Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 209 of 228
Found at i:61086151 original size:12 final size:12
Alignment explanation
Indices: 61086134--61086167 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
61086124 TATACCACAC
* *
61086134 GGTCGTGTGGCT
1 GGTCGTGTGCCA
61086146 GGTCGTGTGCCA
1 GGTCGTGTGCCA
61086158 GGTCGTGTGC
1 GGTCGTGTGC
61086168 TCCCGATTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.21, G:0.47, T:0.29
Consensus pattern (12 bp):
GGTCGTGTGCCA
Found at i:61087758 original size:3 final size:3
Alignment explanation
Indices: 61087750--61087779 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
61087740 TATTCCAATG
61087750 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
61087780 GTTTATGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:61089981 original size:22 final size:22
Alignment explanation
Indices: 61089937--61089980 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
61089927 TTTTGGATTA
*
61089937 TTATAATTTTTGAAAAATATTT
1 TTATAATTTTAGAAAAATATTT
61089959 TTATAA-TTTAG-AAAATATTT
1 TTATAATTTTAGAAAAATATTT
61089979 TT
1 TT
61089981 TAGTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 4 0.19
22 6 0.29
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
TTATAATTTTAGAAAAATATTT
Found at i:61090022 original size:20 final size:20
Alignment explanation
Indices: 61089997--61090034 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
61089987 AAAACAATGA
61089997 AATTTTT-TTTATTATTTTCT
1 AATTTTTATTT-TTATTTTCT
61090017 AATTTTTATTTTTATTTT
1 AATTTTTATTTTTATTTT
61090035 TCAAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (20 bp):
AATTTTTATTTTTATTTTCT
Found at i:61091178 original size:27 final size:27
Alignment explanation
Indices: 61091124--61091187 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
61091114 GTTACAGAGC
* *
61091124 TAGTATACGCCAGCAGATCTGACGAGA
1 TAGTATACGCCAACAGATCTGACAAGA
* *
61091151 TGGTATACGCCAACAAGA-CTGGCAAGA
1 TAGTATACGCCAAC-AGATCTGACAAGA
*
61091178 TAGTGTACGC
1 TAGTATACGC
61091188 TAGTAGGTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.19
Consensus pattern (27 bp):
TAGTATACGCCAACAGATCTGACAAGA
Found at i:61091254 original size:27 final size:27
Alignment explanation
Indices: 61091169--61091248 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
61091159 GCCAACAAGA
*
61091169 CTGGCAAGATAGTGTACGCTAGTAGGT
1 CTGGCAAGATAGTGTTCGCTAGTAGGT
* * * *
61091196 CTGGCGAGCTAGTGTTCGATAGTTGGT
1 CTGGCAAGATAGTGTTCGCTAGTAGGT
* *
61091223 CTGGCAAGTTAGTGTTCGCCAGTAGG
1 CTGGCAAGATAGTGTTCGCTAGTAGG
61091249 CTTGGCGAAG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.20, C:0.16, G:0.35, T:0.29
Consensus pattern (27 bp):
CTGGCAAGATAGTGTTCGCTAGTAGGT
Found at i:61092412 original size:18 final size:17
Alignment explanation
Indices: 61092380--61092413 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
61092370 AGATAGATTT
*
61092380 ATTATTTTGTTTATATA
1 ATTATTTTATTTATATA
61092397 ATTATTTATATTTATAT
1 ATTATTT-TATTTATAT
61092414 TTGTTCACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
ATTATTTTATTTATATA
Found at i:61092735 original size:43 final size:42
Alignment explanation
Indices: 61092644--61092742 Score: 180
Period size: 43 Copynumber: 2.3 Consensus size: 42
61092634 AATTCTGTTT
61092644 CGGGATTTATTCCTATTAAATCGGGATTTTTTCCTGTTAAAC
1 CGGGATTTATTCCTATTAAATCGGGATTTTTTCCTGTTAAAC
*
61092686 CAGGATTTATTCCTATTAAATCGGGATTTTTTTCCTGTTAAAC
1 CGGGATTTATTCCTATTAAATCGGGA-TTTTTTCCTGTTAAAC
61092729 CGGGATTTATTCCT
1 CGGGATTTATTCCT
61092743 GTCGTTTAAC
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
42 25 0.46
43 29 0.54
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.43
Consensus pattern (42 bp):
CGGGATTTATTCCTATTAAATCGGGATTTTTTCCTGTTAAAC
Found at i:61092743 original size:21 final size:21
Alignment explanation
Indices: 61092644--61092744 Score: 130
Period size: 21 Copynumber: 4.8 Consensus size: 21
61092634 AATTCTGTTT
* *
61092644 CGGGATTTATTCCTATTAAAT
1 CGGGATTTATTCCTGTTAAAC
*
61092665 CGGGATTTTTTCCTGTTAAAC
1 CGGGATTTATTCCTGTTAAAC
* * *
61092686 CAGGATTTATTCCTATTAAAT
1 CGGGATTTATTCCTGTTAAAC
*
61092707 CGGGATTTTTTTCCTGTTAAAC
1 CGGGA-TTTATTCCTGTTAAAC
61092729 CGGGATTTATTCCTGT
1 CGGGATTTATTCCTGT
61092745 CGTTTAACAG
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
21 49 0.73
22 18 0.27
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (21 bp):
CGGGATTTATTCCTGTTAAAC
Found at i:61092832 original size:82 final size:81
Alignment explanation
Indices: 61092729--61093138 Score: 414
Period size: 82 Copynumber: 5.1 Consensus size: 81
61092719 CCTGTTAAAC
* *
61092729 CGGGATTTATTCCTGTCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTA
1 CGGGATTTATTCC-GCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGATTTA
* *
61092794 ATTGAATAATTCTATTC
65 ATTAAATAATTCTATTT
* * *
61092811 CGGGATTTATTCTCACCGTTTAACAAATTTTATTCGATTTTGATTTTGTTTCCAAA-AGAGAATT
1 CGGGATTTATTC-CGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA-AGATTT
*
61092875 AATTGAATAA-TCTATTT
64 AATTAAATAATTCTATTT
** * *
61092892 CGATATTTATTCCCGCCGTTTAATAGATTTTATTCGATTTTAATTTTGTTTCCAAACGAGAAGAT
1 CGGGATTTATT-CCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAAC---AAGAT
* *
61092957 TTAATTAAATAATTTTGTTT
62 TTAATTAAATAATTCTATTT
** * *
61092977 CAAGATTTATTCCGCCGCTTAACAGA--TT-TT--ATTTTGATTTTGTTTCCAAACAGGATTTAA
1 CGGGATTTATTCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGATTTAA
* *
61093037 TCAAATAATTCTGTTT
66 TTAAATAATTCTATTT
* * * *
61093053 TGGGATTTGTTCCCGCCGTTTAAC--ATATT-TT--ATTTTAATTTTGTTTCCAAACAAGATTTA
1 CGGGATTTATT-CCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGATTTA
*
61093113 ATTAAATAACTT-TGTTT
65 ATTAAATAA-TTCTATTT
*
61093130 CGGAATTTA
1 CGGGATTTA
61093139 ATCCTGCCAT
Statistics
Matches: 283, Mismatches: 33, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
75 1 0.00
76 29 0.10
77 61 0.22
78 2 0.01
79 20 0.07
81 57 0.20
82 70 0.25
83 1 0.00
84 27 0.10
85 15 0.05
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.45
Consensus pattern (81 bp):
CGGGATTTATTCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGATTTAA
TTAAATAATTCTATTT
Found at i:61093165 original size:77 final size:74
Alignment explanation
Indices: 61092764--61093171 Score: 255
Period size: 77 Copynumber: 5.2 Consensus size: 74
61092754 GATTTTATTC
* * * * * * *
61092764 GATTTTGATTTTGTTTCCAAACAAGAATTAATTGAATAATTCTATTCCGGGATTTATTCTCACCG
1 GATTTTAATTTTGTTTCCAAACAAGATTTAATTAAATAATT-TGTTTCGGAATTTATTC-CGCC-
* *
61092829 TTTAACAAATTTTATT
63 ATTAACAGA---T-TT
* * * * *
61092845 CGATTTTGATTTTGTTTCCAAA-AGAGAATTAATTGAATAATCTATTTC-GATATTTATTCCCGC
1 -GATTTTAATTTTGTTTCCAAACA-AGATTTAATTAAATAATTTGTTTCGGA-ATTTATT-CCGC
* *
61092908 CGTTTAATAGATTTTATT
62 C-ATTAACAGA---T-TT
*
61092926 CGATTTTAATTTTGTTTCCAAACGAGAAGATTTAATTAAATAATTTTGTTTC-AAGATTTATTCC
1 -GATTTTAATTTTGTTTCCAAAC---AAGATTTAATTAAATAA-TTTGTTTCGGA-ATTTATTCC
*
61092990 GCCGCTTAACAGATTT
60 GCC-ATTAACAGATTT
* * * * * * *
61093006 TATTTTGATTTTGTTTCCAAACAGGATTTAATCAAATAATTCTGTTTTGGGATTTGTTCCCGCCG
1 GATTTTAATTTTGTTTCCAAACAAGATTTAATTAAATAATT-TGTTTCGGAATTTATT-CCGCC-
* *
61093071 TTTAACATATTT
63 ATTAACAGATTT
* *
61093083 TATTTTAATTTTGTTTCCAAACAAGATTTAATTAAATAACTTTGTTTCGGAATTTAATCCTGCCA
1 GATTTTAATTTTGTTTCCAAACAAGATTTAATTAAATAA-TTTGTTTCGGAATTTATTCC-GCCA
* *
61093148 TTCAATAGAATT
64 TT-AACAGATTT
61093160 GATTTTAATTTT
1 GATTTTAATTTT
61093172 ATTTTGTTTC
Statistics
Matches: 275, Mismatches: 37, Indels: 33
0.80 0.11 0.10
Matches are distributed among these distances:
75 2 0.01
76 30 0.11
77 84 0.31
78 2 0.01
79 20 0.07
80 3 0.01
81 53 0.19
82 39 0.14
84 27 0.10
85 15 0.05
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (74 bp):
GATTTTAATTTTGTTTCCAAACAAGATTTAATTAAATAATTTGTTTCGGAATTTATTCCGCCATT
AACAGATTT
Found at i:61095460 original size:16 final size:16
Alignment explanation
Indices: 61095427--61095460 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61095417 TTTTACATAA
**
61095427 ATATAAATATTTGTTT
1 ATATAAATATTTACTT
61095443 ATATAAATATTTACTT
1 ATATAAATATTTACTT
61095459 AT
1 AT
61095461 GTTAAGTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
ATATAAATATTTACTT
Found at i:61132325 original size:13 final size:13
Alignment explanation
Indices: 61132307--61132370 Score: 101
Period size: 13 Copynumber: 4.9 Consensus size: 13
61132297 AGTTCTTCAT
61132307 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
61132320 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
61132333 TGCTTTTCAGAAG
1 TGCTTTTGAGAAG
*
61132346 TGCTTTTCAGAAG
1 TGCTTTTGAGAAG
*
61132359 TGTTTTTGAGAA
1 TGCTTTTGAGAA
61132371 ATTTGAGTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.23, C:0.09, G:0.27, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:61132638 original size:8 final size:8
Alignment explanation
Indices: 61132625--61132652 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
61132615 TATATAAACT
61132625 ATATTTAA
1 ATATTTAA
61132633 ATATTTAA
1 ATATTTAA
61132641 ATATTTAA
1 ATATTTAA
61132649 ATAT
1 ATAT
61132653 AAAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATTTAA
Found at i:61132658 original size:16 final size:16
Alignment explanation
Indices: 61132625--61132658 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61132615 TATATAAACT
**
61132625 ATATTTAAATATTTAA
1 ATATTTAAATATAAAA
61132641 ATATTTAAATATAAAA
1 ATATTTAAATATAAAA
61132657 AT
1 AT
61132659 TAAATATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATTTAAATATAAAA
Found at i:61135733 original size:17 final size:17
Alignment explanation
Indices: 61135711--61135745 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
61135701 AATATTTTAC
61135711 TCTGACTAGCATAATTT
1 TCTGACTAGCATAATTT
61135728 TCTGACTAGCATAATTT
1 TCTGACTAGCATAATTT
61135745 T
1 T
61135746 AGTTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (17 bp):
TCTGACTAGCATAATTT
Found at i:61138857 original size:23 final size:23
Alignment explanation
Indices: 61138831--61138874 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
61138821 TTAATATTTC
*
61138831 TTTTTAAAAATATTTTTTAAAAT
1 TTTTTAAAAATATTTTCTAAAAT
*
61138854 TTTTTAAAAGTATTTTCTAAA
1 TTTTTAAAAATATTTTCTAAA
61138875 GAATTTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TTTTTAAAAATATTTTCTAAAAT
Found at i:61140295 original size:17 final size:17
Alignment explanation
Indices: 61140273--61140306 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
61140263 TTATTGTTCA
61140273 ATTATTATATAATTAAT
1 ATTATTATATAATTAAT
* *
61140290 ATTATTTTATTATTAAT
1 ATTATTATATAATTAAT
61140307 GTATTTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTATTATATAATTAAT
Found at i:61140814 original size:16 final size:15
Alignment explanation
Indices: 61140793--61140822 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
61140783 TTGTAATAAT
61140793 ATTATAATATTTTATA
1 ATTATAAT-TTTTATA
61140809 ATTATAATTTTTAT
1 ATTATAATTTTTAT
61140823 TTAAATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTATAATTTTTATA
Found at i:61147289 original size:126 final size:126
Alignment explanation
Indices: 61147115--61147358 Score: 337
Period size: 126 Copynumber: 1.9 Consensus size: 126
61147105 ACGAAATTTA
* * * * *
61147115 TTTCATTTTTGAAAATTTTAAAAGGATACTTTGCTATTTAGGTTTAACGACAAAATCGAGACCCC
1 TTTCATTTTTGAAAATCTTAAAAGGATACTTCGCTATCTAGGTATAACGACAAAATCGAAACCCC
* *
61147180 GTAAGTTAGGGTACGATCTCTCGAATCACCAAAACGCAAAGATATTGTCTTATTGAGATTCC
66 GTAAGTTAGGGTACAATCTCTAGAATCACCAAAACGCAAA-ATATTGTCTTATTGAGATTCC
* * * *
61147242 TTTCATTTTTG-AAATCTTAAAAGGATACTTCGTTATCTCGGTATAACGAGAAAATTGAAACCCC
1 TTTCATTTTTGAAAATCTTAAAAGGATACTTCGCTATCTAGGTATAACGACAAAATCGAAACCCC
* ** *
61147306 GTAAGTTAGGGTACAATTTCTAGAATTTCCAAAACGCGAAATATTGTCTTATT
66 GTAAGTTAGGGTACAATCTCTAGAATCACCAAAACGCAAAATATTGTCTTATT
61147359 TTAAAATTTT
Statistics
Matches: 102, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
125 13 0.13
126 78 0.76
127 11 0.11
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (126 bp):
TTTCATTTTTGAAAATCTTAAAAGGATACTTCGCTATCTAGGTATAACGACAAAATCGAAACCCC
GTAAGTTAGGGTACAATCTCTAGAATCACCAAAACGCAAAATATTGTCTTATTGAGATTCC
Found at i:61162751 original size:15 final size:17
Alignment explanation
Indices: 61162719--61162755 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
61162709 TCTTTTAATC
*
61162719 TTTTTTTTATGTGTTTA
1 TTTTTGTTATGTGTTTA
61162736 TTTTTGTTAT-TG-TTA
1 TTTTTGTTATGTGTTTA
61162751 TTTTT
1 TTTTT
61162756 ATCTCTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 2 0.11
17 9 0.47
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (17 bp):
TTTTTGTTATGTGTTTA
Found at i:61165501 original size:22 final size:22
Alignment explanation
Indices: 61165467--61165530 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
61165457 ACAATATCCA
61165467 AATAATAACAACAAAATAGTAGT
1 AATAA-AACAACAAAATAGTAGT
*
61165490 AATAAAATAACAAAAT-GATAGT
1 AATAAAACAACAAAATAG-TAGT
*
61165512 AA-AAAACAACAAAACAGTA
1 AATAAAACAACAAAATAGTA
61165531 ACAAAAAGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 14 0.39
22 17 0.47
23 5 0.14
ACGTcount: A:0.66, C:0.09, G:0.08, T:0.17
Consensus pattern (22 bp):
AATAAAACAACAAAATAGTAGT
Found at i:61173618 original size:49 final size:49
Alignment explanation
Indices: 61173562--61173657 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
61173552 GTTGGAGCTA
61173562 AGTGGTAGTGTTCTTGTCCACTAAGACTGTAATACCTTTAGCCCAACCC
1 AGTGGTAGTGTTCTTGTCCACTAAGACTGTAATACCTTTAGCCCAACCC
61173611 AGTGGTAGTGTTCTTGTCCACTAAGACTGTAATACCTTTAGCCCAAC
1 AGTGGTAGTGTTCTTGTCCACTAAGACTGTAATACCTTTAGCCCAAC
61173658 TCGGTCGTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (49 bp):
AGTGGTAGTGTTCTTGTCCACTAAGACTGTAATACCTTTAGCCCAACCC
Found at i:61182528 original size:106 final size:106
Alignment explanation
Indices: 61182343--61182556 Score: 392
Period size: 106 Copynumber: 2.0 Consensus size: 106
61182333 GCATTATCAG
*
61182343 ATTCAAGTTCAACCTGTCGGTACCTCTTCTCCCAAGCCAGACGTAGCCCTTCAAGCATAGACTTC
1 ATTCAAGTTCAACCTGTCGGTACCTCTTCTCCCAAGCCAGACGTAGCCCTTCAAGCATAGACCTC
61182408 ACTTCTATCCTGAAAACTTCATCTCTCCCCAATATCATCGC
66 ACTTCTATCCTGAAAACTTCATCTCTCCCCAATATCATCGC
*
61182449 ATTCAAGTTCAACCTGTCGGTATCTCTTCTCCCAAGCCAGACGTAGCCCTTCAAGCATAGACCTC
1 ATTCAAGTTCAACCTGTCGGTACCTCTTCTCCCAAGCCAGACGTAGCCCTTCAAGCATAGACCTC
* *
61182514 GCTTCTGTCCTGAAAACTTCATCTCTCCCCAATATCATCGC
66 ACTTCTATCCTGAAAACTTCATCTCTCCCCAATATCATCGC
61182555 AT
1 AT
61182557 AGCCACACAA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 104 1.00
ACGTcount: A:0.25, C:0.35, G:0.12, T:0.29
Consensus pattern (106 bp):
ATTCAAGTTCAACCTGTCGGTACCTCTTCTCCCAAGCCAGACGTAGCCCTTCAAGCATAGACCTC
ACTTCTATCCTGAAAACTTCATCTCTCCCCAATATCATCGC
Found at i:61183862 original size:9 final size:9
Alignment explanation
Indices: 61183843--61183889 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
61183833 TGGTTAAAAT
*
61183843 TTAACCAAA
1 TTAACCGAA
*
61183852 TTAACTGAA
1 TTAACCGAA
*
61183861 TTACCCGAA
1 TTAACCGAA
61183870 TT-ACTCGAA
1 TTAAC-CGAA
61183879 TTAACCGAA
1 TTAACCGAA
61183888 TT
1 TT
61183890 GAATCACTGC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
8 1 0.03
9 28 0.90
10 2 0.06
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (9 bp):
TTAACCGAA
Found at i:61187239 original size:26 final size:28
Alignment explanation
Indices: 61187160--61187240 Score: 114
Period size: 27 Copynumber: 3.0 Consensus size: 28
61187150 TCAGGCCAAT
*
61187160 TAAATTGGTGGCACCAAAGGTGCCAAA-
1 TAAATTGGTGGCACCAATGGTGCCAAAG
61187187 TAAATTGGTGGCACCAATGGTGCCAAAG
1 TAAATTGGTGGCACCAATGGTGCCAAAG
* *
61187215 T-CATTGGCGGCACC-ATGGTGCCAAAG
1 TAAATTGGTGGCACCAATGGTGCCAAAG
61187241 GAAAAAAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
26 12 0.24
27 37 0.74
28 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (28 bp):
TAAATTGGTGGCACCAATGGTGCCAAAG
Found at i:61187337 original size:19 final size:19
Alignment explanation
Indices: 61187315--61187421 Score: 137
Period size: 19 Copynumber: 5.7 Consensus size: 19
61187305 TTCAACTCAT
*
61187315 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
61187334 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
61187352 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
61187371 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
61187389 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
61187408 TTTTAATTTAATAA
1 TTTTAATTTAATAA
61187422 AATATTAAGT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
18 30 0.41
19 43 0.59
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:61187364 original size:37 final size:37
Alignment explanation
Indices: 61187320--61187427 Score: 207
Period size: 37 Copynumber: 2.9 Consensus size: 37
61187310 CTCATTTTTT
61187320 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
61187357 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
*
61187394 ATTTAATAACTCTATTTTAATTTAATAAAATATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
61187428 AAGTAATACT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:61187672 original size:19 final size:19
Alignment explanation
Indices: 61187645--61187714 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
61187635 TCAACTCAAT
*
61187645 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
61187664 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
61187682 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
61187701 TTTTAATTTAATAA
1 TTTTAATTTAATAA
61187715 AATATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:61187691 original size:37 final size:37
Alignment explanation
Indices: 61187650--61187720 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
61187640 TCAATTTTTT
*
61187650 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
61187687 ATTTAATAACTCTATTTTAATTTAATAAAATATT
1 ATTTAATAACTCTATTTTAATTTAATAAAATATT
61187721 AAGTAATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
Found at i:61188032 original size:37 final size:37
Alignment explanation
Indices: 61187986--61188056 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
61187976 AGTATCACTT
*
61187986 AATATTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
61188023 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
61188057 AAAAAAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:61188061 original size:19 final size:19
Alignment explanation
Indices: 61187992--61188060 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
61187982 ACTTAATATT
61187992 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
61188011 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
61188029 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
61188048 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
61188061 AAATGAATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:61188183 original size:27 final size:27
Alignment explanation
Indices: 61188134--61188211 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
61188124 ACTTTTTTTC
61188134 CTTTGGCACCA-TGGTGCCGCCAATGA
1 CTTTGGCACCATTGGTGCCGCCAATGA
* *
61188160 CTTTGGCACCATTGGTGCCACCAATTTA
1 CTTTGGCACCATTGGTGCCGCCAA-TGA
*
61188188 -TTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACCATTGGTGCCGCCAAT
61188212 TTAATTAGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
26 12 0.26
27 32 0.70
28 2 0.04
ACGTcount: A:0.18, C:0.29, G:0.23, T:0.29
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCGCCAATGA
Found at i:61188260 original size:12 final size:11
Alignment explanation
Indices: 61188242--61188271 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
61188232 GATGTTAGGT
61188242 TTTTTTGTTTG
1 TTTTTTGTTTG
61188253 TTTGTTTGTTTG
1 TTT-TTTGTTTG
61188265 TTTTTTG
1 TTTTTTG
61188272 ATATATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (11 bp):
TTTTTTGTTTG
Found at i:61188297 original size:22 final size:22
Alignment explanation
Indices: 61188272--61188316 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
61188262 TTGTTTTTTG
61188272 ATATATTTTGGAAAATAAAAAA
1 ATATATTTTGGAAAATAAAAAA
*
61188294 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGGAAAATAAAAAA
61188316 A
1 A
61188317 GTTATAACAT
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:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (22 bp):
ATATATTTTGGAAAATAAAAAA
Found at i:61188611 original size:30 final size:30
Alignment explanation
Indices: 61188571--61188634 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
61188561 CATAATAGTG
* *
61188571 AAATGGTAATAAAATAATGAAAAAACAAGA
1 AAATAGTAATAAAATAATGAAAAAACAACA
* * *
61188601 AAATAGTAATAAAATATTTAAAAAATAACA
1 AAATAGTAATAAAATAATGAAAAAACAACA
61188631 AAAT
1 AAAT
61188635 TTTTTGCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (30 bp):
AAATAGTAATAAAATAATGAAAAAACAACA
Found at i:61189694 original size:20 final size:20
Alignment explanation
Indices: 61189666--61189704 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
61189656 AATGATTTGA
*
61189666 TTAAATAAATTATTAAAAAT
1 TTAAATAAAATATTAAAAAT
*
61189686 TTAATTAAAATATTAAAAA
1 TTAAATAAAATATTAAAAA
61189705 AATTAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAATAAAATATTAAAAAT
Found at i:61191242 original size:43 final size:42
Alignment explanation
Indices: 61191166--61191401 Score: 192
Period size: 43 Copynumber: 5.6 Consensus size: 42
61191156 ATGTCTACTG
* * *
61191166 CTAATGGCAG--TTTAT-TTGCAAAAATGTTATGCATCCAGAA
1 CTAATGGCAGTTTTTATCTT-CAAATATGTTGTGCATCCACAA
* *
61191206 CATAATGGCAGTTTTTATCTTCAAATATGTTGTGCATCCATAGC
1 C-TAATGGCAGTTTTTATCTTCAAATATGTTGTGCATCCACA-A
* * * * * * *
61191250 CCAGTAGTAGTTTTTATCTACAAGTATGTTGTGCATCTACAA
1 CTAATGGCAGTTTTTATCTTCAAATATGTTGTGCATCCACAA
* * * *
61191292 CCTAATGGCAGCTTTTAT-ATCAAATATGTTGTGCAACGACAA
1 -CTAATGGCAGTTTTTATCTTCAAATATGTTGTGCATCCACAA
* * ** *
61191334 CCAGTGAAAGTTTTTATCTGCAAATATGTTGTGCATCCACAA
1 CTAATGGCAGTTTTTATCTTCAAATATGTTGTGCATCCACAA
* *
61191376 CTCAATGGTAGTTTTTATCTGCAAAT
1 CT-AATGGCAGTTTTTATCTTCAAAT
61191402 CAGTGGTAGT
Statistics
Matches: 152, Mismatches: 36, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
40 1 0.01
41 21 0.14
42 40 0.26
43 87 0.57
44 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (42 bp):
CTAATGGCAGTTTTTATCTTCAAATATGTTGTGCATCCACAA
Found at i:61191334 original size:42 final size:42
Alignment explanation
Indices: 61191274--61191401 Score: 114
Period size: 42 Copynumber: 3.0 Consensus size: 42
61191264 TATCTACAAG
* * **
61191274 TATGTTGTGCATCTACAACCTAATGGCAGCTTTTATAT-CAAA
1 TATGTTGTGCAACGACAACC-AATGAAAGCTTTTATATGCAAA
* * *
61191316 TATGTTGTGCAACGACAACCAGTGAAAGTTTTTATCTGCAAA
1 TATGTTGTGCAACGACAACCAATGAAAGCTTTTATATGCAAA
* * ** * *
61191358 TATGTTGTGCATCCACAACTCAATGGTAGTTTTTATCTGCAAA
1 TATGTTGTGCAACGACAAC-CAATGAAAGCTTTTATATGCAAA
61191401 T
1 T
61191402 CAGTGGTAGT
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
41 12 0.17
42 39 0.54
43 21 0.29
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (42 bp):
TATGTTGTGCAACGACAACCAATGAAAGCTTTTATATGCAAA
Found at i:61191365 original size:84 final size:86
Alignment explanation
Indices: 61191176--61191394 Score: 248
Period size: 84 Copynumber: 2.6 Consensus size: 86
61191166 CTAATGGCAG
* * * * * *
61191176 TTTATTTGCAAAAATGTTATGCATCCAGAACATAATGGCAGTTTTTATCTTCAAATATGTTGTGC
1 TTTATCTGCAAATATGTTGTGCATCCACAACCTAATGGCAGTTTTTATCATCAAATATGTTGTGC
* * * *
61191241 ATCCATAGCCCAGTAGTAGTT
66 AACCACAGACCAGTAGAAGTT
* * * *
61191262 TTTATCTACAAGTATGTTGTGCATCTACAACCTAATGGCAGCTTTTAT-ATCAAATATGTTGTGC
1 TTTATCTGCAAATATGTTGTGCATCCACAACCTAATGGCAGTTTTTATCATCAAATATGTTGTGC
*
61191326 AACGACA-ACCAGT-GAAAGTT
66 AACCACAGACCAGTAG-AAGTT
*
61191346 TTTATCTGCAAATATGTTGTGCATCCACAA-CTCAATGGTAGTTTTTATC
1 TTTATCTGCAAATATGTTGTGCATCCACAACCT-AATGGCAGTTTTTATC
61191395 TGCAAATCAG
Statistics
Matches: 110, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
83 3 0.03
84 49 0.45
85 19 0.17
86 39 0.35
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (86 bp):
TTTATCTGCAAATATGTTGTGCATCCACAACCTAATGGCAGTTTTTATCATCAAATATGTTGTGC
AACCACAGACCAGTAGAAGTT
Found at i:61206775 original size:23 final size:23
Alignment explanation
Indices: 61206746--61206864 Score: 175
Period size: 23 Copynumber: 5.2 Consensus size: 23
61206736 AGTGCAACAT
61206746 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
* *
61206769 TGTTATGTAGTCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
61206792 TGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
* *
61206815 TGTTATGTAGCCGAAGCTATCAC
1 TGATATGTAGCCGAAGCTACCAC
* *
61206838 TGAAACGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
61206861 TGAT
1 TGAT
61206865 CAATAACACT
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 83 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:61206817 original size:46 final size:46
Alignment explanation
Indices: 61206750--61206862 Score: 199
Period size: 46 Copynumber: 2.5 Consensus size: 46
61206740 CAACATTGAT
*
61206750 ATGTAGCCGAAGCTACCACTGTTATGTAGTCGAAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTACCACTGAA
*
61206796 ATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTATCACTGAA
1 ATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTACCACTGAA
*
61206842 ACGTAGCCGAAGCTACCACTG
1 ATGTAGCCGAAGCTACCACTG
61206863 ATCAATAACA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTACCACTGAA
Found at i:61211223 original size:18 final size:17
Alignment explanation
Indices: 61211190--61211228 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
61211180 TTGTATAAAT
61211190 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
61211208 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
61211225 TGTG
1 TGTG
61211229 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:61211481 original size:23 final size:23
Alignment explanation
Indices: 61211454--61211551 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
61211444 AGTGTTATTG
61211454 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
61211477 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
61211500 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
61211522 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
61211545 ATCAGTG
1 ATCAGTG
61211552 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:61211520 original size:45 final size:45
Alignment explanation
Indices: 61211456--61211544 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
61211446 TGTTATTGAT
* *
61211456 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
61211501 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
61211545 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:61215175 original size:45 final size:45
Alignment explanation
Indices: 61215124--61215239 Score: 135
Period size: 45 Copynumber: 2.6 Consensus size: 45
61215114 TGTTGGTTGA
*
61215124 AAACGAGTAAGACTATAGCTGAAAGACACTATAACATCACGAATC
1 AAACGAGTAAGACTATAGTTGAAAGACACTATAACATCACGAATC
* * ** * *
61215169 AAACGAGTAA-AATCATAGTTGAAAGACGCTATGGCATCATGATTC
1 AAACGAGTAAGACT-ATAGTTGAAAGACACTATAACATCACGAATC
* *
61215214 AAACGTGTAAGACCATAGTTGAAAGA
1 AAACGAGTAAGACTATAGTTGAAAGA
61215240 TACAATGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 2 0.03
45 56 0.95
46 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (45 bp):
AAACGAGTAAGACTATAGTTGAAAGACACTATAACATCACGAATC
Found at i:61215327 original size:22 final size:22
Alignment explanation
Indices: 61215258--61215327 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
61215248 CACTATATCA
*
61215258 AAAATGAATAAGACCATAGTTG
1 AAAATGAATAAGACCATAATTG
* * *
61215280 -AAA-GACATTATGACAATATATCG
1 AAAATGA-A-TAAGACCATA-ATTG
61215303 AAAATGAATAAGACCATAATTG
1 AAAATGAATAAGACCATAATTG
61215325 AAA
1 AAA
61215328 GACACTATGG
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
20 2 0.06
21 4 0.11
22 14 0.39
23 10 0.28
24 4 0.11
25 2 0.06
ACGTcount: A:0.53, C:0.10, G:0.14, T:0.23
Consensus pattern (22 bp):
AAAATGAATAAGACCATAATTG
Found at i:61215365 original size:47 final size:45
Alignment explanation
Indices: 61215221--61215382 Score: 202
Period size: 45 Copynumber: 3.6 Consensus size: 45
61215211 TTCAAACGTG
* * *
61215221 TAAGACCATAGTTGAAAGATACAATGAC-ACTATATCAAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGACAAC-ATATCGAAAATGAA
* *
61215266 TAAGACCATAGTTGAAAGACATTATGACAATATATCGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGACAACATATCGAAAATGAA
* * *
61215311 TAAGACCATAATTGAAAGACACTATGGCAACATGATGGAGAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGACAACAT-ATCGA-AAATGAA
61215358 TAAGACCATAGTTGAAA-AGCACTAT
1 TAAGACCATAGTTGAAAGA-CACTAT
61215383 AGCATCAGTT
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
45 67 0.66
46 6 0.06
47 29 0.28
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGACAACATATCGAAAATGAA
Found at i:61218047 original size:32 final size:32
Alignment explanation
Indices: 61217994--61218061 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
61217984 ATGCCAGACA
** *
61217994 GTGTAGACCACACGGTCTGGGCTACTTGGGTC
1 GTGTAGACCACAAAGTCTGGGCCACTTGGGTC
*
61218026 GTGTAGACCACATAAGT-TGGGCCATTTGGGTC
1 GTGTAGACCACA-AAGTCTGGGCCACTTGGGTC
61218058 GTGT
1 GTGT
61218062 GGGTCACATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 29 0.94
33 2 0.06
ACGTcount: A:0.18, C:0.21, G:0.34, T:0.28
Consensus pattern (32 bp):
GTGTAGACCACAAAGTCTGGGCCACTTGGGTC
Found at i:61220057 original size:14 final size:15
Alignment explanation
Indices: 61220026--61220058 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
61220016 ATTAGTTGTA
*
61220026 ATGTTTTACTATGTC
1 ATGTTTTACTATGGC
61220041 ATGTTTTA-TATGGC
1 ATGTTTTACTATGGC
61220055 ATGT
1 ATGT
61220059 ACCTAAGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.21, C:0.09, G:0.18, T:0.52
Consensus pattern (15 bp):
ATGTTTTACTATGGC
Found at i:61237530 original size:16 final size:15
Alignment explanation
Indices: 61237504--61237533 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
61237494 TGAATTTTTT
61237504 AAATAATATTATTTC
1 AAATAATATTATTTC
61237519 AAATATATATTATTT
1 AAATA-ATATTATTT
61237534 ATAAATTTAA
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:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATAATATTATTTC
Found at i:61243520 original size:18 final size:20
Alignment explanation
Indices: 61243494--61243543 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
61243484 TTTTCACTTT
*
61243494 TAATTATAAT-CATTAA-AA
1 TAATAATAATACATTAACAA
*
61243512 TAATAATAATTATATTAACAA
1 TAATAATAA-TACATTAACAA
61243533 TAATAATAATA
1 TAATAATAATA
61243544 AAATTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.30
19 1 0.04
20 7 0.26
21 11 0.41
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
TAATAATAATACATTAACAA
Found at i:61244371 original size:5 final size:5
Alignment explanation
Indices: 61244363--61244399 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
61244353 TTTACTTATT
*
61244363 TAATA TAATA CAATA TAATA TAATA TAATA T-ATA TAA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAA
61244400 AGCATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (5 bp):
TAATA
Found at i:61245675 original size:16 final size:16
Alignment explanation
Indices: 61245654--61245687 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61245644 AACTTTTAAG
61245654 TGAATAAAAAAAACAA
1 TGAATAAAAAAAACAA
* *
61245670 TGAATAGAAAAAAGAA
1 TGAATAAAAAAAACAA
61245686 TG
1 TG
61245688 GATACACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.15, T:0.15
Consensus pattern (16 bp):
TGAATAAAAAAAACAA
Found at i:61248048 original size:25 final size:25
Alignment explanation
Indices: 61248012--61248071 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
61248002 TGCAAGCAGT
* *
61248012 TTTATAG-ATTGATGTAGTTTTTAG
1 TTTATAGTTTTGATGTAGTTTGTAG
61248036 TTTATAGTTTTGATGTAGTTTGTAG
1 TTTATAGTTTTGATGTAGTTTGTAG
*
61248061 TTTATGGTTTT
1 TTTATAGTTTT
61248072 TCTGTTAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.20, C:0.00, G:0.22, T:0.58
Consensus pattern (25 bp):
TTTATAGTTTTGATGTAGTTTGTAG
Found at i:61249912 original size:63 final size:63
Alignment explanation
Indices: 61249834--61250025 Score: 357
Period size: 63 Copynumber: 3.0 Consensus size: 63
61249824 TTTTCAATAT
61249834 TTATATCAGTTATAGTTCCGCTGGTAGAGTGCTATCGAAATAAGTGAATGGGATATCAACAAC
1 TTATATCAGTTATAGTTCCGCTGGTAGAGTGCTATCGAAATAAGTGAATGGGATATCAACAAC
*
61249897 TTATATCAGTTATAGTTCTGCTGGTAGAGTGCTATCGAAATAAGTGAATGGGATATCAACAAC
1 TTATATCAGTTATAGTTCCGCTGGTAGAGTGCTATCGAAATAAGTGAATGGGATATCAACAAC
* *
61249960 TTATATCAGTTATAGTTCCGCTGGTAGAGTGCTATCGAAATAAGCGGATGGGATATCAACAAC
1 TTATATCAGTTATAGTTCCGCTGGTAGAGTGCTATCGAAATAAGTGAATGGGATATCAACAAC
61250023 TTA
1 TTA
61250026 GCATGAATCA
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 125 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (63 bp):
TTATATCAGTTATAGTTCCGCTGGTAGAGTGCTATCGAAATAAGTGAATGGGATATCAACAAC
Found at i:61258703 original size:19 final size:20
Alignment explanation
Indices: 61258667--61258707 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
61258657 GCTATACTTT
61258667 AATTATTAAATAAAAAATAA
1 AATTATTAAATAAAAAATAA
* *
61258687 AATT-TTAACTAATAAATAA
1 AATTATTAAATAAAAAATAA
61258706 AA
1 AA
61258708 AATATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTATTAAATAAAAAATAA
Found at i:61264034 original size:72 final size:72
Alignment explanation
Indices: 61263916--61264053 Score: 213
Period size: 72 Copynumber: 1.9 Consensus size: 72
61263906 AATGTAATTA
* *
61263916 TTTGTAATTACTTACACAATTACTTTAATTCTCACTCTCCACTAAGAATTAAATAGTGTAATTGG
1 TTTGTAATTACTTACACAATTACTCTAATTCTCACTCTCCACTAAGAATTAAATAGTGTAACTGG
61263981 GATGTTG
66 GATGTTG
* * ** *
61263988 TTTGTAATTACTTGCATAATTACTCTAATTCTCACTCTCCGGTAAGAATTGAATAGTGTAACTGG
1 TTTGTAATTACTTACACAATTACTCTAATTCTCACTCTCCACTAAGAATTAAATAGTGTAACTGG
61264053 G
66 G
61264054 GTACACTAGG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (72 bp):
TTTGTAATTACTTACACAATTACTCTAATTCTCACTCTCCACTAAGAATTAAATAGTGTAACTGG
GATGTTG
Found at i:61264366 original size:17 final size:19
Alignment explanation
Indices: 61264331--61264373 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
61264321 AAAAATTAAA
61264331 AAAT-ATTTTATACTTTTT
1 AAATAATTTTATACTTTTT
61264349 AAATAATTTT-TA-TTTTT
1 AAATAATTTTATACTTTTT
*
61264366 AAAAAATT
1 AAATAATT
61264374 AATTAATTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 12 0.52
18 6 0.26
19 5 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
AAATAATTTTATACTTTTT
Found at i:61265838 original size:22 final size:22
Alignment explanation
Indices: 61265809--61265863 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
61265799 GAAATGGTAG
*
61265809 CAAAACAACAACCTAACAACAA
1 CAAAACAACAACATAACAACAA
* **
61265831 TAAAACAACAACATAACAGGAA
1 CAAAACAACAACATAACAACAA
61265853 CAAAACAACAA
1 CAAAACAACAA
61265864 GGAAAAAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.65, C:0.25, G:0.04, T:0.05
Consensus pattern (22 bp):
CAAAACAACAACATAACAACAA
Found at i:61265848 original size:11 final size:11
Alignment explanation
Indices: 61265809--61265863 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
61265799 GAAATGGTAG
61265809 CAAAACAACAA
1 CAAAACAACAA
**
61265820 CCTAACAACAA
1 CAAAACAACAA
*
61265831 TAAAACAACAA
1 CAAAACAACAA
* **
61265842 CATAACAGGAA
1 CAAAACAACAA
61265853 CAAAACAACAA
1 CAAAACAACAA
61265864 GGAAAAAAGT
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.65, C:0.25, G:0.04, T:0.05
Consensus pattern (11 bp):
CAAAACAACAA
Found at i:61268527 original size:32 final size:32
Alignment explanation
Indices: 61268465--61268603 Score: 141
Period size: 31 Copynumber: 4.5 Consensus size: 32
61268455 ACCTCCCAAA
* * *
61268465 AAGTTTAAGTACCAACTTAAG-AAAAAGTGTC
1 AAGTTTAGGTACCAAATTAGGAAAAAAGTGTC
*
61268496 AAGTTTAGGTATCAAATTAGGAAAAAAGTGTC
1 AAGTTTAGGTACCAAATTAGGAAAAAAGTGTC
*
61268528 AAGTTTGGGTACCAAATT-GGACCAAAAA-----
1 AAGTTTAGGTACCAAATTAGGA--AAAAAGTGTC
* *
61268556 AAGATTAGGTACCAAATTA-GAAAAAAGTGCC
1 AAGTTTAGGTACCAAATTAGGAAAAAAGTGTC
61268587 AAGTTTAGGTACCAAAT
1 AAGTTTAGGTACCAAAT
61268604 ATTATATTAA
Statistics
Matches: 90, Mismatches: 9, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
26 5 0.06
28 18 0.20
31 36 0.40
32 26 0.29
33 5 0.06
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (32 bp):
AAGTTTAGGTACCAAATTAGGAAAAAAGTGTC
Found at i:61268595 original size:91 final size:92
Alignment explanation
Indices: 61268410--61268603 Score: 268
Period size: 91 Copynumber: 2.1 Consensus size: 92
61268400 CAAAAAAAAA
** *
61268410 AGGTACCAAATTAGGAAAAAGAGTCAAGTTCGGGTACCAAATTGGACCTCCCAAAAAGTTTAAGT
1 AGGTACCAAATTAGGAAAAAGAGTCAAGTTCGGGTACCAAATTGGACCTCAAAAAAAGATTAAGT
* *
61268475 ACCAACTTAAGAAAAAGTGTCAAGTTT
66 ACCAAATTAAGAAAAAGTGCCAAGTTT
* * * *
61268502 AGGTATCAAATTAGGAAAAAAGTGTCAAGTTTGGGTACCAAATTGGA-C-CAAAAAAAGATTAGG
1 AGGTACCAAATTAGG-AAAAAGAGTCAAGTTCGGGTACCAAATTGGACCTCAAAAAAAGATTAAG
61268565 TACCAAATT-AGAAAAAAGTGCCAAGTTT
65 TACCAAATTAAG-AAAAAGTGCCAAGTTT
61268593 AGGTACCAAAT
1 AGGTACCAAAT
61268604 ATTATATTAA
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
90 2 0.02
91 44 0.49
92 15 0.17
93 29 0.32
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (92 bp):
AGGTACCAAATTAGGAAAAAGAGTCAAGTTCGGGTACCAAATTGGACCTCAAAAAAAGATTAAGT
ACCAAATTAAGAAAAAGTGCCAAGTTT
Found at i:61277728 original size:27 final size:27
Alignment explanation
Indices: 61277655--61277731 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
61277645 GGGTATGGTG
* *
61277655 CCTATCTGATAGGCGGCACCAGTGATC
1 CCTATCTGATAGGCGGCACTAGTGACC
*
61277682 CCTATCTGATAGGCGGCACTGGTGACC
1 CCTATCTGATAGGCGGCACTAGTGACC
* *
61277709 CCTATCTCATAGGTGGCACTAGT
1 CCTATCTGATAGGCGGCACTAGT
61277732 ACCATTTCCC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.25
Consensus pattern (27 bp):
CCTATCTGATAGGCGGCACTAGTGACC
Found at i:61277847 original size:18 final size:17
Alignment explanation
Indices: 61277821--61277867 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
61277811 GTAGAAGAGA
*
61277821 AGAATGAAAGAAAATAGG
1 AGAAAGAAAGAAAATA-G
61277839 AGAAAGAAAG-AAA-AG
1 AGAAAGAAAGAAAATAG
61277854 A-AAAGAAAGAAAAT
1 AGAAAGAAAGAAAAT
61277868 GTATTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 1 0.04
17 3 0.12
18 9 0.35
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.06
Consensus pattern (17 bp):
AGAAAGAAAGAAAATAG
Found at i:61277886 original size:23 final size:23
Alignment explanation
Indices: 61277859--61277905 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
61277849 AAAAGAAAAG
61277859 AAAGAAAATGTATTTTTATTTTT
1 AAAGAAAATGTATTTTTATTTTT
61277882 AAAGAAAATGTATTTTTATTTTT
1 AAAGAAAATGTATTTTTATTTTT
61277905 A
1 A
61277906 TTGTTATTTT
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:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (23 bp):
AAAGAAAATGTATTTTTATTTTT
Found at i:61281999 original size:3 final size:3
Alignment explanation
Indices: 61281951--61281984 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
61281941 TGCTCTCTCA
*
61281951 TTC TTC TTC TTC TTC TTT TTC TTC TTC -TC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
61281985 TAAAGATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:61282177 original size:31 final size:31
Alignment explanation
Indices: 61282136--61282194 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
61282126 GACCAGGGGT
* **
61282136 GTGCTGCCTCTCTGGTAGGCACGACCAGCCA
1 GTGCCGCCTCTCCAGTAGGCACGACCAGCCA
*
61282167 GTGCCGCCTCTCCAGTAGGCATGACCAG
1 GTGCCGCCTCTCCAGTAGGCACGACCAG
61282195 TGCTGCTCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.17, C:0.36, G:0.29, T:0.19
Consensus pattern (31 bp):
GTGCCGCCTCTCCAGTAGGCACGACCAGCCA
Found at i:61287959 original size:13 final size:13
Alignment explanation
Indices: 61287941--61287965 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61287931 TTATCATCTA
61287941 TCATTTATTTATT
1 TCATTTATTTATT
61287954 TCATTTATTTAT
1 TCATTTATTTAT
61287966 CTACGCATTT
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TCATTTATTTATT
Found at i:61288688 original size:22 final size:22
Alignment explanation
Indices: 61288661--61288729 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
61288651 CCCTTGATCC
61288661 TTTTAACACTAT-TTTTATATAT
1 TTTTAA-ACTATCTTTTATATAT
*
61288683 TTTTAAACTGTCTTTT-T-TAT
1 TTTTAAACTATCTTTTATATAT
*
61288703 TATTTAAGACTTTCTTTTATATAT
1 T-TTTAA-ACTATCTTTTATATAT
61288727 TTT
1 TTT
61288730 ATTTTAAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 4 0.10
21 10 0.25
22 19 0.47
23 3 0.08
24 4 0.10
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (22 bp):
TTTTAAACTATCTTTTATATAT
Found at i:61289102 original size:38 final size:37
Alignment explanation
Indices: 61289018--61289112 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
61289008 TATACGTACT
*
61289018 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTACATATTT-ATAATTC
* *
61289056 T-TATATACTTACATATATTTATACATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TACATATTTATA-ATTC
*
61289092 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
61289113 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTACATATTTATAATTC
Found at i:61295975 original size:133 final size:132
Alignment explanation
Indices: 61295592--61296212 Score: 653
Period size: 133 Copynumber: 4.7 Consensus size: 132
61295582 AGGAAGGCAG
* * * *** * * *
61295592 GATCTGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGACCTGCTTTCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG-TATCTTCGATCCA
** * * * * * * * *
61295656 CTTTGTCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAA
65 CTTCCT-ACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAA
*
61295719 GAC-C
128 GACAA
* * *** *** * *
61295723 GACCTG-TTATCTTTGATCTACTTC-ATGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCT
1 GATCTGCTT-TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG-TATCTTCGATCC
* * ** *
61295786 ACTTCCTACCAATATAGGAAGACAGAATTTGC-ATCTTCGATCTATTTCACGCCAATACATGAAG
64 ACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAG
*
61295850 ATAA
129 ACAA
* * *
61295854 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTATATCTTGGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCAC
61295919 TTCCTACCAATAATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
66 TTCCTACCAAT-ATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
61295984 CAA
130 CAA
* * *
61295987 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATTTTCGATCCGC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCAC
* * * * ***
61296052 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCGCCACCAATATGGGAAGA
66 TTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGA
61296117 CAA
130 CAA
* * * *
61296120 GATCTGCTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATTTGTATCTTTGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCAC
61296185 TTCCTACCAATATAGGAAGATAGGACCT
66 TTCCTACCAATATAGGAAGATAGGACCT
61296213 ATTTACGCCT
Statistics
Matches: 424, Mismatches: 58, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
130 48 0.11
131 103 0.24
132 69 0.16
133 204 0.48
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (132 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:61296062 original size:88 final size:87
Alignment explanation
Indices: 61295567--61296204 Score: 527
Period size: 88 Copynumber: 7.3 Consensus size: 87
61295557 TTTTCAATCC
* * * * * * * *
61295567 ACTTCCTACAAATATAGGAAGGCAGGATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAA
1 ACTTCCCACCAATATAGGAAGACAAGATCTGC-ATTTTCGATCTACTTC-CTACCAATATAGGAA
* *
61295631 GACAAGACCTGCTTTCTTCGATCT
64 GACAAGATCTGCTATCTTCGATCT
** * * *
61295655 ACTTTGTCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAG
1 AC-TTCCCACCAATATAGGAAGACAAGATCTGCATTTTCGATCTACTTCCTACCAATATAGGAAG
* * * *
61295720 AC-CGACCTGTTATCTTTGATCT
65 ACAAGATCTGCTATCTTCGATCT
*** * * *
61295742 ACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCTACCAATATAGGAAG
1 ACTTCCCACCAATATAGGAAGACAAGATCTGCATT-TTCGATCTACTTCCTACCAATATAGGAAG
*
61295807 AC-AGAATTTGC-ATCTTCGATCT
65 ACAAG-ATCTGCTATCTTCGATCT
* * * * * * * * * *
61295829 ATTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAA
1 ACTTCCCACCAATATAGGAAGACAAGATCTGCATT-TTCGATCTACTTC-CTACCAATATAGGAA
* * *
61295894 GACAAGATCT-ATATCTTGGATCC
64 GACAAGATCTGCTATCTTCGATCT
* * * * * * * *
61295917 ACTTCCTACCAATAATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGA
1 ACTTCCCACCAAT-ATAGGAAGACAAGATCTGC-ATTTTCGATCTACTTC-CTACCAATATAGGA
*
61295981 AGACAAGATCTGCTTTCTTCGATCT
63 AGACAAGATCTGCTATCTTCGATCT
* **
61296006 ACTTCGCCACCAATATGGGAAGACAAGATCTGCATTTTCGATCCGCTTCCTACCAATATAGGAAG
1 ACTTC-CCACCAATATAGGAAGACAAGATCTGCATTTTCGATCTACTTCCTACCAATATAGGAAG
* * *
61296071 ATAGGATCTGCTACCTTCGATCT
65 ACAAGATCTGCTATCTTCGATCT
* * * *
61296094 ACTTCGCCACCAATATGGGAAGACAAGATCTGC-TTTCTGCAATCTACTTCGCCACCAATATGGG
1 ACTTC-CCACCAATATAGGAAGACAAGATCTGCATTT-T-CGATCTACTTC-CTACCAATATAGG
* * *
61296158 AAGACAAGATTTG-TATCTTTGATCC
62 AAGACAAGATCTGCTATCTTCGATCT
*
61296183 ACTTCCTACCAATATAGGAAGA
1 ACTTCCCACCAATATAGGAAGA
61296205 TAGGACCTAT
Statistics
Matches: 447, Mismatches: 88, Indels: 30
0.79 0.16 0.05
Matches are distributed among these distances:
86 24 0.05
87 110 0.25
88 179 0.40
89 105 0.23
90 29 0.06
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (87 bp):
ACTTCCCACCAATATAGGAAGACAAGATCTGCATTTTCGATCTACTTCCTACCAATATAGGAAGA
CAAGATCTGCTATCTTCGATCT
Found at i:61310851 original size:6 final size:7
Alignment explanation
Indices: 61310829--61310853 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
61310819 AGTCTCTTTA
61310829 TTTAATT
1 TTTAATT
61310836 TTTAATT
1 TTTAATT
61310843 TTTAATT
1 TTTAATT
61310850 TTTA
1 TTTA
61310854 TTATACCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTAATT
Found at i:61317594 original size:21 final size:21
Alignment explanation
Indices: 61317559--61317615 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
61317549 AAAATAGTGA
*
61317559 AAAATAATAAGAAAATAACAAC
1 AAAATAATAA-AAAACAACAAC
* *
61317581 AAAATAATAAAAAACAGCAAG
1 AAAATAATAAAAAACAACAAC
*
61317602 AAAATAGTAAAAAA
1 AAAATAATAAAAAA
61317616 AAAGTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.12
Consensus pattern (21 bp):
AAAATAATAAAAAACAACAAC
Found at i:61318204 original size:91 final size:91
Alignment explanation
Indices: 61318073--61318243 Score: 220
Period size: 91 Copynumber: 1.9 Consensus size: 91
61318063 GATATTTATC
* * * * *
61318073 TTTTATAAAAAGTTTAATGTGGTACTTATATTTTGGAAATGTTAAATATGGTA-TATGAGCTATC
1 TTTTATAAAAAGTCTAATGTGATACTTACATTTTGAAAATGTTAAATATGGTACT-TGAACTATC
***
61318137 AATTTGTGTATTATTTGGTACATATAT
65 AACCAGTGTATTATTTGGTACATATAT
* *
61318164 TTTTATAAAATA-TCTAATGTGATACTTACATTTTGAAAATGTTCAATGTGGTACTTGAACTATC
1 TTTTATAAAA-AGTCTAATGTGATACTTACATTTTGAAAATGTTAAATATGGTACTTGAACTATC
61318228 AACCAGTGTATTATTT
65 AACCAGTGTATTATTT
61318244 ATGGTATCTG
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
91 66 0.97
92 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (91 bp):
TTTTATAAAAAGTCTAATGTGATACTTACATTTTGAAAATGTTAAATATGGTACTTGAACTATCA
ACCAGTGTATTATTTGGTACATATAT
Found at i:61320799 original size:24 final size:23
Alignment explanation
Indices: 61320769--61320818 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 23
61320759 AGGTTGGCAA
*
61320769 TTTTTTTGCGCTTTTTGCTTTCTT
1 TTTTTTTGCGCTTTTTACTTT-TT
61320793 TTTTTTTGCGCTTTTTACTTTTT
1 TTTTTTTGCGCTTTTTACTTTTT
61320816 TTT
1 TTT
61320819 CTGTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.02, C:0.14, G:0.10, T:0.74
Consensus pattern (23 bp):
TTTTTTTGCGCTTTTTACTTTTT
Found at i:61321389 original size:31 final size:31
Alignment explanation
Indices: 61321351--61321412 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
61321341 AGGCAAATTA
*
61321351 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAAGTGAATCCTAATAAAACTCTTT
61321382 CAAGAGTAAGTGAATCCTAATAAAACTCTTT
1 CAAGAGTAAGTGAATCCTAATAAAACTCTTT
61321413 AAAATTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (31 bp):
CAAGAGTAAGTGAATCCTAATAAAACTCTTT
Found at i:61322116 original size:186 final size:184
Alignment explanation
Indices: 61321798--61322136 Score: 484
Period size: 186 Copynumber: 1.8 Consensus size: 184
61321788 AACTAGAAGT
* * *
61321798 TGTGTTTTGAAGAAGAAAAATGGTGTTTGACAAGAGAGAAAATGAGAGAAATAAAATGGTAGCTG
1 TGTGTGTTGAAGAAGAAAAATGATGTTTGACAAGAGAGAAAATGAGAGAAATAAAATGGCAGCTG
* *
61321863 ATAGTAGGAAAAAAATAATGATTTTAAGTTGAAAATATGGTGTGAGTTTACAAAAATTACACAAA
66 ACAGTAGGAAAAAAACAATGATTTTAAGTTGAAAATATGGTGTGAGTTTACAAAAATTACACAAA
*
61321928 AGCATGATCATAATCATGGTAATGAAAAATCTTGTAGATGAAATGAGCCAACCA
131 AGCATGATCATAACCATGGTAATGAAAAATCTTGTAGATGAAATGAGCCAACCA
* * *
61321982 TGTGTGTTGAAGAAGAAAAATGATGTTTGGCAAGAGAGAAAGTGAGAGGAA-AAAATGGCAGTCT
1 TGTGTGTTGAAGAAGAAAAATGATGTTTGACAAGAGAGAAAATGAGAGAAATAAAATGGCAG-CT
* * * * *
61322046 -ACAGTGAGGGGGAAAAAACAATTATTTTAAGTTGAAAGTGTGGTGTGGGTTTACAAAAATTACA
65 GACAGT-A--GGAAAAAAACAATGATTTTAAGTTGAAAATATGGTGTGAGTTTACAAAAATTACA
* *
61322110 CAAAAGCATGATTATAACCATTGTAAT
127 CAAAAGCATGATCATAACCATGGTAAT
61322137 AGGCCCAATT
Statistics
Matches: 135, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
183 13 0.10
184 49 0.36
186 73 0.54
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (184 bp):
TGTGTGTTGAAGAAGAAAAATGATGTTTGACAAGAGAGAAAATGAGAGAAATAAAATGGCAGCTG
ACAGTAGGAAAAAAACAATGATTTTAAGTTGAAAATATGGTGTGAGTTTACAAAAATTACACAAA
AGCATGATCATAACCATGGTAATGAAAAATCTTGTAGATGAAATGAGCCAACCA
Found at i:61323807 original size:18 final size:20
Alignment explanation
Indices: 61323784--61323823 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
61323774 CCTTTTTTAC
61323784 ATATATTA-TTATA-TAAAT
1 ATATATTATTTATATTAAAT
61323802 ATATATTATTTATATTAAAT
1 ATATATTATTTATATTAAAT
61323822 AT
1 AT
61323824 TTCATTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTATTTATATTAAAT
Found at i:61326022 original size:11 final size:11
Alignment explanation
Indices: 61326001--61326037 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
61325991 TTTTTTAAAA
61326001 TTTTACAATATT
1 TTTTAC-ATATT
61326013 TTTTACATATT
1 TTTTACATATT
61326024 TTTTA-AT-TT
1 TTTTACATATT
61326033 TTTTA
1 TTTTA
61326038 ATTTTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 7 0.28
10 2 0.08
11 10 0.40
12 6 0.24
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTACATATT
Found at i:61326041 original size:38 final size:40
Alignment explanation
Indices: 61325994--61326117 Score: 109
Period size: 39 Copynumber: 3.2 Consensus size: 40
61325984 ATATTTATTT
* * *
61325994 TTTAAAATTTTACAATATTTTTTACATA-TTTTTTAATTT
1 TTTAAAATTTTAAAATATTTTTAAAATACTTTTTTAATTT
*
61326033 TTT-TAATTTTAAAATATTTTTAAAATACTTTTTTAA-TT
1 TTTAAAATTTTAAAATATTTTTAAAATACTTTTTTAATTT
* * *
61326071 TTAAAATATTTTTAAAACACTTTTT-TAAT--TTTTTTAA-TT
1 TTTAAA-A-TTTTAAAATA-TTTTTAAAATACTTTTTTAATTT
61326110 TTTAAAAT
1 TTTAAAAT
61326118 AAAAATGGAC
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
37 1 0.01
38 25 0.35
39 27 0.38
40 1 0.01
41 12 0.17
42 5 0.07
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (40 bp):
TTTAAAATTTTAAAATATTTTTAAAATACTTTTTTAATTT
Found at i:61326053 original size:11 final size:11
Alignment explanation
Indices: 61326039--61326087 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
61326029 ATTTTTTTAA
61326039 TTTTAAAATAT
1 TTTTAAAATAT
61326050 TTTTAAAATACT
1 TTTTAAAATA-T
*
61326062 TTTT----TAA
1 TTTTAAAATAT
61326069 TTTTAAAATAT
1 TTTTAAAATAT
61326080 TTTTAAAA
1 TTTTAAAA
61326088 CACTTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
7 4 0.13
8 2 0.06
11 20 0.65
12 5 0.16
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:61326116 original size:29 final size:30
Alignment explanation
Indices: 61326031--61326102 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
61326021 ATTTTTTAAT
*
61326031 TTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTTTAAAATATTTTTAAAACAC
61326061 TTTTTTAATTTTAAAATATTTTTAAAACAC
1 TTTTTTAATTTTAAAATATTTTTAAAACAC
61326091 TTTTTTAATTTT
1 TTTTTTAATTTT
61326103 TTTAATTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTTTAATTTTAAAATATTTTTAAAACAC
Found at i:61331926 original size:39 final size:39
Alignment explanation
Indices: 61331872--61331948 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
61331862 AGAGCTGGAT
*
61331872 GAATTTGAACCAGACAAACTTGACCCAGCCTGTTCACAA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
*
61331911 GAATTTGAACCAGACAAATTTGACCCAGCCTGGTCACA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACA
61331949 TGACACCTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (39 bp):
GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
Found at i:61336002 original size:40 final size:40
Alignment explanation
Indices: 61335911--61336133 Score: 218
Period size: 40 Copynumber: 5.6 Consensus size: 40
61335901 TCCTCGTTCA
* * * * *
61335911 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
61335950 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
61335990 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
61336030 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
61336070 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
61336110 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61336134 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 35 0.23
40 112 0.72
41 8 0.05
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:61336142 original size:41 final size:41
Alignment explanation
Indices: 61336065--61336142 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61336055 TTAGTATCTC
* * *
61336065 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61336106 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61336143 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61339883 original size:21 final size:21
Alignment explanation
Indices: 61339844--61339888 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
61339834 TAGACCTTGG
* *
61339844 ACCTTAAACCCTGAGCCCTGA
1 ACCTTAAACCCTGAACCCTAA
**
61339865 ACCTTAAACTTTGAACCCTAA
1 ACCTTAAACCCTGAACCCTAA
61339886 ACC
1 ACC
61339889 CTGAAACACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.36, G:0.09, T:0.22
Consensus pattern (21 bp):
ACCTTAAACCCTGAACCCTAA
Found at i:61340007 original size:28 final size:28
Alignment explanation
Indices: 61339976--61340030 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
61339966 TAGGGTTTAA
61339976 GGTCCAAGATACAAGGTTTAAGGTCCAT
1 GGTCCAAGATACAAGGTTTAAGGTCCAT
* * *
61340004 GGTCCATGGTCCAAGGTTTAAGGTCCA
1 GGTCCAAGATACAAGGTTTAAGGTCCA
61340031 AGGTTCATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (28 bp):
GGTCCAAGATACAAGGTTTAAGGTCCAT
Found at i:61340028 original size:14 final size:14
Alignment explanation
Indices: 61339987--61340035 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
61339977 GTCCAAGATA
61339987 CAAGGTTTAAGGTC
1 CAAGGTTTAAGGTC
* ** *
61340001 CATGGTCCATGGTC
1 CAAGGTTTAAGGTC
61340015 CAAGGTTTAAGGTC
1 CAAGGTTTAAGGTC
61340029 CAAGGTT
1 CAAGGTT
61340036 CATGTTAAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (14 bp):
CAAGGTTTAAGGTC
Found at i:61340033 original size:7 final size:7
Alignment explanation
Indices: 61339974--61340034 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
61339964 TTTAGGGTTT
61339974 AAGGTCC
1 AAGGTCC
* *
61339981 AAGATAC
1 AAGGTCC
**
61339988 AAGGTTT
1 AAGGTCC
61339995 AAGGTCC
1 AAGGTCC
*
61340002 ATGGTCC
1 AAGGTCC
*
61340009 ATGGTCC
1 AAGGTCC
**
61340016 AAGGTTT
1 AAGGTCC
61340023 AAGGTCC
1 AAGGTCC
61340030 AAGGT
1 AAGGT
61340035 TCATGTTAAA
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (7 bp):
AAGGTCC
Found at i:61347721 original size:35 final size:33
Alignment explanation
Indices: 61347677--61347850 Score: 199
Period size: 32 Copynumber: 5.2 Consensus size: 33
61347667 TCACTTGTCT
* * *
61347677 TTTCCTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
* * *
61347711 TTCTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 TT-TCTTGCAGGGAATCTCTCCTGTTCAGCATTA
*
61347744 TTTCTTGTAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
* *
61347778 TTTTGTTGCAGGGAATCTCTCCTGTTCA-CATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCAGCATTA
*
61347811 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
61347845 TTTCTT
1 TTTCTT
61347851 TTTGGACCTG
Statistics
Matches: 120, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
32 48 0.40
33 10 0.08
34 15 0.12
35 47 0.39
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (33 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCAGCATTA
Found at i:61347793 original size:67 final size:67
Alignment explanation
Indices: 61347677--61347847 Score: 270
Period size: 67 Copynumber: 2.6 Consensus size: 67
61347667 TCACTTGTCT
* * * * *
61347677 TTTCCTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
61347742 CA
66 CA
*
61347744 TTTCTTGTAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
61347809 CA
66 CA
* *
61347811 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
61347848 CTTTTTGGAC
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 95 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.42
Consensus pattern (67 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
CA
Found at i:61348149 original size:13 final size:13
Alignment explanation
Indices: 61348131--61348155 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61348121 TATTTTAATA
61348131 TTATTTTGTGTGT
1 TTATTTTGTGTGT
61348144 TTATTTTGTGTG
1 TTATTTTGTGTG
61348156 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:61350000 original size:41 final size:41
Alignment explanation
Indices: 61349943--61350049 Score: 146
Period size: 41 Copynumber: 2.6 Consensus size: 41
61349933 CAGTGACATA
* *
61349943 ATTCAGACTTTACGTCTAGTAGGCTTAATGCCGGTGAAATT
1 ATTCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATT
61349984 ATTCAGACTATACGTCTAGCAGGCTTAATGCCGGTGATACA-T
1 ATTCAGACTATACGTCTAGCAGGCTTAATGCCGGTGA-A-ATT
* *
61350026 -TTCGGACTATAAGTCTAGCAGGCT
1 ATTCAGACTATACGTCTAGCAGGCT
61350050 CAAGAGCTGG
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
41 57 0.95
42 2 0.03
43 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (41 bp):
ATTCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATT
Found at i:61350309 original size:33 final size:33
Alignment explanation
Indices: 61350267--61350396 Score: 143
Period size: 33 Copynumber: 3.6 Consensus size: 33
61350257 ATAGATAAAT
*
61350267 ATATATGTATGCATTCGGCATAGGTGGATATAA
1 ATATATGTATGCATTCGGCATAGGTGAATATAA
*
61350300 ATATATGTATGCATTCGGCATAGGTGAAAATAAGGGTAT
1 ATATATGTATGCATTCGGCATAGGTG--AAT-A---TAA
*
61350339 ATATATGTATGCATTCGGCATAGGTGAAAATAA
1 ATATATGTATGCATTCGGCATAGGTGAATATAA
61350372 GTGTATATATGTATGCATTCGGCAT
1 ----ATATATGTATGCATTCGGCAT
61350397 TTATGGTTGA
Statistics
Matches: 83, Mismatches: 4, Indels: 16
0.81 0.04 0.16
Matches are distributed among these distances:
33 28 0.34
35 2 0.02
36 2 0.02
37 23 0.28
39 28 0.34
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (33 bp):
ATATATGTATGCATTCGGCATAGGTGAATATAA
Found at i:61350351 original size:39 final size:37
Alignment explanation
Indices: 61350265--61350396 Score: 191
Period size: 39 Copynumber: 3.6 Consensus size: 37
61350255 TGATAGATAA
*
61350265 ATATATATGTATGCATTCGGCATAGGTG--GAT-A-T
1 ATATATATGTATGCATTCGGCATAGGTGAAAATAAGT
*
61350298 AAATATATGTATGCATTCGGCATAGGTGAAAATAAGGGT
1 ATATATATGTATGCATTCGGCATAGGTGAAAATAA--GT
61350337 ATATATATGTATGCATTCGGCATAGGTGAAAATAAGT
1 ATATATATGTATGCATTCGGCATAGGTGAAAATAAGT
*
61350374 GTATATATGTATGCATTCGGCAT
1 ATATATATGTATGCATTCGGCAT
61350397 TTATGGTTGA
Statistics
Matches: 89, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
33 27 0.30
35 2 0.02
36 1 0.01
37 24 0.27
39 35 0.39
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.33
Consensus pattern (37 bp):
ATATATATGTATGCATTCGGCATAGGTGAAAATAAGT
Found at i:61353685 original size:21 final size:22
Alignment explanation
Indices: 61353655--61353699 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
61353645 GAGCAAATTG
61353655 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
61353677 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
61353698 TT
1 TT
61353700 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:61358128 original size:21 final size:21
Alignment explanation
Indices: 61358102--61358141 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
61358092 TGTTGTAACG
61358102 TCTAATTCACATAAAAATAAA
1 TCTAATTCACATAAAAATAAA
61358123 TCTAATTCACATAAAAATA
1 TCTAATTCACATAAAAATA
61358142 GTTTTCTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (21 bp):
TCTAATTCACATAAAAATAAA
Found at i:61360850 original size:17 final size:18
Alignment explanation
Indices: 61360823--61360858 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
61360813 CAAAATCTCA
61360823 AAAAGGAGGTTGAACCCC
1 AAAAGGAGGTTGAACCCC
*
61360841 AAAA-GAGGTTGAGCCCC
1 AAAAGGAGGTTGAACCCC
61360858 A
1 A
61360859 CTTTAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.39, C:0.22, G:0.28, T:0.11
Consensus pattern (18 bp):
AAAAGGAGGTTGAACCCC
Found at i:61367332 original size:30 final size:30
Alignment explanation
Indices: 61367288--61367349 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
61367278 GATACAGGAA
61367288 AATTGAATCAAAATTAAAATTTTATGTATAT
1 AATTGAATCAAAATTAAAA-TTTATGTATAT
*
61367319 AATTGAA-CAAAATTAAAATTTGTGTATAT
1 AATTGAATCAAAATTAAAATTTATGTATAT
61367348 AA
1 AA
61367350 CTACACATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 12 0.40
30 11 0.37
31 7 0.23
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (30 bp):
AATTGAATCAAAATTAAAATTTATGTATAT
Found at i:61367636 original size:43 final size:42
Alignment explanation
Indices: 61367532--61367636 Score: 95
Period size: 43 Copynumber: 2.4 Consensus size: 42
61367522 GCGCCGCAAA
61367532 AAACGCCGCT-AAAGAACATGACCTTTAGCGGAGCTTTTATCAC
1 AAACGCCGCTAAAAG-A-ATGACCTTTAGCGGAGCTTTTATCAC
* * * *** * *
61367575 AAACGCCGTTATAGAGAATGACTTTTAGCGGCTTTTTTTTTCAG
1 AAACGCCGCTA-AAAGAATGACCTTTAGCGG-AGCTTTTATCAC
61367619 AAACGCCGCTAAAAGAAT
1 AAACGCCGCTAAAAGAAT
61367637 CGTTCTTTAG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
43 28 0.57
44 18 0.37
45 3 0.06
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (42 bp):
AAACGCCGCTAAAAGAATGACCTTTAGCGGAGCTTTTATCAC
Found at i:61370743 original size:82 final size:82
Alignment explanation
Indices: 61370596--61370763 Score: 180
Period size: 82 Copynumber: 2.0 Consensus size: 82
61370586 GCACGCGTAT
* ** ** *
61370596 TGAAATGATACACCGGCACAAAGCCTGCTAGGCCTAAAGCCTGGTTTGGTACACCGGCATGAAGC
1 TGAAATAATACACCGGCACAAAGCCTGCTAGGCCTAAAGCCTGAATTAATACACCGGAATGAAGC
* * *
61370661 CTAGTAGACATAAAGTC
66 CTACTAGACACAAAGCC
* *
61370678 TGAAATAATTCACCGGCA-ATAAGCCTGCTAGGCAC-AAAGCCTGAATTAATTCACCGGTAAT-A
1 TGAAATAATACACCGGCACA-AAGCCTGCTAGGC-CTAAAGCCTGAATTAATACACCGG-AATGA
*
61370740 AGCCTACTAGGCACAAAGCC
63 AGCCTACTAGACACAAAGCC
61370760 TGAA
1 TGAA
61370764 TTTCACTGAT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
81 1 0.01
82 67 0.94
83 3 0.04
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (82 bp):
TGAAATAATACACCGGCACAAAGCCTGCTAGGCCTAAAGCCTGAATTAATACACCGGAATGAAGC
CTACTAGACACAAAGCC
Found at i:61370764 original size:41 final size:41
Alignment explanation
Indices: 61370647--61370765 Score: 159
Period size: 41 Copynumber: 2.9 Consensus size: 41
61370637 TGGTTTGGTA
* * * * *
61370647 CACCGGC-ATGAAGCCTAGTAGACATAAAGTCTGAAATAATT
1 CACCGGCAAT-AAGCCTACTAGGCACAAAGCCTGAATTAATT
*
61370688 CACCGGCAATAAGCCTGCTAGGCACAAAGCCTGAATTAATT
1 CACCGGCAATAAGCCTACTAGGCACAAAGCCTGAATTAATT
*
61370729 CACCGGTAATAAGCCTACTAGGCACAAAGCCTGAATT
1 CACCGGCAATAAGCCTACTAGGCACAAAGCCTGAATT
61370766 TCACTGATAC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 67 0.97
42 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (41 bp):
CACCGGCAATAAGCCTACTAGGCACAAAGCCTGAATTAATT
Found at i:61375008 original size:10 final size:10
Alignment explanation
Indices: 61374995--61375036 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
61374985 TTCTAATATA
61374995 ATATATATGT
1 ATATATATGT
61375005 ATATATATGT
1 ATATATATGT
* * *
61375015 GTATGTGTGT
1 ATATATATGT
61375025 ATATATATGT
1 ATATATATGT
61375035 AT
1 AT
61375037 GCGCCCTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (10 bp):
ATATATATGT
Found at i:61376109 original size:40 final size:41
Alignment explanation
Indices: 61376065--61376283 Score: 142
Period size: 40 Copynumber: 5.3 Consensus size: 41
61376055 TTGGTCCAAA
* * *
61376065 CGCCGCTAATGCTCGATCTATAGTGGCG-TTTTTCAACAAG
1 CGCCGCTAATGCTCGATCTATAGCGGCGTTTTTTAAAAAAG
* *
61376105 CGCCGCTAATTCTCGATCTATTGCGGCGTTTTTTAAAAAAG
1 CGCCGCTAATGCTCGATCTATAGCGGCGTTTTTTAAAAAAG
* * * * *
61376146 CGCCGCTAATGCCACTATCAACTTTTTTGCGGCGTTTTTT-GAAAAG
1 CGCCGCTAATG---C--TCGA-TCTATAGCGGCGTTTTTTAAAAAAG
* ** * * *
61376192 CGACATTAATGCTCGATCTATAGCAGTGTTTTTCT--ACAAG
1 CGCCGCTAATGCTCGATCTATAGCGGCGTTTTT-TAAAAAAG
* * * **
61376232 CGCCGCTAATTCTCAATCTATTGCAACGTTTTTT-AAAAAG
1 CGCCGCTAATGCTCGATCTATAGCGGCGTTTTTTAAAAAAG
*
61376272 CACCGCTAATGC
1 CGCCGCTAATGC
61376284 CACTAAAGCT
Statistics
Matches: 139, Mismatches: 31, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
39 1 0.01
40 80 0.58
41 24 0.17
43 1 0.01
44 1 0.01
46 16 0.12
47 16 0.12
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (41 bp):
CGCCGCTAATGCTCGATCTATAGCGGCGTTTTTTAAAAAAG
Found at i:61376429 original size:40 final size:41
Alignment explanation
Indices: 61376349--61376432 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 41
61376339 TGCCACTAGG
*
61376349 GCTTGATCGATAGCAGCAATTTTTACAAAAGCGCCACTAAT
1 GCTTGATCGATAGCAGCAATTTTTACAAAAGCACCACTAAT
* * * *
61376390 GCTTGATCTATAGTAGC-GTTTTT-CAAAAAGCACCGCTAAT
1 GCTTGATCGATAGCAGCAATTTTTAC-AAAAGCACCACTAAT
61376430 GCT
1 GCT
61376433 CAACCTATAG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.03
40 21 0.57
41 15 0.41
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (41 bp):
GCTTGATCGATAGCAGCAATTTTTACAAAAGCACCACTAAT
Found at i:61381502 original size:21 final size:21
Alignment explanation
Indices: 61381460--61381502 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
61381450 TTTTTTCTGA
* *
61381460 AATAAAATTGTGTCTTGTATC
1 AATAAAATTGTGTCATGCATC
61381481 AATAAAATTGTGTCATGCATC
1 AATAAAATTGTGTCATGCATC
61381502 A
1 A
61381503 TCCAATCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (21 bp):
AATAAAATTGTGTCATGCATC
Found at i:61382349 original size:107 final size:107
Alignment explanation
Indices: 61382159--61382449 Score: 465
Period size: 107 Copynumber: 2.7 Consensus size: 107
61382149 TTTTGTTGGT
* *
61382159 TTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAAATGTTATTGATTTGTTAGTGAGTAGAAGAT
1 TTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTATTGATTTGTTAGTCAGTAGAAGAT
* * *
61382224 AAAACTGGAAATTGTTGCATTTGTTTCGATTTTGTTCTTGAA
66 GAAACTGGAAATTCTTGCATTTGTTTCGATATTGTTCTTGAA
* * *
61382266 TTGTTCTGGCAGTTGTTTTGATAGTCTGCTGGAAATTGTTCTTGATTTGTTAGTCAGTAGAAGAT
1 TTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTATTGATTTGTTAGTCAGTAGAAGAT
* *
61382331 GAAACTGGAAATTCTTGCATTTGTTTTGATATTGTTCTTGAT
66 GAAACTGGAAATTCTTGCATTTGTTTCGATATTGTTCTTGAA
* *
61382373 TTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTTTTGATTTGTTAGTCAGTAGAATAT
1 TTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTATTGATTTGTTAGTCAGTAGAAGAT
*
61382438 GAAAATGGAAAT
66 GAAACTGGAAAT
61382450 CAAATGCTGT
Statistics
Matches: 169, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
107 169 1.00
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.44
Consensus pattern (107 bp):
TTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTATTGATTTGTTAGTCAGTAGAAGAT
GAAACTGGAAATTCTTGCATTTGTTTCGATATTGTTCTTGAA
Found at i:61382376 original size:11 final size:11
Alignment explanation
Indices: 61382342--61382379 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
61382332 AAACTGGAAA
61382342 TTCTTGCATTTG
1 TTCTTG-ATTTG
61382354 TT-TTGATATTG
1 TTCTTGAT-TTG
61382365 TTCTTGATTTG
1 TTCTTGATTTG
61382376 TTCT
1 TTCT
61382380 GGAAATTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.08
11 15 0.62
12 7 0.29
ACGTcount: A:0.11, C:0.11, G:0.16, T:0.63
Consensus pattern (11 bp):
TTCTTGATTTG
Found at i:61382387 original size:23 final size:23
Alignment explanation
Indices: 61382342--61382423 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 23
61382332 AAACTGGAAA
* *
61382342 TTCTTGCATTTGTT-TTGATATTG
1 TTCTTG-ATTTGTTCTGGAAATTG
61382365 TTCTTGATTTGTTCTGGAAATTG
1 TTCTTGATTTGTTCTGGAAATTG
*
61382388 TT-TTGA-TAGTCTGCTGGAAATTG
1 TTCTTGATTTGT-T-CTGGAAATTG
*
61382411 TTTTTGATTTGTT
1 TTCTTGATTTGTT
61382424 AGTCAGTAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
21 3 0.06
22 12 0.24
23 27 0.54
24 5 0.10
25 3 0.06
ACGTcount: A:0.16, C:0.07, G:0.21, T:0.56
Consensus pattern (23 bp):
TTCTTGATTTGTTCTGGAAATTG
Found at i:61383583 original size:37 final size:37
Alignment explanation
Indices: 61383542--61383665 Score: 221
Period size: 37 Copynumber: 3.4 Consensus size: 37
61383532 CATAAATAAA
61383542 TAAACTAATCAATGTTCAAACTTTGAACATGCTTTAT
1 TAAACTAATCAATGTTCAAACTTTGAACATGCTTTAT
*
61383579 TAAACTAATCAATGTTCAAACTTCGAACATGCTTTAT
1 TAAACTAATCAATGTTCAAACTTTGAACATGCTTTAT
* *
61383616 TAAACTAATCAATGTTAAAACTTTGAACATGCTTTAA
1 TAAACTAATCAATGTTCAAACTTTGAACATGCTTTAT
61383653 TAAACTAATCAAT
1 TAAACTAATCAAT
61383666 ATATTTATAC
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.35
Consensus pattern (37 bp):
TAAACTAATCAATGTTCAAACTTTGAACATGCTTTAT
Found at i:61383917 original size:33 final size:33
Alignment explanation
Indices: 61383880--61383945 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
61383870 AATCTAACAA
61383880 ATACCAAAAATTAATTTTAGGTCAATTATACAT
1 ATACCAAAAATTAATTTTAGGTCAATTATACAT
*
61383913 ATACCAACAATTAATTTTAGGTCAATTATACAT
1 ATACCAAAAATTAATTTTAGGTCAATTATACAT
61383946 GCTTTATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (33 bp):
ATACCAAAAATTAATTTTAGGTCAATTATACAT
Found at i:61385545 original size:11 final size:11
Alignment explanation
Indices: 61385529--61385555 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
61385519 TAGAAATTAG
61385529 TTTGTGAAACT
1 TTTGTGAAACT
61385540 TTTGTGAAACT
1 TTTGTGAAACT
61385551 TTTGT
1 TTTGT
61385556 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:61387083 original size:47 final size:47
Alignment explanation
Indices: 61387032--61387174 Score: 143
Period size: 47 Copynumber: 3.1 Consensus size: 47
61387022 ATATAAGAAA
* *
61387032 ATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAAGTAT
1 ATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAAGTAT
* ** * *
61387079 ATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCA-TATAAGAAA
1 ATTTATTATTAAGAATTTTATGAAATTATATATAATT-ATTA-AAGTAT
* * *
61387123 ATTTATTATTACGAATTTTATGAAATTATATATTATTATTAAATTAT
1 ATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAAGTAT
61387170 ATTTA
1 ATTTA
61387175 ATAATAATTA
Statistics
Matches: 74, Mismatches: 15, Indels: 14
0.72 0.15 0.14
Matches are distributed among these distances:
43 5 0.07
44 26 0.35
45 4 0.05
46 4 0.05
47 30 0.41
48 5 0.07
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (47 bp):
ATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAAGTAT
Found at i:61387139 original size:91 final size:91
Alignment explanation
Indices: 61386976--61387221 Score: 413
Period size: 91 Copynumber: 2.7 Consensus size: 91
61386966 AGAACATTTT
* *
61386976 ATTATTAAATTTTATTTAATATTAATTATTTT-AATTGTATAAATTCATATAAGAAAATTTATTA
1 ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
61387040 TCAAGAATTTTATGAAATTATATATC
66 TCAAGAATTTTATGAAATTATATATC
*
61387066 ATTATTAAAGTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
1 ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
* * *
61387131 TTACGAATTTTATGAAATTATATATT
66 TCAAGAATTTTATGAAATTATATATC
* *
61387157 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAAGAAAATTTATTA
1 ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
61387222 GTTATAATTA
Statistics
Matches: 146, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
90 30 0.21
91 116 0.79
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (91 bp):
ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
TCAAGAATTTTATGAAATTATATATC
Found at i:61387188 original size:47 final size:46
Alignment explanation
Indices: 61387046--61387189 Score: 136
Period size: 47 Copynumber: 3.1 Consensus size: 46
61387036 ATTATCAAGA
*
61387046 ATTTTATGAAATTATATATCATTATTAAAGTATATTTAATATTAATT
1 ATTTTATGAAATTATATATAATTATTAAA-TATATTTAATATTAATT
* * ***
61387093 A-TTT-T-AAATTATATA-AATTCATATAAGA-AAATTTATTATTACGA
1 ATTTTATGAAATTATATATAATT-AT-TAA-ATATATTTAATATTAATT
* *
61387137 ATTTTATGAAATTATATATTATTATTAAATTATATTTAATAATAATT
1 ATTTTATGAAATTATATATAATTATTAAA-TATATTTAATATTAATT
61387184 ATTTTA
1 ATTTTA
61387190 AATTATACAA
Statistics
Matches: 75, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
43 3 0.04
44 24 0.32
45 8 0.11
46 8 0.11
47 29 0.39
48 3 0.04
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (46 bp):
ATTTTATGAAATTATATATAATTATTAAATATATTTAATATTAATT
Found at i:61387272 original size:16 final size:17
Alignment explanation
Indices: 61387238--61387279 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
61387228 ATTATTTTAA
61387238 ATTTT-ATTAAATCATAT
1 ATTTTAATTAAA-CATAT
61387255 ATTTTAATTAAA-ATAT
1 ATTTTAATTAAACATAT
*
61387271 ATTTAAATT
1 ATTTTAATT
61387280 TAATTATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 12 0.52
17 5 0.22
18 6 0.26
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTTAATTAAACATAT
Found at i:61387358 original size:16 final size:15
Alignment explanation
Indices: 61387337--61387366 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
61387327 TAAATTCATA
61387337 TAAGAATTTTGATTAT
1 TAAGAATTTT-ATTAT
61387353 TAAGAATTTTATTA
1 TAAGAATTTTATTA
61387367 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (15 bp):
TAAGAATTTTATTAT
Found at i:61387367 original size:120 final size:120
Alignment explanation
Indices: 61387237--61387893 Score: 1104
Period size: 120 Copynumber: 5.5 Consensus size: 120
61387227 AATTATTTTA
* *
61387237 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAA-ATTTAATTAT-TTCAAATTATATT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA-ATAATTATGTT-AAATTATATT
*
61387300 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATTTTGATTATTAAG
64 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
61387357 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTAT-CTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
61387421 ATAGTATCATATATTATGATTTGAGTAAATTCATACAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
61387476 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
61387541 ATAGTATCATATATTATGATTTGAGTAAATTCATAAAAGAATTTTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
61387596 AATTTTATTAAATTATATATTTTAATTAAAATATATTTCATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
61387661 ATAGTATCATATATTATGATTTGAGTACATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
61387716 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
61387781 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTAGTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
61387836 AATTTTATTAAATTATATATTTCAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
61387894 ATGATTAAAT
Statistics
Matches: 507, Mismatches: 26, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
119 114 0.22
120 384 0.76
121 9 0.02
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Done.