGAGA-GGGAGTAAAAGTTTTGGGGGAAA
1 TGAGAGGGGAGTAAAAGTTTTGAGGGAAA
7469289 GTAAAAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.41, T:0.22
Consensus pattern (31 bp):
TGAGAGGGGAGTAAAAGTTTTGAGGGAAAAG
Found at i:7469587 original size:17 final size:17
Alignment explanation
Indices: 7469564--7469604 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
7469554 ACAAAAATTG
*
7469564 ATAAATATTTAACATAAT
1 ATAAATAATTAA-ATAAT
7469582 -TAAATAATTAAATAAT
1 ATAAATAATTAAATAAT
7469598 ATAAATA
1 ATAAATA
7469605 GTATAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAAATAATTAAATAAT
Found at i:7469588 original size:8 final size:8
Alignment explanation
Indices: 7469565--7469604 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
7469555 CAAAAATTGA
*
7469565 TAAATATT
1 TAAATAAT
7469573 TAACATAAT
1 TAA-ATAAT
7469582 TAAATAAT
1 TAAATAAT
7469590 TAAATAAT
1 TAAATAAT
7469598 ATAAATA
1 -TAAATA
7469605 GTATAAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 16 0.55
9 13 0.45
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (8 bp):
TAAATAAT
Found at i:7469750 original size:26 final size:26
Alignment explanation
Indices: 7469694--7469750 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
7469684 AAAGAAAAAA
7469694 AAGGGAAGTAAAAGTTTTGAGGATTC
1 AAGGGAAGTAAAAGTTTTGAGGATTC
* *
7469720 GAGGGACA-TAAAAG-TTTGAAGGATTT
1 AAGGGA-AGTAAAAGTTTTG-AGGATTC
7469746 AAGGG
1 AAGGG
7469751 GGAATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 4 0.15
26 21 0.81
27 1 0.04
ACGTcount: A:0.39, C:0.04, G:0.33, T:0.25
Consensus pattern (26 bp):
AAGGGAAGTAAAAGTTTTGAGGATTC
Found at i:7469910 original size:6 final size:6
Alignment explanation
Indices: 7469899--7469926 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7469889 AAGACATCTT
7469899 CAACTC CAACTC CAACTC CAACTC CAAC
1 CAACTC CAACTC CAACTC CAACTC CAAC
7469927 CTTTATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (6 bp):
CAACTC
Found at i:7472563 original size:3 final size:3
Alignment explanation
Indices: 7472557--7472589 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
7472547 TTTTGACGTT
7472557 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
7472590 CTCATCTGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:7480967 original size:39 final size:38
Alignment explanation
Indices: 7480900--7481034 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 38
7480890 ACCAATATGG
* *
7480900 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGTAATAGTTGA
* *
7480939 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGTAATAGTTGA
* * * * * *
7480977 TACCCGGTACCTCATCGAATCTATCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGTAATAGT--TGA
*
7481018 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
7481035 ACTCGAGGTC
Statistics
Matches: 74, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
38 18 0.24
39 37 0.50
40 4 0.05
41 15 0.20
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGTAATAGTTGA
Found at i:7482614 original size:5 final size:5
Alignment explanation
Indices: 7482596--7482626 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
7482586 TTTCTTTTAT
7482596 ATATA ATAATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA
7482627 CTTAATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:7495453 original size:21 final size:21
Alignment explanation
Indices: 7495427--7495467 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7495417 GTACATCATC
7495427 AACAGAAGCTCATAAGAGCTT
1 AACAGAAGCTCATAAGAGCTT
* *
7495448 AACAGAAGCTCGTTAGAGCT
1 AACAGAAGCTCATAAGAGCT
7495468 AATCCACCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.20
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTT
Found at i:7500976 original size:47 final size:47
Alignment explanation
Indices: 7500907--7500999 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
7500897 GAGATAGTTT
* *
7500907 TACGGCCCTTTCCGATTCCTATCACAACTTCCAAGTCACAAACACCC
1 TACGGCCCTTTCCCATTCCTATCACAACTCCCAAGTCACAAACACCC
* *
7500954 TACGGCCCTTTCCCATTCCTATCAGAACTCCCAAGTCACCAACACC
1 TACGGCCCTTTCCCATTCCTATCACAACTCCCAAGTCACAAACACC
7501000 ATCAATCTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.27, C:0.42, G:0.09, T:0.23
Consensus pattern (47 bp):
TACGGCCCTTTCCCATTCCTATCACAACTCCCAAGTCACAAACACCC
Found at i:7501563 original size:13 final size:14
Alignment explanation
Indices: 7501542--7501580 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
7501532 ATTTATTTTT
7501542 ATATAAAAATTAAA
1 ATATAAAAATTAAA
*
7501556 AT-TAAAAATAAAA
1 ATATAAAAATTAAA
7501569 ATATATAAAATT
1 ATATA-AAAATT
7501581 TAATTACGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 12 0.57
14 4 0.19
15 5 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
ATATAAAAATTAAA
Found at i:7503873 original size:22 final size:23
Alignment explanation
Indices: 7503839--7503887 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
7503829 TAAAGCTATG
*
7503839 ATTTTAATGAAAA-GTTCATTTA
1 ATTTTAATAAAAATGTTCATTTA
* * *
7503861 ATTTTATTAAAAATTTTCATTTC
1 ATTTTAATAAAAATGTTCATTTA
7503884 ATTT
1 ATTT
7503888 GGTGAGGTCC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (23 bp):
ATTTTAATAAAAATGTTCATTTA
Found at i:7505297 original size:47 final size:46
Alignment explanation
Indices: 7505210--7505298 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 46
7505200 TTAAATTGTA
* * *
7505210 TATTATTTTATTAAATTGTATTTAATAATAATTATGTTAAAACATT
1 TATTATTTTATTAAAATATATTTAATAATAATTATATTAAAACATT
7505256 TATTATTTTTATTAAAATATATTTAATAATAATCT-TATTAAAA
1 TATTA-TTTTATTAAAATATATTTAATAATAAT-TATATTAAAA
7505299 TTTAATAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
46 5 0.13
47 32 0.84
48 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (46 bp):
TATTATTTTATTAAAATATATTTAATAATAATTATATTAAAACATT
Found at i:7505408 original size:13 final size:13
Alignment explanation
Indices: 7505390--7505416 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7505380 TATAACATCT
7505390 ATACTATTTAACC
1 ATACTATTTAACC
7505403 ATACTATTTAACC
1 ATACTATTTAACC
7505416 A
1 A
7505417 AACACAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (13 bp):
ATACTATTTAACC
Found at i:7506737 original size:25 final size:25
Alignment explanation
Indices: 7506656--7506738 Score: 60
Period size: 25 Copynumber: 3.2 Consensus size: 25
7506646 AATTTCTTCC
* * *
7506656 ATTAAAACAAACGTTCACTTTCAAT
1 ATTAAAATAAACCTTCATTTTCAAT
* **
7506681 ATTAAAATAAACCCTCATATTT-TTT
1 ATTAAAATAAACCTTCAT-TTTCAAT
*
7506706 GCCATTAAAATAAACTTTCATTTTCAAT
1 ---ATTAAAATAAACCTTCATTTTCAAT
7506734 ATTAA
1 ATTAA
7506739 GAACCCAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
25 20 0.47
26 3 0.07
27 3 0.07
28 17 0.40
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.39
Consensus pattern (25 bp):
ATTAAAATAAACCTTCATTTTCAAT
Found at i:7517301 original size:23 final size:23
Alignment explanation
Indices: 7517275--7517320 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
7517265 CTAAAAACAA
7517275 GTTATAGTGAATTTATATTTGCC
1 GTTATAGTGAATTTATATTTGCC
7517298 GTTATAGTGAATTTATATTTGCC
1 GTTATAGTGAATTTATATTTGCC
7517321 TGTAGTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (23 bp):
GTTATAGTGAATTTATATTTGCC
Found at i:7530773 original size:12 final size:13
Alignment explanation
Indices: 7530750--7530781 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
7530740 TGACATAGCT
7530750 CTAACAACTACAA
1 CTAACAACTACAA
7530763 CTAAC-ACTACAA
1 CTAACAACTACAA
7530775 CT-ACAAC
1 CTAACAAC
7530782 AACCATCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 11 0.61
13 5 0.28
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (13 bp):
CTAACAACTACAA
Found at i:7540908 original size:25 final size:25
Alignment explanation
Indices: 7540877--7540925 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
7540867 CAAGCGAGCC
7540877 ATATCAGGAAGCTCACAAAGAGCTT
1 ATATCAGGAAGCTCACAAAGAGCTT
* * *
7540902 ATATCAGGATGTTCATAAAGAGCT
1 ATATCAGGAAGCTCACAAAGAGCT
7540926 GCAGCATGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (25 bp):
ATATCAGGAAGCTCACAAAGAGCTT
Found at i:7548386 original size:20 final size:20
Alignment explanation
Indices: 7548360--7548411 Score: 74
Period size: 17 Copynumber: 2.8 Consensus size: 20
7548350 AGCAATGAAT
7548360 CTGTTCACCAAGAGATACAA
1 CTGTTCACCAAGAGATACAA
*
7548380 TTGTTCA--AA-AGATACAA
1 CTGTTCACCAAGAGATACAA
7548397 CTGTTCACCAAGAGA
1 CTGTTCACCAAGAGA
7548412 CAAAACTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 14 0.52
18 2 0.07
19 2 0.07
20 9 0.33
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.23
Consensus pattern (20 bp):
CTGTTCACCAAGAGATACAA
Found at i:7565743 original size:25 final size:24
Alignment explanation
Indices: 7565694--7565743 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
7565684 AAGCATTAAC
** *
7565694 TAATTATTTACTGTATAAAATAAT
1 TAATTATTTACAATATAAAAGAAT
7565718 TAATTATTTACAAATATAAAAGAAT
1 TAATTATTTAC-AATATAAAAGAAT
7565743 T
1 T
7565744 TAGATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (24 bp):
TAATTATTTACAATATAAAAGAAT
Done.