Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 15 of 163
Found at i:4148008 original size:23 final size:23
Alignment explanation
Indices: 4147942--4147997 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
4147932 AAATTTAAAA
* * *
4147942 TAAATTCAAACTTAAATTAAATT
1 TAAATTTAAATTTAAAATAAATT
4147965 TAAATTTAAATTTAAAATAAATT
1 TAAATTTAAATTTAAAATAAATT
*
4147988 TAATTTTAAA
1 TAAATTTAAA
4147998 ATAAATTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAATTTAAATTTAAAATAAATT
Found at i:4149001 original size:22 final size:22
Alignment explanation
Indices: 4148973--4149016 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
4148963 CATTTTTCTA
4148973 TGTTTTGGA-TAATGGATTTAAT
1 TGTTTTGGATTAAT-GATTTAAT
4148995 TGTTTTGGATTAATGATTTAAT
1 TGTTTTGGATTAATGATTTAAT
4149017 ATAAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.52
Consensus pattern (22 bp):
TGTTTTGGATTAATGATTTAAT
Found at i:4157309 original size:30 final size:31
Alignment explanation
Indices: 4157263--4157321 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
4157253 CTATTGTTTT
* *
4157263 TTTTTTATTTTACCTAAAATATCCTTATTAA
1 TTTTTTATATTACCTAAAATACCCTTATTAA
4157294 TTTTTTATATT-CCTAAAATACCCTTATT
1 TTTTTTATATTACCTAAAATACCCTTATT
4157322 TATATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (31 bp):
TTTTTTATATTACCTAAAATACCCTTATTAA
Found at i:4159876 original size:51 final size:51
Alignment explanation
Indices: 4159800--4160451 Score: 495
Period size: 51 Copynumber: 12.9 Consensus size: 51
4159790 TCTCGAGGAG
* * * * *
4159800 GAAGATGATCGGAGCTCTGATAACTTTCCCGAGGCTGACGCTGCTGCTGTT
1 GAAGATGATCAGAACTCTGATAACTTTCCCGAGGATGACGATGCTGTTGTT
** * * * *
4159851 GAAGATGATTGGAACTCTGATAACTTTCTCGAGGAGGCCGTTGCTGTTGTT
1 GAAGATGATCAGAACTCTGATAACTTTCCCGAGGATGACGATGCTGTTGTT
* * * * * * *
4159902 GAAGATGTTCCG-AGTCCTGATAACTTTCTCGAAGCTGA-TATTGCTGTTGTT
1 GAAGATGATCAGAACT-CTGATAACTTTCCCGAGGATGACGA-TGCTGTTGTT
* * * *
4159953 GAAGATGATCAGAACTCTGATAACTTTCCCGAGGAGGCTGGCGCTGTTGTTGAT
1 GAAGATGATCAGAACTCTGATAACTTTCCCGAGGA---TGACGATGCTGTTGTT
* * *
4160007 GAAGATGATCGGAACTCTGATAACTCTCCCGAGGA-GGCTGATGCTGTTGTT
1 GAAGATGATCAGAACTCTGATAACTTTCCCGAGGATGAC-GATGCTGTTGTT
* * * * * *
4160058 GAATATGATCTGAGCTCTTATAAGTTTCCCGAGG-T--TGATGCTGTTGTT
1 GAAGATGATCAGAACTCTGATAACTTTCCCGAGGATGACGATGCTGTTGTT
* ** * * * *
4160106 GGAGATGATTTGGACTCTGATAACTTTCTCGAGGAGGACAATGCTGTTGTT
1 GAAGATGATCAGAACTCTGATAACTTTCCCGAGGATGACGATGCTGTTGTT
* * * * *
4160157 GAATATGACCTGAGCTTCT-ATAACTTTCCCGAGGTTG-C--TGCTGTTGTT
1 GAAGATGATCAGAAC-TCTGATAACTTTCCCGAGGATGACGATGCTGTTGTT
* * * * * * *
4160205 GAAGATGATCAGATCTCTCATTAGTTTCCCGATGAGGCCGATGCTGTTGTT
1 GAAGATGATCAGAACTCTGATAACTTTCCCGAGGATGACGATGCTGTTGTT
* * * * * * *
4160256 GAATATGATCTGAGCTCTTATAAGTTTCTCGAGGCT---GATGCTGTTGTT
1 GAAGATGATCAGAACTCTGATAACTTTCCCGAGGATGACGATGCTGTTGTT
* * * *
4160304 GAAGATGATCAGAACTCTTATAAGTTTCCCGAGGAGGCCGATGCTGTTGTT
1 GAAGATGATCAGAACTCTGATAACTTTCCCGAGGATGACGATGCTGTTGTT
* * * * *
4160355 GAAGATCAACAGAACTCTGATAACTTT-CTGAAGGAGGCCGATGCTGTTGTT
1 GAAGATGATCAGAACTCTGATAACTTTCCCG-AGGATGACGATGCTGTTGTT
* * * * *
4160406 GAAGATCAACAGAACTCTGATAACTTTCTCGAGGAGGTCGATGCTG
1 GAAGATGATCAGAACTCTGATAACTTTCCCGAGGATGACGATGCTG
4160452 CTGCTGGCTC
Statistics
Matches: 486, Mismatches: 93, Indels: 44
0.78 0.15 0.07
Matches are distributed among these distances:
47 3 0.01
48 114 0.23
49 1 0.00
50 8 0.02
51 311 0.64
52 6 0.01
54 43 0.09
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (51 bp):
GAAGATGATCAGAACTCTGATAACTTTCCCGAGGATGACGATGCTGTTGTT
Found at i:4160152 original size:99 final size:99
Alignment explanation
Indices: 4159800--4160451 Score: 505
Period size: 99 Copynumber: 6.5 Consensus size: 99
4159790 TCTCGAGGAG
** * * *
4159800 GAAGATGA-TCGGAGCTCTGATAACTTTCCCGAGGCTGACGCTGCTGCTGTTGAAGATGAT-TGG
1 GAAGATGATTCGGA-CTCTGATAACTTTCCCGAGGAGGACGATGCTGTTGTTGAATATGATCT-G
* * * * *
4159863 AACTCTGATAACTTTCTCGAGGAGGCCGTTGCTGTTGTT
64 AGCTCTTATAACTTTC-C--CGAGGCTGATGCTGTTGTT
* * * * ** * * *
4159902 GAAGATG-TTCCGAGTCCTGATAACTTTCTCGAAGCTGA-TATTGCTGTTGTTGAAGATGATCAG
1 GAAGATGATTCGGACT-CTGATAACTTTCCCGAGGAGGACGA-TGCTGTTGTTGAATATGATCTG
* * **
4159965 AACTCTGATAACTTTCCCGAGGAGGCTGGCGCTGTTGTTGAT
64 AGCTCTTATAACTTTCCC---GAGGCTGATGCTGTTG-T--T
*
4160007 GAAGATGA-TCGGAACTCTGATAACTCTCCCGAGGAGG-CTGATGCTGTTGTTGAATATGATCTG
1 GAAGATGATTCGG-ACTCTGATAACTTTCCCGAGGAGGAC-GATGCTGTTGTTGAATATGATCTG
* *
4160070 AGCTCTTATAAGTTTCCCGAGGTTGATGCTGTTGTT
64 AGCTCTTATAACTTTCCCGAGGCTGATGCTGTTGTT
* * * * *
4160106 GGAGATGATTTGGACTCTGATAACTTTCTCGAGGAGGACAATGCTGTTGTTGAATATGACCTGAG
1 GAAGATGATTCGGACTCTGATAACTTTCCCGAGGAGGACGATGCTGTTGTTGAATATGATCTGAG
* *
4160171 CT-TCTATAACTTTCCCGAGGTTGCTGCTGTTGTT
66 CTCT-TATAACTTTCCCGAGGCTGATGCTGTTGTT
* * * * * *
4160205 GAAGATGA-TCAGATCTCTCATTAGTTTCCCGATGAGGCCGATGCTGTTGTTGAATATGATCTGA
1 GAAGATGATTCGGA-CTCTGATAACTTTCCCGAGGAGGACGATGCTGTTGTTGAATATGATCTGA
* *
4160269 GCTCTTATAAGTTTCTCGAGGCTGATGCTGTTGTT
65 GCTCTTATAACTTTCCCGAGGCTGATGCTGTTGTT
* * * * * * * *
4160304 GAAGATGA-TCAGAACTCTTATAAGTTTCCCGAGGAGGCCGATGCTGTTGTTGAAGATCAACAGA
1 GAAGATGATTC-GGACTCTGATAACTTTCCCGAGGAGGACGATGCTGTTGTTGAATATGATCTGA
* * ** *
4160368 ACTCTGATAACTTTCTGAAGGAGGCCGATGCTGTTGTT
65 GCTCTTATAACTTTC---CCGAGGCTGATGCTGTTGTT
* * * * *
4160406 GAAGATCA-ACAGAACTCTGATAACTTTCTCGAGGAGGTCGATGCTG
1 GAAGATGATTC-GGACTCTGATAACTTTCCCGAGGAGGACGATGCTG
4160452 CTGCTGGCTC
Statistics
Matches: 455, Mismatches: 72, Indels: 46
0.79 0.13 0.08
Matches are distributed among these distances:
98 4 0.01
99 227 0.50
100 6 0.01
101 3 0.01
102 149 0.33
103 1 0.00
105 62 0.14
106 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (99 bp):
GAAGATGATTCGGACTCTGATAACTTTCCCGAGGAGGACGATGCTGTTGTTGAATATGATCTGAG
CTCTTATAACTTTCCCGAGGCTGATGCTGTTGTT
Found at i:4160380 original size:198 final size:201
Alignment explanation
Indices: 4159892--4160451 Score: 596
Period size: 198 Copynumber: 2.8 Consensus size: 201
4159882 AGGAGGCCGT
* * * * * ** * *
4159892 TGCTGTTGTTGAAGATGTTCCG-AGTCCTGATAACTTTCTCGAAGCTGATATTGCTGTTGTTGAA
1 TGCTGTTGTTGAAGATGATCAGAACT-CTGATAACTTTCCCGAGGAGGACAATGCTGTTGTTGAA
* *
4159956 GATGATCAGAACTCTGATAACTTTCCCGAGGAGGCTGGCGCTGTTGTTGATGAAGATGATCGGAA
65 GATGAACAGAACTCTGATAACTTTCCCGAGGAGGCT-G-GCTGTTGTT-ATGAAGATGATCAGAA
* *
4160021 CTCTGATAACTCTCCCGAGGAGGCTGATGCTGTTGTTGAATATGATCTGAGCTCTTATAAGTTTC
127 CTCTCATAACTCTCCCGAGGAGGCCGATGCTGTTGTTGAATATGATCTGAGCTCTTATAAGTTTC
*
4160086 CCGAGGTTGA
192 CCGAGGCTGA
* ** * * *
4160096 TGCTGTTGTTGGAGATGATTTGGACTCTGATAACTTTCTCGAGGAGGACAATGCTGTTGTTGAAT
1 TGCTGTTGTTGAAGATGATCAGAACTCTGATAACTTTCCCGAGGAGGACAATGCTGTTGTTGAAG
* * * ** *
4160161 ATGACCTGAGCTTCT-ATAACTTTCCCGAGGTTGCT-GCTGTTG-T-TGAAGATGATCAGATCTC
66 ATGAACAGAAC-TCTGATAACTTTCCCGAGGAGGCTGGCTGTTGTTATGAAGATGATCAGAACTC
* * * * *
4160222 TCATTAGTTTCCCGATGAGGCCGATGCTGTTGTTGAATATGATCTGAGCTCTTATAAGTTTCTCG
130 TCATAACTCTCCCGAGGAGGCCGATGCTGTTGTTGAATATGATCTGAGCTCTTATAAGTTTCCCG
4160287 AGGCTGA
195 AGGCTGA
* * * *
4160294 TGCTGTTGTTGAAGATGATCAGAACTCTTATAAGTTTCCCGAGGAGGCCGATGCTGTTGTTGAAG
1 TGCTGTTGTTGAAGATGATCAGAACTCTGATAACTTTCCCGAGGAGGACAATGCTGTTGTTGAAG
* * * * *
4160359 ATCAACAGAACTCTGATAACTTT-CTGAAGGAGGCCGATGCTGTTG-T-TGAAGATCAACAGAAC
66 ATGAACAGAACTCTGATAACTTTCCCG-AGGAGGCTG--GCTGTTGTTATGAAGATGATCAGAAC
* * * *
4160421 TCTGATAACTTTCTCGAGGAGGTCGATGCTG
128 TCTCATAACTCTCCCGAGGAGGCCGATGCTG
4160452 CTGCTGGCTC
Statistics
Matches: 296, Mismatches: 53, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
197 5 0.02
198 155 0.52
200 1 0.00
201 53 0.18
204 77 0.26
205 5 0.02
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (201 bp):
TGCTGTTGTTGAAGATGATCAGAACTCTGATAACTTTCCCGAGGAGGACAATGCTGTTGTTGAAG
ATGAACAGAACTCTGATAACTTTCCCGAGGAGGCTGGCTGTTGTTATGAAGATGATCAGAACTCT
CATAACTCTCCCGAGGAGGCCGATGCTGTTGTTGAATATGATCTGAGCTCTTATAAGTTTCCCGA
GGCTGA
Found at i:4160906 original size:29 final size:29
Alignment explanation
Indices: 4160873--4160930 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
4160863 CTCAAAATTT
4160873 TAGGTGCCACTAACACCACAAAAAATGGA
1 TAGGTGCCACTAACACCACAAAAAATGGA
* * *
4160902 TAGGTGTCACTAACATCACTAAAAATGGA
1 TAGGTGCCACTAACACCACAAAAAATGGA
4160931 AACCCAATGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (29 bp):
TAGGTGCCACTAACACCACAAAAAATGGA
Found at i:4166906 original size:21 final size:21
Alignment explanation
Indices: 4166880--4166963 Score: 62
Period size: 21 Copynumber: 3.7 Consensus size: 21
4166870 TTAAAATTTT
4166880 AAATTTTCAAAAAAATTAATA
1 AAATTTTCAAAAAAATTAATA
4166901 AAA-TTTCAAAAGAAAAATATTTAATTA
1 AAATTTTC---A-AAAAA-A-TTAA-TA
* * *
4166928 AAATTTTCAGAAAATTTGATA
1 AAATTTTCAAAAAAATTAATA
*
4166949 AAAATTTCAAAAAAA
1 AAATTTTCAAAAAAA
4166964 AAAATTGGAG
Statistics
Matches: 49, Mismatches: 6, Indels: 16
0.69 0.08 0.23
Matches are distributed among these distances:
20 4 0.08
21 17 0.35
22 3 0.06
23 1 0.02
24 9 0.18
25 2 0.04
26 4 0.08
27 5 0.10
28 4 0.08
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.32
Consensus pattern (21 bp):
AAATTTTCAAAAAAATTAATA
Found at i:4169033 original size:81 final size:81
Alignment explanation
Indices: 4168888--4169077 Score: 362
Period size: 81 Copynumber: 2.3 Consensus size: 81
4168878 AGACTTGATG
* *
4168888 CAGAGGGTGCTACTTGTTGTGGATAGTGGGGATCCGGATATGCCACCACGGGTGACACTACCGGG
1 CAGATGGTGATACTTGTTGTGGATAGTGGGGATCCGGATATGCCACCACGGGTGACACTACCGGG
4168953 GGTTGCGGATAACCTA
66 GGTTGCGGATAACCTA
4168969 CAGATGGTGATACTTGTTGTGGATAGTGGGGATCCGGATATGCCACCACGGGTGACACTACCGGG
1 CAGATGGTGATACTTGTTGTGGATAGTGGGGATCCGGATATGCCACCACGGGTGACACTACCGGG
4169034 GGTTGCGGATAACCTA
66 GGTTGCGGATAACCTA
4169050 CAGATGGTGATACTTGTTGTGGATAGTG
1 CAGATGGTGATACTTGTTGTGGATAGTG
4169078 CGGAGGAGAT
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 107 1.00
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.25
Consensus pattern (81 bp):
CAGATGGTGATACTTGTTGTGGATAGTGGGGATCCGGATATGCCACCACGGGTGACACTACCGGG
GGTTGCGGATAACCTA
Found at i:4170704 original size:13 final size:13
Alignment explanation
Indices: 4170688--4170712 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4170678 TATAAATAAA
4170688 AAAATTAAAAAAC
1 AAAATTAAAAAAC
4170701 AAAATTAAAAAA
1 AAAATTAAAAAA
4170713 GTTTCCAAAT
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:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATTAAAAAAC
Found at i:4171462 original size:87 final size:87
Alignment explanation
Indices: 4171316--4171489 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
4171306 TATTATTTTG
4171316 AGGATATCTAGCTCAACAATGAAACTCGTATTATTTGGGAAACTCATATGGAAGGTTGGATAAAA
1 AGGATATCTAGCTCAACAATGAAACTCGTATTATTTGGGAAACTCATATGGAAGGTTGGATAAAA
4171381 TTAAATCACCCAAGTCAATCCC
66 TTAAATCACCCAAGTCAATCCC
4171403 AGGATATCTAGCTCAACAATGAAACTCGTATTATTTGGGAAACTCATATGGAAGGTTGGATAAAA
1 AGGATATCTAGCTCAACAATGAAACTCGTATTATTTGGGAAACTCATATGGAAGGTTGGATAAAA
4171468 TTAAATCACCCAAGTCAATCCC
66 TTAAATCACCCAAGTCAATCCC
4171490 TTGCAACATG
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (87 bp):
AGGATATCTAGCTCAACAATGAAACTCGTATTATTTGGGAAACTCATATGGAAGGTTGGATAAAA
TTAAATCACCCAAGTCAATCCC
Found at i:4174344 original size:22 final size:22
Alignment explanation
Indices: 4174319--4174360 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4174309 AAATGGAAAA
4174319 TAAAGAAAA-AGAAAAGAAAAGT
1 TAAA-AAAACAGAAAAGAAAAGT
*
4174341 TAAAAAAACATAAAAGAAAA
1 TAAAAAAACAGAAAAGAAAA
4174361 AAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (22 bp):
TAAAAAAACAGAAAAGAAAAGT
Found at i:4198759 original size:21 final size:21
Alignment explanation
Indices: 4198735--4198792 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
4198725 TTGCATGACT
*
4198735 TGTATCGGTAGAAATCATACC
1 TGTATCGGTAGAAATCATACA
* * *
4198756 TGTATCGATAGAACTAATACA
1 TGTATCGGTAGAAATCATACA
* *
4198777 GGTACCGGTAGAAATC
1 TGTATCGGTAGAAATC
4198793 TTCACAGTCC
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (21 bp):
TGTATCGGTAGAAATCATACA
Found at i:4199177 original size:12 final size:13
Alignment explanation
Indices: 4199160--4199188 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4199150 ATACCAATTT
4199160 TTTTTGT-TAATA
1 TTTTTGTGTAATA
4199172 TTTTTGTGTAATA
1 TTTTTGTGTAATA
4199185 TTTT
1 TTTT
4199189 GAAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (13 bp):
TTTTTGTGTAATA
Found at i:4199894 original size:24 final size:24
Alignment explanation
Indices: 4199866--4199913 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
4199856 AGAAATAATT
* *
4199866 TTTCAATTAAATTCTGTTTATTTG
1 TTTCAATTAAATTATATTTATTTG
4199890 TTTCAATTAAATTATATTTATTTG
1 TTTCAATTAAATTATATTTATTTG
4199914 CTTCTGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (24 bp):
TTTCAATTAAATTATATTTATTTG
Found at i:4203689 original size:20 final size:20
Alignment explanation
Indices: 4203649--4203690 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4203639 TCTGATATTT
* * *
4203649 TTAAATATTTTTAATATATA
1 TTAAATATCTTTAAAAAATA
4203669 TTAAATATCTTTAAAAAATA
1 TTAAATATCTTTAAAAAATA
4203689 TT
1 TT
4203691 GATAATCTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAATATCTTTAAAAAATA
Found at i:4208129 original size:19 final size:19
Alignment explanation
Indices: 4208101--4208164 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 19
4208091 TTTTTTCTTC
*
4208101 TTCTTCTTTTTGAATTTTCT
1 TTCTT-TTTTTGAATTTTTT
4208121 TT-TTTTTTTG-ATTTTTT
1 TTCTTTTTTTGAATTTTTT
* *
4208138 TAT-TTTTTTCGACTTTTTT
1 T-TCTTTTTTTGAATTTTTT
4208157 TTCTTTTT
1 TTCTTTTT
4208165 CTAAATAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.18
18 15 0.39
19 14 0.37
20 2 0.05
ACGTcount: A:0.08, C:0.09, G:0.05, T:0.78
Consensus pattern (19 bp):
TTCTTTTTTTGAATTTTTT
Found at i:4208130 original size:18 final size:17
Alignment explanation
Indices: 4208107--4208164 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 17
4208097 CTTCTTCTTC
4208107 TTTTTGAATTTTCTTTTT
1 TTTTTGAATTTT-TTTTT
4208125 TTTTTG-ATTTTTTTATT
1 TTTTTGAATTTTTTT-TT
*
4208142 TTTTTCGACTTTTTTTTCT
1 TTTTT-GAATTTTTTTT-T
4208161 TTTT
1 TTTT
4208165 CTAAATAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
16 3 0.09
17 12 0.34
18 8 0.23
19 12 0.34
ACGTcount: A:0.09, C:0.07, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTTGAATTTTTTTTT
Found at i:4213097 original size:25 final size:23
Alignment explanation
Indices: 4213069--4213115 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
4213059 AGTTGGATCC
4213069 AAATTAAATTCTAAAAAGATAATTA
1 AAATTAAA-TCTAAAAA-ATAATTA
*
4213094 AAATTAAATCTAAACAATAATT
1 AAATTAAATCTAAAAAATAATT
4213116 CCCTAATTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 7 0.33
25 8 0.38
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (23 bp):
AAATTAAATCTAAAAAATAATTA
Found at i:4213207 original size:13 final size:13
Alignment explanation
Indices: 4213186--4213219 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4213176 ACAATATAAC
4213186 AATAATAATCCTA
1 AATAATAATCCTA
*
4213199 AATATTAATCCTA
1 AATAATAATCCTA
*
4213212 AAAAATAA
1 AATAATAA
4213220 AATTTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:4225986 original size:24 final size:23
Alignment explanation
Indices: 4225959--4226045 Score: 88
Period size: 23 Copynumber: 3.7 Consensus size: 23
4225949 TCATTAACAT
4225959 TGTTCATGAACATGTT-TAATTATA
1 TGTTCATGAACATGTTCT-ATTA-A
*
4225983 TGTTCATGAACATGTTCTTTTAA
1 TGTTCATGAACATGTTCTATTAA
* *
4226006 TGTTCGTGAACATGTTCGATTAA
1 TGTTCATGAACATGTTCTATTAA
* *
4226029 -GTTAAATGAATATGTTC
1 TGTT-CATGAACATGTTC
4226046 GTGAGCATTA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
22 3 0.06
23 31 0.57
24 19 0.35
25 1 0.02
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (23 bp):
TGTTCATGAACATGTTCTATTAA
Found at i:4226015 original size:23 final size:25
Alignment explanation
Indices: 4225959--4226022 Score: 89
Period size: 24 Copynumber: 2.7 Consensus size: 25
4225949 TCATTAACAT
4225959 TGTTCATGAACATGTT-TAATTATA
1 TGTTCATGAACATGTTCTAATTATA
*
4225983 TGTTCATGAACATGTTCT-TTTA-A
1 TGTTCATGAACATGTTCTAATTATA
*
4226006 TGTTCGTGAACATGTTC
1 TGTTCATGAACATGTTC
4226023 GATTAAGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 17 0.46
24 19 0.51
25 1 0.03
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (25 bp):
TGTTCATGAACATGTTCTAATTATA
Found at i:4239312 original size:16 final size:16
Alignment explanation
Indices: 4239293--4239330 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4239283 ATCATTCTAG
4239293 TTTTCTACCCCTT-CAA
1 TTTTCTA-CCCTTCCAA
*
4239309 TTTTCTATCCTTCCAA
1 TTTTCTACCCTTCCAA
4239325 TTTTCT
1 TTTTCT
4239331 TTCCACTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTCTACCCTTCCAA
Found at i:4241679 original size:24 final size:24
Alignment explanation
Indices: 4241631--4241676 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4241621 TTTTGAGCAA
*
4241631 TTTAATTTTTTTCTTTTACATTCT
1 TTTAACTTTTTTCTTTTACATTCT
4241655 TTTAACTTTTTT-TTTT-CATTCT
1 TTTAACTTTTTTCTTTTACATTCT
4241677 CTTCTGCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.29
23 4 0.19
24 11 0.52
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTAACTTTTTTCTTTTACATTCT
Found at i:4247263 original size:18 final size:18
Alignment explanation
Indices: 4247242--4247282 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4247232 ATAAAAATAC
4247242 AAATAAAAATATACATTT
1 AAATAAAAATATACATTT
* * *
4247260 AAATTAAACTATATATTT
1 AAATAAAAATATACATTT
4247278 AAATA
1 AAATA
4247283 TTATATAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATAAAAATATACATTT
Found at i:4249321 original size:40 final size:40
Alignment explanation
Indices: 4249277--4249355 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
4249267 AAGGATGTAT
4249277 TAGTAAAGGTGAGAAAATAGGAAGGACTAAATAGCGAATG
1 TAGTAAAGGTGAGAAAATAGGAAGGACTAAATAGCGAATG
4249317 TAGTAAAGGTGAGAAAATAGGAAGGACTAAATAGCGAAT
1 TAGTAAAGGTGAGAAAATAGGAAGGACTAAATAGCGAAT
4249356 TATCCAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.48, C:0.05, G:0.29, T:0.18
Consensus pattern (40 bp):
TAGTAAAGGTGAGAAAATAGGAAGGACTAAATAGCGAATG
Found at i:4251066 original size:25 final size:25
Alignment explanation
Indices: 4251015--4251091 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
4251005 CACTAGCGCG
* * *
4251015 CTCTCTGATTAGCATTGTGTGTGCT
1 CTCTCTTATTAGCACTGTCTGTGCT
*
4251040 CTCT-GT-TTAGCAC-GTCTCGTGCT
1 CTCTCTTATTAGCACTGTCT-GTGCT
* *
4251063 CTCTGTTATTAGCACTGTGTGTGCT
1 CTCTCTTATTAGCACTGTCTGTGCT
4251088 CTCT
1 CTCT
4251092 GATCAGTACT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 3 0.07
23 15 0.36
24 1 0.02
25 20 0.48
26 3 0.07
ACGTcount: A:0.10, C:0.25, G:0.22, T:0.43
Consensus pattern (25 bp):
CTCTCTTATTAGCACTGTCTGTGCT
Found at i:4251133 original size:71 final size:71
Alignment explanation
Indices: 4251014--4251188 Score: 196
Period size: 71 Copynumber: 2.5 Consensus size: 71
4251004 ACACTAGCGC
* * * **
4251014 GCTCTCTGATTAGCA-TTGTGTGTGCTCTCTGTTTAGCACGTCTCGTGCTCTCTGTT-ATTAGCA
1 GCTCTCTGATCAGTACTT-TGTGTACTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTGACCAGCA
*
4251077 CTGTGTGT
65 CT-TATGT
* * * *
4251085 GCTCTCTGATCAGTACTTTGTGTACTTTCTGTTTAGCAC-TTTGTGTGCTCTCTGTTGCCCAGCA
1 GCTCTCTGATCAGTACTTTGTGTACTCTCTGTTTAGCACGTCT-CGTGCTCTCTGTTGACCAGCA
4251149 CTTATGT
65 CTTATGT
*
4251156 GCTCTCTGTTCAGTACTTTG-GTACTCTCTGTTT
1 GCTCTCTGATCAGTACTTTGTGTACTCTCTGTTT
4251189 GTTCCGTTTA
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
70 14 0.16
71 67 0.75
72 8 0.09
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (71 bp):
GCTCTCTGATCAGTACTTTGTGTACTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTGACCAGCAC
TTATGT
Found at i:4251139 original size:23 final size:23
Alignment explanation
Indices: 4251014--4251188 Score: 133
Period size: 23 Copynumber: 7.5 Consensus size: 23
4251004 ACACTAGCGC
*
4251014 GCTCTCTGATTAGCA-TTGTGTGT
1 GCTCTCTGTTTAGCACTT-TGTGT
* *
4251037 GCTCTCTGTTTAGCACGTCT-CGT
1 GCTCTCTGTTTAGCAC-TTTGTGT
*
4251060 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTTTGTGT
* * *
4251085 GCTCTCTGATCAGTACTTTGTGT
1 GCTCTCTGTTTAGCACTTTGTGT
* *
4251108 ACTTTCTGTTTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTTTGTGT
* *
4251131 GCTCTCTGTTGCCCAGCAC-TTATGT
1 GCTCTCTGTT---TAGCACTTTGTGT
* *
4251156 GCTCTCTGTTCAGTACTTTG-GT
1 GCTCTCTGTTTAGCACTTTGTGT
*
4251178 ACTCTCTGTTT
1 GCTCTCTGTTT
4251189 GTTCCGTTTA
Statistics
Matches: 121, Mismatches: 22, Indels: 19
0.75 0.14 0.12
Matches are distributed among these distances:
22 16 0.13
23 63 0.52
24 4 0.03
25 33 0.27
26 5 0.04
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTTTGTGT
Found at i:4251164 original size:48 final size:44
Alignment explanation
Indices: 4251014--4251187 Score: 145
Period size: 48 Copynumber: 3.8 Consensus size: 44
4251004 ACACTAGCGC
* * *
4251014 GCTCTCTGATTAGCA-TTGTGTGTGCTCTCTGTTTAGCACGTCTCGT
1 GCTCTCTGTTTAGCACTT-TGTGTGCTCTCTGTTCAGCAC-T-TTGT
* * *
4251060 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATCAGTACTTTGT
1 GCTCTCTG-T-TTAGCACTTTGTGTGCTCTCTGTTCAGCACTTTGT
*
4251106 GTACTTTCTGTTTAGCACTTTGTGTGCTCTCTGTTGCCCAGCACTTATGT
1 G--CTCTCTGTTTAGCACTTTGTGTGCTCTCTGTT---CAGCACTT-TGT
* * *
4251156 GCTCTCTGTTCAGTACTTTG-GTACTCTCTGTT
1 GCTCTCTGTTTAGCACTTTGTGTGCTCTCTGTT
4251188 TGTTCCGTTT
Statistics
Matches: 105, Mismatches: 14, Indels: 17
0.77 0.10 0.12
Matches are distributed among these distances:
46 34 0.32
47 13 0.12
48 46 0.44
49 8 0.08
50 4 0.04
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (44 bp):
GCTCTCTGTTTAGCACTTTGTGTGCTCTCTGTTCAGCACTTTGT
Found at i:4261539 original size:18 final size:18
Alignment explanation
Indices: 4261507--4261555 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
4261497 AAAATGATTT
*
4261507 AAAATAATTTTTAAAATTC
1 AAAAT-ATTTATAAAATTC
4261526 AAAATATTTATAAAAATTC
1 AAAATATTTAT-AAAATTC
*
4261545 CAAA-ATTTATA
1 AAAATATTTATA
4261556 TTTTTTATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 11 0.41
19 15 0.56
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATATTTATAAAATTC
Found at i:4261587 original size:16 final size:16
Alignment explanation
Indices: 4261566--4261596 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4261556 TTTTTTATGA
4261566 AAAAATTATAAAAATT
1 AAAAATTATAAAAATT
*
4261582 AAAAATTCTAAAAAT
1 AAAAATTATAAAAAT
4261597 ATATAAAAAA
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:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATTATAAAAATT
Found at i:4261615 original size:9 final size:9
Alignment explanation
Indices: 4261565--4261618 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
4261555 ATTTTTTATG
4261565 AAAAAA-TT
1 AAAAAATTT
4261573 ATAAAAA-TT
1 A-AAAAATTT
4261582 -AAAAATTCT
1 AAAAAATT-T
*
4261591 AAAAATATAT
1 AAAAA-ATTT
4261601 AAAAAATTT
1 AAAAAATTT
4261610 AAAAAATTT
1 AAAAAATTT
4261619 CTAAAATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
7 5 0.13
8 2 0.05
9 20 0.51
10 10 0.26
11 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAAAATTT
Found at i:4262075 original size:19 final size:19
Alignment explanation
Indices: 4262026--4262076 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
4262016 TTTTTATATC
*
4262026 TTTA-TTAATCTTTCAATAA
1 TTTATTTAAT-TTTAAATAA
*
4262045 TTT-TTAATATTTTAAATAA
1 TTTATTTA-ATTTTAAATAA
4262064 TTTATTTAATTTT
1 TTTATTTAATTTT
4262077 TTGTAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATTTAATTTTAAATAA
Found at i:4264533 original size:6 final size:6
Alignment explanation
Indices: 4264522--4264560 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
4264512 CGTCACTCTC
4264522 CTCCCT CTCCCT CTCCCT CTCCCT CTCCCT CTCCCT CTC
1 CTCCCT CTCCCT CTCCCT CTCCCT CTCCCT CTCCCT CTC
4264561 TTTCTTTCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
CTCCCT
Found at i:4270388 original size:23 final size:22
Alignment explanation
Indices: 4270358--4270416 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
4270348 TTTAGTAATA
4270358 AATATTTTTTAATACAAAATATG
1 AATATTTTTTAATA-AAAATATG
** *
4270381 AATATTTTAACAATATAAATATG
1 AATATTTT-TTAATAAAAATATG
4270404 AATATTTGTTTAA
1 AATATTT-TTTAA
4270417 ATCCTGCTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 24 0.83
24 5 0.17
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (22 bp):
AATATTTTTTAATAAAAATATG
Found at i:4272844 original size:30 final size:30
Alignment explanation
Indices: 4272808--4272874 Score: 109
Period size: 30 Copynumber: 2.2 Consensus size: 30
4272798 GAAAGACGCA
4272808 AACGGCAAGGACACAAATGACAA-GGAACTG
1 AACGGCAAGGACACAAATGACAAGGGAAC-G
*
4272838 AACGGCAAGGACACAGATGACAAGGGAACG
1 AACGGCAAGGACACAAATGACAAGGGAACG
4272868 AACGGCA
1 AACGGCA
4272875 TTGAAGGACA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 30 0.86
31 5 0.14
ACGTcount: A:0.45, C:0.21, G:0.30, T:0.04
Consensus pattern (30 bp):
AACGGCAAGGACACAAATGACAAGGGAACG
Found at i:4274513 original size:31 final size:31
Alignment explanation
Indices: 4274472--4274540 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
4274462 TTAAAAATGA
*
4274472 TCACTAAACTATTAAAAAGGTTTCATTTAAG
1 TCACTTAACTATTAAAAAGGTTTCATTTAAG
* * *
4274503 TCACTTAACTATTTAAAAGTTTTTATTTAAG
1 TCACTTAACTATTAAAAAGGTTTCATTTAAG
4274534 TCA-TTAA
1 TCACTTAA
4274541 GCTGTTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 4 0.12
31 30 0.88
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (31 bp):
TCACTTAACTATTAAAAAGGTTTCATTTAAG
Found at i:4275686 original size:20 final size:21
Alignment explanation
Indices: 4275649--4275697 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
4275639 ATAATATTTG
4275649 TTTTTATGATAATATTATATA
1 TTTTTATGATAATATTATATA
*
4275670 TTTTTATGA-AATTTTATATA
1 TTTTTATGATAATATTATATA
4275690 TATTTTAT
1 T-TTTTAT
4275698 TTTTTTACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TTTTTATGATAATATTATATA
Found at i:4276151 original size:2 final size:2
Alignment explanation
Indices: 4276144--4276171 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4276134 ATTCAAAAGC
4276144 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
4276172 GTGTGTGAAT
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:4278855 original size:17 final size:17
Alignment explanation
Indices: 4278833--4278866 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4278823 ATTTTGAAAT
4278833 ATAAAAAAATTAAAAAA
1 ATAAAAAAATTAAAAAA
**
4278850 ATAAAAATTTTAAAAAA
1 ATAAAAAAATTAAAAAA
4278867 TTAATTATCA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAAAAAATTAAAAAA
Found at i:4284435 original size:16 final size:16
Alignment explanation
Indices: 4284414--4284446 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4284404 ATCATGGATG
4284414 TATGTATATATATGTA
1 TATGTATATATATGTA
*
4284430 TATGTATATGTATGTA
1 TATGTATATATATGTA
4284446 T
1 T
4284447 GGAGGAGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (16 bp):
TATGTATATATATGTA
Found at i:4291883 original size:18 final size:17
Alignment explanation
Indices: 4291860--4291893 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
4291850 ATTTAATAAA
4291860 AAAAATAAAAAGAAATTT
1 AAAAATAAAAA-AAATTT
4291878 AAAAATAAAAAAAATT
1 AAAAATAAAAAAAATT
4291894 GAGTTGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAAATAAAAAAAATTT
Found at i:4295481 original size:60 final size:60
Alignment explanation
Indices: 4295412--4295544 Score: 230
Period size: 60 Copynumber: 2.2 Consensus size: 60
4295402 TTGATTTGAT
* *
4295412 TATAGTTTTTAAAAAGAATACCGTCATCACCATCGATAACTTTTGTAAGATTGATATTAA
1 TATAATTTTTAAAAAGAATACCGCCATCACCATCGATAACTTTTGTAAGATTGATATTAA
*
4295472 TATAATTTTTAAAAAGAATACCGCCGTCACCATCGATAACTTTTGTAAGATTGATATTAA
1 TATAATTTTTAAAAAGAATACCGCCATCACCATCGATAACTTTTGTAAGATTGATATTAA
*
4295532 GATAATTTTTAAA
1 TATAATTTTTAAA
4295545 CGCTAAATCA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 69 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (60 bp):
TATAATTTTTAAAAAGAATACCGCCATCACCATCGATAACTTTTGTAAGATTGATATTAA
Found at i:4297278 original size:14 final size:14
Alignment explanation
Indices: 4297255--4297288 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4297245 ATTTTCTCAG
4297255 TTATTTT-TTTTA-
1 TTATTTTATTTTAT
4297267 TTATTTTATTTTAT
1 TTATTTTATTTTAT
4297281 TTATTTTA
1 TTATTTTA
4297289 AAATCATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
13 5 0.25
14 8 0.40
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTATTTTATTTTAT
Found at i:4305003 original size:13 final size:13
Alignment explanation
Indices: 4304985--4305013 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4304975 CATATTATCG
4304985 ATCTAATAAAAGA
1 ATCTAATAAAAGA
4304998 ATCTAATAAAAGA
1 ATCTAATAAAAGA
4305011 ATC
1 ATC
4305014 CCTAAAGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.10, G:0.07, T:0.24
Consensus pattern (13 bp):
ATCTAATAAAAGA
Found at i:4308552 original size:11 final size:11
Alignment explanation
Indices: 4308536--4308585 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
4308526 ATTATATATT
4308536 TAAAAATTATA
1 TAAAAATTATA
*
4308547 TAAAAATGT-TT
1 TAAAAAT-TATA
4308558 TAAAAATTATA
1 TAAAAATTATA
*
4308569 TAAAAATAATA
1 TAAAAATTATA
4308580 TAAAAA
1 TAAAAA
4308586 ATTTTAATAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 1 0.03
11 32 0.94
12 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:4308560 original size:22 final size:22
Alignment explanation
Indices: 4308534--4308575 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
4308524 GCATTATATA
4308534 TTTAAAAATTATATAAAAATGT
1 TTTAAAAATTATATAAAAATGT
4308556 TTTAAAAATTATATAAAAAT
1 TTTAAAAATTATATAAAAAT
4308576 AATATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTAAAAATTATATAAAAATGT
Found at i:4308583 original size:22 final size:22
Alignment explanation
Indices: 4308536--4308585 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
4308526 ATTATATATT
** *
4308536 TAAAAATTATATAAAAATGTTT
1 TAAAAATTATATAAAAATAATA
4308558 TAAAAATTATATAAAAATAATA
1 TAAAAATTATATAAAAATAATA
4308580 TAAAAA
1 TAAAAA
4308586 ATTTTAATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
TAAAAATTATATAAAAATAATA
Found at i:4319609 original size:20 final size:20
Alignment explanation
Indices: 4319584--4319623 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4319574 TTTTTCAATA
*
4319584 ATTATAGTTA-AAATTAAATT
1 ATTATAATTATAAA-TAAATT
4319604 ATTATAATTATAAATAAATT
1 ATTATAATTATAAATAAATT
4319624 TAAAATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
ATTATAATTATAAATAAATT
Found at i:4327871 original size:15 final size:17
Alignment explanation
Indices: 4327851--4327887 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4327841 ACTTGTTATT
4327851 TTTATA-TGTT-CTAGA
1 TTTATATTGTTACTAGA
4327866 TTTATATTGTTACTAGA
1 TTTATATTGTTACTAGA
*
4327883 ATTAT
1 TTTAT
4327888 TAGAACTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 4 0.21
17 9 0.47
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (17 bp):
TTTATATTGTTACTAGA
Found at i:4333305 original size:6 final size:6
Alignment explanation
Indices: 4333294--4333332 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
4333284 TAGTTTATTT
*
4333294 ATTTTC ATTTTC ATTTTT ATTTTC ATTTT- ATTTT- ATTTT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTT
4333333 TTATTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (6 bp):
ATTTTC
Found at i:4333314 original size:18 final size:16
Alignment explanation
Indices: 4333287--4333345 Score: 75
Period size: 17 Copynumber: 3.6 Consensus size: 16
4333277 AAAAAATTAG
4333287 TTTA-TTTATTTTCAT
1 TTTATTTTATTTTCAT
4333302 TTTCATTTTTATTTTCAT
1 TTT-A-TTTTATTTTCAT
*
4333320 TTTATTTTATTTTTTAT
1 TTTATTTTA-TTTTCAT
4333337 TTTATTTTA
1 TTTATTTTA
4333346 ATTATACACT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
15 3 0.08
16 6 0.15
17 16 0.41
18 14 0.36
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATTTTATTTTCAT
Found at i:4333315 original size:12 final size:11
Alignment explanation
Indices: 4333287--4333344 Score: 66
Period size: 12 Copynumber: 5.2 Consensus size: 11
4333277 AAAAAATTAG
4333287 TTTA-TTTATT
1 TTTATTTTATT
*
4333297 TTCATTTTCATT
1 TTTATTTT-ATT
4333309 TTTATTTTCA-T
1 TTTATTTT-ATT
4333320 TTTATTTTATTT
1 TTTATTTTA-TT
4333332 TTTATTTTATT
1 TTTATTTTATT
4333343 TT
1 TT
4333345 AATTATACAC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
10 4 0.10
11 16 0.38
12 22 0.52
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:4333326 original size:5 final size:5
Alignment explanation
Indices: 4333287--4333345 Score: 57
Period size: 5 Copynumber: 10.8 Consensus size: 5
4333277 AAAAAATTAG
4333287 TTTA- TTTAT TTTCAT TTTCATT TTTAT TTTCAT TTTAT TTTATTT TTTAT
1 TTTAT TTTAT TTT-AT TTT-A-T TTTAT TTT-AT TTTAT TTTA--T TTTAT
4333337 TTTAT TTTA
1 TTTAT TTTA
4333346 ATTATACACT
Statistics
Matches: 49, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
4 4 0.08
5 23 0.47
6 13 0.27
7 9 0.18
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:4333333 original size:6 final size:6
Alignment explanation
Indices: 4333291--4333344 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
4333281 AATTAGTTTA
* * *
4333291 TTTATT TTCATT TTCATT TTTATT TTCA-T TTTA-T TTTATT TTT-TAT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTAT-T
4333337 TTTATT TT
1 TTTATT TT
4333345 AATTATACAC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 10 0.24
6 30 0.73
7 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:4334265 original size:10 final size:10
Alignment explanation
Indices: 4334250--4334330 Score: 56
Period size: 10 Copynumber: 7.7 Consensus size: 10
4334240 TTATTATTTA
4334250 AAAAAAAAAG
1 AAAAAAAAAG
4334260 -AAAAAAAAG
1 AAAAAAAAAG
** *
4334269 TCGAAAAAATG
1 -AAAAAAAAAG
*
4334280 AAAAAAATAG
1 AAAAAAAAAG
4334290 AAAAAAAATTCAG
1 AAAAAAAA---AG
4334303 AAAAAAAAAG
1 AAAAAAAAAG
*
4334313 AGAAGAAAAAG
1 A-AAAAAAAAG
*
4334324 ACAAAAA
1 AAAAAAA
4334331 TATGTTTGGG
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
9 9 0.16
10 20 0.36
11 16 0.29
13 10 0.18
ACGTcount: A:0.78, C:0.04, G:0.12, T:0.06
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:4334286 original size:30 final size:31
Alignment explanation
Indices: 4334250--4334308 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
4334240 TTATTATTTA
4334250 AAAAAAAAAGAAAAAAAAGTC-GAAAAAATG
1 AAAAAAAAAGAAAAAAAAGTCAGAAAAAATG
* *
4334280 AAAAAAATAGAAAAAAAATTCAGAAAAAA
1 AAAAAAAAAGAAAAAAAAGTCAGAAAAAA
4334309 AAAGAGAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.08
Consensus pattern (31 bp):
AAAAAAAAAGAAAAAAAAGTCAGAAAAAATG
Found at i:4334295 original size:12 final size:12
Alignment explanation
Indices: 4334280--4334322 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
4334270 CGAAAAAATG
4334280 AAAAAAATAGAA
1 AAAAAAATAGAA
*
4334292 AAAAAATTCAGAA
1 AAAAAAAT-AGAA
*
4334305 AAAAAAAGAGAA
1 AAAAAAATAGAA
4334317 GAAAAA
1 -AAAAA
4334323 GACAAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.07
Consensus pattern (12 bp):
AAAAAAATAGAA
Found at i:4334297 original size:11 final size:11
Alignment explanation
Indices: 4334249--4334310 Score: 51
Period size: 11 Copynumber: 5.7 Consensus size: 11
4334239 TTTATTATTT
*
4334249 AAAAAAAAAAG
1 AAAAAAAATAG
*
4334260 AAAAAAAAGTCG
1 AAAAAAAA-TAG
4334272 --AAAAAAT-G
1 AAAAAAAATAG
4334280 -AAAAAAATAG
1 AAAAAAAATAG
4334290 AAAAAAAATTCAG
1 AAAAAAAA-T-AG
4334303 AAAAAAAA
1 AAAAAAAA
4334311 AGAGAAGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
8 1 0.02
9 8 0.19
10 7 0.16
11 15 0.35
12 2 0.05
13 10 0.23
ACGTcount: A:0.79, C:0.03, G:0.10, T:0.08
Consensus pattern (11 bp):
AAAAAAAATAG
Found at i:4335378 original size:23 final size:25
Alignment explanation
Indices: 4335352--4335397 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
4335342 CCAATTAGGG
4335352 AATTAT-TGTTTAG-ATTTAATTCA
1 AATTATCTGTTTAGAATTTAATTCA
*
4335375 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
4335398 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCA
Found at i:4336230 original size:13 final size:14
Alignment explanation
Indices: 4336212--4336242 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4336202 TTGTCGCATT
4336212 TTTAGTT-TATTAA
1 TTTAGTTATATTAA
4336225 TTTAGTTATATTAA
1 TTTAGTTATATTAA
4336239 TTTA
1 TTTA
4336243 AAACAATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (14 bp):
TTTAGTTATATTAA
Found at i:4338528 original size:20 final size:20
Alignment explanation
Indices: 4338482--4338521 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4338472 TCATAATTAT
*
4338482 GTCTCTATTTCTCGGAGTCA
1 GTCTCTATTTCTAGGAGTCA
4338502 GTCTCTATTTCTAGGAGTCA
1 GTCTCTATTTCTAGGAGTCA
4338522 AGCTCTAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (20 bp):
GTCTCTATTTCTAGGAGTCA
Found at i:4345657 original size:13 final size:13
Alignment explanation
Indices: 4345639--4345667 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4345629 TGAATTTAAA
4345639 TTATTATATTCTT
1 TTATTATATTCTT
4345652 TTATTATATTCTT
1 TTATTATATTCTT
4345665 TTA
1 TTA
4345668 CTAATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTATATTCTT
Found at i:4353926 original size:5 final size:5
Alignment explanation
Indices: 4353916--4353949 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
4353906 ATGATATACC
*
4353916 TTTTG TTTTG TTTTG TTTT- TTTTT TTTTG TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG
4353950 AAATGTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (5 bp):
TTTTG
Found at i:4356216 original size:21 final size:21
Alignment explanation
Indices: 4356171--4356216 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
4356161 AAAGAAGATC
* * *
4356171 TAAATTAATTTATTAGTCAAG
1 TAAATTAATTTATAAGTAAAA
*
4356192 TAAATTTATTTATAAGTAAAA
1 TAAATTAATTTATAAGTAAAA
4356213 TAAA
1 TAAA
4356217 ACATTACTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (21 bp):
TAAATTAATTTATAAGTAAAA
Found at i:4357612 original size:21 final size:21
Alignment explanation
Indices: 4357579--4357618 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4357569 ATTTAATGTC
* *
4357579 ATTTCAACGTTTTCGTCTTAA
1 ATTTCAACATTTTCATCTTAA
*
4357600 ATTTCAGCATTTTCATCTT
1 ATTTCAACATTTTCATCTT
4357619 GAAAAAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.07, T:0.50
Consensus pattern (21 bp):
ATTTCAACATTTTCATCTTAA
Found at i:4361390 original size:2 final size:2
Alignment explanation
Indices: 4361383--4361409 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4361373 TGCAAGTTGC
4361383 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4361410 AATTGGTCCA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4364602 original size:41 final size:41
Alignment explanation
Indices: 4364567--4364725 Score: 212
Period size: 41 Copynumber: 3.9 Consensus size: 41
4364557 GTTTTTATAT
* * *
4364567 AAACGTCGCTAAAGGTCAGGGCATCAGCGGCGTTTTTCCAC
1 AAACGCCGCTAAAGGTCAGGGCATTAGCGGCGCTTTTCCAC
* * *
4364608 AAGCGCCGCTAAAGGTTAGGGCATTAACGGCGCTTTTCCA-
1 AAACGCCGCTAAAGGTCAGGGCATTAGCGGCGCTTTTCCAC
* * *
4364648 AAAGCGCTGCTAAAGGTCAGGGTATTAGCGGCGCTTTCCCAC
1 AAA-CGCCGCTAAAGGTCAGGGCATTAGCGGCGCTTTTCCAC
*
4364690 AAACGCCGCTAAAGGTCAGGGCATTAGCGGTGCTTT
1 AAACGCCGCTAAAGGTCAGGGCATTAGCGGCGCTTT
4364726 ATCATAAATG
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
40 2 0.02
41 96 0.95
42 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (41 bp):
AAACGCCGCTAAAGGTCAGGGCATTAGCGGCGCTTTTCCAC
Found at i:4364786 original size:42 final size:42
Alignment explanation
Indices: 4364739--4364826 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
4364729 ATAAATGTCA
* * * * * * *
4364739 CTAATGCTTTGACTTTTAGTGGCGTTTATTGTAGAAGCGCCG
1 CTAATGATCTGACCTTTAGCGGCATTTATTGTAAAAACGCCG
*
4364781 CTAATGATCTGACCTTTAGCGGCATTTATTTTAAAAACGCCG
1 CTAATGATCTGACCTTTAGCGGCATTTATTGTAAAAACGCCG
4364823 CTAA
1 CTAA
4364827 AAGTTAAGCA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (42 bp):
CTAATGATCTGACCTTTAGCGGCATTTATTGTAAAAACGCCG
Found at i:4365674 original size:168 final size:168
Alignment explanation
Indices: 4365396--4365731 Score: 575
Period size: 168 Copynumber: 2.0 Consensus size: 168
4365386 AACAGTTGGA
4365396 ACAGTAACAATGAAAATGACGCCCTCTTTAGTGAGATTATATGAACAAATGCCCAAACCTAAATA
1 ACAGTAACAATGAAAATGACGCCCTCTTTAGTGAGATTATATGAACAAATGCCCAAACCTAAATA
* * * *
4365461 TGTTATTGCTATGGGCACGTATACAATTGCAGGAGGGATGTTCAGTATTGATTCTTATTGTACTG
66 TGTTATTGCTATGGGCACGTATACAATTACAAGAGGGATGTTCAGTACTGATTCTTATAGTACTG
* *
4365526 TTCGGGGGGTCGA-AAAGCTAATTCCCGTGGATGTCTAT
131 TTCGGGGGATCGATAAA-CTAATTCCCGTAGATGTCTAT
4365564 ACAGTAACAATGAAAATGACGCCCTCTTTAGTGAGATTATATGAACAAATGCCCAAACCTAAATA
1 ACAGTAACAATGAAAATGACGCCCTCTTTAGTGAGATTATATGAACAAATGCCCAAACCTAAATA
* *
4365629 TGTTATTGCTATGGGCGCGTGTACAATTACAAGAGGGATGTTCAGTACTGATTCTTATAGTACTG
66 TGTTATTGCTATGGGCACGTATACAATTACAAGAGGGATGTTCAGTACTGATTCTTATAGTACTG
*
4365694 TTCGGGGGATGGATAAACTAATTCCCGTAGATGTCTAT
131 TTCGGGGGATCGATAAACTAATTCCCGTAGATGTCTAT
4365732 TTGTCGGGCT
Statistics
Matches: 158, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
168 155 0.98
169 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (168 bp):
ACAGTAACAATGAAAATGACGCCCTCTTTAGTGAGATTATATGAACAAATGCCCAAACCTAAATA
TGTTATTGCTATGGGCACGTATACAATTACAAGAGGGATGTTCAGTACTGATTCTTATAGTACTG
TTCGGGGGATCGATAAACTAATTCCCGTAGATGTCTAT
Found at i:4366480 original size:41 final size:41
Alignment explanation
Indices: 4366423--4366630 Score: 299
Period size: 41 Copynumber: 5.1 Consensus size: 41
4366413 TAGGAAAGAG
*
4366423 CATTAGCGGTGCTTATGGAAAAGCGCCGCTAAAAGTCAAAT
1 CATTAGCGGTGCTTATGGAAAAGCGCCGCTAAAAGTCAGAT
* *
4366464 CATTAACGGTGCTTATGGAACAGCGCCGCTAAAAGTCAGAT
1 CATTAGCGGTGCTTATGGAAAAGCGCCGCTAAAAGTCAGAT
*
4366505 CATTAGCGGTGCTTATGTAAAAGCGCCGCTAAAAGTCAGAT
1 CATTAGCGGTGCTTATGGAAAAGCGCCGCTAAAAGTCAGAT
** *
4366546 CATTAGCGGCACTTATGGAAAAGCGCCGTTAAAAGTCAGAT
1 CATTAGCGGTGCTTATGGAAAAGCGCCGCTAAAAGTCAGAT
** *** *
4366587 CATTAGCGACGCTTACCTAAAAGCGCTGCTAAAAGTCAGAT
1 CATTAGCGGTGCTTATGGAAAAGCGCCGCTAAAAGTCAGAT
4366628 CAT
1 CAT
4366631 AAGTTCTTAC
Statistics
Matches: 150, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 150 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (41 bp):
CATTAGCGGTGCTTATGGAAAAGCGCCGCTAAAAGTCAGAT
Found at i:4368832 original size:8 final size:8
Alignment explanation
Indices: 4368821--4368963 Score: 52
Period size: 8 Copynumber: 18.4 Consensus size: 8
4368811 AAATTAACAA
4368821 ATTTAATT
1 ATTTAATT
4368829 ATTTAATT
1 ATTTAATT
4368837 ATTT-ATAT
1 ATTTAAT-T
*
4368845 GTTTAATT
1 ATTTAATT
* *
4368853 ACTACTAA-C
1 A-T-TTAATT
4368862 ATTTAATT
1 ATTTAATT
4368870 A---AA-T
1 ATTTAATT
*
4368874 ATTTAAAT
1 ATTTAATT
*
4368882 ATTTAATA
1 ATTTAATT
4368890 ATTTAATT
1 ATTTAATT
* **
4368898 ATTAAAAACA
1 ATT--TAATT
* *
4368908 ATTCAAAT
1 ATTTAATT
4368916 ATTTAA-T
1 ATTTAATT
*
4368923 AGTTAATT
1 ATTTAATT
4368931 ATTTAATT
1 ATTTAATT
*
4368939 A--TATTT
1 ATTTAATT
* *
4368945 AATTAAAT
1 ATTTAATT
4368953 ATTTAATT
1 ATTTAATT
4368961 ATT
1 ATT
4368964 AAAAATAACC
Statistics
Matches: 98, Mismatches: 23, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
4 2 0.02
5 2 0.02
6 5 0.05
7 13 0.13
8 64 0.65
9 4 0.04
10 8 0.08
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (8 bp):
ATTTAATT
Found at i:4368955 original size:22 final size:22
Alignment explanation
Indices: 4368920--4369141 Score: 92
Period size: 22 Copynumber: 9.8 Consensus size: 22
4368910 TCAAATATTT
* *
4368920 AATAGTTAATTATTTAATTATA
1 AATAATTAAATATTTAATTATA
**
4368942 TTTAATTAAATATTTAATTATTAAA
1 AATAATTAAATATTTAATTA-T--A
** *
4368967 AATAACCCAAATATTTAATTAAA
1 AATAA-TTAAATATTTAATTATA
* * *
4368990 AATATTTTATTATTTAATTATA
1 AATAATTAAATATTTAATTATA
** *
4369012 TTTAATTAAATATTTAATAATTA
1 AATAATTAAATATTTAATTA-TA
* **
4369035 AAAACAGCCCAAATATTTAAATT-T-
1 AATA-A--TTAAATATTT-AATTATA
* * * *
4369059 -TTAATTAATTAATT-ATTAAA
1 AATAATTAAATATTTAATTATA
* *
4369079 AATAATCCAAATATTTAATTAAA
1 AATAAT-TAAATATTTAATTATA
* *
4369102 AATATTTAATTATTTAATTATA
1 AATAATTAAATATTTAATTATA
**
4369124 TTTAATTAAATATTTAAT
1 AATAATTAAATATTTAAT
4369142 AAATAAAAAC
Statistics
Matches: 140, Mismatches: 46, Indels: 28
0.65 0.21 0.13
Matches are distributed among these distances:
18 3 0.02
20 6 0.04
21 4 0.03
22 76 0.54
23 21 0.15
24 1 0.01
25 5 0.04
26 21 0.15
27 3 0.02
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (22 bp):
AATAATTAAATATTTAATTATA
Found at i:4368961 original size:63 final size:64
Alignment explanation
Indices: 4368890--4369074 Score: 228
Period size: 70 Copynumber: 2.8 Consensus size: 64
4368880 ATATTTAATA
** *
4368890 ATTTAATTATTAAAAACAATTCAAATATTT-AATAGTTAATTATTTAATTATATTTAATTAAAT
1 ATTTAATTATTAAAAACAACCCAAATATTTAAATATTTAATTATTTAATTATATTTAATTAAAT
* *
4368953 ATTTAATTATTAAAAATAACCCAAATATTTAATTAAAAATATTTTATTATTTAATTATATTTAAT
1 ATTTAATTATTAAAAACAACCCAAATA--T--TT--AAATATTTAATTATTTAATTATATTTAAT
4369018 TAAAT
60 TAAAT
* * * *
4369023 ATTTAATAATTAAAAACAGCCCAAATATTTAAATTTTTAATTAATTAATTAT
1 ATTTAATTATTAAAAACAACCCAAATATTTAAATATTTAATTATTTAATTAT
4369075 TAAAAATAAT
Statistics
Matches: 104, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
63 24 0.23
64 19 0.18
65 1 0.01
66 2 0.02
67 2 0.02
68 1 0.01
70 55 0.53
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (64 bp):
ATTTAATTATTAAAAACAACCCAAATATTTAAATATTTAATTATTTAATTATATTTAATTAAAT
Found at i:4368966 original size:15 final size:15
Alignment explanation
Indices: 4368867--4368966 Score: 58
Period size: 15 Copynumber: 6.4 Consensus size: 15
4368857 CTAACATTTA
*
4368867 ATTAAATATTTAAAT
1 ATTAAATATTTAATT
*
4368882 ATTTAATAATTTAATT
1 ATTAAAT-ATTTAATT
* * *
4368898 ATTAAAAACAATTCAAAT
1 ATT--AAA-TATTTAATT
* *
4368916 ATTTAATAGTTAATT
1 ATTAAATATTTAATT
* * *
4368931 ATTTAAT-TATATTT
1 ATTAAATATTTAATT
4368945 AATTAAATATTTAATT
1 -ATTAAATATTTAATT
4368961 ATTAAA
1 ATTAAA
4368967 AATAACCCAA
Statistics
Matches: 62, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
14 4 0.06
15 30 0.48
16 17 0.27
18 11 0.18
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (15 bp):
ATTAAATATTTAATT
Found at i:4369089 original size:112 final size:111
Alignment explanation
Indices: 4368955--4369461 Score: 594
Period size: 112 Copynumber: 4.4 Consensus size: 111
4368945 AATTAAATAT
* *
4368955 TTAATTATTAAAAATAACCCAAATATTTAATTAAAAATATTTTATTATTTAATTATATTTAATTA
1 TTAATTATTAAAAACAACCCAAATATTTAATTAAAAATATTTAATTATTTAATTATATTTAATTA
**
4369020 AATATTTAATAATTAAAAACAGCCCAAATATTTAAATTTTTAATTAA
66 AATATTTAATAA-TAAAAACAATCCAAATATTTAAATTTTTAATTAA
* *
4369067 TTAATTATTAAAAATAATCCAAATATTTAATTAAAAATATTTAATTATTTAATTATATTTAATTA
1 TTAATTATTAAAAACAACCCAAATATTTAATTAAAAATATTTAATTATTTAATTATATTTAATTA
* *
4369132 AATATTTAATAAATAAAAACAATCCAACTATTTAAATATTTAATTAA
66 AATATTTAAT-AATAAAAACAATCCAAATATTTAAATTTTTAATTAA
* * * *
4369179 TTATTTATTAAAAACAACCCAAATATTTAATTAAAAATATTTTATTATGTAATTACATTTAATTA
1 TTAATTATTAAAAACAACCCAAATATTTAATTAAAAATATTTAATTATTTAATTATATTTAATTA
* *
4369244 AATATTTAATTATAAAAACAATCCAAATATTTAATTAATTATTTATTTAACTA
66 AATATTTAATAATAAAAACAATCCAAATATTT-A--AATT-TTTAATT-A--A
* * *
4369297 GTTAATTATTAACAACAATCCAAATATTTAATTCAAAATATTTAATTATTTAATTATA--T--TT
1 -TTAATTATTAAAAACAACCCAAATATTTAATTAAAAATATTTAATTATTTAATTATATTTAATT
* *
4369358 -AATATTTAATTATTAAAAACAATCTAAATATTTAATTATTTAGTTTAA-TAA
65 AAATATTTAA-TAATAAAAACAATCCAAATATTTAA--A-TT--TTTAATTAA
* * *
4369409 TTAGTTATTTATTAACAACAACCCAAATACTTAATTTAAAATATTTAATTATT
1 TTA---A-TTATTAAAAACAACCCAAATATTTAATTAAAAATATTTAATTATT
4369462 AAAAATAACC
Statistics
Matches: 346, Mismatches: 31, Indels: 33
0.84 0.08 0.08
Matches are distributed among these distances:
111 23 0.07
112 175 0.51
113 2 0.01
114 16 0.05
115 73 0.21
116 5 0.01
117 1 0.00
118 1 0.00
119 50 0.14
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (111 bp):
TTAATTATTAAAAACAACCCAAATATTTAATTAAAAATATTTAATTATTTAATTATATTTAATTA
AATATTTAATAATAAAAACAATCCAAATATTTAAATTTTTAATTAA
Found at i:4369106 original size:14 final size:14
Alignment explanation
Indices: 4369087--4369113 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4369077 AAAATAATCC
4369087 AAATATTTAATTAA
1 AAATATTTAATTAA
4369101 AAATATTTAATTA
1 AAATATTTAATTA
4369114 TTTAATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATATTTAATTAA
Found at i:4369206 original size:42 final size:45
Alignment explanation
Indices: 4369112--4369209 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 45
4369102 AATATTTAAT
* *
4369112 TATTTAATTATATTTAATTAAATATTTAATAAATAAAAACAATCCAAC
1 TATTTAA-TATATTTAATTAAATATTTAAT--ATAAAAACAACCCAAA
*
4369160 TATTTAA-ATATTTAATTAATTATTT-AT-TAAAAACAACCCAAA
1 TATTTAATATATTTAATTAAATATTTAATATAAAAACAACCCAAA
4369202 TATTTAAT
1 TATTTAAT
4369210 TAAAAATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
42 20 0.43
45 2 0.04
46 17 0.37
48 7 0.15
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (45 bp):
TATTTAATATATTTAATTAAATATTTAATATAAAAACAACCCAAA
Found at i:4369365 original size:17 final size:18
Alignment explanation
Indices: 4369334--4369370 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
4369324 TTAATTCAAA
4369334 ATATTTAATTATTTAATT
1 ATATTTAATTATTTAATT
4369352 ATATTTAA-TATTTAATT
1 ATATTTAATTATTTAATT
4369369 AT
1 AT
4369371 TAAAAACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATTTAATTATTTAATT
Found at i:4369379 original size:65 final size:64
Alignment explanation
Indices: 4369268--4369394 Score: 193
Period size: 65 Copynumber: 2.0 Consensus size: 64
4369258 AAAACAATCC
*
4369268 AAATATTTAATTAATTATTTATTTAACTAGTTAATTATTAACAACAATCCAAATATTTAATTCA
1 AAATATTTAATTAATTATTTATTTAACTAGTTAATTATTAAAAACAATCCAAATATTTAATTCA
* * *
4369332 AAATATTTAATTATTTAATTATATTTAA-TATTTAATTATTAAAAACAATCTAAATATTTAATT
1 AAATATTTAATTAATT-ATT-TATTTAACTAGTTAATTATTAAAAACAATCCAAATATTTAATT
4369395 ATTTAGTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
64 15 0.26
65 35 0.61
66 7 0.12
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.46
Consensus pattern (64 bp):
AAATATTTAATTAATTATTTATTTAACTAGTTAATTATTAAAAACAATCCAAATATTTAATTCA
Found at i:4369435 original size:115 final size:111
Alignment explanation
Indices: 4369112--4369461 Score: 356
Period size: 115 Copynumber: 3.1 Consensus size: 111
4369102 AATATTTAAT
* * * *
4369112 TATTTAATTA--TATTTA-ATTAAATATTTAATAAATAAAAACAATCCAACTATTTAA--A-TA-
1 TATTTAATTATTTAATTATATTTAATATTTAAT-TATAAAAACAATCCAAATATTTAATTATTAT
*
4369170 TT-TAATTAATTATTTATTAAAAACAACCCAAATATTTAATTAAAAA
65 TTATAATTAATTAATTATTAAAAACAACCCAAATATTTAATTAAAAA
* * *
4369216 TATTTTATTATGTAATTACATTTAATTAAATATTTAATTATAAAAACAATCCAAATATTTAATTA
1 TATTTAATTATTTAATT--A--T-ATTTAATATTTAATTATAAAAACAATCCAAATATTTAATT-
* * * * *
4369281 ATTATTTATTTAACTAGTTAATTATTAACAACAATCCAAATATTTAATTCAAAA
60 ATTATTTA--TAATTAATTAATTATTAAAAACAACCCAAATATTTAATTAAAAA
*
4369335 TATTTAATTATTTAATTATATTTAATATTTAATTATTAAAAACAATCTAAATATTTAATTATTTA
1 TATTTAATTATTTAATTATATTTAATATTTAATTA-TAAAAACAATCCAAATATTTAATTA-TTA
* * * * *
4369400 GTTTAATAATTAGTTATTTATTAACAACAACCCAAATACTTAATTTAAAA
64 -TTT-ATAATTAATTAATTATTAAAAACAACCCAAATATTTAATTAAAAA
4369450 TATTTAATTATT
1 TATTTAATTATT
4369462 AAAAATAACC
Statistics
Matches: 207, Mismatches: 19, Indels: 29
0.81 0.07 0.11
Matches are distributed among these distances:
104 9 0.04
106 4 0.02
108 1 0.00
111 22 0.11
112 14 0.07
114 17 0.08
115 80 0.39
116 5 0.02
117 2 0.01
119 53 0.26
ACGTcount: A:0.47, C:0.07, G:0.01, T:0.44
Consensus pattern (111 bp):
TATTTAATTATTTAATTATATTTAATATTTAATTATAAAAACAATCCAAATATTTAATTATTATT
TATAATTAATTAATTATTAAAAACAACCCAAATATTTAATTAAAAA
Found at i:4369437 original size:50 final size:51
Alignment explanation
Indices: 4369332--4369444 Score: 131
Period size: 50 Copynumber: 2.2 Consensus size: 51
4369322 ATTTAATTCA
* * * *
4369332 AAATATTTAATTATTTAATTATATTTAATATTTAATTATTAAAAACAATCT
1 AAATATTTAATTATTTAATTATATATAATAGTTAATTATTAAAAACAACCC
* * *
4369383 AAATATTTAATTATTTAGTT-TA-ATAATTAGTTATTTATTAACAACAACCC
1 AAATATTTAATTATTTAATTATATATAA-TAGTTAATTATTAAAAACAACCC
*
4369433 AAATACTTAATT
1 AAATATTTAATT
4369445 TAAAATATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 3 0.06
50 31 0.58
51 19 0.36
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (51 bp):
AAATATTTAATTATTTAATTATATATAATAGTTAATTATTAAAAACAACCC
Found at i:4369462 original size:40 final size:43
Alignment explanation
Indices: 4369417--4369504 Score: 110
Period size: 40 Copynumber: 2.1 Consensus size: 43
4369407 AATTAGTTAT
*
4369417 TTATTAACAACAACCC-AAATACTTAATT-TA-AAATATTTAA
1 TTATTAAAAACAACCCAAAATACTTAATTATATAAATATTTAA
* * * *
4369457 TTATTAAAAATAACCCAAAATATTTAATTATATAATTATTTAT
1 TTATTAAAAACAACCCAAAATACTTAATTATATAAATATTTAA
4369500 TTATT
1 TTATT
4369505 TGTAACTACG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
40 14 0.35
41 11 0.28
42 2 0.05
43 13 0.32
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (43 bp):
TTATTAAAAACAACCCAAAATACTTAATTATATAAATATTTAA
Found at i:4369480 original size:231 final size:228
Alignment explanation
Indices: 4368959--4369488 Score: 568
Period size: 231 Copynumber: 2.3 Consensus size: 228
4368949 AAATATTTAA
* * * * * * **
4368959 TTATTAAAAATAACCCAAATATTTAATTAAAAATATTTTATTATTTAATTATATTTAATTAAATA
1 TTATTAAAAACAACCCAAATACTTAATTAAAAATATTTAATTATGTAA-TACATATAACAAAATA
* ** *
4369024 TTTAATAATTAAAAACAGCCCAAATA--T--TTAA--A-TT-TTTAATTAATTAATTATTAAAAA
65 TTTAATTA-TAAAAACAATCCAAATATTTAATTAATTATTTATTTAACTAATTAATTATTAAAAA
*
4369081 TAATCCAAATATTTAATTAAAAATATTTAATTATTTAATTATATTTAATTAAATATTTAATAAAT
129 CAATCCAAATATTTAATTAAAAATATTTAATTATTTAATTATA-TT-ATTAAATATTTAATAAAT
*
4369146 AAAAACAATCCAACTATTTAAATATTTAATTAATTAT
192 AAAAACAATCCAAATATTTAAATATTTAATTAATTAT
* * * **
4369183 TTATTAAAAACAACCCAAATATTTAATTAAAAATATTTTATTATGTAATTACATTTAATTAAATA
1 TTATTAAAAACAACCCAAATACTTAATTAAAAATATTTAATTATGTAA-TACATATAACAAAATA
* *
4369248 TTTAATTATAAAAACAATCCAAATATTTAATTAATTATTTATTTAACTAGTTAATTATTAACAAC
65 TTTAATTATAAAAACAATCCAAATATTTAATTAATTATTTATTTAACTAATTAATTATTAAAAAC
* * *
4369313 AATCCAAATATTTAATTCAAAATATTTAATTATTTAATTATA-T-TT-AATATTTAATTATTAAA
130 AATCCAAATATTTAATTAAAAATATTTAATTATTTAATTATATTATTAAATATTTAATAAATAAA
* *
4369375 AACAATCTAAATATTTAATTATTTAGTTTAATAATTAGTTAT
195 AACAATCCAAATATTTAA--A--TA--TT--TAATTAATTAT
* *
4369417 TTATTAACAACAACCCAAATACTTAATTTAAAATATTTAATTAT-TAA-A-A-ATAACCCAAAAT
1 TTATTAAAAACAACCCAAATACTTAATTAAAAATATTTAATTATGTAATACATATAA--CAAAAT
4369478 ATTTAATTATA
64 ATTTAATTATA
4369489 TAATTATTTA
Statistics
Matches: 265, Mismatches: 23, Indels: 29
0.84 0.07 0.09
Matches are distributed among these distances:
223 15 0.06
224 69 0.26
225 1 0.00
226 31 0.12
227 6 0.02
228 1 0.00
229 5 0.02
230 5 0.02
231 77 0.29
232 2 0.01
233 3 0.01
234 50 0.19
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (228 bp):
TTATTAAAAACAACCCAAATACTTAATTAAAAATATTTAATTATGTAATACATATAACAAAATAT
TTAATTATAAAAACAATCCAAATATTTAATTAATTATTTATTTAACTAATTAATTATTAAAAACA
ATCCAAATATTTAATTAAAAATATTTAATTATTTAATTATATTATTAAATATTTAATAAATAAAA
ACAATCCAAATATTTAAATATTTAATTAATTAT
Found at i:4375214 original size:21 final size:21
Alignment explanation
Indices: 4375190--4375239 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
4375180 CTACAACTTA
*
4375190 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGC
*
4375211 AAGCAGAGGTAGCAGCGAGGC
1 AAGCAGAGGCAGCAGCGAGGC
4375232 AAG-AGAGG
1 AAGCAGAGG
4375240 GAAGCAGAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.36, C:0.16, G:0.46, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGGC
Found at i:4375245 original size:21 final size:21
Alignment explanation
Indices: 4375190--4375246 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
4375180 CTACAACTTA
* *
4375190 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGAAGCAGCGAGGC
*
4375211 AAGCAGAGGTAGCAGCGAGGC
1 AAGCAGAGGAAGCAGCGAGGC
4375232 AAG-AGAGGGAAGCAG
1 AAGCAGA-GGAAGCAG
4375247 AGGCAACAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 3 0.09
21 29 0.91
ACGTcount: A:0.37, C:0.16, G:0.46, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGAAGCAGCGAGGC
Found at i:4375758 original size:16 final size:16
Alignment explanation
Indices: 4375717--4375758 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4375707 GAAACAGAAT
4375717 TAAAAATAAAAGAAAG
1 TAAAAATAAAAGAAAG
* *
4375733 TATAATTAAAAGAAA-
1 TAAAAATAAAAGAAAG
4375748 TAGAAAATAAA
1 TA-AAAATAAA
4375759 GAAGTTGAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (16 bp):
TAAAAATAAAAGAAAG
Found at i:4376581 original size:19 final size:19
Alignment explanation
Indices: 4376557--4376599 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4376547 AAACATAAAT
4376557 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
4376576 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
4376595 TAAAT
1 TAAAT
4376600 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:4377362 original size:105 final size:106
Alignment explanation
Indices: 4377188--4377382 Score: 261
Period size: 105 Copynumber: 1.8 Consensus size: 106
4377178 TACATTGGAT
* * *
4377188 CTTTTGACGCGAAATGAAATGACACTCAAGCACTCTATCCCGGTTACTCAGCCCAACATACTCTC
1 CTTTTGACGCGAAATGAAATGACACTCAAACACTCCATCCCGGTTACTCAGCCCAACACACTCTC
* * *
4377253 AATTTTTTTCTTCTTTT-TTTTTTTGTAGAATGCATTAGCC
66 AATTTATTTATTATTTTCTTTTTTTGTAGAATGCATTAGCC
* * * *
4377293 CTTTTGACGCGAAGTGAAATGACAAC-CAAACACTCCATCCCGGTTACTCAGTCTAACACA-TTT
1 CTTTTGACGCGAAATGAAATGAC-ACTCAAACACTCCATCCCGGTTACTCAGCCCAACACACTCT
4377356 CGAATTTATTTATTATTTTCTTTTTTT
65 C-AATTTATTTATTATTTTCTTTTTTT
4377383 TATTCGGGTT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
104 3 0.04
105 65 0.84
106 9 0.12
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (106 bp):
CTTTTGACGCGAAATGAAATGACACTCAAACACTCCATCCCGGTTACTCAGCCCAACACACTCTC
AATTTATTTATTATTTTCTTTTTTTGTAGAATGCATTAGCC
Found at i:4378033 original size:4 final size:4
Alignment explanation
Indices: 4378024--4378050 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4378014 TTCTGGACAA
4378024 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
4378051 ATAAGACAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:4378054 original size:9 final size:9
Alignment explanation
Indices: 4378023--4378091 Score: 65
Period size: 8 Copynumber: 8.0 Consensus size: 9
4378013 TTTCTGGACA
4378023 AAAATAAAT
1 AAAATAAAT
4378032 -AAATAAAT
1 AAAATAAAT
4378040 -AAATAAAT
1 AAAATAAAT
*
4378048 AAAATAAGAC
1 AAAATAA-AT
*
4378058 AGAA-AAAT
1 AAAATAAAT
4378066 AAAA-AAAT
1 AAAATAAAT
*
4378074 AAAAAAAAT
1 AAAATAAAT
*
4378083 AAAAAAAAT
1 AAAATAAAT
4378092 TGGGTTGCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
8 28 0.53
9 21 0.40
10 4 0.08
ACGTcount: A:0.80, C:0.01, G:0.03, T:0.16
Consensus pattern (9 bp):
AAAATAAAT
Found at i:4379416 original size:11 final size:11
Alignment explanation
Indices: 4379385--4379426 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
4379375 CGCAACTTGG
4379385 ATTTTAAATTA
1 ATTTTAAATTA
* *
4379396 AGTTTGAATTA
1 ATTTTAAATTA
*
4379407 ATTTTAAATTT
1 ATTTTAAATTA
4379418 A-TTTAAATT
1 ATTTTAAATT
4379427 TAAATACATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (11 bp):
ATTTTAAATTA
Found at i:4379429 original size:22 final size:22
Alignment explanation
Indices: 4379385--4379426 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4379375 CGCAACTTGG
*
4379385 ATTTTAAATTAAGTTTGAATTA
1 ATTTTAAATTAAGTTTAAATTA
*
4379407 ATTTTAAATTTA-TTTAAATT
1 ATTTTAAATTAAGTTTAAATT
4379427 TAAATACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTTTAAATTAAGTTTAAATTA
Found at i:4381373 original size:30 final size:30
Alignment explanation
Indices: 4381339--4381669 Score: 100
Period size: 30 Copynumber: 11.2 Consensus size: 30
4381329 TTGACCCTAA
*
4381339 AACTTTCTAAAAATTGCATTTTT-ACCCCTG
1 AACTTTC-AAAAATTCCATTTTTAACCCCTG
*
4381369 AACTTTCCAAAATTCCATTTTTAACCCC-G
1 AACTTTCAAAAATTCCATTTTTAACCCCTG
*
4381398 -A-TTTCACCAAAGATTACCA-TTTT-ACCCCCG
1 AACTTTCA--AAA-ATT-CCATTTTTAACCCCTG
* * *
4381428 AA-ATTCGTAAAATTCCATTTTTAACACC-G
1 AACTTTC-AAAAATTCCATTTTTAACCCCTG
*
4381457 -A-TTTCACCAAAAATTACCA-TTTT-ACCCCTA
1 AACTTT---CAAAAATT-CCATTTTTAACCCCTG
* ** * *
4381487 AACATTGTAAAATCCCATTTTTTAA--CCTC
1 AACTTTCAAAAATTCCA-TTTTTAACCCCTG
4381516 AA-TTTCACCAAAAATTACCA-TTTT-ACCCCTG
1 AACTTT---CAAAAATT-CCATTTTTAACCCCTG
* *
4381547 AACTTTCTAAAATCCCATTTTTAACCCC-G
1 AACTTTCAAAAATTCCATTTTTAACCCCTG
* ** *
4381576 ATCTCACCAGAAATTACCA-TTTT-A-CCCTCG
1 AACT-TTCAAAAATT-CCATTTTTAACCCCT-G
* * *
4381606 AATTTTCCAAAATCCCATTTTTAA-CCCT-
1 AACTTTCAAAAATTCCATTTTTAACCCCTG
*
4381634 AATTTTACCAAAAATTACCA-TTTT-ACCCCTG
1 AACTTT--CAAAAATT-CCATTTTTAACCCCTG
4381665 AACTT
1 AACTT
4381670 CCCAAGATTT
Statistics
Matches: 223, Mismatches: 38, Indels: 79
0.66 0.11 0.23
Matches are distributed among these distances:
27 4 0.02
28 27 0.12
29 70 0.31
30 81 0.36
31 33 0.15
32 8 0.04
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (30 bp):
AACTTTCAAAAATTCCATTTTTAACCCCTG
Found at i:4381421 original size:59 final size:59
Alignment explanation
Indices: 4381358--4381838 Score: 513
Period size: 59 Copynumber: 8.2 Consensus size: 59
4381348 AAAATTGCAT
* *
4381358 TTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAGATTACCA
1 TTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCA
* * * * *
4381417 TTTTACCCCCGAA-ATTCGTAAAATTCCATTTTTAACACCGATTTCACCAAAAATTACCA
1 TTTTACCCCTGAACTTTC-CAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCA
* * ** * *
4381476 TTTTACCCCTAAACATTGTAAAATCCCATTTTTTAACCTCAATTTCACCAAAAATTACCA
1 TTTTACCCCTGAACTTTCCAAAATCCCA-TTTTTAACCCCGATTTCACCAAAAATTACCA
* * *
4381536 TTTTACCCCTGAACTTTCTAAAATCCCATTTTTAACCCCGATCTCACCAGAAATTACCA
1 TTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCA
* ** *
4381595 TTTTA-CCCTCGAATTTTCCAAAATCCCATTTTTAACCCTAATTTTACCAAAAATTACCA
1 TTTTACCCCT-GAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCA
* * *** * *
4381654 TTTTACCCCTGAACTTCCCAAGATTTTATTTTTAACTCCGGTTTCACCAAAAATTACCA
1 TTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCA
* * * * *
4381713 TTTTACCCTTGAACTTTCTAAAA-CCCTATTTTTAGCCCCGATTTTACC-AATATTACCA
1 TTTTACCCCTGAACTTTCCAAAATCCC-ATTTTTAACCCCGATTTCACCAAAAATTACCA
* * * * * ** **
4381771 CTTTACCCGTAAACTTTCCAAAATTCTATTTTTGGCCCTAATTTCACCAAAAATTA-CA
1 TTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCA
4381829 TTTTGACCCC
1 TTTT-ACCCC
4381839 CGAAAGTCAA
Statistics
Matches: 351, Mismatches: 62, Indels: 18
0.81 0.14 0.04
Matches are distributed among these distances:
58 57 0.16
59 234 0.67
60 60 0.17
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.36
Consensus pattern (59 bp):
TTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCA
Found at i:4381646 original size:178 final size:175
Alignment explanation
Indices: 4381358--4381838 Score: 569
Period size: 178 Copynumber: 2.7 Consensus size: 175
4381348 AAAATTGCAT
* *
4381358 TTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAGATTACCATTTTAC
1 TTTTACCCCTGAACTTTCTAAAATCCCATTTTTAACCCCGATTTCACCAAA-ATTACCATTTTAC
* * * *
4381423 CCCCGAAATTCGTAAAATTCCATTTTTAACACC-GATTTCACCAAAAATTACCATTTTACCCCTA
65 CCTCGAATTTC-CAAAATTCCATTTTTAAC-CCTAATTTCACCAAAAATTACCATTTTACCCCTA
**
4381487 AACATT-GTAAAATCCCATTTTTTAAC-CTCAATTTCACCAAAAATTACCA
128 AAC-TTCCCAAAATCCCA-TTTTTAACTC-CAATTTCACCAAAAATTACCA
*
4381536 TTTTACCCCTGAACTTTCTAAAATCCCATTTTTAACCCCGATCTCACCAGAAATTACCATTTTAC
1 TTTTACCCCTGAACTTTCTAAAATCCCATTTTTAACCCCGATTTCACCA-AAATTACCATTTTAC
* * *
4381601 CCTCGAATTTTCCAAAATCCCATTTTTAACCCTAATTTTACCAAAAATTACCATTTTACCCCTGA
65 CCTCGAA-TTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAATTACCATTTTACCCCTAA
* *** **
4381666 ACTTCCCAAGATTTTATTTTTAACTCCGGTTTCACCAAAAATTACCA
129 ACTTCCCAAAATCCCATTTTTAACTCCAATTTCACCAAAAATTACCA
* * * * *
4381713 TTTTACCCTTGAACTTTCTAAAA-CCCTATTTTTAGCCCCGATTTTACCAATATTACCACTTTAC
1 TTTTACCCCTGAACTTTCTAAAATCCC-ATTTTTAACCCCGATTTCACCAAAATTACCATTTTAC
* * **
4381777 CCGT-AAACTTTCCAAAATTCTATTTTTGGCCCTAATTTCACCAAAAATTA-CATTTTGACCCC
65 CC-TCGAA-TTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAATTACCATTTT-ACCCC
4381839 CGAAAGTCAA
Statistics
Matches: 264, Mismatches: 31, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
175 6 0.02
176 62 0.23
177 73 0.28
178 118 0.45
179 5 0.02
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.36
Consensus pattern (175 bp):
TTTTACCCCTGAACTTTCTAAAATCCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACC
CTCGAATTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAATTACCATTTTACCCCTAAAC
TTCCCAAAATCCCATTTTTAACTCCAATTTCACCAAAAATTACCA
Found at i:4388729 original size:16 final size:16
Alignment explanation
Indices: 4388688--4388729 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4388678 GAAACAGAAT
4388688 TAAAAATAAAAGAAAG
1 TAAAAATAAAAGAAAG
* *
4388704 TATAATTAAAAGAAA-
1 TAAAAATAAAAGAAAG
4388719 TAGAAAATAAA
1 TA-AAAATAAA
4388730 GAAGTTGAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (16 bp):
TAAAAATAAAAGAAAG
Found at i:4389553 original size:19 final size:19
Alignment explanation
Indices: 4389529--4389571 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
4389519 AAACATAAAT
4389529 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
*
4389548 TAAATAATATCTTAAATAA
1 TAAATAAAATCTTAAATAA
4389567 TAAAT
1 TAAAT
4389572 CCTAATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:4389894 original size:43 final size:43
Alignment explanation
Indices: 4389846--4390116 Score: 353
Period size: 43 Copynumber: 6.3 Consensus size: 43
4389836 AATCTGTTAA
* * * *
4389846 TTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAGATCGTGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
* ***
4389889 TTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAAGATTGTGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
* **
4389932 TTTAGCGGCGTTTGTGGAAAAAGCGTTGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
* * * *
4389975 TTTAGCGGCGTTTGTGGGGAAAGTGTCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
* *
4390018 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGATC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
* * *
4390061 TTTAGCGGCATTTGTTTGGAAAAGCGCCGCTAAAGACCTTGTTC
1 TTTAGCGGCGTTTG-TGGGAAAAGCGCCGCTAAAGACCATGTTC
4390105 TTTAGCGGCGTT
1 TTTAGCGGCGTT
4390117 ATCTTTAGCG
Statistics
Matches: 201, Mismatches: 26, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
43 165 0.82
44 36 0.18
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
Found at i:4392800 original size:24 final size:25
Alignment explanation
Indices: 4392763--4392809 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
4392753 TCACACACAC
4392763 GTTTATATAGATTAGATTTTATTTA
1 GTTTATATAGATTAGATTTTATTTA
* *
4392788 GTTTA-ATTGATTAGGTTTTATT
1 GTTTATATAGATTAGATTTTATT
4392810 CTTAATTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (25 bp):
GTTTATATAGATTAGATTTTATTTA
Found at i:4400664 original size:7 final size:7
Alignment explanation
Indices: 4400648--4400680 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
4400638 TTTGGCTATT
*
4400648 TATATTA
1 TATATGA
4400655 TATATGA
1 TATATGA
4400662 TATATGA
1 TATATGA
4400669 TATATGA
1 TATATGA
4400676 TATAT
1 TATAT
4400681 TGCTTTGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (7 bp):
TATATGA
Found at i:4401235 original size:130 final size:130
Alignment explanation
Indices: 4401002--4401261 Score: 493
Period size: 130 Copynumber: 2.0 Consensus size: 130
4400992 ATTCGATGAT
* *
4401002 CGGGTATAGTGGATCAATATCCATTTGCAAGTAGAATAAGATATTTTAAATCCAAGTTGATTCGA
1 CGGGTATAGTAGATCAATATCCATTGGCAAGTAGAATAAGATATTTTAAATCCAAGTTGATTCGA
*
4401067 CGGTCAGTGTCAGAGATTGAAGAATGAAACTACTTTTATTTTGGTTTGTAGATTCATGATGTCTA
66 CGGTCAGTGTCAGAGATTGAAGAATGAAACTACTTTTATTTTGGTTTGTAGATCCATGATGTCTA
4401132 CGGGTATAGTAGATCAATATCCATTGGCAAGTAGAATAAGATATTTTAAATCCAAGTTGATTCGA
1 CGGGTATAGTAGATCAATATCCATTGGCAAGTAGAATAAGATATTTTAAATCCAAGTTGATTCGA
4401197 CGGTCAGTGTCAGAGATTGAAGAATGAAACTACTTTTATTTTGGTTTGTAGATCCATGATGTCTA
66 CGGTCAGTGTCAGAGATTGAAGAATGAAACTACTTTTATTTTGGTTTGTAGATCCATGATGTCTA
4401262 AAGTTGTTTT
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 127 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.35
Consensus pattern (130 bp):
CGGGTATAGTAGATCAATATCCATTGGCAAGTAGAATAAGATATTTTAAATCCAAGTTGATTCGA
CGGTCAGTGTCAGAGATTGAAGAATGAAACTACTTTTATTTTGGTTTGTAGATCCATGATGTCTA
Found at i:4405148 original size:4 final size:4
Alignment explanation
Indices: 4405139--4405163 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4405129 GGCAGGCCAG
4405139 CTCA CTCA CTCA CTCA CTCA CTCA C
1 CTCA CTCA CTCA CTCA CTCA CTCA C
4405164 ACACACTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.52, G:0.00, T:0.24
Consensus pattern (4 bp):
CTCA
Found at i:4426378 original size:16 final size:16
Alignment explanation
Indices: 4426357--4426388 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4426347 AATTGTTTTC
4426357 TATTTATTTGAACGAT
1 TATTTATTTGAACGAT
4426373 TATTTATTTGAACGAT
1 TATTTATTTGAACGAT
4426389 GAATAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (16 bp):
TATTTATTTGAACGAT
Found at i:4427937 original size:23 final size:26
Alignment explanation
Indices: 4427890--4427938 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 26
4427880 AATTATAGAG
*
4427890 AGAAAATTCTCTTGAGAGATTATTTT
1 AGAAAATTCTCTTGAGAGATAATTTT
4427916 AGAAAATT-TC-T-AGAGATAATTTT
1 AGAAAATTCTCTTGAGAGATAATTTT
4427939 TTGATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 11 0.50
24 1 0.05
25 2 0.09
26 8 0.36
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (26 bp):
AGAAAATTCTCTTGAGAGATAATTTT
Found at i:4427940 original size:25 final size:26
Alignment explanation
Indices: 4427890--4427940 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
4427880 AATTATAGAG
* *
4427890 AGAAAATTCTCTTGAGAGATTATTTT
1 AGAAAATTCTCTAGAGAAATTATTTT
4427916 AGAAAATT-TCTAGAGATAATT-TTTT
1 AGAAAATTCTCTAGAGA-AATTATTTT
4427941 GATTTATAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (26 bp):
AGAAAATTCTCTAGAGAAATTATTTT
Found at i:4445482 original size:35 final size:35
Alignment explanation
Indices: 4445443--4445512 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
4445433 CAATTCAAAA
4445443 GGAATGACAAAATGTGTCCCATCAGAGACATCCTT
1 GGAATGACAAAATGTGTCCCATCAGAGACATCCTT
4445478 GGAATGACAAAATGTGTCCCATCAGAGACATCCTT
1 GGAATGACAAAATGTGTCCCATCAGAGACATCCTT
4445513 CCATGCATCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (35 bp):
GGAATGACAAAATGTGTCCCATCAGAGACATCCTT
Found at i:4465823 original size:29 final size:29
Alignment explanation
Indices: 4465790--4465845 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
4465780 AAAATATAAT
* *
4465790 TTTTAAAAAATTAAATTAAAATTTTATTA
1 TTTTAAAAAATCAAAGTAAAATTTTATTA
*
4465819 TTTTAAAAAGTCAAAGTAAAATTTTAT
1 TTTTAAAAAATCAAAGTAAAATTTTAT
4465846 CTTTATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (29 bp):
TTTTAAAAAATCAAAGTAAAATTTTATTA
Found at i:4467005 original size:22 final size:22
Alignment explanation
Indices: 4466962--4467005 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4466952 TCGATTTTTT
* *
4466962 TTTTTATGAATGATCAATGAGA
1 TTTTTATGAATGAACAAGGAGA
4466984 TTTTTATGAA-GAACGAAGGAGA
1 TTTTTATGAATGAAC-AAGGAGA
4467006 AGAAAGAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.34
Consensus pattern (22 bp):
TTTTTATGAATGAACAAGGAGA
Found at i:4469892 original size:19 final size:19
Alignment explanation
Indices: 4469868--4469907 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
4469858 TAATATATGG
4469868 AGGTTTATGATACTTTTAC
1 AGGTTTATGATACTTTTAC
4469887 AGGTTTATGATACTTTTAC
1 AGGTTTATGATACTTTTAC
4469906 AG
1 AG
4469908 TAATTCTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (19 bp):
AGGTTTATGATACTTTTAC
Found at i:4476030 original size:27 final size:29
Alignment explanation
Indices: 4476000--4476059 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
4475990 TCTTATAGTT
4476000 TTTTCATATTTAA-AAATTAGTC-TTTTA
1 TTTTCATATTTAAGAAATTAGTCATTTTA
* * * *
4476027 TTTTTATTTTTAAGAATTTAGTCATTTTG
1 TTTTCATATTTAAGAAATTAGTCATTTTA
4476056 TTTT
1 TTTT
4476060 TTGGGTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 11 0.41
28 8 0.30
29 8 0.30
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.62
Consensus pattern (29 bp):
TTTTCATATTTAAGAAATTAGTCATTTTA
Found at i:4476047 original size:28 final size:29
Alignment explanation
Indices: 4475999--4476060 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
4475989 TTCTTATAGT
4475999 TTTTTCATATTTAAAAATTAGTC-TTTTA
1 TTTTTCATATTTAAAAATTAGTCATTTTA
* * *
4476027 TTTTT-ATTTTTAAGAATTTAGTCATTTTG
1 TTTTTCATATTTAA-AAATTAGTCATTTTA
4476056 TTTTT
1 TTTTT
4476061 TGGGTTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 7 0.24
28 13 0.45
29 9 0.31
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.63
Consensus pattern (29 bp):
TTTTTCATATTTAAAAATTAGTCATTTTA
Found at i:4477441 original size:3 final size:3
Alignment explanation
Indices: 4477433--4477461 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4477423 TATAATTTTA
4477433 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4477462 ATACTCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4486291 original size:3 final size:3
Alignment explanation
Indices: 4486283--4486317 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4486273 TTTAGGGCAT
4486283 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
4486318 AATGAAGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:4486668 original size:16 final size:16
Alignment explanation
Indices: 4486647--4486680 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4486637 GTAATTTTGT
*
4486647 TGGTTGTTGCTTCTCA
1 TGGTTGTTACTTCTCA
4486663 TGGTTGTTACTTCTCA
1 TGGTTGTTACTTCTCA
4486679 TG
1 TG
4486681 CCTGCTGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.18, G:0.24, T:0.50
Consensus pattern (16 bp):
TGGTTGTTACTTCTCA
Found at i:4486999 original size:13 final size:13
Alignment explanation
Indices: 4486981--4487005 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4486971 TTGCCAAATT
4486981 TGATAGGAAACTA
1 TGATAGGAAACTA
4486994 TGATAGGAAACT
1 TGATAGGAAACT
4487006 TTACAAAAAG
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:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (13 bp):
TGATAGGAAACTA
Found at i:4487515 original size:21 final size:21
Alignment explanation
Indices: 4487490--4487540 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
4487480 TCCATTTGCA
4487490 ACTGAGTTGTGCTGCTCACTT
1 ACTGAGTTGTGCTGCTCACTT
* *
4487511 GCTGAGATGTGCTGCTCACTT
1 ACTGAGTTGTGCTGCTCACTT
4487532 ACTGAGTTG
1 ACTGAGTTG
4487541 GGGTCCACAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (21 bp):
ACTGAGTTGTGCTGCTCACTT
Found at i:4488240 original size:11 final size:11
Alignment explanation
Indices: 4488207--4488240 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
4488197 AAACACCACT
4488207 CAATATAAAGC
1 CAATATAAAGC
*
4488218 CAACATTAAAGC
1 CAATA-TAAAGC
4488230 CAATATAAAGC
1 CAATATAAAGC
4488241 AGACATAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (11 bp):
CAATATAAAGC
Found at i:4488246 original size:23 final size:22
Alignment explanation
Indices: 4488207--4488250 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
4488197 AAACACCACT
4488207 CAATATAAAGCCAACATTAAAGC
1 CAATATAAAGCCAACA-TAAAGC
4488230 CAATATAAAG-CAGACATAAAG
1 CAATATAAAGCCA-ACATAAAG
4488251 TCATCGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.55, C:0.18, G:0.11, T:0.16
Consensus pattern (22 bp):
CAATATAAAGCCAACATAAAGC
Done.