Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 208 of 318
Found at i:65452912 original size:33 final size:33
Alignment explanation
Indices: 65452875--65452942 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
65452865 AGTCTGGTAC
65452875 ACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 ACGTAGTAGCCTGCACTTAGTACTACACACGTG
65452908 ACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 ACGTAGTAGCCTGCACTTAGTACTACACACGTG
65452941 AC
1 AC
65452943 CTCACCATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (33 bp):
ACGTAGTAGCCTGCACTTAGTACTACACACGTG
Found at i:65452967 original size:50 final size:51
Alignment explanation
Indices: 65452908--65453051 Score: 186
Period size: 51 Copynumber: 2.8 Consensus size: 51
65452898 TACACACGTG
* *
65452908 ACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATAC
1 ACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACAATTCGAATAC
**
65452958 ACGTAGTAGCCTGCACTTAGTACTACACACGTGA--TCACAATTTTCGGGTAC
1 ACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACAA--TTCGAATAC
* * *
65453009 GCATAGTAGCCTGCACTTAGTACTACACATGTGACCTCACAAT
1 ACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACAAT
65453052 AGATCATTCG
Statistics
Matches: 82, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
48 5 0.06
50 34 0.41
51 37 0.45
53 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (51 bp):
ACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACAATTCGAATAC
Found at i:65452980 original size:83 final size:82
Alignment explanation
Indices: 65452829--65452991 Score: 247
Period size: 83 Copynumber: 2.0 Consensus size: 82
65452819 ATGGTACGCA
* **
65452829 TAGTAGCCTGCACTTAGTACTACACATACGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACACGACCAACAGTCTAATACACGTAGTAGCCTGCACTTA
65452894 GTACTACACACGTGACG
66 GTACTACACACGTGACG
** *
65452911 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACACGA-C-CAACAGTCTAATACACGTAGTAGCCTGCACT
65452975 TAGTACTACACACGTGA
64 TAGTACTACACACGTGA
65452992 TCACAATTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
82 28 0.38
83 41 0.56
84 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (82 bp):
TAGTAGCCTGCACTTAGTACTACACACACGACCAACAGTCTAATACACGTAGTAGCCTGCACTTA
GTACTACACACGTGACG
Found at i:65455430 original size:24 final size:24
Alignment explanation
Indices: 65455398--65455445 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
65455388 ATTAAAGTTC
65455398 TAATAGACTTTACAGGGGAAAAAG
1 TAATAGACTTTACAGGGGAAAAAG
*
65455422 TAATGGACTTTACAGGGGAAAAAG
1 TAATAGACTTTACAGGGGAAAAAG
65455446 CGAACTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.08, G:0.27, T:0.21
Consensus pattern (24 bp):
TAATAGACTTTACAGGGGAAAAAG
Found at i:65456172 original size:16 final size:16
Alignment explanation
Indices: 65456151--65456181 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
65456141 GGTTATTACA
65456151 TTATTTATCTTTTAAG
1 TTATTTATCTTTTAAG
65456167 TTATTTATCTTTTAA
1 TTATTTATCTTTTAA
65456182 AATTTCATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (16 bp):
TTATTTATCTTTTAAG
Found at i:65466139 original size:27 final size:27
Alignment explanation
Indices: 65466098--65466159 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
65466088 GTGTTTTTTA
65466098 GTGAAATGTCCAA-TTAGGGATTAAATT
1 GTGAAATGTCCAATTTAGGG-TTAAATT
** *
65466125 GTGAAATGTGTAATTTTTGGGTTAAATT
1 GTGAAATGTCCAA-TTTAGGGTTAAATT
65466153 GTGAAAT
1 GTGAAAT
65466160 AAATAAAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 11 0.37
28 14 0.47
29 5 0.17
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (27 bp):
GTGAAATGTCCAATTTAGGGTTAAATT
Found at i:65466704 original size:23 final size:23
Alignment explanation
Indices: 65466674--65466728 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
65466664 TGAGTTATCC
65466674 AGCATGTGTTGCAGATTCTCGTT
1 AGCATGTGTTGCAGATTCTCGTT
65466697 AGCATGTGTTGCAGATTCTCGTT
1 AGCATGTGTTGCAGATTCTCGTT
*
65466720 AGCTTGTGT
1 AGCATGTGT
65466729 AAGCAGCACC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.40
Consensus pattern (23 bp):
AGCATGTGTTGCAGATTCTCGTT
Found at i:65470706 original size:26 final size:26
Alignment explanation
Indices: 65470656--65470715 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
65470646 TCTAATTTAT
65470656 TATAATATAATAATTTTATGCTTATAA
1 TATAATATAATAATTTTAT-CTTATAA
*
65470683 TATAATATAATATTTTTCAT-TTATAA
1 TATAATATAATAATTTT-ATCTTATAA
65470709 TATAATA
1 TATAATA
65470716 CTCTTATCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
26 13 0.42
27 16 0.52
28 2 0.06
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (26 bp):
TATAATATAATAATTTTATCTTATAA
Found at i:65471081 original size:18 final size:18
Alignment explanation
Indices: 65471044--65471115 Score: 66
Period size: 16 Copynumber: 4.3 Consensus size: 18
65471034 TTTTATTTCT
*
65471044 TATTTAATAT-AACATAA
1 TATTTAATATAAATATAA
* *
65471061 T-TTGAATATATAT-TAA
1 TATTTAATATAAATATAA
65471077 TATTTAATATAAATATAA
1 TATTTAATATAAATATAA
65471095 TA--TAATAT-AATATAA
1 TATTTAATATAAATATAA
65471110 TTATTT
1 -TATTT
65471116 TTAATAATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
15 7 0.16
16 19 0.43
17 12 0.27
18 6 0.14
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (18 bp):
TATTTAATATAAATATAA
Found at i:65471098 original size:5 final size:5
Alignment explanation
Indices: 65471048--65471110 Score: 56
Period size: 5 Copynumber: 11.8 Consensus size: 5
65471038 ATTTCTTATT
* *
65471048 TAATA TAACA TAATT TGAATA T-ATA TTAATA TTTAATA TAAATA TAATA
1 TAATA TAATA TAATA T-AATA TAATA -TAATA --TAATA T-AATA TAATA
65471097 TAATA TAATA TAAT
1 TAATA TAATA TAAT
65471111 TATTTTTAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
4 3 0.06
5 28 0.57
6 12 0.24
7 6 0.12
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (5 bp):
TAATA
Found at i:65484628 original size:3 final size:3
Alignment explanation
Indices: 65484550--65484610 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
65484540 ATTGTGGGTT
*
65484550 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
65484598 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
65484611 ATCATGTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:65484970 original size:25 final size:23
Alignment explanation
Indices: 65484925--65484975 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
65484915 ACTTTAAAAT
65484925 TACTTATTTAAAAATTAATTTACA
1 TACTTATTTAAAAATTAATTTA-A
*
65484949 TACTTGATATTAAAAA-TGATTTAA
1 TACTT-AT-TTAAAAATTAATTTAA
65484973 TAC
1 TAC
65484976 ACTATAAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 9 0.38
25 8 0.33
26 7 0.29
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (23 bp):
TACTTATTTAAAAATTAATTTAA
Found at i:65491246 original size:23 final size:23
Alignment explanation
Indices: 65491198--65491388 Score: 274
Period size: 24 Copynumber: 8.1 Consensus size: 23
65491188 CCTTGCCTCT
*
65491198 TTTAATAACTGGGGCAAAAAGCCC
1 TTTAATAACTGGGGC-ATAAGCCC
*
65491222 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
65491245 TTTTGATCACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
65491269 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
65491292 TTTTGATAACTGGGGCATAAACCC
1 -TTTAATAACTGGGGCATAAGCCC
*
65491316 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
65491340 TTTAATAACTGGGGTATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
65491363 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
65491386 TTT
1 TTT
65491389 TGCACTTCCT
Statistics
Matches: 152, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
23 73 0.48
24 79 0.52
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:65491282 original size:71 final size:70
Alignment explanation
Indices: 65491198--65491390 Score: 314
Period size: 71 Copynumber: 2.7 Consensus size: 70
65491188 CCTTGCCTCT
* * *
65491198 TTTAATAACTGGGGCAAAAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCAT
1 TTTAATAACTGGGGC-ATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAT
65491263 AAGCCC
65 AAGCCC
* *
65491269 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAACCCTTTTGATAACTGGGGCAT
1 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAT
65491334 AAGCCC
65 AAGCCC
*
65491340 TTTAATAACTGGGGTATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTG
65491391 CACTTCCTCC
Statistics
Matches: 113, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
70 33 0.29
71 80 0.71
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (70 bp):
TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
AGCCC
Found at i:65491461 original size:9 final size:9
Alignment explanation
Indices: 65491447--65491503 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
65491437 ATCTCATGTG
65491447 CATATCATA
1 CATATCATA
*
65491456 CATATCATGTG
1 CATATCA--TA
65491467 CATATCATA
1 CATATCATA
* *
65491476 CATGTCATGTG
1 CATATCA--TA
65491487 CATATCATA
1 CATATCATA
65491496 CATATCAT
1 CATATCAT
65491504 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:65491463 original size:20 final size:20
Alignment explanation
Indices: 65491435--65491505 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
65491425 GCATTTATGA
*
65491435 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
65491455 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
65491475 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
65491495 ACATATCATGT
1 ACATATCATGT
65491506 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:65491470 original size:11 final size:11
Alignment explanation
Indices: 65491440--65491494 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
65491430 TATGAACATC
65491440 TCATGTGCATA
1 TCATGTGCATA
*
65491451 TCA--TACATA
1 TCATGTGCATA
65491460 TCATGTGCATA
1 TCATGTGCATA
* *
65491471 TCA--TACATG
1 TCATGTGCATA
65491480 TCATGTGCATA
1 TCATGTGCATA
65491491 TCAT
1 TCAT
65491495 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:65492908 original size:22 final size:22
Alignment explanation
Indices: 65492873--65492914 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
65492863 AGCTTTTAGG
*
65492873 AAAAATAAAAAAGAATAAGAGC
1 AAAAAGAAAAAAGAATAAGAGC
* *
65492895 AAAAAGAAATAAGATTAAGA
1 AAAAAGAAAAAAGAATAAGA
65492915 TTAGAATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.71, C:0.02, G:0.14, T:0.12
Consensus pattern (22 bp):
AAAAAGAAAAAAGAATAAGAGC
Found at i:65496849 original size:4 final size:4
Alignment explanation
Indices: 65496829--65496865 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
65496819 ATAATAGGTT
* *
65496829 TAAA AAAA TACA TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
65496866 CCTCAAGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:65498747 original size:16 final size:17
Alignment explanation
Indices: 65498726--65498757 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
65498716 GTAGGTTTAA
65498726 ATTTAAAATT-AGAATG
1 ATTTAAAATTAAGAATG
65498742 ATTTAAAATTAAGAAT
1 ATTTAAAATTAAGAAT
65498758 AAGTAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (17 bp):
ATTTAAAATTAAGAATG
Found at i:65503003 original size:11 final size:11
Alignment explanation
Indices: 65502984--65503052 Score: 70
Period size: 11 Copynumber: 6.4 Consensus size: 11
65502974 CGATGCTGTT
*
65502984 TTTTG-TGCTA
1 TTTTGCTGCTG
*
65502994 TTTTGTTGCT-
1 TTTTGCTGCTG
* *
65503004 ATTTGGTGCTG
1 TTTTGCTGCTG
*
65503015 TTTTGATGCTG
1 TTTTGCTGCTG
65503026 TTTTGCTGCTG
1 TTTTGCTGCTG
65503037 TTTTGCTGCTG
1 TTTTGCTGCTG
65503048 CTTTT
1 -TTTT
65503053 TGTTGTGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
10 13 0.25
11 34 0.67
12 4 0.08
ACGTcount: A:0.04, C:0.13, G:0.25, T:0.58
Consensus pattern (11 bp):
TTTTGCTGCTG
Found at i:65503035 original size:22 final size:22
Alignment explanation
Indices: 65502975--65503063 Score: 76
Period size: 21 Copynumber: 4.0 Consensus size: 22
65502965 TGTTGTTGGC
*
65502975 GATGCTGTTTTTTGTGCTATTTT
1 GATGCTG-TTTTTGTGCTGTTTT
* * *
65502998 GTTGCT-ATTTGGTGCTGTTTT
1 GATGCTGTTTTTGTGCTGTTTT
65503019 GATGCTG-TTTTGCTGCTGTTTT
1 GATGCTGTTTTTG-TGCTGTTTT
*
65503041 GCTGCTGCTTTTTGTTG-TGTTTT
1 GATGCTG-TTTTTG-TGCTGTTTT
65503064 ATTATTTTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
21 21 0.39
22 15 0.28
23 11 0.20
24 7 0.13
ACGTcount: A:0.04, C:0.11, G:0.26, T:0.58
Consensus pattern (22 bp):
GATGCTGTTTTTGTGCTGTTTT
Found at i:65505369 original size:47 final size:47
Alignment explanation
Indices: 65505292--65505434 Score: 157
Period size: 47 Copynumber: 3.0 Consensus size: 47
65505282 AGTAAATTGT
* * * *
65505292 GAAAACCATCATTCTC-GAGCCATCCGAGATGGCAGTATATTGAAATA
1 GAAAACCATCGTTGTCAG-GCCATCCGAGATGGTAGAATATTGAAATA
* * *
65505339 GAAAGCTATCGTTGTCAGGCCATTCC-AGATGGTAGCATATTGGAAA-A
1 GAAAACCATCGTTGTCAGGCCA-TCCGAGATGGTAGAATATT-GAAATA
* *
65505386 GAAAACCATCGTTGTCAGCCCATCCGAGATGGTAGAATATTAAAATA
1 GAAAACCATCGTTGTCAGGCCATCCGAGATGGTAGAATATTGAAATA
65505433 GA
1 GA
65505435 TTAAATTATC
Statistics
Matches: 80, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
46 6 0.08
47 66 0.82
48 8 0.10
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.24
Consensus pattern (47 bp):
GAAAACCATCGTTGTCAGGCCATCCGAGATGGTAGAATATTGAAATA
Found at i:65512454 original size:43 final size:43
Alignment explanation
Indices: 65512406--65512490 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
65512396 TACATGAATC
* *
65512406 GCATCCATCATGAACTCGGACCTCTCAACGAGCTCGGATGCTT
1 GCATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGCTT
65512449 GCATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGCT
1 GCATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGCT
65512491 ACATACCTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (43 bp):
GCATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGCTT
Found at i:65517072 original size:43 final size:43
Alignment explanation
Indices: 65517010--65517110 Score: 175
Period size: 43 Copynumber: 2.3 Consensus size: 43
65517000 TGGGCCTGGC
* * *
65517010 CACACAAGCTGTGGGTCGAGATGTTAGGCTACATGATGCTGCT
1 CACACGAGCTGTGGATCGAGATGTTAGGCTACACGATGCTGCT
65517053 CACACGAGCTGTGGATCGAGATGTTAGGCTACACGATGCTGCT
1 CACACGAGCTGTGGATCGAGATGTTAGGCTACACGATGCTGCT
65517096 CACACGAGCTGTGGA
1 CACACGAGCTGTGGA
65517111 GAATTCACAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.23
Consensus pattern (43 bp):
CACACGAGCTGTGGATCGAGATGTTAGGCTACACGATGCTGCT
Found at i:65529022 original size:118 final size:119
Alignment explanation
Indices: 65528694--65529042 Score: 480
Period size: 114 Copynumber: 2.9 Consensus size: 119
65528684 TTTTATCTTG
65528694 GGTTATATGAGTCCAATGTTGTGTGTAAAAATGGTGACTGAACATGCTGCAAATACATATTGTTG
1 GGTTATATGAGTCCAATGTTGTGTGTAAAAATGGTGACTGAAC--G-TGC---TACATATTGTTG
*
65528759 TACAAGTGAGTGAA-TATTTGCATGTACGTTCATTGCATGTTAAATAGATGTTGTATTCTA
60 TACAAGTGTGT-AAGTATTTGCATGTACGTTCATTGCATGTTAAATAGATGTTGTATTCTA
* * * *
65528819 GGTCATATGATTCCAAT-AT-TGTGTAAAAATGGTGACTGAACATG---CATATTGTTGTACAAG
1 GGTTATATGAGTCCAATGTTGTGTGTAAAAATGGTGACTGAACGTGCTACATATTGTTGTACAAG
* *
65528879 TGTGTGAGTATTTGCATGTATGTTCATTGCATGTTAAA-AGATGTTGTATTCT-
66 TGTGTAAGTATTTGCATGTACGTTCATTGCATGTTAAATAGATGTTGTATTCTA
*
65528931 GAGTTATATAAGTCCAATGTTGTGTGTAAAAATGGTGACTGAACGTGCTACATATTGTTGTACAA
1 G-GTTATATGAGTCCAATGTTGTGTGTAAAAATGGTGACTGAACGTGCTACATATTGTTGTACAA
* *
65528996 GTGTGTAAGTATTTTCATATACGTTCATTGCATGTTAAATAGATGTT
65 GTGTGTAAGTATTTGCATGTACGTTCATTGCATGTTAAATAGATGTT
65529043 ACATGGTGTG
Statistics
Matches: 200, Mismatches: 16, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
112 1 0.00
113 28 0.14
114 50 0.25
115 24 0.12
118 50 0.25
119 7 0.04
120 2 0.01
123 22 0.11
124 1 0.00
125 15 0.08
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (119 bp):
GGTTATATGAGTCCAATGTTGTGTGTAAAAATGGTGACTGAACGTGCTACATATTGTTGTACAAG
TGTGTAAGTATTTGCATGTACGTTCATTGCATGTTAAATAGATGTTGTATTCTA
Found at i:65529905 original size:26 final size:26
Alignment explanation
Indices: 65529876--65529932 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
65529866 CCGACACTCT
65529876 GTTTTTAAA-ATATGTTTTCAAAATAA
1 GTTTTTAAAGATATGTTTT-AAAATAA
*
65529902 GTTTTTAAAGCTATGTTTTAAAATAA
1 GTTTTTAAAGATATGTTTTAAAATAA
65529928 GTTTT
1 GTTTT
65529933 ATGCATACTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.49
Consensus pattern (26 bp):
GTTTTTAAAGATATGTTTTAAAATAA
Found at i:65529919 original size:14 final size:13
Alignment explanation
Indices: 65529875--65529932 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
65529865 TCCGACACTC
65529875 TGTTTTTAAAATA
1 TGTTTTTAAAATA
*
65529888 TGTTTTCAAAATA
1 TGTTTTTAAAATA
* *
65529901 AGTTTTTAAAGCTA
1 TGTTTTTAAA-ATA
65529915 TG-TTTTAAAATA
1 TGTTTTTAAAATA
*
65529927 AGTTTT
1 TGTTTT
65529933 ATGCATACTC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
12 3 0.08
13 30 0.83
14 3 0.08
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.50
Consensus pattern (13 bp):
TGTTTTTAAAATA
Found at i:65531934 original size:26 final size:26
Alignment explanation
Indices: 65531898--65531951 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
65531888 CTGTTTGGCG
*
65531898 AATTAGGGTTCACCAATTAAGTTGCA
1 AATTAGGGTTCACCAAGTAAGTTGCA
* * *
65531924 AATTAGTGTTCGCCAAGTAAGTTTCA
1 AATTAGGGTTCACCAAGTAAGTTGCA
65531950 AA
1 AA
65531952 CCGAGGTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (26 bp):
AATTAGGGTTCACCAAGTAAGTTGCA
Found at i:65537583 original size:21 final size:21
Alignment explanation
Indices: 65537547--65537601 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
65537537 AAAATAGACT
65537547 TCTAGCGGC-CTTTTTTTGCC
1 TCTAGCGGCGCTTTTTTTGCC
*
65537567 TCTAGCGGCGTTTTTTTTGCC
1 TCTAGCGGCGCTTTTTTTGCC
*
65537588 TTTAGCGGCGCTTT
1 TCTAGCGGCGCTTT
65537602 CCCAAGCGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 9 0.29
21 22 0.71
ACGTcount: A:0.05, C:0.25, G:0.24, T:0.45
Consensus pattern (21 bp):
TCTAGCGGCGCTTTTTTTGCC
Found at i:65537724 original size:43 final size:43
Alignment explanation
Indices: 65537667--65537895 Score: 350
Period size: 43 Copynumber: 5.3 Consensus size: 43
65537657 TTTTCGAAAA
* *
65537667 AAACGCAGCTAAAGACCATTACCTTTAGCGGCGCTTTTTTCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
* * *
65537710 AAACTCCGCTAAAGACCATGACCTTTAACGGCGCTTTTTTCGA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
* * *
65537753 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTTTTGA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
65537796 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTTCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTTTCGC
* * *
65537840 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
65537883 AAACGCCGCTAAA
1 AAACGCCGCTAAA
65537896 AATAATGATC
Statistics
Matches: 170, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
43 130 0.76
44 40 0.24
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
Found at i:65538246 original size:17 final size:18
Alignment explanation
Indices: 65538219--65538252 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
65538209 ATGCCAAAAT
65538219 GTTGAACTCCATATTCCA
1 GTTGAACTCCATATTCCA
65538237 GTTG-ACTCCATATTCC
1 GTTGAACTCCATATTCC
65538253 CCCACAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (18 bp):
GTTGAACTCCATATTCCA
Found at i:65543567 original size:19 final size:18
Alignment explanation
Indices: 65543543--65543586 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
65543533 GTATAAATCA
*
65543543 TAAAAATTAAAAAAATATT
1 TAAAAAATAAAAAAAT-TT
*
65543562 TAAAAAATCAAAAAATTT
1 TAAAAAATAAAAAAATTT
65543580 TAAAAAA
1 TAAAAAA
65543587 GTTCATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAAATAAAAAAATTT
Found at i:65544131 original size:7 final size:7
Alignment explanation
Indices: 65544119--65544222 Score: 52
Period size: 7 Copynumber: 14.6 Consensus size: 7
65544109 GCTAATTAAT
65544119 CTAAACC
1 CTAAACC
65544126 CTAAACC
1 CTAAACC
*
65544133 TCTTAACCC
1 -C-TAAACC
*
65544142 CT-ATCC
1 CTAAACC
*
65544148 CATAAACA
1 C-TAAACC
*
65544156 CTAAACT
1 CTAAACC
65544163 CTAAACC
1 CTAAACC
*
65544170 CTTAACC
1 CTAAACC
*
65544177 CCAAACC
1 CTAAACC
*
65544184 CTTACACC
1 C-TAAACC
* *
65544192 TTAAACT
1 CTAAACC
65544199 CT-AACC
1 CTAAACC
65544205 CT-AACC
1 CTAAACC
*
65544211 ATTAAACC
1 -CTAAACC
65544219 CTAA
1 CTAA
65544223 TTAATCATAA
Statistics
Matches: 72, Mismatches: 18, Indels: 14
0.69 0.17 0.13
Matches are distributed among these distances:
6 13 0.18
7 41 0.57
8 13 0.18
9 5 0.07
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:65544197 original size:36 final size:36
Alignment explanation
Indices: 65544119--65544210 Score: 100
Period size: 36 Copynumber: 2.6 Consensus size: 36
65544109 GCTAATTAAT
* * *
65544119 CTAAACCCTAAACCTCTTAACCCCTATCCCATAAACA
1 CTAAACTCTAAACC-CTTAACCCCAAACCCATAAACA
* *
65544156 CTAAACTCTAAACCCTTAACCCCAAACCCTTACAC-
1 CTAAACTCTAAACCCTTAACCCCAAACCCATAAACA
65544191 CTTAAACTCT-AACCC-TAACC
1 C-TAAACTCTAAACCCTTAACC
65544211 ATTAAACCCT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
34 5 0.10
35 6 0.12
36 25 0.51
37 13 0.27
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (36 bp):
CTAAACTCTAAACCCTTAACCCCAAACCCATAAACA
Found at i:65544310 original size:21 final size:21
Alignment explanation
Indices: 65544286--65544366 Score: 81
Period size: 21 Copynumber: 3.7 Consensus size: 21
65544276 ACTCTTAAAC
65544286 CTTAAACCCTAAACTATATAT
1 CTTAAACCCTAAACTATATAT
* * *
65544307 CTTAAACCGTAGTTAACTCATAAAC
1 CTTAAACCCTA---AACT-ATATAT
*
65544332 CTTAAACCCTAAACCATATAT
1 CTTAAACCCTAAACTATATAT
*
65544353 CTTAAACCATAAAC
1 CTTAAACCCTAAAC
65544367 CATAAACTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 27 0.56
22 3 0.06
24 4 0.08
25 14 0.29
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.28
Consensus pattern (21 bp):
CTTAAACCCTAAACTATATAT
Found at i:65544320 original size:46 final size:46
Alignment explanation
Indices: 65544270--65544360 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
65544260 CTTTAAATAC
* *
65544270 TAGTTAACTCTTAAACCTTAAACCCTAAACTATATATCTTAAACCG
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCG
65544316 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACC
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACC
65544361 ATAAACCATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.41, C:0.25, G:0.03, T:0.31
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCG
Found at i:65544339 original size:7 final size:7
Alignment explanation
Indices: 65544325--65544378 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
65544315 GTAGTTAACT
65544325 CATAAAC
1 CATAAAC
*
65544332 CTTAAAC
1 CATAAAC
*
65544339 CCTAAAC
1 CATAAAC
* *
65544346 CATATAT
1 CATAAAC
*
65544353 CTTAAAC
1 CATAAAC
65544360 CATAAAC
1 CATAAAC
65544367 CATAAAC
1 CATAAAC
*
65544374 TATAA
1 CATAA
65544379 TGATAATTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (7 bp):
CATAAAC
Found at i:65544580 original size:41 final size:41
Alignment explanation
Indices: 65544535--65544671 Score: 165
Period size: 41 Copynumber: 3.4 Consensus size: 41
65544525 GTTATATGAC
65544535 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* **
65544576 TTTTAGCGGTGTTTTTCCAAAAGCGCCGCTAATGCT-TTAT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* * *
65544616 TTTT-GCGGCGTTTTTTACTAAAA-TGCCGCTATTGCTCTGG-
1 TTTTAGCGGCG-TTTTT-CCAAAAGCGCCGCTAATGCTCTGGT
*
65544656 TTTTAGTGGCGTTTTT
1 TTTTAGCGGCGTTTTT
65544672 GGTAAAACGC
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
39 5 0.06
40 31 0.38
41 46 0.56
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.42
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:65544740 original size:12 final size:12
Alignment explanation
Indices: 65544725--65544750 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
65544715 GTTTTTTGAT
65544725 AAAACGCCGCTA
1 AAAACGCCGCTA
65544737 AAAACGCCGCTA
1 AAAACGCCGCTA
65544749 AA
1 AA
65544751 GTCCTATTTT
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:65545136 original size:54 final size:55
Alignment explanation
Indices: 65545075--65545207 Score: 155
Period size: 54 Copynumber: 2.5 Consensus size: 55
65545065 GGGGGAAAGC
* *
65545075 AAAAGGAAAATTTTTTTG-GAGG-TTTGAGAGAAGTAAAAGTTTTAGAAGGAAATT
1 AAAAGGAAAATTTTTTTGAG-GGTTTTGAGAGAAGTAAAAATTTTAGAAGGAAAAT
*** * *
65545129 AAAAGGAAAAAAGTTTTGAGGGTTTTTAGAGAAGTAAAAATTTTGGAAGGAAAAT
1 AAAAGGAAAATTTTTTTGAGGGTTTTGAGAGAAGTAAAAATTTTAGAAGGAAAAT
* *
65545184 -AAAGGGAAATTTTTTTAAGGGTTT
1 AAAAGGAAAATTTTTTTGAGGGTTT
65545208 GAGGAAAAGT
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
54 36 0.55
55 29 0.45
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.32
Consensus pattern (55 bp):
AAAAGGAAAATTTTTTTGAGGGTTTTGAGAGAAGTAAAAATTTTAGAAGGAAAAT
Found at i:65545218 original size:54 final size:53
Alignment explanation
Indices: 65545075--65545219 Score: 148
Period size: 55 Copynumber: 2.7 Consensus size: 53
65545065 GGGGGAAAGC
* * *
65545075 AAAAGGAAAATTTTTTTGGAGGTTTGAGAGAAGTAAAAGTTTTAGAAGGAAATT
1 AAAAGGAAAATTTTTTTAG-GGTTTGAGAGAAGTAAAAATTTTAGAAGGAAAAT
** * * *
65545129 AAAAGGAAAAAAGTTTTGAGGGTTTTTAGAGAAGTAAAAATTTTGGAAGGAAAAT
1 AAAAGG-AAAATTTTTTTAGGG-TTTGAGAGAAGTAAAAATTTTAGAAGGAAAAT
* *
65545184 -AAAGGGAAATTTTTTTAAGGGTTTGAGGAAAAGTAA
1 AAAAGGAAAATTTTTTT-AGGGTTTGA-GAGAAGTAA
65545220 TTTTTTTTGG
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
53 11 0.15
54 25 0.34
55 37 0.51
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (53 bp):
AAAAGGAAAATTTTTTTAGGGTTTGAGAGAAGTAAAAATTTTAGAAGGAAAAT
Found at i:65549553 original size:48 final size:48
Alignment explanation
Indices: 65549482--65549755 Score: 271
Period size: 48 Copynumber: 5.7 Consensus size: 48
65549472 TCGGGATTGG
* * * * *
65549482 TGCCATGTCCCCGACATGGTCTTACA-TGAACCCACATATCATTATCAA
1 TGCCATGTCCCAGACATGGTCTTACACTG-GCACACATATCATTACCGA
**
65549530 TGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATTACCGA
* * * ** *
65549578 TGCCATTTCCCAAACATGGTCTTATACTGGCACACATATCATCGCTGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATTACCGA
* ** **
65549626 TGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATTACCGA
* * *** ** **
65549674 TTCCATGTCCCAGACATGGTCTTACCCAAACACATTTATCATCGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATTACCGA
* *
65549722 TGCCATGTCCCAGGCATGGTCTTACACAGGCACA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCACA
65549756 TTTAGCACGG
Statistics
Matches: 198, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
48 196 0.99
49 2 0.01
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (48 bp):
TGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATTACCGA
Found at i:65549756 original size:48 final size:48
Alignment explanation
Indices: 65549529--65549759 Score: 327
Period size: 48 Copynumber: 4.8 Consensus size: 48
65549519 ATCATTATCA
* **
65549529 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGCCG
* * * * ** *
65549577 ATGCCATTTCCCAAACATGGTCTTATACTGGCACACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGCCG
65549625 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGCCG
* * **
65549673 ATTCCATGTCCCAGACATGGTCTTACCCAAACACATTTATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGCCG
*
65549721 ATGCCATGTCCCAGGCATGGTCTTACACAGGCACATTTA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTA
65549760 GCACGGTGTC
Statistics
Matches: 163, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 163 1.00
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGCCG
Found at i:65549756 original size:96 final size:96
Alignment explanation
Indices: 65549482--65549759 Score: 340
Period size: 96 Copynumber: 2.9 Consensus size: 96
65549472 TCGGGATTGG
** ** * *** *
65549482 TGCCATGTCCCCGACATGGTCTTACATGAACCCACATATCATTATCAATGCCATGTCCCAGACAT
1 TGCCATGTCCCAAACATGGTCTTACACAAACACACATATCATCGCCGATGCCATGTCCCAGACAT
* **
65549547 GGTCTTACACTGGCACACATATCATCGCCGA
66 GGTCTTACACAGGCACATTTATCATCGCCGA
* * *** *
65549578 TGCCATTTCCCAAACATGGTCTTATACTGGCACACATATCATCGCTGATGCCATGTCCCAGACAT
1 TGCCATGTCCCAAACATGGTCTTACACAAACACACATATCATCGCCGATGCCATGTCCCAGACAT
65549643 GGTCTTACACAGGCACATTTATCATCGCCGA
66 GGTCTTACACAGGCACATTTATCATCGCCGA
* * * ** *
65549674 TTCCATGTCCCAGACATGGTCTTACCCAAACACATTTATCATCGCCGATGCCATGTCCCAGGCAT
1 TGCCATGTCCCAAACATGGTCTTACACAAACACACATATCATCGCCGATGCCATGTCCCAGACAT
65549739 GGTCTTACACAGGCACATTTA
66 GGTCTTACACAGGCACATTTA
65549760 GCACGGTGTC
Statistics
Matches: 153, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 153 1.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (96 bp):
TGCCATGTCCCAAACATGGTCTTACACAAACACACATATCATCGCCGATGCCATGTCCCAGACAT
GGTCTTACACAGGCACATTTATCATCGCCGA
Found at i:65551192 original size:22 final size:22
Alignment explanation
Indices: 65551173--65551232 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
65551163 AGCTTTGATG
65551173 TTTTATGTCTCAAGACTTGACA
1 TTTTATGTCTCAAGACTTGACA
65551195 TTTTATGTCTCAAGACTTGACA
1 TTTTATGTCTCAAGACTTGACA
**
65551217 CCTTATGTCTCAAGAC
1 TTTTATGTCTCAAGAC
65551233 AAGTACCTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (22 bp):
TTTTATGTCTCAAGACTTGACA
Found at i:65552846 original size:16 final size:16
Alignment explanation
Indices: 65552821--65552858 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
65552811 TTAAAATAGA
*
65552821 GAAATAGAATTATTTG
1 GAAATGGAATTATTTG
65552837 GAAATGGAATTATTTG
1 GAAATGGAATTATTTG
65552853 GAAATG
1 GAAATG
65552859 AATGTGGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.34
Consensus pattern (16 bp):
GAAATGGAATTATTTG
Found at i:65553196 original size:125 final size:124
Alignment explanation
Indices: 65552948--65553184 Score: 411
Period size: 125 Copynumber: 1.9 Consensus size: 124
65552938 TGATTGAGAG
* * **
65552948 AATGAGTTTATGTTTTTGGGCTATTTTAAAGCCCGAAAATAAAAATAAACCATTCGGTTATAGTG
1 AATGAGTTTATGTTTTTGGGCTATTTTAAAGCCCAAAAATAAAAAAAAACCATTCGGCCATAGTG
65553013 AACATGTTGAGTGGTAAAATATTAAACAAATTTTTTCAGAAATTTTAAATGGGGTAAAA
66 AACATGTTGAGTGGTAAAATATTAAACAAATTTTTTCAGAAATTTTAAATGGGGTAAAA
65553072 AATGAGTTTATGTTTTTGGGCTATTTTAAAGCCCAAAAATGAAAAAAAAACCATTCGGCCATAGT
1 AATGAGTTTATGTTTTTGGGCTATTTTAAAGCCCAAAAAT-AAAAAAAAACCATTCGGCCATAGT
* *
65553137 GAACATGTTGAGTGGTAAAATATTAAACATATTTTTTTAGAAATTTTA
65 GAACATGTTGAGTGGTAAAATATTAAACAAATTTTTTCAGAAATTTTA
65553185 CCAGGGGTAA
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
124 39 0.37
125 67 0.63
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (124 bp):
AATGAGTTTATGTTTTTGGGCTATTTTAAAGCCCAAAAATAAAAAAAAACCATTCGGCCATAGTG
AACATGTTGAGTGGTAAAATATTAAACAAATTTTTTCAGAAATTTTAAATGGGGTAAAA
Found at i:65556865 original size:41 final size:41
Alignment explanation
Indices: 65556808--65556890 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
65556798 AGTTGTCGTG
65556808 AATTTATTCGTAACAACATAAACATAAGTTTAATAATTCTA
1 AATTTATTCGTAACAACATAAACATAAGTTTAATAATTCTA
*
65556849 AATTTATTCGTAACAACATAAACATGAGTTTAATAATTCTA
1 AATTTATTCGTAACAACATAAACATAAGTTTAATAATTCTA
65556890 A
1 A
65556891 GTTAAGAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (41 bp):
AATTTATTCGTAACAACATAAACATAAGTTTAATAATTCTA
Found at i:65559223 original size:28 final size:28
Alignment explanation
Indices: 65559162--65559411 Score: 279
Period size: 28 Copynumber: 8.9 Consensus size: 28
65559152 CTTCATACAG
* *
65559162 AGTTCACCACAAAGGC-TAATATTTCAT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
*
65559189 AGTTCACAACAAAGGCTTATTCTTTCAT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
* *
65559217 AGCTCACCACAAAGACTTATTCTTTCAT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
* *
65559245 AGTTCTCCACAAAGACTTATTCTTTCAT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
** *
65559273 AGTTTGCCACAAAGGCTCATTCTTTTC-T
1 AGTTCACCACAAAGGCTTATTC-TTTCAT
* * *
65559301 AATTCCCCACAAAGACTTATTCTTTCAT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
*
65559329 AGTTCACCTCAAAGGCTTATTCTTTTCAT
1 AGTTCACCACAAAGGCTTATTC-TTTCAT
** * *
65559358 AGTTTGCCACAAAGGCTTATTTTTTTAT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
* * *
65559386 AGTTCGCCATAAGGGCTTATTCTTTC
1 AGTTCACCACAAAGGCTTATTCTTTC
65559412 CTGACGTGTT
Statistics
Matches: 188, Mismatches: 31, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
27 19 0.10
28 141 0.75
29 28 0.15
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.38
Consensus pattern (28 bp):
AGTTCACCACAAAGGCTTATTCTTTCAT
Found at i:65561288 original size:40 final size:40
Alignment explanation
Indices: 65561244--65561324 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
65561234 TGATATGAGT
65561244 ATGAAAATGGTTCGACTAGGCTTGAGTTTTGAAGAACTTG
1 ATGAAAATGGTTCGACTAGGCTTGAGTTTTGAAGAACTTG
65561284 ATGAAAATGGTTCGACTAGGCTTGAGTTTTGAAGAACTTG
1 ATGAAAATGGTTCGACTAGGCTTGAGTTTTGAAGAACTTG
65561324 A
1 A
65561325 ATACATTTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (40 bp):
ATGAAAATGGTTCGACTAGGCTTGAGTTTTGAAGAACTTG
Found at i:65566477 original size:40 final size:40
Alignment explanation
Indices: 65566399--65566622 Score: 317
Period size: 40 Copynumber: 5.5 Consensus size: 40
65566389 ACCCAAGTAT
* *
65566399 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
65566438 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
65566478 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
65566518 CTTCGGGACTTAGCCCGGGTATAGCAACTACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG--TC-ACTAGCACAAATGC
* *
65566561 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
65566601 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
65566623 CATCCGAATA
Statistics
Matches: 166, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
39 11 0.07
40 116 0.70
41 1 0.01
42 1 0.01
43 37 0.22
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:65566581 original size:83 final size:80
Alignment explanation
Indices: 65566399--65566622 Score: 317
Period size: 83 Copynumber: 2.8 Consensus size: 80
65566389 ACCCAAGTAT
* * *
65566399 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* **
65566462 TCACTAGCATGAATGC
65 ACACTAGCACAAATGC
*
65566478 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG-
65566543 AACTACTAGCACAAATGC
65 -AC-ACTAGCACAAATGC
* *
65566561 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
65566623 CATCCGAATA
Statistics
Matches: 130, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
79 12 0.09
80 45 0.35
81 1 0.01
82 1 0.01
83 71 0.55
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGA
CACTAGCACAAATGC
Found at i:65569679 original size:36 final size:36
Alignment explanation
Indices: 65569639--65569708 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
65569629 AGTATGGCTA
65569639 AAATTTTGCTCGGATCAACTCGAATACCCGATGCTG
1 AAATTTTGCTCGGATCAACTCGAATACCCGATGCTG
65569675 AAATTTTGCTCGGATCAACTCGAATACCCGATGC
1 AAATTTTGCTCGGATCAACTCGAATACCCGATGC
65569709 AGATACCACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (36 bp):
AAATTTTGCTCGGATCAACTCGAATACCCGATGCTG
Found at i:65576435 original size:37 final size:37
Alignment explanation
Indices: 65576371--65576479 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
65576361 AGCTCAGATG
* *
65576371 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
65576408 AAATCTCCATACGTAGTCATCGAGTCTTACCCGGGCA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
65576445 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
65576480 ATATATTTCC
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:65576677 original size:48 final size:48
Alignment explanation
Indices: 65576619--65576922 Score: 419
Period size: 48 Copynumber: 6.0 Consensus size: 48
65576609 ATATACACAC
* *
65576619 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACGTATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
65576667 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
65576715 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGG--------CTTTACCACATATACAT
65576771 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
65576819 ATCTCATATATATTTTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATA--TTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
65576869 ATCTCATATATATATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTC----ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
65576921 AT
1 AT
65576923 ATTTATCTTG
Statistics
Matches: 237, Mismatches: 5, Indels: 24
0.89 0.02 0.09
Matches are distributed among these distances:
48 105 0.44
50 40 0.17
52 37 0.16
54 7 0.03
56 48 0.20
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:65576762 original size:56 final size:56
Alignment explanation
Indices: 65576698--65576912 Score: 240
Period size: 56 Copynumber: 4.0 Consensus size: 56
65576688 AGCCATTCGG
65576698 CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCA
1 CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCA
65576754 CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGG--------
1 CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCA
* *
65576802 CTTTACCACATATACATATCTCATATATATTTTTCACATTAGCCATTCGGCTTTACCA
1 CTTTACCACATATACATATCTCATACATA--TTTCACACTAGCCATTCGGCTTTACCA
* * * * * *
65576860 C-ATA-TACATAT-C-TCATAT-ATATATATTTCACATTAGCCATTCAGCTTTACCA
1 CTTTACCACATATACAT-ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCA
65576912 C
1 C
65576913 ATATACATAT
Statistics
Matches: 142, Mismatches: 6, Indels: 26
0.82 0.03 0.15
Matches are distributed among these distances:
48 28 0.20
50 18 0.13
52 27 0.19
54 8 0.06
55 4 0.03
56 54 0.38
57 2 0.01
58 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.36
Consensus pattern (56 bp):
CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCA
Found at i:65576768 original size:104 final size:105
Alignment explanation
Indices: 65576650--65576922 Score: 405
Period size: 104 Copynumber: 2.6 Consensus size: 105
65576640 AGCCATTCGG
*
65576650 CTTTACCACGTATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
65576715 ATCTCATACATA-TTTCACACTAGCCATTCGGCTTTACCA
66 ATCTCATACATATTTTCACACTAGCCATTCGGCTTTACCA
65576754 CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
65576819 ATCTCATATATATTTTTCACATTAGCCATTCGGCTTTACCA
66 ATCTCATACATA-TTTTCACACTAGCCATTCGGCTTTACCA
* * * * * *
65576860 C-ATA-TACATAT-C-TCATAT-ATATATATTTCACATTAGCCATTCAGCTTTACCACATATACA
1 CTTTACCACATATACAT-ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
65576920 TAT
65 TAT
65576923 ATTTATCTTG
Statistics
Matches: 157, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
102 43 0.27
103 4 0.03
104 81 0.52
105 2 0.01
106 27 0.17
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (105 bp):
CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
ATCTCATACATATTTTCACACTAGCCATTCGGCTTTACCA
Found at i:65578764 original size:2 final size:2
Alignment explanation
Indices: 65578757--65578786 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
65578747 ACATTCGGCA
65578757 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65578787 TAATGACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65580036 original size:27 final size:27
Alignment explanation
Indices: 65580006--65580145 Score: 162
Period size: 27 Copynumber: 5.2 Consensus size: 27
65579996 TGACGAAGTG
*
65580006 ACCAGATACAGATATTGTGGAAGAGCC
1 ACCAGATACAGATATTGTGGCAGAGCC
65580033 ACCAGA-ACAGATATATGTGGCAGAGCC
1 ACCAGATACAGATAT-TGTGGCAGAGCC
* *
65580060 ACCAGAT-CAGATAATCGTGGCATAGCC
1 ACCAGATACAGAT-ATTGTGGCAGAGCC
*
65580087 ACCAGA-ACAGATATATGTGGCAGAGCA
1 ACCAGATACAGATAT-TGTGGCAGAGCC
**
65580114 ACCAGAT-CAGATAATTGTGGCATTGCC
1 ACCAGATACAGAT-ATTGTGGCAGAGCC
65580141 ACCAG
1 ACCAG
65580146 GACGCTTCCT
Statistics
Matches: 97, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
26 10 0.10
27 83 0.86
28 4 0.04
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
ACCAGATACAGATATTGTGGCAGAGCC
Found at i:65580088 original size:54 final size:54
Alignment explanation
Indices: 65580006--65580145 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 54
65579996 TGACGAAGTG
* * *
65580006 ACCAGATACAGAT-ATTGTGGAAGAGCCACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCA
*
65580060 ACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCA
1 ACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCA
*
65580114 ACCAGATCAGATAATTGTGGCATTGCCACCAG
1 ACCAGATCAGATAATTGTGGCATAGCCACCAG
65580146 GACGCTTCCT
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 74 0.94
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
ACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCA
Found at i:65581773 original size:26 final size:26
Alignment explanation
Indices: 65581742--65581849 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
65581732 ATGAAATGCC
*
65581742 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
65581768 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
65581794 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
65581820 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
65581846 ATCA
1 ATCA
65581850 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:65584610 original size:42 final size:42
Alignment explanation
Indices: 65584558--65584650 Score: 186
Period size: 42 Copynumber: 2.2 Consensus size: 42
65584548 ACGGCCTAGA
65584558 CACACGGGCATGTTTAATACCGTGTTAGGCACACAGCCTATT
1 CACACGGGCATGTTTAATACCGTGTTAGGCACACAGCCTATT
65584600 CACACGGGCATGTTTAATACCGTGTTAGGCACACAGCCTATT
1 CACACGGGCATGTTTAATACCGTGTTAGGCACACAGCCTATT
65584642 CACACGGGC
1 CACACGGGC
65584651 GTGTGACCTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (42 bp):
CACACGGGCATGTTTAATACCGTGTTAGGCACACAGCCTATT
Found at i:65594268 original size:44 final size:45
Alignment explanation
Indices: 65594136--65594285 Score: 163
Period size: 44 Copynumber: 3.5 Consensus size: 45
65594126 AATGCTAACA
* * *
65594136 TCCCAGACGTGGTCTTACATGT-AAT-CAAATATCGATGCCACTG
1 TCCCAGACGTGGTCTTACACGTAAATACCAATATCGATGCCAATG
* * *
65594179 TCCTAGACAG-GGTCTTACAC--AAA-ATCAAGTAT-GATGCCAACG
1 TCCCAGAC-GTGGTCTTACACGTAAATACCAA-TATCGATGCCAATG
65594221 TCCCAGACGTGGTCTTACACGTAAATACCAA-ATCGATGCCAATG
1 TCCCAGACGTGGTCTTACACGTAAATACCAATATCGATGCCAATG
*
65594265 TCCCAGAAGTGGTCTTACACG
1 TCCCAGACGTGGTCTTACACG
65594286 ATATCACATA
Statistics
Matches: 88, Mismatches: 10, Indels: 17
0.77 0.09 0.15
Matches are distributed among these distances:
41 1 0.01
42 29 0.33
43 21 0.24
44 33 0.38
45 4 0.05
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (45 bp):
TCCCAGACGTGGTCTTACACGTAAATACCAATATCGATGCCAATG
Found at i:65594280 original size:86 final size:85
Alignment explanation
Indices: 65594127--65594284 Score: 221
Period size: 86 Copynumber: 1.8 Consensus size: 85
65594117 ACCTCGTACA
* * * *
65594127 ATGCTAACATCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCTAGACAGGGT
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGACAGGGT
65594192 CTTACACAAAATCAAGTATG
66 CTTACACAAAATCAAGTATG
* *
65594212 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATACCAA-ATCGATGCCAATGTCCCAGA-AGT
1 ATGCCAACATCCCAGACGTGGTCTTACACGT-AAT-CAAATATCGATGCCAATGTCCCAGACAG-
65594275 GGTCTTACAC
63 GGTCTTACAC
65594285 GATATCACAT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
85 30 0.47
86 31 0.48
87 3 0.05
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (85 bp):
ATGCCAACATCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGACAGGGT
CTTACACAAAATCAAGTATG
Found at i:65595918 original size:2 final size:2
Alignment explanation
Indices: 65595907--65595947 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
65595897 ATTAAGTTAT
65595907 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65595948 AAGTAAAAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:65595979 original size:19 final size:21
Alignment explanation
Indices: 65595947--65595994 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
65595937 ATATATATAT
*
65595947 AAAGTAAAAGGAATA-AAAAA-
1 AAAG-AAAAAGAATAGAAAAAG
65595967 AAAGAAAAAGAATAGAAAAAG
1 AAAGAAAAAGAATAGAAAAAG
65595988 AAAGAAA
1 AAAGAAA
65595995 GGATGAAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 9 0.36
20 9 0.36
21 7 0.28
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (21 bp):
AAAGAAAAAGAATAGAAAAAG
Found at i:65595987 original size:11 final size:10
Alignment explanation
Indices: 65595947--65595994 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
65595937 ATATATATAT
*
65595947 AAAGTAAAAG
1 AAAGAAAAAG
* * *
65595957 GAATAAAAAA
1 AAAGAAAAAG
65595967 AAAGAAAAAG
1 AAAGAAAAAG
65595977 AATAGAAAAAG
1 AA-AGAAAAAG
65595988 AAAGAAA
1 AAAGAAA
65595995 GGATGAAACG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
10 20 0.67
11 10 0.33
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:65596063 original size:16 final size:16
Alignment explanation
Indices: 65596019--65596057 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
65596009 AGAGAGCAGG
* *
65596019 GGAAAGAAAGAAGGAA
1 GGAAAAAAAGAAAGAA
65596035 GGAAAAAAAGAAAGAA
1 GGAAAAAAAGAAAGAA
65596051 GGAAAAA
1 GGAAAAA
65596058 GGGAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:65598191 original size:46 final size:46
Alignment explanation
Indices: 65598139--65598460 Score: 509
Period size: 46 Copynumber: 7.0 Consensus size: 46
65598129 AGTGTGCTCT
**
65598139 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
65598185 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
65598231 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
65598277 ATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
65598323 GTGACATGAAAAGAATAAGGCCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
65598369 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
65598415 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
65598461 ATGACAGAAA
Statistics
Matches: 261, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 261 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:65598466 original size:46 final size:46
Alignment explanation
Indices: 65598154--65598513 Score: 506
Period size: 46 Copynumber: 7.7 Consensus size: 46
65598144 ATGAAATGTG
* * * **
65598154 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
* * *
65598200 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
65598246 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
*
65598292 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
* * * *
65598338 TAAGGCCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
*
65598384 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
65598430 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-G-A--A
* * * *
65598479 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 -TAAGACCATGGTTGAAAGATACCATGGCAACATG
65598514 TCAAAGATAA
Statistics
Matches: 289, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
45 5 0.02
46 252 0.87
47 1 0.00
49 1 0.00
50 30 0.10
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
Found at i:65600337 original size:2 final size:2
Alignment explanation
Indices: 65600330--65600356 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
65600320 ATTCATACGG
65600330 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
65600357 CAAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:65601423 original size:27 final size:26
Alignment explanation
Indices: 65601386--65601501 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 26
65601376 AGCATGGCTG
* *
65601386 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
65601412 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
65601440 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
65601467 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
65601494 CCAAAACA
1 CCAGAACA
65601502 CTTCCTCCAT
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:65601450 original size:54 final size:54
Alignment explanation
Indices: 65601386--65601501 Score: 162
Period size: 54 Copynumber: 2.1 Consensus size: 54
65601376 AGCATGGCTG
*
65601386 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
65601440 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
*
65601494 CCAAAACA
1 CCAGAACA
65601502 CTTCCTCCAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:65601936 original size:16 final size:15
Alignment explanation
Indices: 65601915--65601944 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
65601905 AAAATAATGA
65601915 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
65601931 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
65601945 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:65603150 original size:26 final size:26
Alignment explanation
Indices: 65603114--65603223 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
65603104 CATGAAATTC
65603114 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
65603140 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
65603166 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
65603192 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
65603218 TTATCA
1 TTATCA
65603224 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:65604596 original size:56 final size:56
Alignment explanation
Indices: 65604536--65604713 Score: 257
Period size: 56 Copynumber: 3.2 Consensus size: 56
65604526 TCCCAAACAG
* * * * *
65604536 GGTCTTACTCGCACATATATATCAAAATCACATATTGATGCTAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACATATTAAACGT
** * * *
65604592 GGTCTTACTCGCACAGGTATATCAGAATCACATATCAATGCCAGCATTTTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACATATTAAACGT
*
65604648 GGTCTTACTTGCACACATATATCAGAATCACATATCGATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACATATTAAACGT
65604704 GGTCTTACTC
1 GGTCTTACTC
65604714 ATGATCACAA
Statistics
Matches: 106, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 106 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACATATTAAACGT
Found at i:65604742 original size:2 final size:2
Alignment explanation
Indices: 65604735--65604762 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
65604725 TTAATGCCAC
65604735 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65604763 CCATGTATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65627834 original size:16 final size:16
Alignment explanation
Indices: 65627813--65627843 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65627803 CTAATTTAAC
*
65627813 ATAAAATCAAAATAAA
1 ATAAAATAAAAATAAA
65627829 ATAAAATAAAAATAA
1 ATAAAATAAAAATAA
65627844 TAGTTTTTCC
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:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
ATAAAATAAAAATAAA
Found at i:65629572 original size:13 final size:13
Alignment explanation
Indices: 65629554--65629579 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65629544 CATATTTCTA
65629554 CTCATCCCTCATC
1 CTCATCCCTCATC
65629567 CTCATCCCTCATC
1 CTCATCCCTCATC
65629580 ATTCATCATT
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:0.15, C:0.54, G:0.00, T:0.31
Consensus pattern (13 bp):
CTCATCCCTCATC
Found at i:65630405 original size:21 final size:22
Alignment explanation
Indices: 65630358--65630405 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
65630348 GTCCTAGTTT
*
65630358 ATTTATGTTATAATTGTTGCAA
1 ATTTGTGTTATAATTGTTGCAA
65630380 A-TTGTGTT-TAATT-TTGCTAA
1 ATTTGTGTTATAATTGTTGC-AA
65630400 ATTTGT
1 ATTTGT
65630406 TTCATTCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 8 0.35
21 10 0.43
22 1 0.04
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.54
Consensus pattern (22 bp):
ATTTGTGTTATAATTGTTGCAA
Found at i:65630406 original size:19 final size:20
Alignment explanation
Indices: 65630363--65630407 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
65630353 AGTTTATTTA
65630363 TGTTATAATTGTTGCAAATTG
1 TGTT-TAATTGTTGCAAATTG
65630384 TGTTTAATT-TTGCTAAATT-
1 TGTTTAATTGTTGC-AAATTG
65630403 TGTTT
1 TGTTT
65630408 CATTCATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.39
20 10 0.43
21 4 0.17
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.56
Consensus pattern (20 bp):
TGTTTAATTGTTGCAAATTG
Found at i:65632544 original size:42 final size:42
Alignment explanation
Indices: 65632444--65632608 Score: 163
Period size: 43 Copynumber: 3.9 Consensus size: 42
65632434 CAACGCCAAC
* * *
65632444 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGCAATCACATATCGATGCCA-T
* * *
65632487 GTCTCAGACAAGGTCTTACACG-AA-CTCATATACGATGCCGAT
1 GTCCCAGACATGGTCTTACACGCAATCACATAT-CGATGCC-AT
* * * *
65632529 GTCCCAAACATGGTCTTACACGCAAATCACAAATCGATGGCAAC
1 GTCCCAGACATGGTCTTACACGC-AATCACATATCGAT-GCCAT
* *
65632573 GTCCCAGACATGGTCTTACATGAAATCACATATCGA
1 GTCCCAGACATGGTCTTACACGCAATCACATATCGA
65632609 AATCCTATGT
Statistics
Matches: 100, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
41 6 0.06
42 29 0.29
43 31 0.31
44 27 0.27
45 7 0.07
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGCAATCACATATCGATGCCAT
Found at i:65637885 original size:2 final size:2
Alignment explanation
Indices: 65637878--65637919 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
65637868 AATCTATCAA
65637878 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65637920 GCATTTTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65641072 original size:40 final size:40
Alignment explanation
Indices: 65641006--65641172 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
65640996 AAATTGAATG
* * *
65641006 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
65641045 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
65641085 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
65641125 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
65641165 ATATCCGG
1 ATATCCGG
65641173 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:65649129 original size:40 final size:39
Alignment explanation
Indices: 65649006--65649133 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
65648996 AAATTGAATG
* * * *
65649006 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTG--ATT
* **
65649046 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AGTGATT
*
65649086 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA-GTGATT
65649126 ATATCCGG
1 ATATCCGG
65649134 TTATATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 71 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGATT
Found at i:65651870 original size:40 final size:39
Alignment explanation
Indices: 65651804--65651969 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
65651794 AAATTGAATG
* * *
65651804 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
65651843 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
65651882 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
65651922 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
65651962 ATATCCGG
1 ATATCCGG
65651970 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:65655907 original size:28 final size:28
Alignment explanation
Indices: 65655846--65655943 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
65655836 TCACAAATTG
** * *
65655846 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
65655875 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
65655903 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
65655931 GCACTAAGTGTGC
1 GCACTAAGTGTGC
65655944 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:65657683 original size:29 final size:29
Alignment explanation
Indices: 65657602--65657716 Score: 90
Period size: 29 Copynumber: 4.0 Consensus size: 29
65657592 TACATACATG
* *
65657602 CATATAGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCACTAGGCCCAATTCATATT
* * * *
65657630 CAAATGGCTCATCT-GGCTCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAATTCATATT
* **
65657659 CTTATGGCCCACTAGGCCCAATTCAGCTT
1 CATATGGCCCACTAGGCCCAATTCATATT
* * * *
65657688 CATATGGCCTATTAAGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAATTCATATT
65657717 ATACTCATGC
Statistics
Matches: 64, Mismatches: 20, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
28 15 0.23
29 49 0.77
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAATTCATATT
Found at i:65657822 original size:19 final size:18
Alignment explanation
Indices: 65657789--65657825 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
65657779 TGGGCCCAAC
65657789 AGCCCATCAGGCCCATTT
1 AGCCCATCAGGCCCATTT
*
65657807 AGCCCATTCCGGCCCATTT
1 AGCCCA-TCAGGCCCATTT
65657826 GGCCAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.19, C:0.41, G:0.16, T:0.24
Consensus pattern (18 bp):
AGCCCATCAGGCCCATTT
Found at i:65657834 original size:19 final size:19
Alignment explanation
Indices: 65657798--65657834 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
65657788 CAGCCCATCA
*
65657798 GGCCCATTTAGCCCATTCC
1 GGCCCATTTAGCCAATTCC
*
65657817 GGCCCATTTGGCCAATTC
1 GGCCCATTTAGCCAATTC
65657835 TCAACCCAAG
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:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCC
Found at i:65665902 original size:48 final size:47
Alignment explanation
Indices: 65665826--65666098 Score: 237
Period size: 48 Copynumber: 5.7 Consensus size: 47
65665816 TGATATGTGC
* *
65665826 GCTAGTGTAAGACCATGACTGGGACATGGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACA-TATGAGA
* * * *** *
65665874 GCCAATGTAAAACCATGTCTAGGACATGGCATCGGCGTTGATATGTGCA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC-CACATATGAG-A
* * *
65665923 -CTAGTGTAAGACTATGTCTAGGACATGGCATCAGCCACATTATGAAA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACA-TATGAGA
* * * * *
65665970 GCTAGTGTAAGACCATGTCTGGGGCATGGCATC-GACACTAAGACGAGA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCAC--ATATGAGA
* * ** * *
65666018 GCTAGTATAAGACCATGTATAAAACATGGCATCGGCCTCGATATGTGA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCAC-ATATGAGA
*
65666066 GCCAGTGTAAGACCATGTCTTA-GACATGGCATC
1 GCTAGTGTAAGACCATGTC-TAGGACATGGCATC
65666099 AACAATTTAC
Statistics
Matches: 175, Mismatches: 42, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
47 6 0.03
48 161 0.92
49 8 0.05
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATATGAGA
Found at i:65666023 original size:96 final size:97
Alignment explanation
Indices: 65665826--65666098 Score: 293
Period size: 96 Copynumber: 2.8 Consensus size: 97
65665816 TGATATGTGC
* * * *
65665826 GCTAGTGTAAGACCATGACTGGGACATGGCATCGGCCACATTATGAGAGCCAATGTAAAACCATG
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATG
* ** * * * *
65665891 TCTAGGACATGGCATCGGCGTTGATATGTGCA
66 TCTAGGACATGGCATCGACACTAAGACGAGCA
* * * *
65665923 -CTAGTGTAAGACTATGTCTAGGACATGGCATCAGCCACATTATGAAAGCTAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATG
* *
65665987 TCTGGGGCATGGCATCGACACTAAGACGAG-A
66 TCTAGGACATGGCATCGACACTAAGACGAGCA
* * ** * *
65666018 GCTAGTATAAGACCATGTATAAAACATGGCATCGGCCTCGA-TATGTGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCAT
65666082 GTCTTA-GACATGGCATC
65 GTC-TAGGACATGGCATC
65666099 AACAATTTAC
Statistics
Matches: 144, Mismatches: 29, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
95 1 0.01
96 141 0.98
97 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (97 bp):
GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATG
TCTAGGACATGGCATCGACACTAAGACGAGCA
Found at i:65666092 original size:144 final size:144
Alignment explanation
Indices: 65665826--65666099 Score: 347
Period size: 144 Copynumber: 1.9 Consensus size: 144
65665816 TGATATGTGC
* ** * *
65665826 GCTAGTGTAAGACCATGACTGGGACATGGCATCGGCCACATTATGAGAGCCAATGTAAAACCATG
1 GCTAGTGTAAGACCATGACTGGGACATGGCATCGGACACAAGACGAGAGCCAATATAAAACCATG
* ** * * * *
65665891 TCTAGGACATGGCATCGGCGTTGATATGTGCACTAGTGTAAGACTATGTCTAGGACATGGCATCA
66 TATAAAACATGGCATCGGCCTCGATATGTGCACCAGTGTAAGACCATGTCTAGGACATGGCATCA
65665956 GCCACATTATGAAA
131 GCCACATTATGAAA
* * * * *
65665970 GCTAGTGTAAGACCATGTCTGGGGCATGGCATC-GACACTAAGACGAGAGCTAGTATAAGACCAT
1 GCTAGTGTAAGACCATGACTGGGACATGGCATCGGACAC-AAGACGAGAGCCAATATAAAACCAT
65666034 GTATAAAACATGGCATCGGCCTCGATATGTG-AGCCAGTGTAAGACCATGTCTTA-GACATGGCA
65 GTATAAAACATGGCATCGGCCTCGATATGTGCA-CCAGTGTAAGACCATGTC-TAGGACATGGCA
65666097 TCA
128 TCA
65666100 ACAATTTACC
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
143 5 0.05
144 103 0.94
145 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (144 bp):
GCTAGTGTAAGACCATGACTGGGACATGGCATCGGACACAAGACGAGAGCCAATATAAAACCATG
TATAAAACATGGCATCGGCCTCGATATGTGCACCAGTGTAAGACCATGTCTAGGACATGGCATCA
GCCACATTATGAAA
Found at i:65672778 original size:22 final size:22
Alignment explanation
Indices: 65672750--65672794 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
65672740 TAAAACAAAA
65672750 AGGACTTCATCTTTTATCATTG
1 AGGACTTCATCTTTTATCATTG
*
65672772 AGGACTTCGTCTTTTATCATTG
1 AGGACTTCATCTTTTATCATTG
65672794 A
1 A
65672795 TCTTCTCCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (22 bp):
AGGACTTCATCTTTTATCATTG
Found at i:65676261 original size:44 final size:46
Alignment explanation
Indices: 65676148--65676272 Score: 130
Period size: 44 Copynumber: 2.7 Consensus size: 46
65676138 CTTCATTGAG
* *
65676148 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATACGT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC-CACG-GTAAACGT
* * *
65676198 GCTGATGCATGTCCTAGACATGTCTTACACTAG-CAC-G-AAACTT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCCACGGTAAACGT
*
65676241 AGCCGATGCATGTCCCAGACATGTTTTACACT
1 -GCCGATGCATGTCCCAGACATGTCTTACACT
65676273 GGCTAACATC
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.06
44 29 0.44
46 2 0.03
48 12 0.18
49 13 0.20
50 6 0.09
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCCACGGTAAACGT
Found at i:65676390 original size:94 final size:95
Alignment explanation
Indices: 65676148--65676457 Score: 238
Period size: 94 Copynumber: 3.3 Consensus size: 95
65676138 CTTCATTGAG
** ** * * * * *
65676148 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATACG-TGCTGATGCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACGGGCTAACAT-CAT-CGAGGCCGATGCATCTCC
* ** ** * *
65676212 TAGACATGTCTTACACTAGCACGAAACT-TA-
64 CAGACACCTCTTACACTAGCACTCACCTCAAT
* *
65676242 GCCGATG-CATGTCCCAGACAT-GTTTTACACTGGCTAACATCATCGAGGCCGATGCATCTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACGGGCTAACATCATCGAGGCCGATGCATCTCCCA
* * *
65676305 GACACCTCTTATA-TAGGCACTTACCTCTAT
66 GACACCTCTTACACTA-GCACTCACCTCAAT
* * * * * * * *
65676335 GCCGATGCCATGTCCCAAACGTGGTCTTACACGGGCTACCATGAT-GCGGCTGATGCATGTCCTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACGGGCTAACATCATCGAGGCCGATGCATCTCCCA
** * *
65676399 GACATGTCTTACACTAGCCCTCATCTCAAT
66 GACACCTCTTACACTAGCACTCACCTCAAT
*
65676429 ACCGATGCCATGTCCCAGACATGGTCTTA
1 GCCGATGCCATGTCCCAGACATGGTCTTA
65676458 TACTGGCTCT
Statistics
Matches: 173, Mismatches: 36, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
90 4 0.02
91 32 0.18
92 16 0.09
93 21 0.12
94 80 0.46
95 20 0.12
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACGGGCTAACATCATCGAGGCCGATGCATCTCCCA
GACACCTCTTACACTAGCACTCACCTCAAT
Found at i:65678974 original size:43 final size:43
Alignment explanation
Indices: 65678920--65679017 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 43
65678910 GATAAACTGT
* * *
65678920 CATGTAGGTTGTGGATAAACCACAAAATTTGCAGACAAACTAC
1 CATGTAAGTTGTGGATAAACCACAAAATTTACAAACAAACTAC
* *
65678963 CATGTAAGTTGTGGATAAACCACAAAATTTACAAACAAGCTGC
1 CATGTAAGTTGTGGATAAACCACAAAATTTACAAACAAACTAC
*
65679006 CATGTACGTTGT
1 CATGTAAGTTGT
65679018 CGAAGAAACC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (43 bp):
CATGTAAGTTGTGGATAAACCACAAAATTTACAAACAAACTAC
Found at i:65681967 original size:42 final size:42
Alignment explanation
Indices: 65681856--65682062 Score: 209
Period size: 42 Copynumber: 4.9 Consensus size: 42
65681846 TTCCGATGTG
* **
65681856 TGATTTCGTGTAAGACCATGTCTGGGATGTTGGCATCG-ATT
1 TGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
* *
65681897 TGAGATTTAAGTGTAAGACCATGTTTGGGACATTGGCATCGTATT
1 T--GATTT-TGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
* * *
65681942 TGATTTTGTGCAAGACCTTGTTTGGGACATTGGCATCGTATT
1 TGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
* * * *
65681984 TGATTTTGTGTAAGACCCTGTCTAGGACAGTGGCATTGATATT
1 TGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCG-TATT
*** * * *
65682027 TGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 TGATTTTGTGTAAGACCATGTCTGGGACATTGGCAT
65682063 TATATGAGCA
Statistics
Matches: 141, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.01
42 65 0.46
43 43 0.30
44 28 0.20
45 4 0.03
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (42 bp):
TGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
Found at i:65682060 original size:85 final size:85
Alignment explanation
Indices: 65681864--65682062 Score: 213
Period size: 85 Copynumber: 2.3 Consensus size: 85
65681854 TGTGATTTCG
* * *
65681864 TGTAAGACCATGTCTGGGATGTTGGCATCGATTTGAGATTTAAGTGTAAGACCATGTTTGGGACA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATTT-AGATTTAAGTGTAAGACCATGTCTAGGACA
* ***
65681929 TTGGCATCGTATTTGATTTTG
65 GTGGCATCGTATTTGATTACA
* * * * * *
65681950 TGCAAGACCTTGTTTGGGACATTGGCATCGTATTT-GATTT-TGTGTAAGACCCTGTCTAGGACA
1 TGTAAGACCATGTCTGGGACGTTGGCATCG-ATTTAGATTTAAGTGTAAGACCATGTCTAGGACA
*
65682013 GTGGCATTGATATTTGATTACA
65 GTGGCATCG-TATTTGATTACA
* *
65682035 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
65682063 TATATGAGCA
Statistics
Matches: 91, Mismatches: 20, Indels: 5
0.78 0.17 0.04
Matches are distributed among these distances:
84 26 0.29
85 36 0.40
86 25 0.27
87 4 0.04
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.35
Consensus pattern (85 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATTTAGATTTAAGTGTAAGACCATGTCTAGGACAG
TGGCATCGTATTTGATTACA
Found at i:65684303 original size:28 final size:28
Alignment explanation
Indices: 65684238--65684338 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
65684228 ATAGTGGATC
*
65684238 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
65684267 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
65684295 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
65684325 CGCACACTTAGTGC
1 CGCACACTTAGTGC
65684339 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:65692678 original size:43 final size:41
Alignment explanation
Indices: 65692630--65692794 Score: 177
Period size: 43 Copynumber: 3.9 Consensus size: 41
65692620 TTCCGATGTG
*
65692630 TGATTTCATGTAGGACCACGTCTGGGACATTGGCATCAATT
1 TGATTTCATGTAAGACCACGTCTGGGACATTGGCATCAATT
* * *
65692671 TGAGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCATATT
1 T--GATTT-CATGTAAGACCACGTCTGGGACATTGGCATCA-ATT
* * ** *
65692716 TGATTTCGTGTAAAACCTTGTCTGGGACAGTGGCATCAATATT
1 TGATTTCATGTAAGACCACGTCTGGGACATTGGCATC-A-ATT
* *
65692759 TGATTACATGTAAGACCACGTCTGAGACATTGGCAT
1 TGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
65692795 TGTATGAGCT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.01
42 27 0.26
43 44 0.42
44 28 0.27
45 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (41 bp):
TGATTTCATGTAAGACCACGTCTGGGACATTGGCATCAATT
Found at i:65694240 original size:46 final size:47
Alignment explanation
Indices: 65694184--65694359 Score: 211
Period size: 46 Copynumber: 3.8 Consensus size: 47
65694174 TATTTGAGCA
*
65694184 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACTG
* *** *
65694230 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GGGA--GATG-TAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACT--G
65694275 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACT-
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACTG
*
65694323 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65694360 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 2 0.02
46 64 0.58
47 28 0.25
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (47 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACTG
Found at i:65694340 original size:93 final size:93
Alignment explanation
Indices: 65694181--65694351 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
65694171 GGATATTTGA
* *
65694181 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
65694246 TGAGTCCGAGTTCGGGAGATGTAACTAG
66 TGAGTCCGAGTTCGGGAGATGTAACTAG
*
65694274 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACT-CCCGAGCTCGTTGAG
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA-TGCCCGAACTCGTTGAG
65694338 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
65694352 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 73 0.99
94 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGGGAGATGTAACTAG
Found at i:65697994 original size:4 final size:4
Alignment explanation
Indices: 65697985--65698018 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
65697975 AGATTATTAC
*
65697985 TTGA TTGA TTGA TTGA TTGA TTGA CTGA TTGA TT
1 TTGA TTGA TTGA TTGA TTGA TTGA TTGA TTGA TT
65698019 ATGTTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.50
Consensus pattern (4 bp):
TTGA
Found at i:65698310 original size:33 final size:32
Alignment explanation
Indices: 65698219--65698310 Score: 116
Period size: 32 Copynumber: 2.9 Consensus size: 32
65698209 TCCTTATATG
* *
65698219 TGTTTGTA-AACCATGATAAGTATATAACCCT
1 TGTTTGAAGAACCTTGATAAGTATATAACCCT
* *
65698250 TGTTTGAGGAA-CTCTAATAAGTATATAACCCT
1 TGTTTGAAGAACCT-TGATAAGTATATAACCCT
65698282 TGTTTGAAGAACCTTGATAAAGTATATAA
1 TGTTTGAAGAACCTTGAT-AAGTATATAA
65698311 ACCCATGTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
31 7 0.14
32 32 0.63
33 12 0.24
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (32 bp):
TGTTTGAAGAACCTTGATAAGTATATAACCCT
Found at i:65699043 original size:17 final size:17
Alignment explanation
Indices: 65699023--65699071 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
65699013 TTAACTATCA
65699023 AATTAAATTAATTCAAT
1 AATTAAATTAATTCAAT
*
65699040 AATTAATTTAATTCAAT
1 AATTAAATTAATTCAAT
65699057 AATT-AATTGAATTCA
1 AATTAAATT-AATTCA
65699072 GTGACAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 3 0.10
17 26 0.90
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (17 bp):
AATTAAATTAATTCAAT
Found at i:65701169 original size:28 final size:27
Alignment explanation
Indices: 65701106--65701175 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
65701096 ATAGTGAGTC
*
65701106 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
65701133 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
65701161 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65701176 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:65709104 original size:28 final size:27
Alignment explanation
Indices: 65709041--65709110 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
65709031 ATAGTGAGTC
*
65709041 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
65709068 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
65709096 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65709111 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:65715047 original size:21 final size:21
Alignment explanation
Indices: 65715021--65715062 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
65715011 AATTAACCCC
**
65715021 TTTAAAATTTTAAAAATTATA
1 TTTAAAATCATAAAAATTATA
65715042 TTTAAAATCATAAAAATTATA
1 TTTAAAATCATAAAAATTATA
65715063 AAAAAAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTAAAATCATAAAAATTATA
Found at i:65715225 original size:17 final size:16
Alignment explanation
Indices: 65715190--65715231 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
65715180 TAGTATTGTT
65715190 ATTTTT-TAA-TAAAA
1 ATTTTTATAACTAAAA
65715204 A-TTTTATAACTACAAA
1 ATTTTTATAACTA-AAA
65715220 ATTTTTATAACT
1 ATTTTTATAACT
65715232 TTCTATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.17
14 4 0.17
15 2 0.08
16 4 0.17
17 10 0.42
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTTTATAACTAAAA
Found at i:65724913 original size:26 final size:27
Alignment explanation
Indices: 65724884--65724936 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
65724874 AATTAATTTA
65724884 TTTTTTAAAATT-TTCTTT-ATTTTTTC
1 TTTTTTAAAATTATT-TTTAATTTTTTC
*
65724910 TTTTTTAGAATTATTTTTAATTTTTTC
1 TTTTTTAAAATTATTTTTAATTTTTTC
65724937 CAATAAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.72
Consensus pattern (27 bp):
TTTTTTAAAATTATTTTTAATTTTTTC
Found at i:65726805 original size:15 final size:16
Alignment explanation
Indices: 65726775--65726807 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
65726765 AAAGACTATA
65726775 AAAAATATGAAAAGAT
1 AAAAATATGAAAAGAT
*
65726791 AAAAATAT-AATAGAT
1 AAAAATATGAAAAGAT
65726806 AA
1 AA
65726808 CACAGATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (16 bp):
AAAAATATGAAAAGAT
Found at i:65727449 original size:23 final size:23
Alignment explanation
Indices: 65727419--65727465 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
65727409 AAAATGGATT
65727419 TGGCTTTCCTTTTCCTTGTTTAA
1 TGGCTTTCCTTTTCCTTGTTTAA
65727442 TGGCTTTCCTTTTCCTTGTTTAA
1 TGGCTTTCCTTTTCCTTGTTTAA
65727465 T
1 T
65727466 AAAGAATGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.09, C:0.21, G:0.13, T:0.57
Consensus pattern (23 bp):
TGGCTTTCCTTTTCCTTGTTTAA
Found at i:65728302 original size:30 final size:30
Alignment explanation
Indices: 65728268--65728336 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 30
65728258 CCTGAAAAGT
*
65728268 TTTTAAAACCCAAGAATCTCGGTCCTCATG
1 TTTTAAAACCCAAGAATCGCGGTCCTCATG
* * * *
65728298 TTTTAGATATCCCAAGATTCGCGGTCCTTATT
1 TTTTA-A-AACCCAAGAATCGCGGTCCTCATG
65728330 TTTTAAA
1 TTTTAAA
65728337 TGTCCTAGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
30 6 0.19
31 2 0.06
32 24 0.75
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.38
Consensus pattern (30 bp):
TTTTAAAACCCAAGAATCGCGGTCCTCATG
Found at i:65731598 original size:40 final size:40
Alignment explanation
Indices: 65731539--65731680 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
65731529 AAATTGAATG
* * *
65731539 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
65731579 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
65731619 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
65731659 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
65731681 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:65731681 original size:40 final size:39
Alignment explanation
Indices: 65731578--65731706 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
65731568 TGCTGGAAAT
* * *
65731578 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
65731618 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
65731658 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
65731698 TATATCCGG
1 TATATCCGG
65731707 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:65734744 original size:29 final size:29
Alignment explanation
Indices: 65734712--65734811 Score: 109
Period size: 29 Copynumber: 3.5 Consensus size: 29
65734702 ATAGTGAATC
* *
65734712 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTCAACT
65734741 CGCACACTTAGTGCTATAGAA---TCAAACT
1 CGCACACTTAGTGCTATA-AATTTTC-AACT
* *
65734769 CGCACACTTAGTGCTGTACAATTTT-AACC
1 CGCACACTTAGTGCTATA-AATTTTCAACT
65734798 CGCACACTTAGTGC
1 CGCACACTTAGTGC
65734812 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
27 2 0.03
28 22 0.36
29 35 0.57
30 1 0.02
31 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTATAAATTTTCAACT
Found at i:65742688 original size:30 final size:29
Alignment explanation
Indices: 65742594--65742695 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
65742584 TATAGTGAAT
* * *
65742594 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
65742623 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
65742651 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
65742681 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
65742696 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:65744331 original size:29 final size:29
Alignment explanation
Indices: 65744246--65744343 Score: 119
Period size: 28 Copynumber: 3.4 Consensus size: 29
65744236 GCCTACTAAG
* *
65744246 CCAAATCTCTTTCATATGGCCCATTAGGC
1 CCAAATCACATTCATATGGCCCATTAGGC
* * *
65744275 CC-ATTCACATTTATGTGGCCCATTAGGCC
1 CCAAATCACATTCATATGGCCCATTAGG-C
*
65744304 CCAAATCACATTCATATGG-CCACTAGGC
1 CCAAATCACATTCATATGGCCCATTAGGC
65744332 CCAAATCACATT
1 CCAAATCACATT
65744344 TACAGTCATG
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 33 0.57
29 12 0.21
30 13 0.22
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.28
Consensus pattern (29 bp):
CCAAATCACATTCATATGGCCCATTAGGC
Done.