Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
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: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 40
Found at i:6233781 original size:166 final size:165
Alignment explanation
Indices: 6233500--6233825 Score: 500
Period size: 166 Copynumber: 2.0 Consensus size: 165
6233490 ATTATATATA
6233500 TTGTGTGTTAAGTCAGCGAGAGACAACCAGGTTCAATGAACTGTGACCTACAGCCATGAAGAAAT
1 TTGTGTGTTAAGTCAGCGAGAGACAACCAGGTTCAATGAACTGTGACCTACAGCCATGAAGAAAT
6233565 ACAGGCTTTACCGACTCCATCATTCTCTAATTATCATGATTTAAAGGTAGTTGTTACAAGATCAA
66 ACAGGCTTTACCGACTCCA-CATTCTCTAATTATCATGATTTAAAGGTAGTTGTTACAAGATCAA
* *
6233630 TGGTAAAAAGCGTAAACAAT-ATAACCAGGGGACCCT
130 TCGTAAAAAGCATAAAC-ATGATAACCAGGGGACCCT
* *
6233666 TTGTGTGTT-AGTCAGTGAGAGACAACCAGGTTCAATGAACTGTAAGTGA-CTGACAGCCTTGAA
1 TTGTGTGTTAAGTCAGCGAGAGACAACCAGGTTCAATGAAC--T--GTGACCT-ACAGCCATGAA
*
6233729 GAAATACAGGCTTTACCGACT-C-CATTCTCTAATTATCATGATTTACAGGTAGTTGTTACAAGA
61 GAAATACAGGCTTTACCGACTCCACATTCTCTAATTATCATGATTTAAAGGTAGTTGTTACAAGA
*
6233792 TCATTCGTAAAAAGCATAAACATGATAACCAGGG
126 TCAATCGTAAAAAGCATAAACATGATAACCAGGG
6233826 TACACTTCGG
Statistics
Matches: 148, Mismatches: 6, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
165 32 0.22
166 77 0.52
167 1 0.01
168 3 0.02
169 35 0.24
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (165 bp):
TTGTGTGTTAAGTCAGCGAGAGACAACCAGGTTCAATGAACTGTGACCTACAGCCATGAAGAAAT
ACAGGCTTTACCGACTCCACATTCTCTAATTATCATGATTTAAAGGTAGTTGTTACAAGATCAAT
CGTAAAAAGCATAAACATGATAACCAGGGGACCCT
Found at i:6238987 original size:9 final size:10
Alignment explanation
Indices: 6238960--6238987 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
6238950 TAAACTCTTC
6238960 AAAATTTTTG
1 AAAATTTTTG
6238970 AAAATTTTTG
1 AAAATTTTTG
6238980 AAAATTTT
1 AAAATTTT
6238988 AATTTAGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (10 bp):
AAAATTTTTG
Found at i:6254791 original size:150 final size:150
Alignment explanation
Indices: 6254520--6254823 Score: 466
Period size: 150 Copynumber: 2.0 Consensus size: 150
6254510 TCTTCCTCAC
*
6254520 CATCATCATTCTTATCATTCCCATCTTTCTTTCCCTCAGATTTATCCTTGAAAAGTTTTAGAAAA
1 CATCATCATTCGTATCATTCCCATCTTTCTTTCCCTCAGATTTATCCTTGAAAAGTTTTAGAAAA
* * *
6254585 AATCCCTCCTTTTCATCGTATTCACCTGATTTTGAAGCTTTTTCTGCAGAGTTCACCATTTGTAC
66 AATCCCTCCCTTTCATCATATTCACCTGATTTTGAAGCTTTTTCTGCAGAGTTCACCATTCGTAC
* *
6254650 ATCATCACTTATGTCATTTA
131 ATCATCAATTATATCATTTA
* * * *
6254670 CATCATCATTCGTATCATTCCCATCTTTCTTTTCTTCAGATTTATCCTTGAAAAGTTTTCGGAAG
1 CATCATCATTCGTATCATTCCCATCTTTCTTTCCCTCAGATTTATCCTTGAAAAGTTTT-AGAAA
* * *
6254735 AAA-CCCTCCCTTTCATCATCTTCACCTGATTTTGAAGCTTTTTCTGCAGGGTTCACCATTCGTG
65 AAATCCCTCCCTTTCATCATATTCACCTGATTTTGAAGCTTTTTCTGCAGAGTTCACCATTCGTA
*
6254799 CATCATCAATTCTATCATTTA
130 CATCATCAATTATATCATTTA
6254820 CATC
1 CATC
6254824 TTTCTTATCC
Statistics
Matches: 139, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
150 133 0.96
151 6 0.04
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.41
Consensus pattern (150 bp):
CATCATCATTCGTATCATTCCCATCTTTCTTTCCCTCAGATTTATCCTTGAAAAGTTTTAGAAAA
AATCCCTCCCTTTCATCATATTCACCTGATTTTGAAGCTTTTTCTGCAGAGTTCACCATTCGTAC
ATCATCAATTATATCATTTA
Found at i:6271069 original size:24 final size:24
Alignment explanation
Indices: 6271025--6271074 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
6271015 ATAAAGAACC
*
6271025 AAAATAAACTTAAATACACCATTA
1 AAAATAAACTTAAACACACCATTA
*
6271049 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACACACCATTA
6271073 AA
1 AA
6271075 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.22
Consensus pattern (24 bp):
AAAATAAACTTAAACACACCATTA
Found at i:6279332 original size:27 final size:27
Alignment explanation
Indices: 6279301--6279352 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
6279291 AAAAAATATT
*
6279301 TTAAAAAAA-CTCAAAATTTTGAAAATG
1 TTAAAAAAATCT-AAAACTTTGAAAATG
6279328 TTAAAAAAATCTAAAACTTTGAAAA
1 TTAAAAAAATCTAAAACTTTGAAAA
6279353 CCATAAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.29
Consensus pattern (27 bp):
TTAAAAAAATCTAAAACTTTGAAAATG
Found at i:6279359 original size:27 final size:27
Alignment explanation
Indices: 6279302--6279359 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
6279292 AAAAATATTT
* ***
6279302 TAAAAAAACTCAAAATTTTGAAAATGT
1 TAAAAAAACTCAAAACTTTGAAAACCA
6279329 TAAAAAAA-TCTAAAACTTTGAAAACCA
1 TAAAAAAACTC-AAAACTTTGAAAACCA
6279356 TAAA
1 TAAA
6279360 TCTAATCCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (27 bp):
TAAAAAAACTCAAAACTTTGAAAACCA
Found at i:6279759 original size:21 final size:20
Alignment explanation
Indices: 6279706--6279757 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
6279696 TATTTTTAAG
*
6279706 TTTTTAAAATTTAAATAATT
1 TTTTTAAAATTTAAATAATA
6279726 TTTTTAAAATTTAAAT-ATAA
1 TTTTTAAAATTTAAATAAT-A
6279746 TTTTTAAAATTT
1 TTTTTAAAATTT
6279758 TATAAAGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 2 0.07
20 28 0.93
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTAAAATTTAAATAATA
Found at i:6281003 original size:21 final size:20
Alignment explanation
Indices: 6280917--6281074 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
6280907 AAATGACCAA
**
6280917 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
6280936 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
6280956 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
6280976 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
6280997 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
6281018 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
6281038 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
6281059 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
6281075 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:6281103 original size:20 final size:20
Alignment explanation
Indices: 6281041--6281310 Score: 269
Period size: 20 Copynumber: 13.5 Consensus size: 20
6281031 CGATTTTCCA
* ** *
6281041 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
6281061 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
6281081 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
6281101 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
6281121 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
6281141 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
6281161 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
6281181 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
6281201 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
6281221 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
6281241 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
6281261 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
6281281 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
6281301 AAATCACAAC
1 AAATCGCAAC
6281311 ACTGAAATTT
Statistics
Matches: 210, Mismatches: 32, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 206 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:6282032 original size:24 final size:24
Alignment explanation
Indices: 6281993--6282039 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6281983 AAATTTGGTC
6281993 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
6282017 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
6282040 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:6284604 original size:19 final size:19
Alignment explanation
Indices: 6284531--6284738 Score: 239
Period size: 19 Copynumber: 11.7 Consensus size: 19
6284521 GCAACGAGAG
6284531 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6284550 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
6284564 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
6284584 AATCGCAATGCGAAATAAA
1 AATCGCAATGCGAAATGAA
6284603 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6284622 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
6284636 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
6284655 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6284674 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6284693 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
6284707 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
6284726 AATCGCATTGCGA
1 AATCGCAATGCGA
6284739 TTCTCCCGTT
Statistics
Matches: 161, Mismatches: 12, Indels: 32
0.79 0.06 0.16
Matches are distributed among these distances:
14 32 0.20
15 2 0.01
16 5 0.03
17 5 0.03
18 2 0.01
19 99 0.61
20 16 0.10
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:6284657 original size:52 final size:52
Alignment explanation
Indices: 6284517--6284681 Score: 205
Period size: 52 Copynumber: 3.2 Consensus size: 52
6284507 CGGAAATTAC
* *
6284517 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATAAAAATCGCAATGCGAAATGAA
*
6284564 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATAAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATAAAAATCGCAATGCGAAATGAA
*
6284622 AATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATAAAAATCGCAATGCGAAATGAA
6284674 AATCGCAA
1 AATCGCAA
6284682 TGCGAAATGA
Statistics
Matches: 102, Mismatches: 5, Indels: 17
0.82 0.04 0.14
Matches are distributed among these distances:
47 8 0.08
49 1 0.01
50 1 0.01
52 48 0.47
53 28 0.27
55 2 0.02
56 1 0.01
58 13 0.13
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATAAAAATCGCAATGCGAAATGAA
Found at i:6284683 original size:71 final size:71
Alignment explanation
Indices: 6284531--6284738 Score: 346
Period size: 71 Copynumber: 2.9 Consensus size: 71
6284521 GCAACGAGAG
* * *
6284531 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGC-GAAATTAAAATCGCAATGC
6284595 GAAATAAA
64 GAAATAAA
6284603 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCAATGCGA
*
6284668 AATGAA
66 AATAAA
*
6284674 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCAATGCGA
6284739 TTCTCCCGTT
Statistics
Matches: 130, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
71 89 0.68
72 40 0.31
73 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCAATGCGA
AATAAA
Found at i:6284711 original size:52 final size:50
Alignment explanation
Indices: 6284601--6284738 Score: 152
Period size: 52 Copynumber: 2.7 Consensus size: 50
6284591 ATGCGAAATA
* * * * **
6284601 AAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-CAATGCGAAATT
1 AAAATCGCAATGCGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCAACG
6284653 AAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACG
1 AAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACG
* *
6284703 AGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 A-A-AATCGCAATGCGAAATGAAAATCGCAATGCGA
6284739 TTCTCCCGTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
50 6 0.08
51 7 0.09
52 62 0.83
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (50 bp):
AAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACG
Found at i:6284730 original size:33 final size:34
Alignment explanation
Indices: 6284517--6284732 Score: 260
Period size: 33 Copynumber: 6.2 Consensus size: 34
6284507 CGGAAATTAC
*
6284517 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
6284550 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
*
6284584 AATCGCAATGCGAAATAAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
* *
6284622 AATCGCAACGA-GAGAATCGCAATGCGAAATTAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
6284655 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
* *
6284693 AATCGCAACGA-GAGAATCGCAATGCGAAATTAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
6284726 AATCGCA
1 AATCGCA
6284733 TTGCGATTCT
Statistics
Matches: 160, Mismatches: 11, Indels: 24
0.82 0.06 0.12
Matches are distributed among these distances:
32 1 0.01
33 75 0.47
34 17 0.11
35 2 0.01
36 5 0.03
37 1 0.01
38 44 0.28
39 15 0.09
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:6284787 original size:19 final size:19
Alignment explanation
Indices: 6284747--6284844 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
6284737 GATTCTCCCG
6284747 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
6284767 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
6284786 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
6284800 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
6284819 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
6284838 TTGCGAT
1 TTGCGAT
6284845 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:6284841 original size:52 final size:53
Alignment explanation
Indices: 6284728--6284844 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
6284718 GAAATTAAAA
6284728 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
*
6284781 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
6284833 TCGCATTGCGAT
1 TCGCATTGCGAT
6284845 AGTCAATTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:6284970 original size:14 final size:14
Alignment explanation
Indices: 6284951--6284987 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
6284941 CATCAATTAC
6284951 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
6284965 ACAAATCATCTTTT
1 ACAAATCAACTTTT
6284979 ACAAATCAA
1 ACAAATCAA
6284988 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:6286933 original size:20 final size:20
Alignment explanation
Indices: 6286908--6286973 Score: 91
Period size: 19 Copynumber: 3.4 Consensus size: 20
6286898 TAGTTTACTT
* *
6286908 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAACTCAAAA
6286928 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCGAAACTCAAAA
*
6286947 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACTCAAAA
6286966 TCGCAACG
1 TCGCAACG
6286974 ACAGAATCGC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 29 0.69
20 13 0.31
ACGTcount: A:0.45, C:0.27, G:0.17, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:6286994 original size:33 final size:33
Alignment explanation
Indices: 6286945--6287037 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
6286935 GCGAAACCAA
*
6286945 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
* *
6286978 AATCGCAATGCAAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
6287011 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
6287038 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:6287000 original size:19 final size:19
Alignment explanation
Indices: 6286978--6287042 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
6286968 GCAACGACAG
* *
6286978 AATCGCAATGCAAAATGAA
1 AATCGCAACGCGAAATGAA
6286997 AATCGCAA--CGAAA-G--
1 AATCGCAACGCGAAATGAA
6287011 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
6287030 AATCGCAATGCGA
1 AATCGCAACGCGA
6287043 TTTTGGTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 8 0.21
16 6 0.15
17 5 0.13
19 20 0.51
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:6287014 original size:14 final size:14
Alignment explanation
Indices: 6286964--6287020 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
6286954 GCGAAATGAA
*
6286964 AATCGCAACGACAG
1 AATCGCAACGAAAG
*
6286978 AATCGCAATGCAAAATG
1 AATCGCAA--CGAAA-G
6286995 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
6287011 AATCGCAACG
1 AATCGCAACG
6287021 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 18 0.51
16 4 0.11
17 5 0.14
19 8 0.23
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:6287060 original size:19 final size:19
Alignment explanation
Indices: 6287038--6287166 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
6287028 AAAATCGCAA
*
6287038 TGCGATTTTGGTTTCACGT
1 TGCGATTTTGGTTTCGCGT
*
6287057 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
6287071 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
6287090 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
6287104 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
6287123 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
6287142 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
6287162 TGCGA
1 TGCGA
6287167 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:6287080 original size:33 final size:33
Alignment explanation
Indices: 6287038--6287129 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
6287028 AAAATCGCAA
*
6287038 TGCGATTTTGGTTTCACGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
6287071 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
6287104 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
6287130 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 53 0.96
34 2 0.04
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:6287494 original size:92 final size:93
Alignment explanation
Indices: 6287214--6287588 Score: 718
Period size: 93 Copynumber: 4.1 Consensus size: 93
6287204 ATGGATTGCA
6287214 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
6287278 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
6287306 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
6287371 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
6287399 TTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
6287463 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
6287491 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCATAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
6287556 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
6287584 TTACT
1 TTACT
6287589 AAGCAATCTA
Statistics
Matches: 279, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
92 96 0.34
93 183 0.66
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:6287531 original size:185 final size:186
Alignment explanation
Indices: 6287214--6287588 Score: 718
Period size: 185 Copynumber: 2.0 Consensus size: 186
6287204 ATGGATTGCA
6287214 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
6287278 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
6287343 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
6287399 TTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
6287463 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
* *
6287528 ATTTCATAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAATAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
6287584 TTACT
1 TTACT
6287589 AAGCAATCTA
Statistics
Matches: 187, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
185 162 0.87
186 25 0.13
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:6289309 original size:14 final size:14
Alignment explanation
Indices: 6289290--6289379 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
6289280 TTGAAATGAA
6289290 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
6289304 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
6289323 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
6289337 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
6289356 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6289370 AATCGCAACG
1 AATCGCAACG
6289380 TGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:6289322 original size:33 final size:33
Alignment explanation
Indices: 6289282--6289396 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
6289272 TCTTTTGGTT
6289282 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6289315 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
6289348 GAAATGAAAATCGCAACGAGAGAATCGCAACGT
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6289381 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
6289397 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 81 1.00
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:6289328 original size:19 final size:19
Alignment explanation
Indices: 6289304--6289401 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
6289294 GCAACGAGAG
6289304 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
6289323 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
6289337 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
6289356 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
6289370 AATCGCAACGTGAAATGAA
1 AATCGCAACGCGAAATGAA
*
6289389 AATCGCAATGCGA
1 AATCGCAACGCGA
6289402 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 3 0.05
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:6289432 original size:14 final size:14
Alignment explanation
Indices: 6289413--6289468 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
6289403 TTTGGTTTCG
6289413 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
6289427 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
6289445 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
6289459 CGTTGCGATT
1 CGTTGCGATT
6289469 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 20 0.56
15 3 0.08
17 3 0.08
18 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:6289447 original size:32 final size:33
Alignment explanation
Indices: 6289397--6289476 Score: 135
Period size: 32 Copynumber: 2.5 Consensus size: 33
6289387 AAAATCGCAA
**
6289397 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
6289430 TGCGA-TTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
6289462 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
6289477 TCTCGTTGCG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 30 0.68
33 14 0.32
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:6289450 original size:18 final size:17
Alignment explanation
Indices: 6289408--6289454 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
6289398 GCGATTTTGG
6289408 TTTCGCGTTGCGA-TTC
1 TTTCGCGTTGCGATTTC
*
6289424 --TCTCGTTGCGATTTC
1 TTTCGCGTTGCGATTTC
6289439 ATTTCGCGTTGCGATT
1 -TTTCGCGTTGCGATT
6289455 CTCTCGTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
18 12 0.48
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (17 bp):
TTTCGCGTTGCGATTTC
Found at i:6289497 original size:41 final size:41
Alignment explanation
Indices: 6289452--6289529 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
6289442 TCGCGTTGCG
*
6289452 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
6289493 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
6289530 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:6289514 original size:20 final size:21
Alignment explanation
Indices: 6289453--6289528 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
6289443 CGCGTTGCGA
6289453 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
6289474 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
6289494 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
6289515 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
6289529 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:6289650 original size:33 final size:33
Alignment explanation
Indices: 6289608--6289678 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
6289598 AATACTAACT
*
6289608 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* * *
6289641 TGAAAATCGCAATGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
6289674 TGAAA
1 TGAAA
6289679 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.23, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:6289910 original size:22 final size:22
Alignment explanation
Indices: 6289858--6289912 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
6289848 TGGTTGTGAG
**
6289858 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
6289880 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
6289902 GGATTTCTTCG
1 GGATTTCTTCG
6289913 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:6290084 original size:20 final size:20
Alignment explanation
Indices: 6290059--6290212 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
6290049 CTTTAAATAT
6290059 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
6290079 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
6290101 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
6290120 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
6290140 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
6290160 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
6290180 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
6290200 CGCGTTGCGATTT
1 CGCGTTGCGATTT
6290213 TGGAAAATCG
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 94 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:6290186 original size:40 final size:40
Alignment explanation
Indices: 6290058--6290212 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
6290048 GCTTTAAATA
*
6290058 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
6290099 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
6290139 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
6290179 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
6290213 TGGAAAATCG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 66 0.69
41 30 0.31
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:6290229 original size:21 final size:21
Alignment explanation
Indices: 6290199--6290281 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
6290189 ATTTTCATAT
*
6290199 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
6290220 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
6290241 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
6290262 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
6290282 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:6290272 original size:42 final size:43
Alignment explanation
Indices: 6290179--6290277 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
6290169 ATTTATGTGT
* *
6290179 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
6290220 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
6290262 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
6290278 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:6290602 original size:20 final size:19
Alignment explanation
Indices: 6290558--6290602 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
6290548 ATGAAATATA
* *
6290558 AATAATTAAATATTTAAAT
1 AATAAATAAATATTAAAAT
6290577 ACATAAATAAATAATTAAAAT
1 A-ATAAATAAAT-ATTAAAAT
6290598 AATAA
1 AATAA
6290603 TAATCATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 13 0.59
21 8 0.36
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAAATAAATATTAAAAT
Found at i:6291196 original size:18 final size:19
Alignment explanation
Indices: 6291161--6291202 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
6291151 AGAAACAAAG
6291161 AAAAATAAAGATGTAAAATAA
1 AAAAATAAAGA--TAAAATAA
6291182 AAAAATAAAGA-AAAATAA
1 AAAAATAAAGATAAAATAA
6291200 AAA
1 AAA
6291203 TATCGATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
21 11 0.52
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (19 bp):
AAAAATAAAGATAAAATAA
Found at i:6292020 original size:20 final size:20
Alignment explanation
Indices: 6291997--6292055 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
6291987 TTTGAAACTT
6291997 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
6292017 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
*
6292037 AAATTCGCAACATGAAAAT
1 AAATTCGCAACACGAAAAT
6292056 CGCAACACGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.51, C:0.19, G:0.14, T:0.17
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATG
Found at i:6292097 original size:20 final size:19
Alignment explanation
Indices: 6292063--6292115 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
6292053 AATCGCAACA
6292063 CGATTTTAGTTTCGCGTTG
1 CGATTTTAGTTTCGCGTTG
*
6292082 CGATTTTCATTTTCGCGTTG
1 CGATTTT-AGTTTCGCGTTG
*
6292102 CGAATTTAAGTTTC
1 CG-ATTTTAGTTTC
6292116 AGAAACTACT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.24
20 18 0.62
21 4 0.14
ACGTcount: A:0.15, C:0.17, G:0.21, T:0.47
Consensus pattern (19 bp):
CGATTTTAGTTTCGCGTTG
Found at i:6293525 original size:42 final size:42
Alignment explanation
Indices: 6293434--6293528 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 42
6293424 CCACTTCGAT
* * *
6293434 AGCCATCACCTGATCGAGCCGATTCTACAACTCGACACCCAA
1 AGCCATCACCTGATCGAGCCGATTATACAACTCCACAACCAA
** * * *
6293476 ATTCATCACCTGATCGAGCCGATTATACATCTCCACAACGAG
1 AGCCATCACCTGATCGAGCCGATTATACAACTCCACAACCAA
6293518 AGCCATCACCT
1 AGCCATCACCT
6293529 ATTCCATCAC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.31, C:0.36, G:0.14, T:0.20
Consensus pattern (42 bp):
AGCCATCACCTGATCGAGCCGATTATACAACTCCACAACCAA
Found at i:6293692 original size:21 final size:21
Alignment explanation
Indices: 6293643--6293845 Score: 82
Period size: 21 Copynumber: 9.7 Consensus size: 21
6293633 GTTAAGGGAG
6293643 TTACGTGATGAGGTGAGTGCT
1 TTACGTGATGAGGTGAGTGCT
*
6293664 TTGCGTGATGAGGTCGA-TGCT
1 TTACGTGATGAGGT-GAGTGCT
* * ** *
6293685 TTATGTGACGACAATG-GTGCA
1 TTACGTGATGA-GGTGAGTGCT
*
6293706 TTGCGTGATGAGGT-ACG-GTCT
1 TTACGTGATGAGGTGA-GTG-CT
* *
6293727 TTACGTGGTGAGGT-AGATGTT
1 TTACGTGATGAGGTGAG-TGCT
* **
6293748 TTACGCGATGACAATG-GTGCT
1 TTACGTGATGA-GGTGAGTGCT
* *
6293769 TTACGTGGTGAGGT-AGATGTT
1 TTACGTGATGAGGTGAG-TGCT
* **
6293790 TTACGCGATGACAATG-GTGCT
1 TTACGTGATGA-GGTGAGTGCT
* * *
6293811 TTACGTGGTGAGGT-ATCTACT
1 TTACGTGATGAGGTGA-GTGCT
6293832 TTACGTGATGAGGT
1 TTACGTGATGAGGT
6293846 AGCCGCTCTA
Statistics
Matches: 128, Mismatches: 38, Indels: 32
0.65 0.19 0.16
Matches are distributed among these distances:
20 6 0.05
21 114 0.89
22 8 0.06
ACGTcount: A:0.20, C:0.12, G:0.34, T:0.33
Consensus pattern (21 bp):
TTACGTGATGAGGTGAGTGCT
Found at i:6293761 original size:63 final size:64
Alignment explanation
Indices: 6293643--6293800 Score: 171
Period size: 63 Copynumber: 2.5 Consensus size: 64
6293633 GTTAAGGGAG
* * * *
6293643 TTACGTGATGAGGT-GAGTGCTTTGCGTGATGAGGTCGATGCTTTATGTGACGACAATGGTGCA
1 TTACGTGATGAGGTAGAGTGCTTTACGTGATGAGGTAGATGCTTTACGCGACGACAATGGTGCA
* * * * *
6293706 TTGCGTGATGAGGTACG-GT-CTTTACGTGGTGAGGTAGATGTTTTACGCGATGACAATGGTGCT
1 TTACGTGATGAGGTA-GAGTGCTTTACGTGATGAGGTAGATGCTTTACGCGACGACAATGGTGCA
* * *
6293769 TTACGTGGTGAGGTAGA-TGTTTTACGCGATGA
1 TTACGTGATGAGGTAGAGTGCTTTACGTGATGA
6293801 CAATGGTGCT
Statistics
Matches: 77, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
62 2 0.03
63 72 0.94
64 2 0.03
65 1 0.01
ACGTcount: A:0.20, C:0.12, G:0.35, T:0.33
Consensus pattern (64 bp):
TTACGTGATGAGGTAGAGTGCTTTACGTGATGAGGTAGATGCTTTACGCGACGACAATGGTGCA
Found at i:6293842 original size:42 final size:42
Alignment explanation
Indices: 6293725--6293825 Score: 202
Period size: 42 Copynumber: 2.4 Consensus size: 42
6293715 GAGGTACGGT
6293725 CTTTACGTGGTGAGGTAGATGTTTTACGCGATGACAATGGTG
1 CTTTACGTGGTGAGGTAGATGTTTTACGCGATGACAATGGTG
6293767 CTTTACGTGGTGAGGTAGATGTTTTACGCGATGACAATGGTG
1 CTTTACGTGGTGAGGTAGATGTTTTACGCGATGACAATGGTG
6293809 CTTTACGTGGTGAGGTA
1 CTTTACGTGGTGAGGTA
6293826 TCTACTTTAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.21, C:0.12, G:0.34, T:0.34
Consensus pattern (42 bp):
CTTTACGTGGTGAGGTAGATGTTTTACGCGATGACAATGGTG
Found at i:6294163 original size:21 final size:21
Alignment explanation
Indices: 6294137--6294221 Score: 98
Period size: 21 Copynumber: 4.0 Consensus size: 21
6294127 CCGATTCACA
*
6294137 TGTCATCGTTCAAGAGTCCCC
1 TGTCATCGTTCAAGAGGCCCC
**
6294158 TGTCATCGTTCAAGAGGCATC
1 TGTCATCGTTCAAGAGGCCCC
** *
6294179 TCCCACCGTTCAAGAGGCCCC
1 TGTCATCGTTCAAGAGGCCCC
* *
6294200 TGTCATCATTCAAGAGGTCCC
1 TGTCATCGTTCAAGAGGCCCC
6294221 T
1 T
6294222 CCCACCATTC
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.21, C:0.33, G:0.20, T:0.26
Consensus pattern (21 bp):
TGTCATCGTTCAAGAGGCCCC
Found at i:6294224 original size:42 final size:42
Alignment explanation
Indices: 6294143--6294232 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 42
6294133 CACATGTCAT
* * *
6294143 CGTTCAAGAGTCCCCTGTCATCGTTCAAGAGGCATCTCCCAC
1 CGTTCAAGAGGCCCCTGTCATCATTCAAGAGGCACCTCCCAC
6294185 CGTTCAAGAGGCCCCTGTCATCATTCAAGAGGTC-CCTCCCAC
1 CGTTCAAGAGGCCCCTGTCATCATTCAAGAGG-CACCTCCCAC
*
6294227 CATTCA
1 CGTTCA
6294233 TGAGCCCGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CGTTCAAGAGGCCCCTGTCATCATTCAAGAGGCACCTCCCAC
Found at i:6294230 original size:21 final size:21
Alignment explanation
Indices: 6294166--6294232 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
6294156 CCTGTCATCG
** *
6294166 TTCAAGAGGCATCTCCCACCG
1 TTCAAGAGGCCCCTCCCACCA
** *
6294187 TTCAAGAGGCCCCTGTCATCA
1 TTCAAGAGGCCCCTCCCACCA
*
6294208 TTCAAGAGGTCCCTCCCACCA
1 TTCAAGAGGCCCCTCCCACCA
6294229 TTCA
1 TTCA
6294233 TGAGCCCGAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.24, C:0.37, G:0.16, T:0.22
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCCACCA
Found at i:6295805 original size:49 final size:49
Alignment explanation
Indices: 6295744--6295867 Score: 167
Period size: 49 Copynumber: 2.5 Consensus size: 49
6295734 TTTCGCGTTG
* * **
6295744 CGAATTTTACTTTTGCGTTTTGAATTTGACTTTCACAACAATCGCAACA
1 CGAATTTGACTTTCGCGTTGCGAATTTGACTTTCACAACAATCGCAACA
* ** *
6295793 CGAATTTGACTTTCGTGTTGCGAATTTGACTTTCGTAACAATCGCAACG
1 CGAATTTGACTTTCGCGTTGCGAATTTGACTTTCACAACAATCGCAACA
*
6295842 TGAATTTGACTTTCGCGTTGCGAATT
1 CGAATTTGACTTTCGCGTTGCGAATT
6295868 CAAGGAAAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 65 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (49 bp):
CGAATTTGACTTTCGCGTTGCGAATTTGACTTTCACAACAATCGCAACA
Found at i:6298576 original size:55 final size:54
Alignment explanation
Indices: 6298501--6298808 Score: 327
Period size: 55 Copynumber: 5.6 Consensus size: 54
6298491 TGATAAGTCT
* * *
6298501 GCTCCCTATTTCTTCAGGGAGTATA-AGACTCGAACAATCTTAAATAAACGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTT-AATAAACGGGTCC
* * * * * ** *
6298556 GCTCCCTA-TCCGTTCCGGGAGTATAGAACTCGAACAATATTCATAAAACATGTTC
1 GCTCTCTATTCC-TTCAGAGAGTATAGAACTCGAACAATCTTAAT-AAACGGGTCC
* *
6298611 GCTCTCTATTTCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTAAT-AAACGGGTCC
* *
6298666 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAATGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTT-AATAAACGGGTCC
* * * *
6298721 GCTCTCTATTCCTTCAGAGAGTATAGAACTCAAACAATCTTCAACAAGCGTG-CC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTT-AATAAACGGGTCC
*
6298775 TGCTCCCTATTCCTTCAGAGAGTATA-AGACTCGA
1 -GCTCTCTATTCCTTCAGAGAGTATAGA-ACTCGA
6298809 TCTTAATAAA
Statistics
Matches: 221, Mismatches: 25, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
54 7 0.03
55 210 0.95
56 4 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (54 bp):
GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTAATAAACGGGTCC
Found at i:6298664 original size:110 final size:110
Alignment explanation
Indices: 6298501--6298808 Score: 371
Period size: 110 Copynumber: 2.8 Consensus size: 110
6298491 TGATAAGTCT
* *
6298501 GCTCCCTATTTCTTCAGGGAGTATA-AGACTCGAACAATCTT-AAATAAACGGGTCCGCTCCCTA
1 GCTCTCTATTTCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAAATAAACGGGTCCGCTCCCTA
* * *
6298564 -TCCGTTCCGGGAGTATAGAACTCGAACAATATTCATAAAACAT-GTTC
65 TTCC-TTCAGAGAGTATAGAACTCGAACAATATTCA-AAAA-ATGGTCC
* *
6298611 GCTCTCTATTTCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACGGGTCCGCTCTCTAT
1 GCTCTCTATTTCTTCAGAGAGTATAGAACTCGAACAATCTTCAAATAAACGGGTCCGCTCCCTAT
* *
6298675 TCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAATGGGTCC
66 TCCTTCAGAGAGTATAGAACTCGAACAATATTCAAAAAAT-GGTCC
* * * * *
6298721 GCTCTCTATTCCTTCAGAGAGTATAGAACTCAAACAATCTTC-AACAAGCGTG-CCTGCTCCCTA
1 GCTCTCTATTTCTTCAGAGAGTATAGAACTCGAACAATCTTCAAATAAACGGGTCC-GCTCCCTA
6298784 TTCCTTCAGAGAGTATA-AGACTCGA
65 TTCCTTCAGAGAGTATAGA-ACTCGA
6298809 TCTTAATAAA
Statistics
Matches: 175, Mismatches: 15, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
108 2 0.01
109 7 0.04
110 160 0.91
111 6 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (110 bp):
GCTCTCTATTTCTTCAGAGAGTATAGAACTCGAACAATCTTCAAATAAACGGGTCCGCTCCCTAT
TCCTTCAGAGAGTATAGAACTCGAACAATATTCAAAAAATGGTCC
Found at i:6298793 original size:165 final size:165
Alignment explanation
Indices: 6298501--6298808 Score: 392
Period size: 165 Copynumber: 1.9 Consensus size: 165
6298491 TGATAAGTCT
* * *
6298501 GCTCCCTATTTCTTCAGGGAGTATAAGACTCGAACAATCTTAAATAAACGGGTCCGCTCCCTATC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTAAACAAACGGGTCCGCTCCCTATC
* * * * * *
6298566 CGTTCCGGGAGTATAGAACTCGAACAATATTCATAAAACATGTTCGCTCTCTATTTCTTCAGAGA
66 CGTTCAGAGAGTATAGAACTCAAACAATATTCATAAAACATGCTCGCTCCCTATTCCTTCAGAGA
6298631 GTAT-AGAACTCGAACAATCTTCATAAAACGGGTCC
131 GTATAAG-ACTCGAACAATCTTCATAAAACGGGTCC
* * * *
6298666 GCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAACAATCTTCAACAAATGGGTCCGCTCTCTAT
1 GCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTAAACAAACGGGTCCGCTCCCTA-
* * *
6298730 TCC-TTCAGAGAGTATAGAACTCAAACAATCTTCA-ACAAGCGTGC-CTGCTCCCTATTCCTTCA
64 TCCGTTCAGAGAGTATAGAACTCAAACAATATTCATA-AAACATGCTC-GCTCCCTATTCCTTCA
6298792 GAGAGTATAAGACTCGA
127 GAGAGTATAAGACTCGA
6298809 TCTTAATAAA
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
164 4 0.03
165 113 0.93
166 5 0.04
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (165 bp):
GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTAAACAAACGGGTCCGCTCCCTATC
CGTTCAGAGAGTATAGAACTCAAACAATATTCATAAAACATGCTCGCTCCCTATTCCTTCAGAGA
GTATAAGACTCGAACAATCTTCATAAAACGGGTCC
Found at i:6300177 original size:26 final size:25
Alignment explanation
Indices: 6300148--6300235 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 25
6300138 TTTTATTTTC
6300148 TTTTTTCATTTTCATTTTTTCTTCCA
1 TTTTTTCATTTTCATTTTTTCTT-CA
** * * *
6300174 TTTTCCCATTTT-TTTTTCTTTTTCT
1 TTTTTTCATTTTCATTTT-TTCTTCA
* *
6300199 TTTTTTCCTTTTCATTTTTTCCATCA
1 TTTTTTCATTTTCATTTTTT-CTTCA
6300225 -TTTTTCATTTT
1 TTTTTTCATTTT
6300236 TTTCTCATTT
Statistics
Matches: 46, Mismatches: 13, Indels: 7
0.70 0.20 0.11
Matches are distributed among these distances:
25 26 0.57
26 20 0.43
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTTTTCATTTTCATTTTTTCTTCA
Found at i:6300234 original size:50 final size:53
Alignment explanation
Indices: 6300143--6300270 Score: 151
Period size: 51 Copynumber: 2.5 Consensus size: 53
6300133 CCCCCTTTTA
* *
6300143 TTTTC-TTTTTTCATTTTCATTTTTT-CTTCCATTTTCCCATTTTTTTTTC-T
1 TTTTCTTTTTTTCATTTTCATTTTTTCCATCCATTTTCCCATTTTTTTCTCAT
* *
6300193 TTTTCTTTTTTTCCTTTTCATTTTTTCCAT-CATTTT-TCATTTTTTTCTCAT
1 TTTTCTTTTTTTCATTTTCATTTTTTCCATCCATTTTCCCATTTTTTTCTCAT
* *
6300244 TTTTCTTTTCTTCTTTTTC-TTCTTTTC
1 TTTTCTTTTTTTCATTTTCATT-TTTTC
6300271 ATTTTTTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
50 18 0.26
51 48 0.71
52 2 0.03
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (53 bp):
TTTTCTTTTTTTCATTTTCATTTTTTCCATCCATTTTCCCATTTTTTTCTCAT
Found at i:6300243 original size:11 final size:10
Alignment explanation
Indices: 6300207--6300305 Score: 57
Period size: 10 Copynumber: 10.1 Consensus size: 10
6300197 CTTTTTTTCC
6300207 TTTTCA-TTT
1 TTTTCATTTT
* **
6300216 TTTCCATCAT
1 TTTTCATTTT
6300226 TTTTCATTTT
1 TTTTCATTTT
6300236 TTTCTCATTTTT
1 TTT-TCA-TTTT
*
6300248 CTTTTC-TTCT
1 -TTTTCATTTT
*
6300258 TTTTC--TTC
1 TTTTCATTTT
6300266 TTTTCATTTT
1 TTTTCATTTT
*
6300276 TTTATTATTTT
1 TTT-TCATTTT
*
6300287 TATT-A-TTT
1 TTTTCATTTT
6300295 TTTTCATTTT
1 TTTTCATTTT
6300305 T
1 T
6300306 CATTTTTCTT
Statistics
Matches: 68, Mismatches: 13, Indels: 17
0.69 0.13 0.17
Matches are distributed among these distances:
8 12 0.18
9 12 0.18
10 24 0.35
11 11 0.16
12 6 0.09
13 3 0.04
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTCATTTT
Found at i:6300286 original size:51 final size:47
Alignment explanation
Indices: 6300143--6300327 Score: 131
Period size: 51 Copynumber: 3.7 Consensus size: 47
6300133 CCCCCTTTTA
* ** *
6300143 TTTTCTTTTTTCATTTTCATTTTTTC-TTCCATTTTCCCATTTTTTTTTCT
1 TTTTCTTTTTTCTTTTTC-TTTTTTCATT---TTTTTTCATTTTTTTATCT
* ** *
6300193 TTTTCTTTTTTTCCTTTTCATTTTTTCCATCATTTTTCATTTTTTTCTCAT
1 TTTTC-TTTTTTCTTTTTC-TTTTTT-CATTTTTTTTCATTTTTTTATC-T
* *
6300244 TTTTCTTTTCTTCTTTTTCTTCTTTTCATTTTTTTATTATTTTTATTATTT
1 TTTTCTTTT-TTCTTTTTCTT-TTTTCATTTTTTT-TCATTTTT-TTATCT
*
6300295 TTTTCATTTTTCATTTTTCTTTTTTTC-TTTTTT
1 TTTTCTTTTTTC-TTTTTC-TTTTTTCATTTTTT
6300328 ATTTCTTCTT
Statistics
Matches: 112, Mismatches: 13, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
50 41 0.37
51 64 0.57
52 6 0.05
53 1 0.01
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (47 bp):
TTTTCTTTTTTCTTTTTCTTTTTTCATTTTTTTTCATTTTTTTATCT
Found at i:6300336 original size:14 final size:13
Alignment explanation
Indices: 6300242--6300337 Score: 52
Period size: 14 Copynumber: 6.7 Consensus size: 13
6300232 TTTTTTTCTC
6300242 ATTTTTCTTTTCTT
1 ATTTTTCTTTT-TT
*
6300256 CTTTTTCTTCTTTT
1 ATTTTTCTT-TTTT
6300270 CATTTTT-TTATTATT
1 -ATTTTTCTT-TT-TT
*
6300285 -TTTATTATTTTTTT
1 ATTT-TT-CTTTTTT
6300299 CATTTTTCATTTTTCT
1 -ATTTTTC-TTTTT-T
*
6300315 TTTTTTCTTTTTT
1 ATTTTTCTTTTTT
6300328 ATTTCTTCTT
1 ATTT-TTCTT
6300338 CAAGCGAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 22
0.70 0.06 0.24
Matches are distributed among these distances:
13 7 0.11
14 28 0.43
15 24 0.37
16 6 0.09
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.78
Consensus pattern (13 bp):
ATTTTTCTTTTTT
Found at i:6303835 original size:8 final size:8
Alignment explanation
Indices: 6303822--6303849 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
6303812 AAGAGAAGAT
6303822 ATATATAC
1 ATATATAC
6303830 ATATATAC
1 ATATATAC
6303838 ATATATAC
1 ATATATAC
6303846 ATAT
1 ATAT
6303850 GGGATGATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:6310011 original size:51 final size:45
Alignment explanation
Indices: 6309963--6310053 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
6309953 ACATGCTTTG
6309963 TTATTCACAAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGC
1 TTATTC-CAAAAAGAAA-CCTAACCGCATGATATCTAATTCGCATGC
* * *
6310010 TTATTCGAAAAATAAACCTAACCGCATGATATCTAGTTCGCATG
1 TTATTCCAAAAAGAAACCTAACCGCATGATATCTAATTCGCATG
6310054 AATTTATTCG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 27 0.66
46 8 0.20
47 6 0.15
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (45 bp):
TTATTCCAAAAAGAAACCTAACCGCATGATATCTAATTCGCATGC
Found at i:6312526 original size:2 final size:2
Alignment explanation
Indices: 6312519--6312547 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6312509 CTTTTTCCTT
6312519 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 T
6312548 CATGTCACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6314849 original size:30 final size:30
Alignment explanation
Indices: 6314813--6314885 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
6314803 CCCGAAGAAC
*
6314813 CTATCCAGAGGTCATAAAGATCCTTGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
6314843 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
6314873 CTGTCCATAGGTC
1 CTATCCAGAGGTC
6314886 CCGAAGAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:6314902 original size:30 final size:30
Alignment explanation
Indices: 6314859--6314943 Score: 89
Period size: 31 Copynumber: 2.8 Consensus size: 30
6314849 AGAGGTCATA
* *
6314859 AAGATCCTCGGTAACTGTCCATAGGTCCCG
1 AAGAACCTAGGTAACTGTCCATAGGTCCCG
* * *
6314889 AAGAACCTAGGTAAACTGTCCATATGTTCCT
1 AAGAACCTAGGT-AACTGTCCATAGGTCCCG
* *
6314920 TAGAACATAGGTATACTGTCCATA
1 AAGAACCTAGGTA-ACTGTCCATA
6314944 TGTTCCTTAG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
30 11 0.24
31 35 0.76
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (30 bp):
AAGAACCTAGGTAACTGTCCATAGGTCCCG
Found at i:6314909 original size:31 final size:31
Alignment explanation
Indices: 6314871--6314995 Score: 119
Period size: 31 Copynumber: 4.1 Consensus size: 31
6314861 GATCCTCGGT
* *
6314871 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* **
6314902 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* * **
6314933 TACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* * *
6314964 TATTGTCCATATGTCTCGAA-AGAC-TAGGTA
1 AACTGTCCATATGTCCCGAAGA-ACATAGGTA
6314994 AA
1 AA
6314996 ACCCTCGACT
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
30 8 0.10
31 73 0.90
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGAACATAGGTA
Found at i:6315658 original size:2 final size:2
Alignment explanation
Indices: 6315651--6315689 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
6315641 ATACAATTCC
*
6315651 TA TA TA TA TG 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 TA TA TA T
6315690 CTAACTCATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6316312 original size:64 final size:64
Alignment explanation
Indices: 6316179--6316322 Score: 177
Period size: 64 Copynumber: 2.2 Consensus size: 64
6316169 TAATGAAGGT
* * *
6316179 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACTACACCATACATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGA
* *
6316244 ATGCATCGATGCACT-C-CTTATACATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-
1 ATGCATCGATGCACTACAC-CATACATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATG
*
6316306 TA
63 GA
6316308 ATGCATCGATGCACT
1 ATGCATCGATGCACT
6316323 GTATGTGCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
63 1 0.01
64 44 0.63
65 22 0.31
66 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (64 bp):
ATGCATCGATGCACTACACCATACATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGA
Found at i:6316334 original size:64 final size:63
Alignment explanation
Indices: 6316179--6316339 Score: 175
Period size: 64 Copynumber: 2.5 Consensus size: 63
6316169 TAATGAAGGT
* *
6316179 ATGCATCGATGCACTACAC-CATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGG
1 ATGCATCGATGCACT-C-CTTATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GG
*
6316243 G
63 A
* * *
6316244 ATGCATCGATGCACTCCTTATACATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-TA
1 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGA
* *
6316308 ATGCATCGATGCACT-GTATGTGCATCGATGCA
1 ATGCATCGATGCACTCCT-TATGCATCGATGCA
6316340 CCTTAAACAA
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
63 2 0.02
64 56 0.67
65 22 0.27
66 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGA
Found at i:6320020 original size:12 final size:12
Alignment explanation
Indices: 6319999--6320032 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6319989 GGTTGTGGGT
*
6319999 TTTGAGATTGTG
1 TTTGATATTGTG
6320011 TTTGATATTGTG
1 TTTGATATTGTG
*
6320023 TTTGGTATTG
1 TTTGATATTG
6320033 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:6320835 original size:20 final size:20
Alignment explanation
Indices: 6320812--6320862 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
6320802 TTGCGAAGTT
*
6320812 AAAATTCGTGTCGTGAATTC
1 AAAATTCGAGTCGTGAATTC
* *
6320832 AAAAATCGAGTTGTGAATTC
1 AAAATTCGAGTCGTGAATTC
6320852 AGAAA-TCGAGT
1 A-AAATTCGAGT
6320863 TGCAAATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 24 0.89
21 3 0.11
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (20 bp):
AAAATTCGAGTCGTGAATTC
Found at i:6320863 original size:20 final size:20
Alignment explanation
Indices: 6320824--6320864 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
6320814 AATTCGTGTC
6320824 GTGAATTCAAAAATCGAGTT
1 GTGAATTCAAAAATCGAGTT
*
6320844 GTGAATTCAGAAATCGAGTT
1 GTGAATTCAAAAATCGAGTT
6320864 G
1 G
6320865 CAAATTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (20 bp):
GTGAATTCAAAAATCGAGTT
Found at i:6320870 original size:20 final size:20
Alignment explanation
Indices: 6320827--6320870 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6320817 TCGTGTCGTG
**
6320827 AATTCAAAAATCGAGTTGTG
1 AATTCAAAAATCGAGTTGCA
*
6320847 AATTCAGAAATCGAGTTGCA
1 AATTCAAAAATCGAGTTGCA
6320867 AATT
1 AATT
6320871 TGAATTCAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (20 bp):
AATTCAAAAATCGAGTTGCA
Found at i:6322192 original size:37 final size:37
Alignment explanation
Indices: 6322120--6322192 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 37
6322110 ATATTTTTTT
* * *
6322120 ATTTTATAAATAAATTATATAAAATATTATGAATTTA
1 ATTTTATAAAGAAAATATATAAAATATTATCAATTTA
* *
6322157 ATTTTTTAAAGAAAATATAT-AAATATTTTACAATTT
1 ATTTTATAAAGAAAATATATAAAATATTAT-CAATTT
6322193 GTAATATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 8 0.27
37 22 0.73
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (37 bp):
ATTTTATAAAGAAAATATATAAAATATTATCAATTTA
Found at i:6323299 original size:3 final size:3
Alignment explanation
Indices: 6323291--6323318 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6323281 TAGTAGAGTC
6323291 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6323319 GGAAGTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6325419 original size:19 final size:20
Alignment explanation
Indices: 6325395--6325439 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
6325385 TCTCCTTTTT
* *
6325395 ATTTTTGAC-TTTATTTATA
1 ATTTTTGACATCTATTTAAA
*
6325414 ATTTTTTACATCTATTTAAA
1 ATTTTTGACATCTATTTAAA
6325434 ATTTTT
1 ATTTTT
6325440 TATATACTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTTTGACATCTATTTAAA
Found at i:6328154 original size:58 final size:59
Alignment explanation
Indices: 6328090--6328210 Score: 138
Period size: 59 Copynumber: 2.1 Consensus size: 59
6328080 ATAAAGTATG
* ** * *
6328090 CAAATGATCCCT-GACTATATGTTATTGTTTTATTAAGTCCCTT-AACTATTAAAAGTTA
1 CAAATGATCCCTCAACTATATAATATTATTTTATTAAGT-CCTTCAACTATTAAAAATTA
* * * *
6328148 CAAATGATCCTTCAATTATATAATATTATTTTGTTAAGTTCTTCAACTATTAAAAATTA
1 CAAATGATCCCTCAACTATATAATATTATTTTATTAAGTCCTTCAACTATTAAAAATTA
6328207 CAAA
1 CAAA
6328211 ATGGTCACCC
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
58 14 0.27
59 38 0.73
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.41
Consensus pattern (59 bp):
CAAATGATCCCTCAACTATATAATATTATTTTATTAAGTCCTTCAACTATTAAAAATTA
Found at i:6328710 original size:27 final size:27
Alignment explanation
Indices: 6328651--6328710 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
6328641 TTAGAAAAGA
* *
6328651 GGTTTTTTGGCCCATTATAGATTTCAG
1 GGTTTTTTAGCCCATTATAGATGTCAG
*
6328678 GGTTTTTTAGCCCATTA-AGATGTCTG
1 GGTTTTTTAGCCCATTATAGATGTCAG
*
6328704 GATTTTT
1 GGTTTTT
6328711 ATTTTGGGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 13 0.45
27 16 0.55
ACGTcount: A:0.18, C:0.13, G:0.22, T:0.47
Consensus pattern (27 bp):
GGTTTTTTAGCCCATTATAGATGTCAG
Found at i:6331814 original size:22 final size:23
Alignment explanation
Indices: 6331780--6331822 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6331770 ACGACCGTTC
* *
6331780 AAAAATTTGAAAATTTTTATTTA
1 AAAAACTTGAAAATTATTATTTA
6331803 AAAAACTT-AAAATTATTATT
1 AAAAACTTGAAAATTATTATT
6331823 ATTGTTGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
AAAAACTTGAAAATTATTATTTA
Found at i:6333117 original size:30 final size:30
Alignment explanation
Indices: 6333061--6333183 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
6333051 AAAGGACCTA
* * *
6333061 TCCAGAGGTCACAAAGA-CCCCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
6333090 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
6333120 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
6333150 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
6333180 TCCA
1 TCCA
6333184 TATGTTCCTT
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 16 0.18
30 74 0.82
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:6333248 original size:32 final size:31
Alignment explanation
Indices: 6333175--6333270 Score: 115
Period size: 32 Copynumber: 3.0 Consensus size: 31
6333165 GATCCTCGGT
*
6333175 AACTGTCCATATGTTCCTTAGAACATAGGT-A
1 AACTGTCCATATGTT-CGTAGAACATAGGTAA
* *
6333206 TACTGTCCATATGTCTCG-AAAGACATAGGTAA
1 AACTGTCCATATGT-TCGTAGA-ACATAGGTAA
6333238 AACTGTCCATATGTTTCGTAGAACATAGGTAA
1 AACTGTCCATATG-TTCGTAGAACATAGGTAA
6333270 A
1 A
6333271 CCCTCGACTC
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
30 2 0.04
31 22 0.40
32 28 0.51
33 3 0.05
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (31 bp):
AACTGTCCATATGTTCGTAGAACATAGGTAA
Found at i:6334191 original size:21 final size:21
Alignment explanation
Indices: 6334167--6334211 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6334157 CCATGTTCGT
* * *
6334167 TTGAGGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
6334188 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
6334209 TTG
1 TTG
6334212 CCCAGAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.13, C:0.24, G:0.31, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:6347239 original size:79 final size:78
Alignment explanation
Indices: 6347152--6347303 Score: 243
Period size: 79 Copynumber: 1.9 Consensus size: 78
6347142 TTTTTAATAT
* * * *
6347152 TTTCGGTAAAGCGTTACCTAAAATATTATTTTTTCTACCGAAAATGTTAATA-TTGGACGCTACC
1 TTTCGGTAAAACGCTACCTAAAATATTATTTTTTCTAACGAAAATATTAATATTTGG-CGCTACC
6347216 TAAAATGTTTAACA
65 TAAAATGTTTAACA
6347230 TTTCTGGTAAAACGCTACCTAAAATATTATTTTTTCTAACGAAAATATTAATATTTGGCGCTACC
1 TTTC-GGTAAAACGCTACCTAAAATATTATTTTTTCTAACGAAAATATTAATATTTGGCGCTACC
6347295 TAAAATGTT
65 TAAAATGTT
6347304 ATTTTTTTTA
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
78 4 0.06
79 60 0.88
80 4 0.06
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (78 bp):
TTTCGGTAAAACGCTACCTAAAATATTATTTTTTCTAACGAAAATATTAATATTTGGCGCTACCT
AAAATGTTTAACA
Found at i:6348809 original size:18 final size:20
Alignment explanation
Indices: 6348749--6348809 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 20
6348739 ATATAAAAAT
*
6348749 TAAATATTTTATAATTCAA-A
1 TAAATAATTTATAATT-AATA
* *
6348769 -AAACAATTTATAATTAATT
1 TAAATAATTTATAATTAATA
6348788 TAAATAATTTA-AA-TAATA
1 TAAATAATTTATAATTAATA
6348806 TAAA
1 TAAA
6348810 ATTATAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 10 0.29
19 15 0.44
20 9 0.26
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAATAATTTATAATTAATA
Found at i:6348994 original size:187 final size:188
Alignment explanation
Indices: 6348792--6349140 Score: 578
Period size: 187 Copynumber: 1.9 Consensus size: 188
6348782 TTAATTTAAA
*
6348792 TAATTTAAATAATATAAAATTATAAAATAATAATTTTATATAAAATTTTTTAATTAATTAATATT
1 TAATTTAAATAATATAAAATTATAAAATAAAAATTTTATAT-AAATTTTTTAATTAATTAATATT
* ** *
6348857 -ATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTGGGTTTTAAAATGATTTGGGTTGAG
65 GATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTGAGTTTT-AAATGATTTGGACTAAG
* *
6348921 CCTATATG-T-TATATATAATATATTTAATATTTTTTAATTCAGAAAAGCAGTTTACAAT
129 CCCATATGTTATATATATAATATATTTAAAATTTTTTAATTCAGAAAAGCAGTTTACAAT
*
6348979 TAATTTAAATAATATATAATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTG
1 TAATTTAAATAATATAAAATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTG
*
6349044 ATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGACTAAGCC
66 ATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTGAGTTTTAAATGATTTGGACTAAGCC
6349109 CATATGTTATATATATAATATATTTAAAATTT
131 CATATGTTATATATATAATATATTTAAAATTT
6349141 AAAATTTTAT
Statistics
Matches: 150, Mismatches: 9, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
186 43 0.29
187 85 0.57
188 22 0.15
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (188 bp):
TAATTTAAATAATATAAAATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTG
ATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTGAGTTTTAAATGATTTGGACTAAGCC
CATATGTTATATATATAATATATTTAAAATTTTTTAATTCAGAAAAGCAGTTTACAAT
Found at i:6355725 original size:31 final size:31
Alignment explanation
Indices: 6355687--6355842 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
6355677 CCCGAAGGAC
* * *
6355687 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
6355718 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
6355749 CAGTCCATATGTCCCGAAAAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
6355780 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
6355811 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
6355842 C
1 C
6355843 CCTCGACCCT
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 118 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:6363282 original size:17 final size:17
Alignment explanation
Indices: 6363262--6363305 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
6363252 ATAGTGAAAT
*
6363262 TTTGTCGGCGATACGAA
1 TTTGTCGACGATACGAA
6363279 TTTGTCGACGATACGAA
1 TTTGTCGACGATACGAA
6363296 TTTGTCGACG
1 TTTGTCGACG
6363306 GAGGTGTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (17 bp):
TTTGTCGACGATACGAA
Found at i:6367123 original size:21 final size:21
Alignment explanation
Indices: 6367097--6367141 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6367087 GATTTCTGGG
* *
6367097 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
6367118 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
6367139 CAA
1 CAA
6367142 CCGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:6367744 original size:18 final size:18
Alignment explanation
Indices: 6367721--6367755 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6367711 CTAGGAGATT
6367721 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
6367739 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
6367756 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:6368810 original size:149 final size:149
Alignment explanation
Indices: 6368630--6368944 Score: 614
Period size: 149 Copynumber: 2.1 Consensus size: 149
6368620 GAGTCGAGGG
6368630 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
6368695 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
6368760 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
6368779 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
6368844 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
6368909 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
6368928 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
6368945 TGCAATTATA
Statistics
Matches: 165, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
148 1 0.01
149 164 0.99
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:6368945 original size:23 final size:23
Alignment explanation
Indices: 6368912--6368956 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6368902 ATCATTATAT
*
6368912 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
6368935 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
6368957 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:6372235 original size:21 final size:21
Alignment explanation
Indices: 6372206--6372250 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6372196 GATTTCTGGG
* *
6372206 CAAGAGGAATCGGTACCCATT
1 CAAGAGGAACCGATACCCATT
* *
6372227 CAAGGGGAACCGATACCCCTT
1 CAAGAGGAACCGATACCCATT
6372248 CAA
1 CAA
6372251 ACGAACAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (21 bp):
CAAGAGGAACCGATACCCATT
Found at i:6372857 original size:18 final size:18
Alignment explanation
Indices: 6372834--6372868 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6372824 CTAGGAGATT
6372834 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
6372852 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
6372869 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:6373934 original size:149 final size:149
Alignment explanation
Indices: 6373754--6374068 Score: 605
Period size: 149 Copynumber: 2.1 Consensus size: 149
6373744 GAGTCGAGGG
6373754 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
6373819 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
6373884 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
6373903 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTTTGGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
6373968 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
6374033 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
6374052 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
6374069 TGCAATTATA
Statistics
Matches: 164, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
148 1 0.01
149 163 0.99
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:6374069 original size:23 final size:23
Alignment explanation
Indices: 6374036--6374080 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6374026 ATCATTATAT
*
6374036 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
6374059 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
6374081 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:6383299 original size:37 final size:38
Alignment explanation
Indices: 6383242--6383329 Score: 124
Period size: 37 Copynumber: 2.3 Consensus size: 38
6383232 ATATTAAAAA
*
6383242 TAATTATATATATATATATAATATTAATAAATTTAATT
1 TAATTATAAATATATATATAATATTAATAAATTTAATT
* *
6383280 TAATT-TAAATATATATATAATATTTATATATTTAATT
1 TAATTATAAATATATATATAATATTAATAAATTTAATT
* *
6383317 TAAATATATATAT
1 TAATTATAAATAT
6383330 CCGGCCCGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
37 33 0.75
38 11 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (38 bp):
TAATTATAAATATATATATAATATTAATAAATTTAATT
Found at i:6383324 original size:17 final size:17
Alignment explanation
Indices: 6383277--6383327 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
6383267 AATAAATTTA
6383277 ATTTAATTTAAATATAT
1 ATTTAATTTAAATATAT
*
6383294 ATATAATATT---TATAT
1 ATTTAAT-TTAAATATAT
6383309 ATTTAATTTAAATATAT
1 ATTTAATTTAAATATAT
6383326 AT
1 AT
6383328 ATCCGGCCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 2 0.07
15 11 0.39
17 13 0.46
18 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTAATTTAAATATAT
Found at i:6383397 original size:23 final size:23
Alignment explanation
Indices: 6383367--6383417 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
6383357 TTTAAATAAC
6383367 CGTTTATGCTAAACGGGGATACA
1 CGTTTATGCTAAACGGGGATACA
* *
6383390 CGTTTATGCTAAATGGGGATACC
1 CGTTTATGCTAAACGGGGATACA
6383413 CGTTT
1 CGTTT
6383418 CCTCGCAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (23 bp):
CGTTTATGCTAAACGGGGATACA
Found at i:6383725 original size:12 final size:12
Alignment explanation
Indices: 6383708--6383737 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6383698 TATAATACAA
6383708 ATAAATCATTAT
1 ATAAATCATTAT
*
6383720 ATAAATGATTAT
1 ATAAATCATTAT
6383732 ATAAAT
1 ATAAAT
6383738 AAATGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (12 bp):
ATAAATCATTAT
Found at i:6384531 original size:26 final size:25
Alignment explanation
Indices: 6384475--6384527 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
6384465 GATAATAACC
*
6384475 AAATTAAATGAATAAAAATAAATAT
1 AAATTAAATAAATAAAAATAAATAT
*
6384500 GAATTAAATTAAATAAAAATAAA-AT
1 AAATTAAA-TAAATAAAAATAAATAT
6384525 AAA
1 AAA
6384528 ATTATTGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (25 bp):
AAATTAAATAAATAAAAATAAATAT
Found at i:6388920 original size:23 final size:23
Alignment explanation
Indices: 6388876--6388920 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6388866 AACATATTAA
* **
6388876 GTAGCGCTTATATAATGTAATAT
1 GTAGCACTTATATAATAAAATAT
6388899 GTAGCACTTATATAATAAAATA
1 GTAGCACTTATATAATAAAATA
6388921 GGCATTTAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (23 bp):
GTAGCACTTATATAATAAAATAT
Found at i:6388982 original size:87 final size:87
Alignment explanation
Indices: 6388836--6388998 Score: 274
Period size: 87 Copynumber: 1.9 Consensus size: 87
6388826 TATGTTTTAT
*
6388836 CATTTAACCAGAAATATTATCAAGCACAATAACATATTAAGTAGCGCTTATATAATGTAATATGT
1 CATTTAACCAGAAATATTATCAAGCACAATAACATATTAAGTAGCGCTTATATAATGTAATAGGT
6388901 AGCACTTATATAATAAAATAGG
66 AGCACTTATATAATAAAATAGG
* *
6388923 CATTTAACC-GAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGG
1 CATTTAACCAG-AAATATTATCAAGCACAATAACATATTAAGTAGCGCTTATATAATGTAATAGG
*
6388987 TAGCGCTTATAT
65 TAGCACTTATAT
6388999 TGACCTATTT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
86 1 0.01
87 70 0.99
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (87 bp):
CATTTAACCAGAAATATTATCAAGCACAATAACATATTAAGTAGCGCTTATATAATGTAATAGGT
AGCACTTATATAATAAAATAGG
Found at i:6392998 original size:21 final size:21
Alignment explanation
Indices: 6392974--6393013 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6392964 CACGCGTAAT
*
6392974 TTTAAAAAGTGTCAACACAAA
1 TTTAAAAACTGTCAACACAAA
*
6392995 TTTAAAAACTGTCGACACA
1 TTTAAAAACTGTCAACACA
6393014 TTATGTTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.25
Consensus pattern (21 bp):
TTTAAAAACTGTCAACACAAA
Found at i:6393437 original size:201 final size:198
Alignment explanation
Indices: 6392976--6393543 Score: 728
Period size: 201 Copynumber: 2.8 Consensus size: 198
6392966 CGCGTAATTT
* * * * * * *
6392976 TAAAAAGTGTCAACACAAATTTAAAAACTGTCGACACATTATGTT-GACCTATTTTCT-ATTTAC
1 TAAAAAGTATCGACACAAA-TAAAAAAGTGTCGATACATTAT-TTAGACCTATTTTCTCA-TAAA
* * * *
6393039 ACCGGTAAATTTCAACCTGTTACATTGTAAATTGACCTATTACATTATAATTTTTGGTCTCGATG
63 ACCGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTTTAGGTCTCGATG
* * * * * * *
6393104 TATTTGGGGTTGATAGTTTTATAAATGTATCGAAACTTTATGCGTGGACATTGGTTGGCATTCAT
128 TATTTAGGGTTGATACTTTTATAAATGTATCGACACTTTAAGCGTGCACATAGGTTGGAATTCAT
6393169 TATGGA
193 TATGGA
* * * * * * *
6393175 CATAAAGTATCGACACAAATGTACAAAGTATCGATACATTATGTAGACCTATTTGCTCATAAAAC
1 TAAAAAGTATCGACACAAAT-AAAAAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAAC
* *
6393240 TGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTTTCGGTCTCGATGTA
65 CGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTTTAGGTCTCGATGTA
* *
6393305 TTTAGGGTCGATACTTTTAATAAATGTATCGACACTTTAAGCGTGCACATAGTTTGGGAATTCAT
130 TTTAGGGTTGATACTTTT-ATAAATGTATCGACACTTTAAGCGTGCACATAGGTT-GGAATTCAT
6393370 TATGGA
193 TATGGA
6393376 TAAAAAGTATCGACACAAATAAATAAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAAC
1 TAAAAAGTATCGACACAAATAAA-AAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAAC
* * *
6393441 CGGTAAATTTAAACCGATTACATTGTAAAGTGACCTATTACATTATAATTATAGGTTTCGATGT-
65 CGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTTTAGGTCTCGATGTA
* *
6393505 TTTTGGGATTGACACTTGTTATAAATGTATCGACACTTT
130 TTTAGGG-TTGATACTT-TTATAAATGTATCGACACTTT
6393544 GTTGTGCACT
Statistics
Matches: 320, Mismatches: 41, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
198 2 0.01
199 122 0.38
200 39 0.12
201 155 0.48
202 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (198 bp):
TAAAAAGTATCGACACAAATAAAAAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACC
GGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTTTAGGTCTCGATGTAT
TTAGGGTTGATACTTTTATAAATGTATCGACACTTTAAGCGTGCACATAGGTTGGAATTCATTAT
GGA
Found at i:6393705 original size:200 final size:200
Alignment explanation
Indices: 6393403--6394791 Score: 2172
Period size: 200 Copynumber: 6.9 Consensus size: 200
6393393 AATAAATAAA
* * * * * ** * *
6393403 GTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGATTACATTGTA
1 GTGTCGATACTTTATGTATACCTGTTTTCTCA-AAAACCGGTATATTTAGGCCGGTTACATTGTT
** * *
6393468 AAGTGACCTATTACATTATAATTAT-AGGTTTCGATGTTTTTGGGATTGACACTTGTTATAAATG
65 ATTTTACCTATTACATTATAATTATGA-GTTTCGATGTTTTTGGGATCGACACTTGTTATAAATG
6393532 TATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGT
129 TATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGT
6393597 TGGATTT
194 TGGATTT
* *
6393604 GTGTCGATACTTTATGTATACTTGTTTTCTAAAAAACCGGTATATTTAGGCCGGTTACATTGTTA
1 GTGTCGATACTTTATGTATACCTGTTTTCTCAAAAACCGGTATATTTAGGCCGGTTACATTGTTA
6393669 TTTTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTA
66 TTTTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTA
6393734 TCGACACTTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTTG
131 TCGACACTTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTTG
6393799 GATTT
196 GATTT
* * ** * *
6393804 GTGTCGATTCTTTATGTATACCTGTTTTCTCATAAACCCATATATTTAGACCGGTTACATTTTTA
1 GTGTCGATACTTTATGTATACCTGTTTTCTCAAAAACCGGTATATTTAGGCCGGTTACATTGTTA
* * *
6393869 ATTTACCTATTACATTATAATTATGGGTTTCTATGTTTTTGGGATCGACACTTGTTATAAATGTA
66 TTTTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTA
* * *
6393934 TCGACACTTTGTTGTGCACTTGGTTTTTAAAATACATTCTGGACAAAAAGTATCAACACTTTTTG
131 TCGACACTTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTTG
6393999 GATTT
196 GATTT
* * *
6394004 GTGTCGATACTTTATTTATACTTGTTTTCTCAAAAATCGGTATATTTAGGCCGGTTACATTGTTA
1 GTGTCGATACTTTATGTATACCTGTTTTCTCAAAAACCGGTATATTTAGGCCGGTTACATTGTTA
* * * *
6394069 TTTTACCTATTACATTATAATTAGGGGTTTCAATATTTTTGGGATCGACACTTGTTATAAATGTA
66 TTTTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTA
*
6394134 TCGACACTTTGTTGTGCACTTGGTTTCTAAAATACACTCTGGACAAAAAGTATCGACACTTGTTG
131 TCGACACTTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTTG
6394199 GATTT
196 GATTT
* * * *
6394204 GTGTCGATACTTTATGTATACATGTTTTCTCATAAACTGGTATATTTAGACCGGTTACATTGTTA
1 GTGTCGATACTTTATGTATACCTGTTTTCTCAAAAACCGGTATATTTAGGCCGGTTACATTGTTA
* *
6394269 ATTTACTTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTA
66 TTTTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTA
6394334 TCGACACTTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTTG
131 TCGACACTTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTTG
6394399 GATTT
196 GATTT
* * **
6394404 GTGTTGATACTTTATGTATACATGTTTTCTCAAAAACCGGTATATTTAGGCCGGACACATTGTTA
1 GTGTCGATACTTTATGTATACCTGTTTTCTCAAAAACCGGTATATTTAGGCCGGTTACATTGTTA
*
6394469 TTTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTA
66 TTTTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTA
* *
6394534 TCGACACTTTGTTGTGCACTTGGTTTTTAAAATACACTATGGACAAAAAGTATCGACACTTGTTA
131 TCGACACTTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTTG
6394599 GATTT
196 GATTT
* *
6394604 GTGTTGATACTTTATGTATACCTGTTTTCTTAAAAACCGGTATATTTAGGCCGGTTACATTGTTA
1 GTGTCGATACTTTATGTATACCTGTTTTCTCAAAAACCGGTATATTTAGGCCGGTTACATTGTTA
* * * *
6394669 TTTTACCTATTACATTAT-GTCTATGTGTTTCGATGTTTTTAGTATCGACACTTGTTATAAATGT
66 TTTTACCTATTACATTATAAT-TATGAGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGT
* * ** * * * *
6394733 ATCAACACTTTGTCGTGCACTTGG-TTTGGAAATACATTATGGACAATATGTATCGACAC
130 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGACAC
6394792 GAATGAATAA
Statistics
Matches: 1101, Mismatches: 85, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
199 31 0.03
200 1043 0.95
201 27 0.02
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (200 bp):
GTGTCGATACTTTATGTATACCTGTTTTCTCAAAAACCGGTATATTTAGGCCGGTTACATTGTTA
TTTTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTA
TCGACACTTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTTG
GATTT
Found at i:6395737 original size:15 final size:15
Alignment explanation
Indices: 6395713--6395754 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
6395703 AGGAGGTTGT
6395713 GGTTGAGAAGAGCTA
1 GGTTGAGAAGAGCTA
* * *
6395728 GGTTGGGAAGAGGTG
1 GGTTGAGAAGAGCTA
6395743 GGTTGAGAAGAG
1 GGTTGAGAAGAG
6395755 TTTTGAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.29, C:0.02, G:0.50, T:0.19
Consensus pattern (15 bp):
GGTTGAGAAGAGCTA
Found at i:6396926 original size:199 final size:200
Alignment explanation
Indices: 6396125--6396991 Score: 1213
Period size: 200 Copynumber: 4.3 Consensus size: 200
6396115 TTGCAAAATG
* * * * * *
6396125 ACCTATTACATTAAAATTTTGGGTTTCGATGTTCTTAGGATCGATACTTGTTATAAATATATCGA
1 ACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGA
** **
6396190 CACTTTTTCTTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATT
66 CACTTTTTAGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTTTTATT
* * * * * *
6396255 TTTGTCGATACTTTATGTATACATGTTTTCTCATAAACTGGTATATTTAGATCGATTACATTGTT
131 TGTGTCGATACTTTTTGTATACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTGTT
6396320 AATTT
196 AATTT
6396325 ACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGA
1 ACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGA
* * * *
6396390 CACTTTTTAGTGCACTTGG-TTTTGAAATACAATCTGGACAAAAAATATCGACACTTGTTTTTTT
66 CACTTTTTAGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGACACTTG-TTTTAT
* **
6396454 TTGTGTCGATACTTTATT-TATACATGTTTTCTCAAAAATCGGTATATTTAGGTCGGTTACATTG
130 TTGTGTCGATACTTT-TTGTATACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTG
*
6396518 TTATTTT
194 TTAATTT
* * *
6396525 ACCTATTACATTATAATTAGGGGTTTTGATGTTTTTGGGATCGACACTTGTTATAAATATATCGA
1 ACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGA
* * *
6396590 CACTTTGTT-GTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATTGACATTTGTTTTGT
66 CACTTT-TTAGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTTTTAT
* *
6396654 TTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACTGGTATATTTAGACCGGTTACATTGT
130 TTGTGTCGATACTTTTTGTATACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTGT
6396719 TAATTT
195 TAATTT
* * * *
6396725 ACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATTGACATTTGTTATAAATGTATTGA
1 ACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGA
* * * * *
6396790 CACTTTTTAGTACACTTGG-TTTTGAAATACATTATGGACCAAAAGTATCGACACTTGTTTTATT
66 CACTTTTTAGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTTTTATT
* * * * * * *
6396854 TGTGTCGTTA-TTGTTTGTAAACCTATTTTCTCATAAACCGGTATATTTAGACCTGTTACTTTGT
131 TGTGTCGATACTT-TTTGTATACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTGT
6396918 TAATTT
195 TAATTT
* *
6396924 ACCTATTACATTATAATTATGGGTTTCGATGATTTTGGGATCGATACTTGTTATAAATGTATCGA
1 ACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGA
6396989 CAC
66 CAC
6396992 ATAAGTTTAC
Statistics
Matches: 594, Mismatches: 66, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
198 2 0.00
199 198 0.33
200 358 0.60
201 36 0.06
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (200 bp):
ACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGA
CACTTTTTAGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTTTTATT
TGTGTCGATACTTTTTGTATACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTGTT
AATTT
Found at i:6397387 original size:19 final size:19
Alignment explanation
Indices: 6397363--6397412 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
6397353 TTACATTCAC
*
6397363 ATACAAAATTATAAATCGT
1 ATACAAAATTAAAAATCGT
*
6397382 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCGT
6397401 ATACAAAATTAA
1 ATACAAAATTAA
6397413 CCCTACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTAAAAATCGT
Found at i:6398905 original size:18 final size:18
Alignment explanation
Indices: 6398882--6398920 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
6398872 TTCTCCTCAT
* *
6398882 TTCCTCTATCTTTTCTTC
1 TTCCTCCATCTTCTCTTC
6398900 TTCCTCCATCTTCTCTTC
1 TTCCTCCATCTTCTCTTC
6398918 TTC
1 TTC
6398921 AAATTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCCATCTTCTCTTC
Found at i:6399375 original size:9 final size:9
Alignment explanation
Indices: 6399334--6399377 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
6399324 CCTTCTCCAT
*
6399334 TGCCTCGTC
1 TGCCTCCTC
*
6399343 TGCTTCCTC
1 TGCCTCCTC
*
6399352 TGCCTCATC
1 TGCCTCCTC
*
6399361 TACCTCCTC
1 TGCCTCCTC
6399370 TGCCTCCT
1 TGCCTCCT
6399378 TGACAATAAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.05, C:0.48, G:0.11, T:0.36
Consensus pattern (9 bp):
TGCCTCCTC
Found at i:6399636 original size:22 final size:21
Alignment explanation
Indices: 6399608--6399663 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 21
6399598 AATATGCATT
*
6399608 TATAATAAAAGTTATCATTTTA
1 TATAATAAAA-CTATCATTTTA
6399630 TATAATAACTATACTATCATTTTA
1 TATAATAA--A-ACTATCATTTTA
*
6399654 TATAAAAAAA
1 TATAATAAAA
6399664 TAAAAACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
21 1 0.03
22 9 0.31
24 18 0.62
25 1 0.03
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (21 bp):
TATAATAAAACTATCATTTTA
Found at i:6400949 original size:19 final size:19
Alignment explanation
Indices: 6400921--6400969 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
6400911 CATTTATACA
*
6400921 ACCTAAAATATCATTTTCT
1 ACCTATAATATCATTTTCT
6400940 ACCTATAATATCATTTTCT
1 ACCTATAATATCATTTTCT
6400959 ACCTATAATAT
1 ACCTATAATAT
6400970 TAAATAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (19 bp):
ACCTATAATATCATTTTCT
Found at i:6401745 original size:183 final size:181
Alignment explanation
Indices: 6401435--6401830 Score: 598
Period size: 183 Copynumber: 2.2 Consensus size: 181
6401425 TATCCGGTAG
* * *
6401435 CATTTTGAGACCGATTTTATCATATATTTACATGTTATATTGTTATGGATCGATACATTTTTTAA
1 CATTTTGAGACCG-TTTTATCATATTTTTACATGTTATATTGTTATGGATCGATAAATTTTATAA
6401500 AAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
65 AAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * * *
6401565 TATTAAATTATTGACACTTTCAACATATCCGGTATCTTTTTACCGGTTTTGT
130 TATTAAATTATCGACACTTTCAACATATCCGGAAGCGTTTTACCGGTTTTGT
*
6401617 CATTTTTGAGACCTGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATAAATTTTCAT
1 CA-TTTTGAGACC-GTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATAAATTTT-AT
* * *
6401682 -AAAGTGTCGACACTTTTTAGGTGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATAC
63 AAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATAC
*
6401745 TTATATTAAATTATCGACACTTTCAACATATCTGGAAGCGTTTTACCGGTTTTGT
127 TTATATTAAATTATCGACACTTTCAACATATCCGGAAGCGTTTTACCGGTTTTGT
* *
6401800 CATTTCGAGACCAGTTTTTTCATATTTTTAC
1 CATTTTGAGACC-GTTTTATCATATTTTTAC
6401831 CTATAATATT
Statistics
Matches: 195, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
182 30 0.15
183 163 0.84
184 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (181 bp):
CATTTTGAGACCGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATAAATTTTATAAA
AGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTAT
ATTAAATTATCGACACTTTCAACATATCCGGAAGCGTTTTACCGGTTTTGT
Found at i:6405422 original size:18 final size:16
Alignment explanation
Indices: 6405399--6405443 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 16
6405389 TGTTTATGAG
6405399 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGT--A
*
6405417 GGAATTAGAATCTGTA
1 GGAATTGGAATCTGTA
6405433 GGAATTGGAAT
1 GGAATTGGAAT
6405444 TTAATTCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 11 0.44
18 14 0.56
ACGTcount: A:0.36, C:0.04, G:0.31, T:0.29
Consensus pattern (16 bp):
GGAATTGGAATCTGTA
Found at i:6409176 original size:21 final size:20
Alignment explanation
Indices: 6409152--6409205 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 20
6409142 TCAAACCGTT
6409152 TTATTCAAATTAATAAAAATA
1 TTATTCAAATTAATAAAAA-A
**
6409173 TTATT-ATAA-TAATTTAAAA
1 TTATTCA-AATTAATAAAAAA
6409192 TT-TTCAAATTAATA
1 TTATTCAAATTAATA
6409206 CTTAATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
18 4 0.15
19 8 0.30
20 8 0.30
21 7 0.26
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTCAAATTAATAAAAAA
Found at i:6410071 original size:52 final size:53
Alignment explanation
Indices: 6409985--6410136 Score: 209
Period size: 53 Copynumber: 2.9 Consensus size: 53
6409975 TGTTAATATC
* *
6409985 ACATAAATAGGGG-TCTATTTATTTTTATTTCGCCCAGTGCC-AAAAAATAAAGA
1 ACATAAATAGGGGCTC-ATTT-CTTTTATTTCGCCCAGGGCCAAAAAAATAAAGA
*
6410038 ACATAAATAGGGGCTCATTTCTTTTATTTCGCCCTGGGCCAAAAAAATAAAGA
1 ACATAAATAGGGGCTCATTTCTTTTATTTCGCCCAGGGCCAAAAAAATAAAGA
* * **
6410091 ACATAAATAGGGGCCCATTTCTTTTATTTCGTCTTGGGCCAAAAAA
1 ACATAAATAGGGGCTCATTTCTTTTATTTCGCCCAGGGCCAAAAAA
6410137 TACGCAGAGC
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 17 0.19
53 72 0.79
54 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (53 bp):
ACATAAATAGGGGCTCATTTCTTTTATTTCGCCCAGGGCCAAAAAAATAAAGA
Found at i:6422408 original size:36 final size:36
Alignment explanation
Indices: 6422357--6422511 Score: 222
Period size: 36 Copynumber: 4.3 Consensus size: 36
6422347 AGTCAATCCT
*
6422357 AAGCCTTCACTGGAGAATAGTGAAGCAAACCATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
* *
6422393 AAGCCTTCACCGGAGAATAGTGAAGCAATCAATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
6422429 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCAT-
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATC-TG
* * * *
6422465 AAGTCTTCACCAGAGAGTAGTGAAGCAAACCATCTT
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
*
6422501 AAGTCTTCACC
1 AAGCCTTCACC
6422512 AAAAAGTAGT
Statistics
Matches: 109, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
35 1 0.01
36 107 0.98
37 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (36 bp):
AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
Found at i:6422512 original size:36 final size:36
Alignment explanation
Indices: 6422356--6422545 Score: 220
Period size: 36 Copynumber: 5.2 Consensus size: 36
6422346 AAGTCAATCC
**
6422356 TAAGCCTTCACTGGAGAATAGTGAAGCAAACCATCT
1 TAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCT
* * * *
6422392 GAAGCCTTCACCGGAGAATAGTGAAGCAATCAATCT
1 TAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCT
* * *
6422428 GAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCA
1 TAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCT
* *
6422464 TAAGTCTTCACCAGAGAGTAGTGAAGCAAACCATCT
1 TAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCT
* * * *
6422500 TAAGTCTTCACCA-AAAAGTAGTGAAGCAGATCCATTT
1 TAAGCCTTCACCAGAGAA-TAGTGAAGCA-AACCATCT
6422537 TAAGCCTTC
1 TAAGCCTTC
6422546 TTAGAAGAGT
Statistics
Matches: 135, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
35 2 0.01
36 119 0.88
37 14 0.10
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (36 bp):
TAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCT
Found at i:6423102 original size:55 final size:51
Alignment explanation
Indices: 6422915--6423110 Score: 205
Period size: 51 Copynumber: 3.8 Consensus size: 51
6422905 GTGAAGCAAA
* * * *
6422915 TGAAGATTATTTGAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTT
1 TGAAGA-TATTCGAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTT
* * * *
6422967 TGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTG
1 TGAAGATATTCGAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTT
* * * *
6423018 TGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCAAACCCGTT
1 TGAAGATATTCGAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTT
* * *
6423069 TCCAAAAGATTATTCGAGTTCTATACTCCTTAAAGAAA-AAGG
1 T---GAAGA-TATTCGAGTTCCATACTCCCTAAAGAAAGAAGG
6423111 GAATATGCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
51 84 0.67
52 6 0.05
54 8 0.06
55 27 0.22
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (51 bp):
TGAAGATATTCGAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTT
Found at i:6423202 original size:55 final size:54
Alignment explanation
Indices: 6423118--6423256 Score: 192
Period size: 55 Copynumber: 2.5 Consensus size: 54
6423108 AGGGAATATG
*
6423118 CGAGTCTCATACTCTCTGAAGAAATAGGGGGCAGACGCAA-TCGTTGAAGATTG-TT
1 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA--CAAGTCGTTGAAGA-TGATT
*
6423173 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACAAGTTTGTTGAAGATGATT
1 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACAAG-TCGTTGAAGATGATT
* *
6423228 CAAGTCTTATACCCTCTGAAGAAATAGGG
1 CGAGTCTTATACTCTCTGAAGAAATAGGG
6423257 AACGAACCCA
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
53 3 0.04
54 2 0.03
55 72 0.94
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (54 bp):
CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACAAGTCGTTGAAGATGATT
Done.