Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 41 of 54
Found at i:16481223 original size:60 final size:59
Alignment explanation
Indices: 16481128--16481304 Score: 282
Period size: 60 Copynumber: 2.9 Consensus size: 59
16481118 TTTGATTGTA
*
16481128 AAAGGGGGACTTGAAGCGCCGATTTATATTTGGTGGCGTGGGTAGATCCCACGAGTAGGT
1 AAAGGGGGACTTGAAGCCCCGATTTATA-TTGGTGGCGTGGGTAGATCCCACGAGTAGGT
* * *
16481188 AAAGGGGGACTTGAAGCCCCAATTTATATTGGGTGGCGTGGGCAAATCCCACGAGTAGGT
1 AAAGGGGGACTTGAAGCCCCGATTTATATT-GGTGGCGTGGGTAGATCCCACGAGTAGGT
*
16481248 AAAGGGGGACTTGAAGCCCCGATTTATATATGGTGGCGTGGGTAGTTCCCACGAGTA
1 AAAGGGGGACTTGAAGCCCCGATTTATAT-TGGTGGCGTGGGTAGATCCCACGAGTA
16481305 TGGATGATGT
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
59 2 0.02
60 104 0.97
61 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.34, T:0.24
Consensus pattern (59 bp):
AAAGGGGGACTTGAAGCCCCGATTTATATTGGTGGCGTGGGTAGATCCCACGAGTAGGT
Found at i:16487487 original size:11 final size:11
Alignment explanation
Indices: 16487471--16487523 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
16487461 ATCTCGGGGA
16487471 GAAGAAAGAAG
1 GAAGAAAGAAG
16487482 GAAGAAAGAA-
1 GAAGAAAGAAG
16487492 GAA-AAAGAA-
1 GAAGAAAGAAG
*
16487501 AAAG-AAGAAG
1 GAAGAAAGAAG
* *
16487511 AAAGAGAGAAG
1 GAAGAAAGAAG
16487522 GA
1 GA
16487524 GCAACGGTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 13 0.36
10 7 0.19
11 16 0.44
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (11 bp):
GAAGAAAGAAG
Found at i:16487493 original size:18 final size:17
Alignment explanation
Indices: 16487470--16487592 Score: 87
Period size: 18 Copynumber: 7.2 Consensus size: 17
16487460 CATCTCGGGG
*
16487470 AGAAGAAAGAAGGAAGAA
1 AGAAG-AAGAAAGAAGAA
16487488 AGAAGAA-AAAGAA-AA
1 AGAAGAAGAAAGAAGAA
16487503 AGAAGAAGAAAG-AGAGA
1 AGAAGAAGAAAGAAGA-A
* **
16487520 AGGAGCAACGGTAGAAGAGA
1 AGAAG-AA-GAAAGAAGA-A
**
16487540 AGAA-AGAGAGGGAAGAA
1 AGAAGA-AGAAAGAAGAA
16487557 AGAAGAA-AAAGAA-AA
1 AGAAGAAGAAAGAAGAA
16487572 AGAAGAAGAAAGAGAGAA
1 AGAAGAAGAAAGA-AGAA
16487590 AGA
1 AGA
16487593 GCAGCGACGG
Statistics
Matches: 84, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
15 19 0.23
16 19 0.23
17 14 0.17
18 20 0.24
19 4 0.05
20 8 0.10
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.01
Consensus pattern (17 bp):
AGAAGAAGAAAGAAGAA
Found at i:16487515 original size:29 final size:29
Alignment explanation
Indices: 16487476--16487589 Score: 84
Period size: 29 Copynumber: 3.6 Consensus size: 29
16487466 GGGGAGAAGA
*
16487476 AAGAAGGAAGAAAGAAGAAAAAGAAAAAG
1 AAGAAGAAAGAAAGAAGAAAAAGAAAAAG
* *
16487505 AAGAAGAAAGAGAGAAGGAGCAACGGTAGAAGAGAAG
1 AAGAAGAAAGAAAGAA-GA--AA---AAGAA-A-AAG
*
16487542 AAAGAGAGGGAAGAAAGAAGAAAAAGAAAAAG
1 -AAGA-A-GAAAGAAAGAAGAAAAAGAAAAAG
*
16487574 AAGAAGAAAGAGAGAA
1 AAGAAGAAAGAAAGAA
16487590 AGAGCAGCGA
Statistics
Matches: 66, Mismatches: 8, Indels: 22
0.69 0.08 0.23
Matches are distributed among these distances:
29 23 0.35
30 3 0.05
31 4 0.06
32 5 0.08
33 1 0.02
34 4 0.06
35 4 0.06
36 1 0.02
37 5 0.08
38 4 0.06
39 3 0.05
40 9 0.14
ACGTcount: A:0.65, C:0.02, G:0.32, T:0.01
Consensus pattern (29 bp):
AAGAAGAAAGAAAGAAGAAAAAGAAAAAG
Found at i:16487562 original size:25 final size:24
Alignment explanation
Indices: 16487476--16487589 Score: 74
Period size: 26 Copynumber: 4.7 Consensus size: 24
16487466 GGGGAGAAGA
*
16487476 AAGAAGGAAGAA-AGAAGAAAAAG
1 AAGAAGAAAGAAGAGAAGAAAAAG
* *
16487499 AAAAAG-AAGAAGA-AAGAGAGAAG
1 AAGAAGAAAGAAGAGAAGA-AAAAG
* ** *
16487522 GAGCAACGGTAGAAGAGAAGAAAGAG
1 AAG-AA-GAAAGAAGAGAAGAAAAAG
* *
16487548 AGGGAAGAAAGAAGAAAAAGAAAAAG
1 A-AGAAGAAAGAAG-AGAAGAAAAAG
16487574 AAGAAGAAAG-AGAGAA
1 AAGAAGAAAGAAGAGAA
16487590 AGAGCAGCGA
Statistics
Matches: 68, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
22 9 0.13
23 14 0.21
24 4 0.06
25 15 0.22
26 21 0.31
27 5 0.07
ACGTcount: A:0.65, C:0.02, G:0.32, T:0.01
Consensus pattern (24 bp):
AAGAAGAAAGAAGAGAAGAAAAAG
Found at i:16487570 original size:69 final size:67
Alignment explanation
Indices: 16487469--16487595 Score: 227
Period size: 69 Copynumber: 1.9 Consensus size: 67
16487459 GCATCTCGGG
*
16487469 GAGAAGAAAGAAGGAAGAAAGAAGAAAAAGAAAAAGAAGAAGAAAGAGAGAAGGAGCAACGGTAG
1 GAGAAGAAAGAAGGAAGAAAGAAGAAAAAGAAAAAGAAGAAGAAAGAGAGAAAGAGCAACGGTAG
16487534 AA
66 AA
16487536 GAGAAGAAAGAGAGGGAAGAAAGAAGAAAAAGAAAAAGAAGAAGAAAGAGAGAAAGAGCA
1 GAGAAGAAAGA-A-GGAAGAAAGAAGAAAAAGAAAAAGAAGAAGAAAGAGAGAAAGAGCA
16487596 GCGACGGAGG
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
67 11 0.19
68 1 0.02
69 45 0.79
ACGTcount: A:0.64, C:0.02, G:0.33, T:0.01
Consensus pattern (67 bp):
GAGAAGAAAGAAGGAAGAAAGAAGAAAAAGAAAAAGAAGAAGAAAGAGAGAAAGAGCAACGGTAG
AA
Found at i:16487609 original size:69 final size:67
Alignment explanation
Indices: 16487468--16487612 Score: 218
Period size: 69 Copynumber: 2.1 Consensus size: 67
16487458 GGCATCTCGG
* **
16487468 GGAGAAGAAAGAAGGAAGAAAGAAGAAAAAGAAAAAGAAGAAGAAAGAGAGAAGGAGCAACGGTA
1 GGAGAAGAAAGAAGGAAGAAAGAAGAAAAAGAAAAAGAAGAAGAAAGAGAGAAAGAGCAACGACA
16487533 GA
66 GA
* *
16487535 AGAGAAGAAAGAGAGGGAAGAAAGAAGAAAAAGAAAAAGAAGAAGAAAGAGAGAAAGAGCAGCGA
1 GGAGAAGAAAGA-A-GGAAGAAAGAAGAAAAAGAAAAAGAAGAAGAAAGAGAGAAAGAGCAACGA
*
16487600 CGGA
64 CAGA
16487604 GGAGAAGAA
1 GGAGAAGAA
16487613 TAAGAGGAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 11 0.16
68 1 0.01
69 57 0.83
ACGTcount: A:0.61, C:0.03, G:0.35, T:0.01
Consensus pattern (67 bp):
GGAGAAGAAAGAAGGAAGAAAGAAGAAAAAGAAAAAGAAGAAGAAAGAGAGAAAGAGCAACGACA
GA
Found at i:16488299 original size:59 final size:59
Alignment explanation
Indices: 16488205--16488382 Score: 243
Period size: 59 Copynumber: 3.0 Consensus size: 59
16488195 TTTAATTGTA
* *
16488205 AAAGGGGGACCTGAAGCCTCT-ATTTATATTTGGTGGCATGGGTAGATCCCACGAGTAGGT
1 AAAGGGGGACCTGAAGCCT-TGATTTATA-TTGGTGGCGTGGGCAGATCCCACGAGTAGGT
*
16488265 AAAGGGGG-CCTAAAGCCTTGATTTATATTGGGTGGCGTGGGCAGATCCCACGAGTAGGT
1 AAAGGGGGACCTGAAGCCTTGATTTATATT-GGTGGCGTGGGCAGATCCCACGAGTAGGT
* * **
16488324 AAAGGGGGACTTGAAGCCCTGATTTATATATGGTGGCGTGGGCATTTCCCACGAGTAGG
1 AAAGGGGGACCTGAAGCCTTGATTTATAT-TGGTGGCGTGGGCAGATCCCACGAGTAGG
16488383 GATGATGTCT
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
58 3 0.03
59 51 0.48
60 51 0.48
61 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (59 bp):
AAAGGGGGACCTGAAGCCTTGATTTATATTGGTGGCGTGGGCAGATCCCACGAGTAGGT
Found at i:16488364 original size:60 final size:59
Alignment explanation
Indices: 16488205--16488382 Score: 243
Period size: 60 Copynumber: 3.0 Consensus size: 59
16488195 TTTAATTGTA
* *
16488205 AAAGGGGGACCTGAAGCCTCT-ATTTATATTTGGTGGCATGGGTAGATCCCACGAGTAGGT
1 AAAGGGGGACCTGAAGCC-CTGATTTATA-TTGGTGGCGTGGGCAGATCCCACGAGTAGGT
* *
16488265 AAAGGGGG-CCTAAAGCCTTGATTTATATTGGGTGGCGTGGGCAGATCCCACGAGTAGGT
1 AAAGGGGGACCTGAAGCCCTGATTTATATT-GGTGGCGTGGGCAGATCCCACGAGTAGGT
* **
16488324 AAAGGGGGACTTGAAGCCCTGATTTATATATGGTGGCGTGGGCATTTCCCACGAGTAGG
1 AAAGGGGGACCTGAAGCCCTGATTTATAT-TGGTGGCGTGGGCAGATCCCACGAGTAGG
16488383 GATGATGTCT
Statistics
Matches: 105, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
58 3 0.03
59 50 0.48
60 51 0.49
61 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (59 bp):
AAAGGGGGACCTGAAGCCCTGATTTATATTGGTGGCGTGGGCAGATCCCACGAGTAGGT
Found at i:16492531 original size:19 final size:19
Alignment explanation
Indices: 16492507--16492547 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
16492497 GCAAGAGGAA
16492507 ATTTTTGGAATAAAATAAT
1 ATTTTTGGAATAAAATAAT
**
16492526 ATTTTTTTAATAAAATAAT
1 ATTTTTGGAATAAAATAAT
16492545 ATT
1 ATT
16492548 AAAATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
ATTTTTGGAATAAAATAAT
Found at i:16493870 original size:2 final size:2
Alignment explanation
Indices: 16493863--16493892 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16493853 TACTGTGTTG
16493863 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16493893 GTGCATACGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16494079 original size:2 final size:2
Alignment explanation
Indices: 16494033--16494059 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16494023 ATGGTGATGG
16494033 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
16494060 NNNNNNNNNT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16497493 original size:54 final size:54
Alignment explanation
Indices: 16497424--16497630 Score: 308
Period size: 54 Copynumber: 3.8 Consensus size: 54
16497414 ATACTGTCCA
* *
16497424 GCTATGTGCATGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCTA
1 GCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCTG
* * * * * *
16497478 GTTATGTGCACGATGTGGTGGGATGTAGATGAGCTGAGTTAGATGGGATGTCCG
1 GCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCTG
*
16497532 GCTATGTGCACGATGTGGTGGGATTCACATGAGCTGGGTGAGATGGGATGT-TCG
1 GCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCT-G
*
16497586 GCTATGTGCACGATATGGTGGGATGCACATGAGCTGGGTGAGATG
1 GCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATG
16497631 CACATGATGA
Statistics
Matches: 135, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 135 1.00
ACGTcount: A:0.20, C:0.12, G:0.41, T:0.28
Consensus pattern (54 bp):
GCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCTG
Found at i:16499267 original size:21 final size:21
Alignment explanation
Indices: 16499242--16499304 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
16499232 ACTTAAGAAC
16499242 TTTAAAACTTATTTAAACAAG
1 TTTAAAACTTATTTAAACAAG
*
16499263 TTTAAAAAC-TATTTGAACAAG
1 TTT-AAAACTTATTTAAACAAG
* * *
16499284 TTCAAATACTCATTCAAACAA
1 TTTAAA-ACTTATTTAAACAA
16499305 CTTCGAAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
20 3 0.09
21 18 0.53
22 13 0.38
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (21 bp):
TTTAAAACTTATTTAAACAAG
Found at i:16499366 original size:12 final size:13
Alignment explanation
Indices: 16499344--16499376 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
16499334 ATGTGAAAAG
*
16499344 TTGTACAAATAAC
1 TTGTTCAAATAAC
16499357 TT-TTCAAATAAC
1 TTGTTCAAATAAC
16499369 TTGTTCAA
1 TTGTTCAA
16499377 GTAATTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (13 bp):
TTGTTCAAATAAC
Found at i:16499462 original size:21 final size:21
Alignment explanation
Indices: 16499438--16499534 Score: 88
Period size: 21 Copynumber: 4.6 Consensus size: 21
16499428 TCTATGAGAG
* *
16499438 TTCAAAACTTATTTAAATAAA
1 TTCAAAAATTATTCAAATAAA
16499459 TTCAAAAATTATTCAAATAAA
1 TTCAAAAATTATTCAAATAAA
* * * *
16499480 -TGAAAATATCATTCAAACAAG
1 TTCAAAA-ATTATTCAAATAAA
** *
16499501 TTCAAGGATTACTCAAATAAA
1 TTCAAAAATTATTCAAATAAA
*
16499522 TTCAAAAACTATT
1 TTCAAAAATTATT
16499535 GAAGCAATTT
Statistics
Matches: 57, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
20 5 0.09
21 49 0.86
22 3 0.05
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.32
Consensus pattern (21 bp):
TTCAAAAATTATTCAAATAAA
Found at i:16504661 original size:54 final size:54
Alignment explanation
Indices: 16504503--16504661 Score: 246
Period size: 54 Copynumber: 2.9 Consensus size: 54
16504493 TCATCATGTG
* *
16504503 CATCTCACCTAGCTTATGTGCATCCCACCACATCGTGCACATAGCCAGACATCC
1 CATCTCACCTAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
* * *
16504557 CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCAGATAGCCGGACATCC
1 CATCTCACCTAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
* * *
16504611 CATCTCACCTAGCTCATGTACATCCCACTACATCGTGCACATAGCTGGACA
1 CATCTCACCTAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACA
16504662 GTATCACCAT
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.26, C:0.38, G:0.14, T:0.21
Consensus pattern (54 bp):
CATCTCACCTAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
Found at i:16510787 original size:54 final size:54
Alignment explanation
Indices: 16510684--16510788 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 54
16510674 TCATCATGTG
* **
16510684 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGTCAGACATCC
1 CATCTCACCCAGCTCATGTACATCCCACCACATCGTGCACATAACCAGACATCC
* * *
16510738 CATCTCACCCAGCTCATGTACATCCCGCCACATTGTGCATATAACCAGACA
1 CATCTCACCCAGCTCATGTACATCCCACCACATCGTGCACATAACCAGACA
16510789 GTATCACCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.28, C:0.39, G:0.12, T:0.21
Consensus pattern (54 bp):
CATCTCACCCAGCTCATGTACATCCCACCACATCGTGCACATAACCAGACATCC
Found at i:16510910 original size:12 final size:12
Alignment explanation
Indices: 16510893--16510919 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
16510883 TATGACATAG
16510893 TATACATATATA
1 TATACATATATA
16510905 TATACATATATA
1 TATACATATATA
16510917 TAT
1 TAT
16510920 CCACATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TATACATATATA
Found at i:16517696 original size:21 final size:19
Alignment explanation
Indices: 16517670--16517710 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
16517660 AATTTAAAAC
16517670 AAAATAACATAAAATTTAACT
1 AAAATAAC-TAAAA-TTAACT
*
16517691 AAAATAACTTAAATTAACT
1 AAAATAACTAAAATTAACT
16517710 A
1 A
16517711 CTCAACATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATAACTAAAATTAACT
Found at i:16521030 original size:37 final size:37
Alignment explanation
Indices: 16520989--16521144 Score: 192
Period size: 37 Copynumber: 4.1 Consensus size: 37
16520979 CATATGCATT
*
16520989 CATCATCATGTGTGCACTCCCTACTCGCACA-TTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTCT-AA
*
16521026 CATCATCATGTGTGAACTCCCTACTCGCACACTCTAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTCTAA
16521063 CATCATCATGTGTGCACTCACTCCCTACTCGCACACTCTAA
1 CATCATCATGTGTG----CACTCCCTACTCGCACACTCTAA
* *
16521104 CATCATCATGTCTTG-ACTCCTTACTCGCACACT-TCAA
1 CATCATCATGT-GTGCACTCCCTACTCGCACACTCT-AA
16521141 CATC
1 CATC
16521145 CTCACACAAC
Statistics
Matches: 107, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
36 1 0.01
37 69 0.64
38 2 0.02
41 33 0.31
42 2 0.02
ACGTcount: A:0.25, C:0.37, G:0.10, T:0.29
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTCTAA
Found at i:16521114 original size:78 final size:74
Alignment explanation
Indices: 16520989--16521144 Score: 201
Period size: 78 Copynumber: 2.1 Consensus size: 74
16520979 CATATGCATT
*
16520989 CATCATCATGTGTGCACTCCCTACTCGCACATTTCAACATCATCATGT-GTGAACTCCCTACTCG
1 CATCATCATGTGTGCACTCCCTACTCGCACATCTCAACATCATCATGTCGTG-ACTCCCTACTCG
16521053 CACAC-TCTAA
65 CACACTTC-AA
* *
16521063 CATCATCATGTGTGCACTCACTCCCTACTCGCACA-CTCTAACATCATCATGTCTTGACTCCTTA
1 CATCATCATGTGTG----CACTCCCTACTCGCACATCTC-AACATCATCATGTCGTGACTCCCTA
16521127 CTCGCACACTTCAA
61 CTCGCACACTTCAA
16521141 CATC
1 CATC
16521145 CTCACACAAC
Statistics
Matches: 72, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
74 14 0.19
77 2 0.03
78 52 0.72
79 4 0.06
ACGTcount: A:0.25, C:0.37, G:0.10, T:0.29
Consensus pattern (74 bp):
CATCATCATGTGTGCACTCCCTACTCGCACATCTCAACATCATCATGTCGTGACTCCCTACTCGC
ACACTTCAA
Found at i:16528182 original size:41 final size:41
Alignment explanation
Indices: 16528088--16528207 Score: 153
Period size: 41 Copynumber: 3.0 Consensus size: 41
16528078 ATCACGTGTG
*
16528088 CACTCCCTAC-T-CACACATTTCAACATCATCATGTGTG----
1 CACTCCCTACTTGCACAC-TCT-AACATCATCATGTGTGCACT
*
16528125 CACTCCCTACTCGCACACTCTAACATCATCATGTGTGCACT
1 CACTCCCTACTTGCACACTCTAACATCATCATGTGTGCACT
*
16528166 CACTCCCTACTTGCACACTCTAACATCATCATGTCTGCACT
1 CACTCCCTACTTGCACACTCTAACATCATCATGTGTGCACT
16528207 C
1 C
16528208 CCTACTCGCA
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
37 26 0.36
38 2 0.03
39 5 0.07
41 40 0.55
ACGTcount: A:0.25, C:0.38, G:0.08, T:0.28
Consensus pattern (41 bp):
CACTCCCTACTTGCACACTCTAACATCATCATGTGTGCACT
Found at i:16528229 original size:37 final size:37
Alignment explanation
Indices: 16528074--16528218 Score: 193
Period size: 37 Copynumber: 3.8 Consensus size: 37
16528064 CATATGCATT
* * *
16528074 CATCATCACGTGTGCACTCCCTACTCACACA-TTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTCT-AA
16528111 CATCATCATGTGTGCACTCCCTACTCGCACACTCTAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTCTAA
*
16528148 CATCATCATGTGTGCACTCACTCCCTACTTGCACACTCTAA
1 CATCATCATGTGTG----CACTCCCTACTCGCACACTCTAA
*
16528189 CATCATCATGTCTGCACTCCCTACTCGCAC
1 CATCATCATGTGTGCACTCCCTACTCGCAC
16528219 GCTTCAACAT
Statistics
Matches: 97, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
37 60 0.62
38 2 0.02
41 35 0.36
ACGTcount: A:0.24, C:0.39, G:0.10, T:0.28
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTCTAA
Found at i:16533988 original size:54 final size:54
Alignment explanation
Indices: 16533920--16534072 Score: 243
Period size: 54 Copynumber: 2.8 Consensus size: 54
16533910 ATACTGTTCA
*
16533920 GCTATGTGCACGATGTGGTGGGATGTACATGAGCTGGGTGAGATGGGATGTCCG
1 GCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCCG
*
16533974 GGTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCCG
1 GCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCCG
* * * **
16534028 GCTTTGTGCACAATGTGGTGGGATGCACATAAGCTATGTGAGATG
1 GCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATG
16534073 CACATGATGA
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.20, C:0.13, G:0.41, T:0.26
Consensus pattern (54 bp):
GCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCCG
Found at i:16540118 original size:54 final size:54
Alignment explanation
Indices: 16540023--16540228 Score: 299
Period size: 54 Copynumber: 3.8 Consensus size: 54
16540013 TCATCATGTG
* *
16540023 CATCTAACCCAGCTCATGTGC-TGCCACCACATCGTGCACATAGCTGGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCTGGACATCC
* * * * * *
16540076 CATCTTACCTAGCTCATGTGCATCCGACCACATCTTGCACATAGTTGGACATCA
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCTGGACATCC
*
16540130 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTCCACATAG-TCGGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCT-GGACATCC
*
16540184 CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGC
16540229 CGAATAGTAT
Statistics
Matches: 135, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
53 20 0.15
54 115 0.85
ACGTcount: A:0.25, C:0.38, G:0.14, T:0.22
Consensus pattern (54 bp):
CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCTGGACATCC
Found at i:16541222 original size:20 final size:20
Alignment explanation
Indices: 16541184--16541237 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
16541174 GGAAAAAGAC
*
16541184 AAAGTTGCTAGAAGGTTGAA
1 AAAGTTGCTAGAAAGTTGAA
* *
16541204 GAA-TCTGCTAGAAATTTGAA
1 AAAGT-TGCTAGAAAGTTGAA
16541224 AAAGTTGCTAGAAA
1 AAAGTTGCTAGAAA
16541238 CTTAGATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (20 bp):
AAAGTTGCTAGAAAGTTGAA
Found at i:16555529 original size:15 final size:15
Alignment explanation
Indices: 16555509--16555548 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
16555499 CAATGCTATT
16555509 TGTCTACATTTAAGG
1 TGTCTACATTTAAGG
16555524 TGTCTACATTTAAGG
1 TGTCTACATTTAAGG
16555539 T-TACTACATT
1 TGT-CTACATT
16555549 AATCATCCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 1 0.04
15 23 0.96
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (15 bp):
TGTCTACATTTAAGG
Found at i:16558077 original size:54 final size:54
Alignment explanation
Indices: 16557995--16558205 Score: 323
Period size: 54 Copynumber: 3.9 Consensus size: 54
16557985 TCATCATGTG
*
16557995 CATCTCACCCAGCTCATGTGCATCCCACCACATTGTGCACATAGCCAGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCAGACATCC
* * * *
16558049 CATCTCAGCCAACTCATGTGCATCCCACCACATCGTGCACATAGTCAGACATCT
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCAGACATCC
***
16558103 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGTTGGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCAGACATCC
* * *
16558157 CATCTCACCCAGCTCATGTGCACCCCACCACATCATCCACATAGCCAGA
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCAGA
16558206 TAGTATCACC
Statistics
Matches: 141, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 141 1.00
ACGTcount: A:0.27, C:0.40, G:0.13, T:0.20
Consensus pattern (54 bp):
CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCAGACATCC
Found at i:16562858 original size:36 final size:36
Alignment explanation
Indices: 16562818--16562887 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
16562808 ATTGAAAAAA
16562818 TCAAACTAACAACTACTCCATTTATTTCTTAACAAC
1 TCAAACTAACAACTACTCCATTTATTTCTTAACAAC
16562854 TCAAACTAACAACTACTCCATTTATTTCTTAACA
1 TCAAACTAACAACTACTCCATTTATTTCTTAACA
16562888 TGTTTCTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (36 bp):
TCAAACTAACAACTACTCCATTTATTTCTTAACAAC
Found at i:16563011 original size:19 final size:19
Alignment explanation
Indices: 16562984--16563022 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
16562974 GTGCCTCAAG
*
16562984 AATGAAGAGAATGTGAGAA
1 AATGAAGAGAATGAGAGAA
*
16563003 AATGTAGAGAATGAGAGAA
1 AATGAAGAGAATGAGAGAA
16563022 A
1 A
16563023 GTGTTTTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.31, T:0.15
Consensus pattern (19 bp):
AATGAAGAGAATGAGAGAA
Found at i:16563824 original size:27 final size:24
Alignment explanation
Indices: 16563769--16563850 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 24
16563759 TATTTATTTT
16563769 TATTTTGTATTATTTTTAAATATTAA
1 TATTTTGTATTA--TTTAAATATTAA
16563795 TATTTTGTAATTTATTTAAAATATTAA
1 TATTTTGT-A-TTATTT-AAATATTAA
* *
16563822 TATTTT-CATAATTTAAATATTAA
1 TATTTTGTATTATTTAAATATTAA
16563845 TATTTT
1 TATTTT
16563851 ATTTATAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
23 15 0.29
24 5 0.10
25 1 0.02
26 11 0.22
27 16 0.31
28 3 0.06
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (24 bp):
TATTTTGTATTATTTAAATATTAA
Found at i:16563842 original size:23 final size:24
Alignment explanation
Indices: 16563783--16563878 Score: 88
Period size: 26 Copynumber: 3.8 Consensus size: 24
16563773 TTGTATTATT
*
16563783 TTTAAATATTAATATTTTGTAATTTA
1 TTTAAATATTAATA-TTT-TAATTAA
*
16563809 TTTAAAATATTAATATTTTCA-TAA
1 TTT-AAATATTAATATTTTAATTAA
*
16563833 TTTAAATATTAATATTTTATTTATAA
1 TTTAAATATTAATATTTTA-AT-TAA
*
16563859 TTT-AATCATTAAAATTTTAA
1 TTTAAAT-ATTAATATTTTAA
16563879 AATATTAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
23 15 0.25
24 5 0.08
25 5 0.08
26 23 0.39
27 11 0.19
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (24 bp):
TTTAAATATTAATATTTTAATTAA
Found at i:16564175 original size:15 final size:15
Alignment explanation
Indices: 16564155--16564189 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16564145 TATTAGTATA
* *
16564155 ATTTTTTTATTTTTT
1 ATTTTTTTAATTTAT
16564170 ATTTTTTTAATTTAT
1 ATTTTTTTAATTTAT
16564185 ATTTT
1 ATTTT
16564190 CACTTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
ATTTTTTTAATTTAT
Found at i:16567373 original size:2 final size:2
Alignment explanation
Indices: 16567366--16567409 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
16567356 TTAAATGATA
16567366 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16567408 AT
1 AT
16567410 CTTGACCAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16567515 original size:2 final size:2
Alignment explanation
Indices: 16567508--16567579 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
16567498 TAACCTTCAN
16567508 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16567550 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16567580 CTTGACCAAT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16570889 original size:19 final size:19
Alignment explanation
Indices: 16570865--16570902 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16570855 CTGCCAAACC
*
16570865 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
16570884 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
16570903 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:16577635 original size:104 final size:105
Alignment explanation
Indices: 16577422--16577642 Score: 283
Period size: 104 Copynumber: 2.1 Consensus size: 105
16577412 TCACTTAGTA
* * * *
16577422 TTTTATGG-TTTTCTGTCTCTTGTAATTAGAAATATTATATTTGCTTAATGAAAAGTGACCTGTG
1 TTTTTTGGTTTTTCTCTCTCTTGTAATTAGAAAAATAATATTTGCTTAATGAAAAGTGACCTGTG
** *
16577486 ACTTTGTGTAGCTTCTGCAATCCCTCTCATCTCTCACGTG
66 ACTTTGTCAAGCTCCTGCAATCCCTCTCATCTCTCACGTG
*
16577526 TTTTTT-GTTTTTCTCTCTCTTGTAATTAGAAAAATAATATTTGTTTAAT-AAAACGTGAGCC-G
1 TTTTTTGGTTTTTCTCTCTCTTGTAATTAGAAAAATAATATTTGCTTAATGAAAA-GTGA-CCTG
*
16577588 TGACTTTG-CAAGGCTCCCTGCAATTCCTCTCATCTCTCACGTG
64 TGACTTTGTCAA-GCT-CCTGCAATCCCTCTCATCTCTCACGTG
16577631 -TTTTTGGTTTTT
1 TTTTTTGGTTTTT
16577643 GTTAACTCAG
Statistics
Matches: 102, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
103 6 0.06
104 63 0.62
105 33 0.32
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (105 bp):
TTTTTTGGTTTTTCTCTCTCTTGTAATTAGAAAAATAATATTTGCTTAATGAAAAGTGACCTGTG
ACTTTGTCAAGCTCCTGCAATCCCTCTCATCTCTCACGTG
Found at i:16580691 original size:55 final size:56
Alignment explanation
Indices: 16580606--16580768 Score: 247
Period size: 56 Copynumber: 2.9 Consensus size: 56
16580596 ATGTATACAA
* * * *
16580606 CCACCGGCTCATCAGCTAATGTGCACTCCCACACCACACATAGTTGGAATCATCAT
1 CCACCGGCTCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCAT
*
16580662 CCACCGG-TCATCAACTCATGTGCACTCCCACACTGCACATAGCTGGAATCATCAT
1 CCACCGGCTCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCAT
** *
16580717 CCATTGGCTCATAAACTCATGTGCACTCCCACACCGCACATAGCTGGAATCA
1 CCACCGGCTCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGAATCA
16580769 CCTGTCATCA
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
55 48 0.49
56 49 0.51
ACGTcount: A:0.28, C:0.36, G:0.15, T:0.21
Consensus pattern (56 bp):
CCACCGGCTCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCAT
Found at i:16581618 original size:15 final size:14
Alignment explanation
Indices: 16581596--16581636 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
16581586 AGAAAGAAGT
**
16581596 AAGAAAAGAAAGGA
1 AAGAAAAGAAAACA
16581610 AAGGAAAAGAAAACA
1 AA-GAAAAGAAAACA
16581625 AAGAAAAGAAAA
1 AAGAAAAGAAAA
16581637 TTGATTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (14 bp):
AAGAAAAGAAAACA
Found at i:16581621 original size:20 final size:19
Alignment explanation
Indices: 16581596--16581636 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
16581586 AGAAAGAAGT
* *
16581596 AAGAAAAGAAAGGAAAGGAA
1 AAGAAAACAAA-GAAAAGAA
16581616 AAGAAAACAAAGAAAAGAA
1 AAGAAAACAAAGAAAAGAA
16581635 AA
1 AA
16581637 TTGATTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (19 bp):
AAGAAAACAAAGAAAAGAA
Found at i:16590775 original size:2 final size:2
Alignment explanation
Indices: 16590763--16590792 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
16590753 ACCATATACC
*
16590763 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16590793 TAATCATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16590881 original size:42 final size:42
Alignment explanation
Indices: 16590833--16590987 Score: 150
Period size: 42 Copynumber: 3.7 Consensus size: 42
16590823 CAGCTCATAT
*
16590833 GCACTCCCACTAGCACATAGCTGGGTCAACAACGGCTTATGC
1 GCACTCCCACTAGCACATAGCTGGGTCAACATCGGCTTATGC
* * * *
16590875 GTACTCCTACTCGCA-AGTAGCTGGGTCAGCATCGGCTTATGC
1 GCACTCCCACTAGCACA-TAGCTGGGTCAACATCGGCTTATGC
* * * * * * *
16590917 GCACTCCCTCTCGCACATAGCCGGGTTAGCTTTGGCTTATGC
1 GCACTCCCACTAGCACATAGCTGGGTCAACATCGGCTTATGC
* * * *
16590959 ACACTCCTACTAGCACATAACTAGGTCAA
1 GCACTCCCACTAGCACATAGCTGGGTCAA
16590988 TATCATTACA
Statistics
Matches: 90, Mismatches: 21, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
41 1 0.01
42 88 0.98
43 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (42 bp):
GCACTCCCACTAGCACATAGCTGGGTCAACATCGGCTTATGC
Found at i:16593596 original size:152 final size:152
Alignment explanation
Indices: 16593278--16593570 Score: 399
Period size: 151 Copynumber: 1.9 Consensus size: 152
16593268 AATAATTTTT
* *
16593278 ATAGCGTAAAAGCTAAATAAATTTATACATACTGAAATACAGTAAGCCAAAATATTTAATTTAAT
1 ATAGAGTAAAAGCTAAAAAAATTTATACATACTGAAATACAGTAAGCCAAAATATTTAATTTAAT
***
16593343 TTACAATAACAAGAGGGCCCCCGAATAAACAAAAGTAAAGAGGACTGTGAACCTACGGTTTGNNN
66 TTACAATAACAAGAGGGCCCCCGAATAAACAAAAGTAAAGAGGACTGTGAACCTACGGTTTGAAA
********* * * **
16593408 NNNNNNNNNCGTGAATATTTTT
131 ATGTAGATCCATGAATATCTCG
*
16593430 ATAGCGTAAAAGCTAAAAAAATTTATACATACTGAAATACAGTAAGCCAAAATATTTAA-TTAAT
1 ATAGAGTAAAAGCTAAAAAAATTTATACATACTGAAATACAGTAAGCCAAAATATTTAATTTAAT
16593494 TTACAATAACAAGAGGGCCCCCGAATAAACAAAAGTAAAGAGGACTGTGAACCTACGGTTTGGAA
66 TTACAATAACAAGAGGGCCCCCGAATAAACAAAAGTAAAGAGGACTGTGAACCTACGGTTT-GAA
16593559 AATGTAGATCCA
130 AATGTAGATCCA
16593571 ATGGTAGTCC
Statistics
Matches: 126, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
151 66 0.52
152 60 0.48
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.24
Consensus pattern (152 bp):
ATAGAGTAAAAGCTAAAAAAATTTATACATACTGAAATACAGTAAGCCAAAATATTTAATTTAAT
TTACAATAACAAGAGGGCCCCCGAATAAACAAAAGTAAAGAGGACTGTGAACCTACGGTTTGAAA
ATGTAGATCCATGAATATCTCG
Found at i:16598910 original size:19 final size:20
Alignment explanation
Indices: 16598868--16598910 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
16598858 AAATCAAGAT
* *
16598868 TTTTCATTTTCTTTTCCTTG
1 TTTTCATTTTCTTTTCATTA
*
16598888 TTTTCCTTTT-TTTTCATTA
1 TTTTCATTTTCTTTTCATTA
16598907 TTTT
1 TTTT
16598911 TCTTGCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTCATTTTCTTTTCATTA
Found at i:16598911 original size:20 final size:21
Alignment explanation
Indices: 16598866--16598912 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
16598856 AAAAATCAAG
*
16598866 ATTTTTCATTTTCTTTTCCTT
1 ATTTTTCATTTTCTTTTCATT
* *
16598887 -GTTTTCCTTTT-TTTTCATT
1 ATTTTTCATTTTCTTTTCATT
16598906 ATTTTTC
1 ATTTTTC
16598913 TTGCTTCTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.09, C:0.17, G:0.02, T:0.72
Consensus pattern (21 bp):
ATTTTTCATTTTCTTTTCATT
Found at i:16598924 original size:30 final size:30
Alignment explanation
Indices: 16598867--16598925 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
16598857 AAAATCAAGA
*
16598867 TTTTTCATTTTCTTTTCCTTGTTTTCCTTT
1 TTTTTCATTATCTTTTCCTTGTTTTCCTTT
16598897 TTTTTCATTAT-TTTT-CTTGCTTCTTCCTT
1 TTTTTCATTATCTTTTCCTTG-TT-TTCCTT
16598926 CTCCTAACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 4 0.15
29 6 0.23
30 16 0.62
ACGTcount: A:0.05, C:0.20, G:0.03, T:0.71
Consensus pattern (30 bp):
TTTTTCATTATCTTTTCCTTGTTTTCCTTT
Found at i:16599751 original size:36 final size:36
Alignment explanation
Indices: 16599707--16599788 Score: 137
Period size: 36 Copynumber: 2.2 Consensus size: 36
16599697 TGTGGGAGTG
*
16599707 CACATGATGGTGATAGTGGTGTGCTATGTGAGTGCA
1 CACATGATGGTGATAGTCGTGTGCTATGTGAGTGCA
*
16599743 CACATGATGGTGATAGTCGTGTGCTGTGTGAGTGCA
1 CACATGATGGTGATAGTCGTGTGCTATGTGAGTGCA
16599779 CACACTGATG
1 CACA-TGATG
16599789 ATATATGCCA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
36 38 0.88
37 5 0.12
ACGTcount: A:0.22, C:0.15, G:0.34, T:0.29
Consensus pattern (36 bp):
CACATGATGGTGATAGTCGTGTGCTATGTGAGTGCA
Found at i:16599830 original size:52 final size:52
Alignment explanation
Indices: 16599752--16599856 Score: 176
Period size: 52 Copynumber: 2.0 Consensus size: 52
16599742 ACACATGATG
*
16599752 GTGATAGTCGTGTGCTGTGTGAGTGCACACACTGATGATATATGCCATGTGC
1 GTGATAGTCGTGTGCTGTGTGAGTGCACACACTGATGATATATGCAATGTGC
*
16599804 GTGATAGTGGTGTGGC-GTGTGAGTGCACACACTGATGATATATGCAATGTGC
1 GTGATAGTCGTGT-GCTGTGTGAGTGCACACACTGATGATATATGCAATGTGC
16599856 G
1 G
16599857 AGGTGGGAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
52 48 0.96
53 2 0.04
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.30
Consensus pattern (52 bp):
GTGATAGTCGTGTGCTGTGTGAGTGCACACACTGATGATATATGCAATGTGC
Found at i:16599880 original size:36 final size:35
Alignment explanation
Indices: 16599831--16599945 Score: 126
Period size: 36 Copynumber: 3.2 Consensus size: 35
16599821 TGTGAGTGCA
*
16599831 CACACTGATGATATATGCAATGTGCGAG-GTGGGAGTG
1 CACA-TGATGATAT-TGCAATGTGCG-GTGTGGAAGTG
**
16599868 CACATGATGATATTGCCTTGTGCGGTGTGGAAGTG
1 CACATGATGATATTGCAATGTGCGGTGTGGAAGTG
* *
16599903 CACAGGATGAT-TCTAGCTATGTGCGGTGTGGAAGTG
1 CACATGATGATAT-T-GCAATGTGCGGTGTGGAAGTG
16599939 CACATGA
1 CACATGA
16599946 GCTACTGAGA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
34 2 0.03
35 28 0.41
36 34 0.50
37 4 0.06
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (35 bp):
CACATGATGATATTGCAATGTGCGGTGTGGAAGTG
Found at i:16628970 original size:31 final size:31
Alignment explanation
Indices: 16628932--16629289 Score: 473
Period size: 31 Copynumber: 11.5 Consensus size: 31
16628922 ATATCAGCGT
*
16628932 TGGCGTGTTAAAACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
* * *
16628963 TGGCGTGTTACAAAATTTCATGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
* *
16628994 TGGCATGTTACAACATTTTTACGTTATCTGCA
1 TGGCGTGTTACAACA-TTTTACGTTATATGCA
* * **
16629026 TAGCGTGTTACAACATTTAACGTTATACACA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
* * *
16629057 TGGCATGTTACAATATTTTACATTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
* *
16629088 TGGCGTGTTACAACATTTTCCATTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
*
16629119 TGGCGTGTTAAAACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
* *
16629150 TGGCGTGTTACAAAATTTTATGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
* *
16629181 TGGTGTGTTACAACATTTTACGTTATCTGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
* * *
16629212 TAGCGTGTTACAACATTTAAAGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
* *
16629243 TGGCATGTTACAACATTTTATGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
*
16629274 TGGCGTGTTAAAACAT
1 TGGCGTGTTACAACAT
16629290 GACTGACAAA
Statistics
Matches: 280, Mismatches: 46, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
31 254 0.91
32 26 0.09
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (31 bp):
TGGCGTGTTACAACATTTTACGTTATATGCA
Found at i:16632783 original size:117 final size:118
Alignment explanation
Indices: 16632546--16632839 Score: 367
Period size: 117 Copynumber: 2.5 Consensus size: 118
16632536 TCACACGCTA
* * * **
16632546 ACTTCTTGCATTATTGTGGGGTGACACGGCACGCCCCATCTTGTGGTGACACGCTTAGTAGAATT
1 ACTTCTTGCATTATTGTGGGGTGACACGGCACGCACCATATTGTGGTGACACGCTGAGTAGAACC
* * * *
16632611 AGATAATTTGCGTGACACGCTGAGTACATGCAAATTTTTATGGTGACACGCTG
66 AGATAATTAGAGTGACACGCTGAGTACATGCAAATTTCTATGGTGACACACTG
* * * * *
16632664 ACTTCTTGTAGTATTGTGGGGTGACACGGCATGCACCATATTGTGGTGGC-CGCTGAGTGGAACC
1 ACTTCTTGCATTATTGTGGGGTGACACGGCACGCACCATATTGTGGTGACACGCTGAGTAGAACC
* * *
16632728 AGA-AAGTTAGAGTGACACGCTGAGTGCATGCAGATTTCTATGGTGACACATTG
66 AGATAA-TTAGAGTGACACGCTGAGTACATGCAAATTTCTATGGTGACACACTG
* * * * *
16632781 ACTTCTTGCATTATTGTGGGGTGACACAGCACACCCCATCTTGTGGTGACATGCTGAGT
1 ACTTCTTGCATTATTGTGGGGTGACACGGCACGCACCATATTGTGGTGACACGCTGAGT
16632840 GCATGCAGAT
Statistics
Matches: 148, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
116 2 0.01
117 95 0.64
118 51 0.34
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (118 bp):
ACTTCTTGCATTATTGTGGGGTGACACGGCACGCACCATATTGTGGTGACACGCTGAGTAGAACC
AGATAATTAGAGTGACACGCTGAGTACATGCAAATTTCTATGGTGACACACTG
Found at i:16632842 original size:87 final size:86
Alignment explanation
Indices: 16632739--16632926 Score: 270
Period size: 87 Copynumber: 2.2 Consensus size: 86
16632729 GAAAGTTAGA
* *
16632739 GTGACACGCTGAGTGCATGCAGATTTCTATGGTGACACATTGACTTCTTGC-ATTATTGTGGGGT
1 GTGACATGCTGAGTGCATGCAGATTTATATGGTGACACATTGACTTCTTGCTA-TATTGTGGGGT
* *
16632803 GACACAGCACACCCCATCTTGTG
65 GACACAGCACACACCA-ATTGTG
*
16632826 GTGACATGCTGAGTGCATGCAGATTTATGTGGTGACACATTGACTTCTTGCTATATTGTGGGGTG
1 GTGACATGCTGAGTGCATGCAGATTTATATGGTGACACATTGACTTCTTGCTATATTGTGGGGTG
** *
16632891 ACATGGCACGCACCAATTGTG
66 ACACAGCACACACCAATTGTG
*
16632912 GTGAGATGCTGAGTG
1 GTGACATGCTGAGTG
16632927 GAACCAGATA
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
86 19 0.21
87 71 0.78
88 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (86 bp):
GTGACATGCTGAGTGCATGCAGATTTATATGGTGACACATTGACTTCTTGCTATATTGTGGGGTG
ACACAGCACACACCAATTGTG
Found at i:16635753 original size:29 final size:28
Alignment explanation
Indices: 16635699--16635764 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
16635689 ATGTCTATGG
* ** *
16635699 GTAATTTTTCAGTTTTTGGGGTAAAAAT
1 GTAATTTTTCACTTTCAGGGGCAAAAAT
*
16635727 GTAATTTTTCACTTTACAGGGGCAAAAGT
1 GTAATTTTTCACTTT-CAGGGGCAAAAAT
*
16635756 GTACTTTTT
1 GTAATTTTT
16635765 AAAAATTTGC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
28 14 0.45
29 17 0.55
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (28 bp):
GTAATTTTTCACTTTCAGGGGCAAAAAT
Found at i:16641903 original size:17 final size:16
Alignment explanation
Indices: 16641871--16641905 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
16641861 ATAAAATATT
16641871 ATGTTTTTCAATAAAA
1 ATGTTTTTCAATAAAA
*
16641887 ATGTTTTTTAATAAAA
1 ATGTTTTTCAATAAAA
16641903 ATG
1 ATG
16641906 AAATTGATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.46
Consensus pattern (16 bp):
ATGTTTTTCAATAAAA
Found at i:16644717 original size:31 final size:31
Alignment explanation
Indices: 16644682--16644901 Score: 298
Period size: 31 Copynumber: 7.1 Consensus size: 31
16644672 CGAAAGCACA
* * *
16644682 CCATGCATATAACGTTAAATGTGGTAACACG
1 CCATGCATATAATGTAAAATGTTGTAACACG
16644713 CCATGCATATAATGTAAAATGTTGTAACACG
1 CCATGCATATAATGTAAAATGTTGTAACACG
* * *
16644744 TCATGAATATAATGTAAAATGTTGTATCACG
1 CCATGCATATAATGTAAAATGTTGTAACACG
* *
16644775 CCATGCATATAATGTAAAATGTGGTAACATG
1 CCATGCATATAATGTAAAATGTTGTAACACG
* * *
16644806 CCATGCATATATTGTAAAACGTTTTAACACG
1 CCATGCATATAATGTAAAATGTTGTAACACG
*
16644837 CCATGCATATAAAGTAAAATGTTGTAACACG
1 CCATGCATATAATGTAAAATGTTGTAACACG
* *
16644868 CCATGCGTATCAA-GTCAAATGTTGTAACACG
1 CCATGCATAT-AATGTAAAATGTTGTAACACG
16644899 CCA
1 CCA
16644902 ACACTGACAC
Statistics
Matches: 166, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
31 164 0.99
32 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (31 bp):
CCATGCATATAATGTAAAATGTTGTAACACG
Found at i:16645628 original size:47 final size:47
Alignment explanation
Indices: 16645576--16645862 Score: 322
Period size: 47 Copynumber: 6.1 Consensus size: 47
16645566 ACGGAGTCTG
* * *
16645576 ACAAACTCTGAACCCTGCCATATCACAGATTCCCTCCATGGCATGTC
1 ACAAACTCTGAACGCTGGCATGTCACAGATTCCCTCCATGGCATGTC
* * * **
16645623 ACAAACTCTGAACACTGGCATGTTACAGATTACCTCCATGGTGTGTC
1 ACAAACTCTGAACGCTGGCATGTCACAGATTCCCTCCATGGCATGTC
* * * * *
16645670 ACGAACTCTGAACGCTAGCATATCACAGATTCCCTCCATGGCGTGCC
1 ACAAACTCTGAACGCTGGCATGTCACAGATTCCCTCCATGGCATGTC
** * * *
16645717 ATGAACTCTGAATGTTGGCGTGTGTCACAGATTCCCTCCATGGCATGTC
1 ACAAACTCTGAACGCTGGC--ATGTCACAGATTCCCTCCATGGCATGTC
* * * *
16645766 ACCAACTTTGAACCCTGGCATGTCACAGATTCCTTCCATGGCATGTC
1 ACAAACTCTGAACGCTGGCATGTCACAGATTCCCTCCATGGCATGTC
* * * *
16645813 ACAAACTCTGAATGTTGGCGTGTCACAGATTCCCTCCATGGCGTGTC
1 ACAAACTCTGAACGCTGGCATGTCACAGATTCCCTCCATGGCATGTC
16645860 ACA
1 ACA
16645863 GATTCCCTCC
Statistics
Matches: 199, Mismatches: 39, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
47 162 0.81
49 37 0.19
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
ACAAACTCTGAACGCTGGCATGTCACAGATTCCCTCCATGGCATGTC
Found at i:16645692 original size:94 final size:93
Alignment explanation
Indices: 16645579--16645861 Score: 368
Period size: 94 Copynumber: 3.0 Consensus size: 93
16645569 GAGTCTGACA
*** *
16645579 AACTCTGAACCCTGCCATATCACAGATTCCCTCCATGGCATGTCACAAACTCTGAACACTGGCAT
1 AACTCTGAACCCTG-CATATCACAGATTCCCTCCATGGCATGTCACAAACTCTGAATGTTGGCGT
* * *
16645644 GTTACAGATTACCTCCATGGTGTGTCACG
65 GTTACAGATTCCCTCCATGGCGTGTCACC
* * * **
16645673 AACTCTGAACGCTAGCATATCACAGATTCCCTCCATGGCGTGCCATGAACTCTGAATGTTGGCGT
1 AACTCTGAACCCT-GCATATCACAGATTCCCTCCATGGCATGTCACAAACTCTGAATGTTGGCGT
*
16645738 GTGTCACAGATTCCCTCCATGGCATGTCACC
65 GT-T-ACAGATTCCCTCCATGGCGTGTCACC
* * *
16645769 AACTTTGAACCCTGGCATGTCACAGATTCCTTCCATGGCATGTCACAAACTCTGAATGTTGGCGT
1 AACTCTGAACCCT-GCATATCACAGATTCCCTCCATGGCATGTCACAAACTCTGAATGTTGGCGT
*
16645834 GTCACAGATTCCCTCCATGGCGTGTCAC
65 GTTACAGATTCCCTCCATGGCGTGTCAC
16645862 AGATTCCCTC
Statistics
Matches: 162, Mismatches: 24, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
94 80 0.49
95 2 0.01
96 80 0.49
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (93 bp):
AACTCTGAACCCTGCATATCACAGATTCCCTCCATGGCATGTCACAAACTCTGAATGTTGGCGTG
TTACAGATTCCCTCCATGGCGTGTCACC
Found at i:16645765 original size:23 final size:23
Alignment explanation
Indices: 16645739--16645885 Score: 111
Period size: 23 Copynumber: 6.3 Consensus size: 23
16645729 TGTTGGCGTG
16645739 TGTCACAGATTCCCTCCATGGCA
1 TGTCACAGATTCCCTCCATGGCA
**** *
16645762 TGTCACCA-ACTTTGAACCCTGGCA
1 TGTCA-CAGA-TTCCCTCCATGGCA
*
16645786 TGTCACAGATTCCTTCCATGGCA
1 TGTCACAGATTCCCTCCATGGCA
* * ** *
16645809 TGTCACA-A-ACTCTGAATGTTGGCG
1 TGTCACAGATTCCCTCCA---TGGCA
*
16645833 TGTCACAGATTCCCTCCATGGCG
1 TGTCACAGATTCCCTCCATGGCA
*
16645856 TGTCACAGATTCCCTCCATGGCG
1 TGTCACAGATTCCCTCCATGGCA
16645879 TGTCACA
1 TGTCACA
16645886 AACTCTTAAC
Statistics
Matches: 96, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
21 3 0.03
22 1 0.01
23 59 0.61
24 28 0.29
25 1 0.01
26 4 0.04
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (23 bp):
TGTCACAGATTCCCTCCATGGCA
Found at i:16645778 original size:143 final size:143
Alignment explanation
Indices: 16645598--16645857 Score: 396
Period size: 143 Copynumber: 1.8 Consensus size: 143
16645588 CCCTGCCATA
*
16645598 TCACAGATTCCCTCCATGGCATGTCACAAACTCTGAACACTGGCATGTTACAGATTACC-TCCAT
1 TCACAGATTCCCTCCATGGCATGTCACAAACTCTGAACACTGGCATGTCACAGATT-CCTTCCAT
** *
16645662 GGTGTGTCACGAACTCTGAACGCTAGCATATCACAGATTCCCTCCATGGCGTGCCATGAACTCTG
65 GGCATGTCACAAACTCTGAACGCTAGCATATCACAGATTCCCTCCATGGCGTGCCATGAACTCTG
16645727 AATGTTGGCGTGTG
130 AATGTTGGCGTGTG
* * *
16645741 TCACAGATTCCCTCCATGGCATGTCACCAACTTTGAACCCTGGCATGTCACAGATTCCTTCCATG
1 TCACAGATTCCCTCCATGGCATGTCACAAACTCTGAACACTGGCATGTCACAGATTCCTTCCATG
* * * * *
16645806 GCATGTCACAAACTCTGAATGTTGGCGTGTCACAGATTCCCTCCATGGCGTG
66 GCATGTCACAAACTCTGAACGCTAGCATATCACAGATTCCCTCCATGGCGTG
16645858 TCACAGATTC
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
142 2 0.02
143 102 0.98
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (143 bp):
TCACAGATTCCCTCCATGGCATGTCACAAACTCTGAACACTGGCATGTCACAGATTCCTTCCATG
GCATGTCACAAACTCTGAACGCTAGCATATCACAGATTCCCTCCATGGCGTGCCATGAACTCTGA
ATGTTGGCGTGTG
Found at i:16645947 original size:58 final size:58
Alignment explanation
Indices: 16645857--16646001 Score: 166
Period size: 58 Copynumber: 2.5 Consensus size: 58
16645847 TCCATGGCGT
* ** * * * *
16645857 GTCACAGATTCCCTCCATGGCGTGTCACAAACTCTT-AACCGTGCCGTGTCACAGCCAA
1 GTCACACATTCCAACCATGTCGTGTCACAAACT-TTAAACCCTACCATGTCACAGCCAA
* **
16645915 GTCACACATTCCAACCATGTCGTGTCACAAACTTTAAACCCTACCATGTCATAGCCGT
1 GTCACACATTCCAACCATGTCGTGTCACAAACTTTAAACCCTACCATGTCACAGCCAA
* *
16645973 GTCACACATTCCTATCATGTCGTGTCACA
1 GTCACACATTCCAACCATGTCGTGTCACA
16646002 CATTCCCAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
57 2 0.03
58 72 0.97
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (58 bp):
GTCACACATTCCAACCATGTCGTGTCACAAACTTTAAACCCTACCATGTCACAGCCAA
Found at i:16646014 original size:23 final size:23
Alignment explanation
Indices: 16645970--16646014 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
16645960 ATGTCATAGC
* *
16645970 CGTGTCACACATTCCTATCATGT
1 CGTGTCACACATTCCCAACATGT
16645993 CGTGTCACACATTCCCAACATG
1 CGTGTCACACATTCCCAACATG
16646015 CCATTTCACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.33, G:0.13, T:0.29
Consensus pattern (23 bp):
CGTGTCACACATTCCCAACATGT
Found at i:16646023 original size:23 final size:23
Alignment explanation
Indices: 16645972--16646024 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
16645962 GTCATAGCCG
* * * *
16645972 TGTCACACATTCCTATCATGTCG
1 TGTCACACATTCCCAACATGCCA
16645995 TGTCACACATTCCCAACATGCCA
1 TGTCACACATTCCCAACATGCCA
*
16646018 TTTCACA
1 TGTCACA
16646025 AACTCTAAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.30
Consensus pattern (23 bp):
TGTCACACATTCCCAACATGCCA
Found at i:16648447 original size:2 final size:2
Alignment explanation
Indices: 16648440--16648465 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16648430 CCATTAAATC
16648440 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
16648466 CCATTTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16648618 original size:57 final size:60
Alignment explanation
Indices: 16648555--16648681 Score: 143
Period size: 57 Copynumber: 2.1 Consensus size: 60
16648545 TTTCATCTTT
* ** * * *
16648555 AAAATCTTACTTATTTTCAATCTAATTTAACTAA-TGA-TATCT-TGTAATAGTAATTTA
1 AAAATCTGACTTATTACCAATCTAATTTAACTAATTAATTATATAAGTAATAGTAATTTA
* * *
16648612 AAAATCTGATTTCTTACCAATGTAATTTAACTAATTAATTATATGAAGTAATAGTAATTTA
1 AAAATCTGACTTATTACCAATCTAATTTAACTAATTAATTATAT-AAGTAATAGTAATTTA
16648673 AAAATCTGA
1 AAAATCTGA
16648682 TAACAATATT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
57 28 0.49
58 2 0.04
59 4 0.07
61 23 0.40
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (60 bp):
AAAATCTGACTTATTACCAATCTAATTTAACTAATTAATTATATAAGTAATAGTAATTTA
Found at i:16649399 original size:23 final size:22
Alignment explanation
Indices: 16649368--16649410 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
16649358 TCAAATCTGC
*
16649368 AAAAATGTTCTAAAAAATATAA
1 AAAAATGTTATAAAAAATATAA
*
16649390 AAAAAGTGTTATTAAAAATAT
1 AAAAA-TGTTATAAAAAATAT
16649411 TTTTAATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (22 bp):
AAAAATGTTATAAAAAATATAA
Found at i:16662500 original size:2 final size:2
Alignment explanation
Indices: 16662488--16662550 Score: 108
Period size: 2 Copynumber: 31.0 Consensus size: 2
16662478 CTGTCAATAC
*
16662488 AT AT CAT AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16662531 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
16662551 CAACATAACA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 56 0.97
3 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:16663333 original size:20 final size:20
Alignment explanation
Indices: 16663305--16663344 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
16663295 AGAAGAACAA
16663305 GAAGCTGCTGGAAAAATGAG
1 GAAGCTGCTGGAAAAATGAG
* *
16663325 GAAGTTGCTGGAGAAATGAG
1 GAAGCTGCTGGAAAAATGAG
16663345 ATATTTATAG
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:0.07, G:0.38, T:0.17
Consensus pattern (20 bp):
GAAGCTGCTGGAAAAATGAG
Found at i:16666544 original size:35 final size:35
Alignment explanation
Indices: 16666514--16666621 Score: 153
Period size: 35 Copynumber: 3.1 Consensus size: 35
16666504 AGAGTGCGTG
16666514 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
1 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
* *
16666549 TGATGATATTGAAATGTGTGTGTAGGAAGTGCACA
1 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
*** * *
16666584 TGATGATATTGCCTTGTGCGTGTAAGGAGTACACA
1 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
16666619 TGA
1 TGA
16666622 GCAGAGTAAG
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 64 1.00
ACGTcount: A:0.29, C:0.09, G:0.31, T:0.31
Consensus pattern (35 bp):
TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
Found at i:16666659 original size:2 final size:2
Alignment explanation
Indices: 16666654--16666680 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16666644 TACATGTGTG
16666654 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
16666681 GCTATAGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16674210 original size:16 final size:16
Alignment explanation
Indices: 16674177--16674209 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16674167 TAAACTCTTG
*
16674177 TTATTTTGGTTGGATT
1 TTATCTTGGTTGGATT
16674193 TTATCTTGGTTGG-TT
1 TTATCTTGGTTGGATT
16674208 TT
1 TT
16674210 TTGGCATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.09, C:0.03, G:0.24, T:0.64
Consensus pattern (16 bp):
TTATCTTGGTTGGATT
Found at i:16676032 original size:107 final size:106
Alignment explanation
Indices: 16675852--16676069 Score: 278
Period size: 107 Copynumber: 2.1 Consensus size: 106
16675842 TCTAATCAAC
* * *
16675852 TAAA-TTGTTTAATTTAATCATTGGGCCTAATTAATTAAATTCTTTAATTAAGTTATTGGGCCTA
1 TAAATTTGTTTAATTTAATCATTAGGCCTAATTAATTAAACTCTTTAATTAAATTATTGGGCCTA
*
16675916 ATTAATTAAATTAAACAATTAAGTTTTTGGGCCTAATTGAT
66 ATTAATTAAATTAAACAATTAAGTTATTGGGCCTAATTGAT
* * * * * *
16675957 TGAATTTGTTTAA-TTAAGTCATTAGGCCTAGTTGATTAAAACTGTTTAATTAAATTGTTGGGCT
1 TAAATTTGTTTAATTTAA-TCATTAGGCCTAATTAATT-AAACTCTTTAATTAAATTATTGGGCC
****
16676021 TAATTAATTAAATTGTTTAATTAAGTTATTGGGCCTAATTGAT
64 TAATTAATTAAATTAAACAATTAAGTTATTGGGCCTAATTGAT
16676064 TAAATT
1 TAAATT
16676070 AGACAATTAA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
105 7 0.07
106 24 0.25
107 64 0.67
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.44
Consensus pattern (106 bp):
TAAATTTGTTTAATTTAATCATTAGGCCTAATTAATTAAACTCTTTAATTAAATTATTGGGCCTA
ATTAATTAAATTAAACAATTAAGTTATTGGGCCTAATTGAT
Found at i:16676083 original size:35 final size:35
Alignment explanation
Indices: 16675821--16676069 Score: 245
Period size: 35 Copynumber: 7.1 Consensus size: 35
16675811 CACTTGATTA
* * * *
16675821 AAATTGTTTAATTAAG---TTGTGTCTAATCAACT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
*
16675853 AAATTGTTTAATTTAA-TCATTGGGCCTAATTAATT
1 AAATTGTTTAA-TTAAGTTATTGGGCCTAATTAATT
*
16675888 AAATTCTTTAATTAAGTTATTGGGCCTAATTAATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
**** * *
16675923 AAATTAAACAATTAAGTTTTTGGGCCTAATTGATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* * * * *
16675958 GAATTTGTTTAATTAAGTCATTAGGCCTAGTTGATT
1 -AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* * * *
16675994 AAAACTGTTTAATTAAATTGTTGGGCTTAATTAATT
1 -AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
*
16676030 AAATTGTTTAATTAAGTTATTGGGCCTAATTGATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
16676065 AAATT
1 AAATT
16676070 AGACAATTAA
Statistics
Matches: 175, Mismatches: 36, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
32 11 0.06
33 4 0.02
34 4 0.02
35 104 0.59
36 52 0.30
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
Found at i:16676092 original size:71 final size:70
Alignment explanation
Indices: 16675871--16676090 Score: 262
Period size: 71 Copynumber: 3.1 Consensus size: 70
16675861 TAATTTAATC
* * *
16675871 ATTGGGCCTAATTAATTAAATTCTTTAATTAAGTTATTGGGCCTAATTAATTAAATTAAACAATT
1 ATTGGGCCTAATTAATTAAATTGTTTAATTAAGTTATTGGGCCTAATTGATTAAATTAGACAATT
16675936 AAGTT
66 AAGTT
* * * * * * * **
16675941 TTTGGGCCTAATTGATTGAATTTGTTTAATTAAGTCATTAGGCCTAGTTGATTAAAACT-GTTTA
1 ATTGGGCCTAATTAATT-AAATTGTTTAATTAAGTTATTGGGCCTAATTGATT-AAATTAG-ACA
*
16676005 ATTAAATT
63 ATTAAGTT
* *
16676013 GTTGGGCTTAATTAATTAAATTGTTTAATTAAGTTATTGGGCCTAATTGATTAAATTAGACAATT
1 ATTGGGCCTAATTAATTAAATTGTTTAATTAAGTTATTGGGCCTAATTGATTAAATTAGACAATT
16676078 AAGTT
66 AAGTT
16676083 AATTGGGC
1 -ATTGGGC
16676091 TTCTTAAGGA
Statistics
Matches: 120, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
70 27 0.22
71 67 0.56
72 26 0.22
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (70 bp):
ATTGGGCCTAATTAATTAAATTGTTTAATTAAGTTATTGGGCCTAATTGATTAAATTAGACAATT
AAGTT
Found at i:16677536 original size:180 final size:180
Alignment explanation
Indices: 16677209--16677536 Score: 512
Period size: 180 Copynumber: 1.8 Consensus size: 180
16677199 GTGAAAGCAG
* * *
16677209 TCCAGCTCACTGTTATGACATGAATTTCAGTTTTAATTAACAAGAAAGTCTTGGAAATTAATTCT
1 TCCAGCTCACTGTTATGACATGAATTTCAGTTTTAATTAACAAGAAACTCTTGAAAATTAATTAT
* *
16677274 GAAAAATTCCAGGAAAATTATCTTTATTAAAATGTTCAATAAAGATTATTTCTGGAAAATATCAT
66 GAAAAATTCCAGAAAAATTATCTTTATTAAAATGTTCAATAAAGATTAGTTCTGGAAAATATCAT
** **
16677339 GTTCAAACATGCTGATTTCGAGCAAGAAAATTGGTGCACATATAATTCTA
131 GGCCAAACAAACTGATTTCGAGCAAGAAAATTGGTGCACATATAATTCTA
* * * *
16677389 TCCAGCTCACTGTTTTGGCATGAATTTCAGTTTTAATTGACAATAAACTCTTGAAAATTAATTAT
1 TCCAGCTCACTGTTATGACATGAATTTCAGTTTTAATTAACAAGAAACTCTTGAAAATTAATTAT
* * *
16677454 GAAAAATTCCAGAAAAATTATCTTTATTAAAATGTTCAATGAAGATTAGTTCTGGAAATTTTCAT
66 GAAAAATTCCAGAAAAATTATCTTTATTAAAATGTTCAATAAAGATTAGTTCTGGAAAATATCAT
16677519 GGCCAAACAAACTGATTT
131 GGCCAAACAAACTGATTT
16677537 AGGCTATTAA
Statistics
Matches: 132, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
180 132 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (180 bp):
TCCAGCTCACTGTTATGACATGAATTTCAGTTTTAATTAACAAGAAACTCTTGAAAATTAATTAT
GAAAAATTCCAGAAAAATTATCTTTATTAAAATGTTCAATAAAGATTAGTTCTGGAAAATATCAT
GGCCAAACAAACTGATTTCGAGCAAGAAAATTGGTGCACATATAATTCTA
Found at i:16681829 original size:21 final size:21
Alignment explanation
Indices: 16681803--16681846 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
16681793 TTTACGTCGT
16681803 TATAGGAGTAGGATTCAAAAA
1 TATAGGAGTAGGATTCAAAAA
16681824 TATAGGAGTAGGATTCAAAAA
1 TATAGGAGTAGGATTCAAAAA
16681845 TA
1 TA
16681847 ATTTCAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.05, G:0.23, T:0.25
Consensus pattern (21 bp):
TATAGGAGTAGGATTCAAAAA
Found at i:16684694 original size:35 final size:35
Alignment explanation
Indices: 16684647--16684872 Score: 245
Period size: 35 Copynumber: 6.4 Consensus size: 35
16684637 AAGTTGTACT
* *
16684647 TAATTAACTAAATTGTTTAATTCAGTCATTGGGCC
1 TAATTAATTAAATTGTTTAATTAAGTCATTGGGCC
* *
16684682 TAATTAATTAAATTATTTAATTAAGTCAATGGGCC
1 TAATTAATTAAATTGTTTAATTAAGTCATTGGGCC
**** *
16684717 TAATTAATTAAATTAAACAATTAAGTTATTGGGCC
1 TAATTAATTAAATTGTTTAATTAAGTCATTGGGCC
* * *
16684752 TAATTGATTGAATTTGTTTAATTAAGTCATTAGGCC
1 TAATTAATT-AAATTGTTTAATTAAGTCATTGGGCC
** * * * *
16684788 TAGCTGATTAAAATTGTTTAATTAAATTATTGGGCT
1 TAATTAATT-AAATTGTTTAATTAAGTCATTGGGCC
* *
16684824 TAATTAATTATATTGTTTAATTAAGTTATTGGGCC
1 TAATTAATTAAATTGTTTAATTAAGTCATTGGGCC
*
16684859 TAATTGATTAAATT
1 TAATTAATTAAATT
16684873 AAACAATTAA
Statistics
Matches: 157, Mismatches: 33, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
35 104 0.66
36 53 0.34
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (35 bp):
TAATTAATTAAATTGTTTAATTAAGTCATTGGGCC
Found at i:16684828 original size:18 final size:18
Alignment explanation
Indices: 16684805--16684863 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
16684795 TTAAAATTGT
16684805 TTAATTAAATTATTGGGC
1 TTAATTAAATTATTGGGC
* *
16684823 TTAATT-AATTATAT-TGT
1 TTAATTAAATTAT-TGGGC
*
16684840 TTAATTAAGTTATTGGGC
1 TTAATTAAATTATTGGGC
*
16684858 CTAATT
1 TTAATT
16684864 GATTAAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
17 14 0.44
18 18 0.56
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (18 bp):
TTAATTAAATTATTGGGC
Found at i:16684833 original size:107 final size:106
Alignment explanation
Indices: 16684655--16684872 Score: 276
Period size: 107 Copynumber: 2.1 Consensus size: 106
16684645 CTTAATTAAC
* * * *
16684655 TAAA-TTGTTTAATTCAGTCATTGGGCCTAATTAATTAAATTATTTAATTAAGTCAATGGGCCTA
1 TAAATTTGTTTAATTAAGTCATTAGGCCTAACTAATTAAATTATTTAATTAAATCAATGGGCCTA
16684719 ATTAATTAAATTAAACAATTAAGTTATTGGGCCTAATTGAT
66 ATTAATTAAATTAAACAATTAAGTTATTGGGCCTAATTGAT
* * * * * * *
16684760 TGAATTTGTTTAATTAAGTCATTAGGCCTAGCTGATTAAAATTGTTTAATTAAATTATTGGGCTT
1 TAAATTTGTTTAATTAAGTCATTAGGCCTAACTAATT-AAATTATTTAATTAAATCAATGGGCCT
* ****
16684825 AATTAATTATATTGTTTAATTAAGTTATTGGGCCTAATTGAT
65 AATTAATTAAATTAAACAATTAAGTTATTGGGCCTAATTGAT
16684867 TAAATT
1 TAAATT
16684873 AAACAATTAA
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
105 3 0.03
106 27 0.29
107 64 0.68
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (106 bp):
TAAATTTGTTTAATTAAGTCATTAGGCCTAACTAATTAAATTATTTAATTAAATCAATGGGCCTA
ATTAATTAAATTAAACAATTAAGTTATTGGGCCTAATTGAT
Found at i:16699799 original size:15 final size:16
Alignment explanation
Indices: 16699773--16699805 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
16699763 TCAAAAACTT
*
16699773 CTTTTAAAACCATAAG
1 CTTTTAAAACCAAAAG
16699789 CTTTT-AAACCAAAAG
1 CTTTTAAAACCAAAAG
16699804 CT
1 CT
16699806 CTAATATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.30
Consensus pattern (16 bp):
CTTTTAAAACCAAAAG
Found at i:16703818 original size:21 final size:21
Alignment explanation
Indices: 16703794--16703849 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
16703784 TGAGAGTTTC
*
16703794 TCGCTGCAACGAGATT-TATTT
1 TCGCTGCAGCGAGATTCT-TTT
16703815 TCGCTGCAGCGAGATTCTTTT
1 TCGCTGCAGCGAGATTCTTTT
16703836 TCGCTGCAGCGAGA
1 TCGCTGCAGCGAGA
16703850 AACAGGGCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (21 bp):
TCGCTGCAGCGAGATTCTTTT
Found at i:16704171 original size:43 final size:43
Alignment explanation
Indices: 16704114--16704324 Score: 284
Period size: 43 Copynumber: 4.9 Consensus size: 43
16704104 AGTCGGGTCA
*
16704114 TCATCATCGGCTTATGTGCAGTCCCTACT-AGCACATAG-CTAGG
1 TCATCATCGGCTTATGTGCACTCCCTACTCA-CACATAGTC-AGG
* * * *
16704157 TCATCATTGGCTTATGCGCACTCCCTACTCACACATAGCCGGG
1 TCATCATCGGCTTATGTGCACTCCCTACTCACACATAGTCAGG
* *
16704200 TCATCATCAGCTTATGTGCACTCCCTACTCACACATAGTCGGG
1 TCATCATCGGCTTATGTGCACTCCCTACTCACACATAGTCAGG
*
16704243 TCATCATCGGCTTATGTGCACTCCCTACTCGCACATAGTCAGG
1 TCATCATCGGCTTATGTGCACTCCCTACTCACACATAGTCAGG
* *
16704286 TCATCATCAGCTCATGTGCACTCCC-ACATCACACATAGT
1 TCATCATCGGCTTATGTGCACTCCCTAC-TCACACATAGT
16704325 AGGGCCATCA
Statistics
Matches: 151, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
42 2 0.01
43 147 0.97
44 2 0.01
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (43 bp):
TCATCATCGGCTTATGTGCACTCCCTACTCACACATAGTCAGG
Found at i:16706919 original size:93 final size:92
Alignment explanation
Indices: 16706760--16706936 Score: 345
Period size: 93 Copynumber: 1.9 Consensus size: 92
16706750 ATGAAATTTT
16706760 AAACTAGCTTGAAGTTTGCATGAGCATAAACTTATCCAAAGTGCATGAGATTCATGGCAAGAGAC
1 AAACTAGCTTGAAGTTTGCATGAGCATAAACTTATCCAAAGTGCATGAGATTCATGGCAAGAGAC
16706825 TTCACACACACACACACACTTCACTTA
66 TTCACACACACACACACACTTCACTTA
16706852 NAAACTAGCTTGAAGTTTGCATGAGCATAAACTTATCCAAAGTGCATGAGATTCATGGCAAGAGA
1 -AAACTAGCTTGAAGTTTGCATGAGCATAAACTTATCCAAAGTGCATGAGATTCATGGCAAGAGA
16706917 CTTCACACACACACACACAC
65 CTTCACACACACACACACAC
16706937 ACATAAGAAC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 84 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (92 bp):
AAACTAGCTTGAAGTTTGCATGAGCATAAACTTATCCAAAGTGCATGAGATTCATGGCAAGAGAC
TTCACACACACACACACACTTCACTTA
Found at i:16707063 original size:33 final size:33
Alignment explanation
Indices: 16707026--16707091 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
16707016 GAAAAAATAA
16707026 GATAGTTGATGAGGAAA-TAAGATGTTGTCAATG
1 GATAGTTGATGAGGAAATTAA-ATGTTGTCAATG
*
16707059 GATAGTTTATGAGGAAATTAAATGTTGTCAATG
1 GATAGTTGATGAGGAAATTAAATGTTGTCAATG
16707092 AATTGGTGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.90
34 3 0.10
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.33
Consensus pattern (33 bp):
GATAGTTGATGAGGAAATTAAATGTTGTCAATG
Found at i:16713140 original size:22 final size:22
Alignment explanation
Indices: 16713112--16713262 Score: 115
Period size: 22 Copynumber: 6.8 Consensus size: 22
16713102 TGATTTTTAG
*
16713112 GCAATGCCTAAAAACTAGTTAC
1 GCAATGCCTAAAAACTAGTCAC
** * *
16713134 GCAATGCCTTACTAATTAATCAC
1 GCAATGCC-TAAAAACTAGTCAC
**
16713157 GCAATGCCTTACTAACTAGTCAC
1 GCAATGCC-TAAAAACTAGTCAC
** *
16713180 GCAATGCCTATCAACCAGTCAC
1 GCAATGCCTAAAAACTAGTCAC
* * * *
16713202 GTAATACTTAAAAATTAGTCAC
1 GCAATGCCTAAAAACTAGTCAC
* * *
16713224 ACAATGCTTAAAAACTAGTTAC
1 GCAATGCCTAAAAACTAGTCAC
16713246 GCAATGTCC-AAAAACTA
1 GCAATG-CCTAAAAACTA
16713263 ATTACGTAAA
Statistics
Matches: 103, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
22 64 0.62
23 39 0.38
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (22 bp):
GCAATGCCTAAAAACTAGTCAC
Found at i:16713162 original size:23 final size:23
Alignment explanation
Indices: 16713132--16713188 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
16713122 AAAACTAGTT
*
16713132 ACGCAATGCCTTACTAATTAATC
1 ACGCAATGCCTTACTAACTAATC
*
16713155 ACGCAATGCCTTACTAACTAGTC
1 ACGCAATGCCTTACTAACTAATC
16713178 ACGCAATGCCT
1 ACGCAATGCCT
16713189 ATCAACCAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (23 bp):
ACGCAATGCCTTACTAACTAATC
Found at i:16713464 original size:60 final size:60
Alignment explanation
Indices: 16713384--16713506 Score: 185
Period size: 60 Copynumber: 2.0 Consensus size: 60
16713374 CTTGGCGAAG
* * *
16713384 AATGCTTAAAATGCTTAAAGGCTTTTCTTCATGTATCAAAAATCACTCCAAAATGCTTAA
1 AATGCTCAAAATGCTTAAAGGCTTTTCTTCATGTATCAAAAACCACTCCAAAATGCTCAA
* *
16713444 AATGCTCAAAATG-TTCAAAGGTTTTTCTTCGTGTATCAAAAACCACTCCAAAATGCTCAA
1 AATGCTCAAAATGCTT-AAAGGCTTTTCTTCATGTATCAAAAACCACTCCAAAATGCTCAA
16713504 AAT
1 AAT
16713507 ACTTAAAAGT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 2 0.04
60 55 0.96
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (60 bp):
AATGCTCAAAATGCTTAAAGGCTTTTCTTCATGTATCAAAAACCACTCCAAAATGCTCAA
Found at i:16723923 original size:32 final size:32
Alignment explanation
Indices: 16723887--16723956 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
16723877 GTAGATTTGT
16723887 TGACATGGCAATGCCACGTGACACCAACATGA
1 TGACATGGCAATGCCACGTGACACCAACATGA
* * * * **
16723919 TGACATTGTAGTGCCACGTGGCACTGACATGA
1 TGACATGGCAATGCCACGTGACACCAACATGA
16723951 TGACAT
1 TGACAT
16723957 TATGGTGCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.21
Consensus pattern (32 bp):
TGACATGGCAATGCCACGTGACACCAACATGA
Found at i:16723957 original size:32 final size:32
Alignment explanation
Indices: 16723898--16723973 Score: 107
Period size: 32 Copynumber: 2.4 Consensus size: 32
16723888 GACATGGCAA
* *
16723898 TGCCACGTGACACCAACATGATGACATTGTAG
1 TGCCACGTGGCACCAACATGATGACATTATAG
** *
16723930 TGCCACGTGGCACTGACATGATGACATTATGG
1 TGCCACGTGGCACCAACATGATGACATTATAG
16723962 TGCCACGTGGCA
1 TGCCACGTGGCA
16723974 ATGCTAACAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.22
Consensus pattern (32 bp):
TGCCACGTGGCACCAACATGATGACATTATAG
Found at i:16730474 original size:80 final size:80
Alignment explanation
Indices: 16730371--16730605 Score: 251
Period size: 80 Copynumber: 2.9 Consensus size: 80
16730361 CATTAGTTCC
*
16730371 ATTTATGAGTTTATGACATGTATGCCATGAATTGTATGCGTAAAGAATATCATGTACACTATGGG
1 ATTTATGAGTTTATGACATGTATGCCATGAATTGTATGTGTAAAGAATATCATGTACACTATGGG
16730436 CTAAGCATGAGAATG
66 CTAAGCATGAGAATG
* * ** *
16730451 TTTTATGAGTTTATGACATGTATGTCATGCGTTGTATGTGTTGAAG-ATATCATGTACACTATGG
1 ATTTATGAGTTTATGACATGTATGCCATGAATTGTATGTG-TAAAGAATATCATGTACACTATGG
* *
16730515 ACTAAGCATGAGGATG
65 GCTAAGCATGAGAATG
** * * * ** * * *
16730531 ATCCATGAGATTATGGAAATATATGCCATGAGA-TGTATGTGTTGAGAA-GTCATATACACAATG
1 ATTTATGAGTTTAT-GACATGTATGCCATGA-ATTGTATGTGTAAAGAATATCATGTACACTATG
*
16730594 GGCTAAGTATGA
64 GGCTAAGCATGA
16730606 TGGTGATTTA
Statistics
Matches: 127, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
80 102 0.80
81 25 0.20
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (80 bp):
ATTTATGAGTTTATGACATGTATGCCATGAATTGTATGTGTAAAGAATATCATGTACACTATGGG
CTAAGCATGAGAATG
Found at i:16731493 original size:43 final size:43
Alignment explanation
Indices: 16731435--16731588 Score: 157
Period size: 43 Copynumber: 3.6 Consensus size: 43
16731425 AGCCGGGTCA
* * ***
16731435 TCATCATCGGCTTATGAGTAGTCCCTACTAGCACATAGTTGGG
1 TCATCATCGGCTTATGAGCACTCCCTACTAGCACATAACCGGG
* * *
16731478 TCATCATCGGCTTATGCGCACTCTCTACTCGCACATAACCGGG
1 TCATCATCGGCTTATGAGCACTCCCTACTAGCACATAACCGGG
* * *
16731521 TCATCATCGGCTTATGCGAACTCCCTACTCA-CAGATAACCGGG
1 TCATCATCGGCTTATGAGCACTCCCTACT-AGCACATAACCGGG
* * * *
16731564 TCACCATCAGCTCATGTGCACTCCC
1 TCATCATCGGCTTATGAGCACTCCC
16731589 ACATCGCACA
Statistics
Matches: 93, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 93 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (43 bp):
TCATCATCGGCTTATGAGCACTCCCTACTAGCACATAACCGGG
Found at i:16731585 original size:86 final size:86
Alignment explanation
Indices: 16731435--16731600 Score: 192
Period size: 86 Copynumber: 1.9 Consensus size: 86
16731425 AGCCGGGTCA
* * *** * * *
16731435 TCATCATCGGCTTATGAGTAGTCCCTACTAGCACATAGTTGGGTCATCATCGGCTTATGCGCACT
1 TCATCATCGGCTTATGAGAACTCCCTACTAGCACATAACCGGGTCACCATCAGCTCATGCGCACT
*
16731500 CTCTAC-TCGCACATAACCGGG
66 C-CCACATCGCACATAACCGGG
* * *
16731521 TCATCATCGGCTTATGCGAACTCCCTACTCA-CAGATAACCGGGTCACCATCAGCTCATGTGCAC
1 TCATCATCGGCTTATGAGAACTCCCTACT-AGCACATAACCGGGTCACCATCAGCTCATGCGCAC
16731585 TCCCACATCGCACATA
65 TCCCACATCGCACATA
16731601 GTAGGGTCAT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
85 3 0.05
86 62 0.94
87 1 0.02
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (86 bp):
TCATCATCGGCTTATGAGAACTCCCTACTAGCACATAACCGGGTCACCATCAGCTCATGCGCACT
CCCACATCGCACATAACCGGG
Found at i:16734256 original size:33 final size:33
Alignment explanation
Indices: 16734218--16734283 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
16734208 GAAAAAACGA
16734218 GATAGTTTATGAGGAAA-TAAGATGTTGTCAATG
1 GATAGTTTATGAGGAAATTAA-ATGTTGTCAATG
16734251 GATAGTTTATGAGGAAATTAAATGTTGTCAATG
1 GATAGTTTATGAGGAAATTAAATGTTGTCAATG
16734284 AATTGGTGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 29 0.91
34 3 0.09
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (33 bp):
GATAGTTTATGAGGAAATTAAATGTTGTCAATG
Found at i:16738283 original size:14 final size:14
Alignment explanation
Indices: 16738264--16738290 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16738254 TGCAATTTGG
16738264 AAAAGTTTGTAATT
1 AAAAGTTTGTAATT
16738278 AAAAGTTTGTAAT
1 AAAAGTTTGTAAT
16738291 GAACACAAAT
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:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (14 bp):
AAAAGTTTGTAATT
Found at i:16740949 original size:12 final size:11
Alignment explanation
Indices: 16740912--16740978 Score: 55
Period size: 12 Copynumber: 5.6 Consensus size: 11
16740902 AATACAGCAC
16740912 ATTTTTAAAAT
1 ATTTTTAAAAT
16740923 ATGTTGTTAAAAAT
1 AT-TT-TT-AAAAT
16740937 ATTTTTAATAAT
1 ATTTTTAA-AAT
**
16740949 ATATTTT-TTAT
1 AT-TTTTAAAAT
16740960 ATTTTATAAAAT
1 ATTTT-TAAAAT
16740972 ATTTTTA
1 ATTTTTA
16740979 TAGATTTGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
10 3 0.07
11 11 0.24
12 16 0.36
13 8 0.18
14 7 0.16
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (11 bp):
ATTTTTAAAAT
Found at i:16740985 original size:22 final size:22
Alignment explanation
Indices: 16740939--16740985 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
16740929 TTAAAAATAT
* *
16740939 TTTTAATAATATATTTTTTATA
1 TTTTAATAAAATATTTTTTAGA
16740961 TTTT-ATAAAATATTTTTATAGA
1 TTTTAATAAAATATTTTT-TAGA
16740983 TTT
1 TTT
16740986 GTGTTCACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTAATAAAATATTTTTTAGA
Found at i:16741571 original size:11 final size:11
Alignment explanation
Indices: 16741555--16741579 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16741545 AGTATTAGTG
16741555 TTGAAAAAATT
1 TTGAAAAAATT
16741566 TTGAAAAAATT
1 TTGAAAAAATT
16741577 TTG
1 TTG
16741580 TCATAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (11 bp):
TTGAAAAAATT
Found at i:16741780 original size:19 final size:18
Alignment explanation
Indices: 16741744--16741781 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
16741734 CTAAATAATT
*
16741744 TGTAAAAATTACTTAAAA
1 TGTAAAAATTACTGAAAA
16741762 TGTAAAAATTATCTGAAAA
1 TGTAAAAATTA-CTGAAAA
16741781 T
1 T
16741782 CTCTTAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (18 bp):
TGTAAAAATTACTGAAAA
Found at i:16744959 original size:76 final size:77
Alignment explanation
Indices: 16744758--16744952 Score: 302
Period size: 77 Copynumber: 2.5 Consensus size: 77
16744748 CATTAAACAT
* * * *
16744758 GTATTTATAGGGATGCAGTAAAGAATTTTTCGATTACATAACTTAGTACTATTTCAGTGTAACTC
1 GTATTTATAGGGATGCAATGAAGAATTTTTCGATTACATAACTTAGTAATATTGCAGTGTAACTC
16744823 GATACGTCACAA
66 GATACGTCACAA
* * *
16744835 GTATTTATAGGGATGCAATGAAGAATCTTTCGATCACATAACTTAGTAATATTGCATTGTAACTC
1 GTATTTATAGGGATGCAATGAAGAATTTTTCGATTACATAACTTAGTAATATTGCAGTGTAACTC
*
16744900 GATA-GTCACAG
66 GATACGTCACAA
*
16744911 GTATTTATAGGGACGCAATGAAGAATTTTTCGATTACATAAC
1 GTATTTATAGGGATGCAATGAAGAATTTTTCGATTACATAAC
16744953 AGAGTAAGGA
Statistics
Matches: 107, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
76 45 0.42
77 62 0.58
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (77 bp):
GTATTTATAGGGATGCAATGAAGAATTTTTCGATTACATAACTTAGTAATATTGCAGTGTAACTC
GATACGTCACAA
Found at i:16746806 original size:13 final size:13
Alignment explanation
Indices: 16746788--16746812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16746778 NNNNNNNNCG
16746788 TTTTTTTTTTTTC
1 TTTTTTTTTTTTC
16746801 TTTTTTTTTTTT
1 TTTTTTTTTTTT
16746813 TTCTTAGTGA
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:0.00, C:0.04, G:0.00, T:0.96
Consensus pattern (13 bp):
TTTTTTTTTTTTC
Found at i:16746808 original size:15 final size:15
Alignment explanation
Indices: 16746788--16746817 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16746778 NNNNNNNNCG
16746788 TTTTTTTTTTTTCTT
1 TTTTTTTTTTTTCTT
16746803 TTTTTTTTTTTTCTT
1 TTTTTTTTTTTTCTT
16746818 AGTGATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (15 bp):
TTTTTTTTTTTTCTT
Found at i:16751344 original size:2 final size:2
Alignment explanation
Indices: 16751329--16751373 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
16751319 TATTTGTGTT
* *
16751329 TA TA TA TG TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16751371 TA T
1 TA T
16751374 GCAATATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16768027 original size:43 final size:43
Alignment explanation
Indices: 16767949--16768076 Score: 206
Period size: 43 Copynumber: 3.0 Consensus size: 43
16767939 TGTGATGACA
*
16767949 ATGACCCAGCTATGTGCGTGT-GGGAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGAGTGGGGAGTGCACATGAGCTGATG
*
16767991 ATGACCCAGCCT-TGTTCGAGTGGGGAGTGCACATGAGCTGATG
1 ATGACCCAG-CTATGTGCGAGTGGGGAGTGCACATGAGCTGATG
*
16768034 ATGACCCAGCTATGTGCGAGTGAGGAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGAGTGGGGAGTGCACATGAGCTGATG
16768077 GTGGTGGGAT
Statistics
Matches: 79, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
42 18 0.23
43 61 0.77
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.23
Consensus pattern (43 bp):
ATGACCCAGCTATGTGCGAGTGGGGAGTGCACATGAGCTGATG
Found at i:16768473 original size:40 final size:40
Alignment explanation
Indices: 16768384--16768488 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 40
16768374 GCTGAAGCTC
* * * *
16768384 CTCGCTGTAGCGAGAAACATTCTGTTTTTGCTACATGCAA
1 CTCGCTGCAGTGAGAAACTTTCTGTTTTAGCTACATGCAA
* * * *
16768424 CTTGTTGCAGTGAGAAACTTTCTGTTTTAGCTGCTTG-AA
1 CTCGCTGCAGTGAGAAACTTTCTGTTTTAGCTACATGCAA
16768463 TCTCGCTGCAGCT-AGAAACTTTCTGT
1 -CTCGCTGCAG-TGAGAAACTTTCTGT
16768489 CCAGCATGAT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.04
40 50 0.94
41 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (40 bp):
CTCGCTGCAGTGAGAAACTTTCTGTTTTAGCTACATGCAA
Found at i:16770157 original size:21 final size:21
Alignment explanation
Indices: 16770133--16770174 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
16770123 AAAAGACAGT
*
16770133 AGGCACTTAGTCGACTAAGAG
1 AGGCACTTAGTCAACTAAGAG
16770154 AGGCACTTAGTCAACTAAGAG
1 AGGCACTTAGTCAACTAAGAG
16770175 CATTCTGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGCACTTAGTCAACTAAGAG
Found at i:16775898 original size:17 final size:18
Alignment explanation
Indices: 16775873--16775906 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16775863 AAGTAAAATA
16775873 AGCACACAC-TAAGGGGG
1 AGCACACACTTAAGGGGG
*
16775890 AGCATACACTTAAGGGG
1 AGCACACACTTAAGGGG
16775907 AGAAATCCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.21, G:0.32, T:0.12
Consensus pattern (18 bp):
AGCACACACTTAAGGGGG
Found at i:16777310 original size:129 final size:129
Alignment explanation
Indices: 16777079--16777339 Score: 423
Period size: 129 Copynumber: 2.0 Consensus size: 129
16777069 GTGGCCCAAA
*
16777079 CGTGAGGTGCACTCAAATCATACCTCAGGAGATACTTCACCCAACATCTCCCCCCGGAGGTAAAT
1 CGTGAGGTGCACTCAAATCATACCTCAAGAGATACTTCACCCAACATCTCCCCCCGGAGGTAAAT
* * *
16777144 ATATAATTGAGTTACTGTGCTCTTCTCATAGGCAGTCCACGAAAACCCACACCACTGCAGTGAC
66 ATATAATTGAGTTACCGTGCCCCTCTCATAGGCAGTCCACGAAAACCCACACCACTGCAGTGAC
* * *
16777208 CGTGAGGTGCATTCAAATCTTACCTCAAGAGATACTTCATCCAACATCTCCCCCCGGAGGTAAAT
1 CGTGAGGTGCACTCAAATCATACCTCAAGAGATACTTCACCCAACATCTCCCCCCGGAGGTAAAT
* * * *
16777273 ATATAATTGGGTTACCGTGCCCCTCTCATAGGTAGTCCACGGAAACCCCCACCACTGCAGTGAC
66 ATATAATTGAGTTACCGTGCCCCTCTCATAGGCAGTCCACGAAAACCCACACCACTGCAGTGAC
16777337 CGT
1 CGT
16777340 TTAATATAGC
Statistics
Matches: 121, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 121 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (129 bp):
CGTGAGGTGCACTCAAATCATACCTCAAGAGATACTTCACCCAACATCTCCCCCCGGAGGTAAAT
ATATAATTGAGTTACCGTGCCCCTCTCATAGGCAGTCCACGAAAACCCACACCACTGCAGTGAC
Found at i:16778931 original size:28 final size:29
Alignment explanation
Indices: 16778873--16778936 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
16778863 GTAAATTTTT
* ** *
16778873 AAAAATTACACTTTTGCCCCTGTAAAGTG
1 AAAAATTACACTTTTACCCCTAAAAACTG
*
16778902 AAAAATTACATTTTTACCCC-AAAAACTG
1 AAAAATTACACTTTTACCCCTAAAAACTG
16778930 AAAAATT
1 AAAAATT
16778937 GGTCATAGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.30
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCCTAAAAACTG
Found at i:16794009 original size:15 final size:16
Alignment explanation
Indices: 16793979--16794013 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
16793969 GAAGGGGGAA
*
16793979 GTTTTTAAATTTTTAT
1 GTTTATAAATTTTTAT
16793995 GTTTATAAA-TTTTAT
1 GTTTATAAATTTTTAT
16794010 GTTT
1 GTTT
16794014 TTGATTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (16 bp):
GTTTATAAATTTTTAT
Found at i:16795942 original size:40 final size:39
Alignment explanation
Indices: 16795898--16796000 Score: 136
Period size: 38 Copynumber: 2.6 Consensus size: 39
16795888 CCCAGCTCAT
* *
16795898 GTGCATCCCCCCACATCGTGCACATAGCTGGAGTCATCGC
1 GTGCATCCCCCCACATCGTGCACATA-CTAGAGCCATCGC
* * *
16795938 GTGCATCCCCCCACATCGTGCACA-ATTAGTGCCATCGT
1 GTGCATCCCCCCACATCGTGCACATACTAGAGCCATCGC
*
16795976 GTACATCCCCCCACATCGTGCACAT
1 GTGCATCCCCCCACATCGTGCACAT
16796001 GGGCACTATC
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
38 31 0.55
39 1 0.02
40 24 0.43
ACGTcount: A:0.21, C:0.39, G:0.18, T:0.21
Consensus pattern (39 bp):
GTGCATCCCCCCACATCGTGCACATACTAGAGCCATCGC
Found at i:16797073 original size:69 final size:70
Alignment explanation
Indices: 16796995--16797187 Score: 216
Period size: 69 Copynumber: 2.8 Consensus size: 70
16796985 CAAGCTTTTG
* * *
16796995 CTTTCTCCCTCAC-AAATTCAACAGCACCAACTCT-TGT-TTTCTCCTCTCAAAATTTACAACA-
1 CTTTTTCCCTCACAAAATT-AACAGCA-AAACTCTCTCTATTTC-CCTCTCAAAATTTACAACAC
16797056 AACTCTCT
63 AACTCTCT
* * *
16797064 CTTTTTCCCTCTCAAAATTTACAGCAAAACTCTCTCTATTTCCCTCTCAAAATTTACAGCACAAC
1 CTTTTTCCCTCACAAAATTAACAGCAAAACTCTCTCTATTTCCCTCTCAAAATTTACAACACAAC
*
16797129 TCTTT
66 TCTCT
* ** * *
16797134 CTATTTCTTTC-CAAAATTTATAGCAAAACTCTCTCTATTTCCCTCTCAAAATTT
1 CTTTTTCCCTCACAAAATTAACAGCAAAACTCTCTCTATTTCCCTCTCAAAATTT
16797188 GTAGCAAAAC
Statistics
Matches: 109, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
68 6 0.06
69 79 0.72
70 24 0.22
ACGTcount: A:0.29, C:0.31, G:0.03, T:0.37
Consensus pattern (70 bp):
CTTTTTCCCTCACAAAATTAACAGCAAAACTCTCTCTATTTCCCTCTCAAAATTTACAACACAAC
TCTCT
Found at i:16797094 original size:35 final size:35
Alignment explanation
Indices: 16797032--16797221 Score: 233
Period size: 35 Copynumber: 5.5 Consensus size: 35
16797022 CAACTCTTGT
* *
16797032 TTTCTCCTCTCAAAATTTACAAC-AAACTCTCTCTT
1 TTTC-CCTCTCAAAATTTACAGCAAAACTCTCTCTA
16797067 TTTCCCTCTCAAAATTTACAGCAAAACTCTCTCTA
1 TTTCCCTCTCAAAATTTACAGCAAAACTCTCTCTA
* *
16797102 TTTCCCTCTCAAAATTTACAGCACAACTCTTTCTA
1 TTTCCCTCTCAAAATTTACAGCAAAACTCTCTCTA
** *
16797137 TTTCTTTC-CAAAATTTATAGCAAAACTCTCTCTA
1 TTTCCCTCTCAAAATTTACAGCAAAACTCTCTCTA
** * *
16797171 TTTCCCTCTCAAAATTTGTAGCAAAACTTTGTC-A
1 TTTCCCTCTCAAAATTTACAGCAAAACTCTCTCTA
* *
16797205 TTTTCCTCTTAAAATTT
1 TTTCCCTCTCAAAATTT
16797222 TGCAACTCAA
Statistics
Matches: 137, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
34 62 0.45
35 75 0.55
ACGTcount: A:0.29, C:0.27, G:0.03, T:0.40
Consensus pattern (35 bp):
TTTCCCTCTCAAAATTTACAGCAAAACTCTCTCTA
Found at i:16797219 original size:69 final size:68
Alignment explanation
Indices: 16797032--16797221 Score: 217
Period size: 69 Copynumber: 2.7 Consensus size: 68
16797022 CAACTCTTGT
* * *
16797032 TTTCTCCTCTCAAAATTTACAAC-AAACTCTCTCTTTTTCCCTCTCAAAATTTACAGCAAAACTC
1 TTTC-CCTCTCAAAATTTACAGCAAAACTCTTTC-TTTT-CCTCTTAAAATTTACAGCAAAACTC
16797096 TCTCTA
63 TCTCTA
* *
16797102 TTTCCCTCTCAAAATTTACAGCACAACTCTTTCTATTT-CT-TTCCAAAATTTATAGCAAAACTC
1 TTTCCCTCTCAAAATTTACAGCAAAACTCTTTCT-TTTCCTCTT--AAAATTTACAGCAAAACTC
16797165 TCTCTA
63 TCTCTA
**
16797171 TTTCCCTCTCAAAATTTGTAGCAAAACT-TTGTCATTTTCCTCTTAAAATTT
1 TTTCCCTCTCAAAATTTACAGCAAAACTCTT-TC-TTTTCCTCTTAAAATTT
16797222 TGCAACTCAA
Statistics
Matches: 104, Mismatches: 8, Indels: 17
0.81 0.06 0.13
Matches are distributed among these distances:
67 1 0.01
68 4 0.04
69 79 0.76
70 18 0.17
71 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.03, T:0.40
Consensus pattern (68 bp):
TTTCCCTCTCAAAATTTACAGCAAAACTCTTTCTTTTCCTCTTAAAATTTACAGCAAAACTCTCT
CTA
Found at i:16797384 original size:45 final size:45
Alignment explanation
Indices: 16797334--16797429 Score: 140
Period size: 45 Copynumber: 2.1 Consensus size: 45
16797324 CCTTTGCTTT
** *
16797334 CTCTCTCACACTGA-CTTCTCTCTTCCTTCTTTAACTTTCCATTTG
1 CTCTCTCACACCAACCTT-TCTCTTCCTTCTTCAACTTTCCATTTG
*
16797379 CTCTCTTACACCAACCTTTCTCTTCCTTCTTCAACTTTCCATTTG
1 CTCTCTCACACCAACCTTTCTCTTCCTTCTTCAACTTTCCATTTG
16797424 CTCTCT
1 CTCTCT
16797430 TTGTCAAGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 43 0.93
46 3 0.07
ACGTcount: A:0.14, C:0.38, G:0.03, T:0.46
Consensus pattern (45 bp):
CTCTCTCACACCAACCTTTCTCTTCCTTCTTCAACTTTCCATTTG
Found at i:16804254 original size:28 final size:28
Alignment explanation
Indices: 16804211--16804344 Score: 124
Period size: 28 Copynumber: 4.6 Consensus size: 28
16804201 TGGCAGCTTT
*
16804211 AACATGCTTTGTCTTAATTTAGACAAGAA
1 AACATG-TTTGTCTTAATCTAGACAAGAA
* * * *
16804240 AGCATGTTGGTCTTAATTTAGGATAAGAAA
1 AACATGTTTGTCTTAATCTA-GACAAG-AA
* * *
16804270 AATATGCTTTGTCTTGATCTGGACAAGAA
1 AACATG-TTTGTCTTAATCTAGACAAGAA
* *
16804299 AACATGTTTGTCTCAATCTAGACAAGAT
1 AACATGTTTGTCTTAATCTAGACAAGAA
*
16804327 AACATATTTTGTCTTAAT
1 AACAT-GTTTGTCTTAAT
16804345 TAAAAACGAG
Statistics
Matches: 84, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
28 36 0.43
29 27 0.32
30 11 0.13
31 10 0.12
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (28 bp):
AACATGTTTGTCTTAATCTAGACAAGAA
Found at i:16807245 original size:40 final size:40
Alignment explanation
Indices: 16807201--16807307 Score: 119
Period size: 38 Copynumber: 2.7 Consensus size: 40
16807191 CACTCCCGGC
*
16807201 TCATGTACATCCGCCCACATCGTGCACATAACCGGCACCA
1 TCATGTACATCCCCCCACATCGTGCACATAACCGGCACCA
* * * ** *
16807241 TCATGTGCATCCCCCCACATCATGCAC--AATCGGTGCTA
1 TCATGTACATCCCCCCACATCGTGCACATAACCGGCACCA
* *
16807279 TCGTGTACATCCCCCCACATTGTGCACAT
1 TCATGTACATCCCCCCACATCGTGCACAT
16807308 GGCACTATCA
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
38 30 0.56
40 24 0.44
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.22
Consensus pattern (40 bp):
TCATGTACATCCCCCCACATCGTGCACATAACCGGCACCA
Found at i:16815683 original size:23 final size:23
Alignment explanation
Indices: 16815633--16815684 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
16815623 CGTCTGCTAT
16815633 GCTTTC-GATTTCTCTCTCTCAC
1 GCTTTCAGATTTCTCTCTCTCAC
** * *
16815655 ATTTTCAGATTTCTCTTTCTTAC
1 GCTTTCAGATTTCTCTCTCTCAC
16815678 GCTTTCA
1 GCTTTCA
16815685 AGACACCAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.13, C:0.29, G:0.08, T:0.50
Consensus pattern (23 bp):
GCTTTCAGATTTCTCTCTCTCAC
Found at i:16819637 original size:2 final size:2
Alignment explanation
Indices: 16819624--16819653 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
16819614 TATTTGTGTT
*
16819624 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16819654 CTTATGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16828766 original size:2 final size:2
Alignment explanation
Indices: 16828759--16828788 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16828749 CATTATGATG
16828759 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16828789 GTTGTGCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16828949 original size:38 final size:40
Alignment explanation
Indices: 16828906--16829008 Score: 147
Period size: 38 Copynumber: 2.6 Consensus size: 40
16828896 ATAGTGCCCG
* *
16828906 TGTGCACGATGTGGGGGGATGTACACGATGGCA-CTGAT-
1 TGTGCACGATGTGGGGGGATGCACACGAAGGCACCTGATA
* *
16828944 TGTGCACGATGTGGGGGCATGCACACGAAGGCACCTGCTA
1 TGTGCACGATGTGGGGGGATGCACACGAAGGCACCTGATA
*
16828984 TGTGCACAATGTGGGGGGATGCACA
1 TGTGCACGATGTGGGGGGATGCACA
16829009 TGAGCCGGGT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 30 0.53
39 4 0.07
40 23 0.40
ACGTcount: A:0.22, C:0.19, G:0.38, T:0.20
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGCACACGAAGGCACCTGATA
Done.