Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 354 of 427
Found at i:102981200 original size:135 final size:135
Alignment explanation
Indices: 102980777--102981200 Score: 426
Period size: 126 Copynumber: 3.2 Consensus size: 135
102980767 ATTCACAAGT
** * * * *
102980777 CTTATCTTCCTGAAGTTGCAAGAAGTAGACTGAAAATTTACAAATCTTATCTTCATGTATCGGCT
1 CTTATCTTCCTGAAGAAGCAAGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCAGCT
* * ** * * *
102980842 ATGGAGCAGATCAGAA-ATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAAATTTTAGCCC
66 ATGGAGAAGATCA-AAGATGACGAGTCTTATCTCCATGTATCGAATATAGAACAGATTTTAGCCC
*
102980906 -CTAGT
130 ACTAGC
* ** * *
102980911 CTTATCTTTCTGAAGTTGC-AG--G-AAAC---AAA-TTACAGATCTTATCTCCATGTATCGGCT
1 CTTATCTTCCTGAAGAAGCAAGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCAGCT
** * * *
102980968 ATGGAGAAGATCAAAGATGACGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCCC
66 ATGGAGAAGATCAAAGATGACGAGTCTTATCTCCATGTATCGAATATAGAACAGATTTTAGCCCA
*
102981033 CTAGT
131 CTAGC
** *
102981038 CTTATCTTCCTGAAGTTGCAAGAAGCAGACTGAAAATTTACAGATCTTATCTTCATGTATCAGCT
1 CTTATCTTCCTGAAGAAGCAAGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCAGCT
* *
102981103 ATGGAGCAGATCAGAA-ATGGCGAGTCTTATCTCCATGTATCGAATATAGAACAGATTTTAG-CC
66 ATGGAGAAGATCA-AAGATGACGAGTCTTATCTCCATGTATCGAATATAGAACAGATTTTAGCCC
*
102981166 ACTGGC
130 ACTAGC
102981172 CTTATC-TCTCT-AAGAAAGCAAGAGAGCAG
1 CTTATCTTC-CTGAAG-AAGCAAGA-AGCAG
102981201 GTTAAAGATA
Statistics
Matches: 254, Mismatches: 22, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
125 2 0.01
126 84 0.33
127 26 0.10
128 2 0.01
130 4 0.02
131 4 0.02
133 7 0.03
134 40 0.16
135 83 0.33
136 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (135 bp):
CTTATCTTCCTGAAGAAGCAAGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCAGCT
ATGGAGAAGATCAAAGATGACGAGTCTTATCTCCATGTATCGAATATAGAACAGATTTTAGCCCA
CTAGC
Found at i:102981592 original size:84 final size:84
Alignment explanation
Indices: 102981445--102981890 Score: 517
Period size: 84 Copynumber: 5.3 Consensus size: 84
102981435 TGAAGATACG
* *
102981445 AGCCTTAACCCCCTAAGCAGTAGGGTAACATGCT-GAAAATACAGATCTTATCCCTAAACAGTAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATC-T-CCCCTAAACAGTAG
**
102981509 TGGAAAAGATCGAAGACAGCA
64 TGGAGCAGATCGAAGACAGCA
* * * * *
102981530 AGCTTTAACCCCTTAAACAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAATAGTAG-C
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAACAGTAGTG
*
102981594 GAGCAGATCGAAGATAGCA
66 GAGCAGATCGAAGACAGCA
102981613 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAACAGTAGTG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAACAGTAGTG
102981678 GAGCAGATCGAAGACAGCA
66 GAGCAGATCGAAGACAGCA
* * * * * *
102981697 AGCCTTGACCCCCTAAACAATAGCGTAACAGGATGGAAAATACAGATCTTCCCTAAACAGTAGTG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAACAGTAGTG
* *
102981762 GAGCATATCGAAGATAGCA
66 GAGCAGATCGAAGACAGCA
* * * ** *
102981781 AGCTTTAACCCCTTAAGCAGTAGGGTAATAGG-TTAAAAATTACAAATCTTATCTCCCTAAACAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAA-TACAGATC---TC-CCCTAAACAG
* * * *
102981845 TAGCGGAGCAGAT-TAA-AGA-CT
61 TAGTGGAGCAGATCGAAGACAGCA
* *
102981866 AGCCTTATCTCCCTAAGCAGTAGGG
1 AGCCTTAACCCCCTAAGCAGTAGGG
102981891 GAAACGGGCT
Statistics
Matches: 310, Mismatches: 44, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
83 80 0.26
84 138 0.45
85 53 0.17
86 15 0.05
87 3 0.01
88 21 0.07
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (84 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAACAGTAGTG
GAGCAGATCGAAGACAGCA
Found at i:102981674 original size:40 final size:40
Alignment explanation
Indices: 102981538--102981675 Score: 120
Period size: 40 Copynumber: 3.4 Consensus size: 40
102981528 CAAGCTTTAA
102981538 CCCCTTAAACAGTAGGGTAACAGGCTGGAAAATACAGATCT
1 CCCC-TAAACAGTAGGGTAACAGGCTGGAAAATACAGATCT
* * * * * * *
102981579 CCCCTAAATAGTAGCG-AGCA-GATCGAAGATAGCA-AGCCTT
1 CCCCTAAACAGTAGGGTAACAGGCTGGAAAATA-CAGA-TC-T
*
102981619 AACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCT
1 ---CCCCTAAACAGTAGGGTAACAGGCTGGAAAATACAGATCT
102981662 CCCCTAAACAGTAG
1 CCCCTAAACAGTAG
102981676 TGGAGCAGAT
Statistics
Matches: 72, Mismatches: 16, Indels: 19
0.67 0.15 0.18
Matches are distributed among these distances:
38 9 0.12
39 6 0.08
40 24 0.33
41 4 0.06
43 14 0.19
44 6 0.08
45 9 0.12
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (40 bp):
CCCCTAAACAGTAGGGTAACAGGCTGGAAAATACAGATCT
Found at i:102981727 original size:167 final size:168
Alignment explanation
Indices: 102981436--102981857 Score: 571
Period size: 167 Copynumber: 2.5 Consensus size: 168
102981426 AGAGCAGGCT
* * *
102981436 GAAGATA-CGAGCCTTAACCCCCTAAGCAGTAGGGTAACATGCTGAAAATACAGATCTTATCCCT
1 GAAGATAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTT-CCCCT
** * * * * *
102981500 AAACAGTAGTGGAAAAGATCGAAGACAGCAAGCTTTAACCCCTTAAACAGTAGGGTAACAGGCTG
65 AAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAACAATAGCGTAACAGGATG
*
102981565 GAAAATACAGATCTCCCCTAAATAGTAG-CGAGCAGATC
130 GAAAATACAGATCTCCCCTAAACAGTAGTCGAGCAGATC
102981603 GAAGATAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATC-TCCCCT
1 GAAGATAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAAATACAGATCTTCCCCT
*
102981667 AAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTGACCCCCTAAACAATAGCGTAACAGGATG
65 AAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAACAATAGCGTAACAGGATG
* * *
102981732 GAAAATACAGATCTTCCCTAAACAGTAGTGGAGCATATC
130 GAAAATACAGATCTCCCCTAAACAGTAGTCGAGCAGATC
* * * * * *
102981771 GAAGATAGCAAGCTTTAACCCCTTAAGCAGTAGGGTAATAGGTTAAAAATTACAAATCTTATCTC
1 GAAGATAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAA-TACAGATC-T-TC-C
*
102981836 CCTAAACAGTAGCGGAGCAGAT
62 CCTAAACAGTAGTGGAGCAGAT
102981858 TAAAGACTAG
Statistics
Matches: 225, Mismatches: 22, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
167 98 0.44
168 90 0.40
169 13 0.06
171 2 0.01
172 22 0.10
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.19
Consensus pattern (168 bp):
GAAGATAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTCCCCTA
AACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAACAATAGCGTAACAGGATGG
AAAATACAGATCTCCCCTAAACAGTAGTCGAGCAGATC
Found at i:102982218 original size:17 final size:17
Alignment explanation
Indices: 102982198--102982236 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
102982188 ACTAAACCGA
102982198 CCACTAACTCCATCACC
1 CCACTAACTCCATCACC
*
102982215 CCACTAACTCCATTACC
1 CCACTAACTCCATCACC
102982232 CCACT
1 CCACT
102982237 TGCCACCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.28, C:0.51, G:0.00, T:0.21
Consensus pattern (17 bp):
CCACTAACTCCATCACC
Found at i:102982601 original size:3 final size:3
Alignment explanation
Indices: 102982593--102982762 Score: 175
Period size: 3 Copynumber: 56.3 Consensus size: 3
102982583 GGGGAGAGTG
102982593 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
102982641 TTA TTA TTA TTA TTA TTA CTG TTA CTA TTA TT- TTA TATA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA
** * * ** * *
102982687 CCA TTA TTTA TTTA TTA TTA TTA GTA GTA ACA -TA TTG TTA TTT TTA
1 TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
102982733 TTA TT- TTA TTA TTA TTA TTG TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
102982763 CATGGTACTA
Statistics
Matches: 141, Mismatches: 20, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
2 5 0.04
3 124 0.88
4 11 0.08
5 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:102982924 original size:26 final size:26
Alignment explanation
Indices: 102982895--102982945 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
102982885 TCTTATATAA
*
102982895 TAATTTTTCCT-ATATTATTATTATTC
1 TAATTTTTACTAATA-TATTATTATTC
*
102982921 TAATTTTTATTAATATATTATTATT
1 TAATTTTTACTAATATATTATTATT
102982946 ATTGTCTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (26 bp):
TAATTTTTACTAATATATTATTATTC
Found at i:102984853 original size:22 final size:20
Alignment explanation
Indices: 102984804--102984855 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
102984794 ATTAATAAAT
*
102984804 ATATTTTAATTAAA-AATAA
1 ATATTTTAATAAAATAATAA
*
102984823 ACATTTTAATAAACATAATAA
1 ATATTTTAATAAA-ATAATAA
102984844 ATACTTTTAATA
1 ATA-TTTTAATA
102984856 CTTTATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 11 0.41
20 1 0.04
21 7 0.26
22 8 0.30
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (20 bp):
ATATTTTAATAAAATAATAA
Found at i:102995438 original size:16 final size:16
Alignment explanation
Indices: 102995417--102995447 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
102995407 ATCTAAATAA
*
102995417 ATATTATTTTATTATT
1 ATATTATATTATTATT
102995433 ATATTATATTATTAT
1 ATATTATATTATTAT
102995448 AATTAAAACA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATATTATATTATTATT
Found at i:103006765 original size:40 final size:40
Alignment explanation
Indices: 103006706--103006913 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
103006696 CAATTGAATG
* * * *
103006706 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
103006746 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
103006786 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTTTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
103006826 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
103006866 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
103006906 ATATCCGG
1 ATATCCGG
103006914 TTGTATTCCG
Statistics
Matches: 141, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:103009478 original size:16 final size:16
Alignment explanation
Indices: 103009459--103009489 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
103009449 ATTTAAGTAA
*
103009459 ATATTATTTTATTATT
1 ATATTATATTATTATT
103009475 ATATTATATTATTAT
1 ATATTATATTATTAT
103009490 AGTTAAAACA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATATTATATTATTATT
Found at i:103013881 original size:27 final size:29
Alignment explanation
Indices: 103013842--103013918 Score: 95
Period size: 27 Copynumber: 2.7 Consensus size: 29
103013832 AACCTCGATA
*
103013842 CAATGTTAGCTTGTGTGAGCAA-ATTCAT
1 CAATGTCAGCTTGTGTGAGCAACATTCAT
* * *
103013870 -AATGTCAGCTTGTGTGAGTAACCTTGAT
1 CAATGTCAGCTTGTGTGAGCAACATTCAT
*
103013898 CACTGTCAGCTTGTGTGAGCA
1 CAATGTCAGCTTGTGTGAGCA
103013919 CTATAGTCCC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 19 0.46
28 4 0.10
29 18 0.44
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (29 bp):
CAATGTCAGCTTGTGTGAGCAACATTCAT
Found at i:103016795 original size:2 final size:2
Alignment explanation
Indices: 103016788--103016815 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
103016778 AGTGTACTAA
103016788 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
103016816 TCATTTTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103017571 original size:22 final size:24
Alignment explanation
Indices: 103017531--103017577 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
103017521 AAGTCTCTTT
*
103017531 TTTTTTTTCAATTTATTTCCCTTC
1 TTTTTTTTCAATGTATTTCCCTTC
*
103017555 TTTTTTTT-AATGT-TTTCTCTTC
1 TTTTTTTTCAATGTATTTCCCTTC
103017577 T
1 T
103017578 CTGCTTGTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 4 0.19
24 8 0.38
ACGTcount: A:0.11, C:0.17, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTTTTTTCAATGTATTTCCCTTC
Found at i:103018082 original size:22 final size:19
Alignment explanation
Indices: 103018039--103018087 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 19
103018029 AATTTAGTTA
103018039 TTAATATTTACATTTTTTTT
1 TTAA-ATTTACATTTTTTTT
103018059 TTAAATTTACTATTATTCTTTT
1 TTAAATTTAC-ATT-TT-TTTT
103018081 TTAAATT
1 TTAAATT
103018088 AAATTTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.23
20 7 0.27
21 2 0.08
22 11 0.42
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (19 bp):
TTAAATTTACATTTTTTTT
Found at i:103018394 original size:24 final size:24
Alignment explanation
Indices: 103018328--103018398 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
103018318 AAAAAATTTA
* *
103018328 AATTGTTATGTGAGTTACCATGTG
1 AATTGTTACGTGAGTTGCCATGTG
103018352 AATTGTTACG-GTAGTTGCCATGTG
1 AATTGTTACGTG-AGTTGCCATGTG
*
103018376 AATTGTTACGTGAGCTGCCATGT
1 AATTGTTACGTGAGTTGCCATGT
103018399 TTAAAAGTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 1 0.02
24 40 0.95
25 1 0.02
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.38
Consensus pattern (24 bp):
AATTGTTACGTGAGTTGCCATGTG
Found at i:103025727 original size:53 final size:53
Alignment explanation
Indices: 103025586--103025736 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
103025576 ACAAGTGTGC
* **
103025586 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
103025639 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
103025692 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
103025737 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:103029759 original size:26 final size:26
Alignment explanation
Indices: 103029721--103029882 Score: 288
Period size: 26 Copynumber: 6.2 Consensus size: 26
103029711 CATGATATTC
*
103029721 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
103029747 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
103029773 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
103029799 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
*
103029825 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
103029851 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
103029877 TTATCA
1 TTATCA
103029883 ATTTGTATCA
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 130 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:103041621 original size:5 final size:5
Alignment explanation
Indices: 103041611--103041650 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
103041601 TTTAAGAAAA
*
103041611 TAATT TAATT TAATT TAATT TAATC TAATT ATAA-T TAATT
1 TAATT TAATT TAATT TAATT TAATT TAATT -TAATT TAATT
103041651 ACTATTTCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.10
5 25 0.81
6 3 0.10
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (5 bp):
TAATT
Found at i:103042299 original size:18 final size:17
Alignment explanation
Indices: 103042260--103042320 Score: 95
Period size: 17 Copynumber: 3.5 Consensus size: 17
103042250 ATGGAAATAT
*
103042260 AATCTTAGATATAATAC
1 AATCTTAGATATGATAC
*
103042277 AATCTTAGATATGATTGC
1 AATCTTAGATATGA-TAC
103042295 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
103042312 AATCTTAGA
1 AATCTTAGA
103042321 AGATATGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
17 24 0.60
18 16 0.40
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (17 bp):
AATCTTAGATATGATAC
Found at i:103042823 original size:17 final size:16
Alignment explanation
Indices: 103042799--103042853 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
103042789 TAAACCAATA
103042799 TATTTTATATAATTAT
1 TATTTTATATAATTAT
103042815 TATTCTTATA-AATATAT
1 TATT-TTATATAAT-TAT
*
103042832 TTTTATTATAT-ATTA-
1 TATT-TTATATAATTAT
103042847 TATTTTA
1 TATTTTA
103042854 AATTTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
14 3 0.09
15 3 0.09
16 9 0.27
17 18 0.55
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTTATATAATTAT
Found at i:103042877 original size:26 final size:25
Alignment explanation
Indices: 103042830--103042878 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
103042820 TTATAAATAT
* * *
103042830 ATTTTTATTATATATTATATTTTAA
1 ATTTTTATTAAATATCACATTTTAA
103042855 ATTTATTATTAAATATCACATTTT
1 ATTT-TTATTAAATATCACATTTT
103042879 TTTATATGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATTAAATATCACATTTTAA
Found at i:103048121 original size:128 final size:127
Alignment explanation
Indices: 103047849--103048178 Score: 446
Period size: 128 Copynumber: 2.6 Consensus size: 127
103047839 TATTTAGTCC
* * * * * **
103047849 AACGGAAAATCGAAACCCAACACGGTAGGAAACGATTCCTTGAACTTCCAAACATTGAACATTGC
1 AACGGGAAATCGAAACCCAGCACGGTAGGACACGATTCCTCGAATTTCCAAACATCAAACATTGC
* * * * *
103047914 CTTGTTTTAGAATTTAAAGAATACAAATGAAATTCTAAAGGAATATTTAATTATTTTGAACA
66 CTTGTTTTAGAATTTAAAAAACACAAATGAAATTCTAAAGGAAAATTCAATTATTTCGAACA
** * * *
103047976 AACAAGAAATCGAAACCCAGCACGATAGGACACGATTCCTCGAATTTCCAAGCAGCAAACATTGC
1 AACGGGAAATCGAAACCCAGCACGGTAGGACACGATTCCTCGAATTTCCAAACATCAAACATTGC
* *
103048041 CTTGTTTTAGAATTTAGAAAAACACAAGTGAAATTCTAAAGGAAAATTCGATTATTTCGAACA
66 CTTGTTTTAGAATTTA-AAAAACACAAATGAAATTCTAAAGGAAAATTCAATTATTTCGAACA
*
103048104 AACGGGAAATCGAAACCCAGCACGGTAGGGCACGATTTCC-CGAATTTCCAAACATCAAACATTG
1 AACGGGAAATCGAAACCCAGCACGGTAGGACACGA-TTCCTCGAATTTCCAAACATCAAACATTG
103048168 CCTTCGTTTTA
65 CCTT-GTTTTA
103048179 AGGAATTTTT
Statistics
Matches: 175, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
127 69 0.39
128 96 0.55
129 10 0.06
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (127 bp):
AACGGGAAATCGAAACCCAGCACGGTAGGACACGATTCCTCGAATTTCCAAACATCAAACATTGC
CTTGTTTTAGAATTTAAAAAACACAAATGAAATTCTAAAGGAAAATTCAATTATTTCGAACA
Found at i:103049840 original size:12 final size:12
Alignment explanation
Indices: 103049823--103049870 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
103049813 TGTCATTAAC
103049823 ATATAAAACCAA
1 ATATAAAACCAA
*
103049835 ATATAAAACTTTAA
1 ATATAAAAC--CAA
103049849 CATATAAAACCAA
1 -ATATAAAACCAA
103049862 ATATAAAAC
1 ATATAAAAC
103049871 TTTACTCCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 18 0.58
13 2 0.06
14 2 0.06
15 9 0.29
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (12 bp):
ATATAAAACCAA
Found at i:103049856 original size:27 final size:27
Alignment explanation
Indices: 103049818--103049874 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
103049808 CAGTATGTCA
103049818 TTAACATATAAAACCAAATATAAAACT
1 TTAACATATAAAACCAAATATAAAACT
103049845 TTAACATATAAAACCAAATATAAAACT
1 TTAACATATAAAACCAAATATAAAACT
103049872 TTA
1 TTA
103049875 CTCCCACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (27 bp):
TTAACATATAAAACCAAATATAAAACT
Found at i:103051409 original size:2 final size:2
Alignment explanation
Indices: 103051402--103051443 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
103051392 TAAAAGATAA
103051402 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
103051444 CCCAAAACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103052065 original size:15 final size:15
Alignment explanation
Indices: 103052045--103052080 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
103052035 GTAGTGGTTC
103052045 AAAGCCAAATAATTA
1 AAAGCCAAATAATTA
103052060 AAAGCCAAATAATTA
1 AAAGCCAAATAATTA
103052075 ACAAGC
1 A-AAGC
103052081 ACATGTATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.58, C:0.17, G:0.08, T:0.17
Consensus pattern (15 bp):
AAAGCCAAATAATTA
Found at i:103052369 original size:122 final size:122
Alignment explanation
Indices: 103052171--103052418 Score: 496
Period size: 122 Copynumber: 2.0 Consensus size: 122
103052161 ACTTACCCTG
103052171 AATTTACCATGTAAATCCAAAGTTGTATTTATGATTAAACAGATATTCACATAAATACTTGAAAA
1 AATTTACCATGTAAATCCAAAGTTGTATTTATGATTAAACAGATATTCACATAAATACTTGAAAA
103052236 ATATTTTCAAGCTAATAAATCTCAAAAAACAAAATCATAATAGTTGGCATATCCCAC
66 ATATTTTCAAGCTAATAAATCTCAAAAAACAAAATCATAATAGTTGGCATATCCCAC
103052293 AATTTACCATGTAAATCCAAAGTTGTATTTATGATTAAACAGATATTCACATAAATACTTGAAAA
1 AATTTACCATGTAAATCCAAAGTTGTATTTATGATTAAACAGATATTCACATAAATACTTGAAAA
103052358 ATATTTTCAAGCTAATAAATCTCAAAAAACAAAATCATAATAGTTGGCATATCCCAC
66 ATATTTTCAAGCTAATAAATCTCAAAAAACAAAATCATAATAGTTGGCATATCCCAC
103052415 AATT
1 AATT
103052419 CATACAATAA
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 126 1.00
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.31
Consensus pattern (122 bp):
AATTTACCATGTAAATCCAAAGTTGTATTTATGATTAAACAGATATTCACATAAATACTTGAAAA
ATATTTTCAAGCTAATAAATCTCAAAAAACAAAATCATAATAGTTGGCATATCCCAC
Found at i:103053921 original size:15 final size:15
Alignment explanation
Indices: 103053903--103053936 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
103053893 TTAGCCCATC
103053903 ATTAATTAGAATTTG
1 ATTAATTAGAATTTG
103053918 ATTAATTAGAATTTG
1 ATTAATTAGAATTTG
103053933 ATTA
1 ATTA
103053937 GAAGAGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (15 bp):
ATTAATTAGAATTTG
Found at i:103059219 original size:21 final size:21
Alignment explanation
Indices: 103059190--103059229 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
103059180 CAAATGTGTT
*
103059190 AAAATTATTAATTAAAATAAA
1 AAAAATATTAATTAAAATAAA
**
103059211 AAAAATATTTTTTAAAATA
1 AAAAATATTAATTAAAATA
103059230 TTAATTACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAATATTAATTAAAATAAA
Found at i:103059549 original size:13 final size:13
Alignment explanation
Indices: 103059533--103059596 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
103059523 TTTAAACCAA
103059533 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
103059546 ACTTCTCAAAAAC
1 ACTTTTCAAAAGC
* *
103059559 AATTTTCTACAA-C
1 ACTTTTC-AAAAGC
*
103059572 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
103059585 ACTTTTCAAAAG
1 ACTTTTCAAAAG
103059597 TATTGCCAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 3 0.07
13 35 0.85
14 3 0.07
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:103059564 original size:39 final size:39
Alignment explanation
Indices: 103059520--103059595 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
103059510 TAAACACTCA
103059520 AATTTTAAACCAA-ACTTTTCAAAAGCACTTCTCAAAAAC
1 AATTTTAAA-CAACACTTTTCAAAAGCACTTCTCAAAAAC
** * *
103059559 AATTTTCTACAACACTTTTCAAAAGTACTTTTCAAAA
1 AATTTTAAACAACACTTTTCAAAAGCACTTCTCAAAA
103059596 GTATTGCCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.09
39 29 0.91
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (39 bp):
AATTTTAAACAACACTTTTCAAAAGCACTTCTCAAAAAC
Found at i:103072836 original size:18 final size:18
Alignment explanation
Indices: 103072784--103072829 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
103072774 GAAGGATTAA
103072784 ATTAAGATTTAAGGTTGG
1 ATTAAGATTTAAGGTTGG
*
103072802 ATTAAGGTTTAAGGTTGG
1 ATTAAGATTTAAGGTTGG
103072820 A-TAAGATTTA
1 ATTAAGATTTA
103072830 GAAGTTGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (18 bp):
ATTAAGATTTAAGGTTGG
Found at i:103078674 original size:25 final size:22
Alignment explanation
Indices: 103078634--103078685 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
103078624 TTTCGTTCCA
* *
103078634 CTTTCTCTATTTTTTCTTTCTTT
1 CTTTTTCTATTTTTTCTTT-ATT
103078657 CTTTTTCTATTTTATTTCTTTATT
1 CTTTTTCTA-TTT-TTTCTTTATT
103078681 CTTTT
1 CTTTT
103078686 ATAATATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.32
24 10 0.40
25 7 0.28
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (22 bp):
CTTTTTCTATTTTTTCTTTATT
Found at i:103078685 original size:23 final size:22
Alignment explanation
Indices: 103078634--103078685 Score: 52
Period size: 23 Copynumber: 2.2 Consensus size: 22
103078624 TTTCGTTCCA
*
103078634 CTTTCTCTATTTTTTCTTTCTTT
1 CTTT-TCTATTTTTTCTTTCATT
103078657 CTTTTTCTATTTTATTTCTTT-ATT
1 C-TTTTCTA-TTT-TTTCTTTCATT
103078681 CTTTT
1 CTTTT
103078686 ATAATATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
23 9 0.36
24 9 0.36
25 7 0.28
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (22 bp):
CTTTTCTATTTTTTCTTTCATT
Found at i:103084060 original size:93 final size:93
Alignment explanation
Indices: 103083901--103084071 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
103083891 GGATGGTTGA
* *
103083901 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
103083966 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
103083994 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCTTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
*
103084059 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
103084072 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:103084074 original size:46 final size:46
Alignment explanation
Indices: 103083905--103084076 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
103083895 GGTTGAGCAT
* * *
103083905 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
103083951 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
103083996 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
103084044 CCGAGCTCTTTGAGTTGAGTCTGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
103084077 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 58 0.55
47 28 0.27
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:103089056 original size:18 final size:17
Alignment explanation
Indices: 103089020--103089058 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
103089010 CTGTTCTTTC
103089020 TTTCTTTTTCTATTTTA
1 TTTCTTTTTCTATTTTA
103089037 TTTCTTTATTCT-TTTCTA
1 TTTCTTT-TTCTATTT-TA
103089055 TTTC
1 TTTC
103089059 GTTCCACCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTTTCTATTTTA
Found at i:103089059 original size:61 final size:61
Alignment explanation
Indices: 103088979--103089112 Score: 250
Period size: 61 Copynumber: 2.2 Consensus size: 61
103088969 CCCTTTTCTT
*
103088979 TTTATTTCCTTTCTATTTCGTTCCACCTCCTCTGTTCTTTCTTTCTTTTTCTATTTTATTTC
1 TTTA-TTCTTTTCTATTTCGTTCCACCTCCTCTGTTCTTTCTTTCTTTTTCTATTTTATTTC
103089041 TTTATTCTTTTCTATTTCGTTCCACCTCCTCTGTTCTTTCTTTCTTTTTCTATTTTATTTC
1 TTTATTCTTTTCTATTTCGTTCCACCTCCTCTGTTCTTTCTTTCTTTTTCTATTTTATTTC
103089102 TTTATTCTTTT
1 TTTATTCTTTT
103089113 ATTATATTAA
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
61 67 0.94
62 4 0.06
ACGTcount: A:0.08, C:0.24, G:0.03, T:0.65
Consensus pattern (61 bp):
TTTATTCTTTTCTATTTCGTTCCACCTCCTCTGTTCTTTCTTTCTTTTTCTATTTTATTTC
Found at i:103089115 original size:21 final size:21
Alignment explanation
Indices: 103089077--103089120 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
103089067 TCCTCTGTTC
* *
103089077 TTTCTTTCTTTTTCTATTTTA
1 TTTCTTTATTTTTCTATTATA
103089098 TTTCTTTATTCTTT-TATTATA
1 TTTCTTTATT-TTTCTATTATA
103089119 TT
1 TT
103089121 AATAACTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTCTTTATTTTTCTATTATA
Found at i:103089561 original size:39 final size:39
Alignment explanation
Indices: 103089498--103089744 Score: 280
Period size: 39 Copynumber: 6.3 Consensus size: 39
103089488 GTCATTACAT
* * *
103089498 ATTCAGTATATTCGGTAAGTTTTGCTTGCTTGAGCAACA
1 ATTCAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACA
* * * * * *
103089537 TTTTAGTATATTCAGTGAGCTTTGCTCAATTGAACAACA
1 ATTCAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACA
* * * * * *
103089576 ATTTAGTATGTTCAATAAGTTTTTCTCGATTAAACAACA
1 ATTCAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACA
* * * *
103089615 ATTCAATATATTCGGTAAGTTTTGCTTGATTAAGCAACA
1 ATTCAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACA
103089654 ATTCAGTATATTCAGTAAGTTTTGCTC-ATTTGAGCAACA
1 ATTCAGTATATTCAGTAAGTTTTGCTCGA-TTGAGCAACA
* * *
103089693 TTTCAGTATATTCAGAAAGTTTTGCTCGATTGAGCAATA
1 ATTCAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACA
103089732 ATTCAGTATATTC
1 ATTCAGTATATTC
103089745 GGTATTCCAT
Statistics
Matches: 173, Mismatches: 33, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
38 1 0.01
39 171 0.99
40 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.39
Consensus pattern (39 bp):
ATTCAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACA
Found at i:103089713 original size:117 final size:117
Alignment explanation
Indices: 103089498--103089748 Score: 344
Period size: 117 Copynumber: 2.1 Consensus size: 117
103089488 GTCATTACAT
* * * * *
103089498 ATTCAGTATATTCGGTAAGTTTTGCTTGCTTGAGCAACATTTTAGTATATTCAGTGAGCTTTGCT
1 ATTCAGTATATTCGGTAAGTTTTGCTTGATTAAGCAACAATTCAGTATATTCAGTAAGCTTTGCT
* *
103089563 CAATTGAACAACAATTTAGTATGTTCAATAAGTTTTTCTCGATTAAACAACA
66 CAATTGAACAACAATTTAGTATATTCAATAAGTTTTGCTCGATTAAACAACA
* *
103089615 ATTCAATATATTCGGTAAGTTTTGCTTGATTAAGCAACAATTCAGTATATTCAGTAAGTTTTGCT
1 ATTCAGTATATTCGGTAAGTTTTGCTTGATTAAGCAACAATTCAGTATATTCAGTAAGCTTTGCT
* * * * *
103089680 CATTTGAGCAAC-ATTTCAGTATATTCAGA-AAGTTTTGCTCGATTGAGCAATA
66 CAATTGAACAACAATTT-AGTATATTCA-ATAAGTTTTGCTCGATTAAACAACA
103089732 ATTCAGTATATTCGGTA
1 ATTCAGTATATTCGGTA
103089749 TTCCATTTTC
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
116 4 0.03
117 112 0.96
118 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (117 bp):
ATTCAGTATATTCGGTAAGTTTTGCTTGATTAAGCAACAATTCAGTATATTCAGTAAGCTTTGCT
CAATTGAACAACAATTTAGTATATTCAATAAGTTTTGCTCGATTAAACAACA
Found at i:103097758 original size:26 final size:26
Alignment explanation
Indices: 103097728--103097784 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
103097718 TTTTTCCTTT
103097728 AAATAGCAAT-TTTGAAATAAATATTA
1 AAATAGCAATATTTGAAA-AAATATTA
** * *
103097754 AAATATTAATATTTGAAACAATTTTA
1 AAATAGCAATATTTGAAAAAATATTA
103097780 AAATA
1 AAATA
103097785 TTAGTTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.37
Consensus pattern (26 bp):
AAATAGCAATATTTGAAAAAATATTA
Found at i:103097841 original size:21 final size:20
Alignment explanation
Indices: 103097816--103097876 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
103097806 ATTTTAAGAA
103097816 TTAATATTATAATGATAAATC
1 TTAATATTA-AATGATAAATC
* *
103097837 TTAATAATAAAATG-T-TATC
1 TTAAT-ATTAAATGATAAATC
103097856 TTAATATTAAATGTATAAATC
1 TTAATATTAAATG-ATAAATC
103097877 ACTATTATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 7 0.22
19 8 0.25
20 2 0.06
21 12 0.38
22 3 0.09
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (20 bp):
TTAATATTAAATGATAAATC
Found at i:103098492 original size:15 final size:15
Alignment explanation
Indices: 103098468--103098503 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
103098458 TAAATGAAGA
*
103098468 TTTAGGGTTTATGAT
1 TTTAGAGTTTATGAT
*
103098483 TTTAGAGTTTATGGT
1 TTTAGAGTTTATGAT
103098498 TTTAGA
1 TTTAGA
103098504 ATTTTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (15 bp):
TTTAGAGTTTATGAT
Found at i:103102708 original size:27 final size:26
Alignment explanation
Indices: 103102678--103102761 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 26
103102668 AATAAAAGAA
*
103102678 AGAATGAAAACGAAACAGAACAGGGAC
1 AGAAAGAAAACGAAACAGAACA-GGAC
* *
103102705 AGAAAG-AAA-GAAATA-AA-A-GAA
1 AGAAAGAAAACGAAACAGAACAGGAC
*
103102726 AGAATGAAAACGAAACAGAACAAGGAC
1 AGAAAGAAAACGAAACAGAAC-AGGAC
103102753 AGAAAGAAA
1 AGAAAGAAA
103102762 GAAAAAGGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
21 7 0.16
22 3 0.07
23 6 0.14
24 4 0.09
25 5 0.11
26 4 0.09
27 15 0.34
ACGTcount: A:0.64, C:0.10, G:0.23, T:0.04
Consensus pattern (26 bp):
AGAAAGAAAACGAAACAGAACAGGAC
Found at i:103102782 original size:48 final size:48
Alignment explanation
Indices: 103102663--103102765 Score: 197
Period size: 48 Copynumber: 2.1 Consensus size: 48
103102653 GAAACAGAAT
*
103102663 AAAGAAATAAAAGAAAGAATGAAAACGAAACAGAACAGGGACAGAAAG
1 AAAGAAATAAAAGAAAGAATGAAAACGAAACAGAACAAGGACAGAAAG
103102711 AAAGAAATAAAAGAAAGAATGAAAACGAAACAGAACAAGGACAGAAAG
1 AAAGAAATAAAAGAAAGAATGAAAACGAAACAGAACAAGGACAGAAAG
103102759 AAAGAAA
1 AAAGAAA
103102766 AAGGAAAAGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.67, C:0.08, G:0.21, T:0.04
Consensus pattern (48 bp):
AAAGAAATAAAAGAAAGAATGAAAACGAAACAGAACAAGGACAGAAAG
Found at i:103104620 original size:13 final size:13
Alignment explanation
Indices: 103104602--103104636 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
103104592 ACCATATGGG
*
103104602 CGTGTGCTCAGGC
1 CGTGTGCCCAGGC
103104615 CGTGTGCCCAGGC
1 CGTGTGCCCAGGC
*
103104628 CATGTGCCC
1 CGTGTGCCC
103104637 CTTTGATACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.09, C:0.37, G:0.34, T:0.20
Consensus pattern (13 bp):
CGTGTGCCCAGGC
Found at i:103109107 original size:15 final size:15
Alignment explanation
Indices: 103109087--103109115 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
103109077 GTATTATTTC
103109087 TTGATAACACGGTGA
1 TTGATAACACGGTGA
103109102 TTGATAACACGGTG
1 TTGATAACACGGTG
103109116 TGTGAGGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:103109858 original size:51 final size:51
Alignment explanation
Indices: 103109782--103109901 Score: 188
Period size: 51 Copynumber: 2.4 Consensus size: 51
103109772 CTCAAACTTA
* * *
103109782 CTTCATACTTT-ATCCGAAATTATTACCTTGTTGCTCTAGCTTCAATAAGAG
1 CTTCATA-TTTCATCCGGAATTATTACCTTATTGCTCTAGCTTCAACAAGAG
*
103109833 CTTCATATTTCATCCGGAATTATTACTTTATTGCTCTAGCTTCAACAAGAG
1 CTTCATATTTCATCCGGAATTATTACCTTATTGCTCTAGCTTCAACAAGAG
103109884 CTTCATATTTCATCCGGA
1 CTTCATATTTCATCCGGA
103109902 TAACTTGGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 3 0.05
51 61 0.95
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.39
Consensus pattern (51 bp):
CTTCATATTTCATCCGGAATTATTACCTTATTGCTCTAGCTTCAACAAGAG
Found at i:103111129 original size:11 final size:11
Alignment explanation
Indices: 103111107--103111161 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
103111097 TTTTTATACT
103111107 TAAT-AAATAA
1 TAATAAAATAA
*
103111117 TAATAATATAA
1 TAATAAAATAA
* *
103111128 TAA-AATATAT
1 TAATAAAATAA
* *
103111138 TATTAAAATAT
1 TAATAAAATAA
103111149 TAATAAAATAA
1 TAATAAAATAA
103111160 TA
1 TA
103111162 TTTATCTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
10 12 0.32
11 25 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:103111176 original size:29 final size:26
Alignment explanation
Indices: 103111117--103111187 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 26
103111107 TAATAAATAA
103111117 TAATAATA-TAATAAAAT-ATATTAT
1 TAATAATATTAATAAAATAATATTAT
103111141 TAA-AATATTAATAAAATAATATTTAT
1 TAATAATATTAATAAAATAATA-TTAT
103111167 CTAATTAATAATT-ATAAAATA
1 -TAA-TAAT-ATTAATAAAATA
103111188 TCATCAACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
23 4 0.10
24 12 0.30
25 3 0.08
26 4 0.10
27 3 0.08
29 11 0.28
30 3 0.08
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (26 bp):
TAATAATATTAATAAAATAATATTAT
Found at i:103113271 original size:14 final size:14
Alignment explanation
Indices: 103113241--103113270 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
103113231 CTTTAGGTGC
103113241 TTTCTTTTTTTCTT
1 TTTCTTTTTTTCTT
103113255 TTTCTTTTTTT-TT
1 TTTCTTTTTTTCTT
103113268 TTT
1 TTT
103113271 TTTGGTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTCTTTTTTTCTT
Found at i:103115725 original size:26 final size:26
Alignment explanation
Indices: 103115692--103115742 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
103115682 GTGAAAACAA
103115692 AGTTTATG-ACTGTGTGGTCACAACTG
1 AGTTTATGAAC-GTGTGGTCACAACTG
103115718 AGTTTATGAACGTGTGGTCACAACT
1 AGTTTATGAACGTGTGGTCACAACT
103115743 AAGCCTCTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (26 bp):
AGTTTATGAACGTGTGGTCACAACTG
Found at i:103127890 original size:18 final size:19
Alignment explanation
Indices: 103127853--103127893 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
103127843 CTAGTAACTC
103127853 TATAAAAATTCAAAATATT
1 TATAAAAATTCAAAATATT
* *
103127872 TATAAAAGTTCTAAA-ATT
1 TATAAAAATTCAAAATATT
103127890 TATA
1 TATA
103127894 TTTTTTTAAT
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:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (19 bp):
TATAAAAATTCAAAATATT
Found at i:103136180 original size:35 final size:35
Alignment explanation
Indices: 103136136--103136301 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
103136126 TCCTCATTGA
** *
103136136 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
103136171 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
103136210 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
103136245 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
103136280 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
103136302 CTTTGCCATG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
34 12 0.10
35 75 0.65
38 2 0.02
39 18 0.16
40 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:103136221 original size:74 final size:73
Alignment explanation
Indices: 103136131--103136301 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
103136121 GGTTTTCCTC
** * * **
103136131 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
103136194 TCAGTATGG
65 TCAGTATGG
*
103136203 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
103136268 CTCAGTATGG
64 CTCAGTATGG
103136278 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
103136302 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
72 1 0.01
73 9 0.10
74 44 0.50
75 13 0.15
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:103143665 original size:35 final size:35
Alignment explanation
Indices: 103143621--103143786 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
103143611 TCCTCATTGA
** *
103143621 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
103143656 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
103143695 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
103143730 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
103143765 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
103143787 CTTTCCATGG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
34 12 0.10
35 75 0.65
38 2 0.02
39 18 0.16
40 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:103143706 original size:74 final size:73
Alignment explanation
Indices: 103143616--103143786 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
103143606 GGTTTTCCTC
** * * **
103143616 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
103143679 TCAGTATGG
65 TCAGTATGG
*
103143688 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
103143753 CTCAGTATGG
64 CTCAGTATGG
103143763 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
103143787 CTTTCCATGG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
72 1 0.01
73 9 0.10
74 44 0.50
75 13 0.15
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:103149018 original size:3 final size:3
Alignment explanation
Indices: 103149010--103149046 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
103149000 TAATGTCTCA
103149010 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
103149047 TATGATTCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:103149836 original size:2 final size:2
Alignment explanation
Indices: 103149829--103149853 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
103149819 TTCAAATCTC
103149829 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
103149854 AAAATAGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:103151009 original size:19 final size:18
Alignment explanation
Indices: 103150987--103151023 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
103150977 AATAATTATT
*
103150987 GTAAATATCATTATTTTTA
1 GTAAATATAATT-TTTTTA
103151006 GTAAATATAATTTTTTTA
1 GTAAATATAATTTTTTTA
103151024 TGTGTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
GTAAATATAATTTTTTTA
Found at i:103157659 original size:2 final size:2
Alignment explanation
Indices: 103157654--103157690 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
103157644 AAAAAATGAC
103157654 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
103157691 AATTACTCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:103158327 original size:25 final size:26
Alignment explanation
Indices: 103158280--103158329 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
103158270 ATTATCTTTT
* *
103158280 TTAGAATGATTAAATTAACAAAAAAA
1 TTAGAATGATAAAAATAACAAAAAAA
*
103158306 TTAGAATGGTAAAAATAA-AAAAAA
1 TTAGAATGATAAAAATAACAAAAAA
103158330 CAATGCTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (26 bp):
TTAGAATGATAAAAATAACAAAAAAA
Found at i:103159612 original size:15 final size:15
Alignment explanation
Indices: 103159589--103159618 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
103159579 AATTATTTTG
*
103159589 AATATTATAAAATTT
1 AATAGTATAAAATTT
103159604 AATAGTATAAAATTT
1 AATAGTATAAAATTT
103159619 TAGTTTTTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (15 bp):
AATAGTATAAAATTT
Found at i:103165197 original size:34 final size:34
Alignment explanation
Indices: 103165159--103165228 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
103165149 CAGTGAAATT
103165159 TACCCAATTATTTTTTACAATAACAAATAAAACA
1 TACCCAATTATTTTTTACAATAACAAATAAAACA
103165193 TACCCAATTATTTTTTACAATAACAAATAAAACA
1 TACCCAATTATTTTTTACAATAACAAATAAAACA
103165227 TA
1 TA
103165229 ATACAATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (34 bp):
TACCCAATTATTTTTTACAATAACAAATAAAACA
Found at i:103165634 original size:15 final size:15
Alignment explanation
Indices: 103165610--103165645 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
103165600 TTAACTTAAA
*
103165610 TTCAACACTTAATTT
1 TTCAATACTTAATTT
103165625 TTCAATACTTAATTT
1 TTCAATACTTAATTT
*
103165640 GTCAAT
1 TTCAAT
103165646 TTATCAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (15 bp):
TTCAATACTTAATTT
Found at i:103165733 original size:2 final size:2
Alignment explanation
Indices: 103165726--103165759 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
103165716 ATAGTATTTG
103165726 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
103165760 CATTTTAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103166856 original size:18 final size:18
Alignment explanation
Indices: 103166833--103166868 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
103166823 AATATGCCAT
103166833 TTGATATAATTGTGGTGG
1 TTGATATAATTGTGGTGG
103166851 TTGATATAATTGTGGTGG
1 TTGATATAATTGTGGTGG
103166869 CAATTAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (18 bp):
TTGATATAATTGTGGTGG
Found at i:103166937 original size:19 final size:16
Alignment explanation
Indices: 103166904--103166955 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
103166894 TTCTTAGGTA
103166904 TATATATTATA-TATTAT
1 TATA-ATTATATTA-TAT
*
103166921 TATTAATT-GATTATAT
1 TA-TAATTATATTATAT
103166937 TATAATTATATTATAT
1 TATAATTATATTATAT
103166953 TAT
1 TAT
103166956 GAAACAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 5 0.17
16 16 0.53
17 7 0.23
18 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TATAATTATATTATAT
Found at i:103167984 original size:22 final size:24
Alignment explanation
Indices: 103167956--103167999 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
103167946 TATGGCAAGA
103167956 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
103167978 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
103168000 AACTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:103173745 original size:19 final size:19
Alignment explanation
Indices: 103173705--103173751 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
103173695 TTAATAAAAA
* *
103173705 TTTTATAATTTTTTTATAT
1 TTTTATAATTTTATGATAT
*
103173724 TTTTATAATTTTATGATTT
1 TTTTATAATTTTATGATAT
103173743 TTTTA-AATT
1 TTTTATAATT
103173752 CTAAATTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTATAATTTTATGATAT
Found at i:103173820 original size:17 final size:16
Alignment explanation
Indices: 103173776--103173831 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
103173766 TAATTTGTTA
* *
103173776 CTAATTTCTAAAATTT
1 CTAATTTCAAAAAATT
* *
103173792 CTAAAATTAAAAAAATT
1 CT-AATTTCAAAAAATT
*
103173809 TTAATTTCAAAAAATT
1 CTAATTTCAAAAAATT
103173825 CTAATTT
1 CTAATTT
103173832 GCTTTCAATT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
16 20 0.65
17 11 0.35
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (16 bp):
CTAATTTCAAAAAATT
Found at i:103178157 original size:43 final size:43
Alignment explanation
Indices: 103178110--103178226 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
103178100 TTCTTCGATT
* * *
103178110 TATCCAATGATGCACTATGTGTACCAATATAATTGCTTCGGTA
1 TATCCAATGATGCACTATGTGTGCCAGTATAATTACTTCGGTA
* * * *
103178153 TATCCAATGATGCACTATATGTGTCAGCATAATTACTTTGGTA
1 TATCCAATGATGCACTATGTGTGCCAGTATAATTACTTCGGTA
* *
103178196 TATTCGATGATGCACTATGTGTGCCAGTATA
1 TATCCAATGATGCACTATGTGTGCCAGTATA
103178227 TTGTTCTGAT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (43 bp):
TATCCAATGATGCACTATGTGTGCCAGTATAATTACTTCGGTA
Found at i:103183432 original size:19 final size:16
Alignment explanation
Indices: 103183408--103183451 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
103183398 TGCTCAAAAA
103183408 ATAAAAAAATATATATATT
1 ATAAAAAAAT-TA-AT-TT
*
103183427 ATAAAAAGATTAATTT
1 ATAAAAAAATTAATTT
103183443 ATAAAAAAA
1 ATAAAAAAA
103183452 ATTTATACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 10 0.43
17 2 0.09
18 2 0.09
19 9 0.39
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
ATAAAAAAATTAATTT
Found at i:103191714 original size:41 final size:41
Alignment explanation
Indices: 103191657--103191739 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
103191647 CTCTAATCTT
103191657 AGCCTATTTAAAGGGGCTTTATATCCATATTTTTTGCGGCC
1 AGCCTATTTAAAGGGGCTTTATATCCATATTTTTTGCGGCC
*
103191698 AGCCTATTTAAAGGGGCTTTATATCCCTATTTTTTGCGGCC
1 AGCCTATTTAAAGGGGCTTTATATCCATATTTTTTGCGGCC
103191739 A
1 A
103191740 ATTAAGAGGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (41 bp):
AGCCTATTTAAAGGGGCTTTATATCCATATTTTTTGCGGCC
Found at i:103192954 original size:29 final size:28
Alignment explanation
Indices: 103192920--103192992 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 28
103192910 TAAATGATAC
103192920 TTTTAATAAAATAACTAATTT-GCTATT
1 TTTTAATAAAATAACTAATTTAGCTATT
*
103192947 TGATTTAATATACAATAACTAATTTATCTATT
1 T--TTTAATA-A-AATAACTAATTTAGCTATT
103192979 TTTTATATAAAATA
1 TTTTA-ATAAAATA
103192993 TATAAATTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
27 1 0.03
29 11 0.28
30 6 0.15
31 15 0.38
32 6 0.15
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (28 bp):
TTTTAATAAAATAACTAATTTAGCTATT
Found at i:103193445 original size:28 final size:28
Alignment explanation
Indices: 103193414--103193470 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
103193404 CTTCAGCTTA
103193414 CTATATTGTGT-TTAAACAAGCCCTTAAC
1 CTAT-TTGTGTATTAAACAAGCCCTTAAC
* *
103193442 CTATTTTTGTAGTTAAATAAGCCCTTAAC
1 CTATTTGTGTA-TTAAACAAGCCCTTAAC
103193471 TTATGGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 4 0.16
29 16 0.64
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.39
Consensus pattern (28 bp):
CTATTTGTGTATTAAACAAGCCCTTAAC
Found at i:103193865 original size:29 final size:29
Alignment explanation
Indices: 103193810--103193865 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
103193800 AGTAAAAATC
* * **
103193810 ATAAGTTAATGGTTTATTTAACTATAAAA
1 ATAAGTTAAGGGCTTATTTAAAAATAAAA
*
103193839 ATAAGTTAAGGGCTTGTTTAAAAATAA
1 ATAAGTTAAGGGCTTATTTAAAAATAA
103193866 TATAATCAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.45, C:0.04, G:0.14, T:0.38
Consensus pattern (29 bp):
ATAAGTTAAGGGCTTATTTAAAAATAAAA
Found at i:103198232 original size:22 final size:21
Alignment explanation
Indices: 103198185--103198232 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
103198175 GTTAAGTTTT
* * *
103198185 TGTAAAAAAATTTAAACTCTA
1 TGTAAAAAAATATAAAATATA
*
103198206 AGTAAAAAAATATAAAATATA
1 TGTAAAAAAATATAAAATATA
103198227 GTGTAA
1 -TGTAA
103198233 CTTTTAATCT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.29
Consensus pattern (21 bp):
TGTAAAAAAATATAAAATATA
Found at i:103199287 original size:30 final size:30
Alignment explanation
Indices: 103199253--103199320 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
103199243 ATTGTGTTCA
*
103199253 AATCTATACTTGAAGTTTTAATTTTGATTT
1 AATCTATACTTAAAGTTTTAATTTTGATTT
103199283 AATCTATACTTAAAGTTTTAATTTTGATTT
1 AATCTATACTTAAAGTTTTAATTTTGATTT
103199313 AATC-ATAC
1 AATCTATAC
103199321 ATATTTAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 4 0.11
30 33 0.89
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (30 bp):
AATCTATACTTAAAGTTTTAATTTTGATTT
Found at i:103208643 original size:18 final size:19
Alignment explanation
Indices: 103208620--103208656 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
103208610 CATTCAAACA
103208620 CCAGAAAA-TAAATCATTT
1 CCAGAAAAGTAAATCATTT
103208638 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
103208657 TCCTGAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.27
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:103223321 original size:21 final size:21
Alignment explanation
Indices: 103223279--103223321 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
103223269 ATATAGCGTT
*
103223279 ATAAATTATAATTTATTTAAAA
1 ATAAATTATAA-TTATTAAAAA
103223301 ATAATATTATAA-TATTAAAAA
1 ATAA-ATTATAATTATTAAAAA
103223322 TGATAGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATAAATTATAATTATTAAAAA
Found at i:103224925 original size:13 final size:13
Alignment explanation
Indices: 103224907--103224940 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
103224897 AGCTTAATCC
103224907 TAAAATAATAAAA
1 TAAAATAATAAAA
103224920 TAAAATAATAAAA
1 TAAAATAATAAAA
*
103224933 CAAAATAA
1 TAAAATAA
103224941 AATAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
TAAAATAATAAAA
Found at i:103235207 original size:10 final size:11
Alignment explanation
Indices: 103235186--103235226 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
103235176 AGCTTAATCC
103235186 TAAAATAATAA
1 TAAAATAATAA
103235197 TAAAA-AATAA
1 TAAAATAATAA
* *
103235207 TAAAA-CAGAA
1 TAAAATAATAA
103235217 TAAAATAATA
1 TAAAATAATA
103235227 TCTTCTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 18 0.72
11 7 0.28
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:103237094 original size:21 final size:22
Alignment explanation
Indices: 103237061--103237101 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
103237051 AAATTGATTC
*
103237061 AATATTATATTATATTAATAAA
1 AATACTATATTATATTAATAAA
103237083 AATACTAT-TTATATTAATA
1 AATACTATATTATATTAATA
103237102 TATTTAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AATACTATATTATATTAATAAA
Found at i:103238722 original size:6 final size:6
Alignment explanation
Indices: 103238706--103238765 Score: 95
Period size: 6 Copynumber: 10.0 Consensus size: 6
103238696 ATTCTCTGTA
*
103238706 TAGTAT CAGTAT TAGTAT TAGTAT TAGTAT TAGTAT TAGTAT TAGTA-
1 TAGTAT TAGTAT TAGTAT TAGTAT TAGTAT TAGTAT TAGTAT TAGTAT
103238753 TAGTAT ATAGTAT
1 TAGTAT -TAGTAT
103238766 AGATCAGCAT
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
5 5 0.10
6 39 0.78
7 6 0.12
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.47
Consensus pattern (6 bp):
TAGTAT
Found at i:103239354 original size:27 final size:27
Alignment explanation
Indices: 103239319--103239371 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
103239309 AAAGCAACAT
103239319 AATACATTTATAATTTAT-TAAGAGAAC
1 AATACATTTATAATTTATATAA-AGAAC
*
103239346 AATAGATTTATAATTTATATAAAGAA
1 AATACATTTATAATTTATATAAAGAA
103239372 ATATAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.38
Consensus pattern (27 bp):
AATACATTTATAATTTATATAAAGAAC
Found at i:103239381 original size:27 final size:27
Alignment explanation
Indices: 103239319--103239381 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
103239309 AAAGCAACAT
*
103239319 AATACATTTATAATTTATTAAGAGAAC
1 AATAAATTTATAATTTATTAAGAGAAC
*
103239346 AATAGATTTATAATTTATATAA-AGAA-
1 AATAAATTTATAATTTAT-TAAGAGAAC
103239372 ATATAAATTT
1 A-ATAAATTT
103239382 GTCAAAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 1 0.03
27 28 0.88
28 3 0.09
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (27 bp):
AATAAATTTATAATTTATTAAGAGAAC
Found at i:103245586 original size:69 final size:68
Alignment explanation
Indices: 103245476--103245613 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 68
103245466 CAAGACTCTA
*
103245476 TCAGCCCTACCACCACTAAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAAC
1 TCAGCCCTACCACAACTAAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAAC
103245541 CTG
66 CTG
103245544 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
1 TCAGCCCTACCACAACTA-AAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
103245609 CCTG
65 CCTG
103245613 T
1 T
103245614 TTTTCCTATC
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
68 17 0.25
69 51 0.75
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (68 bp):
TCAGCCCTACCACAACTAAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAAC
CTG
Found at i:103261172 original size:30 final size:29
Alignment explanation
Indices: 103261138--103261203 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
103261128 AATTTACAAA
* * *
103261138 AAAATTAGATCAAATTAAAATTTCATGTAT
1 AAAATTACATAAAATTAAAATTT-ATATAT
103261168 AAAATTACATAAAATTAAAATTTATATAT
1 AAAATTACATAAAATTAAAATTTATATAT
*
103261197 ACAATTA
1 AAAATTA
103261204 TACATTAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATTACATAAAATTAAAATTTATATAT
Found at i:103261258 original size:7 final size:7
Alignment explanation
Indices: 103261253--103261284 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
103261243 CTCATAAAAT
103261253 AAAAA-A
1 AAAAAGA
103261259 AAAAAGA
1 AAAAAGA
103261266 AAAAAGA
1 AAAAAGA
103261273 AAAAAGA
1 AAAAAGA
103261280 AAAAA
1 AAAAA
103261285 AGGTTAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:103279430 original size:26 final size:26
Alignment explanation
Indices: 103279392--103279499 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
103279382 TGATACAAAT
*
103279392 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
103279418 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
103279444 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
103279470 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
103279496 TGAT
1 TGAT
103279500 GAGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:103281199 original size:54 final size:53
Alignment explanation
Indices: 103281117--103281257 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 53
103281107 AGGAAGCGTC
103281117 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
103281171 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
103281225 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
103281258 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 7 0.08
54 76 0.92
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:103281268 original size:27 final size:27
Alignment explanation
Indices: 103281117--103281275 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
103281107 AGGAAGCGTC
*
103281117 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
103281144 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
103281171 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
103281198 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
103281225 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
103281252 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
103281276 CAGCCTCGCT
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 105 0.90
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:103286545 original size:47 final size:49
Alignment explanation
Indices: 103286491--103286610 Score: 185
Period size: 47 Copynumber: 2.5 Consensus size: 49
103286481 TGATACAAAT
103286491 TGATAATGGGTTAGGTAAATGTTCCGATAAT-GGTTAGGTAAATGTT-A
1 TGATAATGGGTTAGGTAAATGTTCCGATAATGGGTTAGGTAAATGTTCA
**
103286538 TGATAATGGGTTAGGTAAATGTTATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCGATAATGGGTTAGGTAAATGTT-CA
103286588 TGATAAT-GGTTAGGTAAAT-TTCC
1 TGATAATGGGTTAGGTAAATGTTCC
103286611 ATGATGGAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
47 29 0.44
48 17 0.26
49 12 0.18
50 8 0.12
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.37
Consensus pattern (49 bp):
TGATAATGGGTTAGGTAAATGTTCCGATAATGGGTTAGGTAAATGTTCA
Found at i:103286615 original size:24 final size:26
Alignment explanation
Indices: 103286491--103286615 Score: 187
Period size: 24 Copynumber: 5.2 Consensus size: 26
103286481 TGATACAAAT
103286491 TGATAATGGGTTAGGTAAATGTTCC-
1 TGATAATGGGTTAGGTAAATGTTCCA
103286516 -GATAAT-GGTTAGGTAAATGTT--A
1 TGATAATGGGTTAGGTAAATGTTCCA
103286538 TGATAATGGGTTAGGTAAATGTT--A
1 TGATAATGGGTTAGGTAAATGTTCCA
103286562 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
103286588 TGATAAT-GGTTAGGTAAAT-TTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
103286612 TGAT
1 TGAT
103286616 GGAATTTCAT
Statistics
Matches: 95, Mismatches: 0, Indels: 11
0.90 0.00 0.10
Matches are distributed among these distances:
23 21 0.22
24 54 0.57
25 12 0.13
26 8 0.08
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:103288093 original size:27 final size:26
Alignment explanation
Indices: 103288060--103288122 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
103288050 AATTACTATA
* *
103288060 ATACCCCTATGTATGGAAAATTA-TGTT
1 ATACCCCTA-G-ATGCAAAATTACCGTT
*
103288087 ATACCCCTAGGTGCAAAATTACCGTT
1 ATACCCCTAGATGCAAAATTACCGTT
103288113 ATACCCCTAG
1 ATACCCCTAG
103288123 GGTTAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.28
26 14 0.44
27 9 0.28
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCGTT
Found at i:103288267 original size:27 final size:26
Alignment explanation
Indices: 103288227--103288385 Score: 174
Period size: 27 Copynumber: 5.9 Consensus size: 26
103288217 AGGAAGCGTC
* *
103288227 CTGGTGGCTATGCCGCAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
103288254 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
103288281 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
103288308 CTGCTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
103288335 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
* * * *
103288362 CTGGTGACTTTGTCACAATATCTG
1 CTGGTGGCTCTGCCACATTATCTG
103288386 GCAGCCTCGC
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
26 10 0.09
27 102 0.89
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:103288309 original size:54 final size:53
Alignment explanation
Indices: 103288227--103288385 Score: 221
Period size: 54 Copynumber: 3.0 Consensus size: 53
103288217 AGGAAGCGTC
*
103288227 CTGGTGGCTATGCCGCAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
103288281 CTGGTGGCTATGCCACGATTATCTGATCTGCTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * * * *
103288335 CTGGTGGCTCTGCCACAATATCTGTATCTGGTGACTTTGTCACA-ATATCTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTGGCTCTGCCACATATATCTG
103288386 GCAGCCTCGC
Statistics
Matches: 95, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 14 0.15
54 81 0.85
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:103289970 original size:20 final size:20
Alignment explanation
Indices: 103289945--103289983 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
103289935 ATTTATATTT
103289945 TTTATTTATTGTT-TTGAATC
1 TTTA-TTATTGTTCTTGAATC
*
103289965 TTTATTCTTGTTCTTGAAT
1 TTTATTATTGTTCTTGAAT
103289984 TTATTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.18, C:0.08, G:0.10, T:0.64
Consensus pattern (20 bp):
TTTATTATTGTTCTTGAATC
Found at i:103290006 original size:13 final size:13
Alignment explanation
Indices: 103289929--103290006 Score: 50
Period size: 13 Copynumber: 5.4 Consensus size: 13
103289919 CATCTTCCAC
103289929 TTTTTAATTTATAT
1 TTTTTAATTTAT-T
103289943 TTTTT-ATTTATT
1 TTTTTAATTTATT
*
103289955 GTTTTGAATCTTTATTCT
1 -TTTTTAA--TTTA-T-T
103289973 TGTTCTTGAATTTATT
1 T-TT-TT-AATTTATT
*
103289989 CTTTTAATTTATT
1 TTTTTAATTTATT
103290002 TTTTT
1 TTTTT
103290007 TTCTTTATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 19
0.69 0.05 0.26
Matches are distributed among these distances:
12 1 0.02
13 22 0.43
14 8 0.16
15 2 0.04
16 5 0.10
17 3 0.06
18 7 0.14
19 1 0.02
20 2 0.04
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (13 bp):
TTTTTAATTTATT
Found at i:103293297 original size:17 final size:16
Alignment explanation
Indices: 103293271--103293348 Score: 59
Period size: 17 Copynumber: 4.5 Consensus size: 16
103293261 TATTATATTT
103293271 TATA-TATATTTCTTA
1 TATATTATATTTCTTA
103293286 TCATATTATATTTCATTA
1 T-ATATTATATTTC-TTA
* *
103293304 TATCTATATATTTTTTA
1 TATAT-TATATTTCTTA
*
103293321 TTACATATTATATTTTATTA
1 -T--ATATTATA-TTTCTTA
103293341 TATATTAT
1 TATATTAT
103293349 TCTTTATAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
15 1 0.02
16 3 0.06
17 21 0.41
18 12 0.24
19 5 0.10
20 9 0.18
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATTATATTTCTTA
Found at i:103293297 original size:65 final size:65
Alignment explanation
Indices: 103293202--103293346 Score: 154
Period size: 65 Copynumber: 2.2 Consensus size: 65
103293192 GTTATATATT
* * * *
103293202 TTTTATTATGTATTAT-TTATCTTACTATATTT-TTATATGTAAAATACTTGTTATATTA-TTAT
1 TTTTATTATATATT-TCTTATCATACTATATTTATTATATCT-AAATA-TT-TTATATTACATAT
103293264 TATA
62 TATA
* * *
103293268 TTTTA-TATATATTTCTTATCATATTATATTTCATTATATCTATATATTTTTTATTACATATTAT
1 TTTTATTATATATTTCTTATCATACTATATTT-ATTATATCTAAATATTTTATATTACATATTAT
103293332 A
65 A
103293333 TTTTATTATATATT
1 TTTTATTATATATT
103293347 ATTCTTTATA
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
64 8 0.12
65 35 0.52
66 17 0.25
67 7 0.10
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.61
Consensus pattern (65 bp):
TTTTATTATATATTTCTTATCATACTATATTTATTATATCTAAATATTTTATATTACATATTATA
Found at i:103293328 original size:37 final size:35
Alignment explanation
Indices: 103293273--103293343 Score: 106
Period size: 37 Copynumber: 2.0 Consensus size: 35
103293263 TTATATTTTA
103293273 TATATATTTCTTATCATATTATATTTCATTATATC
1 TATATATTTCTTATCATATTATATTTCATTATATC
* *
103293308 TATATATTTTTTATTACATATTATATTTTATTATAT
1 TATATATTTCTTA-T-CATATTATATTTCATTATAT
103293344 ATTATTCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 12 0.38
36 1 0.03
37 19 0.59
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (35 bp):
TATATATTTCTTATCATATTATATTTCATTATATC
Found at i:103293339 original size:10 final size:10
Alignment explanation
Indices: 103293252--103293349 Score: 50
Period size: 10 Copynumber: 10.2 Consensus size: 10
103293242 AAAATACTTG
103293252 TTATATTATTA
1 TTATATT-TTA
103293263 TTATATTTTA
1 TTATATTTTA
*
103293273 -TATATATTTC
1 TTATAT-TTTA
103293283 TTATCA---TA
1 TTAT-ATTTTA
*
103293291 TTATATTTCA
1 TTATATTTTA
*
103293301 TTATA-TCTA
1 TTATATTTTA
103293310 -TATATTTT-
1 TTATATTTTA
**
103293318 TTAT-TACATA
1 TTATAT-TTTA
103293328 TTATATTTTA
1 TTATATTTTA
*
103293338 TTATATATTA
1 TTATATTTTA
103293348 TT
1 TT
103293350 CTTTATAATA
Statistics
Matches: 65, Mismatches: 11, Indels: 23
0.66 0.11 0.23
Matches are distributed among these distances:
7 1 0.02
8 10 0.15
9 13 0.20
10 29 0.45
11 11 0.17
12 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATATTTTA
Found at i:103293354 original size:17 final size:17
Alignment explanation
Indices: 103293308--103293377 Score: 60
Period size: 17 Copynumber: 4.3 Consensus size: 17
103293298 TCATTATATC
*
103293308 TATA-TATTTTTTATTA
1 TATATTATTCTTTATTA
*
103293324 CATATTATAT-TTTATTA
1 TATATTAT-TCTTTATTA
103293341 TATATTATTCTTTA-TA
1 TATATTATTCTTTATTA
*
103293357 -ATATCT-TTCTTTATTT
1 TATAT-TATTCTTTATTA
103293373 TATAT
1 TATAT
103293378 ATATATTGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
15 11 0.24
16 8 0.18
17 25 0.56
18 1 0.02
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (17 bp):
TATATTATTCTTTATTA
Found at i:103293393 original size:16 final size:14
Alignment explanation
Indices: 103293257--103293414 Score: 71
Period size: 14 Copynumber: 11.1 Consensus size: 14
103293247 ACTTGTTATA
103293257 TTATTAT-TATATT
1 TTATTATATATATT
* *
103293270 TTATATATATTTCTT
1 TTAT-TATATATATT
*
103293285 ATCATATTATATTTCATT
1 -T--TATTATATAT-ATT
* *
103293303 ATATCTATATATTTT
1 TTAT-TATATATATT
103293318 TTATTACATATTATATT
1 TTATT--ATA-TATATT
103293335 TTATTATATATTATT
1 TTATTATATA-TATT
*
103293350 CT-TTATA-ATA-T
1 TTATTATATATATT
* *
103293361 CT-TTCT-T-TATT
1 TTATTATATATATT
103293372 TTA-TATATATATT
1 TTATTATATATATT
* *
103293385 GTATTATATACATT
1 TTATTATATATATT
*
103293399 TTATCATATATATT
1 TTATTATATATATT
103293413 TT
1 TT
103293415 TATATTATTT
Statistics
Matches: 111, Mismatches: 17, Indels: 33
0.69 0.11 0.20
Matches are distributed among these distances:
10 2 0.02
11 10 0.09
12 3 0.03
13 11 0.10
14 33 0.30
15 20 0.18
16 10 0.09
17 17 0.15
18 5 0.05
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (14 bp):
TTATTATATATATT
Found at i:103293394 original size:14 final size:13
Alignment explanation
Indices: 103293253--103293431 Score: 64
Period size: 14 Copynumber: 14.1 Consensus size: 13
103293243 AAATACTTGT
103293253 TATA-TTATTAT-
1 TATATTTATTATA
103293264 TATA-TT-TTATA
1 TATATTTATTATA
*
103293275 TATATTTCTTATCA
1 TATATTTATTAT-A
*
103293289 TAT-TATATT-TCA
1 TATATTTATTAT-A
*
103293301 TTATATCTA-TATA
1 -TATATTTATTATA
*
103293314 T-TTTTTATTACATA
1 TATATTTATT--ATA
103293328 TTATATTTTATTATA
1 -TATA-TTTATTATA
103293343 TATTATTCT-TTATA
1 TA-TATT-TATTATA
* * *
103293357 -ATATCT-TTCTT
1 TATATTTATTATA
103293368 TAT-TTTA-TATA
1 TATATTTATTATA
103293379 TATATTGTATTATA
1 TATATT-TATTATA
* *
103293393 TACATTTTATCATA
1 TATA-TTTATTATA
103293407 TATATTT-TTATA
1 TATATTTATTATA
*
103293419 T-TATTTATCATA
1 TATATTTATTATA
103293431 T
1 T
103293432 GATTTATACT
Statistics
Matches: 129, Mismatches: 17, Indels: 43
0.68 0.09 0.23
Matches are distributed among these distances:
10 4 0.03
11 30 0.23
12 24 0.19
13 19 0.15
14 36 0.28
15 9 0.07
16 1 0.01
17 6 0.05
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (13 bp):
TATATTTATTATA
Found at i:103293418 original size:24 final size:27
Alignment explanation
Indices: 103293369--103293431 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 27
103293359 ATCTTTCTTT
103293369 ATTTTAT-ATATATATTGTATTATATA
1 ATTTTATCATATATATTGTATTATATA
*
103293395 CATTTTATCATATATATT-T-TTATATT
1 -ATTTTATCATATATATTGTATTATATA
103293421 A-TTTATCATAT
1 ATTTTATCATAT
103293432 GATTTATACT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
24 10 0.29
25 1 0.03
26 6 0.18
27 8 0.24
28 9 0.26
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.59
Consensus pattern (27 bp):
ATTTTATCATATATATTGTATTATATA
Found at i:103293421 original size:81 final size:82
Alignment explanation
Indices: 103293252--103293423 Score: 180
Period size: 81 Copynumber: 2.1 Consensus size: 82
103293242 AAAATACTTG
**
103293252 TTATATTATTATTATATTTTATATATATTTCTTATCATATTATATTTCATTATATCTATATATTT
1 TTATATTATTATTATATTTTATATATATTTCTTATCATATTATATTTCATTATATCTATATACAT
103293317 TTTATTACATATTATAT
66 TTTATTACATATTATAT
* * *
103293334 TT-TATTATATATTAT-TCTTTATAATATCTTTCTT-T-ATTTTATATATAT-ATTGTAT-TATA
1 TTATATTAT-TATTATAT-TTTAT-ATATATTTCTTATCATATTATAT-T-TCATTATATCTATA
*
103293393 TACATTTTA-T-CATATATATTT
61 TACATTTTATTACATAT-TATAT
103293414 TTATATTATT
1 TTATATTATT
103293424 TATCATATGA
Statistics
Matches: 77, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
79 5 0.06
80 8 0.10
81 32 0.42
82 21 0.27
83 11 0.14
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.62
Consensus pattern (82 bp):
TTATATTATTATTATATTTTATATATATTTCTTATCATATTATATTTCATTATATCTATATACAT
TTTATTACATATTATAT
Found at i:103293444 original size:24 final size:24
Alignment explanation
Indices: 103293398--103293446 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
103293388 TTATATACAT
* *
103293398 TTTATCATATATATTTTTATATTA
1 TTTATCATATAGATTTATATATTA
103293422 TTTATCATAT-GATTTATACTATTA
1 TTTATCATATAGATTTATA-TATTA
103293446 T
1 T
103293447 ATTTGATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTATCATATAGATTTATATATTA
Found at i:103295701 original size:21 final size:23
Alignment explanation
Indices: 103295675--103295717 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
103295665 TTATTGGGAA
*
103295675 TAAATTAG-AA-AATTTTAAAAG
1 TAAATTAGTAATAATTTAAAAAG
103295696 TAAATTAGTAATAATTTAAAAA
1 TAAATTAGTAATAATTTAAAAA
103295718 AAATCAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 2 0.11
23 9 0.47
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (23 bp):
TAAATTAGTAATAATTTAAAAAG
Found at i:103295721 original size:21 final size:21
Alignment explanation
Indices: 103295676--103295721 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
103295666 TATTGGGAAT
*
103295676 AAATTAGAAAATTTTAAAAGT
1 AAATTAGAAAATTTTAAAAGA
103295697 AAATTAGTAATAA-TTTAAAA-A
1 AAATTAG-AA-AATTTTAAAAGA
103295718 AAAT
1 AAAT
103295722 CAATTAAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 11 0.50
22 9 0.41
23 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.33
Consensus pattern (21 bp):
AAATTAGAAAATTTTAAAAGA
Found at i:103295956 original size:17 final size:18
Alignment explanation
Indices: 103295934--103295969 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
103295924 TTTTATAAAA
103295934 AATTTATAACTTTT-TTT
1 AATTTATAACTTTTGTTT
*
103295951 AATTTATAAGTTTTGTTT
1 AATTTATAACTTTTGTTT
103295969 A
1 A
103295970 TAACTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (18 bp):
AATTTATAACTTTTGTTT
Found at i:103302569 original size:24 final size:24
Alignment explanation
Indices: 103302529--103302591 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
103302519 AGCGATACTC
*
103302529 TTTATTAAAATATTATTATTTATT
1 TTTATTAAAATATTATTAATTATT
* *
103302553 TATTTTTAAATTA-TATTAATTATT
1 T-TTATTAAAATATTATTAATTATT
103302577 TTTATTAAAATATTA
1 TTTATTAAAATATTA
103302592 ATTTTTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
23 9 0.28
24 14 0.44
25 9 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTATTAAAATATTATTAATTATT
Found at i:103302579 original size:21 final size:21
Alignment explanation
Indices: 103302543--103302603 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 21
103302533 TTAAAATATT
*
103302543 ATTAT-TTATTTA-TTTTTAA
1 ATTATATTAATTATTTTTTAA
103302562 ATTATATTAATTATTTTTATTAA
1 ATTATATTAATTA-TTTT-TTAA
103302585 A--ATATTAA-T-TTTTTTAA
1 ATTATATTAATTATTTTTTAA
103302602 AT
1 AT
103302604 GATGTCACCT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
17 5 0.14
18 4 0.11
19 5 0.14
20 7 0.19
21 7 0.19
22 3 0.08
23 5 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTATATTAATTATTTTTTAA
Found at i:103313217 original size:35 final size:35
Alignment explanation
Indices: 103313178--103313343 Score: 197
Period size: 35 Copynumber: 4.6 Consensus size: 35
103313168 CATGGAAAAG
103313178 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
103313213 TGTGATATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
103313248 TGTGATATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * *** *
103313288 TAAGAAATGTAGGTATGGCATTGCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
103313323 TGTAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
103313344 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
35 79 0.70
37 2 0.02
38 4 0.04
40 28 0.25
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:103313268 original size:40 final size:40
Alignment explanation
Indices: 103313189--103313305 Score: 140
Period size: 40 Copynumber: 3.0 Consensus size: 40
103313179 GTGAAATGTA
103313189 GGTATGGTATCATCCATACTGAGTTGTGATA--T--GTA-
1 GGTATGGTATCATCCATACTGAGTTGTGATATGTAGGTAT
103313224 GGTATGGTATCATCCATACTGAGTTGTGATATGTAGGTAT
1 GGTATGGTATCATCCATACTGAGTTGTGATATGTAGGTAT
** *
103313264 GGTAT--TATCAAATCCATACTGAGTTAAGAAATGTAGGTAT
1 GGTATGGTATC--ATCCATACTGAGTTGTGATATGTAGGTAT
103313304 GG
1 GG
103313306 CATTGCCCAT
Statistics
Matches: 72, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
35 31 0.43
37 1 0.01
38 4 0.06
39 3 0.04
40 33 0.46
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (40 bp):
GGTATGGTATCATCCATACTGAGTTGTGATATGTAGGTAT
Found at i:103313299 original size:75 final size:75
Alignment explanation
Indices: 103313178--103313348 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 75
103313168 CATGGAAAAG
** * * *
103313178 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGATATGTAGGTATGGTATCATC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACC
*
103313238 CATACTGAGT
66 CATACCGAGT
* **
103313248 TGTGATATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTGCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACC
103313313 CATACCGAGT
66 CATACCGAGT
*
103313323 TGTAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
103313349 TGAGGAAAAC
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
70 17 0.20
73 4 0.05
74 4 0.05
75 60 0.71
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.35
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACC
CATACCGAGT
Done.