Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 38 of 320
Found at i:10862208 original size:17 final size:17
Alignment explanation
Indices: 10862186--10862218 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10862176 TATCATCCTT
10862186 AAAAAAATAAAAAAATA
1 AAAAAAATAAAAAAATA
10862203 AAAAAAATAAAAAAAT
1 AAAAAAATAAAAAAAT
10862219 CCCTATATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAAATAAAAAAATA
Found at i:10874903 original size:40 final size:41
Alignment explanation
Indices: 10874857--10875017 Score: 155
Period size: 41 Copynumber: 4.0 Consensus size: 41
10874847 TGTAAAACAT
10874857 AGAGCAATAGCGGCG-TTTTACCAAAAACACCGCTAAAA-AC
1 AGAGCAATAGCGGCGCTTTT-CCAAAAACACCGCTAAAAGAC
* * ***
10874897 TGAGCAATTGCGGCGCTTTTGGTAAAACACCGCTAAAAGAC
1 AGAGCAATAGCGGCGCTTTTCCAAAAACACCGCTAAAAGAC
* *** * *
10874938 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGAT
1 AGAGCAATAGCGGCGCTTTTCCAAAAACACCGCTAAAAGAC
* *** *
10874979 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAG
1 AGAGCAATAGCGGCGCTTTTCCAAAAACACCGCTAAAAG
10875018 TCATATAACT
Statistics
Matches: 109, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
40 28 0.26
41 81 0.74
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (41 bp):
AGAGCAATAGCGGCGCTTTTCCAAAAACACCGCTAAAAGAC
Found at i:10874955 original size:41 final size:41
Alignment explanation
Indices: 10874880--10875017 Score: 217
Period size: 41 Copynumber: 3.4 Consensus size: 41
10874870 CGTTTTACCA
*
10874880 AAAACACCGCTAAAA-ACTGAGCAATT-GCGGCGCTTTTGGT
1 AAAACACCGCTAAAAGACAGAGC-ATTAGCGGCGCTTTTGGT
10874920 AAAACACCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
1 AAAACACCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
* *
10874961 AAAACGCCGCTAAAAGATAGAGCATTAGCGGCGCTTTTGGT
1 AAAACACCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
*
10875002 AAAACGCCGCTAAAAG
1 AAAACACCGCTAAAAG
10875018 TCATATAACT
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
40 18 0.19
41 75 0.81
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (41 bp):
AAAACACCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
Found at i:10875660 original size:24 final size:24
Alignment explanation
Indices: 10875633--10875681 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
10875623 CGTATATTTA
*
10875633 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
10875657 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
10875681 T
1 T
10875682 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:10876009 original size:14 final size:14
Alignment explanation
Indices: 10875963--10876025 Score: 81
Period size: 14 Copynumber: 4.4 Consensus size: 14
10875953 ACTATTTTAA
10875963 GGTTTATGGATTAT
1 GGTTTATGGATTAT
*
10875977 GGATTATGGATTAT
1 GGTTTATGGATTAT
10875991 GGGTTTATGGATTAT
1 -GGTTTATGGATTAT
** *
10876006 GGTTTACAGTTTAT
1 GGTTTATGGATTAT
10876020 GGTTTA
1 GGTTTA
10876026 AGGGTTGGGG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
14 30 0.70
15 13 0.30
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.48
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:10876019 original size:29 final size:28
Alignment explanation
Indices: 10875963--10876025 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
10875953 ACTATTTTAA
**
10875963 GGTTTATGGATTATGGATTATGGATTAT
1 GGTTTATGGATTATGGATTACAGATTAT
* *
10875991 GGGTTTATGGATTATGGTTTACAGTTTAT
1 -GGTTTATGGATTATGGATTACAGATTAT
10876020 GGTTTA
1 GGTTTA
10876026 AGGGTTGGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.48
Consensus pattern (28 bp):
GGTTTATGGATTATGGATTACAGATTAT
Found at i:10876024 original size:7 final size:7
Alignment explanation
Indices: 10875958--10876110 Score: 67
Period size: 7 Copynumber: 21.6 Consensus size: 7
10875948 GAGTTACTAT
*
10875958 TTTAAGG
1 TTTATGG
10875965 TTTATGG
1 TTTATGG
*
10875972 ATTATGG
1 TTTATGG
*
10875979 ATTATGG
1 TTTATGG
*
10875986 ATTATGGG
1 TTTAT-GG
10875994 TTTATGG
1 TTTATGG
*
10876001 ATTATGG
1 TTTATGG
**
10876008 TTTACAG
1 TTTATGG
10876015 TTTATGG
1 TTTATGG
*
10876022 TTTAAGG
1 TTTATGG
* **
10876029 GTTGGGG
1 TTTATGG
*
10876036 TTTAAGG
1 TTTATGG
10876043 TTTA-GG
1 TTTATGG
*
10876049 TGTTAGGG
1 T-TTATGG
* *
10876057 GTTAGGG
1 TTTATGG
*
10876064 GTTATGG
1 TTTATGG
*
10876071 GTTATGG
1 TTTATGG
*
10876078 ATTTAAGG
1 -TTTATGG
*
10876086 GTTAT-G
1 TTTATGG
*
10876092 TTGTATGA
1 TT-TATGG
*
10876100 TTTAAGG
1 TTTATGG
10876107 TTTA
1 TTTA
10876111 GGGGATAAAA
Statistics
Matches: 114, Mismatches: 26, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
6 5 0.04
7 94 0.82
8 15 0.13
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.44
Consensus pattern (7 bp):
TTTATGG
Found at i:10876251 original size:14 final size:14
Alignment explanation
Indices: 10876232--10876298 Score: 98
Period size: 14 Copynumber: 4.7 Consensus size: 14
10876222 GTTTGCATGT
*
10876232 AAAATGTTTTCTGG
1 AAAATGATTTCTGG
10876246 AAAATGATTTCTGG
1 AAAATGATTTCTGG
* *
10876260 AAAATAATTTCTTGA
1 AAAATGATTTC-TGG
10876275 AAAATGATTTCTGG
1 AAAATGATTTCTGG
10876289 AAAATGATTT
1 AAAATGATTT
10876299 ACTTTTCTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 35 0.74
15 12 0.26
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:10876870 original size:22 final size:23
Alignment explanation
Indices: 10876845--10876908 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
10876835 AATTTTAAAA
*
10876845 AAAAATTATTTAAAATT-AATAT
1 AAAAATTATTAAAAATTCAATAT
10876867 AAAAGA-TA-TAAAAATTCAATAT
1 AAAA-ATTATTAAAAATTCAATAT
* *
10876889 AAAAATTATAAAAAAGTCAA
1 AAAAATTATTAAAAATTCAA
10876909 AAATTAGCGG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
21 8 0.23
22 17 0.49
23 10 0.29
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (23 bp):
AAAAATTATTAAAAATTCAATAT
Found at i:10876944 original size:40 final size:40
Alignment explanation
Indices: 10876900--10877021 Score: 162
Period size: 40 Copynumber: 3.1 Consensus size: 40
10876890 AAAATTATAA
*
10876900 AAAAGTCAA-AAATTAGCGGCGTTTATGATAAAAACGCCGC
1 AAAAGTCAAGCAA-TAGCGGCGTTTATGATAAAAACGCCGC
* *
10876940 AAAAGACAAGCAATAGCGGCGTTTAT-AT-AAAACGCTGC
1 AAAAGTCAAGCAATAGCGGCGTTTATGATAAAAACGCCGC
*
10876978 AAAAGAT-AATCAATAGCGGCGTTTATGATAAAAACGCCGC
1 AAAAG-TCAAGCAATAGCGGCGTTTATGATAAAAACGCCGC
10877018 AAAA
1 AAAA
10877022 AGTAATTTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
38 32 0.44
39 4 0.06
40 34 0.47
41 2 0.03
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (40 bp):
AAAAGTCAAGCAATAGCGGCGTTTATGATAAAAACGCCGC
Found at i:10876981 original size:38 final size:40
Alignment explanation
Indices: 10876913--10877021 Score: 177
Period size: 38 Copynumber: 2.8 Consensus size: 40
10876903 AGTCAAAAAT
10876913 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
* * *
10876953 TAGCGGCGTTTAT-AT-AAAACGCTGCAAAAGATAATCAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
10876991 TAGCGGCGTTTATGATAAAAACGCCGCAAAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAA
10877022 AGTAATTTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
38 33 0.52
39 4 0.06
40 26 0.41
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.19
Consensus pattern (40 bp):
TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
Found at i:10877323 original size:35 final size:34
Alignment explanation
Indices: 10877241--10877324 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 34
10877231 TGACTAAGCC
* *
10877241 ATTTGCCTAAATCATAGTTCCCCCGAAACCCTCA
1 ATTTCCCTAAATCATAGTTCCCCCAAAACCCTCA
* *
10877275 TTTTCTCCCAAATCATAGTTCCCCCAAAACCC-CAAA
1 ATTTC-CCTAAATCATAGTTCCCCCAAAACCCTC--A
10877311 ATTTCCCTAAATCA
1 ATTTCCCTAAATCA
10877325 AACCCATTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
34 4 0.10
35 32 0.78
36 5 0.12
ACGTcount: A:0.32, C:0.36, G:0.05, T:0.27
Consensus pattern (34 bp):
ATTTCCCTAAATCATAGTTCCCCCAAAACCCTCA
Found at i:10881030 original size:69 final size:67
Alignment explanation
Indices: 10880951--10881082 Score: 176
Period size: 69 Copynumber: 1.9 Consensus size: 67
10880941 TTCGAATAAG
** * *
10880951 AAAAGGCAAAACTACATTGTTTTGATAAATGTTTAC-CTTTCTAAAGTTAAAAGTCAAAACCATT
1 AAAAGGCAAAACTACATCATTTTGATAAATGTTTACTC-AT-TAAA-TTAAAAGGCAAAACCATT
10881015 AAGTT
63 AAGTT
* *
10881020 AAAAGGCAAAATTACGTCATTTTGATAAATGTTTACTCATTAAATTAAAAGGCAAAACCATTA
1 AAAAGGCAAAACTACATCATTTTGATAAATGTTTACTCATTAAATTAAAAGGCAAAACCATTA
10881083 TATTGTTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
67 18 0.32
68 4 0.07
69 33 0.59
70 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (67 bp):
AAAAGGCAAAACTACATCATTTTGATAAATGTTTACTCATTAAATTAAAAGGCAAAACCATTAAG
TT
Found at i:10889337 original size:21 final size:19
Alignment explanation
Indices: 10889304--10889345 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
10889294 CTTCGTTCTT
*
10889304 TTTCTTTTGTTTTATTTTA
1 TTTCTTTTGTTTTATATTA
10889323 TTTCTTTTATGTTTTATATTA
1 TTTC-TTT-TGTTTTATATTA
10889344 TT
1 TT
10889346 ATTATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 3 0.15
21 13 0.65
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTCTTTTGTTTTATATTA
Found at i:10895322 original size:37 final size:36
Alignment explanation
Indices: 10895302--10895374 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 36
10895292 AAATATTTAA
10895302 CATAGAACCACCAGACAGTGTACTTTAGTATCATTCT
1 CATAGAACCACCAGACAGTGTAC-TTAGTATCATTCT
* *
10895339 CATAGAACCGCCAGACAGTGTACTTTGCTATCATTC
1 CATAGAACCACCAGACAGTGTACTTAG-TATCATTC
10895375 AAAATCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 3 0.09
37 30 0.91
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (36 bp):
CATAGAACCACCAGACAGTGTACTTAGTATCATTCT
Found at i:10897392 original size:40 final size:40
Alignment explanation
Indices: 10897331--10897409 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
10897321 CAATACTTTA
* * *
10897331 TGGTGTGTAGGGTTAGATGGGTCGATTTTATCCCCATATT
1 TGGTGTGCAGGGATAGATGGGTCAATTTTATCCCCATATT
*
10897371 TGGTGTGCAGGGATAGGTGGGTCAATTTTATCCCCATAT
1 TGGTGTGCAGGGATAGATGGGTCAATTTTATCCCCATAT
10897410 GGTGTGTTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.37
Consensus pattern (40 bp):
TGGTGTGCAGGGATAGATGGGTCAATTTTATCCCCATATT
Found at i:10899242 original size:15 final size:15
Alignment explanation
Indices: 10899222--10899253 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10899212 CCGATTTTTC
10899222 ATTTCTTGATCTTTA
1 ATTTCTTGATCTTTA
10899237 ATTTCTTGATCTTTA
1 ATTTCTTGATCTTTA
10899252 AT
1 AT
10899254 CGAACTTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.59
Consensus pattern (15 bp):
ATTTCTTGATCTTTA
Found at i:10902280 original size:10 final size:10
Alignment explanation
Indices: 10902253--10902291 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
10902243 TTAAATTCTA
10902253 AAAGATAAAT
1 AAAGATAAAT
10902263 ACAA-ATAAAT
1 A-AAGATAAAT
*
10902273 AAGGATAAAT
1 AAAGATAAAT
10902283 AAAGATAAA
1 AAAGATAAA
10902292 AGCTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 1 0.04
10 22 0.88
11 2 0.08
ACGTcount: A:0.69, C:0.03, G:0.10, T:0.18
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:10904254 original size:4 final size:4
Alignment explanation
Indices: 10904238--10904298 Score: 51
Period size: 4 Copynumber: 15.8 Consensus size: 4
10904228 TATCCAAACA
10904238 AAAT AAAGT -AAT AAAT -AAT AAAAT AAAAT AAAT -AAT AAAT AAAT -AAT
1 AAAT AAA-T AAAT AAAT AAAT -AAAT -AAAT AAAT AAAT AAAT AAAT AAAT
*
10904285 AAAT TAA- AAAT AAA
1 AAAT AAAT AAAT AAA
10904299 GAAAAATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
3 12 0.25
4 27 0.56
5 9 0.19
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:10904278 original size:28 final size:28
Alignment explanation
Indices: 10904247--10904308 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
10904237 AAAATAAAGT
*
10904247 AATAAATAATAAAAT-AAAATAAATAATA
1 AATAAATAATAAAATAAAAATAAAGAA-A
*
10904275 AATAAATAATAAATTAAAAATAAAGAAA
1 AATAAATAATAAAATAAAAATAAAGAAA
10904303 AATAAA
1 AATAAA
10904309 AATTGGGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.23
Consensus pattern (28 bp):
AATAAATAATAAAATAAAAATAAAGAAA
Found at i:10904279 original size:11 final size:11
Alignment explanation
Indices: 10904238--10904308 Score: 74
Period size: 11 Copynumber: 6.3 Consensus size: 11
10904228 TATCCAAACA
10904238 AAATAAAGTAAT
1 AAATAAA-TAAT
*
10904250 AAATAATAAAAT
1 AAATAA-ATAAT
10904262 AAAATAAATAAT
1 -AAATAAATAAT
10904274 AAATAAATAAT
1 AAATAAATAAT
10904285 AAATTAAA-AAT
1 AAA-TAAATAAT
*
10904296 AAAGAAA-AAT
1 AAATAAATAAT
10904306 AAA
1 AAA
10904309 AATTGGGTTG
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
10 9 0.17
11 20 0.38
12 17 0.32
13 7 0.13
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (11 bp):
AAATAAATAAT
Found at i:10909780 original size:46 final size:46
Alignment explanation
Indices: 10909728--10909863 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
10909718 AGTGTGCTCT
*
10909728 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
10909774 CTGATATGAAATGAGCAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
10909820 ATGACA-GAAAATGAATAAAACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
10909864 TCATGCCAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 1 0.01
46 78 0.99
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:10916514 original size:4 final size:4
Alignment explanation
Indices: 10916505--10916534 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
10916495 ATACTAGTGT
10916505 TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TA
10916535 CCCATTCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:10921871 original size:20 final size:19
Alignment explanation
Indices: 10921843--10921928 Score: 66
Period size: 20 Copynumber: 4.4 Consensus size: 19
10921833 TTTTAAGAGA
*
10921843 TAATAATAATTTTAACATAT
1 TAATGATAATTTTAA-ATAT
*
10921863 TTATGATAATTTTAAATAT
1 TAATGATAATTTTAAATAT
* *
10921882 TAAATTATAATTTTAAGAGA-
1 T-AATGATAATTTTAA-ATAT
* *
10921902 TAATAATAAATTTAATATAT
1 TAATGATAATTTTAA-ATAT
*
10921922 TTATGAT
1 TAATGAT
10921929 TTTAATAATT
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
19 19 0.37
20 31 0.60
21 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.47
Consensus pattern (19 bp):
TAATGATAATTTTAAATAT
Found at i:10923880 original size:12 final size:12
Alignment explanation
Indices: 10923863--10923887 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10923853 CTCCAGCATT
10923863 CAACAATGGTAA
1 CAACAATGGTAA
10923875 CAACAATGGTAA
1 CAACAATGGTAA
10923887 C
1 C
10923888 TTTATGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (12 bp):
CAACAATGGTAA
Found at i:10924575 original size:19 final size:20
Alignment explanation
Indices: 10924534--10924575 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
10924524 TTTATGTGTT
**
10924534 GTGAGTGTTGAAAAAAATTA
1 GTGAGTGTTGAAAAAAAAAA
10924554 GTGAGT-TTGAAAAAAAAAA
1 GTGAGTGTTGAAAAAAAAAA
10924573 GTG
1 GTG
10924576 TTGTGAGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (20 bp):
GTGAGTGTTGAAAAAAAAAA
Found at i:10929144 original size:35 final size:35
Alignment explanation
Indices: 10929105--10929174 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
10929095 ATATACTTAA
10929105 GGGATAAGTAATCATTAAGGTAACTAGACTATGTC
1 GGGATAAGTAATCATTAAGGTAACTAGACTATGTC
10929140 GGGATAAGTAATCATTAAGGTAACTAGACTATGTC
1 GGGATAAGTAATCATTAAGGTAACTAGACTATGTC
10929175 TATATATATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (35 bp):
GGGATAAGTAATCATTAAGGTAACTAGACTATGTC
Found at i:10931582 original size:19 final size:19
Alignment explanation
Indices: 10931541--10931589 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
10931531 TAAGACAAAA
10931541 AAAT-TTAAATATCAAATC
1 AAATATTAAATATCAAATC
*
10931559 GAATATTAAA-ATCAAACTC
1 AAATATTAAATATCAAA-TC
*
10931578 AAATACTAAATA
1 AAATATTAAATA
10931590 GTATATTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 9 0.36
19 15 0.60
20 1 0.04
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (19 bp):
AAATATTAAATATCAAATC
Found at i:10935254 original size:23 final size:23
Alignment explanation
Indices: 10935228--10935273 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10935218 AAATTTAAAT
*
10935228 TTTGAGTTAATCGAATCAAGTTA
1 TTTGAATTAATCGAATCAAGTTA
* * *
10935251 TTTGAATTATTCGATTCGAGTTA
1 TTTGAATTAATCGAATCAAGTTA
10935274 AATTTTACGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.43
Consensus pattern (23 bp):
TTTGAATTAATCGAATCAAGTTA
Found at i:10943385 original size:23 final size:23
Alignment explanation
Indices: 10943352--10943399 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
10943342 AGATAGCCAT
* *
10943352 ATATCGAAAAGTTCAAGCGAGCC
1 ATATCGAAAAGCTCAAGAGAGCC
* *
10943375 ATATCGGAAAGCTCCAGAGAGCC
1 ATATCGAAAAGCTCAAGAGAGCC
10943398 AT
1 AT
10943400 TAATTAGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (23 bp):
ATATCGAAAAGCTCAAGAGAGCC
Found at i:10948188 original size:25 final size:24
Alignment explanation
Indices: 10948142--10948189 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
10948132 AAATGATTAA
* * *
10948142 AAATAGATTTCAAAAGAGAACATC
1 AAATAGAGTTCAAAACAAAACATC
10948166 AAATAGCAGTTCAAAACAAAACAT
1 AAATAG-AGTTCAAAACAAAACAT
10948190 ACTTACAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.56, C:0.15, G:0.10, T:0.19
Consensus pattern (24 bp):
AAATAGAGTTCAAAACAAAACATC
Found at i:10951974 original size:27 final size:28
Alignment explanation
Indices: 10951939--10951994 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
10951929 TGGCTGCTAG
10951939 AACAGATA-TTGTGACAGAGCCACCAGA
1 AACAGATATTTGTGACAGAGCCACCAGA
*
10951966 AACAGATATTTGTGGCAGAGCCACCAGA
1 AACAGATATTTGTGACAGAGCCACCAGA
10951994 A
1 A
10951995 TGCTTCCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (28 bp):
AACAGATATTTGTGACAGAGCCACCAGA
Found at i:10967653 original size:45 final size:45
Alignment explanation
Indices: 10967603--10967692 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
10967593 TAATTTGTTG
*
10967603 TAAATGAGCAAGGTCAAAGGGTT-AAATTTTTTGAAAGAATTTTGT
1 TAAATGAGCAAGGTCAAAGAGTTAAAATTTTTT-AAAGAATTTTGT
* *
10967648 TAAATGAGCAAGGTGACAGAGTTAAAATTTTTTAAAGAATTTTGT
1 TAAATGAGCAAGGTCAAAGAGTTAAAATTTTTTAAAGAATTTTGT
10967693 ATGATCAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 32 0.78
46 9 0.22
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.36
Consensus pattern (45 bp):
TAAATGAGCAAGGTCAAAGAGTTAAAATTTTTTAAAGAATTTTGT
Found at i:10967870 original size:20 final size:20
Alignment explanation
Indices: 10967832--10967870 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
10967822 TTATTTATTT
10967832 AATTAAATAATAATCTAAAGA
1 AATTAAATAAT-ATCTAAAGA
10967853 AATTAAATTAAT-TCTAAA
1 AATTAAA-TAATATCTAAA
10967871 TTATCTCGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
AATTAAATAATATCTAAAGA
Found at i:10970870 original size:223 final size:224
Alignment explanation
Indices: 10970477--10970890 Score: 584
Period size: 223 Copynumber: 1.9 Consensus size: 224
10970467 AGAAAAAAAA
* * ***
10970477 GGCTTTTTTACTAAATTGACTCAAAAAAATTTTATATTTATAAAAATGATTTAGGTTCAAAAACA
1 GGCTATTTTACTAAATTGACTCAAAAAAATTTTATATTTACAAAAATGACCCAGGTTCAAAAACA
* * * * * *
10970542 ATCACTAAAATTACCTGAAATAAATAGTAGAATAGGGTTTTAGCTTGTCAATGACCGGCACCAAT
66 ATCACCAAAATGACCTGAAATAAACAGTAGAATAGGGTTTTAGCCTGTCAATGACCAGCACCAAC
* * *
10970607 TCGTATTTTGGACCTCTGATTGTCTGATAATTGTGTCAGGCTTT-AAAAATTGTTTTTTTTTTGC
131 TCGTATTTTGGACCTCTGATTGCCTGATAACTGTGTCAGGCTTTAAAAAATTGATTTTTTTTTGC
10970671 TGTCAATGGCCGACATCAGGGTATTTTTT
196 TGTCAATGGCCGACATCAGGGTATTTTTT
* *
10970700 GGCTATTTTACTAAATTGAC-CCAAAAAATTTTGATATTTACAAAAATTACCCAGGTTCAAAAAC
1 GGCTATTTTACTAAATTGACTCAAAAAAATTTT-ATATTTACAAAAATGACCCAGGTTCAAAAAC
* * * * *
10970764 AATCACCAGAATGACCTGAAATGAACAGTAGAATGGGGTTTTGGCCTGT-AAGTGGCCAGCACCA
65 AATCACCAAAATGACCTGAAATAAACAGTAGAATAGGGTTTTAGCCTGTCAA-TGACCAGCACCA
10970828 ACTCGTATTTTGGACC-CATGATTGCCTGATAACTGTGTCAGGCTTTAAAAAATTGATTTTTTT
129 ACTCGTATTTTGGACCTC-TGATTGCCTGATAACTGTGTCAGGCTTTAAAAAATTGATTTTTTT
10970891 GGTTCTGGCC
Statistics
Matches: 166, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
222 14 0.08
223 137 0.83
224 15 0.09
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (224 bp):
GGCTATTTTACTAAATTGACTCAAAAAAATTTTATATTTACAAAAATGACCCAGGTTCAAAAACA
ATCACCAAAATGACCTGAAATAAACAGTAGAATAGGGTTTTAGCCTGTCAATGACCAGCACCAAC
TCGTATTTTGGACCTCTGATTGCCTGATAACTGTGTCAGGCTTTAAAAAATTGATTTTTTTTTGC
TGTCAATGGCCGACATCAGGGTATTTTTT
Found at i:10971049 original size:54 final size:53
Alignment explanation
Indices: 10970960--10971167 Score: 246
Period size: 54 Copynumber: 4.0 Consensus size: 53
10970950 GGTATACAAA
* * * *
10970960 AATACCAGTATTT-AAAAAAAATTGGTTCTGCCCTGTCAATGGCCGGCACCAG
1 AATACGAGTTTTTAAAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCAG
* * *
10971012 AATACGTGTTTTTAAAAAAAAAATTGGTACTGGCCTGTCAATGGCCGGCACCA-
1 AATACGAGTTTTT-AAAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCAG
* * * *
10971065 AAGTACAAG-TTTT-AAAAAAAATTGGTTCTGGCCTATCAATTGCTGGAACCAG
1 AA-TACGAGTTTTTAAAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCAG
* *
10971117 AGTACGAGTTTTTAAAAAAAAATT-GTGCTGGCCTATCAATGGCCGGCACCA
1 AATACGAGTTTTTAAAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCA
10971168 AGTAAAAAAA
Statistics
Matches: 132, Mismatches: 18, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
51 38 0.29
52 38 0.29
53 16 0.12
54 40 0.30
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (53 bp):
AATACGAGTTTTTAAAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCAG
Found at i:10971085 original size:105 final size:103
Alignment explanation
Indices: 10970970--10971168 Score: 299
Period size: 105 Copynumber: 1.9 Consensus size: 103
10970960 AATACCAGTA
* * *
10970970 TTTAAAAAAAATTGGTTCTGCCCTGTCAATGGCCGGCACCAGAATACGTGTTTTTAAAAAAAAAA
1 TTTAAAAAAAATTGGTTCTGCCCTATCAATGGCCGGAACCAGAATACGAGTTTTT-AAAAAAAAA
*
10971035 TTGGTACTGGCCTGTCAATGGCCGGCACCAAAGTACAAGT
65 TT-GTACTGGCCTATCAATGGCCGGCACCAAAGTACAAGT
* * * *
10971075 TTTAAAAAAAATTGGTTCTGGCCTATCAATTGCTGGAACCAGAGTACGAGTTTTTAAAAAAAAAT
1 TTTAAAAAAAATTGGTTCTGCCCTATCAATGGCCGGAACCAGAATACGAGTTTTTAAAAAAAAAT
*
10971140 TGTGCTGGCCTATCAATGGCCGGCACCAA
66 TGTACTGGCCTATCAATGGCCGGCACCAA
10971169 GTAAAAAAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
103 26 0.31
104 11 0.13
105 48 0.56
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (103 bp):
TTTAAAAAAAATTGGTTCTGCCCTATCAATGGCCGGAACCAGAATACGAGTTTTTAAAAAAAAAT
TGTACTGGCCTATCAATGGCCGGCACCAAAGTACAAGT
Found at i:10971104 original size:51 final size:53
Alignment explanation
Indices: 10970973--10971168 Score: 247
Period size: 51 Copynumber: 3.7 Consensus size: 53
10970963 ACCAGTATTT
* * *
10970973 AAAAAAAATTGGTTCTGCCCTGTCAATGGCCGGCACCAGAA-TACGTGTTTTTAA
1 AAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCA-AAGTACGAGTTTTT-A
* * *
10971027 AAAAAAAATTGGTACTGGCCTGTCAATGGCCGGCACCAAAGTACAAG-TTTT-
1 AAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCAAAGTACGAGTTTTTA
* * * *
10971078 AAAAAAAATTGGTTCTGGCCTATCAATTGCTGGAACCAGAGTACGAGTTTTTA
1 AAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCAAAGTACGAGTTTTTA
*
10971131 AAAAAAAATT-GTGCTGGCCTATCAATGGCCGGCACCAA
1 AAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCAA
10971169 GTAAAAAAAA
Statistics
Matches: 123, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
51 40 0.33
52 27 0.22
53 16 0.13
54 40 0.33
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (53 bp):
AAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCAAAGTACGAGTTTTTA
Found at i:10971376 original size:11 final size:11
Alignment explanation
Indices: 10971353--10971451 Score: 89
Period size: 11 Copynumber: 9.3 Consensus size: 11
10971343 AATTTTCTTT
10971353 TTTCATTTT--
1 TTTCATTTTCA
10971362 TTTCATTTTCA
1 TTTCATTTTCA
*
10971373 TTTCATTTTAA
1 TTTCATTTTCA
*
10971384 TTTTA-TTTCA
1 TTTCATTTTCA
* *
10971394 TTCCAATTTCA
1 TTTCATTTTCA
*
10971405 TTTCATTTTAA
1 TTTCATTTTCA
*
10971416 TTTCATTTCCA
1 TTTCATTTTCA
* *
10971427 TTCCTATTTCCA
1 TTTC-ATTTTCA
10971439 TTTCA-TTTCA
1 TTTCATTTTCA
10971449 TTT
1 TTT
10971452 AAATTATACT
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
9 9 0.12
10 14 0.19
11 40 0.55
12 10 0.14
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTCATTTTCA
Found at i:10971378 original size:5 final size:5
Alignment explanation
Indices: 10971353--10971451 Score: 74
Period size: 5 Copynumber: 18.6 Consensus size: 5
10971343 AATTTTCTTT
* * * *
10971353 TTTCA TTT-T TTTCA TTTTCA TTTCA TTTTAA TTTTA TTTCA TTCCAA
1 TTTCA TTTCA TTTCA -TTTCA TTTCA -TTTCA TTTCA TTTCA TTTC-A
* *
10971400 TTTCA TTTCA TTTTAA TTTCA TTTCCA TTCCTA TTTCCA TTTCA TTTCA
1 TTTCA TTTCA -TTTCA TTTCA TTT-CA TTTC-A TTT-CA TTTCA TTTCA
10971449 TTT
1 TTT
10971452 AAATTATACT
Statistics
Matches: 75, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
4 3 0.04
5 43 0.57
6 28 0.37
7 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTCA
Found at i:10971393 original size:16 final size:16
Alignment explanation
Indices: 10971368--10971446 Score: 88
Period size: 16 Copynumber: 4.8 Consensus size: 16
10971358 TTTTTTTCAT
10971368 TTTCATTTCATTTTAA
1 TTTCATTTCATTTTAA
* **
10971384 TTTTATTTCATTCCAA
1 TTTCATTTCATTTTAA
10971400 TTTCATTTCATTTTAA
1 TTTCATTTCATTTTAA
*
10971416 TTTCATTTCCATTCCT-A
1 TTTCATTT-CATT-TTAA
10971433 TTTCCATTTCATTT
1 TTT-CATTTCATTT
10971447 CATTTAAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
16 34 0.65
17 12 0.23
18 6 0.12
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTCATTTCATTTTAA
Found at i:10971485 original size:21 final size:20
Alignment explanation
Indices: 10971444--10971486 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
10971434 TTCCATTTCA
*
10971444 TTTCATTTAAATTATACTTT
1 TTTCAATTAAATTATACTTT
*
10971464 TTTCAATTAAATT-TATTTT
1 TTTCAATTAAATTATACTTT
10971483 TTTC
1 TTTC
10971487 TCAATTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTCAATTAAATTATACTTT
Found at i:10971516 original size:6 final size:6
Alignment explanation
Indices: 10971505--10971532 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
10971495 TTTATATTAT
10971505 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
10971533 TTTCCTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:10971580 original size:49 final size:47
Alignment explanation
Indices: 10971441--10971584 Score: 143
Period size: 49 Copynumber: 3.0 Consensus size: 47
10971431 TATTTCCATT
*
10971441 TCATTTCATTTAAATTATACT-TTTTTCAATTAAATTT-ATTTTTTTC
1 TCATTTCATTTAAATT-TTCTATTTTTCAATTAAATTTAATTTTTTTC
* * *
10971487 TCAATTCATTTATATTATTTT-TAATTTT-AATTTTAATTTTAATTTTTTTCC
1 TCATTTCATTTA-A--ATTTTCTATTTTTCAA--TTAAATTTAATTTTTTT-C
*
10971538 TCATTTCATTTAAATTTTCTATTTTTCAATGCAAATTTAATTTTTTT
1 TCATTTCATTTAAATTTTCTATTTTTCAAT-TAAATTTAATTTTTTT
10971585 TAAATACTGA
Statistics
Matches: 79, Mismatches: 8, Indels: 19
0.75 0.08 0.18
Matches are distributed among these distances:
46 11 0.14
47 4 0.05
48 11 0.14
49 30 0.38
50 11 0.14
51 12 0.15
ACGTcount: A:0.28, C:0.10, G:0.01, T:0.62
Consensus pattern (47 bp):
TCATTTCATTTAAATTTTCTATTTTTCAATTAAATTTAATTTTTTTC
Found at i:10971783 original size:53 final size:54
Alignment explanation
Indices: 10971648--10971773 Score: 184
Period size: 53 Copynumber: 2.3 Consensus size: 54
10971638 CATACTCTTT
* *
10971648 TGCCGGCCATTGACAGGCCAATACC-AAAAAATTTGATTTTTTTTTTTGCACTTGG
1 TGCCGGCCATTGACAGGCCAACACCAAAAAAATTTGA--TTTTTTTTCGCACTTGG
*
10971703 TGCCGGCCATTGACAGGCCAACACCAAAAAAATTTGA-TTTTTTTCGTACTTGG
1 TGCCGGCCATTGACAGGCCAACACCAAAAAAATTTGATTTTTTTTCGCACTTGG
*
10971756 TGCCGGCCATTAACAGGC
1 TGCCGGCCATTGACAGGC
10971774 GAGAACCAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
53 31 0.47
55 24 0.36
56 11 0.17
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (54 bp):
TGCCGGCCATTGACAGGCCAACACCAAAAAAATTTGATTTTTTTTCGCACTTGG
Found at i:10974122 original size:37 final size:37
Alignment explanation
Indices: 10973968--10974121 Score: 228
Period size: 37 Copynumber: 4.3 Consensus size: 37
10973958 TAAATTGTTG
*
10973968 GTGTGGAGATTATGTCCGGGTAAGACCCAATGACTAC
1 GTGTGGAGATTATGTCCGGGTAAGACCCGATGACTAC
10974005 GTGTGGAGATTATGTCCGGGTAAGACCCGATGACTAC
1 GTGTGGAGATTATGTCCGGGTAAGACCCGATGACTAC
*
10974042 GTGTGGAGAGTATGTCC-GG---G-CCCGATGACTAC
1 GTGTGGAGATTATGTCCGGGTAAGACCCGATGACTAC
* * *
10974074 GTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTTC
1 GTGTGGAGATTATGTCCGGGTAAGACCCGATGACTAC
10974111 GTGTGGAGATT
1 GTGTGGAGATT
10974122 TCGTCTGAGC
Statistics
Matches: 106, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
32 27 0.25
33 3 0.03
36 3 0.03
37 73 0.69
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
GTGTGGAGATTATGTCCGGGTAAGACCCGATGACTAC
Found at i:10975048 original size:17 final size:17
Alignment explanation
Indices: 10975024--10975059 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
10975014 CAAGGTTTCT
*
10975024 TTTTTTTTTTCA-TTTA
1 TTTTCTTTTTCATTTTA
10975040 TTTTCTTTTTCATTTTA
1 TTTTCTTTTTCATTTTA
10975057 TTT
1 TTT
10975060 CATTCTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCTTTTTCATTTTA
Found at i:10975086 original size:6 final size:5
Alignment explanation
Indices: 10975047--10975108 Score: 70
Period size: 5 Copynumber: 11.6 Consensus size: 5
10975037 TTATTTTCTT
* *
10975047 TTTCA TTTTA TTTCA TTCTAA TTTCA TTTCCA TTCTCA TTTCCA TTTCA
1 TTTCA TTTCA TTTCA TT-TCA TTTCA TTT-CA TT-TCA TTT-CA TTTCA
10975096 TTTCA TTTCA TTT
1 TTTCA TTTCA TTT
10975109 AAATTATATT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
5 31 0.63
6 17 0.35
7 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:10975087 original size:12 final size:11
Alignment explanation
Indices: 10975067--10975108 Score: 68
Period size: 12 Copynumber: 3.8 Consensus size: 11
10975057 TTTCATTCTA
10975067 ATTTCATTTCC
1 ATTTCATTTCC
10975078 ATTCTCATTTCC
1 ATT-TCATTTCC
10975090 ATTTCATTT-C
1 ATTTCATTTCC
10975100 ATTTCATTT
1 ATTTCATTT
10975109 AAATTATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.33
11 9 0.30
12 11 0.37
ACGTcount: A:0.19, C:0.24, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTTCATTTCC
Found at i:10975093 original size:23 final size:21
Alignment explanation
Indices: 10975047--10975108 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
10975037 TTATTTTCTT
* *
10975047 TTTCATTTTATTTCA-TTCTAA
1 TTTCATTTCATTTCATTTC-CA
10975068 TTTCATTTCCATTCTCATTTCCA
1 TTTCATTT-CATT-TCATTTCCA
10975091 TTTCATTTCATTTCATTT
1 TTTCATTTCATTTCATTT
10975109 AAATTATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
21 14 0.39
22 7 0.19
23 12 0.33
24 3 0.08
ACGTcount: A:0.19, C:0.21, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTCATTTCATTTCATTTCCA
Found at i:10975137 original size:19 final size:19
Alignment explanation
Indices: 10975101--10975141 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
10975091 TTTCATTTCA
10975101 TTTCATTTAAATTATATTT
1 TTTCATTTAAATTATATTT
10975120 TTTCAATTTAAATT-TATTT
1 TTTC-ATTTAAATTATATTT
10975139 TTT
1 TTT
10975142 TCTCAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTCATTTAAATTATATTT
Found at i:10975142 original size:20 final size:20
Alignment explanation
Indices: 10975101--10975183 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 20
10975091 TTTCATTTCA
10975101 TTTC-ATTTAAA-TTATATTT
1 TTTCAATTTAAATTTAT-TTT
10975120 TTTCAATTTAAATTTATTTTT
1 TTTCAATTTAAATTTA-TTTT
* *
10975141 TTCTCAA-TTCATTTATATTATT
1 TT-TCAATTTAAATT-TATT-TT
*
10975163 TTTAAATTTAAATTTAATTTT
1 TTTCAATTTAAATTT-ATTTT
10975184 GTCCTCATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
19 4 0.08
20 7 0.14
21 21 0.41
22 19 0.37
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTCAATTTAAATTTATTTT
Found at i:10975888 original size:52 final size:51
Alignment explanation
Indices: 10975705--10975950 Score: 280
Period size: 51 Copynumber: 4.8 Consensus size: 51
10975695 AATATCAGTA
* * * *
10975705 TTTAAAAAAAATTGGT-TCTGACCTGTCAATGGCTGGCACCAGAGTACGAGT
1 TTTAAAAAAAATTGGTGT-TGGCCTGTCAATGGCCGGCACCAAAGTACAAGT
** * * * *
10975756 TTTAAAAAAAAAAGGTGTTGGCTTGTTAATGGCTGGCACCAAAGTACATGT
1 TTTAAAAAAAATTGGTGTTGGCCTGTCAATGGCCGGCACCAAAGTACAAGT
* **
10975807 TTTAAAAAAAAATGGTACTGGCCTGTCAATGGCCGGCACCAAAGTACAAGT
1 TTTAAAAAAAATTGGTGTTGGCCTGTCAATGGCCGGCACCAAAGTACAAGT
* * * * * *
10975858 TTTAAAAAAATTTTGGTGTTGGCCTATCAATTGTCGGCACCAGAGTACGAGT
1 TTTAAAAAAA-ATTGGTGTTGGCCTGTCAATGGCCGGCACCAAAGTACAAGT
*
10975910 TTTAAAAAAAATT-GTGCTGGCCTGTCAATGGCCGGCACCAA
1 TTTAAAAAAAATTGGTGTTGGCCTGTCAATGGCCGGCACCAA
10975951 GTAAAAAAAA
Statistics
Matches: 163, Mismatches: 30, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
50 23 0.14
51 97 0.60
52 43 0.26
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (51 bp):
TTTAAAAAAAATTGGTGTTGGCCTGTCAATGGCCGGCACCAAAGTACAAGT
Found at i:10976145 original size:11 final size:11
Alignment explanation
Indices: 10976131--10976215 Score: 66
Period size: 11 Copynumber: 7.8 Consensus size: 11
10976121 CAAGATTTTT
10976131 TTTTCATTTCA
1 TTTTCATTTCA
* *
10976142 TTTTAATTTTA
1 TTTTCATTTCA
*
10976153 -TTTCATTCCA
1 TTTTCATTTCA
*
10976163 ATTTCATTTCA
1 TTTTCATTTCA
* *
10976174 TTCTAATTTCA
1 TTTTCATTTCA
* *
10976185 TTTCCATTCTTA
1 TTTTCATT-TCA
*
10976197 TTTCCATTTCA
1 TTTTCATTTCA
10976208 -TTTCATTT
1 TTTTCATTT
10976216 AAATTATATT
Statistics
Matches: 57, Mismatches: 15, Indels: 5
0.74 0.19 0.06
Matches are distributed among these distances:
10 14 0.25
11 33 0.58
12 10 0.18
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTCATTTCA
Found at i:10976155 original size:16 final size:16
Alignment explanation
Indices: 10976132--10976210 Score: 88
Period size: 16 Copynumber: 4.8 Consensus size: 16
10976122 AAGATTTTTT
10976132 TTTCATTTCATTTTAA
1 TTTCATTTCATTTTAA
* **
10976148 TTTTATTTCATTCCAA
1 TTTCATTTCATTTTAA
*
10976164 TTTCATTTCATTCTAA
1 TTTCATTTCATTTTAA
10976180 TTTCATTTCCATTCTT-A
1 TTTCATTT-CATT-TTAA
10976197 TTTCCATTTCATTT
1 TTT-CATTTCATTT
10976211 CATTTAAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
16 36 0.67
17 12 0.22
18 6 0.11
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTCATTTCATTTTAA
Found at i:10976205 original size:6 final size:5
Alignment explanation
Indices: 10976132--10976215 Score: 69
Period size: 5 Copynumber: 15.6 Consensus size: 5
10976122 AAGATTTTTT
* * * *
10976132 TTTCA TTTCA TTTTAA TTTTA TTTCA TTCCAA TTTCA TTTCA TTCTAA
1 TTTCA TTTCA -TTTCA TTTCA TTTCA TTTC-A TTTCA TTTCA TT-TCA
*
10976180 TTTCA TTTCCA TTCTTA TTTCCA TTTCA TTTCA TTT
1 TTTCA TTT-CA TT-TCA TTT-CA TTTCA TTTCA TTT
10976216 AAATTATATT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
5 40 0.62
6 23 0.36
7 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:10976243 original size:21 final size:21
Alignment explanation
Indices: 10976208--10976292 Score: 88
Period size: 20 Copynumber: 4.1 Consensus size: 21
10976198 TTCCATTTCA
*
10976208 TTTCATTTAAA-TTATATTTT
1 TTTCAATTAAATTTATATTTT
10976228 TTTCAATTAAATTTAT-TTTT
1 TTTCAATTAAATTTATATTTT
*
10976248 TTCTCAATT-CATTTATATTATT
1 TT-TCAATTAAATTTATATT-TT
*
10976270 TTTAAATTTAAATTTA-ATTTT
1 TTTCAA-TTAAATTTATATTTT
10976291 TT
1 TT
10976293 CCTCATTTCA
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
20 22 0.40
21 19 0.35
22 9 0.16
23 5 0.09
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTCAATTAAATTTATATTTT
Found at i:10976291 original size:43 final size:42
Alignment explanation
Indices: 10976219--10976312 Score: 127
Period size: 44 Copynumber: 2.2 Consensus size: 42
10976209 TTCATTTAAA
* *
10976219 TTATATTTTTTTCAATTAAATTT-ATTTTTTTCTCAATTCAT
1 TTATATTTTTTTAAATTAAATTTAATTTTTTCCTCAATTCAT
*
10976260 TTATATTATTTTTAAATTTAAATTTAATTTTTTCCTCATTTCAT
1 TTATATT-TTTTTAAA-TTAAATTTAATTTTTTCCTCAATTCAT
*
10976304 TTAAATTTT
1 TTATATTTT
10976313 CTATTTTTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 7 0.15
42 7 0.15
43 10 0.22
44 22 0.48
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (42 bp):
TTATATTTTTTTAAATTAAATTTAATTTTTTCCTCAATTCAT
Found at i:10976390 original size:52 final size:53
Alignment explanation
Indices: 10976327--10976483 Score: 199
Period size: 53 Copynumber: 3.0 Consensus size: 53
10976317 TTTTCAACGC
* * * *
10976327 AAATTTAATTTTTTAAATAC-TGGTGCCGGCCATTAACAGGCCAGCACCAAAA
1 AAATTTGATTTTTTTAGTACTTGGTGCCGGCCATTGACAGGCCAGCACCAAAA
* * * *
10976379 AAATTTGATTTTTTTTGTACTTGGTGCCTGCCATTGATAGGCCAACACCAAAA
1 AAATTTGATTTTTTTAGTACTTGGTGCCGGCCATTGACAGGCCAGCACCAAAA
* * * *
10976432 AAATTTGATTTTTTTCGTGCTTGGTGCCGGCCATTGGCACGCCAGCACCAAA
1 AAATTTGATTTTTTTAGTACTTGGTGCCGGCCATTGACAGGCCAGCACCAAA
10976484 TTTTTTTTAA
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
52 16 0.18
53 73 0.82
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (53 bp):
AAATTTGATTTTTTTAGTACTTGGTGCCGGCCATTGACAGGCCAGCACCAAAA
Found at i:10976406 original size:53 final size:53
Alignment explanation
Indices: 10976347--10976483 Score: 202
Period size: 53 Copynumber: 2.6 Consensus size: 53
10976337 TTTTAAATAC
* *
10976347 TGGTGCCGGCCATTAACAGGCCAGCACCAAAAAAATTTGATTTTTTTTGTACT
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTGATTTTTTTCGTACT
* * * *
10976400 TGGTGCCTGCCATTGATAGGCCAACACCAAAAAAATTTGATTTTTTTCGTGCT
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTGATTTTTTTCGTACT
* *
10976453 TGGTGCCGGCCATTGGCACGCCAGCACCAAA
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAA
10976484 TTTTTTTTAA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 73 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (53 bp):
TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTGATTTTTTTCGTACT
Found at i:10976999 original size:52 final size:53
Alignment explanation
Indices: 10976932--10977035 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 53
10976922 AATCAATTTT
* * **
10976932 TTTGGTGCTAGCCTGTTAATGGTC-GATACCAGAGTATGAGT-TTTAAAAAAAA
1 TTTGGTGCTAGCCTGTCAATGGCCAG-TACCAGAGTACCAGTATTTAAAAAAAA
* *
10976984 TTTGTTGCTGGCCTGTCAATGGCCAGTACCAGAGTACCAGTATTTAAAAAAA
1 TTTGGTGCTAGCCTGTCAATGGCCAGTACCAGAGTACCAGTATTTAAAAAAA
10977036 TTAAATTTGC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
52 33 0.75
53 11 0.25
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (53 bp):
TTTGGTGCTAGCCTGTCAATGGCCAGTACCAGAGTACCAGTATTTAAAAAAAA
Found at i:10977090 original size:22 final size:21
Alignment explanation
Indices: 10977058--10977148 Score: 62
Period size: 22 Copynumber: 4.2 Consensus size: 21
10977048 TGAAAAATAG
*
10977058 AAAATTTAAATGAATTGAGGAA
1 AAAATTAAAATGAATTGA-GAA
* *
10977080 AAAATTAAAATTAAATTTA-AA
1 AAAATTAAAA-TGAATTGAGAA
10977101 AATAA-TATAAATGAATTGAGAA
1 AA-AATTA-AAATGAATTGAGAA
* * *
10977123 AAAAATAAATTTAAATTGA-AA
1 AAAATTAAA-ATGAATTGAGAA
10977144 AAAAT
1 AAAAT
10977149 ATATAATTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
21 22 0.40
22 27 0.49
23 6 0.11
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (21 bp):
AAAATTAAAATGAATTGAGAA
Found at i:10977161 original size:49 final size:47
Alignment explanation
Indices: 10977029--10977164 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 47
10977019 ACCAGTATTT
** *
10977029 AAAAAAATTAAATTTGCATTGAAAAATAGAAAATTTAAATGAATTGAGG
1 AAAAAAA-TAAATTTAAATTGAAAAATA-ATAATTTAAATGAATTGAGG
* * *
10977078 AAAAAATTAAAATTAAATTTAAAAATAAT-A--TAAATGAATTGA-G
1 AAAAAAATAAATTTAAATTGAAAAATAATAATTTAAATGAATTGAGG
10977121 AAAAAAATAAATTTAAATTGAAAAAAATATATAATTTAAATGAA
1 AAAAAAATAAATTTAAATTG--AAAAATA-ATAATTTAAATGAA
10977165 ATGAAATGGG
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
43 18 0.25
44 12 0.17
45 7 0.10
46 3 0.04
47 2 0.03
48 16 0.22
49 14 0.19
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.29
Consensus pattern (47 bp):
AAAAAAATAAATTTAAATTGAAAAATAATAATTTAAATGAATTGAGG
Found at i:10977164 original size:22 final size:22
Alignment explanation
Indices: 10977098--10977165 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
10977088 AATTAAATTT
* * *
10977098 AAAAATAATATAAATGAATTGAGA
1 AAAAAT-ATATAATTTAAATGA-A
10977122 AAAAA-ATA-AATTTAAATTGAA
1 AAAAATATATAATTTAAA-TGAA
10977143 AAAAATATATAATTTAAATGAA
1 AAAAATATATAATTTAAATGAA
10977165 A
1 A
10977166 TGAAATGGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 11 0.29
22 14 0.37
23 8 0.21
24 5 0.13
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (22 bp):
AAAAATATATAATTTAAATGAA
Found at i:10977184 original size:6 final size:5
Alignment explanation
Indices: 10977158--10977241 Score: 60
Period size: 5 Copynumber: 15.6 Consensus size: 5
10977148 TATATAATTT
* * *
10977158 AAATG AAATG AAATGG GAATGG AAATGG AAATG AAATT AGAATG AAATA
1 AAATG AAATG AAAT-G AAAT-G AAAT-G AAATG AAATG A-AATG AAATG
* **
10977207 AAATTA AAATG AAATG AAAATG AAAAA AAATG AAA
1 AAA-TG AAATG AAATG -AAATG AAATG AAATG AAA
10977242 AAAGAAAAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
5 36 0.55
6 29 0.45
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (5 bp):
AAATG
Found at i:10977210 original size:16 final size:16
Alignment explanation
Indices: 10977180--10977232 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
10977170 ATGGGAATGG
*
10977180 AAATGGAAATGAAATTA
1 AAAT-GAAATAAAATTA
*
10977197 GAATGAAATAAAATTA
1 AAATGAAATAAAATTA
*
10977213 AAATGAAATGAAAATGA
1 AAATGAAAT-AAAATTA
10977230 AAA
1 AAA
10977233 AAAATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 19 0.61
17 12 0.39
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATGAAATAAAATTA
Found at i:10977217 original size:27 final size:27
Alignment explanation
Indices: 10977180--10977242 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
10977170 ATGGGAATGG
* * * *
10977180 AAATGGAAATGAAATTAGAATGAAATA
1 AAATGAAAATGAAATGAAAATGAAAAA
*
10977207 AAATTAAAATGAAATGAAAATGAAAAA
1 AAATGAAAATGAAATGAAAATGAAAAA
10977234 AAATGAAAA
1 AAATGAAAA
10977243 AAGAAAAAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (27 bp):
AAATGAAAATGAAATGAAAATGAAAAA
Found at i:10977242 original size:6 final size:6
Alignment explanation
Indices: 10977158--10977242 Score: 51
Period size: 6 Copynumber: 15.5 Consensus size: 6
10977148 TATATAATTT
* * * * * *
10977158 AAATG- AAATG- AAATGG GAATGG AAATGG AAATG- AAATTA GAATG-
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA
*
10977202 AAAT-A AAATTA AAATG- AAATGA AAATGA AAA--A AAATGA AAA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAA
10977243 AAGAAAAAGA
Statistics
Matches: 66, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
4 4 0.06
5 26 0.39
6 36 0.55
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (6 bp):
AAATGA
Found at i:10980682 original size:59 final size:57
Alignment explanation
Indices: 10980617--10980773 Score: 153
Period size: 59 Copynumber: 2.8 Consensus size: 57
10980607 GAATAGATCA
10980617 AATGCAAAGAGTTTGAGTATGTGTTGCTAGGACTTGTGAACAAGTGTTAGAAAAAAATG
1 AATGCAAAGAGTTTGAGTATGTGTTGCTAGGACTTG-GAACAAGTGTTAGAAAAAAA-G
* ** * * *
10980676 AGTGCAAAGAGTTTGAGCCTGTGTTACTA-G----GGAACAAGTGTTAGAATAGAAG
1 AATGCAAAGAGTTTGAGTATGTGTTGCTAGGACTTGGAACAAGTGTTAGAAAAAAAG
* * * * *
10980728 AATGCATAGGGTTTGAGTACGAGTTGCTTGGACTTGGGAACAAGTG
1 AATGCAAAGAGTTTGAGTATGTGTTGCTAGGACTT-GGAACAAGTG
10980774 CTATATAGGG
Statistics
Matches: 77, Mismatches: 15, Indels: 13
0.73 0.14 0.12
Matches are distributed among these distances:
52 21 0.27
53 19 0.25
54 1 0.01
58 11 0.14
59 25 0.32
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (57 bp):
AATGCAAAGAGTTTGAGTATGTGTTGCTAGGACTTGGAACAAGTGTTAGAAAAAAAG
Found at i:10988400 original size:107 final size:107
Alignment explanation
Indices: 10988266--10988478 Score: 336
Period size: 107 Copynumber: 2.0 Consensus size: 107
10988256 GCATATAACA
* * * *
10988266 CATCTAAGGTTTACTAAGGGGAAAAAATATTAGCAATTTCATATTTCCATTGCATGGGGCCTCAT
1 CATCTAAGGTTCACTAAGGGGAAAAAATATGAGCAATTTCATATTTCCATTACATGAGGCCTCAT
*
10988331 AACATATGAATCCATATTTCAGAGCAAACTTTCATGCTCAAT
66 AACATATGAATCCATAGTTCAGAGCAAACTTTCATGCTCAAT
**
10988373 CATCTAAGGTTCACTAAGGGGGGAAAATATGAGCAATTTCATATTTCCATTACATGAGGCCTCAT
1 CATCTAAGGTTCACTAAGGGGAAAAAATATGAGCAATTTCATATTTCCATTACATGAGGCCTCAT
* * *
10988438 AACATATGAATCCATAGTTCAGAGCACACTTTTATGTTCAA
66 AACATATGAATCCATAGTTCAGAGCAAACTTTCATGCTCAA
10988479 CAAGCACTCT
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
107 96 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (107 bp):
CATCTAAGGTTCACTAAGGGGAAAAAATATGAGCAATTTCATATTTCCATTACATGAGGCCTCAT
AACATATGAATCCATAGTTCAGAGCAAACTTTCATGCTCAAT
Found at i:10995378 original size:39 final size:39
Alignment explanation
Indices: 10995335--10995462 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 39
10995325 GGTCTTTAAC
** *
10995335 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
10995374 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
10995413 CCAGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
10995452 CTGGATATTTT
1 CCGGATATTTT
10995463 CAATCTCATA
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:10999925 original size:29 final size:30
Alignment explanation
Indices: 10999866--10999935 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 30
10999856 AGATTTATCC
***
10999866 TTATTAAATTGAATATTTTTTTGTGAAAAA
1 TTATTAAATTGAATATTTGGATGTGAAAAA
*
10999896 -TATTAAATTGAATCTTTGGATG-GAATAAA
1 TTATTAAATTGAATATTTGGATGTGAA-AAA
10999925 TTGATTAAATT
1 TT-ATTAAATT
10999936 CGTTGGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
28 3 0.09
29 21 0.64
30 1 0.03
31 8 0.24
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.46
Consensus pattern (30 bp):
TTATTAAATTGAATATTTGGATGTGAAAAA
Found at i:11003353 original size:163 final size:165
Alignment explanation
Indices: 11003129--11003451 Score: 447
Period size: 169 Copynumber: 2.0 Consensus size: 165
11003119 ACTAAGTTTG
*
11003129 ATTAATTAAACTTCAATAGTTAAATGATTATTTAAAAAAAAAATATTTTCTGACTGTA-G-G-TG
1 ATTAATTAAACTTCAATAGATAAATGATTATTTAAAAAAAAAATATTTTCTGACTGTAGGTGATG
* * * *
11003191 ACATATTAGCAAATTATCTTTGTTTGTATTTGCCACACTATTAACCAAATGCCATATAGGAGTTA
66 ACATATTAGCAAATTATATTTGTATGCATTTGCCACACCATTAACCAAATGCCATATAGGAGTTA
*
11003256 AGAATGCTATTGCTAACATTAGCATTTTCCGTCCA
131 ACAATGCTATTGCTAACATTAGCATTTTCCGTCCA
* ** *
11003291 ATTAATTGAAACTTGAATAAGATAAATGATTATTT-AAAAAAGCATATTTTGTGACTGTAGGTGA
1 ATTAATT-AAACTTCAAT-AGATAAATGATTATTTAAAAAAAAAATATTTTCTGACTGTAGGTG-
* *
11003355 CAATGACATATTAGGAAATTATATTTGTATGCATTTGCCACACCATTAACCGAATGCCATATAGG
63 --ATGACATATTAGCAAATTATATTTGTATGCATTTGCCACACCATTAACCAAATGCCATATAGG
**
11003420 AGTTAACAATGCTATTGCTGGCATTAGCATTT
126 AGTTAACAATGCTATTGCTAACATTAGCATTT
11003452 CCATACAATT
Statistics
Matches: 139, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
162 7 0.05
163 30 0.22
164 16 0.12
165 1 0.01
169 85 0.61
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.36
Consensus pattern (165 bp):
ATTAATTAAACTTCAATAGATAAATGATTATTTAAAAAAAAAATATTTTCTGACTGTAGGTGATG
ACATATTAGCAAATTATATTTGTATGCATTTGCCACACCATTAACCAAATGCCATATAGGAGTTA
ACAATGCTATTGCTAACATTAGCATTTTCCGTCCA
Found at i:11004377 original size:22 final size:22
Alignment explanation
Indices: 11004349--11004393 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11004339 ATTATACATG
11004349 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
11004371 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
11004393 T
1 T
11004394 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:11008152 original size:22 final size:22
Alignment explanation
Indices: 11008124--11008168 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11008114 AGGGGGAGTA
11008124 TAGGAATATTCTATAAATATTT
1 TAGGAATATTCTATAAATATTT
* *
11008146 TAGGAATATTTTGTAAATATTT
1 TAGGAATATTCTATAAATATTT
11008168 T
1 T
11008169 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTATAAATATTT
Found at i:11012565 original size:17 final size:16
Alignment explanation
Indices: 11012538--11012577 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
11012528 CCATAATTTA
11012538 TTTATAAAAAAATAAG
1 TTTATAAAAAAATAAG
11012554 TTTATAAAAAAATAAG
1 TTTATAAAAAAATAAG
*
11012570 TTTTTAAA
1 TTTATAAA
11012578 GTTATGACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (16 bp):
TTTATAAAAAAATAAG
Found at i:11015972 original size:30 final size:30
Alignment explanation
Indices: 11015908--11015972 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
11015898 TATATATAAC
* ** *
11015908 TATCAAGTAAGTATTTTTTAATTACATGAC
1 TATCAAGTAAGTATTTTTTAATTAAAAAAA
11015938 TATCAAGTAAGTATTTTTTAATTAAAAAAA
1 TATCAAGTAAGTATTTTTTAATTAAAAAAA
11015968 TATCA
1 TATCA
11015973 TAACAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (30 bp):
TATCAAGTAAGTATTTTTTAATTAAAAAAA
Found at i:11021419 original size:17 final size:19
Alignment explanation
Indices: 11021379--11021421 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
11021369 CAGGGGCAAA
*
11021379 ATGATTATTTTGCCAAAAT
1 ATGATTATTTTGACAAAAT
*
11021398 ATGATT-TTTTGACTAAAT
1 ATGATTATTTTGACAAAAT
11021416 -TGATTA
1 ATGATTA
11021422 GAATGAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 10 0.48
19 6 0.29
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.47
Consensus pattern (19 bp):
ATGATTATTTTGACAAAAT
Found at i:11022732 original size:17 final size:19
Alignment explanation
Indices: 11022696--11022733 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
11022686 GTAATTAGCC
11022696 TTATCATATTTGATGTATGT
1 TTATCATA-TTGATGTATGT
11022716 TTATCATA-TGA-GTATGT
1 TTATCATATTGATGTATGT
11022733 T
1 T
11022734 AGTTTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
20 8 0.44
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (19 bp):
TTATCATATTGATGTATGT
Found at i:11023828 original size:21 final size:21
Alignment explanation
Indices: 11023794--11023834 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11023784 GAGGGAAAGT
*
11023794 GGGAAAGAGTAAAAGTTTTGA
1 GGGAAAGAGTAAAAGGTTTGA
11023815 GGGAAA-AGTAAAAAGGTTTG
1 GGGAAAGAGT-AAAAGGTTTG
11023835 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGAAAGAGTAAAAGGTTTGA
Found at i:11023829 original size:29 final size:30
Alignment explanation
Indices: 11023770--11023829 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
11023760 GATGGAAGGG
**
11023770 GAGTAAAAGTTTTAGAGGGAAAGTGGGAAA
1 GAGTAAAAGTTTTAGAGGGAAAGTGAAAAA
11023800 GAGTAAAAGTTTT-GAGGGAAAAGT-AAAAA
1 GAGTAAAAGTTTTAGAGGG-AAAGTGAAAAA
11023829 G
1 G
11023830 GTTTGGGAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.20
Consensus pattern (30 bp):
GAGTAAAAGTTTTAGAGGGAAAGTGAAAAA
Found at i:11023976 original size:18 final size:18
Alignment explanation
Indices: 11023950--11023984 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11023940 ATTTGAGTTG
11023950 ACTCAAATAACTCGATTA
1 ACTCAAATAACTCGATTA
*
11023968 ACTCGAATAACTCGATT
1 ACTCAAATAACTCGATT
11023985 CGTTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:11024215 original size:28 final size:28
Alignment explanation
Indices: 11024175--11024232 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
11024165 TTGAAAAACG
*
11024175 ACCTATTTTTGTCCACACGGGTAGAGAC
1 ACCTATTTTTGTCCACACGGGCAGAGAC
11024203 ACCTATTTTTGTCCACACGGGCAGAGAC
1 ACCTATTTTTGTCCACACGGGCAGAGAC
11024231 AC
1 AC
11024233 GAGTGTGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (28 bp):
ACCTATTTTTGTCCACACGGGCAGAGAC
Found at i:11024243 original size:28 final size:28
Alignment explanation
Indices: 11024184--11024243 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
11024174 GACCTATTTT
* * * *
11024184 TGTCCACACGGGTAGAGACACCTATTTT
1 TGTCCACACGGGCAGAGACACCGATGTG
11024212 TGTCCACACGGGCAGAGACA-CGAGTGTG
1 TGTCCACACGGGCAGAGACACCGA-TGTG
11024240 TGTC
1 TGTC
11024244 TTAGCCGTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (28 bp):
TGTCCACACGGGCAGAGACACCGATGTG
Found at i:11024339 original size:12 final size:12
Alignment explanation
Indices: 11024322--11024352 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11024312 TCAGTAGCTT
11024322 CACACGGCCTAG
1 CACACGGCCTAG
*
11024334 CACACGGCCTGG
1 CACACGGCCTAG
11024346 CACACGG
1 CACACGG
11024353 GCATGTGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.29, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:11025244 original size:43 final size:42
Alignment explanation
Indices: 11025193--11025350 Score: 163
Period size: 43 Copynumber: 3.7 Consensus size: 42
11025183 CAAAGGTTAG
* * *
11025193 CAGAATGCCACAAAGGCCATATCAGAATACTACAGAGGCTAA
1 CAGAATGCCACAAAGGCCATATCAAAATACAATAGAGGCTAA
* * * *
11025235 CCAGAATGCCACAAAGACTATATCAAAATACAATAGTGGTTAA
1 -CAGAATGCCACAAAGGCCATATCAAAATACAATAGAGGCTAA
* * * *
11025278 TAGAATTCCACAAAAGGCCATATCAAAATACCATAGAGGCTTA
1 CAGAATGCCAC-AAAGGCCATATCAAAATACAATAGAGGCTAA
* * * *
11025321 TAGAATACCACAAATGCCATGTCAAAATAC
1 CAGAATGCCACAAAGGCCATATCAAAATAC
11025351 GCCATAAAGG
Statistics
Matches: 96, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 26 0.27
43 70 0.73
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.19
Consensus pattern (42 bp):
CAGAATGCCACAAAGGCCATATCAAAATACAATAGAGGCTAA
Found at i:11025346 original size:85 final size:85
Alignment explanation
Indices: 11025194--11025350 Score: 201
Period size: 85 Copynumber: 1.8 Consensus size: 85
11025184 AAAGGTTAGC
* * * *
11025194 AGAATGCCACAAAGGCCATATCAGAATACTACAGAGGCTAACCAGAATGCCACAAAGACTATATC
1 AGAATGCCACAAAGGCCATATCAAAATACCACAGAGGCTAACCAGAATACCACAAAGACCATATC
11025259 AAAATACAATAGTGGTTAAT
66 AAAATACAATAGTGGTTAAT
* * * * *
11025279 AGAATTCCACAAAAGGCCATATCAAAATACCATAGAGGCTTA-TAGAATACCACAAATG-CCATG
1 AGAATGCCAC-AAAGGCCATATCAAAATACCACAGAGGCTAACCAGAATACCACAAA-GACCATA
11025342 TCAAAATAC
64 TCAAAATAC
11025351 GCCATAAAGG
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 33 0.54
86 28 0.46
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (85 bp):
AGAATGCCACAAAGGCCATATCAAAATACCACAGAGGCTAACCAGAATACCACAAAGACCATATC
AAAATACAATAGTGGTTAAT
Found at i:11025369 original size:44 final size:43
Alignment explanation
Indices: 11025177--11025375 Score: 122
Period size: 43 Copynumber: 4.6 Consensus size: 43
11025167 TTGATAGAGC
* * * *
11025177 ATACCACAAAGG-TTAGCAGAATGCCAC-AAAGGCCATATCAGA
1 ATACCATAAAGGCTTA-TAGAATACCACAAAAGGCCATATCAAA
* * * * * * * *
11025219 ATACTACAGAGGCTAACCAGAATGCCAC-AAAGACTATATCAAA
1 ATACCATAAAGGCTTA-TAGAATACCACAAAAGGCCATATCAAA
* ** *
11025262 ATACAATAGTGG-TTAATAGAATTCCACAAAAGGCCATATCAAA
1 ATACCATAAAGGCTT-ATAGAATACCACAAAAGGCCATATCAAA
* * *
11025305 ATACCATAGAGGCTTATAGAATACCAC-AAATGCCATGTCAAA
1 ATACCATAAAGGCTTATAGAATACCACAAAAGGCCATATCAAA
*
11025347 ATACGCCATAAAGGC-TAGTAGAATGCCAC
1 ATA--CCATAAAGGCTTA-TAGAATACCAC
11025376 CCAAACACCT
Statistics
Matches: 128, Mismatches: 22, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
42 36 0.28
43 71 0.55
44 21 0.16
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.19
Consensus pattern (43 bp):
ATACCATAAAGGCTTATAGAATACCACAAAAGGCCATATCAAA
Found at i:11029116 original size:14 final size:14
Alignment explanation
Indices: 11029097--11029123 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11029087 TTGGTAACCT
11029097 GTAAAAGCTTTTCC
1 GTAAAAGCTTTTCC
11029111 GTAAAAGCTTTTC
1 GTAAAAGCTTTTC
11029124 AGGCTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (14 bp):
GTAAAAGCTTTTCC
Found at i:11029285 original size:6 final size:6
Alignment explanation
Indices: 11029267--11029311 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
11029257 GACTCTTCTT
* *
11029267 TTCCCC TTTCCCC TTCCCC TTCGCC TTCCCA TTCCCC TTCCCC TT
1 TTCCCC -TTCCCC TTCCCC TTCCCC TTCCCC TTCCCC TTCCCC TT
11029312 GGGTTGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.02, C:0.58, G:0.02, T:0.38
Consensus pattern (6 bp):
TTCCCC
Found at i:11029376 original size:20 final size:21
Alignment explanation
Indices: 11029343--11029381 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
11029333 AAGGAGAACC
*
11029343 GAAGCCATTTTCAATGTTGAA
1 GAAGCCATTTTCAAAGTTGAA
11029364 GAAGCCA-TTTCAAAGTTG
1 GAAGCCATTTTCAAAGTTG
11029382 GCTTATCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (21 bp):
GAAGCCATTTTCAAAGTTGAA
Found at i:11034755 original size:30 final size:30
Alignment explanation
Indices: 11034721--11034777 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
11034711 AAACGGGTAA
*
11034721 CCTGATGTAATTTCAGCTTGTGTGAGCGAC
1 CCTGATATAATTTCAGCTTGTGTGAGCGAC
*
11034751 CCTGATATAATTTTAGCTTGTGTGAGC
1 CCTGATATAATTTCAGCTTGTGTGAGC
11034778 AACTTAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (30 bp):
CCTGATATAATTTCAGCTTGTGTGAGCGAC
Found at i:11040990 original size:26 final size:26
Alignment explanation
Indices: 11040943--11041011 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
11040933 GTATTACACC
* * *
11040943 CACAGCTCGTATAAGTAAGCCCATTT
1 CACAGCTCGTGTGAGCAAGCCCATTT
*
11040969 CACAGCTCGTGTGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCAAGCCCATTT
11040995 CACAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
11041012 TTGATGTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAAGCCCATTT
Found at i:11045361 original size:3 final size:3
Alignment explanation
Indices: 11045353--11045381 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11045343 TTTAATTTAG
11045353 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
11045382 GAAATAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11045705 original size:24 final size:24
Alignment explanation
Indices: 11045673--11045729 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
11045663 TGAAAGTATG
* *
11045673 ACAATTGTATGGTATTGATATTGT
1 ACAAATGTATGATATTGATATTGT
11045697 ACAAATGTATGATATTGATATTGT
1 ACAAATGTATGATATTGATATTGT
11045721 ACAAATGTA
1 ACAAATGTA
11045730 CAAAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (24 bp):
ACAAATGTATGATATTGATATTGT
Found at i:11047072 original size:45 final size:45
Alignment explanation
Indices: 11047005--11047090 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
11046995 ATAAGTGTCG
*
11047005 CCTTACAGTTACTGTTCTGGATTCGTTCCGAAGAGGTACTCCGTA
1 CCTTACAGTTACTGTTCCGGATTCGTTCCGAAGAGGTACTCCGTA
* * *
11047050 CCTTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTC
1 CCTTACAGTTACTGTTCCGGATTCGTTCCGAAGAGGTACTC
11047091 TGTGTACCGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.36
Consensus pattern (45 bp):
CCTTACAGTTACTGTTCCGGATTCGTTCCGAAGAGGTACTCCGTA
Found at i:11047356 original size:18 final size:18
Alignment explanation
Indices: 11047247--11047352 Score: 106
Period size: 18 Copynumber: 5.9 Consensus size: 18
11047237 TAAATAAAGG
* *
11047247 TACTGAATAACTTACTGC
1 TACTGAATAACTGACTGT
11047265 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGT
* * *
11047283 TAATGGATAACTGACTGC
1 TACTGAATAACTGACTGT
*
11047301 TACTGAATAATTGACTGT
1 TACTGAATAACTGACTGT
* * * *
11047319 TACTAAATAATTTA-TCAT
1 TACTGAATAACTGACT-GT
11047337 TACTGAATAACTGACT
1 TACTGAATAACTGACT
11047353 ATTAAAGAGT
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
17 1 0.01
18 69 0.97
19 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:11051889 original size:35 final size:35
Alignment explanation
Indices: 11051845--11051954 Score: 107
Period size: 35 Copynumber: 3.1 Consensus size: 35
11051835 GCAAAACATC
11051845 GTCGGTTTATCCGGCCAATGCAGGGCACAACTATT
1 GTCGGTTTATCCGGCCAATGCAGGGCACAACTATT
* * * *
11051880 GTCGGTTTATCCGACCAACGCTGGGTGCAAAAC-ATT
1 GTCGGTTTATCCGGCCAATGC-AGG-GCACAACTATT
* * * *
11051916 GTTGGTTTAACC-GACAAGTGTAGGGCACAACTATT
1 GTCGGTTTATCCGGCCAA-TGCAGGGCACAACTATT
11051951 GTCG
1 GTCG
11051955 ACATATCTGA
Statistics
Matches: 58, Mismatches: 13, Indels: 8
0.73 0.16 0.10
Matches are distributed among these distances:
34 6 0.10
35 30 0.52
36 16 0.28
37 6 0.10
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (35 bp):
GTCGGTTTATCCGGCCAATGCAGGGCACAACTATT
Found at i:11051924 original size:36 final size:35
Alignment explanation
Indices: 11051812--11051930 Score: 114
Period size: 36 Copynumber: 3.3 Consensus size: 35
11051802 TGATATCATT
* * * *
11051812 GGTTTATCCGACCAGCGTTGGCCGCAAAACATCGTC
1 GGTTTATCCGACCAACGCTGG-GGCAAAACATTGTC
* * * *
11051848 GGTTTATCCGGCCAATGC-AGGGCACAACTATTGTC
1 GGTTTATCCGACCAACGCTGGGGCAAAAC-ATTGTC
*
11051883 GGTTTATCCGACCAACGCTGGGTGCAAAACATTGTT
1 GGTTTATCCGACCAACGCTGGG-GCAAAACATTGTC
*
11051919 GGTTTAACCGAC
1 GGTTTATCCGAC
11051931 AAGTGTAGGG
Statistics
Matches: 66, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
34 6 0.09
35 22 0.33
36 32 0.48
37 6 0.09
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (35 bp):
GGTTTATCCGACCAACGCTGGGGCAAAACATTGTC
Found at i:11051941 original size:71 final size:71
Alignment explanation
Indices: 11051812--11051954 Score: 189
Period size: 71 Copynumber: 2.0 Consensus size: 71
11051802 TGATATCATT
* * * *
11051812 GGTTTATCCGACCAGCGTTGGCCGCAAAACATCGTCGGTTTATCCGGCCAATGCAGGGCACAACT
1 GGTTTATCCGACCAACGCTGGCCGCAAAACATCGTCGGTTTAACCGGACAATGCAGGGCACAACT
11051877 ATTGTC
66 ATTGTC
** * * *
11051883 GGTTTATCCGACCAACGCTGGGTGCAAAACATTGTTGGTTTAACC-GACAAGTGTAGGGCACAAC
1 GGTTTATCCGACCAACGCTGGCCGCAAAACATCGTCGGTTTAACCGGACAA-TGCAGGGCACAAC
11051947 TATTGTC
65 TATTGTC
11051954 G
1 G
11051955 ACATATCTGA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
70 4 0.06
71 58 0.94
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.25
Consensus pattern (71 bp):
GGTTTATCCGACCAACGCTGGCCGCAAAACATCGTCGGTTTAACCGGACAATGCAGGGCACAACT
ATTGTC
Found at i:11055033 original size:19 final size:19
Alignment explanation
Indices: 11055009--11055076 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 19
11054999 AGCCTTAAAC
11055009 ACCAACAATCAATGCAACA
1 ACCAACAATCAATGCAACA
* *
11055028 ACCAACAAACAAATG-ATTAAA
1 ACCAACAATC-AATGCA--ACA
11055049 CACCAACAATCAATGCAACA
1 -ACCAACAATCAATGCAACA
11055069 ACCAACAA
1 ACCAACAA
11055077 ACAAATGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
19 18 0.45
20 6 0.15
21 6 0.15
22 10 0.25
ACGTcount: A:0.56, C:0.29, G:0.04, T:0.10
Consensus pattern (19 bp):
ACCAACAATCAATGCAACA
Found at i:11055048 original size:41 final size:41
Alignment explanation
Indices: 11055003--11055086 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
11054993 TCAATTAGCC
11055003 TTAAACACCAACAATCAATGCAACAACCAACAAACAAATGA
1 TTAAACACCAACAATCAATGCAACAACCAACAAACAAATGA
11055044 TTAAACACCAACAATCAATGCAACAACCAACAAACAAATGA
1 TTAAACACCAACAATCAATGCAACAACCAACAAACAAATGA
11055085 TT
1 TT
11055087 TGAACATCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.55, C:0.26, G:0.05, T:0.14
Consensus pattern (41 bp):
TTAAACACCAACAATCAATGCAACAACCAACAAACAAATGA
Found at i:11055056 original size:22 final size:23
Alignment explanation
Indices: 11055024--11055086 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 23
11055014 CAATCAATGC
11055024 AACAACCAACAAACAAATGATTA
1 AACAACCAACAAACAAATGATTA
* *
11055047 AAC-ACCAACAATC-AATG---C
1 AACAACCAACAAACAAATGATTA
11055065 AACAACCAACAAACAAATGATT
1 AACAACCAACAAACAAATGATT
11055087 TGAACATCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
18 3 0.09
19 9 0.28
20 4 0.12
21 4 0.12
22 9 0.28
23 3 0.09
ACGTcount: A:0.57, C:0.25, G:0.05, T:0.13
Consensus pattern (23 bp):
AACAACCAACAAACAAATGATTA
Found at i:11063504 original size:41 final size:41
Alignment explanation
Indices: 11063458--11063535 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
11063448 ATTATAATAG
11063458 ATACAGAACATGCTTAACAGATAACAAATTATACACAACTT
1 ATACAGAACATGCTTAACAGATAACAAATTATACACAACTT
** * *
11063499 ATACAGATTATGCTTAATAGATAACATATTATACACA
1 ATACAGAACATGCTTAACAGATAACAAATTATACACA
11063536 TAGAGCTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (41 bp):
ATACAGAACATGCTTAACAGATAACAAATTATACACAACTT
Found at i:11065680 original size:49 final size:49
Alignment explanation
Indices: 11065623--11065729 Score: 187
Period size: 49 Copynumber: 2.2 Consensus size: 49
11065613 CAAAGAGATT
11065623 ATCGGGAAGCTTATCCAAGCTATATAACTGGAAGCTCATAAGAGCCATA
1 ATCGGGAAGCTTATCCAAGCTATATAACTGGAAGCTCATAAGAGCCATA
* *
11065672 ATCGGGAAGCTTATCTAGGCTATATAACTGGAAGCTCATAAGAGCCATA
1 ATCGGGAAGCTTATCCAAGCTATATAACTGGAAGCTCATAAGAGCCATA
*
11065721 ATTGGGAAG
1 ATCGGGAAG
11065730 TTTACAAAGA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 55 1.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (49 bp):
ATCGGGAAGCTTATCCAAGCTATATAACTGGAAGCTCATAAGAGCCATA
Found at i:11065682 original size:24 final size:24
Alignment explanation
Indices: 11065652--11065729 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
11065642 CTATATAACT
11065652 GGAAGCTCATAAGAGCCATAATCG
1 GGAAGCTCATAAGAGCCATAATCG
* * * * *
11065676 GGAAGCTTATCTAG-GCTATATAACT
1 GGAAGCTCAT-AAGAGCCATA-ATCG
*
11065701 GGAAGCTCATAAGAGCCATAATTG
1 GGAAGCTCATAAGAGCCATAATCG
11065725 GGAAG
1 GGAAG
11065730 TTTACAAAGA
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
24 22 0.55
25 18 0.45
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.22
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCG
Found at i:11065706 original size:25 final size:25
Alignment explanation
Indices: 11065627--11065707 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
11065617 GAGATTATCG
11065627 GGAAGCTTATCCAA-GCTATATAACT
1 GGAAGCTTAT-CAAGGCTATATAACT
* * * *
11065652 GGAAGCTCAT-AAGAGCCATA-ATCG
1 GGAAGCTTATCAAG-GCTATATAACT
*
11065676 GGAAGCTTATCTAGGCTATATAACT
1 GGAAGCTTATCAAGGCTATATAACT
11065701 GGAAGCT
1 GGAAGCT
11065708 CATAAGAGCC
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
23 2 0.05
24 16 0.37
25 25 0.58
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (25 bp):
GGAAGCTTATCAAGGCTATATAACT
Found at i:11065770 original size:23 final size:23
Alignment explanation
Indices: 11065733--11065789 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
11065723 TGGGAAGTTT
*
11065733 ACAAAGAACCATATC-AATAAGCTC
1 ACAAAGAGCC-TATCGAA-AAGCTC
**
11065757 ATGAAGAGCCTATCGAAAAGCTC
1 ACAAAGAGCCTATCGAAAAGCTC
11065780 ACAAAGAGCC
1 ACAAAGAGCC
11065790 ATGTAACGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.46, C:0.25, G:0.16, T:0.14
Consensus pattern (23 bp):
ACAAAGAGCCTATCGAAAAGCTC
Found at i:11071006 original size:8 final size:8
Alignment explanation
Indices: 11070993--11071024 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
11070983 TCATTCCTTG
11070993 AATTGAAT
1 AATTGAAT
11071001 AATTGAAT
1 AATTGAAT
11071009 AATTGAAT
1 AATTGAAT
11071017 AATTGAAT
1 AATTGAAT
11071025 TCTATCCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (8 bp):
AATTGAAT
Found at i:11074451 original size:228 final size:229
Alignment explanation
Indices: 11074042--11074501 Score: 672
Period size: 228 Copynumber: 2.0 Consensus size: 229
11074032 TACTACTTTA
*
11074042 TTAATTTTCCTCAACTGGTCGTTTTCTGCTTGTAGTTGAGGGAACCCTAGTTGTACCATATTTTT
1 TTAATATTCCTCAACTGGTCGTTTTCTGCTTGTAGTTGAGGGAACCCTAGTTGTA-CATATTTTT
* * * * *
11074107 TGTAAAATGCATTGCATTCATGCTAATTACTGTTTTGATTGTTTTTTTGTTGCATGGTAAAATGG
65 TGTAAAATGCATTGCACTCATGCTAATTACTGTTTAGATTGTTCTTTTGTTGCATAGTAAAACGG
*
11074172 CCCATCAAAATTATAACCATTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTGCATGGCAGC
130 CCCATCAAAATTATAACCATTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTGCAGGGCAGC
* * *
11074237 CTAAATGACACCATCTTAGTACTGGCTGCAGTGTG
195 CTAAAAGACACCATCTTACTACAGGCTGCAGTGTG
* * * * * *
11074272 TTAATATTCTTCAACTGGTTGTTTTGTGTTTTTAGTTGAGGGAACCCTAGTTGTA-ATGTCTTTT
1 TTAATATTCCTCAACTGGTCGTTTTCTGCTTGTAGTTGAGGGAACCCTAGTTGTACATAT-TTTT
* * * *
11074336 TGTGAACTGCATTGCACTCATGTTAATTACTGTTTAGATTG-TCTTTTGTTGCATAGTAATACGG
65 TGTAAAATGCATTGCACTCATGCTAATTACTGTTTAGATTGTTCTTTTGTTGCATAGTAAAACGG
**
11074400 CCCATCAAAATTATAACTGTTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTGCAGGGCAGC
130 CCCATCAAAATTATAACCATTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTGCAGGGCAGC
* *
11074465 CTAAAAGACACCTTCTTACTACAGGCTGGAGTGTG
195 CTAAAAGACACCATCTTACTACAGGCTGCAGTGTG
11074500 TT
1 TT
11074502 TGTTAGTGCC
Statistics
Matches: 205, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
228 116 0.57
229 40 0.20
230 49 0.24
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (229 bp):
TTAATATTCCTCAACTGGTCGTTTTCTGCTTGTAGTTGAGGGAACCCTAGTTGTACATATTTTTT
GTAAAATGCATTGCACTCATGCTAATTACTGTTTAGATTGTTCTTTTGTTGCATAGTAAAACGGC
CCATCAAAATTATAACCATTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTGCAGGGCAGCC
TAAAAGACACCATCTTACTACAGGCTGCAGTGTG
Found at i:11075741 original size:387 final size:387
Alignment explanation
Indices: 11075027--11075802 Score: 1381
Period size: 387 Copynumber: 2.0 Consensus size: 387
11075017 GTGTTTCAGT
11075027 TGGGATGCGTTTCAGAATGCTTTTTGAGACAGAAGAATCAAGTGTTCGTAGGTATAATAGTTCTT
1 TGGGATGCGTTTCAGAATGCTTTTTGAGACAGAAGAATCAAGTGTTCGTAGGTATAATAGTTCTT
*
11075092 AGCGGTTCATTAAGTATTTCTTTGGTGGTTTATCTTGTGTGATTTTTAGCATTTGTTTATATAAT
66 AGCGGTTCATTAAGTATTTCTTTGGTGGTTTATCTTGTGTGATTATTAGCATTTGTTTATATAAT
**
11075157 CATGTTCTTGAAAGCCATCTATATTCTTGTTAAAATCTTTTGCTTACTTTCTGACTCGCTTGTGA
131 CATGTTCTTGAAAGCCATCTATATTCTTAATAAAATCTTTTGCTTACTTTCTGACTCGCTTGTGA
* *
11075222 GCTTGTAACTGGTACACTACAAGATTTAGCATCCAACTGTTTTGTATTTGTCCAAAAGTAAGAAT
196 GCTTATAACTGGTACACTACAAGATTTAGCACCCAACTGTTTTGTATTTGTCCAAAAGTAAGAAT
* *
11075287 ATGTTTTGACATATCCAAGTCTTTCATCTGAAAATGTCTGAAGAACAGATTTGAGAGCTTAGATA
261 ATGTTTTGACATACCCAAGTCTTTCATCTGAAAATGTCTGAAGAACAGATCTGAGAGCTTAGATA
11075352 CCTTCATTCTTACTAGCAGTAATAACAATATCATTAACATACACAACTAAAAGTATAATAGC
326 CCTTCATTCTTACTAGCAGTAATAACAATATCATTAACATACACAACTAAAAGTATAATAGC
* *
11075414 TGGGATGCGTTTCAGAATGCTTTTTGAGACAGAAGAATCATGTGTTTGTAGGTATAATAGTTCTT
1 TGGGATGCGTTTCAGAATGCTTTTTGAGACAGAAGAATCAAGTGTTCGTAGGTATAATAGTTCTT
* * *
11075479 AGTGGTTCGTTAGGTATTTCTTTGGTGGTTTATCTTGTGTGATTATTAGCATTTGTTTATATAAT
66 AGCGGTTCATTAAGTATTTCTTTGGTGGTTTATCTTGTGTGATTATTAGCATTTGTTTATATAAT
*
11075544 CATGTTCTTGAAAGCCATCTATATTCTTAATCAAATCTTTTGCTTACTTTCTGACTCGCTTGTGA
131 CATGTTCTTGAAAGCCATCTATATTCTTAATAAAATCTTTTGCTTACTTTCTGACTCGCTTGTGA
* * * *
11075609 TCTTATCACTGGTACACTATAAGATTTAGCACCCAACTGTTTTGTATTTGTCCAGAAGTAAGAAT
196 GCTTATAACTGGTACACTACAAGATTTAGCACCCAACTGTTTTGTATTTGTCCAAAAGTAAGAAT
*
11075674 ATGTTTTGACATACCCAAGTCTTTCATCTGAAAATGTCTGAAGAACAGGTCTGAGAGCTTAGATA
261 ATGTTTTGACATACCCAAGTCTTTCATCTGAAAATGTCTGAAGAACAGATCTGAGAGCTTAGATA
*
11075739 CCTTCATTCTTACTAGCAGTAATAACAATATCATTAACGTACACAACTAAAAGTATAATAGC
326 CCTTCATTCTTACTAGCAGTAATAACAATATCATTAACATACACAACTAAAAGTATAATAGC
11075801 TG
1 TG
11075803 CTTTACTTTG
Statistics
Matches: 370, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
387 370 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (387 bp):
TGGGATGCGTTTCAGAATGCTTTTTGAGACAGAAGAATCAAGTGTTCGTAGGTATAATAGTTCTT
AGCGGTTCATTAAGTATTTCTTTGGTGGTTTATCTTGTGTGATTATTAGCATTTGTTTATATAAT
CATGTTCTTGAAAGCCATCTATATTCTTAATAAAATCTTTTGCTTACTTTCTGACTCGCTTGTGA
GCTTATAACTGGTACACTACAAGATTTAGCACCCAACTGTTTTGTATTTGTCCAAAAGTAAGAAT
ATGTTTTGACATACCCAAGTCTTTCATCTGAAAATGTCTGAAGAACAGATCTGAGAGCTTAGATA
CCTTCATTCTTACTAGCAGTAATAACAATATCATTAACATACACAACTAAAAGTATAATAGC
Found at i:11080099 original size:22 final size:21
Alignment explanation
Indices: 11080047--11080099 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 21
11080037 ATTTTAGTTC
*
11080047 ATTAAATAATATTTTTTTATA
1 ATTAAATAATATTTTTGTATA
11080068 ATTTCAAAATAATATTTTTGTACTA
1 A-TT--AAATAATATTTTTGTA-TA
11080093 ATTAAAT
1 ATTAAAT
11080100 TAGATTAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 1 0.04
22 6 0.22
24 17 0.63
25 3 0.11
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTAAATAATATTTTTGTATA
Found at i:11081707 original size:24 final size:25
Alignment explanation
Indices: 11081651--11081707 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
11081641 TAAAAAATAA
11081651 TTTTAATATTTAAAAATATTAAAAT
1 TTTTAATATTTAAAAATATTAAAAT
* **
11081676 ATTT-ATATTTAATCATA-TAAAAT
1 TTTTAATATTTAAAAATATTAAAAT
11081699 TTTTAATAT
1 TTTTAATAT
11081708 ACAGTTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.33
24 15 0.56
25 3 0.11
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTTAATATTTAAAAATATTAAAAT
Found at i:11081771 original size:20 final size:20
Alignment explanation
Indices: 11081748--11081795 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
11081738 AATACTAAAA
11081748 AATAATTTTAA-ATTTTATGT
1 AATAATTTTAATATTTTAT-T
11081768 AAT-ATTCTTAATATTTTATT
1 AATAATT-TTAATATTTTATT
*
11081788 AAAAATTT
1 AATAATTT
11081796 ATATTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 3 0.12
20 11 0.46
21 10 0.42
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
AATAATTTTAATATTTTATT
Found at i:11088578 original size:52 final size:50
Alignment explanation
Indices: 11088494--11088597 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 50
11088484 TGAAGAACTT
* *
11088494 AACCGGATTTTAAATGCATTGTAATCCGTTATATATGAGATATTCTTATGAA
1 AACCAGATTTTAAATGCATTGTAATCCATTATATATGAG--ATTCTTATGAA
* *
11088546 AACCAGATTTTAATTGCCTTGTAATCCATTATATATGAGATTCTTATGAA
1 AACCAGATTTTAAATGCATTGTAATCCATTATATATGAGATTCTTATGAA
11088596 AA
1 AA
11088598 AGGGCATACT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 13 0.27
52 35 0.73
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (50 bp):
AACCAGATTTTAAATGCATTGTAATCCATTATATATGAGATTCTTATGAA
Found at i:11091265 original size:36 final size:36
Alignment explanation
Indices: 11091224--11091296 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
11091214 ACACAGTTTC
11091224 AACCAAAATTATCATTCAAAGTAAACACATTCATTA
1 AACCAAAATTATCATTCAAAGTAAACACATTCATTA
11091260 AACCAAAATTATCATTCAAAGTAAACACATTCATTA
1 AACCAAAATTATCATTCAAAGTAAACACATTCATTA
11091296 A
1 A
11091297 CTCCTATGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (36 bp):
AACCAAAATTATCATTCAAAGTAAACACATTCATTA
Found at i:11094284 original size:21 final size:20
Alignment explanation
Indices: 11094238--11094285 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
11094228 TTTTCACCCT
* * *
11094238 TATTTTGTTATTGTTTGTTG
1 TATTTTGGTATTATTTGTTA
11094258 TCATTTTGGTATTATATTGTTA
1 T-ATTTTGGTATTAT-TTGTTA
11094280 TATTTT
1 TATTTT
11094286 ATTATTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.70
22 6 0.26
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.67
Consensus pattern (20 bp):
TATTTTGGTATTATTTGTTA
Found at i:11094822 original size:3 final size:3
Alignment explanation
Indices: 11094814--11094841 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11094804 GCAGCTGAAC
11094814 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
11094842 TAAGTACTAT
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:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11094980 original size:2 final size:2
Alignment explanation
Indices: 11094973--11095006 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11094963 CTATTGGGAT
11094973 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11095007 ATTTTGTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:11104764 original size:480 final size:480
Alignment explanation
Indices: 11103421--11104861 Score: 2819
Period size: 480 Copynumber: 3.0 Consensus size: 480
11103411 TAAAATTTTG
11103421 TTATTTGTACAAATAGCATGTAGTGTTACTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
1 TTATTTGTACAAATAGCATGTAGTGTTACTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
11103486 TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
66 TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
11103551 TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
131 TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
11103616 TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
196 TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
11103681 ATAAGTATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
261 ATAAGTATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
*
11103746 TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCTATTTCTC
326 TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCAATTTCTC
11103811 CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
391 CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
11103876 TCTAATCTCTTTCACCTACTTGTTCT
456 TCT-ATCTCTTTCACCTACTTGTTCT
* *
11103902 TTATTTGTACAAATAGCATGTAGTATTGCTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
1 TTATTTGTACAAATAGCATGTAGTGTTACTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
11103967 TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
66 TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
11104032 TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
131 TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
11104097 TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
196 TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
11104162 ATAAGTATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
261 ATAAGTATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
11104227 TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCAATTTCTC
326 TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCAATTTCTC
11104292 CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
391 CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
11104357 TCTATCTCTTTCACCTACTTGTTCT
456 TCTATCTCTTTCACCTACTTGTTCT
*
11104382 TTATTTGTACAAATAGCATGTAATGTTACTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
1 TTATTTGTACAAATAGCATGTAGTGTTACTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
*
11104447 TATGTTTGGATGAATTTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
66 TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
11104512 TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
131 TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
11104577 TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
196 TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
*
11104642 ATAAATATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
261 ATAAGTATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
11104707 TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCAATTTCTC
326 TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCAATTTCTC
11104772 CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
391 CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
11104837 TCTATCTCTTTCACCTACTTGTTCT
456 TCTATCTCTTTCACCTACTTGTTCT
11104862 GCATGAAGTA
Statistics
Matches: 952, Mismatches: 8, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
480 497 0.52
481 455 0.48
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (480 bp):
TTATTTGTACAAATAGCATGTAGTGTTACTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
ATAAGTATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCAATTTCTC
CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
TCTATCTCTTTCACCTACTTGTTCT
Done.