Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 61 of 189
Found at i:17247973 original size:18 final size:17
Alignment explanation
Indices: 17247927--17247982 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 17
17247917 AAAAAGTATT
17247927 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
17247944 TTAAAAA-A----AAAA
1 TTAAAAATATTTTAAAA
17247956 TTAAAAAGTATTTTAAAA
1 TTAAAAA-TATTTTAAAA
17247974 TTAAAAATA
1 TTAAAAATA
17247983 ATAAAAAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
12 11 0.33
14 1 0.03
16 1 0.03
17 9 0.27
18 11 0.33
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:17249371 original size:7 final size:7
Alignment explanation
Indices: 17249359--17249409 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
17249349 TGGGTGAATA
17249359 GTTTAGG
1 GTTTAGG
17249366 GTTTAGG
1 GTTTAGG
*
17249373 GTTTATG
1 GTTTAGG
17249380 G-TTAGG
1 GTTTAGG
17249386 GTTTTTAGG
1 G--TTTAGG
*
17249395 TTTTTAGG
1 -GTTTAGG
17249403 GTTTAGG
1 GTTTAGG
17249410 ATTTTAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
6 5 0.14
7 20 0.56
8 6 0.17
9 5 0.14
ACGTcount: A:0.14, C:0.00, G:0.37, T:0.49
Consensus pattern (7 bp):
GTTTAGG
Found at i:17249545 original size:95 final size:96
Alignment explanation
Indices: 17249440--17249647 Score: 235
Period size: 95 Copynumber: 2.2 Consensus size: 96
17249430 TAATTAATGG
* * * ** * *
17249440 ATTAGTGTTTAGGGTTTGTCAATTAAATTAATTATAATTTTTT-TCAAAATTGTATT-AGGTTTC
1 ATTAGGGTTTAGGGTTTCTCAAGTAAATTAATTA-AATTTTTTAAAAAAATTGGATTAAGGTTTA
*
17249503 GTGTTTATGGTTTTTAAAG-AAAAA-TAAATTAA
65 GTGTTTA-GGGTTTT-AAGTAAAAACTAAATTAA
* **
17249535 ATTAGGGTTTACGGTTTCTTGAGTAAATTAATTAAATTTTTTAAAAAAATTGGATTAAGGTTTAG
1 ATTAGGGTTTAGGGTTTCTCAAGTAAATTAATTAAATTTTTTAAAAAAATTGGATTAAGGTTTAG
* *
17249600 TGTTTAGGGTTTTATGTAAAAACTTAATTAA
66 TGTTTAGGGTTTTAAGTAAAAACTAAATTAA
*
17249631 ATTAGGGTTTGGGGTTT
1 ATTAGGGTTTAGGGTTT
17249648 AGGGTTTAGG
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
94 10 0.11
95 49 0.52
96 35 0.37
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (96 bp):
ATTAGGGTTTAGGGTTTCTCAAGTAAATTAATTAAATTTTTTAAAAAAATTGGATTAAGGTTTAG
TGTTTAGGGTTTTAAGTAAAAACTAAATTAA
Found at i:17249647 original size:7 final size:7
Alignment explanation
Indices: 17249632--17249667 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
17249622 CTTAATTAAA
17249632 TTAGGGT
1 TTAGGGT
*
17249639 TTGGGGT
1 TTAGGGT
17249646 TTAGGGT
1 TTAGGGT
17249653 TTAGGGT
1 TTAGGGT
17249660 TTAGGGT
1 TTAGGGT
17249667 T
1 T
17249668 ACTTAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.11, C:0.00, G:0.44, T:0.44
Consensus pattern (7 bp):
TTAGGGT
Found at i:17249647 original size:96 final size:95
Alignment explanation
Indices: 17249463--17249640 Score: 236
Period size: 95 Copynumber: 1.9 Consensus size: 95
17249453 GTTTGTCAAT
** * * *
17249463 TAAATTAATTATAATTTTTTTCAAAATTGTATTAGGTTTCGTGTTTATGGTTTTTAAAGAAAAAT
1 TAAATTAATTATAATTTTTTAAAAAATTGGATTAGGTTTAGTGTTTATGGGTTTTAAAGAAAAAT
17249528 AAATTAAATTAGGGTTTACGGTTTCTTGAG
66 AAATTAAATTAGGGTTTACGGTTTCTTGAG
*
17249558 TAAATTAATTA-AATTTTTTAAAAAAATTGGATTAAGGTTTAGTGTTTA-GGGTTTT-ATGTAAA
1 TAAATTAATTATAATTTTTT-AAAAAATTGGATT-AGGTTTAGTGTTTATGGGTTTTAAAG-AAA
*
17249620 AACTTAATTAAATTAGGGTTT
63 AA-TAAATTAAATTAGGGTTT
17249641 GGGGTTTAGG
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
94 10 0.14
95 32 0.44
96 30 0.42
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.46
Consensus pattern (95 bp):
TAAATTAATTATAATTTTTTAAAAAATTGGATTAGGTTTAGTGTTTATGGGTTTTAAAGAAAAAT
AAATTAAATTAGGGTTTACGGTTTCTTGAG
Found at i:17249916 original size:125 final size:126
Alignment explanation
Indices: 17249709--17249987 Score: 443
Period size: 125 Copynumber: 2.2 Consensus size: 126
17249699 GCTCTCATAT
* * * * ** *
17249709 GGACGTGTTTTTTCCACAGTAGCTCTTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAG
1 GGACGCGTTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAACTGACCTTTCTGAGCAAATAG
* *
17249774 TGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTATTGAAAGAAGCTCCCACGA
66 TGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTAAAAGAAGCTCCCACGA
17249835 GGACGCGTTTTTGCTACA-TAGCTCCTGAAAAAATAATTTCGAACTGACCTTTCTGAGCAAATAG
1 GGACGCGTTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAACTGACCTTTCTGAGCAAATAG
* *
17249899 TGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAGAAGTACTAAAAGAAGCTCCCACGT
66 TGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTAAAAGAAGCTCCCACGA
*
17249960 GGACGCATTTTTGCTACAGTAGCTCCTG
1 GGACGCGTTTTTGCTACAGTAGCTCCTG
17249988 TTAGGCTTGG
Statistics
Matches: 140, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
125 116 0.83
126 24 0.17
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (126 bp):
GGACGCGTTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAACTGACCTTTCTGAGCAAATAG
TGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTAAAAGAAGCTCCCACGA
Found at i:17252014 original size:7 final size:7
Alignment explanation
Indices: 17252002--17252052 Score: 66
Period size: 7 Copynumber: 7.3 Consensus size: 7
17251992 AACATGGGTA
17252002 TTTAGGG
1 TTTAGGG
*
17252009 TTTAGGA
1 TTTAGGG
**
17252016 TTTATAG
1 TTTAGGG
17252023 TTTAGGG
1 TTTAGGG
*
17252030 TTTAAGG
1 TTTAGGG
17252037 TTTAGGG
1 TTTAGGG
17252044 TTTAGGG
1 TTTAGGG
17252051 TT
1 TT
17252053 ATACAGGCCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:17252751 original size:49 final size:50
Alignment explanation
Indices: 17252696--17252831 Score: 121
Period size: 61 Copynumber: 2.5 Consensus size: 50
17252686 CTTATTTAAA
*
17252696 AGAAAATCTAATCTATTAAAAATATTAAAA-TAAATTACAATTGGTACAT
1 AGAAAATCTAATCTATTAAAAATATTAAAAGTAAATTACAATTGCTACAT
* *
17252745 AGAAAATGTAAAAGAATTTCTATTATATTAAAAATGTAAAAGTAAATTACAATTGCTACAT
1 AGAAAATCT-----AA--TCTATTA-A--AAATAT-TAAAAGTAAATTACAATTGCTACAT
* *
17252806 ATAAAATCTAATCTATTAAACATATT
1 AGAAAATCTAATCTATTAAAAATATT
17252832 GCCTTATTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 23
0.69 0.07 0.23
Matches are distributed among these distances:
49 8 0.12
50 1 0.01
51 4 0.06
53 1 0.01
54 9 0.13
56 9 0.13
57 1 0.01
59 5 0.07
60 5 0.07
61 25 0.37
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.34
Consensus pattern (50 bp):
AGAAAATCTAATCTATTAAAAATATTAAAAGTAAATTACAATTGCTACAT
Found at i:17252758 original size:61 final size:61
Alignment explanation
Indices: 17252692--17252812 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 61
17252682 TTGACTTATT
* * *
17252692 TAAAAGAAAATCTAATCTATTAAAAATATTAAAA-TAAATTACAATTGGTACATAGAAAATG
1 TAAAAGAAAATCTAATATATTAAAAAT-GTAAAAGTAAATTACAATTGCTACATAGAAAATG
** * *
17252753 TAAAAGAATTTCTATTATATTAAAAATGTAAAAGTAAATTACAATTGCTACATATAAAAT
1 TAAAAGAAAATCTAATATATTAAAAATGTAAAAGTAAATTACAATTGCTACATAGAAAAT
17252813 CTAATCTATT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
60 5 0.10
61 47 0.90
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (61 bp):
TAAAAGAAAATCTAATATATTAAAAATGTAAAAGTAAATTACAATTGCTACATAGAAAATG
Found at i:17253099 original size:21 final size:22
Alignment explanation
Indices: 17253075--17253122 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
17253065 GTGAGGGTTG
*
17253075 TGGTTGC-TCTGGT-GGGGATTC
1 TGGTTGCTTCCGGTAGGGGA-TC
17253096 TGGTT-CTTCCGGTAGGGGATC
1 TGGTTGCTTCCGGTAGGGGATC
17253117 TGGTTG
1 TGGTTG
17253123 TCGGTGTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.06, C:0.15, G:0.42, T:0.38
Consensus pattern (22 bp):
TGGTTGCTTCCGGTAGGGGATC
Found at i:17253389 original size:18 final size:18
Alignment explanation
Indices: 17253363--17253405 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
17253353 GACTAGAAAA
* *
17253363 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
17253381 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
17253399 AGGATAC
1 AGGATAC
17253406 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:17255307 original size:10 final size:10
Alignment explanation
Indices: 17255244--17255330 Score: 120
Period size: 11 Copynumber: 8.2 Consensus size: 10
17255234 TTTTAAAAAT
17255244 AATTTGAGAGG
1 AATTTGAGA-G
17255255 AATTTGAGAGG
1 AATTTGAGA-G
17255266 AATTTGAGAAG
1 AATTTGAG-AG
17255277 AATTTGAGAG
1 AATTTGAGAG
17255287 AATATTAGAGAG
1 AAT-TT-GAGAG
17255299 AATTTGAGAG
1 AATTTGAGAG
17255309 AATTTGAGAG
1 AATTTGAGAG
*
17255319 AATTTGAAAG
1 AATTTGAGAG
17255329 AA
1 AA
17255331 ATGATTAAGT
Statistics
Matches: 72, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
10 31 0.43
11 32 0.44
12 9 0.12
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.28
Consensus pattern (10 bp):
AATTTGAGAG
Found at i:17257075 original size:22 final size:23
Alignment explanation
Indices: 17257042--17257086 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
17257032 CAATTTATAT
17257042 TTTATTTTATATATAAATATTTG
1 TTTATTTTATATATAAATATTTG
* *
17257065 TTTA-TTTATATTTATATATTTG
1 TTTATTTTATATATAAATATTTG
17257087 CTCGTTAACG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (23 bp):
TTTATTTTATATATAAATATTTG
Found at i:17257084 original size:14 final size:14
Alignment explanation
Indices: 17257034--17257085 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
17257024 AAATTATTCA
17257034 ATTTATAT-TTTAT
1 ATTTATATATTTAT
**
17257047 -TTTATATATAAAT
1 ATTTATATATTTAT
* *
17257060 ATTTGTTTATTTAT
1 ATTTATATATTTAT
17257074 ATTTATATATTT
1 ATTTATATATTT
17257086 GCTCGTTAAC
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
12 7 0.24
13 3 0.10
14 19 0.66
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
ATTTATATATTTAT
Found at i:17257349 original size:86 final size:87
Alignment explanation
Indices: 17257194--17257847 Score: 883
Period size: 86 Copynumber: 7.6 Consensus size: 87
17257184 TGAACGACCA
* * * * **
17257194 TATTT-ATTTTAATACTTGTTTGGAAATAAAATAAAAAAATAGAATAAAACCTGTTGAACGACAA
1 TATTTAATTTTAATACTCGTTTGGAAATAAAAT-AAAAAATGGAATAAAATCTGTTGAACGGCGG
* *
17257258 AAATAAATCCCGAAA-TAAATTT
65 GAATAAATCCCGAAACTAGATTT
* * * * * **
17257280 TATTTAATTTTAATACTTGTTTCGAAACAAAATAAAAAATGGAATAAAATCTGTTAAACGTCAAG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGGG
*
17257345 AATAAATCCCGAAAC-AAATTT
66 AATAAATCCCGAAACTAGATTT
* * *
17257366 TATTTAATTTTAATACTCGTTTAGAAACAAAATAAAAAATGGAATAAAATCTATTGAACGGCGGG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGGG
* *
17257431 AATAAATCTCAAAACT-GATTTTT
66 AATAAATCCCGAAACTAGA--TTT
* * * * *
17257454 TTTTTAATTTTAATACTTGTTTGGAAATAAAATAAAAAATAGAATAAAATATTTTGAACGGCGGG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGGG
17257519 AATAAATCCCGAAACT-GATTT
66 AATAAATCCCGAAACTAGATTT
* *
17257540 TATTTAATTTTAATACTTGTTTGGAAATAAAATAAAAAAATGGAATAAAATCTTTTGAACGGCGG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAAT-AAAAAATGGAATAAAATCTGTTGAACGGCGG
* *
17257605 GAATAAATTCTGAAACT-GATTT
65 GAATAAATCCCGAAACTAGATTT
*
17257627 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGAG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGGG
* *
17257692 AATAGATCCCAAAACT-GATTT
66 AATAAATCCCGAAACTAGATTT
*
17257713 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAAATGGAATAAAATCTGTTGAACGACGG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAAT-AAAAAATGGAATAAAATCTGTTGAACGGCGG
*
17257778 GAATAAATCCTGAAAC-AGATTT
65 GAATAAATCCCGAAACTAGATTT
*
17257800 TATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGGAATAAA
1 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAATGGAATAAA
17257848 TCTCGAAACA
Statistics
Matches: 516, Mismatches: 44, Indels: 16
0.90 0.08 0.03
Matches are distributed among these distances:
86 254 0.49
87 185 0.36
88 77 0.15
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (87 bp):
TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGGG
AATAAATCCCGAAACTAGATTT
Found at i:17257686 original size:173 final size:173
Alignment explanation
Indices: 17257194--17257847 Score: 929
Period size: 173 Copynumber: 3.8 Consensus size: 173
17257184 TGAACGACCA
* * * **
17257194 TATTT-ATTTTAATACTTGTTTGGAAATAAAATAAAAAAATAGAATAAAACCTGTTGAACGACAA
1 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAAATGGAATAAAATCTGTTGAACGACGG
* * * * *
17257258 AAATAAATCCCGAAA-TAAATTTTATTTAATTTTAATACTTGTTTCGAAACAAAATAAAAAATGG
66 GAATAAATCCTGAAACT-GATTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGG
* * * **
17257322 AATAAAATCTGTTAAACGTCAAGAATAAATCCCGAAACAAATTT
130 AATAAAATCTGTTGAACGGCGAGAATAAATCCCGAAACTGATTT
* * * *
17257366 TATTTAATTTTAATACTCGTTTAGAAACAAAAT-AAAAAATGGAATAAAATCTATTGAACGGCGG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAAATGGAATAAAATCTGTTGAACGACGG
* * * *
17257430 GAATAAAT-CTCAAAACTGATTTTTTTTTTAATTTTAATACTTGTTTGGAAATAAAATAAAAAAT
66 GAATAAATCCT-GAAACTGA--TTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAAT
* * * *
17257494 AGAATAAAATATTTTGAACGGCGGGAATAAATCCCGAAACTGATTT
128 GGAATAAAATCTGTTGAACGGCGAGAATAAATCCCGAAACTGATTT
* * *
17257540 TATTTAATTTTAATACTTGTTTGGAAATAAAATAAAAAAATGGAATAAAATCTTTTGAACGGCGG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAAATGGAATAAAATCTGTTGAACGACGG
* *
17257605 GAATAAATTCTGAAACTGATTTTATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAATGGA
66 GAATAAATCCTGAAACTGATTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGGA
* *
17257670 ATAAAATCTGTTGAACGGCGAGAATAGATCCCAAAACTGATTT
131 ATAAAATCTGTTGAACGGCGAGAATAAATCCCGAAACTGATTT
17257713 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAAATGGAATAAAATCTGTTGAACGACGG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAAATGGAATAAAATCTGTTGAACGACGG
*
17257778 GAATAAATCCTGAAACAGATTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGGA
66 GAATAAATCCTGAAACTGATTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGGA
17257843 ATAAA
131 ATAAA
17257848 TCTCGAAACA
Statistics
Matches: 431, Mismatches: 44, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
171 1 0.00
172 41 0.10
173 235 0.55
174 107 0.25
175 45 0.10
176 2 0.00
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (173 bp):
TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAAATGGAATAAAATCTGTTGAACGACGG
GAATAAATCCTGAAACTGATTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGGA
ATAAAATCTGTTGAACGGCGAGAATAAATCCCGAAACTGATTT
Found at i:17257984 original size:22 final size:21
Alignment explanation
Indices: 17257956--17257996 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
17257946 CATGTTAGCG
17257956 AACAAATATATAAATATAAACA
1 AACAAATAT-TAAATATAAACA
*
17257978 AACAAATATTATATATAAA
1 AACAAATATTAAATATAAA
17257997 ATAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (21 bp):
AACAAATATTAAATATAAACA
Found at i:17258734 original size:10 final size:9
Alignment explanation
Indices: 17258717--17258751 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
17258707 CCAATATATC
*
17258717 TCAAAATTT
1 TCAAAAATT
17258726 TCAAAAATT
1 TCAAAAATT
17258735 TCAAAAATT
1 TCAAAAATT
17258744 TCAAAAAT
1 TCAAAAAT
17258752 GACAATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (9 bp):
TCAAAAATT
Found at i:17259463 original size:30 final size:32
Alignment explanation
Indices: 17259410--17259469 Score: 81
Period size: 30 Copynumber: 1.9 Consensus size: 32
17259400 ATCAATTTTT
17259410 TAAATTTAAAAATTTAAAAAAAAT-TATTTAA
1 TAAATTTAAAAATTTAAAAAAAATATATTTAA
*
17259441 TAAA-TTAAAAA-TTATATAAAAATATATTT
1 TAAATTTAAAAATTTA-AAAAAAATATATTT
17259470 TTAAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 14 0.54
31 9 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (32 bp):
TAAATTTAAAAATTTAAAAAAAATATATTTAA
Found at i:17269913 original size:83 final size:83
Alignment explanation
Indices: 17269760--17269913 Score: 236
Period size: 83 Copynumber: 1.9 Consensus size: 83
17269750 AATTGATTTT
* * * * * *
17269760 TTTTCAATTTAGTCCTCTTATAAATAGAGAAATTATAAATTAATATATAATGAATTTGTACTTTG
1 TTTTCAATTCAATCCTCTTATAAATAAAGAAATTATAAATTAATATATAATAAAATTGTACTTTA
*
17269825 GCCCCCGAAAATAAAACA
66 ACCCCCGAAAATAAAACA
*
17269843 TTTTCAATTCAATCCTCTTATAAATAAAGAAATTATAAATTAATATATAGTAAAATTGTACTTTA
1 TTTTCAATTCAATCCTCTTATAAATAAAGAAATTATAAATTAATATATAATAAAATTGTACTTTA
17269908 ACCCCC
66 ACCCCC
17269914 CATAAAAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 63 1.00
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (83 bp):
TTTTCAATTCAATCCTCTTATAAATAAAGAAATTATAAATTAATATATAATAAAATTGTACTTTA
ACCCCCGAAAATAAAACA
Found at i:17278245 original size:23 final size:23
Alignment explanation
Indices: 17278213--17278293 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 23
17278203 CCTGGAATTT
*
17278213 AGAAAAAAAAATAACAGAAGAAA
1 AGAAAGAAAAATAACAGAAGAAA
* *
17278236 AGAAGGAAAAGAGAA-AGAAAGAAA
1 AGAAAGAAAA-ATAACAG-AAGAAA
*
17278260 TAGGGAGAAGAGAAATAACAGAAGAAA
1 -A--GA-AAGAAAAATAACAGAAGAAA
17278287 AGAAAGA
1 AGAAAGA
17278294 GAAGACAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
23 14 0.31
24 11 0.24
25 1 0.02
26 1 0.02
27 11 0.24
28 7 0.16
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.04
Consensus pattern (23 bp):
AGAAAGAAAAATAACAGAAGAAA
Found at i:17278281 original size:51 final size:51
Alignment explanation
Indices: 17278221--17278319 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
17278211 TTAGAAAAAA
* *
17278221 AAATAACAGAAGAAAAGAAGGAAAAGAGAAAGAAAGAAATAGGGAGAAGAG
1 AAATAACAGAAGAAAAGAAAGAAAAGACAAAGAAAGAAATAGGGAGAAGAG
*
17278272 AAATAACAGAAGAAAAGAAAGAGAAGACAAAGAAAGAAATAGGGAGAA
1 AAATAACAGAAGAAAAGAAAGAAAAGACAAAGAAAGAAATAGGGAGAA
17278320 AAAAATGTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.66, C:0.03, G:0.27, T:0.04
Consensus pattern (51 bp):
AAATAACAGAAGAAAAGAAAGAAAAGACAAAGAAAGAAATAGGGAGAAGAG
Found at i:17278305 original size:23 final size:24
Alignment explanation
Indices: 17278230--17278310 Score: 67
Period size: 24 Copynumber: 3.2 Consensus size: 24
17278220 AAAATAACAG
* * *
17278230 AAGAAAAGAAGGAAAAGAGAAAGA
1 AAGAAAAGAAAGAGAAGACAAAGA
*
17278254 AAGAAATAGGGAGAAGAGAA-ATAACAG-
1 AAGAAA-A--GA-AAGAGAAGACAA-AGA
17278281 AAGAAAAGAAAGAGAAGACAAAGA
1 AAGAAAAGAAAGAGAAGACAAAGA
17278305 AAGAAA
1 AAGAAA
17278311 TAGGGAGAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
23 9 0.20
24 17 0.37
25 1 0.02
26 1 0.02
27 11 0.24
28 7 0.15
ACGTcount: A:0.68, C:0.02, G:0.27, T:0.02
Consensus pattern (24 bp):
AAGAAAAGAAAGAGAAGACAAAGA
Found at i:17278318 original size:23 final size:23
Alignment explanation
Indices: 17278244--17278319 Score: 71
Period size: 23 Copynumber: 3.1 Consensus size: 23
17278234 AAAGAAGGAA
17278244 AAGAGAAAGAAAGAAATAGGGAG
1 AAGAGAAAGAAAGAAATAGGGAG
* * *
17278267 AAGAGAAATAACAGAAGAAAAGAAAGAG
1 AAGAGAAAGAA-AG-A-AATAG--GGAG
*
17278295 AAGACAAAGAAAGAAATAGGGAG
1 AAGAGAAAGAAAGAAATAGGGAG
17278318 AA
1 AA
17278320 AAAAATGTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
23 15 0.37
24 2 0.05
25 5 0.12
26 5 0.12
27 2 0.05
28 12 0.29
ACGTcount: A:0.64, C:0.03, G:0.29, T:0.04
Consensus pattern (23 bp):
AAGAGAAAGAAAGAAATAGGGAG
Found at i:17279128 original size:25 final size:25
Alignment explanation
Indices: 17279094--17279142 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
17279084 CATATAAGTA
17279094 ATCGTATAGTAGATTGAACACCATG
1 ATCGTATAGTAGATTGAACACCATG
17279119 ATCGTATAGTAGATTGAACACCAT
1 ATCGTATAGTAGATTGAACACCAT
17279143 ACTCTTCTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (25 bp):
ATCGTATAGTAGATTGAACACCATG
Found at i:17281975 original size:16 final size:16
Alignment explanation
Indices: 17281956--17281986 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17281946 TAAATTAAAT
*
17281956 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
17281972 AATTAAATAATTTTC
1 AATTAAATAATTTTC
17281987 TCAACTCGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:17281975 original size:24 final size:22
Alignment explanation
Indices: 17281932--17281983 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 22
17281922 CAAAATAAAT
*
17281932 ATAATAAATTAATTTAAATTAA
1 ATAATTAATTAATTTAAATTAA
*
17281954 ATAATTAATTAATTTTCCAATTAA
1 ATAATTAATTAA-TTT-AAATTAA
17281978 ATAATT
1 ATAATT
17281984 TTCTCAACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 11 0.42
23 3 0.12
24 12 0.46
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
ATAATTAATTAATTTAAATTAA
Found at i:17287091 original size:43 final size:43
Alignment explanation
Indices: 17287038--17287124 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
17287028 TTACGGGTTT
17287038 TGTTAATTGGTAAGAAAATAATAAGGAACAAAGAAGAGCGAAG
1 TGTTAATTGGTAAGAAAATAATAAGGAACAAAGAAGAGCGAAG
*
17287081 TGTTTATTGGTAAGAAAATAATAAGGAACAAAGAAGAGCGAAG
1 TGTTAATTGGTAAGAAAATAATAAGGAACAAAGAAGAGCGAAG
17287124 T
1 T
17287125 AATTAAACAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.49, C:0.05, G:0.25, T:0.21
Consensus pattern (43 bp):
TGTTAATTGGTAAGAAAATAATAAGGAACAAAGAAGAGCGAAG
Found at i:17289512 original size:13 final size:14
Alignment explanation
Indices: 17289488--17289518 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
17289478 AAACATATAT
17289488 AATAAAGTTATAAA
1 AATAAAGTTATAAA
17289502 AATAAAG-TATAAA
1 AATAAAGTTATAAA
17289515 AATA
1 AATA
17289519 TGTATAGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (14 bp):
AATAAAGTTATAAA
Found at i:17289563 original size:10 final size:10
Alignment explanation
Indices: 17289548--17289586 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
17289538 ATATATATAG
17289548 AAATAAATAA
1 AAATAAATAA
17289558 AAATAAATAA
1 AAATAAATAA
* *
17289568 AATAAAAATAT
1 AA-ATAAATAA
17289579 AAATAAAT
1 AAATAAAT
17289587 TATGTTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AAATAAATAA
Found at i:17289572 original size:15 final size:14
Alignment explanation
Indices: 17289548--17289585 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
17289538 ATATATATAG
17289548 AAATAAATAAAAAT
1 AAATAAATAAAAAT
17289562 AAATAAAATAAAAAT
1 AAAT-AAATAAAAAT
17289577 --ATAAATAAA
1 AAATAAATAAA
17289586 TTATGTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.30
13 2 0.09
14 4 0.17
15 10 0.43
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAATAAAAAT
Found at i:17289745 original size:10 final size:10
Alignment explanation
Indices: 17289706--17289747 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
17289696 ATATATTTGA
17289706 ATTATAAAAT
1 ATTATAAAAT
*
17289716 A-TATAAAAA
1 ATTATAAAAT
*
17289725 ACTATATAAAT
1 ATTATA-AAAT
17289736 ATTATAAAAT
1 ATTATAAAAT
17289746 AT
1 AT
17289748 AAATATAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 8 0.30
10 11 0.41
11 8 0.30
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (10 bp):
ATTATAAAAT
Found at i:17289752 original size:36 final size:36
Alignment explanation
Indices: 17289678--17289754 Score: 86
Period size: 36 Copynumber: 2.1 Consensus size: 36
17289668 ATGTACGTAT
* * * *
17289678 ATATATTAAAAAATGTATATATATTTGAATTATAAA
1 ATATATTAAAAAATATATAAATATTTAAAATATAAA
17289714 ATATA-TAAAAAACTATATAAATATTATAAAATAT-AA
1 ATATATTAAAAAA-TATATAAATATT-TAAAATATAAA
17289750 ATATA
1 ATATA
17289755 GTACGTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
35 7 0.20
36 22 0.63
37 6 0.17
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (36 bp):
ATATATTAAAAAATATATAAATATTTAAAATATAAA
Found at i:17290814 original size:17 final size:17
Alignment explanation
Indices: 17290792--17290828 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
17290782 CAGGGGCAGT
17290792 TGCTGCGACGTGGAGCG
1 TGCTGCGACGTGGAGCG
*
17290809 TGCTGCGACGTGGGGCG
1 TGCTGCGACGTGGAGCG
17290826 TGC
1 TGC
17290829 GGCGCCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.08, C:0.24, G:0.49, T:0.19
Consensus pattern (17 bp):
TGCTGCGACGTGGAGCG
Found at i:17293298 original size:17 final size:16
Alignment explanation
Indices: 17293273--17293304 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
17293263 TTGTGTACTC
17293273 TTTTTAAATGAGTTTT
1 TTTTTAAATGAGTTTT
17293289 TTTTTCAAATGAGTTT
1 TTTTT-AAATGAGTTT
17293305 CTCTTCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.59
Consensus pattern (16 bp):
TTTTTAAATGAGTTTT
Found at i:17298931 original size:13 final size:13
Alignment explanation
Indices: 17298913--17298978 Score: 54
Period size: 13 Copynumber: 5.5 Consensus size: 13
17298903 TAGATTTTTC
17298913 CTAAATATTATTA
1 CTAAATATTATTA
17298926 CTAAATA--ATT-
1 CTAAATATTATTA
* *
17298936 CTAGATATTATCA
1 CTAAATATTATTA
17298949 CTAAATA--ATT-
1 CTAAATATTATTA
* *
17298959 CTAATTATTATCA
1 CTAAATATTATTA
17298972 CTAAATA
1 CTAAATA
17298979 ATTCAAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
10 12 0.30
11 5 0.12
12 4 0.10
13 19 0.47
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (13 bp):
CTAAATATTATTA
Found at i:17298951 original size:23 final size:22
Alignment explanation
Indices: 17298916--17298982 Score: 107
Period size: 23 Copynumber: 3.0 Consensus size: 22
17298906 ATTTTTCCTA
*
17298916 AATATTATTACTAAATAATTCT
1 AATATTATCACTAAATAATTCT
17298938 AGATATTATCACTAAATAATTCT
1 A-ATATTATCACTAAATAATTCT
17298961 AATTATTATCACTAAATAATTC
1 AA-TATTATCACTAAATAATTC
17298983 AAAATTTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
22 2 0.05
23 40 0.95
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.42
Consensus pattern (22 bp):
AATATTATCACTAAATAATTCT
Found at i:17303366 original size:22 final size:22
Alignment explanation
Indices: 17303341--17303383 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17303331 GAAGTGTAAT
17303341 AAAATAAAATAAAAACAAATTCA
1 AAAATAAAA-AAAAACAAATTCA
* *
17303364 AAAATGAAAAAAAATAAATT
1 AAAATAAAAAAAAACAAATT
17303384 TAAGAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAATAAAAAAAAACAAATTCA
Found at i:17303413 original size:22 final size:20
Alignment explanation
Indices: 17303342--17303415 Score: 53
Period size: 22 Copynumber: 3.5 Consensus size: 20
17303332 AAGTGTAATA
* *
17303342 AAATAAAATAAAAACAAATTCAA
1 AAATAAAAT-AAAATAAATT--T
17303365 AAATGAAAA-AAAATAAATTT
1 AAAT-AAAATAAAATAAATTT
*
17303385 -AAGAAAATAAAATAAATTGGT
1 AAATAAAATAAAATAAATT--T
17303406 AAATAAAATA
1 AAATAAAATA
17303416 TTTTTAAGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
18 4 0.10
19 12 0.29
21 1 0.02
22 17 0.40
23 4 0.10
24 4 0.10
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (20 bp):
AAATAAAATAAAATAAATTT
Found at i:17310798 original size:39 final size:38
Alignment explanation
Indices: 17310720--17310798 Score: 97
Period size: 39 Copynumber: 2.1 Consensus size: 38
17310710 CTTGGAAGAG
* * *
17310720 AATATGTAGTGTATTAAATAATTATTATGATACGCAAA
1 AATATATAGTGTATTAAATAATTATTATAATAAGCAAA
*
17310758 AATATATAGTGTATTAATATCAA-TATTATAATAAGTAAA
1 AATATATAGTGTATTAA-AT-AATTATTATAATAAGCAAA
17310797 AA
1 AA
17310799 GCTTATATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 16 0.46
39 17 0.49
40 2 0.06
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (38 bp):
AATATATAGTGTATTAAATAATTATTATAATAAGCAAA
Found at i:17319346 original size:16 final size:17
Alignment explanation
Indices: 17319308--17319355 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
17319298 GAATTTTATG
* *
17319308 AAATTATATATCAGTATT
1 AAATTATAT-TTAATATT
17319326 AAATTATATTTAATATT
1 AAATTATATTTAATATT
*
17319343 -AATTATTTTTAAT
1 AAATTATATTTAAT
17319356 TGTATAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 12 0.44
17 6 0.22
18 9 0.33
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
AAATTATATTTAATATT
Found at i:17319396 original size:91 final size:94
Alignment explanation
Indices: 17319265--17319476 Score: 252
Period size: 92 Copynumber: 2.3 Consensus size: 94
17319255 TTGATTTTAG
* * * *
17319265 TAAATTCATATAAGAACATTTTATTATTAAAAAGAATTTTATGAAATTATATATCAGT-ATTAAA
1 TAAATTCATATAAGAA-AATTTATTATT-AAAAGAATTTTATGAAATTAAATATCAATCATAAAA
* * *
17319329 TTATATTTAAT-ATTAATTATTTTTAATTGTA
64 TTATATGTAATAATT-ATTATTTTAAATTATA
* *
17319360 TAAATTCATATAAGAAAATTTATTA-T-CAAGAATTTTATGAAATTAAATATTAATCATAAAATT
1 TAAATTCATATAAGAAAATTTATTATTAAAAGAATTTTATGAAATTAAATATCAATCATAAAATT
17319423 ATATGTAATAATTATTATTTTAAATTATA
66 ATATGTAATAATTATTATTTTAAATTATA
* * * *
17319452 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
17319477 GTTATAATTA
Statistics
Matches: 102, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
91 24 0.24
92 50 0.49
93 4 0.04
94 8 0.08
95 16 0.16
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (94 bp):
TAAATTCATATAAGAAAATTTATTATTAAAAGAATTTTATGAAATTAAATATCAATCATAAAATT
ATATGTAATAATTATTATTTTAAATTATA
Found at i:17319644 original size:16 final size:16
Alignment explanation
Indices: 17319623--17319665 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
17319613 TTATTAAATT
17319623 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
17319639 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
17319654 AT-TATGTTAATT
1 ATATATTTTAATT
17319666 TATATTTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:17319758 original size:18 final size:17
Alignment explanation
Indices: 17319730--17319764 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17319720 ATTATTAAGA
*
17319730 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
17319747 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
17319765 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:17319776 original size:120 final size:120
Alignment explanation
Indices: 17319492--17320021 Score: 910
Period size: 120 Copynumber: 4.4 Consensus size: 120
17319482 AATTATTTTA
* *
17319492 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTAT-AT
* *
17319554 TTTATAGTATCATATATTATGACTTGAGTAAATTCATATAAGAATATTAATTATT---
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
17319609 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
* * *
17319674 ACAATATTATATATTATGATTTGAATAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
17319729 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
17319794 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
17319849 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
17319914 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
17319969 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
17320022 TAAATATGAT
Statistics
Matches: 393, Mismatches: 14, Indels: 9
0.94 0.03 0.02
Matches are distributed among these distances:
116 6 0.02
117 98 0.25
118 2 0.01
120 287 0.73
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:17319889 original size:15 final size:15
Alignment explanation
Indices: 17319854--17319905 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
17319844 TTAAGAATTT
*
17319854 TATTAAATTAT-ATA
1 TATTTAATTATAATA
17319868 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
17319882 TATTTAATAATAAT-
1 TATTTAATTATAATA
17319896 TATGTTAATT
1 TAT-TTAATT
17319906 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:17319998 original size:18 final size:17
Alignment explanation
Indices: 17319970--17320004 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17319960 ATTATTAAGA
*
17319970 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
17319987 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
17320005 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:17323762 original size:66 final size:66
Alignment explanation
Indices: 17323656--17323786 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
17323646 CAAAAGGTTT
* *
17323656 TGGTAGTGTTGGCATTGGCATTAATAAAAGTTTGAGCTTACTATGAGTATAATTTGAACCCAAAT
1 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
17323721 G
66 G
* *
17323722 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATCTAATTTGAACTCAAAT
1 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
17323787 CACATTTGCG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.36
Consensus pattern (66 bp):
TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
G
Found at i:17324054 original size:16 final size:16
Alignment explanation
Indices: 17324027--17324060 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
17324017 ATTTTAGTAA
17324027 ATTATATAAGAATATTT
1 ATTATATAAGAAT-TTT
17324044 ATTAT-TAAGAATTTT
1 ATTATATAAGAATTTT
17324059 AT
1 AT
17324061 GAAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTATATAAGAATTTT
Found at i:17324089 original size:47 final size:47
Alignment explanation
Indices: 17324038--17324182 Score: 158
Period size: 47 Copynumber: 3.1 Consensus size: 47
17324028 TTATATAAGA
*
17324038 ATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
* **
17324085 ATATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATT
* * *
17324129 AAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
17324176 ATATTTA
1 ATATTTA
17324183 ATTAAAATAT
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
43 3 0.04
44 24 0.31
45 8 0.10
46 8 0.10
47 32 0.41
48 3 0.04
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (47 bp):
ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
Found at i:17324149 original size:44 final size:43
Alignment explanation
Indices: 17324024--17324150 Score: 123
Period size: 44 Copynumber: 2.8 Consensus size: 43
17324014 ATGATTTTAG
17324024 TAAATTATATAAGAATATTTATTATTAAGAATTTTATGAAATTATA
1 TAAATTATATAAGAATATTTATTATTAAGAA-TTT-T-AAATTATA
* * **
17324070 TATCATTAT-TAA-ATTATATTTAATATTAATTATTTTAAATTATA
1 TA-AATTATATAAGA--ATATTTATTATTAAGAATTTTAAATTATA
* *
17324114 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTA
1 TAAATT-ATATAAGAATATTTATTATTAAGAATTTTA
17324151 TGAAATTATA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
43 3 0.05
44 29 0.45
45 5 0.08
46 9 0.14
47 19 0.29
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (43 bp):
TAAATTATATAAGAATATTTATTATTAAGAATTTTAAATTATA
Found at i:17324355 original size:120 final size:118
Alignment explanation
Indices: 17324247--17324748 Score: 880
Period size: 120 Copynumber: 4.2 Consensus size: 118
17324237 TTTTCAAGTT
*
17324247 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
17324312 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT--A
17324367 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
17324432 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT--A
*
17324487 ATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
17324552 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT--A
17324607 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
17324672 TAATATAAGAATATTAA-TATTAAGAATTTTATTAAATTATATATTTTAATAAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAAT--TA
17324726 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
17324749 TAAATATGAT
Statistics
Matches: 373, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
119 57 0.15
120 316 0.85
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (118 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
Found at i:17324606 original size:18 final size:17
Alignment explanation
Indices: 17324578--17324612 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17324568 ATTATTAAGA
*
17324578 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
17324595 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
17324613 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:17324689 original size:14 final size:15
Alignment explanation
Indices: 17324670--17324698 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17324660 ATTTCAGTAA
17324670 ATTAATA-TAAGAAT
1 ATTAATATTAAGAAT
17324684 ATTAATATTAAGAAT
1 ATTAATATTAAGAAT
17324699 TTTATTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (15 bp):
ATTAATATTAAGAAT
Found at i:17324731 original size:16 final size:16
Alignment explanation
Indices: 17324710--17324751 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
17324700 TTATTAAATT
17324710 ATATATTTTAATAAAA
1 ATATATTTTAATAAAA
*
17324726 ATATA-TTTAATAATA
1 ATATATTTTAATAAAA
17324741 AT-TATGTTTAA
1 ATATAT-TTTAA
17324752 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATATTTTAATAAAA
Found at i:17324961 original size:44 final size:45
Alignment explanation
Indices: 17324896--17324986 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
17324886 ACCTCTATTC
* * *
17324896 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
17324940 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
17324985 CA
1 CA
17324987 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:17324988 original size:16 final size:17
Alignment explanation
Indices: 17324967--17325042 Score: 120
Period size: 17 Copynumber: 4.6 Consensus size: 17
17324957 GATTAGCTAT
17324967 TACACCTCTAAT-CCAA
1 TACACCTCTAATCCCAA
17324983 TACACCTCTAATCCCAA
1 TACACCTCTAATCCCAA
17325000 TACACCTCTAATCCCAA
1 TACACCTCTAATCCCAA
*
17325017 TACATCTCTAAT-CCAA
1 TACACCTCTAATCCCAA
*
17325033 TACATCTCTA
1 TACACCTCTA
17325043 TTCTGCAAAC
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
16 26 0.45
17 32 0.55
ACGTcount: A:0.36, C:0.37, G:0.00, T:0.28
Consensus pattern (17 bp):
TACACCTCTAATCCCAA
Found at i:17325009 original size:33 final size:33
Alignment explanation
Indices: 17324967--17325042 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
17324957 GATTAGCTAT
17324967 TACACCTCTAAT-CCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCCAATACACCTCTAAT-CCAA
*
17325000 TACACCTCTAATCCCAATACATCTCTAATCCAA
1 TACACCTCTAATCCCAATACACCTCTAATCCAA
*
17325033 TACATCTCTA
1 TACACCTCTA
17325043 TTCTGCAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
33 25 0.62
34 15 0.38
ACGTcount: A:0.36, C:0.37, G:0.00, T:0.28
Consensus pattern (33 bp):
TACACCTCTAATCCCAATACACCTCTAATCCAA
Found at i:17329833 original size:20 final size:20
Alignment explanation
Indices: 17329787--17329826 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17329777 TAAAAGTTTG
* *
17329787 TATTTTATTAATTTTTAATA
1 TATTTTATTAATTTTCAAAA
17329807 TATTTTATTAATTTTCAAAA
1 TATTTTATTAATTTTCAAAA
17329827 GTTTTTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTATTAATTTTCAAAA
Found at i:17334403 original size:16 final size:16
Alignment explanation
Indices: 17334382--17334415 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
17334372 ATCAAATTGA
*
17334382 TTTTAATTAATTAATT
1 TTTTAATTAAATAATT
17334398 TTTTAATTAAATAATT
1 TTTTAATTAAATAATT
17334414 TT
1 TT
17334416 CTCTACTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTAATTAAATAATT
Found at i:17335044 original size:24 final size:21
Alignment explanation
Indices: 17334993--17335048 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
17334983 TTTTGCTAGT
**
17334993 TTTTGTTGTTGTTTGATGTTA
1 TTTTGTTGTTGTTTGATGCCA
17335014 TTTTGTTGTTGTTTGATGCCA
1 TTTTGTTGTTGTTTGATGCCA
*
17335035 TTTTGATGTTGTTT
1 TTTTGTTGTTGTTT
17335049 TGTTTCCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.09, C:0.04, G:0.23, T:0.64
Consensus pattern (21 bp):
TTTTGTTGTTGTTTGATGCCA
Found at i:17336985 original size:76 final size:76
Alignment explanation
Indices: 17336901--17337076 Score: 255
Period size: 76 Copynumber: 2.3 Consensus size: 76
17336891 TGCATATAAA
** * ** * *
17336901 GGGGTTGCTGTGTGCTGATTCCCCTATTCA-TTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
1 GGGGTTGCTAAGTGCTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATCT
*
17336965 TAAATCTGAAAG
66 GAAATCTG-AAG
17336977 GGGGTTGCTAAGTGCTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATCT
1 GGGGTTGCTAAGTGCTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATCT
*
17337042 GAAATGTGAAG
66 GAAATCTGAAG
17337053 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
17337077 CAAGGGGTTG
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
76 52 0.58
77 38 0.42
ACGTcount: A:0.18, C:0.21, G:0.28, T:0.32
Consensus pattern (76 bp):
GGGGTTGCTAAGTGCTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATCT
GAAATCTGAAG
Found at i:17339854 original size:27 final size:27
Alignment explanation
Indices: 17339824--17339882 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
17339814 GTAATCACAA
* *
17339824 GGTAGTCTACCGGGATAGTAAACACGG
1 GGTAGTCTACCAGGATAATAAACACGG
* **
17339851 GGTAGTTTGTCAGGATAATAAACACGG
1 GGTAGTCTACCAGGATAATAAACACGG
17339878 GGTAG
1 GGTAG
17339883 CTCGTCAAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.22
Consensus pattern (27 bp):
GGTAGTCTACCAGGATAATAAACACGG
Found at i:17339889 original size:27 final size:27
Alignment explanation
Indices: 17339836--17339889 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
17339826 TAGTCTACCG
* * *
17339836 GGATAGTAAACACGGGGTAGTTTGTCA
1 GGATAATAAACACGGGGTAGCTCGTCA
17339863 GGATAATAAACACGGGGTAGCTCGTCA
1 GGATAATAAACACGGGGTAGCTCGTCA
17339890 AGACATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.22
Consensus pattern (27 bp):
GGATAATAAACACGGGGTAGCTCGTCA
Found at i:17339899 original size:27 final size:27
Alignment explanation
Indices: 17339842--17339901 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
17339832 ACCGGGATAG
* * * *
17339842 TAAACACGGGGTAGTTTGTCAGGATAA
1 TAAACACGGGGTAGCTCGTCAAGACAA
*
17339869 TAAACACGGGGTAGCTCGTCAAGACAT
1 TAAACACGGGGTAGCTCGTCAAGACAA
17339896 TAAACA
1 TAAACA
17339902 TTAGGTTACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (27 bp):
TAAACACGGGGTAGCTCGTCAAGACAA
Found at i:17342023 original size:28 final size:28
Alignment explanation
Indices: 17341992--17342052 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
17341982 ATTTTCCTCT
*
17341992 ACTCTCATCATAGCAGTCATTCTCCTTC
1 ACTCTCATCACAGCAGTCATTCTCCTTC
* *
17342020 ACTCTCTTCACAGCAGTCGTTCTCCTTC
1 ACTCTCATCACAGCAGTCATTCTCCTTC
17342048 -CTCTC
1 ACTCTC
17342053 TGTCCATCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.16, C:0.39, G:0.08, T:0.36
Consensus pattern (28 bp):
ACTCTCATCACAGCAGTCATTCTCCTTC
Found at i:17344946 original size:21 final size:21
Alignment explanation
Indices: 17344922--17344961 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17344912 GCCTAAGATG
*
17344922 TGAATTGGATTGAATTGAGTA
1 TGAATTGGATTAAATTGAGTA
*
17344943 TGAATTGTATTAAATTGAG
1 TGAATTGGATTAAATTGAG
17344962 CTAAATTTTC
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:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (21 bp):
TGAATTGGATTAAATTGAGTA
Found at i:17345131 original size:21 final size:21
Alignment explanation
Indices: 17345090--17345131 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
17345080 TAAATTATGT
*
17345090 ATGTTTATATGTTTAAATTTA
1 ATGTTTATATGTTGAAATTTA
*
17345111 ATGTTGTATATG-TGAATTTTA
1 ATGTT-TATATGTTGAAATTTA
17345132 TGAATGCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (21 bp):
ATGTTTATATGTTGAAATTTA
Found at i:17345834 original size:24 final size:25
Alignment explanation
Indices: 17345781--17345828 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
17345771 TTGGCCCTCT
* *
17345781 CGAGCTTCCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGCTCTTG
17345806 CGAGCTTCCCGTTA-ATAGCTCTT
1 CGAGCTTCCCGTTATATAGCTCTT
17345829 CGGAGCATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.38
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGCTCTTG
Found at i:17346182 original size:27 final size:24
Alignment explanation
Indices: 17346135--17346198 Score: 56
Period size: 27 Copynumber: 2.5 Consensus size: 24
17346125 TGGCTCATAT
* *
17346135 GAGCTTCCCGTTTTATGGCTCGAGAG
1 GAGCTTCCCG-ATAATGGCTCGA-AG
*
17346161 AGAGCTTCCCGATAATGTGCTCTAAG
1 -GAGCTTCCCGATAATG-GCTCGAAG
17346187 GAGCTCTCCCGA
1 GAGCT-TCCCGA
17346199 ATATGAATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 5 0.16
26 12 0.38
27 15 0.47
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (24 bp):
GAGCTTCCCGATAATGGCTCGAAG
Found at i:17349726 original size:23 final size:25
Alignment explanation
Indices: 17349692--17349745 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
17349682 GAAAATGACT
17349692 AAAT-TGAAAAG-T-TGAAATAATA
1 AAATATGAAAAGTTATGAAATAATA
* *
17349714 AAATATGACAAGTTAATTAAATAATA
1 AAATATGAAAAGTT-ATGAAATAATA
17349740 AAATAT
1 AAATAT
17349746 CATCTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 4 0.15
23 6 0.23
24 1 0.04
26 15 0.58
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (25 bp):
AAATATGAAAAGTTATGAAATAATA
Found at i:17350582 original size:17 final size:17
Alignment explanation
Indices: 17350562--17350594 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17350552 GTTGTGGTCA
17350562 TGCTTATGTTGCGGACC
1 TGCTTATGTTGCGGACC
*
17350579 TGCTTATGTTGTGGAC
1 TGCTTATGTTGCGGAC
17350595 ACACCATAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.18, G:0.30, T:0.39
Consensus pattern (17 bp):
TGCTTATGTTGCGGACC
Found at i:17358296 original size:3 final size:3
Alignment explanation
Indices: 17358288--17358321 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
17358278 TTTCAACCTT
17358288 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
17358322 CTTTTCATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:17359272 original size:7 final size:6
Alignment explanation
Indices: 17359247--17359282 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
17359237 AATACCCTCC
17359247 TTTTCT TTTTCT TTTTCT TTTATCT TTTATCT TTTT
1 TTTTCT TTTTCT TTTTCT TTT-TCT TTT-TCT TTTT
17359283 TTCTCTCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 16 0.55
7 13 0.45
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTCT
Found at i:17360261 original size:29 final size:27
Alignment explanation
Indices: 17360222--17360278 Score: 62
Period size: 29 Copynumber: 2.0 Consensus size: 27
17360212 GAGAAATTAA
*
17360222 AAATAATAATA-ATATTATGTTTTAAAT
1 AAATAATAATACA-ATTATATTTTAAAT
*
17360249 AAATAAATAAATACAATTTTATTTTAAAT
1 AAAT-AAT-AATACAATTATATTTTAAAT
17360278 A
1 A
17360279 TGATATAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 4 0.16
28 3 0.12
29 17 0.68
30 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (27 bp):
AAATAATAATACAATTATATTTTAAAT
Found at i:17369346 original size:11 final size:11
Alignment explanation
Indices: 17369326--17369355 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
17369316 ATAATAAATA
17369326 AAAAAGTATTTT
1 AAAAA-TATTTT
17369338 AAAAATATTTT
1 AAAAATATTTT
17369349 AAAAATA
1 AAAAATA
17369356 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:17371315 original size:22 final size:20
Alignment explanation
Indices: 17371277--17371316 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
17371267 TGATAATCTA
17371277 GATTTTAGAGAGATTTAAGT
1 GATTTTAGAGAGATTTAAGT
*
17371297 GATTTATAGATGATATTTAA
1 GATTT-TAGA-GAGATTTAA
17371317 AGAGAGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 4 0.24
22 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (20 bp):
GATTTTAGAGAGATTTAAGT
Found at i:17376496 original size:16 final size:18
Alignment explanation
Indices: 17376452--17376491 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
17376442 CTAAAGTTTA
*
17376452 TTGATAATTATTATATAGT
1 TTGATAAATA-TATATAGT
17376471 TTGATAAATATATATA-T
1 TTGATAAATATATATAGT
17376488 TTGA
1 TTGA
17376492 GAATACTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 6 0.30
19 9 0.45
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (18 bp):
TTGATAAATATATATAGT
Found at i:17380028 original size:14 final size:14
Alignment explanation
Indices: 17379990--17380032 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
17379980 CAAAATGTAC
17379990 AATATAATTAAA-T
1 AATATAATTAAATT
17380003 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
17380018 AA-ATAATTTAATT
1 AATATAATTAAATT
17380031 AA
1 AA
17380033 CTATTTACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:17382837 original size:24 final size:24
Alignment explanation
Indices: 17382809--17382898 Score: 67
Period size: 24 Copynumber: 3.5 Consensus size: 24
17382799 GATTCTTCTT
*
17382809 TAAATTTTTGGGCTCTTTCATTTA
1 TAAATATTTGGGCTCTTTCATTTA
*
17382833 TAAATATTTGGGTCATGCAAGATTT--TTCTT
1 TAAATATTTGGG-C-T-C----TTTCATT-TA
*
17382863 TAAATTTTTGGGCTCTTTCATTTA
1 TAAATATTTGGGCTCTTTCATTTA
17382887 TAAATATTTGGG
1 TAAATATTTGGG
17382899 TCATGCAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 20
0.67 0.07 0.26
Matches are distributed among these distances:
23 3 0.06
24 23 0.45
25 3 0.06
26 1 0.02
27 2 0.04
28 1 0.02
29 3 0.06
30 12 0.24
31 3 0.06
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.50
Consensus pattern (24 bp):
TAAATATTTGGGCTCTTTCATTTA
Found at i:17382866 original size:54 final size:54
Alignment explanation
Indices: 17382774--17382941 Score: 300
Period size: 54 Copynumber: 3.1 Consensus size: 54
17382764 CTAATATGAG
17382774 TTTATAAATATTTGGGTCAATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCA
1 TTTATAAATATTTGGGTC-ATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCA
*
17382829 TTTATAAATATTTGGGTCATGCAAGATTTTTCTTTAAATTTTTGGGCTCTTTCA
1 TTTATAAATATTTGGGTCATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCA
* *
17382883 TTTATAAATATTTGGGTCATGCAATATTCTTCTTTAAATTTTTGGGCTTTTTCA
1 TTTATAAATATTTGGGTCATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCA
17382937 TTTAT
1 TTTAT
17382942 TGTTTCTAAA
Statistics
Matches: 109, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
54 91 0.83
55 18 0.17
ACGTcount: A:0.24, C:0.11, G:0.14, T:0.51
Consensus pattern (54 bp):
TTTATAAATATTTGGGTCATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCA
Found at i:17383100 original size:24 final size:23
Alignment explanation
Indices: 17383073--17383148 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 23
17383063 TTCATTGGAA
17383073 ATTTAACTATAAAGTACATGTCAT
1 ATTTAACTATAAAGTACAT-TCAT
* * * *
17383097 ATTTAACTATAAATTTCATTGGAA
1 ATTTAACTATAAAGTACATT-CAT
*
17383121 ATTTAACTATAAAGTACATTTAT
1 ATTTAACTATAAAGTACATTCAT
17383144 ATTTA
1 ATTTA
17383149 CTCAAGGGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
23 7 0.16
24 36 0.84
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (23 bp):
ATTTAACTATAAAGTACATTCAT
Found at i:17386780 original size:49 final size:49
Alignment explanation
Indices: 17386701--17386828 Score: 127
Period size: 49 Copynumber: 2.6 Consensus size: 49
17386691 TACATATGCA
* * * *
17386701 TATTTTTATAATTTATCTATATATAC-ATATATGTGCCTATATACAT-TTT
1 TATTTTCATAA-TTATATATATAT-CTATATATATGCCTATAAACATATTT
* **
17386750 TATATTTCATAATTATATATATATCTATATATATGTCTATAAATGTATTT
1 TAT-TTTCATAATTATATATATATCTATATATATGCCTATAAACATATTT
* *
17386800 TATTTTCATAAATATATATAT-TCTTTATA
1 TATTTTCATAATTATATATATATCTATATA
17386829 CTTTTTAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
48 8 0.12
49 46 0.69
50 13 0.19
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (49 bp):
TATTTTCATAATTATATATATATCTATATATATGCCTATAAACATATTT
Found at i:17386826 original size:25 final size:25
Alignment explanation
Indices: 17386739--17386861 Score: 80
Period size: 25 Copynumber: 5.0 Consensus size: 25
17386729 ATATGTGCCT
* *
17386739 ATATACATT-TTTATATTTCATAATT
1 ATATATATTCTTTATATTTCATAA-A
* *
17386764 ATATATATATCTATATATATGTC-TATA
1 ATATATAT-TCT-T-TATATTTCATAAA
*
17386791 A-ATGTA-T-TTTAT-TTTCATAAA
1 ATATATATTCTTTATATTTCATAAA
*
17386812 TATATATATTCTTTATACTTT-TTAAA
1 -ATATATATTCTTTATA-TTTCATAAA
*
17386838 ATGTATATTCTTTATATTTCATAA
1 ATATATATTCTTTATATTTCATAA
17386862 TTCGTATATA
Statistics
Matches: 75, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
20 3 0.04
21 6 0.08
22 2 0.03
23 5 0.07
24 5 0.07
25 30 0.40
26 9 0.12
27 5 0.07
28 3 0.04
29 7 0.09
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (25 bp):
ATATATATTCTTTATATTTCATAAA
Found at i:17386990 original size:19 final size:19
Alignment explanation
Indices: 17386968--17387009 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
17386958 TAATCGTAAA
*
17386968 ATATGTGAATATATTTTTC
1 ATATGTCAATATATTTTTC
* *
17386987 ATATTTCTATATATTTTTC
1 ATATGTCAATATATTTTTC
17387006 ATAT
1 ATAT
17387010 TTCCATAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (19 bp):
ATATGTCAATATATTTTTC
Found at i:17387010 original size:19 final size:19
Alignment explanation
Indices: 17386976--17387021 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
17386966 AAATATGTGA
*
17386976 ATATATTTTTCATATTTCT
1 ATATATTTTTCATATTTCC
17386995 ATATATTTTTCATATTTCC
1 ATATATTTTTCATATTTCC
17387014 ATA-ATTTT
1 ATATATTTT
17387022 ATACACATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATATTTTTCATATTTCC
Found at i:17388190 original size:12 final size:12
Alignment explanation
Indices: 17388169--17388197 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17388159 GAACCACACA
17388169 TTTT-ATTTAAC
1 TTTTCATTTAAC
17388180 TTTTCATTTAAC
1 TTTTCATTTAAC
17388192 TTTTCA
1 TTTTCA
17388198 ACTTTTTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTCATTTAAC
Found at i:17390640 original size:14 final size:14
Alignment explanation
Indices: 17390621--17390650 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17390611 TAAAACCGAA
*
17390621 TATACATATGTATT
1 TATACATATGCATT
17390635 TATACATATGCATT
1 TATACATATGCATT
17390649 TA
1 TA
17390651 AATGTCAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (14 bp):
TATACATATGCATT
Found at i:17391307 original size:41 final size:41
Alignment explanation
Indices: 17391262--17391357 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
17391252 ACCGACAATT
** * *
17391262 AGCCTGCTAGACTTAAAGTCCGAATTATTTCACTGGTATTA
1 AGCCTGCTAGACTTAAAGTCCGAATTACATCACCGGCATTA
* * * *
17391303 AGCCTGCTGGACATAAAGTCTGAATTACATCACCGGCCTTA
1 AGCCTGCTAGACTTAAAGTCCGAATTACATCACCGGCATTA
17391344 AGCCTGCTAGACTT
1 AGCCTGCTAGACTT
17391358 TAAGCCTGAA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCCGAATTACATCACCGGCATTA
Found at i:17393022 original size:13 final size:13
Alignment explanation
Indices: 17393004--17393028 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17392994 TCAAACGATC
17393004 AAATTTTCACACG
1 AAATTTTCACACG
17393017 AAATTTTCACAC
1 AAATTTTCACAC
17393029 ATATAACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:17394807 original size:22 final size:22
Alignment explanation
Indices: 17394782--17394834 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
17394772 TTTTTTAAAT
* *
17394782 AATAATTACTCTAATT-AAGTGA
1 AATAATTAAT-TAATTAAAATGA
*
17394804 AATATTTAATTAATTAAAATGA
1 AATAATTAATTAATTAAAATGA
17394826 AATAATTAA
1 AATAATTAA
17394835 ATGGGTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.38
Consensus pattern (22 bp):
AATAATTAATTAATTAAAATGA
Found at i:17398214 original size:36 final size:36
Alignment explanation
Indices: 17398162--17398253 Score: 166
Period size: 36 Copynumber: 2.6 Consensus size: 36
17398152 CATTTCGTGA
*
17398162 TCATAAAAAGACTATATAATGAACTCAATAGCAGTG
1 TCATGAAAAGACTATATAATGAACTCAATAGCAGTG
17398198 TCATGAAAAGACTATATAATGAACTCAATAGCAGTG
1 TCATGAAAAGACTATATAATGAACTCAATAGCAGTG
*
17398234 TCATGAAAATACTATATAAT
1 TCATGAAAAGACTATATAAT
17398254 AGCAGTGGGT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (36 bp):
TCATGAAAAGACTATATAATGAACTCAATAGCAGTG
Found at i:17398834 original size:15 final size:15
Alignment explanation
Indices: 17398811--17398867 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
17398801 TTATACTACA
*
17398811 AAAACATTTATTATT
1 AAAATATTTATTATT
*
17398826 AAAATATTTATAATTGT
1 AAAATATTTATTA-T-T
17398843 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
17398860 AAAATATT
1 AAAATATT
17398868 AATATTGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
15 18 0.51
16 2 0.06
17 2 0.06
18 2 0.06
19 11 0.31
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:17398865 original size:19 final size:19
Alignment explanation
Indices: 17398827--17398865 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
17398817 TTTATTATTA
**
17398827 AAATATTTATAATTGTAAT
1 AAATATTTATAATTAAAAT
*
17398846 AAATATTTATTATTAAAAT
1 AAATATTTATAATTAAAAT
17398865 A
1 A
17398866 TTAATATTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
AAATATTTATAATTAAAAT
Found at i:17403183 original size:13 final size:13
Alignment explanation
Indices: 17403165--17403243 Score: 71
Period size: 13 Copynumber: 6.5 Consensus size: 13
17403155 AATTTTGACT
17403165 TATTTAGTGATAA
1 TATTTAGTGATAA
*
17403178 TATTTA--GA-AT
1 TATTTAGTGATAA
17403188 TATTTAGTGATAA
1 TATTTAGTGATAA
* *
17403201 TATTTAATAATAA
1 TATTTAGTGATAA
*
17403214 TATTTA--GA-AT
1 TATTTAGTGATAA
*
17403224 TATTTAATGATAA
1 TATTTAGTGATAA
17403237 TATTTAG
1 TATTTAG
17403244 GAAAATCTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
10 14 0.27
11 3 0.06
12 4 0.08
13 31 0.60
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:17403206 original size:36 final size:36
Alignment explanation
Indices: 17403165--17403243 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
17403155 AATTTTGACT
* *
17403165 TATTTAGTGATAATATTTAGAATTATTTAGTGATAA
1 TATTTAGTAATAATATTTAGAATTATTTAATGATAA
*
17403201 TATTTAATAATAATATTTAGAATTATTTAATGATAA
1 TATTTAGTAATAATATTTAGAATTATTTAATGATAA
17403237 TATTTAG
1 TATTTAG
17403244 GAAAATCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (36 bp):
TATTTAGTAATAATATTTAGAATTATTTAATGATAA
Found at i:17403974 original size:7 final size:7
Alignment explanation
Indices: 17403956--17404004 Score: 91
Period size: 7 Copynumber: 7.1 Consensus size: 7
17403946 TTCCAAGGCC
17403956 CTTTCC-
1 CTTTCCA
17403962 CTTTCCA
1 CTTTCCA
17403969 CTTTCCA
1 CTTTCCA
17403976 CTTTCCA
1 CTTTCCA
17403983 CTTTCCA
1 CTTTCCA
17403990 CTTTCCA
1 CTTTCCA
17403997 CTTTCCA
1 CTTTCCA
17404004 C
1 C
17404005 AATTTCATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 6 0.14
7 36 0.86
ACGTcount: A:0.12, C:0.45, G:0.00, T:0.43
Consensus pattern (7 bp):
CTTTCCA
Found at i:17404912 original size:95 final size:95
Alignment explanation
Indices: 17404780--17404967 Score: 331
Period size: 95 Copynumber: 2.0 Consensus size: 95
17404770 GTTTGGATGG
* *
17404780 GCGATTGGGTGCGGTACGGTGCTTTTAGCTTACTTTTTGTCTCACGCTACAGTACCGCTACAGTA
1 GCGATTGGGTGCGGTACGATGCGTTTAGCTTACTTTTTGTCTCACGCTACAGTACCGCTACAGTA
*
17404845 TCTAATCTCACTGCCACCGCTGTTTTTATA
66 TCTAATCTCACCGCCACCGCTGTTTTTATA
*
17404875 GCGATTGGGTGCGGTACGATGCGTTTAGCTTACTTTTTGTCTCACGCTACAGTATCGCTACAGTA
1 GCGATTGGGTGCGGTACGATGCGTTTAGCTTACTTTTTGTCTCACGCTACAGTACCGCTACAGTA
*
17404940 TCTAATCTCACCGCCATCGCTGTTTTTA
66 TCTAATCTCACCGCCACCGCTGTTTTTA
17404968 CACTAACCGC
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 88 1.00
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (95 bp):
GCGATTGGGTGCGGTACGATGCGTTTAGCTTACTTTTTGTCTCACGCTACAGTACCGCTACAGTA
TCTAATCTCACCGCCACCGCTGTTTTTATA
Found at i:17413120 original size:18 final size:18
Alignment explanation
Indices: 17413094--17413128 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17413084 ACTCAACGTC
17413094 GTGACGAATACGGAAGAT
1 GTGACGAATACGGAAGAT
*
17413112 GTGATGAATACGGAAGA
1 GTGACGAATACGGAAGA
17413129 GCATTCACGA
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:0.09, G:0.34, T:0.17
Consensus pattern (18 bp):
GTGACGAATACGGAAGAT
Found at i:17414006 original size:13 final size:13
Alignment explanation
Indices: 17413972--17414023 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
17413962 AGGAGAGTCC
17413972 ATTAGATTAATTTA
1 ATTAG-TTAATTTA
*
17413986 GGTTAGTTAATTTA
1 -ATTAGTTAATTTA
*
17414000 ATTAGTTAATTAA
1 ATTAGTTAATTTA
*
17414013 AATA-TTAATTT
1 ATTAGTTAATTT
17414024 GGGTTCGCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
12 6 0.19
13 14 0.44
14 8 0.25
15 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (13 bp):
ATTAGTTAATTTA
Found at i:17414453 original size:31 final size:31
Alignment explanation
Indices: 17414382--17414453 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
17414372 TATAAAGTTT
* * *
17414382 TGGACAAGTTCAGGTACCAACTAGGTACTTT
1 TGGACAAGTTCAAGTACCAACTAAGTACTTC
** *
17414413 TGGGTAAGTTCAAGTACTAACTAAGTACTTC
1 TGGACAAGTTCAAGTACCAACTAAGTACTTC
17414444 TGGACAAGTT
1 TGGACAAGTT
17414454 AAAAGGGCAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (31 bp):
TGGACAAGTTCAAGTACCAACTAAGTACTTC
Found at i:17417901 original size:20 final size:20
Alignment explanation
Indices: 17417876--17417915 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17417866 CGATGCCAGC
17417876 CATACATGTATTATACGCAT
1 CATACATGTATTATACGCAT
17417896 CATACATGTATTATACGCAT
1 CATACATGTATTATACGCAT
17417916 ATTTAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
CATACATGTATTATACGCAT
Found at i:17435500 original size:24 final size:24
Alignment explanation
Indices: 17435420--17435501 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
17435410 AGCTCGAAAG
17435420 AGCATCCCGTT-ATAAGCTCTCTC-A
1 AGCATCCCGTTAAT-AGCTCT-TCGA
* * * *
17435444 AGCTTCCCATTATATGGTTCTT-GA
1 AGCATCCCGTTA-ATAGCTCTTCGA
*
17435468 GAGCTTCCCGTTAATAGCTCTTCGA
1 -AGCATCCCGTTAATAGCTCTTCGA
17435493 AGCATCCCG
1 AGCATCCCG
17435502 ATCGGTCGTG
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
24 26 0.58
25 17 0.38
26 2 0.04
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.32
Consensus pattern (24 bp):
AGCATCCCGTTAATAGCTCTTCGA
Found at i:17453942 original size:24 final size:24
Alignment explanation
Indices: 17453915--17453961 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
17453905 TTTTTATAAT
* *
17453915 TTTTTTAGATTTTAAATATTTTTA
1 TTTTCTAGATTTTAAAAATTTTTA
*
17453939 TTTTCTATATTTTAAAAATTTTT
1 TTTTCTAGATTTTAAAAATTTTT
17453962 CATTGACATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTTCTAGATTTTAAAAATTTTTA
Found at i:17459001 original size:17 final size:17
Alignment explanation
Indices: 17458971--17459004 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17458961 AAAAAATAAA
*
17458971 AATAAAATATTTATATT
1 AATAAAATAATTATATT
*
17458988 AATAAGATAATTATATT
1 AATAAAATAATTATATT
17459005 TGAAACTCAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
AATAAAATAATTATATT
Found at i:17461516 original size:35 final size:33
Alignment explanation
Indices: 17461419--17461531 Score: 101
Period size: 35 Copynumber: 3.5 Consensus size: 33
17461409 TAGATGTGTA
*
17461419 TATATATACTAT-AAAA-A-GTATGTATATA--
1 TATATATATTATAAAAATATGTATGTATATATG
* * **
17461447 TATAAATGAGTTATAAAAATATGTACGTGCATATG
1 TATATAT-A-TTATAAAAATATGTATGTATATATG
17461482 TATATATATTATAAAAATGTATGTATGTATATATG
1 TATATATATTATAAAAA--TATGTATGTATATATG
*
17461517 TATATAAATTATAAA
1 TATATATATTATAAA
17461532 GTATAAAAGT
Statistics
Matches: 66, Mismatches: 10, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
28 6 0.09
29 1 0.02
30 3 0.05
31 4 0.06
32 1 0.02
33 17 0.26
34 1 0.02
35 33 0.50
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.40
Consensus pattern (33 bp):
TATATATATTATAAAAATATGTATGTATATATG
Found at i:17461535 original size:16 final size:17
Alignment explanation
Indices: 17461509--17461552 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
17461499 TGTATGTATG
*
17461509 TATATATGTATATAAA-T
1 TATATAAGTATA-AAAGT
17461526 TATA-AAGTATAAAAGT
1 TATATAAGTATAAAAGT
17461542 TATATAAGTAT
1 TATATAAGTAT
17461553 GTATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.12
16 11 0.46
17 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (17 bp):
TATATAAGTATAAAAGT
Found at i:17461652 original size:3 final size:3
Alignment explanation
Indices: 17461638--17461756 Score: 59
Period size: 3 Copynumber: 38.7 Consensus size: 3
17461628 TAAATGGGTA
* * *
17461638 AAT AAA AAT AAT AAT AGT AAGGT AAGT AAGT AAT AAT AA- ATAC AAT
1 AAT AAT AAT AAT AAT AAT AA--T AA-T AA-T AAT AAT AAT A-AT AAT
* * *
17461684 AAT AAT GAT AAT AAT AAT AA- ATAT AAT AAT GAT AA- AACT AATT AGT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA-T AA-T AAT
* *
17461730 -TT GAT AAT AAT AA- AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17461757 CGGGACTAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
2 7 0.08
3 68 0.74
4 14 0.15
5 3 0.03
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:17461699 original size:24 final size:24
Alignment explanation
Indices: 17461668--17461718 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
17461658 GGTAAGTAAG
*
17461668 TAATAATAAATACA-ATAATAATGA
1 TAATAAT-AATAAATATAATAATGA
17461692 TAATAATAATAAATATAATAATGA
1 TAATAATAATAAATATAATAATGA
17461716 TAA
1 TAA
17461719 AACTAATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (24 bp):
TAATAATAATAAATATAATAATGA
Found at i:17463489 original size:44 final size:44
Alignment explanation
Indices: 17463441--17463773 Score: 157
Period size: 44 Copynumber: 7.8 Consensus size: 44
17463431 GTTTTAGTCC
* *
17463441 GCTCCACTACAACTTCAGGGAGATAGGA-TTGATTTCTTCTGTAT
1 GCTCCACTACAACTTCAGGGAGATAAGACTTGATTT-TTCTGTCT
** *
17463485 GCTCCACTACTGCTT-AGGGAGATAAGACTTGA---TGC-GATCT
1 GCTCCACTACAACTTCAGGGAGATAAGACTTGATTTTTCTG-TCT
* * ** * *
17463525 GCTCTACTGCAACTTCAGAAAGATAAGATTTG-TGGTTTT-AGT-T
1 GCTCCACTACAACTTCAGGGAGATAAGACTTGAT--TTTTCTGTCT
* *
17463568 CGCTACACTACAACTTCAGGGAGATAGGA-TTGATTTCTTCTGTCT
1 -GCTCCACTACAACTTCAGGGAGATAAGACTTGATTT-TTCTGTCT
*** *
17463613 GCTCCACTAGTGCTT-AGGGAGATAAGACTTGA---TGC-GATCT
1 GCTCCACTACAACTTCAGGGAGATAAGACTTGATTTTTCTG-TCT
* * * * *
17463653 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTG-GTTTT-AGTCCT
1 GCTCCACTACAACTTCAGGGAGATAAGA-CT-TGATTTTTCTGT-CT
* * * *
17463698 -CTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCTTCTGTCC
1 GCTCCACTACAACTTCAGGGAGATAAGACTTGATTT-TTCTGTCT
* ***
17463741 GCTCAACTATTTCTT-AGGGAGATAAGACTTGAT
1 GCTCCACTACAACTTCAGGGAGATAAGACTTGAT
17463774 GCGATCTGCT
Statistics
Matches: 214, Mismatches: 46, Indels: 58
0.67 0.14 0.18
Matches are distributed among these distances:
39 2 0.01
40 30 0.14
41 26 0.12
42 7 0.03
43 44 0.21
44 98 0.46
45 7 0.03
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (44 bp):
GCTCCACTACAACTTCAGGGAGATAAGACTTGATTTTTCTGTCT
Found at i:17463600 original size:128 final size:128
Alignment explanation
Indices: 17463367--17463855 Score: 773
Period size: 128 Copynumber: 3.8 Consensus size: 128
17463357 AGGATTAGTA
* * *
17463367 GCTTCAGGGAGATAAAACTGGATGCGATCTACTCTACTGCAACTTCAGATG-GATAAGATCTGTG
1 GCTT-AGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGA-GAGATAAGATCTGTG
*
17463431 GTTTTAGTCCGCTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTCTGTATGCTCCACTACT
64 GTTTTAGTCCGCTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACT
* *
17463496 GCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAAAGATAAGATTTGTGGT
1 GCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
* * *
17463561 TTTAGTTCGCTACACTACAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTAGT
66 TTTAGTCCGCTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACT
17463624 GCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
1 GCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
* * * * * *
17463689 TTTAGTCCTCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCCGCTCAACTATT
66 TTTAGTCCGCTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACT
* *
17463752 TCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGT
1 GCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
* * *
17463817 TTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTG
66 TTTAGTCCGCTCCACTACAACTTCAGGGAGATAGGATTG
17463856 TAGCTTTACT
Statistics
Matches: 335, Mismatches: 24, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
128 331 0.99
129 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (128 bp):
GCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
TTTAGTCCGCTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACT
Found at i:17470119 original size:4 final size:4
Alignment explanation
Indices: 17470112--17470150 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
17470102 TATTGTAAAA
17470112 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
17470151 AGTTTTTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:17470251 original size:33 final size:31
Alignment explanation
Indices: 17470176--17470288 Score: 97
Period size: 35 Copynumber: 3.5 Consensus size: 31
17470166 TAGGTGTGTA
*
17470176 TATATATATTAT-AAAA-A-GTACGTATATA
1 TATATATATTATAAAAATATGTACGTATATG
*
17470204 TATAAATGAGTTATAAAAATATGTACGTGCATATG
1 TATATAT-A-TTATAAAAATATGTACGT--ATATG
*
17470239 TATATATATTATAAAAATGTATGTATGTATATATG
1 TATATATATTATAAAAA--TATGTACG--TATATG
*
17470274 TATATAAATTATAAA
1 TATATATATTATAAA
17470289 GTATAAAAGT
Statistics
Matches: 69, Mismatches: 5, Indels: 15
0.78 0.06 0.17
Matches are distributed among these distances:
28 6 0.09
29 1 0.01
30 4 0.06
31 4 0.06
32 1 0.01
33 15 0.22
34 1 0.01
35 36 0.52
37 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.40
Consensus pattern (31 bp):
TATATATATTATAAAAATATGTACGTATATG
Found at i:17470274 original size:143 final size:144
Alignment explanation
Indices: 17470010--17470276 Score: 455
Period size: 143 Copynumber: 1.9 Consensus size: 144
17470000 ATTGCCTTTA
*
17470010 TTTGATTAAAATAGATGTGTATATATATATTATAAAAAGTATGTATATATATATAAATGAGTTAT
1 TTTGATTAAAATAGATGTGTATATATATATTATAAAAAGTACG-ATATATATATAAATGAGTTAT
* *
17470075 AAAAATATGTACGTGAATAAGAATATATATTGTAAAAATGTATGTATGTATGTATGTATGTATGT
65 AAAAATATGTACGTGAATAAGAATATATATTATAAAAATGTATGTATGTATATATGTATGTATGT
17470140 ATGTATGTATGAGTT
130 ATGTATGTATGAGTT
*
17470155 TTTGATTAAAATAGGTGTGTATATATATATTATAAAAAGTACG-TATATATATAAATGAGTTATA
1 TTTGATTAAAATAGATGTGTATATATATATTATAAAAAGTACGATATATATATAAATGAGTTATA
* * *
17470219 AAAATATGTACGTGCATATGTATATATATTATAAAAATGTATGTATGTATATATGTAT
66 AAAATATGTACGTGAATAAGAATATATATTATAAAAATGTATGTATGTATATATGTAT
17470277 ATAAATTATA
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
143 74 0.64
145 41 0.36
ACGTcount: A:0.42, C:0.01, G:0.15, T:0.41
Consensus pattern (144 bp):
TTTGATTAAAATAGATGTGTATATATATATTATAAAAAGTACGATATATATATAAATGAGTTATA
AAAATATGTACGTGAATAAGAATATATATTATAAAAATGTATGTATGTATATATGTATGTATGTA
TGTATGTATGAGTT
Found at i:17470292 original size:16 final size:17
Alignment explanation
Indices: 17470266--17470309 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
17470256 TGTATGTATG
*
17470266 TATATATGTATATAAA-T
1 TATATAAGTATA-AAAGT
17470283 TATA-AAGTATAAAAGT
1 TATATAAGTATAAAAGT
17470299 TATATAAGTAT
1 TATATAAGTAT
17470310 GTATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.12
16 11 0.46
17 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (17 bp):
TATATAAGTATAAAAGT
Found at i:17471901 original size:18 final size:18
Alignment explanation
Indices: 17471851--17471903 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
17471841 CAACAATAAC
17471851 TAAATAAATA-ATTAAAAA
1 TAAA-AAATATATTAAAAA
17471869 TCATAAAAAT-T-TTAAAAA
1 T-A-AAAAATATATTAAAAA
17471887 TAAAAAATATATTAAAA
1 TAAAAAATATATTAAAA
17471904 TGATTCAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
16 6 0.20
17 2 0.07
18 15 0.50
19 5 0.17
20 2 0.07
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAAAAATATATTAAAAA
Found at i:17472726 original size:26 final size:27
Alignment explanation
Indices: 17472673--17472726 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
17472663 AAACTCTTCT
* *
17472673 AAAAGAAACTCAAGAGAAATTCTTTAA
1 AAAAAAAACTCAAGAGAAATTCTATAA
17472700 AAAAAAAACTCAA-AGATAATT-TATAA
1 AAAAAAAACTCAAGAGA-AATTCTATAA
17472726 A
1 A
17472727 CTCAAAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.61, C:0.09, G:0.07, T:0.22
Consensus pattern (27 bp):
AAAAAAAACTCAAGAGAAATTCTATAA
Found at i:17473384 original size:18 final size:18
Alignment explanation
Indices: 17473358--17473392 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17473348 AATATCGAGC
17473358 CGAGCTCGAGCTCGAGTT
1 CGAGCTCGAGCTCGAGTT
* *
17473376 CGAGTTCGAGCTTGAGT
1 CGAGCTCGAGCTCGAGT
17473393 ACAAAAATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (18 bp):
CGAGCTCGAGCTCGAGTT
Found at i:17474453 original size:34 final size:35
Alignment explanation
Indices: 17474409--17474475 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
17474399 CAGTAAAATG
*
17474409 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
*
17474443 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
17474476 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:17475971 original size:18 final size:18
Alignment explanation
Indices: 17475948--17475985 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
17475938 TCAATTGAAA
17475948 AAATGCACAACTTTAAAC
1 AAATGCACAACTTTAAAC
17475966 AAATGCACAACTTTAAAC
1 AAATGCACAACTTTAAAC
17475984 AA
1 AA
17475986 CAGCAGATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.21, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATGCACAACTTTAAAC
Done.