Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 16 of 295
Found at i:4763308 original size:19 final size:18
Alignment explanation
Indices: 4763273--4763308 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4763263 TTAACTTTTA
*
4763273 TCAAATTAACTCTAAAAC
1 TCAAATTAACACTAAAAC
4763291 TCAAATTAAACACTAAAA
1 TCAAATT-AACACTAAAA
4763309 AGTTAACAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (18 bp):
TCAAATTAACACTAAAAC
Found at i:4763902 original size:3 final size:3
Alignment explanation
Indices: 4763894--4763918 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4763884 ATTTGAATGC
4763894 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
4763919 TTATTTGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:4764307 original size:22 final size:22
Alignment explanation
Indices: 4764282--4764355 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
4764272 AAATTCTTCT
4764282 ATTAAATCTAAAAAATAGAAAG
1 ATTAAATCTAAAAAATAGAAAG
*
4764304 ATTAAATTCCT-TAAAAT-GAAA-
1 ATTAAA-T-CTAAAAAATAGAAAG
* *
4764325 ATCATACATCTAAAAATTAGAAAG
1 AT--TAAATCTAAAAAATAGAAAG
4764349 ATTAAAT
1 ATTAAAT
4764356 TCCTTAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 14
0.68 0.08 0.24
Matches are distributed among these distances:
21 4 0.10
22 19 0.47
23 13 0.32
24 4 0.10
ACGTcount: A:0.57, C:0.08, G:0.07, T:0.28
Consensus pattern (22 bp):
ATTAAATCTAAAAAATAGAAAG
Found at i:4764376 original size:45 final size:45
Alignment explanation
Indices: 4764287--4764376 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
4764277 CTTCTATTAA
4764287 ATCTAAAAAATAGAAAGATTAAATTCCTTAAAATGAAAATCATAC
1 ATCTAAAAAATAGAAAGATTAAATTCCTTAAAATGAAAATCATAC
*
4764332 ATCTAAAAATTAGAAAGATTAAATTCCTTAAAATGAAAATCATAC
1 ATCTAAAAAATAGAAAGATTAAATTCCTTAAAATGAAAATCATAC
4764377 TTTTGTAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.28
Consensus pattern (45 bp):
ATCTAAAAAATAGAAAGATTAAATTCCTTAAAATGAAAATCATAC
Found at i:4772439 original size:11 final size:11
Alignment explanation
Indices: 4772423--4772461 Score: 60
Period size: 11 Copynumber: 3.4 Consensus size: 11
4772413 TGGAGAAAAT
4772423 TTTTATATTAA
1 TTTTATATTAA
4772434 TTTTATATTAA
1 TTTTATATTAA
4772445 TATTTATATATAA
1 T-TTTATAT-TAA
4772458 TTTT
1 TTTT
4772462 TAAATTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 12 0.46
12 10 0.38
13 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTTATATTAA
Found at i:4772462 original size:25 final size:24
Alignment explanation
Indices: 4772419--4772474 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
4772409 AAAATGGAGA
* *
4772419 AAATTTTTATATTAATTTTATATT
1 AAATATTTATATTAATTTTAAATT
4772443 -AATATTTATATATAATTTTTAAATT
1 AAATATTTATAT-TAA-TTTTAAATT
4772468 AAATATT
1 AAATATT
4772475 GATTCAGATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 10 0.37
24 3 0.11
25 8 0.30
26 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
AAATATTTATATTAATTTTAAATT
Found at i:4777883 original size:22 final size:21
Alignment explanation
Indices: 4777853--4777915 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
4777843 TTTTCTCAAA
* *
4777853 TTTAGTAAACCAAAATCATTTT
1 TTTAATAAAACAAAAT-ATTTT
*
4777875 TTTAATAAAATAAAATATTTT
1 TTTAATAAAACAAAATATTTT
*
4777896 ATTAA-AACAATCAAAATATT
1 TTTAATAA-AA-CAAAATATT
4777916 AGGTGATCCG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.06
21 11 0.32
22 21 0.62
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (21 bp):
TTTAATAAAACAAAATATTTT
Found at i:4777900 original size:21 final size:22
Alignment explanation
Indices: 4777863--4777915 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
4777853 TTTAGTAAAC
*
4777863 CAAAATCATTTTTTTAATAA-AAT
1 CAAAAT-ATTTTATTAA-AACAAT
4777886 -AAAATATTTTATTAAAACAAT
1 CAAAATATTTTATTAAAACAAT
4777907 CAAAATATT
1 CAAAATATT
4777916 AGGTGATCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 2 0.07
21 12 0.44
22 13 0.48
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.40
Consensus pattern (22 bp):
CAAAATATTTTATTAAAACAAT
Found at i:4789150 original size:88 final size:88
Alignment explanation
Indices: 4789025--4789230 Score: 313
Period size: 88 Copynumber: 2.3 Consensus size: 88
4789015 TTTTGGCAAA
* * * * *
4789025 TCTTATCTTCCTGAAGTTGCAATGAAGTAGATTGAAACCACTAACTTTATCTCCTTGAAGATACG
1 TCTTATCTTCCTGAAGTTGCAGTGAAGCAGATCGAAACCACTAACCTTATCTCCCTGAAGATACG
4789090 GCGGAGTAGACTGAAGTTACAAG
66 GCGGAGTAGACTGAAGTTACAAG
*
4789113 TCTTATCTTCCTGAAGTTACAGTGAAGCAGATCGAAACCACTAACCTTATCTCCCTGAAGATACG
1 TCTTATCTTCCTGAAGTTGCAGTGAAGCAGATCGAAACCACTAACCTTATCTCCCTGAAGATACG
* **
4789178 GTGGAGTAGGTTGAAGTTACAAG
66 GCGGAGTAGACTGAAGTTACAAG
* *
4789201 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 TCTTATCTTCCTGAAGTTGCAGTGAAGCAG
4789231 GCTGAAGGTA
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 106 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (88 bp):
TCTTATCTTCCTGAAGTTGCAGTGAAGCAGATCGAAACCACTAACCTTATCTCCCTGAAGATACG
GCGGAGTAGACTGAAGTTACAAG
Found at i:4789226 original size:44 final size:44
Alignment explanation
Indices: 4789025--4789419 Score: 190
Period size: 44 Copynumber: 8.8 Consensus size: 44
4789015 TTTTGGCAAA
* * * * *** *
4789025 TCTTATCTTCCTGAAGTTGCAATGAAGTAGATTGAAACCACTAAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC-AAG
* * * * * * *
4789070 T-TTATCTCCTTGAAGATACGGCGGAGTAGACTGAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAG
* * * * ***
4789113 TCTTATCTTCCTGAAGTTACAGTGAAGCAGATCGAAACCACTAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC-AAG
* * * * * *
4789157 CCTTATCTCCCTGAAGATACGGTGGAGTAGGTTGAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAG
** *
4789201 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGGTAGCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-C-AAG
* * * * *
4789246 TCTTGTTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTGTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-T-TACA----AG
* * * * * *
4789296 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGA-TCAA--AACAAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAG
** * *
4789338 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAG
* * * *
4789383 TTTTGTTTCCCTGAAGTTGCAGTGGAACAGATTGAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
4789420 CTATAAATCA
Statistics
Matches: 257, Mismatches: 76, Indels: 34
0.70 0.21 0.09
Matches are distributed among these distances:
41 26 0.10
42 5 0.02
43 5 0.02
44 118 0.46
45 70 0.27
46 4 0.02
47 2 0.01
49 1 0.00
50 3 0.01
51 23 0.09
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAG
Found at i:4789460 original size:137 final size:139
Alignment explanation
Indices: 4789196--4789506 Score: 401
Period size: 137 Copynumber: 2.2 Consensus size: 139
4789186 GGTTGAAGTT
* * *
4789196 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGGTAGCGAATCTTGTTTTCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAAATCTTGTTTCCCTGAA
*** * * ** * * * *
4789261 GTTGCAGTGGAACAGATTGAAGCTATAAATTGTAGATCTTATCTCTCTGAAGTTACAGTAGAGTA
66 GTTGCAGTGGAACAGATTGAAGCTATAAATCACAGATCTTATCCCCCCAAAATGACAATAGAGCA
4789326 GATC-AAA-
131 GATCGAAAG
*
4789333 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAAATTTTGTTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAAATCTTGTTTCCCTGAA
*
4789398 GTTGCAGTGGAACAGATTGAAGCTATAAATCACAGATCTTATCCCCCCAAAATGGCAATAGAGCA
66 GTTGCAGTGGAACAGATTGAAGCTATAAATCACAGATCTTATCCCCCCAAAATGACAATAGAGCA
*
4789463 GGTCGAAAG
131 GATCGAAAG
* ** * *
4789472 TAAAAACCTCATCTTCCTGAAGTTGCAGTGGAGCA
1 -ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
4789507 AGTTAAAAGA
Statistics
Matches: 149, Mismatches: 22, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
137 117 0.79
138 3 0.02
140 29 0.19
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (139 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAAATCTTGTTTCCCTGAA
GTTGCAGTGGAACAGATTGAAGCTATAAATCACAGATCTTATCCCCCCAAAATGACAATAGAGCA
GATCGAAAG
Found at i:4797301 original size:23 final size:21
Alignment explanation
Indices: 4797275--4797317 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4797265 CCTACATTAA
*
4797275 TATTATAAATTTTTATATTTTTT
1 TATTAT-AATTTAT-TATTTTTT
4797298 TATTATAATTTATTATTTTT
1 TATTATAATTTATTATTTTT
4797318 ATACTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 6 0.32
23 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TATTATAATTTATTATTTTTT
Found at i:4797318 original size:19 final size:18
Alignment explanation
Indices: 4797290--4797328 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
4797280 TAAATTTTTA
4797290 TATTTTTTTATTA-TAATT
1 TATTTTTTTA-TACTAATT
4797308 TATTATTTTTATACTAATT
1 TATT-TTTTTATACTAATT
4797327 TA
1 TA
4797329 AAACATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTTTTTTATACTAATT
Found at i:4800816 original size:129 final size:130
Alignment explanation
Indices: 4800615--4800863 Score: 412
Period size: 129 Copynumber: 1.9 Consensus size: 130
4800605 TCTTTAAAAT
4800615 GAAGACGAAATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCG
1 GAAGACGAAATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCG
* * *
4800680 CGATTGCTCGAAATAATCGAATATCACTTC-AAATTTCACTCATATCTTTTAAAATCCCTTAAAC
66 CGATTGCTCAAAATAATCGAATATCACTTCAAAATTCCACTCATATCTTCTAAAATCCCTTAAAC
* * *
4800744 GAAGACGAGATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCG
1 GAAGACGAAATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCG
*
4800809 C-ATTTGCTCAAAATAATCGAATATCACTTCAAAATTCCACTCATGTCTTCTAAAA
66 CGA-TTGCTCAAAATAATCGAATATCACTTCAAAATTCCACTCATATCTTCTAAAA
4800864 ATCTTTTAAA
Statistics
Matches: 111, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
128 1 0.01
129 89 0.80
130 21 0.19
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (130 bp):
GAAGACGAAATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCG
CGATTGCTCAAAATAATCGAATATCACTTCAAAATTCCACTCATATCTTCTAAAATCCCTTAAAC
Found at i:4800938 original size:131 final size:129
Alignment explanation
Indices: 4800632--4800963 Score: 400
Period size: 129 Copynumber: 2.6 Consensus size: 129
4800622 AAATTCGATA
* *
4800632 TTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGA-TTGCTCGAAATAA
1 TTTGACAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGC-ATTTGCTCAAAATAA
* * * **
4800696 TCGAATATCACTTCAAATTTCACTCATATCTTTTAAAATCCCTTAAACGAAGACGAGATTTGATG
65 TCGAATATCACTTCAAATTCCACTCATATCTTTAAAAATCCCTTAAACAAAGACGAGATCAGATG
*
4800761 TTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTCAAAATAAT
1 TTTGACAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTCAAAATAAT
* ** * *
4800826 CGAATATCACTTCAAAATTCCACTCATGTCTTCTAAAAATCTTTTAAAACAAAGGCGATACTCAG
66 CGAATATCACTTC-AAATTCCACTCATATCTT-TAAAAATCCCTT-AAACAAAGACGAGA-TCAG
4800891 -TG
127 ATG
* * * * * ** * *
4800893 TTTGATAATTCG-TGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCATTTGCTCAAAACAAT
1 TTTGACAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTCAAAATAAT
4800957 CGAATAT
66 CGAATAT
4800964 TCCTTTAAGT
Statistics
Matches: 177, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
128 1 0.01
129 75 0.42
130 16 0.09
131 60 0.34
132 23 0.13
133 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (129 bp):
TTTGACAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTCAAAATAAT
CGAATATCACTTCAAATTCCACTCATATCTTTAAAAATCCCTTAAACAAAGACGAGATCAGATG
Found at i:4800981 original size:131 final size:131
Alignment explanation
Indices: 4800626--4801112 Score: 346
Period size: 131 Copynumber: 3.7 Consensus size: 131
4800616 AAGACGAAAT
* * * * * * * * *
4800626 TCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGA-TTGCTCG
1 TCGATGTTTGACAATTCG-AGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTC-ATTTGCTCA
* * * * **** * *
4800690 AAATAATCGAATATCACTTC-AAATTTCACTCATATCTT-TTAAAATCCCTT--AAACGAAGACG
64 AAACAATCGAATATCACTTCAAAATTCCACTCATGT-TTACTAAAAAATTTTCAAAACAAAGGCG
* *
4800751 AGAT
128 ACAC
* * * * * * * *
4800755 TTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTCAA
1 TCGATGTTTGACAATTCG-AGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTCAA
* *
4800820 AATAATCGAATATCACTTCAAAATTCCACTCATGTCTT-CT-AAAAATCTTTTAAAACAAAGGCG
65 AACAATCGAATATCACTTCAAAATTCCACTCATGT-TTACTAAAAAAT-TTTCAAAACAAAGGCG
*
4800883 ATAC
128 ACAC
* * *
4800887 TC-AGTGTTTGATAATTCGTGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCATTTGCTCAA
1 TCGA-TGTTTGACAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTCAA
* ** * * *
4800951 AACAATCGAATATTC-CTTTAAGTTTTCACTCATGTTTATTAAAAAATTTTCAAAACGAAGGCGA
65 AACAATCGAATA-TCACTTCAAAATTCCACTCATGTTTACTAAAAAATTTTCAAAACAAAGGCGA
**
4801015 CGT
129 CAC
* * * * *
4801018 TCGATGTTTGGCAATTTGAGAATCGA-GCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGCTTAA
1 TCGATGTTTGACAATTCGAGAATC-ATGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTCAA
* * * * *
4801082 AACAATCAAAGATCCCTTCGAAATTTCACTC
65 AACAATCGAATATCACTTCAAAATTCCACTC
4801113 GTATTTTCTA
Statistics
Matches: 297, Mismatches: 49, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
128 1 0.00
129 82 0.28
130 23 0.08
131 157 0.53
132 34 0.11
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (131 bp):
TCGATGTTTGACAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTCAAA
ACAATCGAATATCACTTCAAAATTCCACTCATGTTTACTAAAAAATTTTCAAAACAAAGGCGACA
C
Found at i:4814976 original size:22 final size:23
Alignment explanation
Indices: 4814937--4814984 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
4814927 TCCATTTCTT
4814937 TTTTTTCAAGAACAAAAATCCCA
1 TTTTTTCAAGAACAAAAATCCCA
4814960 TTTTTTCAAGAACAAAAATCCCA
1 TTTTTTCAAGAACAAAAATCCCA
4814983 TT
1 TT
4814985 AATCTGCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.33
Consensus pattern (23 bp):
TTTTTTCAAGAACAAAAATCCCA
Found at i:4819083 original size:15 final size:16
Alignment explanation
Indices: 4819065--4819095 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4819055 TTTTTTTGTG
4819065 AACCTATAT-TTTTTA
1 AACCTATATATTTTTA
4819080 AACCTATATATTTTTA
1 AACCTATATATTTTTA
4819096 TACAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (16 bp):
AACCTATATATTTTTA
Found at i:4819871 original size:30 final size:30
Alignment explanation
Indices: 4819837--4819899 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
4819827 ACTTAACAAG
4819837 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* * *
4819867 CAAATGCGTTTAAAATAATAACAGAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
4819897 CAA
1 CAA
4819900 TAAAAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.14, G:0.06, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:4821351 original size:11 final size:11
Alignment explanation
Indices: 4821317--4821358 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
4821307 GGTGATAAAG
*
4821317 AAATTAAATAAA
1 AAATAAAAT-AA
*
4821329 AAATATAA-AA
1 AAATAAAATAA
4821339 AAATAAAATAA
1 AAATAAAATAA
4821350 AAATAAAAT
1 AAATAAAAT
4821359 TATGATTGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 11 0.42
12 6 0.23
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:4821354 original size:21 final size:22
Alignment explanation
Indices: 4821311--4821352 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4821301 ATTTTAGGTG
* *
4821311 ATAAAGAAATTAAATAAAAAAT
1 ATAAAAAAATAAAATAAAAAAT
4821333 ATAAAAAAATAAAATAAAAA
1 ATAAAAAAATAAAATAAAAA
4821353 TAAAATTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (22 bp):
ATAAAAAAATAAAATAAAAAAT
Found at i:4831371 original size:21 final size:21
Alignment explanation
Indices: 4831347--4831400 Score: 87
Period size: 20 Copynumber: 2.7 Consensus size: 21
4831337 CCCATTAAGC
4831347 CCCCCCAAAAAAAAAACCTAA
1 CCCCCCAAAAAAAAAACCTAA
4831368 CCCCCC-AAAAAAAAACCTAA
1 CCCCCCAAAAAAAAAACCTAA
4831388 --CCCCAAAAAAAAA
1 CCCCCCAAAAAAAAA
4831401 CCAAGAAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.12
19 8 0.25
20 14 0.44
21 6 0.19
ACGTcount: A:0.59, C:0.37, G:0.00, T:0.04
Consensus pattern (21 bp):
CCCCCCAAAAAAAAAACCTAA
Found at i:4831377 original size:20 final size:20
Alignment explanation
Indices: 4831347--4831402 Score: 89
Period size: 18 Copynumber: 2.9 Consensus size: 20
4831337 CCCATTAAGC
4831347 CCCCCCAAAAAAAAAACCTAA
1 CCCCCC-AAAAAAAAACCTAA
4831368 CCCCCCAAAAAAAAACCTAA
1 CCCCCCAAAAAAAAACCTAA
4831388 --CCCCAAAAAAAAACC
1 CCCCCCAAAAAAAAACC
4831403 AAGAAACCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 15 0.43
20 14 0.40
21 6 0.17
ACGTcount: A:0.57, C:0.39, G:0.00, T:0.04
Consensus pattern (20 bp):
CCCCCCAAAAAAAAACCTAA
Found at i:4833897 original size:12 final size:12
Alignment explanation
Indices: 4833880--4833915 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
4833870 ATTCATTTGA
4833880 CATTCATGCATT
1 CATTCATGCATT
4833892 CATTCATGCATT
1 CATTCATGCATT
*
4833904 CATTCATACATT
1 CATTCATGCATT
4833916 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:4842234 original size:68 final size:69
Alignment explanation
Indices: 4842117--4842287 Score: 215
Period size: 68 Copynumber: 2.5 Consensus size: 69
4842107 TTTTCAAGGG
*
4842117 AAATCAACTCATA-TGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-T
1 AAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
4842179 GTTTCA
65 GTTT-A
* * *
4842185 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTTAGTTTATG
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
*
4842249 TTTT
66 TTTA
** * *
4842253 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
4842288 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
68 65 0.71
69 24 0.26
70 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (69 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
TTTA
Found at i:4842408 original size:72 final size:71
Alignment explanation
Indices: 4842287--4842452 Score: 253
Period size: 72 Copynumber: 2.3 Consensus size: 71
4842277 GAGTTAAGCC
** *
4842287 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
4842351 TGAGGTA
65 TGAGGTA
*
4842358 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
4842423 TGAGGTA
65 TGAGGTA
* *
4842430 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
4842453 ACGTTGTTCA
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
71 12 0.14
72 71 0.82
73 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:4842726 original size:79 final size:77
Alignment explanation
Indices: 4842583--4842740 Score: 183
Period size: 79 Copynumber: 2.0 Consensus size: 77
4842573 TCTATTTCTA
* * * *
4842583 TTTTCAATTTACATTGTTCAAGAATCAACTCATATTGCGAGAGATGAGTTGAGCTTTAGATCACA
1 TTTTCAATTTACATTGTTCAAAAATCAACTCACATTGCGAGAGATGAGTTGAGCCTCAGATCACA
*
4842648 CATTGAGGTATT
66 CATCGAGGTATT
* * * *
4842660 TTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATG-TGAGTTGAGCCTCGGGTC
1 TTTTCAATTTACATTGTTC--AAAAATCAACTCACATTGCGAGA-GATGAGTTGAGCCTCAGATC
**
4842724 ACATGTCGAGGTATT
63 ACACATCGAGGTATT
4842739 TT
1 TT
4842741 CAAAATCTGT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
77 17 0.25
79 49 0.73
80 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (77 bp):
TTTTCAATTTACATTGTTCAAAAATCAACTCACATTGCGAGAGATGAGTTGAGCCTCAGATCACA
CATCGAGGTATT
Found at i:4842842 original size:88 final size:88
Alignment explanation
Indices: 4842681--4842842 Score: 218
Period size: 88 Copynumber: 1.8 Consensus size: 88
4842671 TATTTTTCAA
** * *
4842681 AAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCACATTGCGAGAAATGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
*
4842746 TCTGTTTTTCAGATTCTGTTTTC
66 TCTATTTTTCAGATTCTGTTTTC
* * * *
4842769 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTGGCTCACGTG-CTGAGCTATTTTCAAT
1 AAAAATCAACTCACATTGCGAGAAATGAGTTGAGCCTCGGCTCACATGTC-GAGCTATTTTCAAA
*
4842833 TTCTATTTTT
65 ATCTATTTTT
4842843 TTTTCAAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 1 0.02
88 62 0.98
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (88 bp):
AAAAATCAACTCACATTGCGAGAAATGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
TCTATTTTTCAGATTCTGTTTTC
Found at i:4842883 original size:82 final size:79
Alignment explanation
Indices: 4842764--4843008 Score: 253
Period size: 84 Copynumber: 3.0 Consensus size: 79
4842754 TCAGATTCTG
**
4842764 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
4842829 CAATTTCTATTTTT
66 CAATTTCTATTTTT
* *** ** * *
4842843 TTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTC-TGCGAGAGTT
1 TTTTC--AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC-CTTGGCTCACGTGC-TGAGCT
* *
4842907 GA-GTTGAGACTTT-TAATTTCTGT
61 -ATTTTCA-A-TTTCT-ATTT-T-T
4842930 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
*
4842995 CAATTTCTGTTTTT
66 CAATTTCTATTTTT
4843009 AATGTATGTT
Statistics
Matches: 129, Mismatches: 23, Indels: 28
0.72 0.13 0.16
Matches are distributed among these distances:
79 6 0.05
80 1 0.01
81 11 0.09
82 34 0.26
83 22 0.17
84 36 0.28
85 12 0.09
86 1 0.01
87 6 0.05
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (79 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
CAATTTCTATTTTT
Found at i:4842903 original size:30 final size:30
Alignment explanation
Indices: 4842867--4842928 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
4842857 CAACTCATAT
4842867 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGAC-TTTTAATTTC
*
4842897 TGCGAGAGTTGAGTTGAGACTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGACTTTTAATTTC
4842927 TG
1 TG
4842929 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.21, C:0.10, G:0.29, T:0.40
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGACTTTTAATTTC
Found at i:4847990 original size:40 final size:40
Alignment explanation
Indices: 4847945--4848023 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
4847935 TTTCATAAAT
4847945 TTTATATAGTTAAGCATTTGTTAAAGAGTTTCAAAAAAAA
1 TTTATATAGTTAAGCATTTGTTAAAGAGTTTCAAAAAAAA
*
4847985 TTTATATAGTTAAGCATTTGTTAAAGAGTTTCAGAAAAA
1 TTTATATAGTTAAGCATTTGTTAAAGAGTTTCAAAAAAA
4848024 TGAATGTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (40 bp):
TTTATATAGTTAAGCATTTGTTAAAGAGTTTCAAAAAAAA
Found at i:4867345 original size:2 final size:2
Alignment explanation
Indices: 4867338--4867370 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4867328 GTTGAGAAAG
4867338 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4867371 TTCAAGATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4868847 original size:21 final size:20
Alignment explanation
Indices: 4868814--4868855 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
4868804 AAAAAACAAT
*
4868814 TTAATTACTTTAAGTAGGAAA
1 TTAATTACTTTAAATA-GAAA
4868835 TTAATT-CTCTTAAATAGAAA
1 TTAATTACT-TTAAATAGAAA
4868855 T
1 T
4868856 CAGTAGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (20 bp):
TTAATTACTTTAAATAGAAA
Found at i:4874972 original size:14 final size:14
Alignment explanation
Indices: 4874953--4874982 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4874943 TATCTTATAA
4874953 ATATGCGTGAATCT
1 ATATGCGTGAATCT
*
4874967 ATATGCGTTAATCT
1 ATATGCGTGAATCT
4874981 AT
1 AT
4874983 CTTGAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (14 bp):
ATATGCGTGAATCT
Found at i:4877420 original size:18 final size:19
Alignment explanation
Indices: 4877383--4877423 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4877373 ATTTAGAATC
4877383 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
4877402 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
4877420 AAAA
1 AAAA
4877424 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:4877425 original size:31 final size:31
Alignment explanation
Indices: 4877349--4877422 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
4877339 TCAAGTTATC
*
4877349 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATCTAGAA
*
4877381 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATCTAGAA
4877411 TTAAATATAAAA
1 TTAAATATAAAA
4877423 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATCTAGAA
Found at i:4881566 original size:16 final size:16
Alignment explanation
Indices: 4881545--4881579 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
4881535 TATGCAACTG
4881545 TAATTAATCCCATCGT
1 TAATTAATCCCATCGT
4881561 TAATTAATCCCATCGT
1 TAATTAATCCCATCGT
4881577 TAA
1 TAA
4881580 CTGGAGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (16 bp):
TAATTAATCCCATCGT
Found at i:4882674 original size:14 final size:14
Alignment explanation
Indices: 4882657--4882687 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4882647 AACCATACAT
4882657 CCTAAAACATGAAC
1 CCTAAAACATGAAC
*
4882671 CCTAAATCATGAAC
1 CCTAAAACATGAAC
4882685 CCT
1 CCT
4882688 TAACCCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.32, G:0.06, T:0.19
Consensus pattern (14 bp):
CCTAAAACATGAAC
Found at i:4882699 original size:14 final size:14
Alignment explanation
Indices: 4882682--4882739 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
4882672 CTAAATCATG
*
4882682 AACCCTTAACCCTT
1 AACCCCTAACCCTT
4882696 AACCCCTAACACC-T
1 AACCCCTAAC-CCTT
*
4882710 AACCCCTAAACCTT
1 AACCCCTAACCCTT
*
4882724 AAACTCC-AACCCTT
1 -AACCCCTAACCCTT
4882738 AA
1 AA
4882740 ACCACACTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
13 4 0.11
14 26 0.70
15 7 0.19
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.21
Consensus pattern (14 bp):
AACCCCTAACCCTT
Found at i:4883354 original size:41 final size:41
Alignment explanation
Indices: 4883294--4883441 Score: 199
Period size: 41 Copynumber: 3.6 Consensus size: 41
4883284 AAGGGTTATA
* *
4883294 TGATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATATTT
1 TGATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATACTC
* * * *
4883335 TGGTTTTTAGCGGTGTTTTACCAAAATCGCCGCTAATGCTC
1 TGATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATACTC
* *
4883376 TGATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTTCTC
1 TGATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATACTC
* *
4883417 TG-TTTTTAGCGGCATTTTAACAAAA
1 TGATTTTTAGCGGCGTTTTACCAAAA
4883442 AATGCCGGTA
Statistics
Matches: 94, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 21 0.22
41 73 0.78
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (41 bp):
TGATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATACTC
Found at i:4883506 original size:41 final size:41
Alignment explanation
Indices: 4883297--4883506 Score: 119
Period size: 41 Copynumber: 5.1 Consensus size: 41
4883287 GGTTATATGA
* ** * ** *
4883297 TTTTTAGCGGC-GTTTTACCAAAAGCGCCGCTAATATTTTGG
1 TTTTTAGCGGCATTTTTAAAAAAAGCGCCGCTATTGCTCT-G
** * *
4883338 TTTTTAGCGG--TGTTTTACCAAAATCGCCGCTAATGCTCTG
1 TTTTTAGCGGCAT-TTTTAAAAAAAGCGCCGCTATTGCTCTG
* ** *
4883378 ATTTTTAGCGGC-GTTTTACCAAAAGCGCCGCTATTTCTCTG
1 -TTTTTAGCGGCATTTTTAAAAAAAGCGCCGCTATTGCTCTG
** * *
4883419 TTTTTAGCGGCA-TTTTAACAAAAAATGCCGGTATTGCT-TCA
1 TTTTTAGCGGCATTTTTAA-AAAAAGCGCCGCTATTGCTCT-G
***
4883460 TTTTTAGCGGCATTTTTGGTAAAA-CGCCGCTATTGCTCTG
1 TTTTTAGCGGCATTTTTAAAAAAAGCGCCGCTATTGCTCTG
4883500 TGTTTTA
1 T-TTTTA
4883507 CAATTTTTGC
Statistics
Matches: 138, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
40 30 0.22
41 104 0.75
42 4 0.03
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (41 bp):
TTTTTAGCGGCATTTTTAAAAAAAGCGCCGCTATTGCTCTG
Found at i:4885044 original size:3 final size:3
Alignment explanation
Indices: 4885036--4885073 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4885026 AAGTAGTCAG
4885036 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4885074 GTTAGTAGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4888142 original size:29 final size:30
Alignment explanation
Indices: 4888083--4888140 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4888073 TCCGAGCCTT
*
4888083 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
4888113 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
4888141 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:4888369 original size:13 final size:13
Alignment explanation
Indices: 4888351--4888382 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4888341 TTTCCAGCAA
4888351 TTATGAATTTATT
1 TTATGAATTTATT
4888364 TTATGAATTTATT
1 TTATGAATTTATT
*
4888377 TGATGA
1 TTATGA
4888383 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:4888590 original size:50 final size:50
Alignment explanation
Indices: 4888477--4888718 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
4888467 ATTTGGGTAA
* * *
4888477 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
4888533 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
4888583 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
4888633 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
4888683 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
4888719 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:4888666 original size:100 final size:103
Alignment explanation
Indices: 4888477--4888726 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
4888467 ATTTGGGTAA
4888477 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
4888542 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
4888583 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
4888645 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
4888683 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
4888727 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:4892093 original size:27 final size:27
Alignment explanation
Indices: 4892049--4892103 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
4892039 CTTCATAAAT
* *
4892049 ATATATACGTACTAAAAGTATACATAATA
1 ATATATACATAC-AAAAGTACAC-TAATA
4892078 ATATATACATAC-AAAGTACACTAATA
1 ATATATACATACAAAAGTACACTAATA
4892104 TTTAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.21
27 8 0.33
29 11 0.46
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (27 bp):
ATATATACATACAAAAGTACACTAATA
Found at i:4892150 original size:16 final size:16
Alignment explanation
Indices: 4892126--4892156 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4892116 AATAGTAAAC
*
4892126 ATAATATTAATATTAA
1 ATAAAATTAATATTAA
4892142 ATAAAATTAATATTA
1 ATAAAATTAATATTA
4892157 CAAATTTAAT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTAATATTAA
Found at i:4894128 original size:87 final size:86
Alignment explanation
Indices: 4894023--4894799 Score: 413
Period size: 87 Copynumber: 8.6 Consensus size: 86
4894013 CATGTGACTC
* * *
4894023 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGTATAAATTAAAGAACAAAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-AATAAATTAAA-AACAGAAAT
*
4894088 TGAACATACCTCAGCGT-TCCCT
64 TGAACATACCTCAACGTATCCCT
* * *
4894110 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAAACAG-ATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAAAATAAATT-AAAAACAGAAAT
* * * ** *
4894174 TGAAAAACAAAAACTGAAAATTTCTCAACAT
64 TG---AAC-ATACCTCAACGTATC-C--C-T
* * *
4894205 GTGTGC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATGTAAATTGAAAA
1 GAG-GCTC-A-ACT-----CACCTCTCGCAATATGAGTTGATTTTTGAAAAA-ATAAATT-AAAA
* *
4894269 ACAGAAATTGAAAATACCTCAACGTGT-CCT
56 ACAGAAATTGAACATACCTCAACGTATCCCT
* * *
4894299 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACATTAAA--AATAATAGAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA-A-TAAATTAAAAACAGAAAT
*
4894362 TGAA-ATTACCTCAACGT-GCCCT
64 TGAACA-TACCTCAACGTATCCCT
***
4894384 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAATACCTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAA-ATAAATT-AAAA-ACAGA
** * ** * ** *
4894449 TTTTGAAAAATATAAATTGAAAATACCCCAACAT
61 AATTG---AACAT-ACCTCAACGTA-TCC--C-T
* * * * * * *
4894483 GTCATGAG-GCTCAACTCACCTCTCACAATATGAGTTGATTTCTG--AAAACAGATTAATCAACA
1 G--A-G-GCTC-AA-CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAATAAATTAA-AAACA
* * *
4894545 GAATTTTAGA-ATACCTCAGCGTAT-CCT
59 GAAATTGA-ACATACCTCAACGTATCCCT
* ** * * *
4894572 GAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAACGTAACTTAAAGAAAAAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAAATAAATTAAA-AACAGAAA
* * *
4894636 TTGAACATACCTCAGCGTGTCTC-
63 TTGAACATACCTCAACGTATCCCT
* * *
4894659 GAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTG-AAAACTGAATTAAAAAAACAGGAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAATAAATT--AAAAACAGAAAT
* *
4894722 TGAAAATACCTC-A-GCATGCCCT
64 TGAACATACCTCAACGTAT-CCCT
*
4894744 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA-ATAAATTAAAA
4894800 GGCTCAACTC
Statistics
Matches: 528, Mismatches: 99, Indels: 127
0.70 0.13 0.17
Matches are distributed among these distances:
83 2 0.00
84 39 0.07
85 92 0.17
86 66 0.12
87 137 0.26
88 16 0.03
89 8 0.02
90 11 0.02
91 2 0.00
92 4 0.01
93 6 0.01
94 16 0.03
95 8 0.02
96 6 0.01
97 3 0.01
98 8 0.02
99 16 0.03
100 5 0.01
101 4 0.01
102 50 0.09
103 6 0.01
104 23 0.04
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.28
Consensus pattern (86 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAATAAATTAAAAACAGAAATTG
AACATACCTCAACGTATCCCT
Found at i:4894168 original size:14 final size:14
Alignment explanation
Indices: 4894146--4894193 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
4894136 GAGTTGATTT
*
4894146 TTGACAAACAGAAA
1 TTGAAAAACAGAAA
*
4894160 TTGAAAAACAG-AT
1 TTGAAAAACAGAAA
*
4894173 TTGAAAAACAAAAA
1 TTGAAAAACAGAAA
*
4894187 CTGAAAA
1 TTGAAAA
4894194 TTTCTCAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 11 0.39
14 17 0.61
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:4894178 original size:13 final size:14
Alignment explanation
Indices: 4894145--4894182 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
4894135 TGAGTTGATT
*
4894145 TTTGACAAACAGAA
1 TTTGAAAAACAGAA
*
4894159 ATTGAAAAACAG-A
1 TTTGAAAAACAGAA
4894172 TTTGAAAAACA
1 TTTGAAAAACA
4894183 AAAACTGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.21
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:4894372 original size:85 final size:85
Alignment explanation
Indices: 4894212--4894787 Score: 353
Period size: 85 Copynumber: 6.5 Consensus size: 85
4894202 CATGTGTGCC
*
4894212 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATGTAAATTGAAAAACAGAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAATGTAAA-T-AAAAACAGAAAT
*
4894277 TGAAAATACCTCAACGTGTCCT
64 TGAAAATACCTCAACGTGCCCT
* *
4894299 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAT-TAAA-AATAATAGAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAAA-ATGTAAATAAAAACAGAAAT
*
4894362 TGAAATTACCTCAACGTGCCCT
64 TGAAAATACCTCAACGTGCCCT
* * ***
4894384 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAATACCTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTAAAAAATGTAAA-T-AAAA-ACAGA
** ** * ** * *
4894449 TTTTGAAAAATATAAATTGAAAATACCCCAA
61 AATTG--AAA-AT-ACCTCAACGT-GCCC-T
* * * *
4894480 CATG-TCATGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTCTGAAAACAGAT-T-AAT--
1 GAGGCTCA--A----C---TCACCTCTCGCAATATGAGTTGATTT-TTAAAA-A-ATGTAAATAA
* * * * * **
4894540 CAACAGAATTTTAGAATACCTCAGCGTATCCT
54 AAACAGAAATTGAAAATACCTCAACGTGCCCT
* *** * * * *
4894572 GAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACGTAACTTAAAGAAAAAAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAATGTAA-ATAAA-AACAGAAAT
* * *
4894637 TGAACATACCTCAGCGTG-TCT
64 TGAAAATACCTCAACGTGCCCT
* * * *
4894658 CGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTGAAAACTG-AATTAAAAAAACAGGAA
1 -GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAATGTAA--ATAAAAACAGAAA
* *
4894721 TTGAAAATACCTCAGCATGCCCT
63 TTGAAAATACCTCAACGTGCCCT
* *
4894744 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAA
4894788 CATAAATTAA
Statistics
Matches: 374, Mismatches: 77, Indels: 77
0.71 0.15 0.15
Matches are distributed among these distances:
81 1 0.00
82 2 0.01
83 3 0.01
84 26 0.07
85 101 0.27
86 71 0.19
87 76 0.20
88 8 0.02
89 5 0.01
90 4 0.01
91 1 0.00
92 5 0.01
93 6 0.02
94 9 0.02
95 8 0.02
96 4 0.01
97 1 0.00
98 5 0.01
99 1 0.00
101 1 0.00
102 4 0.01
103 6 0.02
104 24 0.06
105 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (85 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAATGTAAATAAAAACAGAAATTG
AAAATACCTCAACGTGCCCT
Found at i:4894415 original size:172 final size:171
Alignment explanation
Indices: 4894212--4894787 Score: 601
Period size: 172 Copynumber: 3.3 Consensus size: 171
4894202 CATGTGTGCC
*
4894212 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATGTAAATTGAAAAACAGAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATGTAAATTGAAAAACAAAAAT
4894277 TGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAA
66 TGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAA
* *
4894342 ACATTAAAAATAATAGAAATTGAAATTACCTCAACGTGCCCT
131 ACATTAAAAATAACAGAAATTGAAA-TACCTCAGCGTGCCCT
*
4894384 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAATACCTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAATGTAAATTGAAAA-A-C--
* * * *
4894449 TTTTGAAAAATATAAATTGAAAATACCCCAACATGTCATGAGGCTCAACTCACCTCTCACAATAT
60 ---------A-A-AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
* * * * * **
4894514 GAGTTGATTTCTGAAAACAGATT---AATCAACAGAATTTTAGAATACCTCAGCGTATCCT
114 GAGTTGATTT-TTAAAAAACATTAAAAAT-AACAGAAATTGA-AATACCTCAGCGTGCCCT
* *** * * *
4894572 GAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACGTAACTT-AAAGAAAAAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATGTAAATTGAAA-AACAAAAA
* * *
4894636 TTGAACATACCTCAGCGTGT-CTCGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTT-GA
65 TTGAAAATACCTCAACGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAA
* *
4894698 AAACTGAATTAAAAA-AACAGGAATTGAAAATACCTCAGCATGCCCT
129 AAAC---ATTAAAAATAACAGAAATTG-AAATACCTCAGCGTGCCCT
*
4894744 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
4894788 CATAAATTAA
Statistics
Matches: 331, Mismatches: 44, Indels: 58
0.76 0.10 0.13
Matches are distributed among these distances:
168 3 0.01
169 1 0.00
170 22 0.07
171 35 0.11
172 96 0.29
173 2 0.01
174 25 0.08
175 1 0.00
176 1 0.00
185 4 0.01
186 14 0.04
187 4 0.01
188 54 0.16
189 60 0.18
190 9 0.03
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (171 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATGTAAATTGAAAAACAAAAAT
TGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAA
ACATTAAAAATAACAGAAATTGAAATACCTCAGCGTGCCCT
Found at i:4894442 original size:276 final size:270
Alignment explanation
Indices: 4894023--4894695 Score: 792
Period size: 276 Copynumber: 2.4 Consensus size: 270
4894013 CATGTGACTC
* * *
4894023 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGTATAAATTAAAGAACAAAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAA--A-ACATTAAA-AAAAAAAAT
* *
4894088 TGAACATACCTCAGCGTTCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAC
61 TGAACATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
** *
4894151 AAACAGAAATTGAAAA-A-CAGATTTGAAAAACAAAAACTGAAAATTTCTCAACATGTGTGC-CG
126 AAACAGAAATTGAAAATACCAGATTTGAAAAACAAAAACTGAAAATACCCCAACA--TGT-CACG
* *
4894213 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ATGTAAATTGAA-AAACAGAAA
188 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTCTGAAAACA-G---ATT-AATAAACAGAAA
*
4894276 TTGAAAATACCTCAACGTGTCCT
248 TTGAAAATACCTCAACGTATCCT
4894299 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACATTAAAAATAATAGAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACATTAAAAA-AA-A-AAATTG
*
4894364 AA-ATTACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
63 AACA-TACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
* * *** * * * *
4894428 AATATAAATTGAAAATACCTTTTTTGAAAAATATAAATTGAAAATACCCCAACATGTCATGAGGC
127 AACAGAAATTGAAAATACCAGATTTGAAAAACAAAAACTGAAAATACCCCAACATGTCACGAGGC
* * * *
4894493 TCAACTCACCTCTCACAATATGAGTTGATTTCTGAAAACAGATTAATCAACAGAATTTTAGAATA
192 TCAACTCACCTCTCACAATATGAGTTGATTTCTGAAAACAGATTAATAAACAGAAATTGAAAATA
*
4894558 CCTCAGCGTATCCT
257 CCTCAACGTATCCT
* *
4894572 GAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACGTAAC-TTAAAGAAAAAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT-AAA--AAACATTAAA-AAAAAAAA
*
4894636 TTGAACATACCTCAGCGTG-TCTCGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTT
60 TTGAACATACCTCAGCGTGCCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
4894696 GAAAACTGAA
Statistics
Matches: 348, Mismatches: 30, Indels: 40
0.83 0.07 0.10
Matches are distributed among these distances:
271 2 0.01
272 10 0.03
273 64 0.18
274 81 0.23
275 42 0.12
276 108 0.31
277 9 0.03
278 32 0.09
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (270 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACATTAAAAAAAAAAATTGAAC
ATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACA
GAAATTGAAAATACCAGATTTGAAAAACAAAAACTGAAAATACCCCAACATGTCACGAGGCTCAA
CTCACCTCTCACAATATGAGTTGATTTCTGAAAACAGATTAATAAACAGAAATTGAAAATACCTC
AACGTATCCT
Found at i:4894457 original size:189 final size:188
Alignment explanation
Indices: 4894262--4894615 Score: 507
Period size: 189 Copynumber: 1.9 Consensus size: 188
4894252 AAAATGTAAA
* * * *
4894262 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCCCAACATGTCATGAGGCTCAACTCACCTCTCACAATATGA
* * * *
4894327 GTTGATTT-TTAAAAAACATTAAAAAT-AATAGAAATTGA-AATTACCTCAACGTGCCCTGAGGC
66 GTTGATTTCTGAAAAAACATT---AATCAACAGAAATTGAGAA-TACCTCAACGTACCCTGAAGC
4894389 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAATACCTTTT
127 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAATACCTTTT
* *
4894451 TTGAAAAATATAAATTGAAAATACCCCAACATGTCATGAGGCTCAACTCACCTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCCCAACATGTCATGAGGCTCAACTCACCTCTCACAATATGA
* * * * * *
4894516 GTTGATTTCTGAAAACAGATTAATCAACAGAATTTTAGAATACCTCAGCGTATCCTGAAGCTCAA
66 GTTGATTTCTGAAAAAACATTAATCAACAGAAATTGAGAATACCTCAACGTACCCTGAAGCTCAA
4894581 CTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
131 CTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
4894616 CGTAACTTAA
Statistics
Matches: 146, Mismatches: 16, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
187 3 0.02
188 65 0.45
189 69 0.47
190 9 0.06
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.30
Consensus pattern (188 bp):
TTGAAAAACAGAAATTGAAAATACCCCAACATGTCATGAGGCTCAACTCACCTCTCACAATATGA
GTTGATTTCTGAAAAAACATTAATCAACAGAAATTGAGAATACCTCAACGTACCCTGAAGCTCAA
CTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAATACCTTTT
Found at i:4894460 original size:29 final size:29
Alignment explanation
Indices: 4894418--4894475 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
4894408 ATGAGTTGAT
4894418 TTTTTTGAAAAATATAAATTGAAAATACC
1 TTTTTTGAAAAATATAAATTGAAAATACC
4894447 TTTTTTGAAAAATATAAATTGAAAATACC
1 TTTTTTGAAAAATATAAATTGAAAATACC
4894476 CCAACATGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (29 bp):
TTTTTTGAAAAATATAAATTGAAAATACC
Found at i:4894682 original size:86 final size:88
Alignment explanation
Indices: 4894462--4894781 Score: 349
Period size: 84 Copynumber: 3.7 Consensus size: 88
4894452 TGAAAAATAT
* * * * * *
4894462 AAATTGAAAATACCCCAACATGTCATGAGGCTCAACTCACCTCTCACAATATGAGTTGA--TTTC
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* **
4894525 TGAAAACAG-ATT-AATCAACAG
66 TGAAAACTGAATTAAAAAAACAG
* * * * *
4894546 AATTTTAGAATACCTCAGCGTATCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
4894611 TG-AAAC-GTAACTTAAAGAAAA-A-
66 TGAAAACTG-AA-TTAAA-AAAACAG
*
4894633 AAATTGAACATACCTCAGCGTGT-CTCGAGGCTCAACTCA-CTCTCGCAATATGAGTTGA--TTT
1 AAATTGAAAATACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
4894694 TTGAAAACTGAATTAAAAAAACAG
65 TTGAAAACTGAATTAAAAAAACAG
* * * *
4894718 GAATTGAAAATACCTCAGCATGCCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
4894782 GAAAAACATA
Statistics
Matches: 196, Mismatches: 24, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
83 4 0.02
84 62 0.32
85 41 0.21
86 49 0.25
87 32 0.16
88 6 0.03
89 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.28
Consensus pattern (88 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAACTGAATTAAAAAAACAG
Found at i:4894782 original size:86 final size:85
Alignment explanation
Indices: 4894463--4894786 Score: 342
Period size: 86 Copynumber: 3.8 Consensus size: 85
4894453 GAAAAATATA
* * * * * *
4894463 AATTGAAAATACCCCAACATGTCAT-GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTCTG
1 AATTGAAAATACCTCAGCATGTCCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
**
4894527 AAAAC-AGATT-AATCAACAG
66 AAAACGA-ATTAAAAAAACAG
* * * * *
4894546 AATTTTAGAATACCTCAGCGTATCCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AA-TTGAAAATACCTCAGCATGTCCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
*
4894610 TTG-AAACGTAACTTAAAGAAAA-AA
63 TTGAAAACG-AA-TTAAA-AAAACAG
* * *
4894634 AATTGAACATACCTCAGCGTGT-CTCGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTG
1 AATTGAAAATACCTCAGCATGTCCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
4894697 AAAACTGAATTAAAAAAACAGG
66 AAAAC-GAATTAAAAAAACA-G
*
4894719 AATTGAAAATACCTCAGCATGCCCT-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AATTGAAAATACCTCAGCATGTCCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
4894783 AAAA
66 AAAA
4894787 ACATAAATTA
Statistics
Matches: 201, Mismatches: 24, Indels: 29
0.79 0.09 0.11
Matches are distributed among these distances:
83 6 0.03
84 57 0.28
85 42 0.21
86 60 0.30
87 29 0.14
88 5 0.02
89 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (85 bp):
AATTGAAAATACCTCAGCATGTCCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAACGAATTAAAAAAACAG
Found at i:4894808 original size:54 final size:55
Alignment explanation
Indices: 4894744--4894854 Score: 215
Period size: 54 Copynumber: 2.0 Consensus size: 55
4894734 AGCATGCCCT
4894744 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAA
4894798 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAA
4894853 AA
1 AA
4894855 CAGAATTTGG
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 52 0.93
55 4 0.07
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.29
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAA
Found at i:4904986 original size:21 final size:23
Alignment explanation
Indices: 4904945--4904989 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
4904935 TTCTAACAGT
*
4904945 TTAATTAAATAAATCATTAAAAA
1 TTAATTAAAAAAATCATTAAAAA
4904968 TTAA-TAAAAAAAT-ATTAAAAA
1 TTAATTAAAAAAATCATTAAAAA
4904989 T
1 T
4904990 CTATTCAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 8 0.38
23 4 0.19
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TTAATTAAAAAAATCATTAAAAA
Found at i:4908659 original size:13 final size:13
Alignment explanation
Indices: 4908638--4908669 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4908628 TAACATAATT
*
4908638 TAATTTGTTGGAA
1 TAATCTGTTGGAA
4908651 TAATCTGTTGGAA
1 TAATCTGTTGGAA
4908664 TAATCT
1 TAATCT
4908670 AACACGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (13 bp):
TAATCTGTTGGAA
Found at i:4916056 original size:27 final size:27
Alignment explanation
Indices: 4916026--4916080 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
4916016 TTAATTCAAC
*
4916026 TATTTTTTAATAT-TATTTTAATTCTTA
1 TATTTTTTAATATATA-TTTAATTATTA
*
4916053 TATTTTTTATTATATATTTAATTATTA
1 TATTTTTTAATATATATTTAATTATTA
4916080 T
1 T
4916081 TGTGCTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.92
28 2 0.08
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (27 bp):
TATTTTTTAATATATATTTAATTATTA
Found at i:4916077 original size:15 final size:14
Alignment explanation
Indices: 4916039--4916080 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
4916029 TTTTTAATAT
*
4916039 TATTTTAATTCTTA
1 TATTTTAATTATTA
4916053 TATTTT--TTATTA
1 TATTTTAATTATTA
4916065 TATATTTAATTATTA
1 TAT-TTTAATTATTA
4916080 T
1 T
4916081 TGTGCTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 8 0.33
13 3 0.12
14 6 0.25
15 7 0.29
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTTAATTATTA
Found at i:4919806 original size:29 final size:29
Alignment explanation
Indices: 4919768--4919833 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
4919758 ATTATTGAAA
*
4919768 TTATGTTCAGTTCTTCTCCCTAGTTAATT
1 TTATCTTCAGTTCTTCTCCCTAGTTAATT
4919797 TTATCTTCAGTTCTTCTCCCTAGTTAATT
1 TTATCTTCAGTTCTTCTCCCTAGTTAATT
4919826 TTATCTTC
1 TTATCTTC
4919834 TCACCCATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.17, C:0.23, G:0.08, T:0.53
Consensus pattern (29 bp):
TTATCTTCAGTTCTTCTCCCTAGTTAATT
Found at i:4920262 original size:15 final size:15
Alignment explanation
Indices: 4920242--4920279 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
4920232 GTTTTCCAGA
4920242 GGAGTCAATGGTAGT
1 GGAGTCAATGGTAGT
*
4920257 GGAGTCAATTGTAGT
1 GGAGTCAATGGTAGT
*
4920272 GGACTCAA
1 GGAGTCAA
4920280 GGGGAGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.29, C:0.11, G:0.34, T:0.26
Consensus pattern (15 bp):
GGAGTCAATGGTAGT
Found at i:4923827 original size:54 final size:54
Alignment explanation
Indices: 4923745--4923850 Score: 176
Period size: 54 Copynumber: 2.0 Consensus size: 54
4923735 AAAATATTAC
4923745 CTTAACCAGCCCAAAACAAGTTAGGTCAAATGGAACACTTTACTCGTGAATAAA
1 CTTAACCAGCCCAAAACAAGTTAGGTCAAATGGAACACTTTACTCGTGAATAAA
* * * *
4923799 CTTAATCAGCTCAAAATAAGTTAGGTCAAGTGGAACACTTTACTCGTGAATA
1 CTTAACCAGCCCAAAACAAGTTAGGTCAAATGGAACACTTTACTCGTGAATA
4923851 GATCTACTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (54 bp):
CTTAACCAGCCCAAAACAAGTTAGGTCAAATGGAACACTTTACTCGTGAATAAA
Found at i:4925600 original size:48 final size:46
Alignment explanation
Indices: 4925482--4925614 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 46
4925472 AGTGATAATT
* *
4925482 TTAAATTTTCAATACTATTCGATATTTTCTTAATTTATGCAAATTTAA
1 TTAAAATTTCAATACTATT-GATATTTT-TTTATTTATGCAAATTTAA
4925530 TT-AAATTTGCAATACTATTTGATATTTTTTTCATTTATGC-AATTATAA
1 TTAAAATTT-CAATACTA-TTGATATTTTTTT-ATTTATGCAAATT-TAA
*
4925578 TTAAAATTTCAATACTGCTTGAT-TTTTTTTATTTATG
1 TTAAAATTTCAATACT-ATTGATATTTTTTTATTTATG
4925615 ATGTTTGCAT
Statistics
Matches: 76, Mismatches: 3, Indels: 14
0.82 0.03 0.15
Matches are distributed among these distances:
46 7 0.09
47 18 0.24
48 43 0.57
49 8 0.11
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (46 bp):
TTAAAATTTCAATACTATTGATATTTTTTTATTTATGCAAATTTAA
Found at i:4926608 original size:7 final size:7
Alignment explanation
Indices: 4926598--4926622 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4926588 TTCGTATTTA
4926598 GTATTAT
1 GTATTAT
4926605 GTATTAT
1 GTATTAT
4926612 GTATTAT
1 GTATTAT
4926619 GTAT
1 GTAT
4926623 ATAAATAATA
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:0.16, T:0.56
Consensus pattern (7 bp):
GTATTAT
Found at i:4928626 original size:7 final size:7
Alignment explanation
Indices: 4928616--4928640 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4928606 TTAGTATTTA
4928616 GTATTAT
1 GTATTAT
4928623 GTATTAT
1 GTATTAT
4928630 GTATTAT
1 GTATTAT
4928637 GTAT
1 GTAT
4928641 ATAAATAATA
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:0.16, T:0.56
Consensus pattern (7 bp):
GTATTAT
Found at i:4928626 original size:14 final size:15
Alignment explanation
Indices: 4928609--4928640 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4928599 TTCATATTTA
4928609 GTATTTA-GTATTAT
1 GTATTTATGTATTAT
4928623 GTA-TTATGTATTAT
1 GTATTTATGTATTAT
4928637 GTAT
1 GTAT
4928641 ATAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.19
14 13 0.81
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (15 bp):
GTATTTATGTATTAT
Found at i:4933018 original size:174 final size:175
Alignment explanation
Indices: 4932727--4933045 Score: 489
Period size: 174 Copynumber: 1.8 Consensus size: 175
4932717 CACGTGGGAG
* *
4932727 CTTTTTTCAGAACTTTTTACCGATAGTACATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAG
1 CTTTTTTCAGAACTTTTTACCAACAGTACATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAG
** * * *
4932792 AAATGTCTACTCAGGCTCATTTTCCTGCGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTT
66 AAACATCTACTCAGGCTCATTTTCCTACCAACTACTATAGCAAAAGAGCGTCCACGTGGAAGCTT
*
4932857 TTTTTAGAACTTTTAGGGTTTAGGGTTTAAGGTTTAACGCGAGAC
131 TTTTCAGAACTTTTAGGGTTTAGGGTTTAAGGTTTAACGCGAGAC
* * * *
4932902 CTTTTTTTAGAAC-TTTTGCCAACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAG
1 CTTTTTTCAGAACTTTTTACCAACAGTACATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAG
* *
4932966 AAACAT-TGACTCAGGCTCATTTTTCTACCAACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCT
66 AAACATCT-ACTCAGGCTCATTTTCCTACCAACTACTATAGCAAAAGAGCGTCCACGTGGAAGCT
4933030 TTTTTCAGAACTTTTA
130 TTTTTCAGAACTTTTA
4933046 CCGACAGTGC
Statistics
Matches: 129, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
173 1 0.01
174 116 0.90
175 12 0.09
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (175 bp):
CTTTTTTCAGAACTTTTTACCAACAGTACATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAG
AAACATCTACTCAGGCTCATTTTCCTACCAACTACTATAGCAAAAGAGCGTCCACGTGGAAGCTT
TTTTCAGAACTTTTAGGGTTTAGGGTTTAAGGTTTAACGCGAGAC
Found at i:4933053 original size:126 final size:125
Alignment explanation
Indices: 4932902--4933229 Score: 426
Period size: 126 Copynumber: 2.6 Consensus size: 125
4932892 AACGCGAGAC
* *
4932902 CTTTTTTTAGAACTTTTGCCAACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGA
1 CTTTTTTCAGAACTTTT-CCGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGA
*
4932967 AACAT-TGACTCAGGCTCATTTTTCTACCAACTACTGTAGCAAAAGAGCGTCCACGTGGAAG
65 AACATCT-ACTCAGACTCATTTTTCTACCAACTACTGTAGCAAAAGAGCGTCCACGTGGAAG
* *
4933028 CTTTTTTCAGAACTTTTACCGACAGTGCATCCTGCTTGAAGCGTTTTTAACACTATCTGTTCAGA
1 CTTTTTTCAGAACTTTT-CCGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGA
* * * * * * *
4933093 AACGTCTACTTAGATTTATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCGCGTGGGAG
65 AACATCTACTCAGACTCATTTTTCTACCAACTACTGTAGCAAAAGAGCGTCCACGTGGAAG
* * * * * *
4933154 -TTTTTTCCAAAAATTTTCTGACACTGCATGCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGA
1 CTTTTTT-CAGAACTTTTCCGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGA
**
4933218 AATGTCTACTCA
65 AACATCTACTCA
4933230 AAATTATTCT
Statistics
Matches: 177, Mismatches: 23, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
125 57 0.32
126 119 0.67
127 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (125 bp):
CTTTTTTCAGAACTTTTCCGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAA
ACATCTACTCAGACTCATTTTTCTACCAACTACTGTAGCAAAAGAGCGTCCACGTGGAAG
Found at i:4935239 original size:40 final size:40
Alignment explanation
Indices: 4935129--4935241 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 40
4935119 CTTTGTTGAG
* * * ** *
4935129 AAGATCGATCTTTAGCGGCGCTTTTTGAAAAATGCCGTTA
1 AAGATCGAGCATTAGCGGCGCCTTTTGAAAAACACAGTTA
* * * *
4935169 AAAATCAAGCATTAGCGACG-CTTTCCGAAAAACACAGTTA
1 AAGATCGAGCATTAGCGGCGCCTTT-TGAAAAACACAGTTA
4935209 AAGATCGAGCATTAGCGGCGCCTTTTGAAAAAC
1 AAGATCGAGCATTAGCGGCGCCTTTTGAAAAAC
4935242 GCCGCAAAAA
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
39 3 0.05
40 50 0.88
41 4 0.07
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (40 bp):
AAGATCGAGCATTAGCGGCGCCTTTTGAAAAACACAGTTA
Found at i:4935548 original size:15 final size:14
Alignment explanation
Indices: 4935509--4935541 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4935499 TAGAGTTTTG
4935509 AGTTTAGGGTTTAT
1 AGTTTAGGGTTTAT
4935523 AGTTTAGGGTTTAT
1 AGTTTAGGGTTTAT
*
4935537 TGTTT
1 AGTTT
4935542 TATGGTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (14 bp):
AGTTTAGGGTTTAT
Found at i:4937618 original size:131 final size:130
Alignment explanation
Indices: 4937450--4937922 Score: 449
Period size: 131 Copynumber: 3.6 Consensus size: 130
4937440 AAACCGAAAC
* *** * ** *
4937450 CCAGCAC-AGTAGGGCACGATTCCTCGAATTTTTAAACATCGAGCATTGCCTT-ATTTT-TAGAA
1 CCAGCACGA-TAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCACCTTCGTTTTATAGAA
* * *
4937512 TTTTTAAGAAACATGAGTGAAATTCTAGAGGGGATATTCGATTATTTTGAACCAACAAGAAATCG
65 TTTTTAAGAAACATGAGTGAAATTC-A-AAGGGATATTCGATTATTTTGAACAAACGAGAAATCG
4937577 CAA
128 CAA
*
4937580 GCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCACCTTCGTTTTGTAGAA
1 -CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCACCTTCGTTTTATAGAA
* * * * * * * *
4937645 TCTTTAA-AGACATGGGTGAAATTCCAAAAGAATATTCGATTGTTTTGAACGAACGGGAAATCGC
65 TTTTTAAGAAACATGAGTGAAATT-CAAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGC
4937709 AA
129 AA
* ** * * *
4937711 CCTAGCACGATAGGGCACGATT-CCCAAATTGCCAAACATCGAGTATTACCTTCGTTTTAAAGAG
1 CC-AGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCACCTTCGTTTTATAGAA
* * * *
4937775 TTTTT-AGAAAACATGAATGAAAATTCAAAGGGACACTCGATTATTTT-AAGCAAACGAGAAATT
65 TTTTTAAG-AAACATGAGTG-AAATTCAAAGGGATATTCGATTATTTTGAA-CAAACGAGAAATC
*
4937838 GTAA
127 GCAA
* ** * * * *
4937842 CCCAGCACGTTAGGGCACGATTCCGAGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGGA
1 -CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCACCTTCGTTTTATAGAA
4937907 TTTTT-AGAAAACATGA
65 TTTTTAAG-AAACATGA
4937923 ATGATTATAA
Statistics
Matches: 282, Mismatches: 49, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
129 1 0.00
130 43 0.15
131 151 0.54
132 75 0.27
133 12 0.04
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (130 bp):
CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCACCTTCGTTTTATAGAAT
TTTTAAGAAACATGAGTGAAATTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAA
Found at i:4941052 original size:84 final size:83
Alignment explanation
Indices: 4940915--4941077 Score: 229
Period size: 84 Copynumber: 2.0 Consensus size: 83
4940905 TTAAGTAAAA
* *
4940915 TTTAATTGGAGATTTAAGGGATTAGCGGCGTTTTTTGAAAAAACGCCGCAAAAAAACAAAATAGT
1 TTTAATTGGAGATTTAAGGGATTAGCGGCATTTTTTGAAAAAACGCCAC-AAAAAACAAAATAGT
4940980 TTAACGTAAACGGCGCCGT
65 TTAACGTAAACGGCGCCGT
* ** * *
4940999 TTTAATTGGATATTT-AGAGGATTAGCGGCATTTTTTTTAAAAACGCCACAAAAAACATAATTGT
1 TTTAATTGGAGATTTAAG-GGATTAGCGGCATTTTTTGAAAAAACGCCACAAAAAACAAAATAGT
*
4941063 TTAACTTAAACGGCG
65 TTAACGTAAACGGCG
4941078 TCATTTTCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
83 29 0.41
84 41 0.59
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (83 bp):
TTTAATTGGAGATTTAAGGGATTAGCGGCATTTTTTGAAAAAACGCCACAAAAAACAAAATAGTT
TAACGTAAACGGCGCCGT
Found at i:4944015 original size:21 final size:21
Alignment explanation
Indices: 4943963--4944015 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
4943953 ACTTAGAGTG
*
4943963 GAGGCAGCAGAGAAGGAGGCA
1 GAGGCAGCAGCGAAGGAGGCA
* * *
4943984 GCGGCAGCAGCGAGGGAGTCA
1 GAGGCAGCAGCGAAGGAGGCA
4944005 GAGGCAGCAGC
1 GAGGCAGCAGC
4944016 AATGGCAGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.47, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCGAAGGAGGCA
Found at i:4944027 original size:21 final size:20
Alignment explanation
Indices: 4943963--4944028 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 20
4943953 ACTTAGAGTG
*
4943963 GAGGCAGCAGAGAAGG-AGGCA
1 GAGGCAGCAG-CAAGGCA-GCA
* * *
4943984 GCGGCAGCAGCGAGGGAGTCA
1 GAGGCAGCAGCAAGGCAG-CA
4944005 GAGGCAGCAGCAATGGCAGCA
1 GAGGCAGCAGCAA-GGCAGCA
4944026 GAG
1 GAG
4944029 CAGAGCAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
20 4 0.11
21 28 0.78
22 4 0.11
ACGTcount: A:0.32, C:0.20, G:0.45, T:0.03
Consensus pattern (20 bp):
GAGGCAGCAGCAAGGCAGCA
Found at i:4946699 original size:31 final size:31
Alignment explanation
Indices: 4946629--4946714 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 31
4946619 TTAGATTTAA
* * *
4946629 TGTTTTTGGTTGTATTTTTTATGTTACATTTGC
1 TGTTTTTGGTTGGA--TTTAATGCTACATTTGC
* * *
4946662 TATTTTTGGTTGGATTTGATGCTATATTTGC
1 TGTTTTTGGTTGGATTTAATGCTACATTTGC
4946693 TGTTTTTGGTTGGATTTAATGC
1 TGTTTTTGGTTGGATTTAATGC
4946715 AGGAAGGGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
31 34 0.74
33 12 0.26
ACGTcount: A:0.14, C:0.06, G:0.22, T:0.58
Consensus pattern (31 bp):
TGTTTTTGGTTGGATTTAATGCTACATTTGC
Found at i:4946862 original size:45 final size:45
Alignment explanation
Indices: 4946795--4946948 Score: 158
Period size: 45 Copynumber: 3.5 Consensus size: 45
4946785 GTAGCGACGC
4946795 TTTTCTC--ATAAACGCCGCTAAAAGTCTTGATCTTTTGTGGTAT
1 TTTTCTCATATAAACGCCGCTAAAAGTCTTGATCTTTTGTGGTAT
* * * * *
4946838 TTTTCTCATATAAACGCCGTTAAAAGCCATGA-CTTTTAGCGGTAC
1 TTTTCTCATATAAACGCCGCTAAAAGTCTTGATCTTTT-GTGGTAT
* * **
4946883 TTTCCCCATA-AAA-GCCGCTAAAAGTCTTGATCTTTTGTGGCGT
1 TTTTCTCATATAAACGCCGCTAAAAGTCTTGATCTTTTGTGGTAT
* *
4946926 TTTTCTCAGATAAACACCG-TAAA
1 TTTTCTCATATAAACGCCGCTAAA
4946949 TTTTTTTGAC
Statistics
Matches: 87, Mismatches: 18, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
43 31 0.36
44 20 0.23
45 36 0.41
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
TTTTCTCATATAAACGCCGCTAAAAGTCTTGATCTTTTGTGGTAT
Found at i:4949981 original size:18 final size:19
Alignment explanation
Indices: 4949960--4950001 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
4949950 AAAAATTATA
4949960 TTTAATTCAAAAT-A-AAAT
1 TTTAATT-AAAATAATAAAT
4949978 TTTAATTAAAATAATAAAT
1 TTTAATTAAAATAATAAAT
4949997 TTTAA
1 TTTAA
4950002 AATTTAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.23
18 8 0.36
19 9 0.41
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTAATTAAAATAATAAAT
Found at i:4950509 original size:16 final size:16
Alignment explanation
Indices: 4950479--4950532 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
4950469 TTTTGTCCCT
*
4950479 TTTTTTAAGGGTTAGGG
1 TTTTTT-AGGTTTAGGG
*
4950496 TTTTTTAGGTTTAGGA
1 TTTTTTAGGTTTAGGG
*
4950512 TTTTTAGTGGGTTTAGGG
1 TTTTT--TAGGTTTAGGG
4950530 TTT
1 TTT
4950533 AGGGTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 13 0.42
17 6 0.19
18 12 0.39
ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (16 bp):
TTTTTTAGGTTTAGGG
Found at i:4950531 original size:25 final size:24
Alignment explanation
Indices: 4950499--4950545 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
4950489 GTTAGGGTTT
4950499 TTTAGGTTTAGGATTTTTAGTGGG
1 TTTAGGTTTAGGATTTTTAGTGGG
*
4950523 TTTAGGGTTTAGGGTTTTTAGTG
1 TTTA-GGTTTAGGATTTTTAGTG
4950546 TTTTTTAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (24 bp):
TTTAGGTTTAGGATTTTTAGTGGG
Found at i:4950692 original size:23 final size:24
Alignment explanation
Indices: 4950643--4950692 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
4950633 GTTTCAAGTT
* * * *
4950643 TTTTATGGTTAGGGTTTTTGATTG
1 TTTTAGGGTTAAGGTTTTTAATAG
4950667 TTTTAGGGTTAAGG-TTTTAATAG
1 TTTTAGGGTTAAGGTTTTTAATAG
4950690 TTT
1 TTT
4950693 AAGGTTTTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.56
Consensus pattern (24 bp):
TTTTAGGGTTAAGGTTTTTAATAG
Found at i:4950820 original size:137 final size:138
Alignment explanation
Indices: 4950667--4950937 Score: 454
Period size: 138 Copynumber: 2.0 Consensus size: 138
4950657 TTTTTGATTG
* *
4950667 TTTTAGGGTTAAGGTTTTAATAGTTTAAG-GTTTTAGAGTTTTTTAAGGGAGAAATTAATGAACA
1 TTTTAGGGTTAAGGTTTTAATAGTTTAAGAATTTTAGAGTTTTTTAAGGGAAAAATTAATGAACA
* * *
4950731 CTTAGAGTTGAGGGTTAATTAATTAAAATAACTATGAAGATAAGAAAAAATCAATTAAATTAGGG
66 CTTAGAGTTGAGGGTTAATTAATTAAAATAACTATGAAAATAAGAAAAAATAAATTAAACTAGGG
4950796 TTTATGGT
131 TTTATGGT
* * *
4950804 TTTTAGGGTTAGGGTTTTAATGGTTTAAGAATTTTAGTGTTTTTTAAGGGAAAAATTAATGAACA
1 TTTTAGGGTTAAGGTTTTAATAGTTTAAGAATTTTAGAGTTTTTTAAGGGAAAAATTAATGAACA
*
4950869 CTTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAGAAAAAATAAATTAAACTAGGG
66 CTTAGAGTTGAGGGTTAATTAATTAAAATAACTATGAAAATAAGAAAAAATAAATTAAACTAGGG
4950934 TTTA
131 TTTA
4950938 ATAGTTTAGG
Statistics
Matches: 124, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
137 27 0.22
138 97 0.78
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.37
Consensus pattern (138 bp):
TTTTAGGGTTAAGGTTTTAATAGTTTAAGAATTTTAGAGTTTTTTAAGGGAAAAATTAATGAACA
CTTAGAGTTGAGGGTTAATTAATTAAAATAACTATGAAAATAAGAAAAAATAAATTAAACTAGGG
TTTATGGT
Found at i:4950976 original size:17 final size:17
Alignment explanation
Indices: 4950949--4951007 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
4950939 TAGTTTAGGA
*
4950949 TTTAATGGTTTAAGGTT
1 TTTAGTGGTTTAAGGTT
*
4950966 TATAGTGGTTTAAGGTTT
1 TTTAGTGGTTTAAGG-TT
* *
4950984 TTTGGTGGTTTAGGGTT
1 TTTAGTGGTTTAAGGTT
4951001 TTTAGTG
1 TTTAGTG
4951008 TTTTTTAAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 21 0.60
18 14 0.40
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.53
Consensus pattern (17 bp):
TTTAGTGGTTTAAGGTT
Found at i:4951052 original size:297 final size:293
Alignment explanation
Indices: 4950538--4951112 Score: 750
Period size: 297 Copynumber: 1.9 Consensus size: 293
4950528 GGTTTAGGGT
4950538 TTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTCAGGGTTAATTAATTAAATTAA
1 TTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTCAGGGTTAATTAATTAAATTAA
* * * * * * * *
4950603 CTATGAGAATAAAAAAATGATTAAATTAGGGTTTCAAGTTTTTTATGGTTAGGGTTTTTGATTGT
66 CTATGAAAATAAAAAAATAATTAAACTAGGGTTTAAAGTTTTTTATGGTTAAGGTTTATGAGTGG
* *
4950668 TTTAGGGTTAAGGTTTTAATAGTTTAAGGTTTTAGAGTTTTTTAAGGGAGAAATTAATGAACACT
131 TTTAAGGTT-A--TTTTAATAGTTTAAGGTTTTAGAGTTTTTTAAGGGAAAAATTAATGAACACT
* *
4950733 TAGAGTTGAGGG-TTAATTAATTAAAATAACTATGAAGATAAGAAAAAATCAATTAAATTAGGGT
193 TAGAGTTGAGGGATTAATTAA-TAAATTAACTATGAAAAT-A-AAAAAATCAATTAAATTAGGGT
*
4950797 TTATGG-TTTTTAGGGTTAGGGTTTTAATGGTTTAAGAA
255 TTAGGGTTTTTTAGGGTTAGGGTTTTAATGGTTTAAGAA
*
4950835 TTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGAGGGTTAATTAATTAAATTAA
1 TTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTCAGGGTTAATTAATTAAATTAA
4950900 CTATGAAAATAAGAAAAAATAAATTAAACTAGGGTTTAATAGTTTAGGATTTAATGGTTTAAGGT
66 CTATGAAAAT-A-AAAAAAT-AATTAAACTAGGGTTTAA-AGTTT----TTT-ATGG-TTAAGGT
** * * *
4950965 TTAT-AGTGGTTTAAGGTT-TTTTGGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAA
121 TTATGAGTGGTTTAAGGTTATTTTAATAGTTTAAGG-TTTTAGAGTTTTTTAAGGGAAAAATTAA
**
4951028 TTTA-A-TTAGAGTTGAGGG-TTAATTAATTAAATTAACTATGAAAATAAAAAAATCAATTAAAT
185 TGAACACTTAGAGTTGAGGGATTAATTAA-TAAATTAACTATGAAAATAAAAAAATCAATTAAAT
4951090 TAGGGTTTAGGGTTTTTTAGGGT
249 TAGGGTTTAGGGTTTTTTAGGGT
4951113 CTATTAATTA
Statistics
Matches: 245, Mismatches: 21, Indels: 21
0.85 0.07 0.07
Matches are distributed among these distances:
297 73 0.30
298 1 0.00
299 34 0.14
300 26 0.11
301 43 0.18
302 13 0.05
303 28 0.11
305 3 0.01
306 15 0.06
307 9 0.04
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.40
Consensus pattern (293 bp):
TTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTCAGGGTTAATTAATTAAATTAA
CTATGAAAATAAAAAAATAATTAAACTAGGGTTTAAAGTTTTTTATGGTTAAGGTTTATGAGTGG
TTTAAGGTTATTTTAATAGTTTAAGGTTTTAGAGTTTTTTAAGGGAAAAATTAATGAACACTTAG
AGTTGAGGGATTAATTAATAAATTAACTATGAAAATAAAAAAATCAATTAAATTAGGGTTTAGGG
TTTTTTAGGGTTAGGGTTTTAATGGTTTAAGAA
Found at i:4951367 original size:126 final size:127
Alignment explanation
Indices: 4951134--4951443 Score: 491
Period size: 126 Copynumber: 2.5 Consensus size: 127
4951124 ATTAACTATT
* * * *
4951134 AATTACGG-AAAAAAGCTCCCATGTGGACGCTCTTTTACTACAGTGGTATCTAATAAAATAATTT
1 AATTTCGGAAAAAAAGCTTCCACGTGGACGCTCTTTTACTACAGTGGTATCTGATAAAATAATTT
* *
4951198 TGAGAAGATGTTTCTAAACAAATAGTGTCAAAAATGATTCAAGAAGGATGCA-TTTTAGCAA
66 TGAGAAGATATTTCTAAACAAATAGTGTCAAAAATGATTCAAGAAGGATGCACTTTCAGCAA
*
4951259 AATTTCGGAAAAAAAGCTTCCACGTGGACGCTATTTTACTACAGTGGTATCTGATAAAATAATTT
1 AATTTCGGAAAAAAAGCTTCCACGTGGACGCTCTTTTACTACAGTGGTATCTGATAAAATAATTT
* *
4951324 TGAGAAGATATTTCTGAACAAATAGTGTCAAAAATGCTTCAAGAAGGATGCACTTTCAGCAA
66 TGAGAAGATATTTCTAAACAAATAGTGTCAAAAATGATTCAAGAAGGATGCACTTTCAGCAA
* * *
4951386 AATTTCAGAAAAAAAGCTTCCACGTAGACGCTCTTTTGCTACAGTGGTATCTGA-AAAA
1 AATTTCGGAAAAAAAGCTTCCACGTGGACGCTCTTTTACTACAGTGGTATCTGATAAAA
4951444 GCCTTAGACT
Statistics
Matches: 170, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
125 7 0.04
126 105 0.62
127 58 0.34
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (127 bp):
AATTTCGGAAAAAAAGCTTCCACGTGGACGCTCTTTTACTACAGTGGTATCTGATAAAATAATTT
TGAGAAGATATTTCTAAACAAATAGTGTCAAAAATGATTCAAGAAGGATGCACTTTCAGCAA
Found at i:4953477 original size:7 final size:7
Alignment explanation
Indices: 4953465--4953507 Score: 68
Period size: 7 Copynumber: 6.0 Consensus size: 7
4953455 TTATATAGGT
4953465 AATACTA
1 AATACTA
4953472 AATACTA
1 AATACTA
4953479 AATACTA
1 AATACTA
4953486 AATACTA
1 AATACTA
*
4953493 AATACGA
1 AATACTA
4953500 AATTACTA
1 AA-TACTA
4953508 TTTTATTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
7 29 0.88
8 4 0.12
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:4954668 original size:19 final size:21
Alignment explanation
Indices: 4954646--4954684 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4954636 ACACAGCTTT
4954646 TTTG-CAAAAATT-AGAGAAC
1 TTTGACAAAAATTGAGAGAAC
4954665 TTTGACAAAAATTGAGAGAA
1 TTTGACAAAAATTGAGAGAA
4954685 AATTGAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 8 0.44
21 6 0.33
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.26
Consensus pattern (21 bp):
TTTGACAAAAATTGAGAGAAC
Found at i:4954688 original size:11 final size:10
Alignment explanation
Indices: 4954666--4954712 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
4954656 TTAGAGAACT
*
4954666 TTGACAAAAA
1 TTGAGAAAAA
4954676 TTGAGAGAAAA
1 TTGAGA-AAAA
*
4954687 TTGAGAAAAT
1 TTGAGAAAAA
4954697 TTG-GAAAGAA
1 TTGAGAAA-AA
4954707 TTGAGA
1 TTGAGA
4954713 GAGAATTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 4 0.13
10 15 0.48
11 12 0.39
ACGTcount: A:0.51, C:0.02, G:0.23, T:0.23
Consensus pattern (10 bp):
TTGAGAAAAA
Found at i:4954690 original size:21 final size:20
Alignment explanation
Indices: 4954650--4954695 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
4954640 AGCTTTTTTG
**
4954650 CAAAAATTAGAGAACTTTGA
1 CAAAAATTAGAGAAAATTGA
4954670 CAAAAATTGAGAGAAAATTGA
1 CAAAAATT-AGAGAAAATTGA
*
4954691 GAAAA
1 CAAAA
4954696 TTTGGAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAAATTAGAGAAAATTGA
Found at i:4954808 original size:12 final size:13
Alignment explanation
Indices: 4954780--4954812 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
4954770 TTTTTTTTTT
4954780 ACCGTTGGGGATG
1 ACCGTTGGGGATG
4954793 ACCGTTGGGG-TG
1 ACCGTTGGGGATG
4954805 ACCGTTGG
1 ACCGTTGG
4954813 AGCGGGGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.12, C:0.18, G:0.45, T:0.24
Consensus pattern (13 bp):
ACCGTTGGGGATG
Found at i:4957074 original size:26 final size:26
Alignment explanation
Indices: 4957028--4957080 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
4957018 TCAAATATGC
*
4957028 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
4957054 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
4957080 A
1 A
4957081 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:4958597 original size:26 final size:26
Alignment explanation
Indices: 4958566--4958673 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
4958556 TGAAATTCCC
4958566 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
4958592 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
4958618 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
4958644 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
4958670 ATCA
1 ATCA
4958674 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:4969729 original size:16 final size:17
Alignment explanation
Indices: 4969706--4969752 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
4969696 TATTCGGAAT
4969706 TATATTTTTACCCAAAC
1 TATATTTTTACCCAAAC
**
4969723 T-TATTTTT--CGGAAC
1 TATATTTTTACCCAAAC
4969737 TATATTTTTACCCAAA
1 TATATTTTTACCCAAA
4969753 TCCTTCCACT
Statistics
Matches: 23, Mismatches: 4, Indels: 6
0.70 0.12 0.18
Matches are distributed among these distances:
14 5 0.22
15 7 0.30
16 7 0.30
17 4 0.17
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (17 bp):
TATATTTTTACCCAAAC
Found at i:4972739 original size:23 final size:23
Alignment explanation
Indices: 4972710--4972755 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
4972700 TAGAGTCACT
4972710 AAACTAAATTTTATGGTATGATA
1 AAACTAAATTTTATGGTATGATA
4972733 AAACTAAATTTTATGGTATGATA
1 AAACTAAATTTTATGGTATGATA
4972756 CATGGGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.39
Consensus pattern (23 bp):
AAACTAAATTTTATGGTATGATA
Found at i:4974189 original size:145 final size:144
Alignment explanation
Indices: 4973899--4974189 Score: 399
Period size: 143 Copynumber: 2.0 Consensus size: 144
4973889 CTTACTCCTC
* *
4973899 ATTCTCTTCTACTCTCCATCAATTTCTAGGACATAACAGGAAAAGAATGAAAATTCATTTCTCAA
1 ATTCTCTTCTACTCTCCATCAATTTCTAGGACATAACAAGAAAAGAATGAAAATTCATTTATCAA
** * *
4973964 AACTTTCAACTCTTGATCAATTTCCAGAAGATAAAAAAAATTAAAACAAAAACTCATTTATTAAT
66 AACTTTCAACTCTCAATCAATTTCCAGAAGATAAAAAAAACTAAAACAAAAACCCATTTATTAAT
*
4974029 AATAGATCTGTAAA
131 AATAGATCTATAAA
* *
4974043 ATTCTCTTCTACTCTCCATTAATTTCT-GGAATATAACAAGAAAA-AAT-AAAATTTCATTTATC
1 ATTCTCTTCTACTCTCCATCAATTTCTAGG-ACATAACAAGAAAAGAATGAAAA-TTCATTTATC
* * * * *
4974105 AATAGTTTCAACTCTCAATCAATTTTCAGAAGATAACAAAAAAACTAAAACTAAAACCCATTTCT
64 AAAACTTTCAACTCTCAATCAATTTCCAGAAGAT-A-AAAAAAACTAAAACAAAAACCCATTTAT
4974170 TAATAATAGATCTATAAA
127 TAATAATAGATCTATAAA
4974188 AT
1 AT
4974190 GTGATTCGGA
Statistics
Matches: 129, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
142 4 0.03
143 43 0.33
144 39 0.30
145 43 0.33
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.32
Consensus pattern (144 bp):
ATTCTCTTCTACTCTCCATCAATTTCTAGGACATAACAAGAAAAGAATGAAAATTCATTTATCAA
AACTTTCAACTCTCAATCAATTTCCAGAAGATAAAAAAAACTAAAACAAAAACCCATTTATTAAT
AATAGATCTATAAA
Found at i:4974595 original size:22 final size:24
Alignment explanation
Indices: 4974563--4974649 Score: 83
Period size: 27 Copynumber: 3.6 Consensus size: 24
4974553 ATTTGGATTG
4974563 AATT-ATTATT-AATTTT-TTTAT
1 AATTAATTATTAAATTTTATTTAT
*
4974584 AATTAATTATTAAATTATTATTTTT
1 AATTAATTATTAAATT-TTATTTAT
*
4974609 ATATTAATATGTTAATATTTTATTTAT
1 A-ATTAAT-TATTAA-ATTTTATTTAT
*
4974636 AATTAAAT-TTAAAT
1 AATTAATTATTAAAT
4974650 AAAAATATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
21 4 0.07
22 6 0.11
23 6 0.11
24 6 0.11
25 6 0.11
26 11 0.20
27 13 0.24
28 3 0.05
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (24 bp):
AATTAATTATTAAATTTTATTTAT
Found at i:4974607 original size:27 final size:25
Alignment explanation
Indices: 4974574--4974649 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 25
4974564 ATTATTATTA
4974574 ATTTTTTTATAATTAATTATTAAATT
1 ATTTTTTTATAATTAA-TATTAAATT
*
4974600 ATTATTTTTAT-ATTAATATGTTAA-T
1 ATT-TTTTTATAATTAATAT-TAAATT
4974625 ATTTTATTTATAATTAA-ATTTAAAT
1 ATTTT-TTTATAATTAATA-TTAAAT
4974650 AAAAATATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
24 2 0.05
25 16 0.38
26 17 0.40
27 7 0.17
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (25 bp):
ATTTTTTTATAATTAATATTAAATT
Found at i:4975272 original size:20 final size:20
Alignment explanation
Indices: 4975247--4975287 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4975237 TTATGGGTTT
4975247 ACTTTTGATAAACATATTTA
1 ACTTTTGATAAACATATTTA
* *
4975267 ACTTTTGGTAAACATTTTTA
1 ACTTTTGATAAACATATTTA
4975287 A
1 A
4975288 TAGGTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (20 bp):
ACTTTTGATAAACATATTTA
Found at i:4975785 original size:30 final size:30
Alignment explanation
Indices: 4975751--4975813 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
4975741 ACTTATTTTA
4975751 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
4975781 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
4975811 TTG
1 TTG
4975814 CTTGTTTGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:4977539 original size:37 final size:37
Alignment explanation
Indices: 4977489--4977566 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
4977479 GCAAGACAGG
4977489 ACATCTGGTCGATCGGTGCTATCATCGATTTGATGCA
1 ACATCTGGTCGATCGGTGCTATCATCGATTTGATGCA
4977526 ACATCTGGTCGATCGGTGCTATCATCGATTTGATGCA
1 ACATCTGGTCGATCGGTGCTATCATCGATTTGATGCA
4977563 ACAT
1 ACAT
4977567 ACAAGAGTGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (37 bp):
ACATCTGGTCGATCGGTGCTATCATCGATTTGATGCA
Found at i:4977551 original size:21 final size:21
Alignment explanation
Indices: 4977490--4977551 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
4977480 CAAGACAGGA
4977490 CATCTGGTCGATCGGTGCTAT
1 CATCTGGTCGATCGGTGCTAT
* * * *
4977511 CATC-GAT---TTGATGC-AA
1 CATCTGGTCGATCGGTGCTAT
4977527 CATCTGGTCGATCGGTGCTAT
1 CATCTGGTCGATCGGTGCTAT
4977548 CATC
1 CATC
4977552 GATTTGATGC
Statistics
Matches: 28, Mismatches: 8, Indels: 10
0.61 0.17 0.22
Matches are distributed among these distances:
16 5 0.18
17 7 0.25
20 7 0.25
21 9 0.32
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (21 bp):
CATCTGGTCGATCGGTGCTAT
Found at i:4981723 original size:44 final size:44
Alignment explanation
Indices: 4981666--4981789 Score: 203
Period size: 44 Copynumber: 2.8 Consensus size: 44
4981656 CGGTAATTAT
* * *
4981666 AATACAATACACTTAATCACCAAAAGTCAACAAATGATGATTCC
1 AATACAATGCACTTAGTCACCAAAAGTCAGCAAATGATGATTCC
* *
4981710 AATACAGTGCACTTAGTCACCAAAAGTCAGCAAATGATGATTTC
1 AATACAATGCACTTAGTCACCAAAAGTCAGCAAATGATGATTCC
4981754 AATACAATGCACTTAGTCACCAAAAGTCAGCAAATG
1 AATACAATGCACTTAGTCACCAAAAGTCAGCAAATG
4981790 GTTATGTGCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 74 1.00
ACGTcount: A:0.44, C:0.22, G:0.12, T:0.23
Consensus pattern (44 bp):
AATACAATGCACTTAGTCACCAAAAGTCAGCAAATGATGATTCC
Found at i:4986385 original size:21 final size:22
Alignment explanation
Indices: 4986354--4986395 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
4986344 AAACATTATA
4986354 AAAAAATAATAAAGAAAAATAG
1 AAAAAATAATAAAGAAAAATAG
* *
4986376 AAAAAA-AATAGAGAGAAATA
1 AAAAAATAATAAAGAAAAATA
4986396 ATGTAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (22 bp):
AAAAAATAATAAAGAAAAATAG
Found at i:4986689 original size:31 final size:30
Alignment explanation
Indices: 4986654--4986720 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
4986644 GACTAACGGA
*
4986654 GTACCAATTTG-GAAAAAAACAAATAGTTTAG
1 GTACCAACTTGTG-AAAAAA-AAATAGTTTAG
**
4986685 GTACC-ACTTGTGACTAAAAAATAGTTTAG
1 GTACCAACTTGTGAAAAAAAAATAGTTTAG
4986714 GTACCAA
1 GTACCAA
4986721 GATAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 16 0.52
30 9 0.29
31 6 0.19
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.27
Consensus pattern (30 bp):
GTACCAACTTGTGAAAAAAAAATAGTTTAG
Found at i:4986955 original size:28 final size:28
Alignment explanation
Indices: 4986924--4986980 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
4986914 GGGAAAAAAG
4986924 AAAGAAAGAATAGTTTGATTTCTTCACC
1 AAAGAAAGAATAGTTTGATTTCTTCACC
*
4986952 AAAGAAAGAATAGTTTGCTTTCTTCACC
1 AAAGAAAGAATAGTTTGATTTCTTCACC
4986980 A
1 A
4986981 TTCATTGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (28 bp):
AAAGAAAGAATAGTTTGATTTCTTCACC
Found at i:4993365 original size:57 final size:58
Alignment explanation
Indices: 4993238--4993370 Score: 135
Period size: 57 Copynumber: 2.3 Consensus size: 58
4993228 TTTGTCTAAA
* * **
4993238 AACTTGATAATTGTTCTTATATTGGGGTTTAAGCTTTTTTTTGTCCAAGCTAATCCCTG
1 AACTTGACAATTGTTCTTATATTGGGGCTTAA-CTTTTTTTTGTCCAAGCTAATCCAAG
* * * * *
4993297 AACTTGGCAATTGTTCCTT-TATTGGGGCTTAA-TTTTTTTTGTCTAAGTTAGTCTAAG
1 AACTTGACAATTGTT-CTTATATTGGGGCTTAACTTTTTTTTGTCCAAGCTAATCCAAG
* *
4993354 GACTTGACAATTATTCT
1 AACTTGACAATTGTTCT
4993371 CACGTTGAAG
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
56 2 0.03
57 31 0.51
59 25 0.41
60 3 0.05
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (58 bp):
AACTTGACAATTGTTCTTATATTGGGGCTTAACTTTTTTTTGTCCAAGCTAATCCAAG
Found at i:4994301 original size:52 final size:52
Alignment explanation
Indices: 4994243--4994346 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
4994233 TTTGTATCGA
*
4994243 TATATACTATATATAAGTCATTAACTGAGATAGTGTTAGTGAGCACTAACTC
1 TATATACTATATATAAGTCATTAACTGAGATAGTGTTAGTGAGAACTAACTC
* * *
4994295 TATATACTCTATATAAGTCATTGACTGAGCTAGTGTTAGTGAGAACTAACTC
1 TATATACTATATATAAGTCATTAACTGAGATAGTGTTAGTGAGAACTAACTC
4994347 AGTTGGTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (52 bp):
TATATACTATATATAAGTCATTAACTGAGATAGTGTTAGTGAGAACTAACTC
Found at i:4995151 original size:14 final size:16
Alignment explanation
Indices: 4995132--4995169 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
4995122 AAATGAAGTA
4995132 CTAAATTTT-T-ACTG
1 CTAAATTTTATAACTG
*
4995146 CTAAATTTTATAAGTG
1 CTAAATTTTATAACTG
4995162 CTAAATTT
1 CTAAATTT
4995170 ATATTAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 11 0.52
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (16 bp):
CTAAATTTTATAACTG
Found at i:4995165 original size:16 final size:15
Alignment explanation
Indices: 4995127--4995169 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
4995117 CTAATAAATG
*
4995127 AAGTACTAAATTTTT
1 AAGTGCTAAATTTTT
*
4995142 -ACTGCTAAATTTTAT
1 AAGTGCTAAATTTT-T
4995157 AAGTGCTAAATTT
1 AAGTGCTAAATTT
4995170 ATATTAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 11 0.48
15 1 0.04
16 11 0.48
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (15 bp):
AAGTGCTAAATTTTT
Found at i:4999953 original size:19 final size:19
Alignment explanation
Indices: 4999917--4999955 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4999907 ATACAAATAA
* **
4999917 TTTTAAACATTTTTTTAAT
1 TTTTAAAAATTTAATTAAT
4999936 TTTTAAAAATTTAATTAAT
1 TTTTAAAAATTTAATTAAT
4999955 T
1 T
4999956 GCTAATGTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAAAAATTTAATTAAT
Found at i:5000987 original size:23 final size:23
Alignment explanation
Indices: 5000955--5001011 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
5000945 TTATATTAAA
* *
5000955 AATTTAATTTAATTTAATTTTAT
1 AATTAAATTTAATATAATTTTAT
* *
5000978 -ATTAATATTTTATATATTTTTAT
1 AATTAA-ATTTAATATAATTTTAT
5001001 AATTAAATTTA
1 AATTAAATTTA
5001012 TTATTTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
22 4 0.15
23 18 0.67
24 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
AATTAAATTTAATATAATTTTAT
Found at i:5001018 original size:21 final size:23
Alignment explanation
Indices: 5000972--5001018 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
5000962 TTTAATTTAA
5000972 TTTTATATTAATATTTTATATAT
1 TTTTATATTAATATTTTATATAT
5000995 TTTTATAATTAA-A-TTTAT-TAT
1 TTTTAT-ATTAATATTTTATATAT
5001016 TTT
1 TTT
5001019 AAAAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.26
22 5 0.22
23 7 0.30
24 5 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTATATTAATATTTTATATAT
Found at i:5001457 original size:28 final size:28
Alignment explanation
Indices: 5001426--5001479 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
5001416 ATCCAAATAA
*
5001426 TATAAAAAAT-AATTAATTACGAAAAAGG
1 TATAAAAAATAAAATAATTAC-AAAAAGG
*
5001454 TATAGAAAATAAAATAATTACAAAAA
1 TATAAAAAATAAAATAATTACAAAAA
5001480 TAAGCATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.24
Consensus pattern (28 bp):
TATAAAAAATAAAATAATTACAAAAAGG
Found at i:5004901 original size:16 final size:16
Alignment explanation
Indices: 5004880--5004911 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
5004870 GGTCATAATA
5004880 GGAGTAAATGCCCACT
1 GGAGTAAATGCCCACT
5004896 GGAGTAAATGCCCACT
1 GGAGTAAATGCCCACT
5004912 CTAAAACTAC
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:0.25, G:0.25, T:0.19
Consensus pattern (16 bp):
GGAGTAAATGCCCACT
Found at i:5005188 original size:78 final size:77
Alignment explanation
Indices: 5005058--5005273 Score: 246
Period size: 78 Copynumber: 2.9 Consensus size: 77
5005048 AAAGTTTGTT
* * * * * *
5005058 TATTTAAATTGC-AAAAAACTAC-TAAAATTAATAACTGAAATAGCGACAAAGTCATTACATAAA
1 TATTTAAATTGCAAAAAAACCACATAAAATTGATAAATAAAATAGCAAAAAAGTCATTACATAAA
* *
5005121 TTCAAAGTTTAC
66 TACAAAGTTGAC
* * *
5005133 TATTTAAATTGCAAAAAAAACCCCATAAAATTGATAAATAAAATGGCAAAAAAGTCATTGCATAA
1 TATTTAAATTGC-AAAAAAACCACATAAAATTGATAAATAAAATAGCAAAAAAGTCATTACATAA
*
5005198 ATACAAAGTTGAT
65 ATACAAAGTTGAC
* * *
5005211 TATTTAAATTG-AAAAAAA-CACATAAAATTGATAAATAAAA-CG-AAAAAAATCAGTACATAAA
1 TATTTAAATTGCAAAAAAACCACATAAAATTGATAAATAAAATAGCAAAAAAGTCATTACATAAA
5005272 TA
66 TA
5005274 TGAAGTTATT
Statistics
Matches: 121, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
73 18 0.15
74 1 0.01
75 33 0.27
76 7 0.06
77 8 0.07
78 54 0.45
ACGTcount: A:0.54, C:0.11, G:0.08, T:0.26
Consensus pattern (77 bp):
TATTTAAATTGCAAAAAAACCACATAAAATTGATAAATAAAATAGCAAAAAAGTCATTACATAAA
TACAAAGTTGAC
Found at i:5005539 original size:33 final size:33
Alignment explanation
Indices: 5005474--5005601 Score: 143
Period size: 33 Copynumber: 3.9 Consensus size: 33
5005464 AGCCGGAAGT
* * *
5005474 AGTGGAGTACGGCGGTGGATACAGG-TAGGGAGG
1 AGTGGAGTACGGCGGTAGATACGGGCCA-GGAGG
*
5005507 AGTGGAGTACGGCGGTAGATATGGGCCAGGAGG
1 AGTGGAGTACGGCGGTAGATACGGGCCAGGAGG
* * *
5005540 AATAGAGTACGGCGGTAGATACGGACC-GAGAGG
1 AGTGGAGTACGGCGGTAGATACGGGCCAG-GAGG
* *
5005573 AGTGGAGTACAGCGTTAGATACGGGCCAG
1 AGTGGAGTACGGCGGTAGATACGGGCCAG
5005602 AAAGAGCGAA
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
32 1 0.01
33 76 0.96
34 2 0.03
ACGTcount: A:0.27, C:0.13, G:0.45, T:0.15
Consensus pattern (33 bp):
AGTGGAGTACGGCGGTAGATACGGGCCAGGAGG
Found at i:5005592 original size:66 final size:66
Alignment explanation
Indices: 5005478--5005601 Score: 171
Period size: 66 Copynumber: 1.9 Consensus size: 66
5005468 GGAAGTAGTG
* * * *
5005478 GAGTACGGCGGTGGATACAGGTAGGGAGGAGTGGAGTACGGCGGTAGATATGGGCCAGGAGGAAT
1 GAGTACGGCGGTAGATACAGGTAGAGAGGAGTGGAGTACAGCGGTAGATACGGGCCAGGAGGAAT
5005543 A
66 A
*
5005544 GAGTACGGCGGTAGATAC-GG-ACCGAGAGGAGTGGAGTACAGCGTTAGATACGGGCCAG
1 GAGTACGGCGGTAGATACAGGTA--GAGAGGAGTGGAGTACAGCGGTAGATACGGGCCAG
5005602 AAAGAGCGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
64 1 0.02
65 2 0.04
66 48 0.94
ACGTcount: A:0.27, C:0.14, G:0.44, T:0.15
Consensus pattern (66 bp):
GAGTACGGCGGTAGATACAGGTAGAGAGGAGTGGAGTACAGCGGTAGATACGGGCCAGGAGGAAT
A
Done.