Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 66 of 172
Found at i:21691609 original size:26 final size:26
Alignment explanation
Indices: 21691580--21691638 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
21691570 TACCCCTAGC
* * *
21691580 AAAATTTTAATGATTTTACCTTTGGT
1 AAAATTTTAACGATGTTACCTTTAGT
* *
21691606 AAAATTTTGACGATGTTGCCTTTAGT
1 AAAATTTTAACGATGTTACCTTTAGT
21691632 AAAATTT
1 AAAATTT
21691639 CAAGAAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (26 bp):
AAAATTTTAACGATGTTACCTTTAGT
Found at i:21700320 original size:27 final size:27
Alignment explanation
Indices: 21700289--21700466 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21700279 TAAATTGTAC
21700289 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21700316 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21700342 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21700370 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21700398 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21700425 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21700452 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21700467 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21700403 original size:82 final size:81
Alignment explanation
Indices: 21700290--21700445 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21700280 AAATTGTACA
* *
21700290 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21700354 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21700371 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21700436 TGCGAGTTGA
65 TGCGAATTGA
21700446 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21700457 original size:82 final size:81
Alignment explanation
Indices: 21700286--21700466 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21700276 GATTAAATTG
* *
21700286 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21700351 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21700367 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21700431 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21700449 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21700467 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21705175 original size:51 final size:48
Alignment explanation
Indices: 21705048--21705227 Score: 211
Period size: 51 Copynumber: 3.6 Consensus size: 48
21705038 ATCTGATACG
* *
21705048 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAACA-ATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACTAACATAT--GGTACA
* * *
21705097 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCTAAGTCAT-TGAGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGCGA-CTAA--CATATG-GTACA
*
21705148 CATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGAC-TAACA-TATGGTACA
*
21705198 CGTAGTAGCCTGCACTTAGTACTACACACG
1 CATAGTAGCCTGCACTTAGTACTACACACG
21705228 TGTACTCACA
Statistics
Matches: 112, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
49 32 0.29
50 38 0.34
51 39 0.35
52 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (48 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACTAACATATGGTACA
Found at i:21705229 original size:101 final size:100
Alignment explanation
Indices: 21705044--21705229 Score: 327
Period size: 101 Copynumber: 1.9 Consensus size: 100
21705034 AGCTATCTGA
*
21705044 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAGCCTG
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATACGGTACACGTAGTAGCCTG
21705109 CACTTAGTACTACACACGTGATCTAAGTCATTGAG
66 CACTTAGTACTACACACGTGATCTAAGTCATTGAG
* * *
21705144 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAATACGGTACACGTAGTAGCCT
21705209 GCACTTAGTACTACACACGTG
65 GCACTTAGTACTACACACGTG
21705230 TACTCACAAT
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
100 38 0.47
101 43 0.53
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (100 bp):
TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATACGGTACACGTAGTAGCCTG
CACTTAGTACTACACACGTGATCTAAGTCATTGAG
Found at i:21716143 original size:16 final size:17
Alignment explanation
Indices: 21716110--21716144 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
21716100 AGAAATAATA
*
21716110 ATATGTAAAATTTAAAT
1 ATATGTAAAATATAAAT
21716127 ATATGTAAAA-ATAAAT
1 ATATGTAAAATATAAAT
21716143 AT
1 AT
21716145 TAAAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (17 bp):
ATATGTAAAATATAAAT
Found at i:21720618 original size:15 final size:15
Alignment explanation
Indices: 21720593--21720625 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
21720583 AATTGTTTTC
21720593 AAAAATAAAAATAATA
1 AAAAATAAAAATAA-A
21720609 AAAAAT-AAAATAAA
1 AAAAATAAAAATAAA
21720623 AAA
1 AAA
21720626 CAAAAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 7 0.41
16 6 0.35
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAATAAAAATAAA
Found at i:21723427 original size:56 final size:56
Alignment explanation
Indices: 21723357--21723469 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 56
21723347 GAAGAATCCC
* * *
21723357 TATAATCAAGGATTGACTCAATCCTAAAGAAAGAAAGAAATAAAATCTCATCAAAT
1 TATAATCAAAGATTGACCCAATCCTAAAGAAAAAAAGAAATAAAATCTCATCAAAT
* *
21723413 TATAATTAAAGATTGACCCCATCCTAAAGAAAAAAAGAAATAAAATCTCATCAAAT
1 TATAATCAAAGATTGACCCAATCCTAAAGAAAAAAAGAAATAAAATCTCATCAAAT
21723469 T
1 T
21723470 TGTCTCAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (56 bp):
TATAATCAAAGATTGACCCAATCCTAAAGAAAAAAAGAAATAAAATCTCATCAAAT
Found at i:21724838 original size:13 final size:15
Alignment explanation
Indices: 21724820--21724851 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
21724810 TTATATACTA
21724820 TTTTATTA-A-TAGT
1 TTTTATTATATTAGT
21724833 TTTTATTATATTAGT
1 TTTTATTATATTAGT
21724848 TTTT
1 TTTT
21724852 GAATTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (15 bp):
TTTTATTATATTAGT
Found at i:21724927 original size:13 final size:13
Alignment explanation
Indices: 21724909--21724934 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21724899 TTCGTTAATC
21724909 GCCTAAATCATTT
1 GCCTAAATCATTT
21724922 GCCTAAATCATTT
1 GCCTAAATCATTT
21724935 CTATATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
GCCTAAATCATTT
Found at i:21730174 original size:47 final size:47
Alignment explanation
Indices: 21730088--21730210 Score: 135
Period size: 47 Copynumber: 2.6 Consensus size: 47
21730078 GAGATGTAAG
***
21730088 CCAGTGTAAGACATGTCTGGGACAT-GCATCGGTTATGAGATGAT-AA
1 CCAGTGTAAGACATGTCTGGGACATGGCATCAACTATGAGAT-ATGAA
* *
21730134 TCAGTGTAAGATCATGTCTGGGACATGGCATCAACT-TGAGATATGAG
1 CCAGTGTAAGA-CATGTCTGGGACATGGCATCAACTATGAGATATGAA
* *
21730181 CCAGTATAAGACCATGTCTAGGACATGGCA
1 CCAGTGTAAGA-CATGTCTGGGACATGGCA
21730211 CCGATACCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
46 12 0.18
47 47 0.72
48 6 0.09
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (47 bp):
CCAGTGTAAGACATGTCTGGGACATGGCATCAACTATGAGATATGAA
Found at i:21732920 original size:48 final size:46
Alignment explanation
Indices: 21732815--21733019 Score: 166
Period size: 46 Copynumber: 4.4 Consensus size: 46
21732805 TATGTGTGCT
* ** *
21732815 AGTGTAAGACATGTCTGGGACATGCATTAGCCAT--AGCATGA-GAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCC-TCGAG-AT-ATAAGCC
* *
21732861 AGTGTAAGACATGTTTGGGGCATGCATGGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATA--TAAGCC
* * * * * * *
21732909 AGTGTAAGACATGTCTGGGACATGCATCTGCATTGAGACGA-GAGCT
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGA-TATAAGCC
* *
21732955 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGTGATATACAAGCT
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATAT--AAGCC
*
21733003 AGTGTAAGACCTGTTTG
1 AGTGTAAGACATGTTTG
21733020 AGTCATGGCA
Statistics
Matches: 128, Mismatches: 22, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
45 3 0.02
46 66 0.52
47 2 0.02
48 56 0.44
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATAAGCC
Found at i:21732964 original size:94 final size:94
Alignment explanation
Indices: 21732815--21733118 Score: 294
Period size: 94 Copynumber: 3.2 Consensus size: 94
21732805 TATGTGTGCT
*
21732815 AGTGTAAGACATGTCTGGGACATGCATTAGCCATAGCATGAGAGCCAGTGTAAGACATGTTTGGG
1 AGTGTAAGACATGTCTGGGACATGCATTAGCCATAGCACGAGAGCCAGTGTAAGACATGTTTGGG
* * **
21732880 GCATGCATGGGCCTCGAGATATTTAAGCC
66 ACATGCATCGGCCTCGAGATATACAAGCC
*
21732909 AGTGTAAGACATGTCTGGGACATGCATCT-G-CATTGAG-ACGAGAGCTAGTGTAAGACATGTTT
1 AGTGTAAGACATGTCTGGGACATGCAT-TAGCCA-T-AGCACGAGAGCCAGTGTAAGACATGTTT
* *
21732971 GGGACATGCATCGGCCTCGTGATATACAAGCT
63 GGGACATGCATCGGCCTCGAGATATACAAGCC
* * * * * * * * *
21733003 AGTGTAAGACCTGTTTGAGTCATGGCATCAACACCAATAG-ATGAGAGCCAGTGTAAGACCTGTC
1 AGTGTAAGACATGTCTGGGACAT-GCAT-TA-GCC-ATAGCACGAGAGCCAGTGTAAGACATGTT
* **
21733067 TAGGACATGGCATCGGCCTCGCTATATGA-AAGCC
62 TGGGACAT-GCATCGGCCTCGAGATAT-ACAAGCC
*
21733101 AGTGTAACATCATGTCTG
1 AGTGTAAGA-CATGTCTG
21733119 AGGCATGGCG
Statistics
Matches: 174, Mismatches: 25, Indels: 17
0.81 0.12 0.08
Matches are distributed among these distances:
93 2 0.01
94 97 0.56
95 8 0.05
97 29 0.17
98 30 0.17
99 8 0.05
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATTAGCCATAGCACGAGAGCCAGTGTAAGACATGTTTGGG
ACATGCATCGGCCTCGAGATATACAAGCC
Found at i:21733101 original size:49 final size:47
Alignment explanation
Indices: 21732815--21733118 Score: 195
Period size: 48 Copynumber: 6.4 Consensus size: 47
21732805 TATGTGTGCT
** * * *
21732815 AGTGTAAGACATGTCTGGGACATGCATTAG-C-CATAGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTA-TATGAAAGCC
* * * * **
21732861 AGTGTAAGACATGTTTGGGGCATGCATGGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCG-TATATGAAAGCC
* * * * * * *
21732909 AGTGTAAGACATGTCTGGGACATGCATCTGCATTG-AGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTATATGAAAGCC
* *
21732955 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGTGATAT-ACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGT-ATATGA-AAGCC
* * * * ** * * *
21733003 AGTGTAAGACCTGTTTGAGTCATGGCATCAACAC-CAATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGC-CTC-GTATATGAAAGCC
* *
21733052 AGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCGCTATATGAAAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG-TATATGAAAGCC
*
21733101 AGTGTAACATCATGTCTG
1 AGTGTAAGA-CATGTCTG
21733119 AGGCATGGCG
Statistics
Matches: 195, Mismatches: 50, Indels: 22
0.73 0.19 0.08
Matches are distributed among these distances:
46 62 0.32
47 2 0.01
48 63 0.32
49 59 0.30
50 9 0.05
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTATATGAAAGCC
Found at i:21734791 original size:14 final size:14
Alignment explanation
Indices: 21734772--21734803 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
21734762 GGCTCCCGCT
21734772 GACCTCATCTAAGA
1 GACCTCATCTAAGA
21734786 GACCTCATCTAAGA
1 GACCTCATCTAAGA
21734800 GACC
1 GACC
21734804 GAGAGAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.31, G:0.16, T:0.19
Consensus pattern (14 bp):
GACCTCATCTAAGA
Found at i:21739469 original size:30 final size:30
Alignment explanation
Indices: 21739430--21739486 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
21739420 ATCGATTTTC
**
21739430 AAGTATAGGGTTAAAATGGTCATTTTGTGA
1 AAGTATAGGGGCAAAATGGTCATTTTGTGA
*
21739460 AAGTCTAGGGGCAAAATGGTCATTTTG
1 AAGTATAGGGGCAAAATGGTCATTTTG
21739487 CCCAATTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.07, G:0.28, T:0.33
Consensus pattern (30 bp):
AAGTATAGGGGCAAAATGGTCATTTTGTGA
Found at i:21739881 original size:48 final size:45
Alignment explanation
Indices: 21739824--21739992 Score: 144
Period size: 48 Copynumber: 3.6 Consensus size: 45
21739814 TGATATGTGT
* *
21739824 GCTAATGTAAGACATGTCTGGGACATGCATGGGACTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCAT-CGACTCGAGATA--TAA
* * * * * * *
21739872 GCCAGTGTAAGACATATCTAGGAAATGCATCTG-CATTGAGACGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GAC-TCGAGA-TATAA
* *
21739918 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCTCGTGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGA-CTCGAGATAT--AA
21739966 GCTAGTGTAAGACATGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
21739993 GCGTTAGCTT
Statistics
Matches: 95, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
45 1 0.01
46 32 0.34
47 2 0.02
48 59 0.62
49 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACTCGAGATATAA
Found at i:21739946 original size:46 final size:46
Alignment explanation
Indices: 21739870--21739992 Score: 124
Period size: 46 Copynumber: 2.6 Consensus size: 46
21739860 CGAGATATTT
* * * * **
21739870 AAGCCAGTGTAAGACATATCTAGGAAATGCATCTGCAT-TG-AGAC
1 AAGCTAGTGTAAGACATGTCTGGGACATGCATCAACATCTGAAGAC
* *
21739914 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAACCTCGTGATATAC
1 -A-AGCTAGTGTAAGACATGTCTGGGACATGCATCAACATC-TGA-AGAC
21739964 AAGCTAGTGTAAGACATGTCTGGGACATG
1 AAGCTAGTGTAAGACATGTCTGGGACATG
21739993 GCGTTAGCTT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
45 1 0.02
46 30 0.46
48 30 0.46
49 1 0.02
50 3 0.05
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (46 bp):
AAGCTAGTGTAAGACATGTCTGGGACATGCATCAACATCTGAAGAC
Found at i:21744403 original size:24 final size:21
Alignment explanation
Indices: 21744357--21744397 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
21744347 CTGCTCTGCT
21744357 CTGCCTCCCTCGCTGCTGCCG
1 CTGCCTCCCTCGCTGCTGCCG
*
21744378 CTGCCTCCCTCTCTGCTGCC
1 CTGCCTCCCTCGCTGCTGCC
21744398 TCCGCTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.54, G:0.20, T:0.27
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCTGCCG
Found at i:21748690 original size:259 final size:259
Alignment explanation
Indices: 21748226--21748743 Score: 1018
Period size: 259 Copynumber: 2.0 Consensus size: 259
21748216 TCAGGAGCTC
*
21748226 CTCTGTACTCTTCAGTACCGTCAAATAGAGTCCTCTGAAATCTAAATTTATGATTTCCATCTAAC
1 CTCTATACTCTTCAGTACCGTCAAATAGAGTCCTCTGAAATCTAAATTTATGATTTCCATCTAAC
21748291 CACCGACGATGGACCATGTAAGAGAACTTCTTCCCATTATACAACCACTTCGAACAAGTTTGTGC
66 CACCGACGATGGACCATGTAAGAGAACTTCTTCCCATTATACAACCACTTCGAACAAGTTTGTGC
21748356 AACACAACAAGGACAGACATAACGTCCTTTAGTACTCCAACCCGATAAATTAGCATAAGCCGGGA
131 AACACAACAAGGACAGACATAACGTCCTTTAGTACTCCAACCCGATAAATTAGCATAAGCCGGGA
21748421 AATCATTAATTGTCCATATAAAGCTGCACGTAAATTAAAGTTCTCCTTTCTTAATACATCATAG
196 AATCATTAATTGTCCATATAAAGCTGCACGTAAATTAAAGTTCTCCTTTCTTAATACATCATAG
*
21748485 CTCTATACTCTTCAGTACCGTCAAATAGAGTTCTCTGAAATCTAAATTTATGATTTCCATCTAAC
1 CTCTATACTCTTCAGTACCGTCAAATAGAGTCCTCTGAAATCTAAATTTATGATTTCCATCTAAC
21748550 CACCGACGATGGACCATGTAAGAGAACTTCTTCCCATTATACAACCACTTCGAACAAGTTTGTGC
66 CACCGACGATGGACCATGTAAGAGAACTTCTTCCCATTATACAACCACTTCGAACAAGTTTGTGC
21748615 AACACAACAAGGACAGACATAACGTCCTTTAGTACTCCAACCCGATAAATTAGCATAAGCCGGGA
131 AACACAACAAGGACAGACATAACGTCCTTTAGTACTCCAACCCGATAAATTAGCATAAGCCGGGA
21748680 AATCATTAATTGTCCATATAAAGCTGCACGTAAATTAAAGTTCTCCTTTCTTAATACATCATAG
196 AATCATTAATTGTCCATATAAAGCTGCACGTAAATTAAAGTTCTCCTTTCTTAATACATCATAG
21748744 GTCTCAACAC
Statistics
Matches: 257, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
259 257 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.28
Consensus pattern (259 bp):
CTCTATACTCTTCAGTACCGTCAAATAGAGTCCTCTGAAATCTAAATTTATGATTTCCATCTAAC
CACCGACGATGGACCATGTAAGAGAACTTCTTCCCATTATACAACCACTTCGAACAAGTTTGTGC
AACACAACAAGGACAGACATAACGTCCTTTAGTACTCCAACCCGATAAATTAGCATAAGCCGGGA
AATCATTAATTGTCCATATAAAGCTGCACGTAAATTAAAGTTCTCCTTTCTTAATACATCATAG
Found at i:21750156 original size:34 final size:34
Alignment explanation
Indices: 21750092--21750158 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
21750082 GTACAATTAA
* *
21750092 GTTATGTAAGTTATGATATGATATATAGTTATGT
1 GTTATGTAACTTATGAAATGATATATAGTTATGT
* *
21750126 GTTATGTAACTTATGTAAATTATGTA-AGTTATG
1 GTTATGTAACTTATG-AAATGATATATAGTTATG
21750159 AAATTTGATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 21 0.75
35 7 0.25
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.46
Consensus pattern (34 bp):
GTTATGTAACTTATGAAATGATATATAGTTATGT
Found at i:21750221 original size:62 final size:62
Alignment explanation
Indices: 21750144--21750384 Score: 437
Period size: 62 Copynumber: 3.9 Consensus size: 62
21750134 ACTTATGTAA
21750144 ATTATGTAAGTTATGAAATTTGATCTCTAAATTATGTAAGTCATGTATTATGTAAGATATGT
1 ATTATGTAAGTTATGAAATTTGATCTCTAAATTATGTAAGTCATGTATTATGTAAGATATGT
21750206 ATTATGTAAGTTATGAAATTTGATCTCTAAATTATGTAAGTCATGTATTATGTAAGATATGT
1 ATTATGTAAGTTATGAAATTTGATCTCTAAATTATGTAAGTCATGTATTATGTAAGATATGT
21750268 ATTATGTAAGTTATGAAATTTGATCTCTAAATTATGTAAGTCATGTATTATGTAAGATATGT
1 ATTATGTAAGTTATGAAATTTGATCTCTAAATTATGTAAGTCATGTATTATGTAAGATATGT
** * * *
21750330 ATTATGTAAGTTATGAAATTCAAACTTTAAATTATGTAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATGAAATTTGATCTCTAAATTATGTAAGTCATGTATTATGTAA
21750385 ATTAAGTAAA
Statistics
Matches: 174, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 174 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (62 bp):
ATTATGTAAGTTATGAAATTTGATCTCTAAATTATGTAAGTCATGTATTATGTAAGATATGT
Found at i:21750344 original size:16 final size:16
Alignment explanation
Indices: 21750093--21750384 Score: 135
Period size: 16 Copynumber: 18.5 Consensus size: 16
21750083 TACAATTAAG
21750093 TTATGTAAGTTATGATA
1 TTATGTAAGTTATG-TA
* * *
21750110 TGATATATAGTTATGTG
1 TTATGTA-AGTTATGTA
*
21750127 TTATGTAACTTATGTAAA
1 TTATGTAAGTTATGT--A
*
21750145 TTATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
* **
21750162 TT-TG--A-TCTCTAAA
1 TTATGTAAGT-TATGTA
*
21750175 TTATGTAAGTCATGTA
1 TTATGTAAGTTATGTA
*
21750191 TTATGTAAGATATGTA
1 TTATGTAAGTTATGTA
*
21750207 TTATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
* **
21750224 TT-TG--A-TCTCTAAA
1 TTATGTAAGT-TATGTA
*
21750237 TTATGTAAGTCATGTA
1 TTATGTAAGTTATGTA
*
21750253 TTATGTAAGATATGTA
1 TTATGTAAGTTATGTA
*
21750269 TTATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
* **
21750286 TT-TG--A-TCTCTAAA
1 TTATGTAAGT-TATGTA
*
21750299 TTATGTAAGTCATGTA
1 TTATGTAAGTTATGTA
*
21750315 TTATGTAAGATATGTA
1 TTATGTAAGTTATGTA
*
21750331 TTATGTAAGTTATGAA
1 TTATGTAAGTTATGTA
* ** * **
21750347 AT-TCAAACTT-TAAA
1 TTATGTAAGTTATGTA
21750361 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
21750377 TTATGTAA
1 TTATGTAA
21750385 ATTAAGTAAA
Statistics
Matches: 202, Mismatches: 50, Indels: 47
0.68 0.17 0.16
Matches are distributed among these distances:
13 15 0.07
14 19 0.09
15 10 0.05
16 115 0.57
17 23 0.11
18 20 0.10
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:21750606 original size:99 final size:99
Alignment explanation
Indices: 21750510--21750782 Score: 492
Period size: 99 Copynumber: 2.8 Consensus size: 99
21750500 AATAAAATAG
21750510 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
21750575 ATTGAAAATATTTTTCGTGATTCAAAAAAAATGA
66 ATTGAAAATATTTTTCGTGATTCAAAAAAAATGA
* *
21750609 AATATTTACAATAAAACTTTGAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
* **
21750674 ATTGAAATTATTTTTCGTGATTCAAATTAAATGA
66 ATTGAAAATATTTTTCGTGATTCAAAAAAAATGA
21750708 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
*
21750773 ATTTAAAATA
66 ATTGAAAATA
21750783 AAATAAAATG
Statistics
Matches: 165, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 165 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.38
Consensus pattern (99 bp):
AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
ATTGAAAATATTTTTCGTGATTCAAAAAAAATGA
Found at i:21750773 original size:62 final size:60
Alignment explanation
Indices: 21750697--21750889 Score: 202
Period size: 62 Copynumber: 3.2 Consensus size: 60
21750687 TTCGTGATTC
* *
21750697 AAATTAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATA-AATTTAATTTAATTAGGTAAT-TTA
* * * * *
21750759 AAATAAAATAAAATATTTAAAATAAAA--TAAAATGTTAAAATT-ATTT--TT-CGTGATTCA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAA---TAAATTTAATTTAATTAGGTAATTTA
*
21750816 AAA-AAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAATTTGA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATA-AATTTAATTTAATTAGGTAATTT-A
21750877 AAATAAAATAAAA
1 AAATAAAATAAAA
21750890 GATAACAAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
55 2 0.02
56 26 0.25
57 9 0.08
58 8 0.08
59 4 0.04
60 9 0.08
61 8 0.08
62 38 0.36
63 2 0.02
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (60 bp):
AAATAAAATAAAATATTTAAAATAAAACTTTAAATAAATTTAATTTAATTAGGTAATTTA
Found at i:21750805 original size:118 final size:118
Alignment explanation
Indices: 21750657--21750889 Score: 387
Period size: 118 Copynumber: 2.0 Consensus size: 118
21750647 TTAGGTAATG
* ** *
21750657 TTAAAATAAAATAAAATATTGAAATTATTTTTCGTGATTCAAATTAAATGAAATATTTAAAATAA
1 TTAAAATAAAATAAAATATTAAAATTATTTTTCGTGATTCAAAAAAAATAAAATATTTAAAATAA
21750722 AACTTTAAATACAATTTAATTTAATTAGGTAATGTT-AAAATAAAATAAAATAT
66 AACTTTAAATACAATTTAATTTAATTAGGTAAT-TTGAAAATAAAATAAAATAT
* *
21750775 TTAAAATAAAATAAAATGTTAAAATTATTTTTCGTGATTCAAAAAAAATAAAATATTTAAAATGA
1 TTAAAATAAAATAAAATATTAAAATTATTTTTCGTGATTCAAAAAAAATAAAATATTTAAAATAA
*
21750840 AACTTTAAATATAATTTAATTTAATTAGGTAATTTGAAAATAAAATAAAA
66 AACTTTAAATACAATTTAATTTAATTAGGTAATTTGAAAATAAAATAAAA
21750890 GATAACAAAA
Statistics
Matches: 107, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
117 2 0.02
118 105 0.98
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (118 bp):
TTAAAATAAAATAAAATATTAAAATTATTTTTCGTGATTCAAAAAAAATAAAATATTTAAAATAA
AACTTTAAATACAATTTAATTTAATTAGGTAATTTGAAAATAAAATAAAATAT
Found at i:21753836 original size:12 final size:12
Alignment explanation
Indices: 21753819--21753844 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21753809 CAAGTTAAAT
21753819 TAAGTCACCAAA
1 TAAGTCACCAAA
21753831 TAAGTCACCAAA
1 TAAGTCACCAAA
21753843 TA
1 TA
21753845 TGCAAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.23, G:0.08, T:0.19
Consensus pattern (12 bp):
TAAGTCACCAAA
Found at i:21756733 original size:40 final size:40
Alignment explanation
Indices: 21756648--21756733 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
21756638 CTTTTGAGGT
* * * *
21756648 GATCTTTAGCGGCGTTTTTCAGAAAGCGCTGCTAATGCTC
1 GATCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGATC
*
21756688 TATCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGATC
1 GATCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGATC
21756728 GATCTT
1 GATCTT
21756734 CTAAATAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (40 bp):
GATCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGATC
Found at i:21757911 original size:40 final size:40
Alignment explanation
Indices: 21757826--21757911 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
21757816 CTTTTGAGGT
* * * *
21757826 GATCTTTAGCGGCGTTTTTCAGAAAGCGCTGCTAATGCTC
1 GATCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGATC
*
21757866 TATCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGATC
1 GATCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGATC
21757906 GATCTT
1 GATCTT
21757912 CTAAATAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (40 bp):
GATCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGATC
Found at i:21758103 original size:94 final size:95
Alignment explanation
Indices: 21757928--21758110 Score: 244
Period size: 94 Copynumber: 1.9 Consensus size: 95
21757918 AAAGGGCGAT
* * * *
21757928 GTCGTTTTGGTCAACTATTTTTTGCGGTGCTTTTCAGAAAACGCCGCTAATGCTTGACATTTAGC
1 GTCGTTTTGGTCAACTATTTATTGCGGCGCTTTTCAAAAAACGCCACTAATGCTTGACATTTAGC
* ** *
21757993 GGTGCTTTTTTAAAAACGCTGCTAAAGATC
66 AGTGCTTTTGGAAAAACGCCGCTAAAGATC
* *
21758023 GTCGTTTTGTTCAACT-TTTATTGCGGCGCTTTTTAAAAAACGCCACTAATGCTTGATC-TTTAG
1 GTCGTTTTGGTCAACTATTTATTGCGGCGCTTTTCAAAAAACGCCACTAATGCTTGA-CATTTAG
*
21758086 CAGTGCTTTTGGGAAAACGCCGCTA
65 CAGTGCTTTTGGAAAAACGCCGCTA
21758111 CTGCTTTATC
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
94 60 0.79
95 16 0.21
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (95 bp):
GTCGTTTTGGTCAACTATTTATTGCGGCGCTTTTCAAAAAACGCCACTAATGCTTGACATTTAGC
AGTGCTTTTGGAAAAACGCCGCTAAAGATC
Found at i:21758167 original size:40 final size:40
Alignment explanation
Indices: 21758045--21758192 Score: 172
Period size: 40 Copynumber: 3.7 Consensus size: 40
21758035 AACTTTTATT
** * *
21758045 GCGGCGCTTTTTAAAAAACGCCACTAATGCTTGATCTTTA
1 GCGGCGCTTTTGGAAAAACGCCGCTAATGCTTTATCTTTA
* * * *
21758085 GCAGTGCTTTTGGGAAAACGCCGCTACTGCTTTATCTTTA
1 GCGGCGCTTTTGGAAAAACGCCGCTAATGCTTTATCTTTA
*
21758125 GCGGCGCTTTTGGTAAAACGCCGCTAATGCTTTATCTTTA
1 GCGGCGCTTTTGGAAAAACGCCGCTAATGCTTTATCTTTA
* * *
21758165 GCGGC-ATTTTCGAAAAAGCGCTGCTAAT
1 GCGGCGCTTTTGGAAAAA-CGCCGCTAAT
21758193 TCTCGATCTA
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 9 0.10
40 82 0.90
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (40 bp):
GCGGCGCTTTTGGAAAAACGCCGCTAATGCTTTATCTTTA
Found at i:21758209 original size:80 final size:80
Alignment explanation
Indices: 21758041--21758210 Score: 184
Period size: 80 Copynumber: 2.1 Consensus size: 80
21758031 GTTCAACTTT
* * *
21758041 TATTGCGGCGCTTTTTAAAAAACGCCACTAATGCTTGATCTTTAGCAGTGCTTTTGGGAAAACGC
1 TATTGCGGCGCTTTTGAAAAAACGCCACTAATGCTTGATCTTTAGCAGTGCTTTTCGAAAAACGC
* **
21758106 CGCTACTGCTTTATC
66 CGCTAATGCTCGATC
** * *
21758121 T-TTAGCGGCGCTTTTGGTAAAACGCCGCTAATGCTTTATCTTTAGC-G-GCATTTTCGAAAAAG
1 TATT-GCGGCGCTTTTGAAAAAACGCCACTAATGCTTGATCTTTAGCAGTGC-TTTTCGAAAAA-
* *
21758183 CGCTGCTAATTCTCGATC
63 CGCCGCTAATGCTCGATC
21758201 TATTGCGGCG
1 TATTGCGGCG
21758211 TTTGTTTCAT
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
78 2 0.03
79 12 0.16
80 58 0.78
81 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (80 bp):
TATTGCGGCGCTTTTGAAAAAACGCCACTAATGCTTGATCTTTAGCAGTGCTTTTCGAAAAACGC
CGCTAATGCTCGATC
Found at i:21758232 original size:41 final size:41
Alignment explanation
Indices: 21758187--21758268 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
21758177 AAAAAGCGCT
* *
21758187 GCTAATTCTCGATCTATTGCGGCGTTTGTT-TCATAAACGCC
1 GCTAATTCTCGACCTATTGCGGCGTTT-TTGTCACAAACGCC
* *
21758228 GCTAATTCTTGACCTTTTGCGGCGTTTTTGTCACAAACGCC
1 GCTAATTCTCGACCTATTGCGGCGTTTTTGTCACAAACGCC
21758269 ACTATAACTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 2 0.06
41 34 0.94
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.37
Consensus pattern (41 bp):
GCTAATTCTCGACCTATTGCGGCGTTTTTGTCACAAACGCC
Found at i:21761867 original size:20 final size:20
Alignment explanation
Indices: 21761842--21761892 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
21761832 TATCAAAATA
*
21761842 ACACGGGCGTGTACCTGTAT
1 ACACGGGCGTGAACCTGTAT
21761862 ACACGGGCGTGAACCTGTAT
1 ACACGGGCGTGAACCTGTAT
21761882 ACACGGGCGTG
1 ACACGGGCGTG
21761893 GGAGAAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.33, T:0.20
Consensus pattern (20 bp):
ACACGGGCGTGAACCTGTAT
Found at i:21768009 original size:22 final size:22
Alignment explanation
Indices: 21767978--21768032 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
21767968 GAATAGTACC
21767978 ACACGCCCGTGTGGCTTG-TGTG
1 ACACGCCCGTGTGGC-TGATGTG
*
21768000 ACACGTCCGTGTGGCTGATGTG
1 ACACGCCCGTGTGGCTGATGTG
21768022 ACACGCCCGTG
1 ACACGCCCGTG
21768033 AAGGGCTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.13, C:0.29, G:0.35, T:0.24
Consensus pattern (22 bp):
ACACGCCCGTGTGGCTGATGTG
Found at i:21782005 original size:32 final size:32
Alignment explanation
Indices: 21781960--21782023 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
21781950 CGGAGCGTGG
21781960 ATTAACTCCAGTCTCCTATCAGGTGTGTATTT
1 ATTAACTCCAGTCTCCTATCAGGTGTGTATTT
*
21781992 ATTAACTCTAGTCTCCTATCAGGTGTGTATTT
1 ATTAACTCCAGTCTCCTATCAGGTGTGTATTT
21782024 CTCACTACTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (32 bp):
ATTAACTCCAGTCTCCTATCAGGTGTGTATTT
Found at i:21782312 original size:27 final size:27
Alignment explanation
Indices: 21782281--21782354 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
21782271 TTAGTTTACC
**
21782281 AAATTACTGAAATACCCTC-GACTTGTA
1 AAATTACCAAAATACCC-CTGACTTGTA
**
21782308 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGACTTGTA
21782335 AAATTACCAAAATACCCCTG
1 AAATTACCAAAATACCCCTG
21782355 TAGGGTAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.02
27 41 0.98
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.27
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGACTTGTA
Found at i:21782366 original size:27 final size:27
Alignment explanation
Indices: 21782309--21782513 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
21782299 CGACTTGTAA
* ** *
21782309 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
*
21782336 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
21782363 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
21782390 AGTTAGCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
21782417 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
21782444 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
21782471 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
21782498 AATTACCGAGATACCC
1 AATTACCGAAATACCC
21782514 TTGTGGGCAA
Statistics
Matches: 154, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 2 0.01
27 152 0.99
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:21782640 original size:16 final size:16
Alignment explanation
Indices: 21782619--21782649 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21782609 CAAATATGGG
*
21782619 CATGACATTTTGCATA
1 CATGACATGTTGCATA
21782635 CATGACATGTTGCAT
1 CATGACATGTTGCAT
21782650 GGGTGGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:21786724 original size:19 final size:20
Alignment explanation
Indices: 21786690--21786727 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
21786680 AGTCCTTACA
21786690 CTAAATTAACCTTAATTAAG
1 CTAAATTAACCTTAATTAAG
*
21786710 CTAAATTTA-CTTAATTAA
1 CTAAATTAACCTTAATTAA
21786728 AATCTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (20 bp):
CTAAATTAACCTTAATTAAG
Found at i:21794114 original size:20 final size:21
Alignment explanation
Indices: 21794089--21794139 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
21794079 GTCCTTACAT
21794089 TAAATTAACCTTAATT-AATC
1 TAAATTAACCTTAATTAAATC
*
21794109 TAAATTTA-CTTAATTAAAATC
1 TAAATTAACCTTAATT-AAATC
21794130 T-AATTAACCT
1 TAAATTAACCT
21794140 CTCACTTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 7 0.27
20 12 0.46
21 7 0.27
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAATTAACCTTAATTAAATC
Found at i:21798269 original size:47 final size:46
Alignment explanation
Indices: 21798183--21798282 Score: 114
Period size: 47 Copynumber: 2.2 Consensus size: 46
21798173 TATCTTAATC
* *
21798183 TAAGACACATTAAAAAGCTGTACTTATTATAACATATTAATTAAACT
1 TAAGACACATTAAAAAGCTGTACATAATATAACATATTAA-TAAACT
* * *
21798230 TAAGACACATTAAAATGTTGTA-ATAAT-TAACATGCATTAATAGACT
1 TAAGACACATTAAAAAGCTGTACATAATATAACAT--ATTAATAAACT
21798276 TAAGACA
1 TAAGACA
21798283 TATTTAAGAC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
45 6 0.13
46 15 0.33
47 25 0.54
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (46 bp):
TAAGACACATTAAAAAGCTGTACATAATATAACATATTAATAAACT
Found at i:21802387 original size:10 final size:10
Alignment explanation
Indices: 21802289--21802553 Score: 86
Period size: 10 Copynumber: 27.8 Consensus size: 10
21802279 TATAAAAGTC
21802289 ATAAAAAA-T
1 ATAAAAAATT
*
21802298 AT-AAAAATC
1 ATAAAAAATT
*
21802307 ATAAAATATT
1 ATAAAAAATT
*
21802317 AGTAAAATATT
1 A-TAAAAAATT
21802328 -TAAAAAAATT
1 AT-AAAAAATT
* **
21802338 TTAAAAAGCT
1 ATAAAAAATT
*
21802348 ATAAAATA-T
1 ATAAAAAATT
* *
21802357 ATTAAAGATT
1 ATAAAAAATT
21802367 -TAGATAAAATT
1 ATA-A-AAAATT
21802378 ATAAAAAATT
1 ATAAAAAATT
* *
21802388 CATAGAAACTT
1 -ATAAAAAATT
* **
21802399 AT-TAATTTT
1 ATAAAAAATT
*
21802408 ATAAAAACTT
1 ATAAAAAATT
21802418 AT-AAAAATT
1 ATAAAAAATT
*
21802427 ATAAACAA-T
1 ATAAAAAATT
* *
21802436 CTAATAAATT
1 ATAAAAAATT
21802446 ATAAAAAAATT
1 AT-AAAAAATT
21802457 -T-AAAAATT
1 ATAAAAAATT
21802465 CAT-AAAAATT
1 -ATAAAAAATT
* **
21802475 GT-AAGTATT
1 ATAAAAAATT
*
21802484 ATAATAAATT
1 ATAAAAAATT
*
21802494 AT-AAAAGTT
1 ATAAAAAATT
*
21802503 ATAATAAATT
1 ATAAAAAATT
21802513 AT-----ATT
1 ATAAAAAATT
*
21802518 ATGAAAAATT
1 ATAAAAAATT
21802528 -T-AAAAA-T
1 ATAAAAAATT
21802535 ATATAAAAATT
1 ATA-AAAAATT
21802546 ATAAAAAA
1 ATAAAAAA
21802554 GTCATTTATT
Statistics
Matches: 190, Mismatches: 39, Indels: 53
0.67 0.14 0.19
Matches are distributed among these distances:
5 5 0.03
7 1 0.01
8 18 0.09
9 48 0.25
10 81 0.43
11 35 0.18
12 2 0.01
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:21802428 original size:19 final size:18
Alignment explanation
Indices: 21802278--21802552 Score: 134
Period size: 19 Copynumber: 14.5 Consensus size: 18
21802268 TTCATTTTTC
* *
21802278 TTATAAAAGTCATAAAAA
1 TTATAAAAATTATAAAAA
* *
21802296 ATATAAAAATCATAAAATA
1 TTATAAAAATTATAAAA-A
*
21802315 TTAGTAAAATATTTAAAAAAA
1 TTA-TAAAA-A-TTATAAAAA
* *
21802336 TTTTAAAAAGCTAT-AAAA
1 TTATAAAAA-TTATAAAAA
* *
21802354 TATATTAAAGATTTAGATAAAA
1 T-TA-TAAA-AATTATA-AAAA
*
21802376 TTATAAAAAATTCATAGAAAC
1 TTAT-AAAAATT-ATA-AAAA
* **
21802397 TTATTAATTTTATAAAAA
1 TTATAAAAATTATAAAAA
21802415 CTTATAAAAATTATAAACAA
1 -TTATAAAAATTATAAA-AA
*
21802435 TCTA-ATAAATTATAAAAAAA
1 T-TATAAAAATTAT--AAAAA
21802455 TT-TAAAAATTCATAAAAA
1 TTATAAAAATT-ATAAAAA
* **
21802473 TTGTAAGTATTATAATAAA
1 TTATAAAAATTATAA-AAA
*
21802492 TTATAAAAGTTATAATAAA
1 TTATAAAAATTATAA-AAA
21802511 TTAT----ATTATGAAAAA
1 TTATAAAAATTAT-AAAAA
21802526 TT-TAAAAATATATAAAAA
1 TTATAAAAAT-TATAAAAA
21802544 TTATAAAAA
1 TTATAAAAA
21802553 AGTCATTTAT
Statistics
Matches: 197, Mismatches: 33, Indels: 53
0.70 0.12 0.19
Matches are distributed among these distances:
14 1 0.01
15 9 0.05
16 2 0.01
18 43 0.22
19 76 0.39
20 33 0.17
21 22 0.11
22 11 0.06
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (18 bp):
TTATAAAAATTATAAAAA
Found at i:21802527 original size:34 final size:33
Alignment explanation
Indices: 21802443--21802548 Score: 92
Period size: 34 Copynumber: 3.0 Consensus size: 33
21802433 AATCTAATAA
*
21802443 ATTATAAAAAAATTTAAAAAT-TCATAAAAATTGTAAGT
1 ATTAT-AATAAATTTAAAAATAT-ATAAAAA-T-T-A-T
*
21802481 ATTATAATAAATTATAAAAGT-TATAATAAATTAT
1 ATTATAATAAATT-TAAAAATATATAA-AAATTAT
21802515 ATTATGAA-AAATTTAAAAATATATAAAAATTAT
1 ATTAT-AATAAATTTAAAAATATATAAAAATTAT
21802548 A
1 A
21802549 AAAAAGTCAT
Statistics
Matches: 61, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
33 14 0.23
34 16 0.26
35 3 0.05
36 1 0.02
37 12 0.20
38 15 0.25
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (33 bp):
ATTATAATAAATTTAAAAATATATAAAAATTAT
Found at i:21802552 original size:9 final size:9
Alignment explanation
Indices: 21802278--21802552 Score: 134
Period size: 9 Copynumber: 29.0 Consensus size: 9
21802268 TTCATTTTTC
*
21802278 TTATAAAAG
1 TTATAAAAA
*
21802287 TCATAAAAA
1 TTATAAAAA
*
21802296 ATATAAAAA
1 TTATAAAAA
*
21802305 TCATAAAATA
1 TTATAAAA-A
21802315 TTAGTAAAATA
1 TTA-TAAAA-A
*
21802326 TTTAAAAAAA
1 -TTATAAAAA
*
21802336 TTTTAAAAA
1 TTATAAAAA
*
21802345 GCTAT-AAAA
1 -TTATAAAAA
*
21802354 TATATTAAAGAT
1 T-TA-TAAA-AA
*
21802366 TTAGATAAAA
1 TTATA-AAAA
21802376 TTATAAAAAA
1 TTAT-AAAAA
*
21802386 TTCATAGAAAC
1 TT-ATA-AAAA
* **
21802397 TTATTAATT
1 TTATAAAAA
21802406 TTATAAAAA
1 TTATAAAAA
21802415 CTTATAAAAA
1 -TTATAAAAA
21802425 TTATAAACAA
1 TTATAAA-AA
*
21802435 TCTA-ATAAA
1 T-TATAAAAA
21802444 TTATAAAAAAA
1 TTAT--AAAAA
21802455 TT-TAAAAA
1 TTATAAAAA
21802463 TTCATAAAAA
1 TT-ATAAAAA
* **
21802473 TTGTAAGTA
1 TTATAAAAA
21802482 TTATAATAAA
1 TTATAA-AAA
*
21802492 TTATAAAAG
1 TTATAAAAA
21802501 TTATAATAAA
1 TTATAA-AAA
21802511 TTAT----A
1 TTATAAAAA
21802516 TTATGAAAAA
1 TTAT-AAAAA
21802526 TT-TAAAAA
1 TTATAAAAA
21802534 TATATAAAAA
1 T-TATAAAAA
21802544 TTATAAAAA
1 TTATAAAAA
21802553 AGTCATTTAT
Statistics
Matches: 203, Mismatches: 34, Indels: 58
0.69 0.12 0.20
Matches are distributed among these distances:
5 5 0.02
8 15 0.07
9 78 0.38
10 67 0.33
11 33 0.16
12 5 0.02
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (9 bp):
TTATAAAAA
Found at i:21811729 original size:43 final size:42
Alignment explanation
Indices: 21811650--21811807 Score: 183
Period size: 42 Copynumber: 3.7 Consensus size: 42
21811640 AGTACCAAAC
* * *
21811650 CAATGCCATATCCCAGATATGGTCTTACATGTAAATCTCGTAT
1 CAATGCCATAGCCCAGATATGGTCTTACACG-AAATCTCATAT
*
21811693 CAATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATAT
1 CAATGCC-ATAGCCCAGATATGGTCTTACACGAAATCTCATAT
* * * * *
21811736 CGATGCCATAGCTCAGAGATTGTCTTGCACGAAATCTCATAAT
1 CAATGCCATAGCCCAGATATGGTCTTACACGAAATCTCAT-AT
* *
21811779 -GATGCCATATCCCAGATATGGTCTTACAC
1 CAATGCCATAGCCCAGATATGGTCTTACAC
21811808 ATAGTCTCGA
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 52 0.53
43 25 0.26
44 21 0.21
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (42 bp):
CAATGCCATAGCCCAGATATGGTCTTACACGAAATCTCATAT
Found at i:21813933 original size:40 final size:40
Alignment explanation
Indices: 21813835--21814177 Score: 451
Period size: 40 Copynumber: 8.6 Consensus size: 40
21813825 TCCTCGTTCA
* * * ** *
21813835 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
21813874 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
21813914 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
21813954 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
21813994 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
21814034 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
21814074 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
21814114 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
21814154 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21814178 CAGCATTCAA
Statistics
Matches: 279, Mismatches: 20, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
39 37 0.13
40 234 0.84
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:21834862 original size:25 final size:24
Alignment explanation
Indices: 21834834--21834885 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
21834824 ATTCTAACAT
21834834 TATATTAAATT-GATAATAATTAATA
1 TATATTAAATTGGAT-ATAATT-ATA
*
21834859 TATATTATATTGGATATAATTATA
1 TATATTAAATTGGATATAATTATA
21834883 TAT
1 TAT
21834886 TAATAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 6 0.24
25 16 0.64
26 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (24 bp):
TATATTAAATTGGATATAATTATA
Found at i:21835003 original size:31 final size:30
Alignment explanation
Indices: 21834941--21835001 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
21834931 AATGCCTGAA
* * *
21834941 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAAAGGCAACCAATTTTT
21834971 AATATTTACAAAAAAAGAGCAACCAGATTTT
1 AATATTTACAAAAAAAG-GCAACCA-ATTTT
21835002 AAAAATTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 16 0.62
31 5 0.19
32 5 0.19
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAAAGGCAACCAATTTTT
Found at i:21846199 original size:25 final size:28
Alignment explanation
Indices: 21846162--21846219 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
21846152 GTAAATCACA
*
21846162 AAAAAAATCTAAA-ACTTAAT-AAAAGAG
1 AAAAAAA-CTAAAGACTAAATCAAAAGAG
*
21846189 AAAAAAA-TAAAGACTAAATCCAAAGAG
1 AAAAAAACTAAAGACTAAATCAAAAGAG
21846216 AAAA
1 AAAA
21846220 TTATACAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.15
26 6 0.22
27 17 0.63
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.14
Consensus pattern (28 bp):
AAAAAAACTAAAGACTAAATCAAAAGAG
Found at i:21856351 original size:29 final size:29
Alignment explanation
Indices: 21856316--21856447 Score: 142
Period size: 29 Copynumber: 4.6 Consensus size: 29
21856306 TAGCATAAAG
*
21856316 ACTTGGTGGACTCATACATGTC-GATTCAT
1 ACTTGGTGAACTCATACATG-CGGATTCAT
* * *
21856345 GCTTGGTGAAATCACACATGCGGATT-AT
1 ACTTGGTGAACTCATACATGCGGATTCAT
* *
21856373 ACTTGGTGAACTCATACATGAGGATCCAT
1 ACTTGGTGAACTCATACATGCGGATTCAT
** *
21856402 ACTTGGTGGGCTCATACTTGCGGATTCAT
1 ACTTGGTGAACTCATACATGCGGATTCAT
* *
21856431 ACTTGGTTAACTTATAC
1 ACTTGGTGAACTCATAC
21856448 TTAGTGAACC
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
28 24 0.29
29 59 0.71
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (29 bp):
ACTTGGTGAACTCATACATGCGGATTCAT
Found at i:21856407 original size:57 final size:58
Alignment explanation
Indices: 21856316--21856447 Score: 149
Period size: 57 Copynumber: 2.3 Consensus size: 58
21856306 TAGCATAAAG
* * * *
21856316 ACTTGGTGGACTCATACATGTCGATTCATGCTTGGTGAAATCACACATGCGGATT-AT
1 ACTTGGTGAACTCATACATGACGATCCATACTTGGTGAAATCACACATGCGGATTCAT
* *** * *
21856373 ACTTGGTGAACTCATACATGAGGATCCATACTTGGTGGGCTCATACTTGCGGATTCAT
1 ACTTGGTGAACTCATACATGACGATCCATACTTGGTGAAATCACACATGCGGATTCAT
* *
21856431 ACTTGGTTAACTTATAC
1 ACTTGGTGAACTCATAC
21856448 TTAGTGAACC
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
57 45 0.73
58 17 0.27
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (58 bp):
ACTTGGTGAACTCATACATGACGATCCATACTTGGTGAAATCACACATGCGGATTCAT
Found at i:21856448 original size:44 final size:43
Alignment explanation
Indices: 21856400--21856508 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 43
21856390 ATGAGGATCC
* * *
21856400 ATACTTGGTGGGCTCATACTTGCGGATTCATACTTGGTTAACTT
1 ATACTT-GTGGACTCATACTTGAGGATTCATACTTGGTGAACTT
* * * *
21856444 ATACTTAGTGAACCCATACATGAGGATTCATACTTGGTGGACTT
1 ATACTT-GTGGACTCATACTTGAGGATTCATACTTGGTGAACTT
* *
21856488 GTACTTGTGGATTCATACTTG
1 ATACTTGTGGACTCATACTTG
21856509 GTGAACTATA
Statistics
Matches: 52, Mismatches: 13, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
43 11 0.21
44 41 0.79
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (43 bp):
ATACTTGTGGACTCATACTTGAGGATTCATACTTGGTGAACTT
Found at i:21856476 original size:29 final size:29
Alignment explanation
Indices: 21856444--21856514 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
21856434 TGGTTAACTT
*
21856444 ATACTTAGTGAACCCATACATGAGGATTC
1 ATACTTGGTGAACCCATACATGAGGATTC
* *** * *
21856473 ATACTTGGTGGACTTGTACTTGTGGATTC
1 ATACTTGGTGAACCCATACATGAGGATTC
21856502 ATACTTGGTGAAC
1 ATACTTGGTGAAC
21856515 TATACAGTAG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34
Consensus pattern (29 bp):
ATACTTGGTGAACCCATACATGAGGATTC
Found at i:21856493 original size:73 final size:73
Alignment explanation
Indices: 21856369--21856519 Score: 223
Period size: 73 Copynumber: 2.1 Consensus size: 73
21856359 CACATGCGGA
* * *
21856369 TTATACTTGGTGAACTCATACATGAGGATCCATACTTGGTGGGCTCATACTTGCGGATTCATACT
1 TTATACTTAGTGAACCCATACATGAGGATCCATACTTGGTGGACTCATACTTGCGGATTCATACT
*
21856434 TGGTTAAC
66 TGGTGAAC
* ** *
21856442 TTATACTTAGTGAACCCATACATGAGGATTCATACTTGGTGGACTTGTACTTGTGGATTCATACT
1 TTATACTTAGTGAACCCATACATGAGGATCCATACTTGGTGGACTCATACTTGCGGATTCATACT
21856507 TGGTGAAC
66 TGGTGAAC
21856515 -TATAC
1 TTATAC
21856520 AGTAGGATTT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
72 5 0.07
73 65 0.93
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (73 bp):
TTATACTTAGTGAACCCATACATGAGGATCCATACTTGGTGGACTCATACTTGCGGATTCATACT
TGGTGAAC
Found at i:21856494 original size:15 final size:15
Alignment explanation
Indices: 21856467--21856511 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
21856457 CCATACATGA
21856467 GGATTCATACTTGGT
1 GGATTCATACTTGGT
*
21856482 GGACTT-GTACTT-GT
1 GGA-TTCATACTTGGT
21856496 GGATTCATACTTGGT
1 GGATTCATACTTGGT
21856511 G
1 G
21856512 AACTATACAG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 2 0.08
14 10 0.40
15 11 0.44
16 2 0.08
ACGTcount: A:0.18, C:0.13, G:0.29, T:0.40
Consensus pattern (15 bp):
GGATTCATACTTGGT
Found at i:21856707 original size:37 final size:37
Alignment explanation
Indices: 21856665--21856754 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 37
21856655 TTTGAAAATT
* *
21856665 TGAGGACACGTCCAACAGAATGGCATAACTTGAAACA
1 TGAGGACAAGTCCAACAGAATGGCATAACCTGAAACA
* * * **
21856702 TGAGGACAAGTCCAGCGGACTTTCATAACCTGAAACA
1 TGAGGACAAGTCCAACAGAATGGCATAACCTGAAACA
*
21856739 TGAGGCCAAGTCCAAC
1 TGAGGACAAGTCCAAC
21856755 GAACTATCGT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (37 bp):
TGAGGACAAGTCCAACAGAATGGCATAACCTGAAACA
Found at i:21863629 original size:51 final size:51
Alignment explanation
Indices: 21863552--21863750 Score: 328
Period size: 51 Copynumber: 3.9 Consensus size: 51
21863542 AGGATACATG
*
21863552 GTGGCCTTCACATAGTACCACCCTTGTAGT-CAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
*
21863603 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAACTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* * *
21863654 GTGACCTTCACATAGTACCACACTTTTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
*
21863705 GTAGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
21863751 GTAAGGTTTA
Statistics
Matches: 137, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
50 2 0.01
51 135 0.99
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:21870049 original size:51 final size:51
Alignment explanation
Indices: 21869973--21870216 Score: 375
Period size: 51 Copynumber: 4.8 Consensus size: 51
21869963 GGATACACGA
* *
21869973 TGGCCTTCACATAGTACCACCCTTGTAG-CCAAGGCTATTTTATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAAG
**
21870024 TGGCCTTCACATAGTACCACACTTGTGTCTGAAGCTATTTTATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAG
* *
21870075 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAA
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAG
* * * *
21870126 TGTCC-TCACATAGTGCCACACTTGTGTTCAAAGCTATTATATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAG
21870176 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTT
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTT
21870217 TTTCCTAACG
Statistics
Matches: 175, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
50 47 0.27
51 128 0.73
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAG
Found at i:21870176 original size:101 final size:102
Alignment explanation
Indices: 21869973--21870214 Score: 373
Period size: 101 Copynumber: 2.4 Consensus size: 102
21869963 GGATACACGA
* * * *
21869973 TGGCCTTCACATAGTACCACCCTTGTAG-CCAAGGCTATTTTATTCACAAAGTGGCCTTCACATA
1 TGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTATATTCACAAAATGGCCTTCACATA
* *
21870037 GTACCACACTTGTGTCTGAAGCTATTTTATTCACAAAG
65 GTACCACACTTGTGTCTAAAGCTATTATATTCACAAAG
*
21870075 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAATGTCC-TCACATAG
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAATGGCCTTCACATAG
*
21870139 TGCCACACTTGTGT-TCAAAGCTATTATATTCACAAAG
66 TACCACACTTGTGTCT-AAAGCTATTATATTCACAAAG
21870176 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATT
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATT
21870215 TTTTTCCTAA
Statistics
Matches: 130, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
100 1 0.01
101 80 0.62
102 49 0.38
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (102 bp):
TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAATGGCCTTCACATAG
TACCACACTTGTGTCTAAAGCTATTATATTCACAAAG
Found at i:21870283 original size:24 final size:24
Alignment explanation
Indices: 21870256--21870301 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
21870246 ACTTAACACA
21870256 ATGCCATGGACTTATTTCACTTGG
1 ATGCCATGGACTTATTTCACTTGG
*
21870280 ATGCCGTGGACTTATTTCACTT
1 ATGCCATGGACTTATTTCACTT
21870302 AGCACATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTGG
Found at i:21872325 original size:20 final size:20
Alignment explanation
Indices: 21872300--21872351 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
21872290 GAGACAATGC
21872300 ACACGCCCGTGTGCTTTGGG
1 ACACGCCCGTGTGCTTTGGG
21872320 ACACGCCCGTGTGCTTTGGG
1 ACACGCCCGTGTGCTTTGGG
*
21872340 ACACGCCTGTGT
1 ACACGCCCGTGT
21872352 CCCCTACCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.12, C:0.31, G:0.33, T:0.25
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTTGGG
Found at i:21872445 original size:13 final size:13
Alignment explanation
Indices: 21872427--21872451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21872417 CCAAACACAT
21872427 GCCCGTGTTCCTA
1 GCCCGTGTTCCTA
21872440 GCCCGTGTTCCT
1 GCCCGTGTTCCT
21872452 TACACGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.40, G:0.24, T:0.32
Consensus pattern (13 bp):
GCCCGTGTTCCTA
Found at i:21879681 original size:20 final size:21
Alignment explanation
Indices: 21879647--21879701 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
21879637 GATACGTGGG
21879647 ATATGATAT--ACATGAATA-
1 ATATGATATGCACATGAATAT
21879665 ATATGATATGCACATG-ATAT
1 ATATGATATGCACATGAATAT
* *
21879685 GTATGAAATGCACATGA
1 ATATGATATGCACATGA
21879702 TGTAATCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 9 0.29
19 3 0.10
20 19 0.61
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (21 bp):
ATATGATATGCACATGAATAT
Found at i:21879794 original size:26 final size:26
Alignment explanation
Indices: 21879752--21879913 Score: 251
Period size: 26 Copynumber: 6.3 Consensus size: 26
21879742 GAGGAAGTGC
21879752 AAAAGGGC-TATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
21879777 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
21879803 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
21879829 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
21879855 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
21879881 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
21879904 AAAAGAGGCT
1 AAAAG-GGCT
21879914 AGGCCTCCAG
Statistics
Matches: 127, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
23 5 0.04
24 8 0.06
25 16 0.13
26 98 0.77
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:21883096 original size:24 final size:24
Alignment explanation
Indices: 21883069--21883132 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
21883059 ATTGTTCAGA
*
21883069 TCAATAGAGCTTACCATTTTCATC
1 TCAATAGAGCTTACCATTATCATC
**
21883093 TCAATAGAGCTTACTGTTATCATC
1 TCAATAGAGCTTACCATTATCATC
*
21883117 TCATAAAGAGCTTACC
1 TCA-ATAGAGCTTACC
21883133 GACCATGTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 24 0.71
25 10 0.29
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (24 bp):
TCAATAGAGCTTACCATTATCATC
Found at i:21890231 original size:24 final size:24
Alignment explanation
Indices: 21890204--21890267 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 24
21890194 ATTGTTCAGA
*
21890204 TCAATAGAGCTTACCATTTTCATC
1 TCAATAGAGCTTACCATTATCATC
*
21890228 TCAATAGAGCTTACTATTATCATC
1 TCAATAGAGCTTACCATTATCATC
*
21890252 TCATAAAGAGCTTACC
1 TCA-ATAGAGCTTACC
21890268 GACCATGTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
24 25 0.71
25 10 0.29
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.34
Consensus pattern (24 bp):
TCAATAGAGCTTACCATTATCATC
Found at i:21891513 original size:19 final size:19
Alignment explanation
Indices: 21891489--21891525 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21891479 ACTTGAAAAG
*
21891489 TTAAAAATTTTCTATGTTT
1 TTAAAAATTTTATATGTTT
*
21891508 TTAAAATTTTTATATGTT
1 TTAAAAATTTTATATGTT
21891526 ATCAATTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (19 bp):
TTAAAAATTTTATATGTTT
Found at i:21894696 original size:67 final size:67
Alignment explanation
Indices: 21894610--21894736 Score: 200
Period size: 67 Copynumber: 1.9 Consensus size: 67
21894600 GTTTCTAGGT
* * *
21894610 CGTGGCAAAATAGGGCATACATACTAATTTGTCCACACAGCCACAAGACATGCCCGTGTGTCTAA
1 CGTGGCAAAACAGGGCATACATACTAACTTGTCCACACAGCCACAAGACACGCCCGTGTGTCTAA
21894675 GC
66 GC
* * *
21894677 CGTGGCAAAACAGGGCATACATACTGACTTGTCCACATAGCCACAAGACACGCCTGTGTG
1 CGTGGCAAAACAGGGCATACATACTAACTTGTCCACACAGCCACAAGACACGCCCGTGTG
21894737 CCAGGTCGTG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.20
Consensus pattern (67 bp):
CGTGGCAAAACAGGGCATACATACTAACTTGTCCACACAGCCACAAGACACGCCCGTGTGTCTAA
GC
Found at i:21895846 original size:9 final size:9
Alignment explanation
Indices: 21895802--21895877 Score: 54
Period size: 9 Copynumber: 8.9 Consensus size: 9
21895792 ATTACTCACA
*
21895802 TAATTTATG
1 TAATTCATG
*
21895811 TAATTCATA
1 TAATTCATG
*
21895820 T-A-TCATA
1 TAATTCATG
* *
21895827 AAATCCATG
1 TAATTCATG
21895836 TAATTCATG
1 TAATTCATG
21895845 TAATTCATG
1 TAATTCATG
21895854 TAACTT-A--
1 TAA-TTCATG
21895861 TAATTCATG
1 TAATTCATG
*
21895870 TAAATCAT
1 TAATTCAT
21895878 ATAGCTCTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
6 2 0.04
7 9 0.17
8 2 0.04
9 38 0.72
10 2 0.04
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (9 bp):
TAATTCATG
Found at i:21895870 original size:34 final size:34
Alignment explanation
Indices: 21895802--21895877 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
21895792 ATTACTCACA
* *
21895802 TAATTTATGTAATTCATATATCATAAAATCCATG
1 TAATTCATGTAATTCATATAACATAAAATCCATG
* * * *
21895836 TAATTCATGTAATTCATGTAACTTATAATTCATG
1 TAATTCATGTAATTCATATAACATAAAATCCATG
*
21895870 TAAATCAT
1 TAATTCAT
21895878 ATAGCTCTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (34 bp):
TAATTCATGTAATTCATATAACATAAAATCCATG
Found at i:21897991 original size:46 final size:46
Alignment explanation
Indices: 21897850--21898151 Score: 277
Period size: 46 Copynumber: 6.5 Consensus size: 46
21897840 CTGAGCTAGC
21897850 GTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGT
* *
21897896 GTAAGACCATGTCTGAGACATGTCATCGG---CATTGA-GATGAGGTCTAGT
1 GTAAGA-CATGTCTGGGACATG-CATCGGCCACATT-ATGA-GA-G-CCAGT
21897944 GTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGT
* *
21897990 GTAAGACCATGTCTGAGACATGTCATCGG---CATTGA-GATGAGGTCTAGT
1 GTAAGA-CATGTCTGGGACATG-CATCGGCCACATT-ATGA-GA-G-CCAGT
* * *
21898038 GTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGTA-AGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATG-AGAGCCAGT
* * *
21898084 GTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATA-CTCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGC-CAGT
21898130 GTAAGACCATGTCTGGGACATG
1 GTAAGA-CATGTCTGGGACATG
21898152 GCATTGACTT
Statistics
Matches: 219, Mismatches: 12, Indels: 49
0.78 0.04 0.17
Matches are distributed among these distances:
45 14 0.06
46 83 0.38
47 75 0.34
48 37 0.17
49 8 0.04
50 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGT
Found at i:21898011 original size:94 final size:94
Alignment explanation
Indices: 21897845--21898151 Score: 457
Period size: 94 Copynumber: 3.3 Consensus size: 94
21897835 CAAGTCTGAG
*
21897845 CTAGCGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCT
21897910 GAGACATGTCATCGGCATTGAGATGAGGT
66 GAGACATGTCATCGGCATTGAGATGAGGT
21897939 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCT
21898004 GAGACATGTCATCGGCATTGAGATGAGGT
66 GAGACATGTCATCGGCATTGAGATGAGGT
* * *
21898033 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGTA-AGCCAGTGTAAGA-CATGT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATG-AGAGCCAGTGTAAGACCATGT
* *
21898095 CTGGGACATG-CATCGGC-TACGAGATGA--T
64 CTGAGACATGTCATCGGCAT-TGAGATGAGGT
21898123 ACTCAGTGTAAGACCATGTCTGGGACATG
1 -CT-AGTGTAAGA-CATGTCTGGGACATG
21898152 GCATTGACTT
Statistics
Matches: 201, Mismatches: 6, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
90 1 0.00
91 3 0.01
92 23 0.11
93 29 0.14
94 143 0.71
95 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCT
GAGACATGTCATCGGCATTGAGATGAGGT
Found at i:21898166 original size:47 final size:47
Alignment explanation
Indices: 21897850--21898206 Score: 290
Period size: 47 Copynumber: 7.6 Consensus size: 47
21897840 CTGAGCTAGC
*** * *
21897850 GTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCTTGA-GATGATAGCCAGT
* * * *
21897896 GTAAGACCATGTCTGAGACATGTCATCGGCATTGAGATGA-GGTCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGATGATAG-CCAGT
*** * *
21897944 GTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCTTGA-GATGATAGCCAGT
* * * *
21897990 GTAAGACCATGTCTGAGACATGTCATCGGCATTGAGATGA-GGTCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGATGATAG-CCAGT
* *
21898038 GTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACG-TAAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGG-CTTGAGATGAT-AGCCAGT
*
21898084 GTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGATA-CTCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGATGATAGC-CAGT
* *
21898130 GTAAGACCATGTCTGGGACATGGCATTGACTTGAGAT-ATGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATGAT-AGCCAGT
* * *
21898177 ATAAGACCGTGTCTAGGACATGGCATCGGC
1 GTAAGACCATGTCTGGGACATGGCATCGGC
21898207 ACCTTACCCT
Statistics
Matches: 252, Mismatches: 39, Indels: 39
0.76 0.12 0.12
Matches are distributed among these distances:
45 4 0.02
46 89 0.35
47 107 0.42
48 50 0.20
49 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATGATAGCCAGT
Found at i:21898190 original size:140 final size:139
Alignment explanation
Indices: 21897850--21898207 Score: 374
Period size: 140 Copynumber: 2.5 Consensus size: 139
21897840 CTGAGCTAGC
*
21897850 GTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-ATGA-GAGCCAGTGTAAGACCATGTCTG
1 GTAAGACCATGTCTGAGACATGGCATC-G--ACATTGA-GATGAGCCAGTGTAAGACCATGTCTG
* * * * *
21897911 AGACATGTCATCGGCATTGAGATGAGGTCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACA
62 GGACATG-CATCGGCATCGAGACGAAGTCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA
*
21897976 TTATGAGAGCCAGT
126 TGATGAGAGCCAGT
* * *
21897990 GTAAGACCATGTCTGAGACATGTCATCGGCATTGAGATGAGGTCTAGTGTAAGA-CATGTCTGGG
1 GTAAGACCATGTCTGAGACATGGCATCGACATTGAGATGA-G-CCAGTGTAAGACCATGTCTGGG
* *
21898054 ACATGCATCGGCCTCGAGACGTAAG-CCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-
64 ACATGCATCGGCATCGAGACG-AAGTCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-AT
*
21898117 GATGATA-CTCAGT
127 GATGAGAGC-CAGT
* * * * *
21898130 GTAAGACCATGTCTGGGACATGGCATTGAC-TTGAGATATGAGCCAGTATAAGACCGTGTCTAGG
1 GTAAGACCATGTCTGAGACATGGCATCGACATTGAG--ATGAGCCAGTGTAAGACCATGTCTGGG
21898194 ACATGGCATCGGCA
64 ACAT-GCATCGGCA
21898208 CCTTACCCTA
Statistics
Matches: 183, Mismatches: 22, Indels: 25
0.80 0.10 0.11
Matches are distributed among these distances:
139 21 0.11
140 104 0.57
141 44 0.24
142 14 0.08
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (139 bp):
GTAAGACCATGTCTGAGACATGGCATCGACATTGAGATGAGCCAGTGTAAGACCATGTCTGGGAC
ATGCATCGGCATCGAGACGAAGTCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATG
AGAGCCAGT
Found at i:21905656 original size:48 final size:44
Alignment explanation
Indices: 21905553--21905824 Score: 183
Period size: 46 Copynumber: 5.8 Consensus size: 44
21905543 ATTCGAGTGT
* *
21905553 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATT-ATGA-
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG---CATTGA-GAC
21905599 GAGCCAGTGTAAGACAATGTCTGGGACATGGCATCGGCATTGAGAC
1 GAGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCATTGAGAC
* * * *
21905645 GAGGGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGAC
1 GA--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAC
* * * *
21905691 GTAAGCCAGTGTAAGACACGTCTGGGACATGCATAGGC-TACGAGAT
1 G--AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT-TGAGAC
* * ** *
21905737 GATAGTCAGTGTAAAACCATGTCTGGGACATAGCATCAAC-TTGAGATAT
1 G--AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAG--AC
* * *
21905786 GAGCCAGTATAAGACCGTGTCTAGGACATGGCATCGGCA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
21905825 CCTTAACCTA
Statistics
Matches: 184, Mismatches: 28, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
45 7 0.04
46 78 0.42
47 70 0.38
48 26 0.14
49 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (44 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAC
Found at i:21905702 original size:46 final size:46
Alignment explanation
Indices: 21905553--21905773 Score: 214
Period size: 46 Copynumber: 4.7 Consensus size: 46
21905543 ATTCGAGTGT
* * * * *
21905553 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA
* *
21905599 GAGCCAGTGTAAGACAATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTCGAGACGA
* * *
21905647 GGGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
* * *
21905694 -AGCCAGTGTAAGACACGTCTGGGACATGCATAGG-CTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGA
* * *
21905739 TAGTCAGTGTAAAACCATGTCTGGGACATAGCATC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
21905774 AACTTGAGAT
Statistics
Matches: 145, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
45 3 0.02
46 74 0.51
47 39 0.27
48 28 0.19
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:21905783 original size:47 final size:47
Alignment explanation
Indices: 21905558--21905820 Score: 168
Period size: 47 Copynumber: 5.6 Consensus size: 47
21905548 AGTGTGAGCT
* * * **
21905558 AGTGTAAGA-CATGTTTGGGACATGCATCGGC-C-ACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGCTCGAGACGAT-A-AGCC
* * * ** *
21905604 AGTGTAAGACAATGTCTGGGACATGGCATCGGCATTGAGACGA-GGGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAGC-TCGAGACGATAAGCC
*
21905652 AGTGTAAGA-CATGTCTGGGACATGCATCGACCTCGAGACG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATC-AGCTCGAGACGATAAGCC
* * *
21905698 AGTGTAAGA-CACGTCTGGGACATGCAT-AGGCTACGAGATGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCA-GCT-CGAGACGATAAGCC
* * * * *
21905744 AGTGTAAAACCATGTCTGGGACATAGCATCAACTTGAGA-TATGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAGCTCGAGACGATAAGCC
* * *
21905791 AGTATAAGACCGTGTCTAGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACAT-GCATC
21905821 GGCACCTTAA
Statistics
Matches: 172, Mismatches: 31, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 68 0.40
47 72 0.42
48 25 0.15
49 1 0.01
51 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCAGCTCGAGACGATAAGCC
Found at i:21905791 original size:93 final size:94
Alignment explanation
Indices: 21905599--21905824 Score: 219
Period size: 93 Copynumber: 2.4 Consensus size: 94
21905589 CACATTATGA
* * * * *
21905599 GAGCCAGTGTAAGACAATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACAT
1 GAGCCAGTGTAAGACAACGTCTGGGACATGGCATAGGCATCGAGACGAAGGCTAGTGTAAAACAT
* *
21905664 GTCTGGGACATGCATCGACCTCGAGACGT
66 GTCTGGGACATGCATCGAACTCGAGACAT
* * *
21905693 AAGCCAGTGTAAGAC-ACGTCTGGGACAT-GCATAGGC-TACGAGATGATAGTC-AGTGTAAAAC
1 GAGCCAGTGTAAGACAACGTCTGGGACATGGCATAGGCAT-CGAGACGA-AGGCTAGTGTAAAA-
* *
21905754 CATGTCTGGGACATAGCATC-AACTTGAGATAT
63 CATGTCTGGGACAT-GCATCGAACTCGAGACAT
* *** * *
21905786 GAGCCAGTATAAGACCGTGTCTAGGACATGGCATCGGCA
1 GAGCCAGTGTAAGACAACGTCTGGGACATGGCATAGGCA
21905825 CCTTAACCTA
Statistics
Matches: 107, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
91 1 0.01
92 21 0.20
93 49 0.46
94 29 0.27
95 7 0.07
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.21
Consensus pattern (94 bp):
GAGCCAGTGTAAGACAACGTCTGGGACATGGCATAGGCATCGAGACGAAGGCTAGTGTAAAACAT
GTCTGGGACATGCATCGAACTCGAGACAT
Found at i:21905813 original size:140 final size:141
Alignment explanation
Indices: 21905558--21905821 Score: 311
Period size: 140 Copynumber: 1.9 Consensus size: 141
21905548 AGTGTGAGCT
* * * * *
21905558 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACAATGTCTGG
1 AGTGTAAGACACGTCTGGGACATGCATAGGCCACATGATGAGAGCCAGTGTAAAACAATGTCTGG
* ** * * * *
21905623 GACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGTCTGGGACAT-GCATCGACCTCG
66 GACATAGCATCAACATTGAGACGAGAGCCAGTATAAGACATGTCTAGGACATGGCATCGACCTCG
21905687 AGACGTAAGCC
131 AGACGTAAGCC
* * * *
21905698 AGTGTAAGACACGTCTGGGACATGCATAGGCTACGA-GATGATAGTCAGTGTAAAACCATGTCTG
1 AGTGTAAGACACGTCTGGGACATGCATAGGCCAC-ATGATGAGAGCCAGTGTAAAACAATGTCTG
* *
21905762 GGACATAGCATCAAC-TTGAGA-TATGAGCCAGTATAAGACCGTGTCTAGGACATGGCATCG
65 GGACATAGCATCAACATTGAGACGA-GAGCCAGTATAAGA-CATGTCTAGGACATGGCATCG
21905822 GCACCTTAAC
Statistics
Matches: 102, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
138 1 0.01
139 17 0.17
140 77 0.75
141 7 0.07
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (141 bp):
AGTGTAAGACACGTCTGGGACATGCATAGGCCACATGATGAGAGCCAGTGTAAAACAATGTCTGG
GACATAGCATCAACATTGAGACGAGAGCCAGTATAAGACATGTCTAGGACATGGCATCGACCTCG
AGACGTAAGCC
Found at i:21906699 original size:42 final size:42
Alignment explanation
Indices: 21906653--21906754 Score: 186
Period size: 42 Copynumber: 2.4 Consensus size: 42
21906643 GACACAGCCA
*
21906653 TGTGTCTCAGCCGTGTGAAGGGCACGGCCTAGCACACGGGTG
1 TGTGTCTTAGCCGTGTGAAGGGCACGGCCTAGCACACGGGTG
21906695 TGTGTCTTAGCCGTGTGAAGGGCACGGCCTAGCACACGGGTG
1 TGTGTCTTAGCCGTGTGAAGGGCACGGCCTAGCACACGGGTG
*
21906737 TGTGTCTTGGCCGTGTGA
1 TGTGTCTTAGCCGTGTGA
21906755 CATTTTGGGG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.15, C:0.24, G:0.38, T:0.24
Consensus pattern (42 bp):
TGTGTCTTAGCCGTGTGAAGGGCACGGCCTAGCACACGGGTG
Found at i:21909718 original size:20 final size:20
Alignment explanation
Indices: 21909685--21909725 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
21909675 AGCACATGTA
21909685 TTCATAAAAATTCAAAATTT
1 TTCATAAAAATTCAAAATTT
* * *
21909705 TTCATCAAATTTCACAATTT
1 TTCATAAAAATTCAAAATTT
21909725 T
1 T
21909726 ACATTTTAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (20 bp):
TTCATAAAAATTCAAAATTT
Found at i:21911424 original size:32 final size:32
Alignment explanation
Indices: 21911383--21911446 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
21911373 ATCCGAGTCA
21911383 GAAAAATTATTTTAAAATTAATGCATGATTTG
1 GAAAAATTATTTTAAAATTAATGCATGATTTG
*
21911415 GAAAAATTATTTTAAAATTAATGCATGGTTTG
1 GAAAAATTATTTTAAAATTAATGCATGATTTG
21911447 CATTATTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.41
Consensus pattern (32 bp):
GAAAAATTATTTTAAAATTAATGCATGATTTG
Found at i:21917843 original size:25 final size:25
Alignment explanation
Indices: 21917814--21917863 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
21917804 TTGTAACACA
21917814 TCTTATTATATAATTATCTATATTG
1 TCTTATTATATAATTATCTATATTG
21917839 TCTTATTATATAATTATCTATATTG
1 TCTTATTATATAATTATCTATATTG
21917864 AGGAATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (25 bp):
TCTTATTATATAATTATCTATATTG
Found at i:21917871 original size:25 final size:25
Alignment explanation
Indices: 21917818--21917874 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
21917808 AACACATCTT
* **
21917818 ATTATATAATTATCTATATTGTCTT
1 ATTATATAATTATCTATATTGACGA
*
21917843 ATTATATAATTATCTATATTGAGGA
1 ATTATATAATTATCTATATTGACGA
21917868 ATTATAT
1 ATTATAT
21917875 TTAATTCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (25 bp):
ATTATATAATTATCTATATTGACGA
Found at i:21923495 original size:12 final size:12
Alignment explanation
Indices: 21923478--21923507 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
21923468 ACTAAAAAAA
21923478 TTTTATTTTAAT
1 TTTTATTTTAAT
21923490 TTTTATTTTAAT
1 TTTTATTTTAAT
21923502 TTTTAT
1 TTTTAT
21923508 CTTTTAAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTATTTTAAT
Found at i:21923531 original size:19 final size:19
Alignment explanation
Indices: 21923509--21923552 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
21923499 AATTTTTATC
21923509 TTTTAAGTCCTTAAATTCGTT
1 TTTTAA-TCCTTAAATTCG-T
*
21923530 TTTTTATCCTTAAATTCGT
1 TTTTAATCCTTAAATTCGT
21923549 TTTT
1 TTTT
21923553 TTATCACATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 12 0.55
21 5 0.23
ACGTcount: A:0.20, C:0.14, G:0.07, T:0.59
Consensus pattern (19 bp):
TTTTAATCCTTAAATTCGT
Found at i:21923554 original size:21 final size:20
Alignment explanation
Indices: 21923516--21923557 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
21923506 ATCTTTTAAG
21923516 TCCTTAAATTCGTTTTTTTA
1 TCCTTAAATTCGTTTTTTTA
21923536 TCCTTAAATTCGTTTTTTTA
1 TCCTTAAATTCGTTTTTTTA
21923556 TC
1 TC
21923558 ACATGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.17, G:0.05, T:0.60
Consensus pattern (20 bp):
TCCTTAAATTCGTTTTTTTA
Found at i:21927950 original size:15 final size:15
Alignment explanation
Indices: 21927930--21927990 Score: 77
Period size: 15 Copynumber: 4.1 Consensus size: 15
21927920 TTAAATTAAG
*
21927930 TACTTAAATTTTCAA
1 TACTTAATTTTTCAA
21927945 TACTTAATTTTTCAA
1 TACTTAATTTTTCAA
* * *
21927960 CACTTATTTTTTTAA
1 TACTTAATTTTTCAA
*
21927975 TACTTACTTTTTCAA
1 TACTTAATTTTTCAA
21927990 T
1 T
21927991 TTATCAAACA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (15 bp):
TACTTAATTTTTCAA
Found at i:21941839 original size:4 final size:4
Alignment explanation
Indices: 21941830--21941874 Score: 54
Period size: 4 Copynumber: 10.5 Consensus size: 4
21941820 ATATTAGGGT
*
21941830 AATA AATA AATA GATA TAATA AGATAA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA -AATA A-AT-A AATA AATA AATA AATA AA
21941875 ATATGTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
4 27 0.75
5 7 0.19
6 2 0.06
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:21942296 original size:37 final size:37
Alignment explanation
Indices: 21942246--21942319 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
21942236 AATCATAAAG
21942246 GACTAAATTAAAATGCAATGCAAAAGCTTAAGGACTC
1 GACTAAATTAAAATGCAATGCAAAAGCTTAAGGACTC
21942283 GACTAAATTAAAATGCAATGCAAAAGCTTAAGGACTC
1 GACTAAATTAAAATGCAATGCAAAAGCTTAAGGACTC
21942320 CGAGGACAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (37 bp):
GACTAAATTAAAATGCAATGCAAAAGCTTAAGGACTC
Found at i:21942726 original size:10 final size:10
Alignment explanation
Indices: 21942708--21942740 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
21942698 GGCTATAGGG
*
21942708 CCACTGTGGT
1 CCACCGTGGT
21942718 CCACCGTGGT
1 CCACCGTGGT
21942728 CCACCGTGG-
1 CCACCGTGGT
21942737 CCAC
1 CCAC
21942741 TATTCATTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.12, C:0.42, G:0.27, T:0.18
Consensus pattern (10 bp):
CCACCGTGGT
Found at i:21944005 original size:44 final size:44
Alignment explanation
Indices: 21943804--21944144 Score: 260
Period size: 44 Copynumber: 7.6 Consensus size: 44
21943794 TCATTCTACA
* * * * *
21943804 CCACTACAACTTTAGGG-GCATAGGATTAGTAGC-TTCATCTTGTT
1 CCACTGCAACTTTAGGGAG-ATAAGATTTGTAGCTTTAATC-TGCT
* * *
21943848 CCACTGCAACTTTAGGGAGATAAGACTTATAGCTTCAATCTGCT
1 CCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * *
21943892 CCACTGCAACTTCACGGAGATAAGATTTATAGCTTTAATCTGCT
1 CCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * *
21943936 CCACTACAA-TTTCAGGAAGATAAGATTTGTAGCTTTAATTTGTT
1 CCACTGCAACTTT-AGGGAGATAAGATTTGTAGCTTTAATCTGCT
*
21943980 CCACTGCAACTTTAGGGAGATAAGATTTGCTATGGTAGATTCAATCTGC-
1 CCACTGCAACTTTAGGGAGATAAGATTTG-TA-GCT---TT-AATCTGCT
* * * * * ** * * *
21944029 CTTACTACGACTTCAAGGGTG-TTGGATCTGTAGCTTAAATCTTCT
1 C-CACTGCAACTT-TAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * *
21944074 CCACTGAAACTTCAAGGAGATAAAATTTGTAGCTTTAATCTGCT
1 CCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* *
21944118 CCACTACAACTTCAGGGAGATAAGATT
1 CCACTGCAACTTTAGGGAGATAAGATT
21944145 CGCTATGGTA
Statistics
Matches: 231, Mismatches: 52, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
43 6 0.03
44 180 0.78
45 12 0.05
46 2 0.01
48 2 0.01
49 5 0.02
50 19 0.08
51 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (44 bp):
CCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCT
Found at i:21951853 original size:10 final size:9
Alignment explanation
Indices: 21951828--21951876 Score: 50
Period size: 8 Copynumber: 5.6 Consensus size: 9
21951818 ATATTAGGGT
21951828 AATAA-ATA
1 AATAAGATA
21951836 AA-AAGATA
1 AATAAGATA
21951844 GAATAAGATAA
1 -AATAAGAT-A
*
21951855 AATAAAATA
1 AATAAGATA
21951864 AATAA-ATA
1 AATAAGATA
21951872 AATAA
1 AATAA
21951877 ACAAAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
7 2 0.06
8 13 0.36
9 8 0.22
10 12 0.33
11 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.20
Consensus pattern (9 bp):
AATAAGATA
Found at i:21951857 original size:23 final size:22
Alignment explanation
Indices: 21951831--21951877 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
21951821 TTAGGGTAAT
*
21951831 AAATAAAA-AGATAGAATAAGATA
1 AAATAAAATAAATA-AATAA-ATA
21951854 AAATAAAATAAATAAATAAATA
1 AAATAAAATAAATAAATAAATA
21951876 AA
1 AA
21951878 CAAAAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (22 bp):
AAATAAAATAAATAAATAAATA
Found at i:21955590 original size:20 final size:19
Alignment explanation
Indices: 21955562--21955671 Score: 68
Period size: 19 Copynumber: 5.7 Consensus size: 19
21955552 TATTATATTT
*
21955562 TTTTTATAATTCTTTATAAA
1 TTTTAATAATT-TTTATAAA
*
21955582 TTTTAATAATTTGTATGGAAA
1 TTTTAATAATTTTTAT--AAA
*
21955603 TGTTTTAATAA-TTTT-TAGA
1 --TTTTAATAATTTTTATAAA
* * *
21955622 TTCTT-TTAA-TATTATATA
1 TT-TTAATAATTTTTATAAA
21955640 TTTT-ATAATTCTTTATAAA
1 TTTTAATAATT-TTTATAAA
21955659 TTTTAATAATTTT
1 TTTTAATAATTTT
21955672 ATGGAAACGT
Statistics
Matches: 71, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
17 13 0.18
18 8 0.11
19 18 0.25
20 16 0.23
21 4 0.06
22 3 0.04
23 9 0.13
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTTAATAATTTTTATAAA
Found at i:21955658 original size:77 final size:77
Alignment explanation
Indices: 21955534--21955683 Score: 257
Period size: 77 Copynumber: 1.9 Consensus size: 77
21955524 GAAACTTTAG
*
21955534 ATTTTTAGATTCTTTTAATATTATATTTTTTTTATAATTCTTTATAAATTTTAATAATTTGTATG
1 ATTTTTAGATTCTTTTAATATTATA-TTATTTTATAATTCTTTATAAATTTTAATAATTT-TATG
*
21955599 GAAATGTTTTAATA
64 GAAACGTTTTAATA
21955613 ATTTTTAGATTCTTTTAATATTATA-TATTTTATAATTCTTTATAAATTTTAATAATTTTATGGA
1 ATTTTTAGATTCTTTTAATATTATATTATTTTATAATTCTTTATAAATTTTAATAATTTTATGGA
21955677 AACGTTT
66 AACGTTT
21955684 GTTAATATTG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
76 12 0.17
77 32 0.46
79 25 0.36
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.57
Consensus pattern (77 bp):
ATTTTTAGATTCTTTTAATATTATATTATTTTATAATTCTTTATAAATTTTAATAATTTTATGGA
AACGTTTTAATA
Found at i:21957952 original size:108 final size:108
Alignment explanation
Indices: 21957732--21957940 Score: 278
Period size: 110 Copynumber: 1.9 Consensus size: 108
21957722 TTAAAAACTC
* * * *
21957732 TTTTATTTATATAAATAAAATAATAAATATGTAATTATATAATGAAAATATATTTTATATATTTC
1 TTTTACTTATATAAACAAAATAATAAATATGTAATTATATAATGAAAATATATATTATATATATC
** *
21957797 ATTATGTTAAAAATATATTTTCTAATTCATTCAAAAAAATGTT
66 ATTATGTTAAAAATATATTTTCTAAGACAATCAAAAAAATGTT
*
21957840 TTTTACTTATATAAACAAAATAATAAATATGTAGTTATATATAT-ATATAATATATATTATATAT
1 TTTTACTTATATAAACAAAATAATAAATATGTAATTATATA-ATGA-A-AATATATATTATATAT
* *
21957904 ATCATTATGTTAAAAATAT-TTTTTTGAAGAGAATCAA
63 ATCATTATGTTAAAAATATATTTTCT-AAGACAATCAA
21957941 CTAATTTTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
108 39 0.45
109 8 0.09
110 40 0.46
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (108 bp):
TTTTACTTATATAAACAAAATAATAAATATGTAATTATATAATGAAAATATATATTATATATATC
ATTATGTTAAAAATATATTTTCTAAGACAATCAAAAAAATGTT
Found at i:21958400 original size:106 final size:104
Alignment explanation
Indices: 21958145--21958400 Score: 221
Period size: 106 Copynumber: 2.4 Consensus size: 104
21958135 ATATGGATTG
**
21958145 AAAATAAATATTACACATGTAAAAATTATATTTACTAAAAATAATGATATTTGAAATAATTATTT
1 AAAATAAATATTTGACATGTAAAAATTATA-TTA-T--AAATAATGATATTTGAAATAATTATTT
* * * *** * *
21958210 TATTTTATACTATTAGAATTTATTGTACCCACAATTCAAGTGA
62 TATTTTATAATATTAGAAATCACAATACCAAAAATTCAAGTGA
* * * ** * * *
21958253 AAAACAATGATGTTTGAAATGTTTTACA-TATA-AAAATAATAATGATATTTGAAATAATTATTT
1 AAAATAA--ATATTTGACATG-TAAAAATTATATTATA-AATAATGATATTTGAAATAATTATTT
*
21958316 TATTTTATAATATTAGAAATCACAATACCAAAAATGT-AGGTGGA
62 TATTTTATAATATTAGAAATCACAATACCAAAAAT-TCAAGT-GA
21958360 TAAAATAAATATTTGACATGTAAAAATTATATTATAAATAA
1 -AAAATAAATATTTGACATGTAAAAATTATATTATAAATAA
21958401 AAATATATAA
Statistics
Matches: 112, Mismatches: 27, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
105 4 0.04
106 75 0.67
107 5 0.04
108 13 0.12
110 12 0.11
111 3 0.03
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (104 bp):
AAAATAAATATTTGACATGTAAAAATTATATTATAAATAATGATATTTGAAATAATTATTTTATT
TTATAATATTAGAAATCACAATACCAAAAATTCAAGTGA
Found at i:21962195 original size:17 final size:17
Alignment explanation
Indices: 21962170--21962210 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
21962160 TTACAATTTT
*
21962170 TTTTCTTTTTTGCTTGC
1 TTTTGTTTTTTGCTTGC
*
21962187 TTTTGTTTTTTGTTTGC
1 TTTTGTTTTTTGCTTGC
*
21962204 TATTGTT
1 TTTTGTT
21962211 CTTGCTGCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.02, C:0.10, G:0.15, T:0.73
Consensus pattern (17 bp):
TTTTGTTTTTTGCTTGC
Found at i:21962872 original size:45 final size:45
Alignment explanation
Indices: 21962804--21962952 Score: 167
Period size: 45 Copynumber: 3.3 Consensus size: 45
21962794 TTAATATGCC
* * * *
21962804 CCACTGTAACTTCAGAGAAATAAGATTTGCTATCTTCAATCTACT
1 CCACTGCAACTTCAGAGAGATAAGATTTGATATCTTCAATCTGCT
* * *
21962849 CCACTGCACCTTCAGAGAGATAAGGTTT-ATAGT-TTTAATCTGCT
1 CCACTGCAACTTCAGAGAGATAAGATTTGATA-TCTTCAATCTGCT
* * * *
21962893 CTACTGCAACTTCAGAGAGATAAGATTTGGTTTCTTCAGTCTGCT
1 CCACTGCAACTTCAGAGAGATAAGATTTGATATCTTCAATCTGCT
*
21962938 CTACTGCAACTTCAG
1 CCACTGCAACTTCAG
21962953 GGAGGTAAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
44 37 0.43
45 50 0.57
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (45 bp):
CCACTGCAACTTCAGAGAGATAAGATTTGATATCTTCAATCTGCT
Found at i:21962906 original size:44 final size:44
Alignment explanation
Indices: 21962786--21962916 Score: 138
Period size: 44 Copynumber: 3.0 Consensus size: 44
21962776 GATTTGTGAC
* * * * * *
21962786 TTATAGCTTTAATATGCCCCACTGTAACTTCAGAGAAATAAGAT
1 TTATAGTTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGGT
* * * *
21962830 TTGCTA-TCTTCAATCTACTCCACTGCACCTTCAGAGAGATAAGGT
1 TT-ATAGT-TTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGGT
*
21962875 TTATAGTTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAG
1 TTATAGTTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAG
21962917 ATTTGGTTTC
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
44 35 0.51
45 34 0.49
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (44 bp):
TTATAGTTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGGT
Found at i:21962916 original size:89 final size:89
Alignment explanation
Indices: 21962786--21962952 Score: 226
Period size: 89 Copynumber: 1.9 Consensus size: 89
21962776 GATTTGTGAC
*
21962786 TTATAGCTTTAATATGCCCCACTGTAACTTCAGAGAAATAAGATTTGCTATCTTCAATCTACTCC
1 TTATAGCTTTAATATGCCCCACTGCAACTTCAGAGAAATAAGATTTGCTATCTTCAATCTACTCC
*
21962851 ACTGCACCTTCAGAGAGATAAGGT
66 ACTGCAACTTCAGAGAGATAAGGT
* * * * * * * * * *
21962875 TTATAGTTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGGTTTCTTCAGTCTGCTCT
1 TTATAGCTTTAATATGCCCCACTGCAACTTCAGAGAAATAAGATTTGCTATCTTCAATCTACTCC
21962940 ACTGCAACTTCAG
66 ACTGCAACTTCAG
21962953 GGAGGTAAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 66 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.35
Consensus pattern (89 bp):
TTATAGCTTTAATATGCCCCACTGCAACTTCAGAGAAATAAGATTTGCTATCTTCAATCTACTCC
ACTGCAACTTCAGAGAGATAAGGT
Found at i:21962975 original size:89 final size:89
Alignment explanation
Indices: 21962784--21962978 Score: 219
Period size: 89 Copynumber: 2.2 Consensus size: 89
21962774 AGGATTTGTG
* *
21962784 ACTTATAGCTTTAATATGCCCCACTGTAACTTCAGAGAAATAAGATTTGCTATCTTCAATCTACT
1 ACTTATAGCTTTAATCTGCCCCACTGCAACTTCAGAGAAATAAGATTTGCTATCTTCAATCTACT
* *
21962849 CCACTGCACCTTCAGAGAGATAAG
66 CCACTGCAACTTCAGAGAGATAAA
** * * * * * * * *
21962873 GTTTATAGTTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGGTTTCTTCAGTCTGCT
1 ACTTATAGCTTTAATCTGCCCCACTGCAACTTCAGAGAAATAAGATTTGCTATCTTCAATCTACT
* * *
21962938 CTACTGCAACTTCAGGGAGGTAAA
66 CCACTGCAACTTCAGAGAGATAAA
* *
21962962 ACTTGTGGCTTTAATCT
1 ACTTATAGCTTTAATCT
21962979 ACTCCACTAA
Statistics
Matches: 84, Mismatches: 22, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
89 84 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (89 bp):
ACTTATAGCTTTAATCTGCCCCACTGCAACTTCAGAGAAATAAGATTTGCTATCTTCAATCTACT
CCACTGCAACTTCAGAGAGATAAA
Found at i:21974004 original size:20 final size:20
Alignment explanation
Indices: 21973981--21974042 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
21973971 TCCAAATCAA
21973981 ATAACCATTTTCCATTTCAT
1 ATAACCATTTTCCATTTCAT
* *
21974001 ATAACAACTTGT-CATTTCAT
1 ATAACCA-TTTTCCATTTCAT
* *
21974021 ACATCCA-TTTCCATTTCAT
1 ATAACCATTTTCCATTTCAT
21974040 ATA
1 ATA
21974043 TTCGGTTTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
18 2 0.06
19 10 0.30
20 18 0.55
21 3 0.09
ACGTcount: A:0.32, C:0.24, G:0.02, T:0.42
Consensus pattern (20 bp):
ATAACCATTTTCCATTTCAT
Found at i:21983264 original size:15 final size:15
Alignment explanation
Indices: 21983244--21983278 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
21983234 GTGGTCTCAA
*
21983244 ACCACCGTTTTCGAC
1 ACCACCATTTTCGAC
*
21983259 ACCACCATTTTTGAC
1 ACCACCATTTTCGAC
21983274 ACCAC
1 ACCAC
21983279 TAAAAAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.40, G:0.09, T:0.26
Consensus pattern (15 bp):
ACCACCATTTTCGAC
Found at i:21984755 original size:20 final size:20
Alignment explanation
Indices: 21984732--21984779 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
21984722 AAATCCAAAT
21984732 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
*
21984752 TAAAATCCTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
21984772 TAAGAATA
1 TAA-AATA
21984780 TTGATGTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.25
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:21985591 original size:20 final size:18
Alignment explanation
Indices: 21985562--21985612 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
21985552 TATTTTGTAT
21985562 TTAATTTTAATTAATGTGA
1 TTAATTTTAATTAAT-TGA
* *
21985581 TTAATTTTTAAATACTTGA
1 TTAA-TTTTAATTAATTGA
21985600 TATAATTTTAATT
1 T-TAATTTTAATT
21985613 TATGACACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (18 bp):
TTAATTTTAATTAATTGA
Found at i:21987308 original size:59 final size:60
Alignment explanation
Indices: 21987223--21987349 Score: 143
Period size: 59 Copynumber: 2.1 Consensus size: 60
21987213 CCTAAATATA
* * * * *
21987223 AAAAAATTCAATAAATTTAGCACTCAATATTTTA-AAAAAAT-TCATTTAGTTATAATTCT
1 AAAAATTTCAATAAATTTAGCACTCAACA-TTTACAAAAAATGTCAATTAGTCATAACTCT
* * *
21987282 AAAAATTTCAATAAATTT-GACCCTCAACATTTACAAAATATGTCAATTAGTCCTAACTCT
1 AAAAATTTCAATAAATTTAG-CACTCAACATTTACAAAAAATGTCAATTAGTCATAACTCT
21987342 AAAAATTT
1 AAAAATTT
21987350 AAAAGAGAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
58 5 0.09
59 30 0.53
60 22 0.39
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (60 bp):
AAAAATTTCAATAAATTTAGCACTCAACATTTACAAAAAATGTCAATTAGTCATAACTCT
Found at i:21987782 original size:61 final size:61
Alignment explanation
Indices: 21987669--21987783 Score: 149
Period size: 61 Copynumber: 1.9 Consensus size: 61
21987659 TTTTAAAAAA
* * * ** * *
21987669 TTTTTAGAGTTAGGACTAAATTGACAAATTTTGTAAATGTTGATGGCCAAATTTATTAAAC
1 TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAAGGGCCAAATTTATTAAAC
* *
21987730 TTTTTAGAATTAGAACTAAAATGACAATTTTTGTAAACATTAAGGGCTAAATTT
1 TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAAGGGCCAAATTT
21987784 GTTGAATTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 45 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (61 bp):
TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAAGGGCCAAATTTATTAAAC
Found at i:21989431 original size:22 final size:22
Alignment explanation
Indices: 21989406--21989450 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
21989396 TGTTTAATTA
21989406 TTTTTATTT-AATTAATTATATG
1 TTTTTATTTCAATTAATTA-ATG
*
21989428 TTTTTATTTCATTTAATTAATG
1 TTTTTATTTCAATTAATTAATG
21989450 T
1 T
21989451 GAATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (22 bp):
TTTTTATTTCAATTAATTAATG
Found at i:21989443 original size:27 final size:28
Alignment explanation
Indices: 21989411--21989465 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
21989401 AATTATTTTT
21989411 ATTTAATTAAT-T-ATATGTTTTTATTTC
1 ATTTAATTAATGTAATAT-TTTTTATTTC
21989438 ATTTAATTAATGTGAATATTTTTTATTT
1 ATTTAATTAATGT-AATATTTTTTATTT
21989466 AAATATACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 11 0.44
28 1 0.04
29 9 0.36
30 4 0.16
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (28 bp):
ATTTAATTAATGTAATATTTTTTATTTC
Found at i:21991387 original size:27 final size:26
Alignment explanation
Indices: 21991331--21991481 Score: 115
Period size: 27 Copynumber: 5.6 Consensus size: 26
21991321 AAATTGTACA
* * *
21991331 GCACTAAGTGTGCG-ATTCTACTTTGTT
1 GCACTAAGTGTGCGAAAT-GACTATG-T
*
21991358 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAAATGACTATG-T
* * *
21991385 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAAATGACTATG-T
*
21991412 GCACTAAGTGTGCGAGATGGACTATGT
1 GCACTAAGTGTGCGAAAT-GACTATGT
** * *
21991439 GGCACTAAGTGTGCGATTTGATTACGT
1 -GCACTAAGTGTGCGAAATGACTATGT
*
21991466 GGCACTAAATGTGCGA
1 -GCACTAAGTGTGCGA
21991482 GTTGATTATA
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
27 78 0.76
28 24 0.24
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGAAATGACTATGT
Found at i:21991391 original size:54 final size:54
Alignment explanation
Indices: 21991331--21991456 Score: 148
Period size: 54 Copynumber: 2.3 Consensus size: 54
21991321 AAATTGTACA
* ** **
21991331 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAAT-GAATATGAT-
1 GCACTAAGTGTGCGATT-GACCATGCGGCACTAAGTGTGCGAAATGGAATATG-TG
* *
21991385 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGATGGACTATGTG
1 GCACTAAGTGTGCG-ATTGACCATGCGGCACTAAGTGTGCGAAATGGAATATGTG
21991440 GCACTAAGTGTGCGATT
1 GCACTAAGTGTGCGATT
21991457 TGATTACGTG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
54 39 0.63
55 23 0.37
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGATTGACCATGCGGCACTAAGTGTGCGAAATGGAATATGTG
Found at i:21991454 original size:55 final size:54
Alignment explanation
Indices: 21991358--21991507 Score: 160
Period size: 55 Copynumber: 2.8 Consensus size: 54
21991348 CTACTTTGTT
* *
21991358 GCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGATGAATATGATGCACTAAGTGTGCGAATTGACCACGCG
* * ** *
21991412 GCACTAAGTGTGCGAGATGGACTATG-TGGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGAT-GAATATGAT-GCACTAAGTGTGCGAATTGACCACGCG
* * * *
21991467 GCACTAAATGTGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGATGAATATGAT-GCACTAAGTGTGCG
21991508 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
54 37 0.46
55 44 0.54
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGATGAATATGATGCACTAAGTGTGCGAATTGACCACGCG
Found at i:21991471 original size:82 final size:81
Alignment explanation
Indices: 21991331--21991486 Score: 188
Period size: 82 Copynumber: 1.9 Consensus size: 81
21991321 AAATTGTACA
* * * * * *
21991331 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAATCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
21991396 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
21991412 GCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAAT
1 GCACTAAGTGTGCGA-ATCGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAAT
*
21991476 GTGCGAGTTGA
64 GTGCGAATTGA
21991487 TTATATAGCA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
81 16 0.26
82 46 0.74
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:21991486 original size:27 final size:27
Alignment explanation
Indices: 21991358--21991507 Score: 113
Period size: 27 Copynumber: 5.5 Consensus size: 27
21991348 CTACTTTGTT
** * *
21991358 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAGTTGATTACG-TG
* ** * *
21991385 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGATTACGTG
* * *
21991412 GCACTAAGTGTGCGAGATGGACTATGTG
1 GCACTAAGTGTGCGAG-TTGATTACGTG
*
21991440 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGTTGATTACGTG
* ** *
21991467 GCACTAAATGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGTTGATTACGTG
*
21991494 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
21991508 GGCTCAATAT
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
27 79 0.77
28 23 0.23
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTGATTACGTG
Found at i:21999810 original size:27 final size:27
Alignment explanation
Indices: 21999779--21999956 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21999769 TAAATTGTAC
21999779 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21999806 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21999832 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21999860 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21999888 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21999915 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21999942 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21999957 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Done.